SMTL ID : 2zj5.2 (1 other biounit)

Archaeal DNA helicase Hjm complexed with ADP in form 1

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.40 Å

Oligo State

homo-dimer

Ligands

10 x SO4: SULFATE ION(Non-functional Binders)

SO4.1: 7 residues within 4Å: Chain A: K.249, R.344, T.385 Chain B: K.249, R.344, T.385 Ligands: SO4.7 5 PLIP interactions: 3 interactions with chain A, 2 interactions with chain B Hydrogen bonds: A:T.385 Salt bridges: A:K.249, A:R.344, B:K.249, B:R.344 SO4.2: 4 residues within 4Å: Chain A: M.246, R.247, R.248 Chain B: M.354 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:R.247, A:R.248 Water bridges: A:R.252 Salt bridges: A:R.248 SO4.3: 3 residues within 4Å: Chain A: R.634, K.638, Y.639 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:Y.639 Salt bridges: A:R.634, A:K.638 SO4.4: 3 residues within 4Å: Chain A: K.108, H.131, K.488 3 PLIP interactions: 3 interactions with chain A Salt bridges: A:K.108, A:H.131, A:K.488 SO4.5: 5 residues within 4Å: Chain A: R.247, H.301, A.302, T.327, T.329 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:A.302, A:T.329, A:T.329 Salt bridges: A:R.247 SO4.7: 7 residues within 4Å: Chain A: K.249, R.344, T.385 Chain B: K.249, R.344, T.385 Ligands: SO4.1 5 PLIP interactions: 3 interactions with chain A, 2 interactions with chain B Hydrogen bonds: A:T.385 Salt bridges: A:K.249, A:R.344, B:K.249, B:R.344 SO4.8: 4 residues within 4Å: Chain A: M.354 Chain B: M.246, R.247, R.248 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:R.247, B:R.248 Water bridges: B:R.252 Salt bridges: B:R.248 SO4.9: 3 residues within 4Å: Chain B: R.634, K.638, Y.639 2 PLIP interactions: 2 interactions with chain B Salt bridges: B:R.634, B:K.638 SO4.10: 3 residues within 4Å: Chain B: K.108, H.131, K.488 3 PLIP interactions: 3 interactions with chain B Salt bridges: B:K.108, B:H.131, B:K.488 SO4.11: 5 residues within 4Å: Chain B: R.247, H.301, A.302, T.327, T.329 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:A.302, B:T.327, B:T.329, B:T.329 Salt bridges: B:R.247

2 x ADP: ADENOSINE-5'-DIPHOSPHATE(Non-covalent)

ADP.6: 10 residues within 4Å: Chain A: I.21, S.23, F.24, Y.25, Q.28, T.48, G.51, K.52, T.53, L.54 9 PLIP interactions: 9 interactions with chain A Hydrogen bonds: A:S.23, A:Y.25, A:Q.28, A:K.52, A:T.53, A:L.54 Water bridges: A:Y.25, A:T.53, A:K.84 ADP.12: 10 residues within 4Å: Chain B: I.21, S.23, F.24, Y.25, Q.28, T.48, G.51, K.52, T.53, L.54 9 PLIP interactions: 9 interactions with chain B Hydrogen bonds: B:S.23, B:Y.25, B:Q.28, B:K.52, B:T.53, B:T.53, B:L.54 Water bridges: B:K.84, B:K.84

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Oyama, T. et al., Atomic structures and functional implications of the archaeal RecQ-like helicase Hjm. Bmc Struct.Biol. (2009)

Release Date

2009-02-10

Peptides

Putative ski2-type helicase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

Putative ski2-type helicase

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