4D8W - JenaLib

Asymmetric Unit (Jmol Viewer)

Asym. Unit - sites (Jmol Viewer)

Biological Unit 1 (Jmol Viewer)

Biol. Unit 1 - sites (Jmol Viewer)

Biological Unit 2 (Jmol Viewer)

Title :   SALMONELLA TYPHIMURIUM D-CYSTEINE DESULFHYDRASE SOAKED WITH D-CYS SHOWS PYRUVATE BOUND 4 A AWAY FROM ACTIVE SITE

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) - 10 May 17 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.01

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, Tryptophan Synthase Beta Subunit- Like Plp-Dependent Enzymes Superfamily, Lyase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

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
PubMed-ID: 22574144 | Reference-DOI: 10.1371/JOURNAL.PONE.0036267

Molecule 1 - D-CYSTEINE DESULFHYDRASE
	Chains	:	A, B, C, D
	EC Number	:	4.4.1.15
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PRSET C
	Expression System Strain	:	BL21 (DE3) ROSETTA
	Expression System Taxid	:	562
	Expression System Vector Type	:	PLASMID
	Gene	:	DCYD, STM1953
	Organism Scientific	:	SALMONELLA TYPHIMURIUM
	Organism Taxid	:	90371

		1	2	3	4
Asymmetric Unit	:	A	B	C	D
Biological Unit 1 (1x)	:	A	B
Biological Unit 2 (1x)	:			C	D

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (6, 17)

No.	Name	Count	Type	Full Name
1	BEN	3	Ligand/Ion	BENZAMIDINE
2	CL	1	Ligand/Ion	CHLORIDE ION
3	EDO	2	Ligand/Ion	1,2-ETHANEDIOL
4	LLP	4	Mod. Amino Acid	(2S)-2-AMINO-6-[[3-HYDROXY-2-METHYL-5-(PHOSPHONOOXYMETHYL)PYRIDIN-4-YL]METHYLIDENEAMINO]HEXANOIC ACID
5	PYR	3	Ligand/Ion	PYRUVIC ACID
6	SO4	4	Ligand/Ion	SULFATE ION

Biological Unit 1 (5, 8)

No.	Name	Count	Type	Full Name
1	BEN	2	Ligand/Ion	BENZAMIDINE
2	CL	-1	Ligand/Ion	CHLORIDE ION
3	EDO	1	Ligand/Ion	1,2-ETHANEDIOL
4	LLP	2	Mod. Amino Acid	(2S)-2-AMINO-6-[[3-HYDROXY-2-METHYL-5-(PHOSPHONOOXYMETHYL)PYRIDIN-4-YL]METHYLIDENEAMINO]HEXANOIC ACID
5	PYR	1	Ligand/Ion	PYRUVIC ACID
6	SO4	2	Ligand/Ion	SULFATE ION

Biological Unit 2 (5, 8)

No.	Name	Count	Type	Full Name
1	BEN	1	Ligand/Ion	BENZAMIDINE
2	CL	-1	Ligand/Ion	CHLORIDE ION
3	EDO	1	Ligand/Ion	1,2-ETHANEDIOL
4	LLP	2	Mod. Amino Acid	(2S)-2-AMINO-6-[[3-HYDROXY-2-METHYL-5-(PHOSPHONOOXYMETHYL)PYRIDIN-4-YL]METHYLIDENEAMINO]HEXANOIC ACID
5	PYR	2	Ligand/Ion	PYRUVIC ACID
6	SO4	2	Ligand/Ion	SULFATE ION

Asymmetric Unit (13, 13)

No.	Name	Evidence	Residues	Description
01	AC1	SOFTWARE	TYR A:30 , BEN A:402	BINDING SITE FOR RESIDUE CL A 401
02	AC2	SOFTWARE	TYR A:30 , LEU A:31 , ILE A:296 , CL A:401	BINDING SITE FOR RESIDUE BEN A 402
03	AC3	SOFTWARE	SER A:195 , SER A:221 , ARG A:222 , TYR A:287 , HOH A:713	BINDING SITE FOR RESIDUE PYR A 403
04	AC4	SOFTWARE	LLP A:51 , SER A:78 , ASN A:79 , HIS A:80 , TYR A:261 , TYR A:287 , HOH A:703 , HOH A:713 , HOH A:716	BINDING SITE FOR RESIDUE SO4 A 404
05	AC5	SOFTWARE	TYR B:30 , LEU B:31 , TYR C:30 , LEU C:31 , SER C:300	BINDING SITE FOR RESIDUE BEN B 401
06	AC6	SOFTWARE	VAL B:224 , ALA B:225 , ASP B:254	BINDING SITE FOR RESIDUE EDO B 402
07	AC7	SOFTWARE	LLP B:51 , SER B:78 , ASN B:79 , HIS B:80 , TYR B:261 , TYR B:287 , HOH B:512 , HOH B:668 , HOH B:675	BINDING SITE FOR RESIDUE SO4 B 403
08	AC8	SOFTWARE	PRO C:264 , TYR C:324 , HIS C:327 , VAL C:328 , HOH C:531 , HOH C:554 , HOH C:606	BINDING SITE FOR RESIDUE EDO C 401
09	AC9	SOFTWARE	LLP C:51 , SER C:78 , ASN C:79 , HIS C:80 , TYR C:261 , TYR C:287 , HOH C:502 , HOH C:528 , HOH C:641	BINDING SITE FOR RESIDUE SO4 C 402
10	BC1	SOFTWARE	VAL C:158 , GLY C:194 , SER C:195 , SER C:221 , ARG C:222 , TYR C:261 , HOH C:640	BINDING SITE FOR RESIDUE PYR C 403
11	BC2	SOFTWARE	TYR D:30 , LEU D:31 , ILE D:296	BINDING SITE FOR RESIDUE BEN D 401
12	BC3	SOFTWARE	VAL D:158 , GLY D:194 , SER D:195 , SER D:221 , ARG D:222 , TYR D:261 , HOH D:517 , HOH D:714	BINDING SITE FOR RESIDUE PYR D 402
13	BC4	SOFTWARE	LLP D:51 , SER D:78 , ASN D:79 , HIS D:80 , TYR D:261 , TYR D:287 , HOH D:508 , HOH D:517 , HOH D:716	BINDING SITE FOR RESIDUE SO4 D 403

(no "SS Bond" information available for 4D8W)

Asymmetric Unit

No.	Residues
1	Ala A:258	-	Pro A:259
2	His A:325	-	Pro A:326
3	Ala B:258	-	Pro B:259
4	His B:325	-	Pro B:326
5	Ala C:258	-	Pro C:259
6	His C:325	-	Pro C:326
7	Ala D:258	-	Pro D:259
8	His D:325	-	Pro D:326

(no "SAP(SNP)/Variant" information available for 4D8W)

(no "PROSITE Motif" information available for 4D8W)

(no "Exon" information available for 4D8W)

Asymmetric Unit

Reformat:	Number of residues per line = ('0' or empty: single-line sequence representation)
	Number of residues per labelling interval =
	UniProt sequence: complete aligned part

Show mapping:	SCOP domains	CATH domains	Pfam domains	Secondary structure (by author)
	SAPs(SNPs)	PROSITE motifs	Exons
	(details for a mapped element are shown in a popup box when the mouse pointer rests over it)

Chain A from PDB  Type:PROTEIN  Length:328
 aligned with DCYD_SALTY | Q8ZNT7 from UniProtKB/Swiss-Prot  Length:328

    Alignment length:328
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310       320        
           DCYD_SALTY     1 MPLHHLTRFPRLEFIGAPTPLEYLPRLSDYLGREIYIKRDDVTPIAMGGNKLRKLEFLVADALREGADTLITAGAIQSNHVRQTAAVAAKLGLHCVALLENPIGTTAENYLTNGNRLLLDLFNTQIEMCDALTDPDAQLQTLATRIEAQGFRPYVIPVGGSSALGAMGYVESALEIAQQCEEVVGLSSVVVASGSAGTHAGLAVGLEHLMPDVELIGVTVSRSVAEQKPKVIALQQAIAGQLALTATADIHLWDDYFAPGYGVPNDAGMEAVKLLASLEGVLLDPVYTGKAMAGLIDGISQKRFNDDGPILFIHTGGAPALFAYHPHV 328
               SCOP domains d4d8wa_ A: automated matches                                                                                                                                                                                                                                                                                                             SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhhhh...........eeehhhhhhhhh..eeeee..........hhhhhhhhhhhhhhhh...eeeeeee..hhhhhhhhhhhhhhh.eeeeeee......hhhhhhhhhhhhhhhh..eeee.....hhhhhhhhhhhhhhhh...eee.hhhhhhhhhhhhhhhhhhhhhhhhh......eeeeee..hhhhhhhhhhhhhhh...eeeeee...hhhhhhhhhhhhhhhhhhhh........eee...........hhhhhhhhhhhhhhhh......hhhhhhhhhhhhhhh........eeeee....hhhhhhh... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4d8w A   1 MPLHHLTRFPRLEFIGAPTPLEYLPRLSDYLGREIYIKRDDVTPIAMGGNkLRKLEFLVADALREGADTLITAGAIQSNHVRQTAAVAAKLGLHCVALLENPIGTTAENYLTNGNRLLLDLFNTQIEMCDALTDPDAQLQTLATRIEAQGFRPYVIPVGGSSALGAMGYVESALEIAQQCEEVVGLSSVVVASGSAGTHAGLAVGLEHLMPDVELIGVTVSRSVAEQKPKVIALQQAIAGQLALTATADIHLWDDYFAPGYGVPNDAGMEAVKLLASLEGVLLDPVYTGKAMAGLIDGISQKRFNDDGPILFIHTGGAPALFAYHPHV 328
                                    10        20        30        40        50|       60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310       320        
                                                                             51-LLP

Chain B from PDB  Type:PROTEIN  Length:326
 aligned with DCYD_SALTY | Q8ZNT7 from UniProtKB/Swiss-Prot  Length:328

    Alignment length:328
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310       320        
           DCYD_SALTY     1 MPLHHLTRFPRLEFIGAPTPLEYLPRLSDYLGREIYIKRDDVTPIAMGGNKLRKLEFLVADALREGADTLITAGAIQSNHVRQTAAVAAKLGLHCVALLENPIGTTAENYLTNGNRLLLDLFNTQIEMCDALTDPDAQLQTLATRIEAQGFRPYVIPVGGSSALGAMGYVESALEIAQQCEEVVGLSSVVVASGSAGTHAGLAVGLEHLMPDVELIGVTVSRSVAEQKPKVIALQQAIAGQLALTATADIHLWDDYFAPGYGVPNDAGMEAVKLLASLEGVLLDPVYTGKAMAGLIDGISQKRFNDDGPILFIHTGGAPALFAYHPHV 328
               SCOP domains d4d8wb_ B: automated matches                                                                                                                                                                                                                                                                                                             SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhhhh...........eeehhhhhhhhh..eeeee..........hhhhhhhhhhhhhhhh...eeeeeee..hhhhhhhhhhhhhhh.eeeeeee......hhhhhhhhhhhhhhhh..eeee.....hhhhhhhhhhhhhhhh...eee.hhhhh....hhhhhhhhhhhhhhh...--..eeeeee..hhhhhhhhhhhhhhh...eeeeee...hhhhhhhhhhhhhhhhhhhh........eee...........hhhhhhhhhhhhhhhh......hhhhhhhhhhhhhhh........eeeee..hhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4d8w B   1 MPLHHLTRFPRLEFIGAPTPLEYLPRLSDYLGREIYIKRDDVTPIAMGGNkLRKLEFLVADALREGADTLITAGAIQSNHVRQTAAVAAKLGLHCVALLENPIGTTAENYLTNGNRLLLDLFNTQIEMCDALTDPDAQLQTLATRIEAQGFRPYVIPVGGSSALGAMGYVESALEIAQQCEEV--LSSVVVASGSAGTHAGLAVGLEHLMPDVELIGVTVSRSVAEQKPKVIALQQAIAGQLALTATADIHLWDDYFAPGYGVPNDAGMEAVKLLASLEGVLLDPVYTGKAMAGLIDGISQKRFNDDGPILFIHTGGAPALFAYHPHV 328
                                    10        20        30        40        50|       60        70        80        90       100       110       120       130       140       150       160       170       180  |  | 190       200       210       220       230       240       250       260       270       280       290       300       310       320        
                                                                             51-LLP                                                                                                                             183  |                                                                                                                                              
                                                                                                                                                                                                                   186

Chain C from PDB  Type:PROTEIN  Length:322
 aligned with DCYD_SALTY | Q8ZNT7 from UniProtKB/Swiss-Prot  Length:328

    Alignment length:322
                                    16        26        36        46        56        66        76        86        96       106       116       126       136       146       156       166       176       186       196       206       216       226       236       246       256       266       276       286       296       306       316       326  
           DCYD_SALTY     7 TRFPRLEFIGAPTPLEYLPRLSDYLGREIYIKRDDVTPIAMGGNKLRKLEFLVADALREGADTLITAGAIQSNHVRQTAAVAAKLGLHCVALLENPIGTTAENYLTNGNRLLLDLFNTQIEMCDALTDPDAQLQTLATRIEAQGFRPYVIPVGGSSALGAMGYVESALEIAQQCEEVVGLSSVVVASGSAGTHAGLAVGLEHLMPDVELIGVTVSRSVAEQKPKVIALQQAIAGQLALTATADIHLWDDYFAPGYGVPNDAGMEAVKLLASLEGVLLDPVYTGKAMAGLIDGISQKRFNDDGPILFIHTGGAPALFAYHPHV 328
               SCOP domains d4d8wc_ C: automated matches                                                                                                                                                                                                                                                                                                       SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..............eeehhhhhhhhh..eeeee..........hhhhhhhhhhhhhhhh...eeeeeee..hhhhhhhhhhhhhh..eeeeeee......hhhhhhhhhhhhhhhh..eeee.....hhhhhhhhhhhhhhhh...eee.hhhhh....hhhhhhhhhhhhhhhh......eeeeee..hhhhhhhhhhhhhhh...eeeeee...hhhhhhhhhhhhhhhhhhhhh.......eee...........hhhhhhhhhhhhhhhh......hhhhhhhhhhhhhhh........eeeee....hhhhhhh... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4d8w C   7 TRFPRLEFIGAPTPLEYLPRLSDYLGREIYIKRDDVTPIAMGGNkLRKLEFLVADALREGADTLITAGAIQSNHVRQTAAVAAKLGLHCVALLENPIGTTAENYLTNGNRLLLDLFNTQIEMCDALTDPDAQLQTLATRIEAQGFRPYVIPVGGSSALGAMGYVESALEIAQQCEEVVGLSSVVVASGSAGTHAGLAVGLEHLMPDVELIGVTVSRSVAEQKPKVIALQQAIAGQLALTATADIHLWDDYFAPGYGVPNDAGMEAVKLLASLEGVLLDPVYTGKAMAGLIDGISQKRFNDDGPILFIHTGGAPALFAYHPHV 328
                                    16        26        36        46    |   56        66        76        86        96       106       116       126       136       146       156       166       176       186       196       206       216       226       236       246       256       266       276       286       296       306       316       326  
                                                                       51-LLP

Chain D from PDB  Type:PROTEIN  Length:328
 aligned with DCYD_SALTY | Q8ZNT7 from UniProtKB/Swiss-Prot  Length:328

    Alignment length:328
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310       320        
           DCYD_SALTY     1 MPLHHLTRFPRLEFIGAPTPLEYLPRLSDYLGREIYIKRDDVTPIAMGGNKLRKLEFLVADALREGADTLITAGAIQSNHVRQTAAVAAKLGLHCVALLENPIGTTAENYLTNGNRLLLDLFNTQIEMCDALTDPDAQLQTLATRIEAQGFRPYVIPVGGSSALGAMGYVESALEIAQQCEEVVGLSSVVVASGSAGTHAGLAVGLEHLMPDVELIGVTVSRSVAEQKPKVIALQQAIAGQLALTATADIHLWDDYFAPGYGVPNDAGMEAVKLLASLEGVLLDPVYTGKAMAGLIDGISQKRFNDDGPILFIHTGGAPALFAYHPHV 328
               SCOP domains d4d8wd_ D: automated matches                                                                                                                                                                                                                                                                                                             SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhhhh...........eeehhhhhhhhh..eeeee..........hhhhhhhhhhhhhhhh...eeeeeee..hhhhhhhhhhhhhh..eeeeeee......hhhhhhhhhhhhhhhh..eeee.....hhhhhhhhhhhhhhhh...eee.hhhhhhhhhhhhhhhhhhhhhhhhhhh....eeeeee..hhhhhhhhhhhhhhh...eeeeee...hhhhhhhhhhhhhhhhhhhh.........ee...........hhhhhhhhhhhhhhhh......hhhhhhhhhhhhhhh........eeeee....hhhhhhh... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4d8w D   1 MPLHHLTRFPRLEFIGAPTPLEYLPRLSDYLGREIYIKRDDVTPIAMGGNkLRKLEFLVADALREGADTLITAGAIQSNHVRQTAAVAAKLGLHCVALLENPIGTTAENYLTNGNRLLLDLFNTQIEMCDALTDPDAQLQTLATRIEAQGFRPYVIPVGGSSALGAMGYVESALEIAQQCEEVVGLSSVVVASGSAGTHAGLAVGLEHLMPDVELIGVTVSRSVAEQKPKVIALQQAIAGQLALTATADIHLWDDYFAPGYGVPNDAGMEAVKLLASLEGVLLDPVYTGKAMAGLIDGISQKRFNDDGPILFIHTGGAPALFAYHPHV 328
                                    10        20        30        40        50|       60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310       320        
                                                                             51-LLP

Legend:		→ Mismatch	(orange background)
	-	→ Gap	(green background, '-', border residues have a numbering label)
		→ Modified Residue	(blue background, lower-case, 'x' indicates undefined single-letter code, labelled with number + name)
	x	→ Chemical Group	(purple background, 'x', labelled with number + name, e.g. ACE or NH2)
	extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '\|'

Asymmetric Unit

Classes(

)

Folds(

)

Superfamilies( (-)

)

Families(

)

Protein Domains( (-)

)

Organisms( (-)

)

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	d4d8wa_	A:
1b	d4d8wb_	B:
1c	d4d8wc_	C:
1d	d4d8wd_	D:

(no "CATH Domain" information available for 4D8W)

(no "Pfam Domain" information available for 4D8W)

Asymmetric Unit(hide GO term definitions)

Chain A,B,C,D (DCYD_SALTY | Q8ZNT7)

molecular function
	GO:0019148	D-cysteine desulfhydrase activity	Catalysis of the reaction: D-cysteine + H2O = sulfide + NH3 + pyruvate.
	GO:0003824	catalytic activity	Catalysis of a biochemical reaction at physiological temperatures. In biologically catalyzed reactions, the reactants are known as substrates, and the catalysts are naturally occurring macromolecular substances known as enzymes. Enzymes possess specific binding sites for substrates, and are usually composed wholly or largely of protein, but RNA that has catalytic activity (ribozyme) is often also regarded as enzymatic.
	GO:0016829	lyase activity	Catalysis of the cleavage of C-C, C-O, C-N and other bonds by other means than by hydrolysis or oxidation, or conversely adding a group to a double bond. They differ from other enzymes in that two substrates are involved in one reaction direction, but only one in the other direction. When acting on the single substrate, a molecule is eliminated and this generates either a new double bond or a new ring.
	GO:0030170	pyridoxal phosphate binding	Interacting selectively and non-covalently with pyridoxal 5' phosphate, 3-hydroxy-5-(hydroxymethyl)-2-methyl4-pyridine carboxaldehyde 5' phosphate, the biologically active form of vitamin B6.
biological process
	GO:0046416	D-amino acid metabolic process	The chemical reactions and pathways involving D-amino acids, the D-enantiomers of amino acids.
cellular component
	GO:0005737	cytoplasm	All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.

Asymmetric Unit
	Complete Structure
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	Ligands, Modified Residues, Ions
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		BC4	[ RasMol ]	+environment [ RasMol ]

	Cis Peptide Bonds
		Ala A:258 - Pro A:259	[ RasMol ]
		Ala B:258 - Pro B:259	[ RasMol ]
		Ala C:258 - Pro C:259	[ RasMol ]
		Ala D:258 - Pro D:259	[ RasMol ]
		His A:325 - Pro A:326	[ RasMol ]
		His B:325 - Pro B:326	[ RasMol ]
		His C:325 - Pro C:326	[ RasMol ]
		His D:325 - Pro D:326	[ RasMol ]

Biological Units
	Complete Structure
		Biological Unit 1	[ Jena3D ]
		Biological Unit 2	[ Jena3D ]

Jmol
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Access by PDB/NDB ID
	4d8w
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	DCYD_SALTY \| Q8ZNT7
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	4.4.1.15
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		Domain Information	:	XDom
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	DCYD_SALTY \| Q8ZNT7
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UniProtKB/Swiss-Prot
	DCYD_SALTY \| Q8ZNT7	:	4d8t 4d8u 4d92 4d96 4d97 4d99 4d9b 4d9c 4d9e 4d9f

4d8t	SALMONELLA TYPHIMURIUM D-CYSTEINE DESULFHYDRASE AT 2.2A
4d8u	SALMONELLA TYPHIMURIUM D-CYSTEINE DESULFHYDRASE AT 3.3 A WITH 8 PROTOMERS IN THE ASYMMETRIC UNIT
4d92	SALMONELLA TYPHIMURIUM D-CYSTEINE DESULFHYDRASE SOAKED WITH BETA- CHLORO-D-ALANINE REVEALED PYRUVATE BOUND AT 4 A AWAY FROM THE ACTIVE SITE
4d96	SALMONELLA TYPHIMURIUM D-CYSTEINE DESULFHYDRASE COMPLEXED WITH AMINO CARBOXY CYCLOPROPANE (ACC)
4d97	SALMONELLA TYPHIMURIUM D-CYSTEINE DESULFHYDRASE COMPLEXED WITH D- SERINE; D-SERINE IS BOUND NON-COVALENTLY AT THE ACTIVE SITE
4d99
4d9b
4d9c
4d9e
4d9f

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (6, 17)

Sites (13, 13)

SS Bonds (0, 0)

Cis Peptide Bonds (8, 8)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

PROSITE Motifs (0, 0)

Exons (0, 0)

Sequences/Alignments

Classification and Annotation

SCOP Domains (1, 4)

CATH Domains (0, 0)

Pfam Domains (0, 0)

Gene Ontology (6, 6)

Visualization

Interactive Views

Still Images

Databases and Analysis Tools

Databases

Analysis Tools

Related Entries

Entries Sharing at Least One Protein Chain (UniProt ID)

Related Entries Specified in the PDB File