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PF08959

    Table of contents
    1. 1. Topsan Members
    2. 2. Summary

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    Pfam ID: DUF1872 PDB: 1wh0_A
    Solved by: RSGI Priority Score: 4.6
    Member of this family is in PDB.
    Member of this clan is in PDB.
    Co-occurence with annotated domain(s) in one architecture.
    HMMER:
      # sequence matches: 48 # architectures: 8 # taxonomy ids:27
    FFAS:
      Top FFAS hit in PDB: "1wh0A, Ubiquitin carboxyl-terminal hydrolase 19" Top FFAS hit in Pfam: "PF05002, SGS domain "
    GRDB:
      Top significant hit (PDB90): "1wh0A, hydrolase ; solution structure of the cs domain of human usp19 "
      Top significant hit (PFAM25U): "PF04969, CS domain"
    CATH: CATH Domain E-value CATH Node
      1x5mA01 1.50E-05
      1ejfA00 0.0066 2.60.40.790
    FUNFAM (eval=0 ): Ubiquitin carboxyl-terminal hydrolase 19 domain 2 -like
    PUBSERVER:
      Publications(s) found: 273
      Publications(s) meeting filtering criteria: 68
    GeneSilico Metaserver: (Login and password: Jamboree)
    PDBBLAST: PDB: 2xcm_C SCOP: predicted b.15.1.2
    FFAS: PDB: 1wh0_A SCOP: b.15.1.3 ECC: 3.1.2.15
    MGENTHREADER: PDB: 1wh0_A SCOP: b.15.1.3 ECC: 3.1.2.15
    PRC: PDB: 1wh0_A SCOP: b.15.1.3 ECC: 3.1.2.15
    SPARKS: PDB: 1wh0_A SCOP: b.15.1.3 ECC: 3.1.2.15
    HHBLITS: PDB: 1rl1_A SCOP: b.15.1.3
    COMPASS: PDB: 1wh0_A SCOP: b.15.1.3 ECC: 3.1.2.15
    CSBLAST: PDB: 2xcm_C SCOP: predicted b.15.1.2
    HHSEARCH: PDB: 1wh0_A SCOP: b.15.1.3 ECC: 3.1.2.15

    Topsan Members

    Tag pages as 'PF08959' to appear in this list.

    No TOPSAN member(s) found.

    Summary

    Members of DUF1872 are members of the PF08959 Pfam class.  The CS domain, found in Ubiquitin specific peptidase 19 (USP-19), has no known function.This family is a member of clan HSP20 (CL0190), which has a total of 5 Pfam members. A structural representative for DUF1872 (PDB ID 1wh0) is available. This is a solution NMR structure determined by the RIKEN Structural Protemics Initiative. The results of a DALI structural similarity search on PDB 1D 1wh0 is summarized below.

    PDB ID DALI Z-SCORE rmsd (Ang) residues aligned total residues in related structure % sequence id Description
    2xcm_D 11.1 2.1 92 92 27 COMPLEX OF HSP90 N-TERMINAL, SGT1 CS AND RAR1 CHORD2 DOMAIN [Ref]
    2jki_T 11.1 1.7 89 90 28 COMPLEX OF HSP90 N-TERMINAL AND SGT1 CS DOMAIN[Ref]
    1ejf_A 10.1 2.2 92 110 23 CRYSTAL STRUCTURE OF THE HUMAN CO-CHAPERONE P23 [Ref]
    1rl1_A 10.1 2.0 91 92 26 Solution structure of human Sgt1 CS domain [Ref]
    1x5m_A 9.5 5.6 108 110 16 Solution structure of the core domain of calcyclin binding protein; siah-interacting protein (SIP)

     

    These DALI hits (i.e. PDB ID's 2jki,_T, 1ejf_A, 1rl1_A, and 1x5m_A) all belong to the CS Pfam family (PF04969). Thus, the question arises if 1wh0 and other members of DUF1872 should be assigned to the CS Pfam family. PDB ID 1wh0 in the currently-assigned DUF1872 family is part of a mult-domain human protein designated ubiquitin-specific peptidase 19 (Usp19). Usp19 contains an N-terminal CS-Domain (residues 117-191), followed by a DUF1872 domain (residues 203-493), a ubiquitin carboxy terminal hydrolase (UCH) domain (residues 494-1211), and a zinc finger domain sub-domain (zf-MYND) 791-833 sub-domain (residues 791-833). Mei et al.[Ref] recently reported that human USP19 interacts with c-IAP2 (cellular inhibitor of apoptosis 2). To delineate the structural determinants of the c-IAP-2:USP19 interaction, deletion mutants of USP19 were constructed. It was reported that  both the region N-terminal to the USP domain (N) and the region containing the USP and the transmembrane domain were able to associate with c-IAP2. The DUF1872 domain is situated just N-terminal to the USP 19 domain, suggesting that the DUF1872 domain on USP19 plays a role in the c-IAP2 interaction. 

     

     

     

     

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