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.
2K8M
Asym. Unit
Info
Asym.Unit (2.7 MB)
Biol.Unit 1 (141 KB)
(using Jmol or JSmol)
spin
show selected part
auto zoom/center
Standard Views
(
Basic
|
Advanced
Interface
)
(
Basic
|
Advanced
Interface
)
Help
Models
(20 )
Title
:
S100A13-C2A BINARY COMPLEX STRUCTURE
Authors
:
S. K. Mohan, S. G. Rani, S. M. Kumar, C. Yu
Date
:
14 Sep 08 (Deposition) - 17 Mar 09 (Release) - 18 Apr 12 (Revision)
Method
:
SOLUTION NMR
Resolution
:
NOT APPLICABLE
Chains
:
Asym. Unit : A,B,C,D (20 x)
Biol. Unit 1: A,B,C,D (1x)
Keywords
:
Protein-Protein Complex, S100A13, C2A, Protein Transport
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
S. K. Mohan, S. G. Rani, S. M. Kumar, C. Yu
S100A13-C2A Binary Complex Structure-A Key Component In The Acidic Fibroblast Growth Factor For The Non-Classical Pathway.
Biochem. Biophys. Res. Commun. V. 380 514 2009
[
close entry info
]
Hetero Components
(0, 0)
Info
All Hetero Components
View:
Select:
Label:
Sorry, no Info available
[
close Hetero component info
]
Sites
(0, 0)
Info
All Sites
View:
Select:
Label:
Sorry, no Info available
[
close Site info
]
SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available in "Model" view)
All SNPs/Variants
View:
Select:
Label:
Sorry, no Info available
[
close SNP/Variant info
]
PROSITE Patterns/Profiles
(1, 2)
Info
All PROSITE Patterns/Profiles
1: C2 (A:17-105,D:17-105|-)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
C2
PS50004
C2 domain profile.
SYT1_HUMAN
157-245
287-378
2
A:17-105
D:17-105
-
[
close PROSITE info
]
Exons
(5, 10)
Info
All Exons
Exon 1.9j (B:1-51 | C:1-51)
Exon 1.10b (B:52-98 | C:52-98)
Exon 2.9 (A:1-18 | D:1-18)
Exon 2.10b (A:19-74 | D:19-74)
Exon 2.11 (A:75-128 | D:75-128)
View:
Select:
Label:
All Exon Boundaries
1: Boundary 1.9f/1.9j
2: Boundary 1.9j/1.10b
3: Boundary 1.10b/-
4: Boundary 2.8/2.9
5: Boundary 2.9/2.10b
6: Boundary 2.10b/2.11
7: Boundary 2.11/2.12
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
1.9f
ENST00000392623
9f
ENSE00001512519
chr1:
153599744-153599615
130
S10AD_HUMAN
-
0
0
-
-
1.9j
ENST00000392623
9j
ENSE00002186841
chr1:
153599009-153598796
214
S10AD_HUMAN
1-51
51
2
B:1-51
C:1-51
51
51
1.10b
ENST00000392623
10b
ENSE00001364911
chr1:
153591514-153591280
235
S10AD_HUMAN
52-98
47
2
B:52-98
C:52-98
47
47
2.1
ENST00000393240
1
ENSE00001514587
chr12:
79257773-79258115
343
SYT1_HUMAN
-
0
0
-
-
2.2b
ENST00000393240
2b
ENSE00001514586
chr12:
79258778-79258889
112
SYT1_HUMAN
-
0
0
-
-
2.3
ENST00000393240
3
ENSE00001411176
chr12:
79371579-79371711
133
SYT1_HUMAN
-
0
0
-
-
2.6
ENST00000393240
6
ENSE00001399568
chr12:
79441077-79441142
66
SYT1_HUMAN
-
0
0
-
-
2.7
ENST00000393240
7
ENSE00001164727
chr12:
79611283-79611465
183
SYT1_HUMAN
1-56
56
0
-
-
2.8
ENST00000393240
8
ENSE00001098488
chr12:
79679567-79679751
185
SYT1_HUMAN
56-117
62
0
-
-
2.9
ENST00000393240
9
ENSE00001272133
chr12:
79685788-79685910
123
SYT1_HUMAN
118-158
41
2
A:1-18
D:1-18
18
18
2.10b
ENST00000393240
10b
ENSE00001272119
chr12:
79689849-79690016
168
SYT1_HUMAN
159-214
56
2
A:19-74
D:19-74
56
56
2.11
ENST00000393240
11
ENSE00000910597
chr12:
79693164-79693331
168
SYT1_HUMAN
215-270
56
2
A:75-128
D:75-128
54
54
2.12
ENST00000393240
12
ENSE00001620152
chr12:
79747282-79747399
118
SYT1_HUMAN
271-310
40
0
-
-
2.13
ENST00000393240
13
ENSE00001657879
chr12:
79837853-79837986
134
SYT1_HUMAN
310-354
45
0
-
-
2.14a
ENST00000393240
14a
ENSE00001824637
chr12:
79842698-79844059
1362
SYT1_HUMAN
355-422
68
0
-
-
[
close EXON info
]
SCOP Domains
(2, 4)
Info
All SCOP Domains
1a: SCOP_d2k8mb_ (B:)
1b: SCOP_d2k8mc_ (C:)
2a: SCOP_d2k8ma_ (A:)
2b: SCOP_d2k8md_ (D:)
View:
Select:
Label:
Classes
(
)
(
)
Folds
(
)
(
)
Superfamilies
(
)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
All alpha proteins
(14657)
Fold
:
EF Hand-like
(739)
Superfamily
:
EF-hand
(657)
Family
:
automated matches
(65)
Protein domain
:
automated matches
(65)
Human (Homo sapiens) [TaxId: 9606]
(35)
1a
d2k8mb_
B:
1b
d2k8mc_
C:
Class
:
All beta proteins
(24004)
Fold
:
C2 domain-like
(198)
Superfamily
:
C2 domain (Calcium/lipid-binding domain, CaLB)
(148)
Family
:
Synaptotagmin-like (S variant)
(38)
Protein domain
:
Synaptogamin I
(17)
Human (Homo sapiens) [TaxId: 9606]
(10)
2a
d2k8ma_
A:
2b
d2k8md_
D:
[
close SCOP info
]
CATH Domains
(1, 2)
Info
all CATH domains
1a: CATH_2k8mA00 (A:1-128)
1b: CATH_2k8mD00 (D:1-128)
View:
Select:
Label:
Classes
(
)
(
)
Architectures
(
)
(
)
Topologies
(
)
(
)
Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Mainly Beta
(13760)
Architecture
:
Sandwich
(5577)
Topology
:
Immunoglobulin-like
(3897)
Homologous Superfamily
:
C2- domain Calcium/lipid binding domain
(78)
Human (Homo sapiens)
(41)
1a
2k8mA00
A:1-128
1b
2k8mD00
D:1-128
[
close CATH info
]
Pfam Domains
(2, 4)
Info
all PFAM domains
1a: PFAM_C2_2k8mD01 (D:19-105)
1b: PFAM_C2_2k8mD02 (D:19-105)
2a: PFAM_S_100_2k8mC01 (C:9-52)
2b: PFAM_S_100_2k8mC02 (C:9-52)
View:
Select:
Label:
Clans
(
)
(
)
Families
(
)
(
)
Organisms
(
)
(
)
Clan
:
C2
(71)
Family
:
C2
(34)
Homo sapiens (Human)
(15)
1a
C2-2k8mD01
D:19-105
1b
C2-2k8mD02
D:19-105
Clan
:
EF_hand
(270)
Family
:
S_100
(63)
Homo sapiens (Human)
(41)
2a
S_100-2k8mC01
C:9-52
2b
S_100-2k8mC02
C:9-52
[
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 (2.7 MB)
Header - Asym.Unit
Biol.Unit 1 (141 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
2K8M
Jmol Script Commands
|
Jmol Color Schemes
|
Jmol Mouse Manual
|
Jmol Wiki
controls:
collapse
expand
Home
JenaLib
Jmol Scripting
Contact
Help