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.
3IUC
Biol. Unit 3
Info
Asym.Unit (135 KB)
Biol.Unit 1 (129 KB)
Biol.Unit 2 (66 KB)
Biol.Unit 3 (67 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 THE HUMAN 70KDA HEAT SHOCK PROTEIN 5 (BIP/GRP78) ATPASE DOMAIN IN COMPLEX WITH ADP
Authors
:
M. Wisniewska, T. Karlberg, C. H. Arrowsmith, H. Berglund, C. Bountra, R. Collins, A. M. Edwards, S. Flodin, A. Flores, S. Graslund, M. Hammarstrom, A. Johansson, I. Johansson, A. Kallas, T. Kotyenova, A. Kotzch, P. Kraulis, N. Markova, M. Moche, T. K. Nielsen, P. Nordlund, T. Nyman, C. Persson, A. Roos, P. Schutz, M. I. Siponen, L. Svensson, A. G. Thorsell, L. Tresaugues, S. Van Den Berg, E. Wahlberg, J. Weigelt, M. Welin, H. Schuler, Structural Genomics Consortium (Sgc)
Date
:
31 Aug 09 (Deposition) - 22 Sep 09 (Release) - 02 Feb 10 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.40
Chains
:
Asym. Unit : A,C
Biol. Unit 1: A,C (1x)
Biol. Unit 2: A (1x)
Biol. Unit 3: C (1x)
Keywords
:
Helix, Structural Genomics, Structural Genomics Consortium, Sgc, Atp-Binding, Nucleotide-Binding, Stress Response, Chaperone
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
M. Wisniewska, T. Karlberg, L. Lehtio, I. Johansson, T. Kotenyova, M. Moche, H. Schuler
Crystal Structures Of The Atpase Domains Of Four Human Hsp70 Isoforms: Hspa1L/Hsp70-Hom, Hspa2/Hsp70-2, Hspa6/Hsp70B', And Hspa5/Bip/Grp78
Plos One V. 5 E8625 2010
[
close entry info
]
Hetero Components
(1, 1)
Info
All Hetero Components
1a: ADENOSINE-5'-DIPHOSPHATE (ADPa)
1b: ADENOSINE-5'-DIPHOSPHATE (ADPb)
2a: CALCIUM ION (CAa)
2b: CALCIUM ION (CAb)
2c: CALCIUM ION (CAc)
2d: CALCIUM ION (CAd)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
ADP
1
Ligand/Ion
ADENOSINE-5'-DIPHOSPHATE
2
CA
-1
Ligand/Ion
CALCIUM ION
[
close Hetero Component info
]
Sites
(4, 4)
Info
All Sites
1: AC2 (SOFTWARE)
2: AC4 (SOFTWARE)
3: AC5 (SOFTWARE)
4: AC6 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
1
AC2
SOFTWARE
HIS A:252 , ASP A:257 , HOH A:443 , HOH A:544 , GLY C:315 , HOH C:526
BINDING SITE FOR RESIDUE CA A 2
2
AC4
SOFTWARE
GLY C:36 , THR C:37 , THR C:38 , TYR C:39 , GLY C:226 , GLY C:227 , GLY C:255 , GLU C:293 , LYS C:296 , ARG C:297 , SER C:300 , GLY C:363 , GLY C:364 , SER C:365 , ARG C:367 , CA C:412 , HOH C:419 , HOH C:430 , HOH C:443 , HOH C:467 , HOH C:473 , HOH C:482 , HOH C:503 , HOH C:510 , HOH C:523 , HOH C:601
BINDING SITE FOR RESIDUE ADP C 1
3
AC5
SOFTWARE
GLY A:315 , HOH A:432 , HIS C:252 , ASP C:257 , HOH C:452 , HOH C:551
BINDING SITE FOR RESIDUE CA C 411
4
AC6
SOFTWARE
ADP C:1 , HOH C:419 , HOH C:443 , HOH C:500 , HOH C:560 , HOH C:601
BINDING SITE FOR RESIDUE CA C 412
[
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
(3, 3)
Info
All PROSITE Patterns/Profiles
1: HSP70_1 (C:33-40)
2: HSP70_2 (C:222-235)
3: HSP70_3 (C:359-373)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
HSP70_1
PS00297
Heat shock hsp70 proteins family signature 1.
GRP78_HUMAN
33-40
1
-
C:33-40
2
HSP70_2
PS00329
Heat shock hsp70 proteins family signature 2.
GRP78_HUMAN
222-235
1
-
C:222-235
3
HSP70_3
PS01036
Heat shock hsp70 proteins family signature 3.
GRP78_HUMAN
359-373
1
-
C:359-373
[
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
(1, 4)
Info
All SCOP Domains
1a: SCOP_d3iuca1 (A:28-214)
1b: SCOP_d3iuca2 (A:215-406)
1c: SCOP_d3iucc1 (C:19-213)
1d: SCOP_d3iucc2 (C:216-408)
View:
Select:
Label:
Classes
(
)
(
)
Folds
(
)
(
)
Superfamilies
(
)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
Ribonuclease H-like motif
(1424)
Superfamily
:
Actin-like ATPase domain
(426)
Family
:
automated matches
(111)
Protein domain
:
automated matches
(111)
Human (Homo sapiens) [TaxId: 9606]
(38)
1a
d3iuca1
A:28-214
1b
d3iuca2
A:215-406
1c
d3iucc1
C:19-213
1d
d3iucc2
C:216-408
[
close SCOP info
]
CATH Domains
(3, 8)
Info
all CATH domains
1a: CATH_3iucA02 (A:93-148)
1b: CATH_3iucC02 (C:93-148)
2a: CATH_3iucA01 (A:28-92,A:149-213,A:386-406)
2b: CATH_3iucC01 (C:28-92,C:149-213,C:386-406)
2c: CATH_3iucA03 (A:214-253,A:338-385)
2d: CATH_3iucC03 (C:216-253,C:338-385)
3a: CATH_3iucA04 (A:254-337)
3b: CATH_3iucC04 (C:254-337)
View:
Select:
Label:
Classes
(
)
(
)
Architectures
(
)
(
)
Topologies
(
)
(
)
Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
2-Layer Sandwich
(8480)
Topology
:
Defensin A-like
(149)
Homologous Superfamily
:
[code=3.30.30.30, no name defined]
(60)
Human (Homo sapiens)
(15)
1a
3iucA02
A:93-148
1b
3iucC02
C:93-148
Topology
:
Nucleotidyltransferase; domain 5
(788)
Homologous Superfamily
:
[code=3.30.420.40, no name defined]
(217)
Human (Homo sapiens)
(36)
2a
3iucA01
A:28-92,A:149-213,A:386-406
2b
3iucC01
C:28-92,C:149-213,C:386-406
2c
3iucA03
A:214-253,A:338-385
2d
3iucC03
C:216-253,C:338-385
Architecture
:
Alpha-Beta Complex
(3881)
Topology
:
Actin; Chain A, domain 4
(156)
Homologous Superfamily
:
Actin; Chain A, domain 4
(155)
Human (Homo sapiens)
(29)
3a
3iucA04
A:254-337
3b
3iucC04
C:254-337
[
close CATH info
]
Pfam Domains
(0, 0)
Info
all PFAM domains
View:
Select:
Label:
Sorry, no Info available
[
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 C
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 (135 KB)
Header - Asym.Unit
Biol.Unit 1 (129 KB)
Header - Biol.Unit 1
Biol.Unit 2 (66 KB)
Header - Biol.Unit 2
Biol.Unit 3 (67 KB)
Header - Biol.Unit 3
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
3IUC
Jmol Script Commands
|
Jmol Color Schemes
|
Jmol Mouse Manual
|
Jmol Wiki
controls:
collapse
expand
Home
JenaLib
Jmol Scripting
Contact
Help
