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2HOX
Biol. Unit 3
Info
Asym.Unit (349 KB)
Biol.Unit 1 (175 KB)
Biol.Unit 2 (172 KB)
Biol.Unit 3 (339 KB)
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(1)
Title
:
ALLIINASE FROM ALLIUM SATIVUM (GARLIC)
Authors
:
L. J. W. Shimon, A. Rabinkov, M. Wilcheck, D. Mirelman, F. Frolow
Date
:
17 Jul 06 (Deposition) - 06 Feb 07 (Release) - 16 Apr 14 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.40
Chains
:
Asym. Unit : A,B,C,D
Biol. Unit 1: A,B (1x)
Biol. Unit 2: C,D (1x)
Biol. Unit 3: A,B,C,D (1x)
Keywords
:
Cysteine Sulphoxide Lyase, Alliinase, Lyase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
L. J. Shimon, A. Rabinkov, I. Shin, T. Miron, D. Mirelman, M. Wilchek, F. Frolow
Two Structures Of Alliinase From Alliium Sativum L. : Apo Form And Ternary Complex With Aminoacrylate Reaction Intermediate Covalently Bound To The Plp Cofactor.
J. Mol. Biol. V. 366 611 2007
(for further references see the
PDB file header
)
[
close entry info
]
Hetero Components
(5, 29)
Info
All Hetero Components
1a: BETA-D-MANNOSE (BMAa)
1b: BETA-D-MANNOSE (BMAb)
1c: BETA-D-MANNOSE (BMAc)
2a: CHLORIDE ION (CLa)
2b: CHLORIDE ION (CLb)
2c: CHLORIDE ION (CLc)
2d: CHLORIDE ION (CLd)
3a: ALPHA-L-FUCOSE (FUCa)
3b: ALPHA-L-FUCOSE (FUCb)
3c: ALPHA-L-FUCOSE (FUCc)
3d: ALPHA-L-FUCOSE (FUCd)
4a: N-ACETYL-D-GLUCOSAMINE (NAGa)
4b: N-ACETYL-D-GLUCOSAMINE (NAGb)
4c: N-ACETYL-D-GLUCOSAMINE (NAGc)
4d: N-ACETYL-D-GLUCOSAMINE (NAGd)
4e: N-ACETYL-D-GLUCOSAMINE (NAGe)
4f: N-ACETYL-D-GLUCOSAMINE (NAGf)
4g: N-ACETYL-D-GLUCOSAMINE (NAGg)
4h: N-ACETYL-D-GLUCOSAMINE (NAGh)
4i: N-ACETYL-D-GLUCOSAMINE (NAGi)
4j: N-ACETYL-D-GLUCOSAMINE (NAGj)
4k: N-ACETYL-D-GLUCOSAMINE (NAGk)
4l: N-ACETYL-D-GLUCOSAMINE (NAGl)
4m: N-ACETYL-D-GLUCOSAMINE (NAGm)
4n: N-ACETYL-D-GLUCOSAMINE (NAGn)
4o: N-ACETYL-D-GLUCOSAMINE (NAGo)
4p: N-ACETYL-D-GLUCOSAMINE (NAGp)
4q: N-ACETYL-D-GLUCOSAMINE (NAGq)
5a: 2-[({3-HYDROXY-2-METHYL-5-[(PHOSPH... (P1Ta)
5b: 2-[({3-HYDROXY-2-METHYL-5-[(PHOSPH... (P1Tb)
5c: 2-[({3-HYDROXY-2-METHYL-5-[(PHOSPH... (P1Tc)
5d: 2-[({3-HYDROXY-2-METHYL-5-[(PHOSPH... (P1Td)
6a: BETA-D-XYLOPYRANOSE (XYPa)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
BMA
3
Ligand/Ion
BETA-D-MANNOSE
2
CL
-1
Ligand/Ion
CHLORIDE ION
3
FUC
4
Ligand/Ion
ALPHA-L-FUCOSE
4
NAG
17
Ligand/Ion
N-ACETYL-D-GLUCOSAMINE
5
P1T
4
Ligand/Ion
2-[({3-HYDROXY-2-METHYL-5-[(PHOSPHONOOXY)METHYL]PYRIDIN-4-YL}METHYL)AMINO]ACRYLIC ACID
6
XYP
1
Ligand/Ion
BETA-D-XYLOPYRANOSE
[
close Hetero Component info
]
Sites
(33, 33)
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)
32: DC5 (SOFTWARE)
33: DC6 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
ASN A:146 , ALA A:149 , FUC A:501 , NAG A:502 , HOH A:6696 , HOH A:6723
BINDING SITE FOR RESIDUE NAG A 500
02
AC2
SOFTWARE
NAG A:500 , NAG A:502 , HOH A:6280 , HOH A:6416 , HOH A:6450 , HOH A:6715
BINDING SITE FOR RESIDUE FUC A 501
03
AC3
SOFTWARE
NAG A:500 , FUC A:501 , BMA A:503 , XYP A:504 , HOH A:6362 , HOH A:6386 , HOH A:6484 , ASP C:123
BINDING SITE FOR RESIDUE NAG A 502
04
AC4
SOFTWARE
NAG A:502 , XYP A:504 , BMA A:505 , HOH A:6119 , HOH A:6228 , HOH A:6332 , HOH A:6336 , HOH A:6684
BINDING SITE FOR RESIDUE BMA A 503
05
AC5
SOFTWARE
NAG A:502 , BMA A:503 , BMA A:505 , HOH A:6228 , HOH A:6665 , ASP C:123 , ARG C:124 , TYR C:125 , LYS C:266 , HOH C:6384
BINDING SITE FOR RESIDUE XYP A 504
06
AC6
SOFTWARE
BMA A:503 , XYP A:504 , HOH A:6215 , HOH A:6294 , HOH A:6466 , HOH A:6672 , HOH A:6697 , HOH A:6710 , HOH A:6718 , HOH A:6725 , LYS C:266
BINDING SITE FOR RESIDUE BMA A 505
07
AC7
SOFTWARE
ASN A:328 , GLN A:408 , PHE A:411 , NAG A:507 , HOH A:6235 , HOH A:6308
BINDING SITE FOR RESIDUE NAG A 506
08
AC8
SOFTWARE
NAG A:506 , HOH A:6404
BINDING SITE FOR RESIDUE NAG A 507
09
AC9
SOFTWARE
ASN B:146 , THR B:148 , ALA B:149 , FUC B:501 , HOH B:6006 , HOH B:6613
BINDING SITE FOR RESIDUE NAG B 500
10
BC1
SOFTWARE
NAG B:500 , HOH B:6277
BINDING SITE FOR RESIDUE FUC B 501
11
BC2
SOFTWARE
GLU B:324 , ASN B:328 , GLN B:408 , NAG B:503 , HOH B:6179 , HOH B:6272 , HOH B:6650
BINDING SITE FOR RESIDUE NAG B 502
12
BC3
SOFTWARE
NAG B:502 , HOH B:6455 , HOH B:6488 , HOH B:6663
BINDING SITE FOR RESIDUE NAG B 503
13
BC4
SOFTWARE
ASN A:17 , ASN B:191 , HOH B:6270 , HOH B:6279 , HOH B:6296 , HOH B:6309
BINDING SITE FOR RESIDUE NAG B 3500
14
BC5
SOFTWARE
ASN A:191 , HOH A:6248 , HOH A:6269 , HOH A:6301 , HOH A:6704 , HOH A:6728
BINDING SITE FOR RESIDUE NAG A 4500
15
BC6
SOFTWARE
ASN C:146 , FUC C:501 , NAG C:502 , HOH C:6272 , TYR D:174
BINDING SITE FOR RESIDUE NAG C 500
16
BC7
SOFTWARE
ASN C:276 , LYS C:280 , NAG C:500 , NAG C:502 , HOH C:6694 , GLU D:170
BINDING SITE FOR RESIDUE FUC C 501
17
BC8
SOFTWARE
NAG C:500 , FUC C:501 , BMA C:503 , LYS D:173
BINDING SITE FOR RESIDUE NAG C 502
18
BC9
SOFTWARE
HOH A:6573 , NAG C:502
BINDING SITE FOR RESIDUE BMA C 503
19
CC1
SOFTWARE
ASN C:328 , GLN C:408 , PHE C:411 , NAG C:505 , HOH C:6328 , HOH C:6343 , HOH C:6457 , HOH C:6515 , HOH C:6739
BINDING SITE FOR RESIDUE NAG C 504
20
CC2
SOFTWARE
NAG C:504 , HOH C:6370 , HOH C:6676 , ASP D:152
BINDING SITE FOR RESIDUE NAG C 505
21
CC3
SOFTWARE
ASN D:146 , THR D:148 , ALA D:149 , FUC D:501 , NAG D:502 , HOH D:6154 , HOH D:6213
BINDING SITE FOR RESIDUE NAG D 500
22
CC4
SOFTWARE
NAG D:500 , NAG D:502 , HOH D:6209 , HOH D:6415 , HOH D:6432
BINDING SITE FOR RESIDUE FUC D 501
23
CC5
SOFTWARE
NAG D:500 , FUC D:501 , HOH D:6204 , HOH D:6400
BINDING SITE FOR RESIDUE NAG D 502
24
CC6
SOFTWARE
ASN D:328 , GLN D:408 , PHE D:411 , NAG D:504 , HOH D:6259 , HOH D:6304
BINDING SITE FOR RESIDUE NAG D 503
25
CC7
SOFTWARE
NAG D:503 , HOH D:6238 , HOH D:6382
BINDING SITE FOR RESIDUE NAG D 504
26
CC8
SOFTWARE
PHE A:93 , PHE A:94 , SER A:98 , ASN A:99 , PHE A:100
BINDING SITE FOR RESIDUE CL A 5001
27
CC9
SOFTWARE
PHE B:93 , PHE B:94 , SER B:98 , ASN B:99 , PHE B:100
BINDING SITE FOR RESIDUE CL B 5002
28
DC1
SOFTWARE
PHE C:93 , PHE C:94 , SER C:98 , ASN C:99 , PHE C:100
BINDING SITE FOR RESIDUE CL C 5003
29
DC2
SOFTWARE
PHE D:93 , PHE D:94 , SER D:98 , ASN D:99 , PHE D:100
BINDING SITE FOR RESIDUE CL D 5004
30
DC3
SOFTWARE
GLY A:64 , GLY A:131 , VAL A:132 , THR A:133 , TYR A:165 , THR A:203 , ASN A:207 , ASP A:225 , VAL A:227 , TYR A:228 , THR A:248 , SER A:250 , LYS A:251 , ARG A:259 , TYR A:363 , ARG A:401 , HOH A:6130 , HOH A:6641 , TYR B:92
BINDING SITE FOR RESIDUE P1T A 6001
31
DC4
SOFTWARE
TYR A:92 , GLY B:64 , GLY B:131 , VAL B:132 , THR B:133 , TYR B:165 , THR B:203 , ASN B:207 , ASP B:225 , VAL B:227 , TYR B:228 , THR B:248 , SER B:250 , LYS B:251 , ARG B:259 , TYR B:363 , ARG B:401 , HOH B:6166 , HOH B:6428
BINDING SITE FOR RESIDUE P1T B 6002
32
DC5
SOFTWARE
GLY C:64 , GLY C:131 , VAL C:132 , THR C:133 , TYR C:165 , THR C:203 , ASN C:207 , ASP C:225 , VAL C:227 , TYR C:228 , THR C:248 , SER C:250 , LYS C:251 , ARG C:259 , TYR C:363 , ARG C:401 , HOH C:6017 , HOH C:6211 , TYR D:92
BINDING SITE FOR RESIDUE P1T C 6003
33
DC6
SOFTWARE
TYR C:92 , GLY D:64 , GLY D:131 , VAL D:132 , THR D:133 , TYR D:165 , THR D:203 , ASN D:207 , ASP D:225 , VAL D:227 , TYR D:228 , THR D:248 , SER D:250 , LYS D:251 , ARG D:259 , TYR D:363 , ARG D:401 , HOH D:6118 , HOH D:6265 , HOH D:6412
BINDING SITE FOR RESIDUE P1T D 6004
[
close Site info
]
SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are only available for the asymmetric unit)
All SNPs/Variants
View:
Select:
Label:
Sorry, no Info available
[
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PROSITE Patterns/Profiles
(1, 4)
Info
All PROSITE Patterns/Profiles
1: EGF_1 (A:39-50,B:39-50,C:39-50,D:39-50)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
EGF_1
PS00022
EGF-like domain signature 1.
ALLN1_ALLSA
77-88
4
A:39-50
B:39-50
C:39-50
D:39-50
[
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]
Exons
(0, 0)
Info
All Exons
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All Exon Boundaries
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Label:
Note:
Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
(no "Exon" information available for biological units yet)
SCOP Domains
(1, 4)
Info
All SCOP Domains
1a: SCOP_d2hoxa_ (A:)
1b: SCOP_d2hoxb_ (B:)
1c: SCOP_d2hoxc_ (C:)
1d: SCOP_d2hoxd_ (D:)
View:
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Classes
(
)
(
)
Folds
(
)
(
)
Superfamilies
(
)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
PLP-dependent transferase-like
(627)
Superfamily
:
PLP-dependent transferases
(625)
Family
:
AAT-like
(184)
Protein domain
:
automated matches
(16)
Garlic (Allium sativum) [TaxId: 4682]
(2)
1a
d2hoxa_
A:
1b
d2hoxb_
B:
1c
d2hoxc_
C:
1d
d2hoxd_
D:
[
close SCOP info
]
CATH Domains
(3, 12)
Info
all CATH domains
1a: CATH_2hoxA02 (A:101-310)
1b: CATH_2hoxB02 (B:101-310)
1c: CATH_2hoxC02 (C:101-310)
1d: CATH_2hoxD02 (D:101-310)
2a: CATH_2hoxA03 (A:311-423)
2b: CATH_2hoxB03 (B:311-423)
2c: CATH_2hoxC03 (C:311-423)
2d: CATH_2hoxD03 (D:311-423)
3a: CATH_2hoxA01 (A:1-100)
3b: CATH_2hoxB01 (B:1-100)
3c: CATH_2hoxC01 (C:1-100)
3d: CATH_2hoxD01 (D:1-100)
View:
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Classes
(
)
(
)
Architectures
(
)
(
)
Topologies
(
)
(
)
Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
3-Layer(aba) Sandwich
(12045)
Topology
:
Aspartate Aminotransferase; domain 2
(384)
Homologous Superfamily
:
Type I PLP-dependent aspartate aminotransferase-like (Major domain)
(384)
Garlic (Allium sativum)
(3)
1a
2hoxA02
A:101-310
1b
2hoxB02
B:101-310
1c
2hoxC02
C:101-310
1d
2hoxD02
D:101-310
Architecture
:
Alpha-Beta Complex
(3881)
Topology
:
Aspartate Aminotransferase, domain 1
(355)
Homologous Superfamily
:
Aspartate Aminotransferase, domain 1
(354)
Garlic (Allium sativum)
(3)
2a
2hoxA03
A:311-423
2b
2hoxB03
B:311-423
2c
2hoxC03
C:311-423
2d
2hoxD03
D:311-423
Class
:
Mainly Beta
(13760)
Architecture
:
Ribbon
(789)
Topology
:
Laminin
(270)
Homologous Superfamily
:
Alliin lyase; domain 1
(3)
Garlic (Allium sativum)
(3)
3a
2hoxA01
A:1-100
3b
2hoxB01
B:1-100
3c
2hoxC01
C:1-100
3d
2hoxD01
D:1-100
[
close CATH info
]
Pfam Domains
(0, 0)
Info
all PFAM domains
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