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.
3CJ8
Asym. Unit
Info
Asym.Unit (117 KB)
Biol.Unit 1 (109 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 2,3,4,5-TETRAHYDROPYRIDINE-2-CARBOXYLATE N-SUCCINYLTRANSFERASE FROM ENTEROCOCCUS FAECALIS V583
Authors
:
K. Tan, L. Bigelow, S. Clancy, A. Joachimiak, Midwest Center For Str Genomics (Mcsg)
Date
:
12 Mar 08 (Deposition) - 25 Mar 08 (Release) - 22 Feb 12 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.95
Chains
:
Asym. Unit : A,B,C
Biol. Unit 1: A,B,C (1x)
Keywords
:
Apc86892, 2, 3, 4, 5-Tetrahydropyridine-2-Carboxylate N- Succinyltransferase, Enterococcus Faecalis V583, Structural Genomics, Psi-2, Protein Structure Initiative, Midwest Center For Structural Genomics, Mcsg, Transferase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
K. Tan, L. Bigelow, S. Clancy, A. Joachimiak
The Crystal Structure Of 2, 3, 4, 5-Tetrahydropyridine-2-Carboxylate N-Succinyltransferase From Enterococcus Faecalis V583.
To Be Published
[
close entry info
]
Hetero Components
(6, 31)
Info
All Hetero Components
1a: ACETATE ION (ACTa)
2a: CHLORIDE ION (CLa)
2b: CHLORIDE ION (CLb)
2c: CHLORIDE ION (CLc)
2d: CHLORIDE ION (CLd)
2e: CHLORIDE ION (CLe)
2f: CHLORIDE ION (CLf)
3a: FORMIC ACID (FMTa)
3b: FORMIC ACID (FMTb)
3c: FORMIC ACID (FMTc)
3d: FORMIC ACID (FMTd)
3e: FORMIC ACID (FMTe)
3f: FORMIC ACID (FMTf)
3g: FORMIC ACID (FMTg)
4a: MAGNESIUM ION (MGa)
5a: SELENOMETHIONINE (MSEa)
5b: SELENOMETHIONINE (MSEb)
5c: SELENOMETHIONINE (MSEc)
5d: SELENOMETHIONINE (MSEd)
5e: SELENOMETHIONINE (MSEe)
5f: SELENOMETHIONINE (MSEf)
5g: SELENOMETHIONINE (MSEg)
5h: SELENOMETHIONINE (MSEh)
5i: SELENOMETHIONINE (MSEi)
5j: SELENOMETHIONINE (MSEj)
5k: SELENOMETHIONINE (MSEk)
5l: SELENOMETHIONINE (MSEl)
5m: SELENOMETHIONINE (MSEm)
5n: SELENOMETHIONINE (MSEn)
5o: SELENOMETHIONINE (MSEo)
6a: DI(HYDROXYETHYL)ETHER (PEGa)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
ACT
1
Ligand/Ion
ACETATE ION
2
CL
6
Ligand/Ion
CHLORIDE ION
3
FMT
7
Ligand/Ion
FORMIC ACID
4
MG
1
Ligand/Ion
MAGNESIUM ION
5
MSE
15
Mod. Amino Acid
SELENOMETHIONINE
6
PEG
1
Ligand/Ion
DI(HYDROXYETHYL)ETHER
[
close Hetero Component info
]
Sites
(13, 13)
Info
All Sites
01: AC2 (SOFTWARE)
02: AC3 (SOFTWARE)
03: AC4 (SOFTWARE)
04: AC5 (SOFTWARE)
05: AC6 (SOFTWARE)
06: AC7 (SOFTWARE)
07: AC8 (SOFTWARE)
08: AC9 (SOFTWARE)
09: BC1 (SOFTWARE)
10: BC2 (SOFTWARE)
11: BC3 (SOFTWARE)
12: BC4 (SOFTWARE)
13: BC5 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC2
SOFTWARE
ASN B:116 , GLY B:135 , GLY B:153
BINDING SITE FOR RESIDUE CL B 302
02
AC3
SOFTWARE
ASN C:116 , GLY C:134 , GLY C:135 , GLY C:153
BINDING SITE FOR RESIDUE CL C 303
03
AC4
SOFTWARE
ASN A:116 , GLY A:135 , GLY A:153
BINDING SITE FOR RESIDUE CL A 304
04
AC5
SOFTWARE
ARG B:98 , ARG C:90
BINDING SITE FOR RESIDUE CL B 305
05
AC6
SOFTWARE
ARG A:90 , ARG C:98
BINDING SITE FOR RESIDUE CL C 306
06
AC7
SOFTWARE
ARG A:98 , ARG B:90
BINDING SITE FOR RESIDUE CL A 307
07
AC8
SOFTWARE
GLY A:192 , GLY B:192 , GLY C:192
BINDING SITE FOR RESIDUE ACT A 316
08
AC9
SOFTWARE
LEU A:82 , GLU A:102 , ILE A:103
BINDING SITE FOR RESIDUE FMT A 308
09
BC1
SOFTWARE
LEU A:178 , ALA B:190 , ALA B:191
BINDING SITE FOR RESIDUE FMT B 309
10
BC2
SOFTWARE
LEU C:82 , ILE C:87 , ILE C:103
BINDING SITE FOR RESIDUE FMT C 310
11
BC3
SOFTWARE
ALA A:191 , ALA A:206
BINDING SITE FOR RESIDUE FMT A 311
12
BC4
SOFTWARE
GLU B:71 , ASN B:72
BINDING SITE FOR RESIDUE FMT B 312
13
BC5
SOFTWARE
ALA C:190 , ALA C:191 , ALA C:193 , ALA C:206 , GLY C:207
BINDING SITE FOR RESIDUE PEG C 315
[
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, 3)
Info
All PROSITE Patterns/Profiles
1: HEXAPEP_TRANSFERASES (A:171-199,B:171-199,C:171-199)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
HEXAPEP_TRANSFERASES
PS00101
Hexapeptide-repeat containing-transferases signature.
DAPH_ENTFA
171-199
3
A:171-199
B:171-199
C:171-199
[
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
(3, 9)
Info
all CATH domains
1a: CATH_3cj8B02 (B:14-79)
1b: CATH_3cj8C02 (C:14-79)
1c: CATH_3cj8A02 (A:14-78)
2a: CATH_3cj8B01 (B:-1-13)
2b: CATH_3cj8C01 (C:-1-13)
2c: CATH_3cj8A01 (A:0-13)
3a: CATH_3cj8A03 (A:79-218)
3b: CATH_3cj8C03 (C:80-217)
3c: CATH_3cj8B03 (B:80-216)
View:
Select:
Label:
Classes
(
)
(
)
Architectures
(
)
(
)
Topologies
(
)
(
)
Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
2-Layer Sandwich
(8480)
Topology
:
Alpha-Beta Plaits
(1688)
Homologous Superfamily
:
[code=3.30.70.250, no name defined]
(15)
Enterococcus faecalis v583. Organism_taxid: 226185. Strain: v583.
(1)
1a
3cj8B02
B:14-79
1b
3cj8C02
C:14-79
1c
3cj8A02
A:14-78
Class
:
Few Secondary Structures
(1120)
Architecture
:
Irregular
(1120)
Topology
:
Black beetle virus capsid protein
(7)
Homologous Superfamily
:
[code=4.10.180.10, no name defined]
(4)
Enterococcus faecalis v583. Organism_taxid: 226185. Strain: v583.
(1)
2a
3cj8B01
B:-1-13
2b
3cj8C01
C:-1-13
2c
3cj8A01
A:0-13
Class
:
Mainly Beta
(13760)
Architecture
:
3 Solenoid
(196)
Topology
:
UDP N-Acetylglucosamine Acyltransferase; domain 1
(90)
Homologous Superfamily
:
Hexapeptide repeat proteins
(85)
Enterococcus faecalis v583. Organism_taxid: 226185. Strain: v583.
(1)
3a
3cj8A03
A:79-218
3b
3cj8C03
C:80-217
3c
3cj8B03
B:80-216
[
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
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 (117 KB)
Header - Asym.Unit
Biol.Unit 1 (109 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
3CJ8
Jmol Script Commands
|
Jmol Color Schemes
|
Jmol Mouse Manual
|
Jmol Wiki
controls:
collapse
expand
Home
JenaLib
Jmol Scripting
Contact
Help