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.
1NBE
Asym. Unit
Info
Asym.Unit (164 KB)
Biol.Unit 1 (466 KB)
(using Jmol or JSmol)
spin
show selected part
auto zoom/center
Standard Views
(
Basic
|
Advanced
Interface
)
(
Basic
|
Advanced
Interface
)
Help
(1)
Title
:
ASPARTATE TRANSCARBAMOYLASE REGULATORY CHAIN MUTANT (T82A)
Authors
:
M. K. Williams, B. Stec, E. R. Kantrowitz
Date
:
25 Apr 98 (Deposition) - 14 Oct 98 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.60
Chains
:
Asym. Unit : A,B,C,D
Biol. Unit 1: A,B,C,D (3x)
Keywords
:
Atcase, Allostery, Pyrimidine Biosynthesis, Transferase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
M. K. Williams, B. Stec, E. R. Kantrowitz
A Single Mutation In The Regulatory Chain Of Escherichia Coli Aspartate Transcarbamoylase Results In An Extreme T-State Structure.
J. Mol. Biol. V. 281 121 1998
(for further references see the
PDB file header
)
[
close entry info
]
Hetero Components
(2, 6)
Info
All Hetero Components
1a: MALATE ION (MLTa)
1b: MALATE ION (MLTb)
1c: MALATE ION (MLTc)
1d: MALATE ION (MLTd)
2a: ZINC ION (ZNa)
2b: ZINC ION (ZNb)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
MLT
4
Ligand/Ion
MALATE ION
2
ZN
2
Ligand/Ion
ZINC ION
[
close Hetero Component info
]
Sites
(6, 6)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
3: AC3 (SOFTWARE)
4: AC4 (SOFTWARE)
5: AC5 (SOFTWARE)
6: AC6 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
CYS B:109 , CYS B:114 , CYS B:138 , CYS B:141
BINDING SITE FOR RESIDUE ZN B 154
2
AC2
SOFTWARE
CYS D:109 , CYS D:114 , CYS D:138 , CYS D:141
BINDING SITE FOR RESIDUE ZN D 154
3
AC3
SOFTWARE
ARG A:54 , THR A:55 , ARG A:105 , HIS A:134 , ARG A:167 , PRO A:266 , LEU A:267 , HOH A:385
BINDING SITE FOR RESIDUE MLT A 311
4
AC4
SOFTWARE
GLN A:231 , ARG A:234 , HOH A:452 , HOH A:457
BINDING SITE FOR RESIDUE MLT A 312
5
AC5
SOFTWARE
SER C:52 , THR C:55 , ARG C:105 , HIS C:134 , GLN C:137 , ARG C:167 , HOH C:321 , HOH C:434 , HOH C:504
BINDING SITE FOR RESIDUE MLT C 311
6
AC6
SOFTWARE
ASP C:162 , TYR C:165 , GLN C:231 , ARG C:234 , HOH C:341 , HOH C:343 , HOH C:435 , HOH C:476 , HOH C:485 , HOH C:516 , HOH C:523
BINDING SITE FOR RESIDUE MLT C 312
[
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, 2)
Info
All PROSITE Patterns/Profiles
1: CARBAMOYLTRANSFERASE (A:48-55,C:48-55)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
CARBAMOYLTRANSFERASE
PS00097
Aspartate and ornithine carbamoyltransferases signature.
PYRB_ECOLI
49-56
2
A:48-55
C:48-55
[
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
(3, 8)
Info
All SCOP Domains
1a: SCOP_d1nbeb1 (B:1-100)
1b: SCOP_d1nbed1 (D:1-100)
2a: SCOP_d1nbea1 (A:1-150)
2b: SCOP_d1nbea2 (A:151-310)
2c: SCOP_d1nbec1 (C:1-150)
2d: SCOP_d1nbec2 (C:151-310)
3a: SCOP_d1nbeb2 (B:101-153)
3b: SCOP_d1nbed2 (D:101-153)
View:
Select:
Label:
Classes
(
)
(
)
Folds
(
)
(
)
Superfamilies
(
)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha and beta proteins (a+b)
(23004)
Fold
:
Ferredoxin-like
(1795)
Superfamily
:
Aspartate carbamoyltransferase, Regulatory-chain, N-terminal domain
(63)
Family
:
Aspartate carbamoyltransferase, Regulatory-chain, N-terminal domain
(62)
Protein domain
:
Aspartate carbamoyltransferase
(62)
Escherichia coli [TaxId: 562]
(59)
1a
d1nbeb1
B:1-100
1b
d1nbed1
D:1-100
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
ATC-like
(129)
Superfamily
:
Aspartate/ornithine carbamoyltransferase
(122)
Family
:
Aspartate/ornithine carbamoyltransferase
(87)
Protein domain
:
Aspartate carbamoyltransferase catalytic subunit
(68)
Escherichia coli [TaxId: 562]
(62)
2a
d1nbea1
A:1-150
2b
d1nbea2
A:151-310
2c
d1nbec1
C:1-150
2d
d1nbec2
C:151-310
Class
:
Small proteins
(3458)
Fold
:
Rubredoxin-like
(572)
Superfamily
:
Aspartate carbamoyltransferase, Regulatory-chain, C-terminal domain
(63)
Family
:
Aspartate carbamoyltransferase, Regulatory-chain, C-terminal domain
(62)
Protein domain
:
Aspartate carbamoyltransferase, Regulatory-chain, C-terminal domain
(62)
Escherichia coli [TaxId: 562]
(59)
3a
d1nbeb2
B:101-153
3b
d1nbed2
D:101-153
[
close SCOP info
]
CATH Domains
(3, 8)
Info
all CATH domains
1a: CATH_1nbeB01 (B:8-100)
1b: CATH_1nbeD01 (D:8-100)
2a: CATH_1nbeA02 (A:134-291)
2b: CATH_1nbeA01 (A:1-133,A:292-310)
2c: CATH_1nbeC01 (C:1-133,C:292-310)
2d: CATH_1nbeC02 (C:134-291)
3a: CATH_1nbeB02 (B:101-153)
3b: CATH_1nbeD02 (D:101-153)
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=3.30.70.140, no name defined]
(53)
Escherichia coli. Organism_taxid: 562.
(21)
1a
1nbeB01
B:8-100
1b
1nbeD01
D:8-100
Architecture
:
3-Layer(aba) Sandwich
(12045)
Topology
:
Rossmann fold
(7312)
Homologous Superfamily
:
[code=3.40.50.1370, no name defined]
(91)
Escherichia coli. Organism_taxid: 562.
(22)
2a
1nbeA02
A:134-291
2b
1nbeA01
A:1-133,A:292-310
2c
1nbeC01
C:1-133,C:292-310
2d
1nbeC02
C:134-291
Class
:
Mainly Beta
(13760)
Architecture
:
Roll
(1513)
Topology
:
SH3 type barrels.
(648)
Homologous Superfamily
:
[code=2.30.30.20, no name defined]
(53)
Escherichia coli. Organism_taxid: 562.
(21)
3a
1nbeB02
B:101-153
3b
1nbeD02
D:101-153
[
close CATH info
]
Pfam Domains
(4, 8)
Info
all PFAM domains
1a: PFAM_OTCace_1nbeC01 (C:153C-303)
1b: PFAM_OTCace_1nbeC02 (C:153C-303)
2a: PFAM_OTCace_N_1nbeC03 (C:7-148)
2b: PFAM_OTCace_N_1nbeC04 (C:7-148)
3a: PFAM_PyrI_1nbeD01 (D:4-99)
3b: PFAM_PyrI_1nbeD02 (D:4-99)
4a: PFAM_PyrI_C_1nbeD03 (D:101-152)
4b: PFAM_PyrI_C_1nbeD04 (D:101-152)
View:
Select:
Label:
Clans
(
)
(
)
Families
(
)
(
)
Organisms
(
)
(
)
Clan
:
no clan defined [family: OTCace]
(48)
Family
:
OTCace
(48)
Escherichia coli (strain K12)
(21)
1a
OTCace-1nbeC01
C:153C-303
1b
OTCace-1nbeC02
C:153C-303
Clan
:
no clan defined [family: OTCace_N]
(48)
Family
:
OTCace_N
(48)
Escherichia coli (strain K12)
(21)
2a
OTCace_N-1nbeC03
C:7-148
2b
OTCace_N-1nbeC04
C:7-148
Clan
:
no clan defined [family: PyrI]
(22)
Family
:
PyrI
(22)
Escherichia coli (strain K12)
(19)
3a
PyrI-1nbeD01
D:4-99
3b
PyrI-1nbeD02
D:4-99
Clan
:
no clan defined [family: PyrI_C]
(22)
Family
:
PyrI_C
(22)
Escherichia coli (strain K12)
(19)
4a
PyrI_C-1nbeD03
D:101-152
4b
PyrI_C-1nbeD04
D:101-152
[
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 (164 KB)
Header - Asym.Unit
Biol.Unit 1 (466 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
1NBE
Jmol Script Commands
|
Jmol Color Schemes
|
Jmol Mouse Manual
|
Jmol Wiki
controls:
collapse
expand
Home
JenaLib
Jmol Scripting
Contact
Help