CANDIDATE ID: 247

CANDIDATE ID: 247

NUMBER OF GENES: 8
AVERAGE SCORE:    9.9910657e-1 (range=[0.0,1.0])
AVERAGE MINIMUM BLAST P-VAL:    1.0000000e+0

Gene List
List of organisms containing most genes from the group
    Phylogenetic tree highlighting these organisms (opens new page)
List of organisms containing very few or no genes from the group
List of organisms enriched for group
List of organisms depleted for group
Phylogenetic profile similarity with known pathways
Pairwise genome context scores
Pairwise Blast scores
Pathway or protein complex matches in target organism
Genome context matrix
    Genes and their orthologs in genome browser BioCyc pages



GENE LIST:

- G6365 (ubiF) (b0662)
   Products of gene:
     - OCTAPRENYL-METHYL-METHOXY-BENZOQ-OH-MON (2-octaprenyl-3-methyl-6-methoxy-1,4-benzoquinone hydroxylase)
       Reactions:
        2-octaprenyl-3-methyl-6-methoxy-1,4-benzoquinol + oxygen + H+  ->  3-demethylubiquinol-8 + H2O
         In pathways
         ALL-CHORISMATE-PWY (superpathway of chorismate)
         PWY-5870 (PWY-5870)
         UBISYN-PWY (ubiquinol-8 biosynthesis (prokaryotic))

- G6361 (ybeX) (b0658)
   Products of gene:
     - G6361-MONOMER (predicted ion transport protein)

- EG12851 (ybeL) (b0643)
   Products of gene:
     - EG12851-MONOMER (conserved protein)

- EG11255 (ybeB) (b0637)
   Products of gene:
     - EG11255-MONOMER (predicted protein)

- EG11254 (rlmH) (b0636)
   Products of gene:
     - EG11254-MONOMER (23S rRNA m3Ψ1915 methyltransferase)
     - CPLX0-7423 (23S rRNA m3Ψ1915 methyltransferase)
       Reactions:
        S-adenosyl-L-methionine + pseudouridine1915 in 23S rRNA  =  S-adenosyl-L-homocysteine + N3-methylpseudouridine1915 in 23S rRNA

- EG10855 (lptE) (b0641)
   Products of gene:
     - EG10855-MONOMER (rare lipoprotein LptE)
     - CPLX0-7628 (outer membrane LPS assembly complex)

- EG10532 (leuS) (b0642)
   Products of gene:
     - LEUS-MONOMER (leucyl-tRNA synthetase)
       Reactions:
        tRNAleu + L-leucine + ATP  ->  L-leucyl-tRNAleu + diphosphate + AMP
         In pathways
         TRNA-CHARGING-PWY (tRNA charging pathway)

- EG10168 (lnt) (b0657)
   Products of gene:
     - EG10168-MONOMER (apolipoprotein N-acyltransferase)



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ORGANISMS CONTAINING AT LEAST 7 GENES FROM THE GROUP:

Total number of orgs: 93
Effective number of orgs (counting one per cluster within 468 clusters): 53

Organism list
Homologs in each organism in the list
Features enriched in organism list


Follow (ncbi) link, when present, to find the set of organism features for each organism
Org ID  Org Name  # genes in group found in org  
YPSE349747 ncbi Yersinia pseudotuberculosis IP 317588
YPSE273123 ncbi Yersinia pseudotuberculosis IP 329538
YPES386656 ncbi Yersinia pestis Pestoides F8
YPES377628 ncbi Yersinia pestis Nepal5168
YPES360102 ncbi Yersinia pestis Antiqua8
YPES349746 ncbi Yersinia pestis Angola8
YPES214092 ncbi Yersinia pestis CO928
YPES187410 ncbi Yersinia pestis KIM 108
YENT393305 ncbi Yersinia enterocolitica enterocolitica 80818
VVUL216895 ncbi Vibrio vulnificus CMCP68
VVUL196600 ncbi Vibrio vulnificus YJ0168
VPAR223926 ncbi Vibrio parahaemolyticus RIMD 22106338
VFIS312309 ncbi Vibrio fischeri ES1148
VCHO345073 ncbi Vibrio cholerae O3958
VCHO ncbi Vibrio cholerae O1 biovar El Tor str. N169618
TTUR377629 ncbi Teredinibacter turnerae T79017
TDEN292415 ncbi Thiobacillus denitrificans ATCC 252597
STYP99287 ncbi Salmonella enterica enterica serovar Typhimurium str. LT28
SSP94122 ncbi Shewanella sp. ANA-38
SSON300269 ncbi Shigella sonnei Ss0468
SSED425104 ncbi Shewanella sediminis HAW-EB38
SPRO399741 ncbi Serratia proteamaculans 5688
SPEA398579 ncbi Shewanella pealeana ATCC 7003458
SONE211586 ncbi Shewanella oneidensis MR-18
SLOI323850 ncbi Shewanella loihica PV-48
SHIGELLA ncbi Shigella flexneri 2a str. 2457T8
SHAL458817 ncbi Shewanella halifaxensis HAW-EB48
SGLO343509 ncbi Sodalis glossinidius morsitans8
SFLE373384 ncbi Shigella flexneri 5 str. 84018
SFLE198214 ncbi Shigella flexneri 2a str. 3018
SENT454169 ncbi Salmonella enterica enterica serovar Heidelberg str. SL4768
SENT321314 ncbi Salmonella enterica enterica serovar Choleraesuis str. SC-B678
SENT295319 ncbi Salmonella enterica enterica serovar Paratyphi A str. ATCC 91508
SENT220341 ncbi Salmonella enterica enterica serovar Typhi str. CT188
SENT209261 ncbi Salmonella enterica enterica serovar Typhi str. Ty28
SDYS300267 ncbi Shigella dysenteriae Sd1978
SDEN318161 ncbi Shewanella denitrificans OS2178
SDEG203122 ncbi Saccharophagus degradans 2-408
SBOY300268 ncbi Shigella boydii Sb2278
SBAL402882 ncbi Shewanella baltica OS1858
SBAL399599 ncbi Shewanella baltica OS1958
PPRO298386 ncbi Photobacterium profundum SS98
PMUL272843 ncbi Pasteurella multocida multocida Pm707
PLUM243265 ncbi Photorhabdus luminescens laumondii TTO17
PING357804 ncbi Psychromonas ingrahamii 377
PHAL326442 ncbi Pseudoalteromonas haloplanktis TAC1258
PATL342610 ncbi Pseudoalteromonas atlantica T6c7
NOCE323261 ncbi Nitrosococcus oceani ATCC 197077
NMUL323848 ncbi Nitrosospira multiformis ATCC 251967
MSP400668 ncbi Marinomonas sp. MWYL17
MCAP243233 ncbi Methylococcus capsulatus Bath7
MAQU351348 ncbi Marinobacter aquaeolei VT88
LPNE400673 ncbi Legionella pneumophila Corby7
LPNE297246 ncbi Legionella pneumophila Paris7
LPNE297245 ncbi Legionella pneumophila Lens7
LPNE272624 ncbi Legionella pneumophila pneumophila Philadelphia 17
KPNE272620 ncbi Klebsiella pneumoniae pneumoniae MGH 785788
ILOI283942 ncbi Idiomarina loihiensis L2TR7
HSOM228400 ncbi Haemophilus somnus 23367
HSOM205914 ncbi Haemophilus somnus 129PT7
HHAL349124 ncbi Halorhodospira halophila SL17
HDUC233412 ncbi Haemophilus ducreyi 35000HP7
HCHE349521 ncbi Hahella chejuensis KCTC 23967
ESP42895 Enterobacter sp.8
EFER585054 ncbi Escherichia fergusonii ATCC 354698
ECOO157 ncbi Escherichia coli O157:H7 EDL9338
ECOL83334 Escherichia coli O157:H78
ECOL585397 ncbi Escherichia coli ED1a8
ECOL585057 ncbi Escherichia coli IAI398
ECOL585056 ncbi Escherichia coli UMN0268
ECOL585055 ncbi Escherichia coli 559898
ECOL585035 ncbi Escherichia coli S888
ECOL585034 ncbi Escherichia coli IAI18
ECOL481805 ncbi Escherichia coli ATCC 87398
ECOL469008 ncbi Escherichia coli BL21(DE3)8
ECOL439855 ncbi Escherichia coli SMS-3-58
ECOL413997 ncbi Escherichia coli B str. REL6068
ECOL409438 ncbi Escherichia coli SE118
ECOL405955 ncbi Escherichia coli APEC O17
ECOL364106 ncbi Escherichia coli UTI898
ECOL362663 ncbi Escherichia coli 5368
ECOL331111 ncbi Escherichia coli E24377A8
ECOL316407 ncbi Escherichia coli K-12 substr. W31108
ECOL199310 ncbi Escherichia coli CFT0738
ECAR218491 ncbi Pectobacterium atrosepticum SCRI10438
CPSY167879 ncbi Colwellia psychrerythraea 34H8
CJAP155077 Cellvibrio japonicus7
ASAL382245 ncbi Aeromonas salmonicida salmonicida A4498
APLE434271 ncbi Actinobacillus pleuropneumoniae serovar 3 str. JL037
APLE416269 ncbi Actinobacillus pleuropneumoniae L207
AHYD196024 Aeromonas hydrophila dhakensis8
AFER243159 ncbi Acidithiobacillus ferrooxidans ATCC 232707
AEHR187272 ncbi Alkalilimnicola ehrlichii MLHE-17


Names of the homologs of the genes in the group in each of these orgs
  G6365   G6361   EG12851   EG11255   EG11254   EG10855   EG10532   EG10168   
YPSE349747 YPSIP31758_2914YPSIP31758_2918YPSIP31758_2924YPSIP31758_2947YPSIP31758_2948YPSIP31758_2927YPSIP31758_2926YPSIP31758_2919
YPSE273123 YPTB1114YPTB1110YPTB1104YPTB1099YPTB1098YPTB1102YPTB1103YPTB1109
YPES386656 YPDSF_2631YPDSF_2636YPDSF_2642YPDSF_2647YPDSF_2648YPDSF_2644YPDSF_2643YPDSF_2637
YPES377628 YPN_1107YPN_1102YPN_1096YPN_1091YPN_1090YPN_1094YPN_1095YPN_1101
YPES360102 YPA_2476YPA_2480YPA_2486YPA_2491YPA_2492YPA_2488YPA_2487YPA_2481
YPES349746 YPANGOLA_A1828YPANGOLA_A1833YPANGOLA_A1840YPANGOLA_A1846YPANGOLA_A1847YPANGOLA_A1843YPANGOLA_A1842YPANGOLA_A1834
YPES214092 YPO2621YPO2617YPO2611YPO2606YPO2605YPO2609YPO2610YPO2616
YPES187410 Y1196Y1191Y1185Y1180Y1179Y1183Y1184Y1190
YENT393305 YE2984YE2988YE2995YE3000YE3001YE2997YE2996YE2989
VVUL216895 VV1_0265VV1_0269VV1_0271VV1_0276VV1_0277VV1_0274VV1_0272VV1_0270
VVUL196600 VV0918VV0914VV0912VV0908VV0907VV0910VV0911VV0913
VPAR223926 VP0735VP0730VP0728VP0724VP0723VP0726VP0727VP0729
VFIS312309 VF0760VF0756VF0754VF0750VF0749VF0752VF0753VF0755
VCHO345073 VC0395_A0485VC0395_A0481VC0395_A0479VC0395_A0475VC0395_A0474VC0395_A0477VC0395_A0478VC0395_A0480
VCHO VC0963VC0959VC0957VC0952VC0951VC0954VC0956VC0958
TTUR377629 TERTU_0404TERTU_3877TERTU_0601TERTU_0602TERTU_3886TERTU_3885TERTU_3878
TDEN292415 TBD_2332TBD_2703TBD_2440TBD_2439TBD_2444TBD_2445TBD_2584
STYP99287 STM0671STM0667STM0653STM0642STM0641STM0647STM0648STM0666
SSP94122 SHEWANA3_1010SHEWANA3_1005SHEWANA3_1002SHEWANA3_0997SHEWANA3_0996SHEWANA3_1000SHEWANA3_1001SHEWANA3_1004
SSON300269 SSO_0616SSO_0612SSO_0597SSO_0591SSO_0590SSO_0595SSO_0596SSO_0611
SSED425104 SSED_3469SSED_3474SSED_3478SSED_3483SSED_3484SSED_3480SSED_3479SSED_3475
SPRO399741 SPRO_1221SPRO_1216SPRO_1208SPRO_1203SPRO_1202SPRO_1206SPRO_1207SPRO_1215
SPEA398579 SPEA_3135SPEA_3140SPEA_3142SPEA_3147SPEA_3148SPEA_3144SPEA_3143SPEA_3141
SONE211586 SO_1183SO_1178SO_1175SO_1170SO_1169SO_1173SO_1174SO_1177
SLOI323850 SHEW_2921SHEW_2926SHEW_2928SHEW_2933SHEW_2934SHEW_2930SHEW_2929SHEW_2927
SHIGELLA YLEBYBEXYBELYBEBYBEARLPBLEUSLNT
SHAL458817 SHAL_3220SHAL_3225SHAL_3227SHAL_3232SHAL_3233SHAL_3229SHAL_3228SHAL_3226
SGLO343509 SG0812SG0808SG0804SG0799SG0798SG0802SG0803SG0807
SFLE373384 SFV_0665SFV_0669SFV_0683SFV_0689SFV_0690SFV_0685SFV_0684SFV_0670
SFLE198214 AAN42257.1AAN42261.1AAN42274.1AAN42280.1AAN42281.1AAN42276.1AAN42275.1AAN42262.1
SENT454169 SEHA_C0789SEHA_C0785SEHA_C0770SEHA_C0758SEHA_C0757SEHA_C0763SEHA_C0764SEHA_C0784
SENT321314 SCH_0699SCH_0695SCH_0682SCH_0672SCH_0671SCH_0677SCH_0678SCH_0694
SENT295319 SPA2069SPA2073SPA2081SPA2092SPA2093SPA2087SPA2086SPA2074
SENT220341 STY0717STY0712STY0704STY0693STY0692STY0698STY0699STY0711
SENT209261 T2202T2206T2214T2225T2226T2220T2219T2207
SDYS300267 SDY_0598SDY_0594SDY_0567SDY_0559SDY_0558SDY_0563SDY_0564SDY_0593
SDEN318161 SDEN_0817SDEN_0812SDEN_0798SDEN_0857SDEN_0856SDEN_0796SDEN_0797SDEN_0811
SDEG203122 SDE_3511SDE_3303SDE_0534SDE_3343SDE_3342SDE_3309SDE_3308SDE_3304
SBOY300268 SBO_0526SBO_0522SBO_0507SBO_0501SBO_0500SBO_0505SBO_0506SBO_0521
SBAL402882 SHEW185_3301SHEW185_3306SHEW185_3310SHEW185_3315SHEW185_3316SHEW185_3312SHEW185_3311SHEW185_3307
SBAL399599 SBAL195_3437SBAL195_3442SBAL195_3446SBAL195_3451SBAL195_3452SBAL195_3448SBAL195_3447SBAL195_3443
PPRO298386 PBPRA2876PBPRA2881PBPRA2884PBPRA2888PBPRA2889PBPRA2886PBPRA2885PBPRA2882
PMUL272843 PM1002PM1033PM1922PM1923PM1215PM1214PM1032
PLUM243265 PLU1313PLU1309PLU1299PLU1298PLU1302PLU1303PLU1308
PING357804 PING_0536PING_0532PING_1137PING_1136PING_1190PING_1191PING_0531
PHAL326442 PSHAA1047PSHAA1043PSHAA1032PSHAA1027PSHAA1026PSHAA1030PSHAA1031PSHAA1042
PATL342610 PATL_2578PATL_2209PATL_1562PATL_1561PATL_1565PATL_1566PATL_2210
NOCE323261 NOC_2581NOC_0240NOC_2600NOC_2660NOC_2659NOC_2665NOC_0241
NMUL323848 NMUL_A2444NMUL_A2698NMUL_A0361NMUL_A0362NMUL_A0512NMUL_A0511NMUL_A0552
MSP400668 MMWYL1_3756MMWYL1_2912MMWYL1_2850MMWYL1_2849MMWYL1_2916MMWYL1_2915MMWYL1_2913
MCAP243233 MCA_1754MCA_1456MCA_2027MCA_0377MCA_1452MCA_1453MCA_1455
MAQU351348 MAQU_3622MAQU_2741MAQU_2743MAQU_2415MAQU_2414MAQU_2745MAQU_2744MAQU_2742
LPNE400673 LPC_0101LPC_0855LPC_0793LPC_0792LPC_0763LPC_0764LPC_0765
LPNE297246 LPP0093LPP1394LPP1332LPP1331LPP1301LPP1302LPP1303
LPNE297245 LPL0081LPL1602LPL1328LPL1327LPL1300LPL1301LPL1302
LPNE272624 LPG0079LPG1439LPG1377LPG1376LPG1347LPG1348LPG1349
KPNE272620 GKPORF_B5112GKPORF_B5107GKPORF_B5099GKPORF_B5093GKPORF_B5092GKPORF_B5097GKPORF_B5098GKPORF_B5106
ILOI283942 IL0939IL0944IL0951IL0952IL0948IL0947IL0945
HSOM228400 HSM_1573HSM_0111HSM_0195HSM_0194HSM_0468HSM_0467HSM_0112
HSOM205914 HS_1156HS_0237HS_0323HS_0322HS_1556HS_1557HS_0238
HHAL349124 HHAL_2225HHAL_0890HHAL_2146HHAL_2140HHAL_2139HHAL_2145HHAL_0889
HDUC233412 HD_1874HD_1145HD_2023HD_2022HD_1131HD_1132HD_1144
HCHE349521 HCH_00760HCH_05351HCH_05353HCH_05845HCH_05844HCH_05355HCH_05352
ESP42895 ENT638_1188ENT638_1184ENT638_1177ENT638_1172ENT638_1171ENT638_1175ENT638_1176ENT638_1183
EFER585054 EFER_2440EFER_2444EFER_2463EFER_2468EFER_2469EFER_2465EFER_2464EFER_2445
ECOO157 YLEBYBEXYBELYBEBYBEARLPBLEUSLNT
ECOL83334 ECS0700ECS0696ECS0681ECS0675ECS0674ECS0679ECS0680ECS0695
ECOL585397 ECED1_0653ECED1_0649ECED1_0640ECED1_0634ECED1_0633ECED1_0638ECED1_0639ECED1_0648
ECOL585057 ECIAI39_0629ECIAI39_0625ECIAI39_0618ECIAI39_0612ECIAI39_0611ECIAI39_0616ECIAI39_0617ECIAI39_0624
ECOL585056 ECUMN_0755ECUMN_0751ECUMN_0737ECUMN_0731ECUMN_0730ECUMN_0735ECUMN_0736ECUMN_0750
ECOL585055 EC55989_0657EC55989_0653EC55989_0635EC55989_0629EC55989_0628EC55989_0633EC55989_0634EC55989_0652
ECOL585035 ECS88_0697ECS88_0693ECS88_0685ECS88_0679ECS88_0678ECS88_0683ECS88_0684ECS88_0692
ECOL585034 ECIAI1_0646ECIAI1_0642ECIAI1_0627ECIAI1_0621ECIAI1_0620ECIAI1_0625ECIAI1_0626ECIAI1_0641
ECOL481805 ECOLC_2983ECOLC_2987ECOLC_3002ECOLC_3008ECOLC_3009ECOLC_3004ECOLC_3003ECOLC_2988
ECOL469008 ECBD_2989ECBD_2993ECBD_3008ECBD_3014ECBD_3015ECBD_3010ECBD_3009ECBD_2994
ECOL439855 ECSMS35_0685ECSMS35_0680ECSMS35_0663ECSMS35_0657ECSMS35_0656ECSMS35_0661ECSMS35_0662ECSMS35_0678
ECOL413997 ECB_00630ECB_00626ECB_00612ECB_00606ECB_00605ECB_00610ECB_00611ECB_00625
ECOL409438 ECSE_0733ECSE_0729ECSE_0712ECSE_0705ECSE_0704ECSE_0710ECSE_0711ECSE_0728
ECOL405955 APECO1_1401APECO1_1405APECO1_1413APECO1_1419APECO1_1414APECO1_14132APECO1_1406
ECOL364106 UTI89_C0660UTI89_C0656UTI89_C0646UTI89_C0639UTI89_C0638UTI89_C0644UTI89_C0645UTI89_C0655
ECOL362663 ECP_0685ECP_0681ECP_0673ECP_0667ECP_0666ECP_0671ECP_0672ECP_0680
ECOL331111 ECE24377A_0692ECE24377A_0687ECE24377A_0669ECE24377A_0663ECE24377A_0662ECE24377A_0667ECE24377A_0668ECE24377A_0686
ECOL316407 ECK0654:JW0659:B0662ECK0650:JW0655:B0658ECK0636:JW0638:B0643ECK0630:JW5090:B0637ECK0629:JW0631:B0636ECK0634:JW0636:B0641ECK0635:JW0637:B0642ECK0649:JW0654:B0657
ECOL199310 C0748C0743C0734C0728C0727C0732C0733C0742
ECAR218491 ECA1320ECA1316ECA1310ECA1305ECA1304ECA1308ECA1309ECA1315
CPSY167879 CPS_3568CPS_3575CPS_1723CPS_1717CPS_1716CPS_1721CPS_1722CPS_3576
CJAP155077 CJA_0295CJA_1636CJA_0787CJA_0788CJA_0453CJA_0454CJA_1635
ASAL382245 ASA_1075ASA_1071ASA_1069ASA_1064ASA_1063ASA_1067ASA_1068ASA_1070
APLE434271 APJL_1780APJL_0390APJL_1634APJL_1633APJL_0885APJL_0884APJL_0389
APLE416269 APL_1744APL_0372APL_1601APL_1600APL_0873APL_0872APL_0371
AHYD196024 AHA_3240AHA_3244AHA_3246AHA_3252AHA_3253AHA_3248AHA_3247AHA_3245
AFER243159 AFE_0715AFE_2441AFE_0160AFE_0159AFE_2579AFE_2578AFE_2440
AEHR187272 MLG_0232MLG_0397MLG_0399MLG_0405MLG_0406MLG_0400MLG_0398


Organism features enriched in list (features available for 89 out of the 93 orgs in the list)
Feature    Pvalue       Num occurrences in list  Total num occurrences  
Arrangment:Chains 0.0012524592
Arrangment:Pairs 0.000183630112
Arrangment:Singles 0.005424454286
Disease:Bubonic_plague 0.000010966
Disease:Dysentery 0.000010966
Disease:Gastroenteritis 8.050e-71013
Disease:Legionnaire's_disease 0.000512544
Endospores:No 0.004520622211
GC_Content_Range4:0-40 1.162e-99213
GC_Content_Range4:40-60 3.481e-2376224
GC_Content_Range4:60-100 4.793e-84145
GC_Content_Range7:30-40 5.118e-69166
GC_Content_Range7:40-50 7.926e-634117
GC_Content_Range7:50-60 3.888e-1242107
GC_Content_Range7:60-70 3.608e-74134
Genome_Size_Range5:0-2 2.880e-121155
Genome_Size_Range5:2-4 0.001074018197
Genome_Size_Range5:4-6 1.789e-2168184
Genome_Size_Range9:1-2 9.565e-101128
Genome_Size_Range9:2-3 0.00257899120
Genome_Size_Range9:4-5 3.254e-83496
Genome_Size_Range9:5-6 2.144e-93488
Gram_Stain:Gram_Neg 7.408e-2086333
Motility:No 1.340e-102151
Motility:Yes 1.529e-1068267
Oxygen_Req:Aerobic 0.000013412185
Oxygen_Req:Anaerobic 1.924e-62102
Oxygen_Req:Facultative 1.132e-2272201
Pathogenic_in:Human 0.001239545213
Pathogenic_in:No 0.000082119226
Shape:Coccus 7.098e-6182
Shape:Rod 6.096e-1179347
Temp._range:Psychrophilic 0.000575969



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ORGANISMS CONTAINING AT MOST 1 GENES FROM THE GROUP:

Total number of orgs: 107
Effective number of orgs (counting one per cluster within 468 clusters): 93

Organism list
Homologs in each organism in the list
Features enriched in organism list


Follow (ncbi) link, when present, to find the set of organism features for each organism
Org ID  Org Name  # genes in group found in org  
UURE95667 Ureaplasma urealyticum serovar 130
UURE95664 Ureaplasma urealyticum serovar 101
UPAR505682 ncbi Ureaplasma parvum serovar 3 str. ATCC 278150
UMET351160 ncbi uncultured methanogenic archaeon RC-I0
TWHI218496 ncbi Tropheryma whipplei TW08/270
TWHI203267 ncbi Tropheryma whipplei Twist0
TVOL273116 ncbi Thermoplasma volcanium GSS10
TPEN368408 ncbi Thermofilum pendens Hrk 50
TKOD69014 ncbi Thermococcus kodakarensis KOD10
TACI273075 ncbi Thermoplasma acidophilum DSM 17280
STRO369723 ncbi Salinispora tropica CNB-4401
STOK273063 ncbi Sulfolobus tokodaii 70
SSUI391296 ncbi Streptococcus suis 98HAH331
SSP387093 ncbi Sulfurovum sp. NBC37-11
SSOL273057 ncbi Sulfolobus solfataricus P20
SMAR399550 ncbi Staphylothermus marinus F10
SCO ncbi Streptomyces coelicolor A3(2)1
SAUR93062 ncbi Staphylococcus aureus aureus COL1
SACI330779 ncbi Sulfolobus acidocaldarius DSM 6390
RTYP257363 ncbi Rickettsia typhi Wilmington1
RRIC452659 ncbi Rickettsia rickettsii Iowa1
RRIC392021 ncbi Rickettsia rickettsii Sheila Smith1
RPRO272947 ncbi Rickettsia prowazekii Madrid E1
RMAS416276 ncbi Rickettsia massiliae MTU51
RFEL315456 ncbi Rickettsia felis URRWXCal21
RCON272944 ncbi Rickettsia conorii Malish 71
RCAN293613 ncbi Rickettsia canadensis McKiel1
RBEL391896 ncbi Rickettsia bellii OSU 85-3891
RALB246199 Ruminococcus albus 80
PTOR263820 ncbi Picrophilus torridus DSM 97900
PISL384616 ncbi Pyrobaculum islandicum DSM 41840
PHOR70601 ncbi Pyrococcus horikoshii OT30
PFUR186497 ncbi Pyrococcus furiosus DSM 36380
PAST100379 Onion yellows phytoplasma0
PARS340102 ncbi Pyrobaculum arsenaticum DSM 135140
PAER178306 ncbi Pyrobaculum aerophilum IM20
PABY272844 ncbi Pyrococcus abyssi GE50
OTSU357244 ncbi Orientia tsutsugamushi Boryong1
NPHA348780 ncbi Natronomonas pharaonis DSM 21601
MTHE349307 ncbi Methanosaeta thermophila PT1
MTHE187420 ncbi Methanothermobacter thermautotrophicus Delta H0
MSYN262723 ncbi Mycoplasma synoviae 531
MSTA339860 ncbi Methanosphaera stadtmanae DSM 30910
MSED399549 ncbi Metallosphaera sedula DSM 53480
MPUL272635 ncbi Mycoplasma pulmonis UAB CTIP0
MPNE272634 ncbi Mycoplasma pneumoniae M1290
MPEN272633 ncbi Mycoplasma penetrans HF-21
MMYC272632 ncbi Mycoplasma mycoides mycoides SC str. PG11
MMOB267748 ncbi Mycoplasma mobile 163K0
MMAZ192952 ncbi Methanosarcina mazei Go10
MMAR444158 ncbi Methanococcus maripaludis C61
MMAR426368 ncbi Methanococcus maripaludis C71
MMAR402880 ncbi Methanococcus maripaludis C51
MMAR368407 ncbi Methanoculleus marisnigri JR11
MMAR267377 ncbi Methanococcus maripaludis S21
MLEP272631 ncbi Mycobacterium leprae TN1
MKAN190192 ncbi Methanopyrus kandleri AV190
MJAN243232 ncbi Methanocaldococcus jannaschii DSM 26610
MHYO295358 ncbi Mycoplasma hyopneumoniae 2320
MHYO262722 ncbi Mycoplasma hyopneumoniae 74480
MHYO262719 ncbi Mycoplasma hyopneumoniae J0
MGEN243273 ncbi Mycoplasma genitalium G370
MFLO265311 ncbi Mesoplasma florum L10
MCAP340047 ncbi Mycoplasma capricolum capricolum ATCC 273431
MBUR259564 ncbi Methanococcoides burtonii DSM 62420
MBAR269797 ncbi Methanosarcina barkeri Fusaro0
MART243272 ncbi Mycoplasma arthritidis 158L3-10
MAEO419665 ncbi Methanococcus aeolicus Nankai-30
MACE188937 ncbi Methanosarcina acetivorans C2A0
LINT267671 ncbi Leptospira interrogans serovar Copenhageni str. Fiocruz L1-1301
LINT189518 ncbi Leptospira interrogans serovar Lai str. 566011
LBOR355277 ncbi Leptospira borgpetersenii serovar Hardjo-bovis JB1971
LBOR355276 ncbi Leptospira borgpetersenii serovar Hardjo-bovis L5501
LBIF456481 ncbi Leptospira biflexa serovar Patoc strain Patoc 1 (Paris)1
LBIF355278 ncbi Leptospira biflexa serovar Patoc strain Patoc 1 (Ames)1
IHOS453591 ncbi Ignicoccus hospitalis KIN4/I0
HWAL362976 ncbi Haloquadratum walsbyi DSM 167901
HSP64091 ncbi Halobacterium sp. NRC-11
HSAL478009 ncbi Halobacterium salinarum R11
HPYL357544 ncbi Helicobacter pylori HPAG11
HMUK485914 ncbi Halomicrobium mukohataei DSM 122861
HMAR272569 ncbi Haloarcula marismortui ATCC 430491
HBUT415426 ncbi Hyperthermus butylicus DSM 54560
ERUM302409 ncbi Ehrlichia ruminantium Gardel1
ERUM254945 ncbi Ehrlichia ruminantium Welgevonden1
ECHA205920 ncbi Ehrlichia chaffeensis Arkansas1
DETH243164 ncbi Dehalococcoides ethenogenes 1951
CTET212717 ncbi Clostridium tetani E881
CSUL444179 ncbi Candidatus Sulcia muelleri GWSS0
CMAQ397948 ncbi Caldivirga maquilingensis IC-1670
CKOR374847 ncbi Candidatus Korarchaeum cryptofilum OPF80
CHOM360107 ncbi Campylobacter hominis ATCC BAA-3811
CBOT515621 ncbi Clostridium botulinum Ba4 str. 6571
CBOT441771 ncbi Clostridium botulinum A str. Hall1
CBOT441770 ncbi Clostridium botulinum A str. ATCC 193971
CBOT36826 Clostridium botulinum A1
CABO218497 ncbi Chlamydophila abortus S26/31
BXEN266265 ncbi Burkholderia xenovorans LB4000
BBAC264462 ncbi Bdellovibrio bacteriovorus HD1001
BAPH372461 ncbi Buchnera aphidicola Cc (Cinara cedri)1
AYEL322098 ncbi Aster yellows witches-broom phytoplasma AYWB0
AURANTIMONAS Aurantimonas manganoxydans SI85-9A10
APHA212042 ncbi Anaplasma phagocytophilum HZ1
APER272557 ncbi Aeropyrum pernix K10
AMAR234826 ncbi Anaplasma marginale St. Maries1
AFUL224325 ncbi Archaeoglobus fulgidus DSM 43040
ABUT367737 ncbi Arcobacter butzleri RM40181


Names of the homologs of the genes in the group in each of these orgs
  G6365   G6361   EG12851   EG11255   EG11254   EG10855   EG10532   EG10168   
UURE95667
UURE95664 UUR10_0171
UPAR505682
UMET351160
TWHI218496
TWHI203267
TVOL273116
TPEN368408
TKOD69014
TACI273075
STRO369723 STROP_3451
STOK273063
SSUI391296 SSU98_0365
SSP387093 SUN_2044
SSOL273057
SMAR399550
SCO SCO1336
SAUR93062 SACOL1808
SACI330779
RTYP257363 RT0354
RRIC452659 RRIOWA_0589
RRIC392021 A1G_02805
RPRO272947 RP366
RMAS416276 RMA_0513
RFEL315456 RF_0576
RCON272944 RC0495
RCAN293613 A1E_03630
RBEL391896 A1I_01010
RALB246199
PTOR263820
PISL384616
PHOR70601
PFUR186497
PAST100379
PARS340102
PAER178306
PABY272844
OTSU357244 OTBS_0152
NPHA348780 NP1414A
MTHE349307 MTHE_1412
MTHE187420
MSYN262723 MS53_0516
MSTA339860
MSED399549
MPUL272635
MPNE272634
MPEN272633 MYPE5180
MMYC272632 MSC_0424
MMOB267748
MMAZ192952
MMAR444158 MMARC6_1622
MMAR426368 MMARC7_0291
MMAR402880 MMARC5_0556
MMAR368407 MEMAR_1977
MMAR267377 MMP1037
MLEP272631 ML1441
MKAN190192
MJAN243232
MHYO295358
MHYO262722
MHYO262719
MGEN243273
MFLO265311
MCAP340047 MCAP_0548
MBUR259564
MBAR269797
MART243272
MAEO419665
MACE188937
LINT267671 LIC_12556
LINT189518 LA1124
LBOR355277 LBJ_0206
LBOR355276 LBL_2876
LBIF456481 LEPBI_I0884
LBIF355278 LBF_0851
IHOS453591
HWAL362976 HQ3705A
HSP64091 VNG6302C
HSAL478009 OE5193F
HPYL357544 HPAG1_1496
HMUK485914 HMUK_0760
HMAR272569 RRNAC2600
HBUT415426
ERUM302409 ERGA_CDS_01150
ERUM254945 ERWE_CDS_01190
ECHA205920 ECH_0178
DETH243164 DET_0194
CTET212717 CTC_00165
CSUL444179
CMAQ397948
CKOR374847
CHOM360107 CHAB381_0473
CBOT515621 CLJ_B3900
CBOT441771 CLC_3549
CBOT441770 CLB_3651
CBOT36826 CBO3570
CABO218497 CAB819
BXEN266265
BBAC264462 BD1278
BAPH372461 BCC_274
AYEL322098
AURANTIMONAS
APHA212042 APH_0207
APER272557
AMAR234826 AM980
AFUL224325
ABUT367737 ABU_0402


Organism features enriched in list (features available for 101 out of the 107 orgs in the list)
Feature    Pvalue       Num occurrences in list  Total num occurrences  
Arrangment:Aggregates 0.008730259
Arrangment:Chains 0.0058889892
Arrangment:Singles 0.000581564286
Disease:Leptospirosis 0.000857044
Disease:Rocky_Mountain_Spotted_Fever 0.005072133
Endospores:No 1.630e-1065211
GC_Content_Range4:0-40 3.826e-657213
GC_Content_Range4:60-100 0.000026710145
GC_Content_Range7:0-30 3.365e-92547
GC_Content_Range7:60-70 0.00004599134
Genome_Size_Range5:0-2 7.795e-1560155
Genome_Size_Range5:4-6 7.065e-108184
Genome_Size_Range5:6-10 0.0049615247
Genome_Size_Range9:0-1 4.964e-71627
Genome_Size_Range9:1-2 3.891e-844128
Genome_Size_Range9:4-5 0.0004378696
Genome_Size_Range9:5-6 2.813e-6288
Gram_Stain:Gram_Neg 0.000105841333
Gram_Stain:Gram_Pos 0.000039711150
Habitat:Multiple 4.543e-613178
Habitat:Specialized 0.00003172153
Optimal_temp.:- 0.003409533257
Optimal_temp.:100 0.005072133
Optimal_temp.:35-40 0.005072133
Optimal_temp.:85 0.000857044
Oxygen_Req:Anaerobic 6.390e-634102
Oxygen_Req:Facultative 0.001006422201
Pathogenic_in:Cattle 0.008905646
Pathogenic_in:Ruminant 0.005072133
Pathogenic_in:Swine 0.003567245
Salinity:Extreme_halophilic 0.002096057
Shape:Irregular_coccus 3.341e-121617
Shape:Rod 4.332e-1229347
Shape:Sphere 1.375e-101619
Temp._range:Hyperthermophilic 1.328e-91723
Temp._range:Mesophilic 0.000014866473



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ORGANISMS ENRICHED FOR GROUP:




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ORGANISMS DEPLETED FOR GROUP:




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PHYLOGENETIC PROFILE SIMILARITY WITH KNOWN PATHWAYS:

Pathways or complexes with absolute value of Pearson coefficient with respect to candidate larger than 0.4 are listed below
The candidate is assumed to exist in orgs listed in section List of organisms containing most genes from the group


Pathway or complex  # Orgs containing it  # of those orgs also containing candidate  Pearson Coeff  
PWY-5861 (superpathway of demethylmenaquinone-8 biosynthesis)50430.5891
GALACTITOLCAT-PWY (galactitol degradation)73510.5616
AST-PWY (arginine degradation II (AST pathway))120670.5607
PWY0-1241 (ADP-L-glycero-β-D-manno-heptose biosynthesis)218890.5332
PWY0-1315 (L-lactaldehyde degradation (anaerobic))45360.5095
GLYCOCAT-PWY (glycogen degradation I)246880.4725
HEXITOLDEGSUPER-PWY (superpathway of hexitol degradation)37290.4474
ECASYN-PWY (enterobacterial common antigen biosynthesis)191740.4444
LYXMET-PWY (L-lyxose degradation)87470.4420
COBALSYN-PWY (adenosylcobalamin salvage from cobinamide I)195740.4360
LIPA-CORESYN-PWY (Lipid A-core biosynthesis)176690.4275
PWY0-1355 (formate to trimethylamine N-oxide electron transfer)31250.4220
SORBDEG-PWY (sorbitol degradation II)53340.4212
THREONINE-DEG2-PWY (threonine degradation II)214760.4179
PWY-46 (putrescine biosynthesis III)138590.4165
PWY-5755 (4-hydroxybenzoate biosynthesis II (bacteria and fungi))81430.4139
PWY0-1319 (CDP-diacylglycerol biosynthesis II)296900.4132
PHOSLIPSYN-PWY (phospholipid biosynthesis I)290890.4128
PWY4FS-7 (phosphatidylglycerol biosynthesis I (plastidic))291890.4113
MANNIDEG-PWY (mannitol degradation I)99480.4093
PWY-5111 (CMP-KDO biosynthesis II (from D-arabinose 5-phosphate))300900.4076
LACTOSEUTIL-PWY (lactose degradation II)53330.4050
PWY-5918 (heme biosynthesis I)272850.4032
LPSSYN-PWY (superpathway of lipopolysaccharide biosynthesis)91450.4007
PWY-5921 (L-glutamine biosynthesis II (tRNA-dependent))40112-.4501



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PAIRWISE GENOME CONTEXT SCORE MATRIX:

  G6361   EG12851   EG11255   EG11254   EG10855   EG10532   EG10168   
G63650.9989520.99880.9985540.9986370.9986980.9990480.99887
G63610.9990760.9988850.9987150.9990850.9992740.999895
EG128510.9990530.9990420.9992420.9993890.999143
EG112550.9999270.999170.9994790.998817
EG112540.9991210.9991610.998755
EG108550.9996020.999197
EG105320.999397
EG10168



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PAIRWISE BLAST SCORES:

  G6365   G6361   EG12851   EG11255   EG11254   EG10855   EG10532   EG10168   
G63650.0f0-------
G6361-0.0f0------
EG12851--0.0f0-----
EG11255---0.0f0----
EG11254----0.0f0---
EG10855-----0.0f0--
EG10532------0.0f0-
EG10168-------0.0f0



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PATHWAYS OR PROTEIN COMPLEX MATCHES IN TARGET ORG:

For each case, all genes involved in the pathway or complex are listed. For each gene we list: a tag indicating whether the gene is part of the candidate list or not, the average and the minimum scores of the gene to the candidate list, the gene name, and its product names.



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GENOME CONTEXT INFORMATION:

Each row corresponds to a replicon in an organism, each column to a gene in the candidate. The second column indicates whether the organims was included in the list used to compute the genome context scores or not. Some organisms are not included because they are phylogenetically too similar to others already in the list.
The number in the matrix indicate the position of the homolog of the gene in the replicon. All numbers are relative to the smaller one, which is assigned a position of zero. Two columns with the same number indicate that the two genes matched the same gene in that organism.

Genome browser links for gene clusters

The links below opens a genome browser BioCyc page for each cluster of genes in the target genome. These pages shows the central gene of the cluster in the target genome and its best homolog in the reference genomes, for the genomes that contain homologs for at least 75% of the genes in the group. Only one genome per phylogenetic cluster of organisms is shown, to keep the list smaller.

EG10532 EG10855 EG12851 (centered at EG10532)
G6365 (centered at G6365)
EG10168 G6361 (centered at G6361)
EG11254 EG11255 (centered at EG11255)


ORG:REPLICON:CIRC?\GENE  IN REF LIST  G6365   G6361   EG12851   EG11255   EG11254   EG10855   EG10532   EG10168   
237/623371/62373/623406/623403/623101/623405/623367/623
AAEO224324:0:Tyes---320---0
AAUR290340:2:Tyes-0----17-
AAVE397945:0:Tyes-965-10--964
ABAC204669:0:Tyes-3540-02-13172338
ABAU360910:0:Tyes24000-13751376-16611
ABOR393595:0:Tyes6650-1617-103
ABUT367737:0:Tyes------0-
ACAU438753:0:Tyes4272--41734172-5580
ACEL351607:0:Tyes-0-----418
ACRY349163:8:Tyes3591338--1530-20390
ADEH290397:0:Tyes-3662-020-25392529
AEHR187272:0:Tyes0164166172173-167165
AFER243159:0:Tyes5422247-10238123802246
AHYD196024:0:Tyes0461213875
ALAI441768:0:Tyes-690--0---
AMAR234826:0:Tyes---0----
AMAR329726:9:Tyes2969-----0745
AMET293826:0:Tyes-0-9473383-948-
ANAE240017:0:Tyes-63-0---255
AORE350688:0:Tyes-0--2163---
APHA212042:0:Tyes---0----
APLE416269:0:Tyes14131-126112605025010
APLE434271:0:Tno14101-125712564714700
ASAL382245:5:Tyes128610457
ASP1667:3:Tyes-0-154--17-
ASP232721:2:Tyes-0-13301331--1
ASP62928:0:Tyes060-29362937-253861
ASP62977:0:Tyes6711-2477656-25000
ASP76114:2:Tyes16171-15411540-17860
AVAR240292:3:Tyes0-----3720-
BABO262698:1:Tno87--3130-0330
BAFZ390236:2:Fyes-0-----186
BAMB339670:3:Tno02385-19661967-1302386
BAMB398577:3:Tno02195-17921793-1272196
BAMY326423:0:Tyes-0-851407-418-
BANT260799:0:Tno---01101-407-
BANT261594:2:Tno---01078-406-
BANT568206:2:Tyes---01121-426-
BANT592021:2:Tno---01124-424-
BAPH198804:0:Tyes-0----1-
BAPH372461:0:Tyes------0-
BBAC264462:0:Tyes-------0
BBAC360095:0:Tyes464857-01--858
BBRO257310:0:Tyes33041-526525-20380
BBUR224326:21:Fno-0-----176
BCAN483179:1:Tno97--33--0350
BCEN331271:2:Tno24381941-15381539-01942
BCEN331272:3:Tyes02169-17701771-1282170
BCER226900:1:Tyes---01104-404-
BCER288681:0:Tno---01097-412-
BCER315749:1:Tyes-0-8821780-1227-
BCER405917:1:Tyes---01148-453-
BCER572264:1:Tno---01129-419-
BCIC186490:0:Tyes------1440
BCLA66692:0:Tyes---02462-1245-
BFRA272559:1:Tyes-819-0656---
BFRA295405:0:Tno-789-0700---
BGAR290434:2:Fyes-0-----182
BHAL272558:0:Tyes---02698-1971-
BHEN283166:0:Tyes128061-01--60
BHER314723:0:Fyes-0-----174
BJAP224911:0:Fyes175366-01-199365
BLIC279010:0:Tyes-1086-01512-409-
BLON206672:0:Tyes-0-103397---
BMAL243160:0:Tno0-------
BMAL243160:1:Tno-1-14731474-19880
BMAL320388:0:Tno0-------
BMAL320388:1:Tno-2300-688687-02301
BMAL320389:0:Tyes0-------
BMAL320389:1:Tyes-2030-10-22372029
BMEL224914:1:Tno0--5354-851850
BMEL359391:1:Tno79--3231-0317
BOVI236:1:Tyes77--3231-0297
BPAR257311:0:Tno28740-12201219-558-
BPER257313:0:Tyes20220-11401141-898-
BPET94624:0:Tyes03375-28002801-30293376
BPSE272560:1:Tyes24051-492491-22840
BPSE320372:1:Tno28081-523522-26750
BPSE320373:1:Tno2757--512511-26130
BPUM315750:0:Tyes---01382-363-
BQUI283165:0:Tyes8961-----0
BSP107806:2:Tyes-0----1-
BSP36773:2:Tyes02459-20552056-1312460
BSP376:0:Tyes2540-360359-1401
BSUB:0:Tyes-608-01525-480-
BSUI204722:1:Tyes86--3332-0340
BSUI470137:0:Tno---34--0-
BSUI470137:1:Tno0------253
BTHA271848:1:Tno22841-423422-6160
BTHE226186:0:Tyes-0-256066---
BTHU281309:1:Tno---01065-400-
BTHU412694:1:Tno---01015-376-
BTRI382640:1:Tyes180863-01--62
BTUR314724:0:Fyes-0-----174
BVIE269482:7:Tyes02276-18681869-1202277
BWEI315730:4:Tyes-0-20113092-2397-
CABO218497:0:Tyes---0----
CACE272562:1:Tyes-0--2120---
CAULO:0:Tyes56--34263427-37520
CBEI290402:0:Tyes-0--1061---
CBLO203907:0:Tyes85-0-234
CBLO291272:0:Tno057-52-545556
CBOT36826:1:Tno----0---
CBOT441770:0:Tyes----0---
CBOT441771:0:Tno----0---
CBOT441772:1:Tno-0--714---
CBOT498213:1:Tno-0--643---
CBOT508765:1:Tyes-0--66---
CBOT515621:2:Tyes----0---
CBOT536232:0:Tno-2987--3656-0-
CBUR227377:1:Tyes0469-457--464468
CBUR360115:1:Tno0486-474--481485
CBUR434922:2:Tno5060-1213-71
CCAV227941:1:Tyes---761---0
CCHL340177:0:Tyes---0---1253
CCON360104:2:Tyes-653----05
CCUR360105:0:Tyes-543----0-
CDES477974:0:Tyes---2--0-
CDIF272563:1:Tyes-338-11140-0-
CDIP257309:0:Tyes-484-----0
CEFF196164:0:Fyes-590-----0
CFEL264202:1:Tyes---0---783
CFET360106:0:Tyes-0----557552
CGLU196627:0:Tyes-778-----0
CHOM360107:1:Tyes------0-
CHUT269798:0:Tyes-756-02140--2600
CHYD246194:0:Tyes---3230-324-
CJAP155077:0:Tyes01298-4764771571581297
CJEI306537:0:Tyes-37-0---382
CJEJ192222:0:Tyes------04
CJEJ195099:0:Tno------04
CJEJ354242:2:Tyes------04
CJEJ360109:0:Tyes------40
CJEJ407148:0:Tno------04
CKLU431943:1:Tyes-512--0---
CMET456442:0:Tyes-0--467---
CMIC31964:2:Tyes-41-116---0
CMIC443906:2:Tyes-75-0---194
CMUR243161:1:Tyes---0---665
CNOV386415:0:Tyes-540--0---
CPEL335992:0:Tyes---0--133161
CPER195102:1:Tyes-0--2239-237-
CPER195103:0:Tno-0--2397-214-
CPER289380:3:Tyes-0--2099-209-
CPHY357809:0:Tyes-2083--0--990
CPNE115711:1:Tyes---845---0
CPNE115713:0:Tno---276---0
CPNE138677:0:Tno---275---0
CPNE182082:0:Tno---283---0
CPRO264201:0:Fyes-672-858---0
CPSY167879:0:Tyes17831790710561791
CRUT413404:0:Tyes904907-305--0-
CSAL290398:0:Tyes02361-15521553-23672362
CSP501479:6:Fyes---01---
CSP501479:7:Fyes------0-
CSP501479:8:Fyes02647-----2646
CSP78:2:Tyes4598--47324733-50430
CTEP194439:0:Tyes---0---1338
CTET212717:0:Tyes----0---
CTRA471472:0:Tyes---0---663
CTRA471473:0:Tno---0---663
CVES412965:0:Tyes833836----0-
CVIO243365:0:Tyes6463750-1312-03751
DARO159087:0:Tyes33703391-01-3833392
DDES207559:0:Tyes-54-0546-69953
DETH243164:0:Tyes------0-
DGEO319795:1:Tyes-712--1067-0545
DHAF138119:0:Tyes-0-10582920-1057-
DNOD246195:0:Tyes-668-215667-01
DOLE96561:0:Tyes---0--23751695
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