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.
1P48
Asym. Unit
Info
Asym.Unit (152 KB)
Biol.Unit 1 (148 KB)
(using Jmol or JSmol)
spin
show selected part
auto zoom/center
Standard Views
(
Basic
|
Advanced
Interface
)
(
Basic
|
Advanced
Interface
)
Help
(1)
Title
:
REVERSE PROTONATION IS THE KEY TO GENERAL ACID-BASE CATALYSIS IN ENOLASE
Authors
:
P. A. Sims, T. M. Larsen, R. R. Poyner, W. W. Cleland, G. H. Reed
Date
:
21 Apr 03 (Deposition) - 18 Nov 03 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.00
Chains
:
Asym. Unit : A,B
Biol. Unit 1: A,B (1x)
Keywords
:
Beta Barrel, Lyase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
P. A. Sims, T. M. Larsen, R. R. Poyner, W. W. Cleland, G. H. Reed
Reverse Protonation Is The Key To General Acid-Base Catalysis In Enolase
Biochemistry V. 42 8298 2003
(for further references see the
PDB file header
)
[
close entry info
]
Hetero Components
(2, 6)
Info
All Hetero Components
1a: MAGNESIUM ION (MGa)
1b: MAGNESIUM ION (MGb)
1c: MAGNESIUM ION (MGc)
1d: MAGNESIUM ION (MGd)
2a: PHOSPHOENOLPYRUVATE (PEPa)
2b: PHOSPHOENOLPYRUVATE (PEPb)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
MG
4
Ligand/Ion
MAGNESIUM ION
2
PEP
2
Ligand/Ion
PHOSPHOENOLPYRUVATE
[
close Hetero Component info
]
Sites
(6, 6)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
3: AC3 (SOFTWARE)
4: AC4 (SOFTWARE)
5: AC5 (SOFTWARE)
6: AC6 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
ASP A:246 , GLU A:295 , ASP A:320 , PEP A:440 , HOH A:1003
BINDING SITE FOR RESIDUE MG A 438
2
AC2
SOFTWARE
SER A:39 , PEP A:440 , HOH A:1001 , HOH A:1002
BINDING SITE FOR RESIDUE MG A 439
3
AC3
SOFTWARE
ASP B:746 , GLU B:795 , ASP B:820 , PEP B:940 , HOH B:1006
BINDING SITE FOR RESIDUE MG B 938
4
AC4
SOFTWARE
SER B:539 , PEP B:940 , HOH B:1004 , HOH B:1005
BINDING SITE FOR RESIDUE MG B 939
5
AC5
SOFTWARE
GLY A:37 , ALA A:38 , SER A:39 , GLN A:167 , GLU A:168 , ASP A:246 , GLU A:295 , ASP A:320 , LYS A:345 , HIS A:373 , ARG A:374 , SER A:375 , LYS A:396 , MG A:438 , MG A:439 , HOH A:1001 , HOH A:1002 , HOH A:1547
BINDING SITE FOR RESIDUE PEP A 440
6
AC6
SOFTWARE
GLY B:537 , ALA B:538 , SER B:539 , GLN B:667 , GLU B:668 , ASP B:746 , GLU B:795 , ASP B:820 , LEU B:843 , LYS B:845 , HIS B:873 , ARG B:874 , SER B:875 , LYS B:896 , MG B:938 , MG B:939 , HOH B:1004 , HOH B:1317
BINDING SITE FOR RESIDUE PEP B 940
[
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
(1, 2)
Info
All PROSITE Patterns/Profiles
1: ENOLASE (A:342-355,B:842-855)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
ENOLASE
PS00164
Enolase signature.
ENO1_YEAST
343-356
2
A:342-355
B:842-855
[
close PROSITE info
]
Exons
(1, 2)
Info
All Exons
Exon 1.1 (A:1-436 | B:501-936)
View:
Select:
Label:
All Exon Boundaries
1: Boundary -/1.1
2: Boundary 1.1/-
View:
Label:
Note:
Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
ENSEMBL
UniProtKB
PDB
No.
Transcript ID
Exon
Exon ID
Genome Location
Length
ID
Location
Length
Count
Location
Length
1.1
YGR254W
1
YGR254W.1
VII:1000932-1002245
1314
ENO1_YEAST
1-437
437
2
A:1-436
B:501-936
436
436
[
close EXON info
]
SCOP Domains
(2, 4)
Info
All SCOP Domains
1a: SCOP_d1p48a2 (A:1-141)
1b: SCOP_d1p48b2 (B:501-641)
2a: SCOP_d1p48a1 (A:142-436)
2b: SCOP_d1p48b1 (B:642-936)
View:
Select:
Label:
Classes
(
)
(
)
Folds
(
)
(
)
Superfamilies
(
)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha and beta proteins (a+b)
(23004)
Fold
:
Enolase N-terminal domain-like
(211)
Superfamily
:
Enolase N-terminal domain-like
(211)
Family
:
Enolase N-terminal domain-like
(88)
Protein domain
:
Enolase
(39)
Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]
(16)
1a
d1p48a2
A:1-141
1b
d1p48b2
B:501-641
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
TIM beta/alpha-barrel
(3956)
Superfamily
:
Enolase C-terminal domain-like
(212)
Family
:
Enolase
(45)
Protein domain
:
Enolase
(39)
Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]
(16)
2a
d1p48a1
A:142-436
2b
d1p48b1
B:642-936
[
close SCOP info
]
CATH Domains
(2, 4)
Info
all CATH domains
1a: CATH_1p48A01 (A:1-126)
1b: CATH_1p48B01 (B:501-626)
2a: CATH_1p48A02 (A:127-436)
2b: CATH_1p48B02 (B:627-936)
View:
Select:
Label:
Classes
(
)
(
)
Architectures
(
)
(
)
Topologies
(
)
(
)
Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
2-Layer Sandwich
(8480)
Topology
:
Enolase-like; domain 1
(252)
Homologous Superfamily
:
Enolase-like, N-terminal domain
(130)
Baker's yeast (Saccharomyces cerevisiae)
(16)
1a
1p48A01
A:1-126
1b
1p48B01
B:501-626
Architecture
:
Alpha-Beta Barrel
(2994)
Topology
:
TIM Barrel
(2806)
Homologous Superfamily
:
Enolase superfamily
(142)
Baker's yeast (Saccharomyces cerevisiae)
(16)
2a
1p48A02
A:127-436
2b
1p48B02
B:627-936
[
close CATH info
]
Pfam Domains
(2, 4)
Info
all PFAM domains
1a: PFAM_Enolase_N_1p48B01 (B:501-633)
1b: PFAM_Enolase_N_1p48B02 (B:501-633)
2a: PFAM_Enolase_C_1p48B03 (B:643-934)
2b: PFAM_Enolase_C_1p48B04 (B:643-934)
View:
Select:
Label:
Clans
(
)
(
)
Families
(
)
(
)
Organisms
(
)
(
)
Clan
:
Enolase_N
(69)
Family
:
Enolase_N
(20)
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Bakers yeast)
(11)
1a
Enolase_N-1p48B01
B:501-633
1b
Enolase_N-1p48B02
B:501-633
Clan
:
Enolase_TIM
(82)
Family
:
Enolase_C
(20)
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Bakers yeast)
(11)
2a
Enolase_C-1p48B03
B:643-934
2b
Enolase_C-1p48B04
B:643-934
[
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
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 (152 KB)
Header - Asym.Unit
Biol.Unit 1 (148 KB)
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
1P48
Jmol Script Commands
|
Jmol Color Schemes
|
Jmol Mouse Manual
|
Jmol Wiki
controls:
collapse
expand
Home
JenaLib
Jmol Scripting
Contact
Help