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1PQ2
Asym. Unit
Info
Asym.Unit (159 KB)
Biol.Unit 1 (78 KB)
Biol.Unit 2 (79 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF HUMAN DRUG METABOLIZING CYTOCHROME P450 2C8
Authors
:
G. A. Schoch, J. K. Yano, M. R. Wester, K. J. Griffin, C. D. Stout, E. F. Johnson
Date
:
17 Jun 03 (Deposition) - 13 Jan 04 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.70
Chains
:
Asym. Unit : A,B
Biol. Unit 1: A (1x)
Biol. Unit 2: B (1x)
Keywords
:
Cytochrome P450, Cyp2C8, Membrane Protein, Taxol 6- Hydroxylase, Oxidoreductase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
G. A. Schoch, J. K. Yano, M. R. Wester, K. J. Griffin, C. D. Stout, E. F. Johnson
Structure Of Human Microsomal Cytochrome P450 2C8. Evidence For A Peripheral Fatty Acid Binding Site
J. Biol. Chem. V. 279 9497 2004
(for further references see the
PDB file header
)
[
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Hetero Components
(3, 5)
Info
All Hetero Components
1a: PROTOPORPHYRIN IX CONTAINING FE (HEMa)
1b: PROTOPORPHYRIN IX CONTAINING FE (HEMb)
2a: PALMITIC ACID (PLMa)
2b: PALMITIC ACID (PLMb)
3a: PHOSPHATE ION (PO4a)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
HEM
2
Ligand/Ion
PROTOPORPHYRIN IX CONTAINING FE
2
PLM
2
Ligand/Ion
PALMITIC ACID
3
PO4
1
Ligand/Ion
PHOSPHATE ION
[
close Hetero Component info
]
Sites
(5, 5)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
3: AC3 (SOFTWARE)
4: AC4 (SOFTWARE)
5: AC5 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
ILE A:331 , HIS A:334 , ARG A:335
BINDING SITE FOR RESIDUE PO4 A 504
2
AC2
SOFTWARE
ARG A:97 , ILE A:112 , TRP A:120 , ARG A:124 , LEU A:131 , ALA A:297 , GLY A:298 , THR A:301 , GLN A:356 , LEU A:361 , VAL A:366 , HIS A:368 , PHE A:428 , SER A:429 , ARG A:433 , CYS A:435 , ALA A:436 , ALA A:441
BINDING SITE FOR RESIDUE HEM A 500
3
AC3
SOFTWARE
ARG A:105 , ILE A:106 , THR A:229 , HIS A:230 , LEU A:234 , PHE B:226 , PRO B:227 , GLY B:228 , THR B:229 , HOH B:601
BINDING SITE FOR RESIDUE PLM B 501
4
AC4
SOFTWARE
ARG B:97 , ILE B:112 , ILE B:113 , TRP B:120 , ARG B:124 , LEU B:294 , ALA B:297 , GLY B:298 , THR B:301 , THR B:302 , THR B:305 , LEU B:361 , HIS B:368 , PRO B:427 , PHE B:428 , SER B:429 , ARG B:433 , CYS B:435 , ALA B:436 , GLY B:437 , ALA B:441
BINDING SITE FOR RESIDUE HEM B 500
5
AC5
SOFTWARE
PHE A:226 , PRO A:227 , GLY A:228 , THR A:229 , ARG B:105 , ILE B:106 , TRP B:212 , CYS B:216 , ILE B:223 , THR B:229 , LEU B:234
BINDING SITE FOR RESIDUE PLM A 502
[
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]
SAPs(SNPs)/Variants
(10, 20)
Info
(mutated residues are not available)
All SNPs/Variants
01: VAR_012238 (R139K, chain A/B, )
02: VAR_001250 (E154D, chain A/B, )
03: VAR_001251 (N193K, chain A/B, )
04: VAR_018958 (I244V, chain A/B, )
05: VAR_001252 (K249R, chain A/B, )
06: VAR_011754 (I264M, chain A/B, )
07: VAR_012239 (I269F, chain A/B, )
08: VAR_016947 (L390S, chain A/B, )
09: VAR_012240 (K399R, chain A/B, )
10: VAR_001253 (H411L, chain A/B, )
View:
Select:
Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
01
UniProt
VAR_012238
R
139
K
CP2C8_HUMAN
Polymorphism
11572080
A/B
R
139
K
02
UniProt
VAR_001250
E
154
D
CP2C8_HUMAN
Unclassified
---
A/B
E
154
D
03
UniProt
VAR_001251
N
193
K
CP2C8_HUMAN
Unclassified
---
A/B
N
193
K
04
UniProt
VAR_018958
I
244
V
CP2C8_HUMAN
Polymorphism
11572102
A/B
I
244
V
05
UniProt
VAR_001252
K
249
R
CP2C8_HUMAN
Unclassified
---
A/B
K
249
R
06
UniProt
VAR_011754
I
264
M
CP2C8_HUMAN
Polymorphism
1058930
A/B
I
264
M
07
UniProt
VAR_012239
I
269
F
CP2C8_HUMAN
Polymorphism
11572103
A/B
I
269
F
08
UniProt
VAR_016947
L
390
S
CP2C8_HUMAN
Polymorphism
---
A/B
L
390
S
09
UniProt
VAR_012240
K
399
R
CP2C8_HUMAN
Polymorphism
10509681
A/B
K
399
R
10
UniProt
VAR_001253
H
411
L
CP2C8_HUMAN
Unclassified
---
A/B
H
411
L
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
[
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]
PROSITE Patterns/Profiles
(1, 2)
Info
All PROSITE Patterns/Profiles
1: CYTOCHROME_P450 (A:428-437,B:428-437)
;
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.
CP2C8_HUMAN
428-437
2
A:428-437
B:428-437
[
close PROSITE info
]
Exons
(9, 18)
Info
All Exons
Exon 1.1a (A:28-56 | B:28-56)
Exon 1.3a (A:57-111 | B:57-111)
Exon 1.3d (A:111-161 | B:111-161)
Exon 1.4 (A:161-214 | B:161-214)
Exon 1.5 (A:215-273 | B:215-273)
Exon 1.6 (A:274-321 | B:274-321)
Exon 1.7 (A:321-383 | B:321-383)
Exon 1.9c (A:384-431 | B:384-431)
Exon 1.10e (A:431-490 | B:431-490)
View:
Select:
Label:
All Exon Boundaries
01: Boundary -/1.1a
02: Boundary 1.1a/1.3a
03: Boundary 1.3a/1.3d
04: Boundary 1.3d/1.4
05: Boundary 1.4/1.5
06: Boundary 1.5/1.6
07: Boundary 1.6/1.7
08: Boundary 1.7/1.9c
09: Boundary 1.9c/1.10e
10: Boundary 1.10e/-
View:
Label:
Note:
Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
ENSEMBL
UniProtKB
PDB
No.
Transcript ID
Exon
Exon ID
Genome Location
Length
ID
Location
Length
Count
Location
Length
1.1a
ENST00000371270
1a
ENSE00002186511
chr10:
96829254-96828992
263
CP2C8_HUMAN
1-56
56
2
A:28-56
B:28-56
29
29
1.3a
ENST00000371270
3a
ENSE00001675406
chr10:
96827448-96827286
163
CP2C8_HUMAN
57-111
55
2
A:57-111
B:57-111
55
55
1.3d
ENST00000371270
3d
ENSE00001623054
chr10:
96827114-96826965
150
CP2C8_HUMAN
111-161
51
2
A:111-161
B:111-161
51
51
1.4
ENST00000371270
4
ENSE00001805297
chr10:
96824717-96824557
161
CP2C8_HUMAN
161-214
54
2
A:161-214
B:161-214
54
54
1.5
ENST00000371270
5
ENSE00000986544
chr10:
96818268-96818092
177
CP2C8_HUMAN
215-273
59
2
A:215-273
B:215-273
59
59
1.6
ENST00000371270
6
ENSE00001699239
chr10:
96805708-96805567
142
CP2C8_HUMAN
274-321
48
2
A:274-321
B:274-321
48
48
1.7
ENST00000371270
7
ENSE00001749672
chr10:
96802834-96802647
188
CP2C8_HUMAN
321-383
63
2
A:321-383
B:321-383
63
63
1.9c
ENST00000371270
9c
ENSE00001661583
chr10:
96798795-96798654
142
CP2C8_HUMAN
384-431
48
2
A:384-431
B:384-431
48
48
1.10e
ENST00000371270
10e
ENSE00001883084
chr10:
96797066-96796530
537
CP2C8_HUMAN
431-490
60
2
A:431-490
B:431-490
60
60
[
close EXON info
]
SCOP Domains
(1, 2)
Info
All SCOP Domains
1a: SCOP_d1pq2a_ (A:)
1b: SCOP_d1pq2b_ (B:)
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)
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Protein Domains
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(
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Organisms
(
)
(
)
Class
:
All alpha proteins
(14657)
Fold
:
Cytochrome P450
(480)
Superfamily
:
Cytochrome P450
(480)
Family
:
Cytochrome P450
(323)
Protein domain
:
Mammalian cytochrome p450 2c8
(5)
Human (Homo sapiens) [TaxId: 9606]
(5)
1a
d1pq2a_
A:
1b
d1pq2b_
B:
[
close SCOP info
]
CATH Domains
(1, 2)
Info
all CATH domains
1a: CATH_1pq2A00 (A:28-490)
1b: CATH_1pq2B00 (B:28-490)
View:
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(
)
(
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(
)
(
)
Topologies
(
)
(
)
Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Mainly Alpha
(13335)
Architecture
:
Orthogonal Bundle
(10391)
Topology
:
Cytochrome p450
(271)
Homologous Superfamily
:
Cytochrome p450
(271)
Human (Homo sapiens)
(32)
1a
1pq2A00
A:28-490
1b
1pq2B00
B:28-490
[
close CATH info
]
Pfam Domains
(1, 2)
Info
all PFAM domains
1a: PFAM_p450_1pq2B01 (B:30-487)
1b: PFAM_p450_1pq2B02 (B:30-487)
View:
Select:
Label:
Clans
(
)
(
)
Families
(
)
(
)
Organisms
(
)
(
)
Clan
:
no clan defined [family: p450]
(161)
Family
:
p450
(161)
Homo sapiens (Human)
(33)
1a
p450-1pq2B01
B:30-487
1b
p450-1pq2B02
B:30-487
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