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.
2F8J
Asym. Unit
Info
Asym.Unit (230 KB)
Biol.Unit 1 (114 KB)
Biol.Unit 2 (111 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 HISTIDINOL-PHOSPHATE AMINOTRANSFERASE (EC 2.6.1.9) (IMIDAZOLE ACETOL-PHOSPHATE TRANSFERASE) (TM1040) FROM THERMOTOGA MARITIMA AT 2.40 A RESOLUTION
Authors
:
Joint Center For Structural Genomics (Jcsg)
Date
:
02 Dec 05 (Deposition) - 21 Feb 06 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.40
Chains
:
Asym. Unit : A,B,C,D
Biol. Unit 1: A,B (1x)
Biol. Unit 2: C,D (1x)
Keywords
:
Tm1040, Histidinol-Phosphate Aminotransferase (Ec 2. 6. 1. 9) (Imidazole Acetol-Phosphate Transferase, Structural Genomics, Psi, Protein Structure Initiative, Joint Center For Structural Genomics, Jcsg, Transferase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
Joint Center For Structural Genomics (Jcsg)
Crystal Structure Of Histidinol-Phosphate Aminotransferase (Ec 2. 6. 1. 9) (Imidazole Acetol-Phosphate Transferase) (Tm1040) From Thermotoga Maritima At 2. 40 A Resolution
To Be Published
[
close entry info
]
Hetero Components
(2, 17)
Info
All Hetero Components
1a: 1,2-ETHANEDIOL (EDOa)
1b: 1,2-ETHANEDIOL (EDOb)
1c: 1,2-ETHANEDIOL (EDOc)
1d: 1,2-ETHANEDIOL (EDOd)
1e: 1,2-ETHANEDIOL (EDOe)
1f: 1,2-ETHANEDIOL (EDOf)
1g: 1,2-ETHANEDIOL (EDOg)
1h: 1,2-ETHANEDIOL (EDOh)
1i: 1,2-ETHANEDIOL (EDOi)
1j: 1,2-ETHANEDIOL (EDOj)
1k: 1,2-ETHANEDIOL (EDOk)
1l: 1,2-ETHANEDIOL (EDOl)
1m: 1,2-ETHANEDIOL (EDOm)
2a: 4'-DEOXY-4'-AMINOPYRIDOXAL-5'-PHOS... (PMPa)
2b: 4'-DEOXY-4'-AMINOPYRIDOXAL-5'-PHOS... (PMPb)
2c: 4'-DEOXY-4'-AMINOPYRIDOXAL-5'-PHOS... (PMPc)
2d: 4'-DEOXY-4'-AMINOPYRIDOXAL-5'-PHOS... (PMPd)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
EDO
13
Ligand/Ion
1,2-ETHANEDIOL
2
PMP
4
Ligand/Ion
4'-DEOXY-4'-AMINOPYRIDOXAL-5'-PHOSPHATE
[
close Hetero Component info
]
Sites
(17, 17)
Info
All Sites
01: AC1 (SOFTWARE)
02: AC2 (SOFTWARE)
03: AC3 (SOFTWARE)
04: AC4 (SOFTWARE)
05: AC5 (SOFTWARE)
06: AC6 (SOFTWARE)
07: AC7 (SOFTWARE)
08: AC8 (SOFTWARE)
09: AC9 (SOFTWARE)
10: BC1 (SOFTWARE)
11: BC2 (SOFTWARE)
12: BC3 (SOFTWARE)
13: BC4 (SOFTWARE)
14: BC5 (SOFTWARE)
15: BC6 (SOFTWARE)
16: BC7 (SOFTWARE)
17: BC8 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
GLY A:84 , ALA A:85 , ASP A:86 , TYR A:106 , ASN A:149 , ASP A:173 , TYR A:176 , THR A:199 , SER A:201 , LYS A:202 , ARG A:210 , HOH A:567 , TYR B:53
BINDING SITE FOR RESIDUE PMP A 500
02
AC2
SOFTWARE
TYR A:53 , GLY B:84 , ALA B:85 , ASP B:86 , TYR B:106 , ASN B:149 , ASP B:173 , ALA B:175 , TYR B:176 , THR B:199 , SER B:201 , LYS B:202 , ARG B:210
BINDING SITE FOR RESIDUE PMP B 500
03
AC3
SOFTWARE
GLY C:84 , ALA C:85 , ASP C:86 , TYR C:106 , ASN C:149 , ASP C:173 , ALA C:175 , TYR C:176 , THR C:199 , SER C:201 , LYS C:202 , ARG C:210 , TYR D:53
BINDING SITE FOR RESIDUE PMP C 500
04
AC4
SOFTWARE
TYR C:53 , LEU D:26 , GLY D:84 , ALA D:85 , ASP D:86 , TYR D:106 , ASN D:149 , ASP D:173 , ALA D:175 , TYR D:176 , THR D:199 , SER D:201 , LYS D:202
BINDING SITE FOR RESIDUE PMP D 500
05
AC5
SOFTWARE
GLU A:218
BINDING SITE FOR RESIDUE EDO A 501
06
AC6
SOFTWARE
GLU C:294 , LEU C:297 , GLU C:298 , ARG C:301 , HOH C:597
BINDING SITE FOR RESIDUE EDO C 501
07
AC7
SOFTWARE
THR A:302 , ARG C:43 , ARG C:44 , LEU C:45 , HOH C:584
BINDING SITE FOR RESIDUE EDO C 502
08
AC8
SOFTWARE
GLU C:87 , TYR C:90 , LEU C:229 , GLU D:87 , TYR D:90 , VAL D:91 , LEU D:229
BINDING SITE FOR RESIDUE EDO D 501
09
AC9
SOFTWARE
LYS B:76 , ASN B:77 , VAL B:79 , SER B:80 , ILE B:221 , ASN B:225
BINDING SITE FOR RESIDUE EDO B 501
10
BC1
SOFTWARE
ARG B:130 , ILE B:131 , GLU B:133
BINDING SITE FOR RESIDUE EDO B 502
11
BC2
SOFTWARE
ARG A:51 , TYR B:23 , GLU B:323
BINDING SITE FOR RESIDUE EDO B 503
12
BC3
SOFTWARE
LYS B:64 , SER B:67 , TYR B:68 , LEU B:245 , ASP B:246 , ARG B:248
BINDING SITE FOR RESIDUE EDO B 504
13
BC4
SOFTWARE
TYR C:68 , PHE C:251 , THR C:255
BINDING SITE FOR RESIDUE EDO C 503
14
BC5
SOFTWARE
TYR D:68 , ALA D:175 , TYR D:177 , GLU D:178
BINDING SITE FOR RESIDUE EDO D 502
15
BC6
SOFTWARE
TYR B:68 , GLU B:178 , PHE B:204 , PHE B:251 , GLU B:252 , THR B:255 , HOH B:564
BINDING SITE FOR RESIDUE EDO B 505
16
BC7
SOFTWARE
ARG A:275 , GLU A:289 , HOH A:593
BINDING SITE FOR RESIDUE EDO A 502
17
BC8
SOFTWARE
ARG A:262 , GLU A:263 , ARG A:280
BINDING SITE FOR RESIDUE EDO A 503
[
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, 4)
Info
All PROSITE Patterns/Profiles
1: AA_TRANSFER_CLASS_2 (A:199-208,B:199-208,C:199-208,D:19...)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
AA_TRANSFER_CLASS_2
PS00599
Aminotransferases class-II pyridoxal-phosphate attachment site.
HIS8_THEMA
199-208
4
A:199-208
B:199-208
C:199-208
D:199-208
[
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
(1, 4)
Info
All SCOP Domains
1a: SCOP_d2f8ja_ (A:)
1b: SCOP_d2f8jb_ (B:)
1c: SCOP_d2f8jc_ (C:)
1d: SCOP_d2f8jd_ (D:)
View:
Select:
Label:
Classes
(
)
(
)
Folds
(
)
(
)
Superfamilies
(
)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
PLP-dependent transferase-like
(627)
Superfamily
:
PLP-dependent transferases
(625)
Family
:
AAT-like
(184)
Protein domain
:
Histidinol-phosphate aminotransferase HisC
(11)
Thermotoga maritima [TaxId: 2336]
(5)
1a
d2f8ja_
A:
1b
d2f8jb_
B:
1c
d2f8jc_
C:
1d
d2f8jd_
D:
[
close SCOP info
]
CATH Domains
(2, 8)
Info
all CATH domains
1a: CATH_2f8jA02 (A:44-246)
1b: CATH_2f8jB02 (B:44-246)
1c: CATH_2f8jC02 (C:44-246)
1d: CATH_2f8jD02 (D:44-246)
2a: CATH_2f8jA01 (A:0-43,A:247-334)
2b: CATH_2f8jC01 (C:1-43,C:247-335)
2c: CATH_2f8jB01 (B:2-43,B:247-334)
2d: CATH_2f8jD01 (D:2-43,D:247-334)
View:
Select:
Label:
Classes
(
)
(
)
Architectures
(
)
(
)
Topologies
(
)
(
)
Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
3-Layer(aba) Sandwich
(12045)
Topology
:
Aspartate Aminotransferase; domain 2
(384)
Homologous Superfamily
:
Type I PLP-dependent aspartate aminotransferase-like (Major domain)
(384)
Thermotoga maritima. Organism_taxid: 2336.
(4)
1a
2f8jA02
A:44-246
1b
2f8jB02
B:44-246
1c
2f8jC02
C:44-246
1d
2f8jD02
D:44-246
Architecture
:
Alpha-Beta Complex
(3881)
Topology
:
Aspartate Aminotransferase, domain 1
(355)
Homologous Superfamily
:
Aspartate Aminotransferase, domain 1
(354)
Thermotoga maritima. Organism_taxid: 2336.
(4)
2a
2f8jA01
A:0-43,A:247-334
2b
2f8jC01
C:1-43,C:247-335
2c
2f8jB01
B:2-43,B:247-334
2d
2f8jD01
D:2-43,D:247-334
[
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
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 (230 KB)
Header - Asym.Unit
Biol.Unit 1 (114 KB)
Header - Biol.Unit 1
Biol.Unit 2 (111 KB)
Header - Biol.Unit 2
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
2F8J
Jmol Script Commands
|
Jmol Color Schemes
|
Jmol Mouse Manual
|
Jmol Wiki
controls:
collapse
expand
Home
JenaLib
Jmol Scripting
Contact
Help