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1CVI
Biol. Unit 3
Info
Asym.Unit (265 KB)
Biol.Unit 1 (254 KB)
Biol.Unit 2 (132 KB)
Biol.Unit 3 (128 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF HUMAN PROSTATIC ACID PHOSPHATASE
Authors
:
C. G. Jakob, K. Lewinski, R. Kuciel, W. Ostrowski, L. Lebioda
Date
:
23 Aug 99 (Deposition) - 31 Aug 99 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
3.20
Chains
:
Asym. Unit : A,B,C,D
Biol. Unit 1: A,B,C,D (1x)
Biol. Unit 2: A,B (1x)
Biol. Unit 3: C,D (1x)
Keywords
:
Acid Phosphatase, Inhibition, Hydrolase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
C. G. Jakob, K. Lewinski, R. Kuciel, W. Ostrowski, L. Lebioda
Crystal Structure Of Human Prostatic Acid Phosphatase .
Prostate V. 42 211 2000
(for further references see the
PDB file header
)
[
close entry info
]
Hetero Components
(4, 17)
Info
All Hetero Components
1a: BETA-D-MANNOSE (BMAa)
1b: BETA-D-MANNOSE (BMAb)
1c: BETA-D-MANNOSE (BMAc)
1d: BETA-D-MANNOSE (BMAd)
1e: BETA-D-MANNOSE (BMAe)
1f: BETA-D-MANNOSE (BMAf)
1g: BETA-D-MANNOSE (BMAg)
1h: BETA-D-MANNOSE (BMAh)
1i: BETA-D-MANNOSE (BMAi)
2a: ALPHA-L-FUCOSE (FUCa)
3a: GLYCINE (GLYa)
3b: GLYCINE (GLYb)
3c: GLYCINE (GLYc)
3d: GLYCINE (GLYd)
4a: ALPHA-D-MANNOSE (MANa)
4b: ALPHA-D-MANNOSE (MANb)
4c: ALPHA-D-MANNOSE (MANc)
4d: ALPHA-D-MANNOSE (MANd)
4e: ALPHA-D-MANNOSE (MANe)
4f: ALPHA-D-MANNOSE (MANf)
4g: ALPHA-D-MANNOSE (MANg)
4h: ALPHA-D-MANNOSE (MANh)
5a: N-ACETYL-D-GLUCOSAMINE (NAGa)
5b: N-ACETYL-D-GLUCOSAMINE (NAGb)
5c: N-ACETYL-D-GLUCOSAMINE (NAGc)
5d: N-ACETYL-D-GLUCOSAMINE (NAGd)
5e: N-ACETYL-D-GLUCOSAMINE (NAGe)
5f: N-ACETYL-D-GLUCOSAMINE (NAGf)
5g: N-ACETYL-D-GLUCOSAMINE (NAGg)
5h: N-ACETYL-D-GLUCOSAMINE (NAGh)
5i: N-ACETYL-D-GLUCOSAMINE (NAGi)
5j: N-ACETYL-D-GLUCOSAMINE (NAGj)
5k: N-ACETYL-D-GLUCOSAMINE (NAGk)
5l: N-ACETYL-D-GLUCOSAMINE (NAGl)
5m: N-ACETYL-D-GLUCOSAMINE (NAGm)
5n: N-ACETYL-D-GLUCOSAMINE (NAGn)
5o: N-ACETYL-D-GLUCOSAMINE (NAGo)
5p: N-ACETYL-D-GLUCOSAMINE (NAGp)
5q: N-ACETYL-D-GLUCOSAMINE (NAGq)
5r: N-ACETYL-D-GLUCOSAMINE (NAGr)
5s: N-ACETYL-D-GLUCOSAMINE (NAGs)
5t: N-ACETYL-D-GLUCOSAMINE (NAGt)
5u: N-ACETYL-D-GLUCOSAMINE (NAGu)
5v: N-ACETYL-D-GLUCOSAMINE (NAGv)
5w: N-ACETYL-D-GLUCOSAMINE (NAGw)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
BMA
4
Ligand/Ion
BETA-D-MANNOSE
2
FUC
-1
Ligand/Ion
ALPHA-L-FUCOSE
3
GLY
2
Mod. Amino Acid
GLYCINE
4
MAN
1
Ligand/Ion
ALPHA-D-MANNOSE
5
NAG
10
Ligand/Ion
N-ACETYL-D-GLUCOSAMINE
[
close Hetero Component info
]
Sites
(18, 18)
Info
All Sites
01: AC5 (SOFTWARE)
02: AC6 (SOFTWARE)
03: AC7 (SOFTWARE)
04: AC8 (SOFTWARE)
05: AC9 (SOFTWARE)
06: CC4 (SOFTWARE)
07: CC5 (SOFTWARE)
08: CC6 (SOFTWARE)
09: CC7 (SOFTWARE)
10: DC8 (SOFTWARE)
11: DC9 (SOFTWARE)
12: EC1 (SOFTWARE)
13: EC2 (SOFTWARE)
14: EC3 (SOFTWARE)
15: EC4 (SOFTWARE)
16: EC5 (SOFTWARE)
17: EC8 (SOFTWARE)
18: EC9 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC5
SOFTWARE
ASN C:3062
BINDING SITE FOR RESIDUE NAG C 3361
02
AC6
SOFTWARE
ASN D:4062 , GLU D:4063 , NAG D:4362
BINDING SITE FOR RESIDUE NAG D 4361
03
AC7
SOFTWARE
GLU D:4002 , NAG D:4361 , BMA D:4363
BINDING SITE FOR RESIDUE NAG D 4362
04
AC8
SOFTWARE
GLU D:4002 , NAG D:4362 , MAN D:4366
BINDING SITE FOR RESIDUE BMA D 4363
05
AC9
SOFTWARE
PHE D:4288 , BMA D:4363 , HOH D:5226
BINDING SITE FOR RESIDUE MAN D 4366
06
CC4
SOFTWARE
VAL C:3186 , ASN C:3188 , NAG C:3372 , HOH C:5252 , HOH C:5999
BINDING SITE FOR RESIDUE NAG C 3371
07
CC5
SOFTWARE
NAG C:3371 , BMA C:3373 , HOH C:5252
BINDING SITE FOR RESIDUE NAG C 3372
08
CC6
SOFTWARE
NAG C:3372
BINDING SITE FOR RESIDUE BMA C 3373
09
CC7
SOFTWARE
VAL D:4186 , ASN D:4188 , HOH D:5261
BINDING SITE FOR RESIDUE NAG D 4371
10
DC8
SOFTWARE
NAG B:2382 , BMA B:2383 , HOH B:5282 , HOH B:5284 , HOH D:6054
BINDING SITE FOR RESIDUE MAN B 2384
11
DC9
SOFTWARE
ASN C:3272 , ASN C:3301 , GLU C:3302 , TYR C:3308 , NAG C:3382
BINDING SITE FOR RESIDUE NAG C 3381
12
EC1
SOFTWARE
TYR C:3308 , NAG C:3381 , BMA C:3383 , HOH C:5290 , HOH C:6370
BINDING SITE FOR RESIDUE NAG C 3382
13
EC2
SOFTWARE
NAG C:3382 , HOH C:6373 , GLN D:4334
BINDING SITE FOR RESIDUE BMA C 3383
14
EC3
SOFTWARE
ASN D:4272 , ASN D:4301 , GLU D:4302 , TYR D:4308 , NAG D:4382 , HOH D:6108
BINDING SITE FOR RESIDUE NAG D 4381
15
EC4
SOFTWARE
ARG B:2323 , NAG D:4381 , BMA D:4383 , HOH D:6107 , HOH D:6108
BINDING SITE FOR RESIDUE NAG D 4382
16
EC5
SOFTWARE
PRO B:2320 , ARG B:2323 , GLU B:2326 , NAG D:4382 , HOH D:5298
BINDING SITE FOR RESIDUE BMA D 4383
17
EC8
SOFTWARE
ARG C:3011 , HIS C:3012 , ARG C:3015 , ARG C:3079 , HIS C:3257 , ASP C:3258
BINDING SITE FOR RESIDUE GLY C 3350
18
EC9
SOFTWARE
ARG D:4011 , HIS D:4012 , ARG D:4015 , ARG D:4079 , ASP D:4258 , HOH D:5378
BINDING SITE FOR RESIDUE GLY D 4350
[
close Site info
]
SAPs(SNPs)/Variants
(4, 8)
Info
(mutated residues are only available for the asymmetric unit)
All SNPs/Variants
1: VAR_047961 (F4092V, chain A/B/C/C/D, )
2: VAR_047962 (W4194R, chain A/B/C/C/D, )
3: VAR_047963 (Y4298H, chain A/B/C/C/D, )
4: VAR_047964 (V4328A, chain A/B/C/C/D, )
View:
Select:
Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
1
UniProt
VAR_047961
F
124
V
PPAP_HUMAN
Polymorphism
17856254
A
B
C
C/D
F
1092
2092
3092
4092
V
2
UniProt
VAR_047962
W
226
R
PPAP_HUMAN
Polymorphism
17856253
A
B
C
C/D
W
1194
2194
3194
4194
R
3
UniProt
VAR_047963
Y
330
H
PPAP_HUMAN
Polymorphism
17851392
A
B
C
C/D
Y
1298
2298
3298
4298
H
4
UniProt
VAR_047964
V
360
A
PPAP_HUMAN
Polymorphism
17850198
A
B
C
C/D
V
1328
2328
3328
4328
A
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
[
close SNP/Variant info
]
PROSITE Patterns/Profiles
(2, 4)
Info
All PROSITE Patterns/Profiles
1: HIS_ACID_PHOSPHAT_1 (C:3003-3017,D:4003-4017)
2: HIS_ACID_PHOSPHAT_2 (C:3251-3267,D:4251-4267)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
HIS_ACID_PHOSPHAT_1
PS00616
Histidine acid phosphatases phosphohistidine signature.
PPAP_HUMAN
35-49
2
-
-
C:3003-3017
D:4003-4017
2
HIS_ACID_PHOSPHAT_2
PS00778
Histidine acid phosphatases active site signature.
PPAP_HUMAN
283-299
2
-
-
C:3251-3267
D:4251-4267
[
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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.
(no "Exon" information available for biological units yet)
SCOP Domains
(1, 4)
Info
All SCOP Domains
1a: SCOP_d1cvia_ (A:)
1b: SCOP_d1cvib_ (B:)
1c: SCOP_d1cvic_ (C:)
1d: SCOP_d1cvid_ (D:)
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)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
Phosphoglycerate mutase-like
(103)
Superfamily
:
Phosphoglycerate mutase-like
(103)
Family
:
Histidine acid phosphatase
(24)
Protein domain
:
Prostatic acid phosphatase
(6)
Human (Homo sapiens) [TaxId: 9606]
(4)
1a
d1cvia_
A:
1b
d1cvib_
B:
1c
d1cvic_
C:
1d
d1cvid_
D:
[
close SCOP info
]
CATH Domains
(1, 4)
Info
all CATH domains
1a: CATH_1cviA00 (A:1001-1342)
1b: CATH_1cviB00 (B:2001-2342)
1c: CATH_1cviC00 (C:3001-3342)
1d: CATH_1cviD00 (D:4001-4342)
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(
)
(
)
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(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
3-Layer(aba) Sandwich
(12045)
Topology
:
Rossmann fold
(7312)
Homologous Superfamily
:
Phosphoglycerate mutase-like
(91)
Human (Homo sapiens)
(18)
1a
1cviA00
A:1001-1342
1b
1cviB00
B:2001-2342
1c
1cviC00
C:3001-3342
1d
1cviD00
D:4001-4342
[
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]
Pfam Domains
(0, 0)
Info
all PFAM domains
View:
Select:
Label:
Sorry, no Info available
[
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]
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Protein & NOT Site
Protein & NOT PROSITE
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