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.
1NC7
Asym. Unit
Info
Asym.Unit (97 KB)
Biol.Unit 1 (89 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 THERMOTOGA MARITIMA 1070
Authors
:
Y. Kim, A. Joachimiak, A. Edwards, T. Skarina, A. Savchenko, Midwest Center For Structural Genomics (Mcsg)
Date
:
04 Dec 02 (Deposition) - 01 Jul 03 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.55
Chains
:
Asym. Unit : A,B,C,D
Biol. Unit 1: A,B,C,D (1x)
Keywords
:
Structural Genomics, Hypothetical Protein, Molecular Propeller, Psi, Protein Structure Initiative, Midwest Center For Structural Genomics, Mcsg, Unknown Function
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
Y. Kim, A. Joachimiak, A. Edwards, T. Skarina, A. Savchenko
Crystal Structure Analysis Of Thermotoga Maritima Hypothetical Protein Tm1070
To Be Published
(for further references see the
PDB file header
)
[
close entry info
]
Hetero Components
(5, 37)
Info
All Hetero Components
1a: CHLORIDE ION (CLa)
1b: CHLORIDE ION (CLb)
2a: 1,2-ETHANEDIOL (EDOa)
2b: 1,2-ETHANEDIOL (EDOb)
2c: 1,2-ETHANEDIOL (EDOc)
3a: FORMIC ACID (FMTa)
3b: FORMIC ACID (FMTb)
3c: FORMIC ACID (FMTc)
3d: FORMIC ACID (FMTd)
4a: MAGNESIUM ION (MGa)
4b: MAGNESIUM ION (MGb)
4c: MAGNESIUM ION (MGc)
4d: MAGNESIUM ION (MGd)
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)
5p: SELENOMETHIONINE (MSEp)
5q: SELENOMETHIONINE (MSEq)
5r: SELENOMETHIONINE (MSEr)
5s: SELENOMETHIONINE (MSEs)
5t: SELENOMETHIONINE (MSEt)
5u: SELENOMETHIONINE (MSEu)
5v: SELENOMETHIONINE (MSEv)
5w: SELENOMETHIONINE (MSEw)
5x: SELENOMETHIONINE (MSEx)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
CL
2
Ligand/Ion
CHLORIDE ION
2
EDO
3
Ligand/Ion
1,2-ETHANEDIOL
3
FMT
4
Ligand/Ion
FORMIC ACID
4
MG
4
Ligand/Ion
MAGNESIUM ION
5
MSE
24
Mod. Amino Acid
SELENOMETHIONINE
[
close Hetero Component info
]
Sites
(13, 13)
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)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
THR A:107 , MG A:1501 , THR B:107 , THR C:107 , THR D:107
BINDING SITE FOR RESIDUE CL A 1401
02
AC2
SOFTWARE
THR A:107 , THR A:108 , MG A:1501 , THR B:107 , THR B:108 , THR C:107 , THR C:108 , THR D:107 , THR D:108
BINDING SITE FOR RESIDUE CL D 1402
03
AC3
SOFTWARE
THR A:107 , CL A:1401 , THR B:107 , THR C:107 , THR D:107 , CL D:1402
BINDING SITE FOR RESIDUE MG A 1501
04
AC4
SOFTWARE
LEU A:105 , LEU B:105 , LEU C:105 , LEU D:105
BINDING SITE FOR RESIDUE MG A 1502
05
AC5
SOFTWARE
TYR A:103 , MG A:1504 , TYR B:103 , HOH B:1354 , TYR C:103 , HOH C:1367 , TYR D:103
BINDING SITE FOR RESIDUE MG A 1503
06
AC6
SOFTWARE
THR A:104 , MG A:1503 , THR B:104 , THR C:104 , THR D:104
BINDING SITE FOR RESIDUE MG A 1504
07
AC7
SOFTWARE
HIS C:25 , SER C:27 , SER C:94 , ASP D:11 , ARG D:95 , HOH D:1479 , HOH D:1503
BINDING SITE FOR RESIDUE EDO D 1301
08
AC8
SOFTWARE
HIS A:25 , SER A:27 , SER A:94 , ASP B:11 , ARG B:95 , HOH B:1380
BINDING SITE FOR RESIDUE EDO B 1302
09
AC9
SOFTWARE
ASN A:2 , THR A:33 , HOH A:1587 , MSE B:82 , GLU B:84
BINDING SITE FOR RESIDUE EDO A 1303
10
BC1
SOFTWARE
ASN A:101 , ARG D:19 , HIS D:102 , TYR D:103 , HOH D:1464 , HOH D:1514
BINDING SITE FOR RESIDUE FMT D 1304
11
BC2
SOFTWARE
MSE C:1 , ASN C:32 , GLY C:34 , ASP C:35 , GLU C:36 , VAL C:87 , HOH C:1399
BINDING SITE FOR RESIDUE FMT C 1305
12
BC3
SOFTWARE
MSE D:1 , ASN D:86 , VAL D:87 , HOH D:1432 , HOH D:1517
BINDING SITE FOR RESIDUE FMT D 1306
13
BC4
SOFTWARE
ARG A:5 , GLU A:114 , TYR C:21
BINDING SITE FOR RESIDUE FMT A 1307
[
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
(0, 0)
Info
All PROSITE Patterns/Profiles
;
View:
Select:
Label:
End label:
Sorry, no Info available
[
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_d1nc7a_ (A:)
1b: SCOP_d1nc7b_ (B:)
1c: SCOP_d1nc7c_ (C:)
1d: SCOP_d1nc7d_ (D:)
View:
Select:
Label:
Classes
(
)
(
)
Folds
(
)
(
)
Superfamilies
(
)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
All beta proteins
(24004)
Fold
:
Hypothetical protein TM1070
(5)
Superfamily
:
Hypothetical protein TM1070
(5)
Family
:
Hypothetical protein TM1070
(1)
Protein domain
:
Hypothetical protein TM1070
(1)
Thermotoga maritima [TaxId: 2336]
(1)
1a
d1nc7a_
A:
1b
d1nc7b_
B:
1c
d1nc7c_
C:
1d
d1nc7d_
D:
[
close SCOP info
]
CATH Domains
(1, 4)
Info
all CATH domains
1a: CATH_1nc7A00 (A:0-115)
1b: CATH_1nc7B00 (B:2-116)
1c: CATH_1nc7C00 (C:2-116)
1d: CATH_1nc7D00 (D:0-116)
View:
Select:
Label:
Classes
(
)
(
)
Architectures
(
)
(
)
Topologies
(
)
(
)
Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Mainly Beta
(13760)
Architecture
:
Sandwich
(5577)
Topology
:
Hypothetical Protein Tm1070; Chain: A
(1)
Homologous Superfamily
:
[code=2.60.290.11, no name defined]
(1)
Thermotoga maritima. Organism_taxid: 2336.
(1)
1a
1nc7A00
A:0-115
1b
1nc7B00
B:2-116
1c
1nc7C00
C:2-116
1d
1nc7D00
D:0-116
[
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 (97 KB)
Header - Asym.Unit
Biol.Unit 1 (89 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
1NC7
Jmol Script Commands
|
Jmol Color Schemes
|
Jmol Mouse Manual
|
Jmol Wiki
controls:
collapse
expand
Home
JenaLib
Jmol Scripting
Contact
Help
