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...
Getting 'PROSITE' information from database.
PLEASE WAIT...
Getting 'Exon' information from database.
4BIO
Asym. Unit
Info
Asym.Unit (66 KB)
Biol.Unit 1 (120 KB)
(using Jmol or JSmol)
spin
show selected part
auto zoom/center
Standard Views
(
Basic
|
Advanced
Interface
)
(
Basic
|
Advanced
Interface
)
Help
(1)
Title
:
FACTOR INHIBITING HIF-1 ALPHA IN COMPLEX WITH 8-HYDROXYQUINOLINE-5-CARBOXYLIC ACID
Authors
:
R. Chowdhury, C. J. Schofield
Date
:
12 Apr 13 (Deposition) - 24 Apr 13 (Release) - 05 Feb 14 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.45
Chains
:
Asym. Unit : A
Biol. Unit 1: A (2x)
Keywords
:
Oxidoreductase, Dioxygenase, Oxygenase, Dna-Binding, Metal-Binding, Transcription, Helix-Loop-Helix-Beta, Dsbh, Facial Triad, Asparaginyl/Aspartyl Hydroxylase, Transcription And Epigenetic Regulation, Signaling, Development, Cell Structure, Ankyrin Repeat Domain, Ard, Beta-Hydroxylation, Transcription Activator/Inhibitor, Phosphorylation, S-Nitrosylation
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
R. J. Hopkinson, A. Tumber, C. Yapp, R. Chowdhury, W. Aik, K. H. Che, X. S. Li, J. B. L. Kristensen, O. N. F. King, M. C. Chan, K. K. Yeoh, H. Choi L. J. Walport, C. C. Thinnes, J. T. Bush, C. Lejeune, A. M. Rydzik, N. R. Rose, E. A. Bagg, M. A. Mcdonough, T. J. Krojer, W. W. Yue, S. S. Ng, L. Olsen, P. E. Brennan, U. Oppermann, S. Muller, R. J. Klose, P. J. Ratcliffe, C. J. Schofield, A. Kawamura
8-Hydroxyquinoline-5-Carboxylic Acid Is A Broad Spectrum 2-Oxoglutarate Oxygenase Inhibitor Which Causes Iron Translocation
Chem. Rev. V. 4 3110 2013
[
close entry info
]
Hetero Components
(4, 11)
Info
All Hetero Components
1a: 8-HYDROXYQUINOLINE-5-CARBOXYLIC AC... (8XQa)
2a: FE (III) ION (FEa)
3a: GLYCEROL (GOLa)
3b: GLYCEROL (GOLb)
3c: GLYCEROL (GOLc)
3d: GLYCEROL (GOLd)
4a: SULFATE ION (SO4a)
4b: SULFATE ION (SO4b)
4c: SULFATE ION (SO4c)
4d: SULFATE ION (SO4d)
4e: SULFATE ION (SO4e)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
8XQ
1
Ligand/Ion
8-HYDROXYQUINOLINE-5-CARBOXYLIC ACID
2
FE
1
Ligand/Ion
FE (III) ION
3
GOL
4
Ligand/Ion
GLYCEROL
4
SO4
5
Ligand/Ion
SULFATE ION
[
close Hetero Component info
]
Sites
(11, 11)
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)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
HIS A:199 , ASP A:201 , HIS A:279 , 8XQ A:601 , HOH A:2068
BINDING SITE FOR RESIDUE FE A 501
02
AC2
SOFTWARE
TYR A:102 , TYR A:145 , LEU A:188 , THR A:196 , HIS A:199 , ASP A:201 , PHE A:207 , LYS A:214 , HIS A:279 , ILE A:281 , TRP A:296 , FE A:501
BINDING SITE FOR RESIDUE 8XQ A 601
03
AC3
SOFTWARE
ARG A:138 , GLY A:140 , GLU A:141 , GLU A:142
BINDING SITE FOR RESIDUE SO4 A 701
04
AC4
SOFTWARE
LYS A:107 , ARG A:320 , LYS A:324
BINDING SITE FOR RESIDUE SO4 A 702
05
AC5
SOFTWARE
ARG A:143 , GLU A:192 , GLY A:193 , LEU A:285 , ASN A:286
BINDING SITE FOR RESIDUE SO4 A 703
06
AC6
SOFTWARE
LYS A:311 , ALA A:312 , HOH A:2081 , HOH A:2109
BINDING SITE FOR RESIDUE SO4 A 704
07
AC7
SOFTWARE
ASP A:222 , GLU A:225 , ALA A:312 , LYS A:315
BINDING SITE FOR RESIDUE SO4 A 705
08
AC8
SOFTWARE
LEU A:150 , ASN A:151
BINDING SITE FOR RESIDUE GOL A 801
09
AC9
SOFTWARE
ASP A:201 , GLN A:203 , TRP A:296 , HOH A:2072
BINDING SITE FOR RESIDUE GOL A 802
10
BC1
SOFTWARE
LYS A:99 , TYR A:230 , SER A:240 , GLN A:241 , VAL A:242 , ASP A:243
BINDING SITE FOR RESIDUE GOL A 803
11
BC2
SOFTWARE
GLN A:148 , ASN A:151
BINDING SITE FOR RESIDUE GOL A 804
[
close Site info
]
SAPs(SNPs)/Variants
(1, 1)
Info
(mutated residues are not available)
All SNPs/Variants
1: VAR_051028 (P41A, chain A, )
View:
Select:
Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
1
UniProt
VAR_051028
P
41
A
HIF1N_HUMAN
Polymorphism
2295778
A
P
41
A
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
[
close SNP/Variant info
]
PROSITE Patterns/Profiles
(1, 1)
Info
All PROSITE Patterns/Profiles
1: JMJC (A:142-312)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
JMJC
PS51184
JmjC domain profile.
HIF1N_HUMAN
142-312
1
A:142-312
[
close PROSITE info
]
Exons
(8, 8)
Info
All Exons
Exon 1.2b (A:11-59)
Exon 1.3b (A:60-143)
Exon 1.4b (A:143-193)
Exon 1.5a (A:193-241)
Exon 1.6b (A:242-277)
Exon 1.7 (A:277-298)
Exon 1.8b (A:299-335)
Exon 1.9b (A:336-349)
View:
Select:
Label:
All Exon Boundaries
1: Boundary -/1.2b
2: Boundary 1.2b/1.3b
3: Boundary 1.3b/1.4b
4: Boundary 1.4b/1.5a
5: Boundary 1.5a/1.6b
6: Boundary 1.6b/1.7
7: Boundary 1.7/1.8b
8: Boundary 1.8b/1.9b
9: Boundary 1.9b/-
View:
Label:
Note:
Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
ENSEMBL
UniProtKB
PDB
No.
Transcript ID
Exon
Exon ID
Genome Location
Length
ID
Location
Length
Count
Location
Length
1.2b
ENST00000299163
2b
ENSE00001695622
chr10:
102295616-102295892
277
HIF1N_HUMAN
1-59
59
1
A:11-59
49
1.3b
ENST00000299163
3b
ENSE00001100126
chr10:
102296168-102296418
251
HIF1N_HUMAN
60-143
84
1
A:60-143
84
1.4b
ENST00000299163
4b
ENSE00001100124
chr10:
102300391-102300539
149
HIF1N_HUMAN
143-193
51
1
A:143-193
51
1.5a
ENST00000299163
5a
ENSE00001100127
chr10:
102304708-102304853
146
HIF1N_HUMAN
193-241
49
1
A:193-241
49
1.6b
ENST00000299163
6b
ENSE00001100128
chr10:
102305700-102305806
107
HIF1N_HUMAN
242-277
36
1
A:242-277
36
1.7
ENST00000299163
7
ENSE00001100132
chr10:
102306275-102306338
64
HIF1N_HUMAN
277-298
22
1
A:277-298
22
1.8b
ENST00000299163
8b
ENSE00001100130
chr10:
102306897-102307007
111
HIF1N_HUMAN
299-335
37
1
A:299-335
37
1.9b
ENST00000299163
9b
ENSE00001212367
chr10:
102307850-102309763
1914
HIF1N_HUMAN
336-349
14
1
A:336-349
14
[
close EXON info
]
SCOP Domains
(1, 1)
Info
All SCOP Domains
1a: SCOP_d4bioa_ (A:)
View:
Select:
Label:
Classes
(
)
(
)
Folds
(
)
(
)
Superfamilies
(
)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
All beta proteins
(24004)
Fold
:
Double-stranded beta-helix
(580)
Superfamily
:
Clavaminate synthase-like
(197)
Family
:
Hypoxia-inducible factor HIF ihhibitor (FIH1)
(26)
Protein domain
:
Hypoxia-inducible factor HIF ihhibitor (FIH1)
(26)
Human (Homo sapiens) [TaxId: 9606]
(26)
1a
d4bioa_
A:
[
close SCOP info
]
CATH Domains
(0, 0)
Info
all CATH domains
View:
Select:
Label:
Sorry, no Info available
[
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
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 (66 KB)
Header - Asym.Unit
Biol.Unit 1 (120 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
4BIO
Jmol Script Commands
|
Jmol Color Schemes
|
Jmol Mouse Manual
|
Jmol Wiki
controls:
collapse
expand
Home
JenaLib
Jmol Scripting
Contact
Help
