SMTL ID : 1n3r.5 (4 other biounits)

Biosynthesis of pteridins. Reaction mechanism of GTP cyclohydrolase I

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.80 Å

Oligo State

homo-10-mer

Ligands

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

GTP.1: 20 residues within 4Å: Chain A: T.87, I.132, G.133, L.134, S.135, K.136, R.139 Chain E: C.110, S.112, H.113, Q.149, V.150, Q.151, E.152, H.179, C.181, R.185, G.186 Chain J: R.65, K.68 21 PLIP interactions: 13 interactions with chain A, 6 interactions with chain E, 2 interactions with chain J Hydrogen bonds: A:T.87, A:I.132, A:L.134, A:S.135, A:S.135, A:S.135, A:K.136, A:K.136, A:K.136, E:S.112, E:Q.151 Salt bridges: A:K.136, A:K.136, A:K.136, A:R.139, E:H.113, E:E.152, E:R.185, E:R.185, J:R.65, J:K.68 GTP.2: 20 residues within 4Å: Chain A: C.110, S.112, H.113, V.150, Q.151, E.152, H.179, C.181, V.182, R.185, G.186 Chain B: T.87, V.131, I.132, G.133, L.134, S.135, K.136, R.139 Chain I: R.65 20 PLIP interactions: 11 interactions with chain B, 7 interactions with chain A, 2 interactions with chain I Hydrogen bonds: B:T.87, B:I.132, B:L.134, B:S.135, B:S.135, B:S.135, B:K.136, A:S.112, A:Q.151, A:H.179 Salt bridges: B:K.136, B:K.136, B:K.136, B:R.139, A:H.113, A:E.152, A:R.185, A:R.185, I:R.65, I:K.68 GTP.3: 21 residues within 4Å: Chain B: C.110, S.112, H.113, Q.149, V.150, Q.151, E.152, H.179, C.181, V.182, R.185 Chain C: T.87, V.131, I.132, G.133, L.134, S.135, K.136, R.139 Chain H: R.65, K.68 22 PLIP interactions: 11 interactions with chain C, 9 interactions with chain B, 2 interactions with chain H Hydrogen bonds: C:T.87, C:I.132, C:L.134, C:S.135, C:S.135, C:S.135, C:K.136, B:S.112, B:Q.151, B:H.179 Salt bridges: C:K.136, C:K.136, C:K.136, C:R.139, B:H.113, B:H.113, B:E.152, B:R.185, B:R.185, H:R.65, H:K.68 Water bridges: B:E.152 GTP.4: 21 residues within 4Å: Chain C: C.110, S.112, H.113, Q.149, V.150, Q.151, E.152, H.179, C.181, V.182, R.185, G.186 Chain D: T.87, V.131, I.132, G.133, L.134, S.135, K.136, R.139 Chain G: R.65 19 PLIP interactions: 6 interactions with chain C, 12 interactions with chain D, 1 interactions with chain G Hydrogen bonds: C:S.112, C:Q.151, D:T.87, D:I.132, D:L.134, D:S.135, D:S.135, D:S.135, D:K.136 Salt bridges: C:H.113, C:E.152, C:R.185, C:R.185, D:K.136, D:K.136, D:K.136, D:R.139, G:R.65 Water bridges: D:S.135 GTP.5: 20 residues within 4Å: Chain D: C.110, S.112, H.113, Q.149, V.150, Q.151, E.152, H.179, C.181, V.182, R.185 Chain E: T.87, V.131, I.132, G.133, L.134, S.135, K.136, R.139 Chain F: R.65 21 PLIP interactions: 14 interactions with chain E, 6 interactions with chain D, 1 interactions with chain F Hydrogen bonds: E:T.87, E:I.132, E:L.134, E:S.135, E:S.135, E:S.135, E:K.136, E:K.136, E:K.136, D:S.112, D:Q.151 Water bridges: E:I.132 Salt bridges: E:K.136, E:K.136, E:K.136, E:R.139, D:H.113, D:E.152, D:R.185, D:R.185, F:R.65 GTP.6: 20 residues within 4Å: Chain E: R.65, K.68 Chain F: T.87, I.132, G.133, L.134, S.135, K.136, R.139 Chain J: C.110, S.112, H.113, Q.149, V.150, Q.151, E.152, H.179, C.181, R.185, G.186 20 PLIP interactions: 2 interactions with chain E, 12 interactions with chain F, 6 interactions with chain J Salt bridges: E:R.65, E:K.68, F:K.136, F:K.136, F:K.136, F:R.139, J:H.113, J:E.152, J:R.185, J:R.185 Hydrogen bonds: F:I.132, F:L.134, F:S.135, F:S.135, F:S.135, F:K.136, F:K.136, F:K.136, J:S.112, J:Q.151 GTP.7: 20 residues within 4Å: Chain D: R.65 Chain F: C.110, S.112, H.113, V.150, Q.151, E.152, H.179, C.181, V.182, R.185, G.186 Chain G: T.87, V.131, I.132, G.133, L.134, S.135, K.136, R.139 18 PLIP interactions: 6 interactions with chain F, 10 interactions with chain G, 2 interactions with chain D Hydrogen bonds: F:S.112, F:Q.151, G:I.132, G:L.134, G:S.135, G:S.135, G:S.135, G:K.136 Salt bridges: F:H.113, F:E.152, F:R.185, F:R.185, G:K.136, G:K.136, G:K.136, G:R.139, D:R.65, D:K.68 GTP.8: 21 residues within 4Å: Chain C: R.65, K.68 Chain G: C.110, S.112, H.113, Q.149, V.150, Q.151, E.152, H.179, C.181, V.182, R.185 Chain H: T.87, V.131, I.132, G.133, L.134, S.135, K.136, R.139 19 PLIP interactions: 7 interactions with chain G, 2 interactions with chain C, 10 interactions with chain H Hydrogen bonds: G:S.112, G:Q.151, H:I.132, H:L.134, H:S.135, H:S.135, H:S.135, H:K.136 Salt bridges: G:H.113, G:H.113, G:E.152, G:R.185, G:R.185, C:R.65, C:K.68, H:K.136, H:K.136, H:K.136, H:R.139 GTP.9: 21 residues within 4Å: Chain B: R.65 Chain H: C.110, S.112, H.113, Q.149, V.150, Q.151, E.152, H.179, C.181, V.182, R.185, G.186 Chain I: T.87, V.131, I.132, G.133, L.134, S.135, K.136, R.139 19 PLIP interactions: 11 interactions with chain I, 1 interactions with chain B, 7 interactions with chain H Hydrogen bonds: I:I.132, I:L.134, I:S.135, I:S.135, I:S.135, I:K.136, H:S.112, H:Q.151, H:H.179 Water bridges: I:S.135 Salt bridges: I:K.136, I:K.136, I:K.136, I:R.139, B:R.65, H:H.113, H:E.152, H:R.185, H:R.185 GTP.10: 20 residues within 4Å: Chain A: R.65 Chain I: C.110, S.112, H.113, Q.149, V.150, Q.151, E.152, H.179, C.181, V.182, R.185 Chain J: T.87, V.131, I.132, G.133, L.134, S.135, K.136, R.139 21 PLIP interactions: 13 interactions with chain J, 1 interactions with chain A, 7 interactions with chain I Hydrogen bonds: 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:S.112, I:Q.151, I:H.179 Water bridges: J:I.132 Salt bridges: J:K.136, J:K.136, J:K.136, J:R.139, A:R.65, I:H.113, I:E.152, I:R.185, I:R.185

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

2003-10-14

Peptides

GTP cyclohydrolase I: ABCDEFGHIJ

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
K

B
L

C
M

D
N

E
O

F
K

G
L

H
M

I
N

J
O

GTP cyclohydrolase I

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