3TY7 - JenaLib

Asym./Biol. Unit (Jmol Viewer)

Asym./Biol. Unit - sites (Jmol Viewer)

Title :   CRYSTAL STRUCTURE OF ALDEHYDE DEHYDROGENASE FAMILY PROTEIN FROM STAPHYLOCOCCUS AUREUS

Authors :   Y. Kim, G. Joachimiak, R. Jedrzejczak, E. Rubin, T. Ioerger, J. Sacchet A. Joachimiak, Midwest Center For Structural Genomics (Mcsg), Structures Of Mtb Proteins Conferring Susceptibility To Kno Inhibitors (Mtbi)

Date :   23 Sep 11 (Deposition) - 19 Oct 11 (Release) - 19 Oct 11 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.40

Chains :   Asym./Biol. Unit : A,B

Keywords :   Structural Genomics, Psi-Biology, Midwest Center For Structural Genomics, Mcsg, Structures Of Mtb Proteins Conferring Susceptibility To Known Mtb Inhibitors, Mtbi, Alpha-Beta Sandwich, Cytosol, Oxidoreductase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   Y. Kim, G. Joachimiak, R. Jedrzejczak, E. Rubin, T. Ioerger, J. Sacchettini, A. Joachimiak
Crystal Structure Of Aldehyde Dehydrogenase Family Protein From Staphylococcus Aureus
To Be Published
PubMed: search

Molecule 1 - PUTATIVE ALDEHYDE DEHYDROGENASE SAV2122
	Chains	:	A, B
	EC Number	:	1.2.1.3
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PMCSG7
	Expression System Strain	:	BL21 MAGIC
	Expression System Taxid	:	511693
	Expression System Vector Type	:	PLASMID
	Gene	:	SAV2122
	Organism Scientific	:	STAPHYLOCOCCUS AUREUS
	Organism Taxid	:	158878
	Strain	:	AUREUS MU50

		1	2
Asymmetric/Biological Unit	:	A	B

Summary Information (see also Sequences/Alignments below)

Asymmetric/Biological Unit (4, 24)

No.	Name	Count	Type	Full Name
1	GOL	7	Ligand/Ion	GLYCEROL
2	MG	1	Ligand/Ion	MAGNESIUM ION
3	MSE	14	Mod. Amino Acid	SELENOMETHIONINE
4	PEG	2	Ligand/Ion	DI(HYDROXYETHYL)ETHER

Asymmetric Unit (10, 10)

No.	Name	Evidence	Residues	Description
01	AC1	SOFTWARE	MSE A:232 , LYS A:241 , VAL A:242 , MSE B:232 , VAL B:242	BINDING SITE FOR RESIDUE GOL A 481
02	AC2	SOFTWARE	ASP A:3 , THR A:5 , LYS A:6 , GLU A:15 , GLU B:12	BINDING SITE FOR RESIDUE GOL A 482
03	AC3	SOFTWARE	TRP A:13 , GLU A:184	BINDING SITE FOR RESIDUE GOL A 483
04	AC4	SOFTWARE	LYS A:41 , ALA A:42 , ASP A:45 , ASN B:17 , PEG B:486 , HOH B:499	BINDING SITE FOR RESIDUE PEG A 484
05	AC5	SOFTWARE	GLU B:12 , ASP B:187	BINDING SITE FOR RESIDUE GOL B 481
06	AC6	SOFTWARE	GLU A:12 , ASP B:3 , THR B:5 , GLU B:15	BINDING SITE FOR RESIDUE GOL B 482
07	AC7	SOFTWARE	LYS B:6 , TRP B:13 , VAL B:180 , GLU B:184	BINDING SITE FOR RESIDUE GOL B 483
08	AC8	SOFTWARE	ILE B:25 , GLU B:91 , GLU B:174 , HOH B:540	BINDING SITE FOR RESIDUE MG B 484
09	AC9	SOFTWARE	ASN B:79 , ASP B:83	BINDING SITE FOR RESIDUE GOL B 485
10	BC1	SOFTWARE	PEG A:484 , HOH A:490 , ASN B:40 , LYS B:41 , ALA B:42 , ASP B:45	BINDING SITE FOR RESIDUE PEG B 486

(no "SS Bond" information available for 3TY7)

(no "Cis Peptide Bond" information available for 3TY7)

(no "SAP(SNP)/Variant" information available for 3TY7)

Asymmetric/Biological Unit (2, 4)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	ALDEHYDE_DEHYDR_GLU	PS00687	Aldehyde dehydrogenases glutamic acid active site.	ALD1_STAAM	244-251	2	A:244-251 B:244-251
2	ALDEHYDE_DEHYDR_CYS	PS00070	Aldehyde dehydrogenases cysteine active site.	ALD1_STAAM	272-283	2	A:272-283 B:272-283

(no "Exon" information available for 3TY7)

Asymmetric/Biological 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:452
 aligned with ALD1_STAAM | Q99SD6 from UniProtKB/Swiss-Prot  Length:475

    Alignment length:476
                             1                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          
                             |       9        19        29        39        49        59        69        79        89        99       109       119       129       139       149       159       169       179       189       199       209       219       229       239       249       259       269       279       289       299       309       319       329       339       349       359       369       379       389       399       409       419       429       439       449       459       469      
           ALD1_STAAM     - -MRDYTKQYINGEWVESNSNETIEVINPATEEVIGKVAKGNKADVDKAVEAADDVYLEFRHTSVKERQALLDKIVKEYENRKDDIVQAITDELGAPLSLSERVHYQMGLNHFVAARDALDNYEFEERRGDDLVVKEAIGVSGLITPWNFPTNQTSLKLAAAFAAGSPVVLKPSEETPFAAVILAEIFDKVGVPKGVFNLVNGDGAGVGNPLSEHPKVRMMSFTGSGPTGSKIMEKAAKDFKKVSLELGGKSPYIVLDDVDIKEAAKATTGKVVNNTGQVCTAGTRVLVPNKIKDAFLAELKEQFSQVRVGNPREDGTQVGPIISKKQFDQVQNYINKGIEEGAELFYGGPGKPEGLEKGYFARPTIFINVDNQMTIAQEEIFGPVMSVITYNDLDEAIQIANDTKYGLAGYVIGKDKETLHKVARSIEAGTVEINEAGRKPDLPFGGYKQSGLGREWGDYGIEEFLEVKSIAGYFK 475
               SCOP domains d3ty7a_ A: automated matches                                                                                                                                                                                                                                                                                                                                                                                                                                                                 SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..ee..eeee..eeee.....eeeee......eeeeee..hhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhh..eeee..eeeeeee...eeee......hhhhhhhhhhhhhhh..eeee.....hhhhhhhhhhhhhhh.....eee.......hhhhhhhh....eeee..hhhhhh--.........eee.......eeee....hhhhhhhhhhhhhhhhhhh......eeeee..hhhhhhhhhhhhhhh.................hhhhhhhhhhhhhhhhhhh.eeee.................eeee.....hhhhhh.....eeeeeee.hhhhhhhhhh......eeeee..hhhhhhhhhhhh...eeee....----------------------.hhh.eeeeeee.... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ALDEHYDE--------------------ALDEHYDE_DEH------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3ty7 A   0 AmRDYTKQYINGEWVESNSNETIEVINPATEEVIGKVAKGNKADVDKAVEAADDVYLEFRHTSVKERQALLDKIVKEYENRKDDIVQAITDELGAPLSLSERVHYQmGLNHFVAARDALDNYEFEERRGDDLVVKEAIGVSGLITPWNFPTNQTSLKLAAAFAAGSPVVLKPSEETPFAAVILAEIFDKVGVPKGVFNLVNGDGAGVGNPLSEHPKVRmmSFTGSGPTGS--mEKAAKDFKKVSLELGGKSPYIVLDDVDIKEAAKATTGKVVNNTGQVCTAGTRVLVPNKIKDAFLAELKEQFSQVRVGNPREDGTQVGPIISKKQFDQVQNYINKGIEEGAELFYGGPGKPEGLEKGYFARPTIFINVDNQmTIAQEEIFGPVmSVITYNDLDEAIQIANDTKYGLAGYVIGKDKETLHKVARSIEAGTVEINEAG----------------------GIEEFLEVKSIAGYFK 475
                             |       9        19        29        39        49        59        69        79        89        99      |109       119       129       139       149       159       169       179       189       199       209       219       229  |    239       249       259       269       279       289       299       309       319       329       339       349       359       369   |   379     | 389       399       409       419       429       | -         -         -|      469      
                             |                                                                                                      106-MSE                                                                                                         218-MSE    229  |                                                                                                                                          373-MSE     385-MSE                                             437                    460               
                             1-MSE                                                                                                                                                                                                                   219-MSE      232-MSE

Chain B from PDB  Type:PROTEIN  Length:454
 aligned with ALD1_STAAM | Q99SD6 from UniProtKB/Swiss-Prot  Length:475

    Alignment length:476
                             1                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          
                             |       9        19        29        39        49        59        69        79        89        99       109       119       129       139       149       159       169       179       189       199       209       219       229       239       249       259       269       279       289       299       309       319       329       339       349       359       369       379       389       399       409       419       429       439       449       459       469      
           ALD1_STAAM     - -MRDYTKQYINGEWVESNSNETIEVINPATEEVIGKVAKGNKADVDKAVEAADDVYLEFRHTSVKERQALLDKIVKEYENRKDDIVQAITDELGAPLSLSERVHYQMGLNHFVAARDALDNYEFEERRGDDLVVKEAIGVSGLITPWNFPTNQTSLKLAAAFAAGSPVVLKPSEETPFAAVILAEIFDKVGVPKGVFNLVNGDGAGVGNPLSEHPKVRMMSFTGSGPTGSKIMEKAAKDFKKVSLELGGKSPYIVLDDVDIKEAAKATTGKVVNNTGQVCTAGTRVLVPNKIKDAFLAELKEQFSQVRVGNPREDGTQVGPIISKKQFDQVQNYINKGIEEGAELFYGGPGKPEGLEKGYFARPTIFINVDNQMTIAQEEIFGPVMSVITYNDLDEAIQIANDTKYGLAGYVIGKDKETLHKVARSIEAGTVEINEAGRKPDLPFGGYKQSGLGREWGDYGIEEFLEVKSIAGYFK 475
               SCOP domains d3ty7b_ B: automated matches                                                                                                                                                                                                                                                                                                                                                                                                                                                                 SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eee.eeee..eeee.....eeeee......eeeeee..hhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhh.....eeee..eeeeeee...eeee......hhhhhhhhhhhhhhh..eeee.....hhhhhhhhhhhhhh......eee.......hhhhhhhh....eeeee.hhhhhhhhhhhh.....eeeee.....eeee....hhhhhhhhhhhhhhhhhhh......eeeee..hhhhhhhhhhhhhhh.................hhhhhhhhhhhhhhhhhhh.eeee.................eeee.....hhhhhh.....eeeeeee.hhhhhhhhhhh.....eeeee..hhhhhhhhhhhh...eeee....----------------------hhhh.eeeeeee.... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ALDEHYDE--------------------ALDEHYDE_DEH------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3ty7 B   0 AmRDYTKQYINGEWVESNSNETIEVINPATEEVIGKVAKGNKADVDKAVEAADDVYLEFRHTSVKERQALLDKIVKEYENRKDDIVQAITDELGAPLSLSERVHYQmGLNHFVAARDALDNYEFEERRGDDLVVKEAIGVSGLITPWNFPTNQTSLKLAAAFAAGSPVVLKPSEETPFAAVILAEIFDKVGVPKGVFNLVNGDGAGVGNPLSEHPKVRmmSFTGSGPTGSKImEKAAKDFKKVSLELGGKSPYIVLDDVDIKEAAKATTGKVVNNTGQVCTAGTRVLVPNKIKDAFLAELKEQFSQVRVGNPREDGTQVGPIISKKQFDQVQNYINKGIEEGAELFYGGPGKPEGLEKGYFARPTIFINVDNQmTIAQEEIFGPVmSVITYNDLDEAIQIANDTKYGLAGYVIGKDKETLHKVARSIEAGTVEINEAG----------------------GIEEFLEVKSIAGYFK 475
                             |       9        19        29        39        49        59        69        79        89        99      |109       119       129       139       149       159       169       179       189       199       209       219       229  |    239       249       259       269       279       289       299       309       319       329       339       349       359       369   |   379     | 389       399       409       419       429       | -         -         -|      469      
                             1-MSE                                                                                                  106-MSE                                                                                                         218-MSE       232-MSE                                                                                                                                      373-MSE     385-MSE                                             437                    460               
                                                                                                                                                                                                                                                     219-MSE

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/Biological Unit

Classes(

)

Folds(

)

Superfamilies( (-)

)

Families(

)

Protein Domains( (-)

)

Organisms( (-)

)

Class: Alpha and beta proteins (a/b) (23833)

Fold: ALDH-like (168)

Superfamily: ALDH-like (168)

Family: automated matches (88)

Protein domain: automated matches (88)

Staphylococcus aureus [TaxId: 158878] (1)

1a	d3ty7a_	A:
1b	d3ty7b_	B:

(no "CATH Domain" information available for 3TY7)

(no "Pfam Domain" information available for 3TY7)

Asymmetric/Biological Unit(hide GO term definitions)

Chain A,B (ALD1_STAAM | Q99SD6)

molecular function
	GO:0004029	aldehyde dehydrogenase (NAD) activity	Catalysis of the reaction: an aldehyde + NAD+ + H2O = an acid + NADH + H+.
	GO:0004030	aldehyde dehydrogenase [NAD(P)+] activity	Catalysis of the reaction: an aldehyde + NAD(P)+ + H2O = an acid + NAD(P)H + H+.
	GO:0016491	oxidoreductase activity	Catalysis of an oxidation-reduction (redox) reaction, a reversible chemical reaction in which the oxidation state of an atom or atoms within a molecule is altered. One substrate acts as a hydrogen or electron donor and becomes oxidized, while the other acts as hydrogen or electron acceptor and becomes reduced.
	GO:0016620	oxidoreductase activity, acting on the aldehyde or oxo group of donors, NAD or NADP as acceptor	Catalysis of an oxidation-reduction (redox) reaction in which an aldehyde or ketone (oxo) group acts as a hydrogen or electron donor and reduces NAD or NADP.
biological process
	GO:0006081	cellular aldehyde metabolic process	The chemical reactions and pathways involving aldehydes, any organic compound with the formula R-CH=O, as carried out by individual cells.
	GO:0008152	metabolic process	The chemical reactions and pathways, including anabolism and catabolism, by which living organisms transform chemical substances. Metabolic processes typically transform small molecules, but also include macromolecular processes such as DNA repair and replication, and protein synthesis and degradation.
	GO:0055114	oxidation-reduction process	A metabolic process that results in the removal or addition of one or more electrons to or from a substance, with or without the concomitant removal or addition of a proton or protons.

Asymmetric/Biological Unit
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	Cis Peptide Bonds
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	3ty7
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Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (4, 24)

Sites (10, 10)

SS Bonds (0, 0)

Cis Peptide Bonds (0, 0)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

PROSITE Motifs (2, 4)

Exons (0, 0)

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