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Title :   CRYSTAL STRUCTURE OF A ZINC-TYPE ALCOHOL DEHYDROGENASE-LIKE PROTEIN YAHK

Authors :   S. Jeudy, J. M. Claverie, C. Abergel

Date :   18 Dec 03 (Deposition) - 29 Jan 04 (Release) - 24 Feb 09 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.76

Chains :   Asym. Unit : A
Biol. Unit 1: A  (2x)

Keywords :   Oxidoreductase, Zinc Binding, Oxydoreductase, Metal-Binding, Bacterial Targets At Igs-Cnrs, France, Bigs, Structural Genomics (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   S. Jeudy, J. M. Claverie, C. Abergel
Crystal Structure Of A Yahk, A Zinc-Type Alcohol Dehydrogenase-Like Protein
To Be Published
PubMed: search

Molecule 1 - ZINC-TYPE ALCOHOL DEHYDROGENASE-LIKE PROTEIN YAHK
	Chains	:	A
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PDEST17
	Expression System Strain	:	BL21(DE3)
	Expression System Taxid	:	469008
	Organism Scientific	:	ESCHERICHIA COLI
	Organism Taxid	:	83333
	Other Details	:	THERE ARE TWO ZINC BINDING TO THE MOLECULE 7 RESIDUES (270-276) ARE MISSING IN THE STRUCTURE
	Strain	:	K12
	Synonym	:	YAHK

		1
Asymmetric Unit	:	A
Biological Unit 1 (2x)	:	A

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (1, 2)

No.	Name	Count	Type	Full Name
1	ZN	2	Ligand/Ion	ZINC ION

Biological Unit 1 (0, 0)

No.	Name	Count	Type	Full Name
1	ZN	-1	Ligand/Ion	ZINC ION

Asymmetric Unit (2, 2)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	CYS A:93 , CYS A:96 , CYS A:99 , CYS A:107	BINDING SITE FOR RESIDUE ZN A 401
2	AC2	SOFTWARE	CYS A:40 , HIS A:62 , CYS A:158 , HOH A:2375	BINDING SITE FOR RESIDUE ZN A 402

(no "SS Bond" information available for 1UUF)

Asymmetric Unit

No.	Residues
1	Tyr A:56	-	Pro A:57
2	Glu A:121	-	Pro A:122
3	Lys A:337	-	Tyr A:338

(no "SAP(SNP)/Variant" information available for 1UUF)

Asymmetric Unit (1, 1)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	ADH_ZINC	PS00059	Zinc-containing alcohol dehydrogenases signature.	YAHK_ECOLI	61-75	1	A:61-75

Biological Unit 1 (1, 2)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	ADH_ZINC	PS00059	Zinc-containing alcohol dehydrogenases signature.	YAHK_ECOLI	61-75	2	A:61-75

(no "Exon" information available for 1UUF)

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
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Chain A from PDB  Type:PROTEIN  Length:340
 aligned with YAHK_ECOLI | P75691 from UniProtKB/Swiss-Prot  Length:349

    Alignment length:347
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292       302       312       322       332       342       
           YAHK_ECOLI     3 IKAVGAYSAKQPLEPMDITRREPGPNDVKIEIAYCGVCHSDLHQVRSEWAGTVYPCVPGHEIVGRVVAVGDQVEKYAPGDLVGVGCIVDSCKHCEECEDGLENYCDHMTGTYNSPTPDEPGHTLGGYSQQIVVHERYVLRIRHPQEQLAAVAPLLCAGITTYSPLRHWQAGPGKKVGVVGIGGLGHMGIKLAHAMGAHVVAFTTSEAKREAAKALGADEVVNSRNADEMAAHLKSFDFILNTVAAPHNLDDFTTLLKRDGTMTLVGAPATPHKSPEVFNLIMKRRAIAGSMIGGIPETQEMLDFCAEHGIVADIEMIRADQINEAYERMLRGDVKYRFVIDNRTLTD 349
               SCOP domains d1uufa1 A:3-144,A:313-349 Hypothetical protein YahK                                                                                           d1uufa2 A:145-312 Hypothetical protein YahK                                                                                                                             d1uufa1 A:3-144,A:313-349             SCOP domains
               CATH domains 1uufA01 A:3-158,A:315-349 Medium-chain alcohol dehydrogenases, catalytic domain                                                                             1uufA02 A:159-314 NAD(P)-binding Rossmann-like Domain                                                                                                       1uufA01 A:3-158,A:315-349           CATH domains
               Pfam domains ------------------------ADH_N-1uufA01 A:27-143                                                                                               -----------------------------------------ADH_zinc_N-1uufA02 A:185-309                                                                                                 ---------------------------------------- Pfam domains
         Sec.struct. author .eeee........eeee.........eeeeeeeeee.hhhhhhhhhh..............eeeeeeee...........eeee..eee....hhhhhh.hhhhh...ee...................eeeee.hhhee...hhhhhhhhhhhhhhhhhhhhhhhhh......eeeee..hhhhhhhhhhhhhh..eeeeee.hhhhhhhhhhhh..eeee..hhhhhhh....eeeeee......hhhhhhh.eeeeeeeee...-------.hhhhhhh...eeee....hhhhhhhhhhhhhhhh....eeeehhhhhhhhhhhhhh.....eeeee.hhhh. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------ADH_ZINC       ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1uuf A   3 IKAVGAYSAKQPLEPMDITRREPGPNDVKIEIAYCGVCHSDLHQVRSEWAGTVYPCVPGHEIVGRVVAVGDQVEKYAPGDLVGVGCIVDSCKHCEECEDGLENYCDHMTGTYNSPTPDEPGHTLGGYSQQIVVHERYVLRIRHPQEQLAAVAPLLCAGITTYSPLRHWQAGPGKKVGVVGIGGLGHMGIKLAHAMGAHVVAFTTSEAKREAAKALGADEVVNSRNADEMAAHLKSFDFILNTVAAPHNLDDFTTLLKRDGTMTLVGA-------PEVFNLIMKRRAIAGSMIGGIPETQEMLDFCAEHGIVADIEMIRADQINEAYERMLRGDVKYRFVIDNRTLTD 349
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262      |  -    |  282       292       302       312       322       332       342       
                                                                                                                                                                                                                                                                                                    269     277

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

Clans(

)

Families(

)

Organisms( (-)

)

Clan: GroES (70)

Family: ADH_N (62)

Escherichia coli (strain K12) (2)

ADH_N-1uufA01

A:27-143

Clan: NADP_Rossmann (1239)

Family: ADH_zinc_N (75)

Escherichia coli (strain K12) (2)

ADH_zinc_N-1uufA02

A:185-309

Asymmetric Unit(hide GO term definitions)

Chain A (YAHK_ECOLI | P75691)

molecular function
	GO:0008106	alcohol dehydrogenase (NADP+) activity	Catalysis of the reaction: an alcohol + NADP+ = an aldehyde + NADPH + H+.
	GO:0046872	metal ion binding	Interacting selectively and non-covalently with any metal ion.
	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:0008270	zinc ion binding	Interacting selectively and non-covalently with zinc (Zn) ions.
biological process
	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.

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	Cis Peptide Bonds
		Glu A:121 - Pro A:122	[ RasMol ]
		Lys A:337 - Tyr A:338	[ RasMol ]
		Tyr A:56 - Pro A:57	[ RasMol ]

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Cis Peptide Bonds (3, 3)

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