1Y2V - JenaLib

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Title :   CRYSTAL STRUCTURE OF THE COMMON EDIBLE MUSHROOM (AGARICUS BISPORUS) LECTIN IN COMPLEX WITH T-ANTIGEN

Authors :   M. E. Carrizo, S. Capaldi, M. Perduca, F. J. Irazoqui, G. A. Nores, H. L. M

Date :   23 Nov 04 (Deposition) - 21 Dec 04 (Release) - 13 Jul 11 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.90

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

Keywords :   Abl, Agaricus Bisporus, Lectin, Mushroom, T-Antigen, Sugar Binding Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   M. E. Carrizo, S. Capaldi, M. Perduca, F. J. Irazoqui, G. A. Nores, H. L. Monaco
The Antineoplastic Lectin Of The Common Edible Mushroom (Agaricus Bisporus) Has Two Binding Sites, Each Specific Fo A Different Configuration At A Single Epimeric Hydroxyl
J. Biol. Chem. V. 280 10614 2005
PubMed-ID: 15596442 | Reference-DOI: 10.1074/JBC.M411989200
(for further references see the PDB file header)

Molecule 1 - LECTIN
	Chains	:	A, B
	Organism Scientific	:	AGARICUS BISPORUS
	Organism Taxid	:	5341

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

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (3, 6)

No.	Name	Count	Type	Full Name
1	GAL	2	Ligand/Ion	BETA-D-GALACTOSE
2	NGA	2	Ligand/Ion	N-ACETYL-D-GALACTOSAMINE
3	SER	2	Mod. Amino Acid	SERINE

Biological Unit 1 (3, 12)

No.	Name	Count	Type	Full Name
1	GAL	4	Ligand/Ion	BETA-D-GALACTOSE
2	NGA	4	Ligand/Ion	N-ACETYL-D-GALACTOSAMINE
3	SER	4	Mod. Amino Acid	SERINE

Asymmetric Unit (6, 6)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	TYR A:28 , SER A:48 , GLY A:49 , HIS A:72 , ASN A:73 , TYR A:74 , ARG A:107 , GAL A:145 , SER A:146 , HOH A:148	BINDING SITE FOR RESIDUE NGA A 144
2	AC2	SOFTWARE	TYR A:28 , ALA A:29 , SER A:48 , NGA A:144 , HOH A:183	BINDING SITE FOR RESIDUE GAL A 145
3	AC3	SOFTWARE	TYR B:28 , SER B:48 , GLY B:49 , HIS B:72 , ASN B:73 , TYR B:74 , ARG B:107 , GAL B:145 , SER B:146 , HOH B:186	BINDING SITE FOR RESIDUE NGA B 144
4	AC4	SOFTWARE	TYR B:28 , ALA B:29 , SER B:48 , NGA B:144 , HOH B:189	BINDING SITE FOR RESIDUE GAL B 145
5	AC5	SOFTWARE	ASN A:73 , NGA A:144	BINDING SITE FOR RESIDUE SER A 146
6	AC6	SOFTWARE	ASN B:73 , NGA B:144	BINDING SITE FOR RESIDUE SER B 146

(no "SS Bond" information available for 1Y2V)

(no "Cis Peptide Bond" information available for 1Y2V)

(no "SAP(SNP)/Variant" information available for 1Y2V)

(no "PROSITE Motif" information available for 1Y2V)

(no "Exon" information available for 1Y2V)

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:142
 aligned with ABL_AGABI | Q00022 from UniProtKB/Swiss-Prot  Length:143

    Alignment length:142
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141  
            ABL_AGABI     2 TYTISIRVYQTTPKGFFRPVERTNWKYANGGTWDEVRGEYVLTMGGSGTSGSLRFVSSDTDESFVATFGVHNYKRWCDIVTNLTNEQTALVINQEYYGVPIRDQARENQLTSYNVANAKGRRFAIEYTVTEGDNLKANLIIG 143
               SCOP domains d1y2va_ A: TF antigen-binding lectin                                                                                                           SCOP domains
               CATH domains 1y2vA00 A:2-143  [code=2.60.270.20, no name defined]                                                                                           CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeeeee.......eeeeeee......eeeeee..eeeeee.....eeeeeeee....eeeeeeeeee..eeeeeeee......hhhhhhhhh..hhhhhhhhhh...eeeee.....eeeeeeee....eeeeeeee. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1y2v A   2 TYTISIRVYQTTPKGFFRPVERTNWKYANGGTWDEVRGEYVLTMGGSGTSGSLRFVSSDTDESFVATFGVHNYKRWCDIVTNLTNEQTALVINQEYYGVPIRDQARENQLTSYNVANAKGRRFAIEYTVTEGDNLKANLIIG 143
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141

Chain B from PDB  Type:PROTEIN  Length:142
 aligned with ABL_AGABI | Q00022 from UniProtKB/Swiss-Prot  Length:143

    Alignment length:142
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141  
            ABL_AGABI     2 TYTISIRVYQTTPKGFFRPVERTNWKYANGGTWDEVRGEYVLTMGGSGTSGSLRFVSSDTDESFVATFGVHNYKRWCDIVTNLTNEQTALVINQEYYGVPIRDQARENQLTSYNVANAKGRRFAIEYTVTEGDNLKANLIIG 143
               SCOP domains d1y2vb_ B: TF antigen-binding lectin                                                                                                           SCOP domains
               CATH domains 1y2vB00 B:2-143  [code=2.60.270.20, no name defined]                                                                                           CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeeeee.......eeeeeee......eeeeee..eeeeee.....eeeeeeee....eeeeeeeeee..eeeeeeee......hhhhhhhhh..hhhhhhhhhh...eeeee.....eeeeeeee....eeeeeeee. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1y2v B   2 TYTISIRVYQTTPKGFFRPVERTNWKYANGGTWDEVRGEYVLTMGGSGTSGSLRFVSSDTDESFVATFGVHNYKRWCDIVTNLTNEQTALVINQEYYGVPIRDQARENQLTSYNVANAKGRRFAIEYTVTEGDNLKANLIIG 143
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141

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 Unit

Classes(

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Folds(

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Superfamilies( (-)

)

Families(

)

Protein Domains( (-)

)

Organisms( (-)

)

Class: All beta proteins (24004)

Fold: Cytolysin/lectin (26)

Superfamily: Cytolysin/lectin (26)

Family: Fungal fruit body lectin (17)

Protein domain: TF antigen-binding lectin (5)

Common mushroom (Agaricus bisporus) [TaxId: 5341] (5)

1a	d1y2va_	A:
1b	d1y2vb_	B:

Asymmetric Unit

Classes(

)

Architectures( (-)

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Topologies( (-)

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Homologous Superfamilies( (-)

)

Organisms( (-)

)

Class: Mainly Beta (13760)

Architecture: Sandwich (5577)

Topology: Mutm (Fpg) Protein; Chain: A, domain 2 (18)

Homologous Superfamily: [code=2.60.270.20, no name defined] (18)

Agaricus bisporus. Organism_taxid: 5341 (5)

1a	1y2vA00	A:2-143
1b	1y2vB00	B:2-143

(no "Pfam Domain" information available for 1Y2V)

Asymmetric Unit(hide GO term definitions)

Chain A,B (ABL_AGABI | Q00022)

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.

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	Cis Peptide Bonds
(no "Cis Peptide Bonds" information available for 1y2v)

Biological Unit
	Complete Structure
		Biological Unit 1	[ Jena3D ]

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	1y2v
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UniProtKB/Swiss-Prot
	ABL_AGABI \| Q00022	:	1y2t 1y2u 1y2w 1y2x

1y2t	THE SAME PROTEIN
1y2u	THE SAME PROTEIN IN COMPLEX WITH LACTO-N-BIOSE
1y2w	THE SAME PROTEIN IN COMPLEX WITH T-ANTIGEN AND N- ACETYLGLUCOSAMINE, ORTHORHOMBIC FORM
1y2x	THE SAME PROTEIN IN COMPLEX WITH T-ANTIGEN AND N- ACETYLGLUCOSAMINE, TETRAGONAL FORM

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (3, 6)

Sites (6, 6)

SS Bonds (0, 0)

Cis Peptide Bonds (0, 0)

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