SMTL ID : 2rbt.1

n-methylbenzylamine in complex with Cytochrome C Peroxidase W191G

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.24 Å

Oligo State

monomer

Ligands

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

PO4.1: 3 residues within 4Å: Chain A: Y.34, D.35, H.179 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:Y.34 Water bridges: A:N.85, A:N.85, A:N.85, A:N.182 Salt bridges: A:H.179

1 x HEM: PROTOPORPHYRIN IX CONTAINING FE(Non-covalent)

HEM.2: 22 residues within 4Å: Chain A: P.42, V.43, R.46, W.49, P.143, D.144, A.145, F.156, L.169, M.170, A.172, H.173, L.175, G.176, K.177, T.178, H.179, N.182, S.183, L.230, T.232 Ligands: 271.3 26 PLIP interactions: 25 interactions with chain A, 1 Ligand-Water interactions Hydrophobic interactions: A:R.46, A:W.49, A:W.49, A:W.49, A:P.143, A:A.145, A:F.156, A:L.169, A:A.172, A:T.178, A:L.230 Hydrogen bonds: A:K.177, A:H.179, A:N.182, A:S.183 Water bridges: A:Y.34, A:G.82, A:H.179 Salt bridges: A:R.46, A:H.179, A:H.179 pi-Stacking: A:W.49 pi-Cation interactions: A:R.46, A:H.173 Metal complexes: A:H.173, H2O.6

1 x 271: N-methyl-1-phenylmethanamine(Non-covalent)

271.3: 12 residues within 4Å: Chain A: H.173, L.175, G.176, K.177, T.178, G.189, F.200, M.228, M.229, L.230, D.233 Ligands: HEM.2 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:H.173, A:T.178, A:L.230 Hydrogen bonds: A:M.228 pi-Stacking: A:H.173

2 x MPD: (4S)-2-METHYL-2,4-PENTANEDIOL(Non-functional Binders)

MPD.4: 5 residues within 4Å: Chain A: D.144, D.146, S.183, Y.185, N.218 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:Y.185 Hydrogen bonds: A:D.146, A:Y.185, A:Y.185 Water bridges: A:A.145 MPD.5: 5 residues within 4Å: Chain A: L.28, R.29, E.116, M.117, N.194 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:L.28 Water bridges: A:A.25

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Graves, A.P. et al., Rescoring docking hit lists for model cavity sites: predictions and experimental testing. J.Mol.Biol. (2008)

Release Date

2008-04-01

Peptides

Cytochrome C Peroxidase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
X

Cytochrome C Peroxidase

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