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.
1O6G
Asym. Unit
Info
Asym.Unit (141 KB)
Biol.Unit 1 (138 KB)
(using Jmol or JSmol)
spin
show selected part
auto zoom/center
Standard Views
(
Basic
|
Advanced
Interface
)
(
Basic
|
Advanced
Interface
)
Help
(1)
Title
:
PROLYL OLIGOPEPTIDASE FROM PORCINE BRAIN, D641N MUTANT WITH BOUND PEPTIDE LIGAND SUC-GLY-PRO
Authors
:
D. Rea, V. Fulop
Date
:
15 Sep 02 (Deposition) - 18 Nov 02 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.40
Chains
:
Asym. Unit : A
Biol. Unit 1: A (1x)
Keywords
:
Hydrolase, Prolyl Oligopeptidase, Amnesia, Alpha/ Beta- Hydrolase, Beta-Propeller
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
Z. Szeltner, D. Rea, T. Juhasz, V. Renner, Z. Mucsi, G. Orosz, V. Fulop, L. Polgar
Substrate-Dependent Competency Of The Catalytic Triad Of Prolyl Oligopeptidase
J. Biol. Chem. V. 277 44597 2002
(for further references see the
PDB file header
)
[
close entry info
]
Hetero Components
(3, 3)
Info
All Hetero Components
1a: GLYCINE (GLYa)
2a: PROLINE (PROa)
3a: SUCCINIC ACID (SINa)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
GLY
1
Mod. Amino Acid
GLYCINE
2
PRO
1
Mod. Amino Acid
PROLINE
3
SIN
1
Ligand/Ion
SUCCINIC ACID
[
close Hetero Component info
]
Sites
(3, 3)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
3: AC3 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
CYS A:255 , ILE A:591 , TRP A:595 , GLY A:725
BINDING SITE FOR RESIDUE SIN A 724
2
AC2
SOFTWARE
ARG A:643 , SIN A:724 , PRO A:726
BINDING SITE FOR RESIDUE GLY A 725
3
AC3
SOFTWARE
TYR A:473 , PHE A:476 , SER A:554 , ASN A:555 , TRP A:595 , HIS A:680 , GLY A:725
BINDING SITE FOR RESIDUE PRO A 726
[
close Site info
]
SAPs(SNPs)/Variants
(1, 1)
Info
(mutated residues are not available)
All SNPs/Variants
1: VAR_PPCE_PIG_001 (A29H, chain A, )
View:
Select:
Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
1
UniProt
VAR_PPCE_PIG_001
*
A
29
H
PPCE_PIG
---
---
A
A
29
H
* ID not provided by source
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
[
close SNP/Variant info
]
PROSITE Patterns/Profiles
(1, 1)
Info
All PROSITE Patterns/Profiles
1: PRO_ENDOPEP_SER (A:529-559)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
PRO_ENDOPEP_SER
PS00708
Prolyl endopeptidase family serine active site.
PPCE_PIG
529-559
1
A:529-559
[
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
(2, 2)
Info
All SCOP Domains
1a: SCOP_d1o6ga1 (A:1-430)
2a: SCOP_d1o6ga2 (A:431-710)
View:
Select:
Label:
Classes
(
)
(
)
Folds
(
)
(
)
Superfamilies
(
)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
All beta proteins
(24004)
Fold
:
7-bladed beta-propeller
(245)
Superfamily
:
Peptidase/esterase 'gauge' domain
(47)
Family
:
Prolyl oligopeptidase, N-terminal domain
(29)
Protein domain
:
Prolyl oligopeptidase, N-terminal domain
(27)
Pig (Sus scrofa) [TaxId: 9823]
(27)
1a
d1o6ga1
A:1-430
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
alpha/beta-Hydrolases
(971)
Superfamily
:
alpha/beta-Hydrolases
(971)
Family
:
Prolyl oligopeptidase, C-terminal domain
(28)
Protein domain
:
Prolyl oligopeptidase, C-terminal domain
(27)
Pig (Sus scrofa) [TaxId: 9823]
(27)
2a
d1o6ga2
A:431-710
[
close SCOP info
]
CATH Domains
(2, 2)
Info
all CATH domains
1a: CATH_1o6gA01 (A:1-73,A:427-710)
2a: CATH_1o6gA02 (A:74-426)
View:
Select:
Label:
Classes
(
)
(
)
Architectures
(
)
(
)
Topologies
(
)
(
)
Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
3-Layer(aba) Sandwich
(12045)
Topology
:
Rossmann fold
(7312)
Homologous Superfamily
:
[code=3.40.50.1820, no name defined]
(692)
[unclassified]
(7)
1a
1o6gA01
A:1-73,A:427-710
Class
:
Mainly Beta
(13760)
Architecture
:
7 Propellor
(136)
Topology
:
Methylamine Dehydrogenase; Chain H
(136)
Homologous Superfamily
:
Prolyl oligopeptidase, N-terminal domain
(21)
[unclassified]
(6)
2a
1o6gA02
A:74-426
[
close CATH info
]
Pfam Domains
(2, 2)
Info
all PFAM domains
1a: PFAM_Peptidase_S9_1o6gA01 (A:482-707)
2a: PFAM_Peptidase_S9_N_1o6gA02 (A:7-423)
View:
Select:
Label:
Clans
(
)
(
)
Families
(
)
(
)
Organisms
(
)
(
)
Clan
:
AB_hydrolase
(347)
Family
:
Peptidase_S9
(57)
Sus scrofa (Pig)
(11)
1a
Peptidase_S9-1o6gA01
A:482-707
Clan
:
Beta_propeller
(192)
Family
:
Peptidase_S9_N
(11)
Sus scrofa (Pig)
(9)
2a
Peptidase_S9_N-1o6gA02
A:7-423
[
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 (141 KB)
Header - Asym.Unit
Biol.Unit 1 (138 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
1O6G
Jmol Script Commands
|
Jmol Color Schemes
|
Jmol Mouse Manual
|
Jmol Wiki
controls:
collapse
expand
Home
JenaLib
Jmol Scripting
Contact
Help
