|
Name |
Accession |
Description |
Interval |
E-value |
| parE_Gneg |
TIGR01055 |
DNA topoisomerase IV, B subunit, proteobacterial; Operationally, topoisomerase IV is a type II ... |
2-626 |
0e+00 |
|
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: 1245.58 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446117441 2 TQTYNADAIEVLTGLEPVRRRPGMYTDTTRPNHLGQEVIDNSVDEALAGHAKRVDVILHADQSLEVIDDGRGMPVDIHPE 81
Cdd:TIGR01055 1 TTNYSAKDIEVLDGLEPVRKRPGMYTDTTRPNHLVQEVIDNSVDEALAGFASIIMVILHQDQSIEVFDNGRGMPVDIHPK 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446117441 82 EGVPAVELILCRLHAGGKFSNKNYQFSGGLHGVGISVVNALSKRVEVNVRRDGQVYNIAFENGEKVQDLQVVGTCGKRNT 161
Cdd:TIGR01055 81 EGVSAVEVILTTLHAGGKFSNKNYHFSGGLHGVGISVVNALSKRVKIKVYRQGKLYSIAFENGAKVTDLISAGTCGKRLT 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446117441 162 GTSVHFWPDETFFDSPRFSVSRLTHVLKAKAVLCPGVEITFKDEINNTEQRWCYQDGLNDYLAEAVNGLPTLPEKPFIGN 241
Cdd:TIGR01055 161 GTSVHFTPDPEIFDSLHFSVSRLYHILRAKAVLCRGVEIEFEDEVNNTKALWNYPDGLKDYLSEAVNGDNTLPPKPFSGN 240
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446117441 242 FAGDTEAVDWALLWLPEGGELLTESYVNLIPTMQGGTHVNGLRQGLLDAMREFCEYRNILPRGVKLSAEDIWDRCAYVLS 321
Cdd:TIGR01055 241 FEGDDEAVEWALLWLPEGGELFMESYVNLIPTPQGGTHVNGLRQGLLDALREFCEMRNNLPRGVKLTAEDIWDRCSYVLS 320
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446117441 322 VKMQDPQFAGQTKERLSSRQCAAFVSGVVKDAFILWLNQNVQAAELLAEMAISSAQRRMRAAKKVVRKKLTSGPALPGKL 401
Cdd:TIGR01055 321 IKMQDPQFAGQTKERLSSRQVAKFVSGVIKDAFDLWLNQNVQLAEHLAEHAISSAQRRKRAAKKVVRKKLTSGPALPGKL 400
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446117441 402 ADCTAQDLNRTELFLVEGDSAGGSAKQARDREYQAIMPLKGKILNTWEVSSDEVLASQEVHDISVAIGIDPDSDDLSQLR 481
Cdd:TIGR01055 401 ADCTRQDLEGTELFLVEGDSAGGSAKQARDREYQAILPLWGKILNTWEVSLDKVLNSQEIHDIEVALGIDPDSNDLSQLR 480
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446117441 482 YGKICILADADSDGLHIATLLCALFVKHFRALVKHGHVYVALPPLYRIDLGKEVYYALTEEEKEGVLEQLKRKKGKPNVQ 561
Cdd:TIGR01055 481 YGKICILADADSDGLHIATLLCALFFLHFPKLVEEGHVYVAKPPLYRIDLSKEVYYALDEEEKEKLLYKLKKKKGKPNVQ 560
|
570 580 590 600 610 620
....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 446117441 562 RFKGLGEMNPMQLRETTLDPNTRRLVQLTIDDEDDQRTDAMMDMLLAKKRSEDRRNWLQEKGDMA 626
Cdd:TIGR01055 561 RFKGLGEMNPAQLRETTMDPNTRRLVQLTLDDVQDQRVDKIMDMLLAKKRSEDRFNWLQEKGDQI 625
|
|
| PRK05559 |
PRK05559 |
DNA topoisomerase IV subunit B; Reviewed |
1-629 |
0e+00 |
|
DNA topoisomerase IV subunit B; Reviewed
Pssm-ID: 235501 [Multi-domain] Cd Length: 631 Bit Score: 1185.67 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446117441 1 MTQTYNADAIEVLTGLEPVRRRPGMY---TDTTRPNHLGQEVIDNSVDEALAGHAKRVDVILHADQSLEVIDDGRGMPVD 77
Cdd:PRK05559 4 MTNNYNADSIEVLEGLEPVRKRPGMYigsTDTRGLHHLVQEVIDNSVDEALAGHGKRIEVTLHADGSVSVRDNGRGIPVG 83
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446117441 78 IHPEEGVPAVELILCRLHAGGKFSNKNYQFSGGLHGVGISVVNALSKRVEVNVRRDGQVYNIAFENGEKVQDLQVVGTCG 157
Cdd:PRK05559 84 IHPEEGKSGVEVILTKLHAGGKFSNKAYKFSGGLHGVGVSVVNALSSRLEVEVKRDGKVYRQRFEGGDPVGPLEVVGTAG 163
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446117441 158 KRNTGTSVHFWPDETFFDSPRFSVSRLTHVLKAKAVLCPGVEITFKDEInnTEQRWCYQDGLNDYLAEAVNGLPTLPEkP 237
Cdd:PRK05559 164 KRKTGTRVRFWPDPKIFDSPKFSPERLKERLRSKAFLLPGLTITLNDER--ERQTFHYENGLKDYLAELNEGKETLPE-E 240
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446117441 238 FIGNFAGD--TEAVDWALLWLPEGGELLtESYVNLIPTMQGGTHVNGLRQGLLDAMREFCEYRNILPRGVKLSAEDIWDR 315
Cdd:PRK05559 241 FVGSFEGEaeGEAVEWALQWTDEGGENI-ESYVNLIPTPQGGTHENGFREGLLKAVREFAEKRNLLPKGKKLEGEDVREG 319
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446117441 316 CAYVLSVKMQDPQFAGQTKERLSSRQCAAFVSGVVKDAFILWLNQNVQAAELLAEMAISSAQRRMRAAKKVVRKKLTSGP 395
Cdd:PRK05559 320 LAAVLSVKIPEPQFEGQTKEKLGSREARRFVSGVVKDAFDLWLNQNPELAEKLAEKAIKAAQARLRAAKKVKRKKKTSGP 399
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446117441 396 ALPGKLADCTAQDLNRTELFLVEGDSAGGSAKQARDREYQAIMPLKGKILNTWEVSSDEVLASQEVHDISVAIGIDP-DS 474
Cdd:PRK05559 400 ALPGKLADCTSQDPERTELFLVEGDSAGGSAKQARDREFQAILPLRGKILNTWEASLDDVLANEEIHDIIVAIGIGPgDS 479
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446117441 475 DDLSQLRYGKICILADADSDGLHIATLLCALFVKHFRALVKHGHVYVALPPLYRIDLGKEVYYALTEEEKEGVLEQLKRK 554
Cdd:PRK05559 480 FDLEDLRYGKIIIMTDADVDGAHIATLLLTFFYRHFPPLVEAGHVYIALPPLYRVDKGKKKIYALDEEEKEELLKKLGKK 559
|
570 580 590 600 610 620 630
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 446117441 555 KGKPNVQRFKGLGEMNPMQLRETTLDPNTRRLVQLTIDDEDdqRTDAMMDMLLAKKrSEDRRNWLQEKGDMAEIE 629
Cdd:PRK05559 560 GGKPEIQRFKGLGEMNPDQLWETTMDPETRRLVRVTIDDAE--ETEKLVDMLMGKK-AEPRREWIEENGDFAEEE 631
|
|
| GyrB |
COG0187 |
DNA gyrase/topoisomerase IV, subunit B [Replication, recombination and repair]; |
1-627 |
0e+00 |
|
DNA gyrase/topoisomerase IV, subunit B [Replication, recombination and repair];
Pssm-ID: 439957 [Multi-domain] Cd Length: 635 Bit Score: 813.11 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446117441 1 MTQTYNADAIEVLTGLEPVRRRPGMY---TDTTRPNHLGQEVIDNSVDEALAGHAKRVDVILHADQSLEVIDDGRGMPVD 77
Cdd:COG0187 2 KKSNYDASSIQVLEGLEAVRKRPGMYigsTDERGLHHLVWEIVDNSIDEALAGYCDRIEVTLHADGSVTVEDNGRGIPVD 81
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446117441 78 IHPEEGVPAVELILCRLHAGGKFSNKNYQFSGGLHGVGISVVNALSKRVEVNVRRDGQVYNIAFENGEKVQDLQVVGTCG 157
Cdd:COG0187 82 IHPKEGKSALEVVLTVLHAGGKFDGGSYKVSGGLHGVGASVVNALSERLEVEVKRDGKIYRQRFERGKPVGPLEKIGKTD 161
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446117441 158 KrnTGTSVHFWPDETFFDSPRFSVSRLTHVLKAKAVLCPGVEITFKDEINNT--EQRWCYQDGLNDYLAEAVNGLPTLPE 235
Cdd:COG0187 162 R--TGTTVRFKPDPEIFETTEFDYETLAERLRELAFLNKGLTITLTDEREEEpkEETFHYEGGIKDFVEYLNEDKEPLHP 239
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446117441 236 KPFigNFAGDTE--AVDWALLWLPEGGELLtESYVNLIPTMQGGTHVNGLRQGLLDAMREFCEYRNILP-RGVKLSAEDI 312
Cdd:COG0187 240 EVI--YFEGEKDgiEVEVALQWNDGYSENI-HSFVNNINTPEGGTHETGFRTALTRVINDYARKNGLLKeKDKNLTGDDV 316
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446117441 313 WDRCAYVLSVKMQDPQFAGQTKERLSSRQCAAFVSGVVKDAFILWLNQNVQAAELLAEMAISSAQRRMRA--AKKVVRKK 390
Cdd:COG0187 317 REGLTAVISVKLPEPQFEGQTKTKLGNSEARGIVESVVSEKLEHYLEENPAEAKKILEKAILAARAREAArkARELVRRK 396
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446117441 391 -LTSGPALPGKLADCTAQDLNRTELFLVEGDSAGGSAKQARDREYQAIMPLKGKILNTWEVSSDEVLASQEVHDISVAIG 469
Cdd:COG0187 397 sALESSGLPGKLADCSSKDPEESELFIVEGDSAGGSAKQGRDREFQAILPLRGKILNVEKARLDKILKNEEIRDLITALG 476
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446117441 470 IDPDSD-DLSQLRYGKICILADADSDGLHIATLLCALFVKHFRALVKHGHVYVALPPLYRIDLGKEVYYALTEEEKEGVL 548
Cdd:COG0187 477 TGIGDDfDLEKLRYHKIIIMTDADVDGAHIRTLLLTFFYRYMRPLIEAGHVYIAQPPLYRIKKGKKTYYAYSDAELDELL 556
|
570 580 590 600 610 620 630
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 446117441 549 EQLKRKKgKPNVQRFKGLGEMNPMQLRETTLDPNTRRLVQLTIDDEddQRTDAMMDMLLAKKrSEDRRNWLQEKGDMAE 627
Cdd:COG0187 557 KELKGKK-KVEIQRYKGLGEMNPEQLWETTMDPETRTLLQVTIEDA--AEADEIFSLLMGDK-VEPRREFIEENAKFVR 631
|
|
| TOP2c |
smart00433 |
TopoisomeraseII; Eukaryotic DNA topoisomerase II, GyrB, ParE |
34-621 |
0e+00 |
|
TopoisomeraseII; Eukaryotic DNA topoisomerase II, GyrB, ParE
Pssm-ID: 214659 [Multi-domain] Cd Length: 594 Bit Score: 638.83 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446117441 34 HLGQEVIDNSVDEALAGHAKRVDVILHADQSLEVIDDGRGMPVDIHPEEGVPAVELILCRLHAGGKFSNKNYQFSGGLHG 113
Cdd:smart00433 4 HLVDEIVDNAADEALAGYMDTIKVTIDKDNSISVEDNGRGIPVEIHPKEKKYAPEVIFTVLHAGGKFDDDAYKVSGGLHG 83
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446117441 114 VGISVVNALSKRVEVNVRRDGQVYNIAFE-NGEKVQDLQVVGTCGKrnTGTSVHFWPDETFFD-SPRFSVSRLTHVLKAK 191
Cdd:smart00433 84 VGASVVNALSTEFEVEVARDGKEYKQSFSnNGKPLSEPKIIGDTKK--DGTKVTFKPDLEIFGmTTDDDFELLKRRLREL 161
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446117441 192 AVLCPGVEITFKDEINNTEQRWCYQDGLNDYLAEAVNGLPTLPEKPFIGNFAGDTEAVDWALLWLPEGGELLTeSYVNLI 271
Cdd:smart00433 162 AFLNKGVKITLNDERSDEEKTFLFEGGIKDYVELLNKNKELLSPEPTYIEGEKDNIRVEVAFQYTDGYSENIV-SFVNNI 240
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446117441 272 PTMQGGTHVNGLRQGLLDAMREFCEYRNILpRGVKLSAEDIWDRCAYVLSVKMQDPQFAGQTKERLSSRQCAAFVSGVVK 351
Cdd:smart00433 241 ATTEGGTHENGFKDALTRVINEYAKKKKKL-KEKNIKGEDVREGLTAFISVKIPEPQFEGQTKEKLGTSEVRFGVEKIVS 319
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446117441 352 DAFILWLNQNVQAAELLAEMAISSAQRRMRA--AKKVVRKKLTSGPALPGKLADCTAQDLNRTELFLVEGDSAGGSAKQA 429
Cdd:smart00433 320 ECLLSFLEENPVEASKIVEKVLLAAKARAAAkkARELTRKKKLSSISLPGKLADASSAGPKKCELFLVEGDSAGGSAKSG 399
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446117441 430 RDREYQAIMPLKGKILNTWEVSSDEVLASQEVHDISVAIGIDPDSD-DLSQLRYGKICILADADSDGLHIATLLCALFVK 508
Cdd:smart00433 400 RDRDFQAILPLRGKILNVEKASLDKILKNEEIQALITALGLGIGKDfDIEKLRYGKIIIMTDADVDGSHIKGLLLTFFYR 479
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446117441 509 HFRALVKHGHVYVALPPLYRIDLGK--EVYYALTEEEKEGVLEQLKRKKGKPNVQRFKGLGEMNPMQLRETTLDPNTRRL 586
Cdd:smart00433 480 YMPPLIEAGFVYIAIPPLYKVTKGKkkYVYSFYSLDEYEKWLEKTEGNKSKYEIQRYKGLGEMNADQLWETTMDPERRTL 559
|
570 580 590
....*....|....*....|....*....|....*
gi 446117441 587 VQLTIDDEDDQRTdamMDMLLAKKRSEDRRNWLQE 621
Cdd:smart00433 560 LFVTLDDADEADL---IFSALMGDKVEPRKEWIEE 591
|
|
| HATPase_GyrB-like |
cd16928 |
Histidine kinase-like ATPase domain of the B subunit of DNA gyrase; This family includes ... |
32-211 |
1.79e-95 |
|
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: 290.59 E-value: 1.79e-95
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446117441 32 PNHLGQEVIDNSVDEALAGHAKRVDVILHADQSLEVIDDGRGMPVDIHPEEGVPAVELILCRLHAGGKFSNKNYQFSGGL 111
Cdd:cd16928 1 LHHLVWEIVDNSIDEALAGYATEIEVTLHEDNSITVEDNGRGIPVDIHPKTGKSAVEVVLTVLHAGGKFDGGSYKVSGGL 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446117441 112 HGVGISVVNALSKRVEVNVRRDGQVYNIAFENGEKVQDLQVVGTCGKrnTGTSVHFWPDETFFDSPRFSVSRLTHVLKAK 191
Cdd:cd16928 81 HGVGVSVVNALSERLEVEVKRDGKIYRQEFSRGGPLTPLEVIGETKK--TGTTVRFWPDPEIFEKTEFDFDTLKRRLREL 158
|
170 180
....*....|....*....|
gi 446117441 192 AVLCPGVEITFKDEINNTEQ 211
Cdd:cd16928 159 AFLNKGLKIVLEDERTGKEE 178
|
|
| DNA_gyraseB |
pfam00204 |
DNA gyrase B; This family represents the second domain of DNA gyrase B which has a ribosomal ... |
218-384 |
4.19e-46 |
|
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: 160.86 E-value: 4.19e-46
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446117441 218 GLNDYLAEAVNGLPTLPEKP--FIGNFAGDTEAVDWALLWLPEGGELLtESYVNLIPTMQGGTHVNGLRQGLLDAMREFC 295
Cdd:pfam00204 1 GLKDFVEELNKDKKPLHKEIiyFEGESPDNRIEVEVALQWTDSYSENI-LSFVNNIATPEGGTHVDGFKSALTRTINEYA 79
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446117441 296 EYRNILPRGV-KLSAEDIWDRCAYVLSVKMQDPQFAGQTKERLSSRQCAAFVSGVVKDAFILWLNQNVQAAELLAEMAIS 374
Cdd:pfam00204 80 KKKGLLKKKDeKITGEDIREGLTAVVSVKIPDPQFEGQTKEKLGNPEVKSAVEKIVSEKLEEFLEENPEIAKKILEKALQ 159
|
170
....*....|
gi 446117441 375 SAQRRMRAAK 384
Cdd:pfam00204 160 AAKARLAARK 169
|
|
| |
|
Name |
Accession |
Description |
Interval |
E-value |
| parE_Gneg |
TIGR01055 |
DNA topoisomerase IV, B subunit, proteobacterial; Operationally, topoisomerase IV is a type II ... |
2-626 |
0e+00 |
|
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: 1245.58 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446117441 2 TQTYNADAIEVLTGLEPVRRRPGMYTDTTRPNHLGQEVIDNSVDEALAGHAKRVDVILHADQSLEVIDDGRGMPVDIHPE 81
Cdd:TIGR01055 1 TTNYSAKDIEVLDGLEPVRKRPGMYTDTTRPNHLVQEVIDNSVDEALAGFASIIMVILHQDQSIEVFDNGRGMPVDIHPK 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446117441 82 EGVPAVELILCRLHAGGKFSNKNYQFSGGLHGVGISVVNALSKRVEVNVRRDGQVYNIAFENGEKVQDLQVVGTCGKRNT 161
Cdd:TIGR01055 81 EGVSAVEVILTTLHAGGKFSNKNYHFSGGLHGVGISVVNALSKRVKIKVYRQGKLYSIAFENGAKVTDLISAGTCGKRLT 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446117441 162 GTSVHFWPDETFFDSPRFSVSRLTHVLKAKAVLCPGVEITFKDEINNTEQRWCYQDGLNDYLAEAVNGLPTLPEKPFIGN 241
Cdd:TIGR01055 161 GTSVHFTPDPEIFDSLHFSVSRLYHILRAKAVLCRGVEIEFEDEVNNTKALWNYPDGLKDYLSEAVNGDNTLPPKPFSGN 240
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446117441 242 FAGDTEAVDWALLWLPEGGELLTESYVNLIPTMQGGTHVNGLRQGLLDAMREFCEYRNILPRGVKLSAEDIWDRCAYVLS 321
Cdd:TIGR01055 241 FEGDDEAVEWALLWLPEGGELFMESYVNLIPTPQGGTHVNGLRQGLLDALREFCEMRNNLPRGVKLTAEDIWDRCSYVLS 320
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446117441 322 VKMQDPQFAGQTKERLSSRQCAAFVSGVVKDAFILWLNQNVQAAELLAEMAISSAQRRMRAAKKVVRKKLTSGPALPGKL 401
Cdd:TIGR01055 321 IKMQDPQFAGQTKERLSSRQVAKFVSGVIKDAFDLWLNQNVQLAEHLAEHAISSAQRRKRAAKKVVRKKLTSGPALPGKL 400
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446117441 402 ADCTAQDLNRTELFLVEGDSAGGSAKQARDREYQAIMPLKGKILNTWEVSSDEVLASQEVHDISVAIGIDPDSDDLSQLR 481
Cdd:TIGR01055 401 ADCTRQDLEGTELFLVEGDSAGGSAKQARDREYQAILPLWGKILNTWEVSLDKVLNSQEIHDIEVALGIDPDSNDLSQLR 480
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446117441 482 YGKICILADADSDGLHIATLLCALFVKHFRALVKHGHVYVALPPLYRIDLGKEVYYALTEEEKEGVLEQLKRKKGKPNVQ 561
Cdd:TIGR01055 481 YGKICILADADSDGLHIATLLCALFFLHFPKLVEEGHVYVAKPPLYRIDLSKEVYYALDEEEKEKLLYKLKKKKGKPNVQ 560
|
570 580 590 600 610 620
....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 446117441 562 RFKGLGEMNPMQLRETTLDPNTRRLVQLTIDDEDDQRTDAMMDMLLAKKRSEDRRNWLQEKGDMA 626
Cdd:TIGR01055 561 RFKGLGEMNPAQLRETTMDPNTRRLVQLTLDDVQDQRVDKIMDMLLAKKRSEDRFNWLQEKGDQI 625
|
|
| PRK05559 |
PRK05559 |
DNA topoisomerase IV subunit B; Reviewed |
1-629 |
0e+00 |
|
DNA topoisomerase IV subunit B; Reviewed
Pssm-ID: 235501 [Multi-domain] Cd Length: 631 Bit Score: 1185.67 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446117441 1 MTQTYNADAIEVLTGLEPVRRRPGMY---TDTTRPNHLGQEVIDNSVDEALAGHAKRVDVILHADQSLEVIDDGRGMPVD 77
Cdd:PRK05559 4 MTNNYNADSIEVLEGLEPVRKRPGMYigsTDTRGLHHLVQEVIDNSVDEALAGHGKRIEVTLHADGSVSVRDNGRGIPVG 83
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446117441 78 IHPEEGVPAVELILCRLHAGGKFSNKNYQFSGGLHGVGISVVNALSKRVEVNVRRDGQVYNIAFENGEKVQDLQVVGTCG 157
Cdd:PRK05559 84 IHPEEGKSGVEVILTKLHAGGKFSNKAYKFSGGLHGVGVSVVNALSSRLEVEVKRDGKVYRQRFEGGDPVGPLEVVGTAG 163
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446117441 158 KRNTGTSVHFWPDETFFDSPRFSVSRLTHVLKAKAVLCPGVEITFKDEInnTEQRWCYQDGLNDYLAEAVNGLPTLPEkP 237
Cdd:PRK05559 164 KRKTGTRVRFWPDPKIFDSPKFSPERLKERLRSKAFLLPGLTITLNDER--ERQTFHYENGLKDYLAELNEGKETLPE-E 240
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446117441 238 FIGNFAGD--TEAVDWALLWLPEGGELLtESYVNLIPTMQGGTHVNGLRQGLLDAMREFCEYRNILPRGVKLSAEDIWDR 315
Cdd:PRK05559 241 FVGSFEGEaeGEAVEWALQWTDEGGENI-ESYVNLIPTPQGGTHENGFREGLLKAVREFAEKRNLLPKGKKLEGEDVREG 319
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446117441 316 CAYVLSVKMQDPQFAGQTKERLSSRQCAAFVSGVVKDAFILWLNQNVQAAELLAEMAISSAQRRMRAAKKVVRKKLTSGP 395
Cdd:PRK05559 320 LAAVLSVKIPEPQFEGQTKEKLGSREARRFVSGVVKDAFDLWLNQNPELAEKLAEKAIKAAQARLRAAKKVKRKKKTSGP 399
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446117441 396 ALPGKLADCTAQDLNRTELFLVEGDSAGGSAKQARDREYQAIMPLKGKILNTWEVSSDEVLASQEVHDISVAIGIDP-DS 474
Cdd:PRK05559 400 ALPGKLADCTSQDPERTELFLVEGDSAGGSAKQARDREFQAILPLRGKILNTWEASLDDVLANEEIHDIIVAIGIGPgDS 479
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446117441 475 DDLSQLRYGKICILADADSDGLHIATLLCALFVKHFRALVKHGHVYVALPPLYRIDLGKEVYYALTEEEKEGVLEQLKRK 554
Cdd:PRK05559 480 FDLEDLRYGKIIIMTDADVDGAHIATLLLTFFYRHFPPLVEAGHVYIALPPLYRVDKGKKKIYALDEEEKEELLKKLGKK 559
|
570 580 590 600 610 620 630
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 446117441 555 KGKPNVQRFKGLGEMNPMQLRETTLDPNTRRLVQLTIDDEDdqRTDAMMDMLLAKKrSEDRRNWLQEKGDMAEIE 629
Cdd:PRK05559 560 GGKPEIQRFKGLGEMNPDQLWETTMDPETRRLVRVTIDDAE--ETEKLVDMLMGKK-AEPRREWIEENGDFAEEE 631
|
|
| GyrB |
COG0187 |
DNA gyrase/topoisomerase IV, subunit B [Replication, recombination and repair]; |
1-627 |
0e+00 |
|
DNA gyrase/topoisomerase IV, subunit B [Replication, recombination and repair];
Pssm-ID: 439957 [Multi-domain] Cd Length: 635 Bit Score: 813.11 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446117441 1 MTQTYNADAIEVLTGLEPVRRRPGMY---TDTTRPNHLGQEVIDNSVDEALAGHAKRVDVILHADQSLEVIDDGRGMPVD 77
Cdd:COG0187 2 KKSNYDASSIQVLEGLEAVRKRPGMYigsTDERGLHHLVWEIVDNSIDEALAGYCDRIEVTLHADGSVTVEDNGRGIPVD 81
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446117441 78 IHPEEGVPAVELILCRLHAGGKFSNKNYQFSGGLHGVGISVVNALSKRVEVNVRRDGQVYNIAFENGEKVQDLQVVGTCG 157
Cdd:COG0187 82 IHPKEGKSALEVVLTVLHAGGKFDGGSYKVSGGLHGVGASVVNALSERLEVEVKRDGKIYRQRFERGKPVGPLEKIGKTD 161
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446117441 158 KrnTGTSVHFWPDETFFDSPRFSVSRLTHVLKAKAVLCPGVEITFKDEINNT--EQRWCYQDGLNDYLAEAVNGLPTLPE 235
Cdd:COG0187 162 R--TGTTVRFKPDPEIFETTEFDYETLAERLRELAFLNKGLTITLTDEREEEpkEETFHYEGGIKDFVEYLNEDKEPLHP 239
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446117441 236 KPFigNFAGDTE--AVDWALLWLPEGGELLtESYVNLIPTMQGGTHVNGLRQGLLDAMREFCEYRNILP-RGVKLSAEDI 312
Cdd:COG0187 240 EVI--YFEGEKDgiEVEVALQWNDGYSENI-HSFVNNINTPEGGTHETGFRTALTRVINDYARKNGLLKeKDKNLTGDDV 316
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446117441 313 WDRCAYVLSVKMQDPQFAGQTKERLSSRQCAAFVSGVVKDAFILWLNQNVQAAELLAEMAISSAQRRMRA--AKKVVRKK 390
Cdd:COG0187 317 REGLTAVISVKLPEPQFEGQTKTKLGNSEARGIVESVVSEKLEHYLEENPAEAKKILEKAILAARAREAArkARELVRRK 396
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446117441 391 -LTSGPALPGKLADCTAQDLNRTELFLVEGDSAGGSAKQARDREYQAIMPLKGKILNTWEVSSDEVLASQEVHDISVAIG 469
Cdd:COG0187 397 sALESSGLPGKLADCSSKDPEESELFIVEGDSAGGSAKQGRDREFQAILPLRGKILNVEKARLDKILKNEEIRDLITALG 476
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446117441 470 IDPDSD-DLSQLRYGKICILADADSDGLHIATLLCALFVKHFRALVKHGHVYVALPPLYRIDLGKEVYYALTEEEKEGVL 548
Cdd:COG0187 477 TGIGDDfDLEKLRYHKIIIMTDADVDGAHIRTLLLTFFYRYMRPLIEAGHVYIAQPPLYRIKKGKKTYYAYSDAELDELL 556
|
570 580 590 600 610 620 630
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 446117441 549 EQLKRKKgKPNVQRFKGLGEMNPMQLRETTLDPNTRRLVQLTIDDEddQRTDAMMDMLLAKKrSEDRRNWLQEKGDMAE 627
Cdd:COG0187 557 KELKGKK-KVEIQRYKGLGEMNPEQLWETTMDPETRTLLQVTIEDA--AEADEIFSLLMGDK-VEPRREFIEENAKFVR 631
|
|
| gyrB |
PRK05644 |
DNA gyrase subunit B; Validated |
1-621 |
0e+00 |
|
DNA gyrase subunit B; Validated
Pssm-ID: 235542 [Multi-domain] Cd Length: 638 Bit Score: 693.38 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446117441 1 MTQTYNADAIEVLTGLEPVRRRPGMYTDTTRPN---HLGQEVIDNSVDEALAGHAKRVDVILHADQSLEVIDDGRGMPVD 77
Cdd:PRK05644 4 KAQEYDASQIQVLEGLEAVRKRPGMYIGSTGERglhHLVYEIVDNSIDEALAGYCDHIEVTINEDGSITVTDNGRGIPVD 83
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446117441 78 IHPEEGVPAVELILCRLHAGGKFSNKNYQFSGGLHGVGISVVNALSKRVEVNVRRDGQVYNIAFENGEKVQDLQVVGTCG 157
Cdd:PRK05644 84 IHPKTGKPAVEVVLTVLHAGGKFGGGGYKVSGGLHGVGVSVVNALSTWLEVEVKRDGKIYYQEYERGVPVTPLEVIGETD 163
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446117441 158 KrnTGTSVHFWPDETFFDSPRFSVSRLTHVLKAKAVLCPGVEITFKDEINNTEQR--WCYQDGLNDYLAEAVNGLPTLPE 235
Cdd:PRK05644 164 E--TGTTVTFKPDPEIFETTEFDYDTLATRLRELAFLNKGLKITLTDEREGEEKEetFHYEGGIKEYVEYLNRNKEPLHE 241
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446117441 236 KPFIGNFAGDTEAVDWALLWlpeggellTESY-------VNLIPTMQGGTHVNGLRQGLLDAMREFCEYRNIL-PRGVKL 307
Cdd:PRK05644 242 EPIYFEGEKDGIEVEVAMQY--------NDGYsenilsfANNINTHEGGTHEEGFKTALTRVINDYARKNKLLkEKDDNL 313
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446117441 308 SAEDIWDRCAYVLSVKMQDPQFAGQTKERLSSRQCAAFVSGVVKDAFILWLNQNVQAAELLAEMAISSAQRRMRA--AKK 385
Cdd:PRK05644 314 TGEDVREGLTAVISVKHPEPQFEGQTKTKLGNSEVRGIVDSVVSEALSEFLEENPNVAKKIVEKAILAARAREAArkARE 393
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446117441 386 VVRKK--LTSGpALPGKLADCTAQDLNRTELFLVEGDSAGGSAKQARDREYQAIMPLKGKILNTWEVSSDEVLASQEVHD 463
Cdd:PRK05644 394 LTRRKsaLESS-SLPGKLADCSSKDPEESELYIVEGDSAGGSAKQGRDRRFQAILPLRGKILNVEKARLDKILKNEEIRA 472
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446117441 464 ISVAIG--IDPDSdDLSQLRYGKICILADADSDGLHIATLLCALFVKHFRALVKHGHVYVALPPLYRIDLGKEVyYALTE 541
Cdd:PRK05644 473 LITALGtgIGDDF-DISKLRYHKIIIMTDADVDGAHIRTLLLTFFYRYMRPLIEAGYVYIAQPPLYKIKKGGKE-YAYSD 550
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446117441 542 EEKEGVLEQLKRKKG-KPNVQRFKGLGEMNPMQLRETTLDPNTRRLVQLTIddEDDQRTDAMMDMLLAKKrSEDRRNWLQ 620
Cdd:PRK05644 551 EELDEILAELKLKGNpKYGIQRYKGLGEMNPEQLWETTMDPETRTLLQVTI--EDAAEADEIFSILMGDD-VEPRREFIE 627
|
.
gi 446117441 621 E 621
Cdd:PRK05644 628 E 628
|
|
| TOP2c |
smart00433 |
TopoisomeraseII; Eukaryotic DNA topoisomerase II, GyrB, ParE |
34-621 |
0e+00 |
|
TopoisomeraseII; Eukaryotic DNA topoisomerase II, GyrB, ParE
Pssm-ID: 214659 [Multi-domain] Cd Length: 594 Bit Score: 638.83 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446117441 34 HLGQEVIDNSVDEALAGHAKRVDVILHADQSLEVIDDGRGMPVDIHPEEGVPAVELILCRLHAGGKFSNKNYQFSGGLHG 113
Cdd:smart00433 4 HLVDEIVDNAADEALAGYMDTIKVTIDKDNSISVEDNGRGIPVEIHPKEKKYAPEVIFTVLHAGGKFDDDAYKVSGGLHG 83
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446117441 114 VGISVVNALSKRVEVNVRRDGQVYNIAFE-NGEKVQDLQVVGTCGKrnTGTSVHFWPDETFFD-SPRFSVSRLTHVLKAK 191
Cdd:smart00433 84 VGASVVNALSTEFEVEVARDGKEYKQSFSnNGKPLSEPKIIGDTKK--DGTKVTFKPDLEIFGmTTDDDFELLKRRLREL 161
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446117441 192 AVLCPGVEITFKDEINNTEQRWCYQDGLNDYLAEAVNGLPTLPEKPFIGNFAGDTEAVDWALLWLPEGGELLTeSYVNLI 271
Cdd:smart00433 162 AFLNKGVKITLNDERSDEEKTFLFEGGIKDYVELLNKNKELLSPEPTYIEGEKDNIRVEVAFQYTDGYSENIV-SFVNNI 240
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446117441 272 PTMQGGTHVNGLRQGLLDAMREFCEYRNILpRGVKLSAEDIWDRCAYVLSVKMQDPQFAGQTKERLSSRQCAAFVSGVVK 351
Cdd:smart00433 241 ATTEGGTHENGFKDALTRVINEYAKKKKKL-KEKNIKGEDVREGLTAFISVKIPEPQFEGQTKEKLGTSEVRFGVEKIVS 319
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446117441 352 DAFILWLNQNVQAAELLAEMAISSAQRRMRA--AKKVVRKKLTSGPALPGKLADCTAQDLNRTELFLVEGDSAGGSAKQA 429
Cdd:smart00433 320 ECLLSFLEENPVEASKIVEKVLLAAKARAAAkkARELTRKKKLSSISLPGKLADASSAGPKKCELFLVEGDSAGGSAKSG 399
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446117441 430 RDREYQAIMPLKGKILNTWEVSSDEVLASQEVHDISVAIGIDPDSD-DLSQLRYGKICILADADSDGLHIATLLCALFVK 508
Cdd:smart00433 400 RDRDFQAILPLRGKILNVEKASLDKILKNEEIQALITALGLGIGKDfDIEKLRYGKIIIMTDADVDGSHIKGLLLTFFYR 479
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446117441 509 HFRALVKHGHVYVALPPLYRIDLGK--EVYYALTEEEKEGVLEQLKRKKGKPNVQRFKGLGEMNPMQLRETTLDPNTRRL 586
Cdd:smart00433 480 YMPPLIEAGFVYIAIPPLYKVTKGKkkYVYSFYSLDEYEKWLEKTEGNKSKYEIQRYKGLGEMNADQLWETTMDPERRTL 559
|
570 580 590
....*....|....*....|....*....|....*
gi 446117441 587 VQLTIDDEDDQRTdamMDMLLAKKRSEDRRNWLQE 621
Cdd:smart00433 560 LFVTLDDADEADL---IFSALMGDKVEPRKEWIEE 591
|
|
| gyrB |
TIGR01059 |
DNA gyrase, B subunit; This model describes the common type II DNA topoisomerase (DNA gyrase). ... |
5-621 |
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: 623.99 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446117441 5 YNADAIEVLTGLEPVRRRPGMYTDTTRPN---HLGQEVIDNSVDEALAGHAKRVDVILHADQSLEVIDDGRGMPVDIHPE 81
Cdd:TIGR01059 1 YDASSIKVLEGLEAVRKRPGMYIGSTGETglhHLVYEVVDNSIDEAMAGYCDTISVTINDDGSVTVEDNGRGIPVDIHPE 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446117441 82 EGVPAVELILCRLHAGGKFSNKNYQFSGGLHGVGISVVNALSKRVEVNVRRDGQVYNIAFENGEKVQDLQVVGTCGKrnT 161
Cdd:TIGR01059 81 EGISAVEVVLTVLHAGGKFDKDSYKVSGGLHGVGVSVVNALSEWLEVTVFRDGKIYRQEFERGIPVGPLEVVGETKK--T 158
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446117441 162 GTSVHFWPDETFFDSPRFSVSRLTHVLKAKAVLCPGVEITFKDEINNTEQR--WCYQDGLNDYLAEAVNGLPTLPEKPFI 239
Cdd:TIGR01059 159 GTTVRFWPDPEIFETTEFDFDILAKRLRELAFLNSGVKISLEDERDGKGKKvtFHYEGGIKSFVKYLNRNKEPLHEEIIY 238
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446117441 240 GNFAGDTEAVDWALLWlPEGGELLTESYVNLIPTMQGGTHVNGLRQGLLDAMREFCEYRNILPRG-VKLSAEDIWDRCAY 318
Cdd:TIGR01059 239 IKGEKEGIEVEVALQW-NDGYSENILSFVNNINTREGGTHLEGFRSALTRVINSYAKNNKLLKESkPNLTGEDIREGLTA 317
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446117441 319 VLSVKMQDPQFAGQTKERLSSRQCAAFVSGVVKDAFILWLNQNVQAAELLAEMAISSAQRRMRA--AKKVVRKK--LTSG 394
Cdd:TIGR01059 318 VISVKVPDPQFEGQTKTKLGNSEVRSIVESLVYEKLTEFFEENPQEAKAIVEKAILAAQAREAArkARELTRRKsaLDSG 397
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446117441 395 pALPGKLADCTAQDLNRTELFLVEGDSAGGSAKQARDREYQAIMPLKGKILNTWEVSSDEVLASQEVHDISVAIG--IDP 472
Cdd:TIGR01059 398 -GLPGKLADCSSKDPSKSELYIVEGDSAGGSAKQGRDRRFQAILPLRGKILNVEKARLDKILSNQEIGAIITALGcgIGK 476
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446117441 473 DSdDLSQLRYGKICILADADSDGLHIATLLCALFVKHFRALVKHGHVYVALPPLYRIDLGK------------------- 533
Cdd:TIGR01059 477 DF-DLEKLRYHKIIIMTDADVDGSHIRTLLLTFFYRYMRPLIENGYVYIAQPPLYKVKKGKkeryikddkekdlvgeale 555
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446117441 534 --EVYYALTEEEKEGVLEQLKRKKGK--PNVQRFKGLGEMNPMQLRETTLDPNTRRLVQLTIDDEDDqrTDAMMDMLLAk 609
Cdd:TIGR01059 556 dlKALYIYSDKEKEEAKTQIPVHLGRkgIEIQRYKGLGEMNADQLWETTMDPESRTLLKVTIEDAVE--ADRIFSTLMG- 632
|
650
....*....|..
gi 446117441 610 KRSEDRRNWLQE 621
Cdd:TIGR01059 633 DEVEPRREFIEA 644
|
|
| gyrB |
PRK14939 |
DNA gyrase subunit B; Provisional |
1-621 |
0e+00 |
|
DNA gyrase subunit B; Provisional
Pssm-ID: 237860 [Multi-domain] Cd Length: 756 Bit Score: 585.52 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446117441 1 MTQTYNADAIEVLTGLEPVRRRPGMY---TDT-TRPNHLGQEVIDNSVDEALAGHAKRVDVILHADQSLEVIDDGRGMPV 76
Cdd:PRK14939 3 MSNSYGASSIKVLKGLDAVRKRPGMYigdTDDgTGLHHMVYEVVDNAIDEALAGHCDDITVTIHADGSVSVSDNGRGIPT 82
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446117441 77 DIHPEEGVPAVELILCRLHAGGKFSNKNYQFSGGLHGVGISVVNALSKRVEVNVRRDGQVYNIAFENGEKVQDLQVVGTC 156
Cdd:PRK14939 83 DIHPEEGVSAAEVIMTVLHAGGKFDQNSYKVSGGLHGVGVSVVNALSEWLELTIRRDGKIHEQEFEHGVPVAPLKVVGET 162
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446117441 157 GKRntGTSVHFWPDETFFDSPRFSVSRLTHVLKAKAVLCPGVEITFKDEINNTEQRWCYQDGLN---DYLAEAVNglpTL 233
Cdd:PRK14939 163 DKT--GTEVRFWPSPEIFENTEFDYDILAKRLRELAFLNSGVRIRLKDERDGKEEEFHYEGGIKafvEYLNRNKT---PL 237
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446117441 234 PEKPFIGNFAGDTEAVDWALLWlpeggellTESY-------VNLIPTMQGGTHVNGLRQGLLDAMREFCEYRNILPRG-V 305
Cdd:PRK14939 238 HPNIFYFSGEKDGIGVEVALQW--------NDSYqenvlcfTNNIPQRDGGTHLAGFRAALTRTINNYIEKEGLAKKAkV 309
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446117441 306 KLSAEDIwdR---CAyVLSVKMQDPQFAGQTKERLSSRQCAAFVSGVVKDAFILWLNQNVQAAELLAEMAISSAQRRmRA 382
Cdd:PRK14939 310 SLTGDDA--ReglTA-VLSVKVPDPKFSSQTKDKLVSSEVRPAVESLVNEKLSEFLEENPNEAKIIVGKIIDAARAR-EA 385
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446117441 383 AKK---VVRKK--LTSGpALPGKLADCTAQDLNRTELFLVEGDSAGGSAKQARDREYQAIMPLKGKILNTWEVSSDEVLA 457
Cdd:PRK14939 386 ARKareLTRRKgaLDIA-GLPGKLADCQEKDPALSELYLVEGDSAGGSAKQGRDRKFQAILPLKGKILNVEKARFDKMLS 464
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446117441 458 SQEVHDISVAIG--IDPDSDDLSQLRYGKICILADADSDGLHIATLLCALFVKHFRALVKHGHVYVALPPLYRIDLGK-E 534
Cdd:PRK14939 465 SQEIGTLITALGcgIGRDEFNPDKLRYHKIIIMTDADVDGSHIRTLLLTFFYRQMPELIERGHLYIAQPPLYKVKKGKqE 544
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446117441 535 VY----YALTE-----------------EEKEG---------------------------VLEQL--------------- 551
Cdd:PRK14939 545 QYlkddEALDDylielalegatlhladgPAISGealeklvkeyravrkiidrlerrypraVLEALiyapaldlddladea 624
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446117441 552 -----------------------------------KR---------------------KKGKpNVQRFKGLGEMNPMQLR 575
Cdd:PRK14939 625 avaaldadfltsaeyrrlvelaeklrglieegaylERgerkqpvssfeealdwllaeaRKGL-SIQRYKGLGEMNPEQLW 703
|
730 740 750 760
....*....|....*....|....*....|....*....|....*.
gi 446117441 576 ETTLDPNTRRLVQLTIDDEDDqrTDAMMDMLLAKKrSEDRRNWLQE 621
Cdd:PRK14939 704 ETTMDPENRRLLQVTIEDAIA--ADEIFTTLMGDE-VEPRREFIEE 746
|
|
| PTZ00109 |
PTZ00109 |
DNA gyrase subunit b; Provisional |
5-624 |
2.57e-117 |
|
DNA gyrase subunit b; Provisional
Pssm-ID: 240272 [Multi-domain] Cd Length: 903 Bit Score: 370.75 E-value: 2.57e-117
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446117441 5 YNADAIEVLTGLEPVRRRPGMYTDTTRPNHLGQ---EVIDNSVDEALAGHAKRVDVILHADQSLEVIDDGRGMPVDIHPE 81
Cdd:PTZ00109 100 YDADDIVVLEGLEAVRKRPGMYIGNTDEKGLHQllfEILDNSVDEYLAGECNKITVVLHKDGSVEISDNGRGIPCDVSEK 179
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446117441 82 EGVPAVELILCRLHAGGKF----------------------------------------SNKNYQFSGGLHGVGISVVNA 121
Cdd:PTZ00109 180 TGKSGLETVLTVLHSGGKFqdtfpknsrsdksedkndtksskkgksshvkgpkeakekeSSQMYEYSSGLHGVGLSVVNA 259
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446117441 122 LSKRVEVNVRRDGQVYNIAFENGEKVQDLQVVgTCGKRNTGTSVHFWPD-ETFFDS--------------PRFSVSRLTH 186
Cdd:PTZ00109 260 LSSFLKVDVFKGGKIYSIELSKGKVTKPLSVF-SCPLKKRGTTIHFLPDyKHIFKThhqhteteeeegckNGFNLDLIKN 338
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446117441 187 VLKAKAVLCPGVEITFKDE-INNTEQRWCYQ-----DGLNDYLAEAVNGLPTLPEKPFIGNFAGDTEAV--DWALLWLPE 258
Cdd:PTZ00109 339 RIHELSYLNPGLTFYLVDErIANENNFYPYEtikheGGTREFLEELIKDKTPLYKDINIISIRGVIKNVnvEVSLSWSLE 418
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446117441 259 GGELLTESYVNLIPTMqGGTHVNGLRQGLLDAMREFCEyRNILPRG--VKLSAEDIWDRCAYVLSVKMQDPQFAGQTKER 336
Cdd:PTZ00109 419 SYTALIKSFANNVSTT-AGTHIDGFKYAITRCVNGNIK-KNGYFKGnfVNIPGEFIREGMTAIISVKLNGAEFDGQTKTK 496
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446117441 337 LSSRQCAAFVSGVVKDAF--ILWLNQNVQAAELLAEMAISSAQRRMRAAKKVVRKKLTS--GPALPGKLADCTAQDLNRT 412
Cdd:PTZ00109 497 LGNHLLKTILESIVFEQLseILEFEPNLLLAIYNKSLAAKKAFEEAKAAKDLIRQKNNQyySTILPGKLVDCISDDIERN 576
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446117441 413 ELFLVEGDSAGGSAKQARDREYQAIMPLKGKILNTWEVSSD-EVLASQEVHDISVAIG--IDPDS---DDLSQ------- 479
Cdd:PTZ00109 577 ELFIVEGESAAGNAKQARNREFQAVLPLKGKILNIEKIKNNkKVFENSEIKLLITSIGlsVNPVTwrqYDLSHgtkaskd 656
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446117441 480 ---------------------LRYGKICILADADSDGLHIATLLCALFVKHFRALVKHGHVYVALPPLYRI--------- 529
Cdd:PTZ00109 657 esvqnnnstltkkknslfdtpLRYGKIILLTDADVDGEHLRILLLTLLYRFCPSLYEHGRVYVACPPLYRItnnrmkqfn 736
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446117441 530 ---DLGKEVYYALTEEE-------------------------------KEGVLEQLKRKKGKPN---------------- 559
Cdd:PTZ00109 737 vstKNSKKYIYTWSDEElnvlikllnkdysskettrsveekgnapdldNEYEDEKLDNKNMRENnvdevelktelgtnva 816
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446117441 560 ----------------------VQRFKGLGEMNPMQLRETTLDPNTRRLVQLTIDDEddQRTDAMMDMLLAKKrSEDRRN 617
Cdd:PTZ00109 817 dteqtdeldinkaffkfskhyeIQRFKGLGEMMADQLWETTMDPKKRILIRITVSDA--MRASELIFLLMGED-VQSRKQ 893
|
....*..
gi 446117441 618 WLQEKGD 624
Cdd:PTZ00109 894 FIFENSP 900
|
|
| HATPase_GyrB-like |
cd16928 |
Histidine kinase-like ATPase domain of the B subunit of DNA gyrase; This family includes ... |
32-211 |
1.79e-95 |
|
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: 290.59 E-value: 1.79e-95
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446117441 32 PNHLGQEVIDNSVDEALAGHAKRVDVILHADQSLEVIDDGRGMPVDIHPEEGVPAVELILCRLHAGGKFSNKNYQFSGGL 111
Cdd:cd16928 1 LHHLVWEIVDNSIDEALAGYATEIEVTLHEDNSITVEDNGRGIPVDIHPKTGKSAVEVVLTVLHAGGKFDGGSYKVSGGL 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446117441 112 HGVGISVVNALSKRVEVNVRRDGQVYNIAFENGEKVQDLQVVGTCGKrnTGTSVHFWPDETFFDSPRFSVSRLTHVLKAK 191
Cdd:cd16928 81 HGVGVSVVNALSERLEVEVKRDGKIYRQEFSRGGPLTPLEVIGETKK--TGTTVRFWPDPEIFEKTEFDFDTLKRRLREL 158
|
170 180
....*....|....*....|
gi 446117441 192 AVLCPGVEITFKDEINNTEQ 211
Cdd:cd16928 159 AFLNKGLKIVLEDERTGKEE 178
|
|
| TopoII_Trans_DNA_gyrase |
cd00822 |
TopoIIA_Trans_DNA_gyrase: Transducer domain, having a ribosomal S5 domain 2-like fold, of the ... |
217-386 |
1.40e-62 |
|
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: 204.72 E-value: 1.40e-62
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446117441 217 DGLNDYLAEAVNGLPTLPEKPFIGNFAGDTEAVDWALLWLPEGGELLtESYVNLIPTMQGGTHVNGLRQGLLDAMREFCE 296
Cdd:cd00822 1 GGLKDFVEELNKDKEPLHEEPIYIEGEKDGVEVEVALQWTDSYSENI-LSFVNNIPTPEGGTHETGFRAALTRAINDYAK 79
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446117441 297 YRNILPRG-VKLSAEDIWDRCAYVLSVKMQDPQFAGQTKERLSSRQCAAFVSGVVKDAFILWLNQNVQAAELLAEMAISS 375
Cdd:cd00822 80 KNNLLKKKdVKLTGDDIREGLTAVISVKVPEPQFEGQTKDKLGNSEVRSIVESAVREALEEWLEENPEEAKKILEKAILA 159
|
170
....*....|.
gi 446117441 376 AQRRMRAAKKV 386
Cdd:cd00822 160 AKAREAARKAR 170
|
|
| 39 |
PHA02569 |
DNA topoisomerase II large subunit; Provisional |
8-602 |
6.95e-54 |
|
DNA topoisomerase II large subunit; Provisional
Pssm-ID: 177398 [Multi-domain] Cd Length: 602 Bit Score: 194.20 E-value: 6.95e-54
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446117441 8 DAIEVLTGLEPVRRRPGMYT-DTTRPNH----LGQ---------------EVIDNSVDEALAG---HAKRVDVILHADQs 64
Cdd:PHA02569 2 DEFKVLSDREHILKRPGMYIgSVAYEAHerflFGKftqveyvpglvkiidEIIDNSVDEAIRTnfkFANKIDVTIKNNQ- 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446117441 65 LEVIDDGRGMPVD--IHPE-EGVPAVELILCRLHAGGKFSNKNyQFSGGLHGVGISVVNALSKRVeVNVRRDGQ-VYNIA 140
Cdd:PHA02569 81 VTVSDNGRGIPQAmvTTPEgEEIPGPVAAWTRTKAGSNFDDTN-RVTGGMNGVGSSLTNFFSVLF-IGETCDGKnEVTVN 158
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446117441 141 FENGEKVQDLQVVGTCGKrntGTSVHFWPDETFFDSPRFSVSRLTHV---LKAKAVLCPGVEITFKDE-INNTEQRWCYQ 216
Cdd:PHA02569 159 CSNGAENISWSTKPGKGK---GTSVTFIPDFSHFEVNGLDQQYLDIIldrLQTLAVVFPDIKFTFNGKkVSGKFKKYAKQ 235
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446117441 217 DGlndylaeavnglptlpEKPFIGNFagdtEAVDWALLWLPEGGELLteSYVNLIPTMQGGTHVNGLRQGLldamrefCE 296
Cdd:PHA02569 236 FG----------------DDTIVQEN----DNVSIALAPSPDGFRQL--SFVNGLHTKNGGHHVDCVMDDI-------CE 286
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446117441 297 yrNILPR-----GVKLSAEDIWDRCAYVLSVK-MQDPQFAGQTKERLSSRQcaafvsGVVK-----------------DA 353
Cdd:PHA02569 287 --ELIPMikkkhKIEVTKARVKECLTIVLFVRnMSNPRFDSQTKERLTSPF------GEIRnhidldykkiakqilktEA 358
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446117441 354 FILWLNQNVQAAELLAE-MAISSAQRRmrAAKKVVRKKLTSGpaLPGKLADctaqdlnrTELFLVEGDSAGGSAKQARDR 432
Cdd:PHA02569 359 IIMPIIEAALARKLAAEkAAETKAAKK--AKKAKVAKHIKAN--LIGKDAE--------TTLFLTEGDSAIGYLIEVRDE 426
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446117441 433 EYQAIMPLKGKILNTWEVSSDEVLASQEVHDISVAIGIDPDSDDLsQLRYGKICILADADSDGL-HIATLLCALFVKhFR 511
Cdd:PHA02569 427 ELHGGYPLRGKVLNTWGMSYADILKNKELFDICAITGLVLGEKAE-NMNYKNIAIMTDADVDGKgSIYPLLLAFFSR-WP 504
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446117441 512 ALVKHGHVYVALPPLYRIDLGKEV--YYALTEEEKEgvleqlKRKKGKPNVQRFKGLGEM----------NPmQLRETTL 579
Cdd:PHA02569 505 ELFEQGRIRFVKTPVIIAQVGKETkwFYSLDEFEKA------KDSLKKWSIRYIKGLGSLrkseyrrvinNP-VYDVVVL 577
|
650 660
....*....|....*....|...
gi 446117441 580 DPNTRRLVQLTIDDEDDQRTDAM 602
Cdd:PHA02569 578 PDDWKELFEMLFGDDADLRKDWM 600
|
|
| TOPRIM_TopoIIA_GyrB |
cd03366 |
TOPRIM_TopoIIA_GyrB: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain ... |
412-524 |
9.15e-48 |
|
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: 163.21 E-value: 9.15e-48
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446117441 412 TELFLVEGDSAGGSAKQARDREYQAIMPLKGKILNTWEVSSDEVLASQEVHDISVAIG--IDPDSDdLSQLRYGKICILA 489
Cdd:cd03366 1 SELYIVEGDSAGGSAKQGRDRRFQAILPLRGKILNVEKARLDKILKNEEIRALITALGtgIGEDFD-LEKLRYHKIIIMT 79
|
90 100 110
....*....|....*....|....*....|....*
gi 446117441 490 DADSDGLHIATLLCALFVKHFRALVKHGHVYVALP 524
Cdd:cd03366 80 DADVDGAHIRTLLLTFFFRYMRPLIENGHVYIAQP 114
|
|
| PLN03128 |
PLN03128 |
DNA topoisomerase 2; Provisional |
14-621 |
3.59e-46 |
|
DNA topoisomerase 2; Provisional
Pssm-ID: 215593 [Multi-domain] Cd Length: 1135 Bit Score: 176.05 E-value: 3.59e-46
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446117441 14 TGLEPVRRRPGMYTDTTRPN------HLGQEVIDNSV----------DEALAGHA---------KRVDVILHADQ-SLEV 67
Cdd:PLN03128 11 TQLEHILLRPDTYIGSTEKHtqtlwvYEGGEMVNREVtyvpglykifDEILVNAAdnkqrdpsmDSLKVDIDVEQnTISV 90
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446117441 68 IDDGRGMPVDIHPEEGVPAVELILCRLHAGGKFSNKNYQFSGGLHGVGISVVNALSKR--VEVNVRRDGQVYNIAFENGE 145
Cdd:PLN03128 91 YNNGKGIPVEIHKEEGVYVPELIFGHLLTSSNFDDNEKKTTGGRNGYGAKLANIFSTEftVETADGNRGKKYKQVFTNNM 170
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446117441 146 KVQDLQVVGTCGKRNTGTSVHFWPDETFFDSPRFS---VSRLT-HVLKAKAVLCPGVEITFKDE---INNteqrwcYQDG 218
Cdd:PLN03128 171 SVKSEPKITSCKASENWTKITFKPDLAKFNMTRLDedvVALMSkRVYDIAGCLGKKLKVELNGKklpVKS------FQDY 244
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446117441 219 LNDYL--AEAVNGLPTLPEKpfignfAGDTEAVDWALlwlpEGGELLTESYVNLIPTMQGGTHVNGLRQGLLDAMREFCE 296
Cdd:PLN03128 245 VGLYLgpNSREDPLPRIYEK------VNDRWEVCVSL----SDGSFQQVSFVNSIATIKGGTHVDYVADQIVKHIQEKVK 314
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446117441 297 YRNilPRGVKLSAEDIWDRCAYVLSVKMQDPQFAGQTKERLSSRQcAAFVS-GVVKDAFILWLNQNVQAAELLAeMAISS 375
Cdd:PLN03128 315 KKN--KNATHVKPFQIKNHLWVFVNCLIENPTFDSQTKETLTTRP-SSFGSkCELSEEFLKKVEKCGVVENILS-WAQFK 390
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446117441 376 AQRRMRAAKKVVRKKLTSGPALP------GKLA-DCTaqdlnrteLFLVEGDSAGG---SAKQARDREYQAIMPLKGKIL 445
Cdd:PLN03128 391 QQKELKKKDGAKRQRLTGIPKLDdandagGKKSkDCT--------LILTEGDSAKAlamSGLSVVGRDHYGVFPLRGKLL 462
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446117441 446 NTWEVSSDEVLASQEVHDISVAIGIDP----DSDDLSQLRYGKICILADADSDGLHIATLLCALFVKHFRALVK-HGHVY 520
Cdd:PLN03128 463 NVREASHKQIMKNAEITNIKQILGLQFgktyDEENTKSLRYGHLMIMTDQDHDGSHIKGLIINFFHSFWPSLLKiPGFLV 542
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446117441 521 VALPPLYRIDLGK--EVYYALTEEEKegVLEQLKRKKGKPNVQRFKGLGEMNPMQLRETtldpnTRRLVQLTIDDEDDQR 598
Cdd:PLN03128 543 EFITPIVKATKGGksLSFYTMPEYEA--WKESLEGETKGWTIKYYKGLGTSTSEEAKEY-----FSNLDIHKKEFLWQSD 615
|
650 660
....*....|....*....|....
gi 446117441 599 TDA-MMDMLLAKKRSEDRRNWLQE 621
Cdd:PLN03128 616 EDGdLIDMAFSKKRVEDRKIWLNN 639
|
|
| DNA_gyraseB |
pfam00204 |
DNA gyrase B; This family represents the second domain of DNA gyrase B which has a ribosomal ... |
218-384 |
4.19e-46 |
|
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: 160.86 E-value: 4.19e-46
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446117441 218 GLNDYLAEAVNGLPTLPEKP--FIGNFAGDTEAVDWALLWLPEGGELLtESYVNLIPTMQGGTHVNGLRQGLLDAMREFC 295
Cdd:pfam00204 1 GLKDFVEELNKDKKPLHKEIiyFEGESPDNRIEVEVALQWTDSYSENI-LSFVNNIATPEGGTHVDGFKSALTRTINEYA 79
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446117441 296 EYRNILPRGV-KLSAEDIWDRCAYVLSVKMQDPQFAGQTKERLSSRQCAAFVSGVVKDAFILWLNQNVQAAELLAEMAIS 374
Cdd:pfam00204 80 KKKGLLKKKDeKITGEDIREGLTAVVSVKIPDPQFEGQTKEKLGNPEVKSAVEKIVSEKLEEFLEENPEIAKKILEKALQ 159
|
170
....*....|
gi 446117441 375 SAQRRMRAAK 384
Cdd:pfam00204 160 AAKARLAARK 169
|
|
| TOPRIM_TopoIIA_like |
cd01030 |
TOPRIM_TopoIIA_like: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain ... |
412-524 |
1.76e-45 |
|
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: 156.90 E-value: 1.76e-45
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446117441 412 TELFLVEGDSAGGSAKQARDREYQAIMPLKGKILNTWEVSSDEVLASQEVHDISVAIG--IDPDSDDLSQLRYGKICILA 489
Cdd:cd01030 1 CELILVEGDSAGGSAKQGRDRVFQAVFPLRGKILNVEKASLKKILKNEEIQNIIKALGlgIGKDDFDLDKLRYGKIIIMT 80
|
90 100 110
....*....|....*....|....*....|....*
gi 446117441 490 DADSDGLHIATLLCALFVKHFRALVKHGHVYVALP 524
Cdd:cd01030 81 DADVDGSHIRTLLLTFFYRFWPSLLENGFLYIAQT 115
|
|
| PTZ00108 |
PTZ00108 |
DNA topoisomerase 2-like protein; Provisional |
13-621 |
2.58e-42 |
|
DNA topoisomerase 2-like protein; Provisional
Pssm-ID: 240271 [Multi-domain] Cd Length: 1388 Bit Score: 164.45 E-value: 2.58e-42
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446117441 13 LTGLEPVRRRPGMYTDTTRP------------NHLGQEVI------------------DNSVDEALAGHAKRVDV-ILHA 61
Cdd:PTZ00108 13 KTQIEHILLRPDTYIGSIETqtedmwvydeekNRMVYKTItyvpglykifdeilvnaaDNKARDKGGHRMTYIKVtIDEE 92
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446117441 62 DQSLEVIDDGRGMPVDIHPEEGVPAVELILCRLHAGGKFSNKNYQFSGGLHGVGISVVNALSKRVEVNVR--RDGQVYNI 139
Cdd:PTZ00108 93 NGEISVYNDGEGIPVQIHKEHKIYVPEMIFGHLLTSSNYDDTEKRVTGGRNGFGAKLTNIFSTKFTVECVdsKSGKKFKM 172
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446117441 140 AFENGEKVQDLQVVGTCGKRNTGTSVHFWPDETFFDSPRFSVSRLtHVLKAK----AVLCPGVEITFKDE---INNteqr 212
Cdd:PTZ00108 173 TWTDNMSKKSEPRITSYDGKKDYTKVTFYPDYAKFGMTEFDDDML-RLLKKRvydlAGCFGKLKVYLNGEriaIKS---- 247
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446117441 213 wcYQDGLNDYLaeavngLPTLPEKPFIGNFAGDTEAVDWALLWLPEGGELLTESYVNLIPTMQGGTHVNGLRQGLLDAMR 292
Cdd:PTZ00108 248 --FKDYVDLYL------PDGEEGKKPPYPFVYTSVNGRWEVVVSLSDGQFQQVSFVNSICTTKGGTHVNYILDQLISKLQ 319
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446117441 293 EFCEYRN-----ILPRGVKLSaedIWdrcAYVLSVKMQdPQFAGQTKERLSSRQ------CA---AFVSGVVK----DAF 354
Cdd:PTZ00108 320 EKAKKKKkkgkeIKPNQIKNH---LW---VFVNCLIVN-PSFDSQTKETLTTKPskfgstCElseKLIKYVLKspilENI 392
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446117441 355 ILWLNQNvQAAELLaemaissaqRRMRAAKkvvRKKLTSGPalpgKLADCT-AQDLNRTE--LFLVEGDSAGGSAkQA-- 429
Cdd:PTZ00108 393 VEWAQAK-LAAELN---------KKMKAGK---KSRILGIP----KLDDANdAGGKNSEEctLILTEGDSAKALA-LAgl 454
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446117441 430 --RDREYQAIMPLKGKILNTWEVSSDEVLASQEVHDISVAIGIDPDSD--DLSQLRYGKICILADADSDGLHIATLLCAL 505
Cdd:PTZ00108 455 svVGRDYYGVFPLRGKLLNVRDASLKQLMNNKEIQNLFKILGLDIGKKyeDPKGLRYGSLMIMTDQDHDGSHIKGLLINM 534
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446117441 506 FVKHFRALVKH-GHVYVALPPLYRIDL-GKEVYYALTEEEkegvLEQLKRKKGKPN--VQRFKGLGEMNPMQLRE--TTL 579
Cdd:PTZ00108 535 IHHFWPSLLKNpGFLKEFITPIVKATKkGNQVISFFTIPD----FEKWKQTVGLKGwkIKYYKGLGTSTDKEGKEyfSNI 610
|
650 660 670 680
....*....|....*....|....*....|....*....|..
gi 446117441 580 DPNTRRLVqltiddEDDQRTDAMMDMLLAKKRSEDRRNWLQE 621
Cdd:PTZ00108 611 DKHRIRFV------YVDDSDDDSIDLAFSKKRVEDRKEWITN 646
|
|
| PLN03237 |
PLN03237 |
DNA topoisomerase 2; Provisional |
18-619 |
1.29e-35 |
|
DNA topoisomerase 2; Provisional
Pssm-ID: 215641 [Multi-domain] Cd Length: 1465 Bit Score: 144.23 E-value: 1.29e-35
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446117441 18 PVRRRPGMYT--DTTRPNHLGQEVIDNSVDEalaghakrVDVILHADQSL-EVIDDGRGMPVDIHPEEGVPAVELILCRL 94
Cdd:PLN03237 71 SVTYVPGLYKifDEILVNAADNKQRDPKMDS--------LRVVIDVEQNLiSVYNNGDGVPVEIHQEEGVYVPEMIFGHL 142
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446117441 95 HAGGKFSNKNYQFSGGLHGVGISVVNALSKR--VEVNVRRDGQVYNIAFEN--GEKVQdlQVVGTCGKRNTGTSVHFWPD 170
Cdd:PLN03237 143 LTSSNYDDNEKKTTGGRNGYGAKLTNIFSTEfvIETADGKRQKKYKQVFSNnmGKKSE--PVITKCKKSENWTKVTFKPD 220
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446117441 171 ETffdspRFSVSRL---THVLKAKAVL----CPGVeiTFKDEINNteQRW---CYQDGLNDYLAEAVNGLPTlpEKPFIG 240
Cdd:PLN03237 221 LA-----KFNMTHLeddVVALMKKRVVdiagCLGK--TVKVELNG--KRIpvkSFSDYVDLYLESANKSRPE--NLPRIY 289
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446117441 241 NFAGDTeavdWALLWLPEGGELLTESYVNLIPTMQGGTHVNGLRQGLLDAMREFCEYRNilpRGVKLSAEDIWDRCAYVL 320
Cdd:PLN03237 290 EKVNDR----WEVCVSLSEGQFQQVSFVNSIATIKGGTHVDYVTNQIANHVMEAVNKKN---KNANIKAHNVKNHLWVFV 362
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446117441 321 SVKMQDPQFAGQTKERLSSRQcAAFVSGV-VKDAFILWLNQNVQAAELL--AEMAISSAQRRMRAAKKvvrKKLTSGPAL 397
Cdd:PLN03237 363 NALIDNPAFDSQTKETLTLRQ-SSFGSKCeLSEDFLKKVMKSGIVENLLswADFKQSKELKKTDGAKT---TRVTGIPKL 438
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446117441 398 PGKlADCTAQDLNRTELFLVEGDSAGGSAKQAR---DREYQAIMPLKGKILNTWEVSSDEVLASQEVHDISVAIGIDPDS 474
Cdd:PLN03237 439 EDA-NEAGGKNSEKCTLILTEGDSAKALAVAGLsvvGRNYYGVFPLRGKLLNVREASHKQIMNNAEIENIKQILGLQHGK 517
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446117441 475 --DDLSQLRYGKICILADADSDGLHIATLLCALFVKHFRALVKHGHVYVAL--PPLYRIDLGKEVYYALTEEEKEGVLEQ 550
Cdd:PLN03237 518 qyESVKSLRYGHLMIMTDQDHDGSHIKGLLINFIHSFWPSLLKVPSFLVEFitPIVKATRRGKKVLSFYSMPEYEEWKES 597
|
570 580 590 600 610 620 630
....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 446117441 551 LKRKKGKPNVQRFKGLGEMNPMQLRE--TTLDPNTRRLVQltiddEDDQRTDAmMDMLLAKKRSEDRRNWL 619
Cdd:PLN03237 598 LGGNATGWSIKYYKGLGTSTAKEGKEyfKNLGKHKKDFVW-----EDEQDGDA-IELAFSKKKIEARKNWL 662
|
|
| DNA_gyraseB_C |
pfam00986 |
DNA gyrase B subunit, carboxyl terminus; The amino terminus of eukaryotic and prokaryotic DNA ... |
555-620 |
1.13e-31 |
|
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: 117.09 E-value: 1.13e-31
10 20 30 40 50 60
....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 446117441 555 KGKPNVQRFKGLGEMNPMQLRETTLDPNTRRLVQLTIDDEDDqrTDAMMDMLLAKKrSEDRRNWLQ 620
Cdd:pfam00986 1 KKKVEIQRYKGLGEMNPEQLWETTMDPETRRLLQVTIEDAAE--ADEIFSTLMGDK-VEPRREFIE 63
|
|
| TOPRIM_TopoIIA |
cd03365 |
TOPRIM_TopoIIA: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the ... |
414-516 |
9.52e-20 |
|
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: 85.04 E-value: 9.52e-20
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446117441 414 LFLVEGDSAGGSAKQAR---DREYQAIMPLKGKILNTWEVSSDEVLASQEVHDISVAIGIDP---DSDDLSQLRYGKICI 487
Cdd:cd03365 3 LILTEGDSAKALAVAGLsvvGRDYYGVFPLRGKLLNVREASHKQIMENAEIQNIKKILGLQHgksDYESTKSLRYGRLMI 82
|
90 100
....*....|....*....|....*....
gi 446117441 488 LADADSDGLHIATLLCALFVKHFRALVKH 516
Cdd:cd03365 83 MTDQDHDGSHIKGLLINFIHSFWPSLLKI 111
|
|
| HATPase_c |
pfam02518 |
Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; This family represents the ... |
27-133 |
1.50e-11 |
|
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: 61.23 E-value: 1.50e-11
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446117441 27 TDTTRPNHLGQEVIDNSVDEAlaGHAKRVDVILHADQ--SLEVIDDGRGMPVDIHPeegvpavelilcrlHAGGKFSNKN 104
Cdd:pfam02518 1 GDELRLRQVLSNLLDNALKHA--AKAGEITVTLSEGGelTLTVEDNGIGIPPEDLP--------------RIFEPFSTAD 64
|
90 100
....*....|....*....|....*....
gi 446117441 105 yQFSGGLHGVGISVVNALSKRVEVNVRRD 133
Cdd:pfam02518 65 -KRGGGGTGLGLSIVRKLVELLGGTITVE 92
|
|
| HATPase_c |
smart00387 |
Histidine kinase-like ATPases; Histidine kinase-, DNA gyrase B-, phytochrome-like ATPases. |
27-136 |
3.98e-11 |
|
Histidine kinase-like ATPases; Histidine kinase-, DNA gyrase B-, phytochrome-like ATPases.
Pssm-ID: 214643 [Multi-domain] Cd Length: 111 Bit Score: 60.36 E-value: 3.98e-11
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446117441 27 TDTTRPNHLGQEVIDNSVDEALAGhaKRVDVILHADQ---SLEVIDDGRGMPVDIhpeegvpaVELIlcrLHAGGKFSNK 103
Cdd:smart00387 1 GDPDRLRQVLSNLLDNAIKYTPEG--GRITVTLERDGdhvEITVEDNGPGIPPED--------LEKI---FEPFFRTDKR 67
|
90 100 110
....*....|....*....|....*....|...
gi 446117441 104 NYQFSGglHGVGISVVNALSKRVEVNVRRDGQV 136
Cdd:smart00387 68 SRKIGG--TGLGLSIVKKLVELHGGEISVESEP 98
|
|
| Toprim |
pfam01751 |
Toprim domain; This is a conserved region from DNA primase. This corresponds to the Toprim ... |
413-522 |
1.23e-10 |
|
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: 58.14 E-value: 1.23e-10
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446117441 413 ELFLVEGDSAGGSAKQARDREYQAIMPLKGKILNtwevssdevLASQEVHDISVAIgidpdsdDLSQLRYGKICILADAD 492
Cdd:pfam01751 1 ELIIVEGPSDAIALEKALGGGFQAVVAVLGHLLS---------LEKGPKKKALKAL-------KELALKAKEVILATDPD 64
|
90 100 110
....*....|....*....|....*....|..
gi 446117441 493 SDGLHIATLLcalfvKHFRALVKH--GHVYVA 522
Cdd:pfam01751 65 REGEAIALKL-----LELKELLENagGRVEFS 91
|
|
| TopoII_MutL_Trans |
cd00329 |
MutL_Trans: transducer domain, having a ribosomal S5 domain 2-like fold, conserved in the ... |
219-337 |
3.07e-08 |
|
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: 51.88 E-value: 3.07e-08
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446117441 219 LNDYLAEaVNGlPTLPEKPFIGNFAGDTEAVDWALLWlPEGGELLTE---SYVNLIPTMQGGTHVNGLRQGLLDAMRefc 295
Cdd:cd00329 1 LKDRLAE-ILG-DKVADKLIYVEGESDGFRVEGAISY-PDSGRSSKDrqfSFVNGRPVREGGTHVKAVREAYTRALN--- 74
|
90 100 110 120
....*....|....*....|....*....|....*....|....*
gi 446117441 296 eyrnilprgvklsAEDIWDRCAYVLSVKM--QDPQF-AGQTKERL 337
Cdd:cd00329 75 -------------GDDVRRYPVAVLSLKIppSLVDVnVHPTKEEV 106
|
|
| HATPase_TopII-like |
cd16930 |
Histidine kinase-like ATPase domain of eukaryotic topoisomerase II; This family includes the ... |
53-170 |
4.43e-08 |
|
Histidine kinase-like ATPase domain of eukaryotic topoisomerase II; This family includes the histidine kinase-like ATPase (HATpase) domains of human topoisomerase IIA (TopIIA) and TopIIB, Saccharomyces cerevisae TOP2p, and related proteins. These proteins catalyze the passage of DNA double strands through a transient double-strand break in the presence of ATP.
Pssm-ID: 340407 [Multi-domain] Cd Length: 147 Bit Score: 52.73 E-value: 4.43e-08
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446117441 53 KRVDVILHADQ-SLEVIDDGRGMPVDIHPEEGVPAVELILCRLHAGGKFSNKNYQFSGGLHGVGISVVNALSKR--VEVN 129
Cdd:cd16930 27 TCIKVTIDPENnEISVWNNGKGIPVVIHKEEKIYVPEMIFGHLLTSSNYDDDEKKVTGGRNGYGAKLCNIFSTEftVETA 106
|
90 100 110 120
....*....|....*....|....*....|....*....|.
gi 446117441 130 VRRDGQVYNIAFENGEKVQDLQVVGTCGKRNTGTSVHFWPD 170
Cdd:cd16930 107 DSESKKKFKQTWTNNMGKASEPKITPYEKGKDYTKVTFKPD 147
|
|
| HATPase_MutL-MLH-PMS-like |
cd16926 |
Histidine kinase-like ATPase domain of DNA mismatch repair proteins Escherichia coli MutL, ... |
38-203 |
1.88e-05 |
|
Histidine kinase-like ATPase domain of DNA mismatch repair proteins Escherichia coli MutL, human MutL homologs (MLH/ PMS), and related domains; This family includes the histidine kinase-like ATPase (HATPase) domains of Escherichia coli MutL, human MLH1 (mutL homolog 1), human PMS1 (PMS1 homolog 1, mismatch repair system component), human MLH3 (mutL homolog 3), and human PMS2 (PMS1 homolog 2, mismatch repair system component). MutL homologs (MLH/PMS) participate in MMR (DNA mismatch repair), and in addition have role(s) in DNA damage signaling and suppression of homologous recombination (recombination between partially homologous parental DNAs). The primary role of MutL in MMR is to mediate protein-protein interactions during mismatch recognition and strand removal; a ternary complex is formed between MutS, MutL, and the mismatched DNA, which activates the MutH endonuclease.
Pssm-ID: 340403 [Multi-domain] Cd Length: 188 Bit Score: 45.89 E-value: 1.88e-05
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446117441 38 EVIDNSVDealAGhAKRVDVILHAD--QSLEVIDDGRGMpvdiHPEEgvpaVELILCRlHAGGKFSNKN-------YQFS 108
Cdd:cd16926 20 ELVENSID---AG-ATRIDVEIEEGglKLIRVTDNGSGI----SRED----LELAFER-HATSKISSFEdlfsittLGFR 86
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446117441 109 G-GLHgvGISvvnALSkRVEVNVRRDGQV--YNIAFENGEKVQDLQVVGtcgkRNTGTSVhfwpdeT------------- 172
Cdd:cd16926 87 GeALA--SIA---SVS-RLTITTRTADDDvgTRLVVDGGGIIEEVKPAA----APVGTTV------Tvrdlfyntparrk 150
|
170 180 190
....*....|....*....|....*....|.
gi 446117441 173 FFDSPRFSVSRLTHVLKAKAVLCPGVEITFK 203
Cdd:cd16926 151 FLKSPKTELSKILDLVQRLALAHPDVSFSLT 181
|
|
| TOPRIM_C |
pfam16898 |
C-terminal associated domain of TOPRIM; TOPRIM_C is found as the C-terminal extension of the ... |
563-621 |
1.22e-03 |
|
C-terminal associated domain of TOPRIM; TOPRIM_C is found as the C-terminal extension of the TOPRIM domain, pfam01751 in metazoa.
Pssm-ID: 465302 [Multi-domain] Cd Length: 127 Bit Score: 39.43 E-value: 1.22e-03
10 20 30 40 50 60
....*....|....*....|....*....|....*....|....*....|....*....|.
gi 446117441 563 FKGLGEMNPMQLRE--TTLDpntRRLVQLTIDDEDDqrtDAMMDMLLAKKRSEDRRNWLQE 621
Cdd:pfam16898 41 YKGLGTSTSEEAKEyfSNLD---KHRKEFKYLGDDD---DEAIDLAFSKKKADDRKEWLRN 95
|
|
| |
