SMTL ID : 1xcb.5 (4 other biounits)

X-ray Structure of a Rex-Family Repressor/NADH Complex from Thermus Aquaticus

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.90 Å

Oligo State

homo-14-mer

Ligands

10 x CA: CALCIUM ION(Non-covalent)(Non-functional Binders)

CA.1: 2 residues within 4Å: Chain A: R.108, G.139 No protein-ligand interaction detected (PLIP) CA.3: 3 residues within 4Å: Chain B: G.139 Chain C: G.139, E.142 No protein-ligand interaction detected (PLIP) CA.6: 2 residues within 4Å: Chain D: R.108, G.139 No protein-ligand interaction detected (PLIP) CA.8: 3 residues within 4Å: Chain E: G.139 Chain F: G.139, E.142 No protein-ligand interaction detected (PLIP) CA.11: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) CA.13: 3 residues within 4Å: Chain H: G.139 Chain I: G.139, E.142 No protein-ligand interaction detected (PLIP) CA.14: 2 residues within 4Å: Chain H: V.187, D.188 No protein-ligand interaction detected (PLIP) CA.18: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) CA.20: 3 residues within 4Å: Chain L: G.139 Chain M: G.139, E.142 No protein-ligand interaction detected (PLIP) CA.21: 2 residues within 4Å: Chain L: V.187, D.188 No protein-ligand interaction detected (PLIP)

14 x NAD: NICOTINAMIDE-ADENINE-DINUCLEOTIDE(Non-covalent)

NAD.2: 24 residues within 4Å: Chain A: V.86, G.87, M.88, G.89, R.90, L.91, D.112, V.113, D.114, K.117, V.130, T.147, V.148, P.149, A.152, A.156, F.171, A.172, P.173, V.187, F.189 Chain B: A.94, L.95, Y.98 16 PLIP interactions: 13 interactions with chain A, 3 interactions with chain B Hydrophobic interactions: A:L.91, B:L.95, B:Y.98, B:Y.98 Hydrogen bonds: A:R.90, A:L.91, A:D.112, A:V.113, A:D.114, A:K.117, A:K.117, A:V.148, A:F.171, A:F.189 Salt bridges: A:R.90, A:R.90 NAD.4: 27 residues within 4Å: Chain A: A.94, L.95, Y.98, P.99, F.189 Chain B: V.86, G.87, M.88, G.89, R.90, L.91, D.112, V.113, D.114, K.117, V.130, T.147, V.148, P.149, R.150, A.152, F.171, A.172, P.173, V.187, D.188, F.189 13 PLIP interactions: 11 interactions with chain B, 2 interactions with chain A Hydrophobic interactions: B:L.91, A:L.95, A:Y.98 Hydrogen bonds: B:R.90, B:L.91, B:V.113, B:K.117, B:K.117, B:V.148, B:F.171, B:F.189 Salt bridges: B:R.90, B:R.90 NAD.5: 25 residues within 4Å: Chain C: V.86, G.87, M.88, G.89, R.90, L.91, D.112, V.113, D.114, K.117, V.130, T.147, V.148, P.149, R.150, A.152, F.171, A.172, P.173, V.187, F.189 Chain F: A.94, L.95, Y.98, F.189 14 PLIP interactions: 12 interactions with chain C, 2 interactions with chain F Hydrophobic interactions: C:L.91, F:L.95, F:Y.98 Hydrogen bonds: C:R.90, C:L.91, C:V.113, C:K.117, C:K.117, C:V.148, C:V.187, C:D.188, C:F.189 Salt bridges: C:R.90, C:R.90 NAD.7: 24 residues within 4Å: Chain D: V.86, G.87, M.88, G.89, R.90, L.91, D.112, V.113, D.114, K.117, V.130, T.147, V.148, P.149, A.152, A.156, F.171, A.172, P.173, V.187, F.189 Chain E: A.94, L.95, Y.98 15 PLIP interactions: 3 interactions with chain E, 12 interactions with chain D Hydrophobic interactions: E:L.95, E:Y.98, E:Y.98, D:L.91 Hydrogen bonds: D:R.90, D:L.91, D:V.113, D:D.114, D:K.117, D:K.117, D:V.148, D:F.171, D:F.189 Salt bridges: D:R.90, D:R.90 NAD.9: 27 residues within 4Å: Chain D: A.94, L.95, Y.98, P.99, F.189 Chain E: V.86, G.87, M.88, G.89, R.90, L.91, D.112, V.113, D.114, K.117, V.130, T.147, V.148, P.149, R.150, A.152, F.171, A.172, P.173, V.187, D.188, F.189 13 PLIP interactions: 11 interactions with chain E, 2 interactions with chain D Hydrophobic interactions: E:L.91, D:L.95, D:Y.98 Hydrogen bonds: E:R.90, E:L.91, E:V.113, E:K.117, E:K.117, E:V.148, E:F.171, E:F.189 Salt bridges: E:R.90, E:R.90 NAD.10: 25 residues within 4Å: Chain C: A.94, L.95, Y.98, F.189 Chain F: V.86, G.87, M.88, G.89, R.90, L.91, D.112, V.113, D.114, K.117, V.130, T.147, V.148, P.149, R.150, A.152, F.171, A.172, P.173, V.187, F.189 12 PLIP interactions: 2 interactions with chain C, 10 interactions with chain F Hydrophobic interactions: C:L.95, C:Y.98, F:L.91 Hydrogen bonds: F:R.90, F:L.91, F:V.113, F:K.117, F:K.117, F:V.148, F:V.187 Salt bridges: F:R.90, F:R.90 NAD.12: 23 residues within 4Å: Chain G: V.86, G.87, M.88, G.89, R.90, L.91, D.112, V.113, D.114, K.117, V.130, T.147, V.148, P.149, R.150, F.171, A.172, P.173, V.187, D.188, F.189 Chain H: A.94, Y.98 14 PLIP interactions: 12 interactions with chain G, 2 interactions with chain H Hydrophobic interactions: G:L.91, H:Y.98, H:Y.98 Hydrogen bonds: G:R.90, G:L.91, G:V.113, G:D.114, G:K.117, G:K.117, G:V.148, G:V.187, G:F.189 Salt bridges: G:R.90, G:R.90 NAD.15: 26 residues within 4Å: Chain G: A.94, L.95, Y.98, F.189 Chain H: V.86, G.87, M.88, G.89, R.90, L.91, D.112, V.113, D.114, K.117, V.130, T.147, V.148, P.149, R.150, A.152, F.171, A.172, P.173, V.187, D.188, F.189 13 PLIP interactions: 11 interactions with chain H, 2 interactions with chain G Hydrophobic interactions: H:L.91, G:L.95, G:Y.98 Hydrogen bonds: H:R.90, H:L.91, H:V.113, H:K.117, H:K.117, H:V.148, H:F.171, H:F.189 Salt bridges: H:R.90, H:R.90 NAD.16: 25 residues within 4Å: Chain I: V.86, G.87, M.88, G.89, R.90, L.91, D.112, V.113, D.114, K.117, V.130, T.147, V.148, P.149, R.150, A.152, F.171, A.172, P.173, V.187, D.188, F.189 Chain J: A.94, L.95, Y.98 14 PLIP interactions: 12 interactions with chain I, 2 interactions with chain J Hydrophobic interactions: I:L.91, J:L.95, J:Y.98 Hydrogen bonds: I:R.90, I:L.91, I:V.113, I:D.114, I:K.117, I:K.117, I:V.148, I:V.187, I:F.189 Salt bridges: I:R.90, I:R.90 NAD.17: 24 residues within 4Å: Chain I: A.94, Y.98 Chain J: V.86, G.87, M.88, G.89, R.90, L.91, D.112, V.113, D.114, K.117, V.130, T.147, V.148, P.149, R.150, A.152, F.171, A.172, P.173, V.187, D.188, F.189 13 PLIP interactions: 12 interactions with chain J, 1 interactions with chain I Hydrophobic interactions: J:L.91, I:Y.98 Hydrogen bonds: J:R.90, J:L.91, J:V.113, J:D.114, J:K.117, J:K.117, J:V.148, J:V.187, J:F.189 Salt bridges: J:R.90, J:R.90 NAD.19: 23 residues within 4Å: Chain K: V.86, G.87, M.88, G.89, R.90, L.91, D.112, V.113, D.114, K.117, V.130, T.147, V.148, P.149, R.150, F.171, A.172, P.173, V.187, D.188, F.189 Chain L: A.94, Y.98 14 PLIP interactions: 12 interactions with chain K, 2 interactions with chain L Hydrophobic interactions: K:L.91, L:Y.98, L:Y.98 Hydrogen bonds: K:R.90, K:L.91, K:V.113, K:D.114, K:K.117, K:K.117, K:V.148, K:V.187, K:F.189 Salt bridges: K:R.90, K:R.90 NAD.22: 26 residues within 4Å: Chain K: A.94, L.95, Y.98, F.189 Chain L: V.86, G.87, M.88, G.89, R.90, L.91, D.112, V.113, D.114, K.117, V.130, T.147, V.148, P.149, R.150, A.152, F.171, A.172, P.173, V.187, D.188, F.189 13 PLIP interactions: 11 interactions with chain L, 2 interactions with chain K Hydrophobic interactions: L:L.91, K:L.95, K:Y.98 Hydrogen bonds: L:R.90, L:L.91, L:V.113, L:K.117, L:K.117, L:V.148, L:F.171, L:F.189 Salt bridges: L:R.90, L:R.90 NAD.23: 25 residues within 4Å: Chain M: V.86, G.87, M.88, G.89, R.90, L.91, D.112, V.113, D.114, K.117, V.130, T.147, V.148, P.149, R.150, A.152, F.171, A.172, P.173, V.187, D.188, F.189 Chain N: A.94, L.95, Y.98 14 PLIP interactions: 12 interactions with chain M, 2 interactions with chain N Hydrophobic interactions: M:L.91, N:L.95, N:Y.98 Hydrogen bonds: M:R.90, M:L.91, M:V.113, M:D.114, M:K.117, M:K.117, M:V.148, M:V.187, M:F.189 Salt bridges: M:R.90, M:R.90 NAD.24: 24 residues within 4Å: Chain M: A.94, Y.98 Chain N: V.86, G.87, M.88, G.89, R.90, L.91, D.112, V.113, D.114, K.117, V.130, T.147, V.148, P.149, R.150, A.152, F.171, A.172, P.173, V.187, D.188, F.189 13 PLIP interactions: 12 interactions with chain N, 1 interactions with chain M Hydrophobic interactions: N:L.91, M:Y.98 Hydrogen bonds: N:R.90, N:L.91, N:V.113, N:D.114, N:K.117, N:K.117, N:V.148, N:V.187, N:F.189 Salt bridges: N:R.90, N:R.90

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Sickmier, E.A. et al., X-Ray Structure of a Rex-Family Repressor/NADH Complex: Insights into the Mechanism of Redox Sensing. Structure (2005)

Release Date

2004-09-28

Peptides

Redox-sensing transcriptional repressor rex: ABCDEFGHIJKLMN

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
G

D
A

E
B

F
G

G
C

H
D

I
E

J
F

K
C

L
D

M
E

N
F

Redox-sensing transcriptional repressor rex

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