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2P85
Asym. Unit
Info
Asym.Unit (484 KB)
Biol.Unit 1 (86 KB)
Biol.Unit 2 (85 KB)
Biol.Unit 3 (85 KB)
Biol.Unit 4 (85 KB)
Biol.Unit 5 (85 KB)
Biol.Unit 6 (84 KB)
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(1)
Title
:
STRUCTURE OF HUMAN LUNG CYTOCHROME P450 2A13 WITH INDOLE BOUND IN TWO ALTERNATE CONFORMATIONS
Authors
:
E. E. Scott, C. D. Stout
Date
:
21 Mar 07 (Deposition) - 10 Apr 07 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.35
Chains
:
Asym. Unit : A,B,C,D,E,F
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)
Keywords
:
Cyp2A13, P450 2A13, P450, Monooxygenase, Nicotine Oxidase, Coumarine 7-Hydroxylase, Nnk Oxidase, 4-(Methylnitrosamino)- 1-(3-Pyridyl)-1-Butanone Oxidase, Oxidoreductase, Heme
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
B. D. Smith, J. L. Sanders, P. R. Porubsky, G. H. Lushington, C. D. Stout, E. E. Scott
Structure Of The Human Lung Cytochrome P450 2A13.
J. Biol. Chem. V. 282 17306 2007
(for further references see the
PDB file header
)
[
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]
Hetero Components
(2, 18)
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)
2a: INDOLE (INDa)
2b: INDOLE (INDb)
2c: INDOLE (INDc)
2d: INDOLE (INDd)
2e: INDOLE (INDe)
2f: INDOLE (INDf)
2g: INDOLE (INDg)
2h: INDOLE (INDh)
2i: INDOLE (INDi)
2j: INDOLE (INDj)
2k: INDOLE (INDk)
2l: INDOLE (INDl)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
HEM
6
Ligand/Ion
PROTOPORPHYRIN IX CONTAINING FE
2
IND
12
Ligand/Ion
INDOLE
[
close Hetero Component info
]
Sites
(18, 18)
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)
17: BC8 (SOFTWARE)
18: BC9 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
ARG A:101 , VAL A:116 , ALA A:117 , ARG A:128 , ALA A:301 , THR A:305 , THR A:309 , MET A:365 , LEU A:366 , HIS A:372 , LEU A:395 , PRO A:431 , PHE A:432 , SER A:433 , ARG A:437 , CYS A:439 , PHE A:440 , ALA A:445 , IND A:507 , HOH A:614 , HOH A:681
BINDING SITE FOR RESIDUE HEM A 500
02
AC2
SOFTWARE
PHE A:118 , ASN A:297 , ALA A:301
BINDING SITE FOR RESIDUE IND A 501
03
AC3
SOFTWARE
PHE A:209 , HEM A:500
BINDING SITE FOR RESIDUE IND A 507
04
AC4
SOFTWARE
ARG B:101 , VAL B:116 , ALA B:117 , ARG B:128 , GLY B:302 , THR B:305 , THR B:309 , LEU B:366 , HIS B:372 , PRO B:431 , PHE B:432 , SER B:433 , ARG B:437 , CYS B:439 , PHE B:440 , GLY B:441 , IND B:508 , HOH B:721
BINDING SITE FOR RESIDUE HEM B 500
05
AC5
SOFTWARE
ASN B:297 , PHE B:300 , ALA B:301
BINDING SITE FOR RESIDUE IND B 502
06
AC6
SOFTWARE
PHE B:209 , ALA B:301 , LEU B:366 , HEM B:500 , HOH B:1242
BINDING SITE FOR RESIDUE IND B 508
07
AC7
SOFTWARE
ARG C:101 , VAL C:116 , ALA C:117 , ARG C:128 , ALA C:301 , THR C:305 , THR C:309 , MET C:365 , LEU C:366 , HIS C:372 , PRO C:431 , PHE C:432 , SER C:433 , ARG C:437 , CYS C:439 , PHE C:440 , IND C:509 , HOH C:1098 , HOH C:1139
BINDING SITE FOR RESIDUE HEM C 500
08
AC8
SOFTWARE
ASN C:297 , ALA C:301
BINDING SITE FOR RESIDUE IND C 503
09
AC9
SOFTWARE
PHE C:107 , PHE C:209 , HEM C:500 , HOH C:1243
BINDING SITE FOR RESIDUE IND C 509
10
BC1
SOFTWARE
ARG D:101 , ALA D:117 , ARG D:128 , LEU D:298 , ALA D:301 , GLY D:302 , THR D:305 , THR D:309 , GLN D:360 , HIS D:372 , PRO D:431 , PHE D:432 , SER D:433 , ARG D:437 , CYS D:439 , PHE D:440 , ALA D:445 , IND D:510 , HOH D:1068 , HOH D:1196
BINDING SITE FOR RESIDUE HEM D 500
11
BC2
SOFTWARE
ASN D:297 , ALA D:301
BINDING SITE FOR RESIDUE IND D 504
12
BC3
SOFTWARE
PHE D:107 , PHE D:209 , ALA D:301 , HEM D:500 , HOH D:1244
BINDING SITE FOR RESIDUE IND D 510
13
BC4
SOFTWARE
ARG E:101 , VAL E:116 , ALA E:117 , ARG E:128 , ALA E:301 , GLY E:302 , THR E:305 , THR E:309 , GLN E:360 , MET E:365 , LEU E:366 , HIS E:372 , LEU E:395 , PRO E:431 , PHE E:432 , SER E:433 , ARG E:437 , CYS E:439 , PHE E:440 , IND E:511 , HOH E:775 , HOH E:843
BINDING SITE FOR RESIDUE HEM E 500
14
BC5
SOFTWARE
ASN E:297 , ALA E:301
BINDING SITE FOR RESIDUE IND E 505
15
BC6
SOFTWARE
PHE E:209 , HEM E:500
BINDING SITE FOR RESIDUE IND E 511
16
BC7
SOFTWARE
ARG F:101 , VAL F:116 , ALA F:117 , ARG F:128 , ALA F:301 , THR F:305 , GLN F:360 , LEU F:366 , HIS F:372 , PRO F:431 , PHE F:432 , SER F:433 , ARG F:437 , CYS F:439 , PHE F:440 , ALA F:445 , IND F:512 , HOH F:898
BINDING SITE FOR RESIDUE HEM F 500
17
BC8
SOFTWARE
PHE F:118 , ASN F:297 , ALA F:301
BINDING SITE FOR RESIDUE IND F 506
18
BC9
SOFTWARE
PHE F:209 , HEM F:500 , HOH F:1246
BINDING SITE FOR RESIDUE IND F 512
[
close Site info
]
SAPs(SNPs)/Variants
(6, 36)
Info
(mutated residues are not available)
All SNPs/Variants
1: VAR_018335 (R101Q, chain A/B/C/D/E/F, )
2: VAR_018337 (D158E, chain A/B/C/D/E/F, )
3: VAR_013835 (R257C, chain A/B/C/D/E/F, )
4: VAR_018356 (V323L, chain A/B/C/D/E/F, )
5: VAR_018338 (F453Y, chain A/B/C/D/E/F, )
6: VAR_018339 (R494C, chain A/B/C/D/E/F, )
View:
Select:
Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
1
UniProt
VAR_018335
R
101
Q
CP2AD_HUMAN
Polymorphism
---
A/B/C/D/E/F
R
101
Q
2
UniProt
VAR_018337
D
158
E
CP2AD_HUMAN
Polymorphism
112337232
A/B/C/D/E/F
D
158
E
3
UniProt
VAR_013835
R
257
C
CP2AD_HUMAN
Polymorphism
8192789
A/B/C/D/E/F
R
257
C
4
UniProt
VAR_018356
V
323
L
CP2AD_HUMAN
Polymorphism
---
A/B/C/D/E/F
V
323
L
5
UniProt
VAR_018338
F
453
Y
CP2AD_HUMAN
Polymorphism
---
A/B/C/D/E/F
F
453
Y
6
UniProt
VAR_018339
R
494
C
CP2AD_HUMAN
Polymorphism
138870349
A/B/C/D/E/F
R
494
C
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
[
close SNP/Variant info
]
PROSITE Patterns/Profiles
(1, 6)
Info
All PROSITE Patterns/Profiles
1: CYTOCHROME_P450 (A:432-441,B:432-441,C:432-441,D:43...)
;
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.
CP2AD_HUMAN
432-441
6
A:432-441
B:432-441
C:432-441
D:432-441
E:432-441
F:432-441
[
close PROSITE info
]
Exons
(9, 54)
Info
All Exons
Exon 1.1a (A:31-60 | B:31-60 | C:31-60 | D:31...)
Exon 1.2 (A:61-115 | B:61-115 | C:61-115 | D...)
Exon 1.3 (A:115-165 | B:115-165 | C:115-165 ...)
Exon 1.4 (A:165-218 | B:165-218 | C:165-218 ...)
Exon 1.5 (A:219-277 | B:219-277 | C:219-277 ...)
Exon 1.6 (A:278-325 | B:278-325 | C:278-325 ...)
Exon 1.7 (A:325-387 | B:325-387 | C:325-387 ...)
Exon 1.8 (A:388-435 | B:388-435 | C:388-435 ...)
Exon 1.9b (A:435-494 | B:435-494 | C:435-494 ...)
View:
Select:
Label:
All Exon Boundaries
01: Boundary -/1.1a
02: Boundary 1.1a/1.2
03: Boundary 1.2/1.3
04: Boundary 1.3/1.4
05: Boundary 1.4/1.5
06: Boundary 1.5/1.6
07: Boundary 1.6/1.7
08: Boundary 1.7/1.8
09: Boundary 1.8/1.9b
10: Boundary 1.9b/-
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
ENST00000330436
1a
ENSE00001773270
chr19:
41594368-41594556
189
CP2AD_HUMAN
1-60
60
6
A:31-60
B:31-60
C:31-60
D:31-60
E:31-60
F:31-60
30
30
30
30
30
30
1.2
ENST00000330436
2
ENSE00002155113
chr19:
41594834-41594996
163
CP2AD_HUMAN
61-115
55
6
A:61-115
B:61-115
C:61-115
D:61-115
E:61-115
F:61-115
55
55
55
55
55
55
1.3
ENST00000330436
3
ENSE00001771471
chr19:
41595952-41596101
150
CP2AD_HUMAN
115-165
51
6
A:115-165
B:115-165
C:115-165
D:115-165
E:115-165
F:115-165
51
51
51
51
51
51
1.4
ENST00000330436
4
ENSE00001660507
chr19:
41596309-41596469
161
CP2AD_HUMAN
165-218
54
6
A:165-218
B:165-218
C:165-218
D:165-218
E:165-218
F:165-218
54
54
54
54
54
54
1.5
ENST00000330436
5
ENSE00001674446
chr19:
41597637-41597813
177
CP2AD_HUMAN
219-277
59
6
A:219-277
B:219-277
C:219-277
D:219-277
E:219-277
F:219-277
59
59
59
59
59
59
1.6
ENST00000330436
6
ENSE00001608489
chr19:
41599535-41599676
142
CP2AD_HUMAN
278-325
48
6
A:278-325
B:278-325
C:278-325
D:278-325
E:278-325
F:278-325
48
48
48
48
48
48
1.7
ENST00000330436
7
ENSE00001652331
chr19:
41600150-41600337
188
CP2AD_HUMAN
325-387
63
6
A:325-387
B:325-387
C:325-387
D:325-387
E:325-387
F:325-387
63
63
63
63
63
63
1.8
ENST00000330436
8
ENSE00001710361
chr19:
41600864-41601005
142
CP2AD_HUMAN
388-435
48
6
A:388-435
B:388-435
C:388-435
D:388-435
E:388-435
F:388-435
48
48
48
48
48
48
1.9b
ENST00000330436
9b
ENSE00001385067
chr19:
41601665-41602099
435
CP2AD_HUMAN
435-494
60
6
A:435-494
B:435-494
C:435-494
D:435-494
E:435-494
F:435-494
60
60
60
60
60
60
[
close EXON info
]
SCOP Domains
(1, 6)
Info
All SCOP Domains
1a: SCOP_d2p85a_ (A:)
1b: SCOP_d2p85b_ (B:)
1c: SCOP_d2p85c_ (C:)
1d: SCOP_d2p85d_ (D:)
1e: SCOP_d2p85e_ (E:)
1f: SCOP_d2p85f_ (F:)
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Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
All alpha proteins
(14657)
Fold
:
Cytochrome P450
(480)
Superfamily
:
Cytochrome P450
(480)
Family
:
automated matches
(157)
Protein domain
:
automated matches
(157)
Human (Homo sapiens) [TaxId: 9606]
(27)
1a
d2p85a_
A:
1b
d2p85b_
B:
1c
d2p85c_
C:
1d
d2p85d_
D:
1e
d2p85e_
E:
1f
d2p85f_
F:
[
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CATH Domains
(1, 6)
Info
all CATH domains
1a: CATH_2p85A00 (A:31-494)
1b: CATH_2p85B00 (B:31-494)
1c: CATH_2p85C00 (C:31-494)
1d: CATH_2p85D00 (D:31-494)
1e: CATH_2p85E00 (E:31-494)
1f: CATH_2p85F00 (F:31-494)
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Topologies
(
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(
)
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
2p85A00
A:31-494
1b
2p85B00
B:31-494
1c
2p85C00
C:31-494
1d
2p85D00
D:31-494
1e
2p85E00
E:31-494
1f
2p85F00
F:31-494
[
close CATH info
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Pfam Domains
(1, 6)
Info
all PFAM domains
1a: PFAM_p450_2p85F01 (F:34-491)
1b: PFAM_p450_2p85F02 (F:34-491)
1c: PFAM_p450_2p85F03 (F:34-491)
1d: PFAM_p450_2p85F04 (F:34-491)
1e: PFAM_p450_2p85F05 (F:34-491)
1f: PFAM_p450_2p85F06 (F:34-491)
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Organisms
(
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(
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Clan
:
no clan defined [family: p450]
(161)
Family
:
p450
(161)
Homo sapiens (Human)
(33)
1a
p450-2p85F01
F:34-491
1b
p450-2p85F02
F:34-491
1c
p450-2p85F03
F:34-491
1d
p450-2p85F04
F:34-491
1e
p450-2p85F05
F:34-491
1f
p450-2p85F06
F:34-491
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