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.
1UYP
Biol. Unit 1
Info
Asym.Unit (468 KB)
Biol.Unit 1 (83 KB)
Biol.Unit 2 (83 KB)
Biol.Unit 3 (83 KB)
Biol.Unit 4 (82 KB)
Biol.Unit 5 (82 KB)
Biol.Unit 6 (83 KB)
(using Jmol or JSmol)
spin
show selected part
auto zoom/center
Standard Views
(
Basic
|
Advanced
Interface
)
(
Basic
|
Advanced
Interface
)
Help
(1)
Title
:
THE THREE-DIMENSIONAL STRUCTURE OF BETA-FRUCTOSIDASE (INVERTASE) FROM THERMOTOGA MARITIMA
Authors
:
F. Alberto, C. Bignon, G. Sulzenbacher, B. Henrissat, M. Czjzek
Date
:
02 Mar 04 (Deposition) - 22 Mar 04 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.90
Chains
:
Asym. Unit : A,B,C,D,E,F
Biol. Unit 1: A (1x)
Biol. Unit 2: B (1x)
Biol. Unit 3: C (1x)
Biol. Unit 4: D (1x)
Biol. Unit 5: E (1x)
Biol. Unit 6: F (1x)
Keywords
:
Invertase, Glycosyl Hydrolase Family 32, Sucrose Degradation, Beta-Propeller, Hydrolase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
F. Alberto, C. Bignon, G. Sulzenbacher, B. Henrissat, M. Czjzek
The Three-Dimensional Structure Of Invertase ({Beta}-Fructosidase) From Thermotoga Maritima Reveals A Bimodular Arrangement And An Evolutionary Relationship Between Retaining And Inverting Glycosidases
J. Biol. Chem. V. 279 18903 2004
[
close entry info
]
Hetero Components
(3, 5)
Info
All Hetero Components
1a: CITRIC ACID (CITa)
2a: GLYCEROL (GOLa)
2b: GLYCEROL (GOLb)
2c: GLYCEROL (GOLc)
2d: GLYCEROL (GOLd)
2e: GLYCEROL (GOLe)
2f: GLYCEROL (GOLf)
3a: SODIUM ION (NAa)
4a: SULFATE ION (SO4a)
4b: SULFATE ION (SO4b)
4c: SULFATE ION (SO4c)
4d: SULFATE ION (SO4d)
4e: SULFATE ION (SO4e)
4f: SULFATE ION (SO4f)
4g: SULFATE ION (SO4g)
4h: SULFATE ION (SO4h)
4i: SULFATE ION (SO4i)
4j: SULFATE ION (SO4j)
4k: SULFATE ION (SO4k)
4l: SULFATE ION (SO4l)
4m: SULFATE ION (SO4m)
4n: SULFATE ION (SO4n)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
CIT
1
Ligand/Ion
CITRIC ACID
2
GOL
1
Ligand/Ion
GLYCEROL
3
NA
-1
Ligand/Ion
SODIUM ION
4
SO4
3
Ligand/Ion
SULFATE ION
[
close Hetero Component info
]
Sites
(6, 6)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
3: AC3 (SOFTWARE)
4: AC4 (SOFTWARE)
5: BC7 (SOFTWARE)
6: BC8 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
TRP A:41 , GLY A:42 , ASN A:43 , ILE A:44 , HIS A:71 , ASP A:94
BINDING SITE FOR RESIDUE SO4 A1433
2
AC2
SOFTWARE
TYR A:28 , THR A:248 , ASP A:249 , ARG A:250 , ASP D:249
BINDING SITE FOR RESIDUE SO4 A1434
3
AC3
SOFTWARE
LEU A:265
BINDING SITE FOR RESIDUE SO4 A1435
4
AC4
SOFTWARE
MET A:109 , CIT A:1436 , HOH A:2012
BINDING SITE FOR RESIDUE NA A1438
5
BC7
SOFTWARE
VAL A:117 , LYS A:118 , TYR A:119 , ASP A:120 , NA A:1438 , HOH A:2289
BINDING SITE FOR RESIDUE CIT A1436
6
BC8
SOFTWARE
ASN A:16 , ASP A:17 , GLN A:33 , TRP A:41 , PHE A:74 , SER A:75 , ARG A:137 , ASP A:138 , HOH A:2014
BINDING SITE FOR RESIDUE GOL A1437
[
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
(1, 1)
Info
All PROSITE Patterns/Profiles
1: GLYCOSYL_HYDROL_F32 (A:7-20)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
GLYCOSYL_HYDROL_F32
PS00609
Glycosyl hydrolases family 32 active site.
BFRA_THEMA
7-20
1
A:7-20
-
-
-
-
-
[
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
(2, 12)
Info
All SCOP Domains
1a: SCOP_d1uypa2 (A:1-294)
1b: SCOP_d1uypb2 (B:1-294)
1c: SCOP_d1uypc2 (C:1-294)
1d: SCOP_d1uypd2 (D:1-294)
1e: SCOP_d1uype2 (E:1-294)
1f: SCOP_d1uypf2 (F:1-294)
2a: SCOP_d1uypa1 (A:295-432)
2b: SCOP_d1uypb1 (B:295-432)
2c: SCOP_d1uypc1 (C:295-432)
2d: SCOP_d1uypd1 (D:295-432)
2e: SCOP_d1uype1 (E:295-432)
2f: SCOP_d1uypf1 (F:295-432)
View:
Select:
Label:
Classes
(
)
(
)
Folds
(
)
(
)
Superfamilies
(
)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
All beta proteins
(24004)
Fold
:
5-bladed beta-propeller
(42)
Superfamily
:
Arabinanase/levansucrase/invertase
(37)
Family
:
Glycosyl hydrolases family 32 N-terminal domain
(5)
Protein domain
:
Beta-fructosidase (invertase), N-terminal domain
(1)
Thermotoga maritima [TaxId: 2336]
(1)
1a
d1uypa2
A:1-294
1b
d1uypb2
B:1-294
1c
d1uypc2
C:1-294
1d
d1uypd2
D:1-294
1e
d1uype2
E:1-294
1f
d1uypf2
F:1-294
Fold
:
Concanavalin A-like lectins/glucanases
(797)
Superfamily
:
Concanavalin A-like lectins/glucanases
(797)
Family
:
Glycosyl hydrolases family 32 C-terminal domain
(4)
Protein domain
:
Beta-fructosidase (invertase), C-terminal domain
(1)
Thermotoga maritima [TaxId: 2336]
(1)
2a
d1uypa1
A:295-432
2b
d1uypb1
B:295-432
2c
d1uypc1
C:295-432
2d
d1uypd1
D:295-432
2e
d1uype1
E:295-432
2f
d1uypf1
F:295-432
[
close SCOP info
]
CATH Domains
(0, 0)
Info
all CATH domains
View:
Select:
Label:
Sorry, no Info available
[
close CATH info
]
Pfam Domains
(2, 12)
Info
all PFAM domains
1a: PFAM_Glyco_hydro_32N_1uypF01 (F:7-294)
1b: PFAM_Glyco_hydro_32N_1uypF02 (F:7-294)
1c: PFAM_Glyco_hydro_32N_1uypF03 (F:7-294)
1d: PFAM_Glyco_hydro_32N_1uypF04 (F:7-294)
1e: PFAM_Glyco_hydro_32N_1uypF05 (F:7-294)
1f: PFAM_Glyco_hydro_32N_1uypF06 (F:7-294)
2a: PFAM_Glyco_hydro_32C_1uypF07 (F:317-397)
2b: PFAM_Glyco_hydro_32C_1uypF08 (F:317-397)
2c: PFAM_Glyco_hydro_32C_1uypF09 (F:317-397)
2d: PFAM_Glyco_hydro_32C_1uypF10 (F:317-397)
2e: PFAM_Glyco_hydro_32C_1uypF11 (F:317-397)
2f: PFAM_Glyco_hydro_32C_1uypF12 (F:317-397)
View:
Select:
Label:
Clans
(
)
(
)
Families
(
)
(
)
Organisms
(
)
(
)
Clan
:
B_Fructosidase
(34)
Family
:
Glyco_hydro_32N
(13)
Thermotoga maritima
(2)
1a
Glyco_hydro_32N-1uypF01
F:7-294
1b
Glyco_hydro_32N-1uypF02
F:7-294
1c
Glyco_hydro_32N-1uypF03
F:7-294
1d
Glyco_hydro_32N-1uypF04
F:7-294
1e
Glyco_hydro_32N-1uypF05
F:7-294
1f
Glyco_hydro_32N-1uypF06
F:7-294
Clan
:
no clan defined [family: Glyco_hydro_32C]
(13)
Family
:
Glyco_hydro_32C
(13)
Thermotoga maritima
(2)
2a
Glyco_hydro_32C-1uypF07
F:317-397
2b
Glyco_hydro_32C-1uypF08
F:317-397
2c
Glyco_hydro_32C-1uypF09
F:317-397
2d
Glyco_hydro_32C-1uypF10
F:317-397
2e
Glyco_hydro_32C-1uypF11
F:317-397
2f
Glyco_hydro_32C-1uypF12
F:317-397
[
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
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 (468 KB)
Header - Asym.Unit
Biol.Unit 1 (83 KB)
Header - Biol.Unit 1
Biol.Unit 2 (83 KB)
Header - Biol.Unit 2
Biol.Unit 3 (83 KB)
Header - Biol.Unit 3
Biol.Unit 4 (82 KB)
Header - Biol.Unit 4
Biol.Unit 5 (82 KB)
Header - Biol.Unit 5
Biol.Unit 6 (83 KB)
Header - Biol.Unit 6
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
1UYP
Jmol Script Commands
|
Jmol Color Schemes
|
Jmol Mouse Manual
|
Jmol Wiki
controls:
collapse
expand
Home
JenaLib
Jmol Scripting
Contact
Help