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.
1SB3
Asym. Unit
Info
Asym.Unit (410 KB)
Biol.Unit 1 (402 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 4-HYDROXYBENZOYL-COA REDUCTASE FROM THAUERA AROMATICA
Authors
:
M. Unciuleac, E. Warkentin, C. C. Page, M. Boll, U. Ermler
Date
:
10 Feb 04 (Deposition) - 21 Dec 04 (Release) - 31 Mar 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.20
Chains
:
Asym. Unit : A,B,C,D,E,F
Biol. Unit 1: A,B,C,D,E,F (1x)
Keywords
:
Xanthine Oxidase Family, Dimer Of Heterotrimers, (A, B, C)2, Oxidoreductase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
M. Unciuleac, E. Warkentin, C. C. Page, M. Boll, U. Ermler
Structure Of A Xanthine Oxidase-Related 4-Hydroxybenzoyl-Coa Reductase With An Additional [4Fe-4S] Cluster And An Inverted Electron Flow.
Structure V. 12 2249 2004
(for further references see the
PDB file header
)
[
close entry info
]
Hetero Components
(6, 13)
Info
All Hetero Components
1a: 4-(2-HYDROXYETHYL)-1-PIPERAZINE ET... (EPEa)
2a: FLAVIN-ADENINE DINUCLEOTIDE (FADa)
2b: FLAVIN-ADENINE DINUCLEOTIDE (FADb)
3a: FE2/S2 (INORGANIC) CLUSTER (FESa)
3b: FE2/S2 (INORGANIC) CLUSTER (FESb)
3c: FE2/S2 (INORGANIC) CLUSTER (FESc)
3d: FE2/S2 (INORGANIC) CLUSTER (FESd)
4a: (MOLYBDOPTERIN-CYTOSINE DINUCLEOTI... (PCDa)
4b: (MOLYBDOPTERIN-CYTOSINE DINUCLEOTI... (PCDb)
5a: IRON/SULFUR CLUSTER (SF4a)
5b: IRON/SULFUR CLUSTER (SF4b)
6a: SULFATE ION (SO4a)
6b: SULFATE ION (SO4b)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
EPE
1
Ligand/Ion
4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID
2
FAD
2
Ligand/Ion
FLAVIN-ADENINE DINUCLEOTIDE
3
FES
4
Ligand/Ion
FE2/S2 (INORGANIC) CLUSTER
4
PCD
2
Ligand/Ion
(MOLYBDOPTERIN-CYTOSINE DINUCLEOTIDE-S,S)-DIOXO-AQUA-MOLYBDENUM(V)
5
SF4
2
Ligand/Ion
IRON/SULFUR CLUSTER
6
SO4
2
Ligand/Ion
SULFATE ION
[
close Hetero Component info
]
Sites
(13, 13)
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)
13: BC4 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
ILE D:705 , GLU D:706 , VAL D:707 , HOH D:2172
BINDING SITE FOR RESIDUE SO4 D 1112
02
AC2
SOFTWARE
ALA E:26 , LEU E:28 , GLY E:45 , HIS E:46 , TYR E:141
BINDING SITE FOR RESIDUE SO4 E 1113
03
AC3
SOFTWARE
GLN A:214 , GLY A:243 , GLY A:244 , PHE A:245 , GLY A:246 , THR A:249 , MET A:357 , ARG A:358 , ILE A:481 , GLY A:482 , GLN A:483 , GLY A:484 , SER A:485 , SER A:520 , TYR A:521 , SER A:522 , SER A:523 , ARG A:524 , VAL A:525 , THR A:526 , VAL A:650 , LYS A:652 , LEU A:654 , ASN A:655 , ALA A:658 , VAL A:659 , GLN A:662 , ALA A:721 , LYS A:722 , GLU A:723 , ALA A:724 , SER A:725 , GLU A:726 , HOH A:1923 , HOH A:1965 , HOH A:2011 , HOH A:2049 , HOH A:2071 , GLN C:99 , CYS C:137
BINDING SITE FOR RESIDUE PCD A 1920
04
AC4
SOFTWARE
PRO B:29 , GLY B:31 , ALA B:32 , GLY B:33 , THR B:34 , ASP B:35 , LEU B:36 , LEU B:53 , LEU B:78 , VAL B:101 , ALA B:102 , ALA B:110 , THR B:111 , GLY B:114 , ASN B:115 , CYS B:117 , GLN B:118 , GLY B:161 , ASP B:162 , LEU B:201 , LEU B:207 , LYS B:224 , VAL B:231 , ASP B:232 , PHE B:233 , HOH B:1932 , HOH B:1942 , HOH B:1959 , HOH B:1969 , GLY C:44
BINDING SITE FOR RESIDUE FAD B 1900
05
AC5
SOFTWARE
CYS B:122 , CYS B:138 , LYS B:140 , CYS B:146 , HIS B:147 , CYS B:155 , TYR B:156 , ALA B:157
BINDING SITE FOR RESIDUE SF4 B 1910
06
AC6
SOFTWARE
MET A:191 , GLN C:99 , CYS C:100 , GLY C:101 , CYS C:103 , CYS C:135 , ARG C:136 , CYS C:137
BINDING SITE FOR RESIDUE FES C 1907
07
AC7
SOFTWARE
GLY C:40 , CYS C:41 , GLY C:44 , GLU C:45 , CYS C:46 , GLY C:47 , CYS C:49 , CYS C:61
BINDING SITE FOR RESIDUE FES C 1908
08
AC8
SOFTWARE
GLN D:214 , GLY D:243 , GLY D:244 , PHE D:245 , GLY D:246 , THR D:249 , MET D:357 , ARG D:358 , ILE D:481 , GLY D:482 , GLN D:483 , GLY D:484 , SER D:485 , SER D:520 , TYR D:521 , SER D:522 , SER D:523 , ARG D:524 , VAL D:525 , THR D:526 , VAL D:650 , LYS D:652 , LEU D:654 , ASN D:655 , ALA D:658 , VAL D:659 , GLN D:662 , ALA D:721 , LYS D:722 , GLU D:723 , ALA D:724 , SER D:725 , GLU D:726 , HOH D:1937 , HOH D:1962 , HOH D:2014 , HOH D:2045 , GLN F:99 , CYS F:137
BINDING SITE FOR RESIDUE PCD D 1921
09
AC9
SOFTWARE
PRO E:29 , GLY E:31 , ALA E:32 , GLY E:33 , THR E:34 , ASP E:35 , LEU E:36 , LEU E:53 , LEU E:78 , VAL E:101 , ALA E:102 , THR E:111 , GLY E:114 , ASN E:115 , CYS E:117 , GLN E:118 , GLY E:161 , ASP E:162 , LEU E:201 , LEU E:206 , LEU E:207 , LYS E:224 , VAL E:231 , ASP E:232 , PHE E:233 , HOH E:1918 , HOH E:1928 , HOH E:1965 , HOH E:2007 , GLY F:44
BINDING SITE FOR RESIDUE FAD E 1901
10
BC1
SOFTWARE
CYS E:122 , PHE E:124 , CYS E:138 , LYS E:140 , CYS E:146 , HIS E:147 , CYS E:155 , TYR E:156 , ALA E:157
BINDING SITE FOR RESIDUE SF4 E 1911
11
BC2
SOFTWARE
MET D:191 , GLN F:99 , CYS F:100 , GLY F:101 , CYS F:103 , CYS F:135 , ARG F:136 , CYS F:137
BINDING SITE FOR RESIDUE FES F 1917
12
BC3
SOFTWARE
GLN F:39 , GLY F:40 , CYS F:41 , GLY F:44 , GLU F:45 , CYS F:46 , GLY F:47 , CYS F:49 , CYS F:61
BINDING SITE FOR RESIDUE FES F 1918
13
BC4
SOFTWARE
HIS A:453 , TRP A:454 , THR A:455 , GLY A:456 , HIS A:459 , GLN A:605
BINDING SITE FOR RESIDUE EPE A 1111
[
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
(3, 6)
Info
All PROSITE Patterns/Profiles
1: FAD_PCMH (B:2-217,E:2-217)
2: 2FE2S_FER_2 (C:3-79,F:3-79)
3: 2FE2S_FER_1 (C:41-49,F:41-49)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
FAD_PCMH
PS51387
PCMH-type FAD-binding domain profile.
HCRB_THAAR
2-217
2
B:2-217
E:2-217
2
2FE2S_FER_2
PS51085
2Fe-2S ferredoxin-type iron-sulfur binding domain profile.
HCRC_THAAR
3-79
2
C:3-79
F:3-79
3
2FE2S_FER_1
PS00197
2Fe-2S ferredoxin-type iron-sulfur binding region signature.
HCRC_THAAR
41-49
2
C:41-49
F:41-49
[
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
(6, 12)
Info
All SCOP Domains
1a: SCOP_d1sb3c1 (C:82-157)
1b: SCOP_d1sb3f1 (F:82-157)
2a: SCOP_d1sb3a1 (A:9-133)
2b: SCOP_d1sb3d1 (D:9-133)
3a: SCOP_d1sb3c2 (C:1-81)
3b: SCOP_d1sb3f2 (F:1-81)
4a: SCOP_d1sb3b1 (B:217-323)
4b: SCOP_d1sb3e1 (E:217-323)
5a: SCOP_d1sb3b2 (B:1-216)
5b: SCOP_d1sb3e2 (E:1-216)
6a: SCOP_d1sb3a2 (A:134-769)
6b: SCOP_d1sb3d2 (D:134-768)
View:
Select:
Label:
Classes
(
)
(
)
Folds
(
)
(
)
Superfamilies
(
)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
All alpha proteins
(14657)
Fold
:
CO dehydrogenase ISP C-domain like
(45)
Superfamily
:
CO dehydrogenase ISP C-domain like
(45)
Family
:
CO dehydrogenase ISP C-domain like
(42)
Protein domain
:
4-hydroxybenzoyl-CoA reductase gamma subunit HrcC, C-terminal domain
(2)
Thauera aromatica [TaxId: 59405]
(2)
1a
d1sb3c1
C:82-157
1b
d1sb3f1
F:82-157
Class
:
Alpha and beta proteins (a+b)
(23004)
Fold
:
alpha/beta-Hammerhead
(191)
Superfamily
:
CO dehydrogenase molybdoprotein N-domain-like
(44)
Family
:
CO dehydrogenase molybdoprotein N-domain-like
(34)
Protein domain
:
4-hydroxybenzoyl-CoA reductase alpha subunit HrcA, N-terminal domain
(2)
Thauera aromatica [TaxId: 59405]
(2)
2a
d1sb3a1
A:9-133
2b
d1sb3d1
D:9-133
Fold
:
beta-Grasp (ubiquitin-like)
(1032)
Superfamily
:
2Fe-2S ferredoxin-like
(174)
Family
:
2Fe-2S ferredoxin domains from multidomain proteins
(82)
Protein domain
:
4-hydroxybenzoyl-CoA reductase gamma subunit HrcC, N-terminal domain
(2)
Thauera aromatica [TaxId: 59405]
(2)
3a
d1sb3c2
C:1-81
3b
d1sb3f2
F:1-81
Fold
:
CO dehydrogenase flavoprotein C-domain-like
(111)
Superfamily
:
CO dehydrogenase flavoprotein C-terminal domain-like
(35)
Family
:
CO dehydrogenase flavoprotein C-terminal domain-like
(23)
Protein domain
:
4-hydroxybenzoyl-CoA reductase beta subunit HrcB, C-terminal domain
(2)
Thauera aromatica [TaxId: 59405]
(2)
4a
d1sb3b1
B:217-323
4b
d1sb3e1
E:217-323
Fold
:
FAD-binding/transporter-associated domain-like
(99)
Superfamily
:
FAD-binding/transporter-associated domain-like
(99)
Family
:
CO dehydrogenase flavoprotein N-terminal domain-like
(33)
Protein domain
:
4-hydroxybenzoyl-CoA reductase beta subunit HrcB, N-terminal domain
(2)
Thauera aromatica [TaxId: 59405]
(2)
5a
d1sb3b2
B:1-216
5b
d1sb3e2
E:1-216
Fold
:
Molybdenum cofactor-binding domain
(44)
Superfamily
:
Molybdenum cofactor-binding domain
(44)
Family
:
Molybdenum cofactor-binding domain
(44)
Protein domain
:
4-hydroxybenzoyl-CoA reductase alpha subunit HrcA, C-terminal domain
(2)
Thauera aromatica [TaxId: 59405]
(2)
6a
d1sb3a2
A:134-769
6b
d1sb3d2
D:134-768
[
close SCOP info
]
CATH Domains
(5, 16)
Info
all CATH domains
1a: CATH_1sb3A05 (A:447-619)
1b: CATH_1sb3A01 (A:17-39,A:188-283)
1c: CATH_1sb3D01 (D:17-39,D:188-283)
1d: CATH_1sb3D04 (D:360-446,D:620-768)
1e: CATH_1sb3A04 (A:360-446,A:620-769)
1f: CATH_1sb3D05 (D:447-619)
1g: CATH_1sb3A03 (A:132-187,A:284-359)
1h: CATH_1sb3D03 (D:132-187,D:284-359)
2a: CATH_1sb3B02 (B:217-323)
2b: CATH_1sb3E02 (E:217-323)
3a: CATH_1sb3A02 (A:40-131)
3b: CATH_1sb3D02 (D:40-131)
4a: CATH_1sb3C01 (C:1-78)
4b: CATH_1sb3F01 (F:1-78)
5a: CATH_1sb3C02 (C:79-161)
5b: CATH_1sb3F02 (F:79-157)
View:
Select:
Label:
Classes
(
)
(
)
Architectures
(
)
(
)
Topologies
(
)
(
)
Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
2-Layer Sandwich
(8480)
Topology
:
Aldehyde Oxidoreductase; domain 4
(20)
Homologous Superfamily
:
Aldehyde Oxidoreductase; domain 4
(20)
Thauera aromatica. Organism_taxid: 59405. Strain: strain k, dsmz 6984.Thauera aromatica. Organism_taxid: 59405. Strain: strain k, dsmz 6984.
(2)
1a
1sb3A05
A:447-619
1b
1sb3A01
A:17-39,A:188-283
1c
1sb3D01
D:17-39,D:188-283
1d
1sb3D04
D:360-446,D:620-768
1e
1sb3A04
A:360-446,A:620-769
1f
1sb3D05
D:447-619
1g
1sb3A03
A:132-187,A:284-359
1h
1sb3D03
D:132-187,D:284-359
Topology
:
Enolase-like; domain 1
(252)
Homologous Superfamily
:
[code=3.30.390.50, no name defined]
(22)
Thauera aromatica. Organism_taxid: 59405. Strain: strain k, dsmz 6984.Thauera aromatica. Organism_taxid: 59405. Strain: strain k, dsmz 6984.
(2)
2a
1sb3B02
B:217-323
2b
1sb3E02
E:217-323
Architecture
:
Alpha-Beta Complex
(3881)
Topology
:
Aldehyde Oxidoreductase; domain 3
(111)
Homologous Superfamily
:
[code=3.90.1170.50, no name defined]
(20)
Thauera aromatica. Organism_taxid: 59405. Strain: strain k, dsmz 6984.Thauera aromatica. Organism_taxid: 59405. Strain: strain k, dsmz 6984.
(2)
3a
1sb3A02
A:40-131
3b
1sb3D02
D:40-131
Architecture
:
Roll
(3276)
Topology
:
Ubiquitin-like (UB roll)
(674)
Homologous Superfamily
:
[code=3.10.20.30, no name defined]
(153)
Thauera aromatica. Organism_taxid: 59405. Strain: strain k, dsmz 6984.Thauera aromatica. Organism_taxid: 59405. Strain: strain k, dsmz 6984.
(2)
4a
1sb3C01
C:1-78
4b
1sb3F01
F:1-78
Class
:
Mainly Alpha
(13335)
Architecture
:
Orthogonal Bundle
(10391)
Topology
:
DNA polymerase; domain 1
(617)
Homologous Superfamily
:
[code=1.10.150.120, no name defined]
(29)
Thauera aromatica. Organism_taxid: 59405. Strain: strain k, dsmz 6984.Thauera aromatica. Organism_taxid: 59405. Strain: strain k, dsmz 6984.
(2)
5a
1sb3C02
C:79-161
5b
1sb3F02
F:79-157
[
close CATH info
]
Pfam Domains
(6, 12)
Info
all PFAM domains
1a: PFAM_FAD_binding_5_1sb3E01 (E:5-215)
1b: PFAM_FAD_binding_5_1sb3E02 (E:5-215)
2a: PFAM_Fer2_1sb3F01 (F:7-66)
2b: PFAM_Fer2_1sb3F02 (F:7-66)
3a: PFAM_Fer2_2_1sb3F03 (F:75-149)
3b: PFAM_Fer2_2_1sb3F04 (F:75-149)
4a: PFAM_Ald_Xan_dh_C2_1sb3D01 (D:139-703)
4b: PFAM_Ald_Xan_dh_C2_1sb3D02 (D:139-703)
5a: PFAM_Ald_Xan_dh_C_1sb3D03 (D:25-131)
5b: PFAM_Ald_Xan_dh_C_1sb3D04 (D:25-131)
6a: PFAM_CO_deh_flav_C_1sb3E03 (E:220-320)
6b: PFAM_CO_deh_flav_C_1sb3E04 (E:220-320)
View:
Select:
Label:
Clans
(
)
(
)
Families
(
)
(
)
Organisms
(
)
(
)
Clan
:
FAD_PCMH
(53)
Family
:
FAD_binding_5
(22)
Thauera aromatica
(2)
1a
FAD_binding_5-1sb3E01
E:5-215
1b
FAD_binding_5-1sb3E02
E:5-215
Clan
:
Fer2
(69)
Family
:
Fer2
(60)
Thauera aromatica
(2)
2a
Fer2-1sb3F01
F:7-66
2b
Fer2-1sb3F02
F:7-66
Family
:
Fer2_2
(24)
Thauera aromatica
(2)
3a
Fer2_2-1sb3F03
F:75-149
3b
Fer2_2-1sb3F04
F:75-149
Clan
:
no clan defined [family: Ald_Xan_dh_C2]
(24)
Family
:
Ald_Xan_dh_C2
(24)
Thauera aromatica
(2)
4a
Ald_Xan_dh_C2-1sb3D01
D:139-703
4b
Ald_Xan_dh_C2-1sb3D02
D:139-703
Clan
:
no clan defined [family: Ald_Xan_dh_C]
(24)
Family
:
Ald_Xan_dh_C
(24)
Thauera aromatica
(2)
5a
Ald_Xan_dh_C-1sb3D03
D:25-131
5b
Ald_Xan_dh_C-1sb3D04
D:25-131
Clan
:
no clan defined [family: CO_deh_flav_C]
(22)
Family
:
CO_deh_flav_C
(22)
Thauera aromatica
(2)
6a
CO_deh_flav_C-1sb3E03
E:220-320
6b
CO_deh_flav_C-1sb3E04
E:220-320
[
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 (410 KB)
Header - Asym.Unit
Biol.Unit 1 (402 KB)
Header - Biol.Unit 1
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
1SB3
Jmol Script Commands
|
Jmol Color Schemes
|
Jmol Mouse Manual
|
Jmol Wiki
controls:
collapse
expand
Home
JenaLib
Jmol Scripting
Contact
Help
