5FMF,4A15


Conserved Protein Domain Family
HBB
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pfam06777: HBB 
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Helical and beta-bridge domain
HBB is the domain on DEAD-box eukaryotic DNA repair helicases (EC:3.6.1.-) that appears to be a unique fold. It's conformation is of alpha-helices 12-16 plus a short beta-bridge to the FeS-cluster domain at the N-terminal. The full-length XPD protein verifies the presence of damage to DNA and allows DNA repair to proceed. XPD is an assembly of several domains to form a doughnut-shaped molecule that is able to separate two DNA strands and scan the DNA for damage. HBB helps to form the overall DNA-clamping architecture. This family represents a conserved region within a number of eukaryotic DNA repair helicases (EC:3.6.1.-).
Links
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Statistics
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PSSM-Id: 399630
View PSSM: pfam06777
Aligned: 39 rows
Threshold Bit Score: 117.102
Threshold Setting Gi: 156083623
Created: 11-May-2020
Updated: 7-Aug-2020
Structure
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Program:
Drawing:
Aligned Rows:
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PubMed ReferencesClick to see Conserved Features Help
Sequence Alignment
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Format: Row Display: Color Bits: Type Selection: 
5FMF_Y               270 RISEVRKVDSQKLQDEYEK--LVQGLHSADIlTDQEEPFVET----PVLPQDLLTEAIPGNIRRAEHFVSFLKRLIEYLK 343 baker's...
mbrcrk:TON_1040      263 AIKEADEYREHEIANFLSI--FGKGLEMLYE-EKLRERDVHEv---PIQPELVFAHVVDILNLDGRYLVKTLNEMVAVGD 336 Thermoc...
UBO_LM2E:TERMP_01136 238 AVKEAEEYNEHEIANFLSI--FLKGLENLYN-ERLKDREVEEi---PILPESIFSHVFDILNISERLLVRILREIVEVGD 311 Thermoc...
WP_015849486         238 AIKEADEYKEHEIANFLSI--FLKGLENLYQ-EKLRDLKIDEv---PIIPESIFYHVFDVLKINEKQLIRILDQMVKAGD 311 Thermoc...
WP_013905033         238 AVKEAQEYGEGDIESFLLI--LLRGLELLYE-ERLKNYEAYEv---PIRPEDIFRHVIEVTGYLGRAIVRMLNDMVEVGD 311 Pyrococ...
Q8U2A6               240 AIKEAEEYGEKDIENFLSI--LLRGLEILYK-EKLENYESEEv---PIRPEEVFLHVASVLGWSGREIGMMLEDMIEVGD 313 Pyrococ...
WP_013748813         238 AIKEAEEYGEKDIANFLSI--FLRGLEILYR-EKLENYEIQEv---PLSPMEIFSHVASILGFETRDILMVLNDMVEIGD 311 Pyrococ...
Q9UZ12               238 AIKEANEYGEKDIENFLSI--FLRGLEIIYK-EKLENYEISEv---PLSPASIFEHVSSILGLRERDLLRFLQEMVEVGD 311 Pyrococ...
WP_015491710         243 SRSEAEANGNPLLGSDVRAtdLVDAVRDVMD-DATDEFLTREn--dPIPPDYLSTKLMSRFSRSTVGIKNLFVLLHEAGM 319 Thermop...
CDF31172             242 ADSEADRNGNPLLVQDISCkdIVQLMRDIMA-DAQKEYLRREsdmiP--PDYLGEEMMVRLGMTSAGVRDLVMRLAEVGI 318 Methano...

5FMF_Y               344 TRmKVLHVISETPKSFLQHLK---------------------------QLTFIE-RKPLRFCSERLSLLVRTLEVTEVED 395 baker's...
mbrcrk:TON_1040      337 SIrEDKIEKGKPPRSYIGRVGefllfwlsligredylflmsrdkglslELVALDpSKALSFVKNVQSAIFMSGTLTPLEA 416 Thermoc...
UBO_LM2E:TERMP_01136 312 AIrEDKIEKNKPPRSYVGRVGefllnwlsvigredylfimskdrgfslELVALDpSKALDFINDIQSAIFMSGTLTPLEA 391 Thermoc...
WP_015849486         312 AIrEDKIERSLPPRSYVGRVGeflllwfaligkedylflmsrekgfslELVALDpSKALSFVKNVQSAIFMSGTMTPLEA 391 Thermoc...
WP_013905033         312 AIrEDRIERNLPPRSYIGRVGeflltwlslansedylhlmsrekglslEIVALDpSRALDFVEEVHSAIFMSGTLSPLEA 391 Pyrococ...
Q8U2A6               314 AIrEDRIERNLPPRSYVGRVGeflwnwlalreredylhlftkerglalELVALDpSVALEFLEEVHSAIFMSGTLSPLEA 393 Pyrococ...
WP_013748813         312 AIrEDRIERNLPPRSYIGRTGefllnwlslmdrsdyihlfskergpalELVALDpSIALDFLNDVHSAIFMSGTLTPLEA 391 Pyrococ...
Q9UZ12               312 AIrEDKIERNLPPRSYVGRVGeflwnwisladrsdylhvftrekglalEIVALDpSVALEFLEDVHSAILMSGTLSPLEA 391 Pyrococ...
WP_015491710         320 AIaEKKKAKRKLPRSHLATLAlfilgwlecddes-hvfliaggdnpslEAYCLDpADAAEPLRLCRSSVSMSGTLEPLRN 398 Thermop...
CDF31172             319 SIeESKKAKRKLPRSHLSSLAgfiyawmsfdsys-hvflvsggdnpylEAYCLDpGEAAEPLSTCLSSVSMSGTLSPLKD 397 Methano...

5FMF_Y               396 FTAL------------------KDIATFATLISTYEEG 415 baker's yeast
mbrcrk:TON_1040      417 FRDVmgienaklkkfprmvkreNAQVLVAKDVSTRGEE 454 Thermococcus onnurineus NA1
UBO_LM2E:TERMP_01136 392 FKDImgienaklkkfprmvkkeNALVLVAKDVSTRGEE 429 Thermococcus barophilus MP
WP_015849486         392 FADImgiegklkk-fprivkkeNAIVLVAKDVSTRGDE 428 Thermococcus sibiricus
WP_013905033         392 FRDIigveaelkk-fprivkreNALVLVARDVSTRGEE 428 Pyrococcus yayanosii
Q8U2A6               394 FRDIigvkaelkk-fprmikreNAIVLVARDVSTRGIE 430 Pyrococcus furiosus
WP_013748813         392 FRDIigvqaklkk-fprivkseNAIVLVARDVSTRGEE 428 Pyrococcus sp. NA2
Q9UZ12               392 FRDIigvnarlkk-fprmvkseNAIVLVARDVSTRGEE 428 Pyrococcus abyssi
WP_015491710         399 YAWElglrepetetfpspfppeNRRTVFVRDISTRYAD 436 Thermoplasmatales archaeon BRNA1
CDF31172             398 YAGEmgledpvsevfpspfpkeNLEVFYVNDVSTKFSE 435 Methanoculleus sp. CAG:1088
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