|
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: 1210.91 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766062 2 TQTYNADAIEVLTGLEPVRRRPGMYTDTTRPNHLGQEVIDNSVDEALAGHAKRVDVILHADQSLEVIDDGRGMPVDIHPE 81
Cdd:TIGR01055 1 TTNYSAKDIEVLDGLEPVRKRPGMYTDTTRPNHLVQEVIDNSVDEALAGFASIIMVILHQDQSIEVFDNGRGMPVDIHPK 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766062 82 EGVPAVELILCRLHAGGKFSNKNYQFSGGLHGVGISVVNALSKRVEVNVRRDGQVYNIAFENGEKVQDLQVVGTCGKRNT 161
Cdd:TIGR01055 81 EGVSAVEVILTTLHAGGKFSNKNYHFSGGLHGVGISVVNALSKRVKIKVYRQGKLYSIAFENGAKVTDLISAGTCGKRLT 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766062 162 GTSVHFWPDESFFDSPRFSVSRLTHLLKAKAVLCPGVEITFKDHVNNTEQSWRYEKGLNDYLCEAVNGLPTLPEKPFVGN 241
Cdd:TIGR01055 161 GTSVHFTPDPEIFDSLHFSVSRLYHILRAKAVLCRGVEIEFEDEVNNTKALWNYPDGLKDYLSEAVNGDNTLPPKPFSGN 240
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766062 242 FEGDTEAVDWALLWLPEGGELLTESYVNLIPTLLGGTHVNGLRQGLLDAMREFCEYRNILPRGVKLSAEDIWDRCAYVLS 321
Cdd:TIGR01055 241 FEGDDEAVEWALLWLPEGGELFMESYVNLIPTPQGGTHVNGLRQGLLDALREFCEMRNNLPRGVKLTAEDIWDRCSYVLS 320
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766062 322 VKMQDPQFAGQTKERLSSRQCAAFVSGVVKDAFTLWLNQNVQAAEMLAEMAISSAQRRLRAAKKVVRKKLTSGPALPGKL 401
Cdd:TIGR01055 321 IKMQDPQFAGQTKERLSSRQVAKFVSGVIKDAFDLWLNQNVQLAEHLAEHAISSAQRRKRAAKKVVRKKLTSGPALPGKL 400
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766062 402 ADCTAQDLNRTELFLVEGDSAGGSAKQARDREYQAIMPLKGKILNTWEVSSDEVLASQEVHDISVAIGIDPDSDDLSQLR 481
Cdd:TIGR01055 401 ADCTRQDLEGTELFLVEGDSAGGSAKQARDREYQAILPLWGKILNTWEVSLDKVLNSQEIHDIEVALGIDPDSNDLSQLR 480
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766062 482 YGKICILADADSDGLHIATLLCALFVKHFRALVKNGHVHVALPPLYRIDLGKEVYYALTEEEKAGVLEQLKRKKGKPNVQ 561
Cdd:TIGR01055 481 YGKICILADADSDGLHIATLLCALFFLHFPKLVEEGHVYVAKPPLYRIDLSKEVYYALDEEEKEKLLYKLKKKKGKPNVQ 560
|
570 580 590 600 610 620
....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 550766062 562 RFKGLGEMNPMQLRETTLDPNTRRLVQLTISDEDEQQTNAMMDMLLAKKRSEDRRNWLQEKGDMA 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: 1179.12 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766062 1 MTQTYNADAIEVLTGLEPVRRRPGMY---TDTTRPNHLGQEVIDNSVDEALAGHAKRVDVILHADQSLEVIDDGRGMPVD 77
Cdd:PRK05559 4 MTNNYNADSIEVLEGLEPVRKRPGMYigsTDTRGLHHLVQEVIDNSVDEALAGHGKRIEVTLHADGSVSVRDNGRGIPVG 83
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766062 78 IHPEEGVPAVELILCRLHAGGKFSNKNYQFSGGLHGVGISVVNALSKRVEVNVRRDGQVYNIAFENGEKVQDLQVVGTCG 157
Cdd:PRK05559 84 IHPEEGKSGVEVILTKLHAGGKFSNKAYKFSGGLHGVGVSVVNALSSRLEVEVKRDGKVYRQRFEGGDPVGPLEVVGTAG 163
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766062 158 KRNTGTSVHFWPDESFFDSPRFSVSRLTHLLKAKAVLCPGVEITFKDHVnnTEQSWRYEKGLNDYLCEAVNGLPTLPEkP 237
Cdd:PRK05559 164 KRKTGTRVRFWPDPKIFDSPKFSPERLKERLRSKAFLLPGLTITLNDER--ERQTFHYENGLKDYLAELNEGKETLPE-E 240
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766062 238 FVGNFEGD--TEAVDWALLWLPEGGELLtESYVNLIPTLLGGTHVNGLRQGLLDAMREFCEYRNILPRGVKLSAEDIWDR 315
Cdd:PRK05559 241 FVGSFEGEaeGEAVEWALQWTDEGGENI-ESYVNLIPTPQGGTHENGFREGLLKAVREFAEKRNLLPKGKKLEGEDVREG 319
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766062 316 CAYVLSVKMQDPQFAGQTKERLSSRQCAAFVSGVVKDAFTLWLNQNVQAAEMLAEMAISSAQRRLRAAKKVVRKKLTSGP 395
Cdd:PRK05559 320 LAAVLSVKIPEPQFEGQTKEKLGSREARRFVSGVVKDAFDLWLNQNPELAEKLAEKAIKAAQARLRAAKKVKRKKKTSGP 399
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766062 396 ALPGKLADCTAQDLNRTELFLVEGDSAGGSAKQARDREYQAIMPLKGKILNTWEVSSDEVLASQEVHDISVAIGIDP-DS 474
Cdd:PRK05559 400 ALPGKLADCTSQDPERTELFLVEGDSAGGSAKQARDREFQAILPLRGKILNTWEASLDDVLANEEIHDIIVAIGIGPgDS 479
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766062 475 DDLSQLRYGKICILADADSDGLHIATLLCALFVKHFRALVKNGHVHVALPPLYRIDLGKEVYYALTEEEKAGVLEQLKRK 554
Cdd:PRK05559 480 FDLEDLRYGKIIIMTDADVDGAHIATLLLTFFYRHFPPLVEAGHVYIALPPLYRVDKGKKKIYALDEEEKEELLKKLGKK 559
|
570 580 590 600 610 620 630
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 550766062 555 KGKPNVQRFKGLGEMNPMQLRETTLDPNTRRLVQLTIsdEDEQQTNAMMDMLLAKKrSEDRRNWLQEKGDMADIE 629
Cdd:PRK05559 560 GGKPEIQRFKGLGEMNPDQLWETTMDPETRRLVRVTI--DDAEETEKLVDMLMGKK-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: 808.87 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766062 1 MTQTYNADAIEVLTGLEPVRRRPGMY---TDTTRPNHLGQEVIDNSVDEALAGHAKRVDVILHADQSLEVIDDGRGMPVD 77
Cdd:COG0187 2 KKSNYDASSIQVLEGLEAVRKRPGMYigsTDERGLHHLVWEIVDNSIDEALAGYCDRIEVTLHADGSVTVEDNGRGIPVD 81
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766062 78 IHPEEGVPAVELILCRLHAGGKFSNKNYQFSGGLHGVGISVVNALSKRVEVNVRRDGQVYNIAFENGEKVQDLQVVGTCG 157
Cdd:COG0187 82 IHPKEGKSALEVVLTVLHAGGKFDGGSYKVSGGLHGVGASVVNALSERLEVEVKRDGKIYRQRFERGKPVGPLEKIGKTD 161
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766062 158 KrnTGTSVHFWPDESFFDSPRFSVSRLTHLLKAKAVLCPGVEITFKDHVNNT--EQSWRYEKGLNDYLCEAVNGLPTLPE 235
Cdd:COG0187 162 R--TGTTVRFKPDPEIFETTEFDYETLAERLRELAFLNKGLTITLTDEREEEpkEETFHYEGGIKDFVEYLNEDKEPLHP 239
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766062 236 KPFVGNFEGDTEAVDWALLWLPEGGELLtESYVNLIPTLLGGTHVNGLRQGLLDAMREFCEYRNILP-RGVKLSAEDIWD 314
Cdd:COG0187 240 EVIYFEGEKDGIEVEVALQWNDGYSENI-HSFVNNINTPEGGTHETGFRTALTRVINDYARKNGLLKeKDKNLTGDDVRE 318
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766062 315 RCAYVLSVKMQDPQFAGQTKERLSSRQCAAFVSGVVKDAFTLWLNQNVQAAEMLAEMAISSAQRRLRA--AKKVVRKK-L 391
Cdd:COG0187 319 GLTAVISVKLPEPQFEGQTKTKLGNSEARGIVESVVSEKLEHYLEENPAEAKKILEKAILAARAREAArkARELVRRKsA 398
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766062 392 TSGPALPGKLADCTAQDLNRTELFLVEGDSAGGSAKQARDREYQAIMPLKGKILNTWEVSSDEVLASQEVHDISVAIGID 471
Cdd:COG0187 399 LESSGLPGKLADCSSKDPEESELFIVEGDSAGGSAKQGRDREFQAILPLRGKILNVEKARLDKILKNEEIRDLITALGTG 478
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766062 472 PDSD-DLSQLRYGKICILADADSDGLHIATLLCALFVKHFRALVKNGHVHVALPPLYRIDLGKEVYYALTEEEKAGVLEQ 550
Cdd:COG0187 479 IGDDfDLEKLRYHKIIIMTDADVDGAHIRTLLLTFFYRYMRPLIEAGHVYIAQPPLYRIKKGKKTYYAYSDAELDELLKE 558
|
570 580 590 600 610 620 630
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 550766062 551 LKRKKgKPNVQRFKGLGEMNPMQLRETTLDPNTRRLVQLTIsdEDEQQTNAMMDMLLAKKrSEDRRNWLQEKGDMAD 627
Cdd:COG0187 559 LKGKK-KVEIQRYKGLGEMNPEQLWETTMDPETRTLLQVTI--EDAAEADEIFSLLMGDK-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: 624.20 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766062 34 HLGQEVIDNSVDEALAGHAKRVDVILHADQSLEVIDDGRGMPVDIHPEEGVPAVELILCRLHAGGKFSNKNYQFSGGLHG 113
Cdd:smart00433 4 HLVDEIVDNAADEALAGYMDTIKVTIDKDNSISVEDNGRGIPVEIHPKEKKYAPEVIFTVLHAGGKFDDDAYKVSGGLHG 83
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766062 114 VGISVVNALSKRVEVNVRRDGQVYNIAFE-NGEKVQDLQVVGTCGKrnTGTSVHFWPDESFFD-SPRFSVSRLTHLLKAK 191
Cdd:smart00433 84 VGASVVNALSTEFEVEVARDGKEYKQSFSnNGKPLSEPKIIGDTKK--DGTKVTFKPDLEIFGmTTDDDFELLKRRLREL 161
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766062 192 AVLCPGVEITFKDHVNNTEQSWRYEKGLNDYLCEAVNGLPTLPEKPFVGNFEGDTEAVDWALLWLPEGGELLTeSYVNLI 271
Cdd:smart00433 162 AFLNKGVKITLNDERSDEEKTFLFEGGIKDYVELLNKNKELLSPEPTYIEGEKDNIRVEVAFQYTDGYSENIV-SFVNNI 240
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766062 272 PTLLGGTHVNGLRQGLLDAMREFCEYRNILpRGVKLSAEDIWDRCAYVLSVKMQDPQFAGQTKERLSSRQCAAFVSGVVK 351
Cdd:smart00433 241 ATTEGGTHENGFKDALTRVINEYAKKKKKL-KEKNIKGEDVREGLTAFISVKIPEPQFEGQTKEKLGTSEVRFGVEKIVS 319
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766062 352 DAFTLWLNQNVQAAEMLAEMAISSAQRRLRA--AKKVVRKKLTSGPALPGKLADCTAQDLNRTELFLVEGDSAGGSAKQA 429
Cdd:smart00433 320 ECLLSFLEENPVEASKIVEKVLLAAKARAAAkkARELTRKKKLSSISLPGKLADASSAGPKKCELFLVEGDSAGGSAKSG 399
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766062 430 RDREYQAIMPLKGKILNTWEVSSDEVLASQEVHDISVAIGIDPDSD-DLSQLRYGKICILADADSDGLHIATLLCALFVK 508
Cdd:smart00433 400 RDRDFQAILPLRGKILNVEKASLDKILKNEEIQALITALGLGIGKDfDIEKLRYGKIIIMTDADVDGSHIKGLLLTFFYR 479
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766062 509 HFRALVKNGHVHVALPPLYRI---DLGKEVYYALTEEEKAgVLEQLKRKKGKPNVQRFKGLGEMNPMQLRETTLDPNTRR 585
Cdd:smart00433 480 YMPPLIEAGFVYIAIPPLYKVtkgKKKYVYSFYSLDEYEK-WLEKTEGNKSKYEIQRYKGLGEMNADQLWETTMDPERRT 558
|
570 580 590
....*....|....*....|....*....|....*.
gi 550766062 586 LVQLTISDEDEQQTnamMDMLLAKKRSEDRRNWLQE 621
Cdd:smart00433 559 LLFVTLDDADEADL---IFSALMGDKVEPRKEWIEE 591
|
|
| HATPase_GyrB-like |
cd16928 |
Histidine kinase-like ATPase domain of the B subunit of DNA gyrase; This family includes ... |
32-213 |
1.09e-94 |
|
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: 288.67 E-value: 1.09e-94
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766062 32 PNHLGQEVIDNSVDEALAGHAKRVDVILHADQSLEVIDDGRGMPVDIHPEEGVPAVELILCRLHAGGKFSNKNYQFSGGL 111
Cdd:cd16928 1 LHHLVWEIVDNSIDEALAGYATEIEVTLHEDNSITVEDNGRGIPVDIHPKTGKSAVEVVLTVLHAGGKFDGGSYKVSGGL 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766062 112 HGVGISVVNALSKRVEVNVRRDGQVYNIAFENGEKVQDLQVVGTCGKrnTGTSVHFWPDESFFDSPRFSVSRLTHLLKAK 191
Cdd:cd16928 81 HGVGVSVVNALSERLEVEVKRDGKIYRQEFSRGGPLTPLEVIGETKK--TGTTVRFWPDPEIFEKTEFDFDTLKRRLREL 158
|
170 180
....*....|....*....|..
gi 550766062 192 AVLCPGVEITFKDHVNNTEQSW 213
Cdd:cd16928 159 AFLNKGLKIVLEDERTGKEEVF 180
|
|
| DNA_gyraseB |
pfam00204 |
DNA gyrase B; This family represents the second domain of DNA gyrase B which has a ribosomal ... |
218-384 |
3.81e-45 |
|
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: 158.16 E-value: 3.81e-45
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766062 218 GLNDYLCEAVNGLPTLPEKP--FVGNFEGDTEAVDWALLWLPEGGELLtESYVNLIPTLLGGTHVNGLRQGLLDAMREFC 295
Cdd:pfam00204 1 GLKDFVEELNKDKKPLHKEIiyFEGESPDNRIEVEVALQWTDSYSENI-LSFVNNIATPEGGTHVDGFKSALTRTINEYA 79
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766062 296 EYRNILPRGV-KLSAEDIWDRCAYVLSVKMQDPQFAGQTKERLSSRQCAAFVSGVVKDAFTLWLNQNVQAAEMLAEMAIS 374
Cdd:pfam00204 80 KKKGLLKKKDeKITGEDIREGLTAVVSVKIPDPQFEGQTKEKLGNPEVKSAVEKIVSEKLEEFLEENPEIAKKILEKALQ 159
|
170
....*....|
gi 550766062 375 SAQRRLRAAK 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: 1210.91 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766062 2 TQTYNADAIEVLTGLEPVRRRPGMYTDTTRPNHLGQEVIDNSVDEALAGHAKRVDVILHADQSLEVIDDGRGMPVDIHPE 81
Cdd:TIGR01055 1 TTNYSAKDIEVLDGLEPVRKRPGMYTDTTRPNHLVQEVIDNSVDEALAGFASIIMVILHQDQSIEVFDNGRGMPVDIHPK 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766062 82 EGVPAVELILCRLHAGGKFSNKNYQFSGGLHGVGISVVNALSKRVEVNVRRDGQVYNIAFENGEKVQDLQVVGTCGKRNT 161
Cdd:TIGR01055 81 EGVSAVEVILTTLHAGGKFSNKNYHFSGGLHGVGISVVNALSKRVKIKVYRQGKLYSIAFENGAKVTDLISAGTCGKRLT 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766062 162 GTSVHFWPDESFFDSPRFSVSRLTHLLKAKAVLCPGVEITFKDHVNNTEQSWRYEKGLNDYLCEAVNGLPTLPEKPFVGN 241
Cdd:TIGR01055 161 GTSVHFTPDPEIFDSLHFSVSRLYHILRAKAVLCRGVEIEFEDEVNNTKALWNYPDGLKDYLSEAVNGDNTLPPKPFSGN 240
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766062 242 FEGDTEAVDWALLWLPEGGELLTESYVNLIPTLLGGTHVNGLRQGLLDAMREFCEYRNILPRGVKLSAEDIWDRCAYVLS 321
Cdd:TIGR01055 241 FEGDDEAVEWALLWLPEGGELFMESYVNLIPTPQGGTHVNGLRQGLLDALREFCEMRNNLPRGVKLTAEDIWDRCSYVLS 320
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766062 322 VKMQDPQFAGQTKERLSSRQCAAFVSGVVKDAFTLWLNQNVQAAEMLAEMAISSAQRRLRAAKKVVRKKLTSGPALPGKL 401
Cdd:TIGR01055 321 IKMQDPQFAGQTKERLSSRQVAKFVSGVIKDAFDLWLNQNVQLAEHLAEHAISSAQRRKRAAKKVVRKKLTSGPALPGKL 400
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766062 402 ADCTAQDLNRTELFLVEGDSAGGSAKQARDREYQAIMPLKGKILNTWEVSSDEVLASQEVHDISVAIGIDPDSDDLSQLR 481
Cdd:TIGR01055 401 ADCTRQDLEGTELFLVEGDSAGGSAKQARDREYQAILPLWGKILNTWEVSLDKVLNSQEIHDIEVALGIDPDSNDLSQLR 480
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766062 482 YGKICILADADSDGLHIATLLCALFVKHFRALVKNGHVHVALPPLYRIDLGKEVYYALTEEEKAGVLEQLKRKKGKPNVQ 561
Cdd:TIGR01055 481 YGKICILADADSDGLHIATLLCALFFLHFPKLVEEGHVYVAKPPLYRIDLSKEVYYALDEEEKEKLLYKLKKKKGKPNVQ 560
|
570 580 590 600 610 620
....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 550766062 562 RFKGLGEMNPMQLRETTLDPNTRRLVQLTISDEDEQQTNAMMDMLLAKKRSEDRRNWLQEKGDMA 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: 1179.12 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766062 1 MTQTYNADAIEVLTGLEPVRRRPGMY---TDTTRPNHLGQEVIDNSVDEALAGHAKRVDVILHADQSLEVIDDGRGMPVD 77
Cdd:PRK05559 4 MTNNYNADSIEVLEGLEPVRKRPGMYigsTDTRGLHHLVQEVIDNSVDEALAGHGKRIEVTLHADGSVSVRDNGRGIPVG 83
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766062 78 IHPEEGVPAVELILCRLHAGGKFSNKNYQFSGGLHGVGISVVNALSKRVEVNVRRDGQVYNIAFENGEKVQDLQVVGTCG 157
Cdd:PRK05559 84 IHPEEGKSGVEVILTKLHAGGKFSNKAYKFSGGLHGVGVSVVNALSSRLEVEVKRDGKVYRQRFEGGDPVGPLEVVGTAG 163
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766062 158 KRNTGTSVHFWPDESFFDSPRFSVSRLTHLLKAKAVLCPGVEITFKDHVnnTEQSWRYEKGLNDYLCEAVNGLPTLPEkP 237
Cdd:PRK05559 164 KRKTGTRVRFWPDPKIFDSPKFSPERLKERLRSKAFLLPGLTITLNDER--ERQTFHYENGLKDYLAELNEGKETLPE-E 240
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766062 238 FVGNFEGD--TEAVDWALLWLPEGGELLtESYVNLIPTLLGGTHVNGLRQGLLDAMREFCEYRNILPRGVKLSAEDIWDR 315
Cdd:PRK05559 241 FVGSFEGEaeGEAVEWALQWTDEGGENI-ESYVNLIPTPQGGTHENGFREGLLKAVREFAEKRNLLPKGKKLEGEDVREG 319
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766062 316 CAYVLSVKMQDPQFAGQTKERLSSRQCAAFVSGVVKDAFTLWLNQNVQAAEMLAEMAISSAQRRLRAAKKVVRKKLTSGP 395
Cdd:PRK05559 320 LAAVLSVKIPEPQFEGQTKEKLGSREARRFVSGVVKDAFDLWLNQNPELAEKLAEKAIKAAQARLRAAKKVKRKKKTSGP 399
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766062 396 ALPGKLADCTAQDLNRTELFLVEGDSAGGSAKQARDREYQAIMPLKGKILNTWEVSSDEVLASQEVHDISVAIGIDP-DS 474
Cdd:PRK05559 400 ALPGKLADCTSQDPERTELFLVEGDSAGGSAKQARDREFQAILPLRGKILNTWEASLDDVLANEEIHDIIVAIGIGPgDS 479
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766062 475 DDLSQLRYGKICILADADSDGLHIATLLCALFVKHFRALVKNGHVHVALPPLYRIDLGKEVYYALTEEEKAGVLEQLKRK 554
Cdd:PRK05559 480 FDLEDLRYGKIIIMTDADVDGAHIATLLLTFFYRHFPPLVEAGHVYIALPPLYRVDKGKKKIYALDEEEKEELLKKLGKK 559
|
570 580 590 600 610 620 630
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 550766062 555 KGKPNVQRFKGLGEMNPMQLRETTLDPNTRRLVQLTIsdEDEQQTNAMMDMLLAKKrSEDRRNWLQEKGDMADIE 629
Cdd:PRK05559 560 GGKPEIQRFKGLGEMNPDQLWETTMDPETRRLVRVTI--DDAEETEKLVDMLMGKK-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: 808.87 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766062 1 MTQTYNADAIEVLTGLEPVRRRPGMY---TDTTRPNHLGQEVIDNSVDEALAGHAKRVDVILHADQSLEVIDDGRGMPVD 77
Cdd:COG0187 2 KKSNYDASSIQVLEGLEAVRKRPGMYigsTDERGLHHLVWEIVDNSIDEALAGYCDRIEVTLHADGSVTVEDNGRGIPVD 81
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766062 78 IHPEEGVPAVELILCRLHAGGKFSNKNYQFSGGLHGVGISVVNALSKRVEVNVRRDGQVYNIAFENGEKVQDLQVVGTCG 157
Cdd:COG0187 82 IHPKEGKSALEVVLTVLHAGGKFDGGSYKVSGGLHGVGASVVNALSERLEVEVKRDGKIYRQRFERGKPVGPLEKIGKTD 161
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766062 158 KrnTGTSVHFWPDESFFDSPRFSVSRLTHLLKAKAVLCPGVEITFKDHVNNT--EQSWRYEKGLNDYLCEAVNGLPTLPE 235
Cdd:COG0187 162 R--TGTTVRFKPDPEIFETTEFDYETLAERLRELAFLNKGLTITLTDEREEEpkEETFHYEGGIKDFVEYLNEDKEPLHP 239
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766062 236 KPFVGNFEGDTEAVDWALLWLPEGGELLtESYVNLIPTLLGGTHVNGLRQGLLDAMREFCEYRNILP-RGVKLSAEDIWD 314
Cdd:COG0187 240 EVIYFEGEKDGIEVEVALQWNDGYSENI-HSFVNNINTPEGGTHETGFRTALTRVINDYARKNGLLKeKDKNLTGDDVRE 318
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766062 315 RCAYVLSVKMQDPQFAGQTKERLSSRQCAAFVSGVVKDAFTLWLNQNVQAAEMLAEMAISSAQRRLRA--AKKVVRKK-L 391
Cdd:COG0187 319 GLTAVISVKLPEPQFEGQTKTKLGNSEARGIVESVVSEKLEHYLEENPAEAKKILEKAILAARAREAArkARELVRRKsA 398
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766062 392 TSGPALPGKLADCTAQDLNRTELFLVEGDSAGGSAKQARDREYQAIMPLKGKILNTWEVSSDEVLASQEVHDISVAIGID 471
Cdd:COG0187 399 LESSGLPGKLADCSSKDPEESELFIVEGDSAGGSAKQGRDREFQAILPLRGKILNVEKARLDKILKNEEIRDLITALGTG 478
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766062 472 PDSD-DLSQLRYGKICILADADSDGLHIATLLCALFVKHFRALVKNGHVHVALPPLYRIDLGKEVYYALTEEEKAGVLEQ 550
Cdd:COG0187 479 IGDDfDLEKLRYHKIIIMTDADVDGAHIRTLLLTFFYRYMRPLIEAGHVYIAQPPLYRIKKGKKTYYAYSDAELDELLKE 558
|
570 580 590 600 610 620 630
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 550766062 551 LKRKKgKPNVQRFKGLGEMNPMQLRETTLDPNTRRLVQLTIsdEDEQQTNAMMDMLLAKKrSEDRRNWLQEKGDMAD 627
Cdd:COG0187 559 LKGKK-KVEIQRYKGLGEMNPEQLWETTMDPETRTLLQVTI--EDAAEADEIFSLLMGDK-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: 687.60 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766062 1 MTQTYNADAIEVLTGLEPVRRRPGMYTDTTRPN---HLGQEVIDNSVDEALAGHAKRVDVILHADQSLEVIDDGRGMPVD 77
Cdd:PRK05644 4 KAQEYDASQIQVLEGLEAVRKRPGMYIGSTGERglhHLVYEIVDNSIDEALAGYCDHIEVTINEDGSITVTDNGRGIPVD 83
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766062 78 IHPEEGVPAVELILCRLHAGGKFSNKNYQFSGGLHGVGISVVNALSKRVEVNVRRDGQVYNIAFENGEKVQDLQVVGTCG 157
Cdd:PRK05644 84 IHPKTGKPAVEVVLTVLHAGGKFGGGGYKVSGGLHGVGVSVVNALSTWLEVEVKRDGKIYYQEYERGVPVTPLEVIGETD 163
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766062 158 KrnTGTSVHFWPDESFFDSPRFSVSRLTHLLKAKAVLCPGVEITFKDHVNNTEQS--WRYEKGLNDYLCEAVNGLPTLPE 235
Cdd:PRK05644 164 E--TGTTVTFKPDPEIFETTEFDYDTLATRLRELAFLNKGLKITLTDEREGEEKEetFHYEGGIKEYVEYLNRNKEPLHE 241
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766062 236 KPFVGNFEGDTEAVDWALLWlpeggellTESY-------VNLIPTLLGGTHVNGLRQGLLDAMREFCEYRNIL-PRGVKL 307
Cdd:PRK05644 242 EPIYFEGEKDGIEVEVAMQY--------NDGYsenilsfANNINTHEGGTHEEGFKTALTRVINDYARKNKLLkEKDDNL 313
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766062 308 SAEDIWDRCAYVLSVKMQDPQFAGQTKERLSSRQCAAFVSGVVKDAFTLWLNQNVQAAEMLAEMAISSAQRRLRA--AKK 385
Cdd:PRK05644 314 TGEDVREGLTAVISVKHPEPQFEGQTKTKLGNSEVRGIVDSVVSEALSEFLEENPNVAKKIVEKAILAARAREAArkARE 393
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766062 386 VVRKK--LTSGpALPGKLADCTAQDLNRTELFLVEGDSAGGSAKQARDREYQAIMPLKGKILNTWEVSSDEVLASQEVHD 463
Cdd:PRK05644 394 LTRRKsaLESS-SLPGKLADCSSKDPEESELYIVEGDSAGGSAKQGRDRRFQAILPLRGKILNVEKARLDKILKNEEIRA 472
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766062 464 ISVAIG--IDPDSdDLSQLRYGKICILADADSDGLHIATLLCALFVKHFRALVKNGHVHVALPPLYRIDLGKEVyYALTE 541
Cdd:PRK05644 473 LITALGtgIGDDF-DISKLRYHKIIIMTDADVDGAHIRTLLLTFFYRYMRPLIEAGYVYIAQPPLYKIKKGGKE-YAYSD 550
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766062 542 EEKAGVLEQLKRKKG-KPNVQRFKGLGEMNPMQLRETTLDPNTRRLVQLTIsdEDEQQTNAMMDMLLAKKrSEDRRNWLQ 620
Cdd:PRK05644 551 EELDEILAELKLKGNpKYGIQRYKGLGEMNPEQLWETTMDPETRTLLQVTI--EDAAEADEIFSILMGDD-VEPRREFIE 627
|
.
gi 550766062 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: 624.20 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766062 34 HLGQEVIDNSVDEALAGHAKRVDVILHADQSLEVIDDGRGMPVDIHPEEGVPAVELILCRLHAGGKFSNKNYQFSGGLHG 113
Cdd:smart00433 4 HLVDEIVDNAADEALAGYMDTIKVTIDKDNSISVEDNGRGIPVEIHPKEKKYAPEVIFTVLHAGGKFDDDAYKVSGGLHG 83
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766062 114 VGISVVNALSKRVEVNVRRDGQVYNIAFE-NGEKVQDLQVVGTCGKrnTGTSVHFWPDESFFD-SPRFSVSRLTHLLKAK 191
Cdd:smart00433 84 VGASVVNALSTEFEVEVARDGKEYKQSFSnNGKPLSEPKIIGDTKK--DGTKVTFKPDLEIFGmTTDDDFELLKRRLREL 161
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766062 192 AVLCPGVEITFKDHVNNTEQSWRYEKGLNDYLCEAVNGLPTLPEKPFVGNFEGDTEAVDWALLWLPEGGELLTeSYVNLI 271
Cdd:smart00433 162 AFLNKGVKITLNDERSDEEKTFLFEGGIKDYVELLNKNKELLSPEPTYIEGEKDNIRVEVAFQYTDGYSENIV-SFVNNI 240
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766062 272 PTLLGGTHVNGLRQGLLDAMREFCEYRNILpRGVKLSAEDIWDRCAYVLSVKMQDPQFAGQTKERLSSRQCAAFVSGVVK 351
Cdd:smart00433 241 ATTEGGTHENGFKDALTRVINEYAKKKKKL-KEKNIKGEDVREGLTAFISVKIPEPQFEGQTKEKLGTSEVRFGVEKIVS 319
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766062 352 DAFTLWLNQNVQAAEMLAEMAISSAQRRLRA--AKKVVRKKLTSGPALPGKLADCTAQDLNRTELFLVEGDSAGGSAKQA 429
Cdd:smart00433 320 ECLLSFLEENPVEASKIVEKVLLAAKARAAAkkARELTRKKKLSSISLPGKLADASSAGPKKCELFLVEGDSAGGSAKSG 399
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766062 430 RDREYQAIMPLKGKILNTWEVSSDEVLASQEVHDISVAIGIDPDSD-DLSQLRYGKICILADADSDGLHIATLLCALFVK 508
Cdd:smart00433 400 RDRDFQAILPLRGKILNVEKASLDKILKNEEIQALITALGLGIGKDfDIEKLRYGKIIIMTDADVDGSHIKGLLLTFFYR 479
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766062 509 HFRALVKNGHVHVALPPLYRI---DLGKEVYYALTEEEKAgVLEQLKRKKGKPNVQRFKGLGEMNPMQLRETTLDPNTRR 585
Cdd:smart00433 480 YMPPLIEAGFVYIAIPPLYKVtkgKKKYVYSFYSLDEYEK-WLEKTEGNKSKYEIQRYKGLGEMNADQLWETTMDPERRT 558
|
570 580 590
....*....|....*....|....*....|....*.
gi 550766062 586 LVQLTISDEDEQQTnamMDMLLAKKRSEDRRNWLQE 621
Cdd:smart00433 559 LLFVTLDDADEADL---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: 623.61 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766062 5 YNADAIEVLTGLEPVRRRPGMYTDTTRPN---HLGQEVIDNSVDEALAGHAKRVDVILHADQSLEVIDDGRGMPVDIHPE 81
Cdd:TIGR01059 1 YDASSIKVLEGLEAVRKRPGMYIGSTGETglhHLVYEVVDNSIDEAMAGYCDTISVTINDDGSVTVEDNGRGIPVDIHPE 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766062 82 EGVPAVELILCRLHAGGKFSNKNYQFSGGLHGVGISVVNALSKRVEVNVRRDGQVYNIAFENGEKVQDLQVVGTCGKrnT 161
Cdd:TIGR01059 81 EGISAVEVVLTVLHAGGKFDKDSYKVSGGLHGVGVSVVNALSEWLEVTVFRDGKIYRQEFERGIPVGPLEVVGETKK--T 158
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766062 162 GTSVHFWPDESFFDSPRFSVSRLTHLLKAKAVLCPGVEITFKDHVNNTEQS--WRYEKGLNDYLCEAVNGLPTLPEKPFV 239
Cdd:TIGR01059 159 GTTVRFWPDPEIFETTEFDFDILAKRLRELAFLNSGVKISLEDERDGKGKKvtFHYEGGIKSFVKYLNRNKEPLHEEIIY 238
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766062 240 GNFEGDTEAVDWALLWlPEGGELLTESYVNLIPTLLGGTHVNGLRQGLLDAMREFCEYRNILPRG-VKLSAEDIWDRCAY 318
Cdd:TIGR01059 239 IKGEKEGIEVEVALQW-NDGYSENILSFVNNINTREGGTHLEGFRSALTRVINSYAKNNKLLKESkPNLTGEDIREGLTA 317
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766062 319 VLSVKMQDPQFAGQTKERLSSRQCAAFVSGVVKDAFTLWLNQNVQAAEMLAEMAISSAQRRLRA--AKKVVRKK--LTSG 394
Cdd:TIGR01059 318 VISVKVPDPQFEGQTKTKLGNSEVRSIVESLVYEKLTEFFEENPQEAKAIVEKAILAAQAREAArkARELTRRKsaLDSG 397
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766062 395 pALPGKLADCTAQDLNRTELFLVEGDSAGGSAKQARDREYQAIMPLKGKILNTWEVSSDEVLASQEVHDISVAIG--IDP 472
Cdd:TIGR01059 398 -GLPGKLADCSSKDPSKSELYIVEGDSAGGSAKQGRDRRFQAILPLRGKILNVEKARLDKILSNQEIGAIITALGcgIGK 476
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766062 473 DSdDLSQLRYGKICILADADSDGLHIATLLCALFVKHFRALVKNGHVHVALPPLYRIDLGK------------------- 533
Cdd:TIGR01059 477 DF-DLEKLRYHKIIIMTDADVDGSHIRTLLLTFFYRYMRPLIENGYVYIAQPPLYKVKKGKkeryikddkekdlvgeale 555
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766062 534 --EVYYALTEEEKAGVLEQLKRKKGK--PNVQRFKGLGEMNPMQLRETTLDPNTRRLVQLTISDEDEqqTNAMMDMLLAk 609
Cdd:TIGR01059 556 dlKALYIYSDKEKEEAKTQIPVHLGRkgIEIQRYKGLGEMNADQLWETTMDPESRTLLKVTIEDAVE--ADRIFSTLMG- 632
|
650
....*....|..
gi 550766062 610 KRSEDRRNWLQE 621
Cdd:TIGR01059 633 DEVEPRREFIEA 644
|
|
| gyrB |
PRK14939 |
DNA gyrase subunit B; Provisional |
1-596 |
0e+00 |
|
DNA gyrase subunit B; Provisional
Pssm-ID: 237860 [Multi-domain] Cd Length: 756 Bit Score: 586.29 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766062 1 MTQTYNADAIEVLTGLEPVRRRPGMY---TDT-TRPNHLGQEVIDNSVDEALAGHAKRVDVILHADQSLEVIDDGRGMPV 76
Cdd:PRK14939 3 MSNSYGASSIKVLKGLDAVRKRPGMYigdTDDgTGLHHMVYEVVDNAIDEALAGHCDDITVTIHADGSVSVSDNGRGIPT 82
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766062 77 DIHPEEGVPAVELILCRLHAGGKFSNKNYQFSGGLHGVGISVVNALSKRVEVNVRRDGQVYNIAFENGEKVQDLQVVGTC 156
Cdd:PRK14939 83 DIHPEEGVSAAEVIMTVLHAGGKFDQNSYKVSGGLHGVGVSVVNALSEWLELTIRRDGKIHEQEFEHGVPVAPLKVVGET 162
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766062 157 GKRntGTSVHFWPDESFFDSPRFSVSRLTHLLKAKAVLCPGVEITFKDHVNNTEQSWRYEKGLN---DYLCEAVNglpTL 233
Cdd:PRK14939 163 DKT--GTEVRFWPSPEIFENTEFDYDILAKRLRELAFLNSGVRIRLKDERDGKEEEFHYEGGIKafvEYLNRNKT---PL 237
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766062 234 PEKPFVGNFEGDTEAVDWALLWlpeggellTESY-------VNLIPTLLGGTHVNGLRQGLLDAMREFCEYRNILPRG-V 305
Cdd:PRK14939 238 HPNIFYFSGEKDGIGVEVALQW--------NDSYqenvlcfTNNIPQRDGGTHLAGFRAALTRTINNYIEKEGLAKKAkV 309
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766062 306 KLSAEDIwdR---CAyVLSVKMQDPQFAGQTKERLSSRQCAAFVSGVVKDAFTLWLNQNVQAAEMLAEMAISSAQRRlRA 382
Cdd:PRK14939 310 SLTGDDA--ReglTA-VLSVKVPDPKFSSQTKDKLVSSEVRPAVESLVNEKLSEFLEENPNEAKIIVGKIIDAARAR-EA 385
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766062 383 AKK---VVRKK--LTSGpALPGKLADCTAQDLNRTELFLVEGDSAGGSAKQARDREYQAIMPLKGKILNTWEVSSDEVLA 457
Cdd:PRK14939 386 ARKareLTRRKgaLDIA-GLPGKLADCQEKDPALSELYLVEGDSAGGSAKQGRDRKFQAILPLKGKILNVEKARFDKMLS 464
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766062 458 SQEVHDISVAIG--IDPDSDDLSQLRYGKICILADADSDGLHIATLLCALFVKHFRALVKNGHVHVALPPLYRIDLGK-E 534
Cdd:PRK14939 465 SQEIGTLITALGcgIGRDEFNPDKLRYHKIIIMTDADVDGSHIRTLLLTFFYRQMPELIERGHLYIAQPPLYKVKKGKqE 544
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766062 535 VY----YALTE-----------------EEKAG---------------------------VLEQL--------------- 551
Cdd:PRK14939 545 QYlkddEALDDylielalegatlhladgPAISGealeklvkeyravrkiidrlerrypraVLEALiyapaldlddladea 624
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766062 552 -----------------------------------KR---------------------KKGKpNVQRFKGLGEMNPMQLR 575
Cdd:PRK14939 625 avaaldadfltsaeyrrlvelaeklrglieegaylERgerkqpvssfeealdwllaeaRKGL-SIQRYKGLGEMNPEQLW 703
|
730 740
....*....|....*....|.
gi 550766062 576 ETTLDPNTRRLVQLTISDEDE 596
Cdd:PRK14939 704 ETTMDPENRRLLQVTIEDAIA 724
|
|
| PTZ00109 |
PTZ00109 |
DNA gyrase subunit b; Provisional |
5-624 |
3.58e-116 |
|
DNA gyrase subunit b; Provisional
Pssm-ID: 240272 [Multi-domain] Cd Length: 903 Bit Score: 368.05 E-value: 3.58e-116
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766062 5 YNADAIEVLTGLEPVRRRPGMYTDTTRPNHLGQ---EVIDNSVDEALAGHAKRVDVILHADQSLEVIDDGRGMPVDIHPE 81
Cdd:PTZ00109 100 YDADDIVVLEGLEAVRKRPGMYIGNTDEKGLHQllfEILDNSVDEYLAGECNKITVVLHKDGSVEISDNGRGIPCDVSEK 179
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766062 82 EGVPAVELILCRLHAGGKF----------------------------------------SNKNYQFSGGLHGVGISVVNA 121
Cdd:PTZ00109 180 TGKSGLETVLTVLHSGGKFqdtfpknsrsdksedkndtksskkgksshvkgpkeakekeSSQMYEYSSGLHGVGLSVVNA 259
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766062 122 LSKRVEVNVRRDGQVYNIAFENGEKVQDLQVVgTCGKRNTGTSVHFWPDES--FFDSPRFSVSRLTHLLKAK-------- 191
Cdd:PTZ00109 260 LSSFLKVDVFKGGKIYSIELSKGKVTKPLSVF-SCPLKKRGTTIHFLPDYKhiFKTHHQHTETEEEEGCKNGfnldlikn 338
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766062 192 -----AVLCPGVEITFKDH--VNNT----EQSWRYEKGLNDYLCEAVNGLPTLPEKPFVGNFEGDTEAV--DWALLWLPE 258
Cdd:PTZ00109 339 rihelSYLNPGLTFYLVDEriANENnfypYETIKHEGGTREFLEELIKDKTPLYKDINIISIRGVIKNVnvEVSLSWSLE 418
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766062 259 GGELLTESYVNLIPTLlGGTHVNGLRQGLLDAMREFCEyRNILPRG--VKLSAEDIWDRCAYVLSVKMQDPQFAGQTKER 336
Cdd:PTZ00109 419 SYTALIKSFANNVSTT-AGTHIDGFKYAITRCVNGNIK-KNGYFKGnfVNIPGEFIREGMTAIISVKLNGAEFDGQTKTK 496
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766062 337 LSSRQCAAFVSGVVKDAFT--LWLNQNVQAAEMLAEMAISSAQRRLRAAKKVVRKKLTS--GPALPGKLADCTAQDLNRT 412
Cdd:PTZ00109 497 LGNHLLKTILESIVFEQLSeiLEFEPNLLLAIYNKSLAAKKAFEEAKAAKDLIRQKNNQyySTILPGKLVDCISDDIERN 576
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766062 413 ELFLVEGDSAGGSAKQARDREYQAIMPLKGKILNTWEVSSD-EVLASQEVHDISVAIG--IDPDS---DDLSQ------- 479
Cdd:PTZ00109 577 ELFIVEGESAAGNAKQARNREFQAVLPLKGKILNIEKIKNNkKVFENSEIKLLITSIGlsVNPVTwrqYDLSHgtkaskd 656
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766062 480 ---------------------LRYGKICILADADSDGLHIATLLCALFVKHFRALVKNGHVHVALPPLYRI--------- 529
Cdd:PTZ00109 657 esvqnnnstltkkknslfdtpLRYGKIILLTDADVDGEHLRILLLTLLYRFCPSLYEHGRVYVACPPLYRItnnrmkqfn 736
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766062 530 ---DLGKEVYYALTEEE-------------------------------KAGVLEQLKRKKGKPN---------------- 559
Cdd:PTZ00109 737 vstKNSKKYIYTWSDEElnvlikllnkdysskettrsveekgnapdldNEYEDEKLDNKNMRENnvdevelktelgtnva 816
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766062 560 ----------------------VQRFKGLGEMNPMQLRETTLDPNTRRLVQLTISDEDEqqTNAMMDMLLAKKrSEDRRN 617
Cdd:PTZ00109 817 dteqtdeldinkaffkfskhyeIQRFKGLGEMMADQLWETTMDPKKRILIRITVSDAMR--ASELIFLLMGED-VQSRKQ 893
|
....*..
gi 550766062 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 ... |
32-213 |
1.09e-94 |
|
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: 288.67 E-value: 1.09e-94
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766062 32 PNHLGQEVIDNSVDEALAGHAKRVDVILHADQSLEVIDDGRGMPVDIHPEEGVPAVELILCRLHAGGKFSNKNYQFSGGL 111
Cdd:cd16928 1 LHHLVWEIVDNSIDEALAGYATEIEVTLHEDNSITVEDNGRGIPVDIHPKTGKSAVEVVLTVLHAGGKFDGGSYKVSGGL 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766062 112 HGVGISVVNALSKRVEVNVRRDGQVYNIAFENGEKVQDLQVVGTCGKrnTGTSVHFWPDESFFDSPRFSVSRLTHLLKAK 191
Cdd:cd16928 81 HGVGVSVVNALSERLEVEVKRDGKIYRQEFSRGGPLTPLEVIGETKK--TGTTVRFWPDPEIFEKTEFDFDTLKRRLREL 158
|
170 180
....*....|....*....|..
gi 550766062 192 AVLCPGVEITFKDHVNNTEQSW 213
Cdd:cd16928 159 AFLNKGLKIVLEDERTGKEEVF 180
|
|
| TopoII_Trans_DNA_gyrase |
cd00822 |
TopoIIA_Trans_DNA_gyrase: Transducer domain, having a ribosomal S5 domain 2-like fold, of the ... |
218-386 |
8.16e-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: 202.79 E-value: 8.16e-62
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766062 218 GLNDYLCEAVNGLPTLPEKPFVGNFEGDTEAVDWALLWLPEGGELLtESYVNLIPTLLGGTHVNGLRQGLLDAMREFCEY 297
Cdd:cd00822 2 GLKDFVEELNKDKEPLHEEPIYIEGEKDGVEVEVALQWTDSYSENI-LSFVNNIPTPEGGTHETGFRAALTRAINDYAKK 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766062 298 RNILPRG-VKLSAEDIWDRCAYVLSVKMQDPQFAGQTKERLSSRQCAAFVSGVVKDAFTLWLNQNVQAAEMLAEMAISSA 376
Cdd:cd00822 81 NNLLKKKdVKLTGDDIREGLTAVISVKVPEPQFEGQTKDKLGNSEVRSIVESAVREALEEWLEENPEEAKKILEKAILAA 160
|
170
....*....|
gi 550766062 377 QRRLRAAKKV 386
Cdd:cd00822 161 KAREAARKAR 170
|
|
| 39 |
PHA02569 |
DNA topoisomerase II large subunit; Provisional |
8-602 |
6.27e-53 |
|
DNA topoisomerase II large subunit; Provisional
Pssm-ID: 177398 [Multi-domain] Cd Length: 602 Bit Score: 191.51 E-value: 6.27e-53
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766062 8 DAIEVLTGLEPVRRRPGMYT-DTTRPNH----LGQ---------------EVIDNSVDEALAG---HAKRVDVILHADQs 64
Cdd:PHA02569 2 DEFKVLSDREHILKRPGMYIgSVAYEAHerflFGKftqveyvpglvkiidEIIDNSVDEAIRTnfkFANKIDVTIKNNQ- 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766062 65 LEVIDDGRGMPVD--IHPE-EGVPAVELILCRLHAGGKFSNKNyQFSGGLHGVGISVVNALSKRVeVNVRRDGQ-VYNIA 140
Cdd:PHA02569 81 VTVSDNGRGIPQAmvTTPEgEEIPGPVAAWTRTKAGSNFDDTN-RVTGGMNGVGSSLTNFFSVLF-IGETCDGKnEVTVN 158
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766062 141 FENGEKVQDLQVVGTCGKrntGTSVHFWPDESFFDSPRFS-------VSRLTHLlkakAVLCPGVEITF--KDHVNNTEQ 211
Cdd:PHA02569 159 CSNGAENISWSTKPGKGK---GTSVTFIPDFSHFEVNGLDqqyldiiLDRLQTL----AVVFPDIKFTFngKKVSGKFKK 231
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766062 212 swrYEKGLNDylceavnglptlpeKPFVGNFEGdteaVDWALLWLPEGGELLteSYVNLIPTLLGGTHVNGLRQGLldam 291
Cdd:PHA02569 232 ---YAKQFGD--------------DTIVQENDN----VSIALAPSPDGFRQL--SFVNGLHTKNGGHHVDCVMDDI---- 284
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766062 292 refCEyrNILPR-----GVKLSAEDIWDRCAYVLSVK-MQDPQFAGQTKERLSSRQcaafvsGVVKDAFTL---WLNQNV 362
Cdd:PHA02569 285 ---CE--ELIPMikkkhKIEVTKARVKECLTIVLFVRnMSNPRFDSQTKERLTSPF------GEIRNHIDLdykKIAKQI 353
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766062 363 QAAEMLAEMAISSAQRR---------LRAAKKVVRKKLTS--GPALPGKLADctaqdlnrTELFLVEGDSAGGSAKQARD 431
Cdd:PHA02569 354 LKTEAIIMPIIEAALARklaaekaaeTKAAKKAKKAKVAKhiKANLIGKDAE--------TTLFLTEGDSAIGYLIEVRD 425
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766062 432 REYQAIMPLKGKILNTWEVSSDEVLASQEVHDISVAIGIDPDSDDLsQLRYGKICILADADSDGL-HIATLLCALFVKhF 510
Cdd:PHA02569 426 EELHGGYPLRGKVLNTWGMSYADILKNKELFDICAITGLVLGEKAE-NMNYKNIAIMTDADVDGKgSIYPLLLAFFSR-W 503
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766062 511 RALVKNGHVHVALPPLYRIDLGKEV--YYALTEEEKAgvleqlKRKKGKPNVQRFKGLGEM----------NPmQLRETT 578
Cdd:PHA02569 504 PELFEQGRIRFVKTPVIIAQVGKETkwFYSLDEFEKA------KDSLKKWSIRYIKGLGSLrkseyrrvinNP-VYDVVV 576
|
650 660
....*....|....*....|....
gi 550766062 579 LDPNTRRLVQLTISDEDEQQTNAM 602
Cdd:PHA02569 577 LPDDWKELFEMLFGDDADLRKDWM 600
|
|
| TOPRIM_TopoIIA_GyrB |
cd03366 |
TOPRIM_TopoIIA_GyrB: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain ... |
412-524 |
1.98e-47 |
|
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: 162.05 E-value: 1.98e-47
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766062 412 TELFLVEGDSAGGSAKQARDREYQAIMPLKGKILNTWEVSSDEVLASQEVHDISVAIG--IDPDSDdLSQLRYGKICILA 489
Cdd:cd03366 1 SELYIVEGDSAGGSAKQGRDRRFQAILPLRGKILNVEKARLDKILKNEEIRALITALGtgIGEDFD-LEKLRYHKIIIMT 79
|
90 100 110
....*....|....*....|....*....|....*
gi 550766062 490 DADSDGLHIATLLCALFVKHFRALVKNGHVHVALP 524
Cdd:cd03366 80 DADVDGAHIRTLLLTFFFRYMRPLIENGHVYIAQP 114
|
|
| PLN03128 |
PLN03128 |
DNA topoisomerase 2; Provisional |
14-621 |
1.19e-46 |
|
DNA topoisomerase 2; Provisional
Pssm-ID: 215593 [Multi-domain] Cd Length: 1135 Bit Score: 177.59 E-value: 1.19e-46
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766062 14 TGLEPVRRRPGMYTDTTRPN------HLGQEVIDNSV----------DEALAGHA---------KRVDVILHADQ-SLEV 67
Cdd:PLN03128 11 TQLEHILLRPDTYIGSTEKHtqtlwvYEGGEMVNREVtyvpglykifDEILVNAAdnkqrdpsmDSLKVDIDVEQnTISV 90
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766062 68 IDDGRGMPVDIHPEEGVPAVELILCRLHAGGKFSNKNYQFSGGLHGVGISVVNALSKR--VEVNVRRDGQVYNIAFENGE 145
Cdd:PLN03128 91 YNNGKGIPVEIHKEEGVYVPELIFGHLLTSSNFDDNEKKTTGGRNGYGAKLANIFSTEftVETADGNRGKKYKQVFTNNM 170
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766062 146 KVQDLQVVGTCGKRNTGTSVHFWPDESffdspRFSVSRLTH----LLKAKAVLCPGVE-ITFKDHVNNTEQSwryEKGLN 220
Cdd:PLN03128 171 SVKSEPKITSCKASENWTKITFKPDLA-----KFNMTRLDEdvvaLMSKRVYDIAGCLgKKLKVELNGKKLP---VKSFQ 242
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766062 221 DY--LCEAVNGLPTLPEKPFVgnfegdtEAVD-WALLWLPEGGELLTESYVNLIPTLLGGTHVNGLRQGLLDAMREFCEY 297
Cdd:PLN03128 243 DYvgLYLGPNSREDPLPRIYE-------KVNDrWEVCVSLSDGSFQQVSFVNSIATIKGGTHVDYVADQIVKHIQEKVKK 315
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766062 298 RNilPRGVKLSAEDIWDRCAYVLSVKMQDPQFAGQTKERLSSRQcAAFVS-GVVKDAFtlwLNQNVQAA--EMLAEMAIS 374
Cdd:PLN03128 316 KN--KNATHVKPFQIKNHLWVFVNCLIENPTFDSQTKETLTTRP-SSFGSkCELSEEF---LKKVEKCGvvENILSWAQF 389
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766062 375 SAQRRLRAAKKVVRKKLTSGPALP------GKLA-DCTaqdlnrteLFLVEGDSAGG---SAKQARDREYQAIMPLKGKI 444
Cdd:PLN03128 390 KQQKELKKKDGAKRQRLTGIPKLDdandagGKKSkDCT--------LILTEGDSAKAlamSGLSVVGRDHYGVFPLRGKL 461
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766062 445 LNTWEVSSDEVLASQEVHDISVAIGIDP----DSDDLSQLRYGKICILADADSDGLHIATLLCALFVKHFRALVK-NGHV 519
Cdd:PLN03128 462 LNVREASHKQIMKNAEITNIKQILGLQFgktyDEENTKSLRYGHLMIMTDQDHDGSHIKGLIINFFHSFWPSLLKiPGFL 541
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766062 520 HVALPPLYRIDLGK--EVYYALTEEEKAgvLEQLKRKKGKPNVQRFKGLGEMNPMQLRETTLDPNTRRLVQLTISDEDeq 597
Cdd:PLN03128 542 VEFITPIVKATKGGksLSFYTMPEYEAW--KESLEGETKGWTIKYYKGLGTSTSEEAKEYFSNLDIHKKEFLWQSDED-- 617
|
650 660
....*....|....*....|....
gi 550766062 598 qtNAMMDMLLAKKRSEDRRNWLQE 621
Cdd:PLN03128 618 --GDLIDMAFSKKRVEDRKIWLNN 639
|
|
| DNA_gyraseB |
pfam00204 |
DNA gyrase B; This family represents the second domain of DNA gyrase B which has a ribosomal ... |
218-384 |
3.81e-45 |
|
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: 158.16 E-value: 3.81e-45
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766062 218 GLNDYLCEAVNGLPTLPEKP--FVGNFEGDTEAVDWALLWLPEGGELLtESYVNLIPTLLGGTHVNGLRQGLLDAMREFC 295
Cdd:pfam00204 1 GLKDFVEELNKDKKPLHKEIiyFEGESPDNRIEVEVALQWTDSYSENI-LSFVNNIATPEGGTHVDGFKSALTRTINEYA 79
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766062 296 EYRNILPRGV-KLSAEDIWDRCAYVLSVKMQDPQFAGQTKERLSSRQCAAFVSGVVKDAFTLWLNQNVQAAEMLAEMAIS 374
Cdd:pfam00204 80 KKKGLLKKKDeKITGEDIREGLTAVVSVKIPDPQFEGQTKEKLGNPEVKSAVEKIVSEKLEEFLEENPEIAKKILEKALQ 159
|
170
....*....|
gi 550766062 375 SAQRRLRAAK 384
Cdd:pfam00204 160 AAKARLAARK 169
|
|
| TOPRIM_TopoIIA_like |
cd01030 |
TOPRIM_TopoIIA_like: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain ... |
412-524 |
4.93e-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: 155.74 E-value: 4.93e-45
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766062 412 TELFLVEGDSAGGSAKQARDREYQAIMPLKGKILNTWEVSSDEVLASQEVHDISVAIG--IDPDSDDLSQLRYGKICILA 489
Cdd:cd01030 1 CELILVEGDSAGGSAKQGRDRVFQAVFPLRGKILNVEKASLKKILKNEEIQNIIKALGlgIGKDDFDLDKLRYGKIIIMT 80
|
90 100 110
....*....|....*....|....*....|....*
gi 550766062 490 DADSDGLHIATLLCALFVKHFRALVKNGHVHVALP 524
Cdd:cd01030 81 DADVDGSHIRTLLLTFFYRFWPSLLENGFLYIAQT 115
|
|
| PTZ00108 |
PTZ00108 |
DNA topoisomerase 2-like protein; Provisional |
13-621 |
2.63e-40 |
|
DNA topoisomerase 2-like protein; Provisional
Pssm-ID: 240271 [Multi-domain] Cd Length: 1388 Bit Score: 158.29 E-value: 2.63e-40
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766062 13 LTGLEPVRRRPGMYTDTTRP------------NHLGQEVI------------------DNSVDEALAGHAKRVDV-ILHA 61
Cdd:PTZ00108 13 KTQIEHILLRPDTYIGSIETqtedmwvydeekNRMVYKTItyvpglykifdeilvnaaDNKARDKGGHRMTYIKVtIDEE 92
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766062 62 DQSLEVIDDGRGMPVDIHPEEGVPAVELILCRLHAGGKFSNKNYQFSGGLHGVGISVVNALSKRVEVNVR--RDGQVYNI 139
Cdd:PTZ00108 93 NGEISVYNDGEGIPVQIHKEHKIYVPEMIFGHLLTSSNYDDTEKRVTGGRNGFGAKLTNIFSTKFTVECVdsKSGKKFKM 172
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766062 140 AFENGEKVQDLQVVGTCGKRNTGTSVHFWPDESFFDSPRFSVSRLtHLLKAK----AVLCPGVEI----------TFKDH 205
Cdd:PTZ00108 173 TWTDNMSKKSEPRITSYDGKKDYTKVTFYPDYAKFGMTEFDDDML-RLLKKRvydlAGCFGKLKVylngeriaikSFKDY 251
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766062 206 VNnteqswryekgLndYLceavngLPTLPEKPFVGNFEGDTEAVDWALLWLPEGGELLTESYVNLIPTLLGGTHVNGLRQ 285
Cdd:PTZ00108 252 VD-----------L--YL------PDGEEGKKPPYPFVYTSVNGRWEVVVSLSDGQFQQVSFVNSICTTKGGTHVNYILD 312
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766062 286 GLLDAMREFCEYRN-----ILPRGVKLSaedIWdrcAYVLSVKMQdPQFAGQTKERLSSRQcAAFVSG-VVKDAFtlwLN 359
Cdd:PTZ00108 313 QLISKLQEKAKKKKkkgkeIKPNQIKNH---LW---VFVNCLIVN-PSFDSQTKETLTTKP-SKFGSTcELSEKL---IK 381
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766062 360 Q--NVQAAEMLAEMAISSAQRRLRAAKKVVRKKLTSGpaLPgKLADCT-AQDLNRTE--LFLVEGDSAGGSAkQA----R 430
Cdd:PTZ00108 382 YvlKSPILENIVEWAQAKLAAELNKKMKAGKKSRILG--IP-KLDDANdAGGKNSEEctLILTEGDSAKALA-LAglsvV 457
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766062 431 DREYQAIMPLKGKILNTWEVSSDEVLASQEVHDISVAIGIDPDSD--DLSQLRYGKICILADADSDGLHIATLLCALFVK 508
Cdd:PTZ00108 458 GRDYYGVFPLRGKLLNVRDASLKQLMNNKEIQNLFKILGLDIGKKyeDPKGLRYGSLMIMTDQDHDGSHIKGLLINMIHH 537
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766062 509 HFRALVK-NGHVHVALPPLYRIDL-GKEVYYALTEEEkagvLEQLKRKKGKPN--VQRFKGLGEMNPMQLRE--TTLDPN 582
Cdd:PTZ00108 538 FWPSLLKnPGFLKEFITPIVKATKkGNQVISFFTIPD----FEKWKQTVGLKGwkIKYYKGLGTSTDKEGKEyfSNIDKH 613
|
650 660 670
....*....|....*....|....*....|....*....
gi 550766062 583 TRRLVQLTISDEDeqqtnaMMDMLLAKKRSEDRRNWLQE 621
Cdd:PTZ00108 614 RIRFVYVDDSDDD------SIDLAFSKKRVEDRKEWITN 646
|
|
| PLN03237 |
PLN03237 |
DNA topoisomerase 2; Provisional |
18-619 |
1.39e-33 |
|
DNA topoisomerase 2; Provisional
Pssm-ID: 215641 [Multi-domain] Cd Length: 1465 Bit Score: 137.69 E-value: 1.39e-33
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766062 18 PVRRRPGMYT--DTTRPNHLGQEVIDNSVDEalaghakrVDVILHADQSL-EVIDDGRGMPVDIHPEEGVPAVELILCRL 94
Cdd:PLN03237 71 SVTYVPGLYKifDEILVNAADNKQRDPKMDS--------LRVVIDVEQNLiSVYNNGDGVPVEIHQEEGVYVPEMIFGHL 142
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766062 95 HAGGKFSNKNYQFSGGLHGVGISVVNALSKR--VEVNVRRDGQVYNIAFEN--GEKVQdlQVVGTCGKRNTGTSVHFWPD 170
Cdd:PLN03237 143 LTSSNYDDNEKKTTGGRNGYGAKLTNIFSTEfvIETADGKRQKKYKQVFSNnmGKKSE--PVITKCKKSENWTKVTFKPD 220
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766062 171 ESFFDsprfsvsrLTHLLK-AKAVLCPGVeitfKDHVNNTEQSWRYE--------KGLNDYLCEAVNGLPTLPEKPFVGN 241
Cdd:PLN03237 221 LAKFN--------MTHLEDdVVALMKKRV----VDIAGCLGKTVKVElngkripvKSFSDYVDLYLESANKSRPENLPRI 288
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766062 242 FEGDTEAvdWALLWLPEGGELLTESYVNLIPTLLGGTHVNGLRQGLLDAMREFCEYRNilpRGVKLSAEDIWDRCAYVLS 321
Cdd:PLN03237 289 YEKVNDR--WEVCVSLSEGQFQQVSFVNSIATIKGGTHVDYVTNQIANHVMEAVNKKN---KNANIKAHNVKNHLWVFVN 363
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766062 322 VKMQDPQFAGQTKERLSSRQcAAFVSGV-VKDAFtLWLNQNVQAAEMLAEMAISSAQRRLRAAKKVVRKKLTSGPALPGK 400
Cdd:PLN03237 364 ALIDNPAFDSQTKETLTLRQ-SSFGSKCeLSEDF-LKKVMKSGIVENLLSWADFKQSKELKKTDGAKTTRVTGIPKLEDA 441
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766062 401 lADCTAQDLNRTELFLVEGDSAGGSAKQAR---DREYQAIMPLKGKILNTWEVSSDEVLASQEVHDISVAIGIDPDS--D 475
Cdd:PLN03237 442 -NEAGGKNSEKCTLILTEGDSAKALAVAGLsvvGRNYYGVFPLRGKLLNVREASHKQIMNNAEIENIKQILGLQHGKqyE 520
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766062 476 DLSQLRYGKICILADADSDGLHIATLLCALFVKHFRALVK--NGHVHVALPPLYRIDLGKEV--YYALTEEEKAGvlEQL 551
Cdd:PLN03237 521 SVKSLRYGHLMIMTDQDHDGSHIKGLLINFIHSFWPSLLKvpSFLVEFITPIVKATRRGKKVlsFYSMPEYEEWK--ESL 598
|
570 580 590 600 610 620 630
....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766062 552 KRKKGKPNVQRFKGLGEMNPMQLRE--TTLDPNTRRLVQltisdEDEQQTNAmMDMLLAKKRSEDRRNWL 619
Cdd:PLN03237 599 GGNATGWSIKYYKGLGTSTAKEGKEyfKNLGKHKKDFVW-----EDEQDGDA-IELAFSKKKIEARKNWL 662
|
|
| DNA_gyraseB_C |
pfam00986 |
DNA gyrase B subunit, carboxyl terminus; The amino terminus of eukaryotic and prokaryotic DNA ... |
555-620 |
7.31e-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: 114.78 E-value: 7.31e-31
10 20 30 40 50 60
....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 550766062 555 KGKPNVQRFKGLGEMNPMQLRETTLDPNTRRLVQLTIsdEDEQQTNAMMDMLLAKKrSEDRRNWLQ 620
Cdd:pfam00986 1 KKKVEIQRYKGLGEMNPEQLWETTMDPETRRLLQVTI--EDAAEADEIFSTLMGDK-VEPRREFIE 63
|
|
| TOPRIM_TopoIIA |
cd03365 |
TOPRIM_TopoIIA: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the ... |
414-515 |
4.77e-19 |
|
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: 83.12 E-value: 4.77e-19
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766062 414 LFLVEGDSAGGSAKQAR---DREYQAIMPLKGKILNTWEVSSDEVLASQEVHDISVAIGIDP---DSDDLSQLRYGKICI 487
Cdd:cd03365 3 LILTEGDSAKALAVAGLsvvGRDYYGVFPLRGKLLNVREASHKQIMENAEIQNIKKILGLQHgksDYESTKSLRYGRLMI 82
|
90 100
....*....|....*....|....*...
gi 550766062 488 LADADSDGLHIATLLCALFVKHFRALVK 515
Cdd:cd03365 83 MTDQDHDGSHIKGLLINFIHSFWPSLLK 110
|
|
| HATPase_c |
pfam02518 |
Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; This family represents the ... |
27-133 |
1.18e-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: 61.62 E-value: 1.18e-11
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766062 27 TDTTRPNHLGQEVIDNSVDEAlaGHAKRVDVILHADQ--SLEVIDDGRGMPVDIHPeegvpavelilcrlHAGGKFSNKN 104
Cdd:pfam02518 1 GDELRLRQVLSNLLDNALKHA--AKAGEITVTLSEGGelTLTVEDNGIGIPPEDLP--------------RIFEPFSTAD 64
|
90 100
....*....|....*....|....*....
gi 550766062 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 |
3.37e-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: 3.37e-11
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766062 27 TDTTRPNHLGQEVIDNSVDEALAGhaKRVDVILHADQ---SLEVIDDGRGMPVDIhpeegvpaVELIlcrLHAGGKFSNK 103
Cdd:smart00387 1 GDPDRLRQVLSNLLDNAIKYTPEG--GRITVTLERDGdhvEITVEDNGPGIPPED--------LEKI---FEPFFRTDKR 67
|
90 100 110
....*....|....*....|....*....|...
gi 550766062 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 |
1.79e-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: 57.75 E-value: 1.79e-10
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766062 413 ELFLVEGDSAGGSAKQARDREYQAIMPLKGKILNtwevssdevLASQEVHDISVAIgidpdsdDLSQLRYGKICILADAD 492
Cdd:pfam01751 1 ELIIVEGPSDAIALEKALGGGFQAVVAVLGHLLS---------LEKGPKKKALKAL-------KELALKAKEVILATDPD 64
|
90 100 110
....*....|....*....|....*....|..
gi 550766062 493 SDGLHIATLLcalfvKHFRALVKN--GHVHVA 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 |
4.07e-09 |
|
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: 54.57 E-value: 4.07e-09
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766062 219 LNDYLCEaVNGlPTLPEKPFVGNFEGDTEAVDWALLWlPEGGELLTE---SYVNLIPTLLGGTHVNGLRQGLLDAMRefc 295
Cdd:cd00329 1 LKDRLAE-ILG-DKVADKLIYVEGESDGFRVEGAISY-PDSGRSSKDrqfSFVNGRPVREGGTHVKAVREAYTRALN--- 74
|
90 100 110 120
....*....|....*....|....*....|....*....|....*
gi 550766062 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 550766062 53 KRVDVILHADQ-SLEVIDDGRGMPVDIHPEEGVPAVELILCRLHAGGKFSNKNYQFSGGLHGVGISVVNALSKR--VEVN 129
Cdd:cd16930 27 TCIKVTIDPENnEISVWNNGKGIPVVIHKEEKIYVPEMIFGHLLTSSNYDDDEKKVTGGRNGYGAKLCNIFSTEftVETA 106
|
90 100 110 120
....*....|....*....|....*....|....*....|.
gi 550766062 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 |
3.53e-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: 44.73 E-value: 3.53e-05
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766062 38 EVIDNSVDealAGhAKRVDVILHAD--QSLEVIDDGRGMpvdiHPEEgvpaVELILCRlHAGGKFSNKN-------YQFS 108
Cdd:cd16926 20 ELVENSID---AG-ATRIDVEIEEGglKLIRVTDNGSGI----SRED----LELAFER-HATSKISSFEdlfsittLGFR 86
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766062 109 G-GLHgvGISvvnALSkRVEVNVRRDGQV--YNIAFENGEKVQDLQVVGtcgkRNTGTSVhfwpdE------------SF 173
Cdd:cd16926 87 GeALA--SIA---SVS-RLTITTRTADDDvgTRLVVDGGGIIEEVKPAA----APVGTTV-----TvrdlfyntparrKF 151
|
170 180 190
....*....|....*....|....*....|
gi 550766062 174 FDSPRFSVSRLTHLLKAKAVLCPGVEITFK 203
Cdd:cd16926 152 LKSPKTELSKILDLVQRLALAHPDVSFSLT 181
|
|
| |
