SMTL ID : 1gtn.2 (1 other biounit)

Structure of the trp RNA-binding attenuation protein (TRAP) bound to an RNA molecule containing 11 GAGCC repeats

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.50 Å

Oligo State

homo-11-mer

Ligands

11 x TRP: TRYPTOPHAN(Non-covalent)

TRP.1: 14 residues within 4Å: Chain A: V.19, G.21, H.31, A.44, Q.45, T.47, T.50, I.53 Chain B: T.23, R.24, G.25, D.27, T.28, S.51 12 PLIP interactions: 4 interactions with chain B, 8 interactions with chain A, Hydrophobic interactions: B:T.28, A:V.19, A:A.44, A:I.53 Hydrogen bonds: B:G.25, B:G.25, B:S.51, A:Q.45, A:Q.45, A:T.50, A:T.50 Salt bridges: A:H.31 TRP.2: 16 residues within 4Å: Chain B: G.21, H.31, H.32, 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, A.52 12 PLIP interactions: 4 interactions with chain C, 8 interactions with chain B Hydrophobic interactions: C:T.28, B:A.44, B:T.50, B:I.53 Hydrogen bonds: C:G.25, C:G.25, C:S.51, B:Q.45, B:Q.45, B:T.50, B:T.50 Salt bridges: B:H.31 TRP.3: 15 residues within 4Å: Chain C: G.21, H.31, H.32, 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 14 PLIP interactions: 10 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:Q.45, C:T.50, C:T.50, D:G.25, D:G.25, D:S.51 Water bridges: C:H.49, C:H.49 Salt bridges: C:H.31 TRP.4: 15 residues within 4Å: Chain D: G.21, H.31, H.32, A.44, Q.45, T.47, H.49, T.50 Chain E: T.23, R.24, G.25, D.27, T.28, S.51, A.52 11 PLIP interactions: 4 interactions with chain E, 7 interactions with chain D, Hydrophobic interactions: E:T.28, D:A.44, D:T.50 Hydrogen bonds: E:G.25, E:G.25, E:S.51, D:Q.45, D:Q.45, D:T.50, D:T.50 Salt bridges: D:H.31 TRP.5: 13 residues within 4Å: Chain E: G.21, H.32, A.44, Q.45, T.47, T.50, I.53 Chain F: T.23, R.24, G.25, D.27, T.28, S.51 11 PLIP interactions: 4 interactions with chain F, 7 interactions with chain E, Hydrophobic interactions: F:T.28, E:A.44, E:I.53 Hydrogen bonds: F:G.25, F:G.25, F:S.51, E:Q.45, E:Q.45, E:T.50, E:T.50 Salt bridges: E:H.31 TRP.6: 14 residues within 4Å: Chain F: G.21, H.31, H.32, A.44, Q.45, T.47, T.50 Chain G: T.23, R.24, G.25, D.27, T.28, S.51, A.52 10 PLIP interactions: 6 interactions with chain F, 4 interactions with chain G, Hydrophobic interactions: F:A.44, G:T.28 Hydrogen bonds: F:Q.45, F:Q.45, F:T.50, F:T.50, G:G.25, G:G.25, G:S.51 Salt bridges: F:H.31 TRP.7: 14 residues within 4Å: Chain G: G.21, H.31, 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 11 PLIP interactions: 4 interactions with chain H, 7 interactions with chain G, Hydrophobic interactions: H:T.28, G:A.44, G:I.53 Hydrogen bonds: H:G.25, H:G.25, H:S.51, G:Q.45, G:Q.45, G:T.50, G:T.50 Salt bridges: G:H.31 TRP.8: 14 residues within 4Å: Chain H: G.21, H.31, H.32, A.44, Q.45, T.47, T.50, I.53 Chain I: T.23, R.24, G.25, D.27, T.28, S.51 11 PLIP interactions: 7 interactions with chain H, 4 interactions with chain I, Hydrophobic interactions: H:A.44, H:I.53, I:T.28 Hydrogen bonds: H:Q.45, H:Q.45, H:T.50, H:T.50, I:G.25, I:G.25, I:S.51 Salt bridges: H:H.31 TRP.9: 15 residues within 4Å: Chain I: G.21, H.31, H.32, 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 13 PLIP interactions: 4 interactions with chain J, 9 interactions with chain I, Hydrophobic interactions: J:T.28, I:A.44, I:T.50, I:I.53 Hydrogen bonds: J:G.25, J:G.25, J:S.51, I:Q.45, I:Q.45, I:T.50, I:T.50, I:T.50 Salt bridges: I:H.31 TRP.10: 15 residues within 4Å: Chain J: G.21, H.31, 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, A.52 12 PLIP interactions: 8 interactions with chain J, 4 interactions with chain K Hydrophobic interactions: J:A.44, J:T.50, J:I.53, K:T.28 Hydrogen bonds: J:Q.45, J:Q.45, J:T.50, J:T.50, K:G.25, K:G.25, K:S.51 Salt bridges: J:H.31 TRP.11: 16 residues within 4Å: Chain A: T.23, R.24, G.25, D.27, T.28, S.51, A.52 Chain K: G.21, H.31, H.32, A.44, Q.45, T.47, H.49, T.50, I.53 14 PLIP interactions: 10 interactions with chain K, 4 interactions with chain A Hydrophobic interactions: K:A.44, K:T.50, K:I.53, A:T.28 Hydrogen bonds: K:Q.45, K:Q.45, K:T.50, K:T.50, A:G.25, A:G.25, A:S.51 Water bridges: K:T.47, K:H.49 Salt bridges: K:H.31

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: ABCDEFGHIJK

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
L

B
M

C
N

D
O

E
P

F
Q

G
R

H
S

I
T

J
U

K
V

TRP RNA-BINDING ATTENUATION PROTEIN

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