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(-) Description

Title :  FILAMENT OF OCTAMERIC RINGS OF DMC1 RECOMBINASE FROM HOMO SAPIENS
 
Authors :  L. Du, Y. Luo
Date :  14 Nov 12  (Deposition) - 10 Apr 13  (Release) - 10 Apr 13  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.60
Chains :  Asym. Unit :  A,B,C,D
Biol. Unit 1:  A,B  (4x)
Biol. Unit 2:  C,D  (4x)
Biol. Unit 3:  A (4x),B (4x),C (4x),D (4x)
Keywords :  Reca Homolog, Dna Strand Exchange, Dna, Nucleus, Recombination (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  L. Du, Y. Luo
Structure Of A Filament Of Stacked Octamers Of Human Dmc1 Recombinase.
Acta Crystallogr. , Sect. F V. 69 382 2013
PubMed-ID: 23545642  |  Reference-DOI: 10.1107/S1744309113005678

(-) Compounds

Molecule 1 - MEIOTIC RECOMBINATION PROTEIN DMC1/LIM15 HOMOLOG
    Chains: A, B, C, D
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET28A
    Expression System Strain: BL21-ROSETTA2 (DE3)
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Fragment: ATPASE DOMAIN
    Gene: DMC1, DMC1H, LIM15
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606

 Structural Features

(-) Chains, Units

  1234
Asymmetric Unit : ABCD
Biological Unit 1 (4x): AB  
Biological Unit 2 (4x):   CD
Biological Unit 3 (4x): A (4x)B (4x)C (4x)D (4x)

Summary Information (see also Sequences/Alignments below)

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

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

(-) Sites  (0, 0)

(no "Site" information available for 4HYY)

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (8, 8)

Asymmetric Unit
No.Residues
1Asp A:223 -Ser A:224
2Ser A:318 -Pro A:319
3Asp B:223 -Ser B:224
4Ser B:318 -Pro B:319
5Asp C:223 -Ser C:224
6Ser C:318 -Pro C:319
7Asp D:223 -Ser D:224
8Ser D:318 -Pro D:319

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 4HYY)

(-) 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:241
                                                                                                                                                                                                                                                                                 
               SCOP domains d4hyya_ A: automated matches                                                                                                                                                                                                                      SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eehhhhhhhhh...ee...hhhhhhhh...ee..eeeeeee....hhhhhhhhhhhhh...hhhhh...eeeeee.....hhhhhhhhhhhhh.hhhhhhhheeeee..hhhhhhhhhhhhhhhhhhh...eeeeeee..hhhhhhhh....hhhhhhhhhhhhhhhhhhhhhhh..eeeeee......hhhhhhhhh.eeeeeee....eeeeee.....hhh.eeeeeee..eeee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4hyy A  84 GFLTAFEYSEKRKMVFHITTGSQEFDKLLGGGIESMAITEAFGEFRTGKTQLSHTLCVTAQLPGAGGYPGGKIIFIDTENTFRPDRLRDIADRFNVDHDAVLDNVLYARAYTSEHQMELLDYVAAKFHEEAGIFKLLIIDSIMALFRVDFSGRGELAERQQKLAQMLSRLQKISEEYNVAVFVTNQMTKPIGGHILAHASTTRISLRKGRGELRIAKIYDSPEMPENEATFAITAGGIGDA 338
                                    93       103       113       123       133       143       153       163       173       183       193       203       213       223       233       243       253       263       287       297       307       317       327       337 
                                                                                                                                                                                                                     271|                                                    
                                                                                                                                                                                                                      286                                                    


Chain B from PDB  Type:PROTEIN  Length:241
                                                                                                                                                                                                                                                                                 
               SCOP domains d4hyyb_ B: automated matches                                                                                                                                                                                                                      SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...hhhhhhhhhhh..ee...hhhhhhhh...ee..eeeeeee....hhhhhhhhhhhhh...hhhhh...eeeeee.....hhhhhhhhhhhh..hhhhhhhheeeee..hhhhhhhhhhhhhhhhhhh...eeeeeee..hhhhhhhh....hhhhhhhhhhhhhhhhhhhhhhh..eeeeee......hhhhhhhhh.eeeeee.....eeeeee.....hhh.eeeee......... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4hyy B  84 GFLTAFEYSEKRKMVFHITTGSQEFDKLLGGGIESMAITEAFGEFRTGKTQLSHTLCVTAQLPGAGGYPGGKIIFIDTENTFRPDRLRDIADRFNVDHDAVLDNVLYARAYTSEHQMELLDYVAAKFHEEAGIFKLLIIDSIMALFRVDFSGRGELAERQQKLAQMLSRLQKISEEYNVAVFVTNQMTKPIGGHILAHASTTRISLRKGRGELRIAKIYDSPEMPENEATFAITAGGIGDA 338
                                    93       103       113       123       133       143       153       163       173       183       193       203       213       223       233       243       253       263       287       297       307       317       327       337 
                                                                                                                                                                                                                     271|                                                    
                                                                                                                                                                                                                      286                                                    


Chain C from PDB  Type:PROTEIN  Length:241
                                                                                                                                                                                                                                                                                 
               SCOP domains d4hyyc_ C: automated matches                                                                                                                                                                                                                      SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...hhhhhhhhhhh..ee...hhhhhhhh...ee..eeeeeee....hhhhhhhhhhhhh...hhhhh...eeeeee.....hhhhhhhhhhhhh.hhhhhhhheeeee..hhhhhhhhhhhhhhhhhhh...eeeeeee..hhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhh..eeeeee......hhhhhhhhh.eeeeeee....eeeeee.....hhh.eeeeeee..eee.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4hyy C  84 GFLTAFEYSEKRKMVFHITTGSQEFDKLLGGGIESMAITEAFGEFRTGKTQLSHTLCVTAQLPGAGGYPGGKIIFIDTENTFRPDRLRDIADRFNVDHDAVLDNVLYARAYTSEHQMELLDYVAAKFHEEAGIFKLLIIDSIMALFRVDFSGRGELAERQQKLAQMLSRLQKISEEYNVAVFVTNQMTKPIGGHILAHASTTRISLRKGRGELRIAKIYDSPEMPENEATFAITAGGIGDA 338
                                    93       103       113       123       133       143       153       163       173       183       193       203       213       223       233       243       253       263       287       297       307       317       327       337 
                                                                                                                                                                                                                     271|                                                    
                                                                                                                                                                                                                      286                                                    


Chain D from PDB  Type:PROTEIN  Length:241
                                                                                                                                                                                                                                                                                 
               SCOP domains d4hyyd_ D: automated matches                                                                                                                                                                                                                      SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eehhhhhhhhhh..ee...hhhhhhhhh..ee..eeeeee.....hhhhhhhhhhhhh...hhhhh...eeeeee.....hhhhhhhhhhhh..hhhhhhhheeeee..hhhhhhhhhhhhhhhhhhh...eeeeeee..hhhhhhhh....hhhhhhhhhhhhhhhhhhhhhhh..eeeeee......hhhhhhhhh.eeeeeee....eeeeee.....hhh.eeeeeee..eeee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4hyy D  84 GFLTAFEYSEKRKMVFHITTGSQEFDKLLGGGIESMAITEAFGEFRTGKTQLSHTLCVTAQLPGAGGYPGGKIIFIDTENTFRPDRLRDIADRFNVDHDAVLDNVLYARAYTSEHQMELLDYVAAKFHEEAGIFKLLIIDSIMALFRVDFSGRGELAERQQKLAQMLSRLQKISEEYNVAVFVTNQMTKPIGGHILAHASTTRISLRKGRGELRIAKIYDSPEMPENEATFAITAGGIGDA 338
                                    93       103       113       123       133       143       153       163       173       183       193       203       213       223       233       243       253       263       287       297       307       317       327       337 
                                                                                                                                                                                                                     271|                                                    
                                                                                                                                                                                                                      286
   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  (1, 4)

Asymmetric Unit
(-)
Class: Alpha and beta proteins (a/b) (23833)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (33, 33)

Asymmetric Unit(hide GO term definitions)

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  Cis Peptide Bonds
    Asp A:223 - Ser A:224   [ RasMol ]  
    Asp B:223 - Ser B:224   [ RasMol ]  
    Asp C:223 - Ser C:224   [ RasMol ]  
    Asp D:223 - Ser D:224   [ RasMol ]  
    Ser A:318 - Pro A:319   [ RasMol ]  
    Ser B:318 - Pro B:319   [ RasMol ]  
    Ser C:318 - Pro C:319   [ RasMol ]  
    Ser D:318 - Pro D:319   [ RasMol ]  
 
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 Related Entries

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

UniProtKB/Swiss-Prot
        DMC1_HUMAN | Q14565: 1v5w 2zjb

(-) Related Entries Specified in the PDB File

1v5w THE FULL-LENGTH DMC1 PROTEIN