3WL6 - JenaLib

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Asym. Unit - sites (Jmol Viewer)

Biological Unit 1 (Jmol Viewer)

Biol. Unit 1 - sites (Jmol Viewer)

Biological Unit 2 (Jmol Viewer)

Title :   CRYSTAL STRUCTURE OF POPH NATIVE

Authors :   Y. Yang, T. P. Ko, J. H. Li, L. Liu, C. H. Huang, H. C. Chan, F. F. Ren, D. X. Ji J. Wang, R. T. Guo, J. Chen, G. C. Du

Date :   08 Nov 13 (Deposition) - 24 Sep 14 (Release) - 24 Sep 14 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.60

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

Keywords :   Alpha/Beta-Hydrolase, Oxi-Polyvinyl Alcohol Hydrolase, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   Y. Yang, T. P. Ko, L. Liu, J. Li, C. H. Huang, H. C. Chan, F. Ren, D. Jia, A. H. -J. Wang, R. T. Guo, J. Chen, G. Du
Structural Insights Into Enzymatic Degradation Of Oxidized Polyvinyl Alcohol
Chembiochem V. 15 1882 2014
PubMed-ID: 25044912 | Reference-DOI: 10.1002/CBIC.201402166

Molecule 1 - OXIDIZED POLYVINYL ALCOHOL HYDROLASE
	Chains	:	A, B
	EC Number	:	3.7.1.7
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PET32A
	Expression System Strain	:	BL21(DE3)
	Expression System Taxid	:	562
	Expression System Vector Type	:	PLASMID
	Fragment	:	UNP RESIDUES 30-379
	Gene	:	PVAB
	Organism Scientific	:	PSEUDOMONAS SP.
	Organism Taxid	:	306
	Strain	:	VM15C
	Synonym	:	OPH, OXIDIZED PVA HYDROLASE, BETA-DIKETONE HYDROLASE

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

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (1, 1)

No.	Name	Count	Type	Full Name
1	CIT	1	Ligand/Ion	CITRIC ACID

Biological Unit 1 (0, 0)

No.	Name	Count	Type	Full Name
1	CIT	-1	Ligand/Ion	CITRIC ACID

Biological Unit 2 (1, 1)

No.	Name	Count	Type	Full Name
1	CIT	1	Ligand/Ion	CITRIC ACID

Asymmetric Unit (1, 1)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	SER B:66 , VAL B:67 , GLU B:68 , ILE B:171 , SER B:172 , HIS B:298 , HOH B:547 , HOH B:909 , HOH B:1027	BINDING SITE FOR RESIDUE CIT B 401

Asymmetric Unit

No.	Residues
1	A:22	-	A:154
2	A:99	-	A:111
3	A:257	-	A:267
4	A:292	-	A:339
5	B:22	-	B:154
6	B:99	-	B:111
7	B:292	-	B:339

Asymmetric Unit

No.	Residues
1	Tyr A:233	-	Pro A:234
2	Tyr B:233	-	Pro B:234

(no "SAP(SNP)/Variant" information available for 3WL6)

(no "PROSITE Motif" information available for 3WL6)

(no "Exon" information available for 3WL6)

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:333
 aligned with OPH_PSESP | Q9LCQ7 from UniProtKB/Swiss-Prot  Length:379

    Alignment length:333
                                                                                                                                                                                                                                                                                                                                                                   379   
                                    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   
            OPH_PSESP    50 KWECPAGYEVKEGLNVDFPHKGMKRAFIVYPAKNVSGPAPVWVPMTGSVESTNDNLTVARSGANSILADHGYTVIAPVRACANQDPNIRGERCNGPGSNGWNWNPWFEGRAADPSGEHWKNDEGPDSSFFVAMVQCVGTKYKLDARRLFLGGISSGGTMTNRALLFRSNFWAGGLPISGEWYVTSDDGTPLSFDDARAAVAAAPTKIHQGRVGPYPLPAKVGPLIVMTVWGGEKDLWNCTRPDGSRFLCADYRPSTQAGSNFFSAQPDVVHVACSSTHGHMWPQLNTQEFNRWALDTLASHPKGSDPRSFKLTQPPEGYTCHVGPFTGLY---   -
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...hhhhh....eeeeeeee..eeeeeeee........eeeeeee.....hhhhhhhhhhhhhhhhhhhhh.eeeee.hhhhh.............................hhhhhhhhh..hhhhhhhhhhhhhhh....eeeeeeeeeeehhhhhhhhhhhhhh.....eeeee..............hhhhhhhhhhhh....................eeeeeee.....eeeee.....eeeeeehhhhhhhhhhhhhhh..eeeeeee..........hhhhhhhhhhhhhhh.....hhhhh.........eeee.......... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3wl6 A  19 KWECPAGYEVKEGLNVDFPHKGMKRAFIVYPAKNVSGPAPVWVPMTGSVESTNDNLTVARSGANSILADHGYTVIAPVRACANQDPNIRGERCNGPGSNGWNWNPWFEGRAADPSGEHWKNDEGPDSSFFVAMVQCVGTKYKLDARRLFLGGISSGGTMTNRALLFRSNFWAGGLPISGEWYVTSDDGTPLSFDDARAAVAAAPTKIHQGRVGPYPLPAKVGPLIVMTVWGGEKDLWNCTRPDGSRFLCADYRPSTQAGSNFFSAQPDVVHVACSSTHGHMWPQLNTQEFNRWALDTLASHPKGSDPRSFKLTQPPEGYTCHVGPFTGLYASA 351
                                    28        38        48        58        68        78        88        98       108       118       128       138       148       158       168       178       188       198       208       218       228       238       248       258       268       278       288       298       308       318       328       338       348

Chain B from PDB  Type:PROTEIN  Length:321
 aligned with OPH_PSESP | Q9LCQ7 from UniProtKB/Swiss-Prot  Length:379

    Alignment length:332
                                                                                                                                                                                                                                                                                                                                                                   379  
                                    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  
            OPH_PSESP    50 KWECPAGYEVKEGLNVDFPHKGMKRAFIVYPAKNVSGPAPVWVPMTGSVESTNDNLTVARSGANSILADHGYTVIAPVRACANQDPNIRGERCNGPGSNGWNWNPWFEGRAADPSGEHWKNDEGPDSSFFVAMVQCVGTKYKLDARRLFLGGISSGGTMTNRALLFRSNFWAGGLPISGEWYVTSDDGTPLSFDDARAAVAAAPTKIHQGRVGPYPLPAKVGPLIVMTVWGGEKDLWNCTRPDGSRFLCADYRPSTQAGSNFFSAQPDVVHVACSSTHGHMWPQLNTQEFNRWALDTLASHPKGSDPRSFKLTQPPEGYTCHVGPFTGLY--   -
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ............eeeeeeee..eeeeeeee........eeeeeee.....hhhhhhhhhhhhhhhhhhhhh.eeeee.hhhhh.............................hhhhhhhhh..hhhhhhhhhhhhhhhhhh.eeeeeeeeeeehhhhhhhhhhhhhh.....eeeee..............hhhhhhhhhhhh....................eeeeeee......-----------...hhhhhhhhhhhhhhhh..eeeeeee..........hhhhhhhhhhhhhhh.....hhhhh.........eeee......... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3wl6 B  19 KWECPAGYEVKEGLNVDFPHKGMKRAFIVYPAKNVSGPAPVWVPMTGSVESTNDNLTVARSGANSILADHGYTVIAPVRACANQDPNIRGERCNGPGSNGWNWNPWFEGRAADPSGEHWKNDEGPDSSFFVAMVQCVGTKYKLDARRLFLGGISSGGTMTNRALLFRSNFWAGGLPISGEWYVTSDDGTPLSFDDARAAVAAAPTKIHQGRVGPYPLPAKVGPLIVMTVWGGEKDL-----------LCADYRPSTQAGSNFFSAQPDVVHVACSSTHGHMWPQLNTQEFNRWALDTLASHPKGSDPRSFKLTQPPEGYTCHVGPFTGLYAS 350
                                    28        38        48        58        68        78        88        98       108       118       128       138       148       158       168       178       188       198       208       218       228       238       248     |   -       268       278       288       298       308       318       328       338       348  
                                                                                                                                                                                                                                                                     254         266

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 '\|'

(no "SCOP Domain" information available for 3WL6)

(no "CATH Domain" information available for 3WL6)

(no "Pfam Domain" information available for 3WL6)

Asymmetric Unit(hide GO term definitions)

Chain A,B (OPH_PSESP | Q9LCQ7)

molecular function
	GO:0047699		beta-diketone hydrolase activity		Catalysis of the reaction: H(2)O + nonane-4,6-dione = butanoate + H(+) + pentan-2-one.
	GO:0016787		hydrolase activity		Catalysis of the hydrolysis of various bonds, e.g. C-O, C-N, C-C, phosphoric anhydride bonds, etc. Hydrolase is the systematic name for any enzyme of EC class 3.

Asymmetric Unit
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	Ligands, Modified Residues, Ions
		CIT	[ RasMol \| Jena3D ]	+environment [ RasMol \| Jena3D ]

	Sites
		AC1	[ RasMol ]	+environment [ RasMol ]

	Cis Peptide Bonds
		Tyr A:233 - Pro A:234	[ RasMol ]
		Tyr B:233 - Pro B:234	[ RasMol ]

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

Jmol
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	3wl6
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		Orientation in Membranes	:	OPM
		Protein Surface	:	SURFACE
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	OPH_PSESP \| Q9LCQ7
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	3.7.1.7
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		Interatomic Contacts of Structural Units	:	CSU
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UniProtKB/Swiss-Prot
	OPH_PSESP \| Q9LCQ7	:	3wl5 3wl7 3wl8 3wwc 3wwd 3wwe

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (1, 1)

Sites (1, 1)

SS Bonds (7, 7)

Cis Peptide Bonds (2, 2)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

PROSITE Motifs (0, 0)

Exons (0, 0)

Sequences/Alignments

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