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.
1H6V
Asym. Unit
Info
Asym.Unit (469 KB)
Biol.Unit 1 (159 KB)
Biol.Unit 2 (158 KB)
Biol.Unit 3 (158 KB)
(using Jmol or JSmol)
spin
show selected part
auto zoom/center
Standard Views
(
Basic
|
Advanced
Interface
)
(
Basic
|
Advanced
Interface
)
Help
(1)
Title
:
MAMMALIAN THIOREDOXIN REDUCTASE
Authors
:
T. Sandalova, L. Zhong, Y. Lindqvist, A. Holmgren, G. Schneider
Date
:
27 Jun 01 (Deposition) - 14 Aug 01 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
3.00
Chains
:
Asym. Unit : A,B,C,D,E,F
Biol. Unit 1: A,B (1x)
Biol. Unit 2: C,D (1x)
Biol. Unit 3: E,F (1x)
Keywords
:
Oxidoreductase, Pyridine Nucleotide-Disulfide Oxidoreductase, Flavoprotein
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
T. Sandalova, L. Zhong, Y. Lindqvist, A. Holmgren, G. Schneider
Three-Dimensional Structure Of A Mammalian Thioredoxin Reductase: Implication For Mechanism And Evolution Of A Selenocysteine Dependent Enzyme
Proc. Natl. Acad. Sci. Usa V. 98 9533 2001
(for further references see the
PDB file header
)
[
close entry info
]
Hetero Components
(2, 12)
Info
All Hetero Components
1a: FLAVIN-ADENINE DINUCLEOTIDE (FADa)
1b: FLAVIN-ADENINE DINUCLEOTIDE (FADb)
1c: FLAVIN-ADENINE DINUCLEOTIDE (FADc)
1d: FLAVIN-ADENINE DINUCLEOTIDE (FADd)
1e: FLAVIN-ADENINE DINUCLEOTIDE (FADe)
1f: FLAVIN-ADENINE DINUCLEOTIDE (FADf)
2a: NADPH DIHYDRO-NICOTINAMIDE-ADENINE... (NDPa)
2b: NADPH DIHYDRO-NICOTINAMIDE-ADENINE... (NDPb)
2c: NADPH DIHYDRO-NICOTINAMIDE-ADENINE... (NDPc)
2d: NADPH DIHYDRO-NICOTINAMIDE-ADENINE... (NDPd)
2e: NADPH DIHYDRO-NICOTINAMIDE-ADENINE... (NDPe)
2f: NADPH DIHYDRO-NICOTINAMIDE-ADENINE... (NDPf)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
FAD
6
Ligand/Ion
FLAVIN-ADENINE DINUCLEOTIDE
2
NDP
6
Ligand/Ion
NADPH DIHYDRO-NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE
[
close Hetero Component info
]
Sites
(12, 12)
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)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
GLY A:19 , GLY A:20 , GLY A:21 , SER A:22 , GLY A:23 , ASP A:42 , PHE A:43 , VAL A:44 , GLY A:57 , THR A:58 , CYS A:59 , GLY A:63 , CYS A:64 , LYS A:67 , ALA A:130 , TYR A:131 , GLY A:132 , ALA A:160 , THR A:161 , GLY A:162 , SER A:180 , VAL A:201 , ARG A:293 , ILE A:300 , GLY A:333 , ASP A:334 , GLU A:341 , LEU A:342 , THR A:343 , PRO A:344 , HIS B:472
BINDING SITE FOR RESIDUE FAD A 600
02
AC2
SOFTWARE
ARG A:166 , ALA A:198 , SER A:199 , ARG A:221 , SER A:222 , ARG A:226 , VAL A:291 , GLY A:292 , ARG A:293 , GLU A:341
BINDING SITE FOR RESIDUE NDP A 601
03
AC3
SOFTWARE
HIS A:472 , GLY B:19 , GLY B:21 , SER B:22 , GLY B:23 , ASP B:42 , PHE B:43 , VAL B:44 , GLY B:57 , THR B:58 , CYS B:59 , GLY B:63 , CYS B:64 , LYS B:67 , ALA B:130 , TYR B:131 , GLY B:132 , ALA B:160 , THR B:161 , GLY B:162 , VAL B:201 , ARG B:293 , ILE B:300 , GLY B:333 , ASP B:334 , GLU B:341 , LEU B:342 , THR B:343 , PRO B:344
BINDING SITE FOR RESIDUE FAD B 600
04
AC4
SOFTWARE
ARG B:166 , ALA B:198 , SER B:199 , ARG B:221 , SER B:222 , ARG B:226 , VAL B:252 , VAL B:291 , GLY B:292 , ARG B:293 , GLU B:341
BINDING SITE FOR RESIDUE NDP B 601
05
AC5
SOFTWARE
ILE C:18 , GLY C:19 , GLY C:20 , GLY C:21 , SER C:22 , GLY C:23 , GLY C:24 , LEU C:41 , ASP C:42 , PHE C:43 , THR C:58 , CYS C:59 , CYS C:64 , LYS C:67 , TYR C:131 , GLY C:132 , THR C:161 , GLY C:162 , GLU C:163 , VAL C:201 , ARG C:293 , ILE C:300 , LEU C:342 , THR C:343 , PRO C:344 , HIS D:472
BINDING SITE FOR RESIDUE FAD C 600
06
AC6
SOFTWARE
ARG C:166 , ALA C:198 , SER C:199 , ARG C:221 , SER C:222 , ARG C:226 , VAL C:252 , VAL C:291 , GLY C:292 , ARG C:293 , GLU C:341
BINDING SITE FOR RESIDUE NDP C 601
07
AC7
SOFTWARE
HIS C:472 , GLY D:19 , GLY D:21 , SER D:22 , GLY D:23 , ASP D:42 , PHE D:43 , THR D:58 , CYS D:59 , VAL D:62 , GLY D:63 , CYS D:64 , LYS D:67 , ALA D:130 , TYR D:131 , GLY D:132 , ALA D:160 , THR D:161 , GLY D:162 , ARG D:293 , ILE D:300 , GLY D:333 , ASP D:334 , GLU D:341 , LEU D:342 , THR D:343
BINDING SITE FOR RESIDUE FAD D 600
08
AC8
SOFTWARE
ARG D:166 , LEU D:168 , ALA D:198 , SER D:199 , ARG D:221 , SER D:222 , ARG D:226 , VAL D:291 , GLY D:292 , ARG D:293 , GLU D:341
BINDING SITE FOR RESIDUE NDP D 601
09
AC9
SOFTWARE
GLY E:19 , GLY E:21 , SER E:22 , GLY E:23 , LEU E:41 , ASP E:42 , PHE E:43 , GLY E:57 , THR E:58 , CYS E:59 , VAL E:62 , GLY E:63 , CYS E:64 , LYS E:67 , ALA E:130 , TYR E:131 , GLY E:132 , ALA E:160 , THR E:161 , GLY E:162 , VAL E:201 , ARG E:293 , ILE E:300 , GLY E:333 , ASP E:334 , GLU E:341 , LEU E:342 , THR E:343 , PRO E:344 , HIS F:472
BINDING SITE FOR RESIDUE FAD E 600
10
BC1
SOFTWARE
ARG E:166 , ALA E:198 , SER E:199 , ARG E:221 , SER E:222 , ARG E:226 , VAL E:252 , VAL E:291 , GLY E:292 , ARG E:293 , LYS E:315 , GLU E:341
BINDING SITE FOR RESIDUE NDP E 601
11
BC2
SOFTWARE
HIS E:472 , GLY F:19 , GLY F:20 , GLY F:21 , SER F:22 , GLY F:23 , LEU F:41 , ASP F:42 , PHE F:43 , VAL F:44 , GLY F:57 , THR F:58 , CYS F:59 , GLY F:63 , CYS F:64 , LYS F:67 , ALA F:130 , TYR F:131 , GLY F:132 , THR F:161 , ILE F:300 , GLY F:333 , ASP F:334 , GLU F:341 , LEU F:342 , THR F:343 , PRO F:344
BINDING SITE FOR RESIDUE FAD F 600
12
BC3
SOFTWARE
ARG F:166 , LEU F:168 , ALA F:198 , SER F:199 , ARG F:221 , SER F:222 , ARG F:226 , VAL F:252 , VAL F:291 , GLY F:292 , ARG F:293 , LYS F:339
BINDING SITE FOR RESIDUE NDP F 601
[
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
(1, 6)
Info
All PROSITE Patterns/Profiles
1: PYRIDINE_REDOX_1 (A:56-66,B:56-66,C:56-66,D:56-66,E:...)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
PYRIDINE_REDOX_1
PS00076
Pyridine nucleotide-disulphide oxidoreductases class-I active site.
TRXR1_RAT
56-66
6
A:56-66
B:56-66
C:56-66
D:56-66
E:56-66
F:56-66
[
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
(2, 18)
Info
All SCOP Domains
1a: SCOP_d1h6va3 (A:367-499)
1b: SCOP_d1h6vb3 (B:367-495)
1c: SCOP_d1h6vc3 (C:367-495)
1d: SCOP_d1h6vd3 (D:367-495)
1e: SCOP_d1h6ve3 (E:367-499)
1f: SCOP_d1h6vf3 (F:367-499)
2a: SCOP_d1h6va1 (A:10-170,A:293-366)
2b: SCOP_d1h6va2 (A:171-292)
2c: SCOP_d1h6vf1 (F:10-170,F:293-366)
2d: SCOP_d1h6vf2 (F:171-292)
2e: SCOP_d1h6vb1 (B:9-170,B:293-366)
2f: SCOP_d1h6vb2 (B:171-292)
2g: SCOP_d1h6vc1 (C:14-170,C:293-366)
2h: SCOP_d1h6vc2 (C:171-292)
2i: SCOP_d1h6vd1 (D:9-170,D:293-366)
2j: SCOP_d1h6vd2 (D:171-292)
2k: SCOP_d1h6ve1 (E:9-170,E:293-366)
2l: SCOP_d1h6ve2 (E:171-292)
View:
Select:
Label:
Classes
(
)
(
)
Folds
(
)
(
)
Superfamilies
(
)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha and beta proteins (a+b)
(23004)
Fold
:
CO dehydrogenase flavoprotein C-domain-like
(111)
Superfamily
:
FAD/NAD-linked reductases, dimerisation (C-terminal) domain
(76)
Family
:
FAD/NAD-linked reductases, dimerisation (C-terminal) domain
(76)
Protein domain
:
Mammalian thioredoxin reductase
(1)
Norway rat (Rattus norvegicus) [TaxId: 10116]
(1)
1a
d1h6va3
A:367-499
1b
d1h6vb3
B:367-495
1c
d1h6vc3
C:367-495
1d
d1h6vd3
D:367-495
1e
d1h6ve3
E:367-499
1f
d1h6vf3
F:367-499
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
FAD/NAD(P)-binding domain
(331)
Superfamily
:
FAD/NAD(P)-binding domain
(331)
Family
:
FAD/NAD-linked reductases, N-terminal and central domains
(92)
Protein domain
:
Mammalian thioredoxin reductase
(1)
Norway rat (Rattus norvegicus) [TaxId: 10116]
(1)
2a
d1h6va1
A:10-170,A:293-366
2b
d1h6va2
A:171-292
2c
d1h6vf1
F:10-170,F:293-366
2d
d1h6vf2
F:171-292
2e
d1h6vb1
B:9-170,B:293-366
2f
d1h6vb2
B:171-292
2g
d1h6vc1
C:14-170,C:293-366
2h
d1h6vc2
C:171-292
2i
d1h6vd1
D:9-170,D:293-366
2j
d1h6vd2
D:171-292
2k
d1h6ve1
E:9-170,E:293-366
2l
d1h6ve2
E:171-292
[
close SCOP info
]
CATH Domains
(2, 18)
Info
all CATH domains
1a: CATH_1h6vA03 (A:369-483)
1b: CATH_1h6vB03 (B:369-483)
1c: CATH_1h6vC03 (C:369-483)
1d: CATH_1h6vD03 (D:369-483)
1e: CATH_1h6vE03 (E:369-483)
1f: CATH_1h6vF03 (F:369-483)
2a: CATH_1h6vC01 (C:14-165,C:292-368)
2b: CATH_1h6vA01 (A:11-165,A:292-368)
2c: CATH_1h6vE02 (E:166-291)
2d: CATH_1h6vF02 (F:166-291)
2e: CATH_1h6vB01 (B:11-165,B:292-368)
2f: CATH_1h6vD01 (D:11-165,D:292-368)
2g: CATH_1h6vE01 (E:11-165,E:292-368)
2h: CATH_1h6vF01 (F:11-165,F:292-368)
2i: CATH_1h6vA02 (A:166-291)
2j: CATH_1h6vB02 (B:166-291)
2k: CATH_1h6vC02 (C:166-291)
2l: CATH_1h6vD02 (D:166-291)
View:
Select:
Label:
Classes
(
)
(
)
Architectures
(
)
(
)
Topologies
(
)
(
)
Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
2-Layer Sandwich
(8480)
Topology
:
Enolase-like; domain 1
(252)
Homologous Superfamily
:
[code=3.30.390.30, no name defined]
(99)
Rat (Rattus norvegicus)
(1)
1a
1h6vA03
A:369-483
1b
1h6vB03
B:369-483
1c
1h6vC03
C:369-483
1d
1h6vD03
D:369-483
1e
1h6vE03
E:369-483
1f
1h6vF03
F:369-483
Architecture
:
3-Layer(bba) Sandwich
(528)
Topology
:
FAD/NAD(P)-binding domain
(373)
Homologous Superfamily
:
[code=3.50.50.60, no name defined]
(373)
Rat (Rattus norvegicus)
(1)
2a
1h6vC01
C:14-165,C:292-368
2b
1h6vA01
A:11-165,A:292-368
2c
1h6vE02
E:166-291
2d
1h6vF02
F:166-291
2e
1h6vB01
B:11-165,B:292-368
2f
1h6vD01
D:11-165,D:292-368
2g
1h6vE01
E:11-165,E:292-368
2h
1h6vF01
F:11-165,F:292-368
2i
1h6vA02
A:166-291
2j
1h6vB02
B:166-291
2k
1h6vC02
C:166-291
2l
1h6vD02
D:166-291
[
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
Chain E
Chain F
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 (469 KB)
Header - Asym.Unit
Biol.Unit 1 (159 KB)
Header - Biol.Unit 1
Biol.Unit 2 (158 KB)
Header - Biol.Unit 2
Biol.Unit 3 (158 KB)
Header - Biol.Unit 3
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
1H6V
Jmol Script Commands
|
Jmol Color Schemes
|
Jmol Mouse Manual
|
Jmol Wiki
controls:
collapse
expand
Home
JenaLib
Jmol Scripting
Contact
Help
