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Asym./Biol. Unit (Jmol Viewer)

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Title :   LEECH INTRAMOLECULAR TRANS-SIALIDASE COMPLEXED WITH 2,7-ANHYDRO-NEU5AC, THE REACTION PRODUCT

Authors :   Y. Luo, S. C. Li, Y. T. Li, M. Luo

Date :   03 Oct 98 (Deposition) - 27 Apr 99 (Release) - 24 Feb 09 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.80

Chains :   Asym./Biol. Unit : A

Keywords :   Hydrolase, Intramolecular Trans-Sialidase, Neuraminidase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   Y. Luo, S. C. Li, Y. T. Li, M. Luo
The 1. 8 A Structures Of Leech Intramolecular Trans-Sialidase Complexes: Evidence Of Its Enzymatic Mechanism.
J. Mol. Biol. V. 285 323 1999
PubMed-ID: 9878409 | Reference-DOI: 10.1006/JMBI.1998.2345
(for further references see the PDB file header)

Molecule 1 - INTRAMOLECULAR TRANS-SIALIDASE
	Chains	:	A
	EC Number	:	3.2.1.18
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI BL21(DE3)
	Expression System Gene	:	T7
	Expression System Plasmid	:	E2-M10
	Expression System Strain	:	BL21
	Expression System Taxid	:	469008
	Expression System Variant	:	DE3
	Expression System Vector	:	PET 15B
	Expression System Vector Type	:	PLASMID
	Fragment	:	DEVOID OF N-TERMINAL 28 RESIDUES
	Gene	:	T7
	Organism Common	:	NORTH AMERICAN LEECH
	Organism Scientific	:	MACROBDELLA DECORA
	Organism Taxid	:	6405

		1
Asymmetric/Biological Unit	:	A

Summary Information (see also Sequences/Alignments below)

Asymmetric/Biological Unit (1, 1)

No.	Name	Count	Type	Full Name
1	SKD	1	Ligand/Ion	2-ACETYLAMINO-7-(1,2-DIHYDROXY-ETHYL)-3-HYDROXY-6,8-DIOXA-BICYCLO[3.2.1]OCTANE-5-CARBOXYLIC ACID

Asymmetric Unit (1, 1)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	ARG A:293 , ILE A:294 , ARG A:312 , ASP A:318 , ASP A:375 , ASP A:392 , SER A:400 , TYR A:561 , THR A:593 , GLU A:595 , ARG A:611 , ARG A:673 , TYR A:713 , TRP A:734 , HOH A:820 , HOH A:1173 , HOH A:1196 , HOH A:1248 , HOH A:1312	BINDING SITE FOR RESIDUE SKD A 760

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

(no "Cis Peptide Bond" information available for 2SLI)

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

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

(no "Exon" information available for 2SLI)

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
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Chain A from PDB  Type:PROTEIN  Length:679
 aligned with NANL_MACDE | Q27701 from UniProtKB/Swiss-Prot  Length:762

    Alignment length:679
                                    90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310       320       330       340       350       360       370       380       390       400       410       420       430       440       450       460       470       480       490       500       510       520       530       540       550       560       570       580       590       600       610       620       630       640       650       660       670       680       690       700       710       720       730       740       750         
           NANL_MACDE    81 IPEGILMEKNNVDIAEGQGYSLDQEAGAKYVKAMTQGTIILSYKSTSENGIQSLFSVGNSTAGNQDRHFHIYITNSGGIGIELRNTDGVFNYTLDRPASVRALYKGERVFNTVALKADAANKQCRLFANGELLATLDKDAFKFISDITGVDNVTLGGTKRQGKIAYPFGGTIGDIKVYSNALSDEELIQATGVTTYGENIFYAGDVTESNYFRIPSLLTLSTGTVISAADARYGGTHDSKSKINIAFAKSTDGGNTWSEPTLPLKFDDYIAKNIDWPRDSVGKNVQIQGSASYIDPVLLEDKLTKRIFLFADLMPAGIGSSNASVGSGFKEVNGKKYLKLRWHKDAGRAYDYTIREKGVIYNDATNQPTEFRVDGEYNLYQHDTNLTCKQYDYNFSGNNLIESKTDVDVNMNIFYKNSVFKAFPTNYLAMRYSDDEGASWSDLDIVSSFKPEVSKFLVVGPGIGKQISTGENAGRLLVPLYSKSSAELGFMYSDDHGDNWTYVEADNLTGGATAEAQIVEMPDGSLKTYLRTGSNCIAEVTSIDGGETWSDRVPLQGISTTSYGTQLSVINYSQPIDGKPAIILSSPNATNGRKNGKIWIGLVNDTGNTGIDKYSVEWKYSYAVDTPQMGYSYSCLAELPDGQVGLLYEKYDSWSRNELHLKDILKFEKYSISELTGQA 759
               SCOP domains d2slia1 A:81-276 Leech intramolecular trans-sialidase, N-terminal domain                                                                                                                            d2slia2 A:277-759 Leech intramolecular trans-sialidase, C-terminal domain                                                                                                                                                                                                                                                                                                                                                                                                                           SCOP domains
               CATH domains 2sliA01 A:81-276  [code=2.60.120.200, no name defined]                                                                                                                                              2sliA02 A:277-404,A:505-759  [code=2.120.10.10, no name defined]                                                                2sliA03 A:405-504 Intramolecular Trans-sialidase; Domain 3                                          2sliA02 A:277-404,A:505-759  [code=2.120.10.10, no name defined]                                                                                                                                                                                                CATH domains
               Pfam domains Sialidase-2sliA01 A:81-275                                                                                                                                                                         ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....eeeeee.eee.............hhhhhh...eeeeeeeee.....eeeeeeee........eeeeeeee....eeeeeee.....eeeeee..............eeeeeeee....eeeeee..eeeeeee......hhh.....eeee..eee..eee....eeeeeeeee.....hhhhhhhhhh.................eee..eeee.....eeeeeeee..........eeeeeeee...............................hhh.......eee..eeeee....eeeeeeeee.....hhh......eeee..eeeeeeee.........eee.hhh.eee........eee.....eee.....eee.eeeeee..eeeeee...eee.........eee...eeeeeeee.............hhh......eeee................eeeeeeee....eeeeee.......eeee...........eeeee.....eeeee.......eeeee.........................eeeee........eeeeeee........eeeeeeeeee....hhh.eeeeeeeeee..........eeeee.....eeeeee...............eeeeee.hhhh.... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2sli A  81 IPEGILMEKNNVDIAEGQGYSLDQEAGAKYVKAMTQGTIILSYKSTSENGIQSLFSVGNSTAGNQDRHFHIYITNSGGIGIELRNTDGVFNYTLDRPASVRALYKGERVFNTVALKADAANKQCRLFANGELLATLDKDAFKFISDITGVDNVTLGGTKRQGKIAYPFGGTIGDIKVYSNALSDEELIQATGVTTYGENIFYAGDVTESNYFRIPSLLTLSTGTVISAADARYGGTHDSKSKINIAFAKSTDGGNTWSEPTLPLKFDDYIAKNIDWPRDSVGKNVQIQGSASYIDPVLLEDKLTKRIFLFADLMPAGIGSSNASVGSGFKEVNGKKYLKLRWHKDAGRAYDYTIREKGVIYNDATNQPTEFRVDGEYNLYQHDTNLTCKQYDYNFSGNNLIESKTDVDVNMNIFYKNSVFKAFPTNYLAMRYSDDEGASWSDLDIVSSFKPEVSKFLVVGPGIGKQISTGENAGRLLVPLYSKSSAELGFMYSDDHGDNWTYVEADNLTGGATAEAQIVEMPDGSLKTYLRTGSNCIAEVTSIDGGETWSDRVPLQGISTTSYGTQLSVINYSQPIDGKPAIILSSPNATNGRKNGKIWIGLVNDTGNTGIDKYSVEWKYSYAVDTPQMGYSYSCLAELPDGQVGLLYEKYDSWSRNELHLKDILKFEKYSISELTGQA 759
                                    90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310       320       330       340       350       360       370       380       390       400       410       420       430       440       450       460       470       480       490       500       510       520       530       540       550       560       570       580       590       600       610       620       630       640       650       660       670       680       690       700       710       720       730       740       750

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

Clans(

)

Families(

)

Organisms( (-)

)

Clan: Concanavalin (293)

Family: Sialidase (8)

Macrobdella decora (North American leech) (4)

Sialidase-2sliA01

A:81-275

Asymmetric/Biological Unit(hide GO term definitions)

Chain A (NANL_MACDE | Q27701)

molecular function
	GO:0033995	anhydrosialidase activity	Catalysis of the reaction: an N-acetylneuraminate glycoside = 2,7-anhydro-alpha-N-acetylneuraminate + an alpha-sialyl group. This reaction is the elimination of alpha-sialyl groups in N-acetylneuraminic acid glycosides, releasing 2,7-anhydro-alpha-N-acetylneuraminate.
	GO:0004308	exo-alpha-sialidase activity	Catalysis of the hydrolysis of alpha-(2->3)-, alpha-(2->6)-, alpha-(2->8)-glycosidic linkages of terminal sialic residues in oligosaccharides, glycoproteins, glycolipids, colominic acid and synthetic substrates.
	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.
	GO:0016798	hydrolase activity, acting on glycosyl bonds	Catalysis of the hydrolysis of any glycosyl bond.
	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.
	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.
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.
	GO:0005615	extracellular space	That part of a multicellular organism outside the cells proper, usually taken to be outside the plasma membranes, and occupied by fluid.

Asymmetric/Biological Unit
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