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(-) Description

Title :  DNA DOUBLE-STRAND BREAK REPAIR PATHWAY CHOICE IS DIRECTED BY DISTINCT MRE11 NUCLEASE ACTIVITIES
 
Authors :  A. Shibata, D. Moiani, A. S. Arvai, J. Perry, S. M. Harding, M. Genois, R. S. Rossum-Fikkert, A. Kertokalio, F. Romoli, A. Ismail, E. Ismalaj, E. Petricci, M. J. Neale, R. G. Bristow, J. Masson, C. Wyman, P. A. Jeggo J. A. Tainer
Date :  18 Dec 13  (Deposition) - 08 Jan 14  (Release) - 05 Feb 14  (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 Dna Double-Strand Break Repair Thermophilic Mre11 Nuclease, Dna Repair Dna Double-Strand Break Repair, Dna Binding Protein-Inhibitor Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  A. Shibata, D. Moiani, A. S. Arvai, J. Perry, S. M. Harding, M. M. Genois R. Maity, S. Van Rossum-Fikkert, A. Kertokalio, F. Romoli, A. Ismail E. Ismalaj, E. Petricci, M. J. Neale, R. G. Bristow, J. Y. Masson, C. Wyman, P. A. Jeggo, J. A. Tainer
Dna Double-Strand Break Repair Pathway Choice Is Directed B Distinct Mre11 Nuclease Activities.
Mol. Cell V. 53 7 2014
PubMed-ID: 24316220  |  Reference-DOI: 10.1016/J.MOLCEL.2013.11.003

(-) Compounds

Molecule 1 - EXONUCLEASE, PUTATIVE
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Gene: TM_1635
    Organism Scientific: THERMOTOGA MARITIMA
    Organism Taxid: 243274
    Strain: ATCC 43589 / MSB8 / DSM 3109 / JCM 10099

 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  (2, 6)

Asymmetric Unit (2, 6)
No.NameCountTypeFull Name
12PW2Ligand/Ion(5E)-3-[(2R)-BUTAN-2-YL]-5-(4-HYDROXYBENZYLIDENE)-2-SULFANYL-3,5-DIHYDRO-4H-1LAMBDA~4~,3-THIAZOL-4-ONE
2MN4Ligand/IonMANGANESE (II) ION
Biological Unit 1 (1, 2)
No.NameCountTypeFull Name
12PW2Ligand/Ion(5E)-3-[(2R)-BUTAN-2-YL]-5-(4-HYDROXYBENZYLIDENE)-2-SULFANYL-3,5-DIHYDRO-4H-1LAMBDA~4~,3-THIAZOL-4-ONE
2MN-1Ligand/IonMANGANESE (II) ION
Biological Unit 2 (0, 0)
No.NameCountTypeFull Name
12PW-1Ligand/Ion(5E)-3-[(2R)-BUTAN-2-YL]-5-(4-HYDROXYBENZYLIDENE)-2-SULFANYL-3,5-DIHYDRO-4H-1LAMBDA~4~,3-THIAZOL-4-ONE
2MN-1Ligand/IonMANGANESE (II) ION

(-) Sites  (6, 6)

Asymmetric Unit (6, 6)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREASP A:58 , HIS A:180 , HIS A:216BINDING SITE FOR RESIDUE MN A 401
2AC2SOFTWAREASP A:14 , HIS A:16 , HIS A:216 , HIS A:218 , HOH A:529BINDING SITE FOR RESIDUE MN A 402
3AC3SOFTWARELEU A:60 , PRO A:66 , LEU A:75 , LEU A:99 , PHE A:115 , PHE B:102BINDING SITE FOR RESIDUE 2PW A 403
4AC4SOFTWAREPHE A:102 , PRO B:66 , LEU B:75 , HIS B:94 , LEU B:99 , PHE B:115BINDING SITE FOR RESIDUE 2PW A 404
5AC5SOFTWAREASP B:58 , HIS B:180 , HIS B:216BINDING SITE FOR RESIDUE MN B 401
6AC6SOFTWAREASP B:14 , HIS B:16 , HIS B:216 , HIS B:218BINDING SITE FOR RESIDUE MN B 402

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4O43)

(-) Cis Peptide Bonds  (13, 13)

Asymmetric Unit
No.Residues
1Ala A:187 -Gly A:188
2Ile A:192 -Glu A:193
3Glu A:193 -Gln A:194
4Gln A:194 -Gly A:195
5Gln A:226 -Pro A:227
6Glu B:142 -Ser B:143
7Arg B:147 -Lys B:148
8Tyr B:189 -Ala B:190
9Ile B:192 -Glu B:193
10Glu B:193 -Gln B:194
11Gln B:194 -Gly B:195
12Gly B:195 -Arg B:196
13Gln B:226 -Pro B:227

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4O43)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4O43)

(-) Exons   (0, 0)

(no "Exon" information available for 4O43)

(-) 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:331
                                                                                                                                                                                                                                                                                                                                                                           
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ............eeeeeeee......ee......eehhhhhhhhhhhhhhhhhhh...eeeee..........hhhhhhhhhhhhhhhhhhh.eee.......hhhhhhhhhhhhhh..eee......eeee.....eeeeeee...........hhhhhhhhhhhhhhhhhhhhh....eeeeee..ee...............ee..........eeee......eeee....eee.......hhhhh....eeeeeeee.....eeeeee.....eeeeee...hhhhhhhhhhhhhh...eeeeee........hhhhhh..eee.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4o43 A  -6 IHHHHHHVINLKELKILHTSDWHLGVTSWTSSRPVDRREELKKALDKVVEEAEKREVDLILLTGDLLHSRNNPSVVALHDLLDYLKRMMRTAPVVVLPGNHDWKGLKLFGNFVTSISSDITFVMSFEPVDVEAKRGQKVRILPFPYPDESEALRKNEGDFRFFLESRLNKLYEEALKKEDFAIFMGHFTVEGLAGYAGIEQGREIIINRALIPSVVDYAALGHIHSFREIQKQPLTIYPGSLIRIDFGEEADEKGAVFVELKRGEPPRYERIDASPLPLKTLYYKKIDTSALKSIRDFCRNFPGYVRVVYEEDSGILPDLMGEIDNLVKIE 324
                                     3        13        23        33        43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203       213       223       233       243       253       263       273       283       293       303       313       323 


Chain B from PDB  Type:PROTEIN  Length:321
                                                                                                                                                                                                                                                                                                                                                                 
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeeeee......ee......eehhhhhhhhhhhhhhhhhhh...eeeee..........hhhhhhhhhhhhhhhhh...eee........hhhhhhhhhhhh...eee......eeee.....eeeeeee...........hhhhhhhhhhhhhhhhhhhhh....eeeeee..ee...............eehhhhh.....eeee......eeee....eee.......hhhhh....eeeeeeee.....eeeeee.....eeeeeeee.hhhhhhhhhhhhhh...eeeeeeee......hhhhhh..eeeee Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4o43 B   4 LKELKILHTSDWHLGVTSWTSSRPVDRREELKKALDKVVEEAEKREVDLILLTGDLLHSRNNPSVVALHDLLDYLKRMMRTAPVVVLPGNHDWKGLKLFGNFVTSISSDITFVMSFEPVDVEAKRGQKVRILPFPYPDESEALRKNEGDFRFFLESRLNKLYEEALKKEDFAIFMGHFTVEGLAGYAGIEQGREIIINRALIPSVVDYAALGHIHSFREIQKQPLTIYPGSLIRIDFGEEADEKGAVFVELKRGEPPRYERIDASPLPLKTLYYKKIDTSALKSIRDFCRNFPGYVRVVYEEDSGILPDLMGEIDNLVKIE 324
                                    13        23        33        43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203       213       223       233       243       253       263       273       283       293       303       313       323
   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 4O43)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4O43)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4O43)

(-) Gene Ontology  (12, 12)

Asymmetric Unit(hide GO term definitions)

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  Cis Peptide Bonds
    Ala A:187 - Gly A:188   [ RasMol ]  
    Arg B:147 - Lys B:148   [ RasMol ]  
    Gln A:194 - Gly A:195   [ RasMol ]  
    Gln A:226 - Pro A:227   [ RasMol ]  
    Gln B:194 - Gly B:195   [ RasMol ]  
    Gln B:226 - Pro B:227   [ RasMol ]  
    Glu A:193 - Gln A:194   [ RasMol ]  
    Glu B:142 - Ser B:143   [ RasMol ]  
    Glu B:193 - Gln B:194   [ RasMol ]  
    Gly B:195 - Arg B:196   [ RasMol ]  
    Ile A:192 - Glu A:193   [ RasMol ]  
    Ile B:192 - Glu B:193   [ RasMol ]  
    Tyr B:189 - Ala B:190   [ RasMol ]  
 
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  4o43
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 Related Entries

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

UniProtKB/TrEMBL
        Q9X1X0_THEMA | Q9X1X0: 2q8u 3qf7 3qg5 3thn 3tho 4nzv 4o24 4o4k 4o5g 4w9m

(-) Related Entries Specified in the PDB File

4nzv 4o24 4o4k 4o5g