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.
4PZ4
Asym. Unit
Info
Asym.Unit (62 KB)
Biol.Unit 1 (30 KB)
Biol.Unit 2 (30 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 CRYSTAL STRUCTURE OF THE HUMAN CD44 HYALURONAN BINDING DOMAIN IN NEW SPACE GROUP
Authors
:
L. K. Liu, B. Finzel
Date
:
28 Mar 14 (Deposition) - 17 Sep 14 (Release) - 15 Oct 14 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.60
Chains
:
Asym. Unit : A,B
Biol. Unit 1: A (1x)
Biol. Unit 2: B (1x)
Keywords
:
Link Module, Binding Protein, Hyaluronan, Ectodomain, Cell Adhesion
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
L. K. Liu, B. Finzel
High-Resolution Crystal Structures Of Alternate Forms Of Th Human Cd44 Hyaluronan-Binding Domain Reveal A Site For Protein Interaction.
Acta Crystallogr F Struct V. 70 1155 2014 Biol Commun
[
close entry info
]
Hetero Components
(5, 16)
Info
All Hetero Components
1a: DIMETHYL SULFOXIDE (DMSa)
2a: 1,2-ETHANEDIOL (EDOa)
2b: 1,2-ETHANEDIOL (EDOb)
2c: 1,2-ETHANEDIOL (EDOc)
2d: 1,2-ETHANEDIOL (EDOd)
3a: GLYCEROL (GOLa)
4a: DI(HYDROXYETHYL)ETHER (PEGa)
4b: DI(HYDROXYETHYL)ETHER (PEGb)
4c: DI(HYDROXYETHYL)ETHER (PEGc)
4d: DI(HYDROXYETHYL)ETHER (PEGd)
5a: SULFATE ION (SO4a)
5b: SULFATE ION (SO4b)
5c: SULFATE ION (SO4c)
5d: SULFATE ION (SO4d)
5e: SULFATE ION (SO4e)
5f: SULFATE ION (SO4f)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
DMS
1
Ligand/Ion
DIMETHYL SULFOXIDE
2
EDO
4
Ligand/Ion
1,2-ETHANEDIOL
3
GOL
1
Ligand/Ion
GLYCEROL
4
PEG
4
Ligand/Ion
DI(HYDROXYETHYL)ETHER
5
SO4
6
Ligand/Ion
SULFATE ION
[
close Hetero Component info
]
Sites
(16, 16)
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)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
ARG A:41 , TYR A:42 , ARG A:78 , PEG A:204 , HOH A:307 , HOH A:310 , CYS B:77 , ARG B:78 , PEG B:203
BINDING SITE FOR RESIDUE SO4 A 201
02
AC2
SOFTWARE
ARG A:29 , PHE A:34 , PHE A:56 , ASN A:120 , VAL A:132
BINDING SITE FOR RESIDUE SO4 A 202
03
AC3
SOFTWARE
ALA A:31 , ASN A:120 , ALA A:123 , PRO A:125
BINDING SITE FOR RESIDUE SO4 A 203
04
AC4
SOFTWARE
TYR A:42 , THR A:111 , GLN A:113 , TYR A:114 , SO4 A:201 , HOH A:407 , ASN B:94
BINDING SITE FOR RESIDUE PEG A 204
05
AC5
SOFTWARE
THR A:62 , ALA A:64 , GLN A:65 , HOH A:357 , HOH A:382 , HOH A:390 , HOH A:399 , ASP B:140 , GLY B:141
BINDING SITE FOR RESIDUE GOL A 205
06
AC6
SOFTWARE
THR A:27 , CYS A:28 , HOH A:375 , HOH A:394 , HOH A:411
BINDING SITE FOR RESIDUE EDO A 206
07
AC7
SOFTWARE
ASN A:94 , ILE A:96 , SO4 B:201 , HOH B:355
BINDING SITE FOR RESIDUE EDO A 207
08
AC8
SOFTWARE
ASP A:23 , ASN A:25 , ASN A:39 , GLY A:40 , ASP B:23 , ASN B:25 , GLY B:40
BINDING SITE FOR RESIDUE PEG A 208
09
AC9
SOFTWARE
CYS A:77 , EDO A:207 , ARG B:41 , TYR B:42 , ARG B:78 , PEG B:203 , HOH B:315 , HOH B:325
BINDING SITE FOR RESIDUE SO4 B 201
10
BC1
SOFTWARE
ARG B:46 , GLU B:83 , GLY B:84 , PEG B:208 , HOH B:349 , HOH B:380
BINDING SITE FOR RESIDUE SO4 B 202
11
BC2
SOFTWARE
GLU A:37 , GLY A:40 , ARG A:41 , ARG A:78 , SO4 A:201 , GLU B:37 , GLY B:40 , ARG B:41 , ARG B:78 , SO4 B:201 , HOH B:368
BINDING SITE FOR RESIDUE PEG B 203
12
BC3
SOFTWARE
ARG B:29 , PHE B:56 , SER B:58 , ASN B:120 , VAL B:132
BINDING SITE FOR RESIDUE SO4 B 204
13
BC4
SOFTWARE
ALA B:138 , PHE B:139 , GLN B:157 , LYS B:158
BINDING SITE FOR RESIDUE EDO B 205
14
BC5
SOFTWARE
ALA B:20 , ILE B:143 , ARG B:162 , HOH B:322 , HOH B:323
BINDING SITE FOR RESIDUE EDO B 206
15
BC6
SOFTWARE
SER A:95 , ILE A:96 , TYR B:79 , HOH B:372
BINDING SITE FOR RESIDUE DMS B 207
16
BC7
SOFTWARE
ARG B:46 , HIS B:85 , VAL B:86 , SER B:109 , SO4 B:202 , HOH B:304 , HOH B:380
BINDING SITE FOR RESIDUE PEG B 208
[
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
(0, 0)
Info
All PROSITE Patterns/Profiles
;
View:
Select:
Label:
End label:
Sorry, no Info available
[
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.
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
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 (62 KB)
Header - Asym.Unit
Biol.Unit 1 (30 KB)
Header - Biol.Unit 1
Biol.Unit 2 (30 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
4PZ4
Jmol Script Commands
|
Jmol Color Schemes
|
Jmol Mouse Manual
|
Jmol Wiki
controls:
collapse
expand
Home
JenaLib
Jmol Scripting
Contact
Help
