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(-) Description

Title :  THE CRYSTAL STRUCTURE OF RECO FROM DEINOCOCCUS RADIODURANS.
 
Authors :  I. Leiros, J. Timmins, D. R. Hall, G. A. Leonard, S. M. Mcsweeney
Date :  18 Jul 04  (Deposition) - 23 Feb 05  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.40
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Keywords :  Dna Repair, Sad, Cys4 Zinc Finger, Ob-Fold, Reco (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  I. Leiros, J. Timmins, D. R. Hall, S. M. Mcsweeney
Crystal Structure And Dna-Binding Analysis Of Reco From Deinococcus Radiodurans
Embo J. V. 24 906 2005
PubMed-ID: 15719017  |  Reference-DOI: 10.1038/SJ.EMBOJ.7600582

(-) Compounds

Molecule 1 - HYPOTHETICAL PROTEIN DR0819
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Organism Scientific: DEINOCOCCUS RADIODURANS
    Organism Taxid: 243230
    Strain: R1
    Synonym: RECO

 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
1AC1SOFTWARECYS A:153 , CYS A:156 , CYS A:173 , CYS A:176BINDING SITE FOR RESIDUE ZN A1238
2AC2SOFTWARECYS B:153 , CYS B:156 , CYS B:173 , CYS B:176BINDING SITE FOR RESIDUE ZN B1239

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1W3S)

(-) Cis Peptide Bonds  (1, 1)

Asymmetric Unit
No.Residues
1Ser B:3 -Arg B:4

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1W3S)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 1W3S)

(-) Exons   (0, 0)

(no "Exon" information available for 1W3S)

(-) 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:230
 aligned with Q9RW50_DEIRA | Q9RW50 from UniProtKB/TrEMBL  Length:244

    Alignment length:236
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231      
         Q9RW50_DEIRA     2 RSRTANRSGIVIRRRVTPAGDIIVTLLTPQGKLKAIARGGVKGPLSSSLNLFHHVGVQVYQGPHNDLASVKQAVLEGALPTLAEPERYAFAHLMAEFADALFQEGEFSEQAFDLFAASLRGVAHQPDPEWVALVMSYKLLGLAGVIPQTARCARCGAPDPEHPDPLGGQLLCSKCAALPPYPPAVLDFLRHAVRRTVRASFEQPVPSADRPALWRALEKFVTVQVGGVHSWRQLVP 237
               SCOP domains d1w3sa1 A:2-80 Recombinational repair p      rotein RecO, N-terminal domain    d1w3sa2 A:81-237 Recombinational repair protein RecO, C-terminal domain                                                                                       SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeeeeeeeeeee.....eeeeeee..eeeeeee..------........eeeeeee.......eeeeeeeeee.hhhhhhhhhhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhh......................................hhhhhhhhhhh...hhhhhhhh.....hhhhhhhhhhhhhhhhh.....hhhhh. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1w3s A   2 RSRTANRSGIVIRRRVTPAGDIIVTLLTPQGKLKAIARG------SSSLNLFHHVGVQVYQGPHNDLASVKQAVLEGALPTLAEPERYAFAHLMAEFADALFQEGEFSEQAFDLFAASLRGVAHQPDPEWVALVMSYKLLGLAGVIPQTARCARCGAPDPEHPDPLGGQLLCSKCAALPPYPPAVLDFLRHAVRRTVRASFEQPVPSADRPALWRALEKFVTVQVGGVHSWRQLVP 237
                                    11        21        31        |-     |  51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231      
                                                                 40     47                                                                                                                                                                                              


Chain B from PDB  Type:PROTEIN  Length:231
 aligned with Q9RW50_DEIRA | Q9RW50 from UniProtKB/TrEMBL  Length:244

    Alignment length:236
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232      
         Q9RW50_DEIRA     3 SRTANRSGIVIRRRVTPAGDIIVTLLTPQGKLKAIARGGVKGPLSSSLNLFHHVGVQVYQGPHNDLASVKQAVLEGALPTLAEPERYAFAHLMAEFADALFQEGEFSEQAFDLFAASLRGVAHQPDPEWVALVMSYKLLGLAGVIPQTARCARCGAPDPEHPDPLGGQLLCSKCAALPPYPPAVLDFLRHAVRRTVRASFEQPVPSADRPALWRALEKFVTVQVGGVHSWRQLVPS 238
               SCOP domains d1w3sb1 B:3-80 Recombinational repair      protein RecO, N-terminal domain    d1w3sb2 B:81-238 Recombinational repair protein RecO, C-terminal domain                                                                                        SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
           Pfam domains (1) RecO_N-1w3sB01 B:3-79                                                        ---RecO_C-1w3sB03 B:83-233                                                                                                                                ----- Pfam domains (1)
           Pfam domains (2) RecO_N-1w3sB02 B:3-79                                                        ---RecO_C-1w3sB04 B:83-233                                                                                                                                ----- Pfam domains (2)
         Sec.struct. author ..eeeeeeeeeeeee.....eeeeeee..eeeeeee..-----.........eeeeeee.......eeeeeeeeee.hhhhhhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhh..................ee......ee..........hhhhhhhhhhh...hhhhhhhh..hhhhhhhhhhhhhhhhhhhh...hhhhhhh.. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1w3s B   3 SRTANRSGIVIRRRVTPAGDIIVTLLTPQGKLKAIARG-----LSSSLNLFHHVGVQVYQGPHNDLASVKQAVLEGALPTLAEPERYAFAHLMAEFADALFQEGEFSEQAFDLFAASLRGVAHQPDPEWVALVMSYKLLGLAGVIPQTARCARCGAPDPEHPDPLGGQLLCSKCAALPPYPPAVLDFLRHAVRRTVRASFEQPVPSADRPALWRALEKFVTVQVGGVHSWRQLVPS 238
                                    12        22        32       | -   |    52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232      
                                                                40    46
   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  (2, 4)

Asymmetric Unit
(-)
Class: All beta proteins (24004)
(-)
Class: Small proteins (3458)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 1W3S)

(-) Pfam Domains  (2, 4)

Asymmetric Unit
(-)
Clan: OB (224)
(-)
Clan: no clan defined [family: RecO_C] (4)

(-) Gene Ontology  (5, 5)

Asymmetric Unit(hide GO term definitions)
Chain A,B   (Q9RW50_DEIRA | Q9RW50)
molecular function
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.
biological process
    GO:0006310    DNA recombination    Any process in which a new genotype is formed by reassortment of genes resulting in gene combinations different from those that were present in the parents. In eukaryotes genetic recombination can occur by chromosome assortment, intrachromosomal recombination, or nonreciprocal interchromosomal recombination. Intrachromosomal recombination occurs by crossing over. In bacteria it may occur by genetic transformation, conjugation, transduction, or F-duction.
    GO:0006281    DNA repair    The process of restoring DNA after damage. Genomes are subject to damage by chemical and physical agents in the environment (e.g. UV and ionizing radiations, chemical mutagens, fungal and bacterial toxins, etc.) and by free radicals or alkylating agents endogenously generated in metabolism. DNA is also damaged because of errors during its replication. A variety of different DNA repair pathways have been reported that include direct reversal, base excision repair, nucleotide excision repair, photoreactivation, bypass, double-strand break repair pathway, and mismatch repair pathway.
    GO:0006974    cellular response to DNA damage stimulus    Any process that results in a change in state or activity of a cell (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a stimulus indicating damage to its DNA from environmental insults or errors during metabolism.
    GO:0006302    double-strand break repair    The repair of double-strand breaks in DNA via homologous and nonhomologous mechanisms to reform a continuous DNA helix.

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 Related Entries

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

UniProtKB/TrEMBL
        Q9RW50_DEIRA | Q9RW50: 1u5k 2v1c 4jcv

(-) Related Entries Specified in the PDB File

1u5k RECOMBINATIONAL REPAIR PROTEIN RECO