Conserved Protein Domain Family
Sigma54_CBD

?
pfam04963: Sigma54_CBD (This model is not part of the current CDD release)
Sigma-54 factor, core binding domain
This domain makes a direct interaction with the core RNA polymerase, to form an enhancer dependent holoenzyme. The centre of this domain contains a very weak similarity to a helix-turn-helix motif which may represent the other DNA binding domain.
Statistics
?
PSSM-Id: 516536
Aligned: 349 rows
Threshold Bit Score: 119.873
Created: 14-Feb-2025
Updated: 28-Apr-2025
Structure
?
Aligned Rows:
PubMed ReferencesClick to see Conserved Features Help

Sequence Alignment
?
Format: Row Display: Color Bits: Type Selection:
WP_012202606 147 DATELARSAESLTDHLHRQALSl-RLG-EVDRAALRFLIENLNDDGYLE---DP-LDELAQGLagddleeceeLVHRFT- 219 Delftia
Q7M7T2        75 KIEALTIQEDSLYDILYEQI-AppLFPtATSQKIALKIIENLNEEGYFE---GE-IEKIALEC-------------ESSs 136 Wolinella succi...
WP_002956175  78 rFEQNYISEQSLYEVLESQI-DskLFPtSISQSIAFKILENINDEGYLD---VA-VAELALEM-------------GVSe 139 Helicobacter ci...
Q7VH93        77 RFESIHISQQSLYEVLEEQI-DstLFPtEISRTIALKIVENLNDEGYLD---TA-VGEIACEL-------------GLNe 138 Helicobacter he...
WP_012856805  77 TIEALTLDKKSLFQTLYEQV-NppLFPtEKSQRIAYEIIENINAEGYFE---ADaLVEIAHTL-------------NVKe 139 Sulfurospirillu...
WP_013890258  71 kIEALSVYEKSLYESLHEQI-IppLFPtPLSMQIAHDILDNLNSEGYFE---GD-LTQQAQSL-------------GVSp 132 Helicobacter bi...
P56143        68 HLENFATASKSLFETLEAQI-IppLFPtETSQKIAMDIISGLNNEGYFE---EN-IEERARIL-------------GVEs 129 Helicobacter py...
WP_013944615  57 pdlsFVSKQDSLYEYLEKEIAL--HFRtDDEKKIALFIAGSLDSKGFLTlsdKE----ICDML-------------GIDq 117 Simkania negeve...
6_pfamImport   1 ---NSIQAHVSLFEHLMTIAQEt-FAN-PKDIQIAESIIGNFDERGFLQ---TS-LTEIAVLNd--------fSVKELQ- 62 
WP_013181276 121 fLEQSIPVKETLYEHLVKQAREs-LDS-LEEIAIAELLIGYFDEDGFFT---NS-IEEASQLSg--------ySVEALK- 185 Waddlia chondro...
WP_012202606 220 ----VALRLLQSLEPVGVGARDLAECLTLQLrdqladaeregsgsaededrqavlrtALdICAQPMDLLARRD---LRKL 292 Delftia
Q7M7T2       137 esceKIRQRFSRLEPPGIGAKDVRESFLFQL--------------------------------DSSE-CDDELfslVREL 183 Wolinella succi...
WP_002956175 140 gefeRVRQRFAYLEPYGVGARDVLESFLFQL--------------------------------NNSD-LEGEGyelATKV 186 Helicobacter ci...
Q7VH93       139 edveRVRQRFAYLEPYGVGAKDVIESFLFQL--------------------------------SNTE-LEGESydlAACV 185 Helicobacter he...
WP_012856805 140 teveKIRQRFAYLEPLGVGAQDVKEAFLFQL--------------------------------QDLT-LENTLyemAEKL 186 Sulfurospirillu...
WP_013890258 133 qeyeKVRQRFAYLDPPGIGACTLQESFLFQL--------------------------------NHHDELDTPTydlCAQI 180 Helicobacter bi...
P56143       130 evyeKVRKRFSYLNPAGIGAKDVKESFLFQL--------------------------------ESRELDDNELyeeTRKI 177 Helicobacter py...
WP_013944615 118 vtltAVMNQFHQIEPIGLGARSAQEALLLQLlqkgq-----------------qktrLYkLVHKYFDDLLHNR---LQVI 177 Simkania negeve...
6_pfamImport  63 ----RVLKTIQTFDPFGVGASDLQESFLIQLrcqkk-----------------edslAYkIIEDCYEDLLHNR---LPII 118
WP_013181276 186 ----KVLTEIQTFEPFGVGATSLQHSLLIQLerknl-----------------knslSYrIVQEHYSDLLHNR---IPEI 241 Waddlia chondro...
WP_012202606 293 ASLCGA----REE-RLREALV-LITRLEPRPGRRFADVQR-QIVVPDVIVRP---------VRSGagrmdFSVQLNPDVM 356 Delftia
Q7M7T2       184 IEELEYhtryKNHpRYVEAMR-LIRSFKNPPAIDF-FEKEpDII-PDLFVHD---------SSGQ-----IEVRLNDAYY 246 Wolinella succi...
WP_002956175 187 IKDLHNhskyKNHkDYNLVMK-TIKSFKNPPAIEF-SPREaEII-PDIFIFErlksdslknTTYE-----LEVAINDAYY 258 Helicobacter ci...
Q7VH93       186 IRDLQNhskyKNHaAYNEVMK-IIKSFRNPPAIEF-GAKEaEVI-PDIFIFErvktdalknTTYE-----LEVSINDVYY 257 Helicobacter he...
WP_012856805 187 ILNFDViesfGKEpLFHEALN-IIKRFHNPPAIDF-LEEEkEVV-PDIFIYT---------IEGA-----IEVRLNDTYY 249 Sulfurospirillu...
WP_013890258 181 IQNLEChkefSHLpSYAKAMQ-TITSFKNPPALDF-ADKIpPII-PDLLVLE---------EEGN-----IFVQLNEGYY 243 Helicobacter bi...
P56143       178 ILNLEKhhefSKDfYYEKALK-ILKSFKNPPAIEF-LEKEiEVI-PELFIVE---------VDNG-----IIVRLNDESY 240 Helicobacter py...
WP_013944615 178 AKAMHL----SVP-IVKEMIQkELKKLDPFPGHQF-NHEItQVIVPDLTIEK---------EGDM-----WKVEVYGEGL 237 Simkania negeve...
6_pfamImport 119 KKHLNC----SIE-DIQKAIDkDISKLDLHPGASFSGEIA-QTIVPDAMIKE---------EDGK-----LDIVVTSDFL 178
WP_013181276 242 KKQLGR----SLQ-EVNEAVQkTIVRLDFHPGRRYVENVV-QHIVPDVSLKE---------EGEE-----LVVAVNDDYV 301 Waddlia chondro...
WP_012202606 357 PKLRVHDIY 365 Delftia
Q7M7T2       247 PTIVLDTar 255 Wolinella succinogenes
WP_002956175 259 PKIVIEEnl 267 Helicobacter cinaedi
Q7VH93       258 PKILIEEki 266 Helicobacter hepaticus
WP_012856805 250 PEVIIDTeg 258 Sulfurospirillum deleyianum
WP_013890258 244 PKVVIEEik 252 Helicobacter bizzozeronii
P56143       241 PTISLEENR 249 Helicobacter pylori 26695
WP_013944615 238 PQFHLHPRY 246 Simkania negevensis
6_pfamImport 179 PPIRLNKRY 187
WP_013181276 302 PTLRLNRRY 310 Waddlia chondrophila
| Disclaimer | Privacy statement | Accessibility |
NCBI Home NCBI Search NCBI SiteMap