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.
1XZO
Biol. Unit 2
Info
Asym.Unit (74 KB)
Biol.Unit 1 (34 KB)
Biol.Unit 2 (34 KB)
Biol.Unit 3 (127 KB)
Biol.Unit 4 (65 KB)
(using Jmol or JSmol)
spin
show selected part
auto zoom/center
Standard Views
(
Basic
|
Advanced
Interface
)
(
Basic
|
Advanced
Interface
)
Help
(1)
Title
:
IDENTIFICATION OF A DISULFIDE SWITCH IN BSSCO, A MEMBER OF THE SCO FAMILY OF CYTOCHROME C OXIDASE ASSEMBLY PROTEINS
Authors
:
Q. Ye, I. Imriskova-Sosova, B. C. Hill, Z. Jia, Montreal-Kingston Bac Structural Genomics Initiative (Bsgi)
Date
:
12 Nov 04 (Deposition) - 01 Mar 05 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.70
Chains
:
Asym. Unit : A,B
Biol. Unit 1: A (1x)
Biol. Unit 2: B (1x)
Biol. Unit 3: A,B (2x)
Biol. Unit 4: A,B (1x)
Keywords
:
Thioredoxin-Like Fold, Structural Genomics, Montreal-Kingston Bacterial Structural Genomics Initiative, Bsgi, Metal Binding Protein
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
Q. Ye, I. Imriskova-Sosova, B. C. Hill, Z. Jia
Identification Of A Disulfide Switch In Bssco, A Member Of The Sco Family Of Cytochrome C Oxidase Assembly Proteins
Biochemistry V. 44 2934 2005
[
close entry info
]
Hetero Components
(0, 0)
Info
All Hetero Components
1a: CALCIUM ION (CAa)
1b: CALCIUM ION (CAb)
1c: CALCIUM ION (CAc)
1d: CALCIUM ION (CAd)
1e: CALCIUM ION (CAe)
1f: CALCIUM ION (CAf)
1g: CALCIUM ION (CAg)
1h: CALCIUM ION (CAh)
1i: CALCIUM ION (CAi)
1j: CALCIUM ION (CAj)
1k: CALCIUM ION (CAk)
1l: CALCIUM ION (CAl)
1m: CALCIUM ION (CAm)
1n: CALCIUM ION (CAn)
2a: CADMIUM ION (CDa)
2b: CADMIUM ION (CDb)
2c: CADMIUM ION (CDc)
2d: CADMIUM ION (CDd)
2e: CADMIUM ION (CDe)
View:
Select:
Label:
Sorry, no Info available
[
close Hetero component info
]
Sites
(15, 15)
Info
All Sites
01: AC1 (SOFTWARE)
02: AC2 (SOFTWARE)
03: AC3 (SOFTWARE)
04: AC6 (SOFTWARE)
05: AC7 (SOFTWARE)
06: AC8 (SOFTWARE)
07: AC9 (SOFTWARE)
08: BC1 (SOFTWARE)
09: BC2 (SOFTWARE)
10: BC3 (SOFTWARE)
11: BC4 (SOFTWARE)
12: BC7 (SOFTWARE)
13: BC8 (SOFTWARE)
14: BC9 (SOFTWARE)
15: CC1 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
ASP A:161 , HIS B:55 , CA B:1011 , HOH B:1036 , HOH B:1203
BINDING SITE FOR RESIDUE CD B 1000
02
AC2
SOFTWARE
HIS A:55 , CA A:1015 , HOH A:1035 , HOH A:1186 , ASP B:161
BINDING SITE FOR RESIDUE CD A 1001
03
AC3
SOFTWARE
GLU A:14 , GLU B:114 , HOH B:1208 , HOH B:1215
BINDING SITE FOR RESIDUE CD A 1002
04
AC6
SOFTWARE
THR A:17 , CA A:1010 , HOH A:1044 , HOH A:1073 , HOH A:1162 , THR B:17 , HOH B:1020 , HOH B:1039
BINDING SITE FOR RESIDUE CA A 1005
05
AC7
SOFTWARE
HOH A:1033 , HOH A:1138 , GLU B:29 , HOH B:1153 , HOH B:1214
BINDING SITE FOR RESIDUE CA B 1006
06
AC8
SOFTWARE
ASP B:58 , HOH B:1089 , HOH B:1107 , HOH B:1122 , HOH B:1138
BINDING SITE FOR RESIDUE CA B 1007
07
AC9
SOFTWARE
GLU A:29 , HOH A:1187 , HOH B:1025
BINDING SITE FOR RESIDUE CA A 1008
08
BC1
SOFTWARE
ASP A:58 , HOH A:1058 , HOH A:1079 , HOH B:1219
BINDING SITE FOR RESIDUE CA A 1009
09
BC2
SOFTWARE
THR A:17 , GLY A:106 , CA A:1005 , HOH A:1073 , HOH A:1162 , THR B:17
BINDING SITE FOR RESIDUE CA A 1010
10
BC3
SOFTWARE
LYS A:62 , ASP A:161 , HOH A:1080 , HIS B:55 , TYR B:160 , CD B:1000
BINDING SITE FOR RESIDUE CA B 1011
11
BC4
SOFTWARE
SER A:108 , PHE B:16 , LEU B:28 , GLU B:29 , HOH B:1102
BINDING SITE FOR RESIDUE CA B 1012
12
BC7
SOFTWARE
HIS A:55 , TYR A:160 , CD A:1001 , HOH A:1064 , LYS B:62 , ASP B:161
BINDING SITE FOR RESIDUE CA A 1015
13
BC8
SOFTWARE
PRO A:15 , PHE A:16 , GLU A:29 , HOH A:1123 , SER B:108 , HOH B:1022
BINDING SITE FOR RESIDUE CA A 1016
14
BC9
SOFTWARE
ASP B:151 , HOH B:1181
BINDING SITE FOR RESIDUE CA B 1017
15
CC1
SOFTWARE
ASP B:162 , ASP B:166 , HOH B:1100
BINDING SITE FOR RESIDUE CA B 1018
[
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
(1, 1)
Info
All PROSITE Patterns/Profiles
1: THIOREDOXIN_2 (B:7-172)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
THIOREDOXIN_2
PS51352
Thioredoxin domain profile.
SCO1_BACSU
26-191
1
-
B:7-172
[
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
(1, 2)
Info
All SCOP Domains
1a: SCOP_d1xzoa1 (A:3-174)
1b: SCOP_d1xzob_ (B:)
View:
Select:
Label:
Classes
(
)
(
)
Folds
(
)
(
)
Superfamilies
(
)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
Thioredoxin fold
(994)
Superfamily
:
Thioredoxin-like
(992)
Family
:
Glutathione peroxidase-like
(136)
Protein domain
:
Thioredoxin-like protein Sco1 (YpmQ), soluble domain
(6)
Bacillus subtilis [TaxId: 1423]
(2)
1a
d1xzoa1
A:3-174
1b
d1xzob_
B:
[
close SCOP info
]
CATH Domains
(0, 0)
Info
all CATH domains
View:
Select:
Label:
Sorry, no Info available
[
close CATH info
]
Pfam Domains
(1, 2)
Info
all PFAM domains
1a: PFAM_SCO1_SenC_1xzoB01 (B:3-155)
1b: PFAM_SCO1_SenC_1xzoB02 (B:3-155)
View:
Select:
Label:
Clans
(
)
(
)
Families
(
)
(
)
Organisms
(
)
(
)
Clan
:
Thioredoxin
(367)
Family
:
SCO1-SenC
(7)
Bacillus subtilis
(2)
1a
SCO1-SenC-1xzoB01
B:3-155
1b
SCO1-SenC-1xzoB02
B:3-155
[
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 (74 KB)
Header - Asym.Unit
Biol.Unit 1 (34 KB)
Header - Biol.Unit 1
Biol.Unit 2 (34 KB)
Header - Biol.Unit 2
Biol.Unit 3 (127 KB)
Header - Biol.Unit 3
Biol.Unit 4 (65 KB)
Header - Biol.Unit 4
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
1XZO
Jmol Script Commands
|
Jmol Color Schemes
|
Jmol Mouse Manual
|
Jmol Wiki
controls:
collapse
expand
Home
JenaLib
Jmol Scripting
Contact
Help
