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.
3M0W
Biol. Unit 1
Info
Asym.Unit (163 KB)
Biol.Unit 1 (149 KB)
Biol.Unit 2 (34 KB)
Biol.Unit 3 (32 KB)
Biol.Unit 4 (32 KB)
Biol.Unit 5 (34 KB)
Biol.Unit 6 (35 KB)
(using Jmol or JSmol)
spin
show selected part
auto zoom/center
Standard Views
(
Basic
|
Advanced
Interface
)
(
Basic
|
Advanced
Interface
)
Help
(1)
Title
:
STRUCTURE OF S100A4 WITH PCP
Authors
:
U. A. Ramagopal, N. G. Dulyaninova, S. C. Almo, A. R. Bresnick
Date
:
03 Mar 10 (Deposition) - 12 May 10 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.80
Chains
:
Asym. Unit : A,B,C,D,E,F,G,H,I,J
Biol. Unit 1: A,B,C,D,E,F,G,H,I,J (1x)
Biol. Unit 2: A,B (1x)
Biol. Unit 3: C,D (1x)
Biol. Unit 4: E,F (1x)
Biol. Unit 5: G,H (1x)
Biol. Unit 6: I,J (1x)
Keywords
:
Mts1, S100 Calcium-Binding Protein A4, S100A4, Metastasin, Calcium Binding Protein
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
U. A. Ramagopal, N. G. Dulyaninova, S. C. Almo, A. R. Bresnick
Structure Of S100A4 With Pcp
To Be Published
[
close entry info
]
Hetero Components
(2, 14)
Info
All Hetero Components
1a: CALCIUM ION (CAa)
1b: CALCIUM ION (CAb)
1c: CALCIUM ION (CAc)
1d: CALCIUM ION (CAd)
1e: CALCIUM ION (CAe)
1f: CALCIUM ION (CAf)
1g: CALCIUM ION (CAg)
1h: CALCIUM ION (CAh)
1i: CALCIUM ION (CAi)
1j: CALCIUM ION (CAj)
1k: CALCIUM ION (CAk)
1l: CALCIUM ION (CAl)
1m: CALCIUM ION (CAm)
1n: CALCIUM ION (CAn)
1o: CALCIUM ION (CAo)
1p: CALCIUM ION (CAp)
1q: CALCIUM ION (CAq)
1r: CALCIUM ION (CAr)
1s: CALCIUM ION (CAs)
1t: CALCIUM ION (CAt)
2a: 1,4-DIETHYLENE DIOXIDE (DIOa)
2b: 1,4-DIETHYLENE DIOXIDE (DIOb)
3a: 2-CHLORO-10-[3-(4-METHYLPIPERAZIN-... (P77a)
3b: 2-CHLORO-10-[3-(4-METHYLPIPERAZIN-... (P77b)
3c: 2-CHLORO-10-[3-(4-METHYLPIPERAZIN-... (P77c)
3d: 2-CHLORO-10-[3-(4-METHYLPIPERAZIN-... (P77d)
3e: 2-CHLORO-10-[3-(4-METHYLPIPERAZIN-... (P77e)
3f: 2-CHLORO-10-[3-(4-METHYLPIPERAZIN-... (P77f)
3g: 2-CHLORO-10-[3-(4-METHYLPIPERAZIN-... (P77g)
3h: 2-CHLORO-10-[3-(4-METHYLPIPERAZIN-... (P77h)
3i: 2-CHLORO-10-[3-(4-METHYLPIPERAZIN-... (P77i)
3j: 2-CHLORO-10-[3-(4-METHYLPIPERAZIN-... (P77j)
3k: 2-CHLORO-10-[3-(4-METHYLPIPERAZIN-... (P77k)
3l: 2-CHLORO-10-[3-(4-METHYLPIPERAZIN-... (P77l)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
CA
-1
Ligand/Ion
CALCIUM ION
2
DIO
2
Ligand/Ion
1,4-DIETHYLENE DIOXIDE
3
P77
12
Ligand/Ion
2-CHLORO-10-[3-(4-METHYLPIPERAZIN-1-YL)PROPYL]-10H-PHENOTHIAZINE
[
close Hetero Component info
]
Sites
(34, 34)
Info
All Sites
01: AC1 (SOFTWARE)
02: AC2 (SOFTWARE)
03: AC3 (SOFTWARE)
04: AC4 (SOFTWARE)
05: AC5 (SOFTWARE)
06: AC6 (SOFTWARE)
07: AC7 (SOFTWARE)
08: AC8 (SOFTWARE)
09: AC9 (SOFTWARE)
10: BC1 (SOFTWARE)
11: BC2 (SOFTWARE)
12: BC3 (SOFTWARE)
13: BC4 (SOFTWARE)
14: BC5 (SOFTWARE)
15: BC6 (SOFTWARE)
16: BC7 (SOFTWARE)
17: BC8 (SOFTWARE)
18: BC9 (SOFTWARE)
19: CC1 (SOFTWARE)
20: CC2 (SOFTWARE)
21: CC3 (SOFTWARE)
22: CC4 (SOFTWARE)
23: CC5 (SOFTWARE)
24: CC6 (SOFTWARE)
25: CC7 (SOFTWARE)
26: CC8 (SOFTWARE)
27: CC9 (SOFTWARE)
28: DC1 (SOFTWARE)
29: DC2 (SOFTWARE)
30: DC3 (SOFTWARE)
31: DC4 (SOFTWARE)
32: DC5 (SOFTWARE)
33: DC6 (SOFTWARE)
34: DC7 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
ASP A:10 , PHE B:89 , GLU I:6 , ASP I:10 , CYS J:86
BINDING SITE FOR RESIDUE P77 A 203
02
AC2
SOFTWARE
SER A:20 , GLU A:23 , ASP A:25 , LYS A:28 , GLU A:33
BINDING SITE FOR RESIDUE CA A 201
03
AC3
SOFTWARE
ASP A:63 , ASN A:65 , ASP A:67 , GLU A:69 , GLU A:74
BINDING SITE FOR RESIDUE CA A 202
04
AC4
SOFTWARE
MET A:85 , PHE C:89
BINDING SITE FOR RESIDUE DIO A 102
05
AC5
SOFTWARE
PHE A:89 , ASP B:10 , SER B:14 , CYS C:86 , PHE C:89 , GLU D:6 , P77 D:203
BINDING SITE FOR RESIDUE P77 B 203
06
AC6
SOFTWARE
SER B:20 , GLU B:23 , ASP B:25 , LYS B:28 , GLU B:33 , HOH B:103
BINDING SITE FOR RESIDUE CA B 201
07
AC7
SOFTWARE
ASP B:63 , ASN B:65 , ASP B:67 , GLU B:69 , GLU B:74 , HOH B:102
BINDING SITE FOR RESIDUE CA B 202
08
AC8
SOFTWARE
MET B:85 , CYS B:86 , GLU B:88 , PHE B:93 , P77 I:203 , PHE J:89 , PHE J:93
BINDING SITE FOR RESIDUE P77 B 204
09
AC9
SOFTWARE
ASP C:10 , SER C:14 , PHE D:89 , PHE E:45 , CYS E:86 , GLU F:6 , ASP F:10 , P77 F:203
BINDING SITE FOR RESIDUE P77 C 203
10
BC1
SOFTWARE
SER C:20 , GLY C:21 , LYS C:22 , GLU C:23 , ASP C:25 , GLU C:33
BINDING SITE FOR RESIDUE CA C 201
11
BC2
SOFTWARE
ASP C:63 , ASN C:65 , ASP C:67 , GLU C:69 , GLU C:74
BINDING SITE FOR RESIDUE CA C 202
12
BC3
SOFTWARE
SER A:44 , CYS A:86 , GLU B:6 , P77 B:203 , PHE C:89 , ASP D:10 , SER D:14
BINDING SITE FOR RESIDUE P77 D 203
13
BC4
SOFTWARE
SER D:20 , GLU D:23 , ASP D:25 , LYS D:28 , GLU D:33
BINDING SITE FOR RESIDUE CA D 201
14
BC5
SOFTWARE
ASP D:63 , ASN D:65 , ASP D:67 , GLU D:69 , GLU D:74
BINDING SITE FOR RESIDUE CA D 202
15
BC6
SOFTWARE
ASP E:10 , SER E:14 , PHE F:89 , CYS G:86 , GLU H:6 , P77 H:203
BINDING SITE FOR RESIDUE P77 E 203
16
BC7
SOFTWARE
SER E:20 , LYS E:28 , LEU E:29 , ASN E:30 , GLU E:33
BINDING SITE FOR RESIDUE CA E 201
17
BC8
SOFTWARE
ASP E:63 , SER E:64 , ASN E:65 , ASP E:67 , GLU E:69
BINDING SITE FOR RESIDUE CA E 202
18
BC9
SOFTWARE
GLU C:6 , ASP C:10 , P77 C:203 , SER D:44 , CYS D:86 , PHE E:89 , ASP F:10 , SER F:14
BINDING SITE FOR RESIDUE P77 F 203
19
CC1
SOFTWARE
SER F:20 , GLU F:23 , ASP F:25 , LYS F:28 , GLU F:33
BINDING SITE FOR RESIDUE CA F 201
20
CC2
SOFTWARE
ASP F:63 , ASN F:65 , ASP F:67 , GLU F:69 , GLU F:74
BINDING SITE FOR RESIDUE CA F 202
21
CC3
SOFTWARE
ASP G:10 , PHE H:89 , SER I:44 , CYS I:86 , GLU J:6 , P77 J:203
BINDING SITE FOR RESIDUE P77 G 203
22
CC4
SOFTWARE
SER G:20 , GLU G:23 , ASP G:25 , LYS G:28 , GLU G:33
BINDING SITE FOR RESIDUE CA G 201
23
CC5
SOFTWARE
ASP G:63 , ASN G:65 , ASP G:67 , GLU G:69 , GLU G:74
BINDING SITE FOR RESIDUE CA G 202
24
CC6
SOFTWARE
ASP E:10 , P77 E:203 , PHE F:45 , CYS F:86 , PHE G:89 , ASP H:10 , SER H:14
BINDING SITE FOR RESIDUE P77 H 203
25
CC7
SOFTWARE
SER H:20 , GLU H:23 , ASP H:25 , LYS H:28 , GLU H:33 , HOH H:102
BINDING SITE FOR RESIDUE CA H 201
26
CC8
SOFTWARE
ASP H:63 , ASN H:65 , ASP H:67 , GLU H:69 , GLU H:74
BINDING SITE FOR RESIDUE CA H 202
27
CC9
SOFTWARE
GLU A:6 , ASP A:10 , SER B:44 , CYS B:86 , P77 B:204 , ASP I:10 , SER I:14 , PHE J:89
BINDING SITE FOR RESIDUE P77 I 203
28
DC1
SOFTWARE
PHE H:89 , PHE H:90 , SER I:44 , PHE I:45 , GLY I:47 , MET I:85 , CYS I:86
BINDING SITE FOR RESIDUE P77 I 204
29
DC2
SOFTWARE
SER I:20 , GLU I:23 , ASP I:25 , LYS I:28 , GLU I:33
BINDING SITE FOR RESIDUE CA I 201
30
DC3
SOFTWARE
ASP I:63 , ASN I:65 , ASP I:67 , GLU I:69 , GLU I:74 , HOH I:102
BINDING SITE FOR RESIDUE CA I 202
31
DC4
SOFTWARE
GLU G:6 , P77 G:203 , SER H:44 , CYS H:86 , PHE H:89 , PHE I:89 , ASP J:10
BINDING SITE FOR RESIDUE P77 J 203
32
DC5
SOFTWARE
SER J:20 , GLU J:23 , ASP J:25 , LYS J:28 , GLU J:33 , HOH J:103
BINDING SITE FOR RESIDUE CA J 201
33
DC6
SOFTWARE
ASP J:63 , ASN J:65 , ASP J:67 , GLU J:69 , GLU J:74 , HOH J:102
BINDING SITE FOR RESIDUE CA J 202
34
DC7
SOFTWARE
PHE B:89 , MET J:85 , HOH J:105
BINDING SITE FOR RESIDUE DIO J 1
[
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, 30)
Info
All PROSITE Patterns/Profiles
1: EF_HAND_2 (A:50-85,B:50-85,C:51-85,D:51-85,E:...)
2: S100_CABP (A:58-79,B:58-79,C:58-79,D:58-79,E:...)
3: EF_HAND_1 (A:63-75,B:63-75,C:63-75,D:63-75,E:...)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
EF_HAND_2
PS50222
EF-hand calcium-binding domain profile.
S10A4_HUMAN
50-85
10
A:50-85
B:50-85
C:51-85
D:51-85
E:50-85
F:51-85
G:52-85
H:50-85
I:50-85
J:50-85
2
S100_CABP
PS00303
S-100/ICaBP type calcium binding protein signature.
S10A4_HUMAN
58-79
10
A:58-79
B:58-79
C:58-79
D:58-79
E:58-79
F:58-79
G:58-79
H:58-79
I:58-79
J:58-79
3
EF_HAND_1
PS00018
EF-hand calcium-binding domain.
S10A4_HUMAN
63-75
10
A:63-75
B:63-75
C:63-75
D:63-75
E:63-75
F:63-75
G:63-75
H:63-75
I:63-75
J:63-75
[
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, 10)
Info
All SCOP Domains
1a: SCOP_d3m0wa_ (A:)
1b: SCOP_d3m0wb_ (B:)
1c: SCOP_d3m0wc_ (C:)
1d: SCOP_d3m0wd_ (D:)
1e: SCOP_d3m0we_ (E:)
1f: SCOP_d3m0wf_ (F:)
1g: SCOP_d3m0wg_ (G:)
1h: SCOP_d3m0wh_ (H:)
1i: SCOP_d3m0wi_ (I:)
1j: SCOP_d3m0wj_ (J:)
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
:
S100 proteins
(101)
Protein domain
:
Calcyclin (S100)
(69)
Human (Homo sapiens), s100a4 [TaxId: 9606]
(7)
1a
d3m0wa_
A:
1b
d3m0wb_
B:
1c
d3m0wc_
C:
1d
d3m0wd_
D:
1e
d3m0we_
E:
1f
d3m0wf_
F:
1g
d3m0wg_
G:
1h
d3m0wh_
H:
1i
d3m0wi_
I:
1j
d3m0wj_
J:
[
close SCOP info
]
CATH Domains
(0, 0)
Info
all CATH domains
View:
Select:
Label:
Sorry, no Info available
[
close CATH info
]
Pfam Domains
(1, 10)
Info
all PFAM domains
1a: PFAM_S_100_3m0wJ01 (J:5-46)
1b: PFAM_S_100_3m0wJ02 (J:5-46)
1c: PFAM_S_100_3m0wJ03 (J:5-46)
1d: PFAM_S_100_3m0wJ04 (J:5-46)
1e: PFAM_S_100_3m0wJ05 (J:5-46)
1f: PFAM_S_100_3m0wJ06 (J:5-46)
1g: PFAM_S_100_3m0wJ07 (J:5-46)
1h: PFAM_S_100_3m0wJ08 (J:5-46)
1i: PFAM_S_100_3m0wJ09 (J:5-46)
1j: PFAM_S_100_3m0wJ10 (J:5-46)
View:
Select:
Label:
Clans
(
)
(
)
Families
(
)
(
)
Organisms
(
)
(
)
Clan
:
EF_hand
(270)
Family
:
S_100
(63)
Homo sapiens (Human)
(41)
1a
S_100-3m0wJ01
J:5-46
1b
S_100-3m0wJ02
J:5-46
1c
S_100-3m0wJ03
J:5-46
1d
S_100-3m0wJ04
J:5-46
1e
S_100-3m0wJ05
J:5-46
1f
S_100-3m0wJ06
J:5-46
1g
S_100-3m0wJ07
J:5-46
1h
S_100-3m0wJ08
J:5-46
1i
S_100-3m0wJ09
J:5-46
1j
S_100-3m0wJ10
J:5-46
[
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
Chain H
Chain I
Chain J
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 (163 KB)
Header - Asym.Unit
Biol.Unit 1 (149 KB)
Header - Biol.Unit 1
Biol.Unit 2 (34 KB)
Header - Biol.Unit 2
Biol.Unit 3 (32 KB)
Header - Biol.Unit 3
Biol.Unit 4 (32 KB)
Header - Biol.Unit 4
Biol.Unit 5 (34 KB)
Header - Biol.Unit 5
Biol.Unit 6 (35 KB)
Header - Biol.Unit 6
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
3M0W
Jmol Script Commands
|
Jmol Color Schemes
|
Jmol Mouse Manual
|
Jmol Wiki
controls:
collapse
expand
Home
JenaLib
Jmol Scripting
Contact
Help