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3H62
Asym. Unit
Info
Asym.Unit (233 KB)
Biol.Unit 1 (116 KB)
Biol.Unit 2 (116 KB)
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(1)
Title
:
CATALYTIC DOMAIN OF HUMAN SERINE/THREONINE PHOSPHATASE 5 (PP5C) WITH TWO MN2+ ATOMS COMPLEXED WITH CANTHARIDIC ACID
Authors
:
I. Bertini, V. Calderone, M. Fragai, C. Luchinat, E. Talluri
Date
:
23 Apr 09 (Deposition) - 29 Sep 09 (Release) - 29 Sep 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.40
Chains
:
Asym. Unit : B,C
Biol. Unit 1: C (1x)
Biol. Unit 2: B (1x)
Keywords
:
Metalloenzyme, Phosphatase, Inhibitors, Drug Design, Cytoplasm, Hydrolase, Iron, Manganese, Metal-Binding, Nucleus, Protein Phosphatase, Tpr Repeat
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
I. Bertini, V. Calderone, M. Fragai, C. Luchinat, E. Talluri
Structural Basis Of Serine/Threonine Phosphatase Inhibition By The Archetypal Small Molecules Cantharidin And Norcantharidin
J. Med. Chem. V. 52 4838 2009
(for further references see the
PDB file header
)
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Hetero Components
(2, 6)
Info
All Hetero Components
1a: MANGANESE (II) ION (MNa)
1b: MANGANESE (II) ION (MNb)
1c: MANGANESE (II) ION (MNc)
1d: MANGANESE (II) ION (MNd)
2a: (1R,2S,3R,4S)-2,3-DIMETHYL-7-OXABI... (NHCa)
2b: (1R,2S,3R,4S)-2,3-DIMETHYL-7-OXABI... (NHCb)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
MN
4
Ligand/Ion
MANGANESE (II) ION
2
NHC
2
Ligand/Ion
(1R,2S,3R,4S)-2,3-DIMETHYL-7-OXABICYCLO[2.2.1]HEPTANE-2,3-DICARBOXYLIC ACID
[
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Sites
(6, 6)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
3: AC3 (SOFTWARE)
4: AC4 (SOFTWARE)
5: AC5 (SOFTWARE)
6: AC6 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
NHC C:0 , ASP C:271 , ASN C:303 , HIS C:352 , HIS C:427 , MN C:501
BINDING SITE FOR RESIDUE MN C 500
2
AC2
SOFTWARE
NHC C:0 , ASP C:242 , HIS C:244 , ASP C:271 , MN C:500
BINDING SITE FOR RESIDUE MN C 501
3
AC3
SOFTWARE
ASP C:242 , HIS C:244 , ASP C:271 , ARG C:275 , ASN C:303 , HIS C:304 , ARG C:400 , HIS C:427 , VAL C:429 , PHE C:446 , TYR C:451 , MN C:500 , MN C:501
BINDING SITE FOR RESIDUE NHC C 0
4
AC4
SOFTWARE
NHC B:0 , ASP B:271 , ASN B:303 , HIS B:352 , HIS B:427 , MN B:501
BINDING SITE FOR RESIDUE MN B 500
5
AC5
SOFTWARE
NHC B:0 , ASP B:242 , HIS B:244 , ASP B:271 , MN B:500
BINDING SITE FOR RESIDUE MN B 501
6
AC6
SOFTWARE
ASP B:242 , HIS B:244 , ASP B:271 , ARG B:275 , ASN B:303 , HIS B:304 , ARG B:400 , HIS B:427 , VAL B:429 , PHE B:446 , TYR B:451 , MN B:500 , MN B:501 , HOH B:690
BINDING SITE FOR RESIDUE NHC B 0
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
All SNPs/Variants
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Sorry, no Info available
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PROSITE Patterns/Profiles
(1, 2)
Info
All PROSITE Patterns/Profiles
1: SER_THR_PHOSPHATASE (B:300-305,C:300-305)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
SER_THR_PHOSPHATASE
PS00125
Serine/threonine specific protein phosphatases signature.
PPP5_HUMAN
300-305
2
B:300-305
C:300-305
[
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]
Exons
(10, 20)
Info
All Exons
Exon 1.4a (B:176-211 | C:176-211)
Exon 1.5f (B:212-233 | C:212-233)
Exon 1.5h (B:234-266 | C:234-266)
Exon 1.6b (B:267-302 | C:267-302)
Exon 1.7c (B:302-349 | C:302-349)
Exon 1.8a (B:350-379 | C:350-379)
Exon 1.8e (B:379-392 | C:379-392)
Exon 1.8g (B:393-452 | C:393-452)
Exon 1.9a (B:452-479 | C:452-479)
Exon 1.9h (B:480-490 | C:480-490)
View:
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All Exon Boundaries
01: Boundary 1.3b/1.4a
02: Boundary 1.4a/1.5f
03: Boundary 1.5f/1.5h
04: Boundary 1.5h/1.6b
05: Boundary 1.6b/1.7c
06: Boundary 1.7c/1.8a
07: Boundary 1.8a/1.8e
08: Boundary 1.8e/1.8g
09: Boundary 1.8g/1.9a
10: Boundary 1.9a/1.9h
11: Boundary 1.9h/-
View:
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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
ENST00000012443
1a
ENSE00001134741
chr19:
46850251-46850474
224
PPP5_HUMAN
1-41
41
0
-
-
1.2b
ENST00000012443
2b
ENSE00001656217
chr19:
46857005-46857246
242
PPP5_HUMAN
41-121
81
0
-
-
1.3b
ENST00000012443
3b
ENSE00001774243
chr19:
46878861-46879008
148
PPP5_HUMAN
122-171
50
0
-
-
1.4a
ENST00000012443
4a
ENSE00001752760
chr19:
46879710-46879831
122
PPP5_HUMAN
171-211
41
2
B:176-211
C:176-211
36
36
1.5f
ENST00000012443
5f
ENSE00001235477
chr19:
46886668-46886733
66
PPP5_HUMAN
212-233
22
2
B:212-233
C:212-233
22
22
1.5h
ENST00000012443
5h
ENSE00000714122
chr19:
46887037-46887135
99
PPP5_HUMAN
234-266
33
2
B:234-266
C:234-266
33
33
1.6b
ENST00000012443
6b
ENSE00000714127
chr19:
46888061-46888166
106
PPP5_HUMAN
267-302
36
2
B:267-302
C:267-302
36
36
1.7c
ENST00000012443
7c
ENSE00000714132
chr19:
46890350-46890492
143
PPP5_HUMAN
302-349
48
2
B:302-349
C:302-349
48
48
1.8a
ENST00000012443
8a
ENSE00000714135
chr19:
46890623-46890710
88
PPP5_HUMAN
350-379
30
2
B:350-379
C:350-379
30
30
1.8e
ENST00000012443
8e
ENSE00000714138
chr19:
46891665-46891705
41
PPP5_HUMAN
379-392
14
2
B:379-392
C:379-392
14
14
1.8g
ENST00000012443
8g
ENSE00000714141
chr19:
46891810-46891988
179
PPP5_HUMAN
393-452
60
2
B:393-452
C:393-452
60
60
1.9a
ENST00000012443
9a
ENSE00000714144
chr19:
46893308-46893389
82
PPP5_HUMAN
452-479
28
2
B:452-479
C:452-479
28
28
1.9h
ENST00000012443
9h
ENSE00001510079
chr19:
46893541-46894109
569
PPP5_HUMAN
480-499
20
2
B:480-490
C:480-490
11
11
[
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SCOP Domains
(1, 2)
Info
All SCOP Domains
1a: SCOP_d3h62b_ (B:)
1b: SCOP_d3h62c_ (C:)
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)
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(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha and beta proteins (a+b)
(23004)
Fold
:
Metallo-dependent phosphatases
(115)
Superfamily
:
Metallo-dependent phosphatases
(115)
Family
:
Protein serine/threonine phosphatase
(50)
Protein domain
:
Serine/threonine protein phosphatase 5, PP5
(10)
Human (Homo sapiens) [TaxId: 9606]
(10)
1a
d3h62b_
B:
1b
d3h62c_
C:
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CATH Domains
(1, 2)
Info
all CATH domains
1a: CATH_3h62B00 (B:176-490)
1b: CATH_3h62C00 (C:176-490)
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)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
4-Layer Sandwich
(459)
Topology
:
Purple Acid Phosphatase; chain A, domain 2
(87)
Homologous Superfamily
:
[code=3.60.21.10, no name defined]
(83)
Human (Homo sapiens)
(36)
1a
3h62B00
B:176-490
1b
3h62C00
C:176-490
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Pfam Domains
(0, 0)
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all PFAM domains
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Nucleic
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Asym.Unit (233 KB)
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Header - Biol.Unit 1
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