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3R1A
Asym. Unit
Info
Asym.Unit (595 KB)
Biol.Unit 1 (83 KB)
Biol.Unit 2 (82 KB)
Biol.Unit 3 (83 KB)
Biol.Unit 4 (83 KB)
Biol.Unit 5 (82 KB)
Biol.Unit 6 (81 KB)
Biol.Unit 7 (82 KB)
Biol.Unit 8 (75 KB)
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(1)
Title
:
CLOSED CRYSTAL STRUCTURE OF CYTOCHROME P450 2B4 COVALENTLY BOUND TO THE MECHANISM-BASED INACTIVATOR TERT-BUTYLPHENYLACETYLENE
Authors
:
S. C. Gay, H. Zhang, C. D. Stout, P. F. Hollenberg, J. R. Halpert
Date
:
09 Mar 11 (Deposition) - 11 May 11 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
3.50
Chains
:
Asym. Unit : A,B,C,D,E,F,G,H
Biol. Unit 1: A (1x)
Biol. Unit 2: B (1x)
Biol. Unit 3: C (1x)
Biol. Unit 4: D (1x)
Biol. Unit 5: E (1x)
Biol. Unit 6: F (1x)
Biol. Unit 7: G (1x)
Biol. Unit 8: H (1x)
Keywords
:
Cytochrome P450 2B4, Monooxygenase, Oxidoreductase, Membrane Protein, T302 Covalently Linked To Tert-Butylphenylacetylene, Oxidoreductase- Oxidoreductase Inhibitor Complex
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
S. C. Gay, H. Zhang, P. R. Wilderman, A. G. Roberts, T. Liu, S. Li, H. L. Lin, Q. Zhang, V. L. Woods, C. D. Stout, P. F. Hollenberg, J. R. Halpert
Structural Analysis Of Mammalian Cytochrome P450 2B4 Covalently Bound To The Mechanism-Based Inactivator Tert-Butylphenylacetylene: Insight Into Partial Enzymatic Activity.
Biochemistry V. 50 4903 2011
(for further references see the
PDB file header
)
[
close entry info
]
Hetero Components
(2, 16)
Info
All Hetero Components
1a: PROTOPORPHYRIN IX CONTAINING FE (HEMa)
1b: PROTOPORPHYRIN IX CONTAINING FE (HEMb)
1c: PROTOPORPHYRIN IX CONTAINING FE (HEMc)
1d: PROTOPORPHYRIN IX CONTAINING FE (HEMd)
1e: PROTOPORPHYRIN IX CONTAINING FE (HEMe)
1f: PROTOPORPHYRIN IX CONTAINING FE (HEMf)
1g: PROTOPORPHYRIN IX CONTAINING FE (HEMg)
1h: PROTOPORPHYRIN IX CONTAINING FE (HEMh)
2a: (4-TERT-BUTYLPHENYL)ACETALDEHYDE (TB2a)
2b: (4-TERT-BUTYLPHENYL)ACETALDEHYDE (TB2b)
2c: (4-TERT-BUTYLPHENYL)ACETALDEHYDE (TB2c)
2d: (4-TERT-BUTYLPHENYL)ACETALDEHYDE (TB2d)
2e: (4-TERT-BUTYLPHENYL)ACETALDEHYDE (TB2e)
2f: (4-TERT-BUTYLPHENYL)ACETALDEHYDE (TB2f)
2g: (4-TERT-BUTYLPHENYL)ACETALDEHYDE (TB2g)
2h: (4-TERT-BUTYLPHENYL)ACETALDEHYDE (TB2h)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
HEM
8
Ligand/Ion
PROTOPORPHYRIN IX CONTAINING FE
2
TB2
8
Ligand/Ion
(4-TERT-BUTYLPHENYL)ACETALDEHYDE
[
close Hetero Component info
]
Sites
(16, 16)
Info
All Sites
01: AC1 (SOFTWARE)
02: AC2 (SOFTWARE)
03: AC3 (SOFTWARE)
04: AC4 (SOFTWARE)
05: AC5 (SOFTWARE)
06: AC6 (SOFTWARE)
07: AC7 (SOFTWARE)
08: AC8 (SOFTWARE)
09: AC9 (SOFTWARE)
10: BC1 (SOFTWARE)
11: BC2 (SOFTWARE)
12: BC3 (SOFTWARE)
13: BC4 (SOFTWARE)
14: BC5 (SOFTWARE)
15: BC6 (SOFTWARE)
16: BC7 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
ARG A:98 , VAL A:113 , ILE A:114 , TRP A:121 , ARG A:125 , ILE A:179 , LEU A:295 , ALA A:298 , GLY A:299 , THR A:302 , THR A:303 , THR A:306 , VAL A:367 , HIS A:369 , PRO A:428 , PHE A:429 , SER A:430 , ARG A:434 , CYS A:436 , LEU A:437 , GLY A:438 , ALA A:442
BINDING SITE FOR RESIDUE HEM A 500
02
AC2
SOFTWARE
HOH A:1 , PHE A:115 , PHE A:206 , PHE A:297 , ALA A:298 , GLU A:301 , THR A:302
BINDING SITE FOR RESIDUE TB2 A 501
03
AC3
SOFTWARE
HOH B:2 , ARG B:98 , ILE B:114 , TRP B:121 , ARG B:125 , LEU B:295 , GLY B:299 , THR B:302 , THR B:303 , VAL B:367 , HIS B:369 , PRO B:428 , PHE B:429 , SER B:430 , ARG B:434 , ILE B:435 , CYS B:436 , LEU B:437 , GLY B:438 , ALA B:442
BINDING SITE FOR RESIDUE HEM B 500
04
AC4
SOFTWARE
HOH B:2 , PHE B:115 , PHE B:206 , PHE B:297 , ALA B:298 , GLU B:301 , THR B:302
BINDING SITE FOR RESIDUE TB2 B 501
05
AC5
SOFTWARE
ARG C:98 , VAL C:113 , ILE C:114 , TRP C:121 , ARG C:125 , ILE C:179 , ALA C:298 , GLY C:299 , THR C:302 , THR C:303 , THR C:306 , VAL C:367 , HIS C:369 , PRO C:428 , SER C:430 , ARG C:434 , ILE C:435 , CYS C:436 , LEU C:437 , GLY C:438 , ILE C:441
BINDING SITE FOR RESIDUE HEM C 500
06
AC6
SOFTWARE
HOH C:4 , PHE C:115 , PHE C:206 , PHE C:297 , THR C:302
BINDING SITE FOR RESIDUE TB2 C 501
07
AC7
SOFTWARE
ARG D:98 , ILE D:114 , TRP D:121 , ARG D:125 , ALA D:298 , THR D:302 , THR D:303 , THR D:306 , GLN D:357 , VAL D:367 , HIS D:369 , PRO D:428 , PHE D:429 , SER D:430 , ARG D:434 , CYS D:436 , LEU D:437 , GLY D:438
BINDING SITE FOR RESIDUE HEM D 500
08
AC8
SOFTWARE
HOH D:3 , VAL D:104 , PHE D:115 , PHE D:206 , PHE D:297 , ALA D:298 , THR D:302
BINDING SITE FOR RESIDUE TB2 D 501
09
AC9
SOFTWARE
HOH E:5 , ARG E:98 , VAL E:113 , ILE E:114 , TRP E:121 , ARG E:125 , LEU E:295 , GLY E:299 , THR E:302 , THR E:303 , ILE E:363 , VAL E:367 , HIS E:369 , PRO E:428 , PHE E:429 , SER E:430 , ARG E:434 , CYS E:436 , LEU E:437 , GLY E:438 , ALA E:442
BINDING SITE FOR RESIDUE HEM E 500
10
BC1
SOFTWARE
ILE E:114 , PHE E:115 , PHE E:206 , PHE E:297 , ALA E:298 , THR E:302
BINDING SITE FOR RESIDUE TB2 E 501
11
BC2
SOFTWARE
ARG F:98 , VAL F:113 , ILE F:114 , TRP F:121 , ARG F:125 , ILE F:179 , LEU F:295 , GLY F:299 , THR F:302 , THR F:303 , GLN F:357 , VAL F:367 , HIS F:369 , LEU F:392 , PRO F:428 , PHE F:429 , SER F:430 , ARG F:434 , CYS F:436 , LEU F:437 , GLY F:438 , ALA F:442
BINDING SITE FOR RESIDUE HEM F 500
12
BC3
SOFTWARE
PHE F:115 , PHE F:206 , ALA F:298 , THR F:302
BINDING SITE FOR RESIDUE TB2 F 501
13
BC4
SOFTWARE
HOH G:7 , ARG G:98 , VAL G:113 , TRP G:121 , ARG G:125 , ILE G:179 , ALA G:298 , GLY G:299 , THR G:302 , THR G:303 , THR G:306 , VAL G:367 , HIS G:369 , PRO G:428 , PHE G:429 , SER G:430 , ARG G:434 , CYS G:436 , LEU G:437 , GLY G:438
BINDING SITE FOR RESIDUE HEM G 500
14
BC5
SOFTWARE
PHE G:206 , PHE G:297 , THR G:302
BINDING SITE FOR RESIDUE TB2 G 501
15
BC6
SOFTWARE
ARG H:98 , TRP H:121 , ARG H:125 , ILE H:179 , ALA H:298 , GLY H:299 , THR H:302 , THR H:303 , THR H:306 , VAL H:367 , HIS H:369 , PRO H:428 , SER H:430 , ARG H:434 , CYS H:436 , LEU H:437 , GLY H:438
BINDING SITE FOR RESIDUE HEM H 500
16
BC7
SOFTWARE
HOH H:8 , ILE H:114 , PHE H:297 , ALA H:298 , GLU H:301 , THR H:302
BINDING SITE FOR RESIDUE TB2 H 501
[
close Site info
]
SAPs(SNPs)/Variants
(5, 40)
Info
(mutated residues are not available)
All SNPs/Variants
1: VAR_CP2B4_RABIT_001 (V39I, chain A/B/C/D/E/F/G/H, )
2: VAR_CP2B4_RABIT_002 (I174V, chain A/B/C/D/E/F/G/H, )
3: VAR_CP2B4_RABIT_003 (L290I, chain A/B/C/D/E/F/G/H, )
4: VAR_CP2B4_RABIT_004 (M314L, chain A/B/C/D/E/F/G/H, )
5: VAR_CP2B4_RABIT_005 (L420M, chain A/B/C/D/E/F/G/H, )
View:
Select:
Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
1
UniProt
VAR_CP2B4_RABIT_001
*
V
39
I
CP2B4_RABIT
---
---
A/B/C/D/E/F/G/H
V
39
I
2
UniProt
VAR_CP2B4_RABIT_002
*
I
174
V
CP2B4_RABIT
---
---
A/B/C/D/E/F/G/H
I
174
V
3
UniProt
VAR_CP2B4_RABIT_003
*
L
290
I
CP2B4_RABIT
---
---
A/B/C/D/E/F/G/H
L
290
I
4
UniProt
VAR_CP2B4_RABIT_004
*
M
314
L
CP2B4_RABIT
---
---
A/B/C/D/E/F/G/H
M
314
L
5
UniProt
VAR_CP2B4_RABIT_005
*
L
420
M
CP2B4_RABIT
---
---
A/B/C/D/E/F/G/H
L
420
M
* ID not provided by source
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
[
close SNP/Variant info
]
PROSITE Patterns/Profiles
(1, 8)
Info
All PROSITE Patterns/Profiles
1: CYTOCHROME_P450 (A:429-438,B:429-438,C:429-438,D:42...)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
CYTOCHROME_P450
PS00086
Cytochrome P450 cysteine heme-iron ligand signature.
CP2B4_RABIT
429-438
8
A:429-438
B:429-438
C:429-438
D:429-438
E:429-438
F:429-438
G:429-438
H:429-438
[
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]
Exons
(0, 0)
Info
All Exons
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All Exon Boundaries
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Label:
Note:
Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
SCOP Domains
(0, 0)
Info
All SCOP Domains
View:
Select:
Label:
Sorry, no Info available
[
close SCOP info
]
CATH Domains
(0, 0)
Info
all CATH domains
View:
Select:
Label:
Sorry, no Info available
[
close CATH info
]
Pfam Domains
(1, 8)
Info
all PFAM domains
1a: PFAM_p450_3r1aH01 (H:31-488)
1b: PFAM_p450_3r1aH02 (H:31-488)
1c: PFAM_p450_3r1aH03 (H:31-488)
1d: PFAM_p450_3r1aH04 (H:31-488)
1e: PFAM_p450_3r1aH05 (H:31-488)
1f: PFAM_p450_3r1aH06 (H:31-488)
1g: PFAM_p450_3r1aH07 (H:31-488)
1h: PFAM_p450_3r1aH08 (H:31-488)
View:
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Clans
(
)
(
)
Families
(
)
(
)
Organisms
(
)
(
)
Clan
:
no clan defined [family: p450]
(161)
Family
:
p450
(161)
Oryctolagus cuniculus (Rabbit)
(10)
1a
p450-3r1aH01
H:31-488
1b
p450-3r1aH02
H:31-488
1c
p450-3r1aH03
H:31-488
1d
p450-3r1aH04
H:31-488
1e
p450-3r1aH05
H:31-488
1f
p450-3r1aH06
H:31-488
1g
p450-3r1aH07
H:31-488
1h
p450-3r1aH08
H:31-488
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