PDB entry 1nex

View 1nex on RCSB PDB site
Description: Crystal Structure of ScSkp1-ScCdc4-CPD peptide complex
Class: ligase, cell cycle
Keywords: WD 40 domain, phospho-peptide complex, E3 ubiquitin ligase, LIGASE, CELL CYCLE
Deposited on 2002-12-12, released 2003-02-18
The last revision prior to the SCOPe 2.03 freeze date was dated 2009-02-24, with a file datestamp of 2009-02-03.
Experiment type: XRAY
Resolution: 2.7 Å
R-factor: 0.239
AEROSPACI score: 0.25 (click here for full SPACI score report)

Chains and heterogens:

  • Chain 'A':
    Compound: Centromere DNA-binding protein complex CBF3 subunit D
    Species: Saccharomyces cerevisiae [TaxId:4932]
    Gene: CBF3D OR SKP1 OR YDR328C OR D9798.14
    Database cross-references and differences (RAF-indexed):
    • Uniprot P52286
      • modified residue (51)
      • modified residue (104)
      • modified residue (131)
    Domains in SCOPe 2.03: d1nexa1, d1nexa2
  • Chain 'B':
    Compound: CDC4 protein
    Species: Saccharomyces cerevisiae [TaxId:4932]
    Database cross-references and differences (RAF-indexed):
    • Uniprot P07834 (Start-463)
      • modified residue (120)
      • modified residue (142)
      • modified residue (269)
      • modified residue (299)
      • modified residue (329)
      • engineered (343)
      • modified residue (344)
    Domains in SCOPe 2.03: d1nexb1, d1nexb2
  • Chain 'C':
    Compound: Centromere DNA-binding protein complex CBF3 subunit D
    Species: Saccharomyces cerevisiae [TaxId:4932]
    Gene: CBF3D OR SKP1 OR YDR328C OR D9798.14
    Database cross-references and differences (RAF-indexed):
    • Uniprot P52286
      • modified residue (51)
      • modified residue (104)
      • modified residue (131)
    Domains in SCOPe 2.03: d1nexc1, d1nexc2
  • Chain 'D':
    Compound: CDC4 protein
    Species: Saccharomyces cerevisiae [TaxId:4932]
    Database cross-references and differences (RAF-indexed):
    • Uniprot P07834 (Start-463)
      • modified residue (120)
      • modified residue (142)
      • modified residue (269)
      • modified residue (299)
      • modified residue (329)
      • engineered (343)
      • modified residue (344)
    Domains in SCOPe 2.03: d1nexd1, d1nexd2
  • Chain 'E':
    Compound: gll(tpo)ppqsg
    Database cross-references and differences (RAF-indexed):
    • PDB 1NEX
  • Chain 'F':
    Compound: gll(tpo)ppqsg
    Database cross-references and differences (RAF-indexed):
    • PDB 1NEX (Start-8)
  • Heterogens: HOH

PDB Chain Sequences:

  • Chain 'A':
    Sequence, based on SEQRES records: (download) 
    >1nexA (A:)
gahmvtsnvvlvsgegerftvdkkiaerslllknylndmgddddedddeivmpvpnvrss
vlqkviewaehhrdsnfpdeddddsrksapvdswdreflkvdqemlyeiilaanylnikp
lldagckvvaemirgrspeeirrtfnivndftpeeeaairrenewaedr

    Sequence, based on observed residues (ATOM records): (download) 
    >1nexA (A:)
snvvlvsgegerftvdkkiaerslllknylivmpvpnvrssvlqkviewaehhrdsnfpv
dswdreflkvdqemlyeiilaanylnikplldagckvvaemirgrspeeirrtfnivndf
tpeeeaair

  • Chain 'B':
    Sequence, based on SEQRES records: (download) 
    >1nexB (B:)
gagtlikdnlkrdlitslpfeislkifnylqfediinslgvsqnwnkiirkstslwkkll
isenfvspkgfnslnlklsqkypklsqqdrlrlsflenifilknwynpkfvpqrttlrgh
mtsvitclqfednyvitgaddkmirvydsinkkfllqlsghdggvwalkyahggilvsgs
tdrtvrvwdikkgccthvfeghnstvrcldiveyknikyivtgsrdntlhvwklpkessv
pdhgeehdyplvfhtpeenpyfvgvlrghmasvrtvsghgnivvsgsydntlivwdvaqm
kclyilsghtdriystiydherkrcisasmdttiriwdlengelmytlqghtalvgllrl
sdkflvsaaadgsirgwdandysrkfsyhhtnlsaittfyvsdnilvsgsenqfniynlr
sgklvhanilkdadqiwsvnfkgktlvaavekdgqsfleildfs

    Sequence, based on observed residues (ATOM records): (download) 
    >1nexB (B:)
lkrdlitslpfeislkifnylqfediinslgvsqnwnkiirkstslwkkllisenfvspk
gfnslnlklsqkypklsqqdrlrlsflenifilknwynpkfvpqrttlrghmtsvitclq
fednyvitgaddkmirvydsinkkfllqlsghdggvwalkyahggilvsgstdrtvrvwd
ikkgccthvfeghnstvrcldiveyknikyivtgsrdntlhvwklpkdyplvfhtpeenp
yfvgvlrghmasvrtvsghgnivvsgsydntlivwdvaqmkclyilsghtdriystiydh
erkrcisasmdttiriwdlengelmytlqghtalvgllrlsdkflvsaaadgsirgwdan
dysrkfsyhhtnlsaittfyvsdnilvsgsenqfniynlrsgklvhanilkdadqiwsvn
fkgktlvaavekdgqsfleildfs

  • Chain 'C':
    Sequence, based on SEQRES records: (download) 
    >1nexC (C:)
gahmvtsnvvlvsgegerftvdkkiaerslllknylndmgddddedddeivmpvpnvrss
vlqkviewaehhrdsnfpdeddddsrksapvdswdreflkvdqemlyeiilaanylnikp
lldagckvvaemirgrspeeirrtfnivndftpeeeaairrenewaedr

    Sequence, based on observed residues (ATOM records): (download) 
    >1nexC (C:)
snvvlvsgegerftvdkkiaerslllknylivmpvpnvrssvlqkviewaehhrdsnfpv
dswdreflkvdqemlyeiilaanylnikplldagckvvaemirgrspeeirrtfnivndf
tpeeeaairr

  • Chain 'D':
    Sequence, based on SEQRES records: (download) 
    >1nexD (D:)
gagtlikdnlkrdlitslpfeislkifnylqfediinslgvsqnwnkiirkstslwkkll
isenfvspkgfnslnlklsqkypklsqqdrlrlsflenifilknwynpkfvpqrttlrgh
mtsvitclqfednyvitgaddkmirvydsinkkfllqlsghdggvwalkyahggilvsgs
tdrtvrvwdikkgccthvfeghnstvrcldiveyknikyivtgsrdntlhvwklpkessv
pdhgeehdyplvfhtpeenpyfvgvlrghmasvrtvsghgnivvsgsydntlivwdvaqm
kclyilsghtdriystiydherkrcisasmdttiriwdlengelmytlqghtalvgllrl
sdkflvsaaadgsirgwdandysrkfsyhhtnlsaittfyvsdnilvsgsenqfniynlr
sgklvhanilkdadqiwsvnfkgktlvaavekdgqsfleildfs

    Sequence, based on observed residues (ATOM records): (download) 
    >1nexD (D:)
lkrdlitslpfeislkifnylqfediinslgvsqnwnkiirkstslwkkllisenfvspk
gfnslnlklsqkypklsqqdrlrlsflenifilknwynpkfvpqrttlrghmtsvitclq
fednyvitgaddkmirvydsinkkfllqlsghdggvwalkyahggilvsgstdrtvrvwd
ikkgccthvfeghnstvrcldiveyknikyivtgsrdntlhvwklpkdyplvfhtpeenp
yfvgvlrghmasvrtvsghgnivvsgsydntlivwdvaqmkclyilsghtdriystiydh
erkrcisasmdttiriwdlengelmytlqghtalvgllrlsdkflvsaaadgsirgwdan
dysrkfsyhhtnlsaittfyvsdnilvsgsenqfniynlrsgklvhanilkdadqiwsvn
fkgktlvaavekdgqsfleildfs

  • Chain 'E':
    No sequence available.

  • Chain 'F':
    No sequence available.