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Conserved domains on  [gi|686405777|ref|WP_031911942|]
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AAA family ATPase [Staphylococcus aureus]

Protein Classification

ATP-binding protein( domain architecture ID 1904429)

ATP-binding protein with an AAA (ATPases Associated with various cellular Activities) domain

Graphical summary

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List of domain hits

Name Accession Description Interval E-value
AAA_13 super family cl44622
AAA domain; This family of domains contain a P-loop motif that is characteriztic of the AAA ...
20-717 3.63e-148

AAA domain; This family of domains contain a P-loop motif that is characteriztic of the AAA superfamily. Many of the proteins in this family are conjugative transfer proteins. This family includes the PrrC protein that is thought to be the active component of the anticodon nuclease.


The actual alignment was detected with superfamily member pfam13166:

Pssm-ID: 463796 [Multi-domain]  Cd Length: 712  Bit Score: 449.13  E-value: 3.63e-148
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 686405777   20 KPKKINFIYGSNGSGKTTISNLI------GRFNKSDDCVIETKKNSNSSILVYNKKFVEKNFSQSDiGLKGIFTLGENSI 93
Cdd:pfam13166  14 DFKRYNLIYGWNGSGKTTLSRLLrslelgEPHPKFANGKFEWTNGQPLDIRVFNRDFVEENLSEQG-EIKPIFTLGEESI 92
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 686405777   94 NLQDNLNELRRKIQVNEENIYIKEKTIRGFEEEIEERTNIIKDKIWNH-QKEISKDFPEAFVGYKNNkQKFLNQCIKVYE 172
Cdd:pfam13166  93 EIQEKIAKLKKEIKDHEEKLDAAEANLQKLDKEKEKLEADFLDECWKKiKRKKNSALSEALNGFKYE-ANFKSRLLREIE 171
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 686405777  173 ENILEKSEEIltnSLEKLKENYNISFSDDIKLYEVFNVNDTEkILEIEKTNLIEKVIVGGNdSLIGQFIQSLKNSDWVKQ 252
Cdd:pfam13166 172 KDNFNAGVLL---SDEDRKAALATVFSDNKPEIAPLTFNVID-FDALEKAEILIQKVIGKS-SAIEELIKNPDLADWVEQ 246
                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 686405777  253 GLDYLDYSNHTCPFCNQSISEKLEQEIKDYFNEEYEQDLKKIKEIKQVY----SSCFEKIESNMLFILRKSIPYLNTKLL 328
Cdd:pfam13166 247 GLELHKAHLDTCPFCGQPLPAERKAALEAHFDDEFTEFQNRLQKLIEKVesaiSSLLAQLPAVSDLASLLSAFELDVEDI 326
                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 686405777  329 SKEFEVLEKQYEVNQKQLKEKLRNPSQKLKIKSLVPKIENINEIISSLNESIETNNNIIRNKEREQNKFKKNLWIYIVNN 408
Cdd:pfam13166 327 ESEAEVLNSQLDGLRRALEAKRKDPFKSIELDSVDAKIESINDLVASINELIAKHNEITDNFEEEKNKAKKKLRLHLVEE 406
                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 686405777  409 MKQDLKEYVNFKNGKFKAIANIRRQISGLKNENKKTNKEIGEIETNITSVEPTVKNINEILNKFDFKGFKLQENSNTKGt 488
Cdd:pfam13166 407 FKSEIDEYKDKYAGLEKAINSLEKEIKNLEAEIKKLREEIKELEAQLRDHKPGADEINKLLKAFGFGELELSFNEEGKG- 485
                         490       500       510       520       530       540       550       560
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 686405777  489 YLIVREDGSNANETMSEGEYNFITFLYFYYLVYGSheSTSLTSNKIVIIDDPISSLDSNVLFIVSTLVKNLIndcrnNKN 568
Cdd:pfam13166 486 YRIIRKGGSQAAETLSEGERTAIAFLYFLKSLKDS--DNDIGKDKIVVIDDPVSSLDSNHLFIVFSLIRTRT-----EKT 558
                         570       580       590       600       610       620       630       640
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 686405777  569 GIQQIFNLTHNIYFHKEITFLGSRERFSPNEVMYgIIRKKDNISYFNTYE--NNPIESSYQLMWKELNSEEMSPITSF-- 644
Cdd:pfam13166 559 NAKQVFILTHNFYFFKEVTNWFDNKRKKKNERFY-ILKKDGNSSKIKEYDrlLNPIESEYHYLFKEVYRASENDDHFYgm 637
                         650       660       670       680       690       700       710
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 686405777  645 -NTMRRILEYYFNIIGGMDYEKCI-NKFDGIDKILCKSLISGINDGSHFISDDFVITFDEASMRNYKRVFKLVFE 717
Cdd:pfam13166 638 pNVARRILETFFKFPGGVGRDKDIsEFFEGEDKAVCASLLRLLNTGSHSDNDDLDTDSDPSLLEEIAAVFRKIFK 712
 
Name Accession Description Interval E-value
AAA_13 pfam13166
AAA domain; This family of domains contain a P-loop motif that is characteriztic of the AAA ...
20-717 3.63e-148

AAA domain; This family of domains contain a P-loop motif that is characteriztic of the AAA superfamily. Many of the proteins in this family are conjugative transfer proteins. This family includes the PrrC protein that is thought to be the active component of the anticodon nuclease.


Pssm-ID: 463796 [Multi-domain]  Cd Length: 712  Bit Score: 449.13  E-value: 3.63e-148
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 686405777   20 KPKKINFIYGSNGSGKTTISNLI------GRFNKSDDCVIETKKNSNSSILVYNKKFVEKNFSQSDiGLKGIFTLGENSI 93
Cdd:pfam13166  14 DFKRYNLIYGWNGSGKTTLSRLLrslelgEPHPKFANGKFEWTNGQPLDIRVFNRDFVEENLSEQG-EIKPIFTLGEESI 92
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 686405777   94 NLQDNLNELRRKIQVNEENIYIKEKTIRGFEEEIEERTNIIKDKIWNH-QKEISKDFPEAFVGYKNNkQKFLNQCIKVYE 172
Cdd:pfam13166  93 EIQEKIAKLKKEIKDHEEKLDAAEANLQKLDKEKEKLEADFLDECWKKiKRKKNSALSEALNGFKYE-ANFKSRLLREIE 171
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 686405777  173 ENILEKSEEIltnSLEKLKENYNISFSDDIKLYEVFNVNDTEkILEIEKTNLIEKVIVGGNdSLIGQFIQSLKNSDWVKQ 252
Cdd:pfam13166 172 KDNFNAGVLL---SDEDRKAALATVFSDNKPEIAPLTFNVID-FDALEKAEILIQKVIGKS-SAIEELIKNPDLADWVEQ 246
                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 686405777  253 GLDYLDYSNHTCPFCNQSISEKLEQEIKDYFNEEYEQDLKKIKEIKQVY----SSCFEKIESNMLFILRKSIPYLNTKLL 328
Cdd:pfam13166 247 GLELHKAHLDTCPFCGQPLPAERKAALEAHFDDEFTEFQNRLQKLIEKVesaiSSLLAQLPAVSDLASLLSAFELDVEDI 326
                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 686405777  329 SKEFEVLEKQYEVNQKQLKEKLRNPSQKLKIKSLVPKIENINEIISSLNESIETNNNIIRNKEREQNKFKKNLWIYIVNN 408
Cdd:pfam13166 327 ESEAEVLNSQLDGLRRALEAKRKDPFKSIELDSVDAKIESINDLVASINELIAKHNEITDNFEEEKNKAKKKLRLHLVEE 406
                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 686405777  409 MKQDLKEYVNFKNGKFKAIANIRRQISGLKNENKKTNKEIGEIETNITSVEPTVKNINEILNKFDFKGFKLQENSNTKGt 488
Cdd:pfam13166 407 FKSEIDEYKDKYAGLEKAINSLEKEIKNLEAEIKKLREEIKELEAQLRDHKPGADEINKLLKAFGFGELELSFNEEGKG- 485
                         490       500       510       520       530       540       550       560
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 686405777  489 YLIVREDGSNANETMSEGEYNFITFLYFYYLVYGSheSTSLTSNKIVIIDDPISSLDSNVLFIVSTLVKNLIndcrnNKN 568
Cdd:pfam13166 486 YRIIRKGGSQAAETLSEGERTAIAFLYFLKSLKDS--DNDIGKDKIVVIDDPVSSLDSNHLFIVFSLIRTRT-----EKT 558
                         570       580       590       600       610       620       630       640
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 686405777  569 GIQQIFNLTHNIYFHKEITFLGSRERFSPNEVMYgIIRKKDNISYFNTYE--NNPIESSYQLMWKELNSEEMSPITSF-- 644
Cdd:pfam13166 559 NAKQVFILTHNFYFFKEVTNWFDNKRKKKNERFY-ILKKDGNSSKIKEYDrlLNPIESEYHYLFKEVYRASENDDHFYgm 637
                         650       660       670       680       690       700       710
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 686405777  645 -NTMRRILEYYFNIIGGMDYEKCI-NKFDGIDKILCKSLISGINDGSHFISDDFVITFDEASMRNYKRVFKLVFE 717
Cdd:pfam13166 638 pNVARRILETFFKFPGGVGRDKDIsEFFEGEDKAVCASLLRLLNTGSHSDNDDLDTDSDPSLLEEIAAVFRKIFK 712
RloC COG4694
Wobble nucleotide-excising tRNase [Translation, ribosomal structure and biogenesis];
1-720 1.68e-128

Wobble nucleotide-excising tRNase [Translation, ribosomal structure and biogenesis];


Pssm-ID: 443729 [Multi-domain]  Cd Length: 692  Bit Score: 397.57  E-value: 1.68e-128
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 686405777   1 MIKKI-SLQNIATYRNYVEI-KPKKINFIYGSNGSGKTTISNLI-----GRFNKSDDCVIETKKNSNS---SILVYNKKF 70
Cdd:COG4694    1 MITKIkKLKNVGAFKDFGWLaFFKKLNLIYGENGSGKSTLSRILrslelGDTSSEVIAEFEIEAGGSApnpSVRVFNRDF 80
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 686405777  71 VEKNFSQsDIGLKGIFTLGENSINLQDNLNELRRKIQVNEENIYIKEKTIRGFEEEIEERTNIIKDKIWNHQKEISkdfp 150
Cdd:COG4694   81 VEENLRS-GEEIKGIFTLGEENIELEEEIEELEKEIEDLKKELDKLEKELKEAKKALEKLLEDLAKSIKDDLKKLF---- 155
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 686405777 151 eAFVGYKNNKQKFLNQCIKVYEENILEKSEEILTNSLEKLKENYNISFSDDIKLyevfnvndtekiLEIEKTNLIEKVIV 230
Cdd:COG4694  156 -ASSGRNYRKANLEKKLSALKSSSEDELKEKLKLLKEEEPEPIAPITPLPDLKA------------LLSEAETLLEKSAV 222
                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 686405777 231 GGNDSLIGQFIQSLKNSDWVKQGLDYLDYSNH-TCPFCNQSISEKLEQEIKDYFNEEYEQDLKKIKEIKQVYSSCFEKIE 309
Cdd:COG4694  223 SSAIEELAALIQNPGNSDWVEQGLAYHKEEEDdTCPFCQQELAAERIEALEAYFDDEYEKLLAALKDLLEELESAINALS 302
                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 686405777 310 SNMLFILRKSIPYLNTKLlSKEFEVLEKQYEVNQKQLKEKLRNPSQKLKIkSLVPKIENINEIISSLNESIETNNNIIRN 389
Cdd:COG4694  303 ALLLEILRTLLPSAKEDL-KAALEALNALLETLLAALEEKIANPSTSIDL-DDQELLDELNDLIAALNALIEEHNAKIAN 380
                        410       420       430       440       450       460       470       480
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 686405777 390 KEREQNKFKKNLWIYIVNNMKQDLKEYVNfkngKFKAIANIRRQISGLKNENKKTNKEIGEIETNITSVEPTVKNINEIL 469
Cdd:COG4694  381 LKAEKEEARKKLEAHELAELKEDLSRYKA----EVEELIEELKTIKALKKALEDLKTEISELEAELSSVDEAADEINEEL 456
                        490       500       510       520       530       540       550       560
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 686405777 470 NKFDFKGFKLQENSNTKGTYLIVR--EDGSNANETMSEGEYNFITFLYFYYLVygsHESTSLTSNKIVIIDDPISSLDSN 547
Cdd:COG4694  457 KALGFDEFSLEAVEDGRSSYRLKRngENDAKPAKTLSEGEKTAIALAYFLAEL---EGDENDLKKKIVVIDDPVSSLDSN 533
                        570       580       590       600       610       620       630       640
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 686405777 548 VLFIVSTLVKNLINDCRnnkngiqQIFNLTHNIYFHKEITFLGSRERFSPNEVMYgIIRKKDNISYFNTYEN-NPIESSY 626
Cdd:COG4694  534 HRFAVASLLKELSKKAK-------QVIVLTHNLYFLKELRDLADEDNKKKNCAFY-EIRKDNRGSKIIKLDLlNPYESEY 605
                        650       660       670       680       690       700       710       720
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 686405777 627 QLMWKEL---NSEEMSPITSFNTMRRILEYYFNIiggmDYEKCINKFDGIDKILCKSLISGINDGSHFISDDFVITFDea 703
Cdd:COG4694  606 HYLFKEVydfAEGGDSLYLIPNAMRRILEAYLRF----KYPDKLDELLEDDEEEKKSLYRYINRFSHGDNSTDSLLEE-- 679
                        730
                 ....*....|....*..
gi 686405777 704 smrnYKRVFKLVFEKLG 720
Cdd:COG4694  680 ----YKSVFRRIFEFIK 692
PRK03918 PRK03918
DNA double-strand break repair ATPase Rad50;
94-486 9.30e-06

DNA double-strand break repair ATPase Rad50;


Pssm-ID: 235175 [Multi-domain]  Cd Length: 880  Bit Score: 49.29  E-value: 9.30e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 686405777  94 NLQDNLNELRRKIQVNEENIY----IKEK-----TIRGFEEEIEERTNIIKDKIWNHQKEISKdfPEAFVGYKNNKQKFL 164
Cdd:PRK03918 263 ELEERIEELKKEIEELEEKVKelkeLKEKaeeyiKLSEFYEEYLDELREIEKRLSRLEEEING--IEERIKELEEKEERL 340
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 686405777 165 NQCIKVYEE-----NILEKSEEILTNSLEKLKENYNISfsDDIKLYEVFNVNDTEKILEIEKTNLIEKVivggndSLIGQ 239
Cdd:PRK03918 341 EELKKKLKElekrlEELEERHELYEEAKAKKEELERLK--KRLTGLTPEKLEKELEELEKAKEEIEEEI------SKITA 412
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 686405777 240 FIQSLKN-SDWVKQGLDYLDYSNHTCPFCNQSISEKLEQEIKDYFNEEY---EQDLKKIKEIKQVYSSCFEKIEsNMLFI 315
Cdd:PRK03918 413 RIGELKKeIKELKKAIEELKKAKGKCPVCGRELTEEHRKELLEEYTAELkriEKELKEIEEKERKLRKELRELE-KVLKK 491
                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 686405777 316 LRKSIPYLNTKLLSKEFEvlEKQYEVNQKQLK------EKLRNPSQKLK--IKSLVPKIENINEIISSLNESIETnnniI 387
Cdd:PRK03918 492 ESELIKLKELAEQLKELE--EKLKKYNLEELEkkaeeyEKLKEKLIKLKgeIKSLKKELEKLEELKKKLAELEKK----L 565
                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 686405777 388 RNKEREQNKFKK---NLWIYIVNNMKQDLKEYVNFKNgKFKAIANIRRQISGLKNENKKTNKEIGEIETNI----TSVEP 460
Cdd:PRK03918 566 DELEEELAELLKeleELGFESVEELEERLKELEPFYN-EYLELKDAEKELEREEKELKKLEEELDKAFEELaeteKRLEE 644
                        410       420
                 ....*....|....*....|....*.
gi 686405777 461 TVKNINEILNKFDFKGFKLQENSNTK 486
Cdd:PRK03918 645 LRKELEELEKKYSEEEYEELREEYLE 670
ABC_SMC3_euk cd03272
ATP-binding cassette domain of eukaryotic SMC3 proteins; The structural maintenance of ...
2-51 3.40e-04

ATP-binding cassette domain of eukaryotic SMC3 proteins; The structural maintenance of chromosomes (SMC) proteins are large (approximately 110 to 170 kDa), and each is arranged into five recognizable domains. Amino-acid sequence homology of SMC proteins between species is largely confined to the amino- and carboxy-terminal globular domains. The amino-terminal domain contains a 'Walker A' nucleotide-binding domain (GxxGxGKS/T, in the single-letter amino-acid code), which by mutational studies has been shown to be essential in several proteins. The carboxy-terminal domain contains a sequence (the DA-box) that resembles a 'Walker B' motif, and a motif with homology to the signature sequence of the ATP-binding cassette (ABC) family of ATPases. The sequence homology within the carboxy-terminal domain is relatively high within the SMC1-SMC4 group, whereas SMC5 and SMC6 show some divergence in both of these sequences. In eukaryotic cells, the proteins are found as heterodimers of SMC1 paired with SMC3, SMC2 with SMC4, and SMC5 with SMC6 (formerly known as Rad18).


Pssm-ID: 213239 [Multi-domain]  Cd Length: 243  Bit Score: 43.02  E-value: 3.40e-04
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|..
gi 686405777   2 IKKISLQNIATYRNYVEIKP--KKINFIYGSNGSGKTTISNLIgRFNKSDDC 51
Cdd:cd03272    1 IKQVIIQGFKSYKDQTVIEPfsPKHNVVVGRNGSGKSNFFAAI-RFVLSDEY 51
SMC_prok_B TIGR02168
chromosome segregation protein SMC, common bacterial type; SMC (structural maintenance of ...
90-437 4.64e-03

chromosome segregation protein SMC, common bacterial type; SMC (structural maintenance of chromosomes) proteins bind DNA and act in organizing and segregating chromosomes for partition. SMC proteins are found in bacteria, archaea, and eukaryotes. This family represents the SMC protein of most bacteria. The smc gene is often associated with scpB (TIGR00281) and scpA genes, where scp stands for segregation and condensation protein. SMC was shown (in Caulobacter crescentus) to be induced early in S phase but present and bound to DNA throughout the cell cycle. [Cellular processes, Cell division, DNA metabolism, Chromosome-associated proteins]


Pssm-ID: 274008 [Multi-domain]  Cd Length: 1179  Bit Score: 40.43  E-value: 4.64e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 686405777    90 ENSINLQDNLNELRRKIqvneENIYIK-EKTIRgFEEeieertniIKDKIWNHQKEISKDFPEAFvgykNNKQKFLNQCI 168
Cdd:TIGR02168  186 ENLDRLEDILNELERQL----KSLERQaEKAER-YKE--------LKAELRELELALLVLRLEEL----REELEELQEEL 248
                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 686405777   169 KVYEENILEKSEEIlTNSLEKLKENynisfsddiklyEVFNVNDTEKILEIEKTNLIEKVIVGGNDSLIGQFIQSLKNSD 248
Cdd:TIGR02168  249 KEAEEELEELTAEL-QELEEKLEEL------------RLEVSELEEEIEELQKELYALANEISRLEQQKQILRERLANLE 315
                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 686405777   249 WVKQGLDYLDYSNHTCPFCNQSISEKLEQEI------KDYFNEEYEQDLKKIKEIKQVYSSCFEKIE--SNMLFILRKSI 320
Cdd:TIGR02168  316 RQLEELEAQLEELESKLDELAEELAELEEKLeelkeeLESLEAELEELEAELEELESRLEELEEQLEtlRSKVAQLELQI 395
                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 686405777   321 pylntKLLSKEFEVLEKQYE---VNQKQLKEKLRNPSQKLKIKSLVPKIENINEIISSLNESIETNNNIIRNKEREQNKF 397
Cdd:TIGR02168  396 -----ASLNNEIERLEARLErleDRRERLQQEIEELLKKLEEAELKELQAELEELEEELEELQEELERLEEALEELREEL 470
                          330       340       350       360
                   ....*....|....*....|....*....|....*....|
gi 686405777   398 KKNlwiyivNNMKQDLKEYVNFKNGKFKAIANIRRQISGL 437
Cdd:TIGR02168  471 EEA------EQALDAAERELAQLQARLDSLERLQENLEGF 504
 
Name Accession Description Interval E-value
AAA_13 pfam13166
AAA domain; This family of domains contain a P-loop motif that is characteriztic of the AAA ...
20-717 3.63e-148

AAA domain; This family of domains contain a P-loop motif that is characteriztic of the AAA superfamily. Many of the proteins in this family are conjugative transfer proteins. This family includes the PrrC protein that is thought to be the active component of the anticodon nuclease.


Pssm-ID: 463796 [Multi-domain]  Cd Length: 712  Bit Score: 449.13  E-value: 3.63e-148
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 686405777   20 KPKKINFIYGSNGSGKTTISNLI------GRFNKSDDCVIETKKNSNSSILVYNKKFVEKNFSQSDiGLKGIFTLGENSI 93
Cdd:pfam13166  14 DFKRYNLIYGWNGSGKTTLSRLLrslelgEPHPKFANGKFEWTNGQPLDIRVFNRDFVEENLSEQG-EIKPIFTLGEESI 92
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 686405777   94 NLQDNLNELRRKIQVNEENIYIKEKTIRGFEEEIEERTNIIKDKIWNH-QKEISKDFPEAFVGYKNNkQKFLNQCIKVYE 172
Cdd:pfam13166  93 EIQEKIAKLKKEIKDHEEKLDAAEANLQKLDKEKEKLEADFLDECWKKiKRKKNSALSEALNGFKYE-ANFKSRLLREIE 171
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 686405777  173 ENILEKSEEIltnSLEKLKENYNISFSDDIKLYEVFNVNDTEkILEIEKTNLIEKVIVGGNdSLIGQFIQSLKNSDWVKQ 252
Cdd:pfam13166 172 KDNFNAGVLL---SDEDRKAALATVFSDNKPEIAPLTFNVID-FDALEKAEILIQKVIGKS-SAIEELIKNPDLADWVEQ 246
                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 686405777  253 GLDYLDYSNHTCPFCNQSISEKLEQEIKDYFNEEYEQDLKKIKEIKQVY----SSCFEKIESNMLFILRKSIPYLNTKLL 328
Cdd:pfam13166 247 GLELHKAHLDTCPFCGQPLPAERKAALEAHFDDEFTEFQNRLQKLIEKVesaiSSLLAQLPAVSDLASLLSAFELDVEDI 326
                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 686405777  329 SKEFEVLEKQYEVNQKQLKEKLRNPSQKLKIKSLVPKIENINEIISSLNESIETNNNIIRNKEREQNKFKKNLWIYIVNN 408
Cdd:pfam13166 327 ESEAEVLNSQLDGLRRALEAKRKDPFKSIELDSVDAKIESINDLVASINELIAKHNEITDNFEEEKNKAKKKLRLHLVEE 406
                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 686405777  409 MKQDLKEYVNFKNGKFKAIANIRRQISGLKNENKKTNKEIGEIETNITSVEPTVKNINEILNKFDFKGFKLQENSNTKGt 488
Cdd:pfam13166 407 FKSEIDEYKDKYAGLEKAINSLEKEIKNLEAEIKKLREEIKELEAQLRDHKPGADEINKLLKAFGFGELELSFNEEGKG- 485
                         490       500       510       520       530       540       550       560
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 686405777  489 YLIVREDGSNANETMSEGEYNFITFLYFYYLVYGSheSTSLTSNKIVIIDDPISSLDSNVLFIVSTLVKNLIndcrnNKN 568
Cdd:pfam13166 486 YRIIRKGGSQAAETLSEGERTAIAFLYFLKSLKDS--DNDIGKDKIVVIDDPVSSLDSNHLFIVFSLIRTRT-----EKT 558
                         570       580       590       600       610       620       630       640
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 686405777  569 GIQQIFNLTHNIYFHKEITFLGSRERFSPNEVMYgIIRKKDNISYFNTYE--NNPIESSYQLMWKELNSEEMSPITSF-- 644
Cdd:pfam13166 559 NAKQVFILTHNFYFFKEVTNWFDNKRKKKNERFY-ILKKDGNSSKIKEYDrlLNPIESEYHYLFKEVYRASENDDHFYgm 637
                         650       660       670       680       690       700       710
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 686405777  645 -NTMRRILEYYFNIIGGMDYEKCI-NKFDGIDKILCKSLISGINDGSHFISDDFVITFDEASMRNYKRVFKLVFE 717
Cdd:pfam13166 638 pNVARRILETFFKFPGGVGRDKDIsEFFEGEDKAVCASLLRLLNTGSHSDNDDLDTDSDPSLLEEIAAVFRKIFK 712
RloC COG4694
Wobble nucleotide-excising tRNase [Translation, ribosomal structure and biogenesis];
1-720 1.68e-128

Wobble nucleotide-excising tRNase [Translation, ribosomal structure and biogenesis];


Pssm-ID: 443729 [Multi-domain]  Cd Length: 692  Bit Score: 397.57  E-value: 1.68e-128
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 686405777   1 MIKKI-SLQNIATYRNYVEI-KPKKINFIYGSNGSGKTTISNLI-----GRFNKSDDCVIETKKNSNS---SILVYNKKF 70
Cdd:COG4694    1 MITKIkKLKNVGAFKDFGWLaFFKKLNLIYGENGSGKSTLSRILrslelGDTSSEVIAEFEIEAGGSApnpSVRVFNRDF 80
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 686405777  71 VEKNFSQsDIGLKGIFTLGENSINLQDNLNELRRKIQVNEENIYIKEKTIRGFEEEIEERTNIIKDKIWNHQKEISkdfp 150
Cdd:COG4694   81 VEENLRS-GEEIKGIFTLGEENIELEEEIEELEKEIEDLKKELDKLEKELKEAKKALEKLLEDLAKSIKDDLKKLF---- 155
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 686405777 151 eAFVGYKNNKQKFLNQCIKVYEENILEKSEEILTNSLEKLKENYNISFSDDIKLyevfnvndtekiLEIEKTNLIEKVIV 230
Cdd:COG4694  156 -ASSGRNYRKANLEKKLSALKSSSEDELKEKLKLLKEEEPEPIAPITPLPDLKA------------LLSEAETLLEKSAV 222
                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 686405777 231 GGNDSLIGQFIQSLKNSDWVKQGLDYLDYSNH-TCPFCNQSISEKLEQEIKDYFNEEYEQDLKKIKEIKQVYSSCFEKIE 309
Cdd:COG4694  223 SSAIEELAALIQNPGNSDWVEQGLAYHKEEEDdTCPFCQQELAAERIEALEAYFDDEYEKLLAALKDLLEELESAINALS 302
                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 686405777 310 SNMLFILRKSIPYLNTKLlSKEFEVLEKQYEVNQKQLKEKLRNPSQKLKIkSLVPKIENINEIISSLNESIETNNNIIRN 389
Cdd:COG4694  303 ALLLEILRTLLPSAKEDL-KAALEALNALLETLLAALEEKIANPSTSIDL-DDQELLDELNDLIAALNALIEEHNAKIAN 380
                        410       420       430       440       450       460       470       480
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 686405777 390 KEREQNKFKKNLWIYIVNNMKQDLKEYVNfkngKFKAIANIRRQISGLKNENKKTNKEIGEIETNITSVEPTVKNINEIL 469
Cdd:COG4694  381 LKAEKEEARKKLEAHELAELKEDLSRYKA----EVEELIEELKTIKALKKALEDLKTEISELEAELSSVDEAADEINEEL 456
                        490       500       510       520       530       540       550       560
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 686405777 470 NKFDFKGFKLQENSNTKGTYLIVR--EDGSNANETMSEGEYNFITFLYFYYLVygsHESTSLTSNKIVIIDDPISSLDSN 547
Cdd:COG4694  457 KALGFDEFSLEAVEDGRSSYRLKRngENDAKPAKTLSEGEKTAIALAYFLAEL---EGDENDLKKKIVVIDDPVSSLDSN 533
                        570       580       590       600       610       620       630       640
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 686405777 548 VLFIVSTLVKNLINDCRnnkngiqQIFNLTHNIYFHKEITFLGSRERFSPNEVMYgIIRKKDNISYFNTYEN-NPIESSY 626
Cdd:COG4694  534 HRFAVASLLKELSKKAK-------QVIVLTHNLYFLKELRDLADEDNKKKNCAFY-EIRKDNRGSKIIKLDLlNPYESEY 605
                        650       660       670       680       690       700       710       720
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 686405777 627 QLMWKEL---NSEEMSPITSFNTMRRILEYYFNIiggmDYEKCINKFDGIDKILCKSLISGINDGSHFISDDFVITFDea 703
Cdd:COG4694  606 HYLFKEVydfAEGGDSLYLIPNAMRRILEAYLRF----KYPDKLDELLEDDEEEKKSLYRYINRFSHGDNSTDSLLEE-- 679
                        730
                 ....*....|....*..
gi 686405777 704 smrnYKRVFKLVFEKLG 720
Cdd:COG4694  680 ----YKSVFRRIFEFIK 692
PRK03918 PRK03918
DNA double-strand break repair ATPase Rad50;
94-486 9.30e-06

DNA double-strand break repair ATPase Rad50;


Pssm-ID: 235175 [Multi-domain]  Cd Length: 880  Bit Score: 49.29  E-value: 9.30e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 686405777  94 NLQDNLNELRRKIQVNEENIY----IKEK-----TIRGFEEEIEERTNIIKDKIWNHQKEISKdfPEAFVGYKNNKQKFL 164
Cdd:PRK03918 263 ELEERIEELKKEIEELEEKVKelkeLKEKaeeyiKLSEFYEEYLDELREIEKRLSRLEEEING--IEERIKELEEKEERL 340
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 686405777 165 NQCIKVYEE-----NILEKSEEILTNSLEKLKENYNISfsDDIKLYEVFNVNDTEKILEIEKTNLIEKVivggndSLIGQ 239
Cdd:PRK03918 341 EELKKKLKElekrlEELEERHELYEEAKAKKEELERLK--KRLTGLTPEKLEKELEELEKAKEEIEEEI------SKITA 412
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 686405777 240 FIQSLKN-SDWVKQGLDYLDYSNHTCPFCNQSISEKLEQEIKDYFNEEY---EQDLKKIKEIKQVYSSCFEKIEsNMLFI 315
Cdd:PRK03918 413 RIGELKKeIKELKKAIEELKKAKGKCPVCGRELTEEHRKELLEEYTAELkriEKELKEIEEKERKLRKELRELE-KVLKK 491
                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 686405777 316 LRKSIPYLNTKLLSKEFEvlEKQYEVNQKQLK------EKLRNPSQKLK--IKSLVPKIENINEIISSLNESIETnnniI 387
Cdd:PRK03918 492 ESELIKLKELAEQLKELE--EKLKKYNLEELEkkaeeyEKLKEKLIKLKgeIKSLKKELEKLEELKKKLAELEKK----L 565
                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 686405777 388 RNKEREQNKFKK---NLWIYIVNNMKQDLKEYVNFKNgKFKAIANIRRQISGLKNENKKTNKEIGEIETNI----TSVEP 460
Cdd:PRK03918 566 DELEEELAELLKeleELGFESVEELEERLKELEPFYN-EYLELKDAEKELEREEKELKKLEEELDKAFEELaeteKRLEE 644
                        410       420
                 ....*....|....*....|....*.
gi 686405777 461 TVKNINEILNKFDFKGFKLQENSNTK 486
Cdd:PRK03918 645 LRKELEELEKKYSEEEYEELREEYLE 670
RecF COG1195
Recombinational DNA repair ATPase RecF [Replication, recombination and repair];
2-38 1.30e-05

Recombinational DNA repair ATPase RecF [Replication, recombination and repair];


Pssm-ID: 440808 [Multi-domain]  Cd Length: 352  Bit Score: 47.84  E-value: 1.30e-05
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|
gi 686405777   2 IKKISLQNiatYRNY--VEIKP-KKINFIYGSNGSGKTTI 38
Cdd:COG1195    2 LKRLSLTN---FRNYesLELEFsPGINVLVGPNGQGKTNL 38
SbcC COG0419
DNA repair exonuclease SbcCD ATPase subunit [Replication, recombination and repair];
1-38 6.70e-05

DNA repair exonuclease SbcCD ATPase subunit [Replication, recombination and repair];


Pssm-ID: 440188 [Multi-domain]  Cd Length: 204  Bit Score: 44.62  E-value: 6.70e-05
                         10        20        30
                 ....*....|....*....|....*....|....*....
gi 686405777   1 MIKKISLQNIATYRNYVEIK-PKKINFIYGSNGSGKTTI 38
Cdd:COG0419    1 KLLRLRLENFRSYRDTETIDfDDGLNLIVGPNGAGKSTI 39
COG4637 COG4637
Predicted ATPase [General function prediction only];
1-42 1.15e-04

Predicted ATPase [General function prediction only];


Pssm-ID: 443675 [Multi-domain]  Cd Length: 371  Bit Score: 44.92  E-value: 1.15e-04
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....
gi 686405777   1 MIKKISLQNiatYRNY--VEIKPKKINFIYGSNGSGKttiSNLI 42
Cdd:COG4637    1 MITRIRIKN---FKSLrdLELPLGPLTVLIGANGSGK---SNLL 38
ABC_SMC3_euk cd03272
ATP-binding cassette domain of eukaryotic SMC3 proteins; The structural maintenance of ...
2-51 3.40e-04

ATP-binding cassette domain of eukaryotic SMC3 proteins; The structural maintenance of chromosomes (SMC) proteins are large (approximately 110 to 170 kDa), and each is arranged into five recognizable domains. Amino-acid sequence homology of SMC proteins between species is largely confined to the amino- and carboxy-terminal globular domains. The amino-terminal domain contains a 'Walker A' nucleotide-binding domain (GxxGxGKS/T, in the single-letter amino-acid code), which by mutational studies has been shown to be essential in several proteins. The carboxy-terminal domain contains a sequence (the DA-box) that resembles a 'Walker B' motif, and a motif with homology to the signature sequence of the ATP-binding cassette (ABC) family of ATPases. The sequence homology within the carboxy-terminal domain is relatively high within the SMC1-SMC4 group, whereas SMC5 and SMC6 show some divergence in both of these sequences. In eukaryotic cells, the proteins are found as heterodimers of SMC1 paired with SMC3, SMC2 with SMC4, and SMC5 with SMC6 (formerly known as Rad18).


Pssm-ID: 213239 [Multi-domain]  Cd Length: 243  Bit Score: 43.02  E-value: 3.40e-04
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|..
gi 686405777   2 IKKISLQNIATYRNYVEIKP--KKINFIYGSNGSGKTTISNLIgRFNKSDDC 51
Cdd:cd03272    1 IKQVIIQGFKSYKDQTVIEPfsPKHNVVVGRNGSGKSNFFAAI-RFVLSDEY 51
COG3950 COG3950
Predicted ATP-binding protein involved in virulence [General function prediction only];
1-129 8.96e-04

Predicted ATP-binding protein involved in virulence [General function prediction only];


Pssm-ID: 443150 [Multi-domain]  Cd Length: 276  Bit Score: 41.91  E-value: 8.96e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 686405777   1 MIKKISLQNIATYRNyVEI---KPKKINFIYGSNGSGKTTI--------SNLIGRFNKSDD---CVIETKKNSNSSILVY 66
Cdd:COG3950    2 RIKSLTIENFRGFED-LEIdfdNPPRLTVLVGENGSGKTTLleaialalSGLLSRLDDVKFrklLIRNGEFGDSAKLILY 80
                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 686405777  67 --------------NKKFVEKNFSQSDiGLKGIFtlgENSINLQDNLNELRRKI-QVNEENIYIKEKTIRGFEEEIEE 129
Cdd:COG3950   81 ygtsrllldgplkkLERLKEEYFSRLD-GYDSLL---DEDSNLREFLEWLREYLeDLENKLSDELDEKLEAVREALNK 154
recF PRK00064
recombination protein F; Reviewed
2-38 3.09e-03

recombination protein F; Reviewed


Pssm-ID: 234608 [Multi-domain]  Cd Length: 361  Bit Score: 40.53  E-value: 3.09e-03
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|
gi 686405777   2 IKKISLQNiatYRNY--VEIKP-KKINFIYGSNGSGKTTI 38
Cdd:PRK00064   3 LTRLSLTD---FRNYeeLDLELsPGVNVLVGENGQGKTNL 39
ABC_SMC5_euk cd03277
ATP-binding cassette domain of eukaryotic SMC5 proteins; The structural maintenance of ...
2-68 3.28e-03

ATP-binding cassette domain of eukaryotic SMC5 proteins; The structural maintenance of chromosomes (SMC) proteins are large (approximately 110 to 170 kDa), and each is arranged into five recognizable domains. Amino-acid sequence homology of SMC proteins between species is largely confined to the amino- and carboxy-terminal globular domains. The amino-terminal domain contains a 'Walker A' nucleotide-binding domain (GxxGxGKS/T, in the single-letter amino-acid code), which by mutational studies has been shown to be essential in several proteins. The carboxy-terminal domain contains a sequence (the DA-box) that resembles a 'Walker B' motif, and a motif with homology to the signature sequence of the ATP-binding cassette (ABC) family of ATPases. The sequence homology within the carboxy-terminal domain is relatively high within the SMC1-SMC4 group, whereas SMC5 and SMC6 show some divergence in both of these sequences. In eukaryotic cells, the proteins are found as heterodimers of SMC1 paired with SMC3, SMC2 with SMC4, and SMC5 with SMC6 (formerly known as Rad18).


Pssm-ID: 213244 [Multi-domain]  Cd Length: 213  Bit Score: 39.50  E-value: 3.28e-03
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 686405777   2 IKKISLQNIATYrNYVEIKP-KKINFIYGSNGSGKTTI-----------SNLIGRFNKSDDCVIETKKNSNSSILVYNK 68
Cdd:cd03277    3 IVRIKLENFVTY-DETEFRPgPSLNMIIGPNGSGKSSIvcaiclglggkPKLLGRAKKVGEFVKRGCDEGTIEIELYGN 80
ABCC_MRP_Like cd03228
ATP-binding cassette domain of multidrug resistance protein-like transporters; The MRP ...
18-45 3.31e-03

ATP-binding cassette domain of multidrug resistance protein-like transporters; The MRP (Multidrug Resistance Protein)-like transporters are involved in drug, peptide, and lipid export. They belong to the subfamily C of the ATP-binding cassette (ABC) superfamily of transport proteins. The ABCC subfamily contains transporters with a diverse functional spectrum that includes ion transport, cell surface receptor, and toxin secretion activities. The MRP-like family, similar to all ABC proteins, have a common four-domain core structure constituted by two membrane-spanning domains, each composed of six transmembrane (TM) helices, and two nucleotide-binding domains (NBD). ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.


Pssm-ID: 213195 [Multi-domain]  Cd Length: 171  Bit Score: 38.90  E-value: 3.31e-03
                         10        20
                 ....*....|....*....|....*...
gi 686405777  18 EIKPKKINFIYGSNGSGKTTISNLIGRF 45
Cdd:cd03228   24 TIKPGEKVAIVGPSGSGKSTLLKLLLRL 51
SMC_prok_B TIGR02168
chromosome segregation protein SMC, common bacterial type; SMC (structural maintenance of ...
90-437 4.64e-03

chromosome segregation protein SMC, common bacterial type; SMC (structural maintenance of chromosomes) proteins bind DNA and act in organizing and segregating chromosomes for partition. SMC proteins are found in bacteria, archaea, and eukaryotes. This family represents the SMC protein of most bacteria. The smc gene is often associated with scpB (TIGR00281) and scpA genes, where scp stands for segregation and condensation protein. SMC was shown (in Caulobacter crescentus) to be induced early in S phase but present and bound to DNA throughout the cell cycle. [Cellular processes, Cell division, DNA metabolism, Chromosome-associated proteins]


Pssm-ID: 274008 [Multi-domain]  Cd Length: 1179  Bit Score: 40.43  E-value: 4.64e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 686405777    90 ENSINLQDNLNELRRKIqvneENIYIK-EKTIRgFEEeieertniIKDKIWNHQKEISKDFPEAFvgykNNKQKFLNQCI 168
Cdd:TIGR02168  186 ENLDRLEDILNELERQL----KSLERQaEKAER-YKE--------LKAELRELELALLVLRLEEL----REELEELQEEL 248
                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 686405777   169 KVYEENILEKSEEIlTNSLEKLKENynisfsddiklyEVFNVNDTEKILEIEKTNLIEKVIVGGNDSLIGQFIQSLKNSD 248
Cdd:TIGR02168  249 KEAEEELEELTAEL-QELEEKLEEL------------RLEVSELEEEIEELQKELYALANEISRLEQQKQILRERLANLE 315
                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 686405777   249 WVKQGLDYLDYSNHTCPFCNQSISEKLEQEI------KDYFNEEYEQDLKKIKEIKQVYSSCFEKIE--SNMLFILRKSI 320
Cdd:TIGR02168  316 RQLEELEAQLEELESKLDELAEELAELEEKLeelkeeLESLEAELEELEAELEELESRLEELEEQLEtlRSKVAQLELQI 395
                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 686405777   321 pylntKLLSKEFEVLEKQYE---VNQKQLKEKLRNPSQKLKIKSLVPKIENINEIISSLNESIETNNNIIRNKEREQNKF 397
Cdd:TIGR02168  396 -----ASLNNEIERLEARLErleDRRERLQQEIEELLKKLEEAELKELQAELEELEEELEELQEELERLEEALEELREEL 470
                          330       340       350       360
                   ....*....|....*....|....*....|....*....|
gi 686405777   398 KKNlwiyivNNMKQDLKEYVNFKNGKFKAIANIRRQISGL 437
Cdd:TIGR02168  471 EEA------EQALDAAERELAQLQARLDSLERLQENLEGF 504
Mplasa_alph_rch TIGR04523
helix-rich Mycoplasma protein; Members of this family occur strictly within a subset of ...
285-484 4.75e-03

helix-rich Mycoplasma protein; Members of this family occur strictly within a subset of Mycoplasma species. Members average 750 amino acids in length, including signal peptide. Sequences are predicted (Jpred 3) to be almost entirely alpha-helical. These sequences show strong periodicity (consistent with long alpha helical structures) and low complexity rich in D,E,N,Q, and K. Genes encoding these proteins are often found in tandem. The function is unknown.


Pssm-ID: 275316 [Multi-domain]  Cd Length: 745  Bit Score: 40.39  E-value: 4.75e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 686405777  285 EEYEQDLKKIKEIKQVYSSCFEKIESNMLFILRKSIPYLN-TKLLSKEFEVLEKQYEVNQKQLKE-KLRNPSQKLKIKSL 362
Cdd:TIGR04523 366 EEKQNEIEKLKKENQSYKQEIKNLESQINDLESKIQNQEKlNQQKDEQIKKLQQEKELLEKEIERlKETIIKNNSEIKDL 445
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 686405777  363 VPKIENINEIISSLNESIETNNNIIRNKEREQNKFKKNLWIyIVNNMKQDLKEYVNFKNGKF---KAIANIRRQISGLKN 439
Cdd:TIGR04523 446 TNQDSVKELIIKNLDNTRESLETQLKVLSRSINKIKQNLEQ-KQKELKSKEKELKKLNEEKKeleEKVKDLTKKISSLKE 524
                         170       180       190       200
                  ....*....|....*....|....*....|....*....|....*
gi 686405777  440 ENKKTNKEIGEIETNITSVEPTVKNINEILNKFDFKGFKLQENSN 484
Cdd:TIGR04523 525 KIEKLESEKKEKESKISDLEDELNKDDFELKKENLEKEIDEKNKE 569
polC PRK00448
DNA polymerase III PolC; Validated
276-399 6.46e-03

DNA polymerase III PolC; Validated


Pssm-ID: 234767 [Multi-domain]  Cd Length: 1437  Bit Score: 40.21  E-value: 6.46e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 686405777  276 EQEIKDYFNEEYEQDLKKIKEIKQVYSSCFEKIESNML-----------FILRKSIPYLNTKLLSKEFEVLEKQYEVNQK 344
Cdd:PRK00448   89 EELLLDYWNEIIEKAKKNSPLFKSLLKKQKVEVEGNKLiikvnneierdHLKKKHLPKLIKQYEKFGFGILKIDFEIDDS 168
                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 686405777  345 -----QLKEKLRNPSQKLKIKSLVPKIENINEIISSLNESIETNNNIIRNKEREQNKFKK 399
Cdd:PRK00448  169 keeleKFEAQKEEEDEKLAKEALEAMKKLEAEKKKQSKNFDPKEGPVQIGKKIDKEEITP 228
COG1106 COG1106
ATPase/GTPase, AAA15 family [General function prediction only];
1-38 7.38e-03

ATPase/GTPase, AAA15 family [General function prediction only];


Pssm-ID: 440723 [Multi-domain]  Cd Length: 330  Bit Score: 39.26  E-value: 7.38e-03
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*
gi 686405777   1 MIKKISLQNIATYRNYVEI-------KPKKINFIYGSNGSGKTTI 38
Cdd:COG1106    1 MLISFSIENFRSFKDELTLsmvasglRLLRVNLIYGANASGKSNL 45
 
Blast search parameters
Data Source: Precalculated data, version = cdd.v.3.21
Preset Options:Database: CDSEARCH/cdd   Low complexity filter: no  Composition Based Adjustment: yes   E-value threshold: 0.01

References:

  • Wang J et al. (2023), "The conserved domain database in 2023", Nucleic Acids Res.51(D)384-8.
  • Lu S et al. (2020), "The conserved domain database in 2020", Nucleic Acids Res.48(D)265-8.
  • Marchler-Bauer A et al. (2017), "CDD/SPARCLE: functional classification of proteins via subfamily domain architectures.", Nucleic Acids Res.45(D)200-3.
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