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Biol. Unit 1 - sites (Jmol Viewer)

Biological Unit 2 (Jmol Viewer)

Title :   CRYSTAL STRUCTURE OF EBA-175 REGION II (RII)

Authors :   N. H. Tolia, E. J. Enemark, B. K. Sim, L. Joshua-Tor

Date :   19 May 05 (Deposition) - 09 Aug 05 (Release) - 13 Jul 11 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.30

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

Keywords :   Eba-175, Rii, Dbl, Erythrocyte, Invasion, Host, Malaria, Disease, Glycophorin, Glycan, Sialic Acid, Cell Invasion (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   N. H. Tolia, E. J. Enemark, B. K. Sim, L. Joshua-Tor
Structural Basis For The Eba-175 Erythrocyte Invasion Pathway Of The Malaria Parasite Plasmodium Falciparum.
Cell(Cambridge, Mass. ) V. 122 183 2005
PubMed-ID: 16051144 | Reference-DOI: 10.1016/J.CELL.2005.05.033

Molecule 1 - ERYTHROCYTE BINDING ANTIGEN REGION II
	Chains	:	A
	Engineered	:	YES
	Expression System	:	PICHIA PASTORIS
	Expression System Taxid	:	4922
	Mutation	:	YES
	Organism Common	:	MALARIA PARASITE P. FALCIPARUM
	Organism Scientific	:	PLASMODIUM FALCIPARUM
	Organism Taxid	:	5833
	Synonym	:	EBA-175 REGION II (RII)

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

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (2, 10)

No.	Name	Count	Type	Full Name
1	CL	1	Ligand/Ion	CHLORIDE ION
2	SO4	9	Ligand/Ion	SULFATE ION

Biological Unit 1 (1, 18)

No.	Name	Count	Type	Full Name
1	CL	-1	Ligand/Ion	CHLORIDE ION
2	SO4	18	Ligand/Ion	SULFATE ION

Biological Unit 2 (1, 9)

No.	Name	Count	Type	Full Name
1	CL	-1	Ligand/Ion	CHLORIDE ION
2	SO4	9	Ligand/Ion	SULFATE ION

Asymmetric Unit (10, 10)

No.	Name	Evidence	Residues	Description
01	AC1	SOFTWARE	LYS A:28 , ASN A:29 , ARG A:31 , ASN A:417 , ARG A:422 , HOH A:615 , HOH A:639 , HOH A:758	BINDING SITE FOR RESIDUE SO4 A 603
02	AC2	SOFTWARE	THR A:54 , TYR A:55 , THR A:56 , THR A:59 , HOH A:696 , HOH A:799	BINDING SITE FOR RESIDUE SO4 A 604
03	AC3	SOFTWARE	ARG A:407 , TRP A:450 , LYS A:454 , HOH A:703 , HOH A:891	BINDING SITE FOR RESIDUE SO4 A 605
04	AC4	SOFTWARE	VAL A:329 , TRP A:330 , TRP A:528 , LYS A:531 , LYS A:532	BINDING SITE FOR RESIDUE SO4 A 606
05	AC5	SOFTWARE	LYS A:53 , GLY A:111 , HOH A:682	BINDING SITE FOR RESIDUE SO4 A 607
06	AC6	SOFTWARE	ARG A:15 , ARG A:18 , GLN A:43 , HOH A:707 , HOH A:825 , HOH A:828	BINDING SITE FOR RESIDUE SO4 A 608
07	AC7	SOFTWARE	ASN A:438 , LYS A:439	BINDING SITE FOR RESIDUE SO4 A 609
08	AC8	SOFTWARE	TRP A:458 , LYS A:468 , CYS A:471 , LYS A:472 , GLU A:473 , HOH A:749 , HOH A:826	BINDING SITE FOR RESIDUE SO4 A 610
09	AC9	SOFTWARE	LYS A:27 , SER A:32 , ASN A:33 , TYR A:34 , HOH A:833	BINDING SITE FOR RESIDUE SO4 A 611
10	BC1	SOFTWARE	LYS A:150	BINDING SITE FOR RESIDUE CL A 612

Asymmetric Unit

No.	Residues
1	A:14	-	A:45
2	A:25	-	A:36
3	A:88	-	A:166
4	A:202	-	A:215
5	A:211	-	A:283
6	A:219	-	A:281
7	A:318	-	A:353
8	A:332	-	A:344
9	A:396	-	A:471
10	A:494	-	A:574
11	A:508	-	A:518
12	A:522	-	A:595

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

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

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

(no "Exon" information available for 1ZRL)

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:583
 aligned with Q25735_PLAFA | Q25735 from UniProtKB/TrEMBL  Length:616

    Alignment length:589
                                    17        27        37        47        57        67        77        87        97       107       117       127       137       147       157       167       177       187       197       207       217       227       237       247       257       267       277       287       297       307       317       327       337       347       357       367       377       387       397       407       417       427       437       447       457       467       477       487       497       507       517       527       537       547       557       567       577       587         
         Q25735_PLAFA     8 NEVLSNCREKRKGMKWDCKKKNDRSNYVCIPDRRIQLCIVNLSIIKTYTKETMKDHFIEASKKESQLLLKKNDNKYNSKFCNDLKNSFLDYGHLAMGNDMDFGGYSTKAENKIQEVFKGAHGEISEHKIKNFRKKWWNEFREKLWEAMLSEHKNNINNCKNIPQEELQITQWIKEWHGEFLLERDNRSKLPKSKCKNNTLYEACEKECIDPCMKYRDWIIRSKFEWHTLSKEYETQKVPKENAENYLIKISENKNDAKVSLLLNNCDAEYSKYCDCKHTTTLVKSVLNGNDNTIKEKREHIDLDDFSKFGCDKNSVDTNTKVWECKKPYKLSTKDVCVPPRRQELCLGNIDRIYDKNLLMIKEHILAIAIYESRILKRKYKNKDDKEVCKIINKTFADIRDIIGGTDYWNDLSNRKLVGKINTNSNYVHRNKQNDKLFRDEWWKVIKKDVWNVISWVFKDKTVCKEDDIENIPQFFRWFSEWGDDYCQDKTKMIETLKVECKEKPCEDDNCKRKCNSYKEWISKKKEEYNKQAKQYQEYQKGNNYKMYSEFKSIKPEVYLKKYSEKCSNLNFEDEFKEELHSDYKNKCT 596
               SCOP domains d1zrla1 A:8-282 Erythrocyte binding antigen region II                                                                                                                                                                                                                              d1zrla2 A:283-596 Erythrocyte binding antigen region II                                                                                                                                                                                                                                                                    SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
           Pfam domains (1) ------------------------------------------------------------------------------------------------------------------------------------------------------------  --------------------------------------------------------------------------------------------------------------------------------------------------------Duffy_binding-1zrlA01 A:318-566                                                                                                                                                                                                                          ------------------------------ Pfam domains (1)
           Pfam domains (2) ------------------------------------------------------------------------------------------------------------------------------------------------------------  --------------------------------------------------------------------------------------------------------------------------------------------------------Duffy_binding-1zrlA02 A:318-566                                                                                                                                                                                                                          ------------------------------ Pfam domains (2)
         Sec.struct. author ..hhhhh........eeeee......eeeeehhhhh..hhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhh......--........hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh....hhhhhhhh........hhhhhhhhhhhhhhhhhh...hhhhhhhhhh.....hhhhhhh.hhhhhhhhh.hhhhhh......eee.........eeehhhhhh............hhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhh......hhhhhhhhhhhhh.......hhhhhhhhhhhhhhhhhhhhhhhhhh........hhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhh...----....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.....hhhhh..hhhhhhhhhh............hhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1zrl A   8 NEVLSNCREKRKGMKWDCKKKNDRSNYVCIPDRRIQLCIVNLAIIKTYTKETMKDHFIEASKKESQLLLKKNDNKYNSKFCNDLKNSFLDYGHLAMGNDMDFGGYSTKAENKIQEVFKGAHGEISEHKIKNFRKKWWNEFREKLWEAMLSEHKNNI--CKNIPQEELQITQWIKEWHGEFLLERDNRAKLPKSKCKNNALYEACEKECIDPCMKYRDWIIRSKFEWHTLSKEYETQKVPKENAENYLIKISENKNDAKVSLLLNNCDAEYSKYCDCKHTTTLVKSVLNGNDNTIKEKREHIDLDDFSKFGCDKNSVDTNTKVWECKKPYKLSTKDVCVPPRRQELCLGNIDRIYDKNLLMIKEHILAIAIYESRILKRKYKNKDDKEVCKIINKTFADIRDIIGGTDYWNDLSNRKLVGKINTNSNYVHRNKQNDKLFRDEWWKVIKKDVWNVISWVFKDKTVCKEDDIENIPQFFRWFSEWGDDYCQDKTKMIETLKVEC----CEDDNCKRKCNSYKEWISKKKEEYNKQAKQYQEYQKGNNYKMYSEFKSIKPEVYLKKYSEKCSNLNFEDEFKEELHSDYKNKCT 596
                                    17        27        37        47        57        67        77        87        97       107       117       127       137       147       157     | 167       177       187       197       207       217       227       237       247       257       267       277       287       297       307       317       327       337       347       357       367       377       387       397       407       417       427       437       447       457       467       477       487       497       507|    | 517       527       537       547       557       567       577       587         
                                                                                                                                                                                     163  |                                                                                                                                                                                                                                                                                                                                                   508  513                                                                                   
                                                                                                                                                                                        166

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(

)

Folds(

)

Superfamilies( (-)

)

Families(

)

Protein Domains( (-)

)

Organisms( (-)

)

Class: All alpha proteins (14657)

Fold: Duffy binding domain-like (7)

Superfamily: Duffy binding domain-like (7)

Family: Duffy binding domain (6)

Protein domain: Erythrocyte binding antigen region II (2)

Malaria parasite (Plasmodium falciparum) [TaxId: 5833] (2)

1a	d1zrla1	A:8-282
1b	d1zrla2	A:283-596

(no "CATH Domain" information available for 1ZRL)

Asymmetric Unit

Clans(

)

Families(

)

Organisms( (-)

)

Clan: DBL (4)

Family: Duffy_binding (4)

Plasmodium falciparum (3)

1a	Duffy_binding-1zrlA01	A:318-566
1b	Duffy_binding-1zrlA02	A:318-566

Asymmetric Unit(hide GO term definitions)

Chain A (Q25735_PLAFA | Q25735)

molecular function
	GO:0004872	receptor activity	Combining with an extracellular or intracellular messenger to initiate a change in cell activity.
biological process
	GO:0009405	pathogenesis	The set of specific processes that generate the ability of an organism to induce an abnormal, generally detrimental state in another organism.
cellular component
	GO:0016021	integral component of membrane	The component of a membrane consisting of the gene products and protein complexes having at least some part of their peptide sequence embedded in the hydrophobic region of the membrane.

Asymmetric Unit
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	Cis Peptide Bonds
(no "Cis Peptide Bonds" information available for 1zrl)

Biological Units
	Complete Structure
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		Biological Unit 2	[ Jena3D ]

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	1zrl
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Description

Compounds

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Ligands, Modified Residues, Ions (2, 10)

Sites (10, 10)

SS Bonds (12, 12)

Cis Peptide Bonds (0, 0)

Sequence-Structure Mapping

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