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.
1M8P
Biol. Unit 1
Info
Asym.Unit (291 KB)
Biol.Unit 1 (566 KB)
Biol.Unit 2 (191 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 P. CHRYSOGENUM ATP SULFURYLASE IN THE T-STATE
Authors
:
I. J. Macrae, I. H. Segel, A. J. Fisher
Date
:
25 Jul 02 (Deposition) - 27 Nov 02 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.60
Chains
:
Asym. Unit : A,B,C
Biol. Unit 1: A,B,C (2x)
Biol. Unit 2: A,B (1x)
Keywords
:
Rossmann Fold, Phosphosulfate Binding, T-State, Transferase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
I. J. Macrae, I. H. Segel, A. J. Fisher
Allosteric Inhibition Via R-State Destabilization In Atp Sulfurylase From Penicillium Chrysogenum
Nat. Struct. Biol. V. 9 945 2002
[
close entry info
]
Hetero Components
(1, 6)
Info
All Hetero Components
1a: 3'-PHOSPHATE-ADENOSINE-5'-PHOSPHAT... (PPSa)
1b: 3'-PHOSPHATE-ADENOSINE-5'-PHOSPHAT... (PPSb)
1c: 3'-PHOSPHATE-ADENOSINE-5'-PHOSPHAT... (PPSc)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
PPS
6
Ligand/Ion
3'-PHOSPHATE-ADENOSINE-5'-PHOSPHATE SULFATE
[
close Hetero Component info
]
Sites
(3, 3)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
3: AC3 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
ASP A:434 , ARG A:437 , PHE A:446 , ARG A:451 , ASN A:454 , ILE A:477 , ALA A:478 , PRO A:479 , ARG A:515 , ILE A:517 , LYS A:527 , GLY A:528 , PHE A:529 , HOH A:612
BINDING SITE FOR RESIDUE PPS A 574
2
AC2
SOFTWARE
MET B:405 , ASP B:434 , ARG B:437 , PHE B:446 , ARG B:451 , ASN B:454 , PRO B:476 , ILE B:477 , ALA B:478 , PRO B:479 , ARG B:515 , LYS B:527 , GLY B:528 , PHE B:529 , THR B:530 , HOH B:604 , HOH B:669
BINDING SITE FOR RESIDUE PPS B 575
3
AC3
SOFTWARE
ASP C:434 , ARG C:437 , PHE C:446 , ARG C:451 , ASN C:454 , ILE C:455 , PRO C:476 , ILE C:477 , ALA C:478 , PRO C:479 , ARG C:515 , LYS C:527 , GLY C:528 , PHE C:529 , HOH C:699 , HOH C:740
BINDING SITE FOR RESIDUE PPS C 576
[
close Site info
]
SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are only available for the asymmetric unit)
All SNPs/Variants
View:
Select:
Label:
Sorry, no Info available
[
close SNP/Variant info
]
PROSITE Patterns/Profiles
(, 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.
(no "Exon" information available for biological units yet)
SCOP Domains
(3, 9)
Info
All SCOP Domains
1a: SCOP_d1m8pa1 (A:1-170)
1b: SCOP_d1m8pb1 (B:1-170)
1c: SCOP_d1m8pc1 (C:1-170)
2a: SCOP_d1m8pa2 (A:171-390)
2b: SCOP_d1m8pb2 (B:171-390)
2c: SCOP_d1m8pc2 (C:171-390)
3a: SCOP_d1m8pa3 (A:391-573)
3b: SCOP_d1m8pb3 (B:391-573)
3c: SCOP_d1m8pc3 (C:391-573)
View:
Select:
Label:
Classes
(
)
(
)
Folds
(
)
(
)
Superfamilies
(
)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
All beta proteins
(24004)
Fold
:
PUA domain-like
(96)
Superfamily
:
PUA domain-like
(96)
Family
:
ATP sulfurylase N-terminal domain
(15)
Protein domain
:
ATP sulfurylase N-terminal domain
(15)
Fungus (Penicillium chrysogenum) [TaxId: 5076]
(2)
1a
d1m8pa1
A:1-170
1b
d1m8pb1
B:1-170
1c
d1m8pc1
C:1-170
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
Adenine nucleotide alpha hydrolase-like
(440)
Superfamily
:
Nucleotidylyl transferase
(325)
Family
:
ATP sulfurylase catalytic domain
(16)
Protein domain
:
ATP sulfurylase catalytic domain
(15)
Fungus (Penicillium chrysogenum) [TaxId: 5076]
(2)
2a
d1m8pa2
A:171-390
2b
d1m8pb2
B:171-390
2c
d1m8pc2
C:171-390
Fold
:
P-loop containing nucleoside triphosphate hydrolases
(2083)
Superfamily
:
P-loop containing nucleoside triphosphate hydrolases
(2083)
Family
:
ATP sulfurylase C-terminal domain
(9)
Protein domain
:
ATP sulfurylase C-terminal domain
(9)
Fungus (Penicillium chrysogenum) [TaxId: 5076]
(2)
3a
d1m8pa3
A:391-573
3b
d1m8pb3
B:391-573
3c
d1m8pc3
C:391-573
[
close SCOP info
]
CATH Domains
(3, 9)
Info
all CATH domains
1a: CATH_1m8pA03 (A:390-573)
1b: CATH_1m8pC03 (C:390-573)
1c: CATH_1m8pB03 (B:390-572)
2a: CATH_1m8pA01 (A:190-389)
2b: CATH_1m8pB01 (B:190-389)
2c: CATH_1m8pC01 (C:190-389)
3a: CATH_1m8pA02 (A:2-189)
3b: CATH_1m8pB02 (B:2-189)
3c: CATH_1m8pC02 (C:2-189)
View:
Select:
Label:
Classes
(
)
(
)
Architectures
(
)
(
)
Topologies
(
)
(
)
Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
3-Layer(aba) Sandwich
(12045)
Topology
:
Rossmann fold
(7312)
Homologous Superfamily
:
P-loop containing nucleotide triphosphate hydrolases
(1378)
Penicillium chrysogenum. Organism_taxid: 5076.
(4)
1a
1m8pA03
A:390-573
1b
1m8pC03
C:390-573
1c
1m8pB03
B:390-572
Homologous Superfamily
:
Tyrosyl-Transfer RNA Synthetase , subunit E, domain 1
(328)
Penicillium chrysogenum. Organism_taxid: 5076.
(1)
2a
1m8pA01
A:190-389
2b
1m8pB01
B:190-389
2c
1m8pC01
C:190-389
Architecture
:
Roll
(3276)
Topology
:
Sulfate adenylyltransferase
(12)
Homologous Superfamily
:
Sulfate adenylyltransferase
(12)
Penicillium chrysogenum. Organism_taxid: 5076.
(1)
3a
1m8pA02
A:2-189
3b
1m8pB02
B:2-189
3c
1m8pC02
C:2-189
[
close CATH info
]
Pfam Domains
(3, 9)
Info
all PFAM domains
1a: PFAM_ATP_sulfurylase_1m8pC01 (C:171-389)
1b: PFAM_ATP_sulfurylase_1m8pC02 (C:171-389)
1c: PFAM_ATP_sulfurylase_1m8pC03 (C:171-389)
2a: PFAM_APS_kinase_1m8pC04 (C:395-553)
2b: PFAM_APS_kinase_1m8pC05 (C:395-553)
2c: PFAM_APS_kinase_1m8pC06 (C:395-553)
3a: PFAM_PUA_2_1m8pC07 (C:3-165)
3b: PFAM_PUA_2_1m8pC08 (C:3-165)
3c: PFAM_PUA_2_1m8pC09 (C:3-165)
View:
Select:
Label:
Clans
(
)
(
)
Families
(
)
(
)
Organisms
(
)
(
)
Clan
:
HUP
(230)
Family
:
ATP-sulfurylase
(9)
Penicillium chrysogenum (Penicillium notatum)
(1)
1a
ATP-sulfurylase-1m8pC01
C:171-389
1b
ATP-sulfurylase-1m8pC02
C:171-389
1c
ATP-sulfurylase-1m8pC03
C:171-389
Clan
:
P-loop_NTPase
(1112)
Family
:
APS_kinase
(10)
Penicillium chrysogenum (Penicillium notatum)
(2)
2a
APS_kinase-1m8pC04
C:395-553
2b
APS_kinase-1m8pC05
C:395-553
2c
APS_kinase-1m8pC06
C:395-553
Clan
:
PUA
(42)
Family
:
PUA_2
(11)
Penicillium chrysogenum (Penicillium notatum)
(1)
3a
PUA_2-1m8pC07
C:3-165
3b
PUA_2-1m8pC08
C:3-165
3c
PUA_2-1m8pC09
C:3-165
[
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
Asymmetric Unit 1
Asymmetric Unit 2
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 (291 KB)
Header - Asym.Unit
Biol.Unit 1 (566 KB)
Header - Biol.Unit 1
Biol.Unit 2 (191 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
1M8P
Jmol Script Commands
|
Jmol Color Schemes
|
Jmol Mouse Manual
|
Jmol Wiki
controls:
collapse
expand
Home
JenaLib
Jmol Scripting
Contact
Help
