SMTL ID : 2czv.1

Crystal structure of archeal RNase P protein ph1481p in complex with ph1877p

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.00 Å

Oligo State

hetero-2-2-mer

Ligands

2 x BOG: octyl beta-D-glucopyranoside(Non-covalent)

BOG.1: 9 residues within 4Å: Chain A: K.154, I.188, G.189 Chain C: L.46, G.50, Y.76, Y.79 Chain D: Y.76 Ligands: BOG.18 6 PLIP interactions: 4 interactions with chain C, 2 interactions with chain A Hydrophobic interactions: C:L.46, C:Y.76, C:Y.79 Water bridges: C:Y.79 Hydrogen bonds: A:K.154, A:K.154 BOG.18: 10 residues within 4Å: Chain B: K.154, G.189 Chain C: T.49, G.50, Y.76 Chain D: L.46, G.50, Y.76, Y.79 Ligands: BOG.1 9 PLIP interactions: 1 interactions with chain C, 2 interactions with chain B, 6 interactions with chain D Hydrophobic interactions: C:T.49, D:L.46, D:Y.76, D:Y.79, D:Y.79 Hydrogen bonds: B:K.154 Water bridges: B:K.154, D:Y.79, D:Y.79

16 x ACY: ACETIC ACID(Non-functional Binders)

ACY.2: 7 residues within 4Å: Chain A: E.82, I.101, S.102, S.130, R.132, P.133, S.168 Ligand excluded by PLIP ACY.3: 3 residues within 4Å: Chain A: R.179, I.192, K.196 Ligand excluded by PLIP ACY.4: 4 residues within 4Å: Chain A: K.172, W.173 Chain C: D.26 Ligands: ACY.14 Ligand excluded by PLIP ACY.5: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP ACY.6: 7 residues within 4Å: Chain B: R.15, E.82, I.101, S.130, R.132, P.133, S.168 Ligand excluded by PLIP ACY.7: 4 residues within 4Å: Chain B: R.15, I.34, K.44, Y.52 Ligand excluded by PLIP ACY.8: 3 residues within 4Å: Chain B: D.16, E.18, E.171 Ligand excluded by PLIP ACY.9: 3 residues within 4Å: Chain B: V.186, I.192 Chain D: E.78 Ligand excluded by PLIP ACY.10: 3 residues within 4Å: Chain C: T.105, I.106, K.107 Ligand excluded by PLIP ACY.11: 3 residues within 4Å: Chain C: D.26 Ligands: ACY.12, ACY.13 Ligand excluded by PLIP ACY.12: 5 residues within 4Å: Chain C: S.25, D.26, K.66 Ligands: ACY.11, ACY.14 Ligand excluded by PLIP ACY.13: 4 residues within 4Å: Chain C: D.26, G.27, D.28 Ligands: ACY.11 Ligand excluded by PLIP ACY.14: 6 residues within 4Å: Chain C: I.23, I.24, S.25, K.66 Ligands: ACY.4, ACY.12 Ligand excluded by PLIP ACY.15: 2 residues within 4Å: Chain C: F.90, N.91 Ligand excluded by PLIP ACY.16: 3 residues within 4Å: Chain A: E.171, W.173 Chain C: R.94 Ligand excluded by PLIP ACY.17: 3 residues within 4Å: Chain B: P.139 Chain C: L.43, E.44 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kawano, S. et al., Crystal structure of protein Ph1481p in complex with protein Ph1877p of archaeal RNase P from Pyrococcus horikoshii OT3: implication of dimer formation of the holoenzyme. J.Mol.Biol. (2006)

Release Date

2006-06-27

Peptides

Ribonuclease P protein component 3: AB
Ribonuclease P protein component 2: CD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

Ribonuclease P protein component 3

Ribonuclease P protein component 2

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