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Asym. Unit
Info
Asym.Unit (292 KB)
Biol.Unit 1 (286 KB)
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(1)
Title
:
STRUCTURE OF GAMMA-AMINOBUTYRATE AMINOTRANSFERASE COMPLEX WITH AMINOOXYACETATE
Authors
:
W. Liu, P. E. Peterson, R. J. Carter, X. Zhou, J. A. Langston, A. J. Fisher, M. D. Toney
Date
:
19 Feb 04 (Deposition) - 14 Sep 04 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.90
Chains
:
Asym. Unit : A,B,C,D
Biol. Unit 1: A,B,C,D (1x)
Keywords
:
Enzyme Complexes, Aminotransferase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
W. Liu, P. E. Peterson, R. J. Carter, X. Zhou, J. A. Langston, A. J. Fisher, M. D. Toney
Crystal Structures Of Unbound And Aminooxyacetate-Bound Escherichia Coli Gamma-Aminobutyrate Aminotransferase.
Biochemistry V. 43 10896 2004
(for further references see the
PDB file header
)
[
close entry info
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Hetero Components
(3, 29)
Info
All Hetero Components
1a: 1,2-ETHANEDIOL (EDOa)
1b: 1,2-ETHANEDIOL (EDOb)
1c: 1,2-ETHANEDIOL (EDOc)
1d: 1,2-ETHANEDIOL (EDOd)
1e: 1,2-ETHANEDIOL (EDOe)
1f: 1,2-ETHANEDIOL (EDOf)
1g: 1,2-ETHANEDIOL (EDOg)
1h: 1,2-ETHANEDIOL (EDOh)
1i: 1,2-ETHANEDIOL (EDOi)
1j: 1,2-ETHANEDIOL (EDOj)
1k: 1,2-ETHANEDIOL (EDOk)
1l: 1,2-ETHANEDIOL (EDOl)
1m: 1,2-ETHANEDIOL (EDOm)
1n: 1,2-ETHANEDIOL (EDOn)
2a: 4'-DEOXY-4'-ACETYLYAMINO-PYRIDOXAL... (IK2a)
2b: 4'-DEOXY-4'-ACETYLYAMINO-PYRIDOXAL... (IK2b)
2c: 4'-DEOXY-4'-ACETYLYAMINO-PYRIDOXAL... (IK2c)
2d: 4'-DEOXY-4'-ACETYLYAMINO-PYRIDOXAL... (IK2d)
3a: SULFATE ION (SO4a)
3b: SULFATE ION (SO4b)
3c: SULFATE ION (SO4c)
3d: SULFATE ION (SO4d)
3e: SULFATE ION (SO4e)
3f: SULFATE ION (SO4f)
3g: SULFATE ION (SO4g)
3h: SULFATE ION (SO4h)
3i: SULFATE ION (SO4i)
3j: SULFATE ION (SO4j)
3k: SULFATE ION (SO4k)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
EDO
14
Ligand/Ion
1,2-ETHANEDIOL
2
IK2
4
Ligand/Ion
4'-DEOXY-4'-ACETYLYAMINO-PYRIDOXAL-5'-PHOSPHATE
3
SO4
11
Ligand/Ion
SULFATE ION
[
close Hetero Component info
]
Sites
(29, 29)
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)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
LYS A:151 , ASN A:153 , TYR A:394 , HOH A:1462 , LYS C:192
BINDING SITE FOR RESIDUE SO4 A 1301
02
AC2
SOFTWARE
LYS B:151 , ASN B:153 , TYR B:394 , HOH D:1512
BINDING SITE FOR RESIDUE SO4 B 1302
03
AC3
SOFTWARE
LYS A:192 , HOH A:1471 , LYS C:151 , ASN C:153 , TYR C:394
BINDING SITE FOR RESIDUE SO4 C 1303
04
AC4
SOFTWARE
LYS B:192 , LYS D:151 , ASN D:153 , TYR D:394
BINDING SITE FOR RESIDUE SO4 D 1304
05
AC5
SOFTWARE
LYS B:5 , ARG B:381
BINDING SITE FOR RESIDUE SO4 B 1305
06
AC6
SOFTWARE
LYS D:5 , ARG D:381 , HOH D:1587 , HOH D:1680
BINDING SITE FOR RESIDUE SO4 D 1306
07
AC7
SOFTWARE
ILE A:184 , ARG A:224 , HOH A:1500 , HOH A:1619
BINDING SITE FOR RESIDUE SO4 A 1307
08
AC8
SOFTWARE
ARG B:224 , HOH B:1517 , HOH B:1643
BINDING SITE FOR RESIDUE SO4 B 1308
09
AC9
SOFTWARE
ARG C:224 , HOH C:1521 , HOH C:1570
BINDING SITE FOR RESIDUE SO4 C 1309
10
BC1
SOFTWARE
HIS D:188 , ARG D:224 , HOH D:1564 , HOH D:1577
BINDING SITE FOR RESIDUE SO4 D 1310
11
BC2
SOFTWARE
GLN A:419 , HOH A:1661 , HOH A:1665 , LYS C:71 , HOH C:1547 , ARG D:29
BINDING SITE FOR RESIDUE SO4 C 1311
12
BC3
SOFTWARE
ASP A:45 , ALA A:47 , GLY A:48 , GLY A:49 , HIS A:57 , THR B:76 , VAL B:80 , LEU B:81
BINDING SITE FOR RESIDUE EDO A 1401
13
BC4
SOFTWARE
THR A:76 , VAL A:80 , LEU A:81 , ASP B:45 , ALA B:47 , GLY B:48 , GLY B:49 , HIS B:57
BINDING SITE FOR RESIDUE EDO B 1402
14
BC5
SOFTWARE
ASP C:45 , ALA C:47 , GLY C:48 , GLY C:49 , HIS C:57 , THR D:76 , VAL D:80 , LEU D:81
BINDING SITE FOR RESIDUE EDO C 1403
15
BC6
SOFTWARE
THR C:76 , VAL C:80 , LEU C:81 , ASP D:45 , ALA D:47 , GLY D:48 , GLY D:49 , HIS D:57
BINDING SITE FOR RESIDUE EDO D 1404
16
BC7
SOFTWARE
GLY B:164 , HIS B:165 , TYR B:167 , HOH B:1550 , HOH B:1585 , GLY D:164 , HIS D:165 , TYR D:167
BINDING SITE FOR RESIDUE EDO B 1405
17
BC8
SOFTWARE
GLN A:69 , LYS A:72 , LEU A:73 , PRO A:85 , HOH A:1518 , ALA B:27 , ASP B:28
BINDING SITE FOR RESIDUE EDO A 1406
18
BC9
SOFTWARE
GLN C:69 , LYS C:72 , LEU C:73 , PRO C:85 , HOH C:1598 , ALA D:27 , ASP D:28 , HOH D:1543
BINDING SITE FOR RESIDUE EDO C 1407
19
CC1
SOFTWARE
ALA C:27 , ASP C:28 , GLN D:69 , LYS D:72 , LEU D:73 , PRO D:85 , HOH D:1555
BINDING SITE FOR RESIDUE EDO D 1408
20
CC2
SOFTWARE
MET A:162 , PRO A:163 , EDO A:1410 , HOH A:1452 , HOH A:1568 , TYR C:167 , ASP C:194
BINDING SITE FOR RESIDUE EDO C 1409
21
CC3
SOFTWARE
GLY A:164 , HIS A:165 , TYR A:167 , HOH A:1532 , HOH A:1568 , GLY C:164 , HIS C:165 , TYR C:167 , EDO C:1409
BINDING SITE FOR RESIDUE EDO A 1410
22
CC4
SOFTWARE
GLN A:9 , GLN D:95 , LYS D:96 , PRO D:98 , GLU D:255
BINDING SITE FOR RESIDUE EDO A 1411
23
CC5
SOFTWARE
ILE D:22 , HIS D:23 , PRO D:24 , ARG D:381
BINDING SITE FOR RESIDUE EDO D 1412
24
CC6
SOFTWARE
PRO C:275 , ASN C:301 , ILE C:303 , PRO D:275 , ASN D:301 , ILE D:303
BINDING SITE FOR RESIDUE EDO D 1413
25
CC7
SOFTWARE
ILE B:22 , HIS B:23 , PRO B:24 , ARG B:381
BINDING SITE FOR RESIDUE EDO B 1414
26
CC8
SOFTWARE
GLY A:111 , SER A:112 , TYR A:138 , HIS A:139 , ARG A:141 , GLU A:206 , ASP A:239 , VAL A:241 , GLN A:242 , LYS A:268 , HOH A:1414 , HOH A:1416 , HOH A:1459 , HOH A:1523 , HOH A:1624 , HOH A:1650 , HOH A:1740 , GLN B:79 , GLY B:296 , THR B:297 , HOH B:1450
BINDING SITE FOR RESIDUE IK2 A 450
27
CC9
SOFTWARE
GLN A:79 , GLY A:296 , THR A:297 , THR B:110 , GLY B:111 , SER B:112 , TYR B:138 , HIS B:139 , ARG B:141 , GLU B:206 , ASP B:239 , VAL B:241 , GLN B:242 , LYS B:268 , HOH B:1427 , HOH B:1431 , HOH B:1432 , HOH B:1436 , HOH B:1440 , HOH B:1580 , HOH B:1635
BINDING SITE FOR RESIDUE IK2 B 450
28
DC1
SOFTWARE
THR C:110 , GLY C:111 , SER C:112 , TYR C:138 , HIS C:139 , ARG C:141 , GLU C:206 , ASP C:239 , VAL C:241 , GLN C:242 , LYS C:268 , HOH C:1410 , HOH C:1424 , HOH C:1445 , HOH C:1463 , HOH C:1516 , HOH C:1615 , GLN D:79 , THR D:297 , HOH D:1442
BINDING SITE FOR RESIDUE IK2 C 450
29
DC2
SOFTWARE
GLN C:79 , GLY C:296 , THR C:297 , HOH C:1428 , GLY D:111 , SER D:112 , TYR D:138 , HIS D:139 , ARG D:141 , GLU D:206 , ASP D:239 , VAL D:241 , GLN D:242 , LYS D:268 , HOH D:1416 , HOH D:1429 , HOH D:1435 , HOH D:1505 , HOH D:1559 , HOH D:1599 , HOH D:1718
BINDING SITE FOR RESIDUE IK2 D 450
[
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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, 4)
Info
All PROSITE Patterns/Profiles
1: AA_TRANSFER_CLASS_3 (A:236-273,B:236-273,C:236-273,D:23...)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
AA_TRANSFER_CLASS_3
PS00600
Aminotransferases class-III pyridoxal-phosphate attachment site.
GABT_ECOLI
236-273
4
A:236-273
B:236-273
C:236-273
D:236-273
[
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]
Exons
(0, 0)
Info
All Exons
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Note:
Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
SCOP Domains
(1, 4)
Info
All SCOP Domains
1a: SCOP_d1sffa_ (A:)
1b: SCOP_d1sffb_ (B:)
1c: SCOP_d1sffc_ (C:)
1d: SCOP_d1sffd_ (D:)
View:
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Classes
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)
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)
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(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
PLP-dependent transferase-like
(627)
Superfamily
:
PLP-dependent transferases
(625)
Family
:
GABA-aminotransferase-like
(167)
Protein domain
:
4-aminobutyrate aminotransferase, GABA-aminotransferase
(8)
Escherichia coli [TaxId: 562]
(5)
1a
d1sffa_
A:
1b
d1sffb_
B:
1c
d1sffc_
C:
1d
d1sffd_
D:
[
close SCOP info
]
CATH Domains
(2, 8)
Info
all CATH domains
1a: CATH_1sffA02 (A:59-318)
1b: CATH_1sffB02 (B:59-318)
1c: CATH_1sffC02 (C:59-318)
1d: CATH_1sffD02 (D:59-318)
2a: CATH_1sffA01 (A:2-58,A:319-426)
2b: CATH_1sffB01 (B:2-58,B:319-426)
2c: CATH_1sffC01 (C:2-58,C:319-426)
2d: CATH_1sffD01 (D:2-58,D:319-426)
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Classes
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)
(
)
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(
)
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)
Escherichia coli. Organism_taxid: 562.
(37)
1a
1sffA02
A:59-318
1b
1sffB02
B:59-318
1c
1sffC02
C:59-318
1d
1sffD02
D:59-318
Architecture
:
Alpha-Beta Complex
(3881)
Topology
:
Aspartate Aminotransferase, domain 1
(355)
Homologous Superfamily
:
Aspartate Aminotransferase, domain 1
(354)
Escherichia coli. Organism_taxid: 562.
(32)
2a
1sffA01
A:2-58,A:319-426
2b
1sffB01
B:2-58,B:319-426
2c
1sffC01
C:2-58,C:319-426
2d
1sffD01
D:2-58,D:319-426
[
close CATH info
]
Pfam Domains
(1, 4)
Info
all PFAM domains
1a: PFAM_Aminotran_3_1sffD01 (D:26-361)
1b: PFAM_Aminotran_3_1sffD02 (D:26-361)
1c: PFAM_Aminotran_3_1sffD03 (D:26-361)
1d: PFAM_Aminotran_3_1sffD04 (D:26-361)
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Clans
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Organisms
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)
Clan
:
PLP_aminotran
(240)
Family
:
Aminotran_3
(44)
Escherichia coli (strain K12)
(13)
1a
Aminotran_3-1sffD01
D:26-361
1b
Aminotran_3-1sffD02
D:26-361
1c
Aminotran_3-1sffD03
D:26-361
1d
Aminotran_3-1sffD04
D:26-361
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