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(-) Description

Title :  RB69 SINGLE-STRANDED DNA BINDING PROTEIN CORE DOMAIN
 
Authors :  S. Sun, L. Geng, Y. Shamoo
Date :  20 Jun 05  (Deposition) - 09 May 06  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.00
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Keywords :  Zn2+ Binding Subdomain, 5-Stranded Beta-Sheet, Ob Fold, Single-Stranded Dna Binding, Dna Binding Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  S. Sun, L. Geng, Y. Shamoo
Structure And Enzymatic Properties Of A Chimeric Bacteriophage Rb69 Dna Polymerase And Single-Stranded Dna Binding Protein With Increased Processivity.
Proteins V. 65 231 2006
PubMed-ID: 16881051  |  Reference-DOI: 10.1002/PROT.21088
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - GP32 SINGLE STRANDED DNA BINDING PROTEIN
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PKC30
    Expression System Strain: AR120
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Fragment: CORE DOMAIN
    Gene: 32
    Organism Scientific: ENTEROBACTERIA PHAGE RB69
    Organism Taxid: 12353

 Structural Features

(-) Chains, Units

  12
Asymmetric Unit : AB
Biological Unit 1 (1x): A 
Biological Unit 2 (1x):  B

Summary Information (see also Sequences/Alignments below)

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

Asymmetric Unit (1, 2)
No.NameCountTypeFull Name
1ZN2Ligand/IonZINC ION
Biological Unit 1 (0, 0)
No.NameCountTypeFull Name
1ZN-1Ligand/IonZINC ION
Biological Unit 2 (0, 0)
No.NameCountTypeFull Name
1ZN-1Ligand/IonZINC ION

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREHIS A:64 , CYS A:77 , CYS A:87 , CYS A:90BINDING SITE FOR RESIDUE ZN A 1
2AC2SOFTWAREHIS B:64 , CYS B:77 , CYS B:87 , CYS B:90BINDING SITE FOR RESIDUE ZN B 2

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 2A1K)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 2A1K)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2A1K)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 2A1K)

(-) Exons   (0, 0)

(no "Exon" information available for 2A1K)

(-) Sequences/Alignments

Asymmetric 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:215
 aligned with Q7Y265_BPR69 | Q7Y265 from UniProtKB/TrEMBL  Length:299

    Alignment length:215
                                    36        46        56        66        76        86        96       106       116       126       136       146       156       166       176       186       196       206       216       226       236     
         Q7Y265_BPR69    27 DKGEWKLKLDASGNGQAVIRFLPAKTDDALPFAILVNHGFKKNGKWYIETCSSTHGDYDSCPVCQYISKNDLYNTNKTEYSQLKRKTSYWANILVVKDPQAPDNEGKVFKYRFGKKIWDKINAMIAVDTEMGETPVDVTCPWEGANFVLKVKQVSGFSNYDESKFLNQSAIPNIDDESFQKELFEQMVDLSEMTSKDKFKSFEELNTKFNQVLGT 241
               SCOP domains d2a1ka_ A: automated matches                                                                                                                                                                                            SCOP domains
               CATH domains 2a1kA00 A:27-241 Replication Fork Single-Stranded Dna Binding Protein                                                                                                                                                   CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..............eeeeeee..........eeeeeeeeeee..eeeeee.hhhhh....hhhhhhhhhhhhhhhhhhhhhhhh.eeeeeeeeeeee...hhhhh..eeeeeehhhhhhhhhhhhh..................eeeeeeeeee..eee....eeeee.......hhhhhhhhhhhh.hhhhhhhhhhh.hhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2a1k A  27 DKGEWKLKLDASGNGQAVIRFLPAKTDDALPFAILVNHGFKKNGKWYIETCSSTHGDYDSCPVCQYISKNDLYNTNKTEYSQLKRKTSYWANILVVKDPQAPDNEGKVFKYRFGKKIWDKINAMIAVDTEMGETPVDVTCPWEGANFVLKVKQVSGFSNYDESKFLNQSAIPNIDDESFQKELFEQMVDLSEMTSKDKFKSFEELNTKFNQVLGT 241
                                    36        46        56        66        76        86        96       106       116       126       136       146       156       166       176       186       196       206       216       226       236     


Chain B from PDB  Type:PROTEIN  Length:212
 aligned with Q7Y265_BPR69 | Q7Y265 from UniProtKB/TrEMBL  Length:299

    Alignment length:212
                                    38        48        58        68        78        88        98       108       118       128       138       148       158       168       178       188       198       208       218       228       238  
         Q7Y265_BPR69    29 GEWKLKLDASGNGQAVIRFLPAKTDDALPFAILVNHGFKKNGKWYIETCSSTHGDYDSCPVCQYISKNDLYNTNKTEYSQLKRKTSYWANILVVKDPQAPDNEGKVFKYRFGKKIWDKINAMIAVDTEMGETPVDVTCPWEGANFVLKVKQVSGFSNYDESKFLNQSAIPNIDDESFQKELFEQMVDLSEMTSKDKFKSFEELNTKFNQVLG 240
               SCOP domains d2a1kb_ B: automated matches                                                                                                                                                                                         SCOP domains
               CATH domains 2a1kB00 B:29-240 Replication Fork Single-Stranded Dna Binding Protein                                                                                                                                                CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ............eeeeeee..........eeeeeeeeeee..eeeeee.hhhhh....hhhhhhhhhhhhhhhhhhhhhhhh.eeeeeeeeeeee...hhhhh..eeeeeehhhhhhhhhhh...hhhhh............eeeeeeeeee..eee....eeeee.......hhhhhhhhhhhh.hhhhhhhhhhh.hhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2a1k B  29 GEWKLKLDASGNGQAVIRFLPAKTDDALPFAILVNHGFKKNGKWYIETCSSTHGDYDSCPVCQYISKNDLYNTNKTEYSQLKRKTSYWANILVVKDPQAPDNEGKVFKYRFGKKIWDKINAMIAVDTEMGETPVDVTCPWEGANFVLKVKQVSGFSNYDESKFLNQSAIPNIDDESFQKELFEQMVDLSEMTSKDKFKSFEELNTKFNQVLG 240
                                    38        48        58        68        78        88        98       108       118       128       138       148       158       168       178       188       198       208       218       228       238
   Legend:   → Mismatch (orange background)
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  extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '|'

 Classification and Annotation

(-) SCOP Domains  (1, 2)

Asymmetric Unit
(-)
Class: All beta proteins (24004)

(-) CATH Domains  (1, 2)

Asymmetric Unit
(-)
Class: Alpha Beta (26913)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 2A1K)

(-) Gene Ontology  (2, 2)

Asymmetric Unit(hide GO term definitions)
Chain A,B   (Q7Y265_BPR69 | Q7Y265)
molecular function
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.
    GO:0003697    single-stranded DNA binding    Interacting selectively and non-covalently with single-stranded DNA.

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 Related Entries

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UniProtKB/TrEMBL
        Q7Y265_BPR69 | Q7Y265: 2atq

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