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2Z3T
Asym. Unit
Info
Asym.Unit (264 KB)
Biol.Unit 1 (69 KB)
Biol.Unit 2 (68 KB)
Biol.Unit 3 (68 KB)
Biol.Unit 4 (67 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF SUBSTRATE FREE CYTOCHROME P450 STAP (CYP245A1)
Authors
:
M. Makino, H. Sugimoto, Y. Shiro, S. Asamizu, H. Onaka, S. Nagano
Date
:
06 Jun 07 (Deposition) - 03 Jul 07 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.90
Chains
:
Asym. Unit : A,B,C,D
Biol. Unit 1: A (1x)
Biol. Unit 2: B (1x)
Biol. Unit 3: C (1x)
Biol. Unit 4: D (1x)
Keywords
:
Cytochrome P450, Monoxygenase, Oxydoreductase, Heme-Enzyme, Oxidoreductase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
M. Makino, H. Sugimoto, Y. Shiro, S. Asamizu, H. Onaka, S. Nagano
Crystal Structures And Catalytic Mechanism Of Cytochrome P450 Stap That Produces The Indolocarbazole Skeleton
Proc. Natl. Acad. Sci. Usa V. 104 11591 2007
(for further references see the
PDB file header
)
[
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Hetero Components
(3, 17)
Info
All Hetero Components
1a: 1,2-ETHANEDIOL (EDOa)
1b: 1,2-ETHANEDIOL (EDOb)
1c: 1,2-ETHANEDIOL (EDOc)
1d: 1,2-ETHANEDIOL (EDOd)
1e: 1,2-ETHANEDIOL (EDOe)
1f: 1,2-ETHANEDIOL (EDOf)
1g: 1,2-ETHANEDIOL (EDOg)
1h: 1,2-ETHANEDIOL (EDOh)
1i: 1,2-ETHANEDIOL (EDOi)
2a: PROTOPORPHYRIN IX CONTAINING FE (HEMa)
2b: PROTOPORPHYRIN IX CONTAINING FE (HEMb)
2c: PROTOPORPHYRIN IX CONTAINING FE (HEMc)
2d: PROTOPORPHYRIN IX CONTAINING FE (HEMd)
3a: IMIDAZOLE (IMDa)
3b: IMIDAZOLE (IMDb)
3c: IMIDAZOLE (IMDc)
3d: IMIDAZOLE (IMDd)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
EDO
9
Ligand/Ion
1,2-ETHANEDIOL
2
HEM
4
Ligand/Ion
PROTOPORPHYRIN IX CONTAINING FE
3
IMD
4
Ligand/Ion
IMIDAZOLE
[
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Sites
(17, 17)
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)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
ARG A:67 , LEU A:98 , HIS A:106 , ARG A:110 , PHE A:117 , ALA A:254 , GLY A:255 , THR A:258 , THR A:259 , PRO A:300 , VAL A:304 , ARG A:306 , LEU A:329 , GLY A:356 , PHE A:357 , GLY A:358 , ILE A:361 , HIS A:362 , CYS A:364 , LEU A:365 , ALA A:370 , IMD A:501 , HOH A:1216 , HOH A:1283 , HOH A:1317
BINDING SITE FOR RESIDUE HEM A 500
02
AC2
SOFTWARE
ALA A:254 , GLU A:257 , THR A:258 , PHE A:403 , HEM A:500
BINDING SITE FOR RESIDUE IMD A 501
03
AC3
SOFTWARE
ARG B:67 , LEU B:98 , HIS B:106 , ARG B:110 , PHE B:117 , ALA B:254 , GLY B:255 , THR B:258 , THR B:259 , PRO B:300 , ARG B:306 , LEU B:329 , GLY B:356 , PHE B:357 , GLY B:358 , ILE B:361 , HIS B:362 , CYS B:364 , LEU B:365 , GLY B:366 , ALA B:370 , IMD B:501 , HOH B:1282
BINDING SITE FOR RESIDUE HEM B 500
04
AC4
SOFTWARE
ALA B:254 , GLU B:257 , THR B:258 , HEM B:500
BINDING SITE FOR RESIDUE IMD B 501
05
AC5
SOFTWARE
ARG C:67 , HIS C:106 , ARG C:110 , PHE C:117 , HIS C:250 , ALA C:254 , GLY C:255 , THR C:258 , THR C:259 , PRO C:300 , ARG C:306 , LEU C:329 , GLY C:356 , PHE C:357 , GLY C:358 , ILE C:361 , HIS C:362 , CYS C:364 , LEU C:365 , GLY C:366 , ALA C:370 , IMD C:501 , HOH C:1224
BINDING SITE FOR RESIDUE HEM C 500
06
AC6
SOFTWARE
ALA C:254 , GLU C:257 , THR C:258 , PHE C:403 , HEM C:500
BINDING SITE FOR RESIDUE IMD C 501
07
AC7
SOFTWARE
ARG D:67 , HIS D:106 , ARG D:110 , LEU D:251 , ALA D:254 , THR D:258 , THR D:259 , MET D:295 , PRO D:300 , ARG D:306 , LEU D:329 , GLY D:356 , PHE D:357 , GLY D:358 , ILE D:361 , HIS D:362 , CYS D:364 , LEU D:365 , GLY D:366 , IMD D:501 , HOH D:1243
BINDING SITE FOR RESIDUE HEM D 500
08
AC8
SOFTWARE
ALA D:254 , GLU D:257 , THR D:258 , PHE D:403 , HEM D:500
BINDING SITE FOR RESIDUE IMD D 501
09
AC9
SOFTWARE
PHE D:403
BINDING SITE FOR RESIDUE EDO D 1201
10
BC1
SOFTWARE
GLU A:292 , ALA A:351 , ARG A:371 , EDO A:1203
BINDING SITE FOR RESIDUE EDO A 1202
11
BC2
SOFTWARE
ARG A:349 , ALA A:351 , EDO A:1202
BINDING SITE FOR RESIDUE EDO A 1203
12
BC3
SOFTWARE
GLU B:169 , GLU B:170
BINDING SITE FOR RESIDUE EDO B 1204
13
BC4
SOFTWARE
PRO B:288 , ALA B:351
BINDING SITE FOR RESIDUE EDO B 1205
14
BC5
SOFTWARE
LEU B:11 , MET B:12 , GLY B:13 , TRP B:14 , ASP B:399 , MET B:401
BINDING SITE FOR RESIDUE EDO B 1206
15
BC6
SOFTWARE
ALA C:289 , GLU C:292 , ALA C:351 , HOH C:1251
BINDING SITE FOR RESIDUE EDO C 1207
16
BC7
SOFTWARE
ALA D:181 , GLU D:184 , ARG D:198
BINDING SITE FOR RESIDUE EDO D 1208
17
BC8
SOFTWARE
LEU A:359 , HOH A:1241 , ARG B:145 , ASP B:412 , HOH B:1278
BINDING SITE FOR RESIDUE EDO B 1209
[
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
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PROSITE Patterns/Profiles
(0, 0)
Info
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;
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Sorry, no Info available
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Exons
(0, 0)
Info
All Exons
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All Exon Boundaries
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Note:
Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
SCOP Domains
(1, 4)
Info
All SCOP Domains
1a: SCOP_d2z3ta_ (A:)
1b: SCOP_d2z3tb_ (B:)
1c: SCOP_d2z3tc_ (C:)
1d: SCOP_d2z3td_ (D:)
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Protein Domains
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Organisms
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)
(
)
Class
:
All alpha proteins
(14657)
Fold
:
Cytochrome P450
(480)
Superfamily
:
Cytochrome P450
(480)
Family
:
automated matches
(157)
Protein domain
:
automated matches
(157)
Streptomyces sp. [TaxId: 171258]
(3)
1a
d2z3ta_
A:
1b
d2z3tb_
B:
1c
d2z3tc_
C:
1d
d2z3td_
D:
[
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CATH Domains
(1, 4)
Info
all CATH domains
1a: CATH_2z3tA00 (A:5-414)
1b: CATH_2z3tC00 (C:5-414)
1c: CATH_2z3tD00 (D:5-413)
1d: CATH_2z3tB00 (B:5-414)
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)
(
)
Organisms
(
)
(
)
Class
:
Mainly Alpha
(13335)
Architecture
:
Orthogonal Bundle
(10391)
Topology
:
Cytochrome p450
(271)
Homologous Superfamily
:
Cytochrome p450
(271)
Tp-a0274 (Streptomyces sp)
(3)
1a
2z3tA00
A:5-414
1b
2z3tC00
C:5-414
1c
2z3tD00
D:5-413
1d
2z3tB00
B:5-414
[
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]
Pfam Domains
(0, 0)
Info
all PFAM domains
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Sorry, no Info available
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Atom Selection
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Protein & NOT Site
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Chain A
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Chain C
Chain D
Asymmetric Unit 1
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select :A, :C
select chains 'A' and 'C'
select [ALA]:A
select all 'ALA' residues (Alanines) in chain 'A'
select 5-10
select residue range 5 to 10 in all chains
select 5-10:A
select residue range 5 to 10 in chain 'A'
select protein & not helix & not sheet
select non-helix/non-sheet protein parts
set fontsize 20
set label size to 20 (allowed range: 1-58)
ssbonds 100
show SS bonds with a radius of 100 units (=0.4Å)
wireframe 100
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Show PDB file:
Asym.Unit (264 KB)
Header - Asym.Unit
Biol.Unit 1 (69 KB)
Header - Biol.Unit 1
Biol.Unit 2 (68 KB)
Header - Biol.Unit 2
Biol.Unit 3 (68 KB)
Header - Biol.Unit 3
Biol.Unit 4 (67 KB)
Header - Biol.Unit 4
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