1LCS - JenaLib

Asymmetric Unit (5, 12)

No.	Name	Count	Type	Full Name
1	BMA	1	Ligand/Ion	BETA-D-MANNOSE
2	MAN	1	Ligand/Ion	ALPHA-D-MANNOSE
3	NAG	8	Ligand/Ion	N-ACETYL-D-GLUCOSAMINE
4	NDG	1	Ligand/Ion	2-(ACETYLAMINO)-2-DEOXY-A-D-GLUCOPYRANOSE
5	TOE	1	Ligand/Ion	2-[2-(2-METHOXY-ETHOXY)-ETHOXY]-ETHOXYL

Biological Unit 1 (2, 5)

No.	Name	Count	Type	Full Name
1	BMA	-1	Ligand/Ion	BETA-D-MANNOSE
2	MAN	-1	Ligand/Ion	ALPHA-D-MANNOSE
3	NAG	4	Ligand/Ion	N-ACETYL-D-GLUCOSAMINE
4	NDG	-1	Ligand/Ion	2-(ACETYLAMINO)-2-DEOXY-A-D-GLUCOPYRANOSE
5	TOE	1	Ligand/Ion	2-[2-(2-METHOXY-ETHOXY)-ETHOXY]-ETHOXYL

Biological Unit 2 (4, 7)

No.	Name	Count	Type	Full Name
1	BMA	1	Ligand/Ion	BETA-D-MANNOSE
2	MAN	1	Ligand/Ion	ALPHA-D-MANNOSE
3	NAG	4	Ligand/Ion	N-ACETYL-D-GLUCOSAMINE
4	NDG	1	Ligand/Ion	2-(ACETYLAMINO)-2-DEOXY-A-D-GLUCOPYRANOSE
5	TOE	-1	Ligand/Ion	2-[2-(2-METHOXY-ETHOXY)-ETHOXY]-ETHOXYL

Biological Unit 3 (4, 14)

No.	Name	Count	Type	Full Name
1	BMA	2	Ligand/Ion	BETA-D-MANNOSE
2	MAN	2	Ligand/Ion	ALPHA-D-MANNOSE
3	NAG	8	Ligand/Ion	N-ACETYL-D-GLUCOSAMINE
4	NDG	2	Ligand/Ion	2-(ACETYLAMINO)-2-DEOXY-A-D-GLUCOPYRANOSE
5	TOE	-1	Ligand/Ion	2-[2-(2-METHOXY-ETHOXY)-ETHOXY]-ETHOXYL

Biological Unit 4 (4, 7)

No.	Name	Count	Type	Full Name
1	BMA	1	Ligand/Ion	BETA-D-MANNOSE
2	MAN	1	Ligand/Ion	ALPHA-D-MANNOSE
3	NAG	4	Ligand/Ion	N-ACETYL-D-GLUCOSAMINE
4	NDG	1	Ligand/Ion	2-(ACETYLAMINO)-2-DEOXY-A-D-GLUCOPYRANOSE
5	TOE	-1	Ligand/Ion	2-[2-(2-METHOXY-ETHOXY)-ETHOXY]-ETHOXYL

Sites (12, 12)

Asymmetric Unit (12, 12)

No.	Name	Evidence	Residues	Description
01	AC1	SOFTWARE	ASN A:9 , THR A:11 , NAG A:402 , HOH A:574	BINDING SITE FOR RESIDUE NAG A 401
02	AC2	SOFTWARE	NAG A:401	BINDING SITE FOR RESIDUE NAG A 402
03	AC3	SOFTWARE	ASN A:24 , ALA A:25 , THR A:26 , TYR A:40 , PHE A:41 , NAG A:502 , HOH A:513 , HOH A:515	BINDING SITE FOR RESIDUE NAG A 501
04	AC4	SOFTWARE	NAG A:501	BINDING SITE FOR RESIDUE NAG A 502
05	AC5	SOFTWARE	ASN B:9 , THR B:207 , NAG B:602 , HOH B:755	BINDING SITE FOR RESIDUE NAG B 601
06	AC6	SOFTWARE	NAG B:601	BINDING SITE FOR RESIDUE NAG B 602
07	AC7	SOFTWARE	ASN B:24 , THR B:26 , TYR B:40 , PHE B:41 , NAG B:702 , HOH B:737 , HOH B:738	BINDING SITE FOR RESIDUE NAG B 701
08	AC8	SOFTWARE	TYR B:40 , NAG B:701 , MAN B:703	BINDING SITE FOR RESIDUE NAG B 702
09	AC9	SOFTWARE	TYR B:40 , NAG B:702 , BMA B:704 , NDG B:705	BINDING SITE FOR RESIDUE MAN B 703
10	BC1	SOFTWARE	TYR B:40 , LYS B:123 , MAN B:703 , NDG B:705	BINDING SITE FOR RESIDUE BMA B 704
11	BC2	SOFTWARE	MAN B:703 , BMA B:704	BINDING SITE FOR RESIDUE NDG B 705
12	BC3	SOFTWARE	ALA A:85 , GLN A:89	BINDING SITE FOR RESIDUE TOE A 219

SS Bonds (10, 10)

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)
	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:205
 aligned with ENV_FLVLB | P11261 from UniProtKB/Swiss-Prot  Length:662

    Alignment length:205
                                    47        57        67        77        87        97       107       117       127       137       147       157       167       177       187       197       207       217       227       237     
            ENV_FLVLB    38 PHQIYNVTWTITNLVTGTKANATSMLGTLTDAFPTMYFDLCDIIGNTWNPSDQEPFPGYGCDQPMRRWQQRNTPFYVCPGHANRKQCGGPQDGFCAVWGCETTGETYWRPTSSWDYITVKKGVTQGIYQCSGGGWCGPCYDKAVHSSITGASEGGRCNPLILQFTQKGRQTSWDGPKSWGLRLYRSGYDPIALFSVSRQVMTITL 242
               SCOP domains d1lcsa_ A: FLV receptor-binding domain                                                                                                                                                                        SCOP domains
               CATH domains 1lcsA00 A:4-208 Viral Glycoprotein Gp70                                                                                                                                                                       CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....eeeeeeeee.....eeeeeeeee........eeee.hhh...................hhhhhhhhhh..eeeee....hhhhhhhhhh.........eee...........eeeee......ee.....ee...............hhhhh..eeeeeehhhhhhh.....eeeeeee.......eeeeeeeeeee.... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1lcs A   4 PHQVYNVTWTITNLVTGTKANATSMLGTLTDAFPTMYFDLCDIIGNTWNPSDQEPFPGYGCDQPMRRWQQRNTPFYVCPGHANRKQCGGPQDGFCAVWGCETTGETYWRPTSSWDYITVKKGVTQGIYQCSGGGWCGPCYDKAVHSSTTGASEGGRCNPLILQFTQKGRQTSWDGPKSWGLRLYRSGYDPIALFSVSRQVMTITP 208
                                    13        23        33        43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203

Chain B from PDB  Type:PROTEIN  Length:205
 aligned with ENV_FLVLB | P11261 from UniProtKB/Swiss-Prot  Length:662

    Alignment length:205
                                    47        57        67        77        87        97       107       117       127       137       147       157       167       177       187       197       207       217       227       237     
            ENV_FLVLB    38 PHQIYNVTWTITNLVTGTKANATSMLGTLTDAFPTMYFDLCDIIGNTWNPSDQEPFPGYGCDQPMRRWQQRNTPFYVCPGHANRKQCGGPQDGFCAVWGCETTGETYWRPTSSWDYITVKKGVTQGIYQCSGGGWCGPCYDKAVHSSITGASEGGRCNPLILQFTQKGRQTSWDGPKSWGLRLYRSGYDPIALFSVSRQVMTITL 242
               SCOP domains d1lcsb_ B: FLV receptor-binding domain                                                                                                                                                                        SCOP domains
               CATH domains 1lcsB00 B:4-208 Viral Glycoprotein Gp70                                                                                                                                                                       CATH domains
           Pfam domains (1) TLV_coat-1lcsB01 B:4-208                                                                                                                                                                                      Pfam domains (1)
           Pfam domains (2) TLV_coat-1lcsB02 B:4-208                                                                                                                                                                                      Pfam domains (2)
         Sec.struct. author ....eeeeeeeee.....eeeeeeeee........eeee.hhh...................hhhhhhhhhh..eeeee.........hhhhh.........eee...........eeeee......ee.....ee...............hhhhh..eeeeee.hhhhh......eeeeeee.......eeeeeeeeeee.... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1lcs B   4 PHQVYNVTWTITNLVTGTKANATSMLGTLTDAFPTMYFDLCDIIGNTWNPSDQEPFPGYGCDQPMRRWQQRNTPFYVCPGHANRKQCGGPQDGFCAVWGCETTGETYWRPTSSWDYITVKKGVTQGIYQCSGGGWCGPCYDKAVHSSTTGASEGGRCNPLILQFTQKGRQTSWDGPKSWGLRLYRSGYDPIALFSVSRQVMTITP 208
                                    13        23        33        43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203

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, 2)

CATH Domains (1, 2)

Pfam Domains (1, 2)

Gene Ontology (15, 15)

Asymmetric Unit(hide GO term definitions)

Chain A,B (ENV_FLVLB | P11261)

molecular function
	GO:0005198	structural molecule activity	The action of a molecule that contributes to the structural integrity of a complex or its assembly within or outside a cell.
biological process
	GO:0019064	fusion of virus membrane with host plasma membrane	Fusion of a viral membrane with the host cell membrane during viral entry. Results in release of the virion contents into the cytoplasm.
	GO:0039663	membrane fusion involved in viral entry into host cell	Merging of the virion membrane and a host membrane (host plasma membrane or host organelle membrane) that is involved in the uptake of a virus into a host cell.
	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:0019028	viral capsid	The protein coat that surrounds the infective nucleic acid in some virus particles. It comprises numerous regularly arranged subunits, or capsomeres.
	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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	1lcs
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Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (5, 12)