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3BEN
Asym. Unit
Info
Asym.Unit (185 KB)
Biol.Unit 1 (90 KB)
Biol.Unit 2 (91 KB)
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(1)
Title
:
STRUCTURE OF N-(12-IMIDAZOLYL-DODECANOYL)-L-LEUCINE INHIBITOR BOUND TO THE HEME DOMAIN OF CYTOCHROME P450-BM3
Authors
:
D. R. Tomchick
Date
:
19 Nov 07 (Deposition) - 30 Sep 08 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.65
Chains
:
Asym. Unit : A,B
Biol. Unit 1: A (1x)
Biol. Unit 2: B (1x)
Keywords
:
Protein-Substrate Complex, Hemeprotein, Electron Transport, Fad, Flavoprotein, Fmn, Iron, Membrane, Metal-Binding, Monooxygenase, Multifunctional Enzyme, Nadp, Oxidoreductase, Transport
(Keyword Search:
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Gene Ontology, PubMed, Web (Google)
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)
Reference
:
D. C. Haines, B. Chen, D. R. Tomchick, M. Bondlela, A. Hegde, M. Machius J. A. Peterson
Crystal Structure Of Inhibitor-Bound P450Bm-3 Reveals Open Conformation Of Substrate Access Channel.
Biochemistry V. 47 3662 2008
(for further references see the
PDB file header
)
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Hetero Components
(4, 6)
Info
All Hetero Components
1a: PROTOPORPHYRIN IX CONTAINING FE (HEMa)
1b: PROTOPORPHYRIN IX CONTAINING FE (HEMb)
2a: N-[12-(1H-IMIDAZOL-1-YL)DODECANOYL... (LEHa)
2b: N-[12-(1H-IMIDAZOL-1-YL)DODECANOYL... (LEHb)
3a: 2-(N-MORPHOLINO)-ETHANESULFONIC AC... (MESa)
4a: MAGNESIUM ION (MGa)
View:
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Label:
No.
Name
Count
Type
Full Name
1
HEM
2
Ligand/Ion
PROTOPORPHYRIN IX CONTAINING FE
2
LEH
2
Ligand/Ion
N-[12-(1H-IMIDAZOL-1-YL)DODECANOYL]-L-LEUCINE
3
MES
1
Ligand/Ion
2-(N-MORPHOLINO)-ETHANESULFONIC ACID
4
MG
1
Ligand/Ion
MAGNESIUM ION
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Sites
(6, 6)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
3: AC3 (SOFTWARE)
4: AC4 (SOFTWARE)
5: AC5 (SOFTWARE)
6: AC6 (SOFTWARE)
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No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
ASP B:23 , HOH B:501 , HOH B:502 , HOH B:503 , HOH B:504 , HOH B:505
BINDING SITE FOR RESIDUE MG B 470
2
AC2
SOFTWARE
LYS A:69 , LEU A:86 , PHE A:87 , TRP A:96 , ILE A:153 , ALA A:264 , GLY A:265 , THR A:269 , LEU A:322 , THR A:327 , ALA A:328 , PHE A:331 , PRO A:392 , PHE A:393 , GLY A:394 , ARG A:398 , ALA A:399 , CYS A:400 , ILE A:401 , GLY A:402 , PHE A:405 , LEH A:500 , HOH A:501 , HOH A:502 , HOH A:504 , HOH A:510 , HOH A:511 , HOH A:613
BINDING SITE FOR RESIDUE HEM A 470
3
AC3
SOFTWARE
VAL A:26 , TYR A:51 , ALA A:74 , LEU A:75 , VAL A:78 , PHE A:87 , MET A:185 , ALA A:264 , GLU A:435 , THR A:436 , LEU A:437 , HEM A:470
BINDING SITE FOR RESIDUE LEH A 500
4
AC4
SOFTWARE
LYS B:69 , LEU B:86 , PHE B:87 , TRP B:96 , ILE B:153 , ALA B:264 , THR B:268 , THR B:269 , LEU B:322 , THR B:327 , ALA B:328 , PHE B:331 , PRO B:392 , PHE B:393 , GLY B:394 , ARG B:398 , ALA B:399 , CYS B:400 , ILE B:401 , GLY B:402 , PHE B:405 , ALA B:406 , LEH B:500 , HOH B:506 , HOH B:512 , HOH B:513 , HOH B:515 , HOH B:519 , HOH B:578
BINDING SITE FOR RESIDUE HEM B 471
5
AC5
SOFTWARE
VAL B:26 , LEU B:75 , VAL B:78 , PHE B:87 , ALA B:264 , GLU B:435 , THR B:436 , LEU B:437 , HEM B:471 , HOH B:731
BINDING SITE FOR RESIDUE LEH B 500
6
AC6
SOFTWARE
ILE B:366 , TRP B:367 , ARG B:375 , ARG B:378 , ALA B:384 , ILE B:385 , HOH B:558
BINDING SITE FOR RESIDUE MES B 490
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
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PROSITE Patterns/Profiles
(1, 2)
Info
All PROSITE Patterns/Profiles
1: CYTOCHROME_P450 (A:393-402,B:393-402)
;
View:
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End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
CYTOCHROME_P450
PS00086
Cytochrome P450 cysteine heme-iron ligand signature.
CPXB_BACMB
394-403
2
A:393-402
B:393-402
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Exons
(0, 0)
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Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
SCOP Domains
(1, 2)
Info
All SCOP Domains
1a: SCOP_d3bena_ (A:)
1b: SCOP_d3benb_ (B:)
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Organisms
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Class
:
All alpha proteins
(14657)
Fold
:
Cytochrome P450
(480)
Superfamily
:
Cytochrome P450
(480)
Family
:
Cytochrome P450
(323)
Protein domain
:
Cytochrome P450 bm-3
(60)
Bacillus megaterium [TaxId: 1404]
(60)
1a
d3bena_
A:
1b
d3benb_
B:
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CATH Domains
(1, 2)
Info
all CATH domains
1a: CATH_3benA00 (A:4-457)
1b: CATH_3benB00 (B:1-457)
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Class
:
Mainly Alpha
(13335)
Architecture
:
Orthogonal Bundle
(10391)
Topology
:
Cytochrome p450
(271)
Homologous Superfamily
:
Cytochrome p450
(271)
Bacillus megaterium.
(2)
1a
3benA00
A:4-457
1b
3benB00
B:1-457
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Pfam Domains
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Asymmetric Unit 1
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Asym.Unit (185 KB)
Header - Asym.Unit
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Header - Biol.Unit 1
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