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.
1WE5
Asym. Unit
Info
Asym.Unit (766 KB)
Biol.Unit 1 (751 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 ALPHA-XYLOSIDASE FROM ESCHERICHIA COLI
Authors
:
T. Ose, M. Kitamura, M. Okuyama, H. Mori, A. Kimura, N. Watanabe, M. Yao, I. Tanaka
Date
:
24 May 04 (Deposition) - 15 Feb 05 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.40
Chains
:
Asym. Unit : A,B,C,D,E,F
Biol. Unit 1: A,B,C,D,E,F (1x)
Keywords
:
Tim Barrel, Glycoside Hydrolase, Gh Family 31
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
T. Ose, M. Kitamura, M. Okuyama, H. Mori, A. Kimura, N. Watanabe, M. Yao, I. Tanaka
Crystal Structure Of Alpha-Xylosidase From Escherichia Coli
To Be Published
(for further references see the
PDB file header
)
[
close entry info
]
Hetero Components
(2, 120)
Info
All Hetero Components
1a: 2-(N-MORPHOLINO)-ETHANESULFONIC AC... (MESa)
1b: 2-(N-MORPHOLINO)-ETHANESULFONIC AC... (MESb)
1c: 2-(N-MORPHOLINO)-ETHANESULFONIC AC... (MESc)
1d: 2-(N-MORPHOLINO)-ETHANESULFONIC AC... (MESd)
1e: 2-(N-MORPHOLINO)-ETHANESULFONIC AC... (MESe)
1f: 2-(N-MORPHOLINO)-ETHANESULFONIC AC... (MESf)
2a: SELENOMETHIONINE (MSEa)
2aa: SELENOMETHIONINE (MSEaa)
2ab: SELENOMETHIONINE (MSEab)
2ac: SELENOMETHIONINE (MSEac)
2ad: SELENOMETHIONINE (MSEad)
2ae: SELENOMETHIONINE (MSEae)
2af: SELENOMETHIONINE (MSEaf)
2ag: SELENOMETHIONINE (MSEag)
2ah: SELENOMETHIONINE (MSEah)
2ai: SELENOMETHIONINE (MSEai)
2aj: SELENOMETHIONINE (MSEaj)
2ak: SELENOMETHIONINE (MSEak)
2al: SELENOMETHIONINE (MSEal)
2am: SELENOMETHIONINE (MSEam)
2an: SELENOMETHIONINE (MSEan)
2ao: SELENOMETHIONINE (MSEao)
2ap: SELENOMETHIONINE (MSEap)
2aq: SELENOMETHIONINE (MSEaq)
2ar: SELENOMETHIONINE (MSEar)
2as: SELENOMETHIONINE (MSEas)
2at: SELENOMETHIONINE (MSEat)
2au: SELENOMETHIONINE (MSEau)
2av: SELENOMETHIONINE (MSEav)
2aw: SELENOMETHIONINE (MSEaw)
2ax: SELENOMETHIONINE (MSEax)
2ay: SELENOMETHIONINE (MSEay)
2az: SELENOMETHIONINE (MSEaz)
2b: SELENOMETHIONINE (MSEb)
2ba: SELENOMETHIONINE (MSEba)
2bb: SELENOMETHIONINE (MSEbb)
2bc: SELENOMETHIONINE (MSEbc)
2bd: SELENOMETHIONINE (MSEbd)
2be: SELENOMETHIONINE (MSEbe)
2bf: SELENOMETHIONINE (MSEbf)
2bg: SELENOMETHIONINE (MSEbg)
2bh: SELENOMETHIONINE (MSEbh)
2bi: SELENOMETHIONINE (MSEbi)
2bj: SELENOMETHIONINE (MSEbj)
2bk: SELENOMETHIONINE (MSEbk)
2bl: SELENOMETHIONINE (MSEbl)
2bm: SELENOMETHIONINE (MSEbm)
2bn: SELENOMETHIONINE (MSEbn)
2bo: SELENOMETHIONINE (MSEbo)
2bp: SELENOMETHIONINE (MSEbp)
2bq: SELENOMETHIONINE (MSEbq)
2br: SELENOMETHIONINE (MSEbr)
2bs: SELENOMETHIONINE (MSEbs)
2bt: SELENOMETHIONINE (MSEbt)
2bu: SELENOMETHIONINE (MSEbu)
2bv: SELENOMETHIONINE (MSEbv)
2bw: SELENOMETHIONINE (MSEbw)
2bx: SELENOMETHIONINE (MSEbx)
2by: SELENOMETHIONINE (MSEby)
2bz: SELENOMETHIONINE (MSEbz)
2c: SELENOMETHIONINE (MSEc)
2ca: SELENOMETHIONINE (MSEca)
2cb: SELENOMETHIONINE (MSEcb)
2cc: SELENOMETHIONINE (MSEcc)
2cd: SELENOMETHIONINE (MSEcd)
2ce: SELENOMETHIONINE (MSEce)
2cf: SELENOMETHIONINE (MSEcf)
2cg: SELENOMETHIONINE (MSEcg)
2ch: SELENOMETHIONINE (MSEch)
2ci: SELENOMETHIONINE (MSEci)
2cj: SELENOMETHIONINE (MSEcj)
2ck: SELENOMETHIONINE (MSEck)
2cl: SELENOMETHIONINE (MSEcl)
2cm: SELENOMETHIONINE (MSEcm)
2cn: SELENOMETHIONINE (MSEcn)
2co: SELENOMETHIONINE (MSEco)
2cp: SELENOMETHIONINE (MSEcp)
2cq: SELENOMETHIONINE (MSEcq)
2cr: SELENOMETHIONINE (MSEcr)
2cs: SELENOMETHIONINE (MSEcs)
2ct: SELENOMETHIONINE (MSEct)
2cu: SELENOMETHIONINE (MSEcu)
2cv: SELENOMETHIONINE (MSEcv)
2cw: SELENOMETHIONINE (MSEcw)
2cx: SELENOMETHIONINE (MSEcx)
2cy: SELENOMETHIONINE (MSEcy)
2cz: SELENOMETHIONINE (MSEcz)
2d: SELENOMETHIONINE (MSEd)
2da: SELENOMETHIONINE (MSEda)
2db: SELENOMETHIONINE (MSEdb)
2dc: SELENOMETHIONINE (MSEdc)
2dd: SELENOMETHIONINE (MSEdd)
2de: SELENOMETHIONINE (MSEde)
2df: SELENOMETHIONINE (MSEdf)
2dg: SELENOMETHIONINE (MSEdg)
2dh: SELENOMETHIONINE (MSEdh)
2di: SELENOMETHIONINE (MSEdi)
2dj: SELENOMETHIONINE (MSEdj)
2e: SELENOMETHIONINE (MSEe)
2f: SELENOMETHIONINE (MSEf)
2g: SELENOMETHIONINE (MSEg)
2h: SELENOMETHIONINE (MSEh)
2i: SELENOMETHIONINE (MSEi)
2j: SELENOMETHIONINE (MSEj)
2k: SELENOMETHIONINE (MSEk)
2l: SELENOMETHIONINE (MSEl)
2m: SELENOMETHIONINE (MSEm)
2n: SELENOMETHIONINE (MSEn)
2o: SELENOMETHIONINE (MSEo)
2p: SELENOMETHIONINE (MSEp)
2q: SELENOMETHIONINE (MSEq)
2r: SELENOMETHIONINE (MSEr)
2s: SELENOMETHIONINE (MSEs)
2t: SELENOMETHIONINE (MSEt)
2u: SELENOMETHIONINE (MSEu)
2v: SELENOMETHIONINE (MSEv)
2w: SELENOMETHIONINE (MSEw)
2x: SELENOMETHIONINE (MSEx)
2y: SELENOMETHIONINE (MSEy)
2z: SELENOMETHIONINE (MSEz)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
MES
6
Ligand/Ion
2-(N-MORPHOLINO)-ETHANESULFONIC ACID
2
MSE
114
Mod. Amino Acid
SELENOMETHIONINE
[
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
PHE A:277 , HIS A:304 , ASP A:306 , CYS A:307 , TRP A:345 , TRP A:380 , LYS A:414 , ASP A:416 , ARG A:538
BINDING SITE FOR RESIDUE MES A 801
2
AC2
SOFTWARE
THR B:274 , HIS B:304 , ASP B:306 , TRP B:345 , LYS B:414 , ASP B:416 , ARG B:538
BINDING SITE FOR RESIDUE MES B 802
3
AC3
SOFTWARE
PHE C:277 , HIS C:304 , ASP C:306 , TRP C:345 , TRP C:380 , LYS C:414 , ASP C:416 , ARG C:538
BINDING SITE FOR RESIDUE MES C 803
4
AC4
SOFTWARE
THR D:274 , HIS D:304 , ASP D:306 , TRP D:345 , TRP D:380 , LYS D:414 , ASP D:416 , PHE D:417 , ARG D:538
BINDING SITE FOR RESIDUE MES D 804
5
AC5
SOFTWARE
HIS E:304 , ASP E:306 , TRP E:345 , TRP E:380 , LYS E:414 , ASP E:416 , ARG E:538
BINDING SITE FOR RESIDUE MES E 805
6
AC6
SOFTWARE
PHE F:277 , HIS F:304 , ASP F:306 , CYS F:307 , TRP F:345 , TRP F:380 , LYS F:414 , ASP F:416 , ARG F:538
BINDING SITE FOR RESIDUE MES F 806
[
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
(4, 24)
Info
All SCOP Domains
1a: SCOP_d1we5a3 (A:586-665)
1b: SCOP_d1we5b3 (B:586-665)
1c: SCOP_d1we5c3 (C:586-665)
1d: SCOP_d1we5d3 (D:586-665)
1e: SCOP_d1we5e3 (E:586-665)
1f: SCOP_d1we5f3 (F:586-665)
2a: SCOP_d1we5a1 (A:666-772)
2b: SCOP_d1we5b1 (B:666-772)
2c: SCOP_d1we5c1 (C:666-772)
2d: SCOP_d1we5d1 (D:666-772)
2e: SCOP_d1we5e1 (E:666-772)
2f: SCOP_d1we5f1 (F:666-772)
3a: SCOP_d1we5a2 (A:1-247)
3b: SCOP_d1we5b2 (B:1-247)
3c: SCOP_d1we5c2 (C:1-247)
3d: SCOP_d1we5d2 (D:1-247)
3e: SCOP_d1we5e2 (E:1-247)
3f: SCOP_d1we5f2 (F:1-247)
4a: SCOP_d1we5a4 (A:248-585)
4b: SCOP_d1we5b4 (B:248-585)
4c: SCOP_d1we5c4 (C:248-585)
4d: SCOP_d1we5d4 (D:248-585)
4e: SCOP_d1we5e4 (E:248-585)
4f: SCOP_d1we5f4 (F:248-585)
View:
Select:
Label:
Classes
(
)
(
)
Folds
(
)
(
)
Superfamilies
(
)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
All beta proteins
(24004)
Fold
:
Glycosyl hydrolase domain
(397)
Superfamily
:
Glycosyl hydrolase domain
(397)
Family
:
Putative glucosidase YicI, domain 3
(5)
Protein domain
:
Putative glucosidase YicI, domain 3
(5)
Escherichia coli [TaxId: 562]
(5)
1a
d1we5a3
A:586-665
1b
d1we5b3
B:586-665
1c
d1we5c3
C:586-665
1d
d1we5d3
D:586-665
1e
d1we5e3
E:586-665
1f
d1we5f3
F:586-665
Fold
:
Putative glucosidase YicI, C-terminal domain
(5)
Superfamily
:
Putative glucosidase YicI, C-terminal domain
(5)
Family
:
Putative glucosidase YicI, C-terminal domain
(5)
Protein domain
:
Putative glucosidase YicI, C-terminal domain
(5)
Escherichia coli [TaxId: 562]
(5)
2a
d1we5a1
A:666-772
2b
d1we5b1
B:666-772
2c
d1we5c1
C:666-772
2d
d1we5d1
D:666-772
2e
d1we5e1
E:666-772
2f
d1we5f1
F:666-772
Fold
:
Supersandwich
(271)
Superfamily
:
Galactose mutarotase-like
(205)
Family
:
YicI N-terminal domain-like
(6)
Protein domain
:
Putative glucosidase YicI, N-terminal domain
(5)
Escherichia coli [TaxId: 562]
(5)
3a
d1we5a2
A:1-247
3b
d1we5b2
B:1-247
3c
d1we5c2
C:1-247
3d
d1we5d2
D:1-247
3e
d1we5e2
E:1-247
3f
d1we5f2
F:1-247
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
TIM beta/alpha-barrel
(3956)
Superfamily
:
(Trans)glycosidases
(1191)
Family
:
YicI catalytic domain-like
(6)
Protein domain
:
Putative glucosidase YicI, domain 2
(5)
Escherichia coli [TaxId: 562]
(5)
4a
d1we5a4
A:248-585
4b
d1we5b4
B:248-585
4c
d1we5c4
C:248-585
4d
d1we5d4
D:248-585
4e
d1we5e4
E:248-585
4f
d1we5f4
F:248-585
[
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 (766 KB)
Header - Asym.Unit
Biol.Unit 1 (751 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
1WE5
Jmol Script Commands
|
Jmol Color Schemes
|
Jmol Mouse Manual
|
Jmol Wiki
controls:
collapse
expand
Home
JenaLib
Jmol Scripting
Contact
Help