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.
5MCP
Asym. Unit
Info
Asym.Unit (1.4 MB)
Biol.Unit 1, α-C (1.4 MB)
Biol.Unit 1 (1.4 MB)
(using Jmol or JSmol)
spin
show selected part
auto zoom/center
Standard Views
(
Basic
|
Advanced
Interface
)
(
Basic
|
Advanced
Interface
)
Help
(1)
Title
:
STRUCTURE OF IMP DEHYDROGENASE FROM ASHBYA GOSSYPII BOUND TO ATP
Authors
:
G. Winter, D. Fernandez-Justel, J. M. De Pereda, J. L. Revuelta, R. M. B
Date
:
10 Nov 16 (Deposition) - 14 Jun 17 (Release) - 14 Jun 17 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.40
Chains
:
Asym. Unit : A,B,C,D,E,F,G,H
Biol. Unit 1: A,B,C,D,E,F,G,H (1x)
Keywords
:
Imp Dehydrogenase, Ashbya Gossypii, Allosteric Modulator, Purine Nucleotides, Oxidoreductase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
R. M. Buey, D. Fernandez-Justel, I. Marcos-Alcalde, G. Winter, P. Gomez-Puertas, J. M. De Pereda, J. Luis Revuelta
A Nucleotide-Controlled Conformational Switch Modulates The Activity Of Eukaryotic Imp Dehydrogenases.
Sci Rep V. 7 2648 2017
[
close entry info
]
Hetero Components
(2, 32)
Info
All Hetero Components
1a: ADENOSINE-5'-TRIPHOSPHATE (ATPa)
1b: ADENOSINE-5'-TRIPHOSPHATE (ATPb)
1c: ADENOSINE-5'-TRIPHOSPHATE (ATPc)
1d: ADENOSINE-5'-TRIPHOSPHATE (ATPd)
1e: ADENOSINE-5'-TRIPHOSPHATE (ATPe)
1f: ADENOSINE-5'-TRIPHOSPHATE (ATPf)
1g: ADENOSINE-5'-TRIPHOSPHATE (ATPg)
1h: ADENOSINE-5'-TRIPHOSPHATE (ATPh)
1i: ADENOSINE-5'-TRIPHOSPHATE (ATPi)
1j: ADENOSINE-5'-TRIPHOSPHATE (ATPj)
1k: ADENOSINE-5'-TRIPHOSPHATE (ATPk)
1l: ADENOSINE-5'-TRIPHOSPHATE (ATPl)
1m: ADENOSINE-5'-TRIPHOSPHATE (ATPm)
1n: ADENOSINE-5'-TRIPHOSPHATE (ATPn)
1o: ADENOSINE-5'-TRIPHOSPHATE (ATPo)
1p: ADENOSINE-5'-TRIPHOSPHATE (ATPp)
1q: ADENOSINE-5'-TRIPHOSPHATE (ATPq)
1r: ADENOSINE-5'-TRIPHOSPHATE (ATPr)
1s: ADENOSINE-5'-TRIPHOSPHATE (ATPs)
1t: ADENOSINE-5'-TRIPHOSPHATE (ATPt)
1u: ADENOSINE-5'-TRIPHOSPHATE (ATPu)
1v: ADENOSINE-5'-TRIPHOSPHATE (ATPv)
1w: ADENOSINE-5'-TRIPHOSPHATE (ATPw)
1x: ADENOSINE-5'-TRIPHOSPHATE (ATPx)
2a: MAGNESIUM ION (MGa)
2b: MAGNESIUM ION (MGb)
2c: MAGNESIUM ION (MGc)
2d: MAGNESIUM ION (MGd)
2e: MAGNESIUM ION (MGe)
2f: MAGNESIUM ION (MGf)
2g: MAGNESIUM ION (MGg)
2h: MAGNESIUM ION (MGh)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
ATP
24
Ligand/Ion
ADENOSINE-5'-TRIPHOSPHATE
2
MG
8
Ligand/Ion
MAGNESIUM ION
[
close Hetero Component info
]
Sites
(31, 31)
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)
26: AE8 (SOFTWARE)
27: AE9 (SOFTWARE)
28: AF1 (SOFTWARE)
29: AF2 (SOFTWARE)
30: AF3 (SOFTWARE)
31: AF4 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
THR A:165 , SER A:166 , ARG A:167 , ASP A:168 , THR A:184 , ASP A:186 , VAL A:187 , ILE A:188 , LYS A:208 , GLY A:209 , LYS A:210 , ATP A:602 , HOH A:724 , GLN E:170 , MG E:604 , HOH E:703
binding site for residue ATP A 601
02
AC2
SOFTWARE
ILE A:121 , VAL A:125 , PHE A:145 , ALA A:146 , GLY A:147 , SER A:166 , LYS A:210 , MET A:223 , SER A:225 , THR A:227 , ASP A:228 , ATP A:601 , MG E:604
binding site for residue ATP A 602
03
AC3
SOFTWARE
THR A:255 , ILE A:256 , ASP A:257 , SER A:278 , SER A:279 , PHE A:285 , HOH A:703 , HOH A:731 , HOH A:752 , HOH A:754 , HOH A:835 , HOH A:840 , GLN B:476
binding site for residue ATP A 603
04
AC4
SOFTWARE
ILE B:163 , THR B:165 , SER B:166 , ARG B:167 , ASP B:168 , THR B:184 , ASP B:186 , ILE B:188 , LYS B:208 , GLY B:209 , LYS B:210 , ATP B:602 , ATP B:605 , HOH B:708 , HOH B:727 , GLN F:170 , MG F:602
binding site for residue ATP B 601
05
AC5
SOFTWARE
ILE B:121 , PRO B:124 , VAL B:125 , PHE B:145 , ALA B:146 , GLY B:147 , SER B:166 , LYS B:210 , MET B:223 , SER B:225 , THR B:227 , ASP B:228 , ATP B:601 , HOH B:774 , MG F:602
binding site for residue ATP B 602
06
AC6
SOFTWARE
THR B:255 , ASP B:257 , SER B:278 , SER B:279 , PHE B:285 , HOH B:714 , HOH B:787 , HOH B:827 , GLN C:476
binding site for residue ATP B 603
07
AC7
SOFTWARE
GLN B:170 , ATP B:605 , ATP B:606
binding site for residue MG B 604
08
AC8
SOFTWARE
GLN B:170 , ATP B:601 , MG B:604 , ATP B:606 , THR F:165 , SER F:166 , ARG F:167 , ASP F:168 , VAL F:187 , ILE F:188
binding site for residue ATP B 605
09
AC9
SOFTWARE
MG B:604 , ATP B:605 , VAL F:125 , PHE F:145 , GLY F:147 , SER F:166
binding site for residue ATP B 606
10
AD1
SOFTWARE
ILE C:163 , THR C:165 , SER C:166 , ARG C:167 , ASP C:168 , THR C:184 , ILE C:188 , LYS C:208 , GLY C:209 , LYS C:210 , PRO C:212 , ATP C:602 , MG C:604 , HOH C:708 , HOH C:798 , GLN H:170 , HOH H:701
binding site for residue ATP C 601
11
AD2
SOFTWARE
ILE C:121 , PRO C:124 , VAL C:125 , PHE C:145 , ALA C:146 , GLY C:147 , SER C:166 , LYS C:210 , MET C:223 , SER C:225 , THR C:227 , ASP C:228 , ATP C:601 , MG C:604 , HOH C:701 , HOH C:800 , HOH C:808 , HOH C:814
binding site for residue ATP C 602
12
AD3
SOFTWARE
THR C:255 , ILE C:256 , SER C:278 , SER C:279 , PHE C:285 , HOH C:714 , HOH C:731 , HOH C:781 , HOH C:782 , HOH C:787 , HOH C:841 , GLN D:476
binding site for residue ATP C 603
13
AD4
SOFTWARE
LYS C:210 , ATP C:601 , ATP C:602
binding site for residue MG C 604
14
AD5
SOFTWARE
ATP H:601 , ATP H:602
binding site for residue MG C 605
15
AD6
SOFTWARE
ILE D:163 , THR D:165 , ARG D:167 , ASP D:168 , THR D:184 , ASP D:186 , ILE D:188 , LYS D:208 , GLY D:209 , LYS D:210 , ATP D:602 , HOH D:787 , GLN G:170 , ATP G:601 , MG G:604
binding site for residue ATP D 601
16
AD7
SOFTWARE
ILE D:121 , PRO D:124 , VAL D:125 , PHE D:145 , ALA D:146 , GLY D:147 , SER D:166 , LYS D:210 , MET D:223 , SER D:225 , THR D:227 , ASP D:228 , ATP D:601 , HOH D:751 , HOH D:796 , HOH D:838 , MG G:604
binding site for residue ATP D 602
17
AD8
SOFTWARE
GLN A:476 , THR D:255 , ASP D:257 , SER D:278 , SER D:279 , PHE D:285 , HOH D:714 , HOH D:717 , HOH D:729 , HOH D:757 , HOH D:798 , HOH D:851
binding site for residue ATP D 603
18
AD9
SOFTWARE
ATP G:601 , ATP G:602
binding site for residue MG D 604
19
AE1
SOFTWARE
THR E:165 , SER E:166 , ARG E:167 , ASP E:168 , THR E:184 , ASP E:186 , VAL E:187 , ILE E:188 , LYS E:208 , GLY E:209 , LYS E:210 , ATP E:602 , MG E:605 , HOH E:725
binding site for residue ATP E 601
20
AE2
SOFTWARE
PHE E:145 , ALA E:146 , PHE E:148 , SER E:166 , MET E:223 , THR E:227 , ATP E:601 , MG E:605
binding site for residue ATP E 602
21
AE3
SOFTWARE
THR E:255 , SER E:279 , PHE E:285 , GLN G:476
binding site for residue ATP E 603
22
AE4
SOFTWARE
LYS A:210 , ATP A:601 , ATP A:602 , GLN E:170
binding site for residue MG E 604
23
AE5
SOFTWARE
ATP E:601 , ATP E:602
binding site for residue MG E 605
24
AE6
SOFTWARE
THR F:255 , ILE F:256 , SER F:279 , PHE F:285
binding site for residue ATP F 601
25
AE7
SOFTWARE
LYS B:210 , ATP B:601 , ATP B:602
binding site for residue MG F 602
26
AE8
SOFTWARE
GLN D:170 , ATP D:601 , MG D:604 , THR G:165 , SER G:166 , ARG G:167 , ASP G:168 , THR G:184 , VAL G:187 , ILE G:188 , GLY G:209 , LYS G:210 , ATP G:602
binding site for residue ATP G 601
27
AE9
SOFTWARE
MG D:604 , PHE G:145 , ALA G:146 , GLY G:147 , SER G:166 , ATP G:601
binding site for residue ATP G 602
28
AF1
SOFTWARE
SER G:278 , SER G:279
binding site for residue ATP G 603
29
AF2
SOFTWARE
LYS D:210 , ATP D:601 , ATP D:602
binding site for residue MG G 604
30
AF3
SOFTWARE
GLN C:170 , MG C:605 , THR H:165 , SER H:166 , ARG H:167 , ASP H:168 , ILE H:188 , GLY H:209 , LYS H:210 , ATP H:602 , HOH H:701
binding site for residue ATP H 601
31
AF4
SOFTWARE
MG C:605 , VAL H:125 , PHE H:145 , ALA H:146 , GLY H:147 , PHE H:148 , SER H:166 , ASP H:228 , ATP H:601
binding site for residue ATP H 602
[
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 (1.4 MB)
Header - Asym.Unit
Biol.Unit 1 (1.4 MB)
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
5MCP
Jmol Script Commands
|
Jmol Color Schemes
|
Jmol Mouse Manual
|
Jmol Wiki
controls:
collapse
expand
Home
JenaLib
Jmol Scripting
Contact
Help
