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

Crystal structure of Ketosteroid Isomerase D38HD99N from Pseudomonas testosteroni (tKSI)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.96 Å

Oligo State

homo-tetramer

Ligands

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

SO4.1: 3 residues within 4Å: Chain A: H.6, A.9, R.13 3 PLIP interactions: 3 interactions with chain A Water bridges: A:H.6 Salt bridges: A:H.6, A:R.13 SO4.2: 2 residues within 4Å: Chain A: N.104, G.105 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:G.105 Water bridges: A:R.102, A:A.106 SO4.3: 2 residues within 4Å: Chain A: R.102, S.111 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:S.111 Water bridges: A:H.100, A:R.102 Salt bridges: A:R.102 SO4.6: 5 residues within 4Å: Chain B: H.6, A.9, R.13 Ligands: SO4.11, GOL.12 2 PLIP interactions: 2 interactions with chain B Salt bridges: B:H.6, B:R.13 SO4.7: 2 residues within 4Å: Chain B: N.104, G.105 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:G.105 Water bridges: B:N.104, B:A.106 SO4.8: 3 residues within 4Å: Chain B: I.121, H.122, A.123 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:A.123 Salt bridges: B:H.122 SO4.9: 5 residues within 4Å: Chain A: H.100, R.113 Chain B: H.100, R.102, R.113 4 PLIP interactions: 2 interactions with chain B, 2 interactions with chain A Hydrogen bonds: B:R.102 Salt bridges: B:H.100, A:H.100, A:R.113 SO4.10: 2 residues within 4Å: Chain B: M.1, N.76 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:M.1, B:N.76, B:N.76 SO4.11: 4 residues within 4Å: Chain B: A.9, R.13 Ligands: SO4.6, GOL.12 1 PLIP interactions: 1 interactions with chain B Salt bridges: B:R.13 SO4.13: 2 residues within 4Å: Chain C: H.6, R.13 2 PLIP interactions: 2 interactions with chain C Salt bridges: C:H.6, C:R.13 SO4.16: 4 residues within 4Å: Chain D: R.45, E.53, F.54, N.57 3 PLIP interactions: 3 interactions with chain D Hydrogen bonds: D:E.53, D:N.57 Salt bridges: D:R.45 SO4.17: 5 residues within 4Å: Chain A: R.91, A.123 Chain D: R.91, T.93, A.123 7 PLIP interactions: 6 interactions with chain D, 1 interactions with chain A Hydrogen bonds: D:T.93, D:T.93 Water bridges: D:R.91, D:R.91, D:G.124 Salt bridges: D:R.91, A:R.91 SO4.18: 2 residues within 4Å: Chain D: H.122, A.123 2 PLIP interactions: 2 interactions with chain D Hydrogen bonds: D:A.123 Salt bridges: D:H.122 SO4.19: 5 residues within 4Å: Chain C: E.77, H.100 Chain D: H.100, R.102, R.113 4 PLIP interactions: 1 interactions with chain C, 3 interactions with chain D Salt bridges: C:H.100, D:H.100, D:R.102, D:R.113 SO4.20: 2 residues within 4Å: Chain D: M.1, N.76 2 PLIP interactions: 2 interactions with chain D Hydrogen bonds: D:M.1, D:N.76

3 x EQU: EQUILENIN(Non-covalent)

EQU.4: 15 residues within 4Å: Chain A: Y.88, Q.89, R.91 Chain D: Y.14, L.18, H.38, F.54, F.82, V.84, F.86, V.95, P.97, N.99, M.112, F.116 16 PLIP interactions: 13 interactions with chain D, 3 interactions with chain A Hydrophobic interactions: D:L.18, D:F.54, D:F.82, D:V.84, D:V.84, D:F.86, D:V.95, D:P.97, D:F.116, D:F.116, D:F.116, A:Y.88, A:Q.89, A:Q.89 Hydrogen bonds: D:Y.14, D:N.99 EQU.14: 12 residues within 4Å: Chain C: Y.14, L.18, H.38, Y.55, F.82, V.84, F.86, V.95, P.97, N.99, M.112, F.116 11 PLIP interactions: 11 interactions with chain C Hydrophobic interactions: C:L.18, C:Y.55, C:F.82, C:V.84, C:V.84, C:F.86, C:V.95, C:V.95, C:P.97, C:F.116 Hydrogen bonds: C:N.99 EQU.21: 16 residues within 4Å: Chain A: Y.14, L.18, H.38, F.54, Y.55, F.82, V.84, F.86, V.95, P.97, N.99, M.112, F.116 Chain D: Y.88, Q.89, R.91 16 PLIP interactions: 14 interactions with chain A, 2 interactions with chain D Hydrophobic interactions: A:L.18, A:F.54, A:Y.55, A:F.82, A:V.84, A:V.84, A:F.86, A:V.95, A:V.95, A:P.97, A:F.116, A:F.116, D:Q.89 Hydrogen bonds: A:Y.14, A:N.99, D:R.91

4 x GOL: GLYCEROL(Non-functional Binders)

GOL.5: 7 residues within 4Å: Chain A: N.2, P.4, M.7, A.73, V.74, A.75 Chain B: G.117 3 PLIP interactions: 1 interactions with chain B, 2 interactions with chain A Water bridges: B:G.117, A:A.73 Hydrogen bonds: A:A.75 GOL.12: 3 residues within 4Å: Chain B: A.9 Ligands: SO4.6, SO4.11 1 PLIP interactions: 1 interactions with chain B Water bridges: B:Q.12 GOL.15: 1 residues within 4Å: Chain C: Q.89 2 PLIP interactions: 2 interactions with chain C Hydrogen bonds: C:Q.89, C:Q.89 GOL.22: 5 residues within 4Å: Chain D: D.24, V.27, A.28, T.48, R.52 3 PLIP interactions: 3 interactions with chain D Hydrogen bonds: D:D.24, D:A.28, D:R.52

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Schwans, J. et al., Crystal Structure of Ketosteroid Isomerase D38HD99N from Pseudomonas Testosteroni (tKSI). To be Published

Release Date

2011-11-23

Peptides

Steroid Delta-isomerase: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

B
D

C
A

D
C

Steroid Delta-isomerase

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