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.
3FM3
Biol. Unit 2
Info
Asym.Unit (123 KB)
Biol.Unit 1 (61 KB)
Biol.Unit 2 (61 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 AN ENCEPHALITOZOON CUNICULI METHIONINE AMINOPEPTIDASE TYPE 2
Authors
:
J. J. Alvarado, M. Russell, A. Zhang, J. Adams, R. Toro, S. K. Burley, L. M. Weiss, S. C. Almo, New York Sgx Research Center For Structural Genomics (Nysgxrc)
Date
:
19 Dec 08 (Deposition) - 13 Jan 09 (Release) - 22 Dec 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.18
Chains
:
Asym. Unit : A,B
Biol. Unit 1: A (1x)
Biol. Unit 2: B (1x)
Keywords
:
Methionine Aminopeptidase Type2, Metap2, Encephalitozoon Cuniculi, Structural Genomics, Psi-2, Protein Structure Initiative, New York Sgx Research Center For Structural Genomics, Nysgxrc, Aminopeptidase, Cobalt, Hydrolase, Metal-Binding, Protease
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
J. J. Alvarado, A. Nemkal, J. M. Sauder, M. Russell, D. E. Akiyoshi, W. Shi, S. C. Almo, L. M. Weiss
Structure Of A Microsporidian Methionine Aminopeptidase Type 2 Complexed With Fumagillin And Tnp-470.
Mol. Biochem. Parasitol. V. 168 158 2009
(for further references see the
PDB file header
)
[
close entry info
]
Hetero Components
(1, 1)
Info
All Hetero Components
1a: FE (III) ION (FEa)
1b: FE (III) ION (FEb)
1c: FE (III) ION (FEc)
1d: FE (III) ION (FEd)
2a: SULFATE ION (SO4a)
2b: SULFATE ION (SO4b)
2c: SULFATE ION (SO4c)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
FE
-1
Ligand/Ion
FE (III) ION
2
SO4
1
Ligand/Ion
SULFATE ION
[
close Hetero Component info
]
Sites
(4, 4)
Info
All Sites
1: AC4 (SOFTWARE)
2: AC5 (SOFTWARE)
3: AC6 (SOFTWARE)
4: AC7 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
1
AC4
SOFTWARE
LYS A:88 , ARG B:77 , ARG B:296
BINDING SITE FOR RESIDUE SO4 A 603
2
AC5
SOFTWARE
ASP B:141 , HIS B:210 , GLU B:243 , GLU B:339 , HOH B:537 , FE B:552
BINDING SITE FOR RESIDUE FE B 551
3
AC6
SOFTWARE
PHE B:97 , ASP B:130 , ASP B:141 , GLU B:339 , HOH B:537 , FE B:551
BINDING SITE FOR RESIDUE FE B 552
4
AC7
SOFTWARE
LYS A:305 , HOH A:440 , ARG B:91 , ASP B:136 , PHE B:215 , HOH B:369 , HOH B:370 , HOH B:383
BINDING SITE FOR RESIDUE SO4 B 601
[
close Site info
]
SAPs(SNPs)/Variants
(1, 1)
Info
(mutated residues are only available for the asymmetric unit)
All SNPs/Variants
1: VAR_MAP2_ENCCU_001 (L288F, chain B, )
View:
Select:
Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
1
UniProt
VAR_MAP2_ENCCU_001
*
L
288
F
MAP2_ENCCU
---
---
B
L
288
F
* ID not provided by source
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
[
close SNP/Variant info
]
PROSITE Patterns/Profiles
(1, 1)
Info
All PROSITE Patterns/Profiles
1: MAP_2 (B:125-141)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
MAP_2
PS01202
Methionine aminopeptidase subfamily 2 signature.
MAP2_ENCCU
125-141
1
-
B:125-141
[
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
(0, 0)
Info
All SCOP Domains
View:
Select:
Label:
Sorry, no Info available
[
close SCOP info
]
CATH Domains
(2, 4)
Info
all CATH domains
1a: CATH_3fm3A01 (A:43-250,A:331-354)
1b: CATH_3fm3B01 (B:43-250,B:331-354)
2a: CATH_3fm3A02 (A:251-330)
2b: CATH_3fm3B02 (B:251-330)
View:
Select:
Label:
Classes
(
)
(
)
Architectures
(
)
(
)
Topologies
(
)
(
)
Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
Alpha-Beta Complex
(3881)
Topology
:
Creatine Amidinohydrolase
(114)
Homologous Superfamily
:
Creatinase/methionine aminopeptidase superfamily
(114)
Encephalitozoon cuniculi. Organism_taxid: 6035. Strain: gb-m1.
(3)
1a
3fm3A01
A:43-250,A:331-354
1b
3fm3B01
B:43-250,B:331-354
Class
:
Mainly Alpha
(13335)
Architecture
:
Orthogonal Bundle
(10391)
Topology
:
Arc Repressor Mutant, subunit A
(1030)
Homologous Superfamily
:
'winged helix' repressor DNA binding domain
(507)
Encephalitozoon cuniculi. Organism_taxid: 6035. Strain: gb-m1.
(3)
2a
3fm3A02
A:251-330
2b
3fm3B02
B:251-330
[
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 B
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 (123 KB)
Header - Asym.Unit
Biol.Unit 1 (61 KB)
Header - Biol.Unit 1
Biol.Unit 2 (61 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
3FM3
Jmol Script Commands
|
Jmol Color Schemes
|
Jmol Mouse Manual
|
Jmol Wiki
controls:
collapse
expand
Home
JenaLib
Jmol Scripting
Contact
Help
