SMTL ID : 3isf.1

Structure of non-mineralized Bfrb (as-isolated) from Pseudomonas aeruginosa to 2.07A Resolution

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.07 Å

Oligo State

homo-24-mer

Ligands

8 x K: POTASSIUM ION(Non-covalent)

K.1: 9 residues within 4Å: Chain A: N.148, Q.151 Chain D: N.148, Q.151 Chain S: N.148, Q.151 Chain V: N.148, Q.151 Ligands: K.19 No protein-ligand interaction detected (PLIP) K.3: 8 residues within 4Å: Chain B: N.148, Q.151 Chain E: N.148, Q.151 Chain F: N.148, Q.151 Chain I: N.148, Q.151 No protein-ligand interaction detected (PLIP) K.7: 9 residues within 4Å: Chain G: N.148, Q.151 Chain J: N.148, Q.151 Chain M: N.148, Q.151 Chain P: N.148, Q.151 Ligands: K.13 No protein-ligand interaction detected (PLIP) K.9: 8 residues within 4Å: Chain C: N.148, Q.151 Chain H: N.148, Q.151 Chain K: N.148, Q.151 Chain L: N.148, Q.151 No protein-ligand interaction detected (PLIP) K.13: 9 residues within 4Å: Chain G: N.148, Q.151 Chain J: N.148, Q.151 Chain M: N.148, Q.151 Chain P: N.148, Q.151 Ligands: K.7 No protein-ligand interaction detected (PLIP) K.15: 8 residues within 4Å: Chain N: N.148, Q.151 Chain Q: N.148, Q.151 Chain R: N.148, Q.151 Chain U: N.148, Q.151 No protein-ligand interaction detected (PLIP) K.19: 9 residues within 4Å: Chain A: N.148, Q.151 Chain D: N.148, Q.151 Chain S: N.148, Q.151 Chain V: N.148, Q.151 Ligands: K.1 No protein-ligand interaction detected (PLIP) K.21: 8 residues within 4Å: Chain O: N.148, Q.151 Chain T: N.148, Q.151 Chain W: N.148, Q.151 Chain X: N.148, Q.151 No protein-ligand interaction detected (PLIP)

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

HEM.2: 16 residues within 4Å: Chain A: L.19, I.22, N.23, F.26, Y.45, I.49, M.52, K.53 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 B, 8 interactions with chain A, Hydrophobic interactions: B:L.19, B:I.22, B:I.22, B:F.26, B:F.26, B:F.26, B:I.49, B:M.52, A:L.19, A:I.22, A:F.26, A:F.26, A:I.49, A:I.49, A:M.52 Salt bridges: B:K.53, A:K.53 HEM.4: 17 residues within 4Å: Chain C: L.19, I.22, N.23, F.26, Y.45, I.49, M.52, K.53 Chain D: 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 D, 8 interactions with chain C, Hydrophobic interactions: D:L.19, D:I.22, D:F.26, D:F.26, D:F.26, D:I.49, D:I.49, D:M.52, D:L.71, C:L.19, C:I.22, C:I.22, C:F.26, C:F.26, C:I.49, C:M.52 Salt bridges: D:K.53, C:K.53 HEM.5: 18 residues within 4Å: Chain E: L.19, I.22, N.23, F.26, Y.45, I.49, M.52, L.71 Chain K: L.19, I.22, N.23, F.26, Y.45, I.49, M.52, K.53, A.55 Ligands: HEM.11 19 PLIP interactions: 8 interactions with chain K, 11 interactions with chain E, Hydrophobic interactions: K:L.19, K:I.22, K:F.26, K:F.26, K:I.49, K:M.52, K:A.55, E:L.19, E:I.22, E:I.22, E:F.26, E:F.26, E:F.26, E:I.49, E:I.49, E:M.52, E:L.71 Salt bridges: K:K.53, E:K.53 HEM.6: 19 residues within 4Å: Chain F: L.19, I.22, N.23, F.26, Y.45, I.49, M.52, K.53 Chain R: L.19, I.22, N.23, F.26, Y.45, I.49, M.52, K.53, A.55, D.56 Ligands: HEM.18 17 PLIP interactions: 9 interactions with chain R, 8 interactions with chain F, Hydrophobic interactions: R:L.19, R:I.22, R:I.22, R:F.26, R:F.26, R:I.49, R:M.52, R:A.55, F:L.19, F:I.22, F:I.22, F:F.26, F:F.26, F:I.49, F:M.52 Salt bridges: R:K.53, F:K.53 HEM.8: 16 residues within 4Å: Chain G: L.19, I.22, N.23, F.26, Y.45, I.49, M.52, K.53 Chain H: L.19, I.22, N.23, F.26, Y.45, I.49, M.52, K.53 17 PLIP interactions: 9 interactions with chain H, 8 interactions with chain G, Hydrophobic interactions: H:L.19, H:I.22, H:I.22, H:F.26, H:F.26, H:F.26, H:I.49, H:M.52, G:L.19, G:I.22, G:F.26, G:F.26, G:I.49, G:I.49, G:M.52 Salt bridges: H:K.53, G:K.53 HEM.10: 17 residues within 4Å: Chain I: L.19, I.22, N.23, F.26, Y.45, I.49, M.52, K.53 Chain J: 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 J, 8 interactions with chain I, Hydrophobic interactions: J:L.19, J:I.22, J:F.26, J:F.26, J:F.26, J:I.49, J:I.49, J:M.52, J:L.71, I:L.19, I:I.22, I:I.22, I:F.26, I:F.26, I:I.49, I:M.52 Salt bridges: J:K.53, I:K.53 HEM.11: 18 residues within 4Å: Chain E: L.19, I.22, N.23, F.26, Y.45, I.49, M.52, K.53, A.55 Chain K: L.19, I.22, N.23, F.26, Y.45, I.49, M.52, L.71 Ligands: HEM.5 19 PLIP interactions: 11 interactions with chain K, 8 interactions with chain E, Hydrophobic interactions: K:L.19, K:I.22, K:I.22, K:F.26, K:F.26, K:F.26, K:I.49, K:I.49, K:M.52, K:L.71, E:L.19, E:I.22, E:F.26, E:F.26, E:I.49, E:M.52, E:A.55 Salt bridges: K:K.53, E:K.53 HEM.12: 19 residues within 4Å: Chain L: L.19, I.22, N.23, F.26, Y.45, I.49, M.52, K.53 Chain X: L.19, I.22, N.23, F.26, Y.45, I.49, M.52, K.53, A.55, D.56 Ligands: HEM.24 17 PLIP interactions: 9 interactions with chain X, 8 interactions with chain L, Hydrophobic interactions: X:L.19, X:I.22, X:I.22, X:F.26, X:F.26, X:I.49, X:M.52, X:A.55, L:L.19, L:I.22, L:I.22, L:F.26, L:F.26, L:I.49, L:M.52 Salt bridges: X:K.53, L:K.53 HEM.14: 16 residues within 4Å: Chain M: L.19, I.22, N.23, F.26, Y.45, I.49, M.52, K.53 Chain N: L.19, I.22, N.23, F.26, Y.45, I.49, M.52, K.53 17 PLIP interactions: 8 interactions with chain M, 9 interactions with chain N, Hydrophobic interactions: M:L.19, M:I.22, M:F.26, M:F.26, M:I.49, M:I.49, M:M.52, N:L.19, N:I.22, N:I.22, N:F.26, N:F.26, N:F.26, N:I.49, N:M.52 Salt bridges: M:K.53, N:K.53 HEM.16: 17 residues within 4Å: Chain O: L.19, I.22, N.23, F.26, Y.45, I.49, M.52, K.53 Chain P: 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 P, 8 interactions with chain O, Hydrophobic interactions: P:L.19, P:I.22, P:F.26, P:F.26, P:F.26, P:I.49, P:I.49, P:M.52, P:L.71, O:L.19, O:I.22, O:I.22, O:F.26, O:F.26, O:I.49, O:M.52 Salt bridges: P:K.53, O:K.53 HEM.17: 18 residues within 4Å: Chain Q: L.19, I.22, N.23, F.26, Y.45, I.49, M.52, L.71 Chain W: L.19, I.22, N.23, F.26, Y.45, I.49, M.52, K.53, A.55 Ligands: HEM.23 19 PLIP interactions: 11 interactions with chain Q, 8 interactions with chain W, Hydrophobic interactions: Q:L.19, Q:I.22, Q:I.22, Q:F.26, Q:F.26, Q:F.26, Q:I.49, Q:I.49, Q:M.52, Q:L.71, W:L.19, W:I.22, W:F.26, W:F.26, W:I.49, W:M.52, W:A.55 Salt bridges: Q:K.53, W: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, D.56 Chain R: L.19, I.22, N.23, F.26, Y.45, I.49, M.52, K.53 Ligands: HEM.6 17 PLIP interactions: 9 interactions with chain F, 8 interactions with chain R, Hydrophobic interactions: F:L.19, F:I.22, F:I.22, F:F.26, F:F.26, F:I.49, F:M.52, F:A.55, R:L.19, R:I.22, R:I.22, R:F.26, R:F.26, R:I.49, R:M.52 Salt bridges: F:K.53, R:K.53 HEM.20: 16 residues within 4Å: Chain S: L.19, I.22, N.23, F.26, Y.45, I.49, M.52, K.53 Chain T: L.19, I.22, N.23, F.26, Y.45, I.49, M.52, K.53 17 PLIP interactions: 8 interactions with chain S, 9 interactions with chain T, Hydrophobic interactions: S:L.19, S:I.22, S:F.26, S:F.26, S:I.49, S:I.49, S:M.52, T:L.19, T:I.22, T:I.22, T:F.26, T:F.26, T:F.26, T:I.49, T:M.52 Salt bridges: S:K.53, T:K.53 HEM.22: 17 residues within 4Å: Chain U: L.19, I.22, N.23, F.26, Y.45, I.49, M.52, K.53 Chain V: 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 V, 8 interactions with chain U, Hydrophobic interactions: V:L.19, V:I.22, V:F.26, V:F.26, V:F.26, V:I.49, V:I.49, V:M.52, V:L.71, U:L.19, U:I.22, U:I.22, U:F.26, U:F.26, U:I.49, U:M.52 Salt bridges: V:K.53, U:K.53 HEM.23: 18 residues within 4Å: Chain Q: L.19, I.22, N.23, F.26, Y.45, I.49, M.52, K.53, A.55 Chain W: L.19, I.22, N.23, F.26, Y.45, I.49, M.52, L.71 Ligands: HEM.17 19 PLIP interactions: 11 interactions with chain W, 8 interactions with chain Q, Hydrophobic interactions: W:L.19, W:I.22, W:I.22, W:F.26, W:F.26, W:F.26, W:I.49, W:I.49, W:M.52, W:L.71, Q:L.19, Q:I.22, Q:F.26, Q:F.26, Q:I.49, Q:M.52, Q:A.55 Salt bridges: W:K.53, Q:K.53 HEM.24: 19 residues within 4Å: Chain L: L.19, I.22, N.23, F.26, Y.45, I.49, M.52, K.53, A.55, D.56 Chain X: L.19, I.22, N.23, F.26, Y.45, I.49, M.52, K.53 Ligands: HEM.12 17 PLIP interactions: 9 interactions with chain L, 8 interactions with chain X, Hydrophobic interactions: L:L.19, L:I.22, L:I.22, L:F.26, L:F.26, L:I.49, L:M.52, L:A.55, X:L.19, X:I.22, X:I.22, X:F.26, X:F.26, X:I.49, X:M.52 Salt bridges: L:K.53, X:K.53

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Weeratunga, S.K. et al., Structural Studies of Bacterioferritin B from Pseudomonas aeruginosa Suggest a Gating Mechanism for Iron Uptake via the Ferroxidase Center. Biochemistry (2010)

Release Date

2010-02-02

Peptides

Bacterioferritin: ABCDEFGHIJKLMNOPQRSTUVWX

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

E
E

F
F

G
A

H
B

I
C

J
D

K
E

L
F

M
A

N
B

O
C

P
D

Q
E

R
F

S
A

T
B

U
C

V
D

W
E

X
F

Bacterioferritin

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