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...
No precomputed SNP/Variant structure found.
Calculating the structure may take several minutes.
PLEASE WAIT...
Getting 'PROSITE' information from database.
1U2V
Biol. Unit 1
Info
Asym.Unit (290 KB)
Biol.Unit 1 (283 KB)
Biol.Unit 2 (283 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 ARP2/3 COMPLEX WITH BOUND ADP AND CALCIUM
Authors
:
B. J. Nolen, R. S. Littlefield, T. D. Pollard
Date
:
20 Jul 04 (Deposition) - 09 Nov 04 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.55
Chains
:
Asym. Unit : A,B,C,D,E,F,G
Biol. Unit 1: A,B,C,D,E,F,G (1x)
Biol. Unit 2: A,B,C,D,E,F,G (1x)
Keywords
:
Structural Protein
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
B. J. Nolen, R. S. Littlefield, T. D. Pollard
Crystal Structures Of Actin-Related Protein 2/3 Complex With Bound Atp Or Adp
Proc. Natl. Acad. Sci. Usa V. 101 15627 2004
(for further references see the
PDB file header
)
[
close entry info
]
Hetero Components
(1, 2)
Info
All Hetero Components
1a: ADENOSINE-5'-DIPHOSPHATE (ADPa)
1b: ADENOSINE-5'-DIPHOSPHATE (ADPb)
2a: CALCIUM ION (CAa)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
ADP
2
Ligand/Ion
ADENOSINE-5'-DIPHOSPHATE
2
CA
-1
Ligand/Ion
CALCIUM ION
[
close Hetero Component info
]
Sites
(3, 3)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
3: AC3 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
ASP A:11
BINDING SITE FOR RESIDUE CA A 500
2
AC2
SOFTWARE
THR A:14 , GLY A:15 , TYR A:16 , LYS A:18 , GLY A:171 , ASP A:172 , GLY A:197 , LYS A:225 , LYS A:228 , GLU A:229 , GLY A:324 , SER A:325 , MET A:327 , PHE A:328 , ARG A:374 , HOH A:1028
BINDING SITE FOR RESIDUE ADP A 1001
3
AC3
SOFTWARE
GLY B:160 , ASP B:161 , GLY B:186 , ARG B:214 , LYS B:217 , GLU B:218 , GLY B:306 , SER B:307 , MET B:309 , TYR B:310 , HOH B:1012
BINDING SITE FOR RESIDUE ADP B 1002
[
close Site info
]
SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are only available for the asymmetric unit)
All SNPs/Variants
View:
Select:
Label:
Sorry, no Info available
[
close SNP/Variant info
]
PROSITE Patterns/Profiles
(1, 1)
Info
All PROSITE Patterns/Profiles
1: ACTINS_ACT_LIKE (A:111-123)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
ACTINS_ACT_LIKE
PS01132
Actins and actin-related proteins signature.
ARP3_BOVIN
111-123
1
A:111-123
[
close PROSITE info
]
Exons
(0, 0)
Info
All Exons
View:
Select:
Label:
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
(7, 9)
Info
All SCOP Domains
1a: SCOP_d1u2vg_ (G:)
2a: SCOP_d1u2ve_ (E:)
3a: SCOP_d1u2vc_ (C:)
4a: SCOP_d1u2vd1 (D:1-120)
4b: SCOP_d1u2vd2 (D:121-282)
5a: SCOP_d1u2vf_ (F:)
6a: SCOP_d1u2vb1 (B:147-350)
7a: SCOP_d1u2va1 (A:2-160)
7b: SCOP_d1u2va2 (A:161-418)
View:
Select:
Label:
Classes
(
)
(
)
Folds
(
)
(
)
Superfamilies
(
)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
All alpha proteins
(14657)
Fold
:
alpha-alpha superhelix
(690)
Superfamily
:
Arp2/3 complex 16 kDa subunit ARPC5
(17)
Family
:
Arp2/3 complex 16 kDa subunit ARPC5
(17)
Protein domain
:
Arp2/3 complex 16 kDa subunit ARPC5
(3)
Cow (Bos taurus) [TaxId: 9913]
(3)
1a
d1u2vg_
G:
Fold
:
Arp2/3 complex 21 kDa subunit ARPC3
(17)
Superfamily
:
Arp2/3 complex 21 kDa subunit ARPC3
(17)
Family
:
Arp2/3 complex 21 kDa subunit ARPC3
(17)
Protein domain
:
Arp2/3 complex 21 kDa subunit ARPC3
(5)
Cow (Bos taurus) [TaxId: 9913]
(5)
2a
d1u2ve_
E:
Class
:
All beta proteins
(24004)
Fold
:
7-bladed beta-propeller
(245)
Superfamily
:
WD40 repeat-like
(95)
Family
:
WD40-repeat
(53)
Protein domain
:
Arp2/3 complex 41 kDa subunit ARPC1
(3)
Cow (Bos taurus) [TaxId: 9913]
(3)
3a
d1u2vc_
C:
Class
:
Alpha and beta proteins (a+b)
(23004)
Fold
:
Secretion chaperone-like
(60)
Superfamily
:
Arp2/3 complex subunits
(34)
Family
:
Arp2/3 complex subunits
(34)
Protein domain
:
ARPC2 (34 kDa subunit)
(16)
Cow (Bos taurus) [TaxId: 9913]
(16)
4a
d1u2vd1
D:1-120
4b
d1u2vd2
D:121-282
Protein domain
:
ARPC4 (20 kDa subunit)
(17)
Cow (Bos taurus) [TaxId: 9913]
(17)
5a
d1u2vf_
F:
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
Ribonuclease H-like motif
(1424)
Superfamily
:
Actin-like ATPase domain
(426)
Family
:
Actin/HSP70
(199)
Protein domain
:
Actin-related protein 2, Arp2
(14)
Cow (Bos taurus) [TaxId: 9913]
(14)
6a
d1u2vb1
B:147-350
Protein domain
:
Actin-related protein 3, Arp3
(16)
Cow (Bos taurus) [TaxId: 9913]
(16)
7a
d1u2va1
A:2-160
7b
d1u2va2
A:161-418
[
close SCOP info
]
CATH Domains
(7, 12)
Info
all CATH domains
1a: CATH_1u2vA01 (A:4-34,A:78-141,A:375-411)
1b: CATH_1u2vB01 (B:147-185,B:273-350)
1c: CATH_1u2vA03 (A:143-196,A:292-370)
2a: CATH_1u2vD01 (D:133-282)
2b: CATH_1u2vD02 (D:1-131)
2c: CATH_1u2vF00 (F:3-168)
3a: CATH_1u2vB02 (B:186-272)
3b: CATH_1u2vA04 (A:197-288)
4a: CATH_1u2vG00 (G:9-151)
5a: CATH_1u2vE00 (E:2-174)
6a: CATH_1u2vC00 (C:2-372)
7a: CATH_1u2vA02 (A:35-75)
View:
Select:
Label:
Classes
(
)
(
)
Architectures
(
)
(
)
Topologies
(
)
(
)
Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
2-Layer Sandwich
(8480)
Topology
:
Nucleotidyltransferase; domain 5
(788)
Homologous Superfamily
:
[code=3.30.420.40, no name defined]
(217)
Cattle (Bos taurus)
(47)
1a
1u2vA01
A:4-34,A:78-141,A:375-411
1b
1u2vB01
B:147-185,B:273-350
1c
1u2vA03
A:143-196,A:292-370
Topology
:
Yope Regulator; Chain: A,
(26)
Homologous Superfamily
:
[code=3.30.1460.20, no name defined]
(13)
Cattle (Bos taurus)
(10)
2a
1u2vD01
D:133-282
2b
1u2vD02
D:1-131
2c
1u2vF00
F:3-168
Architecture
:
Alpha-Beta Complex
(3881)
Topology
:
Actin; Chain A, domain 4
(156)
Homologous Superfamily
:
Actin; Chain A, domain 4
(155)
Cattle (Bos taurus)
(47)
3a
1u2vB02
B:186-272
3b
1u2vA04
A:197-288
Class
:
Mainly Alpha
(13335)
Architecture
:
Alpha Horseshoe
(399)
Topology
:
Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat
(320)
Homologous Superfamily
:
[code=1.25.40.190, no name defined]
(12)
Cattle (Bos taurus)
(10)
4a
1u2vG00
G:9-151
Architecture
:
Orthogonal Bundle
(10391)
Topology
:
Arp2/3 complex 21 kDa subunit ARPC3
(12)
Homologous Superfamily
:
Arp2/3 complex 21 kDa subunit ARPC3
(12)
Cattle (Bos taurus)
(10)
5a
1u2vE00
E:2-174
Class
:
Mainly Beta
(13760)
Architecture
:
7 Propellor
(136)
Topology
:
Methylamine Dehydrogenase; Chain H
(136)
Homologous Superfamily
:
YVTN repeat-like/Quinoprotein amine dehydrogenase
(76)
Cattle (Bos taurus)
(18)
6a
1u2vC00
C:2-372
Architecture
:
Roll
(1513)
Topology
:
Actin; Chain A, domain 2
(36)
Homologous Superfamily
:
Actin; Chain A, domain 2
(36)
Cattle (Bos taurus)
(6)
7a
1u2vA02
A:35-75
[
close CATH info
]
Pfam Domains
(6, 8)
Info
all PFAM domains
1a: PFAM_Actin_1u2vB01 (B:147-350)
1b: PFAM_Actin_1u2vA01 (A:2-412)
2a: PFAM_WD40_1u2vC01 (C:132-170)
2b: PFAM_WD40_1u2vC02 (C:132-170)
3a: PFAM_ARPC4_1u2vF01 (F:3-168)
4a: PFAM_P16_Arc_1u2vG01 (G:9-151)
5a: PFAM_P21_Arc_1u2vE01 (E:2-173)
6a: PFAM_P34_Arc_1u2vD01 (D:56-282)
View:
Select:
Label:
Clans
(
)
(
)
Families
(
)
(
)
Organisms
(
)
(
)
Clan
:
Actin_ATPase
(173)
Family
:
Actin
(70)
Bos taurus (Bovine)
(11)
1a
Actin-1u2vB01
B:147-350
1b
Actin-1u2vA01
A:2-412
Clan
:
Beta_propeller
(192)
Family
:
WD40
(64)
Bos taurus (Bovine)
(19)
2a
WD40-1u2vC01
C:132-170
2b
WD40-1u2vC02
C:132-170
Clan
:
no clan defined [family: ARPC4]
(10)
Family
:
ARPC4
(10)
Bos taurus (Bovine)
(10)
3a
ARPC4-1u2vF01
F:3-168
Clan
:
no clan defined [family: P16-Arc]
(10)
Family
:
P16-Arc
(10)
Bos taurus (Bovine)
(10)
4a
P16-Arc-1u2vG01
G:9-151
Clan
:
no clan defined [family: P21-Arc]
(10)
Family
:
P21-Arc
(10)
Bos taurus (Bovine)
(10)
5a
P21-Arc-1u2vE01
E:2-173
Clan
:
no clan defined [family: P34-Arc]
(10)
Family
:
P34-Arc
(10)
Bos taurus (Bovine)
(10)
6a
P34-Arc-1u2vD01
D:56-282
[
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
Chain C
Chain D
Chain E
Chain F
Chain G
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 (290 KB)
Header - Asym.Unit
Biol.Unit 1 (283 KB)
Header - Biol.Unit 1
Biol.Unit 2 (283 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
1U2V
Jmol Script Commands
|
Jmol Color Schemes
|
Jmol Mouse Manual
|
Jmol Wiki
controls:
collapse
expand
Home
JenaLib
Jmol Scripting
Contact
Help