PDB entry 1by4

View 1by4 on RCSB PDB site
Description: structure and mechanism of the homodimeric assembly of the rxr on DNA
Class: gene regulation/DNA
Keywords: rxr, nuclear receptor, hormone response element, protein-DNA interations, crystal structure, gene regulation/DNA complex
Deposited on 1998-10-22, released 2000-01-12
The last revision prior to the SCOPe 2.07 freeze date was dated 2009-02-24, with a file datestamp of 2009-03-01.
Experiment type: XRAY
Resolution: 2.1 Å
R-factor: 0.234
AEROSPACI score: 0.28 (click here for full SPACI score report)

Chains and heterogens:

  • Chain 'A':
    Compound: protein (retinoic acid receptor rxr-alpha)
    Species: Homo sapiens [TaxId:9606]
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.07: d1by4a_
  • Chain 'B':
    Compound: protein (retinoic acid receptor rxr-alpha)
    Species: Homo sapiens [TaxId:9606]
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.07: d1by4b_
  • Chain 'C':
    Compound: protein (retinoic acid receptor rxr-alpha)
    Species: Homo sapiens [TaxId:9606]
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.07: d1by4c_
  • Chain 'D':
    Compound: protein (retinoic acid receptor rxr-alpha)
    Species: Homo sapiens [TaxId:9606]
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.07: d1by4d_
  • Chain 'E':
    Compound: DNA (5'-d(*c*tp*ap*gp*gp*tp*cp*ap*ap*ap*gp*gp*tp*cp*ap*g)-3')
  • Chain 'F':
    Compound: DNA (5'-d(*cp*tp*gp*ap*cp*cp*tp*tp*tp*gp*ap*cp*cp*tp*a)-3')
  • Chain 'G':
    Compound: DNA (5'-d(*c*tp*ap*gp*gp*tp*cp*ap*ap*ap*gp*gp*tp*cp*ap*g)-3')
  • Chain 'H':
    Compound: DNA (5'-d(*cp*tp*gp*ap*cp*cp*tp*tp*tp*gp*ap*cp*cp*tp*a)-3')
  • Heterogens: ZN, HOH

PDB Chain Sequences:

  • Chain 'A':
    Sequence, based on SEQRES records: (download) 
    >1by4A (A:)
gsftkhicaicgdrssgkhygvyscegckgffkrtvrkdltytcrdnkdclidkrqrnrc
qycryqkclamgmkreavqeer

    Sequence, based on observed residues (ATOM records): (download) 
    >1by4A (A:)
tkhicaicgdrssgkhygvyscegckgffkrtvrkdltytcrdnkdclidkrqrnrcqyc
ryqkclamgmkreavqeer

  • Chain 'B':
    Sequence; same for both SEQRES and ATOM records: (download) 
    >1by4B (B:)
gsftkhicaicgdrssgkhygvyscegckgffkrtvrkdltytcrdnkdclidkrqrnrc
qycryqkclamgmkreavqeer

  • Chain 'C':
    Sequence, based on SEQRES records: (download) 
    >1by4C (C:)
gsftkhicaicgdrssgkhygvyscegckgffkrtvrkdltytcrdnkdclidkrqrnrc
qycryqkclamgmkreavqeer

    Sequence, based on observed residues (ATOM records): (download) 
    >1by4C (C:)
khicaicgdrssgkhygvyscegckgffkrtvrkdltytcrdnkdclidkrqrnrcqycr
yqkclamgmkreavqeer

  • Chain 'D':
    Sequence, based on SEQRES records: (download) 
    >1by4D (D:)
gsftkhicaicgdrssgkhygvyscegckgffkrtvrkdltytcrdnkdclidkrqrnrc
qycryqkclamgmkreavqeer

    Sequence, based on observed residues (ATOM records): (download) 
    >1by4D (D:)
sftkhicaicgdrssgkhygvyscegckgffkrtvrkdltytcrdnkdclidkrqrnrcq
ycryqkclamgmkreavqee

  • Chain 'E':
    No sequence available.

  • Chain 'F':
    No sequence available.

  • Chain 'G':
    No sequence available.

  • Chain 'H':
    No sequence available.