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NMR Structure - model 1 (Jmol Viewer)

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Description

Title :   SOLUTION STRUCTURE OF THE PORE FORMING TOXIN OF ENTAMOEBA HISTOLYTICA (AMOEBAPORE A)

Authors :   O. Hecht, K. Schleinkofer, H. Bruhn, M. Leippe, N. Van Nuland, A. J. Dingley, J. Grotzinger

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

Method :   SOLUTION NMR

Resolution :   NOT APPLICABLE

Chains :   NMR Structure  : A  (20x)

Keywords :   Pore Forming, Toxin, Saplip, Amoebapore A (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   O. Hecht, N. Van Nuland, K. Schleinkofer, A. J. Dingley, H. Bruhn, M. Leippe, J. Grotzinger
Solution Structure Of The Pore-Forming Protein Of Entamoeba Histolytica
J. Biol. Chem. V. 279 17834 2004
PubMed-ID: 14970207 | Reference-DOI: 10.1074/JBC.M312978200

Compounds

Molecule 1 - PORE-FORMING PEPTIDE AMEOBAPORE A
	Chains	:	A
	Organism Scientific	:	ENTAMOEBA HISTOLYTICA
	Organism Taxid	:	5759
	Synonym	:	AMOEBAPORE A, EH-APP

Structural Features

Chains, Units


NMR Structure (20x)	:

Summary Information (see also Sequences/Alignments below)

Ligands, Modified Residues, Ions (0, 0)

(no "Ligand,Modified Residues,Ions" information available for 1OF9)

Sites (0, 0)

(no "Site" information available for 1OF9)

SS Bonds (3, 3)

NMR Structure

No.	Residues
1	A:5	-	A:77
2	A:8	-	A:71
3	A:35	-	A:46

Cis Peptide Bonds (0, 0)

(no "Cis Peptide Bond" information available for 1OF9)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (1, 1)

NMR Structure (1, 1)

								dbSNP	PDB
No.	Source	Variant ID	Variant			UniProt ID	Status	ID	Chain	Variant
1	UniProt	VAR_PFPA_ENTHI_001 *	L	71	F	PFPA_ENTHI	---	---	A	L	50	F
	* ID not provided by source

SNP/SAP Summary Statistics (UniProtKB/Swiss-Prot)

PROSITE Motifs (1, 1)

NMR Structure (1, 1)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	SAP_B	PS50015	Saposin B type domain profile.	PFPA_ENTHI	22-98	1	A:1-77

Exons (0, 0)

(no "Exon" information available for 1OF9)

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:77
 aligned with PFPA_ENTHI | P34095 from UniProtKB/Swiss-Prot  Length:98

    Alignment length:77
                                    31        41        51        61        71        81        91       
            PFPA_ENTHI   22 GEILCNLCTGLINTLENLLTTKGADKVKDYISSLCNKASGFIATLCTKVLDFGIDKLIQLIEDKVDANAICAKIHAC 98
               SCOP domains d1of9a_ A: Ameobapore A                                                       SCOP domains
               CATH domains 1of9A00 A:1-77 NK-Lysin                                                       CATH domains
               Pfam domains -SapB_1-1of9A01 A:2-39                 ---SapB_2-1of9A02 A:43-77              Pfam domains
         Sec.struct. author ...hhhhhhhhhhhhhhhh....hhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------F--------------------------- SAPs(SNPs)
                    PROSITE SAP_B  PDB: A:1-77 UniProt: 22-98                                             PROSITE
                 Transcript ----------------------------------------------------------------------------- Transcript
                  1of9 A  1 GEILCNLCTGLINTLENLLTTKGADKVKDYISSLCNKASGFIATLCTKVLDFGIDKLIQLIEDKVDANAICAKIHAC 77
                                    10        20        30        40        50        60        70

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, 1)

NMR Structure

Classes(

)

Folds(

)

Superfamilies( (-)

)

Families(

)

Protein Domains( (-)

)

Organisms( (-)

)

Class: All alpha proteins (14657)

Fold: Saposin-like (21)

Superfamily: Saposin (17)

Family: Ameobapore A (1)

Protein domain: Ameobapore A (1)

Entamoeba (Entamoeba histolytica) [TaxId: 5759] (1)

d1of9a_

CATH Domains (1, 1)

NMR Structure

Classes(

)

Architectures( (-)

)

Topologies( (-)

)

Homologous Superfamilies( (-)

)

Organisms( (-)

)

Class: Mainly Alpha (13335)

Architecture: Orthogonal Bundle (10391)

Topology: NK-Lysin (9)

Homologous Superfamily: NK-Lysin (9)

Entamoeba histolytica. Organism_taxid: 5759 (1)

1of9A00

A:1-77

Pfam Domains (2, 2)

NMR Structure

Clans(

)

Families(

)

Organisms( (-)

)

Clan: no clan defined [family: SapB_1] (11)

Family: SapB_1 (11)

Entamoeba histolytica (1)

SapB_1-1of9A01

A:2-39

Clan: no clan defined [family: SapB_2] (17)

Family: SapB_2 (17)

Entamoeba histolytica (1)

SapB_2-1of9A02

A:43-77

Gene Ontology (1, 1)

NMR Structure(hide GO term definitions)

Chain A (PFPA_ENTHI | P34095)

biological process
	GO:0042742		defense response to bacterium		Reactions triggered in response to the presence of a bacterium that act to protect the cell or organism.

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Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (0, 0)

Sites (0, 0)

SS Bonds (3, 3)

Cis Peptide Bonds (0, 0)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (1, 1)

PROSITE Motifs (1, 1)

Exons (0, 0)

Sequences/Alignments

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Gene Ontology (1, 1)

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