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3TGY
Asym. Unit
Info
Asym.Unit (115 KB)
Biol.Unit 1 (109 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF THE COMPLEX OF BOVINE LACTOPEROXIDASE WITH ASCORBIC ACID AT 2.35 A RESOLUTION
Authors
:
S. Yamini, R. P. Singh, A. K. Singh, N. Pandey, M. Sinha, P. Kaur, S. Sharm T. P. Singh
Date
:
18 Aug 11 (Deposition) - 21 Sep 11 (Release) - 22 Feb 17 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.35
Chains
:
Asym. Unit : A
Biol. Unit 1: A (1x)
Keywords
:
Lactoperoxidase, Ascorbic Acid, Glycoprotein, Heme Moiety, Ferric Iron, Oxidoreductase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
P. K. Singh, H. V. Sirohi, N. Iqbal, P. Tiwari, P. Kaur, S. Sharma, T. P. Singh
Structure Of Bovine Lactoperoxidase With A Partially Linked Heme Moiety At 1. 98 Angstrom Resolution.
Biochim. Biophys. Acta V. 1865 329 2017
[
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Hetero Components
(11, 24)
Info
All Hetero Components
01a: ASCORBIC ACID (ASCa)
02a: CALCIUM ION (CAa)
03a: 1,2-ETHANEDIOL (EDOa)
04a: GLYCEROL (GOLa)
05a: PROTOPORPHYRIN IX CONTAINING FE (HEMa)
06a: IODIDE ION (IODa)
06b: IODIDE ION (IODb)
06c: IODIDE ION (IODc)
06d: IODIDE ION (IODd)
06e: IODIDE ION (IODe)
06f: IODIDE ION (IODf)
06g: IODIDE ION (IODg)
06h: IODIDE ION (IODh)
06i: IODIDE ION (IODi)
07a: (4S)-2-METHYL-2,4-PENTANEDIOL (MPDa)
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)
09a: DI(HYDROXYETHYL)ETHER (PEGa)
10a: THIOCYANATE ION (SCNa)
11a: PHOSPHOSERINE (SEPa)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
ASC
1
Ligand/Ion
ASCORBIC ACID
2
CA
1
Ligand/Ion
CALCIUM ION
3
EDO
1
Ligand/Ion
1,2-ETHANEDIOL
4
GOL
1
Ligand/Ion
GLYCEROL
5
HEM
1
Ligand/Ion
PROTOPORPHYRIN IX CONTAINING FE
6
IOD
9
Ligand/Ion
IODIDE ION
7
MPD
1
Ligand/Ion
(4S)-2-METHYL-2,4-PENTANEDIOL
8
NAG
6
Ligand/Ion
N-ACETYL-D-GLUCOSAMINE
9
PEG
1
Ligand/Ion
DI(HYDROXYETHYL)ETHER
10
SCN
1
Ligand/Ion
THIOCYANATE ION
11
SEP
1
Mod. Amino Acid
PHOSPHOSERINE
[
close Hetero Component info
]
Sites
(21, 21)
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)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
ASP A:110 , THR A:184 , PHE A:186 , ASP A:188 , SER A:190
BINDING SITE FOR RESIDUE CA A 606
02
AC2
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 , THR A:344 , PHE A:347 , ARG A:348 , GLY A:350 , HIS A:351 , VAL A:354 , LEU A:417 , LEU A:433 , ILE A:436 , ARG A:440 , HOH A:754 , ASC A:800
BINDING SITE FOR RESIDUE HEM A 605
03
AC3
SOFTWARE
ASN A:95 , ILE A:315 , HOH A:874 , HOH A:881
BINDING SITE FOR RESIDUE NAG A 596
04
AC4
SOFTWARE
ASN A:205 , SER A:208 , LEU A:210 , LEU A:212 , VAL A:215 , GLN A:217 , NAG A:600 , HOH A:870
BINDING SITE FOR RESIDUE NAG A 599
05
AC5
SOFTWARE
NAG A:599 , HOH A:752 , HOH A:774
BINDING SITE FOR RESIDUE NAG A 600
06
AC6
SOFTWARE
ASN A:241 , ALA A:244 , TRP A:384 , NAG A:602 , HOH A:808
BINDING SITE FOR RESIDUE NAG A 601
07
AC7
SOFTWARE
NAG A:601
BINDING SITE FOR RESIDUE NAG A 602
08
AC8
SOFTWARE
ASN A:332 , VAL A:335 , HOH A:669 , HOH A:922
BINDING SITE FOR RESIDUE NAG A 604
09
AC9
SOFTWARE
TRP A:46 , VAL A:342 , TRP A:452
BINDING SITE FOR RESIDUE IOD A 707
10
BC1
SOFTWARE
ASN A:80
BINDING SITE FOR RESIDUE IOD A 708
11
BC2
SOFTWARE
ASN A:95 , ARG A:506
BINDING SITE FOR RESIDUE IOD A 709
12
BC3
SOFTWARE
ILE A:559 , THR A:560
BINDING SITE FOR RESIDUE IOD A 711
13
BC4
SOFTWARE
LYS A:462 , THR A:463
BINDING SITE FOR RESIDUE IOD A 715
14
BC5
SOFTWARE
GLN A:217 , PHE A:229
BINDING SITE FOR RESIDUE IOD A 718
15
BC6
SOFTWARE
HIS A:565 , PHE A:567
BINDING SITE FOR RESIDUE IOD A 720
16
BC7
SOFTWARE
SEP A:198 , LEU A:199 , ARG A:202 , LYS A:472 , ASN A:473 , LYS A:474 , ILE A:475 , HOH A:622
BINDING SITE FOR RESIDUE MPD A 598
17
BC8
SOFTWARE
HIS A:377 , THR A:378 , HIS A:429 , HOH A:914
BINDING SITE FOR RESIDUE EDO A 609
18
BC9
SOFTWARE
ARG A:45 , TRP A:46 , PRO A:48 , HOH A:746
BINDING SITE FOR RESIDUE PEG A 611
19
CC1
SOFTWARE
SER A:334 , HOH A:932
BINDING SITE FOR RESIDUE GOL A 612
20
CC2
SOFTWARE
PHE A:254 , HOH A:772
BINDING SITE FOR RESIDUE SCN A 615
21
CC3
SOFTWARE
HIS A:109 , ARG A:255 , GLU A:258 , PHE A:381 , HEM A:605 , HOH A:754 , HOH A:834
BINDING SITE FOR RESIDUE ASC A 800
[
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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
[
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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:
Select:
Label:
Sorry, no Info available
[
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Asymmetric Unit 1
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