SMTL ID : 1bcf.1

THE STRUCTURE OF A UNIQUE, TWO-FOLD SYMMETRIC, HAEM-BINDING SITE

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.90 Å

Oligo State

homo-24-mer

Ligands

48 x MN: MANGANESE (II) ION(Non-covalent)

MN.1: 4 residues within 4Å: Chain A: E.51, E.94, E.127, H.130 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:E.51, A:E.94, A:E.94, A:E.127, A:H.130 MN.2: 4 residues within 4Å: Chain A: E.18, E.51, H.54, E.127 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:E.18, A:E.18, A:E.51, A:H.54, A:E.127 MN.4: 4 residues within 4Å: Chain B: E.51, E.94, E.127, H.130 5 PLIP interactions: 5 interactions with chain B Metal complexes: B:E.51, B:E.94, B:E.94, B:E.127, B:H.130 MN.5: 4 residues within 4Å: Chain B: E.18, E.51, H.54, E.127 5 PLIP interactions: 5 interactions with chain B Metal complexes: B:E.18, B:E.18, B:E.51, B:H.54, B:E.127 MN.6: 4 residues within 4Å: Chain C: E.51, E.94, E.127, H.130 5 PLIP interactions: 5 interactions with chain C Metal complexes: C:E.51, C:E.94, C:E.94, C:E.127, C:H.130 MN.7: 4 residues within 4Å: Chain C: E.18, E.51, H.54, E.127 5 PLIP interactions: 5 interactions with chain C Metal complexes: C:E.18, C:E.18, C:E.51, C:H.54, C:E.127 MN.9: 4 residues within 4Å: Chain D: E.51, E.94, E.127, H.130 5 PLIP interactions: 5 interactions with chain D Metal complexes: D:E.51, D:E.94, D:E.94, D:E.127, D:H.130 MN.10: 4 residues within 4Å: Chain D: E.18, E.51, H.54, E.127 5 PLIP interactions: 5 interactions with chain D Metal complexes: D:E.18, D:E.18, D:E.51, D:H.54, D:E.127 MN.11: 4 residues within 4Å: Chain E: E.51, E.94, E.127, H.130 5 PLIP interactions: 5 interactions with chain E Metal complexes: E:E.51, E:E.94, E:E.94, E:E.127, E:H.130 MN.12: 4 residues within 4Å: Chain E: E.18, E.51, H.54, E.127 5 PLIP interactions: 5 interactions with chain E Metal complexes: E:E.18, E:E.18, E:E.51, E:H.54, E:E.127 MN.14: 4 residues within 4Å: Chain F: E.51, E.94, E.127, H.130 5 PLIP interactions: 5 interactions with chain F Metal complexes: F:E.51, F:E.94, F:E.94, F:E.127, F:H.130 MN.15: 4 residues within 4Å: Chain F: E.18, E.51, H.54, E.127 5 PLIP interactions: 5 interactions with chain F Metal complexes: F:E.18, F:E.18, F:E.51, F:H.54, F:E.127 MN.16: 4 residues within 4Å: Chain G: E.51, E.94, E.127, H.130 5 PLIP interactions: 5 interactions with chain G Metal complexes: G:E.51, G:E.94, G:E.94, G:E.127, G:H.130 MN.17: 4 residues within 4Å: Chain G: E.18, E.51, H.54, E.127 5 PLIP interactions: 5 interactions with chain G Metal complexes: G:E.18, G:E.18, G:E.51, G:H.54, G:E.127 MN.19: 4 residues within 4Å: Chain H: E.51, E.94, E.127, H.130 5 PLIP interactions: 5 interactions with chain H Metal complexes: H:E.51, H:E.94, H:E.94, H:E.127, H:H.130 MN.20: 4 residues within 4Å: Chain H: E.18, E.51, H.54, E.127 5 PLIP interactions: 5 interactions with chain H Metal complexes: H:E.18, H:E.18, H:E.51, H:H.54, H:E.127 MN.21: 4 residues within 4Å: Chain I: E.51, E.94, E.127, H.130 5 PLIP interactions: 5 interactions with chain I Metal complexes: I:E.51, I:E.94, I:E.94, I:E.127, I:H.130 MN.22: 4 residues within 4Å: Chain I: E.18, E.51, H.54, E.127 5 PLIP interactions: 5 interactions with chain I Metal complexes: I:E.18, I:E.18, I:E.51, I:H.54, I:E.127 MN.24: 4 residues within 4Å: Chain J: E.51, E.94, E.127, H.130 5 PLIP interactions: 5 interactions with chain J Metal complexes: J:E.51, J:E.94, J:E.94, J:E.127, J:H.130 MN.25: 4 residues within 4Å: Chain J: E.18, E.51, H.54, E.127 5 PLIP interactions: 5 interactions with chain J Metal complexes: J:E.18, J:E.18, J:E.51, J:H.54, J:E.127 MN.26: 4 residues within 4Å: Chain K: E.51, E.94, E.127, H.130 5 PLIP interactions: 5 interactions with chain K Metal complexes: K:E.51, K:E.94, K:E.94, K:E.127, K:H.130 MN.27: 4 residues within 4Å: Chain K: E.18, E.51, H.54, E.127 5 PLIP interactions: 5 interactions with chain K Metal complexes: K:E.18, K:E.18, K:E.51, K:H.54, K:E.127 MN.29: 4 residues within 4Å: Chain L: E.51, E.94, E.127, H.130 5 PLIP interactions: 5 interactions with chain L Metal complexes: L:E.51, L:E.94, L:E.94, L:E.127, L:H.130 MN.30: 4 residues within 4Å: Chain L: E.18, E.51, H.54, E.127 5 PLIP interactions: 5 interactions with chain L Metal complexes: L:E.18, L:E.18, L:E.51, L:H.54, L:E.127 MN.31: 4 residues within 4Å: Chain M: E.51, E.94, E.127, H.130 5 PLIP interactions: 5 interactions with chain M Metal complexes: M:E.51, M:E.94, M:E.94, M:E.127, M:H.130 MN.32: 4 residues within 4Å: Chain M: E.18, E.51, H.54, E.127 5 PLIP interactions: 5 interactions with chain M Metal complexes: M:E.18, M:E.18, M:E.51, M:H.54, M:E.127 MN.34: 4 residues within 4Å: Chain N: E.51, E.94, E.127, H.130 5 PLIP interactions: 5 interactions with chain N Metal complexes: N:E.51, N:E.94, N:E.94, N:E.127, N:H.130 MN.35: 4 residues within 4Å: Chain N: E.18, E.51, H.54, E.127 5 PLIP interactions: 5 interactions with chain N Metal complexes: N:E.18, N:E.18, N:E.51, N:H.54, N:E.127 MN.36: 4 residues within 4Å: Chain O: E.51, E.94, E.127, H.130 5 PLIP interactions: 5 interactions with chain O Metal complexes: O:E.51, O:E.94, O:E.94, O:E.127, O:H.130 MN.37: 4 residues within 4Å: Chain O: E.18, E.51, H.54, E.127 5 PLIP interactions: 5 interactions with chain O Metal complexes: O:E.18, O:E.18, O:E.51, O:H.54, O:E.127 MN.39: 4 residues within 4Å: Chain P: E.51, E.94, E.127, H.130 5 PLIP interactions: 5 interactions with chain P Metal complexes: P:E.51, P:E.94, P:E.94, P:E.127, P:H.130 MN.40: 4 residues within 4Å: Chain P: E.18, E.51, H.54, E.127 5 PLIP interactions: 5 interactions with chain P Metal complexes: P:E.18, P:E.18, P:E.51, P:H.54, P:E.127 MN.41: 4 residues within 4Å: Chain Q: E.51, E.94, E.127, H.130 5 PLIP interactions: 5 interactions with chain Q Metal complexes: Q:E.51, Q:E.94, Q:E.94, Q:E.127, Q:H.130 MN.42: 4 residues within 4Å: Chain Q: E.18, E.51, H.54, E.127 5 PLIP interactions: 5 interactions with chain Q Metal complexes: Q:E.18, Q:E.18, Q:E.51, Q:H.54, Q:E.127 MN.44: 4 residues within 4Å: Chain R: E.51, E.94, E.127, H.130 5 PLIP interactions: 5 interactions with chain R Metal complexes: R:E.51, R:E.94, R:E.94, R:E.127, R:H.130 MN.45: 4 residues within 4Å: Chain R: E.18, E.51, H.54, E.127 5 PLIP interactions: 5 interactions with chain R Metal complexes: R:E.18, R:E.18, R:E.51, R:H.54, R:E.127 MN.46: 4 residues within 4Å: Chain S: E.51, E.94, E.127, H.130 5 PLIP interactions: 5 interactions with chain S Metal complexes: S:E.51, S:E.94, S:E.94, S:E.127, S:H.130 MN.47: 4 residues within 4Å: Chain S: E.18, E.51, H.54, E.127 5 PLIP interactions: 5 interactions with chain S Metal complexes: S:E.18, S:E.18, S:E.51, S:H.54, S:E.127 MN.49: 4 residues within 4Å: Chain T: E.51, E.94, E.127, H.130 5 PLIP interactions: 5 interactions with chain T Metal complexes: T:E.51, T:E.94, T:E.94, T:E.127, T:H.130 MN.50: 4 residues within 4Å: Chain T: E.18, E.51, H.54, E.127 5 PLIP interactions: 5 interactions with chain T Metal complexes: T:E.18, T:E.18, T:E.51, T:H.54, T:E.127 MN.51: 4 residues within 4Å: Chain U: E.51, E.94, E.127, H.130 5 PLIP interactions: 5 interactions with chain U Metal complexes: U:E.51, U:E.94, U:E.94, U:E.127, U:H.130 MN.52: 4 residues within 4Å: Chain U: E.18, E.51, H.54, E.127 5 PLIP interactions: 5 interactions with chain U Metal complexes: U:E.18, U:E.18, U:E.51, U:H.54, U:E.127 MN.54: 4 residues within 4Å: Chain V: E.51, E.94, E.127, H.130 5 PLIP interactions: 5 interactions with chain V Metal complexes: V:E.51, V:E.94, V:E.94, V:E.127, V:H.130 MN.55: 4 residues within 4Å: Chain V: E.18, E.51, H.54, E.127 5 PLIP interactions: 5 interactions with chain V Metal complexes: V:E.18, V:E.18, V:E.51, V:H.54, V:E.127 MN.56: 4 residues within 4Å: Chain W: E.51, E.94, E.127, H.130 5 PLIP interactions: 5 interactions with chain W Metal complexes: W:E.51, W:E.94, W:E.94, W:E.127, W:H.130 MN.57: 4 residues within 4Å: Chain W: E.18, E.51, H.54, E.127 5 PLIP interactions: 5 interactions with chain W Metal complexes: W:E.18, W:E.18, W:E.51, W:H.54, W:E.127 MN.59: 4 residues within 4Å: Chain X: E.51, E.94, E.127, H.130 5 PLIP interactions: 5 interactions with chain X Metal complexes: X:E.51, X:E.94, X:E.94, X:E.127, X:H.130 MN.60: 4 residues within 4Å: Chain X: E.18, E.51, H.54, E.127 5 PLIP interactions: 5 interactions with chain X Metal complexes: X:E.18, X:E.18, X:E.51, X:H.54, X:E.127

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

HEM.3: 18 residues within 4Å: Chain A: 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, L.71 16 PLIP interactions: 8 interactions with chain A, 8 interactions with chain B, Hydrophobic interactions: A:I.22, A:I.22, A:F.26, A:F.26, 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:M.52, B:L.71 Salt bridges: A:K.53, B:K.53 HEM.8: 18 residues within 4Å: Chain C: I.22, N.23, F.26, Y.45, I.49, M.52, K.53, A.55, I.59 Chain D: L.19, I.22, N.23, F.26, Y.45, I.49, M.52, K.53, L.71 16 PLIP interactions: 8 interactions with chain D, 8 interactions with chain C, Hydrophobic interactions: D:L.19, D:I.22, D:F.26, D:F.26, D:I.49, D:M.52, D:L.71, C:I.22, C:I.22, C:F.26, C:F.26, C:M.52, C:A.55, C:I.59 Salt bridges: D:K.53, C:K.53 HEM.13: 18 residues within 4Å: Chain E: I.22, N.23, F.26, Y.45, I.49, M.52, K.53, A.55, I.59 Chain F: L.19, I.22, N.23, F.26, Y.45, I.49, M.52, K.53, L.71 16 PLIP interactions: 8 interactions with chain E, 8 interactions with chain F, Hydrophobic interactions: E:I.22, E:I.22, E:F.26, E:F.26, E:M.52, E:A.55, E:I.59, F:L.19, F:I.22, F:F.26, F:F.26, F:I.49, F:M.52, F:L.71 Salt bridges: E:K.53, F:K.53 HEM.18: 18 residues within 4Å: Chain G: 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 16 PLIP interactions: 8 interactions with chain G, 8 interactions with chain H, Hydrophobic interactions: G:I.22, G:I.22, G:F.26, G:F.26, G:M.52, G:A.55, G:I.59, H:L.19, H:I.22, H:F.26, H:F.26, H:I.49, H:M.52, H:L.71 Salt bridges: G:K.53, H:K.53 HEM.23: 18 residues within 4Å: Chain I: I.22, N.23, F.26, Y.45, I.49, M.52, K.53, A.55, I.59 Chain J: L.19, I.22, N.23, F.26, Y.45, I.49, M.52, K.53, L.71 16 PLIP interactions: 8 interactions with chain J, 8 interactions with chain I, Hydrophobic interactions: J:L.19, J:I.22, J:F.26, J:F.26, J:I.49, J:M.52, J:L.71, I:I.22, I:I.22, I:F.26, I:F.26, I:M.52, I:A.55, I:I.59 Salt bridges: J:K.53, I:K.53 HEM.28: 18 residues within 4Å: Chain K: I.22, N.23, F.26, Y.45, I.49, M.52, K.53, A.55, I.59 Chain L: L.19, I.22, N.23, F.26, Y.45, I.49, M.52, K.53, L.71 16 PLIP interactions: 8 interactions with chain L, 8 interactions with chain K, Hydrophobic interactions: L:L.19, L:I.22, L:F.26, L:F.26, L:I.49, L:M.52, L:L.71, K:I.22, K:I.22, K:F.26, K:F.26, K:M.52, K:A.55, K:I.59 Salt bridges: L:K.53, K:K.53 HEM.33: 18 residues within 4Å: Chain M: 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, L.71 16 PLIP interactions: 8 interactions with chain M, 8 interactions with chain N, Hydrophobic interactions: M:I.22, M:I.22, M:F.26, M:F.26, 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:M.52, N:L.71 Salt bridges: M:K.53, N:K.53 HEM.38: 18 residues within 4Å: Chain O: I.22, N.23, F.26, Y.45, I.49, M.52, K.53, A.55, I.59 Chain P: L.19, I.22, N.23, F.26, Y.45, I.49, M.52, K.53, L.71 16 PLIP interactions: 8 interactions with chain P, 8 interactions with chain O, Hydrophobic interactions: P:L.19, P:I.22, P:F.26, P:F.26, P:I.49, P:M.52, P:L.71, O:I.22, O:I.22, O:F.26, O:F.26, O:M.52, O:A.55, O:I.59 Salt bridges: P:K.53, O:K.53 HEM.43: 18 residues within 4Å: Chain Q: I.22, N.23, F.26, Y.45, I.49, M.52, K.53, A.55, I.59 Chain R: L.19, I.22, N.23, F.26, Y.45, I.49, M.52, K.53, L.71 16 PLIP interactions: 8 interactions with chain Q, 8 interactions with chain R, Hydrophobic interactions: Q:I.22, Q:I.22, Q:F.26, Q:F.26, Q:M.52, Q:A.55, Q:I.59, R:L.19, R:I.22, R:F.26, R:F.26, R:I.49, R:M.52, R:L.71 Salt bridges: Q:K.53, R:K.53 HEM.48: 18 residues within 4Å: Chain S: 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 16 PLIP interactions: 8 interactions with chain T, 8 interactions with chain S, Hydrophobic interactions: T:L.19, T:I.22, T:F.26, T:F.26, T:I.49, T:M.52, T:L.71, S:I.22, S:I.22, S:F.26, S:F.26, S:M.52, S:A.55, S:I.59 Salt bridges: T:K.53, S:K.53 HEM.53: 18 residues within 4Å: Chain U: I.22, N.23, F.26, Y.45, I.49, M.52, K.53, A.55, I.59 Chain V: L.19, I.22, N.23, F.26, Y.45, I.49, M.52, K.53, L.71 16 PLIP interactions: 8 interactions with chain U, 8 interactions with chain V, Hydrophobic interactions: U:I.22, U:I.22, U:F.26, U:F.26, U:M.52, U:A.55, U:I.59, V:L.19, V:I.22, V:F.26, V:F.26, V:I.49, V:M.52, V:L.71 Salt bridges: U:K.53, V:K.53 HEM.58: 18 residues within 4Å: Chain W: I.22, N.23, F.26, Y.45, I.49, M.52, K.53, A.55, I.59 Chain X: L.19, I.22, N.23, F.26, Y.45, I.49, M.52, K.53, L.71 16 PLIP interactions: 8 interactions with chain W, 8 interactions with chain X, Hydrophobic interactions: W:I.22, W:I.22, W:F.26, W:F.26, W:M.52, W:A.55, W:I.59, X:L.19, X:I.22, X:F.26, X:F.26, X:I.49, X:M.52, X:L.71 Salt bridges: W:K.53, X:K.53

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Frolow, F. et al., Structure of a unique twofold symmetric haem-binding site. Nat.Struct.Biol. (1994)

Release Date

1994-12-20

Peptides

BACTERIOFERRITIN: 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

BACTERIOFERRITIN

Related Entries With Identical Sequence