SMTL ID : 2v9p.1 (1 other biounit)

Crystal structure of papillomavirus E1 hexameric helicase DNA-free form

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 3.00 Å

Oligo State

homo-hexamer

Ligands

9 x PO4: PHOSPHATE ION(Non-functional Binders)

PO4.1: 8 residues within 4Å: Chain A: P.135, N.136, T.137, G.138, K.139, S.140 Ligands: PO4.2, MG.3 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:N.136, A:T.137, A:G.138, A:S.140 Salt bridges: A:K.139 PO4.2: 8 residues within 4Å: Chain A: P.135, N.136, K.139, D.179, N.223 Chain B: R.238 Ligands: PO4.1, MG.3 5 PLIP interactions: 2 interactions with chain B, 3 interactions with chain A Hydrogen bonds: B:S.237, A:N.136, A:N.223 Salt bridges: B:R.238, A:K.139 PO4.4: 9 residues within 4Å: Chain B: N.136, T.137, G.138, K.139, S.140, M.141 Chain C: Y.199 Ligands: PO4.5, MG.6 10 PLIP interactions: 8 interactions with chain B, 2 interactions with chain C Hydrogen bonds: B:N.136, B:T.137, B:T.137, B:G.138, B:K.139, B:S.140, B:M.141, C:Y.199, C:Y.199 Salt bridges: B:K.139 PO4.5: 9 residues within 4Å: Chain B: P.135, N.136, K.139, D.179, N.223 Chain C: S.237, R.238 Ligands: PO4.4, MG.6 6 PLIP interactions: 4 interactions with chain B, 2 interactions with chain C Hydrogen bonds: B:N.136, B:S.140, B:N.223, C:S.237 Salt bridges: B:K.139, C:R.238 PO4.7: 8 residues within 4Å: Chain C: N.136, T.137, G.138, K.139, S.140, M.141 Ligands: PO4.8, MG.9 7 PLIP interactions: 7 interactions with chain C Hydrogen bonds: C:N.136, C:T.137, C:T.137, C:K.139, C:S.140, C:M.141 Salt bridges: C:K.139 PO4.8: 9 residues within 4Å: Chain C: P.135, N.136, K.139, D.179, N.223 Chain D: S.237, R.238 Ligands: PO4.7, MG.9 7 PLIP interactions: 4 interactions with chain C, 3 interactions with chain D Hydrogen bonds: C:N.136, C:S.140, C:N.223, D:S.237, D:S.237 Salt bridges: C:K.139, D:R.238 PO4.10: 9 residues within 4Å: Chain D: P.135, N.136, T.137, G.138, K.139, S.140, M.141 Chain E: Y.234, R.238 11 PLIP interactions: 2 interactions with chain E, 9 interactions with chain D Hydrogen bonds: E:Y.234, E:R.238, D:N.136, D:T.137, D:T.137, D:T.137, D:G.138, D:K.139, D:S.140, D:M.141 Salt bridges: D:K.139 PO4.11: 8 residues within 4Å: Chain E: P.135, N.136, T.137, G.138, K.139, S.140, M.141 Chain F: Y.234 11 PLIP interactions: 10 interactions with chain E, 1 interactions with chain F Hydrogen bonds: E:N.136, E:T.137, E:T.137, E:G.138, E:K.139, E:S.140, E:S.140, E:S.140, E:M.141, F:Y.234 Salt bridges: E:K.139 PO4.12: 5 residues within 4Å: Chain F: N.136, T.137, G.138, K.139, S.140 6 PLIP interactions: 6 interactions with chain F Hydrogen bonds: F:N.136, F:T.137, F:G.138, F:K.139, F:S.140 Salt bridges: F:K.139

3 x MG: MAGNESIUM ION(Non-covalent)

MG.3: 5 residues within 4Å: Chain A: S.140, D.179 Chain B: R.238 Ligands: PO4.1, PO4.2 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:S.140, A:D.179 MG.6: 6 residues within 4Å: Chain B: S.140, D.179 Chain C: D.197, R.238 Ligands: PO4.4, PO4.5 2 PLIP interactions: 2 interactions with chain B Metal complexes: B:S.140, B:D.179 MG.9: 5 residues within 4Å: Chain C: S.140, D.179 Chain D: R.238 Ligands: PO4.7, PO4.8 2 PLIP interactions: 2 interactions with chain C Metal complexes: C:S.140, C:D.179

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Sanders, C.M. et al., Papillomavirus E1 Helicase Assembly Maintains an Asymmetric State in the Absence of DNA and Nucleotide Cofactors. Nucleic Acids Res. (2007)

Release Date

2007-10-02

Peptides

REPLICATION PROTEIN E1: ABCDEF

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

E
E

F
F

REPLICATION PROTEIN E1

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