Geneva report for 1787529
General information
Genbank ID: 1787529
Gene name:topA(synonym b1274)
COGCOG0550
Current annotation:DNA topoisomerase type I, omega protein
BLOCKS information
BLOCKS hits:IPB000380:
BLOCKS diagram
PRINTS information
PRINTS hits:PR00417:
PRINTS diagram
Pfam information (readme)
PFAM hits:Topoisom_bac::Toprim::Zf-C4_Topoisom:
PFAM diagram
Variability information from nongapped BLAST
Variability profile(0-conserved,1-variable,red line - variable region)
Query anchored nongapped BLAST alignment (blue-aligned block, yellow-unaligned block with similar length,grey-unaligned gap-rich block readme)


Clustering on variable region (hierachical clustering,average percent identity between clusters < 30%)
On query region 623 to 717, total sequences extracted for clustering = 93
Cluster 1:
gid=23041446[632-726] [Trichodesmium erythraeum IMS101]
gid=33860993[628-722] [Prochlorococcus marinus subsp. pastoris str. CCMP1378]		Cluster 2:
gid=21244531[588-682] [Xanthomonas axonopodis pv. citri str. 306]
gid=22299424[645-739] [Thermosynechococcus elongatus BP-1]
gid=22957761[642-736] [Rhodobacter sphaeroides]
gid=15965053[658-752] [Sinorhizobium meliloti]
gid=33239884[630-724] [Prochlorococcus marinus subsp. marinus str. CCMP1375]
gid=17230272[639-733] [Nostoc sp. PCC 7120]
gid=28199638[573-667] [Xylella fastidiosa Temecula1]
gid=21233183[589-683] [Xanthomonas campestris pv. campestris str. ATCC 33913]
gid=15888629[650-744] [Agrobacterium tumefaciens]
gid=16330456[656-750] [Synechocystis sp. PCC 6803]
gid=33866404[658-752] [Synechococcus sp. WH 8102]
gid=23136094[599-693] [Cytophaga hutchinsonii]
gid=33863620[674-768] [Prochlorococcus marinus str. MIT 9313]
gid=32475123[694-788] [Pirellula sp.]
gid=23500348[635-729] [Brucella suis 1330]
Cluster 3:
gid=22965038[669-763] [Rhodopseudomonas palustris]
gid=22967270[673-767] [Rhodospirillum rubrum]
gid=16126690[657-751] [Caulobacter crescentus CB15]		Cluster 4:
gid=21221962[710-804] [Streptomyces coelicolor A3(2)]
gid=19551559[754-848] [Corynebacterium glutamicum ATCC 13032]
gid=29831164[700-794] [Streptomyces avermitilis MA-4680]
gid=25026863[757-851] [Corynebacterium efficiens YS-314]
Cluster 5:
gid=12803239[620-714] [Homo sapiens]
gid=6755851[620-714] [Mus musculus]
gid=27882184[456-550] [Xenopus laevis]		Cluster 6:
gid=16273275[629-722] [Haemophilus influenzae Rd]
gid=28897796[629-722] [Vibrio parahaemolyticus RIMD 2210633]
gid=32028922[629-722] [Haemophilus somnus 2336]
gid=33152456[628-721] [Haemophilus ducreyi 35000HP]
gid=23060660[628-721] [Pseudomonas fluorescens PfO-1]
gid=23467279[629-722] [Haemophilus somnus 129PT]
gid=15616895[620-713] [Buchnera aphidicola str. APS (Acyrthosiphon pisum)]
gid=21672553[613-705] [Buchnera aphidicola str. Sg (Schizaphis graminum)]
gid=15641734[630-723] [Vibrio cholerae]
gid=30062796[623-717] [Shigella flexneri 2a str. 2457T]
gid=23472236[628-721] [Pseudomonas syringae pv. syringae B728a]
gid=16760166[623-717] [Salmonella enterica subsp. enterica serovar Typhi]
gid=16122447[629-723] [Yersinia pestis]
gid=15598207[626-719] [Pseudomonas aeruginosa PA01]
gid=23103218[630-723] [Azotobacter vinelandii]
gid=15602480[629-722] [Pasteurella multocida]
gid=16129235[623-717] [Escherichia coli K12]
gid=26988863[627-720] [Pseudomonas putida KT2440]
gid=23029262[633-727] [Microbulbifer degradans 2-40]
gid=27365461[628-721] [Vibrio vulnificus CMCP6]
gid=24374246[632-724] [Shewanella oneidensis MR-1]
Cluster 7:
gid=30249913[590-684] [Nitrosomonas europaea ATCC 19718]		Cluster 8:
gid=18310684[600-700] [Clostridium perfringens]
gid=29376204[603-692] [Enterococcus faecalis V583]
gid=16800382[600-692] [Listeria innocua]
gid=16803315[600-692] [Listeria monocytogenes EGD-e]
gid=15903184[611-701] [Streptococcus pneumoniae R6]
gid=28210945[602-696] [Clostridium tetani E88]
gid=22537165[614-706] [Streptococcus agalactiae 2603V/R]
gid=21401816[603-692] [Bacillus anthracis A2012]
Cluster 9:
gid=15237561[820-926] [Arabidopsis thaliana]		Cluster 10:
gid=21672896[723-799] [Chlorobium tepidum TLS]
Cluster 11:
gid=15595173[606-700] [Borrelia burgdorferi]		Cluster 12:
gid=17544785[635-729] [Ralstonia solanacearum]
gid=33603934[633-727] [Bordetella bronchiseptica]
gid=33598857[633-727] [Bordetella parapertussis]
gid=22979940[649-743] [Ralstonia metallidurans]
gid=22982394[683-777] [Burkholderia fungorum]
gid=33591673[633-727] [Bordetella pertussis]
Cluster 13:
gid=464904[634-732] [N/A]		Cluster 14:
gid=12044974[601-709] [Mycoplasma genitalium]
gid=26553866[579-707] [Mycoplasma penetrans]
gid=13508000[607-711] [Mycoplasma pneumoniae]
Cluster 15:
gid=20091341[510-604] [Methanosarcina acetivorans str. C2A]
gid=21229178[510-604] [Methanosarcina mazei Goe1]		Cluster 16:
gid=13540850[528-622] [Thermoplasma volcanium]
gid=16081238[528-622] [Thermoplasma acidophilum]
Cluster 17:
gid=17555378[526-611] [Caenorhabditis elegans]		Cluster 18:
gid=31235063[532-626] [Anopheles gambiae]
Cluster 19:
gid=28493663[599-693] [Tropheryma whipplei str. Twist]		Cluster 20:
gid=16077493[489-619] [Bacillus subtilis]
gid=30018625[490-581] [Bacillus cereus ATCC 14579]
gid=15925244[476-563] [Staphylococcus aureus subsp. aureus Mu50]
Cluster 21:
gid=29248890[731-825] [Giardia lamblia ATCC 50803]		Cluster 22:
gid=22405692[506-600] [Ferroplasma acidarmanus]
Cluster 23:
gid=16751934[540-634] [Plasmid pIPO2T]		Cluster 24:
gid=19569875[586-680] [Saccharomyces cerevisiae]
Cluster 25:
gid=20219039[670-764] [Oryza sativa (japonica cultivar-group)]		Cluster 26:
gid=23018509[754-848] [Thermobifida fusca]
gid=15827005[705-799] [Mycobacterium leprae]
gid=15610782[692-786] [Mycobacterium tuberculosis H37Rv]
Cluster 27:
gid=19704404[607-727] [Fusobacterium nucleatum subsp. nucleatum ATCC 25586]		Cluster 28:
gid=16554466[587-681] [Halobacterium sp. NRC-1]
Cluster 29:
gid=34540543[623-721] [Porphyromonas gingivalis W83]		Cluster 30:
gid=23016681[617-711] [Magnetospirillum magnetotacticum]
Cluster 31:
gid=32398820[593-687] [Cryptosporidium parvum]
Short motifs reported by MEME(readme)
MEME motif diagram in this region
Motif alignments
Motif 1
 
Motif 2
 
Motif 3
 
 
On query region 730 to 865, total sequences extracted for clustering = 112
Cluster 1:
gid=32398820[700-835] [Cryptosporidium parvum]		Cluster 2:
gid=18310684[600-700] [Clostridium perfringens]
gid=24379442[609-705] [Streptococcus mutans UA159]
gid=19746110[614-709] [Streptococcus pyogenes MGAS8232]
gid=23020248[600-702] [Clostridium thermocellum ATCC 27405]
gid=15895061[598-697] [Clostridium acetobutylicum]
gid=15673212[614-710] [Lactococcus lactis subsp. lactis]
Cluster 3:
gid=27365461[734-874] [Vibrio vulnificus CMCP6]
gid=26988863[733-869] [Pseudomonas putida KT2440]
gid=23103218[736-872] [Azotobacter vinelandii]
gid=16273275[735-868] [Haemophilus influenzae Rd]
gid=28897796[735-876] [Vibrio parahaemolyticus RIMD 2210633]
gid=32028922[735-868] [Haemophilus somnus 2336]
gid=24374246[737-878] [Shewanella oneidensis MR-1]
gid=33152456[734-867] [Haemophilus ducreyi 35000HP]
gid=23060660[734-876] [Pseudomonas fluorescens PfO-1]
gid=23467279[735-868] [Haemophilus somnus 129PT]
gid=21672553[718-853] [Buchnera aphidicola str. Sg (Schizaphis graminum)]
gid=23029262[740-903] [Microbulbifer degradans 2-40]
gid=23472236[734-870] [Pseudomonas syringae pv. syringae B728a]
gid=30062796[730-865] [Shigella flexneri 2a str. 2457T]
gid=15616895[726-861] [Buchnera aphidicola str. APS (Acyrthosiphon pisum)]
gid=16760166[730-865] [Salmonella enterica subsp. enterica serovar Typhi]
gid=15598207[732-868] [Pseudomonas aeruginosa PA01]
gid=16122447[736-871] [Yersinia pestis]
gid=15641734[736-876] [Vibrio cholerae]
gid=16129235[730-865] [Escherichia coli K12]
gid=15602480[735-868] [Pasteurella multocida]		Cluster 4:
gid=23465075[895-1030] [Bifidobacterium longum NCC2705]
Cluster 5:
gid=19569875[693-828] [Saccharomyces cerevisiae]		Cluster 6:
gid=15237561[820-926] [Arabidopsis thaliana]
Cluster 7:
gid=21244531[695-830] [Xanthomonas axonopodis pv. citri str. 306]
gid=23136094[706-841] [Cytophaga hutchinsonii]
gid=21233183[696-831] [Xanthomonas campestris pv. campestris str. ATCC 33913]
gid=28199638[680-815] [Xylella fastidiosa Temecula1]		Cluster 8:
gid=22405692[613-748] [Ferroplasma acidarmanus]
gid=13540850[635-770] [Thermoplasma volcanium]
gid=16081238[635-770] [Thermoplasma acidophilum]
Cluster 9:
gid=6755851[727-862] [Mus musculus]
gid=12803239[727-862] [Homo sapiens]
gid=27882184[563-698] [Xenopus laevis]		Cluster 10:
gid=15925244[576-711] [Staphylococcus aureus subsp. aureus Mu50]
gid=30018625[594-729] [Bacillus cereus ATCC 14579]
gid=16077493[632-727] [Bacillus subtilis]
Cluster 11:
gid=34541162[531-697] [Porphyromonas gingivalis W83]
gid=16549049[520-695] [Bacteroides sp.]		Cluster 12:
gid=15676046[633-768] [Neisseria meningitidis MC58]
gid=29655283[660-765] [Coxiella burnetii RSA 493]
gid=23473122[666-779] [Desulfovibrio desulfuricans G20]
gid=34499724[643-769] [Chromobacterium violaceum ATCC 12472]
gid=23053889[659-758] [Geobacter metallireducens]
gid=22999813[677-783] [Magnetococcus sp. MC-1]
Cluster 13:
gid=23500348[742-877] [Brucella suis 1330]
gid=22967270[780-915] [Rhodospirillum rubrum]
gid=22957761[749-884] [Rhodobacter sphaeroides]
gid=15965053[765-900] [Sinorhizobium meliloti]
gid=15888629[757-892] [Agrobacterium tumefaciens]
gid=16126690[764-899] [Caulobacter crescentus CB15]
gid=22965038[776-911] [Rhodopseudomonas palustris]		Cluster 14:
gid=12044974[601-709] [Mycoplasma genitalium]
gid=26553866[579-707] [Mycoplasma penetrans]
gid=13508000[607-711] [Mycoplasma pneumoniae]
Cluster 15:
gid=15644746[635-736] [Helicobacter pylori 26695]
gid=32267297[654-749] [Helicobacter hepaticus ATCC 51449]
gid=15792989[592-700] [Campylobacter jejuni]
gid=34557838[638-741] [Wolinella succinogenes]		Cluster 16:
gid=15639385[610-731] [Treponema pallidum]
Cluster 17:
gid=22982394[790-925] [Burkholderia fungorum]
gid=17544785[742-877] [Ralstonia solanacearum]
gid=33598857[740-875] [Bordetella parapertussis]
gid=33603934[740-875] [Bordetella bronchiseptica]
gid=22979940[756-891] [Ralstonia metallidurans]
gid=33591673[740-875] [Bordetella pertussis]		Cluster 18:
gid=28493663[706-841] [Tropheryma whipplei str. Twist]
Cluster 19:
gid=15604194[620-776] [Rickettsia prowazekii]
gid=15892372[620-776] [EC:5.99.1.2]
gid=34580624[620-776] [Rickettsia sibirica]		Cluster 20:
gid=23050793[720-855] [Methanosarcina barkeri]
Cluster 21:
gid=15610782[799-934] [Mycobacterium tuberculosis H37Rv]
gid=29831164[807-942] [Streptomyces avermitilis MA-4680]
gid=23018509[861-996] [Thermobifida fusca]
gid=15827005[812-947] [Mycobacterium leprae]
gid=19551559[861-996] [Corynebacterium glutamicum ATCC 13032]
gid=21221962[817-952] [Streptomyces coelicolor A3(2)]
gid=25026863[864-999] [Corynebacterium efficiens YS-314]
gid=32475123[801-936] [Pirellula sp.]		Cluster 22:
gid=30249913[697-832] [Nitrosomonas europaea ATCC 19718]
Cluster 23:
gid=21229178[617-752] [Methanosarcina mazei Goe1]
gid=20091341[617-752] [Methanosarcina acetivorans str. C2A]
gid=16554466[694-829] [Halobacterium sp. NRC-1]		Cluster 24:
gid=29348236[647-782] [Bacteroides thetaiotaomicron VPI-5482]
Cluster 25:
gid=33866404[765-900] [Synechococcus sp. WH 8102]
gid=33860993[735-870] [Prochlorococcus marinus subsp. pastoris str. CCMP1378]
gid=16330456[763-898] [Synechocystis sp. PCC 6803]
gid=33863620[781-916] [Prochlorococcus marinus str. MIT 9313]
gid=22299424[752-887] [Thermosynechococcus elongatus BP-1]
gid=33239884[737-872] [Prochlorococcus marinus subsp. marinus str. CCMP1375]
gid=23041446[739-874] [Trichodesmium erythraeum IMS101]
gid=17230272[746-881] [Nostoc sp. PCC 7120]		Cluster 26:
gid=17555378[624-759] [Caenorhabditis elegans]
Cluster 27:
gid=31235063[639-774] [Anopheles gambiae]		Cluster 28:
gid=15806391[886-1021] [Deinococcus radiodurans]
Cluster 29:
gid=15595173[713-848] [Borrelia burgdorferi]		Cluster 30:
gid=15615949[556-721] [Bacillus halodurans]
Cluster 31:
gid=15618678[736-871] [Chlamydophila pneumoniae CWL029]
gid=15605375[667-857] [Chlamydia trachomatis]
gid=29840743[671-861] [Chlamydophila caviae GPIC]		Cluster 32:
gid=29248890[838-973] [Giardia lamblia ATCC 50803]
Cluster 33:
gid=16751934[647-782] [Plasmid pIPO2T]		Cluster 34:
gid=27380222[693-828] [Bradyrhizobium japonicum]
Cluster 35:
gid=20219039[777-912] [Oryza sativa (japonica cultivar-group)]		Cluster 36:
gid=18976866[883-1060] [Pyrococcus furiosus DSM 3638]
Short motifs reported by MEME(readme)
MEME motif diagram in this region
Motif alignments
Motif 1
 
Motif 2
 
Motif 3