PLEASE WAIT...
Getting 'Biological Unit' information from database.
PLEASE WAIT...
Getting 'Hetero Component' information from database.
PLEASE WAIT...
Getting 'Site' information from database.
PLEASE WAIT...
Getting 'PROSITE' information from database.
PLEASE WAIT...
Getting 'Exon' information from database.
3MJL
Asym. Unit
Info
Asym.Unit (107 KB)
Biol.Unit 1 (154 KB)
Biol.Unit 2 (151 KB)
(using Jmol or JSmol)
spin
show selected part
auto zoom/center
Standard Views
(
Basic
|
Advanced
Interface
)
(
Basic
|
Advanced
Interface
)
Help
(1)
Title
:
CRYSTAL STRUCTURE OF HUMAN ARGINASE I IN COMPLEX WITH 2-AMINOIMIDAZOLE. RESOLUTION 1.90 A.
Authors
:
L. Di Costanzo, D. W. Christianson
Date
:
13 Apr 10 (Deposition) - 05 May 10 (Release) - 05 May 10 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.90
Chains
:
Asym. Unit : A,B
Biol. Unit 1: A (3x)
Biol. Unit 2: B (3x)
Keywords
:
Aminoimidazole Derivatives, Inhibition, Manganese Cluster, Hydrolase, Metal Coordination
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
M. Ilies, L. Di Costanzo, M. L. North, J. A. Scott, D. W. Christianson
Crystal Structure Of Human Arginase I In Complex With 2-Aminoimidazole. Resolution 1. 90 A.
To Be Published
[
close entry info
]
Hetero Components
(2, 6)
Info
All Hetero Components
1a: 1H-IMIDAZOL-2-AMINE (2AIa)
1b: 1H-IMIDAZOL-2-AMINE (2AIb)
2a: MANGANESE (II) ION (MNa)
2b: MANGANESE (II) ION (MNb)
2c: MANGANESE (II) ION (MNc)
2d: MANGANESE (II) ION (MNd)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
2AI
2
Ligand/Ion
1H-IMIDAZOL-2-AMINE
2
MN
4
Ligand/Ion
MANGANESE (II) ION
[
close Hetero Component info
]
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
ASP A:124 , HIS A:126 , ASP A:232 , ASP A:234 , MN A:3315 , HOH A:9164
BINDING SITE FOR RESIDUE MN A 3314
2
AC2
SOFTWARE
HIS A:101 , ASP A:124 , ASP A:128 , ASP A:232 , MN A:3314 , HOH A:9163 , HOH A:9164
BINDING SITE FOR RESIDUE MN A 3315
3
AC3
SOFTWARE
HIS A:126 , ASP A:128 , GLY A:142 , THR A:246 , HOH A:9109 , HOH A:9171 , HOH A:9207
BINDING SITE FOR RESIDUE 2AI A 5001
4
AC4
SOFTWARE
ASP B:124 , HIS B:126 , ASP B:232 , ASP B:234 , MN B:4315 , HOH B:9110 , HOH B:9161
BINDING SITE FOR RESIDUE MN B 4314
5
AC5
SOFTWARE
HIS B:101 , ASP B:124 , ASP B:128 , ASP B:232 , MN B:4314 , HOH B:9161 , HOH B:9162
BINDING SITE FOR RESIDUE MN B 4315
6
AC6
SOFTWARE
HIS B:141 , HOH B:9110
BINDING SITE FOR RESIDUE 2AI B 5000
[
close Site info
]
SAPs(SNPs)/Variants
(10, 20)
Info
(mutated residues are not available)
All SNPs/Variants
01: VAR_015594 (I11T, chain A/B, )
02: VAR_072164 (G27D, chain A/B, )
03: VAR_072165 (G74V, chain A/B, )
04: VAR_072166 (A125V, chain A/B, )
05: VAR_072167 (T134I, chain A/B, )
06: VAR_015595 (G138V, chain A/B, )
07: VAR_072168 (R180T, chain A/B, )
08: VAR_000674 (G235R, chain A/B, )
09: VAR_000675 (T290S, chain A/B, )
10: VAR_072169 (R308Q, chain A/B, )
View:
Select:
Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
01
UniProt
VAR_015594
I
11
T
ARGI1_HUMAN
Disease (ARGIN)
28941474
A/B
I
11
T
02
UniProt
VAR_072164
G
27
D
ARGI1_HUMAN
Disease (ARGIN)
---
A/B
G
27
D
03
UniProt
VAR_072165
G
74
V
ARGI1_HUMAN
Disease (ARGIN)
---
A/B
G
74
V
04
UniProt
VAR_072166
A
125
V
ARGI1_HUMAN
Disease (ARGIN)
---
A/B
A
125
V
05
UniProt
VAR_072167
T
134
I
ARGI1_HUMAN
Disease (ARGIN)
---
A/B
T
134
I
06
UniProt
VAR_015595
G
138
V
ARGI1_HUMAN
Disease (ARGIN)
---
A/B
G
138
V
07
UniProt
VAR_072168
R
180
T
ARGI1_HUMAN
Disease (ARGIN)
---
A/B
R
180
T
08
UniProt
VAR_000674
G
235
R
ARGI1_HUMAN
Disease (ARGIN)
---
A/B
G
235
R
09
UniProt
VAR_000675
T
290
S
ARGI1_HUMAN
Polymorphism
---
A/B
T
290
S
10
UniProt
VAR_072169
R
308
Q
ARGI1_HUMAN
Disease (ARGIN)
---
A/B
R
308
Q
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
[
close SNP/Variant info
]
PROSITE Patterns/Profiles
(1, 2)
Info
All PROSITE Patterns/Profiles
1: ARGINASE_1 (A:230-251,B:230-251)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
ARGINASE_1
PS01053
Arginase family signature.
ARGI1_HUMAN
230-251
2
A:230-251
B:230-251
[
close PROSITE info
]
Exons
(8, 16)
Info
All Exons
Exon 1.1a (A:6-19 | B:6-19)
Exon 1.2b (A:20-44 | B:20-44)
Exon 1.3d (A:44-102 | B:44-102)
Exon 1.4c (A:102-155 | B:102-155)
Exon 1.5a (A:156-187 | B:156-187)
Exon 1.6b (A:187-222 | B:187-222)
Exon 1.7c (A:222-268 | B:222-268)
Exon 1.8b (A:268-319 | B:268-318)
View:
Select:
Label:
All Exon Boundaries
1: Boundary -/1.1a
2: Boundary 1.1a/1.2b
3: Boundary 1.2b/1.3d
4: Boundary 1.3d/1.4c
5: Boundary 1.4c/1.5a
6: Boundary 1.5a/1.6b
7: Boundary 1.6b/1.7c
8: Boundary 1.7c/1.8b
9: Boundary 1.8b/-
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
1.1a
ENST00000368087
1a
ENSE00001873351
chr6:
131894284-131894479
196
ARGI1_HUMAN
1-19
19
2
A:6-19
B:6-19
14
14
1.2b
ENST00000368087
2b
ENSE00002142788
chr6:
131897803-131897875
73
ARGI1_HUMAN
20-44
25
2
A:20-44
B:20-44
25
25
1.3d
ENST00000368087
3d
ENSE00002187903
chr6:
131900251-131900425
175
ARGI1_HUMAN
44-102
59
2
A:44-102
B:44-102
59
59
1.4c
ENST00000368087
4c
ENSE00002164252
chr6:
131902359-131902518
160
ARGI1_HUMAN
102-155
54
2
A:102-155
B:102-155
54
54
1.5a
ENST00000368087
5a
ENSE00002158516
chr6:
131903761-131903855
95
ARGI1_HUMAN
156-187
32
2
A:156-187
B:156-187
32
32
1.6b
ENST00000368087
6b
ENSE00002147839
chr6:
131904200-131904304
105
ARGI1_HUMAN
187-222
36
2
A:187-222
B:187-222
36
36
1.7c
ENST00000368087
7c
ENSE00000798683
chr6:
131904495-131904631
137
ARGI1_HUMAN
222-268
47
2
A:222-268
B:222-268
47
47
1.8b
ENST00000368087
8b
ENSE00001836591
chr6:
131904882-131905472
591
ARGI1_HUMAN
268-322
55
2
A:268-319
B:268-318
52
51
[
close EXON info
]
SCOP Domains
(1, 2)
Info
All SCOP Domains
1a: SCOP_d3mjla_ (A:)
1b: SCOP_d3mjlb_ (B:)
View:
Select:
Label:
Classes
(
)
(
)
Folds
(
)
(
)
Superfamilies
(
)
(
)
Families
(
)
(
)
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) [TaxId: 9606]
(26)
1a
d3mjla_
A:
1b
d3mjlb_
B:
[
close SCOP info
]
CATH Domains
(0, 0)
Info
all CATH domains
View:
Select:
Label:
Sorry, no Info available
[
close CATH info
]
Pfam Domains
(1, 2)
Info
all PFAM domains
1a: PFAM_Arginase_3mjlB01 (B:6-305)
1b: PFAM_Arginase_3mjlB02 (B:6-305)
View:
Select:
Label:
Clans
(
)
(
)
Families
(
)
(
)
Organisms
(
)
(
)
Clan
:
Arginase
(56)
Family
:
Arginase
(37)
Homo sapiens (Human)
(11)
1a
Arginase-3mjlB01
B:6-305
1b
Arginase-3mjlB02
B:6-305
[
close Pfam info
]
Atom Selection
(currently selected atoms:
all
)
Protein
Nucleic
Backbone
Sidechain
Hetero
Ligand
Solvent
All Atoms
Protein & NOT Variant
Protein & NOT Site
Protein & NOT PROSITE
Chain A
Chain B
Asymmetric Unit 1
Rendering
(selected part)
Molecule Coloring
(selected part)
by Chain (Asym. Unit)
by Chain (Biol. Unit)
by Secondary Structure
by Atom (CPK)
by SCOP Domain
by CATH Domain
by Pfam Domain
by Asymmetric Unit
by Exon
by Amino Acid
by Nucleotide
by Temperature
by Charge
by Rainbow (Group)
by Custom Color
Background Coloring
Choose
molecule
background
color...
[
close
]
RGB value
(e.g.: "#3cb371" or "60,179,113")
Stereo
Graphics Window
x
pixel
Miscellaneous
Script
Example Commands
Example Command
Action
select :A, :C
select chains 'A' and 'C'
select [ALA]:A
select all 'ALA' residues (Alanines) in chain 'A'
select 5-10
select residue range 5 to 10 in all chains
select 5-10:A
select residue range 5 to 10 in chain 'A'
select protein & not helix & not sheet
select non-helix/non-sheet protein parts
set fontsize 20
set label size to 20 (allowed range: 1-58)
ssbonds 100
show SS bonds with a radius of 100 units (=0.4Å)
wireframe 100
show bonds with a radius of 100 units (=0.4Å)
[
close Script example commands
]
Log
Note:
In this "Basic Interface" any change in the selection of a pulldown menu automatically triggers an action (one-step mechanism).
View and selection are coupled in the structure specific controls (e.g. "Hetero","PROSITE") .
Note:
In this "Advanced Interface" any change in the selection of a pulldown menu only sets the target for the corresponding control buttons (two-step mechanism).
View and selection are set independently in the structure specific controls (e.g. "Hetero","PROSITE") .
QuickSearch:
by PDB,NDB,UniProt,PROSITE Code or
Search Term(s)
Show PDB file:
Asym.Unit (107 KB)
Header - Asym.Unit
Biol.Unit 1 (154 KB)
Header - Biol.Unit 1
Biol.Unit 2 (151 KB)
Header - Biol.Unit 2
Plain Text
HTML (compressed size)
use JSmol [Javascript]
use Jmol [Java applet]
Upload:
Select a local file
OR
Enter a remote file address
You can upload any molecular structure file format that is recognized by Jmol,
e.g.: PDB, mmCif, CIF, CML, MOL, XYZ
(also compressed with 'gzip', see the
Jmol documentation
for a complete list)
JenaLib Atlas Page
|
Sequence/Alignment View
3MJL
Jmol Script Commands
|
Jmol Color Schemes
|
Jmol Mouse Manual
|
Jmol Wiki
controls:
collapse
expand
Home
JenaLib
Jmol Scripting
Contact
Help
