1XDF - JenaLib

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Title :   CRYSTAL STRUCTURE OF PATHOGENESIS-RELATED PROTEIN LLPR-10.2A FROM YELLOW LUPINE

Authors :   O. Pasternak, J. Biesiadka, R. Dolot, L. Handschuh, G. Bujacz, M. M. Sik M. Jaskolski

Date :   06 Sep 04 (Deposition) - 15 Feb 05 (Release) - 13 Jul 11 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.90

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

Keywords :   7-Stranded Antiparallel Beta-Sheet, Kinked C-Terminal Alpha-Helix, Glycine-Rich Loop, Plant Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   O. Pasternak, J. Biesiadka, R. Dolot, L. Handschuh, G. Bujacz, M. M. Sikorski, M. Jaskolski
Structure Of A Yellow Lupin Pathogenesis-Related Pr-10 Protein Belonging To A Novel Subclass.
Acta Crystallogr. , Sect. D V. 61 99 2005
PubMed-ID: 15608381 | Reference-DOI: 10.1107/S0907444904028173
(for further references see the PDB file header)

Molecule 1 - PR10.2A
	Chains	:	A, B
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI BL21
	Expression System Plasmid	:	PET-3A
	Expression System Strain	:	BL21
	Expression System Taxid	:	511693
	Expression System Vector Type	:	PLASMID
	Gene	:	LLPR-10.2A
	Organism Common	:	YELLOW LUPINE
	Organism Scientific	:	LUPINUS LUTEUS
	Organism Taxid	:	3873
	Synonym	:	LLPR-10.2A

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

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (2, 2)

No.	Name	Count	Type	Full Name
1	EPE	1	Ligand/Ion	4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID
2	NA	1	Ligand/Ion	SODIUM ION

Biological Unit 1 (1, 1)

No.	Name	Count	Type	Full Name
1	EPE	1	Ligand/Ion	4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID
2	NA	-1	Ligand/Ion	SODIUM ION

Biological Unit 2 (0, 0)

No.	Name	Count	Type	Full Name
1	EPE	-1	Ligand/Ion	4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID
2	NA	-1	Ligand/Ion	SODIUM ION

Asymmetric Unit (2, 2)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	PRO A:31 , VAL A:34 , GLU A:35 , ILE A:37 , HOH A:473	BINDING SITE FOR RESIDUE NA A 401
2	AC2	SOFTWARE	ASN A:77 , ARG A:79 , LYS A:102	BINDING SITE FOR RESIDUE EPE A 301

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

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

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

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

(no "Exon" information available for 1XDF)

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
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Chain A from PDB  Type:PROTEIN  Length:157
 aligned with Q9LLQ3_LUPLU | Q9LLQ3 from UniProtKB/TrEMBL  Length:158

    Alignment length:157
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       
         Q9LLQ3_LUPLU     2 GVFTFEDESTSTIAPARLYKALVKDADAIIPKAVEAIQSIETVEGNGGPGTIKKLTLIEGGETKYVLHKIEAVDEANLRYNYSIVGGVGLPDTIEKISFETKLVEGANGGSIGKVTIKIETKGDAQPNEEEGKAAKARGDAFFKAIENYLSAHPEYN 158
               SCOP domains d1xdfa1 A:1-157 Plant pathogenesis-related protein PR10                                                                                                       SCOP domains
               CATH domains 1xdfA00 A:1-157  [code=3.30.530.20, no name defined]                                                                                                          CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeeeeee..hhhhhhhhhhhhhhhhhhhhh..eeeeeeee.......eeeeeeee..eeeeeeeeeeeeehhh.eeeeeee........eeeeeeeeeeee.....eeeeeeeeeee......hhhhhhhhhhhhhh.hhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1xdf A   1 GVFTFEDESTSTIAPARLYKALVKDADAIIPKAVEAIQSIETVEGNGGPGTIKKLTLIEGGETKYVLHKIEAVDEANLRYNYSIVGGVGLPDTIEKISFETKLVEGANGGSIGKVTIKIETKGDAQPNEEEGKAAKARGDAFFKAIENYLSAHPEYN 157
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150

Chain B from PDB  Type:PROTEIN  Length:157
 aligned with Q9LLQ3_LUPLU | Q9LLQ3 from UniProtKB/TrEMBL  Length:158

    Alignment length:157
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       
         Q9LLQ3_LUPLU     2 GVFTFEDESTSTIAPARLYKALVKDADAIIPKAVEAIQSIETVEGNGGPGTIKKLTLIEGGETKYVLHKIEAVDEANLRYNYSIVGGVGLPDTIEKISFETKLVEGANGGSIGKVTIKIETKGDAQPNEEEGKAAKARGDAFFKAIENYLSAHPEYN 158
               SCOP domains d1xdfb_ B: Plant pathogenesis-related protein PR10                                                                                                            SCOP domains
               CATH domains 1xdfB00 B:1-157  [code=3.30.530.20, no name defined]                                                                                                          CATH domains
           Pfam domains (1) Bet_v_1-1xdfB01 B:1-153                                                                                                                                  ---- Pfam domains (1)
           Pfam domains (2) Bet_v_1-1xdfB02 B:1-153                                                                                                                                  ---- Pfam domains (2)
         Sec.struct. author .eeeeeeeeee..hhhhhhhhhhhhhhhhhhhhh..eeeeeeee.......eeeeeee....eeeeeeeeeeeehhh.eeeeee.........eeeeeeeeeeee.....eeeeeeeeeee.......hhhhhhhhhhhh..hhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1xdf B   1 GVFTFEDESTSTIAPARLYKALVKDADAIIPKAVEAIQSIETVEGNGGPGTIKKLTLIEGGETKYVLHKIEAVDEANLRYNYSIVGGVGLPDTIEKISFETKLVEGANGGSIGKVTIKIETKGDAQPNEEEGKAAKARGDAFFKAIENYLSAHPEYN 157
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150

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: Alpha and beta proteins (a+b) (23004)

Fold: TBP-like (289)

Superfamily: Bet v1-like (158)

Family: Pathogenesis-related protein 10 (PR10)-like (38)

Protein domain: Plant pathogenesis-related protein PR10 (4)

Yellow lupine (Lupinus luteus) [TaxId: 3873] (3)

1a	d1xdfa1	A:1-157
1b	d1xdfb_	B:

Asymmetric Unit

Classes(

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Architectures( (-)

)

Topologies( (-)

)

Homologous Superfamilies( (-)

)

Organisms( (-)

)

Class: Alpha Beta (26913)

Architecture: 2-Layer Sandwich (8480)

Topology: Alpha-D-Glucose-1,6-Bisphosphate; Chain A, domain 4 (47)

Homologous Superfamily: [code=3.30.530.20, no name defined] (47)

Yellow lupine (Lupinus luteus) (4)

1a	1xdfA00	A:1-157
1b	1xdfB00	B:1-157

Asymmetric Unit

Clans(

)

Families(

)

Organisms( (-)

)

Clan: Bet_V_1_like (93)

Family: Bet_v_1 (12)

Lupinus luteus (European yellow lupin) (2)

1a	Bet_v_1-1xdfB01	B:1-153
1b	Bet_v_1-1xdfB02	B:1-153

Asymmetric Unit(hide GO term definitions)

Chain A,B (Q9LLQ3_LUPLU | Q9LLQ3)

biological process
	GO:0006952		defense response		Reactions, triggered in response to the presence of a foreign body or the occurrence of an injury, which result in restriction of damage to the organism attacked or prevention/recovery from the infection caused by the attack.
	GO:0009607		response to biotic stimulus		Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a biotic stimulus, a stimulus caused or produced by a living organism.

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1bv1	MAJOR POLLEN ALLERGEN BETV 1, X-RAY STRUCTURE.
1fm4	MAJOR POLLEN ALLERGEN BETV 1-L IN COMPLEX WITH DEOXYCHOLIC ACID.
1icx	PATHOGENESIS-RELATED PROTEIN LLPR10.1A FROM YELLOW LUPINE.
1ifv	PATHOGENESIS-RELATED PROTEIN LLPR10.1B FROM YELLOW LUPINE.

Description

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Ligands, Modified Residues, Ions (2, 2)

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