SMTL ID : 2zp9.2 (1 other biounit)

The Nature of the TRAP:Anti-TRAP complex

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 3.20 Å

Oligo State

hetero-12-18-mer

Ligands

12 x TRP: TRYPTOPHAN(Non-covalent)

TRP.1: 14 residues within 4Å: Chain A: T.23, R.24, G.25, D.27, T.28, S.51 Chain B: V.19, G.21, H.32, A.44, Q.45, T.47, T.50, I.53 13 PLIP interactions: 4 interactions with chain A, 8 interactions with chain B, 1 Ligand-Ligand interactions Hydrophobic interactions: A:T.28, B:V.19, B:A.44, B:T.50, B:I.53 Hydrogen bonds: A:G.25, A:G.25, A:S.51, B:Q.45, B:Q.45, B:T.50, B:T.50, W.1 TRP.2: 12 residues within 4Å: Chain B: T.23, R.24, G.25, T.28, S.51 Chain U: V.19, G.21, H.32, Q.45, T.47, T.50, I.53 10 PLIP interactions: 3 interactions with chain B, 7 interactions with chain U, Hydrogen bonds: B:G.25, B:G.25, B:S.51, U:T.50, U:T.50, U:T.50 Hydrophobic interactions: U:V.19, U:T.50, U:I.53 pi-Stacking: U:H.31 TRP.6: 14 residues within 4Å: Chain F: T.23, R.24, G.25, D.27, T.28, S.51 Chain G: V.19, G.21, H.32, A.44, Q.45, T.47, T.50, I.53 13 PLIP interactions: 4 interactions with chain F, 1 Ligand-Ligand interactions, 8 interactions with chain G Hydrophobic interactions: F:T.28, G:V.19, G:A.44, G:T.50, G:I.53 Hydrogen bonds: F:G.25, F:G.25, F:S.51, W.6, G:Q.45, G:Q.45, G:T.50, G:T.50 TRP.7: 12 residues within 4Å: Chain G: T.23, R.24, G.25, T.28, S.51 Chain Z: V.19, G.21, H.32, Q.45, T.47, T.50, I.53 10 PLIP interactions: 7 interactions with chain Z, 3 interactions with chain G Hydrophobic interactions: Z:V.19, Z:T.50, Z:I.53 Hydrogen bonds: Z:T.50, Z:T.50, Z:T.50, G:G.25, G:G.25, G:S.51 pi-Stacking: Z:H.31 TRP.11: 14 residues within 4Å: Chain K: T.23, R.24, G.25, D.27, T.28, S.51 Chain L: V.19, G.21, H.32, A.44, Q.45, T.47, T.50, I.53 13 PLIP interactions: 4 interactions with chain K, 1 Ligand-Ligand interactions, 8 interactions with chain L Hydrophobic interactions: K:T.28, L:V.19, L:A.44, L:T.50, L:I.53 Hydrogen bonds: K:G.25, K:G.25, K:S.51, W.11, L:Q.45, L:Q.45, L:T.50, L:T.50 TRP.12: 12 residues within 4Å: Chain L: T.23, R.24, G.25, T.28, S.51 Chain P: V.19, G.21, H.32, Q.45, T.47, T.50, I.53 10 PLIP interactions: 7 interactions with chain P, 3 interactions with chain L, Hydrophobic interactions: P:V.19, P:T.50, P:I.53 Hydrogen bonds: P:T.50, P:T.50, P:T.50, L:G.25, L:G.25, L:S.51 pi-Stacking: P:H.31 TRP.16: 14 residues within 4Å: Chain P: T.23, R.24, G.25, D.27, T.28, S.51 Chain Q: V.19, G.21, H.32, A.44, Q.45, T.47, T.50, I.53 13 PLIP interactions: 4 interactions with chain P, 8 interactions with chain Q, 1 Ligand-Ligand interactions Hydrophobic interactions: P:T.28, Q:V.19, Q:A.44, Q:T.50, Q:I.53 Hydrogen bonds: P:G.25, P:G.25, P:S.51, Q:Q.45, Q:Q.45, Q:T.50, Q:T.50, W.16 TRP.17: 12 residues within 4Å: Chain F: V.19, G.21, H.32, Q.45, T.47, T.50, I.53 Chain Q: T.23, R.24, G.25, T.28, S.51 10 PLIP interactions: 7 interactions with chain F, 3 interactions with chain Q, Hydrophobic interactions: F:V.19, F:T.50, F:I.53 Hydrogen bonds: F:T.50, F:T.50, F:T.50, Q:G.25, Q:G.25, Q:S.51 pi-Stacking: F:H.31 TRP.21: 14 residues within 4Å: Chain U: T.23, R.24, G.25, D.27, T.28, S.51 Chain V: V.19, G.21, H.32, A.44, Q.45, T.47, T.50, I.53 13 PLIP interactions: 4 interactions with chain U, 8 interactions with chain V, 1 Ligand-Ligand interactions Hydrophobic interactions: U:T.28, V:V.19, V:A.44, V:T.50, V:I.53 Hydrogen bonds: U:G.25, U:G.25, U:S.51, V:Q.45, V:Q.45, V:T.50, V:T.50, W.21 TRP.22: 12 residues within 4Å: Chain K: V.19, G.21, H.32, Q.45, T.47, T.50, I.53 Chain V: T.23, R.24, G.25, T.28, S.51 10 PLIP interactions: 7 interactions with chain K, 3 interactions with chain V, Hydrophobic interactions: K:V.19, K:T.50, K:I.53 Hydrogen bonds: K:T.50, K:T.50, K:T.50, V:G.25, V:G.25, V:S.51 pi-Stacking: K:H.31 TRP.26: 14 residues within 4Å: Chain 0: V.19, G.21, H.32, A.44, Q.45, T.47, T.50, I.53 Chain Z: T.23, R.24, G.25, D.27, T.28, S.51 13 PLIP interactions: 8 interactions with chain 0, 1 Ligand-Ligand interactions, 4 interactions with chain Z Hydrophobic interactions: 0:V.19, 0:A.44, 0:T.50, 0:I.53, Z:T.28 Hydrogen bonds: 0:Q.45, 0:Q.45, 0:T.50, 0:T.50, W.26, Z:G.25, Z:G.25, Z:S.51 TRP.27: 12 residues within 4Å: Chain 0: T.23, R.24, G.25, T.28, S.51 Chain A: V.19, G.21, H.32, Q.45, T.47, T.50, I.53 10 PLIP interactions: 3 interactions with chain 0, 7 interactions with chain A Hydrogen bonds: 0:G.25, 0:G.25, 0:S.51, A:T.50, A:T.50, A:T.50 Hydrophobic interactions: A:V.19, A:T.50, A:I.53 pi-Stacking: A:H.31

18 x ZN: ZINC ION(Non-covalent)

ZN.3: 6 residues within 4Å: Chain C: C.12, K.14, C.15, C.26, A.28, C.29 4 PLIP interactions: 4 interactions with chain C Metal complexes: C:C.12, C:C.15, C:C.26, C:C.29 ZN.4: 4 residues within 4Å: Chain D: C.12, C.15, C.26, C.29 4 PLIP interactions: 4 interactions with chain D Metal complexes: D:C.12, D:C.15, D:C.26, D:C.29 ZN.5: 4 residues within 4Å: Chain E: C.12, C.15, C.26, C.29 4 PLIP interactions: 4 interactions with chain E Metal complexes: E:C.12, E:C.15, E:C.26, E:C.29 ZN.8: 6 residues within 4Å: Chain H: C.12, K.14, C.15, C.26, A.28, C.29 4 PLIP interactions: 4 interactions with chain H Metal complexes: H:C.12, H:C.15, H:C.26, H:C.29 ZN.9: 4 residues within 4Å: Chain I: C.12, C.15, C.26, C.29 4 PLIP interactions: 4 interactions with chain I Metal complexes: I:C.12, I:C.15, I:C.26, I:C.29 ZN.10: 4 residues within 4Å: Chain J: C.12, C.15, C.26, C.29 4 PLIP interactions: 4 interactions with chain J Metal complexes: J:C.12, J:C.15, J:C.26, J:C.29 ZN.13: 6 residues within 4Å: Chain M: C.12, K.14, C.15, C.26, A.28, C.29 4 PLIP interactions: 4 interactions with chain M Metal complexes: M:C.12, M:C.15, M:C.26, M:C.29 ZN.14: 4 residues within 4Å: Chain N: C.12, C.15, C.26, C.29 4 PLIP interactions: 4 interactions with chain N Metal complexes: N:C.12, N:C.15, N:C.26, N:C.29 ZN.15: 4 residues within 4Å: Chain O: C.12, C.15, C.26, C.29 4 PLIP interactions: 4 interactions with chain O Metal complexes: O:C.12, O:C.15, O:C.26, O:C.29 ZN.18: 6 residues within 4Å: Chain R: C.12, K.14, C.15, C.26, A.28, C.29 4 PLIP interactions: 4 interactions with chain R Metal complexes: R:C.12, R:C.15, R:C.26, R:C.29 ZN.19: 4 residues within 4Å: Chain S: C.12, C.15, C.26, C.29 4 PLIP interactions: 4 interactions with chain S Metal complexes: S:C.12, S:C.15, S:C.26, S:C.29 ZN.20: 4 residues within 4Å: Chain T: C.12, C.15, C.26, C.29 4 PLIP interactions: 4 interactions with chain T Metal complexes: T:C.12, T:C.15, T:C.26, T:C.29 ZN.23: 6 residues within 4Å: Chain W: C.12, K.14, C.15, C.26, A.28, C.29 4 PLIP interactions: 4 interactions with chain W Metal complexes: W:C.12, W:C.15, W:C.26, W:C.29 ZN.24: 4 residues within 4Å: Chain X: C.12, C.15, C.26, C.29 4 PLIP interactions: 4 interactions with chain X Metal complexes: X:C.12, X:C.15, X:C.26, X:C.29 ZN.25: 4 residues within 4Å: Chain Y: C.12, C.15, C.26, C.29 4 PLIP interactions: 4 interactions with chain Y Metal complexes: Y:C.12, Y:C.15, Y:C.26, Y:C.29 ZN.28: 6 residues within 4Å: Chain 1: C.12, K.14, C.15, C.26, A.28, C.29 4 PLIP interactions: 4 interactions with chain 1 Metal complexes: 1:C.12, 1:C.15, 1:C.26, 1:C.29 ZN.29: 4 residues within 4Å: Chain 2: C.12, C.15, C.26, C.29 4 PLIP interactions: 4 interactions with chain 2 Metal complexes: 2:C.12, 2:C.15, 2:C.26, 2:C.29 ZN.30: 4 residues within 4Å: Chain 3: C.12, C.15, C.26, C.29 4 PLIP interactions: 4 interactions with chain 3 Metal complexes: 3:C.12, 3:C.15, 3:C.26, 3:C.29

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Watanabe, M. et al., The nature of the TRAP-Anti-TRAP complex. Proc.Natl.Acad.Sci.USA (2009)

Release Date

2009-02-03

Peptides

Transcription attenuation protein mtrB: ABFGKLPQUVZ0
Tryptophan RNA-binding attenuator protein-inhibitory protein: CDEHIJMNORSTWXY123

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

F
A

G
B

K
A

L
B

P
A

Q
B

U
A

V
B

Z
A

0
B

C
C

D
D

E
E

H
C

I
D

J
E

M
C

N
D

O
E

R
C

S
D

T
E

W
C

X
D

Y
E

1
C

2
D

3
E

Transcription attenuation protein mtrB

Tryptophan RNA-binding attenuator protein-inhibitory protein

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