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4D9B
Biol. Unit 1
Info
Asym.Unit (223 KB)
Biol.Unit 1 (110 KB)
Biol.Unit 2 (111 KB)
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Title
:
PYRIDOXAMINE 5' PHOSPHATE (PMP) BOUND FORM OF SALMONELLA TYPHIMURIUM D-CYSTEINE DESULFHYDRASE OBTAINED AFTER CO-CRYSTALLIZATION WITH D-CYCLOSERINE
Authors
:
S. R. Bharath, B. Shveta, K. H. Rajesh, H. S. Savithri, M. R. N. Murthy
Date
:
11 Jan 12 (Deposition) - 30 May 12 (Release) - 30 May 12 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.67
Chains
:
Asym. Unit : A,B,C,D
Biol. Unit 1: A,B (1x)
Biol. Unit 2: C,D (1x)
Keywords
:
Fold Type Ii Plp-Dependent Enzyme Or Tryptophan Synthase Beta Subunit Like Family, Plp Dependent Enzyme, Lyase
(Keyword Search:
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Gene Ontology, PubMed, Web (Google)
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Reference
:
S. R. Bharath, S. Bisht, R. K. Harijan, H. S. Savithri, M. R. N. Murthy
Structural And Mutational Studies On Substrate Specificity And Catalysis Of Salmonella Typhimurium D-Cysteine Desulfhydrase.
Plos One V. 7 36267 2012
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Hetero Components
(3, 7)
Info
All Hetero Components
1a: BENZAMIDINE (BENa)
1b: BENZAMIDINE (BENb)
1c: BENZAMIDINE (BENc)
2a: 1,2-ETHANEDIOL (EDOa)
2b: 1,2-ETHANEDIOL (EDOb)
2c: 1,2-ETHANEDIOL (EDOc)
2d: 1,2-ETHANEDIOL (EDOd)
2e: 1,2-ETHANEDIOL (EDOe)
2f: 1,2-ETHANEDIOL (EDOf)
3a: 4'-DEOXY-4'-AMINOPYRIDOXAL-5'-PHOS... (PMPa)
3b: 4'-DEOXY-4'-AMINOPYRIDOXAL-5'-PHOS... (PMPb)
3c: 4'-DEOXY-4'-AMINOPYRIDOXAL-5'-PHOS... (PMPc)
3d: 4'-DEOXY-4'-AMINOPYRIDOXAL-5'-PHOS... (PMPd)
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Label:
No.
Name
Count
Type
Full Name
1
BEN
1
Ligand/Ion
BENZAMIDINE
2
EDO
4
Ligand/Ion
1,2-ETHANEDIOL
3
PMP
2
Ligand/Ion
4'-DEOXY-4'-AMINOPYRIDOXAL-5'-PHOSPHATE
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Sites
(8, 8)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
3: AC3 (SOFTWARE)
4: AC4 (SOFTWARE)
5: AC5 (SOFTWARE)
6: AC6 (SOFTWARE)
7: AC7 (SOFTWARE)
8: AC8 (SOFTWARE)
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No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
TYR A:30 , LEU A:31 , ILE A:296 , HOH A:716
BINDING SITE FOR RESIDUE BEN A 401
2
AC2
SOFTWARE
ASN A:50 , LYS A:51 , LYS A:54 , ASN A:79 , GLY A:194 , SER A:195 , ALA A:196 , GLY A:197 , THR A:198 , TYR A:287 , THR A:315 , GLY A:316 , GLY A:317 , HOH A:508 , HOH A:538 , HOH A:702 , HOH A:712
BINDING SITE FOR RESIDUE PMP A 402
3
AC3
SOFTWARE
CYS A:129 , ASP A:130
BINDING SITE FOR RESIDUE EDO A 403
4
AC4
SOFTWARE
SER A:195 , SER A:221 , ARG A:222 , HOH A:681 , HOH A:733
BINDING SITE FOR RESIDUE EDO A 404
5
AC5
SOFTWARE
ASN B:50 , LYS B:51 , LYS B:54 , ASN B:79 , GLY B:194 , SER B:195 , ALA B:196 , GLY B:197 , THR B:198 , TYR B:287 , THR B:315 , GLY B:316 , GLY B:317 , HOH B:510 , HOH B:518 , HOH B:531 , HOH B:656 , HOH B:657
BINDING SITE FOR RESIDUE PMP B 401
6
AC6
SOFTWARE
SER B:195 , SER B:221 , ARG B:222 , HOH B:662
BINDING SITE FOR RESIDUE EDO B 402
7
AC7
SOFTWARE
ASN B:265 , ASP B:266 , HOH B:598 , HOH B:684 , HIS D:94
BINDING SITE FOR RESIDUE EDO B 403
8
AC8
SOFTWARE
TYR B:30 , LEU B:31 , TYR C:30 , LEU C:31 , SER C:300
BINDING SITE FOR RESIDUE BEN C 401
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SAPs(SNPs)/Variants
(0, 0)
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(mutated residues are only available for the asymmetric unit)
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PROSITE Patterns/Profiles
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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.
(no "Exon" information available for biological units yet)
SCOP Domains
(1, 4)
Info
All SCOP Domains
1a: SCOP_d4d9ba_ (A:)
1b: SCOP_d4d9bb_ (B:)
1c: SCOP_d4d9bc_ (C:)
1d: SCOP_d4d9bd_ (D:)
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Protein Domains
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Organisms
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Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
Tryptophan synthase beta subunit-like PLP-dependent enzymes
(165)
Superfamily
:
Tryptophan synthase beta subunit-like PLP-dependent enzymes
(165)
Family
:
automated matches
(45)
Protein domain
:
automated matches
(45)
Salmonella typhimurium [TaxId: 90371]
(13)
1a
d4d9ba_
A:
1b
d4d9bb_
B:
1c
d4d9bc_
C:
1d
d4d9bd_
D:
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CATH Domains
(0, 0)
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all CATH domains
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Pfam Domains
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Asymmetric Unit 1
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Asym.Unit (223 KB)
Header - Asym.Unit
Biol.Unit 1 (110 KB)
Header - Biol.Unit 1
Biol.Unit 2 (111 KB)
Header - Biol.Unit 2
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