SMTL ID : 4x6m.1

FACTOR XIA IN COMPLEX WITH THE INHIBITOR 1-{(1S)-1-[4-(3-amino-1H-indazol-6-yl)-5-chloro-1H-imidazol-2-yl]-2-phenylethyl}-3-[2-(aminomethyl)-5-chlorobenzyl]urea

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.40 Å

Oligo State

monomer

Ligands

1 x 3Y3: 1-{(1S)-1-[4-(3-amino-1H-indazol-6-yl)-5-chloro-1H-imidazol-2-yl]-2-phenylethyl}-3-[2-(aminomethyl)-5-chlorobenzyl]urea(Non-covalent)

3Y3.1: 26 residues within 4Å: Chain A: R.26, H.27, L.28, C.29, H.44, C.45, Y.134, I.141, D.182, A.183, C.184, K.185, G.186, D.187, S.188, T.206, S.207, W.208, G.209, E.210, G.211, C.212, G.219, V.220, Y.221 Ligands: EDO.10 16 PLIP interactions: 16 interactions with chain A Hydrophobic interactions: A:I.141, A:A.183, A:T.206 Hydrogen bonds: A:R.26, A:H.27, A:Y.134, A:C.184, A:G.186, A:D.187, A:S.188, A:S.188, A:G.209, A:G.211 Water bridges: A:H.27, A:I.141, A:I.141

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

SO4.2: 2 residues within 4Å: Chain A: R.161, R.177 2 PLIP interactions: 2 interactions with chain A Salt bridges: A:R.161, A:R.177

9 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.3: 6 residues within 4Å: Chain A: N.36, T.102, V.103, G.104, Y.105 Ligands: EDO.8 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.36, A:Y.105 EDO.4: 2 residues within 4Å: Chain A: R.9, L.62 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.9 Water bridges: A:N.63 EDO.5: 10 residues within 4Å: Chain A: V.8, R.9, G.10, W.12, P.13, G.60, I.61, L.62, S.108, L.145 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:G.10, A:S.108 Water bridges: A:G.60 EDO.6: 4 residues within 4Å: Chain A: E.89, W.208, G.209, E.210 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:E.210 Water bridges: A:G.209, A:G.209, A:G.211, A:G.211 EDO.7: 2 residues within 4Å: Chain A: T.168, H.169 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:H.169, A:K.170 EDO.8: 3 residues within 4Å: Chain A: G.104, Y.105 Ligands: EDO.3 1 PLIP interactions: 1 interactions with chain A Water bridges: A:Q.109 EDO.9: 9 residues within 4Å: Chain A: V.153, E.157, R.161, G.175, Y.176, R.177, E.216, R.217, P.218 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:E.157, A:E.157, A:R.161, A:Y.176, A:E.216 Water bridges: A:R.217 EDO.10: 3 residues within 4Å: Chain A: Y.134, K.185 Ligands: 3Y3.1 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Y.134, A:K.185 EDO.11: 3 residues within 4Å: Chain A: T.154, N.155, E.156 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.155, A:E.156

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Pinto, D.J. et al., Structure-based design of inhibitors of coagulation factor XIa with novel P1 moieties. Bioorg.Med.Chem.Lett. (2015)

Release Date

2015-02-18

Peptides

Coagulation factor XI, light chain: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Coagulation factor XI, light chain

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