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(-) Description

Title :  CRYSTAL STRUCTURE OF MINDY-1 TMIU IN COMPLEX WITH K48-DIUB
 
Authors :  Y. A. Kristariyanto, S. A. Abdul Rehman, Y. Kulathu
Date :  13 Dec 16  (Deposition) - 25 Jan 17  (Release) - 05 Jul 17  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.05
Chains :  Asym./Biol. Unit :  A,B,C
Keywords :  Motif Interacting With Ubiquitin, Ubiquitin Binding Domain, Hydrolase And Cysteine Protease, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  Y. A. Kristariyanto, S. A. Abdul Rehman, S. Weidlich, A. Knebel, Y. Kulathu
A Single Miu Motif Of Mindy-1 Recognizes K48-Linked Polyubiquitin Chains.
Embo Rep. V. 18 392 2017
PubMed-ID: 28082312  |  Reference-DOI: 10.15252/EMBR.201643205

(-) Compounds

Molecule 1 - UBIQUITIN-40S RIBOSOMAL PROTEIN S27A
    Chains: A, B
    Organism Common: BOVINE
    Organism Scientific: BOS TAURUS
    Organism Taxid: 9913
    Synonym: UBIQUITIN CARBOXYL EXTENSION PROTEIN 80
 
Molecule 2 - UBIQUITIN CARBOXYL-TERMINAL HYDROLASE MINDY-1
    Chains: C
    EC Number: 3.4.19.12
    Engineered: YES
    Expression System: ESCHERICHIA COLI BL21(DE3)
    Expression System Taxid: 469008
    Gene: FAM63A, KIAA1390
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Synonym: DEUBIQUITINATING ENZYME MINDY-1,PROTEIN FAM63A

 Structural Features

(-) Chains, Units

  123
Asymmetric/Biological Unit : ABC

Summary Information (see also Sequences/Alignments below)

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

(no "Ligand,Modified Residues,Ions" information available for 5MN9)

(-) Sites  (0, 0)

(no "Site" information available for 5MN9)

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 5MN9)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 5MN9)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 5MN9)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 5MN9)

(-) Exons   (0, 0)

(no "Exon" information available for 5MN9)

(-) 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:73
                                                                                                         
               SCOP domains ------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeee....eeeee.....hhhhhhhhhhhhhh.hhh.eeeee..ee......hhhhh.....eeeeee.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------- Transcript
                 5mn9 A   1 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRL  73
                                    10        20        30        40        50        60        70   


Chain B from PDB  Type:PROTEIN  Length:76
                                                                                                            
               SCOP domains ---------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeee....eeeee.....hhhhhhhhhhhhhh.hhh.eeeee..ee......hhhhh.....eeeeee..... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------- Transcript
                 5mn9 B   1 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGG  76
                                    10        20        30        40        50        60        70      


Chain C from PDB  Type:PROTEIN  Length:19
                                                   
               SCOP domains ------------------- SCOP domains
               CATH domains ------------------- CATH domains
               Pfam domains ------------------- Pfam domains
         Sec.struct. author ..hhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------- SAPs(SNPs)
                    PROSITE ------------------- PROSITE
                 Transcript ------------------- Transcript
                 5mn9 C 408 LGLTDLELAQQLQQEEYQQ 426
                                   417
   Legend:   → Mismatch (orange background)
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  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 5MN9)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 5MN9)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 5MN9)

(-) Gene Ontology  (12, 13)

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  RS27A_BOVIN | P62992
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 Related Entries

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

UniProtKB/Swiss-Prot
        MINY1_HUMAN | Q8N5J2: 5jkn 5jqs
        RS27A_BOVIN | P62992: 1aar 1cmx 1gjz 1p3q 1ud7 1uzx 1v80 1v81 1wr6 1wrd 1yd8 2c7m 2c7n 2d3g 2dx5 2fid 2fif 2hd5 2oob 2qho 2wwz 2wx0 2wx1 3h1u 3m3j 4m0w 4y1h 4z9s 5bz0 5fer 5jqs

(-) Related Entries Specified in the PDB File

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