CANDIDATE ID: 215

CANDIDATE ID: 215

NUMBER OF GENES: 8
AVERAGE SCORE:    9.9918646e-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:

- G6362 (ybeY) (b0659)
   Products of gene:
     - G6362-MONOMER (conserved protein involved in translation)

- G6350 (nadD) (b0639)
   Products of gene:
     - NICONUCADENYLYLTRAN-MONOMER (nicotinate-mononucleotide adenylyltransferase)
       Reactions:
        ATP + nicotinate mononucleotide  ->  diphosphate + nicotinate adenine dinucleotide
         In pathways
         PWY-3502 (PWY-3502)
         PWY0-781 (aspartate superpathway)
         NADSYN-PWY (NADSYN-PWY)
         PYRIDNUCSAL-PWY (NAD salvage pathway I)
         PYRIDNUCSYN-PWY (NAD biosynthesis I (from aspartate))
         PWY-5381 (PWY-5381)
         PWY-5653 (PWY-5653)

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

- EG11412 (holA) (b0640)
   Products of gene:
     - EG11412-MONOMER (DNA polymerase III, δ subunit)
     - CPLX0-3801 (DNA polymerase III, preinitiation complex)
     - CPLX0-3803 (DNA polymerase III, holoenzyme)

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

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

- EG10607 (mrdB) (b0634)
   Products of gene:
     - EG10607-MONOMER (rod shape-determining membrane protein; sensitivity to radiation and drugs)

- EG10606 (mrdA) (b0635)
   Products of gene:
     - EG10606-MONOMER (cell shape; peptidoglycan synthetase; penicillin-binding protein 2)
       Reactions:
        peptidoglycan D-alanyl-DAP crosslink + H2O  =  peptidoglycan tetrapeptide, glycan chain 2 + peptidoglycan tetrapeptide, glycan chain 1



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ORGANISMS CONTAINING AT LEAST 7 GENES FROM THE GROUP:

Total number of orgs: 83
Effective number of orgs (counting one per cluster within 468 clusters): 47

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 CMCP67
VVUL196600 ncbi Vibrio vulnificus YJ0167
VPAR223926 ncbi Vibrio parahaemolyticus RIMD 22106337
VFIS312309 ncbi Vibrio fischeri ES1147
VCHO345073 ncbi Vibrio cholerae O3957
VCHO ncbi Vibrio cholerae O1 biovar El Tor str. N169617
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 SS97
PLUM243265 ncbi Photorhabdus luminescens laumondii TTO17
PING357804 ncbi Psychromonas ingrahamii 377
PHAL326442 ncbi Pseudoalteromonas haloplanktis TAC1258
PATL342610 ncbi Pseudoalteromonas atlantica T6c7
NMUL323848 ncbi Nitrosospira multiformis ATCC 251967
MSP400668 ncbi Marinomonas sp. MWYL17
MCAP243233 ncbi Methylococcus capsulatus Bath7
MAQU351348 ncbi Marinobacter aquaeolei VT88
LPNE297245 ncbi Legionella pneumophila Lens7
LPNE272624 ncbi Legionella pneumophila pneumophila Philadelphia 17
KPNE272620 ncbi Klebsiella pneumoniae pneumoniae MGH 785788
ILOI283942 ncbi Idiomarina loihiensis L2TR7
HHAL349124 ncbi Halorhodospira halophila SL17
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
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
  G6362   G6350   EG12851   EG11412   EG11255   EG10855   EG10607   EG10606   
YPSE349747 YPSIP31758_2917YPSIP31758_2929YPSIP31758_2924YPSIP31758_2928YPSIP31758_2947YPSIP31758_2927YPSIP31758_2950YPSIP31758_2949
YPSE273123 YPTB1111YPTB1100YPTB1104YPTB1101YPTB1099YPTB1102YPTB1096YPTB1097
YPES386656 YPDSF_2634YPDSF_2646YPDSF_2642YPDSF_2645YPDSF_2647YPDSF_2644YPDSF_2650YPDSF_2649
YPES377628 YPN_1104YPN_1092YPN_1096YPN_1093YPN_1091YPN_1094YPN_1088YPN_1089
YPES360102 YPA_2479YPA_2490YPA_2486YPA_2489YPA_2491YPA_2488YPA_2494YPA_2493
YPES349746 YPANGOLA_A1832YPANGOLA_A1845YPANGOLA_A1840YPANGOLA_A1844YPANGOLA_A1846YPANGOLA_A1843YPANGOLA_A1850YPANGOLA_A1849
YPES214092 YPO2618YPO2607YPO2611YPO2608YPO2606YPO2609YPO2603YPO2604
YPES187410 Y1193Y1181Y1185Y1182Y1180Y1183Y1177Y1178
YENT393305 YE2987YE2999YE2995YE2998YE3000YE2997YE3003YE3002
VVUL216895 VV1_0268VV1_0271VV1_0275VV1_0276VV1_0274VV1_0279VV2_1370
VVUL196600 VV0915VV0912VV0909VV0908VV0910VV0905VV0906
VPAR223926 VP0731VP0728VP0725VP0724VP0726VP0721VP0722
VFIS312309 VF0757VF0754VF0751VF0750VF0752VF0747VF1481
VCHO345073 VC0395_A0482VC0395_A0479VC0395_A0476VC0395_A0475VC0395_A0477VC0395_A0472VC0395_A0473
VCHO VC0960VC0957VC0953VC0952VC0954VC0949VC0950
TDEN292415 TBD_2704TBD_2441TBD_2443TBD_2440TBD_2444TBD_0264TBD_0263
STYP99287 STM0668STM0645STM0653STM0646STM0642STM0647STM0639STM1910
SSP94122 SHEWANA3_1006SHEWANA3_0998SHEWANA3_1002SHEWANA3_0999SHEWANA3_0997SHEWANA3_1000SHEWANA3_0994SHEWANA3_0995
SSON300269 SSO_0613SSO_0593SSO_0597SSO_0594SSO_0591SSO_0595SSO_0588SSO_0589
SSED425104 SSED_3473SSED_3482SSED_3478SSED_3481SSED_3483SSED_3480SSED_3486SSED_3485
SPRO399741 SPRO_1217SPRO_1204SPRO_1208SPRO_1205SPRO_1203SPRO_1206SPRO_1200SPRO_2356
SPEA398579 SPEA_3139SPEA_3146SPEA_3142SPEA_3145SPEA_3147SPEA_3144SPEA_3150SPEA_3149
SONE211586 SO_1179SO_1171SO_1175SO_1172SO_1170SO_1173SO_1167SO_1168
SLOI323850 SHEW_2925SHEW_2932SHEW_2928SHEW_2931SHEW_2933SHEW_2930SHEW_2936SHEW_2935
SHIGELLA YBEYYBENYBELHOLAYBEBRLPBMRDBMRDA
SHAL458817 SHAL_3224SHAL_3231SHAL_3227SHAL_3230SHAL_3232SHAL_3229SHAL_3235SHAL_3234
SGLO343509 SG0809SG0800SG0804SG0801SG0799SG0802SG0796SG0797
SFLE373384 SFV_0668SFV_0687SFV_0683SFV_0686SFV_0689SFV_0685SFV_0692SFV_0691
SFLE198214 AAN42260.1AAN42278.1AAN42274.1AAN42277.1AAN42280.1AAN42276.1AAN42283.1AAN42282.1
SENT454169 SEHA_C0786SEHA_C0761SEHA_C0770SEHA_C0762SEHA_C0758SEHA_C0763SEHA_C0755SEHA_C2125
SENT321314 SCH_0696SCH_0675SCH_0682SCH_0676SCH_0672SCH_0677SCH_0669SCH_1917
SENT295319 SPA2072SPA2089SPA2081SPA2088SPA2092SPA2087SPA2095SPA2094
SENT220341 STY0714STY0696STY0704STY0697STY0693STY0698STY0690STY0691
SENT209261 T2205T2222T2214T2221T2225T2220T2228T2227
SDYS300267 SDY_0595SDY_0561SDY_0567SDY_0562SDY_0559SDY_0563SDY_0556SDY_0557
SDEN318161 SDEN_0813SDEN_0794SDEN_0798SDEN_0795SDEN_0857SDEN_0796SDEN_0854SDEN_0855
SDEG203122 SDE_3302SDE_3344SDE_0534SDE_3310SDE_3343SDE_3309SDE_3340SDE_3341
SBOY300268 SBO_0523SBO_0503SBO_0507SBO_0504SBO_0501SBO_0505SBO_0498SBO_0499
SBAL402882 SHEW185_3305SHEW185_3314SHEW185_3310SHEW185_3313SHEW185_3315SHEW185_3312SHEW185_3318SHEW185_3317
SBAL399599 SBAL195_3441SBAL195_3450SBAL195_3446SBAL195_3449SBAL195_3451SBAL195_3448SBAL195_3454SBAL195_3453
PPRO298386 PBPRA2880PBPRA2884PBPRA2887PBPRA2888PBPRA2886PBPRA2891PBPRB0070
PLUM243265 PLU1310PLU1300PLU1301PLU1299PLU1302PLU1296PLU1297
PING357804 PING_0533PING_1188PING_1189PING_1137PING_1190PING_1134PING_1135
PHAL326442 PSHAA1044PSHAA1028PSHAA1032PSHAA1029PSHAA1027PSHAA1030PSHAA1024PSHAA1025
PATL342610 PATL_2208PATL_1563PATL_1564PATL_1562PATL_1565PATL_1559PATL_1560
NMUL323848 NMUL_A2697NMUL_A0360NMUL_A0513NMUL_A0361NMUL_A0512NMUL_A0316NMUL_A0317
MSP400668 MMWYL1_2911MMWYL1_2851MMWYL1_2917MMWYL1_2850MMWYL1_2916MMWYL1_2847MMWYL1_2848
MCAP243233 MCA_1457MCA_1879MCA_1451MCA_2027MCA_1452MCA_0104MCA_0103
MAQU351348 MAQU_2740MAQU_2416MAQU_2743MAQU_2746MAQU_2415MAQU_2745MAQU_2412MAQU_2413
LPNE297245 LPL1601LPL1298LPL1299LPL1328LPL1300LPL1325LPL1326
LPNE272624 LPG1440LPG1345LPG1346LPG1377LPG1347LPG1374LPG1375
KPNE272620 GKPORF_B5108GKPORF_B5095GKPORF_B5099GKPORF_B5096GKPORF_B5093GKPORF_B5097GKPORF_B5090GKPORF_B0907
ILOI283942 IL0943IL0950IL0949IL0951IL0948IL0954IL0953
HHAL349124 HHAL_0891HHAL_2141HHAL_2146HHAL_2143HHAL_2140HHAL_1009HHAL_1008
HCHE349521 HCH_05350HCH_05846HCH_05353HCH_05357HCH_05845HCH_05842HCH_05843
ESP42895 ENT638_1185ENT638_1173ENT638_1177ENT638_1174ENT638_1172ENT638_1175ENT638_1169ENT638_1170
EFER585054 EFER_2443EFER_2467EFER_2463EFER_2466EFER_2468EFER_2465EFER_2471EFER_2470
ECOO157 YBEYYBENYBELHOLAYBEBRLPBMRDBMRDA
ECOL83334 ECS0697ECS0677ECS0681ECS0678ECS0675ECS0679ECS0672ECS0673
ECOL585397 ECED1_0650ECED1_0636ECED1_0640ECED1_0637ECED1_0634ECED1_0638ECED1_0631ECED1_0632
ECOL585057 ECIAI39_0626ECIAI39_0614ECIAI39_0618ECIAI39_0615ECIAI39_0612ECIAI39_0616ECIAI39_0609ECIAI39_0610
ECOL585056 ECUMN_0752ECUMN_0733ECUMN_0737ECUMN_0734ECUMN_0731ECUMN_0735ECUMN_0728ECUMN_0729
ECOL585055 EC55989_0654EC55989_0631EC55989_0635EC55989_0632EC55989_0629EC55989_0633EC55989_0626EC55989_0627
ECOL585035 ECS88_0694ECS88_0681ECS88_0685ECS88_0682ECS88_0679ECS88_0683ECS88_0676ECS88_0677
ECOL585034 ECIAI1_0643ECIAI1_0623ECIAI1_0627ECIAI1_0624ECIAI1_0621ECIAI1_0625ECIAI1_0618ECIAI1_0619
ECOL481805 ECOLC_2986ECOLC_3006ECOLC_3002ECOLC_3005ECOLC_3008ECOLC_3004ECOLC_3011ECOLC_3010
ECOL469008 ECBD_2992ECBD_3012ECBD_3008ECBD_3011ECBD_3014ECBD_3010ECBD_3017ECBD_3016
ECOL439855 ECSMS35_0681ECSMS35_0659ECSMS35_0663ECSMS35_0660ECSMS35_0657ECSMS35_0661ECSMS35_0654ECSMS35_0655
ECOL413997 ECB_00627ECB_00608ECB_00612ECB_00609ECB_00606ECB_00610ECB_00603ECB_00604
ECOL409438 ECSE_0730ECSE_0708ECSE_0712ECSE_0709ECSE_0705ECSE_0710ECSE_0702ECSE_0703
ECOL405955 APECO1_1404APECO1_1416APECO1_1413APECO1_1415APECO1_1414APECO1_1421APECO1_1420
ECOL364106 UTI89_C0657UTI89_C0642UTI89_C0646UTI89_C0643UTI89_C0639UTI89_C0644UTI89_C0636UTI89_C0637
ECOL362663 ECP_0682ECP_0669ECP_0673ECP_0670ECP_0667ECP_0671ECP_0664ECP_0665
ECOL331111 ECE24377A_0688ECE24377A_0665ECE24377A_0669ECE24377A_0666ECE24377A_0663ECE24377A_0667ECE24377A_0660ECE24377A_0661
ECOL316407 ECK0651:JW0656:B0659ECK0632:JW0634:B0639ECK0636:JW0638:B0643ECK0633:JW0635:B0640ECK0630:JW5090:B0637ECK0634:JW0636:B0641ECK0627:JW0629:B0634ECK0628:JW0630:B0635
ECOL199310 C0744C0730C0734C0731C0728C0732C0725C0726
ECAR218491 ECA1317ECA1306ECA1310ECA1307ECA1305ECA1308ECA1302ECA1303
CPSY167879 CPS_3574CPS_1718CPS_1723CPS_1720CPS_1717CPS_1721CPS_1714CPS_1715
CJAP155077 CJA_1637CJA_0786CJA_0452CJA_0787CJA_0453CJA_0790CJA_0789
ASAL382245 ASA_1072ASA_1065ASA_1069ASA_1066ASA_1064ASA_1067ASA_1061ASA_1062
AHYD196024 AHA_3243AHA_3251AHA_3246AHA_3250AHA_3252AHA_3248AHA_3255AHA_3254
AFER243159 AFE_2442AFE_0161AFE_2580AFE_0160AFE_2579AFE_0536AFE_0537
AEHR187272 MLG_0396MLG_0404MLG_0399MLG_0402MLG_0405MLG_0173MLG_0172


Organism features enriched in list (features available for 79 out of the 83 orgs in the list)
Feature    Pvalue       Num occurrences in list  Total num occurrences  
Arrangment:Chains 0.0000644292
Arrangment:Pairs 0.000118528112
Disease:Bubonic_plague 5.230e-666
Disease:Dysentery 5.230e-666
Disease:Gastroenteritis 2.422e-71013
Disease:Urinary_tract_infection 0.008365834
GC_Content_Range4:0-40 3.237e-124213
GC_Content_Range4:40-60 1.537e-2471224
GC_Content_Range4:60-100 8.134e-74145
GC_Content_Range7:30-40 2.455e-84166
GC_Content_Range7:40-50 0.000011731117
GC_Content_Range7:50-60 8.065e-1340107
GC_Content_Range7:60-70 4.526e-64134
Genome_Size_Range5:2-4 3.834e-610197
Genome_Size_Range5:4-6 3.278e-2667184
Genome_Size_Range9:2-3 0.00003574120
Genome_Size_Range9:4-5 7.043e-103496
Genome_Size_Range9:5-6 2.341e-103388
Gram_Stain:Gram_Neg 1.912e-1877333
Motility:No 3.643e-92151
Motility:Yes 5.245e-1264267
Optimal_temp.:20-30 0.007274847
Optimal_temp.:28-30 0.007274847
Oxygen_Req:Aerobic 5.474e-69185
Oxygen_Req:Anaerobic 1.450e-61102
Oxygen_Req:Facultative 2.734e-2367201
Pathogenic_in:Human 0.002201840213
Pathogenic_in:No 0.000600618226
Pathogenic_in:Rodent 0.007274847
Shape:Coccus 0.0000370182
Shape:Rod 2.574e-1172347
Temp._range:Psychrophilic 0.000292669



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ORGANISMS CONTAINING AT MOST 1 GENES FROM THE GROUP:

Total number of orgs: 92
Effective number of orgs (counting one per cluster within 468 clusters): 82

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 131
UPAR505682 ncbi Ureaplasma parvum serovar 3 str. ATCC 278150
UMET351160 ncbi uncultured methanogenic archaeon RC-I0
TVOL273116 ncbi Thermoplasma volcanium GSS10
TPEN368408 ncbi Thermofilum pendens Hrk 50
TKOD69014 ncbi Thermococcus kodakarensis KOD10
TACI273075 ncbi Thermoplasma acidophilum DSM 17280
STOK273063 ncbi Sulfolobus tokodaii 70
SSP1148 ncbi Synechocystis sp. PCC 68031
SSOL273057 ncbi Sulfolobus solfataricus P20
SMAR399550 ncbi Staphylothermus marinus F10
SCO ncbi Streptomyces coelicolor A3(2)1
SACI330779 ncbi Sulfolobus acidocaldarius DSM 6390
PTOR263820 ncbi Picrophilus torridus DSM 97900
PMAR74547 ncbi Prochlorococcus marinus MIT 93131
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
NPHA348780 ncbi Natronomonas pharaonis DSM 21600
MTHE349307 ncbi Methanosaeta thermophila PT0
MTHE187420 ncbi Methanothermobacter thermautotrophicus Delta H0
MSTA339860 ncbi Methanosphaera stadtmanae DSM 30910
MSED399549 ncbi Metallosphaera sedula DSM 53480
MPUL272635 ncbi Mycoplasma pulmonis UAB CTIP1
MPNE272634 ncbi Mycoplasma pneumoniae M1290
MMYC272632 ncbi Mycoplasma mycoides mycoides SC str. PG10
MMOB267748 ncbi Mycoplasma mobile 163K1
MMAZ192952 ncbi Methanosarcina mazei Go10
MMAR444158 ncbi Methanococcus maripaludis C60
MMAR426368 ncbi Methanococcus maripaludis C70
MMAR402880 ncbi Methanococcus maripaludis C50
MMAR368407 ncbi Methanoculleus marisnigri JR10
MMAR267377 ncbi Methanococcus maripaludis S20
MLAB410358 ncbi Methanocorpusculum labreanum Z0
MKAN190192 ncbi Methanopyrus kandleri AV190
MJAN243232 ncbi Methanocaldococcus jannaschii DSM 26610
MHYO295358 ncbi Mycoplasma hyopneumoniae 2321
MHYO262722 ncbi Mycoplasma hyopneumoniae 74480
MHYO262719 ncbi Mycoplasma hyopneumoniae J0
MHUN323259 ncbi Methanospirillum hungatei JF-10
MGEN243273 ncbi Mycoplasma genitalium G370
MFLO265311 ncbi Mesoplasma florum L11
MCAP340047 ncbi Mycoplasma capricolum capricolum ATCC 273430
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
IHOS453591 ncbi Ignicoccus hospitalis KIN4/I0
HWAL362976 ncbi Haloquadratum walsbyi DSM 167900
HSP64091 ncbi Halobacterium sp. NRC-10
HSAL478009 ncbi Halobacterium salinarum R10
HMUK485914 ncbi Halomicrobium mukohataei DSM 122860
HMAR272569 ncbi Haloarcula marismortui ATCC 430490
HBUT415426 ncbi Hyperthermus butylicus DSM 54560
ERUM302409 ncbi Ehrlichia ruminantium Gardel1
ERUM254945 ncbi Ehrlichia ruminantium Welgevonden1
ECHA205920 ncbi Ehrlichia chaffeensis Arkansas1
ECAN269484 ncbi Ehrlichia canis Jake1
DSP255470 ncbi Dehalococcoides sp. CBDB11
DSP216389 ncbi Dehalococcoides sp. BAV11
DRAD243230 ncbi Deinococcus radiodurans R11
DGEO319795 ncbi Deinococcus geothermalis DSM 113000
DETH243164 ncbi Dehalococcoides ethenogenes 1951
CTRA471473 ncbi Chlamydia trachomatis L2b/UCH-1/proctitis1
CTRA471472 ncbi Chlamydia trachomatis 434/Bu1
CSUL444179 ncbi Candidatus Sulcia muelleri GWSS0
CPRO264201 ncbi Candidatus Protochlamydia amoebophila UWE251
CPNE182082 ncbi Chlamydophila pneumoniae TW-1831
CPNE138677 ncbi Chlamydophila pneumoniae J1381
CPNE115713 ncbi Chlamydophila pneumoniae CWL0291
CPNE115711 ncbi Chlamydophila pneumoniae AR391
CNOV386415 ncbi Clostridium novyi NT1
CMUR243161 ncbi Chlamydia muridarum Nigg1
CMET456442 ncbi Candidatus Methanoregula boonei 6A80
CMAQ397948 ncbi Caldivirga maquilingensis IC-1670
CKOR374847 ncbi Candidatus Korarchaeum cryptofilum OPF80
CFEL264202 ncbi Chlamydophila felis Fe/C-561
CCAV227941 ncbi Chlamydophila caviae GPIC1
CABO218497 ncbi Chlamydophila abortus S26/31
BXEN266265 ncbi Burkholderia xenovorans LB4000
BQUI283165 ncbi Bartonella quintana Toulouse1
BAPH372461 ncbi Buchnera aphidicola Cc (Cinara cedri)1
AYEL322098 ncbi Aster yellows witches-broom phytoplasma AYWB0
AURANTIMONAS Aurantimonas manganoxydans SI85-9A10
APER272557 ncbi Aeropyrum pernix K10
ALAI441768 ncbi Acholeplasma laidlawii PG-8A1
AFUL224325 ncbi Archaeoglobus fulgidus DSM 43040


Names of the homologs of the genes in the group in each of these orgs
  G6362   G6350   EG12851   EG11412   EG11255   EG10855   EG10607   EG10606   
UURE95667 UU469
UPAR505682
UMET351160
TVOL273116
TPEN368408
TKOD69014
TACI273075
STOK273063
SSP1148 SLR1886P
SSOL273057
SMAR399550
SCO SCO2579
SACI330779
PTOR263820
PMAR74547 PMT0048
PISL384616
PHOR70601
PFUR186497
PAST100379
PARS340102
PAER178306
PABY272844
NPHA348780
MTHE349307
MTHE187420
MSTA339860
MSED399549
MPUL272635 MYPU_3350
MPNE272634
MMYC272632
MMOB267748 MMOB2760
MMAZ192952
MMAR444158
MMAR426368
MMAR402880
MMAR368407
MMAR267377
MLAB410358
MKAN190192
MJAN243232
MHYO295358 MHP474
MHYO262722
MHYO262719
MHUN323259
MGEN243273
MFLO265311 MFL373
MCAP340047
MBUR259564
MBAR269797
MART243272
MAEO419665
MACE188937
IHOS453591
HWAL362976
HSP64091
HSAL478009
HMUK485914
HMAR272569
HBUT415426
ERUM302409 ERGA_CDS_09240
ERUM254945 ERWE_CDS_09330
ECHA205920 ECH_1155
ECAN269484 ECAJ_0927
DSP255470 CBDBA3
DSP216389 DEHABAV1_0003
DRAD243230 DR_2092
DGEO319795
DETH243164 DET_0003
CTRA471473 CTLON_0138
CTRA471472 CTL0138
CSUL444179
CPRO264201 PC1239
CPNE182082 CPB0947
CPNE138677 CPJ0915
CPNE115713 CPN0915
CPNE115711 CP_0951
CNOV386415 NT01CX_0075
CMUR243161 TC_0150
CMET456442
CMAQ397948
CKOR374847
CFEL264202 CF0162
CCAV227941 CCA_00854
CABO218497 CAB819
BXEN266265
BQUI283165 BQ02120
BAPH372461 BCC_273
AYEL322098
AURANTIMONAS
APER272557
ALAI441768 ACL_0950
AFUL224325


Organism features enriched in list (features available for 89 out of the 92 orgs in the list)
Feature    Pvalue       Num occurrences in list  Total num occurrences  
Arrangment:Aggregates 0.000575969
Arrangment:Chains 0.0003407492
Disease:Pharyngitis 2.239e-788
Disease:bronchitis_and_pneumonitis 2.239e-788
Endospores:No 1.951e-652211
Endospores:Yes 0.0053750253
GC_Content_Range4:60-100 0.000924011145
GC_Content_Range7:0-30 0.00003491847
GC_Content_Range7:40-50 0.004332727117
GC_Content_Range7:60-70 0.001309910134
Genome_Size_Range5:0-2 4.493e-1758155
Genome_Size_Range5:4-6 1.797e-114184
Genome_Size_Range9:0-1 6.266e-71527
Genome_Size_Range9:1-2 1.025e-943128
Genome_Size_Range9:4-5 0.0000380396
Genome_Size_Range9:5-6 2.375e-6188
Gram_Stain:Gram_Neg 7.016e-632333
Gram_Stain:Gram_Pos 7.667e-76150
Habitat:Aquatic 0.00116422491
Habitat:Multiple 2.856e-87178
Habitat:Specialized 0.00001542053
Optimal_temp.:- 0.000765626257
Optimal_temp.:100 0.003456433
Optimal_temp.:35-40 0.003456433
Optimal_temp.:85 0.000512544
Oxygen_Req:Aerobic 0.000123314185
Oxygen_Req:Anaerobic 4.861e-835102
Oxygen_Req:Facultative 0.000692918201
Pathogenic_in:Human 0.000022516213
Pathogenic_in:No 0.002510146226
Pathogenic_in:Ruminant 0.003456433
Salinity:Extreme_halophilic 0.001153857
Shape:Irregular_coccus 3.286e-151717
Shape:Pleomorphic 0.000224368
Shape:Rod 1.152e-1124347
Shape:Sphere 8.501e-91419
Temp._range:Hyperthermophilic 1.460e-101723
Temp._range:Mesophilic 1.586e-655473



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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  
GALACTITOLCAT-PWY (galactitol degradation)73490.5768
AST-PWY (arginine degradation II (AST pathway))120640.5751
PWY-5861 (superpathway of demethylmenaquinone-8 biosynthesis)50380.5448
PWY0-1241 (ADP-L-glycero-β-D-manno-heptose biosynthesis)218810.5146
PWY0-1315 (L-lactaldehyde degradation (anaerobic))45340.5110
COBALSYN-PWY (adenosylcobalamin salvage from cobinamide I)195720.4688
GLYCOCAT-PWY (glycogen degradation I)246810.4660
HEXITOLDEGSUPER-PWY (superpathway of hexitol degradation)37280.4611
PWY0-1355 (formate to trimethylamine N-oxide electron transfer)31250.4533
THREONINE-DEG2-PWY (threonine degradation II)214740.4525
LYXMET-PWY (L-lyxose degradation)87440.4417
TREDEGLOW-PWY (trehalose degradation I (low osmolarity))121530.4403
PWY-46 (putrescine biosynthesis III)138570.4392
SORBDEG-PWY (sorbitol degradation II)53330.4392
LIPA-CORESYN-PWY (Lipid A-core biosynthesis)176650.4359
PWY-5148 (acyl-CoA hydrolysis)227740.4295
RHAMCAT-PWY (rhamnose degradation)91440.4263
ECASYN-PWY (enterobacterial common antigen biosynthesis)191670.4257
LACTOSEUTIL-PWY (lactose degradation II)53320.4222
ARABCAT-PWY (L-arabinose degradation I)128530.4202
LPSSYN-PWY (superpathway of lipopolysaccharide biosynthesis)91430.4130
PWY0-1356 (formate to dimethyl sulfoxide electron transfer)22190.4112
MANNIDEG-PWY (mannitol degradation I)99450.4110
PWY-5755 (4-hydroxybenzoate biosynthesis II (bacteria and fungi))81400.4102
PWY-5918 (heme biosynthesis I)272790.4073
PWY-6196 (serine racemization)102450.4010
PWY-5921 (L-glutamine biosynthesis II (tRNA-dependent))4019-.4381



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PAIRWISE GENOME CONTEXT SCORE MATRIX:

  G6350   EG12851   EG11412   EG11255   EG10855   EG10607   EG10606   
G63620.9992880.9990220.999180.9992280.9990250.9987550.99851
G63500.9990140.9994910.999960.9992530.9993110.999254
EG128510.9992450.9990530.9992420.9988870.998656
EG114120.9993740.9996080.9991250.999025
EG112550.999170.9993790.999328
EG108550.9990350.998868
EG106070.999935
EG10606



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PAIRWISE BLAST SCORES:

  G6362   G6350   EG12851   EG11412   EG11255   EG10855   EG10607   EG10606   
G63620.0f0-------
G6350-0.0f0------
EG12851--0.0f0-----
EG11412---0.0f0----
EG11255----0.0f0---
EG10855-----0.0f0--
EG10607------0.0f0-
EG10606-------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.

EG10606 EG10607 EG10855 EG11255 EG11412 EG12851 G6350 (centered at G6350)
G6362 (centered at G6362)


ORG:REPLICON:CIRC?\GENE  IN REF LIST  G6362   G6350   EG12851   EG11412   EG11255   EG10855   EG10607   EG10606   
417/623400/62373/623193/623406/623101/623351/623363/623
AAEO224324:0:Tyes9468--887-0824
AAUR290340:2:Tyes0128------
AAVE397945:0:Tyes3878--41792858-5400
ABAC204669:0:Tyes-0--1-14561455
ABAU360910:0:Tyes01375-16641376-23422343
ABOR393595:0:Tyes016-1317-2019
ABUT367737:0:Tyes0------115
ACAU438753:0:Tyes0---4175---
ACEL351607:0:Tyes3911----10
ACRY349163:8:Tyes------10
ADEH290397:0:Tyes25312214--0-23032304
AEHR187272:0:Tyes223231226229232-10
AFER243159:0:Tyes22471-238102380371372
AHYD196024:0:Tyes0837951211
ALAI441768:0:Tyes0-------
AMAR234826:0:Tyes906---708-0859
AMAR329726:9:Tyes0-----181986
AMET293826:0:Tyes1630921--925-0-
ANAE240017:0:Tyes-0--2---
AORE350688:0:Tyes0496----848510
APHA212042:0:Tyes1014---0---
APLE416269:0:Tyes0--182940181937938
APLE434271:0:Tno0--189974188971972
ASAL382245:5:Tyes114853601
ASP1667:3:Tyes-2--0---
ASP232721:2:Tyes3362--35861609-33080
ASP62928:0:Tyes6153491-30963492-10
ASP62977:0:Tyes1910--18561831-10910
ASP76114:2:Tyes01540-17821539-996995
AVAR240292:3:Tyes48015----22850
BABO262698:1:Tno297---0---
BAFZ390236:2:Fyes-70-----0
BAMB339670:3:Tno22511833-01834-26732672
BAMB398577:3:Tno20631662-01663-25032502
BAMY326423:0:Tyes19231955--1953-10690
BANT260799:0:Tno21032131--2129-16650
BANT261594:2:Tno21082138--2136-16490
BANT568206:2:Tyes39003930--3928-01766
BANT592021:2:Tno22242254--2252-17610
BAPH198804:0:Tyes04-3----
BAPH372461:0:Tyes0-------
BBAC264462:0:Tyes02193----910909
BBAC360095:0:Tyes856---0---
BBRO257310:0:Tyes0525-2038524-32073208
BBUR224326:21:Fno-65-----0
BCAN483179:1:Tno315---0---
BCEN331271:2:Tno19361535-01536-23522351
BCEN331272:3:Tyes20361639-01640-24532452
BCER226900:1:Tyes20562085--2083-16740
BCER288681:0:Tno20162044--2042-16380
BCER315749:1:Tyes13051334--1332-8450
BCER405917:1:Tyes19952025--2023-15880
BCER572264:1:Tno20652094--2092-16740
BCIC186490:0:Tyes0145-144--147146
BCLA66692:0:Tyes380--2-721-
BFRA272559:1:Tyes-2741--0-31463147
BFRA295405:0:Tno-2970--0-33723373
BGAR290434:2:Fyes-66-----0
BHAL272558:0:Tyes370--2-12442082
BHEN283166:0:Tyes62---0---
BHER314723:0:Fyes-67-----0
BJAP224911:0:Fyes367---0---
BLIC279010:0:Tyes20132048--2046-0832
BLON206672:0:Tyes0166--102---
BMAL243160:1:Tno641533-20471534-01
BMAL320388:1:Tno2300691-0690-23662365
BMAL320389:1:Tyes20311-22340-19671968
BMEL224914:1:Tno1799---0---
BMEL359391:1:Tno283---0---
BOVI236:1:Tyes263---0---
BPAR257311:0:Tno01220-5551219-27842785
BPER257313:0:Tyes5871725-14821726-10
BPET94624:0:Tyes32682693-29252694-10
BPSE272560:1:Tyes490980-2769979-01
BPSE320372:1:Tno5451066-32151065-01
BPSE320373:1:Tno5241035-31331034-01
BPUM315750:0:Tyes839873--871-0-
BQUI283165:0:Tyes0-------
BSP107806:2:Tyes04-3----
BSP36773:2:Tyes23241921-01922-27672766
BSP376:0:Tyes0---361---
BSUB:0:Tyes22422276--2274-11890
BSUI204722:1:Tyes3051--0---
BSUI470137:0:Tno----0---
BSUI470137:1:Tno0-------
BTHA271848:1:Tno446867-1061866-01
BTHE226186:0:Tyes-0--2035-18361835
BTHU281309:1:Tno20072035--2033-16220
BTHU412694:1:Tno18031829--1827-14610
BTRI382640:1:Tyes64---0---
BTUR314724:0:Fyes-66-----0
BVIE269482:7:Tyes21521745-01746-25532552
BWEI315730:4:Tyes20282057--2055-16190
CABO218497:0:Tyes----0---
CACE272562:1:Tyes-14----30
CAULO:0:Tyes0---3424-15161515
CBEI290402:0:Tyes-0----10561370
CBLO203907:0:Tyes8--32401
CBLO291272:0:Tno8--32401
CBOT36826:1:Tno-2343----0-
CBOT441770:0:Tyes-2311----0-
CBOT441771:0:Tno-1228----0-
CBOT441772:1:Tno-2288----0-
CBOT498213:1:Tno-2364----0-
CBOT508765:1:Tyes-0----184134
CBOT515621:2:Tyes-2505----0-
CBOT536232:0:Tno-2570----0-
CBUR227377:1:Tyes166-72-01
CBUR360115:1:Tno166-72-01
CBUR434922:2:Tno012-1114-1716
CCAV227941:1:Tyes----0---
CCHL340177:0:Tyes----0-4881084
CCON360104:2:Tyes0-----1013825
CCUR360105:0:Tyes------021
CDES477974:0:Tyes590409--407-04
CDIF272563:1:Tyes13091394--1392-0-
CDIP257309:0:Tyes058------
CEFF196164:0:Fyes071------
CFEL264202:1:Tyes----0---
CFET360106:0:Tyes------390
CGLU196627:0:Tyes067------
CHOM360107:1:Tyes------9610
CHUT269798:0:Tyes-0--14--2662
CHYD246194:0:Tyes8042--45-130
CJAP155077:0:Tyes1143319-03201323322
CJEI306537:0:Tyes-0--1---
CJEJ192222:0:Tyes0-----1126517
CJEJ195099:0:Tno0-----1263626
CJEJ354242:2:Tyes0-----1102502
CJEJ360109:0:Tyes0-----2911143
CJEJ407148:0:Tno0-----1143512
CKLU431943:1:Tyes-10----01843
CMIC31964:2:Tyes076--74---
CMIC443906:2:Tyes760--2---
CMUR243161:1:Tyes----0---
CNOV386415:0:Tyes-0------
CPEL335992:0:Tyes----0-11551156
CPER195102:1:Tyes-0----11-
CPER195103:0:Tno-0----11-
CPER289380:3:Tyes-259----0-
CPHY357809:0:Tyes-174-----0
CPNE115711:1:Tyes----0---
CPNE115713:0:Tno----0---
CPNE138677:0:Tno----0---
CPNE182082:0:Tno----0---
CPRO264201:0:Fyes----0---
CPSY167879:0:Tyes17914963701
CRUT413404:0:Tyes0193-12192-325624
CSAL290398:0:Tyes8090-8181-43
CSP501479:6:Fyes----210-10
CSP501479:8:Fyes0-------
CSP78:2:Tyes0---4734-14741747
CTEP194439:0:Tyes-0--124-273544
CTET212717:0:Tyes-0----1114
CTRA471472:0:Tyes----0---
CTRA471473:0:Tno----0---
CVES412965:0:Tyes0175-11--294576
CVIO243365:0:Tyes374712-011-39663965
DARO159087:0:Tyes344857-43958-01
DDES207559:0:Tyes-650--777-01
DETH243164:0:Tyes-0------
DHAF138119:0:Tyes052--50-6367
DNOD246195:0:Tyes961--0217-694695
DOLE96561:0:Tyes7050--1-513512
DPSY177439:2:Tyes-1550--1580-10
DRAD243230:3:Tyes0-------
DRED349161:0:Tyes037--34-6266
DSHI398580:5:Tyes947---0-514515
DSP216389:0:Tyes-0------
DSP255470:0:Tno-0------
DVUL882:1:Tyes-1165--831-01
ECAN269484:0:Tyes0-------
ECAR218491:0:Tyes154853601
ECHA205920:0:Tyes0-------
ECOL199310:0:Tno195963701
ECOL316407:0:Tno255963701
ECOL331111:6:Tno285963701
ECOL362663:0:Tno185963701
ECOL364106:1:Tno2161073801
ECOL405955:2:Tyes18596-701
ECOL409438:6:Tyes2861073801
ECOL413997:0:Tno225963701
ECOL439855:4:Tno275963701
ECOL469008:0:Tno018141720162322
ECOL481805:0:Tno020161922182524
ECOL585034:0:Tno265963701
ECOL585035:0:Tno195963701
ECOL585055:0:Tno265963701
ECOL585056:2:Tno245963701
ECOL585057:0:Tno185963701
ECOL585397:0:Tno205963701
ECOL83334:0:Tno255963701
ECOLI:0:Tno265963701
ECOO157:0:Tno245963701
EFAE226185:3:Tyes0430-----62
EFER585054:1:Tyes022182123202625
ELIT314225:0:Tyes552---1508-01
ERUM254945:0:Tyes0-------
ERUM302409:0:Tno0-------
ESP42895:1:Tyes164853601
FALN326424:0:Tyes-17--18-10
FJOH376686:0:Tyes-0-----717
FMAG334413:1:Tyes4058----3890
FNOD381764:0:Tyes----0-675558
FNUC190304:0:Tyes0386----281465
FPHI484022:1:Tyes0--6381697---
FRANT:0:Tno389--0841---
FSP106370:0:Tyes5518--19-10
FSP1855:0:Tyes-1--0--20
FSUC59374:0:Tyes0-----14031402
FTUL351581:0:Tno0--897185---
FTUL393011:0:Tno0--785165---
FTUL393115:0:Tyes382--0832---
FTUL401614:0:Tyes884--0596---
FTUL418136:0:Tno0--624233---
FTUL458234:0:Tno0--797159---
GBET391165:0:Tyes0---1594-13501351
GFOR411154:0:Tyes-738--0--268
GKAU235909:1:Tyes13921423--1421-0-
GMET269799:1:Tyes-2272-13792273-10
GOXY290633:5:Tyes849---0-583582
GSUL243231:0:Tyes-1127-1291126-01
GTHE420246:1:Tyes14161446--1444-50
GURA351605:0:Tyes02334-13432333-10791080
GVIO251221:0:Tyes02810----2502213
HACI382638:1:Tyes-0----3771293
HARS204773:0:Tyes192351-2343350-10
HAUR316274:2:Tyes-11--0-17502497
HCHE349521:0:Tyes048037479-476477
HDUC233412:0:Tyes211--07611758759
HHAL349124:0:Tyes01256126112581255-120119
HHEP235279:0:Tyes------0564
HINF281310:0:Tyes0--998299972627
HINF374930:0:Tyes30--745074632
HINF71421:0:Tno0--898308972728
HMOD498761:0:Tyes0252--249-274278
HNEP81032:0:Tyes0---194-27802781
HPY:0:Tno------0834
HPYL357544:1:Tyes------0810
HPYL85963:0:Tno-574----0787
HSOM205914:1:Tyes27--12323123301
HSOM228400:0:Tno433--283328201
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