|
Name |
Accession |
Description |
Interval |
E-value |
| gyrB |
PRK05644 |
DNA gyrase subunit B; Validated |
13-682 |
0e+00 |
|
DNA gyrase subunit B; Validated
Pssm-ID: 235542 [Multi-domain] Cd Length: 638 Bit Score: 1213.78 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415991308 13 TATSREYGASDITVLEGLEAVRKRPGMYIGSTGPRGLHHLVYEVVDNSVDEALAGYCTHIEIVLQADGGVKVVDNGRGIP 92
Cdd:PRK05644 2 EEKAQEYDASQIQVLEGLEAVRKRPGMYIGSTGERGLHHLVYEIVDNSIDEALAGYCDHIEVTINEDGSITVTDNGRGIP 81
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415991308 93 VDMHPTEHKPTVEVVMTILHAGGKFGGGGYAVSGGLHGVGISVVNALSSRVDTEVRRQGHVWRMSFADGgKPQGGLVQGE 172
Cdd:PRK05644 82 VDIHPKTGKPAVEVVLTVLHAGGKFGGGGYKVSGGLHGVGVSVVNALSTWLEVEVKRDGKIYYQEYERG-VPVTPLEVIG 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415991308 173 ETTETGTTQTFYPDASIFESTDFDFETLRARFQQMAFLNKGLRITLTDERrapeepsedddldldtvptegeiPAEFHTV 252
Cdd:PRK05644 161 ETDETGTTVTFKPDPEIFETTEFDYDTLATRLRELAFLNKGLKITLTDER-----------------------EGEEKEE 217
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415991308 253 VYQYDDGLLDYVKHLNSGKkvDVVHEDVIAFETEdtERHIALEMAMQWTNAYSESVHTYANTINTHEGGTHEEGFRAAMT 332
Cdd:PRK05644 218 TFHYEGGIKEYVEYLNRNK--EPLHEEPIYFEGE--KDGIEVEVAMQYNDGYSENILSFANNINTHEGGTHEEGFKTALT 293
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415991308 333 SLINRYAREKNIIKEKEDNLTGDDIREGLTAVISVKLSEPQFEGQTKTKLGNSEVKGFVQRVVTDGLGDWLERNPGPARD 412
Cdd:PRK05644 294 RVINDYARKNKLLKEKDDNLTGEDVREGLTAVISVKHPEPQFEGQTKTKLGNSEVRGIVDSVVSEALSEFLEENPNVAKK 373
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415991308 413 VIRKAISAAQARMAARKARDNARRKSPLESFGMPGKLSDCSSKNPELCEVYIVEGDSAGGSAKRGRNPETQAILPLRGKI 492
Cdd:PRK05644 374 IVEKAILAARAREAARKARELTRRKSALESSSLPGKLADCSSKDPEESELYIVEGDSAGGSAKQGRDRRFQAILPLRGKI 453
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415991308 493 LNVERARLDKALGNAEVQSMITAFGTGIGEDFDIAKLRYHKIVLMADADVDGQHITTLLMTLLFRYMRPLIENGYVYLAQ 572
Cdd:PRK05644 454 LNVEKARLDKILKNEEIRALITALGTGIGDDFDISKLRYHKIIIMTDADVDGAHIRTLLLTFFYRYMRPLIEAGYVYIAQ 533
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415991308 573 PPLYRIKWSNapHDYVYSDRERDAKLLSGqaaGRRIPKDNGIQRYKGLGEMDYTELWDTTMDPDHRTLLQVTMDDALAAD 652
Cdd:PRK05644 534 PPLYKIKKGG--KEYAYSDEELDEILAEL---KLKGNPKYGIQRYKGLGEMNPEQLWETTMDPETRTLLQVTIEDAAEAD 608
|
650 660 670
....*....|....*....|....*....|
gi 2415991308 653 QIFSVLMGEDVESRRNFIQQNAKDVRFLDI 682
Cdd:PRK05644 609 EIFSILMGDDVEPRREFIEENAKYVRNLDI 638
|
|
| GyrB |
COG0187 |
DNA gyrase/topoisomerase IV, subunit B [Replication, recombination and repair]; |
14-682 |
0e+00 |
|
DNA gyrase/topoisomerase IV, subunit B [Replication, recombination and repair];
Pssm-ID: 439957 [Multi-domain] Cd Length: 635 Bit Score: 1164.79 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415991308 14 ATSREYGASDITVLEGLEAVRKRPGMYIGSTGPRGLHHLVYEVVDNSVDEALAGYCTHIEIVLQADGGVKVVDNGRGIPV 93
Cdd:COG0187 1 AKKSNYDASSIQVLEGLEAVRKRPGMYIGSTDERGLHHLVWEIVDNSIDEALAGYCDRIEVTLHADGSVTVEDNGRGIPV 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415991308 94 DMHPTEHKPTVEVVMTILHAggkfggggyavsggLHGVGISVVNALSSRVDTEVRRQGHVWRMSFADGgKPQGGLVQGEE 173
Cdd:COG0187 81 DIHPKEGKSALEVVLTVLHAggkfdggsykvsggLHGVGASVVNALSERLEVEVKRDGKIYRQRFERG-KPVGPLEKIGK 159
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415991308 174 TTETGTTQTFYPDASIFESTDFDFETLRARFQQMAFLNKGLRITLTDERrapeepsedddldldtvptegeiPAEFHTVV 253
Cdd:COG0187 160 TDRTGTTVRFKPDPEIFETTEFDYETLAERLRELAFLNKGLTITLTDER-----------------------EEEPKEET 216
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415991308 254 YQYDDGLLDYVKHLNSGKkvDVVHEDVIAFETEDteRHIALEMAMQWTNAYSESVHTYANTINTHEGGTHEEGFRAAMTS 333
Cdd:COG0187 217 FHYEGGIKDFVEYLNEDK--EPLHPEVIYFEGEK--DGIEVEVALQWNDGYSENIHSFVNNINTPEGGTHETGFRTALTR 292
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415991308 334 LINRYAREKNIIKEKEDNLTGDDIREGLTAVISVKLSEPQFEGQTKTKLGNSEVKGFVQRVVTDGLGDWLERNPGPARDV 413
Cdd:COG0187 293 VINDYARKNGLLKEKDKNLTGDDVREGLTAVISVKLPEPQFEGQTKTKLGNSEARGIVESVVSEKLEHYLEENPAEAKKI 372
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415991308 414 IRKAISAAQARMAARKARDNARRKSPLESFGMPGKLSDCSSKNPELCEVYIVEGDSAGGSAKRGRNPETQAILPLRGKIL 493
Cdd:COG0187 373 LEKAILAARAREAARKARELVRRKSALESSGLPGKLADCSSKDPEESELFIVEGDSAGGSAKQGRDREFQAILPLRGKIL 452
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415991308 494 NVERARLDKALGNAEVQSMITAFGTGIGEDFDIAKLRYHKIVLMADADVDGQHITTLLMTLLFRYMRPLIENGYVYLAQP 573
Cdd:COG0187 453 NVEKARLDKILKNEEIRDLITALGTGIGDDFDLEKLRYHKIIIMTDADVDGAHIRTLLLTFFYRYMRPLIEAGHVYIAQP 532
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415991308 574 PLYRIKWSNaPHDYVYSDRERDAKLLSGqaAGRripKDNGIQRYKGLGEMDYTELWDTTMDPDHRTLLQVTMDDALAADQ 653
Cdd:COG0187 533 PLYRIKKGK-KTYYAYSDAELDELLKEL--KGK---KKVEIQRYKGLGEMNPEQLWETTMDPETRTLLQVTIEDAAEADE 606
|
650 660
....*....|....*....|....*....
gi 2415991308 654 IFSVLMGEDVESRRNFIQQNAKDVRFLDI 682
Cdd:COG0187 607 IFSLLMGDKVEPRREFIEENAKFVRNLDI 635
|
|
| gyrB |
TIGR01059 |
DNA gyrase, B subunit; This model describes the common type II DNA topoisomerase (DNA gyrase). ... |
19-682 |
0e+00 |
|
DNA gyrase, B subunit; This model describes the common type II DNA topoisomerase (DNA gyrase). Two apparently independently arising families, one in the Proteobacteria and one in Gram-positive lineages, are both designated toposisomerase IV. Proteins scoring above the noise cutoff for this model and below the trusted cutoff for topoisomerase IV models probably should be designated GyrB. [DNA metabolism, DNA replication, recombination, and repair]
Pssm-ID: 273421 [Multi-domain] Cd Length: 654 Bit Score: 967.59 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415991308 19 YGASDITVLEGLEAVRKRPGMYIGSTGPRGLHHLVYEVVDNSVDEALAGYCTHIEIVLQADGGVKVVDNGRGIPVDMHPT 98
Cdd:TIGR01059 1 YDASSIKVLEGLEAVRKRPGMYIGSTGETGLHHLVYEVVDNSIDEAMAGYCDTISVTINDDGSVTVEDNGRGIPVDIHPE 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415991308 99 EHKPTVEVVMTILHAGGKFGGGGYAVSGGLHGVGISVVNALSSRVDTEVRRQGHVWRMSFADgGKPQGGLVQGEETTETG 178
Cdd:TIGR01059 81 EGISAVEVVLTVLHAGGKFDKDSYKVSGGLHGVGVSVVNALSEWLEVTVFRDGKIYRQEFER-GIPVGPLEVVGETKKTG 159
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415991308 179 TTQTFYPDASIFESTDFDFETLRARFQQMAFLNKGLRITLTDERRapeepsedddldldtvptegeipAEFHTVVYQYDD 258
Cdd:TIGR01059 160 TTVRFWPDPEIFETTEFDFDILAKRLRELAFLNSGVKISLEDERD-----------------------GKGKKVTFHYEG 216
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415991308 259 GLLDYVKHLNSGKKvdVVHEDVIAFETEDTErhIALEMAMQWTNAYSESVHTYANTINTHEGGTHEEGFRAAMTSLINRY 338
Cdd:TIGR01059 217 GIKSFVKYLNRNKE--PLHEEIIYIKGEKEG--IEVEVALQWNDGYSENILSFVNNINTREGGTHLEGFRSALTRVINSY 292
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415991308 339 AREKNIIKEKEDNLTGDDIREGLTAVISVKLSEPQFEGQTKTKLGNSEVKGFVQRVVTDGLGDWLERNPGPARDVIRKAI 418
Cdd:TIGR01059 293 AKNNKLLKESKPNLTGEDIREGLTAVISVKVPDPQFEGQTKTKLGNSEVRSIVESLVYEKLTEFFEENPQEAKAIVEKAI 372
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415991308 419 SAAQARMAARKARDNARRKSPLESFGMPGKLSDCSSKNPELCEVYIVEGDSAGGSAKRGRNPETQAILPLRGKILNVERA 498
Cdd:TIGR01059 373 LAAQAREAARKARELTRRKSALDSGGLPGKLADCSSKDPSKSELYIVEGDSAGGSAKQGRDRRFQAILPLRGKILNVEKA 452
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415991308 499 RLDKALGNAEVQSMITAFGTGIGEDFDIAKLRYHKIVLMADADVDGQHITTLLMTLLFRYMRPLIENGYVYLAQPPLYRI 578
Cdd:TIGR01059 453 RLDKILSNQEIGAIITALGCGIGKDFDLEKLRYHKIIIMTDADVDGSHIRTLLLTFFYRYMRPLIENGYVYIAQPPLYKV 532
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415991308 579 KWSNAP--------------------HDYVYSDRERDAKLLSGQAAGRRipKDNGIQRYKGLGEMDYTELWDTTMDPDHR 638
Cdd:TIGR01059 533 KKGKKEryikddkekdlvgealedlkALYIYSDKEKEEAKTQIPVHLGR--KGIEIQRYKGLGEMNADQLWETTMDPESR 610
|
650 660 670 680
....*....|....*....|....*....|....*....|....
gi 2415991308 639 TLLQVTMDDALAADQIFSVLMGEDVESRRNFIQQNAKDVRFLDI 682
Cdd:TIGR01059 611 TLLKVTIEDAVEADRIFSTLMGDEVEPRREFIEANALDVKNLDV 654
|
|
| TOP2c |
smart00433 |
TopoisomeraseII; Eukaryotic DNA topoisomerase II, GyrB, ParE |
48-675 |
0e+00 |
|
TopoisomeraseII; Eukaryotic DNA topoisomerase II, GyrB, ParE
Pssm-ID: 214659 [Multi-domain] Cd Length: 594 Bit Score: 816.41 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415991308 48 GLHHLVYEVVDNSVDEALAGYCTHIEIVLQADGGVKVVDNGRGIPVDMHPTEHKPTVEVVMTILHAGGKFGGGGYAVSGG 127
Cdd:smart00433 1 GLHHLVDEIVDNAADEALAGYMDTIKVTIDKDNSISVEDNGRGIPVEIHPKEKKYAPEVIFTVLHAGGKFDDDAYKVSGG 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415991308 128 LHGVGISVVNALSSRVDTEVRRQGHVWRMSFADGGKPQGGLVQGEETTETGTTQTFYPDASIFE-STDFDFETLRARFQQ 206
Cdd:smart00433 81 LHGVGASVVNALSTEFEVEVARDGKEYKQSFSNNGKPLSEPKIIGDTKKDGTKVTFKPDLEIFGmTTDDDFELLKRRLRE 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415991308 207 MAFLNKGLRITLTDERRAPEEpsedddldldtvptegeipaefhtvVYQYDDGLLDYVKHLNSGKKVdvVHEDVIAFETE 286
Cdd:smart00433 161 LAFLNKGVKITLNDERSDEEK-------------------------TFLFEGGIKDYVELLNKNKEL--LSPEPTYIEGE 213
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415991308 287 DTErhIALEMAMQWTNAYSESVHTYANTINTHEGGTHEEGFRAAMTSLINRYAREKNIIKEKedNLTGDDIREGLTAVIS 366
Cdd:smart00433 214 KDN--IRVEVAFQYTDGYSENIVSFVNNIATTEGGTHENGFKDALTRVINEYAKKKKKLKEK--NIKGEDVREGLTAFIS 289
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415991308 367 VKLSEPQFEGQTKTKLGNSEVKGFVQRVVTDGLGDWLERNPGPARDVIRKAISAAQARMAARKARDnARRKSPLESFGMP 446
Cdd:smart00433 290 VKIPEPQFEGQTKEKLGTSEVRFGVEKIVSECLLSFLEENPVEASKIVEKVLLAAKARAAAKKARE-LTRKKKLSSISLP 368
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415991308 447 GKLSDCSSKNPELCEVYIVEGDSAGGSAKRGRNPETQAILPLRGKILNVERARLDKALGNAEVQSMITAFGTGIGEDFDI 526
Cdd:smart00433 369 GKLADASSAGPKKCELFLVEGDSAGGSAKSGRDRDFQAILPLRGKILNVEKASLDKILKNEEIQALITALGLGIGKDFDI 448
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415991308 527 AKLRYHKIVLMADADVDGQHITTLLMTLLFRYMRPLIENGYVYLAQPPLYRIKWSNAphDYVYSDRERDAKLLSGQAAGR 606
Cdd:smart00433 449 EKLRYGKIIIMTDADVDGSHIKGLLLTFFYRYMPPLIEAGFVYIAIPPLYKVTKGKK--KYVYSFYSLDEYEKWLEKTEG 526
|
570 580 590 600 610 620
....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 2415991308 607 RIPKDNgIQRYKGLGEMDYTELWDTTMDPDHRTLLQVTMDDALAADQIFSVLMGEDVESRRNFIQQNAK 675
Cdd:smart00433 527 NKSKYE-IQRYKGLGEMNADQLWETTMDPERRTLLFVTLDDADEADLIFSALMGDKVEPRKEWIEENAP 594
|
|
| TopoII_Trans_DNA_gyrase |
cd00822 |
TopoIIA_Trans_DNA_gyrase: Transducer domain, having a ribosomal S5 domain 2-like fold, of the ... |
258-432 |
1.79e-85 |
|
TopoIIA_Trans_DNA_gyrase: Transducer domain, having a ribosomal S5 domain 2-like fold, of the type found in proteins of the type IIA family of DNA topoisomerases similar to the B subunits of E. coli DNA gyrase and E. coli Topoisomerase IV which are heterodimers composed of two subunits. The type IIA enzymes are the predominant form of topoisomerase and are found in some bacteriophages, viruses and archaea, and in all bacteria and eukaryotes. All type IIA topoisomerases are related to each other at amino acid sequence level, though their oligomeric organization sometimes differs. TopoIIA enzymes cut both strands of the duplex DNA to remove (relax) both positive and negative supercoils in DNA. These enzymes covalently attach to the 5' ends of the cut DNA, separate the free ends of the cleaved strands, pass another region of the duplex through this gap, then rejoin the ends. TopoIIA enzymes also catenate/ decatenate duplex rings. E.coli DNA gyrase is a heterodimer composed of two subunits. E. coli DNA gyrase B subunit is known to be important in nucleotide hydrolysis and the transduction of structural signals from ATP-binding site to the DNA breakage/reunion regions of the enzymes.
Pssm-ID: 238419 [Multi-domain] Cd Length: 172 Bit Score: 265.96 E-value: 1.79e-85
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415991308 258 DGLLDYVKHLNSGKKVdvVHEDVIAFETEdtERHIALEMAMQWTNAYSESVHTYANTINTHEGGTHEEGFRAAMTSLINR 337
Cdd:cd00822 1 GGLKDFVEELNKDKEP--LHEEPIYIEGE--KDGVEVEVALQWTDSYSENILSFVNNIPTPEGGTHETGFRAALTRAIND 76
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415991308 338 YAREKNIIKEKEDNLTGDDIREGLTAVISVKLSEPQFEGQTKTKLGNSEVKGFVQRVVTDGLGDWLERNPGPARDVIRKA 417
Cdd:cd00822 77 YAKKNNLLKKKDVKLTGDDIREGLTAVISVKVPEPQFEGQTKDKLGNSEVRSIVESAVREALEEWLEENPEEAKKILEKA 156
|
170
....*....|....*
gi 2415991308 418 ISAAQARMAARKARD 432
Cdd:cd00822 157 ILAAKAREAARKARE 171
|
|
| DNA_gyraseB |
pfam00204 |
DNA gyrase B; This family represents the second domain of DNA gyrase B which has a ribosomal ... |
259-433 |
1.37e-78 |
|
DNA gyrase B; This family represents the second domain of DNA gyrase B which has a ribosomal S5 domain 2-like fold. This family is structurally related to PF01119.
Pssm-ID: 425522 [Multi-domain] Cd Length: 173 Bit Score: 247.91 E-value: 1.37e-78
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415991308 259 GLLDYVKHLNSGKKVdvVHEDVIAFETEDTERHIALEMAMQWTNAYSESVHTYANTINTHEGGTHEEGFRAAMTSLINRY 338
Cdd:pfam00204 1 GLKDFVEELNKDKKP--LHKEIIYFEGESPDNRIEVEVALQWTDSYSENILSFVNNIATPEGGTHVDGFKSALTRTINEY 78
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415991308 339 AREKNIIKEKEDNLTGDDIREGLTAVISVKLSEPQFEGQTKTKLGNSEVKGFVQRVVTDGLGDWLERNPGPARDVIRKAI 418
Cdd:pfam00204 79 AKKKGLLKKKDEKITGEDIREGLTAVVSVKIPDPQFEGQTKEKLGNPEVKSAVEKIVSEKLEEFLEENPEIAKKILEKAL 158
|
170
....*....|....*
gi 2415991308 419 SAAQARMAARKARDN 433
Cdd:pfam00204 159 QAAKARLAARKAREA 173
|
|
| |
|
Name |
Accession |
Description |
Interval |
E-value |
| gyrB |
PRK05644 |
DNA gyrase subunit B; Validated |
13-682 |
0e+00 |
|
DNA gyrase subunit B; Validated
Pssm-ID: 235542 [Multi-domain] Cd Length: 638 Bit Score: 1213.78 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415991308 13 TATSREYGASDITVLEGLEAVRKRPGMYIGSTGPRGLHHLVYEVVDNSVDEALAGYCTHIEIVLQADGGVKVVDNGRGIP 92
Cdd:PRK05644 2 EEKAQEYDASQIQVLEGLEAVRKRPGMYIGSTGERGLHHLVYEIVDNSIDEALAGYCDHIEVTINEDGSITVTDNGRGIP 81
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415991308 93 VDMHPTEHKPTVEVVMTILHAGGKFGGGGYAVSGGLHGVGISVVNALSSRVDTEVRRQGHVWRMSFADGgKPQGGLVQGE 172
Cdd:PRK05644 82 VDIHPKTGKPAVEVVLTVLHAGGKFGGGGYKVSGGLHGVGVSVVNALSTWLEVEVKRDGKIYYQEYERG-VPVTPLEVIG 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415991308 173 ETTETGTTQTFYPDASIFESTDFDFETLRARFQQMAFLNKGLRITLTDERrapeepsedddldldtvptegeiPAEFHTV 252
Cdd:PRK05644 161 ETDETGTTVTFKPDPEIFETTEFDYDTLATRLRELAFLNKGLKITLTDER-----------------------EGEEKEE 217
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415991308 253 VYQYDDGLLDYVKHLNSGKkvDVVHEDVIAFETEdtERHIALEMAMQWTNAYSESVHTYANTINTHEGGTHEEGFRAAMT 332
Cdd:PRK05644 218 TFHYEGGIKEYVEYLNRNK--EPLHEEPIYFEGE--KDGIEVEVAMQYNDGYSENILSFANNINTHEGGTHEEGFKTALT 293
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415991308 333 SLINRYAREKNIIKEKEDNLTGDDIREGLTAVISVKLSEPQFEGQTKTKLGNSEVKGFVQRVVTDGLGDWLERNPGPARD 412
Cdd:PRK05644 294 RVINDYARKNKLLKEKDDNLTGEDVREGLTAVISVKHPEPQFEGQTKTKLGNSEVRGIVDSVVSEALSEFLEENPNVAKK 373
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415991308 413 VIRKAISAAQARMAARKARDNARRKSPLESFGMPGKLSDCSSKNPELCEVYIVEGDSAGGSAKRGRNPETQAILPLRGKI 492
Cdd:PRK05644 374 IVEKAILAARAREAARKARELTRRKSALESSSLPGKLADCSSKDPEESELYIVEGDSAGGSAKQGRDRRFQAILPLRGKI 453
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415991308 493 LNVERARLDKALGNAEVQSMITAFGTGIGEDFDIAKLRYHKIVLMADADVDGQHITTLLMTLLFRYMRPLIENGYVYLAQ 572
Cdd:PRK05644 454 LNVEKARLDKILKNEEIRALITALGTGIGDDFDISKLRYHKIIIMTDADVDGAHIRTLLLTFFYRYMRPLIEAGYVYIAQ 533
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415991308 573 PPLYRIKWSNapHDYVYSDRERDAKLLSGqaaGRRIPKDNGIQRYKGLGEMDYTELWDTTMDPDHRTLLQVTMDDALAAD 652
Cdd:PRK05644 534 PPLYKIKKGG--KEYAYSDEELDEILAEL---KLKGNPKYGIQRYKGLGEMNPEQLWETTMDPETRTLLQVTIEDAAEAD 608
|
650 660 670
....*....|....*....|....*....|
gi 2415991308 653 QIFSVLMGEDVESRRNFIQQNAKDVRFLDI 682
Cdd:PRK05644 609 EIFSILMGDDVEPRREFIEENAKYVRNLDI 638
|
|
| GyrB |
COG0187 |
DNA gyrase/topoisomerase IV, subunit B [Replication, recombination and repair]; |
14-682 |
0e+00 |
|
DNA gyrase/topoisomerase IV, subunit B [Replication, recombination and repair];
Pssm-ID: 439957 [Multi-domain] Cd Length: 635 Bit Score: 1164.79 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415991308 14 ATSREYGASDITVLEGLEAVRKRPGMYIGSTGPRGLHHLVYEVVDNSVDEALAGYCTHIEIVLQADGGVKVVDNGRGIPV 93
Cdd:COG0187 1 AKKSNYDASSIQVLEGLEAVRKRPGMYIGSTDERGLHHLVWEIVDNSIDEALAGYCDRIEVTLHADGSVTVEDNGRGIPV 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415991308 94 DMHPTEHKPTVEVVMTILHAggkfggggyavsggLHGVGISVVNALSSRVDTEVRRQGHVWRMSFADGgKPQGGLVQGEE 173
Cdd:COG0187 81 DIHPKEGKSALEVVLTVLHAggkfdggsykvsggLHGVGASVVNALSERLEVEVKRDGKIYRQRFERG-KPVGPLEKIGK 159
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415991308 174 TTETGTTQTFYPDASIFESTDFDFETLRARFQQMAFLNKGLRITLTDERrapeepsedddldldtvptegeiPAEFHTVV 253
Cdd:COG0187 160 TDRTGTTVRFKPDPEIFETTEFDYETLAERLRELAFLNKGLTITLTDER-----------------------EEEPKEET 216
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415991308 254 YQYDDGLLDYVKHLNSGKkvDVVHEDVIAFETEDteRHIALEMAMQWTNAYSESVHTYANTINTHEGGTHEEGFRAAMTS 333
Cdd:COG0187 217 FHYEGGIKDFVEYLNEDK--EPLHPEVIYFEGEK--DGIEVEVALQWNDGYSENIHSFVNNINTPEGGTHETGFRTALTR 292
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415991308 334 LINRYAREKNIIKEKEDNLTGDDIREGLTAVISVKLSEPQFEGQTKTKLGNSEVKGFVQRVVTDGLGDWLERNPGPARDV 413
Cdd:COG0187 293 VINDYARKNGLLKEKDKNLTGDDVREGLTAVISVKLPEPQFEGQTKTKLGNSEARGIVESVVSEKLEHYLEENPAEAKKI 372
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415991308 414 IRKAISAAQARMAARKARDNARRKSPLESFGMPGKLSDCSSKNPELCEVYIVEGDSAGGSAKRGRNPETQAILPLRGKIL 493
Cdd:COG0187 373 LEKAILAARAREAARKARELVRRKSALESSGLPGKLADCSSKDPEESELFIVEGDSAGGSAKQGRDREFQAILPLRGKIL 452
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415991308 494 NVERARLDKALGNAEVQSMITAFGTGIGEDFDIAKLRYHKIVLMADADVDGQHITTLLMTLLFRYMRPLIENGYVYLAQP 573
Cdd:COG0187 453 NVEKARLDKILKNEEIRDLITALGTGIGDDFDLEKLRYHKIIIMTDADVDGAHIRTLLLTFFYRYMRPLIEAGHVYIAQP 532
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415991308 574 PLYRIKWSNaPHDYVYSDRERDAKLLSGqaAGRripKDNGIQRYKGLGEMDYTELWDTTMDPDHRTLLQVTMDDALAADQ 653
Cdd:COG0187 533 PLYRIKKGK-KTYYAYSDAELDELLKEL--KGK---KKVEIQRYKGLGEMNPEQLWETTMDPETRTLLQVTIEDAAEADE 606
|
650 660
....*....|....*....|....*....
gi 2415991308 654 IFSVLMGEDVESRRNFIQQNAKDVRFLDI 682
Cdd:COG0187 607 IFSLLMGDKVEPRREFIEENAKFVRNLDI 635
|
|
| gyrB |
TIGR01059 |
DNA gyrase, B subunit; This model describes the common type II DNA topoisomerase (DNA gyrase). ... |
19-682 |
0e+00 |
|
DNA gyrase, B subunit; This model describes the common type II DNA topoisomerase (DNA gyrase). Two apparently independently arising families, one in the Proteobacteria and one in Gram-positive lineages, are both designated toposisomerase IV. Proteins scoring above the noise cutoff for this model and below the trusted cutoff for topoisomerase IV models probably should be designated GyrB. [DNA metabolism, DNA replication, recombination, and repair]
Pssm-ID: 273421 [Multi-domain] Cd Length: 654 Bit Score: 967.59 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415991308 19 YGASDITVLEGLEAVRKRPGMYIGSTGPRGLHHLVYEVVDNSVDEALAGYCTHIEIVLQADGGVKVVDNGRGIPVDMHPT 98
Cdd:TIGR01059 1 YDASSIKVLEGLEAVRKRPGMYIGSTGETGLHHLVYEVVDNSIDEAMAGYCDTISVTINDDGSVTVEDNGRGIPVDIHPE 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415991308 99 EHKPTVEVVMTILHAGGKFGGGGYAVSGGLHGVGISVVNALSSRVDTEVRRQGHVWRMSFADgGKPQGGLVQGEETTETG 178
Cdd:TIGR01059 81 EGISAVEVVLTVLHAGGKFDKDSYKVSGGLHGVGVSVVNALSEWLEVTVFRDGKIYRQEFER-GIPVGPLEVVGETKKTG 159
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415991308 179 TTQTFYPDASIFESTDFDFETLRARFQQMAFLNKGLRITLTDERRapeepsedddldldtvptegeipAEFHTVVYQYDD 258
Cdd:TIGR01059 160 TTVRFWPDPEIFETTEFDFDILAKRLRELAFLNSGVKISLEDERD-----------------------GKGKKVTFHYEG 216
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415991308 259 GLLDYVKHLNSGKKvdVVHEDVIAFETEDTErhIALEMAMQWTNAYSESVHTYANTINTHEGGTHEEGFRAAMTSLINRY 338
Cdd:TIGR01059 217 GIKSFVKYLNRNKE--PLHEEIIYIKGEKEG--IEVEVALQWNDGYSENILSFVNNINTREGGTHLEGFRSALTRVINSY 292
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415991308 339 AREKNIIKEKEDNLTGDDIREGLTAVISVKLSEPQFEGQTKTKLGNSEVKGFVQRVVTDGLGDWLERNPGPARDVIRKAI 418
Cdd:TIGR01059 293 AKNNKLLKESKPNLTGEDIREGLTAVISVKVPDPQFEGQTKTKLGNSEVRSIVESLVYEKLTEFFEENPQEAKAIVEKAI 372
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415991308 419 SAAQARMAARKARDNARRKSPLESFGMPGKLSDCSSKNPELCEVYIVEGDSAGGSAKRGRNPETQAILPLRGKILNVERA 498
Cdd:TIGR01059 373 LAAQAREAARKARELTRRKSALDSGGLPGKLADCSSKDPSKSELYIVEGDSAGGSAKQGRDRRFQAILPLRGKILNVEKA 452
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415991308 499 RLDKALGNAEVQSMITAFGTGIGEDFDIAKLRYHKIVLMADADVDGQHITTLLMTLLFRYMRPLIENGYVYLAQPPLYRI 578
Cdd:TIGR01059 453 RLDKILSNQEIGAIITALGCGIGKDFDLEKLRYHKIIIMTDADVDGSHIRTLLLTFFYRYMRPLIENGYVYIAQPPLYKV 532
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415991308 579 KWSNAP--------------------HDYVYSDRERDAKLLSGQAAGRRipKDNGIQRYKGLGEMDYTELWDTTMDPDHR 638
Cdd:TIGR01059 533 KKGKKEryikddkekdlvgealedlkALYIYSDKEKEEAKTQIPVHLGR--KGIEIQRYKGLGEMNADQLWETTMDPESR 610
|
650 660 670 680
....*....|....*....|....*....|....*....|....
gi 2415991308 639 TLLQVTMDDALAADQIFSVLMGEDVESRRNFIQQNAKDVRFLDI 682
Cdd:TIGR01059 611 TLLKVTIEDAVEADRIFSTLMGDEVEPRREFIEANALDVKNLDV 654
|
|
| gyrB |
PRK14939 |
DNA gyrase subunit B; Provisional |
13-682 |
0e+00 |
|
DNA gyrase subunit B; Provisional
Pssm-ID: 237860 [Multi-domain] Cd Length: 756 Bit Score: 927.96 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415991308 13 TATSREYGASDITVLEGLEAVRKRPGMYIGSTG-PRGLHHLVYEVVDNSVDEALAGYCTHIEIVLQADGGVKVVDNGRGI 91
Cdd:PRK14939 1 SMMSNSYGASSIKVLKGLDAVRKRPGMYIGDTDdGTGLHHMVYEVVDNAIDEALAGHCDDITVTIHADGSVSVSDNGRGI 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415991308 92 PVDMHPTEHKPTVEVVMTILHAggkfggggyavsggLHGVGISVVNALSSRVDTEVRRQGHVWRMSFADGgKPQGGLVQG 171
Cdd:PRK14939 81 PTDIHPEEGVSAAEVIMTVLHAggkfdqnsykvsggLHGVGVSVVNALSEWLELTIRRDGKIHEQEFEHG-VPVAPLKVV 159
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415991308 172 EETTETGTTQTFYPDASIFESTDFDFETLRARFQQMAFLNKGLRITLTDERRAPEEpsedddldldtvptegeipaEFHt 251
Cdd:PRK14939 160 GETDKTGTEVRFWPSPEIFENTEFDYDILAKRLRELAFLNSGVRIRLKDERDGKEE--------------------EFH- 218
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415991308 252 vvyqYDDGLLDYVKHLNSGKKVdvVHEDVIAFETEDTErhIALEMAMQWTNAYSESVHTYANTINTHEGGTHEEGFRAAM 331
Cdd:PRK14939 219 ----YEGGIKAFVEYLNRNKTP--LHPNIFYFSGEKDG--IGVEVALQWNDSYQENVLCFTNNIPQRDGGTHLAGFRAAL 290
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415991308 332 TSLINRYAREKNIIKEKEDNLTGDDIREGLTAVISVKLSEPQFEGQTKTKLGNSEVKGFVQRVVTDGLGDWLERNPGPAR 411
Cdd:PRK14939 291 TRTINNYIEKEGLAKKAKVSLTGDDAREGLTAVLSVKVPDPKFSSQTKDKLVSSEVRPAVESLVNEKLSEFLEENPNEAK 370
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415991308 412 DVIRKAISAAQARMAARKARDNARRKSPLESFGMPGKLSDCSSKNPELCEVYIVEGDSAGGSAKRGRNPETQAILPLRGK 491
Cdd:PRK14939 371 IIVGKIIDAARAREAARKARELTRRKGALDIAGLPGKLADCQEKDPALSELYLVEGDSAGGSAKQGRDRKFQAILPLKGK 450
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415991308 492 ILNVERARLDKALGNAEVQSMITAFGTGIG-EDFDIAKLRYHKIVLMADADVDGQHITTLLMTLLFRYMRPLIENGYVYL 570
Cdd:PRK14939 451 ILNVEKARFDKMLSSQEIGTLITALGCGIGrDEFNPDKLRYHKIIIMTDADVDGSHIRTLLLTFFYRQMPELIERGHLYI 530
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415991308 571 AQPPLYRIKwSNAPHDYVYSDRE-----------------RDAKLLSGQA-----------------AGRRIP------- 609
Cdd:PRK14939 531 AQPPLYKVK-KGKQEQYLKDDEAlddylielalegatlhlADGPAISGEAleklvkeyravrkiidrLERRYPravleal 609
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415991308 610 --------------------------------------------------------------------------KDNGIQ 615
Cdd:PRK14939 610 iyapaldlddladeaavaaldadfltsaeyrrlvelaeklrglieegaylergerkqpvssfeealdwllaearKGLSIQ 689
|
730 740 750 760 770 780
....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 2415991308 616 RYKGLGEMDYTELWDTTMDPDHRTLLQVTMDDALAADQIFSVLMGEDVESRRNFIQQNAKDVRFLDI 682
Cdd:PRK14939 690 RYKGLGEMNPEQLWETTMDPENRRLLQVTIEDAIAADEIFTTLMGDEVEPRREFIEENALNVANLDV 756
|
|
| PRK05559 |
PRK05559 |
DNA topoisomerase IV subunit B; Reviewed |
13-677 |
0e+00 |
|
DNA topoisomerase IV subunit B; Reviewed
Pssm-ID: 235501 [Multi-domain] Cd Length: 631 Bit Score: 848.23 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415991308 13 TATSREYGASDITVLEGLEAVRKRPGMYIGSTGPRGLHHLVYEVVDNSVDEALAGYCTHIEIVLQADGGVKVVDNGRGIP 92
Cdd:PRK05559 2 AMMTNNYNADSIEVLEGLEPVRKRPGMYIGSTDTRGLHHLVQEVIDNSVDEALAGHGKRIEVTLHADGSVSVRDNGRGIP 81
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415991308 93 VDMHPTEHKPTVEVVMTILHAggkfggggyavsggLHGVGISVVNALSSRVDTEVRRQGHVWRMSFAdGGKPQGGLVQGE 172
Cdd:PRK05559 82 VGIHPEEGKSGVEVILTKLHAggkfsnkaykfsggLHGVGVSVVNALSSRLEVEVKRDGKVYRQRFE-GGDPVGPLEVVG 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415991308 173 ETTETGT--TQTFYPDASIFESTDFDFETLRARFQQMAFLNKGLRITLTDERrapeepsedddldldtvptegeipaefH 250
Cdd:PRK05559 161 TAGKRKTgtRVRFWPDPKIFDSPKFSPERLKERLRSKAFLLPGLTITLNDER---------------------------E 213
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415991308 251 TVVYQYDDGLLDYVKHLNSGKkvDVVHEDVIAFeTEDTERHIALEMAMQWTNAYSESVHTYANTINTHEGGTHEEGFRAA 330
Cdd:PRK05559 214 RQTFHYENGLKDYLAELNEGK--ETLPEEFVGS-FEGEAEGEAVEWALQWTDEGGENIESYVNLIPTPQGGTHENGFREG 290
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415991308 331 MTSLINRYAREKNIIKeKEDNLTGDDIREGLTAVISVKLSEPQFEGQTKTKLGNSEVKGFVQRVVTDGLGDWLERNPGPA 410
Cdd:PRK05559 291 LLKAVREFAEKRNLLP-KGKKLEGEDVREGLAAVLSVKIPEPQFEGQTKEKLGSREARRFVSGVVKDAFDLWLNQNPELA 369
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415991308 411 RDVIRKAISAAQARMAARKarDNARRKSPLESFgMPGKLSDCSSKNPELCEVYIVEGDSAGGSAKRGRNPETQAILPLRG 490
Cdd:PRK05559 370 EKLAEKAIKAAQARLRAAK--KVKRKKKTSGPA-LPGKLADCTSQDPERTELFLVEGDSAGGSAKQARDREFQAILPLRG 446
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415991308 491 KILNVERARLDKALGNAEVQSMITAFGTGIGEDFDIAKLRYHKIVLMADADVDGQHITTLLMTLLFRYMRPLIENGYVYL 570
Cdd:PRK05559 447 KILNTWEASLDDVLANEEIHDIIVAIGIGPGDSFDLEDLRYGKIIIMTDADVDGAHIATLLLTFFYRHFPPLVEAGHVYI 526
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415991308 571 AQPPLYRIKWSNAPHdYVYSDRERDAKLLSGQAAGRRIPkdngIQRYKGLGEMDYTELWDTTMDPDHRTLLQVTMDDALA 650
Cdd:PRK05559 527 ALPPLYRVDKGKKKI-YALDEEEKEELLKKLGKKGGKPE----IQRFKGLGEMNPDQLWETTMDPETRRLVRVTIDDAEE 601
|
650 660
....*....|....*....|....*..
gi 2415991308 651 ADQIFSVLMGEDVESRRNFIQQNAKDV 677
Cdd:PRK05559 602 TEKLVDMLMGKKAEPRREWIEENGDFA 628
|
|
| TOP2c |
smart00433 |
TopoisomeraseII; Eukaryotic DNA topoisomerase II, GyrB, ParE |
48-675 |
0e+00 |
|
TopoisomeraseII; Eukaryotic DNA topoisomerase II, GyrB, ParE
Pssm-ID: 214659 [Multi-domain] Cd Length: 594 Bit Score: 816.41 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415991308 48 GLHHLVYEVVDNSVDEALAGYCTHIEIVLQADGGVKVVDNGRGIPVDMHPTEHKPTVEVVMTILHAGGKFGGGGYAVSGG 127
Cdd:smart00433 1 GLHHLVDEIVDNAADEALAGYMDTIKVTIDKDNSISVEDNGRGIPVEIHPKEKKYAPEVIFTVLHAGGKFDDDAYKVSGG 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415991308 128 LHGVGISVVNALSSRVDTEVRRQGHVWRMSFADGGKPQGGLVQGEETTETGTTQTFYPDASIFE-STDFDFETLRARFQQ 206
Cdd:smart00433 81 LHGVGASVVNALSTEFEVEVARDGKEYKQSFSNNGKPLSEPKIIGDTKKDGTKVTFKPDLEIFGmTTDDDFELLKRRLRE 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415991308 207 MAFLNKGLRITLTDERRAPEEpsedddldldtvptegeipaefhtvVYQYDDGLLDYVKHLNSGKKVdvVHEDVIAFETE 286
Cdd:smart00433 161 LAFLNKGVKITLNDERSDEEK-------------------------TFLFEGGIKDYVELLNKNKEL--LSPEPTYIEGE 213
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415991308 287 DTErhIALEMAMQWTNAYSESVHTYANTINTHEGGTHEEGFRAAMTSLINRYAREKNIIKEKedNLTGDDIREGLTAVIS 366
Cdd:smart00433 214 KDN--IRVEVAFQYTDGYSENIVSFVNNIATTEGGTHENGFKDALTRVINEYAKKKKKLKEK--NIKGEDVREGLTAFIS 289
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415991308 367 VKLSEPQFEGQTKTKLGNSEVKGFVQRVVTDGLGDWLERNPGPARDVIRKAISAAQARMAARKARDnARRKSPLESFGMP 446
Cdd:smart00433 290 VKIPEPQFEGQTKEKLGTSEVRFGVEKIVSECLLSFLEENPVEASKIVEKVLLAAKARAAAKKARE-LTRKKKLSSISLP 368
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415991308 447 GKLSDCSSKNPELCEVYIVEGDSAGGSAKRGRNPETQAILPLRGKILNVERARLDKALGNAEVQSMITAFGTGIGEDFDI 526
Cdd:smart00433 369 GKLADASSAGPKKCELFLVEGDSAGGSAKSGRDRDFQAILPLRGKILNVEKASLDKILKNEEIQALITALGLGIGKDFDI 448
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415991308 527 AKLRYHKIVLMADADVDGQHITTLLMTLLFRYMRPLIENGYVYLAQPPLYRIKWSNAphDYVYSDRERDAKLLSGQAAGR 606
Cdd:smart00433 449 EKLRYGKIIIMTDADVDGSHIKGLLLTFFYRYMPPLIEAGFVYIAIPPLYKVTKGKK--KYVYSFYSLDEYEKWLEKTEG 526
|
570 580 590 600 610 620
....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 2415991308 607 RIPKDNgIQRYKGLGEMDYTELWDTTMDPDHRTLLQVTMDDALAADQIFSVLMGEDVESRRNFIQQNAK 675
Cdd:smart00433 527 NKSKYE-IQRYKGLGEMNADQLWETTMDPERRTLLFVTLDDADEADLIFSALMGDKVEPRKEWIEENAP 594
|
|
| parE_Gpos |
TIGR01058 |
DNA topoisomerase IV, B subunit, Gram-positive; Operationally, topoisomerase IV is a type II ... |
16-675 |
0e+00 |
|
DNA topoisomerase IV, B subunit, Gram-positive; Operationally, topoisomerase IV is a type II topoisomerase required for the decatenation step of chromosome segregation. Not every bacterium has both a topo II and a topo IV. The topo IV families of the Gram-positive bacteria and the Gram-negative bacteria appear not to represent a single clade among the type II topoisomerases, and are represented by separate models for this reason. [DNA metabolism, DNA replication, recombination, and repair]
Pssm-ID: 130130 [Multi-domain] Cd Length: 637 Bit Score: 673.11 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415991308 16 SREYGASDITVLEGLEAVRKRPGMYIGSTGPRGLHHLVYEVVDNSVDEALAGYCTHIEIVLQADGGVKVVDNGRGIPVDM 95
Cdd:TIGR01058 2 ASKYNADAIKILEGLDAVRKRPGMYIGSTDSKGLHHLVWEIVDNSVDEVLAGYADNITVTLHKDNSITVQDDGRGIPTGI 81
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415991308 96 HPTEHKPTVEVVMTILHAGGKFGGGGYAVSGGLHGVGISVVNALSSRVDTEVRRQGHVWRMSFADGGKPQGGLVQGEETT 175
Cdd:TIGR01058 82 HQDGNISTVETVFTVLHAGGKFDQGGYKTAGGLHGVGASVVNALSSWLEVTVKRDGQIYQQRFENGGKIVQSLKKIGTTK 161
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415991308 176 ETGTTQTFYPDASIFESTDFDFETLRARFQQMAFLNKGLRITLTDERRApeepsedddldldtvptegeipaefHTVVYQ 255
Cdd:TIGR01058 162 KTGTLVHFHPDPTIFKTTQFNSNIIKERLKESAFLLKKLKLTFTDKRTN-------------------------KTTVFF 216
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415991308 256 YDDGLLDYVKHLNSGKKvdvVHEDVIAFETEDTErhIALEMAMQWTNAYSESVHTYANTINTHEGGTHEEGFRAAMTSLI 335
Cdd:TIGR01058 217 YENGLVDFVDYINETKE---TLSQVTYFEGEKNG--IEVEVAFQFNDGDSENILSFANSVKTKEGGTHENGFKLAITDVI 291
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415991308 336 NRYAREKNIIKEKEDNLTGDDIREGLTAVISVKLSEP--QFEGQTKTKLGNSEVKGFVQRVVTDGLGDWLERNPGPARDV 413
Cdd:TIGR01058 292 NSYARKYNLLKEKDKNLEGSDIREGLSAIISVRIPEEliQFEGQTKSKLFSPEARNVVDEIVQDHLFFFLEENNNDAKLL 371
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415991308 414 IRKAISAAQARMAARKARDNARR-KSPLESFG-MPGKLSDCSSKNPELCEVYIVEGDSAGGSAKRGRNPETQAILPLRGK 491
Cdd:TIGR01058 372 IDKAIKARDAKEAAKKAREEKKSgKKPKKEKGiLSGKLTPAQSKNPAKNELFLVEGDSAGGSAKQGRDRKFQAILPLRGK 451
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415991308 492 ILNVERARLDKALGNAEVQSMITAFGTGIGEDFDIAKLRYHKIVLMADADVDGQHITTLLMTLLFRYMRPLIENGYVYLA 571
Cdd:TIGR01058 452 VLNVEKAKLADILKNEEINTIIFCIGTGIGADFSIKDLKYDKIIIMTDADTDGAHIQVLLLTFFYRYMRPLIELGHVYIA 531
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415991308 572 QPPLYRI-KWSNAPHDYVYSDRERDAKLLSgqaagrriPKDNGIQRYKGLGEMDYTELWDTTMDPDHRTLLQVTMDDALA 650
Cdd:TIGR01058 532 LPPLYKLsKKDGKKVKYAWSDLELESVKKK--------LKNYTLQRYKGLGEMNADQLWETTMNPETRTLVRVKIDDLAR 603
|
650 660
....*....|....*....|....*
gi 2415991308 651 ADQIFSVLMGEDVESRRNFIQQNAK 675
Cdd:TIGR01058 604 AERQINTLMGDKVEPRKKWIEANIN 628
|
|
| parE_Gneg |
TIGR01055 |
DNA topoisomerase IV, B subunit, proteobacterial; Operationally, topoisomerase IV is a type II ... |
19-672 |
7.05e-172 |
|
DNA topoisomerase IV, B subunit, proteobacterial; Operationally, topoisomerase IV is a type II topoisomerase required for the decatenation of chromosome segregation. Not every bacterium has both a topo II and a topo IV. The topo IV families of the Gram-positive bacteria and the Gram-negative bacteria appear not to represent a single clade among the type II topoisomerases, and are represented by separate models for this reason. This protein is active as an alpha(2)beta(2) heterotetramer. [DNA metabolism, DNA replication, recombination, and repair]
Pssm-ID: 130127 [Multi-domain] Cd Length: 625 Bit Score: 505.22 E-value: 7.05e-172
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415991308 19 YGASDITVLEGLEAVRKRPGMYIGSTGPrglHHLVYEVVDNSVDEALAGYCTHIEIVLQADGGVKVVDNGRGIPVDMHPT 98
Cdd:TIGR01055 4 YSAKDIEVLDGLEPVRKRPGMYTDTTRP---NHLVQEVIDNSVDEALAGFASIIMVILHQDQSIEVFDNGRGMPVDIHPK 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415991308 99 EHKPTVEVVMTILHAGGKFGGGGYAVSGGLHGVGISVVNALSSRVDTEVRRQGHVWRMSFADGGKPQG-GLVQGEETTET 177
Cdd:TIGR01055 81 EGVSAVEVILTTLHAGGKFSNKNYHFSGGLHGVGISVVNALSKRVKIKVYRQGKLYSIAFENGAKVTDlISAGTCGKRLT 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415991308 178 GTTQTFYPDASIFESTDFDFETLRARFQQMAFLNKGLRITLTDERRAPEEpsedddldldtvptegeipaefhtvVYQYD 257
Cdd:TIGR01055 161 GTSVHFTPDPEIFDSLHFSVSRLYHILRAKAVLCRGVEIEFEDEVNNTKA-------------------------LWNYP 215
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415991308 258 DGLLDYVKHLNSGKKVDVVHEDVIAFETEDterhIALEMAMQWTNAYSESV-HTYANTINTHEGGTHEEGFRAAMTSLIN 336
Cdd:TIGR01055 216 DGLKDYLSEAVNGDNTLPPKPFSGNFEGDD----EAVEWALLWLPEGGELFmESYVNLIPTPQGGTHVNGLRQGLLDALR 291
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415991308 337 RYAREKNIiKEKEDNLTGDDIREGLTAVISVKLSEPQFEGQTKTKLGNSEVKGFVQRVVTDGLGDWLERNPGPARDVIRK 416
Cdd:TIGR01055 292 EFCEMRNN-LPRGVKLTAEDIWDRCSYVLSIKMQDPQFAGQTKERLSSRQVAKFVSGVIKDAFDLWLNQNVQLAEHLAEH 370
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415991308 417 AISAAQARMAARKardNARRKSPLESFGMPGKLSDCSSKNPELCEVYIVEGDSAGGSAKRGRNPETQAILPLRGKILNVE 496
Cdd:TIGR01055 371 AISSAQRRKRAAK---KVVRKKLTSGPALPGKLADCTRQDLEGTELFLVEGDSAGGSAKQARDREYQAILPLWGKILNTW 447
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415991308 497 RARLDKALGNAEVQSMITAFGTGIGEDfDIAKLRYHKIVLMADADVDGQHITTLLMTLLFRYMRPLIENGYVYLAQPPLY 576
Cdd:TIGR01055 448 EVSLDKVLNSQEIHDIEVALGIDPDSN-DLSQLRYGKICILADADSDGLHIATLLCALFFLHFPKLVEEGHVYVAKPPLY 526
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415991308 577 RIKWSNAPhdYVYSDRERDAKLLSGQAAGRRIPKdngIQRYKGLGEMDYTELWDTTMDPDHRTLLQVTMDDA--LAADQI 654
Cdd:TIGR01055 527 RIDLSKEV--YYALDEEEKEKLLYKLKKKKGKPN---VQRFKGLGEMNPAQLRETTMDPNTRRLVQLTLDDVqdQRVDKI 601
|
650
....*....|....*....
gi 2415991308 655 FSVLMGEDV-ESRRNFIQQ 672
Cdd:TIGR01055 602 MDMLLAKKRsEDRFNWLQE 620
|
|
| PTZ00109 |
PTZ00109 |
DNA gyrase subunit b; Provisional |
18-674 |
5.87e-166 |
|
DNA gyrase subunit b; Provisional
Pssm-ID: 240272 [Multi-domain] Cd Length: 903 Bit Score: 499.41 E-value: 5.87e-166
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415991308 18 EYGASDITVLEGLEAVRKRPGMYIGSTGPRGLHHLVYEVVDNSVDEALAGYCTHIEIVLQADGGVKVVDNGRGIPVDMHP 97
Cdd:PTZ00109 99 EYDADDIVVLEGLEAVRKRPGMYIGNTDEKGLHQLLFEILDNSVDEYLAGECNKITVVLHKDGSVEISDNGRGIPCDVSE 178
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415991308 98 TEHKPTVEVVMTILH----------------------------------------AGGKFGGGGYAVSGGLHGVGISVVN 137
Cdd:PTZ00109 179 KTGKSGLETVLTVLHsggkfqdtfpknsrsdksedkndtksskkgksshvkgpkeAKEKESSQMYEYSSGLHGVGLSVVN 258
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415991308 138 ALSSRVDTEVRRQGHVWRMSFADGGKPQGGLVQGEETTETGTTQTFYPDA-SIFEST--------------DFDFETLRA 202
Cdd:PTZ00109 259 ALSSFLKVDVFKGGKIYSIELSKGKVTKPLSVFSCPLKKRGTTIHFLPDYkHIFKTHhqhteteeeegcknGFNLDLIKN 338
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415991308 203 RFQQMAFLNKGLRITLTDERRAPEEPSedddldldtvptegeipaeFHTVVYQYDDGLLDYVKHLNSGKKVDVVHEDVIA 282
Cdd:PTZ00109 339 RIHELSYLNPGLTFYLVDERIANENNF-------------------YPYETIKHEGGTREFLEELIKDKTPLYKDINIIS 399
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415991308 283 FETEDTERHIalEMAMQWT-NAYSESVHTYANTINThEGGTHEEGFRAAMTSLINRYAREKNIIKEKEDNLTGDDIREGL 361
Cdd:PTZ00109 400 IRGVIKNVNV--EVSLSWSlESYTALIKSFANNVST-TAGTHIDGFKYAITRCVNGNIKKNGYFKGNFVNIPGEFIREGM 476
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415991308 362 TAVISVKLSEPQFEGQTKTKLGNSEVKGFVQRVVTDGLGDWLERNPGPARDVIRKAISAAQARMAARKARDNARRK-SPL 440
Cdd:PTZ00109 477 TAIISVKLNGAEFDGQTKTKLGNHLLKTILESIVFEQLSEILEFEPNLLLAIYNKSLAAKKAFEEAKAAKDLIRQKnNQY 556
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415991308 441 ESFGMPGKLSDCSSKNPELCEVYIVEGDSAGGSAKRGRNPETQAILPLRGKILNVERARLD-KALGNAEVQSMITAFGTG 519
Cdd:PTZ00109 557 YSTILPGKLVDCISDDIERNELFIVEGESAAGNAKQARNREFQAVLPLKGKILNIEKIKNNkKVFENSEIKLLITSIGLS 636
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415991308 520 IGED--------------------------------FDIAKLRYHKIVLMADADVDGQHITTLLMTLLFRYMRPLIENGY 567
Cdd:PTZ00109 637 VNPVtwrqydlshgtkaskdesvqnnnstltkkknsLFDTPLRYGKIILLTDADVDGEHLRILLLTLLYRFCPSLYEHGR 716
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415991308 568 VYLAQPPLYRIKW-----------SNAPHDYVYSDRE--RDAKLL-----------SGQAAGRRIPKDNG---------- 613
Cdd:PTZ00109 717 VYVACPPLYRITNnrmkqfnvstkNSKKYIYTWSDEElnVLIKLLnkdysskettrSVEEKGNAPDLDNEyedekldnkn 796
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415991308 614 ------------------------------------------IQRYKGLGEMDYTELWDTTMDPDHRTLLQVTMDDALAA 651
Cdd:PTZ00109 797 mrennvdevelktelgtnvadteqtdeldinkaffkfskhyeIQRFKGLGEMMADQLWETTMDPKKRILIRITVSDAMRA 876
|
810 820
....*....|....*....|...
gi 2415991308 652 DQIFSVLMGEDVESRRNFIQQNA 674
Cdd:PTZ00109 877 SELIFLLMGEDVQSRKQFIFENS 899
|
|
| TopoII_Trans_DNA_gyrase |
cd00822 |
TopoIIA_Trans_DNA_gyrase: Transducer domain, having a ribosomal S5 domain 2-like fold, of the ... |
258-432 |
1.79e-85 |
|
TopoIIA_Trans_DNA_gyrase: Transducer domain, having a ribosomal S5 domain 2-like fold, of the type found in proteins of the type IIA family of DNA topoisomerases similar to the B subunits of E. coli DNA gyrase and E. coli Topoisomerase IV which are heterodimers composed of two subunits. The type IIA enzymes are the predominant form of topoisomerase and are found in some bacteriophages, viruses and archaea, and in all bacteria and eukaryotes. All type IIA topoisomerases are related to each other at amino acid sequence level, though their oligomeric organization sometimes differs. TopoIIA enzymes cut both strands of the duplex DNA to remove (relax) both positive and negative supercoils in DNA. These enzymes covalently attach to the 5' ends of the cut DNA, separate the free ends of the cleaved strands, pass another region of the duplex through this gap, then rejoin the ends. TopoIIA enzymes also catenate/ decatenate duplex rings. E.coli DNA gyrase is a heterodimer composed of two subunits. E. coli DNA gyrase B subunit is known to be important in nucleotide hydrolysis and the transduction of structural signals from ATP-binding site to the DNA breakage/reunion regions of the enzymes.
Pssm-ID: 238419 [Multi-domain] Cd Length: 172 Bit Score: 265.96 E-value: 1.79e-85
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415991308 258 DGLLDYVKHLNSGKKVdvVHEDVIAFETEdtERHIALEMAMQWTNAYSESVHTYANTINTHEGGTHEEGFRAAMTSLINR 337
Cdd:cd00822 1 GGLKDFVEELNKDKEP--LHEEPIYIEGE--KDGVEVEVALQWTDSYSENILSFVNNIPTPEGGTHETGFRAALTRAIND 76
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415991308 338 YAREKNIIKEKEDNLTGDDIREGLTAVISVKLSEPQFEGQTKTKLGNSEVKGFVQRVVTDGLGDWLERNPGPARDVIRKA 417
Cdd:cd00822 77 YAKKNNLLKKKDVKLTGDDIREGLTAVISVKVPEPQFEGQTKDKLGNSEVRSIVESAVREALEEWLEENPEEAKKILEKA 156
|
170
....*....|....*
gi 2415991308 418 ISAAQARMAARKARD 432
Cdd:cd00822 157 ILAAKAREAARKARE 171
|
|
| DNA_gyraseB |
pfam00204 |
DNA gyrase B; This family represents the second domain of DNA gyrase B which has a ribosomal ... |
259-433 |
1.37e-78 |
|
DNA gyrase B; This family represents the second domain of DNA gyrase B which has a ribosomal S5 domain 2-like fold. This family is structurally related to PF01119.
Pssm-ID: 425522 [Multi-domain] Cd Length: 173 Bit Score: 247.91 E-value: 1.37e-78
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415991308 259 GLLDYVKHLNSGKKVdvVHEDVIAFETEDTERHIALEMAMQWTNAYSESVHTYANTINTHEGGTHEEGFRAAMTSLINRY 338
Cdd:pfam00204 1 GLKDFVEELNKDKKP--LHKEIIYFEGESPDNRIEVEVALQWTDSYSENILSFVNNIATPEGGTHVDGFKSALTRTINEY 78
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415991308 339 AREKNIIKEKEDNLTGDDIREGLTAVISVKLSEPQFEGQTKTKLGNSEVKGFVQRVVTDGLGDWLERNPGPARDVIRKAI 418
Cdd:pfam00204 79 AKKKGLLKKKDEKITGEDIREGLTAVVSVKIPDPQFEGQTKEKLGNPEVKSAVEKIVSEKLEEFLEENPEIAKKILEKAL 158
|
170
....*....|....*
gi 2415991308 419 SAAQARMAARKARDN 433
Cdd:pfam00204 159 QAAKARLAARKAREA 173
|
|
| HATPase_GyrB-like |
cd16928 |
Histidine kinase-like ATPase domain of the B subunit of DNA gyrase; This family includes ... |
49-227 |
2.81e-78 |
|
Histidine kinase-like ATPase domain of the B subunit of DNA gyrase; This family includes histidine kinase-like ATPase domain of the B subunit of DNA gyrase. Bacterial DNA gyrase is a type II topoisomerase (type II as it transiently cleaves both strands of DNA) which catalyzes the introduction of negative supercoils into DNA, possibly by a mechanism in which one segment of the double-stranded DNA substrate is passed through a transient break in a second segment. It consists of GyrA and GyrB subunits in an A2B2 stoichiometry; GyrA subunits catalyze strand-breakage and reunion reactions, and GyrB subunits hydrolyze ATP. DNA gyrase is found in bacteria, plants and archaea, but as it is absent in humans it is a possible drug target for the treatment of bacterial and parasite infections.
Pssm-ID: 340405 [Multi-domain] Cd Length: 180 Bit Score: 247.45 E-value: 2.81e-78
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415991308 49 LHHLVYEVVDNSVDEALAGYCTHIEIVLQADGGVKVVDNGRGIPVDMHPTEHKPTVEVVMTILHAGGKFGGGGYAVSGGL 128
Cdd:cd16928 1 LHHLVWEIVDNSIDEALAGYATEIEVTLHEDNSITVEDNGRGIPVDIHPKTGKSAVEVVLTVLHAGGKFDGGSYKVSGGL 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415991308 129 HGVGISVVNALSSRVDTEVRRQGHVWRMSFADGGkPQGGLVQGEETTETGTTQTFYPDASIFESTDFDFETLRARFQQMA 208
Cdd:cd16928 81 HGVGVSVVNALSERLEVEVKRDGKIYRQEFSRGG-PLTPLEVIGETKKTGTTVRFWPDPEIFEKTEFDFDTLKRRLRELA 159
|
170
....*....|....*....
gi 2415991308 209 FLNKGLRITLTDERRAPEE 227
Cdd:cd16928 160 FLNKGLKIVLEDERTGKEE 178
|
|
| TOPRIM_TopoIIA_GyrB |
cd03366 |
TOPRIM_TopoIIA_GyrB: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain ... |
460-573 |
4.29e-75 |
|
TOPRIM_TopoIIA_GyrB: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in proteins of the type IIA family of DNA topoisomerases similar to the Escherichia coli GyrB subunit. TopoIIA enzymes cut both strands of the duplex DNA to remove (relax) both positive and negative supercoils in DNA. These enzymes covalently attach to the 5' ends of the cut DNA, separate the free ends of the cleaved strands, pass another region of the duplex through this gap, then rejoin the ends. These proteins also catenate/ decatenate duplex rings. DNA gyrase is more effective at relaxing supercoils than decatentating DNA. DNA gyrase in addition inserts negative supercoils in the presence of ATP. The TOPRIM domain has two conserved motifs, one of which centers at a conserved glutamate and the other one at two conserved aspartates (DxD). The conserved glutamate may act as a general base in strand joining and as a general acid in strand cleavage by topisomerases. The DXD motif may co-ordinate Mg2+, a cofactor required for full catalytic function.
Pssm-ID: 173786 [Multi-domain] Cd Length: 114 Bit Score: 236.40 E-value: 4.29e-75
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415991308 460 CEVYIVEGDSAGGSAKRGRNPETQAILPLRGKILNVERARLDKALGNAEVQSMITAFGTGIGEDFDIAKLRYHKIVLMAD 539
Cdd:cd03366 1 SELYIVEGDSAGGSAKQGRDRRFQAILPLRGKILNVEKARLDKILKNEEIRALITALGTGIGEDFDLEKLRYHKIIIMTD 80
|
90 100 110
....*....|....*....|....*....|....
gi 2415991308 540 ADVDGQHITTLLMTLLFRYMRPLIENGYVYLAQP 573
Cdd:cd03366 81 ADVDGAHIRTLLLTFFFRYMRPLIENGHVYIAQP 114
|
|
| TOPRIM_TopoIIA_like |
cd01030 |
TOPRIM_TopoIIA_like: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain ... |
460-573 |
4.96e-62 |
|
TOPRIM_TopoIIA_like: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in proteins of the type IIA family of DNA topoisomerases similar to Saccharomyces cerevisiae Topoisomerase II. TopoIIA enzymes cut both strands of the duplex DNA to remove (relax) both positive and negative supercoils in DNA. These enzymes covalently attach to the 5' ends of the cut DNA, separate the free ends of the cleaved strands, pass another region of the duplex through this gap, then rejoin the ends. These proteins also catenate/ decatenate duplex rings. The TOPRIM domain has two conserved motifs, one of which centers at a conserved glutamate and the other one at two conserved aspartates (DxD). The conserved glutamate may act as a general base in strand joining and as a general acid in strand cleavage by topisomerases. The DXD motif may co-ordinate Mg2+, a cofactor required for full catalytic function.
Pssm-ID: 173780 [Multi-domain] Cd Length: 115 Bit Score: 201.97 E-value: 4.96e-62
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415991308 460 CEVYIVEGDSAGGSAKRGRNPETQAILPLRGKILNVERARLDKALGNAEVQSMITAFGTGIG-EDFDIAKLRYHKIVLMA 538
Cdd:cd01030 1 CELILVEGDSAGGSAKQGRDRVFQAVFPLRGKILNVEKASLKKILKNEEIQNIIKALGLGIGkDDFDLDKLRYGKIIIMT 80
|
90 100 110
....*....|....*....|....*....|....*
gi 2415991308 539 DADVDGQHITTLLMTLLFRYMRPLIENGYVYLAQP 573
Cdd:cd01030 81 DADVDGSHIRTLLLTFFYRFWPSLLENGFLYIAQT 115
|
|
| 39 |
PHA02569 |
DNA topoisomerase II large subunit; Provisional |
22-672 |
1.36e-38 |
|
DNA topoisomerase II large subunit; Provisional
Pssm-ID: 177398 [Multi-domain] Cd Length: 602 Bit Score: 151.44 E-value: 1.36e-38
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415991308 22 SDITVLEGLEAVRKRPGMYIGSTGPR-----------------GLHHLVYEVVDNSVDEALAG---YCTHIEIVLQaDGG 81
Cdd:PHA02569 2 DEFKVLSDREHILKRPGMYIGSVAYEaherflfgkftqveyvpGLVKIIDEIIDNSVDEAIRTnfkFANKIDVTIK-NNQ 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415991308 82 VKVVDNGRGIPVDMHPTEHK---PTVEVVMTILHAGGKFGGGGYAVSGgLHGVGISVVNALSSRVDTE---------VRR 149
Cdd:PHA02569 81 VTVSDNGRGIPQAMVTTPEGeeiPGPVAAWTRTKAGSNFDDTNRVTGG-MNGVGSSLTNFFSVLFIGEtcdgknevtVNC 159
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415991308 150 QGHVWRMSFADG-GKPQGGLVQgeettetgttqtFYPDASIFESTDFDFETL---RARFQQMAFLNKGLRITLTDERrap 225
Cdd:PHA02569 160 SNGAENISWSTKpGKGKGTSVT------------FIPDFSHFEVNGLDQQYLdiiLDRLQTLAVVFPDIKFTFNGKK--- 224
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415991308 226 eepsedddldldtvptegeIPAEFHTVVYQYDDglldyvkhlnsgkkVDVVHED---VIAF-ETEDTERHIalemamqwt 301
Cdd:PHA02569 225 -------------------VSGKFKKYAKQFGD--------------DTIVQENdnvSIALaPSPDGFRQL--------- 262
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415991308 302 naysesvhTYANTINTHEGGTHEEGFRAAMTS-LINRYAREKNIikekedNLTGDDIREGLTAVISVK-LSEPQFEGQTK 379
Cdd:PHA02569 263 --------SFVNGLHTKNGGHHVDCVMDDICEeLIPMIKKKHKI------EVTKARVKECLTIVLFVRnMSNPRFDSQTK 328
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415991308 380 TKLGNS--EVKGFVQrVVTDGLGDWLERNPgparDVIRKAISAAQAR-MAARKARDNARRKSPLES-------FGMPGKL 449
Cdd:PHA02569 329 ERLTSPfgEIRNHID-LDYKKIAKQILKTE----AIIMPIIEAALARkLAAEKAAETKAAKKAKKAkvakhikANLIGKD 403
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415991308 450 SDCSsknpelceVYIVEGDSAGGSAKRGRNPETQAILPLRGKILNVERARLDKALGNAEVQSMITAFGTGIGEDFDiaKL 529
Cdd:PHA02569 404 AETT--------LFLTEGDSAIGYLIEVRDEELHGGYPLRGKVLNTWGMSYADILKNKELFDICAITGLVLGEKAE--NM 473
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415991308 530 RYHKIVLMADADVDGQ-HITTLLMTLLFRYMRpLIENGYVYLAQPPLYrIKWSNAPHDYVYSDRERDAKllsgqaagRRI 608
Cdd:PHA02569 474 NYKNIAIMTDADVDGKgSIYPLLLAFFSRWPE-LFEQGRIRFVKTPVI-IAQVGKETKWFYSLDEFEKA--------KDS 543
|
650 660 670 680 690 700
....*....|....*....|....*....|....*....|....*....|....*....|....
gi 2415991308 609 PKDNGIQRYKGLGEMDYTELWDTTMDPDHRtllQVTMDDALaaDQIFSVLMGEDVESRRNFIQQ 672
Cdd:PHA02569 544 LKKWSIRYIKGLGSLRKSEYRRVINNPVYD---VVVLPDDW--KELFEMLFGDDADLRKDWMSQ 602
|
|
| DNA_gyraseB_C |
pfam00986 |
DNA gyrase B subunit, carboxyl terminus; The amino terminus of eukaryotic and prokaryotic DNA ... |
614-671 |
4.00e-34 |
|
DNA gyrase B subunit, carboxyl terminus; The amino terminus of eukaryotic and prokaryotic DNA topoisomerase II are similar, but they have a different carboxyl terminus. The amino-terminal portion of the DNA gyrase B protein is thought to catalyze the ATP-dependent super-coiling of DNA. See pfam00204. The carboxyl-terminal end supports the complexation with the DNA gyrase A protein and the ATP-independent relaxation. This family also contains Topoisomerase IV. This is a bacterial enzyme that is closely related to DNA gyrase,.
Pssm-ID: 460016 [Multi-domain] Cd Length: 63 Bit Score: 124.03 E-value: 4.00e-34
10 20 30 40 50
....*....|....*....|....*....|....*....|....*....|....*...
gi 2415991308 614 IQRYKGLGEMDYTELWDTTMDPDHRTLLQVTMDDALAADQIFSVLMGEDVESRRNFIQ 671
Cdd:pfam00986 6 IQRYKGLGEMNPEQLWETTMDPETRRLLQVTIEDAAEADEIFSTLMGDKVEPRREFIE 63
|
|
| PTZ00108 |
PTZ00108 |
DNA topoisomerase 2-like protein; Provisional |
27-552 |
3.73e-30 |
|
DNA topoisomerase 2-like protein; Provisional
Pssm-ID: 240271 [Multi-domain] Cd Length: 1388 Bit Score: 127.86 E-value: 3.73e-30
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415991308 27 LEGLEAVRKRPGMYIGSTGPR-----------------------GLHHLVYEV----VDNSVDEALAGYCTHIEIVL-QA 78
Cdd:PTZ00108 13 KTQIEHILLRPDTYIGSIETQtedmwvydeeknrmvyktityvpGLYKIFDEIlvnaADNKARDKGGHRMTYIKVTIdEE 92
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415991308 79 DGGVKVVDNGRGIPVDMHpTEHKPTV-EVVMTILHAGGKFGGGGYAVSGGLHGVGISVVNALSSRVDTEVR--RQGHVWR 155
Cdd:PTZ00108 93 NGEISVYNDGEGIPVQIH-KEHKIYVpEMIFGHLLTSSNYDDTEKRVTGGRNGFGAKLTNIFSTKFTVECVdsKSGKKFK 171
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415991308 156 MSFADG-GKPQGGLVQGEETTETGTTQTFYPDASIFESTDFDFET---LRARFQQMAFLNKGLRITLTDERRAPEepSED 231
Cdd:PTZ00108 172 MTWTDNmSKKSEPRITSYDGKKDYTKVTFYPDYAKFGMTEFDDDMlrlLKKRVYDLAGCFGKLKVYLNGERIAIK--SFK 249
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415991308 232 DDLDLDTVPTEGEIPAEFHTVvyqyddglldyvkHLNSGKKVDVVhedviAFETEDTERHIalemamqwtnaysesvhTY 311
Cdd:PTZ00108 250 DYVDLYLPDGEEGKKPPYPFV-------------YTSVNGRWEVV-----VSLSDGQFQQV-----------------SF 294
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415991308 312 ANTINTHEGGTHeegFRAAMTSLINRYAREKNIIKEKEDNLTGDDIREGLTAVISVKLSEPQFEGQTKTKLgNSEVKGFV 391
Cdd:PTZ00108 295 VNSICTTKGGTH---VNYILDQLISKLQEKAKKKKKKGKEIKPNQIKNHLWVFVNCLIVNPSFDSQTKETL-TTKPSKFG 370
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415991308 392 Q-RVVTDGLGDWLERNPgpardVIRKAISAAQARMAA--RKARDNARRKSPLesfGMPgKLSDCSS---KNPELCEVYIV 465
Cdd:PTZ00108 371 StCELSEKLIKYVLKSP-----ILENIVEWAQAKLAAelNKKMKAGKKSRIL---GIP-KLDDANDaggKNSEECTLILT 441
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415991308 466 EGDSA-----GGSAKRGRNpeTQAILPLRGKILNVERARLDKALGNAEVQSMITAFGTGIGEDF-DIAKLRYHKIVLMAD 539
Cdd:PTZ00108 442 EGDSAkalalAGLSVVGRD--YYGVFPLRGKLLNVRDASLKQLMNNKEIQNLFKILGLDIGKKYeDPKGLRYGSLMIMTD 519
|
570
....*....|...
gi 2415991308 540 ADVDGQHITTLLM 552
Cdd:PTZ00108 520 QDHDGSHIKGLLI 532
|
|
| PLN03128 |
PLN03128 |
DNA topoisomerase 2; Provisional |
30-561 |
2.31e-26 |
|
DNA topoisomerase 2; Provisional
Pssm-ID: 215593 [Multi-domain] Cd Length: 1135 Bit Score: 115.58 E-value: 2.31e-26
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415991308 30 LEAVRKRPGMYIGSTGPR---------------------GLHHLVYEVVDNSVDEALAG-YCTHIEIVLQADGG-VKVVD 86
Cdd:PLN03128 13 LEHILLRPDTYIGSTEKHtqtlwvyeggemvnrevtyvpGLYKIFDEILVNAADNKQRDpSMDSLKVDIDVEQNtISVYN 92
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415991308 87 NGRGIPVDMHPTEHKPTVEVVMTILHAGGKFGGGGYAVSGGLHGVGISVVNALSSR--VDT----EVRRQGHVWRMSFAD 160
Cdd:PLN03128 93 NGKGIPVEIHKEEGVYVPELIFGHLLTSSNFDDNEKKTTGGRNGYGAKLANIFSTEftVETadgnRGKKYKQVFTNNMSV 172
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415991308 161 GGKPqggLVQGEETTETGTTQTFYPDASIFESTDFDFET---LRARFQQMA-FLNKGLRITLTDERRAPEEPSEDDDLDL 236
Cdd:PLN03128 173 KSEP---KITSCKASENWTKITFKPDLAKFNMTRLDEDVvalMSKRVYDIAgCLGKKLKVELNGKKLPVKSFQDYVGLYL 249
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415991308 237 DTVPTEGEIPAEFHTVVYQYddglldyvkhlnsgkkvdvvhedviafetedterhialEMAMQWTNAYSESVhTYANTIN 316
Cdd:PLN03128 250 GPNSREDPLPRIYEKVNDRW--------------------------------------EVCVSLSDGSFQQV-SFVNSIA 290
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415991308 317 THEGGTHEEgfraAMTSLINRYAREKniIKEKEDNLTG---DDIREGLTAVISVKLSEPQFEGQTKTKLGNSEV------ 387
Cdd:PLN03128 291 TIKGGTHVD----YVADQIVKHIQEK--VKKKNKNATHvkpFQIKNHLWVFVNCLIENPTFDSQTKETLTTRPSsfgskc 364
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415991308 388 ---KGFVQRVVtdglgdwlerNPGPARDVIRKAISAAQARMaarKARDNARRKSPLesfGMPgKLSDCS---SKNPELCE 461
Cdd:PLN03128 365 elsEEFLKKVE----------KCGVVENILSWAQFKQQKEL---KKKDGAKRQRLT---GIP-KLDDANdagGKKSKDCT 427
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415991308 462 VYIVEGDSA-----GGSAKRGRNpeTQAILPLRGKILNVERARLDKALGNAEVQSMITAFGTGIGEDFD---IAKLRYHK 533
Cdd:PLN03128 428 LILTEGDSAkalamSGLSVVGRD--HYGVFPLRGKLLNVREASHKQIMKNAEITNIKQILGLQFGKTYDeenTKSLRYGH 505
|
570 580
....*....|....*....|....*...
gi 2415991308 534 IVLMADADVDGQHITTLLMTlLFRYMRP 561
Cdd:PLN03128 506 LMIMTDQDHDGSHIKGLIIN-FFHSFWP 532
|
|
| PLN03237 |
PLN03237 |
DNA topoisomerase 2; Provisional |
310-681 |
1.68e-19 |
|
DNA topoisomerase 2; Provisional
Pssm-ID: 215641 [Multi-domain] Cd Length: 1465 Bit Score: 93.77 E-value: 1.68e-19
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415991308 310 TYANTINTHEGGTHEEgfraAMTSLINRYAREKNIIKEKEDNLTGDDIREGLTAVISVKLSEPQFEGQTK----TKLGNS 385
Cdd:PLN03237 311 SFVNSIATIKGGTHVD----YVTNQIANHVMEAVNKKNKNANIKAHNVKNHLWVFVNALIDNPAFDSQTKetltLRQSSF 386
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415991308 386 EVK-----GFVQRVVTDGlgdwlernpgpardVIRKAISAAQARMAARKARDNARRKSPLEsfGMPgKLSDCSS---KNP 457
Cdd:PLN03237 387 GSKcelseDFLKKVMKSG--------------IVENLLSWADFKQSKELKKTDGAKTTRVT--GIP-KLEDANEaggKNS 449
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415991308 458 ELCEVYIVEGDSA-----GGSAKRGRNpeTQAILPLRGKILNVERARLDKALGNAEVQSMITAFGTGIGEDFDIAK-LRY 531
Cdd:PLN03237 450 EKCTLILTEGDSAkalavAGLSVVGRN--YYGVFPLRGKLLNVREASHKQIMNNAEIENIKQILGLQHGKQYESVKsLRY 527
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415991308 532 HKIVLMADADVDGQHITTLLMTLLFRYMRPLIE-NGYVYLAQPPLYRIKWSNAPHDYVYSDRERDA--KLLSGQAAGRri 608
Cdd:PLN03237 528 GHLMIMTDQDHDGSHIKGLLINFIHSFWPSLLKvPSFLVEFITPIVKATRRGKKVLSFYSMPEYEEwkESLGGNATGW-- 605
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415991308 609 pkdnGIQRYKGLGEMDYTELWDTTMDPDH--RTLLQVTMDDALAADQIFSvlmGEDVESRRN---------FIQQNAKDV 677
Cdd:PLN03237 606 ----SIKYYKGLGTSTAKEGKEYFKNLGKhkKDFVWEDEQDGDAIELAFS---KKKIEARKNwlrqyepgtHLDQTQKDV 678
|
....
gi 2415991308 678 RFLD 681
Cdd:PLN03237 679 KYSD 682
|
|
| TopoII_MutL_Trans |
cd00329 |
MutL_Trans: transducer domain, having a ribosomal S5 domain 2-like fold, conserved in the ... |
260-383 |
1.63e-18 |
|
MutL_Trans: transducer domain, having a ribosomal S5 domain 2-like fold, conserved in the C-terminal domain of type II DNA topoisomerases (Topo II) and DNA mismatch repair (MutL/MLH1/PMS2) proteins. This transducer domain is homologous to the second domain of the DNA gyrase B subunit, which is known to be important in nucleotide hydrolysis and the transduction of structural signals from ATP-binding site to the DNA breakage/reunion regions of the enzymes. The GyrB dimerizes in response to ATP binding, and is homologous to the N-terminal half of eukaryotic Topo II and the ATPase fragment of MutL. Type II DNA topoisomerases catalyze the ATP-dependent transport of one DNA duplex through another, in the process generating transient double strand breaks via covalent attachments to both DNA strands at the 5' positions. Included in this group are proteins similar to human MLH1 and PMS2. MLH1 forms a heterodimer with PMS2 which functions in meiosis and in DNA mismatch repair (MMR). Cells lacking either hMLH1 or hPMS2 have a strong mutator phenotype and display microsatellite instability (MSI). Mutation in hMLH1 accounts for a large fraction of Lynch syndrome (HNPCC) families.
Pssm-ID: 238202 [Multi-domain] Cd Length: 107 Bit Score: 81.15 E-value: 1.63e-18
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415991308 260 LLDYVKHLNSGKkvdvVHEDVIAFETEDTErhIALEMAMQWTN---AYSESVHTYANTINTHEGGTHEEGFRAAMTSLIN 336
Cdd:cd00329 1 LKDRLAEILGDK----VADKLIYVEGESDG--FRVEGAISYPDsgrSSKDRQFSFVNGRPVREGGTHVKAVREAYTRALN 74
|
90 100 110 120 130
....*....|....*....|....*....|....*....|....*....|
gi 2415991308 337 ryarekniikekednltGDDIREGLTAVISVKL--SEPQFE-GQTKTKLG 383
Cdd:cd00329 75 -----------------GDDVRRYPVAVLSLKIppSLVDVNvHPTKEEVR 107
|
|
| TOPRIM_TopoIIA |
cd03365 |
TOPRIM_TopoIIA: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the ... |
460-555 |
1.97e-18 |
|
TOPRIM_TopoIIA: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in proteins of the type IIA family of DNA topoisomerases similar to Saccharomyces cerevisiae Topoisomerase II. TopoIIA enzymes cut both strands of the duplex DNA to remove (relax) both positive and negative supercoils in DNA. These enzymes covalently attach to the 5' ends of the cut DNA, separate the free ends of the cleaved strands, pass another region of the duplex through this gap, then rejoin the ends. These proteins also catenate/ decatenate duplex rings. The TOPRIM domain has two conserved motifs, one of which centers at a conserved glutamate and the other one at two conserved aspartates (DxD). This glutamate and two aspartates, cluster together to form a highly acid surface patch. The conserved glutamate may act as a general base in strand joining and as a general acid in strand cleavage by topisomerases. The DXD motif may co-ordinate Mg2+, a cofactor required for full catalytic function.
Pssm-ID: 173785 [Multi-domain] Cd Length: 120 Bit Score: 81.58 E-value: 1.97e-18
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415991308 460 CEVYIVEGDSAGGSAKRGRN---PETQAILPLRGKILNVERARLDKALGNAEVQSMITAFGTGIGEDF--DIAKLRYHKI 534
Cdd:cd03365 1 CTLILTEGDSAKALAVAGLSvvgRDYYGVFPLRGKLLNVREASHKQIMENAEIQNIKKILGLQHGKSDyeSTKSLRYGRL 80
|
90 100
....*....|....*....|.
gi 2415991308 535 VLMADADVDGQHITTLLMTLL 555
Cdd:cd03365 81 MIMTDQDHDGSHIKGLLINFI 101
|
|
| Toprim |
pfam01751 |
Toprim domain; This is a conserved region from DNA primase. This corresponds to the Toprim ... |
461-573 |
7.07e-16 |
|
Toprim domain; This is a conserved region from DNA primase. This corresponds to the Toprim domain common to DnaG primases, topoisomerases, OLD family nucleases and RecR proteins. Both DnaG motifs IV and V are present in the alignment, the DxD (V) motif may be involved in Mg2+ binding and mutations to the conserved glutamate (IV) completely abolish DnaG type primase activity. DNA primase EC:2.7.7.6 is a nucleotidyltransferase it synthesizes the oligoribonucleotide primers required for DNA replication on the lagging strand of the replication fork; it can also prime the leading stand and has been implicated in cell division. This family also includes the atypical archaeal A subunit from type II DNA topoisomerases. Type II DNA topoisomerases catalyze the relaxation of DNA supercoiling by causing transient double strand breaks.
Pssm-ID: 396354 [Multi-domain] Cd Length: 93 Bit Score: 73.16 E-value: 7.07e-16
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415991308 461 EVYIVEGDSAGGSAKRGRNPETQAILPLRGKILNVERARLDKALGNaevqsmitafgtgigedFDIAKLRYHKIVLMADA 540
Cdd:pfam01751 1 ELIIVEGPSDAIALEKALGGGFQAVVAVLGHLLSLEKGPKKKALKA-----------------LKELALKAKEVILATDP 63
|
90 100 110
....*....|....*....|....*....|....*
gi 2415991308 541 DVDGQHITTLLMTllfryMRPLIEN--GYVYLAQP 573
Cdd:pfam01751 64 DREGEAIALKLLE-----LKELLENagGRVEFSEL 93
|
|
| HATPase_c |
pfam02518 |
Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; This family represents the ... |
46-163 |
1.96e-13 |
|
Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; This family represents the structurally related ATPase domains of histidine kinase, DNA gyrase B and HSP90.
Pssm-ID: 460579 [Multi-domain] Cd Length: 109 Bit Score: 67.01 E-value: 1.96e-13
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415991308 46 PRGLHHLVYEVVDNSVDEAlaGYCTHIEIVLQADGG--VKVVDNGRGIPVDMHPTEHKPTVEVVMTilhaggkfggggya 123
Cdd:pfam02518 3 ELRLRQVLSNLLDNALKHA--AKAGEITVTLSEGGEltLTVEDNGIGIPPEDLPRIFEPFSTADKR-------------- 66
|
90 100 110 120
....*....|....*....|....*....|....*....|
gi 2415991308 124 vSGGLHGVGISVVNALSSRVdtevrrQGHVWRMSFADGGK 163
Cdd:pfam02518 67 -GGGGTGLGLSIVRKLVELL------GGTITVESEPGGGT 99
|
|
| HATPase_c |
smart00387 |
Histidine kinase-like ATPases; Histidine kinase-, DNA gyrase B-, phytochrome-like ATPases. |
46-162 |
3.00e-09 |
|
Histidine kinase-like ATPases; Histidine kinase-, DNA gyrase B-, phytochrome-like ATPases.
Pssm-ID: 214643 [Multi-domain] Cd Length: 111 Bit Score: 54.96 E-value: 3.00e-09
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415991308 46 PRGLHHLVYEVVDNSVDEALAGycTHIEIVLQADGG---VKVVDNGRGIPvdmhptehkptVEVVMTILHAGGKFGGGGY 122
Cdd:smart00387 3 PDRLRQVLSNLLDNAIKYTPEG--GRITVTLERDGDhveITVEDNGPGIP-----------PEDLEKIFEPFFRTDKRSR 69
|
90 100 110 120
....*....|....*....|....*....|....*....|
gi 2415991308 123 AVSGglHGVGISVVNALSSRVdtevrrQGHVWRMSFADGG 162
Cdd:smart00387 70 KIGG--TGLGLSIVKKLVELH------GGEISVESEPGGG 101
|
|
| TOPRIM |
cd00188 |
Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type ... |
460-558 |
5.58e-06 |
|
Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from bacterial and archaea, and bacterial DNA repair proteins of the RecR/M family. This domain has two conserved motifs, one of which centers at a conserved glutamate and the other one at two conserved aspartates (DxD). This glutamate and two aspartates, cluster together to form a highly acid surface patch. The conserved glutamate may act as a general base in nucleotide polymerization by primases and in strand joining in topoisomerases and, as a general acid in strand cleavage by topisomerases and nucleases. The DXD motif may co-ordinate Mg2+, a cofactor required for full catalytic function.
Pssm-ID: 173773 [Multi-domain] Cd Length: 83 Bit Score: 44.73 E-value: 5.58e-06
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415991308 460 CEVYIVEGDSAGGSAKRGRNPEtQAILPLRGKILNVERARLDKALGnaevqsmitafgtgigedfdiaklRYHKIVLMAD 539
Cdd:cd00188 1 KKLIIVEGPSDALALAQAGGYG-GAVVALGGHALNKTRELLKRLLG------------------------EAKEVIIATD 55
|
90
....*....|....*....
gi 2415991308 540 ADVDGQHITTLLMTLLFRY 558
Cdd:cd00188 56 ADREGEAIALRLLELLKSL 74
|
|
| HATPase |
cd00075 |
Histidine kinase-like ATPase domain; This superfamily includes the histidine kinase-like ... |
49-97 |
1.02e-03 |
|
Histidine kinase-like ATPase domain; This superfamily includes the histidine kinase-like ATPase (HATPase) domains of several ATP-binding proteins such as histidine kinase, DNA gyrase B, topoisomerases, heat shock protein 90 (HSP90), phytochrome-like ATPases and DNA mismatch repair proteins. Domains belonging to this superfamily are also referred to as GHKL (gyrase, heat-shock protein 90, histidine kinase, MutL) ATPase domains.
Pssm-ID: 340391 [Multi-domain] Cd Length: 102 Bit Score: 39.12 E-value: 1.02e-03
10 20 30 40 50
....*....|....*....|....*....|....*....|....*....|..
gi 2415991308 49 LHHLVYEVVDNSVDEALAGycTHIEIVLQADGG---VKVVDNGRGIPVDMHP 97
Cdd:cd00075 1 LEQVLSNLLDNALKYSPPG--GTIEISLRQEGDgvvLEVEDNGPGIPEEDLE 50
|
|
| MutL |
COG0323 |
DNA mismatch repair ATPase MutL [Replication, recombination and repair]; |
55-94 |
2.59e-03 |
|
DNA mismatch repair ATPase MutL [Replication, recombination and repair];
Pssm-ID: 440092 [Multi-domain] Cd Length: 515 Bit Score: 40.80 E-value: 2.59e-03
10 20 30 40
....*....|....*....|....*....|....*....|...
gi 2415991308 55 EVVDNSVDealAGyCTHIEIVLQaDGGVK---VVDNGRGIPVD 94
Cdd:COG0323 30 ELVENAID---AG-ATRIEVEIE-EGGKSlirVTDNGCGMSPE 67
|
|
| mutL |
PRK00095 |
DNA mismatch repair endonuclease MutL; |
53-94 |
8.24e-03 |
|
DNA mismatch repair endonuclease MutL;
Pssm-ID: 234630 [Multi-domain] Cd Length: 617 Bit Score: 39.43 E-value: 8.24e-03
10 20 30 40
....*....|....*....|....*....|....*....|....*
gi 2415991308 53 VYEVVDNSVDealAGyCTHIEIVLQaDGGVK---VVDNGRGIPVD 94
Cdd:PRK00095 27 VKELVENALD---AG-ATRIDIEIE-EGGLKlirVRDNGCGISKE 66
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