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(-) Description

Title :  RECOMBINATIONAL REPAIR PROTEIN RECO
 
Authors :  N. Makharashvili, O. Koroleva, S. Bera, D. P. Grandgenett, S. Korolev
Date :  27 Jul 04  (Deposition) - 26 Oct 04  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.00
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Obd-Fold, Zn-Binding, Recombination, Replication (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  N. Makharashvili, O. Koroleva, S. Bera, D. P. Grandgenett, S. Korolev
A Novel Structure Of Dna Repair Protein Reco From Deinococcus Radiodurans
Structure V. 12 1881 2004
PubMed-ID: 15458636  |  Reference-DOI: 10.1016/J.STR.2004.08.006

(-) Compounds

Molecule 1 - HYPOTHETICAL PROTEIN
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PMCSG7
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Gene: DR0819
    Organism Scientific: DEINOCOCCUS RADIODURANS
    Organism Taxid: 243230
    Strain: R1

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

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

Asymmetric/Biological Unit (1, 2)
No.NameCountTypeFull Name
1ZN2Ligand/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 A 300
2AC2SOFTWARECYS B:153 , CYS B:156 , CYS B:173 , CYS B:176BINDING SITE FOR RESIDUE ZN B 300

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1U5K)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 1U5K)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1U5K)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 1U5K)

(-) Exons   (0, 0)

(no "Exon" information available for 1U5K)

(-) 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:242
 aligned with Q9RW50_DEIRA | Q9RW50 from UniProtKB/TrEMBL  Length:244

    Alignment length:243
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241   
         Q9RW50_DEIRA     2 RSRTANRSGIVIRRRVTPAGDIIVTLLTPQGKLKAIARGGVKGPLSSSLNLFHHVGVQVYQGPHNDLASVKQAVLEGALPTLAEPERYAFAHLMAEFADALFQEGEFSEQAFDLFAASLRGVAHQPDPEWVALVMSYKLLGLAGVIPQTARCARCGAPDPEHPDPLGGQLLCSKCAALPPYPPAVLDFLRHAVRRTVRASFEQPVPSADRPALWRALEKFVTVQVGGVHSWRQLVPSGVPVLS 244
               SCOP domains d1u5ka1 A:2-80 Recombinational repair protein RecO, N-terminal d omain         d1u5ka2 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.hhhhhhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhh....................ee......ee..........hhhhhhhhhhh...hhhhhhhh..hhhhhhhhhhhhhhhhhhhh...hhhhhhh........ Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1u5k A   2 RSRTANRSGIVIRRRVTPAGDIIVTLLTPQGKLKAIARGGVKGPLSSSLNLFHHVGVQVYQGPH-DLASVKQAVLEGALPTLAEPERYAFAHLMAEFADALFQEGEFSEQAFDLFAASLRGVAHQPDPEWVALVMSYKLLGLAGVIPQTARCARCGAPDPEHPDPLGGQLLCSKCAALPPYPPAVLDFLRHAVRRTVRASFEQPVPSADRPALWRALEKFVTVQVGGVHSWRQLVPSGVPVLS 244
                                    11        21        31        41        51        61   | |  71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241   
                                                                                          65 |                                                                                                                                                                                 
                                                                                            67                                                                                                                                                                                 


Chain B from PDB  Type:PROTEIN  Length:232
 aligned with Q9RW50_DEIRA | Q9RW50 from UniProtKB/TrEMBL  Length:244

    Alignment length:237
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       
         Q9RW50_DEIRA     1 MRSRTANRSGIVIRRRVTPAGDIIVTLLTPQGKLKAIARGGVKGPLSSSLNLFHHVGVQVYQGPHNDLASVKQAVLEGALPTLAEPERYAFAHLMAEFADALFQEGEFSEQAFDLFAASLRGVAHQPDPEWVALVMSYKLLGLAGVIPQTARCARCGAPDPEHPDPLGGQLLCSKCAALPPYPPAVLDFLRHAVRRTVRASFEQPVPSADRPALWRALEKFVTVQVGGVHSWRQLVP 237
               SCOP domains -d1u5kb1 B:2-80 Recombinational repair p    rotein RecO, N-terminal domain      d1u5kb2 B:81-237 Recombi national repair protein RecO, C-terminal domain                                                                                      SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
           Pfam domains (1) RecO_N-1u5kB01 B:1-79                                                          ---RecO_C-1u5kB03 B:83-23 3                                                                                                                               ---- Pfam domains (1)
           Pfam domains (2) RecO_N-1u5kB02 B:1-79                                                          ---RecO_C-1u5kB04 B:83-23 3                                                                                                                               ---- Pfam domains (2)
         Sec.struct. author ....eeeeeeeeeeeee.....eeeeeee..eeeeeee..----..........eeeeeee.......eeeeeeeeee.hhhhhhhhhhhhhhhhhhhhhhhh.-...hhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhh..................ee......ee..........hhhhhhhhhhh...hhhhhhh...hhhhhhhhhhhhhhhhhhhh...hhhhhhh. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1u5k B   1 MRSRTANRSGIVIRRRVTPAGDIIVTLLTPQGKLKAIARG----PLSSSLNLFHHVGVQVYQGPHNDLASVKQAVLEGALPTLAEPERYAFAHLMAEFADALFQ-GEFSEQAFDLFAASLRGVAHQPDPEWVALVMSYKLLGLAGVIPQTARCARCGAPDPEHPDPLGGQLLCSKCAALPPYPPAVLDFLRHAVRRTVRASFEQPVPSADRPALWRALEKFVTVQVGGVHSWRQLVP 237
                                    10        20        30        40    |   50        60        70        80        90       100   | | 110       120       130       140       150       160       170       180       190       200       210       220       230       
                                                                  40   45                                                        104 |                                                                                                                                   
                                                                                                                                   106
   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  (2, 4)

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

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 1U5K)

(-) Pfam Domains  (2, 4)

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

(-) Gene Ontology  (5, 5)

Asymmetric/Biological 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: 1w3s 2v1c 4jcv

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