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3ERI
Asym. Unit
Info
Asym.Unit (116 KB)
Biol.Unit 1 (109 KB)
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(1)
Title
:
FIRST STRUCTURAL EVIDENCE OF SUBSTRATE SPECIFICITY IN MAMMALIAN PEROXIDASES: CRYSTAL STRUCTURES OF SUBSTRATE COMPLEXES WITH LACTOPEROXIDASES FROM TWO DIFFERENT SPECIES
Authors
:
A. K. Singh, N. Singh, I. A. Sheikh, M. Sinha, A. Bhushan, P. Kaur, A. Srin S. Sharma, T. P. Singh
Date
:
02 Oct 08 (Deposition) - 31 Mar 09 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.50
Chains
:
Asym. Unit : A
Biol. Unit 1: A (1x)
Keywords
:
Lactopeoxidase, Complex, Heme, Oxidoreductase, Antibiotic, Antimicrobial, Cleavage On Pair Of Basic Residues, Glycoprotein, Hydrogen Peroxide, Iron, Metal-Binding, Peroxidase, Secreted
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
I. A. Sheikh, A. K. Singh, N. Singh, M. Sinha, S. B. Singh, A. Bhushan, P. Kaur, A. Srinivasan, S. Sharma, T. P. Singh
Structural Evidence Of Substrate Specificity In Mammalian Peroxidases: Structure Of The Thiocyanate Complex With Lactoperoxidase And Its Interactions At 2. 4 A Resolution
J. Biol. Chem. V. 284 14849 2009
[
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Hetero Components
(8, 22)
Info
All Hetero Components
1a: CALCIUM ION (CAa)
2a: PROTOPORPHYRIN IX CONTAINING FE (HEMa)
3a: IODIDE ION (IODa)
3b: IODIDE ION (IODb)
3c: IODIDE ION (IODc)
3d: IODIDE ION (IODd)
3e: IODIDE ION (IODe)
3f: IODIDE ION (IODf)
3g: IODIDE ION (IODg)
4a: ALPHA-D-MANNOSE (MANa)
4b: ALPHA-D-MANNOSE (MANb)
5a: N-ACETYL-D-GLUCOSAMINE (NAGa)
5b: N-ACETYL-D-GLUCOSAMINE (NAGb)
5c: N-ACETYL-D-GLUCOSAMINE (NAGc)
5d: N-ACETYL-D-GLUCOSAMINE (NAGd)
5e: N-ACETYL-D-GLUCOSAMINE (NAGe)
5f: N-ACETYL-D-GLUCOSAMINE (NAGf)
5g: N-ACETYL-D-GLUCOSAMINE (NAGg)
6a: 2-(ACETYLAMINO)-2-DEOXY-A-D-GLUCOP... (NDGa)
7a: THIOCYANATE ION (SCNa)
7b: THIOCYANATE ION (SCNb)
8a: PHOSPHOSERINE (SEPa)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
CA
1
Ligand/Ion
CALCIUM ION
2
HEM
1
Ligand/Ion
PROTOPORPHYRIN IX CONTAINING FE
3
IOD
7
Ligand/Ion
IODIDE ION
4
MAN
2
Ligand/Ion
ALPHA-D-MANNOSE
5
NAG
7
Ligand/Ion
N-ACETYL-D-GLUCOSAMINE
6
NDG
1
Ligand/Ion
2-(ACETYLAMINO)-2-DEOXY-A-D-GLUCOPYRANOSE
7
SCN
2
Ligand/Ion
THIOCYANATE ION
8
SEP
1
Mod. Amino Acid
PHOSPHOSERINE
[
close Hetero Component info
]
Sites
(19, 19)
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)
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 , ILE A:436 , ARG A:440 , SCN A:608 , HOH A:627 , HOH A:633 , HOH A:634 , HOH A:679 , HOH A:918
BINDING SITE FOR RESIDUE HEM A 605
02
AC2
SOFTWARE
LYS A:474
BINDING SITE FOR RESIDUE SCN A 607
03
AC3
SOFTWARE
GLU A:258 , HEM A:605
BINDING SITE FOR RESIDUE SCN A 608
04
AC4
SOFTWARE
ASP A:110 , THR A:184 , PHE A:186 , ASP A:188 , SER A:190
BINDING SITE FOR RESIDUE CA A 609
05
AC5
SOFTWARE
ASN A:80
BINDING SITE FOR RESIDUE IOD A 610
06
AC6
SOFTWARE
ARG A:96 , ARG A:504
BINDING SITE FOR RESIDUE IOD A 611
07
AC7
SOFTWARE
GLU A:363 , ARG A:397
BINDING SITE FOR RESIDUE IOD A 614
08
AC8
SOFTWARE
TRP A:46 , VAL A:342 , TRP A:452
BINDING SITE FOR RESIDUE IOD A 615
09
AC9
SOFTWARE
LYS A:462 , THR A:463
BINDING SITE FOR RESIDUE IOD A 616
10
BC1
SOFTWARE
ASN A:95 , ILE A:315 , ARG A:504 , NAG A:618
BINDING SITE FOR RESIDUE NAG A 617
11
BC2
SOFTWARE
ARG A:504 , HIS A:565 , GLN A:568 , NAG A:617 , MAN A:619 , HOH A:788
BINDING SITE FOR RESIDUE NAG A 618
12
BC3
SOFTWARE
NAG A:618
BINDING SITE FOR RESIDUE MAN A 619
13
BC4
SOFTWARE
ASN A:205 , SER A:208 , LEU A:210 , ALA A:214 , VAL A:215 , GLN A:217 , NAG A:621
BINDING SITE FOR RESIDUE NAG A 620
14
BC5
SOFTWARE
NAG A:620 , HOH A:868
BINDING SITE FOR RESIDUE NAG A 621
15
BC6
SOFTWARE
ASN A:241 , ALA A:244 , TRP A:384 , NAG A:623 , HOH A:735
BINDING SITE FOR RESIDUE NAG A 622
16
BC7
SOFTWARE
NAG A:622 , MAN A:624 , HOH A:780
BINDING SITE FOR RESIDUE NAG A 623
17
BC8
SOFTWARE
NAG A:623 , HOH A:814 , HOH A:922
BINDING SITE FOR RESIDUE MAN A 624
18
BC9
SOFTWARE
ASN A:332 , VAL A:335 , NDG A:626
BINDING SITE FOR RESIDUE NAG A 625
19
CC1
SOFTWARE
NAG A:625 , HOH A:779 , HOH A:852
BINDING SITE FOR RESIDUE NDG A 626
[
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
[
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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
[
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]
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:
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Label:
Sorry, no Info available
[
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Pfam Domains
(0, 0)
Info
all PFAM domains
View:
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Label:
Sorry, no Info available
[
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Solvent
All Atoms
Protein & NOT Variant
Protein & NOT Site
Protein & NOT PROSITE
Chain A
Asymmetric Unit 1
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