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.
3R55
Asym. Unit
Info
Asym.Unit (115 KB)
Biol.Unit 1 (108 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 THE COMPLEX OF GOAT LACTOPEROXIDASE WITH PYRAZINAMIDE AT 2.1 A RESOLUTION
Authors
:
R. P. Singh, N. Pandey, A. K. Singh, M. Sinha, P. Kaur, S. Sharma, T. P. Sin
Date
:
18 Mar 11 (Deposition) - 03 Aug 11 (Release) - 06 Apr 16 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.10
Chains
:
Asym. Unit : A
Biol. Unit 1: A (1x)
Keywords
:
Goat Lactoperoxidase, Oxidoreductase, Piperazine, Iodide, Edo, Pyrazinamide
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
R. P. Singh, N. Pandey, A. K. Singh, M. Sinha, P. Kaur, S. Sharma, T. P. Singh
Crystal Structure Of The Complex Of Goat Lactoperoxidase With Pyrazinamide At 2. 1 A Resolution
To Be Published
[
close entry info
]
Hetero Components
(12, 34)
Info
All Hetero Components
01a: CALCIUM ION (CAa)
02a: 1,2-ETHANEDIOL (EDOa)
02b: 1,2-ETHANEDIOL (EDOb)
02c: 1,2-ETHANEDIOL (EDOc)
02d: 1,2-ETHANEDIOL (EDOd)
02e: 1,2-ETHANEDIOL (EDOe)
03a: GLYCEROL (GOLa)
03b: GLYCEROL (GOLb)
04a: PROTOPORPHYRIN IX CONTAINING FE (HEMa)
05a: IODIDE ION (IODa)
05b: IODIDE ION (IODb)
05c: IODIDE ION (IODc)
05d: IODIDE ION (IODd)
05e: IODIDE ION (IODe)
05f: IODIDE ION (IODf)
05g: IODIDE ION (IODg)
05h: IODIDE ION (IODh)
05i: IODIDE ION (IODi)
05j: IODIDE ION (IODj)
05k: IODIDE ION (IODk)
05l: IODIDE ION (IODl)
06a: (4R)-2-METHYLPENTANE-2,4-DIOL (MRDa)
07a: N-ACETYL-D-GLUCOSAMINE (NAGa)
07b: N-ACETYL-D-GLUCOSAMINE (NAGb)
07c: N-ACETYL-D-GLUCOSAMINE (NAGc)
07d: N-ACETYL-D-GLUCOSAMINE (NAGd)
07e: N-ACETYL-D-GLUCOSAMINE (NAGe)
07f: N-ACETYL-D-GLUCOSAMINE (NAGf)
08a: DI(HYDROXYETHYL)ETHER (PEGa)
09a: PYRAZINE-2-CARBOXAMIDE (PZAa)
09b: PYRAZINE-2-CARBOXAMIDE (PZAb)
10a: THIOCYANATE ION (SCNa)
11a: PHOSPHOSERINE (SEPa)
12a: ZINC ION (ZNa)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
CA
1
Ligand/Ion
CALCIUM ION
2
EDO
5
Ligand/Ion
1,2-ETHANEDIOL
3
GOL
2
Ligand/Ion
GLYCEROL
4
HEM
1
Ligand/Ion
PROTOPORPHYRIN IX CONTAINING FE
5
IOD
12
Ligand/Ion
IODIDE ION
6
MRD
1
Ligand/Ion
(4R)-2-METHYLPENTANE-2,4-DIOL
7
NAG
6
Ligand/Ion
N-ACETYL-D-GLUCOSAMINE
8
PEG
1
Ligand/Ion
DI(HYDROXYETHYL)ETHER
9
PZA
2
Ligand/Ion
PYRAZINE-2-CARBOXAMIDE
10
SCN
1
Ligand/Ion
THIOCYANATE ION
11
SEP
1
Mod. Amino Acid
PHOSPHOSERINE
12
ZN
1
Ligand/Ion
ZINC ION
[
close Hetero Component info
]
Sites
(31, 31)
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)
27: CC9 (SOFTWARE)
28: DC1 (SOFTWARE)
29: DC2 (SOFTWARE)
30: DC3 (SOFTWARE)
31: DC4 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
ASN A:95 , PRO A:209 , ILE A:315 , HOH A:767
BINDING SITE FOR RESIDUE NAG A 596
02
AC2
SOFTWARE
ASN A:205 , SER A:208 , LEU A:210 , ALA A:214 , VAL A:215 , GLN A:217 , NAG A:600 , HOH A:712
BINDING SITE FOR RESIDUE NAG A 599
03
AC3
SOFTWARE
NAG A:599 , HOH A:910
BINDING SITE FOR RESIDUE NAG A 600
04
AC4
SOFTWARE
ASN A:241 , ALA A:244 , TRP A:384 , LYS A:388 , NAG A:602 , HOH A:679 , HOH A:932 , HOH A:933
BINDING SITE FOR RESIDUE NAG A 601
05
AC5
SOFTWARE
NAG A:601
BINDING SITE FOR RESIDUE NAG A 602
06
AC6
SOFTWARE
ASN A:332 , SER A:334 , VAL A:335 , HOH A:818
BINDING SITE FOR RESIDUE NAG A 604
07
AC7
SOFTWARE
MET A:101 , GLY A:104 , GLN A:105 , ASP A:108 , ASP A:112 , PHE A:113 , ALA A:114 , GLU A:258 , GLN A:259 , THR A:344 , PHE A:347 , ARG A:348 , GLY A:350 , HIS A:351 , VAL A:354 , PHE A:380 , LEU A:417 , GLN A:423 , LEU A:433 , ILE A:436 , ARG A:440 , PZA A:597 , PZA A:598 , HOH A:836
BINDING SITE FOR RESIDUE HEM A 618
08
AC8
SOFTWARE
ASP A:110 , THR A:184 , PHE A:186 , ASP A:188 , SER A:190
BINDING SITE FOR RESIDUE CA A 607
09
AC9
SOFTWARE
HIS A:222 , HIS A:558
BINDING SITE FOR RESIDUE ZN A 608
10
BC1
SOFTWARE
TRP A:46 , VAL A:342 , TRP A:452
BINDING SITE FOR RESIDUE IOD A 609
11
BC2
SOFTWARE
PHE A:229
BINDING SITE FOR RESIDUE IOD A 610
12
BC3
SOFTWARE
ARG A:397
BINDING SITE FOR RESIDUE IOD A 611
13
BC4
SOFTWARE
ASN A:80
BINDING SITE FOR RESIDUE IOD A 612
14
BC5
SOFTWARE
ARG A:96
BINDING SITE FOR RESIDUE IOD A 613
15
BC6
SOFTWARE
LYS A:462
BINDING SITE FOR RESIDUE IOD A 616
16
BC7
SOFTWARE
ALA A:566 , PHE A:567
BINDING SITE FOR RESIDUE IOD A 617
17
BC8
SOFTWARE
ALA A:225
BINDING SITE FOR RESIDUE IOD A 620
18
BC9
SOFTWARE
GLU A:373
BINDING SITE FOR RESIDUE IOD A 624
19
CC1
SOFTWARE
PRO A:236 , THR A:425
BINDING SITE FOR RESIDUE IOD A 626
20
CC2
SOFTWARE
ASN A:230
BINDING SITE FOR RESIDUE SCN A 700
21
CC3
SOFTWARE
GLN A:105 , ASP A:108 , HIS A:109 , ARG A:255 , GLU A:258 , PZA A:598 , HEM A:618 , HOH A:836
BINDING SITE FOR RESIDUE PZA A 597
22
CC4
SOFTWARE
SER A:254 , GLU A:258 , PHE A:381 , PZA A:597 , HEM A:618
BINDING SITE FOR RESIDUE PZA A 598
23
CC5
SOFTWARE
HIS A:377 , HIS A:429 , HOH A:935
BINDING SITE FOR RESIDUE EDO A 603
24
CC6
SOFTWARE
SER A:33 , ALA A:35 , LEU A:36 , ARG A:41 , HOH A:677 , HOH A:809
BINDING SITE FOR RESIDUE EDO A 605
25
CC7
SOFTWARE
PRO A:197 , LYS A:472
BINDING SITE FOR RESIDUE EDO A 606
26
CC8
SOFTWARE
ALA A:219 , PHE A:229 , VAL A:246
BINDING SITE FOR RESIDUE EDO A 614
27
CC9
SOFTWARE
SER A:359 , LEU A:361 , PRO A:367 , GLU A:373 , LYS A:402 , HOH A:911
BINDING SITE FOR RESIDUE EDO A 619
28
DC1
SOFTWARE
ARG A:76 , ASN A:80 , PRO A:149 , ARG A:418 , ASN A:419
BINDING SITE FOR RESIDUE GOL A 621
29
DC2
SOFTWARE
GLU A:123 , SER A:125 , CYS A:129 , ASP A:137 , GLU A:138 , CYS A:139 , PHE A:161
BINDING SITE FOR RESIDUE GOL A 622
30
DC3
SOFTWARE
SEP A:198 , LEU A:199 , ARG A:202 , ASN A:473 , LYS A:474 , VAL A:475
BINDING SITE FOR RESIDUE MRD A 623
31
DC4
SOFTWARE
LYS A:81 , LYS A:479 , ASP A:482 , LEU A:483 , HOH A:658
BINDING SITE FOR RESIDUE PEG A 625
[
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
(0, 0)
Info
All SCOP Domains
View:
Select:
Label:
Sorry, no Info available
[
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
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 (115 KB)
Header - Asym.Unit
Biol.Unit 1 (108 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
3R55
Jmol Script Commands
|
Jmol Color Schemes
|
Jmol Mouse Manual
|
Jmol Wiki
controls:
collapse
expand
Home
JenaLib
Jmol Scripting
Contact
Help