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1N0H
Asym. Unit
Info
Asym.Unit (216 KB)
Biol.Unit 1 (209 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF YEAST ACETOHYDROXYACID SYNTHASE IN COMPLEX WITH A SULFONYLUREA HERBICIDE, CHLORIMURON ETHYL
Authors
:
S. S. Pang, L. W. Guddat, R. G. Duggleby
Date
:
14 Oct 02 (Deposition) - 07 Jan 03 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.80
Chains
:
Asym. Unit : A,B
Biol. Unit 1: A,B (1x)
Keywords
:
Acetohydroxyacid Synthase, Sulfonylurea, Herbicide Inhibition, Thiamine Diphosphate, Lyase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
S. S. Pang, L. W. Guddat, R. G. Duggleby
Molecular Basis Of Sulfonylurea Herbicide Inhibition Of Acetohydroxyacid Synthase
J. Biol. Chem. V. 278 7639 2003
(for further references see the
PDB file header
)
[
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Hetero Components
(7, 12)
Info
All Hetero Components
1a: 4-{[(4'-AMINO-2'-METHYLPYRIMIDIN-5... (AYDa)
2a: 2-[[[[(4-CHLORO-6-METHOXY-2-PYRIMI... (CIEa)
2b: 2-[[[[(4-CHLORO-6-METHOXY-2-PYRIMI... (CIEb)
3a: 2,3-DIHYDROXY-1,4-DITHIOBUTANE (DTTa)
3b: 2,3-DIHYDROXY-1,4-DITHIOBUTANE (DTTb)
4a: FLAVIN-ADENINE DINUCLEOTIDE (FADa)
4b: FLAVIN-ADENINE DINUCLEOTIDE (FADb)
5a: POTASSIUM ION (Ka)
5b: POTASSIUM ION (Kb)
6a: MAGNESIUM ION (MGa)
6b: MAGNESIUM ION (MGb)
7a: THIAMINE DIPHOSPHATE (TPPa)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
AYD
1
Ligand/Ion
4-{[(4'-AMINO-2'-METHYLPYRIMIDIN-5'-YL)METHYL]AMINO}PENT-3-ENYL DIPHOSPHATE
2
CIE
2
Ligand/Ion
2-[[[[(4-CHLORO-6-METHOXY-2-PYRIMIDINYL)AMINO]CARBONYL]AMINO]SULFONYL]BENZOIC ACID ETHYL ESTER
3
DTT
2
Ligand/Ion
2,3-DIHYDROXY-1,4-DITHIOBUTANE
4
FAD
2
Ligand/Ion
FLAVIN-ADENINE DINUCLEOTIDE
5
K
2
Ligand/Ion
POTASSIUM ION
6
MG
2
Ligand/Ion
MAGNESIUM ION
7
TPP
1
Ligand/Ion
THIAMINE DIPHOSPHATE
[
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]
Sites
(12, 12)
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)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
GLN A:343 , ASP A:350 , GLN A:506 , TRP A:508 , HOH A:753 , HOH A:1382
BINDING SITE FOR RESIDUE K A 696
02
AC2
SOFTWARE
ASP A:550 , ASN A:577 , GLU A:579 , AYD A:700 , HOH A:771
BINDING SITE FOR RESIDUE MG A 699
03
AC3
SOFTWARE
GLN B:343 , ASP B:350 , GLN B:506 , TRP B:508 , HOH B:1017
BINDING SITE FOR RESIDUE K B 1696
04
AC4
SOFTWARE
ASP B:550 , ASN B:577 , GLU B:579 , HOH B:1032 , TPP B:1702
BINDING SITE FOR RESIDUE MG B 1699
05
AC5
SOFTWARE
MET A:354 , ASP A:379 , ARG A:380 , VAL A:583 , TRP A:586 , FAD A:701 , GLY B:116 , ALA B:117 , VAL B:191 , PRO B:192 , PHE B:201 , GLN B:202 , LYS B:251
BINDING SITE FOR RESIDUE CIE A 695
06
AC6
SOFTWARE
CYS A:357 , THR A:359 , LYS A:455 , TYR A:458 , TYR A:460
BINDING SITE FOR RESIDUE DTT A 698
07
AC7
SOFTWARE
VAL A:497 , GLY A:498 , GLN A:499 , HIS A:500 , GLY A:523 , MET A:525 , GLY A:549 , ASP A:550 , ALA A:551 , SER A:552 , MET A:555 , ASN A:577 , GLU A:579 , GLN A:580 , GLY A:581 , MET A:582 , VAL A:583 , MG A:699 , HOH A:724 , HOH A:771 , HOH A:1108 , PRO B:114 , GLU B:139 , PRO B:165 , ASN B:169 , GLN B:202
BINDING SITE FOR RESIDUE AYD A 700
08
AC8
SOFTWARE
ASP A:180 , ARG A:241 , GLY A:307 , ALA A:308 , GLY A:309 , ASN A:312 , THR A:334 , LEU A:335 , LEU A:352 , GLY A:353 , MET A:354 , HIS A:355 , GLY A:374 , ALA A:375 , ARG A:376 , ASP A:378 , ARG A:380 , VAL A:381 , PHE A:406 , GLU A:407 , VAL A:408 , ASN A:412 , GLY A:425 , ASP A:426 , ALA A:427 , GLN A:501 , MET A:502 , GLY A:520 , GLY A:521 , MET A:582 , CIE A:695 , HOH A:725 , HOH A:726 , HOH A:747 , HOH A:892 , PHE B:201
BINDING SITE FOR RESIDUE FAD A 701
09
AC9
SOFTWARE
GLY A:116 , ALA A:117 , VAL A:191 , PRO A:192 , PHE A:201 , GLN A:202 , LYS A:251 , MET B:354 , ASP B:379 , ARG B:380 , MET B:582 , TRP B:586 , HOH B:1520 , FAD B:1701
BINDING SITE FOR RESIDUE CIE B 1695
10
BC1
SOFTWARE
ASP B:350 , CYS B:357 , THR B:359 , LYS B:455 , TYR B:458 , PRO B:459 , HOH B:1018
BINDING SITE FOR RESIDUE DTT B 1698
11
BC2
SOFTWARE
TYR A:113 , PRO A:114 , GLU A:139 , PRO A:165 , ASN A:169 , GLN A:202 , VAL B:497 , GLY B:498 , GLN B:499 , HIS B:500 , GLY B:523 , MET B:525 , GLY B:549 , ASP B:550 , ALA B:551 , SER B:552 , MET B:555 , ASN B:577 , GLU B:579 , GLN B:580 , GLY B:581 , MET B:582 , VAL B:583 , HOH B:1032 , MG B:1699
BINDING SITE FOR RESIDUE TPP B 1702
12
BC3
SOFTWARE
PHE A:201 , ASP B:180 , ARG B:241 , GLY B:307 , ALA B:308 , GLY B:309 , ASN B:312 , THR B:334 , LEU B:335 , LEU B:352 , GLY B:353 , MET B:354 , HIS B:355 , GLY B:374 , ALA B:375 , ARG B:376 , ASP B:378 , ARG B:380 , VAL B:381 , GLU B:407 , VAL B:408 , ASN B:412 , GLY B:425 , ASP B:426 , ALA B:427 , GLN B:501 , MET B:502 , GLY B:520 , GLY B:521 , MET B:582 , HOH B:982 , HOH B:991 , HOH B:1008 , HOH B:1013 , HOH B:1051 , CIE B:1695
BINDING SITE FOR RESIDUE FAD B 1701
[
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
All SNPs/Variants
View:
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Sorry, no Info available
[
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PROSITE Patterns/Profiles
(1, 2)
Info
All PROSITE Patterns/Profiles
1: TPP_ENZYMES (A:533-552,B:533-552)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
TPP_ENZYMES
PS00187
Thiamine pyrophosphate enzymes signature.
ILVB_YEAST
533-552
2
A:533-552
B:533-552
[
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Exons
(1, 2)
Info
All Exons
Exon 1.1 (A:83-687 (gaps) | B:83-687 (gaps))
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All Exon Boundaries
1: Boundary -/1.1
2: Boundary 1.1/-
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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
YMR108W
1
YMR108W.1
XIII:484083-486146
2064
ILVB_YEAST
1-687
687
2
A:83-687 (gaps)
B:83-687 (gaps)
605
605
[
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]
SCOP Domains
(3, 6)
Info
All SCOP Domains
1a: SCOP_d1n0ha1 (A:277-460)
1b: SCOP_d1n0hb1 (B:278-460)
2a: SCOP_d1n0ha3 (A:461-687)
2b: SCOP_d1n0hb3 (B:461-687)
3a: SCOP_d1n0ha2 (A:83-270)
3b: SCOP_d1n0hb2 (B:83-270)
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)
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)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
DHS-like NAD/FAD-binding domain
(176)
Superfamily
:
DHS-like NAD/FAD-binding domain
(176)
Family
:
Pyruvate oxidase and decarboxylase, middle domain
(74)
Protein domain
:
Acetohydroxyacid synthase catalytic subunit
(12)
Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]
(6)
1a
d1n0ha1
A:277-460
1b
d1n0hb1
B:278-460
Fold
:
Thiamin diphosphate-binding fold (THDP-binding)
(289)
Superfamily
:
Thiamin diphosphate-binding fold (THDP-binding)
(289)
Family
:
Pyruvate oxidase and decarboxylase PP module
(43)
Protein domain
:
Acetohydroxyacid synthase catalytic subunit
(12)
Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]
(6)
2a
d1n0ha3
A:461-687
2b
d1n0hb3
B:461-687
Family
:
Pyruvate oxidase and decarboxylase Pyr module
(43)
Protein domain
:
Acetohydroxyacid synthase catalytic subunit
(12)
Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]
(6)
3a
d1n0ha2
A:83-270
3b
d1n0hb2
B:83-270
[
close SCOP info
]
CATH Domains
(2, 6)
Info
all CATH domains
1a: CATH_1n0hA03 (A:460-687)
1b: CATH_1n0hB03 (B:460-687)
1c: CATH_1n0hA01 (A:83-270)
1d: CATH_1n0hB01 (B:83-270)
2a: CATH_1n0hB02 (B:278-459)
2b: CATH_1n0hA02 (A:277-459)
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Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
3-Layer(aba) Sandwich
(12045)
Topology
:
Rossmann fold
(7312)
Homologous Superfamily
:
[code=3.40.50.970, no name defined]
(144)
Baker's yeast (Saccharomyces cerevisiae)
(17)
1a
1n0hA03
A:460-687
1b
1n0hB03
B:460-687
1c
1n0hA01
A:83-270
1d
1n0hB01
B:83-270
Homologous Superfamily
:
TPP-binding domain
(120)
Baker's yeast (Saccharomyces cerevisiae)
(20)
2a
1n0hB02
B:278-459
2b
1n0hA02
A:277-459
[
close CATH info
]
Pfam Domains
(3, 6)
Info
all PFAM domains
1a: PFAM_TPP_enzyme_M_1n0hB01 (B:289-435)
1b: PFAM_TPP_enzyme_M_1n0hB02 (B:289-435)
2a: PFAM_TPP_enzyme_C_1n0hB03 (B:496-643)
2b: PFAM_TPP_enzyme_C_1n0hB04 (B:496-643)
3a: PFAM_TPP_enzyme_N_1n0hB05 (B:92-262)
3b: PFAM_TPP_enzyme_N_1n0hB06 (B:92-262)
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Organisms
(
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)
Clan
:
FAD_DHS
(82)
Family
:
TPP_enzyme_M
(50)
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Bakers yeast)
(12)
1a
TPP_enzyme_M-1n0hB01
B:289-435
1b
TPP_enzyme_M-1n0hB02
B:289-435
Clan
:
THDP-binding
(106)
Family
:
TPP_enzyme_C
(54)
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Bakers yeast)
(12)
2a
TPP_enzyme_C-1n0hB03
B:496-643
2b
TPP_enzyme_C-1n0hB04
B:496-643
Family
:
TPP_enzyme_N
(54)
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Bakers yeast)
(12)
3a
TPP_enzyme_N-1n0hB05
B:92-262
3b
TPP_enzyme_N-1n0hB06
B:92-262
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