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.
3FF7
Asym. Unit
Info
Asym.Unit (78 KB)
Biol.Unit 1 (75 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 NK CELL RECEPTOR KLRG1 BOUND TO E-CADHERIN
Authors
:
Y. Li, R. A. Mariuzza
Date
:
02 Dec 08 (Deposition) - 28 Jul 09 (Release) - 28 Jul 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.80
Chains
:
Asym. Unit : A,B,C,D
Biol. Unit 1: A,B,C,D (1x)
Keywords
:
Klrg1-Cadherin Complex, Calcium, Cell Adhesion, Cell Junction, Cell Membrane, Cleavage On Pair Of Basic Residues, Disease Mutation, Glycoprotein, Membrane, Phosphoprotein, Polymorphism, Transmembrane, Alternative Splicing, Lectin, Receptor, Signal-Anchor, Cell Adhesion/Immunue System Complex
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
Y. Li, M. Hofmann, Q. Wang, L. Teng, L. K. Chlewicki, H. Pircher, R. A. Mariuzza
Structure Of Natural Killer Cell Receptor Klrg1 Bound To E-Cadherin Reveals Basis For Mhc-Independent Missing Self Recognition.
Immunity V. 31 35 2009
(for further references see the
PDB file header
)
[
close entry info
]
Hetero Components
(1, 1)
Info
All Hetero Components
1a: ACETIC ACID (ACYa)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
ACY
1
Ligand/Ion
ACETIC ACID
[
close Hetero Component info
]
Sites
(1, 1)
Info
All Sites
1: AC1 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
TYR D:88 , SER D:90 , VAL D:91 , GLU D:92 , PHE D:102 , TRP D:182 , HOH D:210
BINDING SITE FOR RESIDUE ACY D 1
[
close Site info
]
SAPs(SNPs)/Variants
(2, 4)
Info
(mutated residues are not available)
All SNPs/Variants
1: VAR_001307 (T39P, chain A/B, )
2: VAR_008712 (D90G, chain A/B, )
View:
Select:
Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
1
UniProt
VAR_001307
T
193
P
CADH1_HUMAN
Unclassified
---
A/B
T
39
P
2
UniProt
VAR_008712
D
244
G
CADH1_HUMAN
Disease (HDGC)
---
A/B
D
90
G
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
[
close SNP/Variant info
]
PROSITE Patterns/Profiles
(3, 6)
Info
All PROSITE Patterns/Profiles
1: C_TYPE_LECTIN_2 (C:82-185,D:82-185)
2: CADHERIN_2 (A:26-99,B:26-99|-|-|-|-)
3: CADHERIN_1 (A:96-99,B:96-99|-|-)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
C_TYPE_LECTIN_2
PS50041
C-type lectin domain profile.
KLRG1_HUMAN
82-185
2
C:82-185
D:82-185
2
CADHERIN_2
PS50268
Cadherins domain profile.
CADH1_HUMAN
180-262
263-375
376-486
487-595
594-702
2
A:26-99
B:26-99
-
-
-
-
3
CADHERIN_1
PS00232
Cadherin domain signature.
CADH1_HUMAN
250-260
363-373
583-593
2
A:96-99
B:96-99
-
-
[
close PROSITE info
]
Exons
(3, 6)
Info
All Exons
Exon 1.4b (A:0-23 (gaps) | B:0-23 (gaps))
Exon 1.5 (A:24-75 | B:24-75)
Exon 1.6 (A:76-99 | B:76-99)
View:
Select:
Label:
All Exon Boundaries
1: Boundary 1.3b/1.4b
2: Boundary 1.4b/1.5
3: Boundary 1.5/1.6
4: Boundary 1.6/1.7
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
ENST00000261769
1a
ENSE00001859184
chr16:
68771128-68771366
239
CADH1_HUMAN
1-16
16
0
-
-
1.2
ENST00000261769
2
ENSE00000844392
chr16:
68772200-68772314
115
CADH1_HUMAN
17-55
39
0
-
-
1.3b
ENST00000261769
3b
ENSE00000946584
chr16:
68835573-68835796
224
CADH1_HUMAN
55-129
75
0
-
-
1.4b
ENST00000261769
4b
ENSE00000946585
chr16:
68842327-68842470
144
CADH1_HUMAN
130-177
48
2
A:0-23 (gaps)
B:0-23 (gaps)
24
24
1.5
ENST00000261769
5
ENSE00000946586
chr16:
68842596-68842751
156
CADH1_HUMAN
178-229
52
2
A:24-75
B:24-75
52
52
1.6
ENST00000261769
6
ENSE00000946587
chr16:
68844100-68844244
145
CADH1_HUMAN
230-278
49
2
A:76-99
B:76-99
24
24
1.7
ENST00000261769
7
ENSE00000946588
chr16:
68845587-68845762
176
CADH1_HUMAN
278-336
59
0
-
-
1.8
ENST00000261769
8
ENSE00000946589
chr16:
68846038-68846166
129
CADH1_HUMAN
337-379
43
0
-
-
1.9
ENST00000261769
9
ENSE00000946590
chr16:
68847216-68847398
183
CADH1_HUMAN
380-440
61
0
-
-
1.11
ENST00000261769
11
ENSE00002191003
chr16:
68849418-68849662
245
CADH1_HUMAN
441-522
82
0
-
-
1.12
ENST00000261769
12
ENSE00001694152
chr16:
68853183-68853328
146
CADH1_HUMAN
522-571
50
0
-
-
1.13
ENST00000261769
13
ENSE00001754940
chr16:
68855904-68856128
225
CADH1_HUMAN
571-646
76
0
-
-
1.14
ENST00000261769
14
ENSE00001721514
chr16:
68857302-68857529
228
CADH1_HUMAN
646-722
77
0
-
-
1.15
ENST00000261769
15
ENSE00001736533
chr16:
68862077-68862207
131
CADH1_HUMAN
722-765
44
0
-
-
1.16
ENST00000261769
16
ENSE00001782571
chr16:
68863557-68863700
144
CADH1_HUMAN
766-813
48
0
-
-
1.17b
ENST00000261769
17b
ENSE00001930498
chr16:
68867193-68869437
2245
CADH1_HUMAN
814-882
69
0
-
-
[
close EXON info
]
SCOP Domains
(2, 4)
Info
All SCOP Domains
1a: SCOP_d3ff7a_ (A:)
1b: SCOP_d3ff7b_ (B:)
2a: SCOP_d3ff7c_ (C:)
2b: SCOP_d3ff7d_ (D:)
View:
Select:
Label:
Classes
(
)
(
)
Folds
(
)
(
)
Superfamilies
(
)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
All beta proteins
(24004)
Fold
:
Immunoglobulin-like beta-sandwich
(7299)
Superfamily
:
Cadherin-like
(44)
Family
:
Cadherin
(30)
Protein domain
:
E-cadherin (epithelial)
(23)
Human (Homo sapiens) [TaxId: 9606]
(10)
1a
d3ff7a_
A:
1b
d3ff7b_
B:
Class
:
Alpha and beta proteins (a+b)
(23004)
Fold
:
C-type lectin-like
(322)
Superfamily
:
C-type lectin-like
(322)
Family
:
automated matches
(88)
Protein domain
:
automated matches
(88)
Human (Homo sapiens) [TaxId: 9606]
(60)
2a
d3ff7c_
C:
2b
d3ff7d_
D:
[
close SCOP info
]
CATH Domains
(1, 2)
Info
all CATH domains
1a: CATH_3ff7B00 (B:0-99)
1b: CATH_3ff7A00 (A:0-99)
View:
Select:
Label:
Classes
(
)
(
)
Architectures
(
)
(
)
Topologies
(
)
(
)
Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Mainly Beta
(13760)
Architecture
:
Sandwich
(5577)
Topology
:
Immunoglobulin-like
(3897)
Homologous Superfamily
:
Cadherins
(28)
Human (Homo sapiens)
(5)
1a
3ff7B00
B:0-99
1b
3ff7A00
A:0-99
[
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 (78 KB)
Header - Asym.Unit
Biol.Unit 1 (75 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
3FF7
Jmol Script Commands
|
Jmol Color Schemes
|
Jmol Mouse Manual
|
Jmol Wiki
controls:
collapse
expand
Home
JenaLib
Jmol Scripting
Contact
Help