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(-) Description

Title :  STRUCTURE OF THE WILD-TYPE TCP10 DOMAIN OF DANIO RERIO CPAP IN COMPLEX WITH A PEPTIDE OF DANIO RERIO STIL
 
Authors :  M. Van Breugel
Date :  15 Jul 13  (Deposition) - 25 Sep 13  (Release) - 02 Oct 13  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.20
Chains :  Asym. Unit :  A,B,C,D
Biol. Unit 1:  A,C  (1x)
Biol. Unit 2:  B,D  (1x)
Keywords :  Cell Cycle, Centriole Duplication (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  M. A. Cottee, N. Muschalik, Y. L. Wong, C. M. Johnson, S. Johnson, A. Andreeva, K. Oegema, S. M. Lea, J. W. Raff, M. Van Breugel
Crystal Structures Of The Cpap-Stil Complex Reveal Its Role In Centriole Assembly And Human Microcephaly
Elife V. 2 01071 2013
PubMed-ID: 24052813  |  Reference-DOI: 10.7554/ELIFE.01071

(-) Compounds

Molecule 1 - CPAP
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Variant: ROSETTA
    Expression System Vector: PET28
    Expression System Vector Type: PLASMID
    Fragment: TCP-10 DOMAIN, RESIDUES 937-1124
    Organism Common: ZEBRAFISH
    Organism Scientific: DANIO RERIO
    Organism Taxid: 7955
 
Molecule 2 - SCL-INTERRUPTING LOCUS PROTEIN HOMOLOG
    Chains: C, D
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Variant: C41
    Fragment: STIL PEPTIDE, RESIDUES 408-428
    Organism Common: ZEBRAFISH
    Organism Scientific: DANIO RERIO
    Organism Taxid: 7955

 Structural Features

(-) Chains, Units

  1234
Asymmetric Unit : ABCD
Biological Unit 1 (1x): A C 
Biological Unit 2 (1x):  B D

Summary Information (see also Sequences/Alignments below)

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

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

(-) Sites  (0, 0)

(no "Site" information available for 4BXR)

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 4BXR)

(-) 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:183
 aligned with E7FCY1_DANRE | E7FCY1 from UniProtKB/TrEMBL  Length:1124

    Alignment length:183
                                   950       960       970       980       990      1000      1010      1020      1030      1040      1050      1060      1070      1080      1090      1100      1110      1120   
        E7FCY1_DANRE    941 QSDSKIEKMLPDGGRLVVFPNGTRKELSADGQTVKVMFFNGDVKHTMPDQRVIYYYAEAQTTHITYPDGMEVLQFPNNQTEKHFPDGRKEITFPDQTVKTLHPDGREESVLTDGTIIQLNPDGSKVIQFNTGQREIHTADFKRREYPDGTVKTVYSDGRQETQYPTGRVRLKDPQGKVIMDTK 1123
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....eeee.....eeee.....eeee......eeee.....eeee.....eeeee....eeeee.....eeee.....eeee.....eeee.....eeee.....eeee.....eeee.....eeee.....eeee...eeeee.....eeeee....eeee.....eeee.....eeee.. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                4bxr A  941 QSDSKIEKMLPDGGRLVVFPNGTRKELSADGQTVKVMFFNGDVKHTMPDQRVIYYYAEAQTTHITYPDGMEVLQFPNNQTEKHFPDGRKEITFPDQTVKTLHPDGREESVLTDGTIIQLNPDGSKVIQFNTGQREIHTADFKRREYPDGTVKTVYSDGRQETQYPTGRVRLKDPQGKVIMDTK 1123
                                   950       960       970       980       990      1000      1010      1020      1030      1040      1050      1060      1070      1080      1090      1100      1110      1120   


Chain B from PDB  Type:PROTEIN  Length:181
 aligned with E7FCY1_DANRE | E7FCY1 from UniProtKB/TrEMBL  Length:1124

    Alignment length:181
                                   953       963       973       983       993      1003      1013      1023      1033      1043      1053      1063      1073      1083      1093      1103      1113      1123 
        E7FCY1_DANRE    944 SKIEKMLPDGGRLVVFPNGTRKELSADGQTVKVMFFNGDVKHTMPDQRVIYYYAEAQTTHITYPDGMEVLQFPNNQTEKHFPDGRKEITFPDQTVKTLHPDGREESVLTDGTIIQLNPDGSKVIQFNTGQREIHTADFKRREYPDGTVKTVYSDGRQETQYPTGRVRLKDPQGKVIMDTKA 1124
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeee.....eeee.....eeee......eeee.....eeee.....eeeee....eeeee.....eeee.....eeee.....eeee.....eeee.....eeee.....eeee.....eeee.....eeee...eeeee.....eeeee....eeee....eeeee.....eeeeee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                4bxr B  944 SKIEKMLPDGGRLVVFPNGTRKELSADGQTVKVMFFNGDVKHTMPDQRVIYYYAEAQTTHITYPDGMEVLQFPNNQTEKHFPDGRKEITFPDQTVKTLHPDGREESVLTDGTIIQLNPDGSKVIQFNTGQREIHTADFKRREYPDGTVKTVYSDGRQETQYPTGRVRLKDPQGKVIMDTKA 1124
                                   953       963       973       983       993      1003      1013      1023      1033      1043      1053      1063      1073      1083      1093      1103      1113      1123 


Chain C from PDB  Type:PROTEIN  Length:12
 aligned with STIL_DANRE | Q8JGS1 from UniProtKB/Swiss-Prot  Length:1263

    Alignment length:12
                                   423  
          STIL_DANRE    414 DLSPRPSPNPHP  425
               SCOP domains ------------ SCOP domains
               CATH domains ------------ CATH domains
               Pfam domains ------------ Pfam domains
         Sec.struct. author ............ Sec.struct. author
                 SAPs(SNPs) ------------ SAPs(SNPs)
                    PROSITE ------------ PROSITE
                 Transcript ------------ Transcript
                4bxr C  414 DLSPRPSPNPHP  425
                                   423  


Chain D from PDB  Type:PROTEIN  Length:14
 aligned with STIL_DANRE | Q8JGS1 from UniProtKB/Swiss-Prot  Length:1263

    Alignment length:14
                                   423    
          STIL_DANRE    414 DLSPRPSPNPHPVS  427
               SCOP domains -------------- SCOP domains
               CATH domains -------------- CATH domains
               Pfam domains -------------- Pfam domains
         Sec.struct. author .............. Sec.struct. author
                 SAPs(SNPs) -------------- SAPs(SNPs)
                    PROSITE -------------- PROSITE
                 Transcript -------------- Transcript
                4bxr D  414 DLSPRPSPNPHPVS  427
                                   423
   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 4BXR)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (8, 9)

Asymmetric Unit(hide GO term definitions)
Chain A,B   (E7FCY1_DANRE | E7FCY1)
molecular function
    GO:0005515    protein binding    Interacting selectively and non-covalently with any protein or protein complex (a complex of two or more proteins that may include other nonprotein molecules).

Chain C,D   (STIL_DANRE | Q8JGS1)
molecular function
    GO:0005515    protein binding    Interacting selectively and non-covalently with any protein or protein complex (a complex of two or more proteins that may include other nonprotein molecules).
biological process
    GO:0010171    body morphogenesis    The process in which the anatomical structures of the soma are generated and organized.
    GO:0007052    mitotic spindle organization    A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of the microtubule spindle during a mitotic cell cycle.
    GO:0007275    multicellular organism development    The biological process whose specific outcome is the progression of a multicellular organism over time from an initial condition (e.g. a zygote or a young adult) to a later condition (e.g. a multicellular animal or an aged adult).
    GO:0070050    neuron cellular homeostasis    The cellular homeostatic process that preserves a neuron in a stable, differentiated functional and structural state.
    GO:0007224    smoothened signaling pathway    A series of molecular signals generated as a consequence of activation of the transmembrane protein Smoothened.
    GO:0051225    spindle assembly    The aggregation, arrangement and bonding together of a set of components to form the spindle, the array of microtubules and associated molecules that serves to move duplicated chromosomes apart.
cellular component
    GO:0005737    cytoplasm    All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.

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 Related Entries

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

UniProtKB/Swiss-Prot
        STIL_DANRE | Q8JGS1: 4ld3 4lzf
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        E7FCY1_DANRE | E7FCY1: 4bxp 4bxq 4ld1 4ld3 4lzf

(-) Related Entries Specified in the PDB File

4bxp STRUCTURE OF THE WILD-TYPE TCP10 DOMAIN OF DANIO RERIO CPAP
4bxq STRUCTURE OF THE E1021V MUTANT OF THE TCP10 DOMAIN OF DANIO RERIO CPAP