SMTL ID : 7ala.1

human GCH-GFRP inhibitory complex

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.85 Å

Oligo State

hetero-10-10-mer

Ligands

10 x ZN: ZINC ION(Non-covalent)

ZN.1: 3 residues within 4Å: Chain A: C.100, H.103, C.171 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:C.100, A:H.103, A:C.171 ZN.3: 3 residues within 4Å: Chain B: C.100, H.103, C.171 3 PLIP interactions: 3 interactions with chain B Metal complexes: B:C.100, B:H.103, B:C.171 ZN.5: 3 residues within 4Å: Chain C: C.100, H.103, C.171 4 PLIP interactions: 3 interactions with chain C, 1 Ligand-Water interactions Metal complexes: C:C.100, C:H.103, C:C.171, H2O.9 ZN.7: 4 residues within 4Å: Chain D: C.100, H.102, H.103, C.171 3 PLIP interactions: 3 interactions with chain D Metal complexes: D:C.100, D:H.103, D:C.171 ZN.9: 4 residues within 4Å: Chain E: C.100, H.102, H.103, C.171 3 PLIP interactions: 3 interactions with chain E Metal complexes: E:C.100, E:H.103, E:C.171 ZN.16: 3 residues within 4Å: Chain K: C.100, H.103, C.171 3 PLIP interactions: 3 interactions with chain K Metal complexes: K:C.100, K:H.103, K:C.171 ZN.18: 3 residues within 4Å: Chain L: C.100, H.103, C.171 3 PLIP interactions: 3 interactions with chain L Metal complexes: L:C.100, L:H.103, L:C.171 ZN.20: 3 residues within 4Å: Chain M: C.100, H.103, C.171 4 PLIP interactions: 3 interactions with chain M, 1 Ligand-Water interactions Metal complexes: M:C.100, M:H.103, M:C.171, H2O.38 ZN.22: 4 residues within 4Å: Chain N: C.100, H.102, H.103, C.171 3 PLIP interactions: 3 interactions with chain N Metal complexes: N:C.100, N:H.103, N:C.171 ZN.24: 4 residues within 4Å: Chain O: C.100, H.102, H.103, C.171 3 PLIP interactions: 3 interactions with chain O Metal complexes: O:C.100, O:H.103, O:C.171

10 x 5RW: 2-azanyl-8-[(4-fluorophenyl)methylsulfanyl]-1,7-dihydropurin-6-one(Non-covalent)

5RW.2: 13 residues within 4Å: Chain A: D.86, M.88, L.116, V.192, D.196, T.199, E.202 Chain E: S.187, M.189, R.194, R.200 Chain J: Q.12, Q.78 12 PLIP interactions: 6 interactions with chain E, 1 interactions with chain J, 5 interactions with chain A Hydrogen bonds: E:S.187, E:M.189, E:R.200, E:R.200, A:M.88 Water bridges: E:R.194, E:R.194, A:D.196, A:T.199 Hydrophobic interactions: J:Q.12, A:V.192 Salt bridges: A:E.202 5RW.4: 11 residues within 4Å: Chain A: S.187, M.189, R.194, R.200 Chain B: D.86, M.88, L.116, V.192, T.199, E.202 Chain I: I.13 13 PLIP interactions: 6 interactions with chain A, 7 interactions with chain B Hydrogen bonds: A:S.187, A:M.189, A:R.200, A:R.200, B:M.88 Water bridges: A:R.194, B:D.196, B:D.196, B:T.199, B:T.199 pi-Cation interactions: A:R.194 Hydrophobic interactions: B:V.192 Salt bridges: B:E.202 5RW.6: 10 residues within 4Å: Chain B: S.187, M.189, R.194, E.195, R.200 Chain C: D.86, M.88, L.116, T.199, E.202 14 PLIP interactions: 4 interactions with chain C, 10 interactions with chain B Hydrogen bonds: C:M.88, B:S.187, B:M.189, B:R.200, B:R.200 Water bridges: C:D.196, C:T.199, B:R.194, B:R.194 Salt bridges: C:E.202 Hydrophobic interactions: B:R.194 pi-Cation interactions: B:R.194, B:R.194 Halogen bonds: B:E.195 5RW.8: 11 residues within 4Å: Chain C: S.187, M.189, R.194, R.200 Chain D: D.86, M.88, L.116, T.199, E.202 Chain G: Q.12, P.19 12 PLIP interactions: 5 interactions with chain D, 6 interactions with chain C, 1 interactions with chain G Hydrogen bonds: D:M.88, C:S.187, C:M.189, C:R.200, C:R.200 Water bridges: D:D.196, D:T.199, D:T.199, C:R.194 Salt bridges: D:E.202 pi-Cation interactions: C:R.194 Hydrophobic interactions: G:Q.12 5RW.10: 10 residues within 4Å: Chain D: S.187, M.189, R.194, R.200 Chain E: D.86, M.88, L.116, T.199, E.202 Chain F: P.19 12 PLIP interactions: 6 interactions with chain E, 6 interactions with chain D Hydrogen bonds: E:M.88, D:S.187, D:M.189, D:R.200, D:R.200 Water bridges: E:D.196, E:T.199, E:T.199, E:T.199, D:R.194, D:R.194 Salt bridges: E:E.202 5RW.17: 13 residues within 4Å: Chain K: D.86, M.88, L.116, V.192, D.196, T.199, E.202 Chain O: S.187, M.189, R.194, R.200 Chain T: Q.12, Q.78 12 PLIP interactions: 5 interactions with chain K, 6 interactions with chain O, 1 interactions with chain T Hydrophobic interactions: K:V.192, T:Q.12 Hydrogen bonds: K:M.88, O:S.187, O:M.189, O:R.200, O:R.200 Water bridges: K:D.196, K:T.199, O:R.194, O:R.194 Salt bridges: K:E.202 5RW.19: 11 residues within 4Å: Chain K: S.187, M.189, R.194, R.200 Chain L: D.86, M.88, L.116, V.192, T.199, E.202 Chain S: I.13 13 PLIP interactions: 6 interactions with chain K, 7 interactions with chain L Hydrogen bonds: K:S.187, K:M.189, K:R.200, K:R.200, L:M.88 Water bridges: K:R.194, L:D.196, L:D.196, L:T.199, L:T.199 pi-Cation interactions: K:R.194 Hydrophobic interactions: L:V.192 Salt bridges: L:E.202 5RW.21: 10 residues within 4Å: Chain L: S.187, M.189, R.194, E.195, R.200 Chain M: D.86, M.88, L.116, T.199, E.202 15 PLIP interactions: 10 interactions with chain L, 5 interactions with chain M Hydrophobic interactions: L:R.194 Hydrogen bonds: L:S.187, L:M.189, L:R.200, L:R.200, M:M.88 Water bridges: L:R.194, L:R.194, M:D.196, M:D.196, M:T.199 pi-Cation interactions: L:R.194, L:R.194 Halogen bonds: L:E.195 Salt bridges: M:E.202 5RW.23: 11 residues within 4Å: Chain M: S.187, M.189, R.194, R.200 Chain N: D.86, M.88, L.116, T.199, E.202 Chain Q: Q.12, P.19 11 PLIP interactions: 4 interactions with chain N, 6 interactions with chain M, 1 interactions with chain Q Hydrogen bonds: N:M.88, M:S.187, M:M.189, M:R.200, M:R.200 Water bridges: N:D.196, N:T.199, M:R.194 Salt bridges: N:E.202 pi-Cation interactions: M:R.194 Hydrophobic interactions: Q:Q.12 5RW.25: 10 residues within 4Å: Chain N: S.187, M.189, R.194, R.200 Chain O: D.86, M.88, L.116, T.199, E.202 Chain P: P.19 12 PLIP interactions: 6 interactions with chain N, 6 interactions with chain O Hydrogen bonds: N:S.187, N:M.189, N:R.200, N:R.200, O:M.88 Water bridges: N:R.194, N:R.194, O:D.196, O:D.196, O:T.199, O:T.199 Salt bridges: O:E.202

10 x NA: SODIUM ION(Non-functional Binders)

NA.11: 4 residues within 4Å: Chain F: T.11, Q.12, R.14, V.17 2 PLIP interactions: 2 interactions with chain F Hydrogen bonds: F:Q.12 Water bridges: F:Q.12 NA.12: 4 residues within 4Å: Chain G: T.11, Q.12, R.14, V.17 2 PLIP interactions: 2 interactions with chain G Hydrogen bonds: G:T.11 Water bridges: G:Q.12 NA.13: 4 residues within 4Å: Chain H: T.11, Q.12, R.14, V.17 2 PLIP interactions: 2 interactions with chain H Hydrogen bonds: H:Q.12 Water bridges: H:Q.12 NA.14: 4 residues within 4Å: Chain I: T.11, Q.12, R.14, V.17 2 PLIP interactions: 2 interactions with chain I Hydrogen bonds: I:V.17 Water bridges: I:Q.12 NA.15: 4 residues within 4Å: Chain J: T.11, Q.12, R.14, V.17 2 PLIP interactions: 2 interactions with chain J Hydrogen bonds: J:Q.12, J:R.14 NA.26: 4 residues within 4Å: Chain P: T.11, Q.12, R.14, V.17 2 PLIP interactions: 2 interactions with chain P Hydrogen bonds: P:R.14 Water bridges: P:T.11 NA.27: 4 residues within 4Å: Chain Q: T.11, Q.12, R.14, V.17 2 PLIP interactions: 2 interactions with chain Q Hydrogen bonds: Q:R.14 Water bridges: Q:T.11 NA.28: 4 residues within 4Å: Chain R: T.11, Q.12, R.14, V.17 2 PLIP interactions: 2 interactions with chain R Hydrogen bonds: R:T.11 Water bridges: R:T.11 NA.29: 4 residues within 4Å: Chain S: T.11, Q.12, R.14, V.17 2 PLIP interactions: 2 interactions with chain S Hydrogen bonds: S:Q.12 Water bridges: S:T.11 NA.30: 4 residues within 4Å: Chain T: T.11, Q.12, R.14, V.17 3 PLIP interactions: 3 interactions with chain T Hydrogen bonds: T:Q.12, T:Q.12 Water bridges: T:T.11

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

2021-10-13

Peptides

GTP cyclohydrolase 1: ABCDEKLMNO
GTP cyclohydrolase 1 feedback regulatory protein: FGHIJPQRST

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

E
E

K
A

L
B

M
C

N
D

O
E

F
F

G
G

H
H

I
I

J
J

P
F

Q
G

R
H

S
I

T
J

GTP cyclohydrolase 1

GTP cyclohydrolase 1 feedback regulatory protein

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