SMTL ID : 2zd0.1

Crystal structures and thermostability of mutant TRAP3 A5 (ENGINEERED TRAP)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.50 Å

Oligo State

homo-12-mer

Ligands

12 x TRP: TRYPTOPHAN(Non-covalent)

TRP.1: 15 residues within 4Å: Chain A: T.23, R.24, G.25, D.27, T.28, S.51 Chain B: 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 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:T.28, A:S.51, B:Q.45, B:Q.45, B:T.47, B:T.50 Water bridges: B:H.49 TRP.2: 14 residues within 4Å: Chain B: T.23, R.24, G.25, D.27, T.28, S.51 Chain C: 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 C, Hydrophobic interactions: B:T.28, C:A.44, C:T.50, C:I.53 Hydrogen bonds: B:G.25, B:T.28, B:S.51, C:Q.45, C:T.47, C:T.50 Water bridges: C:E.48, C:H.49 TRP.3: 15 residues within 4Å: Chain C: T.23, R.24, G.25, D.27, T.28, S.51 Chain G: V.19, I.20, G.21, H.32, A.44, Q.45, T.47, T.50, I.53 8 PLIP interactions: 6 interactions with chain G, 2 interactions with chain C, Hydrophobic interactions: G:V.19, G:I.53 Hydrogen bonds: G:Q.45, G:T.47, G:T.47, G:T.47, C:G.25, C:S.51 TRP.4: 15 residues within 4Å: Chain D: T.23, R.24, G.25, D.27, T.28, S.51 Chain E: 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 E, 4 interactions with chain D, Hydrophobic interactions: E:A.44, E:T.50, E:I.53, D:T.28 Hydrogen bonds: E:Q.45, E:Q.45, E:T.47, E:T.50, D:G.25, D:T.28, D:S.51 Water bridges: E:H.49 TRP.5: 14 residues within 4Å: Chain E: T.23, R.24, G.25, D.27, T.28, S.51 Chain F: G.21, H.31, 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:A.44, F:T.50, F:I.53, E:T.28 Hydrogen bonds: F:Q.45, F:T.47, F:T.50, E:G.25, E:T.28, E:S.51 Water bridges: F:E.48, F:H.49 TRP.6: 15 residues within 4Å: Chain F: T.23, R.24, G.25, D.27, T.28, S.51 Chain J: V.19, I.20, G.21, H.32, A.44, Q.45, T.47, T.50, I.53 8 PLIP interactions: 2 interactions with chain F, 6 interactions with chain J, Hydrogen bonds: F:G.25, F:S.51, J:Q.45, J:T.47, J:T.47, J:T.47 Hydrophobic interactions: J:V.19, J:I.53 TRP.7: 15 residues within 4Å: Chain G: T.23, R.24, G.25, D.27, T.28, S.51 Chain H: 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 H, 4 interactions with chain G, Hydrophobic interactions: H:A.44, H:T.50, H:I.53, G:T.28 Hydrogen bonds: H:Q.45, H:Q.45, H:T.47, H:T.50, G:G.25, G:T.28, G:S.51 Water bridges: H:H.49 TRP.8: 14 residues within 4Å: Chain H: T.23, R.24, G.25, D.27, T.28, S.51 Chain I: G.21, H.31, A.44, Q.45, T.47, H.49, T.50, I.53 12 PLIP interactions: 8 interactions with chain I, 4 interactions with chain H, Hydrophobic interactions: I:A.44, I:T.50, I:I.53, H:T.28 Hydrogen bonds: I:Q.45, I:T.47, I:T.50, H:G.25, H:T.28, H:S.51 Water bridges: I:E.48, I:H.49 TRP.9: 15 residues within 4Å: Chain D: V.19, I.20, G.21, 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 8 PLIP interactions: 2 interactions with chain I, 6 interactions with chain D, Hydrogen bonds: I:G.25, I:S.51, D:Q.45, D:T.47, D:T.47, D:T.47 Hydrophobic interactions: D:V.19, D:I.53 TRP.10: 15 residues within 4Å: Chain J: T.23, R.24, G.25, D.27, T.28, S.51 Chain K: 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 J, 8 interactions with chain K, Hydrophobic interactions: J:T.28, K:A.44, K:T.50, K:I.53 Hydrogen bonds: J:G.25, J:T.28, J:S.51, K:Q.45, K:Q.45, K:T.47, K:T.50 Water bridges: K:H.49 TRP.11: 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: 8 interactions with chain L, 4 interactions with chain K, Hydrophobic interactions: L:A.44, L:T.50, L:I.53, K:T.28 Hydrogen bonds: L:Q.45, L:T.47, L:T.50, K:G.25, K:T.28, K:S.51 Water bridges: L:E.48, L:H.49 TRP.12: 15 residues within 4Å: Chain A: V.19, I.20, G.21, H.32, A.44, Q.45, T.47, T.50, I.53 Chain L: T.23, R.24, G.25, D.27, T.28, S.51 8 PLIP interactions: 2 interactions with chain L, 6 interactions with chain A Hydrogen bonds: L:G.25, L:S.51, A:Q.45, A:T.47, A:T.47, A:T.47 Hydrophobic interactions: A:V.19, A:I.53

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Watanabe, M. et al., Intersubunit linker length as a modifier of protein stability: crystal structures and thermostability of mutant TRAP. Protein Sci. (2008)

Release Date

2008-04-29

Peptides

Transcription attenuation protein mtrB: ABCDEFGHIJKL

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
A

E
B

F
C

G
A

H
B

I
C

J
A

K
B

L
C

Transcription attenuation protein mtrB