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.
1UAP
Asym. Unit
Info
Asym.Unit (666 KB)
(using Jmol or JSmol)
spin
show selected part
auto zoom/center
Standard Views
(
Basic
|
Advanced
Interface
)
(
Basic
|
Advanced
Interface
)
Help
Models
(20 )
Title
:
NMR STRUCTURE OF THE NTR DOMAIN FROM HUMAN PCOLCE1
Authors
:
E. Liepinsh, L. Banyai, G. Pintacuda, M. Trexler, L. Patthy, G. Otting
Date
:
14 Mar 03 (Deposition) - 15 Jul 03 (Release) - 24 Feb 09 (Revision)
Method
:
SOLUTION NMR
Resolution
:
NOT APPLICABLE
Chains
:
Asym. Unit : A (20 x)
Keywords
:
Beta Barrel, Protein Binding
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
E. Liepinsh, L. Banyai, G. Pintacuda, M. Trexler, L. Patthy, G. Otting
Nmr Structure Of The Netrin-Like Domain (Ntr) Of Human Type I Procollagen C-Proteinase Enhancer Defines Structural Consensus Of Ntr Domains And Assesses Potential Proteinase Inhibitory Activity And Ligand Binding.
J. Biol. Chem. V. 278 25982 2003
(for further references see the
PDB file header
)
[
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, 1)
Info
All PROSITE Patterns/Profiles
1: NTR (A:30-149)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
NTR
PS50189
NTR domain profile.
PCOC1_HUMAN
318-437
1
A:30-149
[
close PROSITE info
]
Exons
(4, 4)
Info
All Exons
Exon 1.6c (A:24-26)
Exon 1.7 (A:26-50)
Exon 1.8c (A:50-107)
Exon 1.9b (A:107-154)
View:
Select:
Label:
All Exon Boundaries
1: Boundary 1.4m/1.6c
2: Boundary 1.6c/1.7
3: Boundary 1.7/1.8c
4: Boundary 1.8c/1.9b
5: Boundary 1.9b/-
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
ENST00000223061
1a
ENSE00001861120
chr7:
100199800-100200174
375
PCOC1_HUMAN
1-32
32
0
-
-
1.2b
ENST00000223061
2b
ENSE00000710693
chr7:
100201053-100201161
109
PCOC1_HUMAN
32-68
37
0
-
-
1.3c
ENST00000223061
3c
ENSE00000710691
chr7:
100201582-100201840
259
PCOC1_HUMAN
69-155
87
0
-
-
1.4e
ENST00000223061
4e
ENSE00000710690
chr7:
100202714-100202838
125
PCOC1_HUMAN
155-196
42
0
-
-
1.4m
ENST00000223061
4m
ENSE00000710689
chr7:
100203299-100203435
137
PCOC1_HUMAN
197-242
46
0
-
-
1.6c
ENST00000223061
6c
ENSE00000710688
chr7:
100204039-100204253
215
PCOC1_HUMAN
242-314
73
1
A:24-26
3
1.7
ENST00000223061
7
ENSE00001131240
chr7:
100205075-100205146
72
PCOC1_HUMAN
314-338
25
1
A:26-50
25
1.8c
ENST00000223061
8c
ENSE00000710686
chr7:
100205260-100205430
171
PCOC1_HUMAN
338-395
58
1
A:50-107
58
1.9b
ENST00000223061
9b
ENSE00001871599
chr7:
100205560-100205798
239
PCOC1_HUMAN
395-449
55
1
A:107-154
48
[
close EXON info
]
SCOP Domains
(1, 1)
Info
All SCOP Domains
1a: SCOP_d1uapa_ (A:)
View:
Select:
Label:
Classes
(
)
(
)
Folds
(
)
(
)
Superfamilies
(
)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
All beta proteins
(24004)
Fold
:
OB-fold
(1179)
Superfamily
:
TIMP-like
(22)
Family
:
Netrin-like domain (NTR/C345C module)
(4)
Protein domain
:
Procollagen c-proteinase enhancer protein PCOLCE
(1)
Human (Homo sapiens) [TaxId: 9606]
(1)
1a
d1uapa_
A:
[
close SCOP info
]
CATH Domains
(1, 1)
Info
all CATH domains
1a: CATH_1uapA00 (A:24-154)
View:
Select:
Label:
Classes
(
)
(
)
Architectures
(
)
(
)
Topologies
(
)
(
)
Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Mainly Beta
(13760)
Architecture
:
Beta Barrel
(4804)
Topology
:
OB fold (Dihydrolipoamide Acetyltransferase, E2P)
(1040)
Homologous Superfamily
:
[code=2.40.50.120, no name defined]
(16)
Human (Homo sapiens)
(12)
1a
1uapA00
A:24-154
[
close CATH info
]
Pfam Domains
(1, 1)
Info
all PFAM domains
1a: PFAM_NTR_1uapA01 (A:42-146)
View:
Select:
Label:
Clans
(
)
(
)
Families
(
)
(
)
Organisms
(
)
(
)
Clan
:
TIMP-like
(15)
Family
:
NTR
(13)
Homo sapiens (Human)
(13)
1a
NTR-1uapA01
A:42-146
[
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
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 (666 KB)
Header - Asym.Unit
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
1UAP
Jmol Script Commands
|
Jmol Color Schemes
|
Jmol Mouse Manual
|
Jmol Wiki
controls:
collapse
expand
Home
JenaLib
Jmol Scripting
Contact
Help
