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(-) Description

Title :  STRUCTURES OF SPOP-SUBSTRATE COMPLEXES: INSIGHTS INTO MOLECULAR ARCHITECTURES OF BTB-CUL3 UBIQUITIN LIGASES: SPOPMATH-PUCSBC1_PEP1
 
Authors :  B. A. Schulman, D. J. Miller, M. F. Calabrese, S. Seyedin
Date :  01 Sep 09  (Deposition) - 20 Oct 09  (Release) - 20 Oct 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.25
Chains :  Asym./Biol. Unit :  A,D
Keywords :  Protein Binding, Nucleus, Ubl Conjugation Pathway, Ligase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  M. Zhuang, M. F. Calabrese, J. Liu, M. B. Waddell, A. Nourse, M. Hammel, D. J. Miller, H. Walden, D. M. Duda, S. N. Seyedin, T. Hoggard, J. W. Harper, K. P. White, B. A. Schulman
Structures Of Spop-Substrate Complexes: Insights Into Molecular Architectures Of Btb-Cul3 Ubiquitin Ligases.
Mol. Cell V. 36 39 2009
PubMed-ID: 19818708  |  Reference-DOI: 10.1016/J.MOLCEL.2009.09.022
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - SPECKLE-TYPE POZ PROTEIN
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Gene: SPOP
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Synonym: HIB HOMOLOG 1, ROADKILL HOMOLOG 1
 
Molecule 2 - PUCSBC1
    Chains: D
    Engineered: YES
    Synthetic: YES

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AD

Summary Information (see also Sequences/Alignments below)

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

(no "Ligand,Modified Residues,Ions" information available for 3IVV)

(-) Sites  (0, 0)

(no "Site" information available for 3IVV)

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 3IVV)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 3IVV)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3IVV)

(-) PROSITE Motifs  (1, 1)

Asymmetric/Biological Unit (1, 1)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1MATHPS50144 MATH/TRAF domain profile.SPOP_HUMAN31-161  1A:31-161

(-) Exons   (5, 5)

Asymmetric/Biological Unit (5, 5)
 ENSEMBLUniProtKBPDB
No.Transcript IDExonExon IDGenome LocationLengthIDLocationLengthCountLocationLength
1.1dENST000003933281dENSE00002053260chr17:47755472-47755295178SPOP_HUMAN-00--
1.2ENST000003933282ENSE00002056951chr17:47753378-47753257122SPOP_HUMAN-00--
1.8dENST000003933288dENSE00002153086chr17:47700238-47700095144SPOP_HUMAN1-26261A:26-272
1.10dENST0000039332810dENSE00002189108chr17:47699429-47699308122SPOP_HUMAN27-67411A:28-6740
1.12cENST0000039332812cENSE00002169279chr17:47696747-47696596152SPOP_HUMAN67-118521A:67-11852
1.13bENST0000039332813bENSE00001746781chr17:47696470-47696343128SPOP_HUMAN118-160431A:118-16043
1.16cENST0000039332816cENSE00000819785chr17:47688819-47688642178SPOP_HUMAN161-220601A:161-1655
1.17ENST0000039332817ENSE00002159579chr17:47685291-4768523656SPOP_HUMAN220-238190--
1.18bENST0000039332818bENSE00000819783chr17:47684734-47684612123SPOP_HUMAN239-279410--
1.19bENST0000039332819bENSE00000736281chr17:47679369-47679227143SPOP_HUMAN280-327480--
1.20gENST0000039332820gENSE00002070429chr17:47677884-476762461639SPOP_HUMAN327-374480--

(-) 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:140
 aligned with SPOP_HUMAN | O43791 from UniProtKB/Swiss-Prot  Length:374

    Alignment length:151
                                    24        34        44        54        64        74        84        94       104       114       124       134       144       154       164 
           SPOP_HUMAN    15 SGPVAESWCYTQIKVVKFSYMWTINNFSFCREEMGEVIKSSTFSSGANDKLKWCLRVNPKGLDEESKDYLSLYLLLVSCPKSEVRAKFKFSILNAKGEETKAMESQRAYRFVQGKDWGFKKFIRRDFLLDEANGLLPDDKLTLFCEVSVVQ 165
               SCOP domains d3           ivva_ A: Speckle-type poz protein SPOP                                                                                                     SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..-----------...eeeeeeee.hhhhh.......ee...eeehhhhheeeeeeee....hhhhh.eeeeeeeeee....eeeeeeeeeee.....eeeeee....eeee...eeeeeeeeehhhhhhhhhh.hhhhheeeeeeeee.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------MATH  PDB: A:31-161 UniProt: 31-161                                                                                                ---- PROSITE
           Transcript 1 (1) Exon 1.8d   Exon 1.10d  PDB: A:28-67 UniProt: 27-67  --------------------------------------------------Exon 1.13b  PDB: A:118-160 UniProt: 118-1601.16c Transcript 1 (1)
           Transcript 1 (2) ----------------------------------------------------Exon 1.12c  PDB: A:67-118 UniProt: 67-118           ----------------------------------------------- Transcript 1 (2)
                 3ivv A  26 SG-----------KVVKFSYMWTINNFSFCREEMGEVIKSSTFSSGANDKLKWCLRVNPKGLDEESKDYLSLYLLLVSCPKSEVRAKFKFSILNAKGEETKAMESQRAYRFVQGKDWGFKKFIRRDFLLDEANGLLPDDKLTLFCEVSVVQ 165
                             |       -   |    34        44        54        64        74        84        94       104       114       124       134       144       154       164 
                             |          28                                                                                                                                         
                            27                                                                                                                                                     


Chain D from PDB  Type:PROTEIN  Length:10
                                          
               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
                 3ivv D  96 DEVTSTTSSS 105
                                   105
   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, 1)

Asymmetric/Biological Unit
(-)
Class: All beta proteins (24004)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 3IVV)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 3IVV)

(-) Gene Ontology  (8, 8)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (SPOP_HUMAN | O43791)
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).
    GO:0031625    ubiquitin protein ligase binding    Interacting selectively and non-covalently with a ubiquitin protein ligase enzyme, any of the E3 proteins.
biological process
    GO:0043161    proteasome-mediated ubiquitin-dependent protein catabolic process    The chemical reactions and pathways resulting in the breakdown of a protein or peptide by hydrolysis of its peptide bonds, initiated by the covalent attachment of ubiquitin, and mediated by the proteasome.
    GO:0016567    protein ubiquitination    The process in which one or more ubiquitin groups are added to a protein.
cellular component
    GO:0031463    Cul3-RING ubiquitin ligase complex    A ubiquitin ligase complex in which a cullin from the Cul3 subfamily and a RING domain protein form the catalytic core; substrate specificity is conferred by a BTB-domain-containing protein.
    GO:0016607    nuclear speck    A discrete extra-nucleolar subnuclear domain, 20-50 in number, in which splicing factors are seen to be localized by immunofluorescence microscopy.
    GO:0005654    nucleoplasm    That part of the nuclear content other than the chromosomes or the nucleolus.
    GO:0005634    nucleus    A membrane-bounded organelle of eukaryotic cells in which chromosomes are housed and replicated. In most cells, the nucleus contains all of the cell's chromosomes except the organellar chromosomes, and is the site of RNA synthesis and processing. In some species, or in specialized cell types, RNA metabolism or DNA replication may be absent.

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  3ivv
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  SPOP_HUMAN | O43791
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 Related Entries

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

UniProtKB/Swiss-Prot
        SPOP_HUMAN | O43791: 2cr2 3hqh 3hqi 3hql 3hqm 3hsv 3htm 3hu6 3ivb 3ivq 4eoz 4hs2 4j8z 4o1v

(-) Related Entries Specified in the PDB File

3ivq