1D3U,1MP9


Conserved Protein Domain Family
TBP_archaea

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cd04518: TBP_archaea 
Click on image for an interactive view with Cn3D
archaeal TATA box binding protein (TBP): TBPs are transcription factors present in archaea and eukaryotes, 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.
Statistics
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PSSM-Id: 239954
Aligned: 17 rows
Threshold Bit Score: 224.434
Created: 28-Nov-2006
Updated: 2-Oct-2020
Structure
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Program:
Drawing:
Aligned Rows:
 
DNA interactionTFIIATFIIB
Conserved site includes 23 residues -Click on image for an interactive view with Cn3D
Feature 1:DNA interaction surface [nucleic acid binding site]
Evidence:

Sequence Alignment
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Format: Row Display: Color Bits: Type Selection:
Feature 1           ## #                            ##   # #             # #   # # # #          
1D3U_A        8 KLRIENIVASVDLFa--QLDLEKVLDlcPNSKYNpeEFPGIICHLDD-------PKVALLIFSSGKLVVTGAKSVQDIER 78  Pyrococcus woesei
1MP9_A       12 VVNIENIVATVTLDq--TLDLYAMERsvPNVEYDpdQFPGLIFRLES-------PKITSLIFKSGKMVVTGAKSTDELIK 82  Sulfolobus acido...
O58737        8 KLRIENIVASVDLFa--QLDLEKVLDicPNSKYNpeEFPGIICRFDD-------PKVALLIFSSGKLVVTGAKSIQDIER 78  Pyrococcus horik...
P58178       11 IVNIENIVATVTLEq--SLDLYAMERsiPNIEYDpdQFPGLIFRLEQ-------PKVTALIFKSGKMVVTGAKSTEELIK 81  Sulfolobus solfa...
14423941      6 KITIENIVASTSLAe--HLDLSRIALalDGSEYEpeQFPGLIYRLQE-------PKTAVLIFRSGKVNCTGAKNIEDVKR 76  Thermoplasma aci...
14423944      8 EVKIENIVATVILEn--QLDLNLIETkiQDVDYNpdQFPGLVYRLES-------PRVTVLIFKSGKMVITGAKSINQLIH 78  Aeropyrum pernix
NP_276739     5 DIKIENIVASATLGk--SIDLQTVAEalENVDFNreQFPGLVYKLKE-------PKTAALIFGSGKLVCTGAKSIEDSKR 75  Methanothermobac...
Q8ZVR0        7 SYRIENIVATVNLGv--ELDLEQLAErlTMAEYNpdQFPGLILRLTK-------PRISALIFRTGKMVCTGAKNEEDLKN 77  Pyrobaculum aero...
NP_963333    26 QLKLTNMVFHVRLTsskPLDLSKVAEemVNAIYEkdRFPGVRLKLNVpdenggmHTISILLFRKGPIIVSGVTKKEHLIA 105 Nanoarchaeum equ...
ZP_01392477  17 SLKIENIVASGVIAd--AIDLENVSDkiKNCELNtkRFPGAVYRIEK-------PKIASLIFSSGKVVLTGIRNNQDLHE 87  Methanoculleus m...
Feature 1                           #    # #                             ##    #           # # #
1D3U_A       79 AVAKLAQKLKSIGVkfkraPQIDVQNMVFSGDIGREFNLDVVALTlp--nCEYEPEqFPGVIYRVKe-PKSVILLFSSGK 155 Pyrococcus woesei
1MP9_A       83 AVKRIIKTLKKYGMqltgkPKIQIQNIVASANLHVIVNLDKAAFLle--nNMYEPEqFPGLIYRMDe-PRVVLLIFSSGK 159 Sulfolobus acido...
O58737       79 AVAKLIQKLKGIGVkfkraPLIDVQNMVFSGDIGREFNLDNVALTlp--nCEYEPEqFPGVIYRVKe-PRAVILLFSSGK 155 Pyrococcus horik...
P58178       82 AVKRIIKTLKKYGIkivgkPKIQIQNIVASANLHVNVNLDKAAFLle--nNMYEPEqFPGLIFRMDd-PRVVLLIFSSGK 158 Sulfolobus solfa...
14423941     77 TIKIIIDKLKAADIevyddPQIIVQNIVAVYDLESELNLTDIAMSlglenVEYEPEqFPGLVYRVEe-PRVVLLLFGSGK 155 Thermoplasma aci...
14423944     79 VVKKLLKAFADQGIpisgkPQIQIQNIVASANLKVYIDLEKAALEfe--nSLYEPEqFPGLIYRMDe-PRVVMLIFSSGK 155 Aeropyrum pernix
NP_276739    76 AIKLTVDMMRTMDPdipeeFEIKIQNIVASANLGKPLNLEAVALGle--nTEYEPEqFPGLVYRLDd-PKVVLLLFGSGK 152 Methanothermobac...
Q8ZVR0       78 AVRALVKLLKDHGAdvpfdPEVQIQNIVASGNLHAEVDLEQAVLMle--nAMYEPEqFPGLIYRMSs-PRVVILIFGSGK 154 Pyrobaculum aero...
NP_963333   106 AIEYACDIIRKYGGecieePEIKLENMVWTGYLDYEVNLALLAEKdp--dAEYNPEqFPGLTYRLGtdKKGRLHLFKNGK 183 Nanoarchaeum equ...
ZP_01392477  88 GLGIIMQSLRDAGVntydePQVAVTNIVCSYDMGKYINLNKVVITlnlenIEYEPEqFPGLVYRIEd-PKIVALLFSSGK 166 Methanoculleus m...
Feature 1          #                      
1D3U_A      156 IVCSGAKsEADAWEAVRKLLRELDKY 181 Pyrococcus woesei
1MP9_A      160 MVITGAKrEDEVHKAVKKIFDKLVEL 185 Sulfolobus acidocaldarius
O58737      156 IVCSGAKsEADAWEAVRKLLRELEKY 181 Pyrococcus horikoshii
P58178      159 MVITGAKrEDEVSKAVKRIFDKLAEL 184 Sulfolobus solfataricus
14423941    156 VVCTGAKeESEIEQAVIKVKKELQKV 181 Thermoplasma acidophilum
14423944    156 MVITGAKmENEVYDAVKKVARKLKEA 181 Aeropyrum pernix
NP_276739   153 VVCTGAKsAEDAKLGVEKTKARLAEL 178 Methanothermobacter thermautotrophicus str. Delta H
Q8ZVR0      155 IVCTGAKsEKDVATAVQKLYNQLKEL 180 Pyrobaculum aerophilum
NP_963333   184 IVVPGTRsVEETKKIVEEVIERIKKY 209 Nanoarchaeum equitans Kin4-M
ZP_01392477 167 IILTGGKtVEDIKRGLDFLEQRLETI 192 Methanoculleus marisnigri JR1

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