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.
4RUK
Asym. Unit
Info
Asym.Unit (175 KB)
Biol.Unit 1 (86 KB)
Biol.Unit 2 (86 KB)
(using Jmol or JSmol)
spin
show selected part
auto zoom/center
Standard Views
(
Basic
|
Advanced
Interface
)
(
Basic
|
Advanced
Interface
)
Help
(1)
Title
:
CRYSTAL STRUCTURE OF PHOSPHOAPANTETHEINE ADENYLYLTRANSFERASE PPAT/COAD WITH COA AND PYROPHOSPHATE FROM PSEUDOMONAS AERUGINOSA
Authors
:
R. Chatterjee, S. Datta
Date
:
20 Nov 14 (Deposition) - 25 Nov 15 (Release) - 04 May 16 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.20
Chains
:
Asym. Unit : A,B,C,D,E,F
Biol. Unit 1: A,C,F (1x)
Biol. Unit 2: B,D,E (1x)
Keywords
:
Rossmann Fold, Transferase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
R. Chatterjee, A. Mondal, A. Basu, S. Datta
Transition Of Phosphopantetheine Adenylyltransferase From Catalytic To Allosteric State Is Characterized By Ternary Complex Formation In Pseudomonas Aeruginosa
Biochim. Biophys. Acta V. 1864 773 2016
[
close entry info
]
Hetero Components
(7, 39)
Info
All Hetero Components
1a: ACETATE ION (ACTa)
1b: ACETATE ION (ACTb)
1c: ACETATE ION (ACTc)
1d: ACETATE ION (ACTd)
2a: CALCIUM ION (CAa)
2b: CALCIUM ION (CAb)
3a: COENZYME A (COAa)
3b: COENZYME A (COAb)
3c: COENZYME A (COAc)
3d: COENZYME A (COAd)
3e: COENZYME A (COAe)
3f: COENZYME A (COAf)
4a: DIMETHYL SULFOXIDE (DMSa)
4b: DIMETHYL SULFOXIDE (DMSb)
4c: DIMETHYL SULFOXIDE (DMSc)
4d: DIMETHYL SULFOXIDE (DMSd)
4e: DIMETHYL SULFOXIDE (DMSe)
4f: DIMETHYL SULFOXIDE (DMSf)
4g: DIMETHYL SULFOXIDE (DMSg)
4h: DIMETHYL SULFOXIDE (DMSh)
4i: DIMETHYL SULFOXIDE (DMSi)
5a: FORMIC ACID (FMTa)
5b: FORMIC ACID (FMTb)
5c: FORMIC ACID (FMTc)
5d: FORMIC ACID (FMTd)
5e: FORMIC ACID (FMTe)
5f: FORMIC ACID (FMTf)
5g: FORMIC ACID (FMTg)
5h: FORMIC ACID (FMTh)
5i: FORMIC ACID (FMTi)
5j: FORMIC ACID (FMTj)
5k: FORMIC ACID (FMTk)
5l: FORMIC ACID (FMTl)
5m: FORMIC ACID (FMTm)
5n: FORMIC ACID (FMTn)
5o: FORMIC ACID (FMTo)
6a: GLYCEROL (GOLa)
7a: PYROPHOSPHATE 2- (POPa)
7b: PYROPHOSPHATE 2- (POPb)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
ACT
4
Ligand/Ion
ACETATE ION
2
CA
2
Ligand/Ion
CALCIUM ION
3
COA
6
Ligand/Ion
COENZYME A
4
DMS
9
Ligand/Ion
DIMETHYL SULFOXIDE
5
FMT
15
Ligand/Ion
FORMIC ACID
6
GOL
1
Ligand/Ion
GLYCEROL
7
POP
2
Ligand/Ion
PYROPHOSPHATE 2-
[
close Hetero Component info
]
Sites
(37, 37)
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)
14: BC5 (SOFTWARE)
15: BC6 (SOFTWARE)
16: BC7 (SOFTWARE)
17: BC8 (SOFTWARE)
18: BC9 (SOFTWARE)
19: CC1 (SOFTWARE)
20: CC2 (SOFTWARE)
21: CC3 (SOFTWARE)
22: CC4 (SOFTWARE)
23: CC5 (SOFTWARE)
24: CC6 (SOFTWARE)
25: CC7 (SOFTWARE)
26: CC8 (SOFTWARE)
27: CC9 (SOFTWARE)
28: DC1 (SOFTWARE)
29: DC2 (SOFTWARE)
30: DC3 (SOFTWARE)
31: DC4 (SOFTWARE)
32: DC5 (SOFTWARE)
33: DC6 (SOFTWARE)
34: DC7 (SOFTWARE)
35: DC8 (SOFTWARE)
36: DC9 (SOFTWARE)
37: EC1 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
PRO A:7 , GLY A:8 , THR A:9 , HIS A:17 , LYS A:41 , LEU A:72 , LEU A:73 , ARG A:87 , ARG A:90 , TYR A:97 , LEU A:101 , SER A:127 , SER A:128 , THR A:129 , ARG A:132 , DMS A:204 , DMS A:205 , ACT A:208 , HOH A:320 , HOH A:321 , LEU F:130 , GLU F:133
BINDING SITE FOR RESIDUE COA A 201
02
AC2
SOFTWARE
LYS A:15 , ASP A:19 , TYR A:123
BINDING SITE FOR RESIDUE DMS A 202
03
AC3
SOFTWARE
ALA A:135 , GLY A:138 , GLY A:139 , ASP A:140 , ILE A:141
BINDING SITE FOR RESIDUE DMS A 203
04
AC4
SOFTWARE
ALA A:36 , ALA A:37 , SER A:38 , PHE A:69 , THR A:71 , COA A:201 , HOH A:317 , LEU F:137
BINDING SITE FOR RESIDUE DMS A 204
05
AC5
SOFTWARE
GLY A:16 , ARG A:90 , COA A:201 , ACT A:208
BINDING SITE FOR RESIDUE DMS A 205
06
AC6
SOFTWARE
ASP A:140
BINDING SITE FOR RESIDUE FMT A 206
07
AC7
SOFTWARE
TYR A:6 , PRO A:7 , ARG A:87 , GLY A:88 , COA A:201 , DMS A:205
BINDING SITE FOR RESIDUE ACT A 208
08
AC8
SOFTWARE
PRO B:7 , GLY B:8 , THR B:9 , HIS B:17 , ALA B:36 , LYS B:41 , PHE B:69 , THR B:71 , LEU B:72 , LEU B:73 , ARG B:87 , TYR B:97 , LEU B:101 , SER B:127 , SER B:128 , THR B:129 , ARG B:132 , HOH B:306 , GLU E:133 , LEU E:137
BINDING SITE FOR RESIDUE COA B 201
09
AC9
SOFTWARE
SER B:25
BINDING SITE FOR RESIDUE FMT B 202
10
BC1
SOFTWARE
VAL B:67 , GLY B:68
BINDING SITE FOR RESIDUE FMT B 204
11
BC2
SOFTWARE
GLN B:55 , GLU B:65 , VAL B:66
BINDING SITE FOR RESIDUE FMT B 205
12
BC3
SOFTWARE
GLU B:65 , VAL B:67 , GLN B:80
BINDING SITE FOR RESIDUE FMT B 206
13
BC4
SOFTWARE
ASP B:140 , ILE B:141 , SER B:142 , LYS B:143 , PHE B:144
BINDING SITE FOR RESIDUE FMT B 207
14
BC5
SOFTWARE
LEU A:130 , GLU A:133 , LEU A:137 , GLY C:8 , THR C:9 , LYS C:41 , PHE C:69 , LEU C:72 , LEU C:73 , ARG C:87 , TYR C:97 , LEU C:101 , SER C:127 , SER C:128 , THR C:129 , HOH C:305
BINDING SITE FOR RESIDUE COA C 201
15
BC6
SOFTWARE
LYS C:81 , ALA C:82
BINDING SITE FOR RESIDUE FMT C 202
16
BC7
SOFTWARE
LYS C:15 , GLY C:18 , ASP C:19 , HOH C:317
BINDING SITE FOR RESIDUE FMT C 203
17
BC8
SOFTWARE
GLU C:65 , GLN C:80
BINDING SITE FOR RESIDUE FMT C 204
18
BC9
SOFTWARE
ASN C:83 , ASP C:111 , ARG D:26
BINDING SITE FOR RESIDUE FMT C 205
19
CC1
SOFTWARE
TYR C:6 , HIS C:17 , ARG C:87 , GLY C:88 , ARG C:90
BINDING SITE FOR RESIDUE ACT C 206
20
CC2
SOFTWARE
GLU B:133 , LEU B:137 , PRO D:7 , GLY D:8 , THR D:9 , LYS D:41 , LEU D:72 , LEU D:73 , ARG D:87 , ARG D:90 , SER D:93 , ASP D:94 , TYR D:97 , LEU D:101 , SER D:127 , SER D:128 , THR D:129 , DMS D:203 , HOH D:318
BINDING SITE FOR RESIDUE COA D 201
21
CC3
SOFTWARE
TYR D:6 , HIS D:17 , LEU D:20 , ARG D:87 , GLY D:88 , ARG D:90
BINDING SITE FOR RESIDUE POP D 202
22
CC4
SOFTWARE
LEU B:137 , ALA D:36 , ALA D:37 , SER D:38 , PHE D:69 , SER D:70 , THR D:71 , COA D:201
BINDING SITE FOR RESIDUE DMS D 203
23
CC5
SOFTWARE
GLY D:68 , PHE D:69 , SER D:70 , THR D:71 , FMT D:205
BINDING SITE FOR RESIDUE DMS D 204
24
CC6
SOFTWARE
DMS D:204
BINDING SITE FOR RESIDUE FMT D 205
25
CC7
SOFTWARE
LYS D:40 , LYS D:41
BINDING SITE FOR RESIDUE GOL D 206
26
CC8
SOFTWARE
ARG E:132
BINDING SITE FOR RESIDUE FMT E 201
27
CC9
SOFTWARE
LEU D:130 , ILE D:134 , LEU D:137 , PRO E:7 , GLY E:8 , THR E:9 , PHE E:10 , HIS E:17 , ALA E:36 , SER E:38 , LYS E:41 , PHE E:69 , SER E:70 , THR E:71 , LEU E:73 , ARG E:87 , TYR E:97 , LEU E:101 , SER E:127 , SER E:128 , THR E:129 , CA E:203 , ACT E:206 , HOH E:303 , HOH E:305
BINDING SITE FOR RESIDUE COA E 202
28
DC1
SOFTWARE
HIS E:17 , ARG E:90 , SER E:128 , COA E:202
BINDING SITE FOR RESIDUE CA E 203
29
DC2
SOFTWARE
LYS E:15 , GLY E:18 , ASP E:19
BINDING SITE FOR RESIDUE DMS E 204
30
DC3
SOFTWARE
SER E:25 , ARG E:26 , LEU E:27 , PHE E:28
BINDING SITE FOR RESIDUE FMT E 205
31
DC4
SOFTWARE
TYR E:6 , ARG E:87 , GLY E:88 , ARG E:90 , COA E:202
BINDING SITE FOR RESIDUE ACT E 206
32
DC5
SOFTWARE
LEU C:130 , LEU C:137 , PRO F:7 , GLY F:8 , THR F:9 , PHE F:10 , HIS F:17 , ALA F:36 , ALA F:37 , SER F:38 , LYS F:41 , PHE F:69 , SER F:70 , THR F:71 , LEU F:72 , LEU F:73 , ARG F:87 , TYR F:97 , LEU F:101 , SER F:127 , SER F:128 , THR F:129 , CA F:203 , ACT F:206 , HOH F:305 , HOH F:310 , HOH F:318
BINDING SITE FOR RESIDUE COA F 201
33
DC6
SOFTWARE
LYS F:15 , GLY F:18 , ASP F:19 , GLU F:22 , VAL F:57
BINDING SITE FOR RESIDUE POP F 202
34
DC7
SOFTWARE
HIS F:17 , SER F:128 , COA F:201 , HOH F:314
BINDING SITE FOR RESIDUE CA F 203
35
DC8
SOFTWARE
ARG B:26 , ASN F:83 , ASP F:111
BINDING SITE FOR RESIDUE DMS F 204
36
DC9
SOFTWARE
MET F:1 , ARG F:3 , LYS F:81
BINDING SITE FOR RESIDUE DMS F 205
37
EC1
SOFTWARE
TYR F:6 , ARG F:87 , GLY F:88 , ARG F:90 , COA F:201
BINDING SITE FOR RESIDUE ACT F 206
[
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
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 (175 KB)
Header - Asym.Unit
Biol.Unit 1 (86 KB)
Header - Biol.Unit 1
Biol.Unit 2 (86 KB)
Header - Biol.Unit 2
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
4RUK
Jmol Script Commands
|
Jmol Color Schemes
|
Jmol Mouse Manual
|
Jmol Wiki
controls:
collapse
expand
Home
JenaLib
Jmol Scripting
Contact
Help
