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(-) Description

Title :  CRYSTAL STRUCTURE OF THE TETRAMERISATION DOMAIN OF HUMAN CTIP
 
Authors :  O. R. Davies, M. Sun, L. Pellegrini
Date :  09 May 14  (Deposition) - 14 Jan 15  (Release) - 18 Feb 15  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.90
Chains :  Asym. Unit :  A,B,C,D,E,F,G,H
Biol. Unit 1:  E,F,G,H  (1x)
Biol. Unit 2:  A,B,C,D  (1x)
Keywords :  Gene Regulation, Ctip/Rbbp8, Double-Strand Dna Break Repair, Dna-End Resection, Gene Conversion, Homologous Recombination (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  O. R. Davies, J. V. Forment, M. Sun, R. Belotserkovskaya, J. Coates, Y. Galanty, M. Demir, C. R. Morton, N. J. Rzechorzek, S. P. Jackson, L. Pellegrini
Ctip Tetramer Assembly Is Required For Dna-End Resection And Repair.
Nat. Struct. Mol. Biol. V. 22 150 2015
PubMed-ID: 25558984  |  Reference-DOI: 10.1038/NSMB.2937

(-) Compounds

Molecule 1 - RBBP8
    Chains: A, B, C, D, E, F, G, H
    EC Number: 3.1.-.-
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PMAT11
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Variant: ROSETTA2
    Expression System Vector Type: PLASMID
    Fragment: TETRAMERISATION DOMAIN, RESIDUES 18-52
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Synonym: CTBP-INTERACTING PROTEIN, CTIP, RETINOBLASTOMA-BINDING PROTEIN 8, RBBP-8, RETINOBLASTOMA-INTERACTING PROTEIN AND MYOSIN-LIKE, RIM, SPORULATION IN THE ABSENCE OF SPO11 PROTEIN 2 HOMOLOG, SAE2

 Structural Features

(-) Chains, Units

  12345678
Asymmetric Unit : ABCDEFGH
Biological Unit 1 (1x):     EFGH
Biological Unit 2 (1x): ABCD    

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 14)

Asymmetric Unit (1, 14)
No.NameCountTypeFull Name
1SO414Ligand/IonSULFATE ION
Biological Unit 1 (1, 8)
No.NameCountTypeFull Name
1SO48Ligand/IonSULFATE ION
Biological Unit 2 (1, 6)
No.NameCountTypeFull Name
1SO46Ligand/IonSULFATE ION

(-) Sites  (14, 14)

Asymmetric Unit (14, 14)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREVAL D:40 , LYS D:44 , LYS G:44 , HOH G:2018 , HOH G:2019BINDING SITE FOR RESIDUE SO4 G1053
02AC2SOFTWARELYS B:21 , HOH B:2013 , LYS C:28BINDING SITE FOR RESIDUE SO4 B1050
03AC3SOFTWARELYS B:44 , LYS E:44BINDING SITE FOR RESIDUE SO4 B1051
04AC4SOFTWARELYS A:46 , LYS B:41BINDING SITE FOR RESIDUE SO4 A1052
05AC5SOFTWARELYS H:41BINDING SITE FOR RESIDUE SO4 H1052
06AC6SOFTWARELYS F:28 , LYS G:21BINDING SITE FOR RESIDUE SO4 G1054
07AC7SOFTWAREHOH F:2013BINDING SITE FOR RESIDUE SO4 F1053
08AC8SOFTWARESER A:18 , HOH A:2003 , SER F:18 , PHE F:20 , HOH F:2001 , HOH F:2015 , HIS G:31 , GLU H:34BINDING SITE FOR RESIDUE SO4 F1054
09AC9SOFTWARELYS F:21 , LYS G:28BINDING SITE FOR RESIDUE SO4 F1055
10BC1SOFTWAREGLU A:34 , HIS B:31 , PHE C:20 , LYS C:21BINDING SITE FOR RESIDUE SO4 C1053
11BC2SOFTWAREHIS A:31 , GLU B:34 , ASP D:19 , PHE D:20 , LYS D:21BINDING SITE FOR RESIDUE SO4 D1049
12BC3SOFTWAREASP E:19 , PHE E:20 , LYS E:21 , GLU G:34 , HIS H:31BINDING SITE FOR RESIDUE SO4 E1049
13BC4SOFTWAREGLU E:34 , HIS F:31 , HOH F:2002 , SER G:18 , ASP G:19 , PHE G:20 , LYS G:21BINDING SITE FOR RESIDUE SO4 G1055
14BC5SOFTWARESER B:18 , PHE B:20 , LYS B:21 , HOH B:2001 , HIS C:31 , GLU D:34BINDING SITE FOR RESIDUE SO4 B1052

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4D2H)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 4D2H)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4D2H)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4D2H)

(-) Exons   (0, 0)

(no "Exon" information available for 4D2H)

(-) 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:37
                                                                    
               SCOP domains ------------------------------------- SCOP domains
               CATH domains ------------------------------------- CATH domains
               Pfam domains ------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------- PROSITE
                 Transcript ------------------------------------- Transcript
                  4d2h A 15 GSMSDFKDLWTKLKECHDREVQGLQVKVTKLKQERIL 51
                                    24        34        44       


Chain B from PDB  Type:PROTEIN  Length:32
                                                               
               SCOP domains -------------------------------- SCOP domains
               CATH domains -------------------------------- CATH domains
               Pfam domains -------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) -------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------- PROSITE
                 Transcript -------------------------------- Transcript
                  4d2h B 18 SDFKDLWTKLKECHDREVQGLQVKVTKLKQER 49
                                    27        37        47  


Chain C from PDB  Type:PROTEIN  Length:34
                                                                 
               SCOP domains ---------------------------------- SCOP domains
               CATH domains ---------------------------------- CATH domains
               Pfam domains ---------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ---------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------- PROSITE
                 Transcript ---------------------------------- Transcript
                  4d2h C 19 DFKDLWTKLKECHDREVQGLQVKVTKLKQERILD 52
                                    28        38        48    


Chain D from PDB  Type:PROTEIN  Length:30
                                                             
               SCOP domains ------------------------------ SCOP domains
               CATH domains ------------------------------ CATH domains
               Pfam domains ------------------------------ Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------ PROSITE
                 Transcript ------------------------------ Transcript
                  4d2h D 19 DFKDLWTKLKECHDREVQGLQVKVTKLKQE 48
                                    28        38        48


Chain E from PDB  Type:PROTEIN  Length:30
                                                             
               SCOP domains ------------------------------ SCOP domains
               CATH domains ------------------------------ CATH domains
               Pfam domains ------------------------------ Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------ PROSITE
                 Transcript ------------------------------ Transcript
                  4d2h E 19 DFKDLWTKLKECHDREVQGLQVKVTKLKQE 48
                                    28        38        48


Chain F from PDB  Type:PROTEIN  Length:37
                                                                    
               SCOP domains ------------------------------------- SCOP domains
               CATH domains ------------------------------------- CATH domains
               Pfam domains ------------------------------------- Pfam domains
         Sec.struct. author ...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------- PROSITE
                 Transcript ------------------------------------- Transcript
                  4d2h F 16 SMSDFKDLWTKLKECHDREVQGLQVKVTKLKQERILD 52
                                    25        35        45       


Chain G from PDB  Type:PROTEIN  Length:35
                                                                  
               SCOP domains ----------------------------------- SCOP domains
               CATH domains ----------------------------------- CATH domains
               Pfam domains ----------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..... Sec.struct. author
                 SAPs(SNPs) ----------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------- PROSITE
                 Transcript ----------------------------------- Transcript
                  4d2h G 18 SDFKDLWTKLKECHDREVQGLQVKVTKLKQERILD 52
                                    27        37        47     


Chain H from PDB  Type:PROTEIN  Length:33
                                                                
               SCOP domains --------------------------------- SCOP domains
               CATH domains --------------------------------- CATH domains
               Pfam domains --------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) --------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------- PROSITE
                 Transcript --------------------------------- Transcript
                  4d2h H 19 DFKDLWTKLKECHDREVQGLQVKVTKLKQERIL 51
                                    28        38        48
   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 4D2H)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4D2H)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4D2H)

(-) Gene Ontology  (36, 36)

Asymmetric Unit(hide GO term definitions)

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  4d2h
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        CTIP_HUMAN | Q99708: 2l4z

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