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(-) Description

Title :  HUMAN TFIIB-RELATED FACTOR 2 (BRF2) AND TBP BOUND TO RPPH1 PROMOTER
 
Authors :  A. Vannini, J. Gouge, K. Satia, N. Guthertz
Date :  28 Oct 14  (Deposition) - 30 Dec 15  (Release) - 30 Dec 15  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.20
Chains :  Asym./Biol. Unit :  A,B,N,T
Keywords :  Transcription Factor, Transcription (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  J. Gouge, K. Satia, N. Guthertz, M. Widya, A. J. Thompson, P. Cousin, O. Dergai, N. Hernandez, A. Vannini
Redox Signaling By The Rna Polymerase Iii Tfiib-Related Factor Brf2.
Cell(Cambridge, Mass. ) V. 163 1375 2015
PubMed-ID: 26638071  |  Reference-DOI: 10.1016/J.CELL.2015.11.005

(-) Compounds

Molecule 1 - TRANSCRIPTION FACTOR IIIB 50 KDA SUBUNIT
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Gene: BRF2, BRFU, PRO1470
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Synonym: TFIIIB50, HTFIIIB50, B-RELATED FACTOR 2, BRF-2, HBRFU
 
Molecule 2 - TATA-BOX-BINDING PROTEIN
    Chains: B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Gene: TBP, GTF2D1, TF2D, TFIID
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Synonym: TATA SEQUENCE-BINDING PROTEIN, TATA-BINDING FACTOR, TATA-BOX FACTOR, TRANSCRIPTION INITIATION FACTOR TFIID TBP SUBUNIT
 
Molecule 3 - TEMPLATE STRAND
    Chains: N
    Engineered: YES
    Organism Scientific: SYNTHETIC CONSTRUCT
    Organism Taxid: 32630
    Other Details: OLIGONUCLEOTIDE
    Synthetic: YES
 
Molecule 4 - NON-TEMPLATE STRAND
    Chains: T
    Engineered: YES
    Organism Scientific: SYNTHETIC CONSTRUCT
    Organism Taxid: 32630
    Other Details: OLIGONUCLEOTIDE
    Synthetic: YES

 Structural Features

(-) Chains, Units

  1234
Asymmetric/Biological Unit : ABNT

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 2)

Asymmetric/Biological Unit (1, 2)
No.NameCountTypeFull Name
1MG2Ligand/IonMAGNESIUM ION

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREDA N:18 , HOH N:205 , HOH N:220 , HOH N:221BINDING SITE FOR RESIDUE MG N 101
2AC2SOFTWAREDA T:17 , HOH T:222 , HOH T:227 , HOH T:228 , HOH T:234BINDING SITE FOR RESIDUE MG T 101

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4ROE)

(-) Cis Peptide Bonds  (2, 2)

Asymmetric/Biological Unit
No.Residues
1Glu B:206 -Pro B:207
2Lys B:297 -Pro B:298

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4ROE)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4ROE)

(-) Exons   (0, 0)

(no "Exon" information available for 4ROE)

(-) Sequences/Alignments

Asymmetric/Biological Unit
   Reformat: Number of residues per line =  ('0' or empty: single-line sequence representation)
  Number of residues per labelling interval =   
  UniProt sequence: complete  aligned part    
   Show mapping: SCOP domains CATH domains Pfam domains Secondary structure (by author)
SAPs(SNPs) PROSITE motifs Exons
(details for a mapped element are shown in a popup box when the mouse pointer rests over it) 
Chain A from PDB  Type:PROTEIN  Length:307
                                                                                                                                                                                                                                                                                                                                                   
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhh....hhhhhhhhhh.hhhhhhhhhhhhhhhh.......hhhhhhhhhhhh..........hhhhh.hhhhhhhhhhhhhhhhhhh.......hhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhh......hhhhhhhhhhhhhhhhhh.hhhhhh.......hhhhhhhhhhhhhhhhhhhhhh.............................hhhhhhh...hhhhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4roe A  64 QVSRSQQRGLRRVRDLCRVLQLPPTFEDTAVAYYQQAYRHSGIRAARLQKKEVLVGCCVLITCRQHNWPLTMGAICTLLYADLDVFSSTYMQIVKLLGLDVPSLCLAELVKTYCSSFKLFQASPSVPAKYVEDKEKMLSRTMQLVELANETWLVTGRHPLPVITAATFLAWQSLQPADRLSCSLARFCKLANVDLPYPASSRLQELLAVLLRMAEQLAWLRVLRLDKRSVVKHIGDLLQHRQSLVRSAFRDLLLPPCMLKSPKRICPVPPVSTVTGDENISDSEIEQYLRTPQEVRDFQRAQAARQA 411
                                    73        83        93       103       113       123       133       143       153       163       173       183       193       203       213       223       233       243       253       263       273       283       293       303       313||     364       374       384       394       404       
                                                                                                                                                                                                                                                                                    314|                                                       
                                                                                                                                                                                                                                                                                     356                                                       


Chain B from PDB  Type:PROTEIN  Length:177
                                                                                                                                                                                                                 
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ......eeeeeeeeee.....hhhhhhhhh..eeee...eeeeeeee....eeeee....eeeeeee.hhhhhhhhhhhhhhhhhhh......eeeeeeeeeeeee.....hhhhhhhhh...ee........eeeee....eeeee....eeeeeee.hhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4roe B 158 PSGIVPQLQNIVSTVNLGCKLDLKTIALRARNAEYNPKRFAAVIMRIREPRTTALIFSSGKMVCTGAKSEEQSRLAARKYARVVQKLGFPAKFLDFKIQNMVGSCDVKFPIRLEGLVLTHQQFSSYEPELFPGLIYRMIKPRIVLLIFVSGKVVLTGAKVRAEIYEAFENIYPILKG 334
                                   167       177       187       197       207       217       227       237       247       257       267       277       287       297       307       317       327       


Chain N from PDB  Type:DNA  Length:26
                                                          
                 4roe N   3 CATACAGAACTTATAAGATTCCCAAA  28
                                    12        22      


Chain T from PDB  Type:DNA  Length:27
                                                           
                 4roe T   2 TTTGGGAATCTTATAAGTTCTGTATGA  28
                                    11        21
   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
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  x → Chemical Group (purple background, 'x', labelled with number + name, e.g. ACE or NH2)
  extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '|'

 Classification and Annotation

(-) SCOP Domains  (0, 0)

(no "SCOP Domain" information available for 4ROE)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4ROE)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4ROE)

(-) Gene Ontology  (37, 42)

Asymmetric/Biological Unit(hide GO term definitions)

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  4roe
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  TBP_HUMAN | P20226
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 Related Entries

(-) Entries Sharing at Least One Protein Chain (UniProt ID)

UniProtKB/Swiss-Prot
        BRF2_HUMAN | Q9HAW0: 4roc 4rod 5n9g
        TBP_HUMAN | P20226: 1c9b 1cdw 1jfi 1nvp 1tgh 4roc 4rod 5fur 5iy6 5iy7 5iy8 5iy9 5iya 5iyb 5iyc 5iyd 5n9g

(-) Related Entries Specified in the PDB File

4roc 4rod