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3KRQ
Asym. Unit
Info
Asym.Unit (118 KB)
Biol.Unit 1 (111 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF THE COMPLEX OF LACTOPEROXIDASE WITH A POTENT INHIBITOR AMINO-TRIAZOLE AT 2.2A RESOLUTION
Authors
:
A. K. Singh, N. Singh, M. Sinha, G. S. Kushwaha, P. Kaur, A. Srinivasan, S T. P. Singh
Date
:
19 Nov 09 (Deposition) - 26 May 10 (Release) - 24 Aug 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.25
Chains
:
Asym. Unit : A
Biol. Unit 1: A (1x)
Keywords
:
Heme, Peroxidase, Complex, Antibiotic, Antimicrobial, Cleavage On Pair Of Basic Residues, Disulfide Bond, Glycoprotein, Hydrogen Peroxide, Iron, Metal-Binding, Secreted, Oxidoreductase- Oxidoreductase Inhibitor Complex
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
A. K. Singh, N. Singh, A. Tiwari, M. Sinha, G. S. Kushwaha, P. Kaur, A. Srinivasan, S. Sharma, T. P. Singh
First Structural Evidence For The Mode Of Diffusion Of Aromatic Ligands And Ligand-Induced Closure Of The Hydrophobic Channel In Heme Peroxidases
J. Biol. Inorg. Chem. V. 15 1099 2010
[
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Hetero Components
(11, 25)
Info
All Hetero Components
01a: 3-AMINO-1,2,4-TRIAZOLE (3TRa)
01b: 3-AMINO-1,2,4-TRIAZOLE (3TRb)
02a: BETA-D-MANNOSE (BMAa)
03a: CALCIUM ION (CAa)
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)
06a: ALPHA-D-MANNOSE (MANa)
06b: ALPHA-D-MANNOSE (MANb)
07a: (4R)-2-METHYLPENTANE-2,4-DIOL (MRDa)
08a: N-ACETYL-D-GLUCOSAMINE (NAGa)
08b: N-ACETYL-D-GLUCOSAMINE (NAGb)
08c: N-ACETYL-D-GLUCOSAMINE (NAGc)
08d: N-ACETYL-D-GLUCOSAMINE (NAGd)
08e: N-ACETYL-D-GLUCOSAMINE (NAGe)
08f: N-ACETYL-D-GLUCOSAMINE (NAGf)
08g: N-ACETYL-D-GLUCOSAMINE (NAGg)
09a: 2-(ACETYLAMINO)-2-DEOXY-A-D-GLUCOP... (NDGa)
10a: DI(HYDROXYETHYL)ETHER (PEGa)
11a: PHOSPHOSERINE (SEPa)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
3TR
2
Ligand/Ion
3-AMINO-1,2,4-TRIAZOLE
2
BMA
1
Ligand/Ion
BETA-D-MANNOSE
3
CA
1
Ligand/Ion
CALCIUM ION
4
HEM
1
Ligand/Ion
PROTOPORPHYRIN IX CONTAINING FE
5
IOD
7
Ligand/Ion
IODIDE ION
6
MAN
2
Ligand/Ion
ALPHA-D-MANNOSE
7
MRD
1
Ligand/Ion
(4R)-2-METHYLPENTANE-2,4-DIOL
8
NAG
7
Ligand/Ion
N-ACETYL-D-GLUCOSAMINE
9
NDG
1
Ligand/Ion
2-(ACETYLAMINO)-2-DEOXY-A-D-GLUCOPYRANOSE
10
PEG
1
Ligand/Ion
DI(HYDROXYETHYL)ETHER
11
SEP
1
Mod. Amino Acid
PHOSPHOSERINE
[
close Hetero Component info
]
Sites
(22, 22)
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)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
MET A:101 , GLY A:104 , GLN A:105 , ASP A:108 , ASP A:112 , PHE A:113 , ALA A:114 , ARG A:255 , GLU A:258 , GLN A:259 , THR A:344 , PHE A:347 , ARG A:348 , GLY A:350 , HIS A:351 , PHE A:380 , LEU A:433 , ILE A:436 , ARG A:440 , 3TR A:607 , HOH A:710 , HOH A:713
BINDING SITE FOR RESIDUE HEM A 655
02
AC2
SOFTWARE
ASP A:110 , THR A:184 , PHE A:186 , ASP A:188 , SER A:190
BINDING SITE FOR RESIDUE CA A 656
03
AC3
SOFTWARE
ASN A:95 , ILE A:315 , ARG A:504 , NAG A:597 , HOH A:954
BINDING SITE FOR RESIDUE NAG A 596
04
AC4
SOFTWARE
NAG A:596 , MAN A:598 , HOH A:807
BINDING SITE FOR RESIDUE NAG A 597
05
AC5
SOFTWARE
NAG A:597
BINDING SITE FOR RESIDUE MAN A 598
06
AC6
SOFTWARE
ASN A:205 , SER A:208 , LEU A:212 , ALA A:214 , VAL A:215 , GLN A:217 , NAG A:600
BINDING SITE FOR RESIDUE NAG A 599
07
AC7
SOFTWARE
NAG A:599 , BMA A:601 , HOH A:812
BINDING SITE FOR RESIDUE NAG A 600
08
AC8
SOFTWARE
NAG A:600
BINDING SITE FOR RESIDUE BMA A 601
09
AC9
SOFTWARE
ASN A:241 , ALA A:244 , TRP A:384 , NAG A:603 , HOH A:882 , HOH A:985 , HOH A:987 , HOH A:1027
BINDING SITE FOR RESIDUE NAG A 602
10
BC1
SOFTWARE
NAG A:602 , MAN A:604 , HOH A:987
BINDING SITE FOR RESIDUE NAG A 603
11
BC2
SOFTWARE
NAG A:603 , HOH A:872
BINDING SITE FOR RESIDUE MAN A 604
12
BC3
SOFTWARE
ASN A:332 , SER A:334 , NDG A:606
BINDING SITE FOR RESIDUE NAG A 605
13
BC4
SOFTWARE
NAG A:605
BINDING SITE FOR RESIDUE NDG A 606
14
BC5
SOFTWARE
TRP A:46 , VAL A:342 , TRP A:452
BINDING SITE FOR RESIDUE IOD A 610
15
BC6
SOFTWARE
ASN A:80 , HOH A:921
BINDING SITE FOR RESIDUE IOD A 611
16
BC7
SOFTWARE
PHE A:229
BINDING SITE FOR RESIDUE IOD A 612
17
BC8
SOFTWARE
GLU A:363
BINDING SITE FOR RESIDUE IOD A 614
18
BC9
SOFTWARE
PRO A:234 , PRO A:424
BINDING SITE FOR RESIDUE IOD A 615
19
CC1
SOFTWARE
ASN A:95
BINDING SITE FOR RESIDUE IOD A 616
20
CC2
SOFTWARE
GLN A:105 , HIS A:109 , ARG A:255 , GLU A:258 , 3TR A:608 , HEM A:655 , HOH A:1033
BINDING SITE FOR RESIDUE 3TR A 607
21
CC3
SOFTWARE
PHE A:254 , ARG A:255 , PHE A:381 , 3TR A:607 , HOH A:889
BINDING SITE FOR RESIDUE 3TR A 608
22
CC4
SOFTWARE
ARG A:31 , TYR A:331 , ASN A:333
BINDING SITE FOR RESIDUE MRD A 609
[
close Site info
]
SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
All SNPs/Variants
View:
Select:
Label:
Sorry, no Info available
[
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PROSITE Patterns/Profiles
(1, 1)
Info
All PROSITE Patterns/Profiles
1: PEROXIDASE_3 (A:12-594)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
PEROXIDASE_3
PS50292
Animal heme peroxidase superfamily profile.
PERL_BOVIN
129-711
1
A:12-594
[
close PROSITE info
]
Exons
(9, 9)
Info
All Exons
Exon 1.5 (A:1-31)
Exon 1.6 (A:31-74)
Exon 1.7 (A:75-143)
Exon 1.8 (A:144-252)
Exon 1.9 (A:252-305)
Exon 1.10 (A:306-390)
Exon 1.11 (A:390-448)
Exon 1.12 (A:448-527)
Exon 1.13 (A:527-595)
View:
Select:
Label:
All Exon Boundaries
01: Boundary 1.4/1.5
02: Boundary 1.5/1.6
03: Boundary 1.6/1.7
04: Boundary 1.7/1.8
05: Boundary 1.8/1.9
06: Boundary 1.9/1.10
07: Boundary 1.10/1.11
08: Boundary 1.11/1.12
09: Boundary 1.12/1.13
10: Boundary 1.13/-
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
ENSBTAT00000016986
1
ENSBTAE00000279445
chr19:
8430632-8430751
120
PERL_BOVIN
-
0
0
-
-
1.2
ENSBTAT00000016986
2
ENSBTAE00000137885
chr19:
8435757-8435834
78
PERL_BOVIN
1-26
26
0
-
-
1.3
ENSBTAT00000016986
3
ENSBTAE00000137889
chr19:
8437178-8437265
88
PERL_BOVIN
26-55
30
0
-
-
1.4
ENSBTAT00000016986
4
ENSBTAE00000137892
chr19:
8441906-8442066
161
PERL_BOVIN
55-109
55
0
-
-
1.5
ENSBTAT00000016986
5
ENSBTAE00000137896
chr19:
8443636-8443753
118
PERL_BOVIN
109-148
40
1
A:1-31
31
1.6
ENSBTAT00000016986
6
ENSBTAE00000137903
chr19:
8444165-8444294
130
PERL_BOVIN
148-191
44
1
A:31-74
44
1.7
ENSBTAT00000016986
7
ENSBTAE00000137906
chr19:
8445032-8445238
207
PERL_BOVIN
192-260
69
1
A:75-143
69
1.8
ENSBTAT00000016986
8
ENSBTAE00000137912
chr19:
8446677-8447001
325
PERL_BOVIN
261-369
109
1
A:144-252
109
1.9
ENSBTAT00000016986
9
ENSBTAE00000137915
chr19:
8448604-8448764
161
PERL_BOVIN
369-422
54
1
A:252-305
54
1.10
ENSBTAT00000016986
10
ENSBTAE00000137918
chr19:
8457180-8457432
253
PERL_BOVIN
423-507
85
1
A:306-390
85
1.11
ENSBTAT00000016986
11
ENSBTAE00000137921
chr19:
8458505-8458678
174
PERL_BOVIN
507-565
59
1
A:390-448
59
1.12
ENSBTAT00000016986
12
ENSBTAE00000137923
chr19:
8459302-8459539
238
PERL_BOVIN
565-644
80
1
A:448-527
80
1.13
ENSBTAT00000016986
13
ENSBTAE00000279432
chr19:
8459727-8460382
656
PERL_BOVIN
644-712
69
1
A:527-595
69
[
close EXON info
]
SCOP Domains
(0, 0)
Info
All SCOP Domains
View:
Select:
Label:
Sorry, no Info available
[
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]
CATH Domains
(0, 0)
Info
all CATH domains
View:
Select:
Label:
Sorry, no Info available
[
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]
Pfam Domains
(1, 1)
Info
all PFAM domains
1a: PFAM_An_peroxidase_3krqA01 (A:21-567)
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Clans
(
)
(
)
Families
(
)
(
)
Organisms
(
)
(
)
Clan
:
no clan defined [family: An_peroxidase]
(45)
Family
:
An_peroxidase
(45)
Bos taurus (Bovine)
(11)
1a
An_peroxidase-3krqA01
A:21-567
[
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Asymmetric Unit 1
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