1L7F - JenaLib

Title :   CRYSTAL STRUCTURE OF INFLUENZA VIRUS NEURAMINIDASE IN COMPLEX WITH BCX-1812

Authors :   B. J. Smith, J. L. Mckimm-Breshkin, M. Mcdonald, R. T. Fernley, J. N. Var P. M. Colman

Date :   15 Mar 02 (Deposition) - 29 May 02 (Release) - 13 Jul 11 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.80

Chains :   Asym. Unit : A
Biol. Unit 1: A  (4x)

Keywords :   N9 Neuraminidase, Hydrolase, Influenza, Glycosylated Protein, Bcx- 1812 (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   B. J. Smith, J. L. Mckimm-Breshkin, M. Mcdonald, R. T. Fernley, J. N. Varghese, P. M. Colman
Structural Studies Of The Resistance Of Influenza Virus Neuramindase To Inhibitors.
J. Med. Chem. V. 45 2207 2002
PubMed-ID: 12014958 | Reference-DOI: 10.1021/JM010528U
(for further references see the PDB file header)

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (6, 16)

Sites (16, 16)

Asymmetric Unit (16, 16)

No.	Name	Evidence	Residues	Description
01	AC1	SOFTWARE	ASN A:199 , ASN A:200 , ARG A:220 , LEU A:453 , GLY A:454 , GLN A:455 , NAG A:1201 , HOH A:1211 , HOH A:1277 , HOH A:1382 , HOH A:1435 , HOH A:1463 , HOH A:1628 , HOH A:1788	BINDING SITE FOR RESIDUE NAG A 1200
02	AC2	SOFTWARE	GLN A:392 , GLY A:394 , NAG A:1200 , BMA A:1202 , HOH A:1269 , HOH A:1277 , HOH A:1326 , HOH A:1382 , HOH A:1440 , HOH A:1808 , HOH A:1819	BINDING SITE FOR RESIDUE NAG A 1201
03	AC3	SOFTWARE	LEU A:377 , THR A:391 , GLN A:392 , GLY A:394 , NAG A:1201 , MAN A:1203 , MAN A:1206 , HOH A:1326 , HOH A:1401 , HOH A:1571 , HOH A:1713	BINDING SITE FOR RESIDUE BMA A 1202
04	AC4	SOFTWARE	ARG A:364 , GLU A:375 , BMA A:1202 , MAN A:1204 , MAN A:1205 , HOH A:1363 , HOH A:1426 , HOH A:1446 , HOH A:1715	BINDING SITE FOR RESIDUE MAN A 1203
05	AC5	SOFTWARE	ASP A:330 , ARG A:364 , LYS A:389 , PRO A:390 , MAN A:1203 , MAN A:1205 , HOH A:1421 , HOH A:1472 , HOH A:1695	BINDING SITE FOR RESIDUE MAN A 1204
06	AC6	SOFTWARE	ARG A:327 , ASN A:329 , ASP A:330 , ARG A:364 , ILE A:366 , ILE A:368 , MAN A:1203 , MAN A:1204 , HOH A:1298 , HOH A:1378 , HOH A:1631	BINDING SITE FOR RESIDUE MAN A 1205
07	AC7	SOFTWARE	BMA A:1202 , HOH A:1437 , HOH A:1572 , HOH A:1579 , HOH A:1652 , HOH A:1786 , HOH A:1791	BINDING SITE FOR RESIDUE MAN A 1206
08	AC8	SOFTWARE	ASP A:83 , PHE A:84 , ASN A:86 , ASN A:234 , NAG A:1087 , HOH A:1445 , HOH A:1511	BINDING SITE FOR RESIDUE NAG A 1086
09	AC9	SOFTWARE	ASP A:83 , NAG A:1086 , HOH A:1485	BINDING SITE FOR RESIDUE NAG A 1087
10	BC1	SOFTWARE	ASN A:146 , TRP A:437 , HOH A:1526 , HOH A:1576 , HOH A:1654 , HOH A:1751	BINDING SITE FOR RESIDUE NAG A 1146
11	BC2	SOFTWARE	ASP A:293 , GLY A:297 , ASP A:324 , ASN A:347 , HOH A:1257 , HOH A:1324	BINDING SITE FOR RESIDUE CA A 998
12	BC3	SOFTWARE	HOH A:1399	BINDING SITE FOR RESIDUE CA A 999
13	BC4	SOFTWARE	ARG A:118 , GLU A:119 , LEU A:134 , ASP A:151 , ARG A:152 , ARG A:156 , TRP A:178 , GLU A:227 , GLU A:276 , GLU A:277 , ARG A:292 , ARG A:371 , TYR A:406 , HOH A:1241 , HOH A:1503 , HOH A:1608	BINDING SITE FOR RESIDUE BCZ A 801
14	BC5	SOFTWARE	LYS A:336 , CYS A:337 , ASN A:338 , ASP A:339 , HOH A:1643 , HOH A:1817	BINDING SITE FOR RESIDUE GOL A 701
15	BC6	SOFTWARE	ARG A:107 , HIS A:144 , ASN A:146 , SER A:153 , HOH A:1236 , HOH A:1253 , HOH A:1375 , HOH A:1719	BINDING SITE FOR RESIDUE GOL A 702
16	BC7	SOFTWARE	ALA A:413 , GLU A:414 , CYS A:417 , ARG A:419 , HOH A:1227 , HOH A:1380 , HOH A:1405 , HOH A:1447 , HOH A:1542	BINDING SITE FOR RESIDUE GOL A 703

SS Bonds (9, 9)

Cis Peptide Bonds (2, 2)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

PROSITE Motifs (0, 0)

Exons (0, 0)

Sequences/Alignments

Asymmetric Unit

Reformat:	Number of residues per line = ('0' or empty: single-line sequence representation)
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	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:388
 aligned with NRAM_I75A5 | P03472 from UniProtKB/Swiss-Prot  Length:470

    Alignment length:388
                                    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       352       362       372       382       392       402       412       422       432       442       452       462        
          NRAM_I75A5     83 RDFNNLTKGLCTINSWHIYGKDNAVRIGEDSDVLVTREPYVSCDPDECRFYALSQGTTIRGKHSNGTIHDRSQYRALISWPLSSPPTVYNSRVECIGWSSTSCHDGKTRMSICISGPNNNASAVIWYNRRPVTEINTWARNILRTQESECVCHNGVCPVVFTDGSATGPAETRIYYFKEGKILKWEPLAGTAKHIEECSCYGERAEITCTCRDNWQGSNRPVIRIDPVAMTHTSQYICSPVLTDNPRPNDPTVGKCNDPYPGNNNNGVKGFSYLDGVNTWLGRTISIASRSGYEMLKVPNALTDDKSKPTQGQTIVLNTDWSGYSGSFMDYWAEGECYRACFYVELIRGRPKEDKVWWTSNSIVSMCSSTEFLGQWDWPDGAKIEYFL  470
               SCOP domains d1l7fa_ A: Influenza neuraminidase                                                                                                                                                                                                                                                                                                                                                                   SCOP domains
               CATH domains 1l7fA00 A:82-468  [code=2.120.10.10, no name defined]                                                                                                                                                                                                                                                                                                                                                CATH domains
               Pfam domains Neur-1l7fA01 A:82-466                                                                                                                                                                                                                                                                                                                                                                             -- Pfam domains
         Sec.struct. author ..............eeeeeee.hhhhhhh....eeeeeeeeeee..eeeeeeeeeeee..hhhhh..........eeeeee..........eeeee..eeeeee....eeeeeee......eeeeee..eeeeeee.......ee...........eeeeeeee.....eeeeeeeee..eeeeeee...........eeeee..eeeee..........eeeeee....eeeeee...................................ee......eeee.......eeeeeee.............eeeeeeeeeee...eeeee..........eeeeeeeeee.........eeeeeeeeeee.............hhhhhh Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                1l7f A   82 RDFNNLTKGLCTINSWHIYGKDNAVRIGEDSDVLVTREPYVSCDPDECRFYALSQGTTIRGKHSNGTIHDRSQYRALISWPLSSPPTVYNSRVECIGWSSTSCHDGKTRMSICISGPNNNASAVIWYNRRPVTEINTWARNILRTQESECVCHNGVCPVVFTDGSATGPAETRIYYFKEGKILKWEPLAGTAKHIEECSCYGERAEITCTCRDNWQGSNRPVIRIDPVAMTHTSQYICSPVLTDNPRPNDPTVGKCNDPYPGNNNNGVKGFSYLDGVNTWLGRTISIASRSGYEMLKVPNALTDDKSKPTQGQTIVLNTDWSGYSGSFMDYWAEGECYRACFYVELIRGRPKEDKVWWTSNSIVSMCSSTEFLGQWDWPDGAKIEYFL  468
                                    91       101       111       121       131       141       151       161       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310       320       330  ||   341       351       361       371       381       391||     402       412||     420       430       440       450       460        
                                                                                                                 169A                                                                                                                                                                 333|                                                      392|               412A|                                                        
                                                                                                                                                                                                                                                                                       335                                                       394                412B

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 '\|'

Classification and Annotation

SCOP Domains (1, 1)

CATH Domains (1, 1)

Pfam Domains (1, 1)

Gene Ontology (15, 15)

Asymmetric Unit(hide GO term definitions)

Chain A (NRAM_I75A5 | P03472)

molecular function
	GO:0052794	exo-alpha-(2->3)-sialidase activity	Catalysis of the hydrolysis of alpha-(2->3)-glycosidic linkages of terminal sialic residues in substrates.
	GO:0052795	exo-alpha-(2->6)-sialidase activity	Catalysis of the hydrolysis of alpha-(2->6)-glycosidic linkages of terminal sialic residues in substrates.
	GO:0052796	exo-alpha-(2->8)-sialidase activity	Catalysis of the hydrolysis of alpha-(2->8)-glycosidic linkages of terminal sialic residues in substrates.
	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: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.
	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:0033644	host cell membrane	Double layer of lipid molecules as it encloses host cells, and, in eukaryotes, many organelles; may be a single or double lipid bilayer; also includes associated proteins. The host is defined as the larger of the organisms involved in a symbiotic interaction.
	GO:0020002	host cell plasma membrane	The plasma membrane surrounding a host cell.
	GO:0016021	integral component of membrane	The component of a membrane consisting of the gene products and protein complexes having at least some part of their peptide sequence embedded in the hydrophobic region of the membrane.
	GO:0016020	membrane	A lipid bilayer along with all the proteins and protein complexes embedded in it an attached to it.
	GO:0019012	virion	The complete fully infectious extracellular virus particle.
	GO:0055036	virion membrane	The lipid bilayer surrounding a virion.

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