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(-) Description

Title :  STRUCTURE OF RECOMBINATION MEDIATOR PROTEIN RECR16-196 DELETION MUTANT
 
Authors :  Q. Tang, X. X. Yan, D. C. Liang
Date :  07 Jan 12  (Deposition) - 19 Dec 12  (Release) - 19 Dec 12  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.80
Chains :  Asym./Biol. Unit :  A,D
Keywords :  Hhh Domain, Zinc Finger, Dna Repair, Dna Binding, Recombination (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  Q. Tang, P. Gao, Y. P. Liu, A. Gao, X. M. An, S. Liu, X. X. Yan, D. C. Liang
Recor Complex Including Recr N-N Dimer And Reco Monomer Displays A High Affinity For Ssdna
Nucleic Acids Res. V. 40 11115 2012
PubMed-ID: 23019218  |  Reference-DOI: 10.1093/NAR/GKS889

(-) Compounds

Molecule 1 - RECOMBINATION PROTEIN RECR
    Chains: D, A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Fragment: UNP RESIDUES 19-199
    Gene: RECR
    Organism Scientific: THERMOANAEROBACTER TENGCONGENSIS
    Organism Taxid: 273068
    Strain: MB4
    Synonym: RECR RECOMBINATIONAL DNA REPAIR PROTEIN

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AD

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 5)

Asymmetric/Biological Unit (2, 5)
No.NameCountTypeFull Name
1IMD3Ligand/IonIMIDAZOLE
2ZN2Ligand/IonZINC ION

(-) Sites  (5, 5)

Asymmetric Unit (5, 5)
No.NameEvidenceResiduesDescription
1AC1SOFTWARECYS D:55 , CYS D:58 , CYS D:67 , CYS D:70BINDING SITE FOR RESIDUE ZN D 201
2AC2SOFTWAREARG A:25 , GLY D:19 , PRO D:20 , LYS D:21 , THR D:22BINDING SITE FOR RESIDUE IMD D 202
3AC3SOFTWAREASN A:32 , HIS D:85 , PRO D:86 , HIS D:106BINDING SITE FOR RESIDUE IMD D 203
4AC4SOFTWARECYS A:55 , CYS A:58 , CYS A:67 , CYS A:70BINDING SITE FOR RESIDUE ZN A 201
5AC5SOFTWAREGLY A:19 , PRO A:20 , LYS A:21 , THR A:22BINDING SITE FOR RESIDUE IMD A 202

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 3VE5)

(-) Cis Peptide Bonds  (2, 2)

Asymmetric/Biological Unit
No.Residues
1Val D:174 -Gly D:175
2Glu D:195 -Val D:196

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3VE5)

(-) PROSITE Motifs  (2, 4)

Asymmetric/Biological Unit (2, 4)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1RECRPS01300 RecR protein signature.RECR_CALS458-79
 		  2A:55-76
D:55-76
2TOPRIMPS50880 Toprim domain profile.RECR_CALS481-176
 		  2A:78-173
D:78-173

(-) Exons   (0, 0)

(no "Exon" information available for 3VE5)

(-) 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:181
 aligned with RECR_CALS4 | Q8RDI4 from UniProtKB/Swiss-Prot  Length:199

    Alignment length:181
                                    28        38        48        58        68        78        88        98       108       118       128       138       148       158       168       178       188       198 
           RECR_CALS4    19 PGIGPKTAQRLAFFIINMPLDEVRSLSQAIIEAKEKLRYCKICFNITDKEVCDICSDENRDHSTICVVSHPMDVVAMEKVKEYKGVYHVLHGVISPIEGVGPEDIRIKELLERVRDGSVKEVILATNPDIEGEATAMYIAKLLKPFGVKVTRIAHGIPVGGDLEYTDVVTLSKALEGRREV 199
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...hhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhee......ee................eeeee.hhhhhhhhh.......eeee.....hhhhh......hhhhhhhhhh.....eeee....hhhhhhhhhhhhhhh.....eeee.........hhhhhhhhhhhhhhhh.ee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------RECR  PDB: A:55-76    -TOPRIM  PDB: A:78-173 UniProt: 81-176                                                           ----------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3ve5 A  16 PGIGPKTAQRLAFFIINMPLDEVRSLSQAIIEAKEKLRYCKICFNITDKEVCDICSDENRDHSTICVVSHPMDVVAMEKVKEYKGVYHVLHGVISPIEGVGPEDIRIKELLERVRDGSVKEVILATNPDIEGEATAMYIAKLLKPFGVKVTRIAHGIPVGGDLEYTDVVTLSKALEGRREV 196
                                    25        35        45        55        65        75        85        95       105       115       125       135       145       155       165       175       185       195 


Chain D from PDB  Type:PROTEIN  Length:181
 aligned with RECR_CALS4 | Q8RDI4 from UniProtKB/Swiss-Prot  Length:199

    Alignment length:181
                                    28        38        48        58        68        78        88        98       108       118       128       138       148       158       168       178       188       198 
           RECR_CALS4    19 PGIGPKTAQRLAFFIINMPLDEVRSLSQAIIEAKEKLRYCKICFNITDKEVCDICSDENRDHSTICVVSHPMDVVAMEKVKEYKGVYHVLHGVISPIEGVGPEDIRIKELLERVRDGSVKEVILATNPDIEGEATAMYIAKLLKPFGVKVTRIAHGIPVGGDLEYTDVVTLSKALEGRREV 199
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhee......ee.............eeeeeeee.hhhhhhhhh......eeeee...........hhhhhhhhhhhhhhh.....eeee....hhhhhhhhhhhhhhh.....eeee.........hhhhhhhhhhhhhhhh.ee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------RECR  PDB: D:55-76    -TOPRIM  PDB: D:78-173 UniProt: 81-176                                                           ----------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3ve5 D  16 PGIGPKTAQRLAFFIINMPLDEVRSLSQAIIEAKEKLRYCKICFNITDKEVCDICSDENRDHSTICVVSHPMDVVAMEKVKEYKGVYHVLHGVISPIEGVGPEDIRIKELLERVRDGSVKEVILATNPDIEGEATAMYIAKLLKPFGVKVTRIAHGIPVGGDLEYTDVVTLSKALEGRREV 196
                                    25        35        45        55        65        75        85        95       105       115       125       135       145       155       165       175       185       195
   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 3VE5)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 3VE5)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 3VE5)

(-) Gene Ontology  (5, 5)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,D   (RECR_CALS4 | Q8RDI4)
molecular function
    GO:0003677    DNA binding    Any molecular function by which a gene product interacts selectively and non-covalently with DNA (deoxyribonucleic acid).
    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.

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 Related Entries

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

UniProtKB/Swiss-Prot
        RECR_CALS4 | Q8RDI4: 3vdp 3vdu 4o6o 4o6p

(-) Related Entries Specified in the PDB File

3vdp THE SAME PROTEIN, APO-FORM
3vds THE SINGLE POINT MUTANT TTERECR C55G OF SAME PROTEIN
3vdt THE DOUBLE POINTS MUTANT TTERECR C58G/C70G OF SAME PROTEIN
3vdu THE SINGLE POINT MUTANT TTERECR K21G OF SAME PROTEIN