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.
1OFG
Biol. Unit 1
Info
Asym.Unit (380 KB)
Biol.Unit 1 (251 KB)
Biol.Unit 2 (252 KB)
(using Jmol or JSmol)
spin
show selected part
auto zoom/center
Standard Views
(
Basic
|
Advanced
Interface
)
(
Basic
|
Advanced
Interface
)
Help
(1)
Title
:
GLUCOSE-FRUCTOSE OXIDOREDUCTASE
Authors
:
R. L. Kingston, R. K. Scopes, E. N. Baker
Date
:
17 Oct 96 (Deposition) - 21 Apr 97 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.70
Chains
:
Asym. Unit : A,B,C,D,E,F
Biol. Unit 1: A,B,C,D (1x)
Biol. Unit 2: E,F (2x)
Keywords
:
Nadp Binding, Osmotic Protection, Oxidoreductase, Periplasm
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
R. L. Kingston, R. K. Scopes, E. N. Baker
The Structure Of Glucose-Fructose Oxidoreductase From Zymomonas Mobilis: An Osmoprotective Periplasmic Enzyme Containing Non-Dissociable Nadp.
Structure V. 4 1413 1996
(for further references see the
PDB file header
)
[
close entry info
]
Hetero Components
(1, 4)
Info
All Hetero Components
1a: NADPH DIHYDRO-NICOTINAMIDE-ADENINE... (NDPa)
1b: NADPH DIHYDRO-NICOTINAMIDE-ADENINE... (NDPb)
1c: NADPH DIHYDRO-NICOTINAMIDE-ADENINE... (NDPc)
1d: NADPH DIHYDRO-NICOTINAMIDE-ADENINE... (NDPd)
1e: NADPH DIHYDRO-NICOTINAMIDE-ADENINE... (NDPe)
1f: NADPH DIHYDRO-NICOTINAMIDE-ADENINE... (NDPf)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
NDP
4
Ligand/Ion
NADPH DIHYDRO-NICOTINAMIDE-ADENINE-DINUCLEOTIDEPHOSPHATE
[
close Hetero Component info
]
Sites
(4, 4)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
3: AC3 (SOFTWARE)
4: AC4 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
GLY A:38 , LEU A:39 , GLY A:40 , LYS A:41 , TYR A:42 , SER A:64 , GLY A:65 , LYS A:69 , TYR A:87 , ILE A:105 , LEU A:106 , PRO A:107 , ASN A:108 , LEU A:110 , HIS A:111 , GLU A:128 , LYS A:129 , GLY A:155 , ARG A:157 , ALA A:196 , TRP A:199 , ARG A:200 , TYR A:217 , TYR A:296 , HOH A:501 , HOH A:505 , HOH A:514 , HOH A:517 , HOH A:522 , HOH A:546 , HOH A:598 , HOH A:599 , VAL D:10 , PRO D:11 , THR D:13 , PRO D:14 , ALA D:15 , GLY D:16 , ARG D:17
BINDING SITE FOR RESIDUE NDP A 500
2
AC2
SOFTWARE
GLY B:38 , LEU B:39 , GLY B:40 , LYS B:41 , TYR B:42 , SER B:64 , GLY B:65 , LYS B:69 , TYR B:87 , ILE B:105 , LEU B:106 , PRO B:107 , ASN B:108 , LEU B:110 , HIS B:111 , GLU B:128 , LYS B:129 , GLY B:155 , ARG B:157 , ALA B:196 , TRP B:199 , ARG B:200 , TYR B:217 , TYR B:296 , HOH B:508 , HOH B:513 , HOH B:521 , HOH B:524 , HOH B:529 , HOH B:554 , HOH B:606 , HOH B:607 , VAL C:10 , PRO C:11 , THR C:13 , PRO C:14 , ALA C:15 , GLY C:16 , ARG C:17
BINDING SITE FOR RESIDUE NDP B 500
3
AC3
SOFTWARE
VAL B:10 , PRO B:11 , THR B:13 , PRO B:14 , ALA B:15 , GLY B:16 , ARG B:17 , GLY C:38 , LEU C:39 , GLY C:40 , LYS C:41 , TYR C:42 , SER C:64 , GLY C:65 , LYS C:69 , TYR C:87 , ILE C:105 , LEU C:106 , PRO C:107 , ASN C:108 , LEU C:110 , HIS C:111 , GLU C:128 , LYS C:129 , GLY C:155 , ARG C:157 , ALA C:196 , TRP C:199 , ARG C:200 , TYR C:217 , TYR C:296 , HOH C:518 , HOH C:523 , HOH C:531 , HOH C:534 , HOH C:539 , HOH C:564 , HOH C:615 , HOH C:616
BINDING SITE FOR RESIDUE NDP C 500
4
AC4
SOFTWARE
VAL A:10 , PRO A:11 , THR A:13 , PRO A:14 , ALA A:15 , GLY A:16 , ARG A:17 , GLY D:38 , LEU D:39 , GLY D:40 , LYS D:41 , TYR D:42 , SER D:64 , GLY D:65 , LYS D:69 , TYR D:87 , ILE D:105 , LEU D:106 , PRO D:107 , ASN D:108 , LEU D:110 , HIS D:111 , GLU D:128 , LYS D:129 , GLY D:155 , ARG D:157 , ALA D:196 , TRP D:199 , ARG D:200 , TYR D:217 , TYR D:296 , HOH D:526 , HOH D:530 , HOH D:539 , HOH D:542 , HOH D:547 , HOH D:571 , HOH D:622 , HOH D:623
BINDING SITE FOR RESIDUE NDP D 500
[
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
(2, 12)
Info
All SCOP Domains
1a: SCOP_d1ofga2 (A:161-322)
1b: SCOP_d1ofgb2 (B:161-322)
1c: SCOP_d1ofgc2 (C:161-322)
1d: SCOP_d1ofgd2 (D:161-322)
1e: SCOP_d1ofge2 (E:161-322)
1f: SCOP_d1ofgf2 (F:161-322)
2a: SCOP_d1ofga1 (A:1-160,A:323-381)
2b: SCOP_d1ofgb1 (B:1-160,B:323-381)
2c: SCOP_d1ofgc1 (C:1-160,C:323-381)
2d: SCOP_d1ofgd1 (D:1-160,D:323-381)
2e: SCOP_d1ofge1 (E:1-160,E:323-381)
2f: SCOP_d1ofgf1 (F:1-160,F:323-381)
View:
Select:
Label:
Classes
(
)
(
)
Folds
(
)
(
)
Superfamilies
(
)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha and beta proteins (a+b)
(23004)
Fold
:
FwdE/GAPDH domain-like
(188)
Superfamily
:
Glyceraldehyde-3-phosphate dehydrogenase-like, C-terminal domain
(179)
Family
:
Glucose 6-phosphate dehydrogenase-like
(25)
Protein domain
:
Glucose-fructose oxidoreductase
(8)
Zymomonas mobilis [TaxId: 542]
(8)
1a
d1ofga2
A:161-322
1b
d1ofgb2
B:161-322
1c
d1ofgc2
C:161-322
1d
d1ofgd2
D:161-322
1e
d1ofge2
E:161-322
1f
d1ofgf2
F:161-322
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
NAD(P)-binding Rossmann-fold domains
(1604)
Superfamily
:
NAD(P)-binding Rossmann-fold domains
(1604)
Family
:
Glyceraldehyde-3-phosphate dehydrogenase-like, N-terminal domain
(179)
Protein domain
:
Glucose-fructose oxidoreductase, N-terminal domain
(8)
Zymomonas mobilis [TaxId: 542]
(8)
2a
d1ofga1
A:1-160,A:323-381
2b
d1ofgb1
B:1-160,B:323-381
2c
d1ofgc1
C:1-160,C:323-381
2d
d1ofgd1
D:1-160,D:323-381
2e
d1ofge1
E:1-160,E:323-381
2f
d1ofgf1
F:1-160,F:323-381
[
close SCOP info
]
CATH Domains
(2, 12)
Info
all CATH domains
1a: CATH_1ofgA02 (A:161-314,A:346-381)
1b: CATH_1ofgB02 (B:161-314,B:346-381)
1c: CATH_1ofgC02 (C:161-314,C:346-381)
1d: CATH_1ofgD02 (D:161-314,D:346-381)
1e: CATH_1ofgE02 (E:161-314,E:346-381)
1f: CATH_1ofgF02 (F:161-314,F:346-381)
2a: CATH_1ofgA01 (A:22-160,A:315-345)
2b: CATH_1ofgB01 (B:22-160,B:315-345)
2c: CATH_1ofgC01 (C:22-160,C:315-345)
2d: CATH_1ofgD01 (D:22-160,D:315-345)
2e: CATH_1ofgE01 (E:22-160,E:315-345)
2f: CATH_1ofgF01 (F:22-160,F:315-345)
View:
Select:
Label:
Classes
(
)
(
)
Architectures
(
)
(
)
Topologies
(
)
(
)
Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
2-Layer Sandwich
(8480)
Topology
:
Dihydrodipicolinate Reductase; domain 2
(182)
Homologous Superfamily
:
Dihydrodipicolinate Reductase; domain 2
(178)
Zymomonas mobilis. Organism_taxid: 542.
(1)
1a
1ofgA02
A:161-314,A:346-381
1b
1ofgB02
B:161-314,B:346-381
1c
1ofgC02
C:161-314,C:346-381
1d
1ofgD02
D:161-314,D:346-381
1e
1ofgE02
E:161-314,E:346-381
1f
1ofgF02
F:161-314,F:346-381
Architecture
:
3-Layer(aba) Sandwich
(12045)
Topology
:
Rossmann fold
(7312)
Homologous Superfamily
:
NAD(P)-binding Rossmann-like Domain
(1244)
Zymomonas mobilis. Organism_taxid: 542.
(3)
2a
1ofgA01
A:22-160,A:315-345
2b
1ofgB01
B:22-160,B:315-345
2c
1ofgC01
C:22-160,C:315-345
2d
1ofgD01
D:22-160,D:315-345
2e
1ofgE01
E:22-160,E:315-345
2f
1ofgF01
F:22-160,F:315-345
[
close CATH info
]
Pfam Domains
(2, 12)
Info
all PFAM domains
1a: PFAM_GFO_IDH_MocA_1ofgF01 (F:32-156)
1b: PFAM_GFO_IDH_MocA_1ofgF02 (F:32-156)
1c: PFAM_GFO_IDH_MocA_1ofgF03 (F:32-156)
1d: PFAM_GFO_IDH_MocA_1ofgF04 (F:32-156)
1e: PFAM_GFO_IDH_MocA_1ofgF05 (F:32-156)
1f: PFAM_GFO_IDH_MocA_1ofgF06 (F:32-156)
2a: PFAM_GFO_IDH_MocA_C_1ofgF07 (F:168-282)
2b: PFAM_GFO_IDH_MocA_C_1ofgF08 (F:168-282)
2c: PFAM_GFO_IDH_MocA_C_1ofgF09 (F:168-282)
2d: PFAM_GFO_IDH_MocA_C_1ofgF10 (F:168-282)
2e: PFAM_GFO_IDH_MocA_C_1ofgF11 (F:168-282)
2f: PFAM_GFO_IDH_MocA_C_1ofgF12 (F:168-282)
View:
Select:
Label:
Clans
(
)
(
)
Families
(
)
(
)
Organisms
(
)
(
)
Clan
:
NADP_Rossmann
(1239)
Family
:
GFO_IDH_MocA
(25)
Zymomonas mobilis
(3)
1a
GFO_IDH_MocA-1ofgF01
F:32-156
1b
GFO_IDH_MocA-1ofgF02
F:32-156
1c
GFO_IDH_MocA-1ofgF03
F:32-156
1d
GFO_IDH_MocA-1ofgF04
F:32-156
1e
GFO_IDH_MocA-1ofgF05
F:32-156
1f
GFO_IDH_MocA-1ofgF06
F:32-156
Clan
:
ox_reductase_C
(19)
Family
:
GFO_IDH_MocA_C
(19)
Zymomonas mobilis
(3)
2a
GFO_IDH_MocA_C-1ofgF07
F:168-282
2b
GFO_IDH_MocA_C-1ofgF08
F:168-282
2c
GFO_IDH_MocA_C-1ofgF09
F:168-282
2d
GFO_IDH_MocA_C-1ofgF10
F:168-282
2e
GFO_IDH_MocA_C-1ofgF11
F:168-282
2f
GFO_IDH_MocA_C-1ofgF12
F:168-282
[
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 (380 KB)
Header - Asym.Unit
Biol.Unit 1 (251 KB)
Header - Biol.Unit 1
Biol.Unit 2 (252 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
1OFG
Jmol Script Commands
|
Jmol Color Schemes
|
Jmol Mouse Manual
|
Jmol Wiki
controls:
collapse
expand
Home
JenaLib
Jmol Scripting
Contact
Help
