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SMTL ID : 1jif.1
Crystal structure of bleomycin-binding protein from bleomycin-producing Streptomyces verticillus complexed with copper(II)-bleomycin
Coordinates
PDB Format
Method
X-RAY DIFFRACTION 1.60 Å
Oligo State
homo-dimer
Ligands
2 x
CU
:
COPPER (II) ION
(Non-functional Binders)
CU.1:
2 residues within 4Å:
Ligands:
CL.3
,
BLM.5
No protein-ligand interaction detected (PLIP)
CU.2:
2 residues within 4Å:
Ligands:
CL.4
,
BLM.6
No protein-ligand interaction detected (PLIP)
2 x
CL
:
CHLORIDE ION
(Non-functional Binders)
CL.3:
2 residues within 4Å:
Ligands:
CU.1
,
BLM.5
Ligand excluded by PLIP
CL.4:
2 residues within 4Å:
Ligands:
CU.2
,
BLM.6
Ligand excluded by PLIP
2 x
BLM
:
BLEOMYCIN A2
(Non-covalent)
BLM.5:
23 residues within 4Å:
Chain A:
D.32
,
F.33
,
F.38
,
H.49
,
S.51
,
R.52
Chain B:
A.59
,
D.60
,
N.61
,
T.62
,
W.65
,
Y.86
,
A.87
,
P.101
,
A.102
,
A.107
,
R.109
,
G.113
,
N.114
,
C.115
,
H.117
Ligands:
CU.1
,
CL.3
17
PLIP interactions
:
12 interactions with chain B
,
5 interactions with chain A
Hydrophobic interactions:
B:W.65
,
B:A.107
,
B:R.109
,
A:F.38
,
A:F.38
Hydrogen bonds:
B:D.60
,
B:T.62
,
B:Y.86
,
B:R.109
,
B:R.109
,
B:G.113
,
B:C.115
,
A:S.51
,
A:R.52
Water bridges:
B:N.61
,
B:H.117
pi-Stacking:
A:F.33
BLM.6:
21 residues within 4Å:
Chain A:
A.59
,
D.60
,
N.61
,
T.62
,
W.65
,
Y.86
,
A.87
,
P.101
,
A.107
,
R.109
,
G.113
,
N.114
,
C.115
,
H.117
Chain B:
F.33
,
F.38
,
H.49
,
S.51
,
R.52
Ligands:
CU.2
,
CL.4
18
PLIP interactions
:
14 interactions with chain A
,
4 interactions with chain B
Hydrophobic interactions:
A:A.107
,
A:R.109
,
B:F.38
Hydrogen bonds:
A:D.60
,
A:D.60
,
A:T.62
,
A:R.109
,
A:R.109
,
A:G.113
,
A:C.115
,
B:S.51
,
B:R.52
Water bridges:
A:N.61
,
A:S.63
,
A:E.105
,
A:H.117
,
A:H.117
pi-Stacking:
B:F.33
Links
RCSB
PDBe
PDBe-KB
PDBj
PDBsum
CATH
PLIP
Citation
Sugiyama, M. et al., The 1.6-A crystal structure of the copper(II)-bound bleomycin complexed with the bleomycin-binding protein from bleomycin-producing Streptomyces verticillus. J.Biol.Chem. (2002)
Release Date
2002-02-06
Peptides
bleomycin-binding protein:
A
B
SMTL:PDB
SMTL Chain Id:
PDB Chain Id:
A
A
B
B
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Secondary Structure
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2° Structure
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bleomycin-binding protein
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