SMTL ID : 5d8q.1

2.20A resolution structure of BfrB (L68A) from Pseudomonas aeruginosa

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.20 Å

Oligo State

homo-24-mer

Ligands

6 x ARS: ARSENIC(Non-covalent)

ARS.1: 8 residues within 4Å: Chain A: N.148, Q.151 Chain D: N.148, Q.151 Chain G: N.148, Q.151 Chain K: N.148, Q.151 No protein-ligand interaction detected (PLIP) ARS.4: 8 residues within 4Å: Chain B: N.148, Q.151 Chain H: N.148, Q.151 Chain L: N.148, Q.151 Chain R: N.148, Q.151 No protein-ligand interaction detected (PLIP) ARS.7: 8 residues within 4Å: Chain C: N.148, Q.151 Chain E: N.148, Q.151 Chain U: N.148, Q.151 Chain V: N.148, Q.151 No protein-ligand interaction detected (PLIP) ARS.23: 8 residues within 4Å: Chain M: N.148, Q.151 Chain P: N.148, Q.151 Chain S: N.148, Q.151 Chain W: N.148, Q.151 No protein-ligand interaction detected (PLIP) ARS.26: 8 residues within 4Å: Chain F: N.148, Q.151 Chain N: N.148, Q.151 Chain T: N.148, Q.151 Chain X: N.148, Q.151 No protein-ligand interaction detected (PLIP) ARS.29: 8 residues within 4Å: Chain I: N.148, Q.151 Chain J: N.148, Q.151 Chain O: N.148, Q.151 Chain Q: N.148, Q.151 No protein-ligand interaction detected (PLIP)

24 x MG: MAGNESIUM ION(Non-covalent)(Non-functional Binders)

MG.2: 1 residues within 4Å: Chain B: D.34 No protein-ligand interaction detected (PLIP) MG.3: 1 residues within 4Å: Chain A: D.132 No protein-ligand interaction detected (PLIP) MG.6: 1 residues within 4Å: Chain G: D.132 No protein-ligand interaction detected (PLIP) MG.9: 2 residues within 4Å: Chain C: D.132 Chain E: D.34 No protein-ligand interaction detected (PLIP) MG.10: 2 residues within 4Å: Chain B: D.132 Chain H: D.34 No protein-ligand interaction detected (PLIP) MG.11: 3 residues within 4Å: Chain D: D.132, E.135, T.136 No protein-ligand interaction detected (PLIP) MG.13: 1 residues within 4Å: Chain V: E.135 No protein-ligand interaction detected (PLIP) MG.15: 1 residues within 4Å: Chain Q: E.135 No protein-ligand interaction detected (PLIP) MG.16: 1 residues within 4Å: Chain J: D.34 No protein-ligand interaction detected (PLIP) MG.19: 4 residues within 4Å: Chain D: D.34 Chain K: D.132, E.135, T.136 No protein-ligand interaction detected (PLIP) MG.20: 3 residues within 4Å: Chain F: D.34 Chain T: D.132, E.135 No protein-ligand interaction detected (PLIP) MG.22: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) MG.24: 1 residues within 4Å: Chain N: D.34 No protein-ligand interaction detected (PLIP) MG.25: 1 residues within 4Å: Chain M: D.132 No protein-ligand interaction detected (PLIP) MG.28: 1 residues within 4Å: Chain S: D.132 No protein-ligand interaction detected (PLIP) MG.31: 2 residues within 4Å: Chain O: D.132 Chain Q: D.34 No protein-ligand interaction detected (PLIP) MG.32: 2 residues within 4Å: Chain N: D.132 Chain T: D.34 No protein-ligand interaction detected (PLIP) MG.33: 3 residues within 4Å: Chain P: D.132, E.135, T.136 No protein-ligand interaction detected (PLIP) MG.35: 1 residues within 4Å: Chain J: E.135 No protein-ligand interaction detected (PLIP) MG.37: 1 residues within 4Å: Chain E: E.135 No protein-ligand interaction detected (PLIP) MG.38: 1 residues within 4Å: Chain V: D.34 No protein-ligand interaction detected (PLIP) MG.41: 4 residues within 4Å: Chain P: D.34 Chain W: D.132, E.135, T.136 No protein-ligand interaction detected (PLIP) MG.42: 3 residues within 4Å: Chain H: D.132, E.135 Chain R: D.34 No protein-ligand interaction detected (PLIP) MG.44: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP)

14 x HEM: PROTOPORPHYRIN IX CONTAINING FE(Non-covalent)

HEM.5: 18 residues within 4Å: Chain A: L.19, I.22, N.23, F.26, Y.45, I.49, M.52, K.53, A.55, I.59 Chain B: L.19, I.22, N.23, F.26, Y.45, I.49, M.52, K.53 17 PLIP interactions: 9 interactions with chain A, 8 interactions with chain B, Hydrophobic interactions: A:L.19, A:I.22, A:F.26, A:F.26, A:I.49, A:M.52, A:A.55, A:I.59, B:L.19, B:I.22, B:F.26, B:F.26, B:I.49, B:I.49, B:M.52 Salt bridges: A:K.53, B:K.53 HEM.8: 19 residues within 4Å: Chain C: L.19, I.22, N.23, F.26, Y.45, I.49, M.52, K.53, A.55, I.59 Chain H: L.19, I.22, N.23, F.26, Y.45, I.49, M.52, K.53, L.71 18 PLIP interactions: 10 interactions with chain C, 8 interactions with chain H, Hydrophobic interactions: C:L.19, C:I.22, C:I.22, C:F.26, C:I.49, C:M.52, C:A.55, C:I.59, H:L.19, H:F.26, H:F.26, H:F.26, H:I.49, H:M.52, H:L.71 Water bridges: C:K.53 Salt bridges: C:K.53, H:K.53 HEM.12: 19 residues within 4Å: Chain E: L.19, I.22, N.23, F.26, Y.45, I.49, M.52, K.53, L.71 Chain G: L.19, I.22, N.23, F.26, Y.45, I.49, M.52, K.53, A.55, I.59 15 PLIP interactions: 5 interactions with chain E, 10 interactions with chain G, Hydrophobic interactions: E:L.19, E:F.26, E:M.52, E:L.71, G:L.19, G:I.22, G:F.26, G:I.49, G:I.49, G:M.52, G:A.55, G:I.59 Salt bridges: E:K.53, G:K.53 Water bridges: G:K.53 HEM.14: 13 residues within 4Å: Chain I: L.19, I.22, N.23, F.26, Y.45, I.49, M.52, K.53, L.71 Chain U: F.26, Y.45, M.52 Ligands: HEM.36 13 PLIP interactions: 3 interactions with chain U, 10 interactions with chain I, Hydrophobic interactions: U:F.26, U:F.26, I:L.19, I:I.22, I:I.22, I:F.26, I:F.26, I:Y.45, I:I.49, I:L.71 Salt bridges: U:K.53, I:K.53 Hydrogen bonds: I:Y.45 HEM.17: 19 residues within 4Å: Chain D: L.19, I.22, N.23, F.26, Y.45, I.49, M.52, K.53, L.71 Chain J: L.19, I.22, N.23, F.26, Y.45, I.49, M.52, K.53, A.55, I.59 19 PLIP interactions: 10 interactions with chain J, 9 interactions with chain D, Hydrophobic interactions: J:L.19, J:F.26, J:F.26, J:Y.45, J:I.49, J:I.49, J:M.52, J:A.55, J:I.59, D:L.19, D:I.22, D:F.26, D:F.26, D:F.26, D:I.49, D:M.52, D:L.71 Salt bridges: J:K.53, D:K.53 HEM.18: 19 residues within 4Å: Chain F: L.19, I.22, N.23, F.26, Y.45, I.49, M.52, K.53, A.55, I.59 Chain K: L.19, I.22, N.23, F.26, Y.45, I.49, M.52, K.53, L.71 19 PLIP interactions: 10 interactions with chain K, 9 interactions with chain F, Hydrophobic interactions: K:L.19, K:I.22, K:F.26, K:F.26, K:F.26, K:I.49, K:M.52, K:L.71, F:L.19, F:I.22, F:F.26, F:F.26, F:I.49, F:M.52, F:A.55, F:I.59 Water bridges: K:Y.45 Salt bridges: K:K.53, F:K.53 HEM.21: 18 residues within 4Å: Chain L: I.22, N.23, F.26, Y.45, I.49, M.52, K.53, I.59 Chain X: L.19, I.22, N.23, F.26, Y.45, I.49, M.52, K.53, A.55 Ligands: HEM.43 20 PLIP interactions: 11 interactions with chain L, 9 interactions with chain X, Hydrophobic interactions: L:I.22, L:I.22, L:F.26, L:F.26, L:I.49, L:I.49, L:M.52, L:I.59, X:L.19, X:I.22, X:F.26, X:F.26, X:I.49, X:A.55 Water bridges: L:K.53, L:K.53, X:K.53, X:K.53 Salt bridges: L:K.53, X:K.53 HEM.27: 18 residues within 4Å: Chain M: L.19, I.22, N.23, F.26, Y.45, I.49, M.52, K.53, A.55, I.59 Chain N: L.19, I.22, N.23, F.26, Y.45, I.49, M.52, K.53 17 PLIP interactions: 9 interactions with chain M, 8 interactions with chain N, Hydrophobic interactions: M:L.19, M:I.22, M:F.26, M:F.26, M:I.49, M:M.52, M:A.55, M:I.59, N:L.19, N:I.22, N:F.26, N:F.26, N:I.49, N:I.49, N:M.52 Salt bridges: M:K.53, N:K.53 HEM.30: 19 residues within 4Å: Chain O: L.19, I.22, N.23, F.26, Y.45, I.49, M.52, K.53, A.55, I.59 Chain T: L.19, I.22, N.23, F.26, Y.45, I.49, M.52, K.53, L.71 18 PLIP interactions: 8 interactions with chain T, 10 interactions with chain O, Hydrophobic interactions: T:L.19, T:F.26, T:F.26, T:F.26, T:I.49, T:M.52, T:L.71, O:L.19, O:I.22, O:I.22, O:F.26, O:I.49, O:M.52, O:A.55, O:I.59 Salt bridges: T:K.53, O:K.53 Water bridges: O:K.53 HEM.34: 19 residues within 4Å: Chain Q: L.19, I.22, N.23, F.26, Y.45, I.49, M.52, K.53, L.71 Chain S: L.19, I.22, N.23, F.26, Y.45, I.49, M.52, K.53, A.55, I.59 15 PLIP interactions: 5 interactions with chain Q, 10 interactions with chain S, Hydrophobic interactions: Q:L.19, Q:F.26, Q:M.52, Q:L.71, S:L.19, S:I.22, S:F.26, S:I.49, S:I.49, S:M.52, S:A.55, S:I.59 Salt bridges: Q:K.53, S:K.53 Water bridges: S:K.53 HEM.36: 13 residues within 4Å: Chain I: F.26, Y.45, M.52 Chain U: L.19, I.22, N.23, F.26, Y.45, I.49, M.52, K.53, L.71 Ligands: HEM.14 13 PLIP interactions: 10 interactions with chain U, 3 interactions with chain I, Hydrophobic interactions: U:L.19, U:I.22, U:I.22, U:F.26, U:F.26, U:Y.45, U:I.49, U:L.71, I:F.26, I:F.26 Hydrogen bonds: U:Y.45 Salt bridges: U:K.53, I:K.53 HEM.39: 19 residues within 4Å: Chain P: L.19, I.22, N.23, F.26, Y.45, I.49, M.52, K.53, L.71 Chain V: L.19, I.22, N.23, F.26, Y.45, I.49, M.52, K.53, A.55, I.59 19 PLIP interactions: 9 interactions with chain P, 10 interactions with chain V, Hydrophobic interactions: P:L.19, P:I.22, P:F.26, P:F.26, P:F.26, P:I.49, P:M.52, P:L.71, V:L.19, V:F.26, V:F.26, V:Y.45, V:I.49, V:I.49, V:M.52, V:A.55, V:I.59 Salt bridges: P:K.53, V:K.53 HEM.40: 19 residues within 4Å: Chain R: L.19, I.22, N.23, F.26, Y.45, I.49, M.52, K.53, A.55, I.59 Chain W: L.19, I.22, N.23, F.26, Y.45, I.49, M.52, K.53, L.71 19 PLIP interactions: 10 interactions with chain W, 9 interactions with chain R, Hydrophobic interactions: W:L.19, W:I.22, W:F.26, W:F.26, W:F.26, W:I.49, W:M.52, W:L.71, R:L.19, R:I.22, R:F.26, R:F.26, R:I.49, R:M.52, R:A.55, R:I.59 Water bridges: W:Y.45 Salt bridges: W:K.53, R:K.53 HEM.43: 18 residues within 4Å: Chain L: L.19, I.22, N.23, F.26, Y.45, I.49, M.52, K.53, A.55 Chain X: I.22, N.23, F.26, Y.45, I.49, M.52, K.53, I.59 Ligands: HEM.21 20 PLIP interactions: 11 interactions with chain X, 9 interactions with chain L, Hydrophobic interactions: X:I.22, X:I.22, X:F.26, X:F.26, X:I.49, X:I.49, X:M.52, X:I.59, L:L.19, L:I.22, L:F.26, L:F.26, L:I.49, L:A.55 Water bridges: X:K.53, X:K.53, L:K.53, L:K.53 Salt bridges: X:K.53, L:K.53

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Wang, Y. et al., Characterization of the Bacterioferritin/Bacterioferritin Associated Ferredoxin Protein-Protein Interaction in Solution and Determination of Binding Energy Hot Spots. Biochemistry (2015)

Release Date

2015-09-23

Peptides

Ferroxidase: ABCDEFGHIJKLMNOPQRSTUVWX

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

E
E

F
F

G
G

H
H

I
I

J
J

K
K

L
L

M
A

N
B

O
C

P
D

Q
E

R
F

S
G

T
H

U
I

V
J

W
K

X
L

Ferroxidase