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.
2FFH
Biol. Unit 2
Info
Asym.Unit (200 KB)
Biol.Unit 1 (67 KB)
Biol.Unit 10 (130 KB)
Biol.Unit 2 (67 KB)
Biol.Unit 3 (67 KB)
Biol.Unit 4 (570 KB)
Biol.Unit 5 (381 KB)
Biol.Unit 6 (383 KB)
Biol.Unit 7 (193 KB)
Biol.Unit 8 (130 KB)
Biol.Unit 9 (130 KB)
(using Jmol or JSmol)
spin
show selected part
auto zoom/center
Standard Views
(
Basic
|
Advanced
Interface
)
(
Basic
|
Advanced
Interface
)
Help
(1)
Title
:
THE SIGNAL SEQUENCE BINDING PROTEIN FFH FROM THERMUS AQUATICUS
Authors
:
R. J. Keenan, D. M. Freymann, P. Walter, R. M. Stroud
Date
:
29 Jun 99 (Deposition) - 16 Jul 99 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
3.20
Chains
:
Asym. Unit : A,B,C
Biol. Unit 1: A (1x)
Biol. Unit 2: B (1x)
Biol. Unit 3: C (1x)
Biol. Unit 4: A,B,C (3x)
Biol. Unit 5: A,B,C (2x)
Biol. Unit 6: A,B,C (2x)
Biol. Unit 7: A,B,C (1x)
Biol. Unit 8: C (2x)
Biol. Unit 9: A,B (1x)
Biol. Unit 10: B,C (1x)
Keywords
:
Ffh, Srp54, Signal Recognition Particle, Gtpase, M Domain, Rna-Binding, Signal Sequence-Binding, Helix-Turn-Helix, Protein Targeting, Protein Transport
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
R. J. Keenan, D. M. Freymann, P. Walter, R. M. Stroud
Crystal Structure Of The Signal Sequence Binding Subunit Of The Signal Recognition Particle.
Cell(Cambridge, Mass. ) V. 94 181 1998
(for further references see the
PDB file header
)
[
close entry info
]
Hetero Components
(1, 1)
Info
All Hetero Components
1a: CADMIUM ION (CDa)
1b: CADMIUM ION (CDb)
1c: CADMIUM ION (CDc)
1d: CADMIUM ION (CDd)
1e: CADMIUM ION (CDe)
1f: CADMIUM ION (CDf)
1g: CADMIUM ION (CDg)
1h: CADMIUM ION (CDh)
1i: CADMIUM ION (CDi)
1j: CADMIUM ION (CDj)
1k: CADMIUM ION (CDk)
1l: CADMIUM ION (CDl)
1m: CADMIUM ION (CDm)
1n: CADMIUM ION (CDn)
1o: CADMIUM ION (CDo)
1p: CADMIUM ION (CDp)
2a: SULFATE ION (SO4a)
2b: SULFATE ION (SO4b)
2c: SULFATE ION (SO4c)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
CD
-1
Ligand/Ion
CADMIUM ION
2
SO4
1
Ligand/Ion
SULFATE ION
[
close Hetero Component info
]
Sites
(9, 9)
Info
All Sites
1: AC6 (SOFTWARE)
2: AC7 (SOFTWARE)
3: AC8 (SOFTWARE)
4: AC9 (SOFTWARE)
5: BC1 (SOFTWARE)
6: BC2 (SOFTWARE)
7: BC7 (SOFTWARE)
8: BC8 (SOFTWARE)
9: BC9 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
1
AC6
SOFTWARE
GLY A:108 , SER A:109 , GLY A:110 , LYS A:111 , THR A:112 , GLY B:293 , GLY B:295
BINDING SITE FOR RESIDUE SO4 A 750
2
AC7
SOFTWARE
MET B:1 , ASP B:296
BINDING SITE FOR RESIDUE CD B 701
3
AC8
SOFTWARE
GLU B:225 , GLU B:323
BINDING SITE FOR RESIDUE CD B 702
4
AC9
SOFTWARE
HIS B:261
BINDING SITE FOR RESIDUE CD B 703
5
BC1
SOFTWARE
GLU B:280
BINDING SITE FOR RESIDUE CD B 704
6
BC2
SOFTWARE
GLY B:108 , SER B:109 , GLY B:110 , LYS B:111 , THR B:112 , THR B:113 , GLY C:295
BINDING SITE FOR RESIDUE SO4 B 760
7
BC7
SOFTWARE
ARG B:169 , ASP C:50 , GLU C:84
BINDING SITE FOR RESIDUE CD C 705
8
BC8
SOFTWARE
GLU B:174 , GLU C:89
BINDING SITE FOR RESIDUE CD C 706
9
BC9
SOFTWARE
GLU B:207
BINDING SITE FOR RESIDUE CD C 707
[
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: SRP54 (B:266-279)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
SRP54
PS00300
SRP54-type proteins GTP-binding domain signature.
SRP54_THEAQ
266-279
1
-
B:266-279
-
[
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
(3, 9)
Info
All SCOP Domains
1a: SCOP_d2ffha1 (A:1-88)
1b: SCOP_d2ffhb1 (B:1-88)
1c: SCOP_d2ffhc1 (C:1-88)
2a: SCOP_d2ffha2 (A:319-418)
2b: SCOP_d2ffhb2 (B:319-418)
2c: SCOP_d2ffhc2 (C:319-418)
3a: SCOP_d2ffha3 (A:89-307)
3b: SCOP_d2ffhb3 (B:89-307)
3c: SCOP_d2ffhc3 (C:89-307)
View:
Select:
Label:
Classes
(
)
(
)
Folds
(
)
(
)
Superfamilies
(
)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
All alpha proteins
(14657)
Fold
:
Four-helical up-and-down bundle
(308)
Superfamily
:
Domain of the SRP/SRP receptor G-proteins
(34)
Family
:
Domain of the SRP/SRP receptor G-proteins
(29)
Protein domain
:
Signal sequence recognition protein Ffh
(21)
Thermus aquaticus [TaxId: 271]
(17)
1a
d2ffha1
A:1-88
1b
d2ffhb1
B:1-88
1c
d2ffhc1
C:1-88
Fold
:
Signal peptide-binding domain
(20)
Superfamily
:
Signal peptide-binding domain
(20)
Family
:
Signal peptide-binding domain
(20)
Protein domain
:
Signal sequence binding protein Ffh
(17)
Thermus aquaticus [TaxId: 271]
(1)
2a
d2ffha2
A:319-418
2b
d2ffhb2
B:319-418
2c
d2ffhc2
C:319-418
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
P-loop containing nucleoside triphosphate hydrolases
(2083)
Superfamily
:
P-loop containing nucleoside triphosphate hydrolases
(2083)
Family
:
Nitrogenase iron protein-like
(152)
Protein domain
:
GTPase domain of the signal sequence recognition protein Ffh
(21)
Thermus aquaticus [TaxId: 271]
(17)
3a
d2ffha3
A:89-307
3b
d2ffhb3
B:89-307
3c
d2ffhc3
C:89-307
[
close SCOP info
]
CATH Domains
(1, 3)
Info
all CATH domains
1a: CATH_2ffhA02 (A:90-282)
1b: CATH_2ffhB02 (B:90-282)
1c: CATH_2ffhC02 (C:90-282)
View:
Select:
Label:
Classes
(
)
(
)
Architectures
(
)
(
)
Topologies
(
)
(
)
Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
3-Layer(aba) Sandwich
(12045)
Topology
:
Rossmann fold
(7312)
Homologous Superfamily
:
P-loop containing nucleotide triphosphate hydrolases
(1378)
Thermus aquaticus. Organism_taxid: 271.
(14)
1a
2ffhA02
A:90-282
1b
2ffhB02
B:90-282
1c
2ffhC02
C:90-282
[
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 (200 KB)
Header - Asym.Unit
Biol.Unit 1 (67 KB)
Header - Biol.Unit 1
Biol.Unit 10 (130 KB)
Header - Biol.Unit 10
Biol.Unit 2 (67 KB)
Header - Biol.Unit 2
Biol.Unit 3 (67 KB)
Header - Biol.Unit 3
Biol.Unit 4 (570 KB)
Header - Biol.Unit 4
Biol.Unit 5 (381 KB)
Header - Biol.Unit 5
Biol.Unit 6 (383 KB)
Header - Biol.Unit 6
Biol.Unit 7 (193 KB)
Header - Biol.Unit 7
Biol.Unit 8 (130 KB)
Header - Biol.Unit 8
Biol.Unit 9 (130 KB)
Header - Biol.Unit 9
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
2FFH
Jmol Script Commands
|
Jmol Color Schemes
|
Jmol Mouse Manual
|
Jmol Wiki
controls:
collapse
expand
Home
JenaLib
Jmol Scripting
Contact
Help
