SMTL ID : 2zp8.1

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: 16 residues within 4Å: Chain A: V.19, G.21, H.31, H.32, A.44, Q.45, T.47, H.49, T.50, I.53 Chain N: T.23, R.24, G.25, D.27, T.28, S.51 12 PLIP interactions: 8 interactions with chain A, 4 interactions with chain N, Hydrophobic interactions: A:V.19, A:A.44, A:T.50, A:I.53, N:T.28 Hydrogen bonds: A:Q.45, A:T.50, A:T.50, A:T.50, N:G.25, N:G.25, N:S.51 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 12 PLIP interactions: 4 interactions with chain A, 8 interactions with chain B, Hydrophobic interactions: A:T.28, 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, B:T.50 TRP.3: 15 residues within 4Å: Chain B: T.23, R.24, G.25, D.27, T.28, S.51 Chain C: G.21, H.31, 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:Q.45, C:T.50, C:T.50, B:G.25, B:G.25, B:S.51 Salt bridges: C:H.49 TRP.4: 15 residues within 4Å: Chain C: T.23, R.24, G.25, D.27, T.28, S.51 Chain D: G.21, H.31, H.32, A.44, Q.45, T.47, H.49, T.50, I.53 13 PLIP interactions: 9 interactions with chain D, 4 interactions with chain C, Hydrophobic interactions: D:A.44, D:T.50, D:I.53, C:T.28 Hydrogen bonds: D:Q.45, D:Q.45, D:T.50, D:T.50, D:T.50, C:G.25, C:G.25, C:S.51 Salt bridges: D:H.49 TRP.11: 16 residues within 4Å: Chain K: V.19, G.21, H.31, H.32, A.44, Q.45, T.47, H.49, T.50, I.53 Chain X: T.23, R.24, G.25, D.27, T.28, S.51 12 PLIP interactions: 4 interactions with chain X, 8 interactions with chain K, Hydrophobic interactions: X:T.28, K:V.19, K:A.44, K:T.50, K:I.53 Hydrogen bonds: X:G.25, X:G.25, X:S.51, K:Q.45, K:T.50, K:T.50, K:T.50 TRP.12: 14 residues within 4Å: Chain K: T.23, R.24, G.25, D.27, T.28, S.51 Chain L: G.21, H.31, A.44, Q.45, T.47, H.49, T.50, I.53 12 PLIP interactions: 4 interactions with chain K, 8 interactions with chain L Hydrophobic interactions: K:T.28, L:A.44, L:T.50, L:I.53 Hydrogen bonds: K:G.25, K:G.25, K:S.51, L:Q.45, L:Q.45, L:T.50, L:T.50, L:T.50 TRP.13: 15 residues within 4Å: Chain L: T.23, R.24, G.25, D.27, T.28, S.51 Chain M: G.21, H.31, H.32, A.44, Q.45, T.47, H.49, T.50, I.53 11 PLIP interactions: 7 interactions with chain M, 4 interactions with chain L, Hydrophobic interactions: M:A.44, M:T.50, M:I.53, L:T.28 Hydrogen bonds: M:Q.45, M:T.50, M:T.50, L:G.25, L:G.25, L:S.51 Salt bridges: M:H.49 TRP.14: 15 residues within 4Å: Chain M: T.23, R.24, G.25, D.27, T.28, S.51 Chain N: G.21, H.31, H.32, A.44, Q.45, T.47, H.49, T.50, I.53 13 PLIP interactions: 9 interactions with chain N, 4 interactions with chain M Hydrophobic interactions: N:A.44, N:T.50, N:I.53, M:T.28 Hydrogen bonds: N:Q.45, N:Q.45, N:T.50, N:T.50, N:T.50, M:G.25, M:G.25, M:S.51 Salt bridges: N:H.49 TRP.21: 16 residues within 4Å: Chain D: T.23, R.24, G.25, D.27, T.28, S.51 Chain U: V.19, G.21, H.31, H.32, A.44, Q.45, T.47, H.49, T.50, I.53 12 PLIP interactions: 4 interactions with chain D, 8 interactions with chain U Hydrophobic interactions: D:T.28, U:V.19, U:A.44, U:T.50, U:I.53 Hydrogen bonds: D:G.25, D:G.25, D:S.51, U:Q.45, U:T.50, U:T.50, U:T.50 TRP.22: 14 residues within 4Å: Chain U: T.23, R.24, G.25, D.27, T.28, S.51 Chain V: G.21, H.31, A.44, Q.45, T.47, H.49, T.50, I.53 12 PLIP interactions: 4 interactions with chain U, 8 interactions with chain V, Hydrophobic interactions: U:T.28, 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, V:T.50 TRP.23: 15 residues within 4Å: Chain V: T.23, R.24, G.25, D.27, T.28, S.51 Chain W: G.21, H.31, H.32, A.44, Q.45, T.47, H.49, T.50, I.53 11 PLIP interactions: 4 interactions with chain V, 7 interactions with chain W, Hydrophobic interactions: V:T.28, W:A.44, W:T.50, W:I.53 Hydrogen bonds: V:G.25, V:G.25, V:S.51, W:Q.45, W:T.50, W:T.50 Salt bridges: W:H.49 TRP.24: 15 residues within 4Å: Chain W: T.23, R.24, G.25, D.27, T.28, S.51 Chain X: G.21, H.31, H.32, A.44, Q.45, T.47, H.49, T.50, I.53 13 PLIP interactions: 9 interactions with chain X, 4 interactions with chain W, Hydrophobic interactions: X:A.44, X:T.50, X:I.53, W:T.28 Hydrogen bonds: X:Q.45, X:Q.45, X:T.50, X:T.50, X:T.50, W:G.25, W:G.25, W:S.51 Salt bridges: X:H.49

18 x ZN: ZINC ION(Non-covalent)

ZN.5: 6 residues within 4Å: Chain E: C.12, K.14, C.15, C.26, A.28, C.29 2 PLIP interactions: 2 interactions with chain E Metal complexes: E:C.12, E:C.26 ZN.6: 5 residues within 4Å: Chain F: C.12, C.15, C.26, C.29, G.33 4 PLIP interactions: 4 interactions with chain F Metal complexes: F:C.12, F:C.15, F:C.26, F:C.29 ZN.7: 4 residues within 4Å: Chain G: C.12, C.15, C.26, C.29 4 PLIP interactions: 4 interactions with chain G Metal complexes: G:C.12, G:C.15, G:C.26, G:C.29 ZN.8: 6 residues within 4Å: Chain H: C.12, K.14, C.15, C.26, A.28, C.29 2 PLIP interactions: 2 interactions with chain H Metal complexes: H:C.12, H:C.26 ZN.9: 5 residues within 4Å: Chain I: C.12, C.15, C.26, C.29, G.33 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.15: 6 residues within 4Å: Chain O: C.12, K.14, C.15, C.26, A.28, C.29 2 PLIP interactions: 2 interactions with chain O Metal complexes: O:C.12, O:C.26 ZN.16: 5 residues within 4Å: Chain P: C.12, C.15, C.26, C.29, G.33 4 PLIP interactions: 4 interactions with chain P Metal complexes: P:C.12, P:C.15, P:C.26, P:C.29 ZN.17: 4 residues within 4Å: Chain Q: C.12, C.15, C.26, C.29 4 PLIP interactions: 4 interactions with chain Q Metal complexes: Q:C.12, Q:C.15, Q:C.26, Q:C.29 ZN.18: 6 residues within 4Å: Chain R: C.12, K.14, C.15, C.26, A.28, C.29 2 PLIP interactions: 2 interactions with chain R Metal complexes: R:C.12, R:C.26 ZN.19: 5 residues within 4Å: Chain S: C.12, C.15, C.26, C.29, G.33 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.25: 6 residues within 4Å: Chain Y: C.12, K.14, C.15, C.26, A.28, C.29 2 PLIP interactions: 2 interactions with chain Y Metal complexes: Y:C.12, Y:C.26 ZN.26: 5 residues within 4Å: Chain Z: C.12, C.15, C.26, C.29, G.33 4 PLIP interactions: 4 interactions with chain Z Metal complexes: Z:C.12, Z:C.15, Z:C.26, Z:C.29 ZN.27: 4 residues within 4Å: Chain 0: C.12, C.15, C.26, C.29 4 PLIP interactions: 4 interactions with chain 0 Metal complexes: 0:C.12, 0:C.15, 0:C.26, 0:C.29 ZN.28: 6 residues within 4Å: Chain 1: C.12, K.14, C.15, C.26, A.28, C.29 2 PLIP interactions: 2 interactions with chain 1 Metal complexes: 1:C.12, 1:C.26 ZN.29: 5 residues within 4Å: Chain 2: C.12, C.15, C.26, C.29, G.33 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: ABCDKLMNUVWX
Tryptophan RNA-binding attenuator protein-inhibitory protein: EFGHIJOPQRSTYZ0123

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

K
A

L
B

M
C

N
D

U
A

V
B

W
C

X
D

E
E

F
F

G
G

H
H

I
I

J
J

O
E

P
F

Q
G

R
H

S
I

T
J

Y
E

Z
F

0
G

1
H

2
I

3
J

Transcription attenuation protein mtrB

Tryptophan RNA-binding attenuator protein-inhibitory protein

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