1JFI,1MP9,1YTF,1VOK,1YTB,1D3U


Conserved Protein Domain Family
TBP_TLF
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cd00652: TBP_TLF 
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TATA box binding protein (TBP): Present in archaea and eukaryotes, TBPs are transcription factors that recognize promoters and initiate transcription. TBP has been shown to be an essential component of three different transcription initiation complexes: SL1, TFIID and TFIIIB, directing transcription by RNA polymerases I, II and III, respectively. TBP binds directly to the TATA box promoter element, where it nucleates polymerase assembly, thus defining the transcription start site. TBP's binding in the minor groove induces a dramatic DNA bending while its own structure barely changes. The conserved core domain of TBP, which binds to the TATA box, has a bipartite structure, with intramolecular symmetry generating a saddle-shaped structure that sits astride the DNA. New members of the TBP family, called TBP-like proteins (TBLP, TLF, TLP) or TBP-related factors (TRF1, TRF2,TRP), are similar to the core domain of TBPs, with identical or chemically similar amino acids at many equivalent positions, suggesting similar structure. However, TLFs contain distinct, conserved amino acids at several positions that distinguish them from TBP.
Links
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Statistics
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PSSM-Id: 238352
Aligned: 62 rows
Threshold Bit Score: 159.634
Created: 6-Mar-2002
Updated: 2-Oct-2020
Structure
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Program:
Drawing:
Aligned Rows:
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Conserved site includes 23 residues -Click on image for an interactive view with Cn3D
Feature 1:DNA interaction surface [nucleic acid binding site]
Evidence:
  • Structure:S. cerevisiae 1YTB: TBP bound to DNA; contact distance 3.5A
  • Citation:PMID 8413604
  • Structure:Pyrococcus woesei 1D3U; archaeal TBP bound to DNA; contact distance 3.5A
  • Citation:PMID 9000631
Scroll to Sequence Alignment Display
Sequence Alignment
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Format: Row Display: Color Bits: Type Selection: 
Feature 1         ## #                           ##   # #       # #   # # # #                 
1JFI_C      8 VPQLQNIVSTVNLGcKLDLKTIALraRNAEYNp-kRFAAVIMRIRE-PRTTALIFSSGKMVCTGAKSEEQSRLAARKYAR 85  human
1YTB_A      4 VPTLQNIVATVTLGcRLDLKTVALhaRNAEYNp-kRFAAVIMRIRE-PKTTALIFASGKMVVTGAKSEDDSKLASRKYAR 81  baker's yeast
14530454  264 DIQIRNVVCNYTLPlHIDLRKLAMntHNVTYE---REKGVMMKQKRsPGCYIKVYSSGKVYIVGCRSEADCKRAARSIAR 340 Caenorhabditis ele...
Q9YGV8     10 DILITNVVCVFRTRcHLNLRKIALegANVIYKr--DVGKVLMKLRK-PRITATIWSSGKVICTGATSEEEAKFGARRLAR 86  chicken
12653225   10 DILITNVVCVFRTRcHLNLRKIALegANVIYKr--DAGKVLMKLRK-PRITATIWSSGKIICTGATSEEEAKFGARRLAR 86  human
Q9W6Z2     10 DILITNVVCVFRTRcHLNLRKIALegLNVIYKr--EVSKVLMKLRK-PRITATIWSSGKIICTGATSEEEAKVGARRLAR 86  African clawed frog
4688630    48 EFQIRNVVCNYTLPlHIDLHRVALnsGNVAFD---RGRGVLLKQKRnPSCYVKIYSSGKIYIVGCRSESECKRAARGVAR 124 Brugia malayi
AAH85661   10 DIIVTNVVSVFRTRcHLNLRTIGLegTNVIYKp--EVGKVLMKLRK-PRITASIWSSGKIICTGATSEEEAKLGARRLAR 86  zebrafish
AAL24503   42 SVTAFTIMAKFNLRcEIDLRQLAFalRHAEYNp-rKHSSLTLRLVE-PRATAMVRSSGVVSITGVLDLDELKQSAKKVAR 119 Crypthecodinium co...
XP_828065  78 VPLVVGIIAQAKLGvGVDLRALSCatRNVEFTprvRCPAATLRLHE-PNAVVQVRTSGLLGIIGSTSVGEARQATELAAR 156 Trypanosoma brucei...

Feature 1                     #    # #                            ##    #                # # #
1JFI_C     86 VVQKLGFpa----kfLDFKIQNMVGSCDVKFPIRLEGLVLThqqfSSYEPElFPGLIYRMik------pRIVLLIFVSGK 155 human
1YTB_A     82 IIQKIGFaa----kfTDFKIQNIVGSCDVKFPIRLEGLAFShgtfSSYEPElFPGLIYRMvk------pKIVLLIFVSGK 151 baker's yeast
14530454  341 HVQRVMGktkervsiRNYRVNNVLATCRLPFGIKIEEVAAKypseSTYEPElSVGLVWRSvt------pKATLRIHTTGS 414 Caenorhabditis ele...
Q9YGV8     87 CLQKLGFqv----ifTDFKVVNVLAVCNMPFEIRLPEFTKNnrphASYEPElHPAVCYRIkt------lRATLQIFSTGS 156 chicken
12653225   87 SLQKLGFqv----ifTDFKVVNVLAVCNMPFEIRLPEFTKNnrphASYEPElHPAVCYRIks------lRATLQIFSTGS 156 human
Q9W6Z2     87 SLQKLGFqv----kfTEFKVVNVLAVCTMPFEIRLNEFTKQnrphASYEPElHPAVCYRIks------lRATLQIFSTGS 156 African clawed frog
4688630   125 MVQKTMGkmmdvvriRNYRVCNVLATCKMPFGVKIEELAQKypdcSQYEPElSVGLIWRStn------pRATLRIHTTGS 198 Brugia malayi
AAH85661   87 CLQKMGFkv----rfSDFKVVNVLAVCSMPFQIRLIEFTKNnrpiASYEPElHPAASYRIkn------lRSTVQVFSTGN 156 zebrafish
AAL24503  120 LVQRSGEghek-vkfAGFTICSILAKASMGFPIRLDQLAAKwrrnALYEPElYCGCIFRTtr------pKCTYLLTSGGK 192 Crypthecodinium co...
XP_828065 157 IIRKALNlnf---ssVQFRVRSLMARFDLCHPIRLDELAKHegvfCSYEPDrFSGCIVRLsgssrgnqwQVCCTVFVTGK 233 Trypanosoma brucei...

Feature 1        #                     
1JFI_C    156 VVLTGAKvrAEIYEAFENIYPILKG 180 human
1YTB_A    152 IVLTGAKqrEEIYQAFEAIYPVLSE 176 baker's yeast
14530454  415 ITVTGAQseADVLEVLSKIYPIVLE 439 Caenorhabditis elegans
Q9YGV8    157 ITVTGPNv-KAVASAVEQIYPFVFE 180 chicken
12653225  157 ITVTGPNv-KAVATAVEQIYPFVFE 180 human
Q9W6Z2    157 ITVTGPDv-KSVASAIEQIYPFVFE 180 African clawed frog
4688630   199 ITVTGAAseSDVMKAVEVIYPIVKE 223 Brugia malayi
AAH85661  157 ITVTGPNv-QSVASAVEEIYPLLFE 180 zebrafish
AAL24503  193 VMISGFRnmEDVHEAVQRIYPILAE 217 Crypthecodinium cohnii
XP_828065 234 VIVLGARsrEELLDAFYTVLPIIAQ 258 Trypanosoma brucei TREU927

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