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1KVO
Biol. Unit 1
Info
Asym.Unit (140 KB)
Biol.Unit 1 (47 KB)
Biol.Unit 2 (47 KB)
Biol.Unit 3 (47 KB)
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(1)
Title
:
HUMAN PHOSPHOLIPASE A2 COMPLEXED WITH A HIGHLY POTENT SUBSTRATE ANOLOGUE
Authors
:
S. -S. Cha, S. S. Abdel-Meguid, B. -H. Oh
Date
:
29 Jul 96 (Deposition) - 07 Jul 97 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.00
Chains
:
Asym. Unit : A,B,C,D,E,F
Biol. Unit 1: A,B (1x)
Biol. Unit 2: C,D (1x)
Biol. Unit 3: E,F (1x)
Keywords
:
Hydrolase, Lipid Degradation, Membrane, Signal, Calcium
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
S. S. Cha, D. Lee, J. Adams, J. T. Kurdyla, C. S. Jones, L. A. Marshall, B. Bolognese, S. S. Abdel-Meguid, B. H. Oh
High-Resolution X-Ray Crystallography Reveals Precise Binding Interactions Between Human Nonpancreatic Secreted Phospholipase A2 And A Highly Potent Inhibitor (Fpl67047Xx).
J. Med. Chem. V. 39 3878 1996
(for further references see the
PDB file header
)
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Hetero Components
(1, 2)
Info
All Hetero Components
1a: CALCIUM ION (CAa)
1b: CALCIUM ION (CAb)
1c: CALCIUM ION (CAc)
1d: CALCIUM ION (CAd)
1e: CALCIUM ION (CAe)
1f: CALCIUM ION (CAf)
1g: CALCIUM ION (CAg)
1h: CALCIUM ION (CAh)
1i: CALCIUM ION (CAi)
1j: CALCIUM ION (CAj)
1k: CALCIUM ION (CAk)
1l: CALCIUM ION (CAl)
2a: 4-(S)-[(1-OXO-7-PHENYLHEPTYL)AMINO... (OAPa)
2b: 4-(S)-[(1-OXO-7-PHENYLHEPTYL)AMINO... (OAPb)
2c: 4-(S)-[(1-OXO-7-PHENYLHEPTYL)AMINO... (OAPc)
2d: 4-(S)-[(1-OXO-7-PHENYLHEPTYL)AMINO... (OAPd)
2e: 4-(S)-[(1-OXO-7-PHENYLHEPTYL)AMINO... (OAPe)
2f: 4-(S)-[(1-OXO-7-PHENYLHEPTYL)AMINO... (OAPf)
View:
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Label:
No.
Name
Count
Type
Full Name
1
CA
-1
Ligand/Ion
CALCIUM ION
2
OAP
2
Ligand/Ion
4-(S)-[(1-OXO-7-PHENYLHEPTYL)AMINO]-5-[4-(PHENYLMETHYL)PHENYLTHIO]PENTANOIC ACID
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Sites
(6, 6)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
3: AC3 (SOFTWARE)
4: AC4 (SOFTWARE)
5: BC4 (SOFTWARE)
6: BC5 (SOFTWARE)
View:
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Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
HIS A:27 , GLY A:29 , GLY A:31 , ASP A:48 , OAP A:190
BINDING SITE FOR RESIDUE CA A 191
2
AC2
SOFTWARE
PHE A:23 , GLY A:25 , TYR A:112 , ASN A:114 , HOH A:1209
BINDING SITE FOR RESIDUE CA A 192
3
AC3
SOFTWARE
HIS B:27 , GLY B:29 , GLY B:31 , ASP B:48 , OAP B:190
BINDING SITE FOR RESIDUE CA B 191
4
AC4
SOFTWARE
PHE B:23 , GLY B:25 , TYR B:112 , ASN B:114 , HOH B:1242
BINDING SITE FOR RESIDUE CA B 192
5
BC4
SOFTWARE
ALA A:17 , ALA A:18 , TYR A:21 , GLY A:22 , HIS A:27 , GLY A:29 , VAL A:30 , GLY A:31 , CYS A:44 , HIS A:47 , ASP A:48 , TYR A:51 , CA A:191
BINDING SITE FOR RESIDUE OAP A 190
6
BC5
SOFTWARE
LEU B:2 , PHE B:5 , ALA B:17 , ALA B:18 , GLY B:22 , HIS B:27 , GLY B:29 , VAL B:30 , GLY B:31 , HIS B:47 , ASP B:48 , TYR B:51 , CA B:191 , HOH B:1462 , HOH B:1486
BINDING SITE FOR RESIDUE OAP B 190
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are only available for the asymmetric unit)
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PROSITE Patterns/Profiles
(2, 4)
Info
All PROSITE Patterns/Profiles
1: PA2_HIS (A:43-50,B:43-50)
2: PA2_ASP (A:87-97,B:87-97)
;
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End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
PA2_HIS
PS00118
Phospholipase A2 histidine active site.
PA2GA_HUMAN
63-70
2
A:43-50
B:43-50
-
-
-
-
2
PA2_ASP
PS00119
Phospholipase A2 aspartic acid active site.
PA2GA_HUMAN
107-117
2
A:87-97
B:87-97
-
-
-
-
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Exons
(0, 0)
Info
All Exons
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Note:
Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
(no "Exon" information available for biological units yet)
SCOP Domains
(1, 6)
Info
All SCOP Domains
1a: SCOP_d1kvoa_ (A:)
1b: SCOP_d1kvoe_ (E:)
1c: SCOP_d1kvof_ (F:)
1d: SCOP_d1kvob_ (B:)
1e: SCOP_d1kvoc_ (C:)
1f: SCOP_d1kvod_ (D:)
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(
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Class
:
All alpha proteins
(14657)
Fold
:
Phospholipase A2, PLA2
(282)
Superfamily
:
Phospholipase A2, PLA2
(282)
Family
:
Vertebrate phospholipase A2
(271)
Protein domain
:
Phospholipase A2
(72)
Human (Homo sapiens), synovial fluid [TaxId: 9606]
(16)
1a
d1kvoa_
A:
1b
d1kvoe_
E:
1c
d1kvof_
F:
1d
d1kvob_
B:
1e
d1kvoc_
C:
1f
d1kvod_
D:
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CATH Domains
(1, 6)
Info
all CATH domains
1a: CATH_1kvoA00 (A:1-124)
1b: CATH_1kvoB00 (B:1-124)
1c: CATH_1kvoC00 (C:1-124)
1d: CATH_1kvoD00 (D:1-124)
1e: CATH_1kvoE00 (E:1-124)
1f: CATH_1kvoF00 (F:1-124)
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Organisms
(
)
(
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Class
:
Mainly Alpha
(13335)
Architecture
:
Up-down Bundle
(3216)
Topology
:
Phospholipase A2
(241)
Homologous Superfamily
:
Phospholipase A2
(241)
Human (Homo sapiens)
(15)
1a
1kvoA00
A:1-124
1b
1kvoB00
B:1-124
1c
1kvoC00
C:1-124
1d
1kvoD00
D:1-124
1e
1kvoE00
E:1-124
1f
1kvoF00
F:1-124
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Pfam Domains
(1, 6)
Info
all PFAM domains
1a: PFAM_Phospholip_A2_1_1kvoF01 (F:1-120)
1b: PFAM_Phospholip_A2_1_1kvoF02 (F:1-120)
1c: PFAM_Phospholip_A2_1_1kvoF03 (F:1-120)
1d: PFAM_Phospholip_A2_1_1kvoF04 (F:1-120)
1e: PFAM_Phospholip_A2_1_1kvoF05 (F:1-120)
1f: PFAM_Phospholip_A2_1_1kvoF06 (F:1-120)
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Clan
:
no clan defined [family: Phospholip_A2_1]
(33)
Family
:
Phospholip_A2_1
(33)
Homo sapiens (Human)
(8)
1a
Phospholip_A2_1-1kvoF01
F:1-120
1b
Phospholip_A2_1-1kvoF02
F:1-120
1c
Phospholip_A2_1-1kvoF03
F:1-120
1d
Phospholip_A2_1-1kvoF04
F:1-120
1e
Phospholip_A2_1-1kvoF05
F:1-120
1f
Phospholip_A2_1-1kvoF06
F:1-120
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Asymmetric Unit 1
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Show PDB file:
Asym.Unit (140 KB)
Header - Asym.Unit
Biol.Unit 1 (47 KB)
Header - Biol.Unit 1
Biol.Unit 2 (47 KB)
Header - Biol.Unit 2
Biol.Unit 3 (47 KB)
Header - Biol.Unit 3
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