PDB entry 4ydu

View 4ydu on RCSB PDB site
Description: Crystal structure of E. coli YgjD-YeaZ heterodimer in complex with ADP
Class: transferase
Keywords: YgjD-YeaZ complex, t6A transferase, transferase
Deposited on 2015-02-23, released 2015-03-04
The last revision prior to the SCOPe 2.08 freeze date was dated 2015-03-04, with a file datestamp of 2015-02-27.
Experiment type: XRAY
Resolution: 2.33 Å
R-factor: N/A
AEROSPACI score: 0.24 (click here for full SPACI score report)

Chains and heterogens:

  • Chain 'A':
    Compound: tRNA N6-adenosine threonylcarbamoyltransferase
    Species: Escherichia coli [TaxId:562]
    Gene: tsaD, gcp, ygjD, b3064, JW3036
    Database cross-references and differences (RAF-indexed):
  • Chain 'B':
    Compound: tRNA N6-adenosine threonylcarbamoyltransferase
    Species: Escherichia coli [TaxId:562]
    Gene: tsaD, gcp, ygjD, b3064, JW3036
    Database cross-references and differences (RAF-indexed):
    • Uniprot P05852 (0-336)
      • expression tag (337)
  • Chain 'C':
    Compound: tRNA threonylcarbamoyladenosine biosynthesis protein tsab
    Species: Escherichia coli [TaxId:562]
    Gene: tsaB, yeaZ, b1807, JW1796
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: d4yduc1, d4yduc2
  • Chain 'D':
    Compound: tRNA threonylcarbamoyladenosine biosynthesis protein tsab
    Species: Escherichia coli [TaxId:562]
    Gene: tsaB, yeaZ, b1807, JW1796
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: d4ydud1, d4ydud2
  • Heterogens: ADP, MG, FE, ACT, HOH

PDB Chain Sequences:

  • Chain 'A':
    No sequence available.

  • Chain 'B':
    No sequence available.

  • Chain 'C':
    Sequence, based on SEQRES records: (download) 
    >4yduC (C:)
mrilaidtateacsvalwndgtvnahfelcprehtqrilpmvqdilttsgtsltdinala
ygrgpgsftgvrigigiaqglalgaelpmigvstlmtmaqgawrkngatrvlaaidarmg
evywaeyqrdengiwhgeeteavlkpeivhermqqlsgewvtvgtgwqawpdlgkesglv
lrdgevllpaaedmlpiacqmfaegktvavehaepvylrnnvawkklpgkehhhhhh

    Sequence, based on observed residues (ATOM records): (download) 
    >4yduC (C:)
mrilaidtateacsvalwndgtvnahfelcprehtqrilpmvqdilttsgtsltdinala
ygrgpgsftgvrigigiaqglalgaelpmigvstlmtmaqgawrkngatrvlaaidarmg
evywaeyqrdengiwhgeeteavlkpeivhermqqlsgewvtvgtgwqawpdlgkesglv
lrdgevllpaaedmlpiacqmfaegktvavehaepvylrnnvawkklpgk

  • Chain 'D':
    Sequence, based on SEQRES records: (download) 
    >4yduD (D:)
mrilaidtateacsvalwndgtvnahfelcprehtqrilpmvqdilttsgtsltdinala
ygrgpgsftgvrigigiaqglalgaelpmigvstlmtmaqgawrkngatrvlaaidarmg
evywaeyqrdengiwhgeeteavlkpeivhermqqlsgewvtvgtgwqawpdlgkesglv
lrdgevllpaaedmlpiacqmfaegktvavehaepvylrnnvawkklpgkehhhhhh

    Sequence, based on observed residues (ATOM records): (download) 
    >4yduD (D:)
mrilaidtateacsvalwndgtvnahfelcprehtqrilpmvqdilttsgtsltdinala
ygrgpgsftgvrigigiaqglalgaelpmigvstlmtmaqgawrkngatrvlaaidarmg
evywaeyqrdengiwhgeeteavlkpeivhermqqlsgewvtvgtgwqawpdlgkesglv
lrdgevllpaaedmlpiacqmfaegktvavehaepvylrnnvawkklpg