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(-) Description

Title :  CRYSTAL STRUCTURE OF DEINOCOCCUS RADIODURANS RECN COILED-COIL DOMAIN
 
Authors :  S. Pellegrino, J. Radzimanowski, D. De Sanctis, S. Mcsweeney, J. Timm
Date :  12 Dec 11  (Deposition) - 12 Dec 12  (Release) - 26 Dec 12  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.04
Chains :  Asym. Unit :  A,B,C,D
Biol. Unit 1:  A,D  (1x)
Biol. Unit 2:  B,C  (1x)
Keywords :  Dna Binding Protein, Atp Binding Protein, Dna Repair, Double Strand Break Repair, Coiled-Coil (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  S. Pellegrino, J. Radzimanowski, D. De Sanctis, E. B. Erba, S. Mcsweeney, J. Timmins
Structural And Functional Characterization Of An Smc-Like Protein Recn: New Insights Into Double-Strand Break Repair.
Structure V. 20 2076 2012
PubMed-ID: 23085075  |  Reference-DOI: 10.1016/J.STR.2012.09.010

(-) Compounds

Molecule 1 - DNA REPAIR PROTEIN RECN
    Chains: A, B, C, D
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Strain: BL21 STAR
    Expression System Taxid: 511693
    Expression System Vector: PET-151 TOPO
    Expression System Vector Type: PLASMID
    Fragment: COILED-COIL DOMAIN, RESIDUES 196-364
    Organism Scientific: DEINOCOCCUS RADIODURANS
    Organism Taxid: 243230
    Strain: R1
    Synonym: RECOMBINATION PROTEIN N, RECN

 Structural Features

(-) Chains, Units

  1234
Asymmetric Unit : ABCD
Biological Unit 1 (1x): A  D
Biological Unit 2 (1x):  BC 

Summary Information (see also Sequences/Alignments below)

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

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

(-) Sites  (0, 0)

(no "Site" information available for 4ABX)

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (4, 4)

Asymmetric Unit
No.Residues
1Gly A:331 -Pro A:332
2Gly B:331 -Pro B:332
3Gly C:331 -Pro C:332
4Gly D:331 -Pro D:332

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 4ABX)

(-) 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:167
 aligned with RECN_DEIRA | Q9WXF2 from UniProtKB/Swiss-Prot  Length:564

    Alignment length:167
                                   203       213       223       233       243       253       263       273       283       293       303       313       323       333       343       353       
           RECN_DEIRA   194 ASQRERARQIDLLAFQVQEISEVSPDPGEEEGLNTELSRLSNLHTIAQAAAGGVELLSDGDLNAAGLIGEAVRALNAGAKYDETVMQLQNELRAALESVQAIAGELRDVAEGSAADPEALDRVEARLSALSKLKNKYGPTLEDVVEFGAQAAEELAGLEEDERDAGS 360
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4abx A  -1 FTQRERARQIDLLAFQVQEISEVSPDPGEEEGLNTELSRLSNLHTIAQAAAGGVELLSDGDLNAAGLIGEAVRALNAGAKYDETVMQLQNELRAALESVQAIAGELRDVAEGSAADPEALDRVEARLSALSKLKNKYGPTLEDVVEFGAQAAEELAGLEEDERDAGS 360
                             ||    203       213       223       233       243       253       263       273       283       293       303       313       323       333       343       353       
                             0|                                                                                                                                                                    
                            196                                                                                                                                                                    


Chain B from PDB  Type:PROTEIN  Length:166
 aligned with RECN_DEIRA | Q9WXF2 from UniProtKB/Swiss-Prot  Length:564

    Alignment length:166
                                   204       214       224       234       244       254       264       274       284       294       304       314       324       334       344       354      
           RECN_DEIRA   195 SQRERARQIDLLAFQVQEISEVSPDPGEEEGLNTELSRLSNLHTIAQAAAGGVELLSDGDLNAAGLIGEAVRALNAGAKYDETVMQLQNELRAALESVQAIAGELRDVAEGSAADPEALDRVEARLSALSKLKNKYGPTLEDVVEFGAQAAEELAGLEEDERDAGS 360
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4abx B   0 TQRERARQIDLLAFQVQEISEVSPDPGEEEGLNTELSRLSNLHTIAQAAAGGVELLSDGDLNAAGLIGEAVRALNAGAKYDETVMQLQNELRAALESVQAIAGELRDVAEGSAADPEALDRVEARLSALSKLKNKYGPTLEDVVEFGAQAAEELAGLEEDERDAGS 360
                            ||     204       214       224       234       244       254       264       274       284       294       304       314       324       334       344       354      
                            0|                                                                                                                                                                    
                           196                                                                                                                                                                    


Chain C from PDB  Type:PROTEIN  Length:167
 aligned with RECN_DEIRA | Q9WXF2 from UniProtKB/Swiss-Prot  Length:564

    Alignment length:167
                                   202       212       222       232       242       252       262       272       282       292       302       312       322       332       342       352       
           RECN_DEIRA   193 QASQRERARQIDLLAFQVQEISEVSPDPGEEEGLNTELSRLSNLHTIAQAAAGGVELLSDGDLNAAGLIGEAVRALNAGAKYDETVMQLQNELRAALESVQAIAGELRDVAEGSAADPEALDRVEARLSALSKLKNKYGPTLEDVVEFGAQAAEELAGLEEDERDAG 359
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4abx C  -2 PFTQRERARQIDLLAFQVQEISEVSPDPGEEEGLNTELSRLSNLHTIAQAAAGGVELLSDGDLNAAGLIGEAVRALNAGAKYDETVMQLQNELRAALESVQAIAGELRDVAEGSAADPEALDRVEARLSALSKLKNKYGPTLEDVVEFGAQAAEELAGLEEDERDAG 359
                              ||   202       212       222       232       242       252       262       272       282       292       302       312       322       332       342       352       
                              0|                                                                                                                                                                   
                             196                                                                                                                                                                   


Chain D from PDB  Type:PROTEIN  Length:166
 aligned with RECN_DEIRA | Q9WXF2 from UniProtKB/Swiss-Prot  Length:564

    Alignment length:166
                                   202       212       222       232       242       252       262       272       282       292       302       312       322       332       342       352      
           RECN_DEIRA   193 QASQRERARQIDLLAFQVQEISEVSPDPGEEEGLNTELSRLSNLHTIAQAAAGGVELLSDGDLNAAGLIGEAVRALNAGAKYDETVMQLQNELRAALESVQAIAGELRDVAEGSAADPEALDRVEARLSALSKLKNKYGPTLEDVVEFGAQAAEELAGLEEDERDA 358
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4abx D  -2 PFTQRERARQIDLLAFQVQEISEVSPDPGEEEGLNTELSRLSNLHTIAQAAAGGVELLSDGDLNAAGLIGEAVRALNAGAKYDETVMQLQNELRAALESVQAIAGELRDVAEGSAADPEALDRVEARLSALSKLKNKYGPTLEDVVEFGAQAAEELAGLEEDERDA 358
                              ||   202       212       222       232       242       252       262       272       282       292       302       312       322       332       342       352      
                              0|                                                                                                                                                                  
                             196
   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
    → Modified Residue (blue background, lower-case, 'x' indicates undefined single-letter code, labelled with number + name)
  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 4ABX)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (5, 5)

Asymmetric Unit(hide GO term definitions)
Chain A,B,C,D   (RECN_DEIRA | Q9WXF2)
molecular function
    GO:0005524    ATP binding    Interacting selectively and non-covalently with ATP, adenosine 5'-triphosphate, a universally important coenzyme and enzyme regulator.
    GO:0000166    nucleotide binding    Interacting selectively and non-covalently with a nucleotide, any compound consisting of a nucleoside that is esterified with (ortho)phosphate or an oligophosphate at any hydroxyl group on the ribose or deoxyribose.
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.

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  Cis Peptide Bonds
    Gly A:331 - Pro A:332   [ RasMol ]  
    Gly B:331 - Pro B:332   [ RasMol ]  
    Gly C:331 - Pro C:332   [ RasMol ]  
    Gly D:331 - Pro D:332   [ RasMol ]  
 
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  4abx
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 Related Entries

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

UniProtKB/Swiss-Prot
        RECN_DEIRA | Q9WXF2: 4aby 4ad8

(-) Related Entries Specified in the PDB File

4aby CRYSTAL STRUCTURE OF DEINOCOCCUS RADIODURANS RECN HEAD DOMAIN
4ad8 CRYSTAL STRUCTURE OF A DELETION MUTANT OF DEINOCOCCUS RADIODURANS RECN