SMTL ID : 4jqh.3 (3 other biounits)

Crystal structure of a new sGC activator (analogue of BAY 58-2667) bound to nostoc H-NOX domain

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.30 Å

Oligo State

homo-trimer

Ligands

3 x 1MF: 4-{[(4-carboxybutyl)(2-{2-[(4'-phenoxybiphenyl-4-yl)methoxy]phenyl}ethyl)amino]methyl}benzoic acid(Non-covalent)

1MF.1: 25 residues within 4Å: Chain A: M.1, Y.2, L.4, V.5, M.40, W.74, Y.83, L.87, F.97, L.101, H.105, V.108, S.111, F.112, L.115, R.116, P.118, Y.134, S.136, R.138, L.141, M.144, L.148, L.152 Chain C: R.107 26 PLIP interactions: 25 interactions with chain A, 1 interactions with chain C Hydrophobic interactions: A:L.4, A:V.5, A:M.40, A:Y.83, A:L.87, A:F.97, A:L.101, A:V.108, A:F.112, A:L.115, A:L.141, A:L.148, A:L.148, A:L.152, C:R.107 Hydrogen bonds: A:Y.2, A:R.116, A:R.116, A:Y.134, A:S.136 Water bridges: A:T.137, A:R.138 Salt bridges: A:R.138, A:R.138 pi-Stacking: A:Y.2, A:W.74 1MF.3: 25 residues within 4Å: Chain A: R.107 Chain B: M.1, Y.2, L.4, V.5, M.40, W.74, Y.83, L.87, F.97, L.101, H.105, V.108, S.111, F.112, L.115, R.116, P.118, Y.134, S.136, R.138, L.141, M.144, L.148, L.152 26 PLIP interactions: 25 interactions with chain B, 1 interactions with chain A Hydrophobic interactions: B:L.4, B:V.5, B:M.40, B:Y.83, B:L.87, B:F.97, B:L.101, B:V.108, B:F.112, B:L.115, B:L.141, B:L.148, B:L.148, B:L.152, A:R.107 Hydrogen bonds: B:Y.2, B:R.116, B:R.116, B:Y.134, B:S.136 Water bridges: B:T.137, B:R.138 Salt bridges: B:R.138, B:R.138 pi-Stacking: B:Y.2, B:W.74 1MF.5: 25 residues within 4Å: Chain B: R.107 Chain C: M.1, Y.2, L.4, V.5, M.40, W.74, Y.83, L.87, F.97, L.101, H.105, V.108, S.111, F.112, L.115, R.116, P.118, Y.134, S.136, R.138, L.141, M.144, L.148, L.152 25 PLIP interactions: 1 interactions with chain B, 24 interactions with chain C Hydrophobic interactions: B:R.107, C:L.4, C:V.5, C:M.40, C:Y.83, C:L.87, C:F.97, C:L.101, C:V.108, C:F.112, C:L.115, C:L.141, C:L.148, C:L.148, C:L.152 Hydrogen bonds: C:Y.2, C:R.116, C:R.116, C:S.136 Water bridges: C:T.137, C:R.138 Salt bridges: C:R.138, C:R.138 pi-Stacking: C:Y.2, C:W.74

3 x MLA: MALONIC ACID(Non-covalent)

MLA.2: 6 residues within 4Å: Chain A: M.12, H.16, H.17, K.61, L.66, A.69 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:A.69 Salt bridges: A:H.16, A:H.17, A:H.17, A:K.61 MLA.4: 6 residues within 4Å: Chain B: M.12, H.16, H.17, K.61, L.66, A.69 5 PLIP interactions: 5 interactions with chain B Hydrophobic interactions: B:A.69 Salt bridges: B:H.16, B:H.17, B:H.17, B:K.61 MLA.6: 6 residues within 4Å: Chain C: M.12, H.16, H.17, K.61, L.66, A.69 5 PLIP interactions: 5 interactions with chain C Hydrophobic interactions: C:A.69 Salt bridges: C:H.16, C:H.17, C:H.17, C:K.61

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

von Wantoch Rekowski, M. et al., Insights into soluble guanylyl cyclase activation derived from improved heme-mimetics. J.Med.Chem. (2013)

Release Date

2013-11-20

Peptides

Alr2278 protein: ABC

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

B
B

C
B

Alr2278 protein

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