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.
4TZH
Biol. Unit 2
Info
Asym.Unit (147 KB)
Biol.Unit 1 (73 KB)
Biol.Unit 2 (72 KB)
(using Jmol or JSmol)
spin
show selected part
auto zoom/center
Standard Views
(
Basic
|
Advanced
Interface
)
(
Basic
|
Advanced
Interface
)
Help
(1)
Title
:
STRUCTURE OF LEPTOSPIRA INTERROGANS LRR PROTEIN LIC12234
Authors
:
W. Shepard, F. A. Saul, A. Haouz, M. Picardeau
Date
:
10 Jul 14 (Deposition) - 03 Jun 15 (Release) - 17 Jun 15 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.39
Chains
:
Asym. Unit : A,B
Biol. Unit 1: A (1x)
Biol. Unit 2: B (1x)
Keywords
:
Lrr Protein, Pathogen, Virulence Factor, Unknown Function
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
I. Miras, F. Saul, M. Nowakowski, P. Weber, A. Haouz, W. Shepard, M. Picardeau
Structural Characterization Of A Novel Subfamily Of Leucine-Rich Repeat Proteins From The Human Pathogen Leptospira Interrogans.
Acta Crystallogr. , Sect. D V. 71 1351 2015
[
close entry info
]
Hetero Components
(1, 2)
Info
All Hetero Components
1a: ACETATE ION (ACTa)
1b: ACETATE ION (ACTb)
1c: ACETATE ION (ACTc)
1d: ACETATE ION (ACTd)
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: ZINC ION (ZNa)
3b: ZINC ION (ZNb)
3c: ZINC ION (ZNc)
3d: ZINC ION (ZNd)
3e: ZINC ION (ZNe)
3f: ZINC ION (ZNf)
3g: ZINC ION (ZNg)
3h: ZINC ION (ZNh)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
ACT
2
Ligand/Ion
ACETATE ION
2
CL
-1
Ligand/Ion
CHLORIDE ION
3
ZN
-1
Ligand/Ion
ZINC ION
[
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: AC8 (SOFTWARE)
08: AC9 (SOFTWARE)
09: AD1 (SOFTWARE)
10: AD2 (SOFTWARE)
11: AD3 (SOFTWARE)
12: AD4 (SOFTWARE)
13: AD5 (SOFTWARE)
14: AD6 (SOFTWARE)
15: AD7 (SOFTWARE)
16: AD8 (SOFTWARE)
17: AD9 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
HIS A:71 , ASP A:94 , CL A:306 , GLU B:212
binding site for residue ZN A 301
02
AC2
SOFTWARE
HIS A:31 , GLU A:43 , ACT A:308 , HOH A:433 , ASP B:36
binding site for residue ZN A 302
03
AC3
SOFTWARE
LYS A:91 , GLU A:114 , HOH A:455 , GLU B:208
binding site for residue ZN A 303
04
AC4
SOFTWARE
GLU A:82 , GLU A:106 , GLU B:82 , GLU B:106
binding site for residue ZN A 304
05
AC5
SOFTWARE
GLU A:208 , LYS B:91 , GLU B:114
binding site for residue ZN A 305
06
AC6
SOFTWARE
SER A:50 , HIS A:71 , ASP A:94 , ZN A:301 , HOH A:564 , GLU B:212
binding site for residue CL A 306
07
AC8
SOFTWARE
HIS A:31 , ZN A:302 , HOH A:433 , HOH A:614 , ASN B:33 , ASP B:36
binding site for residue ACT A 308
08
AC9
SOFTWARE
GLU A:212 , HIS B:71 , ASP B:94 , CL B:404
binding site for residue ZN A 309
09
AD1
SOFTWARE
SER A:69 , HIS A:71 , ARG B:201 , THR B:210 , ILE B:211 , HOH B:657
binding site for residue CL B 401
10
AD2
SOFTWARE
GLU A:43 , HOH A:411 , HIS B:31 , HOH B:511
binding site for residue ZN B 402
11
AD3
SOFTWARE
THR A:210 , HOH A:628 , SER B:69 , HIS B:71
binding site for residue CL B 403
12
AD4
SOFTWARE
GLU A:212 , ZN A:309 , HOH A:633 , SER B:50 , HIS B:71 , ARG B:73 , ASP B:94
binding site for residue CL B 404
13
AD5
SOFTWARE
LYS A:59 , HOH A:430 , LYS B:105 , PRO B:127 , GLU B:128
binding site for residue ACT B 405
14
AD6
SOFTWARE
GLU B:132 , CL B:407 , CL B:408
binding site for residue ZN B 406
15
AD7
SOFTWARE
GLU B:132 , ZN B:406 , CL B:408
binding site for residue CL B 407
16
AD8
SOFTWARE
GLU B:132 , GLN B:155 , ZN B:406 , CL B:407
binding site for residue CL B 408
17
AD9
SOFTWARE
GLU B:114 , HOH B:551 , HOH B:672
binding site for residue ACT B 409
[
close Site info
]
SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are only available for the asymmetric unit)
All SNPs/Variants
View:
Select:
Label:
Sorry, no Info available
[
close SNP/Variant info
]
PROSITE Patterns/Profiles
(, 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.
(no "Exon" information available for biological units yet)
SCOP Domains
(0, 0)
Info
All SCOP Domains
View:
Select:
Label:
Sorry, no Info available
[
close SCOP info
]
CATH Domains
(0, 0)
Info
all CATH domains
View:
Select:
Label:
Sorry, no Info available
[
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 B
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 (147 KB)
Header - Asym.Unit
Biol.Unit 1 (73 KB)
Header - Biol.Unit 1
Biol.Unit 2 (72 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
4TZH
Jmol Script Commands
|
Jmol Color Schemes
|
Jmol Mouse Manual
|
Jmol Wiki
controls:
collapse
expand
Home
JenaLib
Jmol Scripting
Contact
Help
