SMTL ID : 3egk.1

KNOBLE Inhibitor

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.20 Å

Oligo State

hetero-1-1-1-mer

Ligands

1 x M18: {(2S)-1-[N-(tert-butoxycarbonyl)glycyl]pyrrolidin-2-yl}methyl (3-chlorophenyl)acetate(Non-covalent)

M18.1: 17 residues within 4Å: Chain B: H.43, Y.47, W.50, L.96, I.179, D.199, A.200, C.201, S.205, V.225, S.226, W.227, G.228, G.230, G.238, F.239, Y.240 11 PLIP interactions: 11 interactions with chain B Hydrophobic interactions: B:Y.47, B:L.96, B:I.179, B:A.200, B:V.225, B:W.227, B:W.227 Hydrogen bonds: B:Y.47, B:Y.47, B:G.228 Salt bridges: B:H.43

2 x NA: SODIUM ION(Non-functional Binders)

NA.2: 2 residues within 4Å: Chain B: R.233, K.236 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:K.236, B:K.236 NA.3: 2 residues within 4Å: Chain B: K.174, T.177 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:K.174

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Gerlach, C. et al., KNOBLE: a knowledge-based approach for the design and synthesis of readily accessible small-molecule chemical probes to test protein binding. Angew.Chem.Int.Ed.Engl. (2007)

Release Date

2008-09-30

Peptides

Thrombin light chain: A
Thrombin heavy chain: B
Hirudin variant-1: C

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
L

B
H

C
I

Thrombin light chain

Thrombin heavy chain

Hirudin variant-1

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