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1T9C
Asym. Unit
Info
Asym.Unit (220 KB)
Biol.Unit 1 (212 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF YEAST ACETOHYDROXYACID SYNTHASE IN COMPLEX WITH A SULFONYLUREA HERBICIDE, SULFOMETURON METHYL
Authors
:
J. A. Mccourt, S. S. Pang, L. W. Guddat, R. G. Duggleby
Date
:
16 May 04 (Deposition) - 21 Dec 04 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.34
Chains
:
Asym. Unit : A,B
Biol. Unit 1: A,B (1x)
Keywords
:
Acetohydroxyacid Synthase, Acetolactate Synthase, Herbicide, Sulfonylurea, Thiamin Diphosphate, Fad, Inhibitor, Sulfometuron Methyl, Transferase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
J. A. Mccourt, S. S. Pang, L. W. Guddat, R. G. Duggleby
Elucidating The Specificity Of Binding Of Sulfonylurea Herbicides To Acetohydroxyacid Synthase.
Biochemistry V. 44 2330 2005
(for further references see the
PDB file header
)
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Hetero Components
(6, 10)
Info
All Hetero Components
1a: METHYL 2-[({[(4,6-DIMETHYLPYRIMIDI... (1SMa)
1b: METHYL 2-[({[(4,6-DIMETHYLPYRIMIDI... (1SMb)
2a: FLAVIN-ADENINE DINUCLEOTIDE (FADa)
2b: FLAVIN-ADENINE DINUCLEOTIDE (FADb)
3a: POTASSIUM ION (Ka)
3b: POTASSIUM ION (Kb)
4a: MAGNESIUM ION (MGa)
4b: MAGNESIUM ION (MGb)
5a: ETHYL DIHYDROGEN DIPHOSPHATE (P22a)
6a: PROPYL TRIHYDROGEN DIPHOSPHATE (P23a)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
1SM
2
Ligand/Ion
METHYL 2-[({[(4,6-DIMETHYLPYRIMIDIN-2-YL)AMINO]CARBONYL}AMINO)SULFONYL]BENZOATE
2
FAD
2
Ligand/Ion
FLAVIN-ADENINE DINUCLEOTIDE
3
K
2
Ligand/Ion
POTASSIUM ION
4
MG
2
Ligand/Ion
MAGNESIUM ION
5
P22
1
Ligand/Ion
ETHYL DIHYDROGEN DIPHOSPHATE
6
P23
1
Ligand/Ion
PROPYL TRIHYDROGEN DIPHOSPHATE
[
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Sites
(10, 10)
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)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
GLN B:343 , ASP B:350 , GLN B:506 , TRP B:508 , HOH B:4254 , HOH B:4990
BINDING SITE FOR RESIDUE K B 696
02
AC2
SOFTWARE
ASP B:550 , ASN B:577 , GLU B:579 , P23 B:700 , HOH B:4006
BINDING SITE FOR RESIDUE MG B 699
03
AC3
SOFTWARE
GLN A:343 , ASP A:350 , GLN A:506 , TRP A:508 , HOH A:4048 , HOH A:4778
BINDING SITE FOR RESIDUE K A 1696
04
AC4
SOFTWARE
ASP A:550 , ASN A:577 , GLU A:579 , P22 A:1702 , HOH A:4002
BINDING SITE FOR RESIDUE MG A 1699
05
AC5
SOFTWARE
ASP A:379 , ARG A:380 , MET A:582 , TRP A:586 , HOH A:4174 , HOH A:4421 , 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 1SM A 695
06
AC6
SOFTWARE
VAL B:497 , GLY B:498 , GLN B:499 , HIS B:500 , MET B:525 , GLY B:549 , ASP B:550 , ALA B:551 , SER B:552 , ASN B:577 , GLU B:579 , GLN B:580 , GLY B:581 , MET B:582 , MG B:699 , HOH B:4006
BINDING SITE FOR RESIDUE P23 B 700
07
AC7
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 , GLN A:336 , 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 , HOH A:4022 , HOH A:4023 , HOH A:4042 , HOH A:4160 , HOH A:4342 , HOH A:5056 , PHE B:201
BINDING SITE FOR RESIDUE FAD A 701
08
AC8
SOFTWARE
GLY A:116 , ALA A:117 , VAL A:191 , PRO A:192 , PHE A:201 , GLN A:202 , LYS A:251 , HOH A:4036 , ASP B:379 , ARG B:380 , MET B:582 , TRP B:586 , HOH B:4581 , HOH B:4820
BINDING SITE FOR RESIDUE 1SM B 1695
09
AC9
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 , SER B:409 , ASN B:412 , GLY B:425 , ASP B:426 , ALA B:427 , GLN B:501 , MET B:502 , SER B:519 , GLY B:520 , GLY B:521 , MET B:582 , HOH B:4226 , HOH B:4235 , HOH B:4248 , HOH B:4250 , HOH B:4281 , HOH B:4447
BINDING SITE FOR RESIDUE FAD B 1701
10
BC1
SOFTWARE
VAL A:497 , GLY A:498 , GLN A:499 , HIS A:500 , GLY A:549 , ASP A:550 , ALA A:551 , SER A:552 , ASN A:577 , GLU A:579 , GLN A:580 , GLY A:581 , MET A:582 , MG A:1699 , HOH A:4002
BINDING SITE FOR RESIDUE P22 A 1702
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
All SNPs/Variants
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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:
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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:85-687 (gaps) | B:84-687 (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:85-687 (gaps)
B:84-687 (gaps)
603
604
[
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SCOP Domains
(3, 6)
Info
All SCOP Domains
1a: SCOP_d1t9ca1 (A:278-460)
1b: SCOP_d1t9cb1 (B:281-460)
2a: SCOP_d1t9ca3 (A:461-687)
2b: SCOP_d1t9cb3 (B:461-687)
3a: SCOP_d1t9ca2 (A:89-263)
3b: SCOP_d1t9cb2 (B:89-263)
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)
(
)
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
d1t9ca1
A:278-460
1b
d1t9cb1
B:281-460
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
d1t9ca3
A:461-687
2b
d1t9cb3
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
d1t9ca2
A:89-263
3b
d1t9cb2
B:89-263
[
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CATH Domains
(2, 6)
Info
all CATH domains
1a: CATH_1t9cA03 (A:460-687)
1b: CATH_1t9cB03 (B:460-687)
1c: CATH_1t9cB01 (B:84-269)
1d: CATH_1t9cA01 (A:85-270)
2a: CATH_1t9cB02 (B:281-459)
2b: CATH_1t9cA02 (A:278-459)
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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
1t9cA03
A:460-687
1b
1t9cB03
B:460-687
1c
1t9cB01
B:84-269
1d
1t9cA01
A:85-270
Homologous Superfamily
:
TPP-binding domain
(120)
Baker's yeast (Saccharomyces cerevisiae)
(20)
2a
1t9cB02
B:281-459
2b
1t9cA02
A:278-459
[
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]
Pfam Domains
(3, 6)
Info
all PFAM domains
1a: PFAM_TPP_enzyme_M_1t9cB01 (B:289-435)
1b: PFAM_TPP_enzyme_M_1t9cB02 (B:289-435)
2a: PFAM_TPP_enzyme_C_1t9cB03 (B:496-643)
2b: PFAM_TPP_enzyme_C_1t9cB04 (B:496-643)
3a: PFAM_TPP_enzyme_N_1t9cB05 (B:92-262)
3b: PFAM_TPP_enzyme_N_1t9cB06 (B:92-262)
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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-1t9cB01
B:289-435
1b
TPP_enzyme_M-1t9cB02
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-1t9cB03
B:496-643
2b
TPP_enzyme_C-1t9cB04
B:496-643
Family
:
TPP_enzyme_N
(54)
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Bakers yeast)
(12)
3a
TPP_enzyme_N-1t9cB05
B:92-262
3b
TPP_enzyme_N-1t9cB06
B:92-262
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Asym.Unit (220 KB)
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