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.
PLEASE WAIT...
Getting 'Exon' information from database.
3J8Y
Asym. Unit
Info
Asym.Unit (173 KB)
Biol.Unit 1 (166 KB)
(using Jmol or JSmol)
spin
show selected part
auto zoom/center
Standard Views
(
Basic
|
Advanced
Interface
)
(
Basic
|
Advanced
Interface
)
Help
(1)
Title
:
HIGH-RESOLUTION STRUCTURE OF ATP ANALOG-BOUND KINESIN ON MICROTUBULES
Authors
:
Z. Shang, K. Zhou, C. Xu, R. Csencsits, J. C. Cochran, C. V. Sindelar
Date
:
20 Nov 14 (Deposition) - 10 Dec 14 (Release) - 03 Jun 15 (Revision)
Method
:
ELECTRON MICROSCOPY
Resolution
:
5.00
Chains
:
Asym. Unit : A,B,K
Biol. Unit 1: A,B,K (1x)
Keywords
:
Molecular Motors, Kinesin, Myosin, Microtubules, Cytoskeletal Motors, Motor Protein-Structural Protein Complex
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
Z. Shang, K. Zhou, C. Xu, R. Csencsits, J. C. Cochran, C. V. Sindelar
High-Resolution Structures Of Kinesin On Microtubules Provide A Basis For Nucleotide-Gated Force-Generation.
Elife V. 3 04686 2014
[
close entry info
]
Hetero Components
(4, 4)
Info
All Hetero Components
1a: ADENOSINE-5'-TRIPHOSPHATE (ATPa)
2a: GUANOSINE-5'-DIPHOSPHATE (GDPa)
3a: GUANOSINE-5'-TRIPHOSPHATE (GTPa)
4a: MAGNESIUM ION (MGa)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
ATP
1
Ligand/Ion
ADENOSINE-5'-TRIPHOSPHATE
2
GDP
1
Ligand/Ion
GUANOSINE-5'-DIPHOSPHATE
3
GTP
1
Ligand/Ion
GUANOSINE-5'-TRIPHOSPHATE
4
MG
1
Ligand/Ion
MAGNESIUM ION
[
close Hetero Component info
]
Sites
(4, 4)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
3: AC3 (SOFTWARE)
4: AC4 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
ARG K:14 , ARG K:16 , PRO K:17 , THR K:87 , SER K:88 , SER K:89 , GLY K:90 , LYS K:91 , THR K:92 , HIS K:93 , ASN K:198 , SER K:201 , SER K:202 , GLY K:234 , MG K:502
BINDING SITE FOR RESIDUE ATP K 501
2
AC2
SOFTWARE
THR K:92 , SER K:202 , ATP K:501
BINDING SITE FOR RESIDUE MG K 502
3
AC3
SOFTWARE
GLY A:10 , GLN A:11 , ALA A:12 , GLN A:15 , ILE A:16 , ASN A:101 , SER A:140 , GLY A:143 , GLY A:144 , THR A:145 , GLY A:146 , THR A:179 , ASN A:206 , TYR A:224 , ASN A:228 , ILE A:231 , LEU B:248 , LYS B:254
BINDING SITE FOR RESIDUE GTP A 600
4
AC4
SOFTWARE
GLY B:10 , GLN B:11 , CYS B:12 , SER B:140 , GLY B:143 , GLY B:144 , THR B:145 , GLY B:146 , SER B:178 , GLU B:183 , ASN B:206 , TYR B:224 , ASN B:228
BINDING SITE FOR RESIDUE GDP B 501
[
close Site info
]
SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
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: KINESIN_MOTOR_2 (K:8-325)
2: TUBULIN (A:142-148)
3: KINESIN_MOTOR_1 (K:225-236)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
KINESIN_MOTOR_2
PS50067
Kinesin motor domain profile.
KINH_HUMAN
8-325
1
K:8-325
2
TUBULIN
PS00227
Tubulin subunits alpha, beta, and gamma signature.
TBA1B_PIG
142-148
1
A:142-148
3
KINESIN_MOTOR_1
PS00411
Kinesin motor domain signature.
KINH_HUMAN
225-236
1
K:225-236
[
close PROSITE info
]
Exons
(11, 11)
Info
All Exons
Exon 1.1a (K:5-42)
Exon 1.2 (K:43-72)
Exon 1.3 (K:72-96)
Exon 1.4 (K:97-131)
Exon 1.5 (K:132-148)
Exon 1.6 (K:148-166)
Exon 1.7 (K:167-196)
Exon 1.8 (K:196-237)
Exon 1.9 (K:238-272)
Exon 1.10 (K:273-321)
Exon 1.11 (K:321-334)
View:
Select:
Label:
All Exon Boundaries
01: Boundary -/1.1a
02: Boundary 1.1a/1.2
03: Boundary 1.2/1.3
04: Boundary 1.3/1.4
05: Boundary 1.4/1.5
06: Boundary 1.5/1.6
07: Boundary 1.6/1.7
08: Boundary 1.7/1.8
09: Boundary 1.8/1.9
10: Boundary 1.9/1.10
11: Boundary 1.10/1.11
12: Boundary 1.11/1.12
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
ENST00000302418
1a
ENSE00001551533
chr10:
32345359-32344776
584
KINH_HUMAN
1-42
42
1
K:5-42
38
1.2
ENST00000302418
2
ENSE00001163825
chr10:
32337479-32337392
88
KINH_HUMAN
43-72
30
1
K:43-72
30
1.3
ENST00000302418
3
ENSE00001163823
chr10:
32329385-32329312
74
KINH_HUMAN
72-96
25
1
K:72-96
25
1.4
ENST00000302418
4
ENSE00001163819
chr10:
32328359-32328255
105
KINH_HUMAN
97-131
35
1
K:97-131
35
1.5
ENST00000302418
5
ENSE00001163815
chr10:
32327754-32327706
49
KINH_HUMAN
132-148
17
1
K:132-148
17
1.6
ENST00000302418
6
ENSE00001163809
chr10:
32327146-32327091
56
KINH_HUMAN
148-166
19
1
K:148-166
19
1.7
ENST00000302418
7
ENSE00001163802
chr10:
32326535-32326448
88
KINH_HUMAN
167-196
30
1
K:167-196
30
1.8
ENST00000302418
8
ENSE00001163795
chr10:
32326306-32326182
125
KINH_HUMAN
196-237
42
1
K:196-237
42
1.9
ENST00000302418
9
ENSE00001799163
chr10:
32324922-32324818
105
KINH_HUMAN
238-272
35
1
K:238-272
35
1.10
ENST00000302418
10
ENSE00001163782
chr10:
32324595-32324450
146
KINH_HUMAN
273-321
49
1
K:273-321
49
1.11
ENST00000302418
11
ENSE00001163777
chr10:
32323766-32323618
149
KINH_HUMAN
321-371
51
1
K:321-334
14
1.12
ENST00000302418
12
ENSE00001163772
chr10:
32322966-32322773
194
KINH_HUMAN
371-435
65
0
-
-
1.13
ENST00000302418
13
ENSE00001600556
chr10:
32321702-32321634
69
KINH_HUMAN
436-458
23
0
-
-
1.14
ENST00000302418
14
ENSE00001163763
chr10:
32320207-32320001
207
KINH_HUMAN
459-527
69
0
-
-
1.15a
ENST00000302418
15a
ENSE00001163760
chr10:
32317499-32317356
144
KINH_HUMAN
528-575
48
0
-
-
1.16
ENST00000302418
16
ENSE00001163755
chr10:
32311964-32311776
189
KINH_HUMAN
576-638
63
0
-
-
1.17
ENST00000302418
17
ENSE00001163747
chr10:
32311185-32311068
118
KINH_HUMAN
639-678
40
0
-
-
1.18
ENST00000302418
18
ENSE00001376582
chr10:
32310215-32310154
62
KINH_HUMAN
678-698
21
0
-
-
1.19a
ENST00000302418
19a
ENSE00001387593
chr10:
32310059-32309950
110
KINH_HUMAN
699-735
37
0
-
-
1.20
ENST00000302418
20
ENSE00001163734
chr10:
32308887-32308786
102
KINH_HUMAN
735-769
35
0
-
-
1.21
ENST00000302418
21
ENSE00001163729
chr10:
32307490-32307430
61
KINH_HUMAN
769-789
21
0
-
-
1.22
ENST00000302418
22
ENSE00001163722
chr10:
32307315-32307244
72
KINH_HUMAN
790-813
24
0
-
-
1.23
ENST00000302418
23
ENSE00001163716
chr10:
32307084-32306980
105
KINH_HUMAN
814-848
35
0
-
-
1.24b
ENST00000302418
24b
ENSE00001163712
chr10:
32306287-32306071
217
KINH_HUMAN
849-921
73
0
-
-
1.25
ENST00000302418
25
ENSE00001135810
chr10:
32304587-32304437
151
KINH_HUMAN
921-963
43
0
-
-
1.26b
ENST00000302418
26b
ENSE00001872441
chr10:
32300444-32297938
2507
KINH_HUMAN
-
0
0
-
-
[
close EXON info
]
SCOP Domains
(0, 0)
Info
All SCOP Domains
View:
Select:
Label:
Sorry, no Info available
[
close SCOP info
]
CATH Domains
(0, 0)
Info
all CATH domains
View:
Select:
Label:
Sorry, no Info available
[
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 K
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 (173 KB)
Header - Asym.Unit
Biol.Unit 1 (166 KB)
Header - Biol.Unit 1
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
3J8Y
Jmol Script Commands
|
Jmol Color Schemes
|
Jmol Mouse Manual
|
Jmol Wiki
controls:
collapse
expand
Home
JenaLib
Jmol Scripting
Contact
Help
