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1PQ3
Biol. Unit 2
Info
Asym.Unit (302 KB)
Biol.Unit 1 (151 KB)
Biol.Unit 2 (150 KB)
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(1)
Title
:
HUMAN ARGINASE II: CRYSTAL STRUCTURE AND PHYSIOLOGICAL ROLE IN MALE AND FEMALE SEXUAL AROUSAL
Authors
:
E. Cama, D. M. Colleluori, F. A. Emig, H. Shin, S. W. Kim, N. N. Kim, A. M. Tr D. E. Ash, D. W. Christianson
Date
:
17 Jun 03 (Deposition) - 12 Aug 03 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.70
Chains
:
Asym. Unit : A,B,C,D,E,F
Biol. Unit 1: A,B,C (1x)
Biol. Unit 2: D,E,F (1x)
Keywords
:
Biosynthetic Protein, Hydrolase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
E. Cama, D. M. Colleluori, F. A. Emig, H. Shin, S. W. Kim, N. N. Kim, A. M. Traish, D. E. Ash, D. W. Christianson
Human Arginase Ii: Crystal Structure And Physiological Role In Male And Female Sexual Arousal
Biochemistry V. 42 8445 2003
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Hetero Components
(2, 11)
Info
All Hetero Components
1a: CHLORIDE ION (CLa)
1b: CHLORIDE ION (CLb)
1c: CHLORIDE ION (CLc)
1d: CHLORIDE ION (CLd)
1e: CHLORIDE ION (CLe)
2a: MANGANESE (II) ION (MNa)
2b: MANGANESE (II) ION (MNb)
2c: MANGANESE (II) ION (MNc)
2d: MANGANESE (II) ION (MNd)
2e: MANGANESE (II) ION (MNe)
2f: MANGANESE (II) ION (MNf)
2g: MANGANESE (II) ION (MNg)
2h: MANGANESE (II) ION (MNh)
2i: MANGANESE (II) ION (MNi)
2j: MANGANESE (II) ION (MNj)
2k: MANGANESE (II) ION (MNk)
2l: MANGANESE (II) ION (MNl)
3a: S-2-(BORONOETHYL)-L-CYSTEINE (S2Ca)
3b: S-2-(BORONOETHYL)-L-CYSTEINE (S2Cb)
3c: S-2-(BORONOETHYL)-L-CYSTEINE (S2Cc)
3d: S-2-(BORONOETHYL)-L-CYSTEINE (S2Cd)
3e: S-2-(BORONOETHYL)-L-CYSTEINE (S2Ce)
3f: S-2-(BORONOETHYL)-L-CYSTEINE (S2Cf)
4a: SULFATE ION (SO4a)
4b: SULFATE ION (SO4b)
4c: SULFATE ION (SO4c)
4d: SULFATE ION (SO4d)
4e: SULFATE ION (SO4e)
4f: SULFATE ION (SO4f)
4g: SULFATE ION (SO4g)
4h: SULFATE ION (SO4h)
4i: SULFATE ION (SO4i)
4j: SULFATE ION (SO4j)
4k: SULFATE ION (SO4k)
4l: SULFATE ION (SO4l)
4m: SULFATE ION (SO4m)
4n: SULFATE ION (SO4n)
4o: SULFATE ION (SO4o)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
CL
-1
Ligand/Ion
CHLORIDE ION
2
MN
-1
Ligand/Ion
MANGANESE (II) ION
3
S2C
3
Ligand/Ion
S-2-(BORONOETHYL)-L-CYSTEINE
4
SO4
8
Ligand/Ion
SULFATE ION
[
close Hetero Component info
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Sites
(19, 19)
Info
All Sites
01: AC2 (SOFTWARE)
02: AC3 (SOFTWARE)
03: AC5 (SOFTWARE)
04: AC7 (SOFTWARE)
05: AC9 (SOFTWARE)
06: BC1 (SOFTWARE)
07: BC4 (SOFTWARE)
08: BC5 (SOFTWARE)
09: CC4 (SOFTWARE)
10: CC5 (SOFTWARE)
11: CC6 (SOFTWARE)
12: CC7 (SOFTWARE)
13: CC8 (SOFTWARE)
14: CC9 (SOFTWARE)
15: DC1 (SOFTWARE)
16: DC4 (SOFTWARE)
17: DC8 (SOFTWARE)
18: DC9 (SOFTWARE)
19: EC1 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC2
SOFTWARE
ARG F:220 , ASP F:221 , ARG F:224 , HOH F:973
BINDING SITE FOR RESIDUE SO4 F 3071
02
AC3
SOFTWARE
ARG D:220 , ARG D:224
BINDING SITE FOR RESIDUE SO4 D 3072
03
AC5
SOFTWARE
ARG F:224 , LEU F:225 , ARG F:233
BINDING SITE FOR RESIDUE SO4 F 3074
04
AC7
SOFTWARE
PRO F:179 , GLY F:180 , PHE F:181 , SER F:182
BINDING SITE FOR RESIDUE SO4 F 3077
05
AC9
SOFTWARE
GLY D:180 , PHE D:181 , SER D:182
BINDING SITE FOR RESIDUE SO4 D 3079
06
BC1
SOFTWARE
ARG D:90 , PRO D:179
BINDING SITE FOR RESIDUE SO4 D 3080
07
BC4
SOFTWARE
ARG D:224 , ARG D:233 , HOH D:1050
BINDING SITE FOR RESIDUE SO4 D 3083
08
BC5
SOFTWARE
LYS F:241 , ARG F:242 , ARG F:244 , HOH F:1175
BINDING SITE FOR RESIDUE SO4 F 3084
09
CC4
SOFTWARE
HIS D:120 , ASP D:143 , ASP D:147 , ASP D:251 , MN D:507 , S2C D:554
BINDING SITE FOR RESIDUE MN D 506
10
CC5
SOFTWARE
ASP D:143 , HIS D:145 , ASP D:251 , ASP D:253 , MN D:506 , S2C D:554
BINDING SITE FOR RESIDUE MN D 507
11
CC6
SOFTWARE
HIS E:120 , ASP E:143 , ASP E:147 , ASP E:251 , MN E:509 , S2C E:555
BINDING SITE FOR RESIDUE MN E 508
12
CC7
SOFTWARE
ASP E:143 , HIS E:145 , ASP E:251 , ASP E:253 , MN E:508 , S2C E:555
BINDING SITE FOR RESIDUE MN E 509
13
CC8
SOFTWARE
ASP F:143 , HIS F:145 , ASP F:251 , ASP F:253 , MN F:511 , S2C F:556
BINDING SITE FOR RESIDUE MN F 510
14
CC9
SOFTWARE
HIS F:120 , ASP F:143 , ASP F:147 , ASP F:251 , MN F:510 , S2C F:556
BINDING SITE FOR RESIDUE MN F 511
15
DC1
SOFTWARE
ARG E:242
BINDING SITE FOR RESIDUE CL E 600
16
DC4
SOFTWARE
GLN F:243
BINDING SITE FOR RESIDUE CL F 605
17
DC8
SOFTWARE
HIS D:120 , ASP D:143 , HIS D:145 , ASP D:147 , ASN D:149 , SER D:156 , HIS D:160 , GLY D:161 , ASP D:202 , ASP D:251 , ASP D:253 , GLU D:296 , MN D:506 , MN D:507 , HOH D:924 , HOH D:926 , HOH D:927 , HOH D:1078
BINDING SITE FOR RESIDUE S2C D 554
18
DC9
SOFTWARE
HIS E:120 , ASP E:143 , HIS E:145 , ASP E:147 , ASN E:149 , SER E:156 , HIS E:160 , GLY E:161 , ASP E:202 , ASP E:251 , ASP E:253 , THR E:265 , GLU E:296 , MN E:508 , MN E:509 , HOH E:931 , HOH E:932 , HOH E:933 , HOH E:1053 , HOH E:1056
BINDING SITE FOR RESIDUE S2C E 555
19
EC1
SOFTWARE
HIS F:120 , ASP F:143 , HIS F:145 , ASP F:147 , ASN F:149 , SER F:156 , HIS F:160 , ASP F:202 , ASP F:251 , ASP F:253 , THR F:265 , GLU F:296 , MN F:510 , MN F:511 , HOH F:928 , HOH F:929 , HOH F:930 , HOH F:1054 , HOH F:1148
BINDING SITE FOR RESIDUE S2C F 556
[
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SAPs(SNPs)/Variants
(1, 3)
Info
(mutated residues are only available for the asymmetric unit)
All SNPs/Variants
1: VAR_033520 (G240R, chain D/E/F, )
View:
Select:
Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
1
UniProt
VAR_033520
G
240
R
ARGI2_HUMAN
Polymorphism
17104534
D/E/F
G
240
R
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
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PROSITE Patterns/Profiles
(1, 3)
Info
All PROSITE Patterns/Profiles
1: ARGINASE_1 (D:249-270,E:249-270,F:249-270)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
ARGINASE_1
PS01053
Arginase family signature.
ARGI2_HUMAN
249-270
3
-
-
-
D:249-270
E:249-270
F:249-270
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Exons
(0, 0)
Info
All Exons
View:
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All Exon Boundaries
View:
Label:
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_d1pq3a_ (A:)
1b: SCOP_d1pq3b_ (B:)
1c: SCOP_d1pq3c_ (C:)
1d: SCOP_d1pq3d_ (D:)
1e: SCOP_d1pq3e_ (E:)
1f: SCOP_d1pq3f_ (F:)
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)
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(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
Arginase/deacetylase
(138)
Superfamily
:
Arginase/deacetylase
(138)
Family
:
Arginase-like amidino hydrolases
(97)
Protein domain
:
Arginase
(73)
Human (Homo sapiens), isoform II, mitochondrial [TaxId: 9606]
(7)
1a
d1pq3a_
A:
1b
d1pq3b_
B:
1c
d1pq3c_
C:
1d
d1pq3d_
D:
1e
d1pq3e_
E:
1f
d1pq3f_
F:
[
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CATH Domains
(1, 6)
Info
all CATH domains
1a: CATH_1pq3A00 (A:24-329)
1b: CATH_1pq3B00 (B:24-329)
1c: CATH_1pq3C00 (C:24-329)
1d: CATH_1pq3D00 (D:24-329)
1e: CATH_1pq3E00 (E:24-329)
1f: CATH_1pq3F00 (F:24-329)
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)
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)
Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
3-Layer(aba) Sandwich
(12045)
Topology
:
Arginase; Chain A
(84)
Homologous Superfamily
:
[code=3.40.800.10, no name defined]
(63)
Human (Homo sapiens)
(15)
1a
1pq3A00
A:24-329
1b
1pq3B00
B:24-329
1c
1pq3C00
C:24-329
1d
1pq3D00
D:24-329
1e
1pq3E00
E:24-329
1f
1pq3F00
F:24-329
[
close CATH info
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Pfam Domains
(1, 6)
Info
all PFAM domains
1a: PFAM_Arginase_1pq3F01 (F:24-324)
1b: PFAM_Arginase_1pq3F02 (F:24-324)
1c: PFAM_Arginase_1pq3F03 (F:24-324)
1d: PFAM_Arginase_1pq3F04 (F:24-324)
1e: PFAM_Arginase_1pq3F05 (F:24-324)
1f: PFAM_Arginase_1pq3F06 (F:24-324)
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Clans
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)
Organisms
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)
(
)
Clan
:
Arginase
(56)
Family
:
Arginase
(37)
Homo sapiens (Human)
(11)
1a
Arginase-1pq3F01
F:24-324
1b
Arginase-1pq3F02
F:24-324
1c
Arginase-1pq3F03
F:24-324
1d
Arginase-1pq3F04
F:24-324
1e
Arginase-1pq3F05
F:24-324
1f
Arginase-1pq3F06
F:24-324
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Protein
Nucleic
Backbone
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All Atoms
Protein & NOT Variant
Protein & NOT Site
Protein & NOT PROSITE
Chain D
Chain E
Chain F
Asymmetric Unit 1
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