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(-) Description

Title :  CRYSTAL STRUCTURE OF HUMAN SPINDLIN1 BOUND TO HISTONE H3(K4ME3-R8ME2S) PEPTIDE
 
Authors :  X. Su, X. Ding, H. Li
Date :  30 Sep 13  (Deposition) - 26 Mar 14  (Release) - 26 Mar 14  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.20
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Wnt Signal, Histone H3, Nuclear, Gene Regulation (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  X. Su, G. Zhu, X. Ding, S. Y. Lee, Y. Dou, B. Zhu, W. Wu, H. Li
Molecular Basis Underlying Histone H3 Lysine-Arginine Methylation Pattern Readout By Spin/Ssty Repeats Of Spindlin1
Genes Dev. V. 28 622 2014
PubMed-ID: 24589551  |  Reference-DOI: 10.1101/GAD.233239.113

(-) Compounds

Molecule 1 - SPINDLIN-1
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PRSFDUET
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Fragment: UNP RESIDUES 50-262
    Gene: SPIN1, OCR, SPIN
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Synonym: SP1, OVARIAN CANCER-RELATED PROTEIN
 
Molecule 2 - PEPTIDE FROM HISTONE H3.2
    Chains: B
    Engineered: YES
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Synonym: HISTONE H3/M, HISTONE H3/O
    Synthetic: YES

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

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

Asymmetric/Biological Unit (2, 2)
No.NameCountTypeFull Name
1M3L1Mod. Amino AcidN-TRIMETHYLLYSINE
2MG1Ligand/IonMAGNESIUM ION

(-) Sites  (1, 1)

Asymmetric Unit (1, 1)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREHOH A:439 , HOH A:459 , HOH A:460BINDING SITE FOR RESIDUE MG A 301

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 4MZH)

(-) 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:200
                                                                                                                                                                                                                                        
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ................eeeeeee.......eeeeeeeeee.......eeeee......eee.......eeeeeeeeee.......hhhhhhhhh..eeeeeee.....eeeeeeeeeee.......eeeee..eeeeeeehhhhhhhh..eee......eeeee...eeeeeeeee......eeeeee.....eeeee.. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4mzh A  40 SSHHHHHHGSRRNIVGCRIQHGWKEGNGPVTQWKGTVLDQVPVNPSLYLIKYDGFDCVYGLELNKDERVSALEVLPDRVATSRISDAHLADTMIGKAVEHMFETEDGSKDEWRGMVLARAPVMNTWFYITYEKDPVLYMYQLLDDYKEGDLRIMSLVGKQVEYAKGSKRTGMVIHQVEAKPSVYFIKFDDDFHIYVYDLV 259
                                    49        59        69        79        89        99       109       119       129       139       149       159       169       179       189   ||  217    || 229       239       249       259
                                                                                                                                                                                   193|       222|                                  
                                                                                                                                                                                    212        225                                  


Chain B from PDB  Type:PROTEIN  Length:7
                                       
               SCOP domains ------- SCOP domains
               CATH domains ------- CATH domains
               Pfam domains ------- Pfam domains
         Sec.struct. author .ee.... Sec.struct. author
                 SAPs(SNPs) ------- SAPs(SNPs)
                    PROSITE ------- PROSITE
                 Transcript ------- Transcript
                 4mzh B   1 ARTkQTA   7
                               |   
                               4-M3L
   Legend:   → Mismatch (orange background)
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  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 4MZH)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (27, 29)

Asymmetric/Biological Unit(hide GO term definitions)

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  SPIN1_HUMAN | Q9Y657
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 Related Entries

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

UniProtKB/Swiss-Prot
        H32_HUMAN | Q71DI3: 2iij 2x4w 2x4x 2x4y 3av1 3db3 3mo8 3qo2 3r93 4mzf 4mzg 4ouc 5b0y 5b0z 5b40 5bo0 5ciu 5vac
        SPIN1_HUMAN | Q9Y657: 2ns2 4h75 4mzf 4mzg 5jsg 5jsj

(-) Related Entries Specified in the PDB File

4mzf 4mzg