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.
3EA5
Asym. Unit
Info
Asym.Unit (345 KB)
Biol.Unit 1 (170 KB)
Biol.Unit 2 (165 KB)
(using Jmol or JSmol)
spin
show selected part
auto zoom/center
Standard Views
(
Basic
|
Advanced
Interface
)
(
Basic
|
Advanced
Interface
)
Help
(1)
Title
:
KAP95P BINDING INDUCES THE SWITCH LOOPS OF RANGDP TO ADOPT THE GTP-BOUND CONFORMATION: IMPLICATIONS FOR NUCLEAR IMPORT COMPLEX ASSEMBLY DYNAMICS
Authors
:
J. K. Forwood, J. K. Lonhienne, G. Guncar, M. Stewart, M. Marfori, B. Kob
Date
:
24 Aug 08 (Deposition) - 21 Oct 08 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.50
Chains
:
Asym. Unit : A,B,C,D
Biol. Unit 1: A,B (1x)
Biol. Unit 2: C,D (1x)
Keywords
:
Karyopherin, Importin, Ran, Gtp-Binding, Host-Virus Interaction, Nucleotide-Binding, Nucleus, Phosphoprotein, Protein Transport, Transport, Transport Protein
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
J. K. Forwood, T. G. Lonhienne, M. Marfori, G. Robin, W. Meng, G. Guncar S. M. Liu, M. Stewart, B. J. Carroll, B. Kobe
Kap95P Binding Induces The Switch Loops Of Rangdp To Adopt The Gtp-Bound Conformation: Implications For Nuclear Import Complex Assembly Dynamics.
J. Mol. Biol. V. 383 772 2008
[
close entry info
]
Hetero Components
(2, 6)
Info
All Hetero Components
1a: GUANOSINE-5'-DIPHOSPHATE (GDPa)
1b: GUANOSINE-5'-DIPHOSPHATE (GDPb)
2a: MAGNESIUM ION (MGa)
2b: MAGNESIUM ION (MGb)
2c: MAGNESIUM ION (MGc)
2d: MAGNESIUM ION (MGd)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
GDP
2
Ligand/Ion
GUANOSINE-5'-DIPHOSPHATE
2
MG
4
Ligand/Ion
MAGNESIUM 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
GLY A:20 , THR A:21 , GLY A:22 , LYS A:23 , THR A:24 , THR A:25 , GLU A:36 , LYS A:37 , LYS A:38 , TYR A:39 , ASN A:122 , LYS A:123 , ASP A:125 , SER A:150 , ALA A:151 , LYS A:152 , HOH A:223 , HOH A:224 , HOH A:225 , HOH A:226 , HOH A:240 , HOH A:260
BINDING SITE FOR RESIDUE GDP A 220
2
AC2
SOFTWARE
THR A:24 , THR A:42 , HOH A:225 , HOH A:226 , HOH A:260
BINDING SITE FOR RESIDUE MG A 221
3
AC3
SOFTWARE
TYR A:39 , HOH A:223 , HOH A:224 , HOH A:225
BINDING SITE FOR RESIDUE MG A 222
4
AC4
SOFTWARE
GLY C:20 , THR C:21 , GLY C:22 , LYS C:23 , THR C:24 , THR C:25 , PHE C:35 , GLU C:36 , LYS C:37 , LYS C:38 , TYR C:39 , ASN C:122 , LYS C:123 , ASP C:125 , ILE C:126 , SER C:150 , ALA C:151 , LYS C:152 , HOH C:223 , HOH C:225 , HOH C:226 , HOH C:228
BINDING SITE FOR RESIDUE GDP C 220
5
AC5
SOFTWARE
THR C:24 , THR C:42 , ASP C:65 , HOH C:226 , HOH C:228
BINDING SITE FOR RESIDUE MG C 221
6
AC6
SOFTWARE
HOH C:223 , HOH C:224 , HOH C:225 , HOH C:226
BINDING SITE FOR RESIDUE MG C 222
[
close Site info
]
SAPs(SNPs)/Variants
(1, 2)
Info
(mutated residues are not available)
All SNPs/Variants
1: VAR_051900 (R95I, chain A/C, )
View:
Select:
Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
1
UniProt
VAR_051900
R
95
I
RAN_HUMAN
Polymorphism
11546488
A/C
R
95
I
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
[
close SNP/Variant info
]
PROSITE Patterns/Profiles
(2, 4)
Info
All PROSITE Patterns/Profiles
1: IMPORTIN_B_NT (B:25-106,D:25-106)
2: HEAT_REPEAT (B:412-450,D:412-450)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
IMPORTIN_B_NT
PS50166
Importin-beta N-terminal domain profile.
IMB1_YEAST
25-106
2
B:25-106
D:25-106
2
HEAT_REPEAT
PS50077
HEAT repeat profile.
IMB1_YEAST
412-450
2
B:412-450
D:412-450
[
close PROSITE info
]
Exons
(6, 12)
Info
All Exons
Exon 1.2a (A:6-32 | C:9-32)
Exon 1.2d (A:33-61 | C:33-61)
Exon 1.3 (A:61-103 | C:61-103)
Exon 1.5b (A:103-165 | C:103-165)
Exon 1.6c (A:166-179 | C:166-177)
Exon 2.1 (B:1-861 (gaps) | D:1-861 (gaps))
View:
Select:
Label:
All Exon Boundaries
1: Boundary -/1.2a
2: Boundary 1.2a/1.2d
3: Boundary 1.2d/1.3
4: Boundary 1.3/1.5b
5: Boundary 1.5b/1.6c
6: Boundary 1.6c/1.7c
7: Boundary -/2.1
8: Boundary 2.1/-
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
1.2a
ENST00000392369
2a
ENSE00001511608
chr12:
131356783-131357174
392
RAN_HUMAN
1-32
32
2
A:6-32
C:9-32
27
24
1.2d
ENST00000392369
2d
ENSE00000903701
chr12:
131357381-131357465
85
RAN_HUMAN
33-61
29
2
A:33-61
C:33-61
29
29
1.3
ENST00000392369
3
ENSE00000903703
chr12:
131357548-131357673
126
RAN_HUMAN
61-103
43
2
A:61-103
C:61-103
43
43
1.5b
ENST00000392369
5b
ENSE00000903705
chr12:
131359091-131359278
188
RAN_HUMAN
103-165
63
2
A:103-165
C:103-165
63
63
1.6c
ENST00000392369
6c
ENSE00000903707
chr12:
131360157-131360327
171
RAN_HUMAN
166-222
57
2
A:166-179
C:166-177
14
12
1.7c
ENST00000392369
7c
ENSE00001511600
chr12:
131360427-131360826
400
RAN_HUMAN
223-236
14
0
-
-
2.1
YLR347C
1
YLR347C.1
XII:826412-823827
2586
IMB1_YEAST
1-861
861
2
B:1-861 (gaps)
D:1-861 (gaps)
861
861
[
close EXON info
]
SCOP Domains
(2, 4)
Info
All SCOP Domains
1a: SCOP_d3ea5b_ (B:)
1b: SCOP_d3ea5d_ (D:)
2a: SCOP_d3ea5a_ (A:)
2b: SCOP_d3ea5c_ (C:)
View:
Select:
Label:
Classes
(
)
(
)
Folds
(
)
(
)
Superfamilies
(
)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
All alpha proteins
(14657)
Fold
:
alpha-alpha superhelix
(690)
Superfamily
:
ARM repeat
(317)
Family
:
Armadillo repeat
(77)
Protein domain
:
automated matches
(16)
Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]
(3)
1a
d3ea5b_
B:
1b
d3ea5d_
D:
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
P-loop containing nucleoside triphosphate hydrolases
(2083)
Superfamily
:
P-loop containing nucleoside triphosphate hydrolases
(2083)
Family
:
G proteins
(693)
Protein domain
:
Ran
(37)
Human (Homo sapiens) [TaxId: 9606]
(29)
2a
d3ea5a_
A:
2b
d3ea5c_
C:
[
close SCOP info
]
CATH Domains
(1, 2)
Info
all CATH domains
1a: CATH_3ea5A00 (A:6-179)
1b: CATH_3ea5C00 (C:9-177)
View:
Select:
Label:
Classes
(
)
(
)
Architectures
(
)
(
)
Topologies
(
)
(
)
Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
3-Layer(aba) Sandwich
(12045)
Topology
:
Rossmann fold
(7312)
Homologous Superfamily
:
P-loop containing nucleotide triphosphate hydrolases
(1378)
Human (Homo sapiens)
(413)
1a
3ea5A00
A:6-179
1b
3ea5C00
C:9-177
[
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 A
Chain B
Chain C
Chain D
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 (345 KB)
Header - Asym.Unit
Biol.Unit 1 (170 KB)
Header - Biol.Unit 1
Biol.Unit 2 (165 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
3EA5
Jmol Script Commands
|
Jmol Color Schemes
|
Jmol Mouse Manual
|
Jmol Wiki
controls:
collapse
expand
Home
JenaLib
Jmol Scripting
Contact
Help
