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(-) Description

Title :  BINARY COMPLEX OF THE PAPG RECEPTOR-BINDING DOMAIN BOUND TO GBO4 RECEPTOR
 
Authors :  K. W. Dodson, J. S. Pinkner, T. Rose, G. Magnusson, S. J. Hultgren, G. Waksman, Midwest Center For Structural Genomics (Mcsg)
Date :  22 May 01  (Deposition) - 22 Jun 01  (Release) - 21 Jul 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.80
Chains :  Asym./Biol. Unit :  A
Keywords :  Pag Adhesin, Gbo4, Structural Genomics, Psi, Protein Structure Initiative, Midwest Center For Structural Genomics, Mcsg, Structural Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  K. W. Dodson, J. S. Pinkner, T. Rose, G. Magnusson, S. J. Hultgren, G. Waksman
Structural Basis Of The Interaction Of The Pyelonephritic E. Coli Adhesin To Its Human Kidney Receptor.
Cell(Cambridge, Mass. ) V. 105 733 2001
PubMed-ID: 11440716  |  Reference-DOI: 10.1016/S0092-8674(01)00388-9
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - PYELONEPHRITIC ADHESIN
    Chains: A
    Fragment: PAPG RECEPTOR-BINDING DOMAIN
    Organism Scientific: ESCHERICHIA COLI
    Organism Taxid: 562
    Other Details: COMPLEXED WITH NAG-GAL-GAL-GLU
    Synonym: PAPG ADHESIN

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (5, 7)

Asymmetric/Biological Unit (5, 7)
No.NameCountTypeFull Name
1BGC1Ligand/IonBETA-D-GLUCOSE
2GAL1Ligand/IonBETA-D-GALACTOSE
3GLA1Ligand/IonALPHA D-GALACTOSE
4MSE3Mod. Amino AcidSELENOMETHIONINE
5NGA1Ligand/IonN-ACETYL-D-GALACTOSAMINE

(-) Sites  (4, 4)

Asymmetric Unit (4, 4)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREGLU A:91 , LYS A:172 , GLA A:202 , HOH A:386 , HOH A:406BINDING SITE FOR RESIDUE NGA A 201
2AC2SOFTWARESER A:89 , GLU A:91 , LYS A:103 , GLY A:104 , LYS A:172 , NGA A:201 , GAL A:203 , HOH A:322 , HOH A:335 , HOH A:352BINDING SITE FOR RESIDUE GLA A 202
3AC3SOFTWAREGLU A:59 , GLY A:104 , TRP A:107 , GLA A:202 , BGC A:204 , HOH A:310 , HOH A:352BINDING SITE FOR RESIDUE GAL A 203
4AC4SOFTWAREARG A:170 , GAL A:203 , HOH A:421 , HOH A:426BINDING SITE FOR RESIDUE BGC A 204

(-) SS Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1A:44 -A:118

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 1J8R)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1J8R)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 1J8R)

(-) Exons   (0, 0)

(no "Exon" information available for 1J8R)

(-) Sequences/Alignments

Asymmetric/Biological 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:196
 aligned with Q47450_ECOLX | Q47450 from UniProtKB/TrEMBL  Length:336

    Alignment length:196
                                    30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210      
         Q47450_ECOLX    21 WNNIVFYSLGDVNSYQGGNVVITQRPQFITSWRPGIATVTWNQCNGPEFADGFWAYYREYIAWVVFPKKVMTQNGYPLFIEVHNKGSWSEENTGDNDSYFFLKGYKWDERAFDAGNLCQKPGEITRLTEKFDDIIFKVALPADLPLGDYSVKIPYTSGMQRHFASYLGARFKIPYNVAKTLPRENEMLFLFKNIGG 216
               SCOP domains d1j8ra_ A: PapG adhesin receptor-binding domain                                                                                                                                                      SCOP domains
               CATH domains 1j8rA00 A:1-196 Bacterial adhesin receptor binding domain                                                                                                                                            CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeeee..eeeeeeeee......eeee....eeeeeeeeee....ee.....eeeeeeeeeeee.eee.....eeeeeeee....eee......eeeeeeeeeeeeee...ee.......eeee......eeeeee.......eeeeeeeeeeeeeeeeee.........hhhhhh.....eeeeeeeee... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1j8r A   1 WNNIVFYSLGDVNSYQGGNVVITQRPQFITSWRPGIATVTWNQCNGPEFADGFWAYYREYIAWVVFPKKVmTQNGYPLFIEVHNKGSWSEENTGDNDSYFFLKGYKWDERAFDAGNLCQKPGEITRLTEKFDDIIFKVALPADLPLGDYSVKIPYTSGmQRHFASYLGARFKIPYNVAKTLPRENEmLFLFKNIGG 196
                                    10        20        30        40        50        60        70|       80        90       100       110       120       130       140       150       160       170       180      |190      
                                                                                                 71-MSE                                                                                 159-MSE                     187-MSE
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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)

Asymmetric/Biological Unit
(-)
Class: All beta proteins (24004)

(-) CATH Domains  (1, 1)

Asymmetric/Biological Unit
(-)
Class: Mainly Beta (13760)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 1J8R)

(-) Gene Ontology  (2, 2)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (Q47450_ECOLX | Q47450)
molecular function
    GO:0030246    carbohydrate binding    Interacting selectively and non-covalently with any carbohydrate, which includes monosaccharides, oligosaccharides and polysaccharides as well as substances derived from monosaccharides by reduction of the carbonyl group (alditols), by oxidation of one or more hydroxy groups to afford the corresponding aldehydes, ketones, or carboxylic acids, or by replacement of one or more hydroxy group(s) by a hydrogen atom. Cyclitols are generally not regarded as carbohydrates.
biological process
    GO:0007155    cell adhesion    The attachment of a cell, either to another cell or to an underlying substrate such as the extracellular matrix, via cell adhesion molecules.

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 Related Entries

(-) Entries Sharing at Least One Protein Chain (UniProt ID)

UniProtKB/TrEMBL
        Q47450_ECOLX | Q47450: 1j8s 3me0

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