SMTL ID : 1c9s.2 (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 Compare

Method

X-RAY DIFFRACTION 1.90 Å

Oligo State

homo-11-mer

Ligands

11 x TRP: TRYPTOPHAN(Non-covalent)

TRP.1: 14 residues within 4Å: Chain B: G.21, H.31, A.44, Q.45, T.47, H.49, T.50, I.53 Chain C: T.23, R.24, G.25, D.27, T.28, S.51 11 PLIP interactions: 3 interactions with chain C, 8 interactions with chain B, Hydrogen bonds: C:G.25, C:G.25, C:S.51, B:Q.45, B:T.47, B:T.50 Hydrophobic interactions: B:A.44, B:T.50, B:I.53 Water bridges: B:E.48 Salt bridges: B:H.31 TRP.2: 14 residues within 4Å: Chain C: G.21, H.31, A.44, Q.45, T.47, H.49, T.50, I.53 Chain D: T.23, R.24, G.25, D.27, T.28, S.51 13 PLIP interactions: 9 interactions with chain C, 4 interactions with chain D, Hydrophobic interactions: C:A.44, C:T.50, C:I.53, D:T.28 Hydrogen bonds: C:Q.45, C:T.47, C:T.50, D:G.25, D:G.25, D:S.51 Water bridges: C:H.31, C:E.48 Salt bridges: C:H.31 TRP.3: 14 residues within 4Å: Chain D: G.21, H.31, A.44, Q.45, T.47, H.49, T.50, I.53 Chain E: T.23, R.24, G.25, D.27, T.28, S.51 13 PLIP interactions: 9 interactions with chain D, 4 interactions with chain E Hydrophobic interactions: D:A.44, D:T.50, D:I.53, E:T.28 Hydrogen bonds: D:Q.45, D:Q.45, D:T.47, D:T.50, E:G.25, E:G.25, E:S.51 Water bridges: D:E.48 Salt bridges: D:H.31 TRP.4: 14 residues within 4Å: Chain E: G.21, H.32, A.44, Q.45, T.47, H.49, T.50, I.53 Chain F: T.23, R.24, G.25, D.27, T.28, S.51 12 PLIP interactions: 8 interactions with chain E, 4 interactions with chain F Hydrophobic interactions: E:A.44, E:T.50, E:I.53, F:T.28 Hydrogen bonds: E:Q.45, E:T.47, E:T.50, F:G.25, F:G.25, F:S.51 Water bridges: E:E.48, E:H.49 TRP.5: 15 residues within 4Å: Chain F: G.21, H.31, H.32, A.44, Q.45, T.47, H.49, T.50, I.53 Chain G: T.23, R.24, G.25, D.27, T.28, S.51 11 PLIP interactions: 8 interactions with chain F, 3 interactions with chain G, Hydrophobic interactions: F:A.44, F:T.50, F:I.53 Hydrogen bonds: F:Q.45, F:Q.45, F:T.47, F:T.50, G:G.25, G:G.25, G:S.51 Water bridges: F:E.48 TRP.6: 13 residues within 4Å: Chain G: G.21, A.44, Q.45, T.47, H.49, T.50, I.53 Chain H: T.23, R.24, G.25, D.27, T.28, S.51 12 PLIP interactions: 4 interactions with chain H, 8 interactions with chain G Hydrophobic interactions: H:T.28, G:A.44, G:T.50, G:I.53 Hydrogen bonds: H:G.25, H:G.25, H:S.51, G:Q.45, G:T.47, G:T.50 Water bridges: G:E.48 Salt bridges: G:H.31 TRP.7: 14 residues within 4Å: Chain H: G.21, H.31, H.32, A.44, Q.45, T.47, H.49, T.50 Chain I: T.23, R.24, G.25, D.27, T.28, S.51 11 PLIP interactions: 4 interactions with chain I, 7 interactions with chain H, Hydrophobic interactions: I:T.28, H:A.44, H:T.50 Hydrogen bonds: I:G.25, I:G.25, I:S.51, H:Q.45, H:T.47, H:T.50 Water bridges: H:E.48 Salt bridges: H:H.31 TRP.8: 14 residues within 4Å: Chain I: G.21, H.31, A.44, Q.45, T.47, H.49, T.50, I.53 Chain J: T.23, R.24, G.25, D.27, T.28, S.51 12 PLIP interactions: 8 interactions with chain I, 4 interactions with chain J, Hydrophobic interactions: I:A.44, I:T.50, I:I.53, J:T.28 Hydrogen bonds: I:Q.45, I:T.47, I:T.50, J:G.25, J:G.25, J:S.51 Water bridges: I:E.48 Salt bridges: I:H.31 TRP.9: 12 residues within 4Å: Chain J: G.21, A.44, Q.45, T.47, H.49, T.50 Chain K: T.23, R.24, G.25, D.27, T.28, S.51 11 PLIP interactions: 7 interactions with chain J, 4 interactions with chain K Hydrophobic interactions: J:A.44, J:T.50, K:T.28 Hydrogen bonds: J:Q.45, J:T.47, J:T.50, K:G.25, K:G.25, K:S.51 Water bridges: J:E.48 Salt bridges: J:H.31 TRP.10: 13 residues within 4Å: Chain K: G.21, A.44, Q.45, T.47, H.49, T.50, I.53 Chain L: T.23, R.24, G.25, D.27, T.28, S.51 11 PLIP interactions: 3 interactions with chain L, 8 interactions with chain K, Hydrogen bonds: L:G.25, L:G.25, L:S.51, K:Q.45, K:T.47, K:T.50 Hydrophobic interactions: K:A.44, K:T.50, K:I.53 Water bridges: K:E.48 Salt bridges: K:H.31 TRP.11: 15 residues within 4Å: Chain B: T.23, R.24, G.25, D.27, T.28, S.51 Chain L: I.20, G.21, H.31, A.44, Q.45, T.47, H.49, T.50, I.53 12 PLIP interactions: 4 interactions with chain B, 8 interactions with chain L, Hydrophobic interactions: B:T.28, L:A.44, L:T.50, L:I.53 Hydrogen bonds: B:G.25, B:G.25, B:S.51, L:Q.45, L:T.47, L:T.50 Water bridges: L:E.48 Salt bridges: L:H.31

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: BCDEFGHIJKL

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

B
L

C
M

D
N

E
O

F
P

G
Q

H
R

I
S

J
T

K
U

L
V

TRP RNA-BINDING ATTENUATION PROTEIN

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