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

The structure of the trp RNA-binding attenuation protein (TRAP) bound to a 53-nucleotide RNA molecule containing GAGUU repeats

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.75 Å

Oligo State

homo-11-mer

Ligands

11 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: 7 interactions with chain A, 4 interactions with chain K, Hydrophobic interactions: A:T.50, A:I.53, K:T.28 Hydrogen bonds: A:Q.45, A:T.50, A:T.50, K:G.25, K:G.25, K:S.51 Water bridges: A:H.49, A:H.49 TRP.2: 14 residues within 4Å: Chain A: T.23, R.24, G.25, D.27, T.28, S.51 Chain B: G.21, H.31, A.44, Q.45, T.47, H.49, T.50, I.53 10 PLIP interactions: 7 interactions with chain B, 3 interactions with chain A Hydrophobic interactions: B:T.50, B:I.53 Hydrogen bonds: B:Q.45, B:T.50, B:T.50, A:G.25, A:G.25, A:S.51 Water bridges: B:E.48, B:H.49 TRP.3: 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 12 PLIP interactions: 8 interactions with chain C, 4 interactions with chain B, Hydrophobic interactions: C:A.44, C:T.50, C:I.53, B:T.28 Hydrogen bonds: C:Q.45, C:T.50, C:T.50, B:G.25, B:G.25, B:S.51 Water bridges: C:H.49, C:H.49 TRP.4: 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: 4 interactions with chain C, 7 interactions with chain D, Hydrophobic interactions: C:T.28, D:T.50, D:I.53 Hydrogen bonds: C:G.25, C:G.25, C:S.51, D:Q.45, D:T.50, D:T.50 Water bridges: D:E.48, D:H.49 TRP.5: 13 residues within 4Å: Chain D: T.23, R.24, G.25, D.27, T.28, S.51 Chain E: G.21, A.44, Q.45, T.47, H.49, T.50, I.53 9 PLIP interactions: 3 interactions with chain D, 6 interactions with chain E, Hydrogen bonds: D:G.25, D:G.25, D:S.51, E:Q.45, E:T.50, E:T.50 Hydrophobic interactions: E:T.50, E:I.53 Water bridges: E:E.48 TRP.6: 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 12 PLIP interactions: 8 interactions with chain F, 4 interactions with chain E, Hydrophobic interactions: F:T.50, F:I.53, E:T.28 Hydrogen bonds: F:Q.45, F:Q.45, F:T.50, F:T.50, E:G.25, E:G.25, E:S.51 Water bridges: F:E.48, F:H.49 TRP.7: 13 residues within 4Å: Chain F: T.23, R.24, G.25, D.27, T.28, S.51 Chain G: G.21, A.44, Q.45, T.47, H.49, T.50, I.53 11 PLIP interactions: 7 interactions with chain G, 4 interactions with chain F, Hydrophobic interactions: G:A.44, G:T.50, G:I.53, F:T.28 Hydrogen bonds: G:Q.45, G:T.50, G:T.50, F:G.25, F:G.25, F:S.51 Water bridges: G:E.48 TRP.8: 15 residues within 4Å: Chain G: T.23, R.24, G.25, D.27, T.28, S.51 Chain H: I.20, G.21, H.32, A.44, Q.45, T.47, H.49, T.50, I.53 10 PLIP interactions: 3 interactions with chain G, 7 interactions with chain H, Hydrogen bonds: G:G.25, G:G.25, G:S.51, H:Q.45, H:Q.45, H:T.50, H:T.50 Hydrophobic interactions: H:T.50, H:I.53 Water bridges: H:E.48 TRP.9: 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 10 PLIP interactions: 7 interactions with chain I, 3 interactions with chain H Hydrophobic interactions: I:A.44, I:T.50, I:I.53 Hydrogen bonds: I:Q.45, I:T.50, I:T.50, H:G.25, H:G.25, H:S.51 Water bridges: I:E.48 TRP.10: 14 residues within 4Å: Chain I: T.23, R.24, G.25, D.27, T.28, S.51 Chain J: G.21, H.32, 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:Q.45, J:T.50, J:T.50, I:G.25, I:G.25, I:S.51 Water bridges: J:E.48 TRP.11: 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: 3 interactions with chain J, 7 interactions with chain K, Hydrogen bonds: J:G.25, J:G.25, J:S.51, K:Q.45, K:T.50, K:T.50 Hydrophobic interactions: K:T.50, K:I.53 Water bridges: K:E.48, K:H.49

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Hopcroft, N.H. et al., Specificity of Trap-RNA Interactions: Crystal Structures of Two Complexes with Different RNA Sequences. Acta Crystallogr.,Sect.D (2002)

Release Date

2002-04-05

Peptides

TRP RNA-BINDING ATTENUATION PROTEIN (TRAP): 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 (TRAP)

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