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3B99
Asym. Unit
Info
Asym.Unit (159 KB)
Biol.Unit 1 (81 KB)
Biol.Unit 2 (75 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF ZEBRAFISH PROSTACYCLIN SYNTHASE (CYTOCHROME P450 8A1) IN COMPLEX WITH SUBSTRATE ANALOG U51605
Authors
:
Y. -C. Li, C. -W. Chiang, H. -C. Yeh, P. -Y. Hsu, F. G. Whitby, L. -H. Wang, N
Date
:
03 Nov 07 (Deposition) - 20 Nov 07 (Release) - 04 Jul 12 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.50
Chains
:
Asym. Unit : A,B
Biol. Unit 1: A (1x)
Biol. Unit 2: B (1x)
Keywords
:
Prostacyclin Synthase, Cytochrome P450 8A1, Cyp8A1, Substrate Analog- Enzyme Complex, Isomerase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
Y. -C. Li, C. -W. Chiang, H. -C. Yeh, P. -Y. Hsu, F. G. Whitby, L. -H. Wang, N. -L. Chan
Structures Of Prostacyclin Synthase And Its Complexes With Substrate Analog And Inhibitor Reveal A Ligand-Specific Hem Conformation Change
J. Biol. Chem. V. 283 2917 2008
[
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Hetero Components
(2, 8)
Info
All Hetero Components
1a: PROTOPORPHYRIN IX CONTAINING FE (HEMa)
1b: PROTOPORPHYRIN IX CONTAINING FE (HEMb)
2a: (5Z)-7-{(1R,4S,5R,6R)-6-[(1E)-OCT-... (U51a)
2b: (5Z)-7-{(1R,4S,5R,6R)-6-[(1E)-OCT-... (U51b)
2c: (5Z)-7-{(1R,4S,5R,6R)-6-[(1E)-OCT-... (U51c)
2d: (5Z)-7-{(1R,4S,5R,6R)-6-[(1E)-OCT-... (U51d)
2e: (5Z)-7-{(1R,4S,5R,6R)-6-[(1E)-OCT-... (U51e)
2f: (5Z)-7-{(1R,4S,5R,6R)-6-[(1E)-OCT-... (U51f)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
HEM
2
Ligand/Ion
PROTOPORPHYRIN IX CONTAINING FE
2
U51
6
Ligand/Ion
(5Z)-7-{(1R,4S,5R,6R)-6-[(1E)-OCT-1-EN-1-YL]-2,3-DIAZABICYCLO[2.2.1]HEPT-2-EN-5-YL}HEPT-5-ENOIC ACID
[
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Sites
(8, 8)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
3: AC3 (SOFTWARE)
4: AC4 (SOFTWARE)
5: AC5 (SOFTWARE)
6: AC6 (SOFTWARE)
7: AC7 (SOFTWARE)
8: AC8 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
GLN A:94 , LYS A:119 , PHE A:126 , VAL A:273 , THR A:274 , ASN A:277 , ALA A:335 , ARG A:339 , PRO A:413 , TRP A:414 , GLY A:415 , ASN A:419 , CYS A:421 , PRO A:422 , GLY A:423 , ILE A:465 , U51 A:700 , HOH A:704
BINDING SITE FOR RESIDUE HEM A 600
2
AC2
SOFTWARE
VAL A:273 , ASN A:277 , ALA A:335 , LEU A:336 , ILE A:337 , THR A:338 , ARG A:339 , GLY A:462 , HEM A:600
BINDING SITE FOR RESIDUE U51 A 700
3
AC3
SOFTWARE
ALA A:98 , GLN A:99 , MET A:102 , ILE A:105 , PHE A:106 , LEU A:110 , HIS A:113 , TRP A:272 , HOH A:732
BINDING SITE FOR RESIDUE U51 A 701
4
AC4
SOFTWARE
PHE A:45 , TYR A:97 , ARG A:104 , ARG A:362 , CYS A:364 , GLY A:462 , PHE A:463
BINDING SITE FOR RESIDUE U51 A 702
5
AC5
SOFTWARE
GLN B:94 , LYS B:119 , PHE B:126 , VAL B:273 , THR B:274 , ASN B:277 , ARG B:339 , PRO B:413 , TRP B:414 , ASN B:419 , CYS B:421 , PRO B:422 , GLY B:423 , ILE B:465 , U51 B:700 , HOH B:738
BINDING SITE FOR RESIDUE HEM B 600
6
AC6
SOFTWARE
GLN B:94 , ALA B:98 , VAL B:273 , ASN B:277 , ALA B:335 , LEU B:336 , ILE B:337 , THR B:338 , ARG B:339 , GLY B:462 , HEM B:600
BINDING SITE FOR RESIDUE U51 B 700
7
AC7
SOFTWARE
GLU B:118 , ALA B:122 , TRP B:245 , TYR B:249 , LEU B:269 , GLN B:270 , TRP B:272 , U51 B:702
BINDING SITE FOR RESIDUE U51 B 701
8
AC8
SOFTWARE
ILE B:73 , TYR B:97 , ARG B:209 , LEU B:336 , ARG B:362 , GLY B:462 , PHE B:463 , U51 B:701
BINDING SITE FOR RESIDUE U51 B 702
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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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End label:
Sorry, no Info available
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Exons
(10, 20)
Info
All Exons
Exon 1.1 (A:21-24 | B:21-24)
Exon 1.2 (A:24-65 | B:24-65)
Exon 1.3 (A:66-124 | B:66-124)
Exon 1.4 (A:124-173 | B:124-173 (gaps))
Exon 1.5 (A:173-215 | B:173-210 (gaps))
Exon 1.6 (A:215-275 | B:216-275 (gaps))
Exon 1.7 (A:276-322 (gaps) | B:276-322 (gaps...)
Exon 1.8b (A:322-382 | B:322-382)
Exon 1.9b (A:383-433 (gaps) | B:383-433)
Exon 1.10b (A:433-479 | B:433-479)
View:
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All Exon Boundaries
01: Boundary -/1.1
02: Boundary 1.1/1.2
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 1.7/1.8b
09: Boundary 1.8b/1.9b
10: Boundary 1.9b/1.10b
11: Boundary 1.10b/-
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
1.1
ENSDART00000084334
1
ENSDARE00000613519
chr6:
46526910-46526805
106
PTGIS_DANRE
1-24
24
2
A:21-24
B:21-24
4
4
1.2
ENSDART00000084334
2
ENSDARE00000613638
chr6:
46526690-46526567
124
PTGIS_DANRE
24-65
42
2
A:24-65
B:24-65
42
42
1.3
ENSDART00000084334
3
ENSDARE00000613508
chr6:
46522867-46522692
176
PTGIS_DANRE
66-124
59
2
A:66-124
B:66-124
59
59
1.4
ENSDART00000084334
4
ENSDARE00000613623
chr6:
46522416-46522270
147
PTGIS_DANRE
124-173
50
2
A:124-173
B:124-173 (gaps)
50
50
1.5
ENSDART00000084334
5
ENSDARE00000613615
chr6:
46519656-46519532
125
PTGIS_DANRE
173-215
43
2
A:173-215
B:173-210 (gaps)
43
38
1.6
ENSDART00000084334
6
ENSDARE00000613607
chr6:
46519418-46519237
182
PTGIS_DANRE
215-275
61
2
A:215-275
B:216-275 (gaps)
61
60
1.7
ENSDART00000084334
7
ENSDARE00000613593
chr6:
46513254-46513116
139
PTGIS_DANRE
276-322
47
2
A:276-322 (gaps)
B:276-322 (gaps)
47
47
1.8b
ENSDART00000084334
8b
ENSDARE00000613573
chr6:
46512280-46512099
182
PTGIS_DANRE
322-382
61
2
A:322-382
B:322-382
61
61
1.9b
ENSDART00000084334
9b
ENSDARE00000613553
chr6:
46508242-46508091
152
PTGIS_DANRE
383-433
51
2
A:383-433 (gaps)
B:383-433
51
51
1.10b
ENSDART00000084334
10b
ENSDARE00000613455
chr6:
46505617-46505303
315
PTGIS_DANRE
433-480
48
2
A:433-479
B:433-479
47
47
[
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]
SCOP Domains
(1, 2)
Info
All SCOP Domains
1a: SCOP_d3b99a_ (A:)
1b: SCOP_d3b99b_ (B:)
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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)
Zebrafish (Danio rerio) [TaxId: 7955]
(2)
1a
d3b99a_
A:
1b
d3b99b_
B:
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CATH Domains
(0, 0)
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all CATH domains
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Pfam Domains
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Asymmetric Unit 1
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select residue range 5 to 10 in all chains
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select residue range 5 to 10 in chain 'A'
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