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Title :   STRUCTURES OF THE STREPTOMYCES COELICOLOR A3(2) HYALURONAN LYASE IN COMPLEX WITH OLIGOSACCHARIDE SUBSTRATES AND AN INHIBITOR

Authors :   Z. H. Elmabrouk, E. J. Taylor, F. Vincent, N. L. Smith, M. Zhang, S. J. Cha J. P. Turkenburg, G. J. Davies, G. W. Black

Date :   12 Mar 09 (Deposition) - 18 Aug 10 (Release) - 16 Feb 11 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.94

Chains :   Asym./Biol. Unit : A

Keywords :   Lyase, Family 8, Glycosaminoglycans (Gags) Hydrolysis (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   Z. H. Elmabrouk, F. Vincent, M. Zhang, N. L. Smith, J. P. Turkenburg, S. J. Charnock, G. W. Black, E. J. Taylor
Crystal Structures Of A Family 8 Polysaccharide Lyase Reveal Open And Highly Occluded Substrate- Binding Cleft Conformations.
Proteins V. 79 965 2011
PubMed-ID: 21287626 | Reference-DOI: 10.1002/PROT.22938

Molecule 1 - PUTATIVE SECRETED LYASE
	Chains	:	A
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Strain	:	BL21(DE3)
	Expression System Taxid	:	469008
	Expression System Vector	:	PET-28A
	Fragment	:	RESIDUES 33-776
	Organism Scientific	:	STREPTOMYCES COELICOLOR A3(2)
	Organism Taxid	:	100226
	Synonym	:	POLYSACCHARIDE LYASE

		1
Asymmetric/Biological Unit	:	A

Summary Information (see also Sequences/Alignments below)

Asymmetric/Biological Unit (4, 5)

No.	Name	Count	Type	Full Name
1	FMT	2	Ligand/Ion	FORMIC ACID
2	GC4	1	Ligand/Ion	4-DEOXY-D-GLUCURONIC ACID
3	GOL	1	Ligand/Ion	GLYCEROL
4	NAG	1	Ligand/Ion	N-ACETYL-D-GLUCOSAMINE

Asymmetric Unit (5, 5)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	ASN A:139 , TRP A:140 , ARG A:307 , ASN A:432 , ARG A:743 , FMT A:1767 , FMT A:1768 , NAG A:1770 , HOH A:2756	BINDING SITE FOR RESIDUE GOL A1766
2	AC2	SOFTWARE	TRP A:140 , TRP A:141 , ASN A:194 , HIS A:244 , TYR A:253 , ARG A:743 , GOL A:1766 , NAG A:1770	BINDING SITE FOR RESIDUE FMT A1767
3	AC3	SOFTWARE	HIS A:244 , TRP A:489 , ARG A:743 , ARG A:744 , GOL A:1766	BINDING SITE FOR RESIDUE FMT A1768
4	AC4	SOFTWARE	ARG A:149 , ARG A:311 , NAG A:1770 , HOH A:2349 , HOH A:2757 , HOH A:2758 , HOH A:2759 , HOH A:2760 , HOH A:2761	BINDING SITE FOR RESIDUE GC4 A1769
5	AC5	SOFTWARE	TRP A:141 , GLU A:142 , TYR A:253 , ARG A:307 , ARG A:311 , GOL A:1766 , FMT A:1767 , GC4 A:1769 , HOH A:2760 , HOH A:2762 , HOH A:2763 , HOH A:2764 , HOH A:2765	BINDING SITE FOR RESIDUE NAG A1770

(no "SS Bond" information available for 2WCO)

Asymmetric/Biological Unit

No.	Residues
1	Glu A:48	-	Pro A:49
2	Asp A:82	-	Pro A:83

(no "SAP(SNP)/Variant" information available for 2WCO)

(no "PROSITE Motif" information available for 2WCO)

(no "Exon" information available for 2WCO)

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:742
 aligned with O86516_STRCO | O86516 from UniProtKB/TrEMBL  Length:776

    Alignment length:742
                                    44        54        64        74        84        94       104       114       124       134       144       154       164       174       184       194       204       214       224       234       244       254       264       274       284       294       304       314       324       334       344       354       364       374       384       394       404       414       424       434       444       454       464       474       484       494       504       514       524       534       544       554       564       574       584       594       604       614       624       634       644       654       664       674       684       694       704       714       724       734       744       754       764       774  
         O86516_STRCO    35 ADPYDALRRRWLGITLGTGYDPAAEPYASRLAETGERAREHRATMAPTPTSLWPGHPFDPPAGITFAYGRLWTMTEAYVQEGTGATGDPALLADILRGLDHLSATVYHPATTRYGNWWEWQIGSPRLLMDITAALYDHLGADRVAAACAAVDHFVPDAMLGAYTGTSTGANRVDLCRSVALRGVLGRAPAKIALARDALSPVFPYVTKGDGLYADGSFVQHTWVAYSGTYGQVMLDGLGRLFTLLAGSEWEVTDPGRQLVLDSVEHAYAPLIHDGLVMDTVNGRAISRGYLKSDDLHVMRSDHFHGQQLIAAMAVLAGGASNAERERWHARIKGWIERDTVTPVLTAPQFPVADLTRLHAIADAPGEAAPEPVGHHLFAAMDRAVHRRPAFTAGLAMASDRIAHYECGNGENPRGWHTGAGMLTWWANGTRADQYTDWFWPTVDWYRLPGTTVSTKRLADRAGGEWGAPKPDVRWVGGATDGEYAAVGQHLKGLGSTLEARKSWFFLDDAVVCLGAGITCADGVPVETVVDNRNLGEGGTQALVRGRHWAHLEGHGGWIVPGGALRTLREDRTGAWSDINTTSTTERRTRRWQTLWLDHGTDPAGADYVYTVMPGASRAALARRAADRHWLTVLANDDRRQAVSVPSLGLTAANFWQAGTAGPLTTTAGASVLVRRRGRTATLRVSEPPRTGEALEIVWDHPVGAVLRADETVEILATGRRLHLRVTPGVVCTTHECEVTLS 776
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains 2wcoA01 A:24-394  [code=1.50.10.100, no name defined]                                                                                                                                                                                                                                                                                                                              2wcoA02 A:395-650  [code=2.70.98.10, no name defined]                                                                                                                                                                                                           ------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------Lyase_8_N-2wcoA02 A:34-357                                                                                                                                                                                                                                                                                                          ---------------------------------Lyase_8-2wcoA01 A:391-645                                                                                                                                                                                                                                      --------Lyase_8_C-2wcoA03 A:654-734                                                      ------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhh.............hhhhhhhhh.hhhhhhhhhh........................hhhhhhhhhhh.......hhhhhhhhhh.hhhhhhhh.........hhhhhhh.hhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhh.........hhhhhhhhhhhhh.....hhhhhhhhhhhhhhhh...............ee...ee..............hhhhhhh..........hhhhhhhhhhhhhhh......hhhhh.hhhhh..................hhhhhhhhhhh...hhhhhhhhhhhhh.........hhhhh...hhhhhhhhhhhhhh...........eeehhh.eeeee...eeeeee.............................ee........................eee..............................eeeeeee.......eeeeeeee....eeeeeeeee......eeeeeeeee........ee......ee.............eeeeeee..hhhhh..........eeeeeeeee...........eee....hhhhhhhhhhh....eeeee...eeeee......eeeee........eee....eeeeee...eeeeeee........eeeee......eeee...eeeee....eeeee........eeeeee.. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2wco A  24 ADPYDALRRRWLGITLGTGYDPAAEPYASRLAETGERAREHRATMAPTPTSLWPGHPFDPPAGITFAYGRLWTMTEAYVQEGTGATGDPALLADILRGLDHLSATVYHPATTRYGNWWEWQIGSPRLLMDITAALYDHLGADRVAAACAAVDHFVPDAMLGAYTGTSTGANRVDLCRSVALRGVLGRAPAKIALARDALSPVFPYVTKGDGLYADGSFVQHTWVAYSGTYGQVMLDGLGRLFTLLAGSEWEVTDPGRQLVLDSVEHAYAPLIHDGLVMDTVNGRAISRGYLKSDDLHVMRSDHFHGQQLIAAMAVLAGGASNAERERWHARIKGWIERDTVTPVLTAPQFPVADLTRLHAIADAPGEAAPEPVGHHLFAAMDRAVHRRPAFTAGLAMASDRIAHYECGNGENPRGWHTGAGMLTWWANGTRADQYTDWFWPTVDWYRLPGTTVSTKRLADRAGGEWGAPKPDVRWVGGATDGEYAAVGQHLKGLGSTLEARKSWFFLDDAVVCLGAGITCADGVPVETVVDNRNLGEGGTQALVRGRHWAHLEGHGGWIVPGGALRTLREDRTGAWSDINTTSTTERRTRRWQTLWLDHGTDPAGADYVYTVMPGASRAALARRAADRHWLTVLANDDRRQAVSVPSLGLTAANFWQAGTAGPLTTTAGASVLVRRRGRTATLRVSEPPRTGEALEIVWDHPVGAVLRADETVEILATGRRLHLRVTPGVVCTTHECEVTLS 765
                                    33        43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203       213       223       233       243       253       263       273       283       293       303       313       323       333       343       353       363       373       383       393       403       413       423       433       443       453       463       473       483       493       503       513       523       533       543       553       563       573       583       593       603       613       623       633       643       653       663       673       683       693       703       713       723       733       743       753       763

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 2WCO)

Asymmetric/Biological Unit

Clans(

)

Families(

)

Organisms( (-)

)

Clan: Gal_mutarotase (81)

Family: Lyase_8 (15)

Streptomyces coelicolor (3)

Lyase_8-2wcoA01

A:391-645

Clan: Hy-ly_N (15)

Family: Lyase_8_N (15)

Streptomyces coelicolor (3)

Lyase_8_N-2wcoA02

A:34-357

Clan: no clan defined [family: Lyase_8_C] (15)

Family: Lyase_8_C (15)

Streptomyces coelicolor (3)

Lyase_8_C-2wcoA03

A:654-734

Asymmetric/Biological Unit(hide GO term definitions)

Chain A (O86516_STRCO | O86516)

molecular function
	GO:0030246	carbohydrate binding	Interacting selectively and non-covalently with any carbohydrate, which includes monosaccharides, oligosaccharides and polysaccharides as well as substances derived from monosaccharides by reduction of the carbonyl group (alditols), by oxidation of one or more hydroxy groups to afford the corresponding aldehydes, ketones, or carboxylic acids, or by replacement of one or more hydroxy group(s) by a hydrogen atom. Cyclitols are generally not regarded as carbohydrates.
	GO:0016837	carbon-oxygen lyase activity, acting on polysaccharides	Catalysis of the cleavage of a carbon-oxygen bond by the elimination of an alcohol from a polysaccharide.
	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:0046872	metal ion binding	Interacting selectively and non-covalently with any metal ion.
biological process
	GO:0005975	carbohydrate metabolic process	The chemical reactions and pathways involving carbohydrates, any of a group of organic compounds based of the general formula Cx(H2O)y. Includes the formation of carbohydrate derivatives by the addition of a carbohydrate residue to another molecule.
cellular component
	GO:0005576	extracellular region	The space external to the outermost structure of a cell. For cells without external protective or external encapsulating structures this refers to space outside of the plasma membrane. This term covers the host cell environment outside an intracellular parasite.

Asymmetric/Biological Unit
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	Cis Peptide Bonds
		Asp A:82 - Pro A:83	[ RasMol ]
		Glu A:48 - Pro A:49	[ RasMol ]

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	2wco
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	O86516_STRCO \| O86516	:	2wda 2x03

2wda	THE X-RAY STRUCTURE OF THE STREPTOMYCES COELICOLOR A3 CHONDROITIN AC LYASE IN COMPLEX WITH CHONDROITIN SULPHATE
2x03	THE X-RAY STRUCTURE OF THE STREPTOMYCES COELICOLOR A3 CHONDROITIN AC LYASE Y253A MUTANT

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (4, 5)

Sites (5, 5)

SS Bonds (0, 0)

Cis Peptide Bonds (2, 2)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

PROSITE Motifs (0, 0)

Exons (0, 0)

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SCOP Domains (0, 0)

CATH Domains (2, 2)

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Gene Ontology (7, 7)

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