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.
5IZ0
Asym. Unit
Info
Asym.Unit (179 KB)
Biol.Unit 1 (46 KB)
Biol.Unit 2 (47 KB)
Biol.Unit 3 (45 KB)
Biol.Unit 4 (46 KB)
(using Jmol or JSmol)
spin
show selected part
auto zoom/center
Standard Views
(
Basic
|
Advanced
Interface
)
(
Basic
|
Advanced
Interface
)
Help
(1)
Title
:
RORGAMMA IN COMPLEX WITH AGONIST BIO592 AND COACTIVATOR EBI96
Authors
:
D. J. Marcotte
Date
:
24 Mar 16 (Deposition) - 15 Jun 16 (Release) - 15 Jun 16 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.64
Chains
:
Asym. Unit : A,B,C,D,E,F,G,H
Biol. Unit 1: A,C (1x)
Biol. Unit 2: B,E (1x)
Biol. Unit 3: D,F (1x)
Biol. Unit 4: G,H (1x)
Keywords
:
Rorgamma, Nuclear Hormone Receptor, Agonist, Af2 Helix, Immune System
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
D. J. Marcotte, Y. Liu, K. Little, J. H. Jones, N. A. Powell, C. P. Wildes L. F. Silvian, J. V. Chodaparambil
Structural Determinant For Inducing Rorgamma Specific Inverse Agonism Triggered By A Synthetic Benzoxazinone Ligand.
Bmc Struct. Biol. V. 16 7 2016
[
close entry info
]
Hetero Components
(2, 27)
Info
All Hetero Components
1a: N-(4-ETHYL-3-OXO-3,4-DIHYDRO-2H-1,... (6F1a)
1b: N-(4-ETHYL-3-OXO-3,4-DIHYDRO-2H-1,... (6F1b)
1c: N-(4-ETHYL-3-OXO-3,4-DIHYDRO-2H-1,... (6F1c)
1d: N-(4-ETHYL-3-OXO-3,4-DIHYDRO-2H-1,... (6F1d)
2a: CHLORIDE ION (CLa)
2b: CHLORIDE ION (CLb)
2c: CHLORIDE ION (CLc)
2d: CHLORIDE ION (CLd)
2e: CHLORIDE ION (CLe)
2f: CHLORIDE ION (CLf)
2g: CHLORIDE ION (CLg)
2h: CHLORIDE ION (CLh)
2i: CHLORIDE ION (CLi)
2j: CHLORIDE ION (CLj)
2k: CHLORIDE ION (CLk)
2l: CHLORIDE ION (CLl)
2m: CHLORIDE ION (CLm)
2n: CHLORIDE ION (CLn)
2o: CHLORIDE ION (CLo)
2p: CHLORIDE ION (CLp)
2q: CHLORIDE ION (CLq)
2r: CHLORIDE ION (CLr)
2s: CHLORIDE ION (CLs)
2t: CHLORIDE ION (CLt)
2u: CHLORIDE ION (CLu)
2v: CHLORIDE ION (CLv)
2w: CHLORIDE ION (CLw)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
6F1
4
Ligand/Ion
N-(4-ETHYL-3-OXO-3,4-DIHYDRO-2H-1,4-BENZOXAZIN-7-YL)-3,4-DIMETHYL-N-(2,2,2-TRIFLUOROETHYL)BENZENE-1-SULFONAMIDE
2
CL
23
Ligand/Ion
CHLORIDE ION
[
close Hetero Component info
]
Sites
(25, 25)
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: AD1 (SOFTWARE)
11: AD2 (SOFTWARE)
12: AD3 (SOFTWARE)
13: AD4 (SOFTWARE)
14: AD5 (SOFTWARE)
15: AD6 (SOFTWARE)
16: AD7 (SOFTWARE)
17: AD8 (SOFTWARE)
18: AD9 (SOFTWARE)
19: AE1 (SOFTWARE)
20: AE2 (SOFTWARE)
21: AE3 (SOFTWARE)
22: AE4 (SOFTWARE)
23: AE5 (SOFTWARE)
24: AE6 (SOFTWARE)
25: AE7 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
CYS A:320 , HIS A:323 , LEU A:324 , ALA A:327 , MET A:358 , VAL A:361 , MET A:365 , PHE A:378 , PHE A:388 , ILE A:400 , HIS A:479 , HOH A:705
binding site for residue 6F1 A 601
02
AC2
SOFTWARE
PHE A:334 , VAL A:360 , ARG A:364 , THR A:421
binding site for residue CL A 602
03
AC3
SOFTWARE
HIS A:458 , ARG A:459 , GLN A:460
binding site for residue CL A 603
04
AC4
SOFTWARE
ARG A:296 , ARG A:367 , TYR A:369 , TYR A:382 , HOH A:722
binding site for residue CL A 604
05
AC5
SOFTWARE
LEU A:362 , CYS A:366 , PHE A:403 , SER A:404
binding site for residue CL A 605
06
AC6
SOFTWARE
HIS A:322 , HIS B:322 , PRO B:499
binding site for residue CL A 606
07
AC7
SOFTWARE
LEU A:352 , GLY A:356 , LEU A:425 , ARG A:430
binding site for residue CL A 608
08
AC8
SOFTWARE
TYR A:308 , GLN A:309 , LEU A:387 , PHE A:388 , ARG A:389 , ALA A:390
binding site for residue CL A 609
09
AC9
SOFTWARE
CYS B:320 , HIS B:323 , LEU B:324 , ALA B:327 , MET B:358 , VAL B:361 , VAL B:376 , PHE B:378 , PHE B:388 , LEU B:396 , ILE B:400 , PHE B:401 , HIS B:479 , HOH B:710 , HOH B:721
binding site for residue 6F1 B 601
10
AD1
SOFTWARE
LYS A:456 , HIS B:458 , GLN B:460
binding site for residue CL B 602
11
AD2
SOFTWARE
HIS B:490 , PRO B:491 , ILE B:492 , VAL B:493
binding site for residue CL B 603
12
AD3
SOFTWARE
TYR B:281 , PHE B:334 , VAL B:360 , ARG B:364 , THR B:421
binding site for residue CL B 604
13
AD4
SOFTWARE
LEU B:352 , LEU B:425 , ARG B:430
binding site for residue CL B 605
14
AD5
SOFTWARE
ARG B:296 , ASN B:370 , ASN B:373 , THR B:375 , TYR B:382
binding site for residue CL B 606
15
AD6
SOFTWARE
ARG B:296 , ARG B:367 , TYR B:369 , TYR B:382
binding site for residue CL B 607
16
AD7
SOFTWARE
CYS D:320 , HIS D:323 , LEU D:324 , ALA D:327 , MET D:358 , VAL D:361 , VAL D:376 , PHE D:378 , PHE D:388 , ILE D:400 , HIS D:479 , HOH D:714
binding site for residue 6F1 D 601
17
AD8
SOFTWARE
CYS D:393 , SER D:394 , GLU D:395 , ARG D:482
binding site for residue CL D 602
18
AD9
SOFTWARE
TYR D:281 , PHE D:334 , ARG D:364 , THR D:421
binding site for residue CL D 603
19
AE1
SOFTWARE
LEU D:344 , CYS D:345 , ASP D:348 , GLU D:435
binding site for residue CL D 604
20
AE2
SOFTWARE
CYS G:320 , HIS G:323 , LEU G:324 , ALA G:327 , MET G:358 , VAL G:361 , MET G:365 , VAL G:376 , PHE G:378 , PHE G:388 , LEU G:396 , ILE G:400 , PHE G:401 , HIS G:479
binding site for residue 6F1 G 601
21
AE3
SOFTWARE
TYR G:281 , PHE G:334 , ARG G:364 , THR G:421
binding site for residue CL G 602
22
AE4
SOFTWARE
LEU G:344 , CYS G:345 , ASP G:348 , GLU G:435
binding site for residue CL G 603
23
AE5
SOFTWARE
LYS D:456 , HIS G:458 , GLN G:460
binding site for residue CL G 604
24
AE6
SOFTWARE
HIS D:322 , GLU D:326 , GLU G:315 , GLU G:318 , ARG G:319
binding site for residue CL G 605
25
AE7
SOFTWARE
HIS G:490 , PRO G:491 , ILE G:492 , VAL G:493
binding site for residue CL G 606
[
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
(0, 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.
SCOP Domains
(0, 0)
Info
All SCOP Domains
View:
Select:
Label:
Sorry, no Info available
[
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
Chain B
Chain C
Chain D
Chain E
Chain F
Chain G
Chain H
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 (179 KB)
Header - Asym.Unit
Biol.Unit 1 (46 KB)
Header - Biol.Unit 1
Biol.Unit 2 (47 KB)
Header - Biol.Unit 2
Biol.Unit 3 (45 KB)
Header - Biol.Unit 3
Biol.Unit 4 (46 KB)
Header - Biol.Unit 4
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
5IZ0
Jmol Script Commands
|
Jmol Color Schemes
|
Jmol Mouse Manual
|
Jmol Wiki
controls:
collapse
expand
Home
JenaLib
Jmol Scripting
Contact
Help