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.
2IU7
Asym. Unit
Info
Asym.Unit (313 KB)
Biol.Unit 1 (307 KB)
(using Jmol or JSmol)
spin
show selected part
auto zoom/center
Standard Views
(
Basic
|
Advanced
Interface
)
(
Basic
|
Advanced
Interface
)
Help
(1)
Title
:
SITE DIRECTED MUTAGENESIS OF KEY RESIDUES INVOLVED IN THE CATALYTIC MECHANISM OF CYANASE
Authors
:
M. Guilloton, M. A. Walsh, A. Joachimiak, P. M. Anderson
Date
:
30 May 06 (Deposition) - 06 Jun 06 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.91
Chains
:
Asym. Unit : A,B,C,D,E,F,G,H,I,J
Biol. Unit 1: A,B,C,D,E,F,G,H,I,J (1x)
Keywords
:
Lyase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
M. Guilloton, M. A. Walsh, A. Joachimiak, P. M. Anderson
A Twin Set Of Low Pka Arginines Ensures The Concerted Acid Base Catalytic Mechanism Of Cyanase
To Be Published
(for further references see the
PDB file header
)
[
close entry info
]
Hetero Components
(2, 26)
Info
All Hetero Components
1a: OXALATE ION (OXLa)
1b: OXALATE ION (OXLb)
1c: OXALATE ION (OXLc)
1d: OXALATE ION (OXLd)
1e: OXALATE ION (OXLe)
2a: SULFATE ION (SO4a)
2b: SULFATE ION (SO4b)
2c: SULFATE ION (SO4c)
2d: SULFATE ION (SO4d)
2e: SULFATE ION (SO4e)
2f: SULFATE ION (SO4f)
2g: SULFATE ION (SO4g)
2h: SULFATE ION (SO4h)
2i: SULFATE ION (SO4i)
2j: SULFATE ION (SO4j)
2k: SULFATE ION (SO4k)
2l: SULFATE ION (SO4l)
2m: SULFATE ION (SO4m)
2n: SULFATE ION (SO4n)
2o: SULFATE ION (SO4o)
2p: SULFATE ION (SO4p)
2q: SULFATE ION (SO4q)
2r: SULFATE ION (SO4r)
2s: SULFATE ION (SO4s)
2t: SULFATE ION (SO4t)
2u: SULFATE ION (SO4u)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
OXL
5
Ligand/Ion
OXALATE ION
2
SO4
21
Ligand/Ion
SULFATE ION
[
close Hetero Component info
]
Sites
(26, 26)
Info
All Sites
01: AC1 (SOFTWARE)
02: AC2 (SOFTWARE)
03: AC3 (SOFTWARE)
04: AC4 (SOFTWARE)
05: AC5 (SOFTWARE)
06: AC6 (SOFTWARE)
07: AC7 (SOFTWARE)
08: AC8 (SOFTWARE)
09: AC9 (SOFTWARE)
10: BC1 (SOFTWARE)
11: BC2 (SOFTWARE)
12: BC3 (SOFTWARE)
13: BC4 (SOFTWARE)
14: BC5 (SOFTWARE)
15: BC6 (SOFTWARE)
16: BC7 (SOFTWARE)
17: BC8 (SOFTWARE)
18: BC9 (SOFTWARE)
19: CC1 (SOFTWARE)
20: CC2 (SOFTWARE)
21: CC3 (SOFTWARE)
22: CC4 (SOFTWARE)
23: CC5 (SOFTWARE)
24: CC6 (SOFTWARE)
25: CC7 (SOFTWARE)
26: CC8 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
ILE A:120 , SER A:122 , LEU A:151 , ARG D:96 , ARG I:96 , ILE J:120 , SER J:122 , LEU J:151
BINDING SITE FOR RESIDUE OXL A1157
02
AC2
SOFTWARE
ALA A:39 , GLU A:40 , HOH A:2278
BINDING SITE FOR RESIDUE SO4 A1158
03
AC3
SOFTWARE
ARG A:87 , HOH A:2201 , HOH A:2279 , HOH A:2280 , ARG B:87 , ARG D:87 , ARG J:87
BINDING SITE FOR RESIDUE SO4 A1159
04
AC4
SOFTWARE
ARG A:87 , HOH A:2279 , HOH A:2281 , HOH A:2282 , ARG C:87 , ARG I:87 , ARG J:87
BINDING SITE FOR RESIDUE SO4 A1160
05
AC5
SOFTWARE
ALA B:39 , GLU B:40 , HOH B:2309 , HOH B:2310 , HOH B:2313
BINDING SITE FOR RESIDUE SO4 B1157
06
AC6
SOFTWARE
ARG B:87 , HOH B:2223 , HOH B:2314 , HOH B:2315 , ARG D:87 , ARG E:87 , ARG F:87
BINDING SITE FOR RESIDUE SO4 B1158
07
AC7
SOFTWARE
ILE C:120 , SER C:122 , ALA C:123 , LEU C:151 , ARG H:96 , ILE I:120 , SER I:122 , LEU I:151 , ARG J:96
BINDING SITE FOR RESIDUE OXL C1157
08
AC8
SOFTWARE
ALA C:39 , GLU C:40 , HOH C:2305 , HOH C:2306 , HOH C:2307 , HOH C:2308 , HOH C:2309 , HOH C:2310
BINDING SITE FOR RESIDUE SO4 C1158
09
AC9
SOFTWARE
ARG A:96 , ILE B:120 , SER B:122 , LEU B:151 , ILE D:120 , SER D:122 , LEU D:151 , ARG F:96
BINDING SITE FOR RESIDUE OXL D1157
10
BC1
SOFTWARE
ALA D:39 , GLU D:40 , HOH D:2299 , HOH D:2300 , HOH D:2301 , HOH D:2302 , HOH D:2303
BINDING SITE FOR RESIDUE SO4 D1158
11
BC2
SOFTWARE
ALA D:33 , ASP D:34 , GLY D:35 , THR D:36 , GLY D:37 , HOH D:2110
BINDING SITE FOR RESIDUE SO4 D1159
12
BC3
SOFTWARE
ALA E:39 , GLU E:40 , HOH E:2290 , HOH E:2291 , HOH E:2292 , HOH E:2293
BINDING SITE FOR RESIDUE SO4 E1157
13
BC4
SOFTWARE
ARG E:87 , HOH E:2294 , HOH E:2295 , ARG F:87 , ARG G:87 , HOH G:2212 , ARG H:87
BINDING SITE FOR RESIDUE SO4 E1158
14
BC5
SOFTWARE
ALA E:33 , ASP E:34 , GLY E:35 , THR E:36 , GLY E:37
BINDING SITE FOR RESIDUE SO4 E1159
15
BC6
SOFTWARE
ARG B:96 , ILE E:120 , SER E:122 , LEU E:151 , ILE F:120 , SER F:122 , LEU F:151 , ARG G:96
BINDING SITE FOR RESIDUE OXL F1157
16
BC7
SOFTWARE
ALA F:39 , GLU F:40 , HOH F:2321 , HOH F:2322 , HOH F:2323
BINDING SITE FOR RESIDUE SO4 F1158
17
BC8
SOFTWARE
ALA F:33 , ASP F:34 , GLY F:35 , THR F:36 , GLY F:37 , HOH F:2325 , HOH F:2326
BINDING SITE FOR RESIDUE SO4 F1159
18
BC9
SOFTWARE
ARG C:96 , ARG E:96 , ILE G:120 , SER G:122 , LEU G:151 , ILE H:120 , SER H:122 , LEU H:151
BINDING SITE FOR RESIDUE OXL G1157
19
CC1
SOFTWARE
ALA G:39 , GLU G:40 , HOH G:2288 , HOH G:2290
BINDING SITE FOR RESIDUE SO4 G1158
20
CC2
SOFTWARE
ALA H:39 , GLU H:40 , HOH H:2277 , HOH H:2324 , HOH H:2325 , HOH H:2326
BINDING SITE FOR RESIDUE SO4 H1157
21
CC3
SOFTWARE
ASP H:34 , GLY H:35 , THR H:36 , GLY H:37 , HOH H:2142
BINDING SITE FOR RESIDUE SO4 H1158
22
CC4
SOFTWARE
ALA I:39 , GLU I:40 , HOH I:2324 , HOH I:2325 , HOH I:2326 , HOH I:2328 , HOH I:2330
BINDING SITE FOR RESIDUE SO4 I1157
23
CC5
SOFTWARE
ARG C:87 , HOH C:2219 , ARG G:87 , ARG H:87 , ARG I:87 , HOH I:2331
BINDING SITE FOR RESIDUE SO4 I1158
24
CC6
SOFTWARE
ALA I:33 , ASP I:34 , GLY I:35 , THR I:36 , GLY I:37
BINDING SITE FOR RESIDUE SO4 I1159
25
CC7
SOFTWARE
ALA J:39 , GLU J:40 , HOH J:2370 , HOH J:2371 , HOH J:2372
BINDING SITE FOR RESIDUE SO4 J1157
26
CC8
SOFTWARE
ALA J:33 , ASP J:34 , GLY J:35 , THR J:36 , GLY J:37 , HOH J:2149 , HOH J:2373 , HOH J:2374
BINDING SITE FOR RESIDUE SO4 J1158
[
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
(2, 20)
Info
All SCOP Domains
1a: SCOP_d2iu7a1 (A:1-86)
1b: SCOP_d2iu7b1 (B:1-86)
1c: SCOP_d2iu7c1 (C:1-86)
1d: SCOP_d2iu7d1 (D:1-86)
1e: SCOP_d2iu7e1 (E:1-86)
1f: SCOP_d2iu7f1 (F:1-86)
1g: SCOP_d2iu7g1 (G:1-86)
1h: SCOP_d2iu7h1 (H:1-86)
1i: SCOP_d2iu7i1 (I:1-86)
1j: SCOP_d2iu7j1 (J:1-86)
2a: SCOP_d2iu7a2 (A:87-156)
2b: SCOP_d2iu7b2 (B:87-156)
2c: SCOP_d2iu7c2 (C:87-156)
2d: SCOP_d2iu7d2 (D:87-156)
2e: SCOP_d2iu7e2 (E:87-156)
2f: SCOP_d2iu7f2 (F:87-156)
2g: SCOP_d2iu7g2 (G:87-156)
2h: SCOP_d2iu7h2 (H:87-156)
2i: SCOP_d2iu7i2 (I:87-156)
2j: SCOP_d2iu7j2 (J:87-156)
View:
Select:
Label:
Classes
(
)
(
)
Folds
(
)
(
)
Superfamilies
(
)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
All alpha proteins
(14657)
Fold
:
lambda repressor-like DNA-binding domains
(180)
Superfamily
:
lambda repressor-like DNA-binding domains
(180)
Family
:
Cyanase N-terminal domain
(8)
Protein domain
:
automated matches
(6)
Escherichia coli [TaxId: 562]
(6)
1a
d2iu7a1
A:1-86
1b
d2iu7b1
B:1-86
1c
d2iu7c1
C:1-86
1d
d2iu7d1
D:1-86
1e
d2iu7e1
E:1-86
1f
d2iu7f1
F:1-86
1g
d2iu7g1
G:1-86
1h
d2iu7h1
H:1-86
1i
d2iu7i1
I:1-86
1j
d2iu7j1
J:1-86
Class
:
Alpha and beta proteins (a+b)
(23004)
Fold
:
Cyanase C-terminal domain
(8)
Superfamily
:
Cyanase C-terminal domain
(8)
Family
:
Cyanase C-terminal domain
(8)
Protein domain
:
automated matches
(6)
Escherichia coli [TaxId: 562]
(6)
2a
d2iu7a2
A:87-156
2b
d2iu7b2
B:87-156
2c
d2iu7c2
C:87-156
2d
d2iu7d2
D:87-156
2e
d2iu7e2
E:87-156
2f
d2iu7f2
F:87-156
2g
d2iu7g2
G:87-156
2h
d2iu7h2
H:87-156
2i
d2iu7i2
I:87-156
2j
d2iu7j2
J:87-156
[
close SCOP info
]
CATH Domains
(2, 20)
Info
all CATH domains
1a: CATH_2iu7A02 (A:89-156)
1b: CATH_2iu7B02 (B:89-156)
1c: CATH_2iu7C02 (C:89-156)
1d: CATH_2iu7D02 (D:89-156)
1e: CATH_2iu7E02 (E:89-156)
1f: CATH_2iu7F02 (F:89-156)
1g: CATH_2iu7G02 (G:89-156)
1h: CATH_2iu7H02 (H:89-156)
1i: CATH_2iu7I02 (I:89-156)
1j: CATH_2iu7J02 (J:89-156)
2a: CATH_2iu7A01 (A:1-88)
2b: CATH_2iu7B01 (B:1-88)
2c: CATH_2iu7C01 (C:1-88)
2d: CATH_2iu7D01 (D:1-88)
2e: CATH_2iu7E01 (E:1-88)
2f: CATH_2iu7F01 (F:1-88)
2g: CATH_2iu7G01 (G:1-88)
2h: CATH_2iu7H01 (H:1-88)
2i: CATH_2iu7I01 (I:1-88)
2j: CATH_2iu7J01 (J:1-88)
View:
Select:
Label:
Classes
(
)
(
)
Architectures
(
)
(
)
Topologies
(
)
(
)
Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
2-Layer Sandwich
(8480)
Topology
:
Cyanate Lyase; Chain: A, domain 2
(8)
Homologous Superfamily
:
[code=3.30.1160.10, no name defined]
(8)
Escherichia coli. Organism_taxid: 562.
(8)
1a
2iu7A02
A:89-156
1b
2iu7B02
B:89-156
1c
2iu7C02
C:89-156
1d
2iu7D02
D:89-156
1e
2iu7E02
E:89-156
1f
2iu7F02
F:89-156
1g
2iu7G02
G:89-156
1h
2iu7H02
H:89-156
1i
2iu7I02
I:89-156
1j
2iu7J02
J:89-156
Class
:
Mainly Alpha
(13335)
Architecture
:
Orthogonal Bundle
(10391)
Topology
:
434 Repressor (Amino-terminal Domain)
(116)
Homologous Superfamily
:
lambda repressor-like DNA-binding domains
(100)
Escherichia coli. Organism_taxid: 562.
(10)
2a
2iu7A01
A:1-88
2b
2iu7B01
B:1-88
2c
2iu7C01
C:1-88
2d
2iu7D01
D:1-88
2e
2iu7E01
E:1-88
2f
2iu7F01
F:1-88
2g
2iu7G01
G:1-88
2h
2iu7H01
H:1-88
2i
2iu7I01
I:1-88
2j
2iu7J01
J:1-88
[
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
Chain G
Chain H
Chain I
Chain J
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 (313 KB)
Header - Asym.Unit
Biol.Unit 1 (307 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
2IU7
Jmol Script Commands
|
Jmol Color Schemes
|
Jmol Mouse Manual
|
Jmol Wiki
controls:
collapse
expand
Home
JenaLib
Jmol Scripting
Contact
Help
