SMTL ID : 1c9s.1 (1 other biounit)

CRYSTAL STRUCTURE OF A COMPLEX OF TRP RNA-BINDING ATTENUATION PROTEIN WITH A 53-BASE SINGLE STRANDED RNA CONTAINING ELEVEN GAG TRIPLETS SEPARATED BY AU DINUCLEOTIDES

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.90 Å

Oligo State

homo-11-mer

Ligands

12 x TRP: TRYPTOPHAN(Non-covalent)

TRP.1: 14 residues within 4Å: Chain A: G.21, H.32, A.44, Q.45, T.47, H.49, T.50, I.53 Chain K: T.23, R.24, G.25, D.27, T.28, S.51 11 PLIP interactions: 3 interactions with chain K, 8 interactions with chain A, Hydrogen bonds: K:G.25, K:G.25, K:S.51, A:Q.45, A:T.47, A:T.50 Hydrophobic interactions: A:A.44, A:T.50, A:I.53 Water bridges: A:E.48, A:H.49 TRP.2: 2 residues within 4Å: Chain A: A.26, D.27 5 PLIP interactions: 3 interactions with chain A, 1 Ligand-Ligand interactions, 1 interactions with chain B Hydrophobic interactions: A:A.26 Hydrogen bonds: A:D.27 Water bridges: A:D.27, W.2, B:R.29 TRP.3: 13 residues within 4Å: Chain A: T.23, R.24, G.25, D.27, T.28, S.51 Chain B: G.21, A.44, Q.45, T.47, H.49, T.50, I.53 9 PLIP interactions: 5 interactions with chain B, 4 interactions with chain A Hydrophobic interactions: B:T.50, B:I.53, A:T.28 Hydrogen bonds: B:T.47, B:T.50, A:G.25, A:G.25, A:S.51 Water bridges: B:E.48 TRP.4: 14 residues within 4Å: Chain B: T.23, R.24, G.25, D.27, T.28, S.51 Chain C: G.21, H.32, A.44, Q.45, T.47, H.49, T.50, I.53 11 PLIP interactions: 3 interactions with chain B, 8 interactions with chain C, Hydrogen bonds: B:G.25, B:G.25, B:S.51, C:Q.45, C:T.47, C:T.50 Hydrophobic interactions: C:A.44, C:T.50, C:I.53 Water bridges: C:E.48, C:H.49 TRP.5: 14 residues within 4Å: Chain C: T.23, R.24, G.25, D.27, T.28, S.51 Chain D: G.21, H.32, A.44, Q.45, T.47, H.49, T.50, I.53 11 PLIP interactions: 8 interactions with chain D, 3 interactions with chain C, Hydrophobic interactions: D:A.44, D:T.50, D:I.53 Hydrogen bonds: D:Q.45, D:T.47, D:T.50, C:G.25, C:G.25, C:S.51 Water bridges: D:E.48, D:H.49 TRP.6: 14 residues within 4Å: Chain D: T.23, R.24, G.25, D.27, T.28, S.51 Chain E: G.21, H.32, A.44, Q.45, T.47, H.49, T.50, I.53 11 PLIP interactions: 8 interactions with chain E, 3 interactions with chain D Hydrophobic interactions: E:A.44, E:T.50, E:I.53 Hydrogen bonds: E:Q.45, E:T.47, E:T.50, D:G.25, D:G.25, D:S.51 Water bridges: E:E.48, E:H.49 TRP.7: 14 residues within 4Å: Chain E: T.23, R.24, G.25, D.27, T.28, S.51 Chain F: G.21, H.32, A.44, Q.45, T.47, H.49, T.50, I.53 11 PLIP interactions: 4 interactions with chain E, 7 interactions with chain F, Hydrophobic interactions: E:T.28, F:A.44, F:T.50, F:I.53 Hydrogen bonds: E:G.25, E:G.25, E:S.51, F:Q.45, F:T.47, F:T.50 Water bridges: F:H.49 TRP.8: 14 residues within 4Å: Chain F: T.23, R.24, G.25, D.27, T.28, S.51 Chain G: G.21, H.32, A.44, Q.45, T.47, H.49, T.50, I.53 10 PLIP interactions: 7 interactions with chain G, 3 interactions with chain F, Hydrophobic interactions: G:A.44, G:T.50, G:I.53 Hydrogen bonds: G:T.47, G:T.50, F:G.25, F:G.25, F:S.51 Water bridges: G:E.48, G:H.49 TRP.9: 14 residues within 4Å: Chain G: T.23, R.24, G.25, D.27, T.28, S.51 Chain H: G.21, H.32, A.44, Q.45, T.47, H.49, T.50, I.53 12 PLIP interactions: 4 interactions with chain G, 8 interactions with chain H, Hydrophobic interactions: G:T.28, H:A.44, H:T.50, H:I.53 Hydrogen bonds: G:G.25, G:G.25, G:S.51, H:Q.45, H:T.47, H:T.50 Water bridges: H:E.48, H:H.49 TRP.10: 14 residues within 4Å: Chain H: T.23, R.24, G.25, D.27, T.28, S.51 Chain I: G.21, H.32, A.44, Q.45, T.47, H.49, T.50, I.53 12 PLIP interactions: 8 interactions with chain I, 4 interactions with chain H, Hydrophobic interactions: I:A.44, I:T.50, I:I.53, H:T.28 Hydrogen bonds: I:Q.45, I:T.47, I:T.50, H:G.25, H:G.25, H:S.51 Water bridges: I:E.48, I:H.49 TRP.11: 13 residues within 4Å: Chain I: T.23, R.24, G.25, D.27, T.28, S.51 Chain J: G.21, A.44, Q.45, T.47, H.49, T.50, I.53 10 PLIP interactions: 7 interactions with chain J, 3 interactions with chain I, Hydrophobic interactions: J:T.50, J:I.53 Hydrogen bonds: J:Q.45, J:T.47, J:T.50, I:G.25, I:G.25, I:S.51 Water bridges: J:E.48, J:H.49 TRP.12: 14 residues within 4Å: Chain J: T.23, R.24, G.25, D.27, T.28, S.51 Chain K: G.21, H.32, A.44, Q.45, T.47, H.49, T.50, I.53 10 PLIP interactions: 7 interactions with chain K, 3 interactions with chain J Hydrophobic interactions: K:A.44, K:T.50, K:I.53 Hydrogen bonds: K:T.47, K:T.50, J:G.25, J:G.25, J:S.51 Water bridges: K:E.48, K:H.49

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Antson, A.A. et al., Structure of the trp RNA-binding attenuation protein, TRAP, bound to RNA. Nature (1999)

Release Date

1999-09-15

Peptides

TRP RNA-BINDING ATTENUATION PROTEIN: ABCDEFGHIJK

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

K
K

TRP RNA-BINDING ATTENUATION PROTEIN

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