1RW9 - JenaLib

Asym./Biol. Unit (Jmol Viewer)

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

Title :   CRYSTAL STRUCTURE OF THE ARTHROBACTER AURESCENS CHONDROITIN AC LYASE

Authors :   V. V. Lunin, Y. Li, R. J. Linhardt, H. Miyazono, M. Kyogashima, T. Kaneko A. W. Bell, M. Cygler

Date :   16 Dec 03 (Deposition) - 13 Apr 04 (Release) - 09 May 12 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.35

Chains :   Asym./Biol. Unit : A

Keywords :   Chondroitinase, Chondroitin Lyase, Lyase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   V. V. Lunin, Y. Li, R. J. Linhardt, H. Miyazono, M. Kyogashima, T. Kaneko, A. W. Bell, M. Cygler
High-Resolution Crystal Structure Of Arthrobacter Aurescens Chondroitin Ac Lyase: An Enzyme-Substrate Complex Defines The Catalytic Mechanism
J. Mol. Biol. V. 337 367 2004
PubMed-ID: 15003453 | Reference-DOI: 10.1016/J.JMB.2003.12.071

Molecule 1 - CHONDROITIN AC LYASE
	Chains	:	A
	EC Number	:	4.2.2.5
	Organism Scientific	:	ARTHROBACTER AURESCENS
	Organism Taxid	:	43663

		1
Asymmetric/Biological Unit	:	A

Summary Information (see also Sequences/Alignments below)

Asymmetric/Biological Unit (2, 2)

No.	Name	Count	Type	Full Name
1	NA	1	Ligand/Ion	SODIUM ION
2	PO4	1	Ligand/Ion	PHOSPHATE ION

Asymmetric Unit (2, 2)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	HIS A:233 , THR A:235 , TRP A:465 , GLY A:466 , HOH A:1052 , HOH A:1298	BINDING SITE FOR RESIDUE NA A 900
2	AC2	SOFTWARE	TRP A:125 , TRP A:126 , ASN A:183 , HIS A:233 , TYR A:242 , HOH A:1092 , HOH A:1244 , HOH A:1316	BINDING SITE FOR RESIDUE PO4 A 850

(no "SS Bond" information available for 1RW9)

(no "Cis Peptide Bond" information available for 1RW9)

(no "SAP(SNP)/Variant" information available for 1RW9)

(no "PROSITE Motif" information available for 1RW9)

(no "Exon" information available for 1RW9)

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:754
 aligned with P84141_PAEAU | P84141 from UniProtKB/TrEMBL  Length:757

    Alignment length:754
                                    13        23        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    
         P84141_PAEAU     4 PGAAEFAALRNRWVDQITGRNVIQAGDPDFAKAITALNNKAADSLAKLDVKKGRTSVFTDLSLAKDAEMVTTYTRLSQLATAWATPTAAVFGDAAVLAAIKAGLADANTLCYNDRKEEVGNWWSWEIGVPRALADAMVLLHAELSAAERTAYCAAIDHFVPDPWLQFPPKRGKITSVGANRVDLCQGIIIRSLAGEDPTKLNHAVAGLSQVWQYVTSGDGIFRDGSFIQHSTTPYTGSYGVVLLTGLSKLFSLLGGTAFEVSDPTRSIFFDAVEGSFAPVMINGAMADAVRGRSISREANTGYDLGASAIEAILLLARAMDPATAARWRGLCAGWIARDTYRPILNSASVPRTALVKQLEATGVAPVAEATGHKLFPAMDRTMHRGPGWALSLALSSNRIAWYECGNGENNRGYHTGSGMTYFYTSDLGQYDDAFWATANYNRLPGITVDTTPLPDKVEGQWGAAVPADEWSGATALGEVAAVGQHLVGPGRTGLTARKSWFVSGDVTVCLGADISTASGAKVETIVDHRNLHQGSNTLTTAAGTIAGTAGTVEVLGDGRWVHLEGFGGYAMLDDSPLHVLRETRSGSWSGVNINGSATVQQRNFATLYVNHGVGPVAGSYAYMVAPGASVDLTRKLLEGNKYSVIRNDATAQSVEFKTAKTTAATFWKPGMAGDLGASGPACVVFSRHGNELSLAVSEPTQKAAGLTLTLPEGTWSSVLEGAGTLGTDADGRSTLTLDTTGLSGKTKLIKLKR 757
               SCOP domains d1rw9a1 A:4-372 Chondroitinase AC                                                                                                                                                                                                                                                                                                                                                d1rw9a3 A:373-644 Chondroitinase AC                                                                                                                                                                                                                                             d1rw9a2 A:645-757 Chondroitinase AC                                                                               SCOP domains
               CATH domains 1rw9A01 A:4-372  [code=1.50.10.100, no name defined]                                                                                                                                                                                                                                                                                                                             1rw9A02 A:373-643  [code=2.70.98.10, no name defined]                                                                                                                                                                                                                          1rw9A03 A:644-757 Chondroitinase Ac; Chain A, domain 3                                                             CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhh.......hhhhhhhhhhhhhhhhhhhhh.................hhhhhhhhhhhhhhhhhhhh........hhhhhhhhhhhhhhhhhhh.........hhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhh....ee.hhhhh.ee.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh......ee.....eee...ee...hhhhhhhhhhhhhhhhhh.......hhhhhhhhhhhhhhhhh.ee..ee.hhhhhhhhhh...hhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhh..........hhhhhhhhhhhhhhh........eeeeehhh.eeeeee..eeeeee.........................eeeeee........hhhhhh........eee.....................eeeeee..eeeeeeeee.hhhh..eeeeeeee....eeeeeeeee......eeeeeeeeeee.....eee...ee.......ee.....eeee...eeeee......eeeeeeeeee.hhh.......eeeeeeeeeeeeee.....eeeeeeeee..hhhhhhhh.....eeeeee...eeeeee....eeeeee...eee..eee...eeeeeeee..eeeeeee.......eeeee.......eeee...eeee.....eeeeee........eeeeee. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1rw9 A   4 PGAAEFAALRNRWVDQITGRNVIQAGDPDFAKAITALNNKAADSLAKLDVKKGRTSVFTDLSLAKDAEMVTTYTRLSQLATAWATPTAAVFGDAAVLAAIKAGLADANTLCYNDRKEEVGNWWSWEIGVPRALADAMVLLHAELSAAERTAYCAAIDHFVPDPWLQFPPKRGKITSVGANRVDLCQGIIIRSLAGEDPTKLNHAVAGLSQVWQYVTSGDGIFRDGSFIQHSTTPYTGSYGVVLLTGLSKLFSLLGGTAFEVSDPTRSIFFDAVEGSFAPVMINGAMADAVRGRSISREANTGYDLGASAIEAILLLARAMDPATAARWRGLCAGWIARDTYRPILNSASVPRTALVKQLEATGVAPVAEATGHKLFPAMDRTMHRGPGWALSLALSSNRIAWYECGNGENNRGYHTGSGMTYFYTSDLGQYDDAFWATANYNRLPGITVDTTPLPDKVEGQWGAAVPADEWSGATALGEVAAVGQHLVGPGRTGLTARKSWFVSGDVTVCLGADISTASGAKVETIVDHRNLHQGSNTLTTAAGTIAGTAGTVEVLGDGRWVHLEGFGGYAMLDDSPLHVLRETRSGSWSGVNINGSATVQQRNFATLYVNHGVGPVAGSYAYMVAPGASVDLTRKLLEGNKYSVIRNDATAQSVEFKTAKTTAATFWKPGMAGDLGASGPACVVFSRHGNELSLAVSEPTQKAAGLTLTLPEGTWSSVLEGAGTLGTDADGRSTLTLDTTGLSGKTKLIKLKR 757
                                    13        23        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

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 "Pfam Domain" information available for 1RW9)

Asymmetric/Biological Unit(hide GO term definitions)

Chain A (P84141_PAEAU | P84141)

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.
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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(no "Cis Peptide Bonds" information available for 1rw9)

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	1rw9
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	P84141_PAEAU \| P84141
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	4.2.2.5
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	P84141_PAEAU \| P84141	:	1rwa 1rwc 1rwf 1rwg 1rwh

Description

Compounds

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Ligands, Modified Residues, Ions (2, 2)

Sites (2, 2)

SS Bonds (0, 0)

Cis Peptide Bonds (0, 0)

Sequence-Structure Mapping

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Exons (0, 0)

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