SMTL ID : 5ohh.1

Crystal structure of human carbonic anhydrase isozyme XIII with 2-[(1S)-2,3-Dihydro-1H-inden-1-ylamino]-3,5,6-trifluoro-4-[(2-hydroxyethyl)thio]benzenesulfonamide

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.42 Å

Oligo State

homo-dimer

Ligands

2 x ZN: ZINC ION(Non-covalent)

ZN.1: 6 residues within 4Å: Chain A: H.96, H.98, H.121, T.201 Ligands: AZI.5, ACT.11 5 PLIP interactions: 3 interactions with chain A, 1 Ligand-Water interactions, 1 Ligand-Ligand interactions Metal complexes: A:H.96, A:H.98, A:H.121, H2O.1, ACT.11 ZN.14: 5 residues within 4Å: Chain B: H.96, H.98, H.121, T.201 Ligands: ACT.20 4 PLIP interactions: 3 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:H.96, B:H.98, B:H.121, H2O.15

4 x CIT: CITRIC ACID(Non-functional Binders)

CIT.2: 5 residues within 4Å: Chain A: G.100, S.101, H.105, S.245, H.247 10 PLIP interactions: 10 interactions with chain A Hydrogen bonds: A:S.101, A:S.245, A:S.245 Water bridges: A:A.102, A:A.102, A:H.247 Salt bridges: A:H.105, A:H.105, A:H.247, A:H.247 CIT.12: 5 residues within 4Å: Chain A: S.6, R.10, E.11, H.12, N.13 8 PLIP interactions: 8 interactions with chain A Hydrogen bonds: A:S.6, A:E.11, A:H.12, A:N.13, A:N.13 Salt bridges: A:R.10, A:R.10, A:H.12 CIT.19: 5 residues within 4Å: Chain B: G.100, S.101, H.105, S.245, H.247 10 PLIP interactions: 10 interactions with chain B Hydrogen bonds: B:S.101, B:S.245, B:H.247 Water bridges: B:A.102, B:A.102, B:A.102, B:A.102 Salt bridges: B:H.105, B:H.105, B:H.247 CIT.21: 4 residues within 4Å: Chain B: R.10, E.11, H.12, N.13 7 PLIP interactions: 7 interactions with chain B Hydrophobic interactions: B:R.10 Hydrogen bonds: B:H.12, B:N.13 Water bridges: B:R.10 Salt bridges: B:R.10, B:H.12, B:H.12

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

EDO.3: 1 residues within 4Å: Chain A: K.38 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:K.38 EDO.4: 5 residues within 4Å: Chain A: P.189, S.190 Chain B: S.50, R.82, G.83 3 PLIP interactions: 2 interactions with chain B, 1 interactions with chain A Water bridges: B:P.48, B:G.83, A:Q.216 EDO.7: 3 residues within 4Å: Chain A: D.103, I.152, S.222 1 PLIP interactions: 1 interactions with chain A Water bridges: A:I.152 EDO.8: 3 residues within 4Å: Chain A: S.222, Q.223, A.226 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:S.222 Water bridges: A:Q.223 EDO.16: 6 residues within 4Å: Chain B: I.16, K.19, A.25, D.26, R.248, Q.251 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:K.19, B:A.25, B:R.248 EDO.17: 6 residues within 4Å: Chain B: D.43, S.45, L.46, G.84, P.85, R.259 6 PLIP interactions: 6 interactions with chain B Hydrogen bonds: B:D.43, B:R.259 Water bridges: B:S.45, B:G.84, B:L.86, B:R.259 EDO.18: 3 residues within 4Å: Chain B: D.103, D.104, I.152 No protein-ligand interaction detected (PLIP)

1 x AZI: AZIDE ION(Non-covalent)

AZI.5: 7 residues within 4Å: Chain A: H.66, S.67, H.96, H.98, V.202 Ligands: ZN.1, 5DU.13 6 PLIP interactions: 6 interactions with chain A Water bridges: A:Y.9, A:S.64, A:S.64, A:S.64, A:H.66, A:N.69

1 x BCN: BICINE(Non-covalent)

BCN.6: 7 residues within 4Å: Chain A: Y.42, D.43, S.44, H.263 Chain B: Y.42, S.44, H.263 5 PLIP interactions: 4 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:D.43, A:D.43, A:S.44, A:H.263, B:Y.42

2 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)

PEG.9: 5 residues within 4Å: Chain A: K.36, E.39, P.252, L.253 Ligands: LCP.10 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:L.253 Water bridges: A:K.36, A:E.39, A:K.254 PEG.15: 5 residues within 4Å: Chain B: D.28, Q.29, L.253, K.254, R.256 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:Q.29, B:L.253

1 x LCP: PERCHLORATE ION(Non-covalent)

LCP.10: 3 residues within 4Å: Chain A: K.36, L.253 Ligands: PEG.9 2 PLIP interactions: 2 interactions with chain A Water bridges: A:L.253, A:L.253

2 x ACT: ACETATE ION(Non-functional Binders)

ACT.11: 8 residues within 4Å: Chain A: H.96, H.121, V.145, L.200, T.201, W.211 Ligands: ZN.1, 5DU.13 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:V.145, A:L.200, A:W.211 Hydrogen bonds: A:T.201, A:V.202 Salt bridges: A:H.96, A:H.121 ACT.20: 6 residues within 4Å: Chain B: H.96, H.121, V.145, L.200, T.201 Ligands: ZN.14 5 PLIP interactions: 5 interactions with chain B Hydrophobic interactions: B:V.145, B:L.200 Hydrogen bonds: B:T.201 Salt bridges: B:H.96, B:H.121

1 x 5DU: 2-[(1S)-2,3-dihydro-1H-inden-1-ylamino]-3,5,6-trifluoro-4-[(2-hydroxyethyl)sulfanyl]benzenesulfonamide(Non-covalent)

5DU.13: 10 residues within 4Å: Chain A: R.93, Q.94, H.96, V.123, F.133, L.200, V.202, P.204 Ligands: AZI.5, ACT.11 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:P.204 Hydrogen bonds: A:R.93, A:R.93, A:Q.94, A:H.96

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Smirnov, A. et al., Crystal structure of human carbonic anhydrase isozyme XIII with 2-[(1S)-2,3-Dihydro-1H-inden-1-ylamino]-3,5,6-trifluoro-4-[(2-hydroxyethyl)thio]benzenesulfonamide. To be published

Release Date

2018-08-08

Peptides

Carbonic anhydrase 13: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

B
A

Carbonic anhydrase 13

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