1Z4V - JenaLib

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Title :   PARAINFLUENZA VIRUS 5 (SV5) HEMAGGLUTININ-NEURAMINIDASE (HN) WITH LIGAND DANA (SOAKED WITH DANA, PH 7.0)

Authors :   P. Yuan, T. B. Thompson, B. A. Wurzburg, R. G. Paterson, R. A. Lamb, T. S. J

Date :   16 Mar 05 (Deposition) - 24 May 05 (Release) - 13 Jul 11 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.30

Chains :   Asym. Unit : A
Biol. Unit 1: A  (4x)
Biol. Unit 2: A  (2x)

Keywords :   Hemagglutinin, Neuraminidase, Fusion, Tetramer, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   P. Yuan, T. B. Thompson, B. A. Wurzburg, R. G. Paterson, R. A. Lamb, T. S. Jardetzky
Structural Studies Of The Parainfluenza Virus 5 Hemagglutinin-Neuraminidase Tetramer In Complex With Its Receptor, Sialyllactose.
Structure V. 13 803 2005
PubMed-ID: 15893670 | Reference-DOI: 10.1016/J.STR.2005.02.019

Molecule 1 - HEMAGGLUTININ-NEURAMINIDASE
	Chains	:	A
	EC Number	:	3.2.1.18
	Engineered	:	YES
	Expression System	:	TRICHOPLUSIA NI
	Expression System Common	:	CABBAGE LOOPER
	Expression System Plasmid	:	PBACGUS-3
	Expression System Taxid	:	7111
	Expression System Vector Type	:	VIRUS
	Fragment	:	EXTRACELLULAR DOMAIN
	Gene	:	HN
	Organism Scientific	:	SIMIAN VIRUS 5
	Organism Taxid	:	11207
	Strain	:	W3

		1
Asymmetric Unit	:	A
Biological Unit 1 (4x)	:	A
Biological Unit 2 (2x)	:	A

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (4, 7)

No.	Name	Count	Type	Full Name
1	CA	1	Ligand/Ion	CALCIUM ION
2	DAN	1	Ligand/Ion	2-DEOXY-2,3-DEHYDRO-N-ACETYL-NEURAMINIC ACID
3	NAG	4	Ligand/Ion	N-ACETYL-D-GLUCOSAMINE
4	NDG	1	Ligand/Ion	2-(ACETYLAMINO)-2-DEOXY-A-D-GLUCOPYRANOSE

Biological Unit 1 (3, 24)

No.	Name	Count	Type	Full Name
1	CA	-1	Ligand/Ion	CALCIUM ION
2	DAN	4	Ligand/Ion	2-DEOXY-2,3-DEHYDRO-N-ACETYL-NEURAMINIC ACID
3	NAG	16	Ligand/Ion	N-ACETYL-D-GLUCOSAMINE
4	NDG	4	Ligand/Ion	2-(ACETYLAMINO)-2-DEOXY-A-D-GLUCOPYRANOSE

Biological Unit 2 (3, 12)

No.	Name	Count	Type	Full Name
1	CA	-1	Ligand/Ion	CALCIUM ION
2	DAN	2	Ligand/Ion	2-DEOXY-2,3-DEHYDRO-N-ACETYL-NEURAMINIC ACID
3	NAG	8	Ligand/Ion	N-ACETYL-D-GLUCOSAMINE
4	NDG	2	Ligand/Ion	2-(ACETYLAMINO)-2-DEOXY-A-D-GLUCOPYRANOSE

Asymmetric Unit (7, 7)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	ASN A:139	BINDING SITE FOR RESIDUE NDG A 1
2	AC2	SOFTWARE	NAG A:3 , ASN A:267 , THR A:269 , GLN A:369	BINDING SITE FOR RESIDUE NAG A 2
3	AC3	SOFTWARE	NAG A:2 , GLN A:369	BINDING SITE FOR RESIDUE NAG A 3
4	AC4	SOFTWARE	NAG A:5 , GLU A:481 , ASN A:504 , THR A:506 , GLN A:507 , ILE A:509	BINDING SITE FOR RESIDUE NAG A 4
5	AC5	SOFTWARE	NAG A:4 , GLN A:507	BINDING SITE FOR RESIDUE NAG A 5
6	AC6	SOFTWARE	ASP A:250 , SER A:253 , ALA A:255 , ALA A:285 , HOH A:703	BINDING SITE FOR RESIDUE CA A 600
7	AC7	SOFTWARE	ARG A:163 , GLU A:247 , ASN A:288 , TYR A:306 , GLU A:390 , ARG A:405 , ASN A:407 , ARG A:495 , TYR A:523 , HOH A:619 , HOH A:645 , HOH A:666 , HOH A:706 , HOH A:732 , HOH A:742 , HOH A:811	BINDING SITE FOR RESIDUE DAN A 601

Asymmetric Unit

No.	Residues
1	A:161	-	A:185
2	A:175	-	A:236
3	A:227	-	A:240
4	A:365	-	A:375
5	A:448	-	A:458
6	A:528	-	A:539

(no "Cis Peptide Bond" information available for 1Z4V)

(no "SAP(SNP)/Variant" information available for 1Z4V)

(no "PROSITE Motif" information available for 1Z4V)

(no "Exon" information available for 1Z4V)

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)
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Chain A from PDB  Type:PROTEIN  Length:444
 aligned with HN_PIV5 | P04850 from UniProtKB/Swiss-Prot  Length:565

    Alignment length:448
                                   127       137       147       157       167       177       187       197       207       217       227       237       247       257       267       277       287       297       307       317       327       337       347       357       367       377       387       397       407       417       427       437       447       457       467       477       487       497       507       517       527       537       547       557        
              HN_PIV5   118 INDNRYINGINQFYFSIAEGRNLTLGPLLNMPSFIPTATTPEGCTRIPSFSLTKTHWCYTHNVILNGCQDHVSSNQFVSMGIIEPTSAGFPFFRTLKTLYLSDGVNRKSCSISTVPGGCMMYCFVSTQPERDDYFSAAPPEQRIIIMYYNDTIVERIINPPGVLDVWATLNPGTGSGVYYLGWVLFPIYGGVIKGTSLWNNQANKYFIPQMVAALCSQNQATQVQNAKSSYYSSWFGNRMIQSGILACPLRQDLTNECLVLPFSNDQVLMGAEGRLYMYGDSVYYYQRSNSWWPMTMLYKVTITFTNGQPSAISAQNVPTQQVPRPGTGDCSATNRCPGFCLTGVYADAWLLTNPSSTSTFGSEATFTGSYLNTATQRINPTMYIANNTQIISSQQFGSSGQEAAYGHTTCFRDTGSVMVYCIYIIELSSSLLGQFQIVPFIRQVTLS 565
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...............hhhhhh.eeeeee...............eeeeeeeee....eeeeeeee.....----.eeeeeeeeeee.....eeeeeeeeeee.....eeeeeeeee..eeeeeeee...hhhhhhhh....eeeeeeee....eeeeee........eeeeee.....eee..eeeeeeeeee...hhhhhhhh...............hhhhhhhhhhhh.ee.....eeeeeeeeeee.........eeee...........eeeeee..eeeeee.........eeeeeeeee....eeeeeeee..........hhhhh................eee..hhhhh.......eeeeeee........eeeeeee...eeeeee.......eeeeeeeeeee....eeeeeeeeeee......eeeeeeeeeeee. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1z4v A 118 INDNRYINGINQFYFSIAEGRNLTLGPLLNMPSFIPTATTPEGCTRIPSFSLTKTHWCYTHNVILNGCQ----SNQFVSMGIIEPTSAGFPFFRTLKTLYLSDGVNRKSCSISTVPGGCMMYCFVSTQPERDDYFSAAPPEQRIIIMYYNDTIVERIINPPGVLDVWATLNPGTGSGVYYLGWVLFPIYGGVIKGTSLWNNQANKYFIPQMVAALCSQNQATQVQNAKSSYYSSWFGNRMIQSGILACPLRQDLTNECLVLPFSNDQVLMGAEGRLYMYGDSVYYYQRSNSWWPMTMLYKVTITFTNGQPSAISAQNVPTQQVPRPGTGDCSATNRCPGFCLTGVYADAWLLTNPSSTSTFGSEATFTGSYLNTATQRINPTMYIANNTQIISSQQFGSSGQEAAYGHTTCFRDTGSVMVYCIYIIELSSSLLGQFQIVPFIRQVTLS 565
                                   127       137       147       157       167       177        |-   |   197       207       217       227       237       247       257       267       277       287       297       307       317       327       337       347       357       367       377       387       397       407       417       427       437       447       457       467       477       487       497       507       517       527       537       547       557        
                                                                                              186  191

Legend:		→ Mismatch	(orange background)
	-	→ Gap	(green background, '-', border residues have a numbering label)
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	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 1Z4V)

(no "CATH Domain" information available for 1Z4V)

(no "Pfam Domain" information available for 1Z4V)

Asymmetric Unit(hide GO term definitions)

Chain A (HN_PIV5 | P04850)

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:0046789	host cell surface receptor binding	Interacting selectively and non-covalently with a receptor on the host cell surface.
	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.
biological process
	GO:0046761	viral budding from plasma membrane	A viral budding that starts with formation of a membrane curvature in the host plasma membrane.
	GO:0046718	viral entry into host cell	The process that occurs after viral attachment by which a virus, or viral nucleic acid, breaches the plasma membrane or cell envelope and enters the host cell. The process ends when the viral nucleic acid is released into the host cell cytoplasm.
	GO:0019058	viral life cycle	A set of processes which all viruses follow to ensure survival; includes attachment and entry of the virus particle, decoding of genome information, translation of viral mRNA by host ribosomes, genome replication, and assembly and release of viral particles containing the genome.
	GO:0016032	viral process	A multi-organism process in which a virus is a participant. The other participant is the host. Includes infection of a host cell, replication of the viral genome, and assembly of progeny virus particles. In some cases the viral genetic material may integrate into the host genome and only subsequently, under particular circumstances, 'complete' its life cycle.
	GO:0019062	virion attachment to host cell	The process by which a virion protein binds to molecules on the host cellular surface or host cell surface projection.
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:0019031	viral envelope	The lipid bilayer of a virion that surrounds the protein capsid. May also contain glycoproteins.
	GO:0019012	virion	The complete fully infectious extracellular virus particle.
	GO:0055036	virion membrane	The lipid bilayer surrounding a virion.

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	HN_PIV5 \| P04850	:	1z4w 1z4x 1z4y 1z4z 1z50 3tsi 4jf7

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (4, 7)

Sites (7, 7)

SS Bonds (6, 6)

Cis Peptide Bonds (0, 0)

Sequence-Structure Mapping

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