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.
1S4B
Asym. Unit
Info
Asym.Unit (121 KB)
Biol.Unit 1 (117 KB)
(using Jmol or JSmol)
spin
show selected part
auto zoom/center
Standard Views
(
Basic
|
Advanced
Interface
)
(
Basic
|
Advanced
Interface
)
Help
(1)
Title
:
CRYSTAL STRUCTURE OF HUMAN THIMET OLIGOPEPTIDASE.
Authors
:
K. Ray, C. S. Hines, J. Coll-Rodriguez, D. W. Rodgers
Date
:
15 Jan 04 (Deposition) - 20 Jul 04 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.00
Chains
:
Asym. Unit : P
Biol. Unit 1: P (1x)
Keywords
:
Zinc Metallopeptidase Domain, Hydrolase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
K. Ray, C. S. Hines, J. Coll-Rodriguez, D. W. Rodgers
Crystal Structure Of Human Thimet Oligopeptidase Provides Insight Into Substrate Recognition, Regulation, And Localization
J. Biol. Chem. V. 279 20480 2004
(for further references see the
PDB file header
)
[
close entry info
]
Hetero Components
(1, 1)
Info
All Hetero Components
1a: ZINC ION (ZNa)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
ZN
1
Ligand/Ion
ZINC ION
[
close Hetero Component info
]
Sites
(1, 1)
Info
All Sites
1: AC1 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
HIS P:473 , HIS P:477 , GLU P:502 , HOH P:1163
BINDING SITE FOR RESIDUE ZN P 1
[
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
(1, 1)
Info
All PROSITE Patterns/Profiles
1: ZINC_PROTEASE (P:470-479)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
ZINC_PROTEASE
PS00142
Neutral zinc metallopeptidases, zinc-binding region signature.
THOP1_HUMAN
470-479
1
P:470-479
[
close PROSITE info
]
Exons
(12, 12)
Info
All Exons
Exon 1.2 (P:24-77)
Exon 1.3 (P:77-126)
Exon 1.4 (P:127-162)
Exon 1.5 (P:163-197)
Exon 1.6 (P:197-250)
Exon 1.7 (P:251-296)
Exon 1.8 (P:296-418)
Exon 1.9 (P:418-485)
Exon 1.10 (P:486-548)
Exon 1.11 (P:548-591)
Exon 1.12 (P:591-636)
Exon 1.14 (P:637-677)
View:
Select:
Label:
All Exon Boundaries
01: Boundary 1.1/1.2
02: Boundary 1.2/1.3
03: Boundary 1.3/1.4
04: Boundary 1.4/1.5
05: Boundary 1.5/1.6
06: Boundary 1.6/1.7
07: Boundary 1.7/1.8
08: Boundary 1.8/1.9
09: Boundary 1.9/1.10
10: Boundary 1.10/1.11
11: Boundary 1.11/1.12
12: Boundary 1.12/1.14
13: Boundary 1.14/-
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
1.1
ENST00000307741
1
ENSE00002182071
chr19:
2785506-2785676
171
THOP1_HUMAN
1-6
6
0
-
-
1.2
ENST00000307741
2
ENSE00001661850
chr19:
2790419-2790631
213
THOP1_HUMAN
6-77
72
1
P:24-77
54
1.3
ENST00000307741
3
ENSE00001735216
chr19:
2794762-2794910
149
THOP1_HUMAN
77-126
50
1
P:77-126
50
1.4
ENST00000307741
4
ENSE00001642298
chr19:
2796079-2796186
108
THOP1_HUMAN
127-162
36
1
P:127-162
36
1.5
ENST00000307741
5
ENSE00001630635
chr19:
2799687-2799789
103
THOP1_HUMAN
163-197
35
1
P:163-197
35
1.6
ENST00000307741
6
ENSE00001652222
chr19:
2805014-2805174
161
THOP1_HUMAN
197-250
54
1
P:197-250
54
1.7
ENST00000307741
7
ENSE00001774446
chr19:
2806915-2807050
136
THOP1_HUMAN
251-296
46
1
P:251-296
46
1.8
ENST00000307741
8
ENSE00001630589
chr19:
2807440-2807806
367
THOP1_HUMAN
296-418
123
1
P:296-418
123
1.9
ENST00000307741
9
ENSE00001703895
chr19:
2808241-2808442
202
THOP1_HUMAN
418-485
68
1
P:418-485
68
1.10
ENST00000307741
10
ENSE00001800280
chr19:
2810302-2810488
187
THOP1_HUMAN
486-548
63
1
P:486-548
63
1.11
ENST00000307741
11
ENSE00001149905
chr19:
2810638-2810766
129
THOP1_HUMAN
548-591
44
1
P:548-591
44
1.12
ENST00000307741
12
ENSE00001149898
chr19:
2811596-2811732
137
THOP1_HUMAN
591-636
46
1
P:591-636
46
1.14
ENST00000307741
14
ENSE00001149940
chr19:
2813113-2813588
476
THOP1_HUMAN
637-689
53
1
P:637-677
41
[
close EXON info
]
SCOP Domains
(1, 1)
Info
All SCOP Domains
1a: SCOP_d1s4bp_ (P:)
View:
Select:
Label:
Classes
(
)
(
)
Folds
(
)
(
)
Superfamilies
(
)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha and beta proteins (a+b)
(23004)
Fold
:
Zincin-like
(701)
Superfamily
:
Metalloproteases (zincins), catalytic domain
(647)
Family
:
Neurolysin-like
(55)
Protein domain
:
Neurolysin (endopeptidase 24.16, thimet oligopeptidase)
(3)
Human (Homo sapiens) [TaxId: 9606]
(2)
1a
d1s4bp_
P:
[
close SCOP info
]
CATH Domains
(3, 3)
Info
all CATH domains
1a: CATH_1s4bP03 (P:361-511)
2a: CATH_1s4bP02 (P:152-360,P:512-677)
3a: CATH_1s4bP01 (P:24-151)
View:
Select:
Label:
Classes
(
)
(
)
Architectures
(
)
(
)
Topologies
(
)
(
)
Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
3-Layer(aba) Sandwich
(12045)
Topology
:
Collagenase (Catalytic Domain)
(236)
Homologous Superfamily
:
Collagenase (Catalytic Domain)
(234)
Human (Homo sapiens)
(153)
1a
1s4bP03
P:361-511
Class
:
Mainly Alpha
(13335)
Architecture
:
Orthogonal Bundle
(10391)
Topology
:
Neurolysin; domain 3
(4)
Homologous Superfamily
:
Neurolysin, domain 3
(4)
Human (Homo sapiens)
(2)
2a
1s4bP02
P:152-360,P:512-677
Architecture
:
Up-down Bundle
(3216)
Topology
:
Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2
(267)
Homologous Superfamily
:
Endopeptidase. Chain P; domain 1
(4)
Human (Homo sapiens)
(2)
3a
1s4bP01
P:24-151
[
close CATH info
]
Pfam Domains
(1, 1)
Info
all PFAM domains
1a: PFAM_Peptidase_M3_1s4bP01 (P:227-677)
View:
Select:
Label:
Clans
(
)
(
)
Families
(
)
(
)
Organisms
(
)
(
)
Clan
:
Peptidase_MA
(251)
Family
:
Peptidase_M3
(2)
Homo sapiens (Human)
(1)
1a
Peptidase_M3-1s4bP01
P:227-677
[
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 P
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 (121 KB)
Header - Asym.Unit
Biol.Unit 1 (117 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
1S4B
Jmol Script Commands
|
Jmol Color Schemes
|
Jmol Mouse Manual
|
Jmol Wiki
controls:
collapse
expand
Home
JenaLib
Jmol Scripting
Contact
Help