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(-) Description

Title :  DBH TERNARY COMPLEX (SUBSTRATES PARTIALLY DISORDERED)
 
Authors :  J. D. Pata, R. C. Wilson
Date :  13 Nov 12  (Deposition) - 02 Jan 13  (Release) - 13 Feb 13  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.80
Chains :  Asym./Biol. Unit :  A,P,T
Keywords :  Y-Family Dna Polymerase, Transferase-Dna Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  R. C. Wilson, M. A. Jackson, J. D. Pata
Y-Family Polymerase Conformation Is A Major Determinant Of Fidelity And Translesion Specificity.
Structure V. 21 20 2013
PubMed-ID: 23245850  |  Reference-DOI: 10.1016/J.STR.2012.11.005

(-) Compounds

Molecule 1 - DNA POLYMERASE IV
    Chains: A
    EC Number: 2.7.7.7
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Strain: BLR(DE3)PLYSS
    Expression System Taxid: 562
    Expression System Vector Type: PKKT7-H
    Gene: DBH, SACI_0554
    Organism Scientific: SULFOLOBUS ACIDOCALDARIUS
    Organism Taxid: 330779
    Strain: ATCC 33909 / DSM 639 / JCM 8929 / NBRC 15157 / NCIMB 11770
    Synonym: POL IV
 
Molecule 2 - DNA (5'-D(*GP*GP*GP*AP*AP*GP*CP*CP*GP*G)-3')
    Chains: P
    Engineered: YES
    Organism Scientific: SYNTHETIC CONSTRUCT
    Organism Taxid: 32630
    Other Details: PRIMER DNA
    Other Details - Source: CHEMICALLY SYNTHESIZED
    Synthetic: YES
 
Molecule 3 - DNA (5'- D(*TP*TP*CP*CP*GP*CP*CP*CP*CP*GP*GP*CP*TP*TP*CP*CP*C)-3')
    Chains: T
    Engineered: YES
    Organism Scientific: SYNTHETIC CONSTRUCT
    Organism Taxid: 32630
    Other Details: TEMPLATE DNA
    Other Details - Source: CHEMICALLY SYNTHESIZED
    Synthetic: YES

 Structural Features

(-) Chains, Units

  123
Asymmetric/Biological Unit : APT

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (0, 0)

(no "Ligand,Modified Residues,Ions" information available for 4HYK)

(-) Sites  (0, 0)

(no "Site" information available for 4HYK)

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1Lys A:160 -Pro A:161

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 4HYK)

(-) 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    
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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:336
                                                                                                                                                                                                                                                                                                                                                                                
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ..eeeeee.hhhhhhhhhhhhhhh...eeeee..eeeeehhhhhh.......hhhhhhhhh...eeee.hhhhhhhhhhhhhhhhh....eeee....eeeee.......hhhhhhhhhhhhhhhhhhhhh..eeeeee.hhhhhhhhhhh.....eee.hhhhhhhhhhh.hhhhh....hhhhhhhhhhh..hhhhhh...hhhhhh..hhhhhhhhhhhhh.........ee......eee......hhhhhhhhhhhhhhhhh.....eeeeeeeeeee....eeeeeee.....hhhhhhhhhhhhhhhhhhhhh...eeeeeeeeeeee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4hyk A   1 MIVIFVDFDYFFAQVEEVLNPQYKGKPLVVCVYGAVATANYEARKLGVKAGMPIIKAMQIAPSAIYVPMRKPIYEAFSNRIMNLLNKHADKIEVASIDEAYLDVTNKVEGNFENGIELARKIKQEILEKEKITVTVGVAPNKILAKIIADKSKPNGLGVIRPTEVQDFLNELDIDEIPGIGSVLARRLNELGIQKLRDILSKNYNELEKITGKAKALYLLKLAQNKYSEPVENKSKIPHGRYLTLPYNTRDVKVILPYLKKAINEAYNKVNGIPMRITVIAIMEDLDILSKGKKFKHGISIDNAYKVAEDLLRELLVRDKRRNVRRIGVKLDNIII 343
                                    10        20        30  ||    47        57        67        77        87        97       107       117       127       137       147       157       167       177       187       197       207       217       227       237       247       257       267       277       287       297       307       317       327       337      
                                                           33|                                                                                                                                                                                                                                                                                                              
                                                            41                                                                                                                                                                                                                                                                                                              


Chain P from PDB  Type:DNA  Length:8
                                        
                 4hyk P   1 GGGAAGCC   8


Chain T from PDB  Type:DNA  Length:8
                                        
                 4hyk T  10 GGCTTCCC  17
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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 4HYK)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (13, 13)

Asymmetric/Biological Unit(hide GO term definitions)

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  Cis Peptide Bonds
    Lys A:160 - Pro A:161   [ RasMol ]  
 

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  4hyk
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 Related Entries

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

UniProtKB/Swiss-Prot
        DPO4_SULAC | Q4JB80: 3bq0 3bq1 3bq2 4f4w 4f4x 4f4y 4f4z 4f50 4nlg

(-) Related Entries Specified in the PDB File

4f4w DBH-DPO4-DPO4 #1
4f4x DBH-DPO4-DPO4 #2
4f4y DBH-DPO4-DBH
4f4z DPO4-DPO4-DBH
4f50 DBH-DBH-DPO4