SMTL ID : 6z80.1

stimulatory human GTP cyclohydrolase I - GFRP complex

Coordinates

PDB Format

Method

ELECTRON MICROSCOPY

Oligo State

hetero-10-10-mer

Ligands

10 x ZN: ZINC ION(Non-covalent)

ZN.1: 4 residues within 4Å: Chain A: C.115, H.118, C.186 Ligands: 8GT.3 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:C.115, A:H.118, A:C.186 ZN.4: 4 residues within 4Å: Chain C: C.115, H.118, C.186 Ligands: 8GT.5 3 PLIP interactions: 3 interactions with chain C Metal complexes: C:C.115, C:H.118, C:C.186 ZN.6: 4 residues within 4Å: Chain D: C.115, H.118, C.186 Ligands: 8GT.20 3 PLIP interactions: 3 interactions with chain D Metal complexes: D:C.115, D:H.118, D:C.186 ZN.8: 4 residues within 4Å: Chain E: C.115, H.118, C.186 Ligands: 8GT.7 3 PLIP interactions: 3 interactions with chain E Metal complexes: E:C.115, E:H.118, E:C.186 ZN.9: 4 residues within 4Å: Chain F: C.115, H.118, C.186 Ligands: 8GT.10 3 PLIP interactions: 3 interactions with chain F Metal complexes: F:C.115, F:H.118, F:C.186 ZN.11: 4 residues within 4Å: Chain G: C.115, H.118, C.186 Ligands: 8GT.12 3 PLIP interactions: 3 interactions with chain G Metal complexes: G:C.115, G:H.118, G:C.186 ZN.13: 4 residues within 4Å: Chain H: C.115, H.118, C.186 Ligands: 8GT.14 3 PLIP interactions: 3 interactions with chain H Metal complexes: H:C.115, H:H.118, H:C.186 ZN.15: 4 residues within 4Å: Chain I: C.115, H.118, C.186 Ligands: 8GT.17 3 PLIP interactions: 3 interactions with chain I Metal complexes: I:C.115, I:H.118, I:C.186 ZN.18: 4 residues within 4Å: Chain J: C.115, H.118, C.186 Ligands: 8GT.16 3 PLIP interactions: 3 interactions with chain J Metal complexes: J:C.115, J:H.118, J:C.186 ZN.21: 4 residues within 4Å: Chain K: C.115, H.118, C.186 Ligands: 8GT.19 3 PLIP interactions: 3 interactions with chain K Metal complexes: K:C.115, K:H.118, K:C.186

10 x PHE: PHENYLALANINE(Non-covalent)

PHE.2: 8 residues within 4Å: Chain B: Q.12, I.13, M.15, Q.78 Chain D: E.210 Chain N: V.76, G.77, Q.78 4 PLIP interactions: 1 interactions with chain D, 3 interactions with chain N, Hydrogen bonds: D:E.210, N:Q.78 Hydrophobic interactions: N:V.76, N:V.76 PHE.22: 9 residues within 4Å: Chain B: V.76, G.77, Q.78, T.79 Chain C: E.210 Chain L: Q.12, I.13, M.15, Q.78 3 PLIP interactions: 1 interactions with chain C, 2 interactions with chain B Hydrogen bonds: C:E.210, B:Q.78 Hydrophobic interactions: B:V.76 PHE.23: 9 residues within 4Å: Chain E: E.210 Chain M: Q.12, I.13, M.15, Q.78 Chain O: V.76, G.77, Q.78, T.79 3 PLIP interactions: 2 interactions with chain O, 1 interactions with chain E Hydrophobic interactions: O:V.76 Hydrogen bonds: O:Q.78, E:E.210 PHE.24: 9 residues within 4Å: Chain K: E.210 Chain M: V.76, G.77, Q.78, T.79 Chain N: Q.12, I.13, M.15, Q.78 2 PLIP interactions: 1 interactions with chain M, 1 interactions with chain K Hydrophobic interactions: M:V.76 Hydrogen bonds: K:E.210 PHE.25: 9 residues within 4Å: Chain A: E.210 Chain L: V.76, G.77, Q.78, T.79 Chain O: Q.12, I.13, M.15, Q.78 3 PLIP interactions: 1 interactions with chain A, 2 interactions with chain L Hydrogen bonds: A:E.210, L:Q.78 Hydrophobic interactions: L:V.76 PHE.26: 8 residues within 4Å: Chain F: E.210 Chain P: Q.12, I.13, M.15, Q.78 Chain Q: V.76, G.77, T.79 3 PLIP interactions: 2 interactions with chain Q, 1 interactions with chain F Hydrophobic interactions: Q:V.76 Hydrogen bonds: Q:T.79, F:E.210 PHE.27: 9 residues within 4Å: Chain G: E.210 Chain Q: Q.12, I.13, M.15, Q.78 Chain R: V.76, G.77, Q.78, T.79 3 PLIP interactions: 1 interactions with chain G, 2 interactions with chain R Hydrogen bonds: G:E.210, R:T.79 Hydrophobic interactions: R:V.76 PHE.28: 9 residues within 4Å: Chain H: E.210 Chain R: Q.12, I.13, M.15, Q.78 Chain S: V.76, G.77, Q.78, T.79 3 PLIP interactions: 2 interactions with chain S, 1 interactions with chain H Hydrophobic interactions: S:V.76 Hydrogen bonds: S:T.79, H:E.210 PHE.29: 9 residues within 4Å: Chain I: E.210 Chain S: Q.12, I.13, M.15, Q.78 Chain T: V.76, G.77, Q.78, T.79 3 PLIP interactions: 2 interactions with chain T, 1 interactions with chain I, Hydrophobic interactions: T:V.76 Hydrogen bonds: T:T.79, I:E.210 PHE.30: 9 residues within 4Å: Chain J: E.210 Chain P: V.76, G.77, Q.78, T.79 Chain T: Q.12, I.13, M.15, Q.78 3 PLIP interactions: 2 interactions with chain P, 1 interactions with chain J, Hydrophobic interactions: P:V.76 Hydrogen bonds: P:T.79, J:E.210

10 x 8GT: 8-OXO-GUANOSINE-5'-TRIPHOSPHATE(Non-covalent)

8GT.3: 20 residues within 4Å: Chain A: C.115, H.117, H.118, V.155, Q.156, E.157, H.184, C.186, R.190 Chain C: N.92, A.94, V.136, L.137, G.138, L.139, S.140, K.141, R.144 Chain J: R.71 Ligands: ZN.1 23 PLIP interactions: 14 interactions with chain C, 8 interactions with chain A, 1 interactions with chain J Hydrogen bonds: C:N.92, C:N.92, C:L.137, C:L.139, C:S.140, C:S.140, C:S.140, C:K.141, C:K.141, C:K.141, A:H.117, A:Q.156 Salt bridges: C:K.141, C:K.141, C:K.141, C:R.144, A:H.118, A:H.118, A:E.157, A:R.190, A:R.190, J:R.71 pi-Cation interactions: A:H.117 8GT.5: 20 residues within 4Å: Chain C: C.115, H.117, H.118, V.155, Q.156, E.157, H.184, C.186, R.190 Chain D: N.92, A.94, V.136, L.137, G.138, L.139, S.140, K.141, R.144 Chain I: R.71 Ligands: ZN.4 23 PLIP interactions: 14 interactions with chain D, 8 interactions with chain C, 1 interactions with chain I Hydrogen bonds: D:N.92, D:N.92, D:L.137, D:L.139, D:S.140, D:S.140, D:S.140, D:K.141, D:K.141, D:K.141, C:H.117, C:Q.156 Salt bridges: D:K.141, D:K.141, D:K.141, D:R.144, C:H.118, C:H.118, C:E.157, C:R.190, C:R.190, I:R.71 pi-Cation interactions: C:H.117 8GT.7: 20 residues within 4Å: Chain A: N.92, A.94, V.136, L.137, G.138, L.139, S.140, K.141, R.144 Chain E: C.115, H.117, H.118, V.155, Q.156, E.157, H.184, C.186, R.190 Chain F: R.71 Ligands: ZN.8 23 PLIP interactions: 14 interactions with chain A, 8 interactions with chain E, 1 interactions with chain F Hydrogen bonds: A:N.92, A:N.92, A:L.137, A:L.139, A:S.140, A:S.140, A:S.140, A:K.141, A:K.141, A:K.141, E:H.117, E:Q.156 Salt bridges: A:K.141, A:K.141, A:K.141, A:R.144, E:H.118, E:H.118, E:E.157, E:R.190, E:R.190, F:R.71 pi-Cation interactions: E:H.117 8GT.10: 20 residues within 4Å: Chain E: R.71 Chain F: C.115, H.117, H.118, V.155, Q.156, E.157, H.184, C.186, R.190 Chain G: N.92, A.94, V.136, L.137, G.138, L.139, S.140, K.141, R.144 Ligands: ZN.9 22 PLIP interactions: 7 interactions with chain F, 14 interactions with chain G, 1 interactions with chain E Hydrogen bonds: F:H.118, F:Q.156, G:N.92, G:N.92, G:L.137, G:L.139, G:S.140, G:S.140, G:S.140, G:K.141, G:K.141, G:K.141 Salt bridges: F:H.118, F:H.118, F:E.157, F:R.190, G:K.141, G:K.141, G:K.141, G:R.144, E:R.71 pi-Cation interactions: F:H.117 8GT.12: 20 residues within 4Å: Chain G: C.115, H.117, H.118, V.155, Q.156, E.157, H.184, C.186, R.190 Chain H: N.92, A.94, V.136, L.137, G.138, L.139, S.140, K.141, R.144 Chain K: R.71 Ligands: ZN.11 23 PLIP interactions: 8 interactions with chain G, 14 interactions with chain H, 1 interactions with chain K Hydrogen bonds: G:H.118, G:Q.156, H:N.92, H:N.92, H:L.137, H:L.139, H:S.140, H:S.140, H:S.140, H:K.141, H:K.141, H:K.141 Salt bridges: G:H.118, G:H.118, G:E.157, G:R.190, G:R.190, H:K.141, H:K.141, H:K.141, H:R.144, K:R.71 pi-Cation interactions: G:H.117 8GT.14: 20 residues within 4Å: Chain D: R.71 Chain H: C.115, H.117, H.118, V.155, Q.156, E.157, H.184, C.186, R.190 Chain I: N.92, A.94, V.136, L.137, G.138, L.139, S.140, K.141, R.144 Ligands: ZN.13 23 PLIP interactions: 14 interactions with chain I, 8 interactions with chain H, 1 interactions with chain D Hydrogen bonds: I:N.92, I:N.92, I:L.137, I:L.139, I:S.140, I:S.140, I:S.140, I:K.141, I:K.141, I:K.141, H:H.118, H:Q.156 Salt bridges: I:K.141, I:K.141, I:K.141, I:R.144, H:H.118, H:H.118, H:E.157, H:R.190, H:R.190, D:R.71 pi-Cation interactions: H:H.117 8GT.16: 20 residues within 4Å: Chain A: R.71 Chain F: N.92, A.94, V.136, L.137, G.138, L.139, S.140, K.141, R.144 Chain J: C.115, H.117, H.118, V.155, Q.156, E.157, H.184, C.186, R.190 Ligands: ZN.18 23 PLIP interactions: 14 interactions with chain F, 8 interactions with chain J, 1 interactions with chain A Hydrogen bonds: F:N.92, F:N.92, F:L.137, F:L.139, F:S.140, F:S.140, F:S.140, F:K.141, F:K.141, F:K.141, J:H.118, J:Q.156 Salt bridges: F:K.141, F:K.141, F:K.141, F:R.144, J:H.118, J:H.118, J:E.157, J:R.190, J:R.190, A:R.71 pi-Cation interactions: J:H.117 8GT.17: 20 residues within 4Å: Chain C: R.71 Chain I: C.115, H.117, H.118, V.155, Q.156, E.157, H.184, C.186, R.190 Chain J: N.92, A.94, V.136, L.137, G.138, L.139, S.140, K.141, R.144 Ligands: ZN.15 21 PLIP interactions: 14 interactions with chain J, 6 interactions with chain I, 1 interactions with chain C Hydrogen bonds: J:N.92, J:N.92, J:L.137, J:L.139, J:S.140, J:S.140, J:S.140, J:K.141, J:K.141, J:K.141, I:H.118, I:Q.156 Salt bridges: J:K.141, J:K.141, J:K.141, J:R.144, I:H.118, I:E.157, I:R.190, C:R.71 pi-Cation interactions: I:H.117 8GT.19: 20 residues within 4Å: Chain E: N.92, A.94, V.136, L.137, G.138, L.139, S.140, K.141, R.144 Chain G: R.71 Chain K: C.115, H.117, H.118, V.155, Q.156, E.157, H.184, C.186, R.190 Ligands: ZN.21 23 PLIP interactions: 14 interactions with chain E, 1 interactions with chain G, 8 interactions with chain K Hydrogen bonds: E:N.92, E:N.92, E:L.137, E:L.139, E:S.140, E:S.140, E:S.140, E:K.141, E:K.141, E:K.141, K:H.117, K:Q.156 Salt bridges: E:K.141, E:K.141, E:K.141, E:R.144, G:R.71, K:H.118, K:H.118, K:E.157, K:R.190, K:R.190 pi-Cation interactions: K:H.117 8GT.20: 20 residues within 4Å: Chain D: C.115, H.117, H.118, V.155, Q.156, E.157, H.184, C.186, R.190 Chain H: R.71 Chain K: N.92, A.94, V.136, L.137, G.138, L.139, S.140, K.141, R.144 Ligands: ZN.6 22 PLIP interactions: 7 interactions with chain D, 14 interactions with chain K, 1 interactions with chain H Hydrogen bonds: D:H.117, D:Q.156, K:N.92, K:N.92, K:L.137, K:L.139, K:S.140, K:S.140, K:S.140, K:K.141, K:K.141, K:K.141 Salt bridges: D:H.118, D:E.157, D:R.190, D:R.190, K:K.141, K:K.141, K:K.141, K:R.144, H:R.71 pi-Cation interactions: D:H.117

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Ebenhoch, R. et al., A hybrid approach reveals the allosteric regulation of GTP cyclohydrolase I. Proc.Natl.Acad.Sci.USA (2020)

Release Date

2020-12-09

Peptides

GTP cyclohydrolase 1: ACDEFGHIJK
GTP cyclohydrolase 1 feedback regulatory protein: BLMNOPQRST

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

C
B

D
C

E
E

F
G

G
H

H
I

I
J

J
F

K
D

B
L

L
K

M
N

N
M

O
O

P
P

Q
Q

R
R

S
S

T
T

GTP cyclohydrolase 1

GTP cyclohydrolase 1 feedback regulatory protein

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