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Asym./Biol. Unit (Jmol Viewer)

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Title :   HIGH RESOLUTION STRUCTURE OF MAL D 2, THE THAUMATIN LIKE FOOD ALLERGEN FROM APPLE

Authors :   J. Kopec, U. Smole, T. Pavkov, H. Breiteneder, W. Keller

Date :   22 Jun 11 (Deposition) - 11 Jul 12 (Release) - 11 Jul 12 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.80

Chains :   Asym./Biol. Unit : A

Keywords :   Allergen (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   J. Kopec, U. Smole, T. Pavkov, H. Breiteneder, W. Keller
High Resolution Structure Of Mal D 2, The Thaumatin Like Food Allergen From Apple
To Be Published
PubMed: search

Molecule 1 - THAUMATIN-LIKE PROTEIN
	Chains	:	A
	Organ	:	FRUIT
	Organism Common	:	CULTIVATED APPLE
	Organism Scientific	:	MALUS X DOMESTICA
	Organism Taxid	:	3750
	Synonym	:	MALD2

		1
Asymmetric/Biological Unit	:	A

Summary Information (see also Sequences/Alignments below)

Asymmetric/Biological Unit (4, 9)

No.	Name	Count	Type	Full Name
1	ACT	4	Ligand/Ion	ACETATE ION
2	ACY	1	Ligand/Ion	ACETIC ACID
3	FMT	3	Ligand/Ion	FORMIC ACID
4	SIN	1	Ligand/Ion	SUCCINIC ACID

Asymmetric Unit (9, 9)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	SER A:27 , LEU A:28 , THR A:29 , GLY A:30 , ALA A:78 , HOH A:2027 , HOH A:2033 , HOH A:2073	BINDING SITE FOR RESIDUE SIN A1223
2	AC2	SOFTWARE	GLU A:92 , THR A:94 , TYR A:103 , TYR A:104 , ASP A:105 , HOH A:2049 , HOH A:2079	BINDING SITE FOR RESIDUE ACT A1224
3	AC3	SOFTWARE	LYS A:167 , THR A:183 , GLU A:184 , HOH A:2119 , HOH A:2145	BINDING SITE FOR RESIDUE ACT A1225
4	AC4	SOFTWARE	PRO A:194 , GLN A:195 , ALA A:196 , ASN A:205 , PHE A:208 , HOH A:2129 , HOH A:2138	BINDING SITE FOR RESIDUE ACT A1226
5	AC5	SOFTWARE	THR A:55 , ARG A:56 , ASN A:113 , ILE A:154 , HOH A:2104	BINDING SITE FOR RESIDUE ACT A1227
6	AC6	SOFTWARE	LYS A:204 , ASN A:205 , SER A:206	BINDING SITE FOR RESIDUE FMT A1228
7	AC7	SOFTWARE	PRO A:24 , GLN A:25 , PRO A:44 , LYS A:138 , HOH A:2026 , HOH A:2030 , HOH A:2105	BINDING SITE FOR RESIDUE ACY A1229
8	AC8	SOFTWARE	LYS A:157 , ALA A:162 , HOH A:2113	BINDING SITE FOR RESIDUE FMT A1230
9	AC9	SOFTWARE	VAL A:77 , HOH A:2033 , HOH A:2034 , HOH A:2035 , HOH A:2072	BINDING SITE FOR RESIDUE FMT A1231

Asymmetric/Biological Unit

No.	Residues
1	A:9	-	A:221
2	A:57	-	A:67
3	A:72	-	A:79
4	A:127	-	A:210
5	A:132	-	A:193
6	A:140	-	A:156
7	A:160	-	A:169
8	A:170	-	A:180

Asymmetric/Biological Unit

No.	Residues
1	Ser A:45	-	Pro A:46
2	Pro A:86	-	Pro A:87
3	Pro A:172	-	Pro A:173

(no "SAP(SNP)/Variant" information available for 3ZS3)

Asymmetric/Biological Unit (1, 1)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	THAUMATIN_1	PS00316	Thaumatin family signature.	TP1A_MALDO	87-103	1	A:63-79

(no "Exon" information available for 3ZS3)

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
	(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:222
 aligned with Q3BCT8_MALDO | Q3BCT8 from UniProtKB/TrEMBL  Length:246

    Alignment length:222
                                    34        44        54        64        74        84        94       104       114       124       134       144       154       164       174       184       194       204       214       224       234       244  
         Q3BCT8_MALDO    25 AKITFTNNCPNTVWPGTLTGDQKPQLSLTGFELASKASRSVDAPSPWSGRFWGRTRCSTDAAGKFTCETADCGSGQVACNGAGAVPPATLVEITIAANGGQDYYDVSLVDGFNLPMSVAPQGGTGECKPSSCPANVNKVCPAPLQVKAADGSVISCKSACLAFGDSKYCCTPPNNTPETCPPTEYSEIFEKQCPQAYSYAYDDKNSTFTCSGGPDYVITFCP 246
               SCOP domains d3zs3a_ A: automated matches                                                                                                                                                                                                   SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .eeeeee......eeeeee..................eeeee....eeeeeeeeeeeee.....eeeee....................eeeeeehhhhh.eeeeee........eeeeee........eee..hhhhhhhhh.eee.....eeee.hhhhhhhhhhhhh.....hhhhh..hhhhhhhhhhh...............ee....eeeeee.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 3zs3 A   1 AKITFTNNCPNTVWPGTLTGDQKPQLSLTGFELASKASRSVDAPSPWSGRFWGRTRCSTDAAGKFTCETADCGSGQVACNGAGAVPPATLVEITIAANGGQDYYDVSLVDGFNLPMSVAPQGGTGECKPSSCPANVNKVCPAPLQVKAADGSVISCKSACLAFGDSKYCCTPPNNTPETCPPTEYSEIFEKQCPQAYSYAYDDKNSTFTCSGGPDYVITFCP 222
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220

Chain A from PDB  Type:PROTEIN  Length:222
 aligned with TP1A_MALDO | Q9FSG7 from UniProtKB/Swiss-Prot  Length:246

    Alignment length:222
                                    34        44        54        64        74        84        94       104       114       124       134       144       154       164       174       184       194       204       214       224       234       244  
           TP1A_MALDO    25 AKITFTNNCPNTVWPGTLTGDQKPQLSLTGFELASKASRSVDAPSPWSGRFWGRTRCSTDAAGKFTCETADCGSGQVACNGAGAVPPATLVEITIAANGGQDYYDVSLVDGFNLPMSVAPQGGTGECKPSSCPANVNKVCPAPLQVKAADGSVISCKSACLAFGDSKYCCTPPNNTPETCPPTEYSEIFEKQCPQAYSYAYDDKNSTFTCSGGPDYVITFCP 246
               SCOP domains d3zs3a_ A: automated matches                                                                                                                                                                                                   SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .eeeeee......eeeeee..................eeeee....eeeeeeeeeeeee.....eeeee....................eeeeeehhhhh.eeeeee........eeeeee........eee..hhhhhhhhh.eee.....eeee.hhhhhhhhhhhhh.....hhhhh..hhhhhhhhhhh...............ee....eeeeee.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE --------------------------------------------------------------THAUMATIN_1      ----------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 3zs3 A   1 AKITFTNNCPNTVWPGTLTGDQKPQLSLTGFELASKASRSVDAPSPWSGRFWGRTRCSTDAAGKFTCETADCGSGQVACNGAGAVPPATLVEITIAANGGQDYYDVSLVDGFNLPMSVAPQGGTGECKPSSCPANVNKVCPAPLQVKAADGSVISCKSACLAFGDSKYCCTPPNNTPETCPPTEYSEIFEKQCPQAYSYAYDDKNSTFTCSGGPDYVITFCP 222
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220

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

Classes(

)

Folds(

)

Superfamilies( (-)

)

Families(

)

Protein Domains( (-)

)

Organisms( (-)

)

Class: All beta proteins (24004)

Fold: Osmotin, thaumatin-like protein (82)

Superfamily: Osmotin, thaumatin-like protein (82)

Family: automated matches (2)

Protein domain: automated matches (2)

Malus x [TaxId: 3750] (1)

d3zs3a_

(no "CATH Domain" information available for 3ZS3)

(no "Pfam Domain" information available for 3ZS3)

Asymmetric/Biological Unit(hide GO term definitions)

Chain A (Q3BCT8_MALDO | Q3BCT8)

Chain A (TP1A_MALDO | Q9FSG7)

molecular function
	GO:0003674	molecular_function	Elemental activities, such as catalysis or binding, describing the actions of a gene product at the molecular level. A given gene product may exhibit one or more molecular functions.
biological process
	GO:0008150	biological_process	Any process specifically pertinent to the functioning of integrated living units: cells, tissues, organs, and organisms. A process is a collection of molecular events with a defined beginning and end.
cellular component
	GO:0005575	cellular_component	The part of a cell, extracellular environment or virus in which a gene product is located. A gene product may be located in one or more parts of a cell and its location may be as specific as a particular macromolecular complex, that is, a stable, persistent association of macromolecules that function together.
	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.

Asymmetric/Biological Unit
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	Ligands, Modified Residues, Ions
		ACT	[ RasMol \| Jena3D ]	+environment [ RasMol \| Jena3D ]
		ACY	[ RasMol \| Jena3D ]	+environment [ RasMol \| Jena3D ]
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	Cis Peptide Bonds
		Pro A:172 - Pro A:173	[ RasMol ]
		Pro A:86 - Pro A:87	[ RasMol ]
		Ser A:45 - Pro A:46	[ RasMol ]

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	3zs3
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	TP1A_MALDO \| Q9FSG7
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(no "Entries Sharing at Least One Protein Chain" available for 3ZS3)

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Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (4, 9)

Sites (9, 9)

SS Bonds (8, 8)

Cis Peptide Bonds (3, 3)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

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