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NMR Structure - model 1

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Description

Title :   SOLUTION STRUCTURE OF THE BIRCH POLLEN ALLERGEN BET V 4

Authors :   P. Neudecker, J. Nerkamp, A. Eisenmann, T. Lauber, K. Lehmann, K. Schweimer, P. Roesch

Date :   26 Feb 03 (Deposition) - 26 Feb 04 (Release) - 24 Feb 09 (Revision)

Method :   SOLUTION NMR

Resolution :   NOT APPLICABLE

Chains :   NMR Structure  : A  (25x)

Keywords :   Allergen, Birch Pollen Allergen, Calcium-Binding Polcalcin, Heteronuclear Nmr, Structure (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   P. Neudecker, J. Nerkamp, A. Eisenmann, A. Nourse, T. Lauber, K. Schweimer, K. Lehmann, S. Schwarzinger, F. Ferreira, P. Roesch
Solution Structure, Dynamics, And Hydrodynamics Of The Calcium-Bound Cross-Reactive Birch Pollen Allergen Bet V 4 Reveal A Canonical Monomeric Two Ef-Hand Assembly With A Regulatory Function
J. Mol. Biol. V. 336 1141 2004
PubMed-ID: 15037075 | Reference-DOI: 10.1016/J.JMB.2003.12.070

Compounds

Molecule 1 - POLCALCIN BET V 4
	Chains	:	A
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PMW175
	Expression System Strain	:	BL21(DE3)
	Expression System Taxid	:	469008
	Organism Common	:	WHITE BIRCH
	Organism Scientific	:	BETULA VERRUCOSA
	Organism Taxid	:	3505
	Synonym	:	CALCIUM-BINDING POLLEN ALLERGEN BET V 4

Structural Features

Chains, Units


NMR Structure (25x)	:

Summary Information (see also Sequences/Alignments below)

Ligands, Modified Residues, Ions (1, 2)

NMR Structure (1, 2)

No.	Name	Count	Type	Full Name
1	CA	2	Ligand/Ion	CALCIUM ION

Sites (2, 2)

NMR Structure (2, 2)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	ASP A:19 , ASN A:21 , ASP A:23 , LYS A:25 , GLU A:30	BINDING SITE FOR RESIDUE CA A1085
2	AC2	SOFTWARE	ASP A:54 , ASP A:56 , ASP A:58 , PHE A:60 , GLU A:65	BINDING SITE FOR RESIDUE CA A1086

SS Bonds (0, 0)

(no "SS Bond" information available for 1H4B)

Cis Peptide Bonds (0, 0)

(no "Cis Peptide Bond" information available for 1H4B)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

(no "SAP(SNP)/Variant" information available for 1H4B)

PROSITE Motifs (2, 4)

NMR Structure (2, 4)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	EF_HAND_2	PS50222	EF-hand calcium-binding domain profile.	POLC4_BETPN	7-42 45-77	2	A:6-41 A:44-76
2	EF_HAND_1	PS00018	EF-hand calcium-binding domain.	POLC4_BETPN	20-32 55-67	2	A:19-31 A:54-66

Exons (0, 0)

(no "Exon" information available for 1H4B)

Sequences/Alignments

NMR Structure

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:84
 aligned with POLC4_BETPN | Q39419 from UniProtKB/Swiss-Prot  Length:85

    Alignment length:84
                                    11        21        31        41        51        61        71        81    
           POLC4_BETPN    2 ADDHPQDKAERERIFKRFDANGDGKISAAELGEALKTLGSITPDEVKHMMAEIDTDGDGFISFQEFTDFGRANRGLLKDVAKIF 85
               SCOP domains d1h4ba_ A: Polcalcin bet v 4                                                         SCOP domains
               CATH domains 1h4bA00 A:1-84 EF-hand                                                               CATH domains
               Pfam domains ------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ....hhhhhhhhhhhhhh......eeehhhhhhhhhhh....hhhhhhhhhhh......eeehhhhhhhhhh.hhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------ SAPs(SNPs)
                PROSITE (1) -----EF_HAND_2  PDB: A:6-41 UniProt: 7-42--EF_HAND_2  PDB: A:44-76          -------- PROSITE (1)
                PROSITE (2) ------------------EF_HAND_1    ----------------------EF_HAND_1    ------------------ PROSITE (2)
                 Transcript ------------------------------------------------------------------------------------ Transcript
                  1h4b A  1 ADDHPQDKAERERIFKRFDANGDGKISAAELGEALKTLGSITPDEVKHMMAEIDTDGDGFISFQEFTDFGRANRGLLKDVAKIF 84
                                    10        20        30        40        50        60        70        80

Legend:		→ Mismatch	(orange background)
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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 '\|'

Classification and Annotation

SCOP Domains (1, 1)

NMR Structure

Classes(

)

Folds(

)

Superfamilies( (-)

)

Families(

)

Protein Domains( (-)

)

Organisms( (-)

)

Class: All alpha proteins (14657)

Fold: EF Hand-like (739)

Superfamily: EF-hand (657)

Family: Polcalcin (6)

Protein domain: Polcalcin bet v 4 (1)

White birch (Betula verrucosa) [TaxId: 3505] (1)

d1h4ba_

CATH Domains (1, 1)

NMR Structure

Classes(

)

Architectures( (-)

)

Topologies( (-)

)

Homologous Superfamilies( (-)

)

Organisms( (-)

)

Class: Mainly Alpha (13335)

Architecture: Orthogonal Bundle (10391)

Topology: Recoverin; domain 1 (474)

Homologous Superfamily: EF-hand (412)

White birch (Betula verrucosa) (1)

1h4bA00

A:1-84

Pfam Domains (0, 0)

(no "Pfam Domain" information available for 1H4B)

Gene Ontology (2, 2)

NMR Structure(hide GO term definitions)

Chain A (POLC4_BETPN | Q39419)

molecular function
	GO:0005509		calcium ion binding		Interacting selectively and non-covalently with calcium ions (Ca2+).
	GO:0046872		metal ion binding		Interacting selectively and non-covalently with any metal ion.

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Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (1, 2)

Sites (2, 2)

SS Bonds (0, 0)

Cis Peptide Bonds (0, 0)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

PROSITE Motifs (2, 4)

Exons (0, 0)

Sequences/Alignments

Classification and Annotation

SCOP Domains (1, 1)

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Gene Ontology (2, 2)

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