2J1T - JenaLib

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Biological Unit 1 (Jmol Viewer)

Biol. Unit 1 - sites (Jmol Viewer)

Biological Unit 2 (Jmol Viewer)

Title :   STRUCTURE OF A STREPTOCOCCUS PNEUMONIAE FUCOSE BINDING MODULE IN COMPLEX WITH THE LEWIS Y ANTIGEN

Authors :   A. B. Boraston, D. Wang, R. D. Burke

Date :   15 Aug 06 (Deposition) - 06 Sep 06 (Release) - 24 Feb 09 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.60

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

Keywords :   Carbohydrate-Binding Protein, Carbohydrate Binding Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   A. B. Boraston, D. Wang, R. D. Burke
Blood Group Antigen Recognition By A Streptococcus Pneumoniae Virulence Factor
J. Biol. Chem. V. 281 35263 2006
PubMed-ID: 16987809 | Reference-DOI: 10.1074/JBC.M607620200

Molecule 1 - FUCOLECTIN-RELATED PROTEIN
	Chains	:	A, B
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Taxid	:	562
	Fragment	:	FUCOSE BINDING MODULE, RESIDUES 601-745
	Organism Scientific	:	STREPTOCOCCUS PNEUMONIAE
	Organism Taxid	:	170187
	Strain	:	TIGR4
	Synonym	:	FUCOSE BINDING MODULE

		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 (4, 6)

No.	Name	Count	Type	Full Name
1	CA	2	Ligand/Ion	CALCIUM ION
2	FUC	2	Ligand/Ion	ALPHA-L-FUCOSE
3	GAL	1	Ligand/Ion	BETA-D-GALACTOSE
4	NAG	1	Ligand/Ion	N-ACETYL-D-GLUCOSAMINE

Biological Unit 1 (3, 4)

No.	Name	Count	Type	Full Name
1	CA	-1	Ligand/Ion	CALCIUM ION
2	FUC	2	Ligand/Ion	ALPHA-L-FUCOSE
3	GAL	1	Ligand/Ion	BETA-D-GALACTOSE
4	NAG	1	Ligand/Ion	N-ACETYL-D-GLUCOSAMINE

Biological Unit 2 (0, 0)

No.	Name	Count	Type	Full Name
1	CA	-1	Ligand/Ion	CALCIUM ION
2	FUC	-1	Ligand/Ion	ALPHA-L-FUCOSE
3	GAL	-1	Ligand/Ion	BETA-D-GALACTOSE
4	NAG	-1	Ligand/Ion	N-ACETYL-D-GLUCOSAMINE

Asymmetric Unit (6, 6)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	HIS A:54 , ARG A:81 , GLU A:85 , ARG A:88 , GAL A:1151 , NAG A:1152 , FUC A:1153 , HOH A:2221 , HOH A:2222	BINDING SITE FOR RESIDUE FUC A1150
2	AC2	SOFTWARE	MET A:70 , ASP A:71 , FUC A:1150 , NAG A:1152 , FUC A:1153 , HOH A:2113 , HOH A:2224 , HOH A:2225 , HOH A:2230	BINDING SITE FOR RESIDUE GAL A1151
3	AC3	SOFTWARE	TYR A:31 , LYS A:69 , FUC A:1150 , GAL A:1151 , FUC A:1153 , HOH A:2111 , HOH A:2226 , HOH A:2229 , HOH A:2230	BINDING SITE FOR RESIDUE NAG A1152
4	AC4	SOFTWARE	ASN A:48 , ARG A:81 , ASP A:83 , FUC A:1150 , GAL A:1151 , NAG A:1152 , HOH A:2127 , HOH A:2230 , HOH A:2231	BINDING SITE FOR RESIDUE FUC A1153
5	AC5	SOFTWARE	ARG A:37 , ASP A:40 , ASN A:42 , SER A:51 , ALA A:143 , GLU A:144	BINDING SITE FOR RESIDUE CA A1154
6	AC6	SOFTWARE	ARG B:37 , ASP B:40 , ASN B:42 , SER B:51 , ALA B:143 , GLU B:144	BINDING SITE FOR RESIDUE CA B1152

(no "SS Bond" information available for 2J1T)

Asymmetric Unit

No.	Residues
1	Asn A:59	-	Pro A:60
2	Asn B:59	-	Pro B:60

(no "SAP(SNP)/Variant" information available for 2J1T)

(no "PROSITE Motif" information available for 2J1T)

(no "Exon" information available for 2J1T)

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:136
 aligned with A0A0H2US34_S | A0A0H2US34 from UniProtKB/TrEMBL  Length:1038

    Alignment length:136
                                   617       627       637       647       657       667       677       687       697       707       717       727       737      
         A0A0H2US34_S   608 GNLNIAYAKPTTQSSVDYNGDPNRAVDGNRNGNFNSGSVTHTRADNPSWWEVDLKKMDKVGLVKIYNRTDAETQRLSNFDVILYDNNRNEVAKKHVNNLSGESVSLDFKEKGARYIKVKLLTSGVPLSLAEVEVFR 743
               SCOP domains d2j1ta_ A: automated matches                                                                                                             SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..........eee.......hhhhhhh.....hhhhh...........eeeeeeeeeeeeeeeeeee....hhhhh..eeeeee.....eeeeeee......eeeeeeeeeeeeeeeeee........eeeeee.. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2j1t A  14 GNLNIAYAKPTTQSSVDYNGDPNRAVDGNRNGNFNSGSVTHTRADNPSWWEVDLKKMDKVGLVKIYNRTDAETQRLSNFDVILYDNNRNEVAKKHVNNLSGESVSLDFKEKGARYIKVKLLTSGVPLSLAEVEVFR 149
                                    23        33        43        53        63        73        83        93       103       113       123       133       143

Chain B from PDB  Type:PROTEIN  Length:137
 aligned with A0A0H2US34_S | A0A0H2US34 from UniProtKB/TrEMBL  Length:1038

    Alignment length:137
                                   618       628       638       648       658       668       678       688       698       708       718       728       738       
         A0A0H2US34_S   609 NLNIAYAKPTTQSSVDYNGDPNRAVDGNRNGNFNSGSVTHTRADNPSWWEVDLKKMDKVGLVKIYNRTDAETQRLSNFDVILYDNNRNEVAKKHVNNLSGESVSLDFKEKGARYIKVKLLTSGVPLSLAEVEVFRES 745
               SCOP domains d2j1tb_ B: automated matches                                                                                                              SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .........eee.......hhhhhhh.....hhhhh...........eeeeeeeeeeeeeeeeeee....hhhhh..eeeeee.....eeeeeee......eeeeeeeeeeeeeeeeee........eeeeee.... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2j1t B  15 NLNIAYAKPTTQSSVDYNGDPNRAVDGNRNGNFNSGSVTHTRADNPSWWEVDLKKMDKVGLVKIYNRTDAETQRLSNFDVILYDNNRNEVAKKHVNNLSGESVSLDFKEKGARYIKVKLLTSGVPLSLAEVEVFRES 151
                                    24        34        44        54        64        74        84        94       104       114       124       134       144

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 beta proteins (24004)

Fold: Galactose-binding domain-like (314)

Superfamily: Galactose-binding domain-like (314)

Family: automated matches (85)

Protein domain: automated matches (85)

Streptococcus pneumoniae [TaxId: 170187] (6)

1a	d2j1ta_	A:
1b	d2j1tb_	B:

(no "CATH Domain" information available for 2J1T)

(no "Pfam Domain" information available for 2J1T)

Asymmetric Unit(hide GO term definitions)

(no "Gene Ontology" information available for 2J1T)

Asymmetric Unit
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		AC5	[ RasMol ]	+environment [ RasMol ]
		AC6	[ RasMol ]	+environment [ RasMol ]

	Cis Peptide Bonds
		Asn A:59 - Pro A:60	[ RasMol ]
		Asn B:59 - Pro B:60	[ RasMol ]

Biological Units
	Complete Structure
		Biological Unit 1	[ Jena3D ]
		Biological Unit 2	[ Jena3D ]

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	2j1t
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		Domain Information	:	XDom
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	A0A0H2US34_S \| A0A0H2US34	:	2j1r 2j1s 2j1u 2j1v 2j22 2wmf 2wmg 2wmh

2j1r	STRUCTURE OF A STREPTOCOCCUS PNEUMONIAE FUCOSE BINDING MODULE
2j1s	STRUCTURE OF A STREPTOCOCCUS PNEUMONIAE FUCOSE BINDING MODULE IN COMPLEX WITH FUCOSE
2j1u	STRUCTURE OF A STREPTOCOCCUS PNEUMONIAE FUCOSE BINDING MODULE IN COMPLEX WITH THE BLOOD GROUP A-TETRASACCHARIDE
2j1v	STRUCTURE OF A STREPTOCOCCUS PNEUMONIAE FUCOSE BINDING MODULE IN COMPLEX WITH THE BLOOD GROUP H-TRISACCHARIDE
2j22	STRUCTURE OF A STREPTOCOCCUS PNEUMONIAE FUCOSE BINDING MODULE, SPX-3

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (4, 6)

Sites (6, 6)

SS Bonds (0, 0)

Cis Peptide Bonds (2, 2)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

PROSITE Motifs (0, 0)

Exons (0, 0)

Sequences/Alignments

Classification and Annotation

SCOP Domains (1, 2)

CATH Domains (0, 0)

Pfam Domains (0, 0)

Gene Ontology (0, 0)

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Related Entries

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Related Entries Specified in the PDB File