SMTL ID : 1n3s.3 (2 other biounits)

Biosynthesis of pteridins. Reaction mechanism of GTP cyclohydrolase I

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.55 Å

Oligo State

homo-10-mer

Ligands

10 x GTP: GUANOSINE-5'-TRIPHOSPHATE(Non-covalent)

GTP.1: 17 residues within 4Å: Chain A: T.87, V.131, I.132, G.133, L.134, S.135, K.136, R.139 Chain E: H.112, V.150, Q.151, E.152, H.179, C.181, V.182, R.185 Chain H: R.65 17 PLIP interactions: 5 interactions with chain E, 11 interactions with chain A, 1 interactions with chain H Hydrogen bonds: E:Q.151, A:T.87, A:I.132, A:L.134, A:S.135, A:S.135, A:S.135, A:K.136 Salt bridges: E:H.112, E:E.152, E:R.185, E:R.185, A:K.136, A:K.136, A:K.136, A:R.139, H:R.65 GTP.2: 16 residues within 4Å: Chain A: H.112, V.150, Q.151, E.152, H.179, C.181, R.185 Chain B: T.87, V.131, I.132, G.133, L.134, S.135, K.136, R.139 Chain G: R.65 21 PLIP interactions: 14 interactions with chain B, 1 interactions with chain G, 6 interactions with chain A Hydrogen bonds: B:T.87, B:I.132, B:I.132, B:L.134, B:S.135, B:S.135, B:S.135, B:K.136, B:K.136, B:K.136, A:Q.151 Salt bridges: B:K.136, B:K.136, B:K.136, B:R.139, G:R.65, A:H.112, A:E.152, A:R.185, A:R.185 Water bridges: A:R.185 GTP.3: 15 residues within 4Å: Chain B: H.112, V.150, Q.151, E.152, H.179, R.185 Chain C: T.87, V.131, I.132, G.133, L.134, S.135, K.136, R.139 Chain F: R.65 22 PLIP interactions: 13 interactions with chain C, 1 interactions with chain F, 8 interactions with chain B Hydrogen bonds: C:T.87, C:I.132, C:I.132, C:L.134, C:S.135, C:S.135, C:S.135, C:K.136, B:Q.151 Water bridges: C:S.135, B:S.113, B:R.185, B:I.187 Salt bridges: C:K.136, C:K.136, C:K.136, C:R.139, F:R.65, B:E.152, B:R.185, B:R.185 pi-Cation interactions: B:H.112 GTP.4: 16 residues within 4Å: Chain C: H.112, V.150, Q.151, E.152, H.179, C.181, R.185 Chain D: T.87, V.131, I.132, G.133, L.134, S.135, K.136, R.139 Chain J: R.65 25 PLIP interactions: 16 interactions with chain D, 8 interactions with chain C, 1 interactions with chain J Hydrogen bonds: D:T.87, D:I.132, D:I.132, D:L.134, D:S.135, D:S.135, D:S.135, D:K.136, C:Q.151 Water bridges: D:I.132, D:K.136, D:K.136, D:R.139, C:S.113, C:C.181, C:R.185 Salt bridges: D:K.136, D:K.136, D:K.136, D:R.139, C:E.152, C:R.185, C:R.185, J:R.65 pi-Cation interactions: C:H.112 GTP.5: 16 residues within 4Å: Chain D: H.112, V.150, Q.151, E.152, H.179, C.181, R.185 Chain E: T.87, V.131, I.132, G.133, L.134, S.135, K.136, R.139 Chain I: R.65 20 PLIP interactions: 6 interactions with chain D, 13 interactions with chain E, 1 interactions with chain I Hydrogen bonds: D:Q.151, D:H.179, E:I.132, E:I.132, E:L.134, E:S.135, E:S.135, E:S.135, E:K.136, E:K.136 Salt bridges: D:H.112, D:E.152, D:R.185, D:R.185, E:K.136, E:K.136, E:K.136, E:R.139, I:R.65 Water bridges: E:I.132 GTP.6: 17 residues within 4Å: Chain C: R.65 Chain F: T.87, V.131, I.132, G.133, L.134, S.135, K.136, R.139 Chain J: C.110, H.112, V.150, Q.151, E.152, H.179, V.182, R.185 24 PLIP interactions: 12 interactions with chain J, 11 interactions with chain F, 1 interactions with chain C Hydrogen bonds: J:H.112, J:Q.151, J:H.179, F:I.132, F:I.132, F:L.134, F:S.135, F:S.135, F:S.135, F:K.136 Water bridges: J:S.113, J:S.113, J:R.185, J:R.185, J:I.187 Salt bridges: J:E.152, J:R.185, J:R.185, F:K.136, F:K.136, F:K.136, F:R.139, C:R.65 pi-Cation interactions: J:H.112 GTP.7: 16 residues within 4Å: Chain B: R.65 Chain F: C.110, H.112, V.150, Q.151, E.152, H.179, R.185 Chain G: T.87, V.131, I.132, G.133, L.134, S.135, K.136, R.139 21 PLIP interactions: 9 interactions with chain F, 11 interactions with chain G, 1 interactions with chain B Hydrogen bonds: F:Q.151, G:I.132, G:I.132, G:L.134, G:S.135, G:S.135, G:S.135, G:K.136 Water bridges: F:R.185, F:R.185, F:R.185, F:R.185 Salt bridges: F:H.112, F:E.152, F:R.185, F:R.185, G:K.136, G:K.136, G:K.136, G:R.139, B:R.65 GTP.8: 17 residues within 4Å: Chain A: R.65 Chain G: H.112, Q.149, V.150, Q.151, E.152, H.179, C.181, R.185 Chain H: T.87, V.131, I.132, G.133, L.134, S.135, K.136, R.139 21 PLIP interactions: 8 interactions with chain G, 1 interactions with chain A, 12 interactions with chain H Hydrogen bonds: G:Q.151, H:I.132, H:I.132, H:L.134, H:S.135, H:S.135, H:S.135, H:K.136, H:K.136 Water bridges: G:C.181, G:R.185, G:R.185 Salt bridges: G:E.152, G:R.185, G:R.185, A:R.65, H:K.136, H:K.136, H:K.136, H:R.139 pi-Stacking: G:H.112 GTP.9: 18 residues within 4Å: Chain E: R.65, K.68 Chain H: H.112, V.150, Q.151, E.152, H.179, C.181, V.182, R.185 Chain I: T.87, V.131, I.132, G.133, L.134, S.135, K.136, R.139 18 PLIP interactions: 11 interactions with chain I, 6 interactions with chain H, 1 interactions with chain E Hydrogen bonds: I:I.132, I:I.132, I:L.134, I:S.135, I:S.135, I:S.135, I:K.136, H:Q.151, H:H.179 Salt bridges: I:K.136, I:K.136, I:K.136, I:R.139, H:E.152, H:R.185, H:R.185, E:R.65 pi-Stacking: H:H.112 GTP.10: 15 residues within 4Å: Chain D: R.65 Chain I: H.112, V.150, Q.151, E.152, H.179, R.185 Chain J: T.87, V.131, I.132, G.133, L.134, S.135, K.136, R.139 25 PLIP interactions: 14 interactions with chain J, 1 interactions with chain D, 10 interactions with chain I Hydrogen bonds: J:I.132, J:I.132, J:L.134, J:S.135, J:S.135, J:S.135, J:K.136, J:K.136, J:K.136, I:Q.151, I:H.179 Water bridges: J:R.139, I:S.113, I:R.185, I:R.185, I:R.185 Salt bridges: J:K.136, J:K.136, J:K.136, J:R.139, D:R.65, I:E.152, I:R.185, I:R.185 pi-Cation interactions: I:H.112

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Rebelo, J. et al., Biosynthesis of Pteridines. Reaction Mechanism of GTP Cyclohydrolase I. J.MOL.BIOL. (2003)

Release Date

2004-03-02

Peptides

GTP cyclohydrolase I: ABCDEFGHIJ

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

E
E

F
F

G
G

H
H

I
I

J
J

GTP cyclohydrolase I

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