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(-) Description

Title :  HIGH-RESOLUTION CRYSTAL STRUCTURE OF THE HUMAN CD44 HYALURONAN BINDING DOMAIN COMPLEX WITH UNDEFINED PEPTIDES
 
Authors :  L. K. Liu, B. Finzel
Date :  28 Mar 14  (Deposition) - 17 Sep 14  (Release) - 15 Oct 14  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.08
Chains :  Asym./Biol. Unit :  A,B,C
Keywords :  Link Module, Binding Protein, Hyaluronan, Ectodomain, Cell Adhesion (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  L. K. Liu, B. Finzel
High-Resolution Crystal Structures Of Alternate Forms Of Th Human Cd44 Hyaluronan-Binding Domain Reveal A Site For Protein Interaction.
Acta Crystallogr F Struct V. 70 1155 2014 Biol Commun
PubMed-ID: 25195884  |  Reference-DOI: 10.1107/S2053230X14015532

(-) Compounds

Molecule 1 - CD44 ANTIGEN
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PMCSG7
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 511693
    Expression System Vector Type: PLASMID
    Fragment: HYALURONAN BINDING DOMAIN, RESIDUES 18-170
    Gene: CD44, CD44 LY-24, LHR, MDU2, MDU3, MIC4
    Mutation: YES
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Synonym: CDW44, EPICAN, EXTRACELLULAR MATRIX RECEPTOR III, ECMR-III, GP90 LYMPHOCYTE HOMING/ADHESION RECEPTOR, HUTCH-I, HEPARAN SULFATE PROTEOGLYCAN, HERMES ANTIGEN, HYALURONATE RECEPTOR, PHAGOCYTIC GLYCOPROTEIN 1, PGP-1, PHAGOCYTIC GLYCOPROTEIN I, PGP-I
 
Molecule 2 - UNDEFINED PEPTIDES MODELED AS AAAV
    Chains: C
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 511693
    Gene: UNDEFINED
    Organism Scientific: ESCHERICHIA COLI
    Organism Taxid: 562

 Structural Features

(-) Chains, Units

  123
Asymmetric/Biological Unit : ABC

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 4)

Asymmetric/Biological Unit (3, 4)
No.NameCountTypeFull Name
1EDO2Ligand/Ion1,2-ETHANEDIOL
2MES1Ligand/Ion2-(N-MORPHOLINO)-ETHANESULFONIC ACID
3PEG1Ligand/IonDI(HYDROXYETHYL)ETHER

(-) Sites  (4, 4)

Asymmetric Unit (4, 4)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREGLU A:37 , GLY A:40 , ARG A:78 , HOH A:307 , HOH A:328 , GLU B:37 , GLY B:40 , ARG B:78BINDING SITE FOR RESIDUE PEG A 201
2AC2SOFTWARECYS A:77 , ARG A:78 , HOH A:311 , HOH A:326 , TYR B:42 , CYS B:77 , ARG B:78BINDING SITE FOR RESIDUE EDO A 202
3AC3SOFTWARETHR B:27 , CYS B:28 , PHE B:30 , GLU B:127 , CYS B:129 , ARG B:150 , HOH B:352 , HOH B:389BINDING SITE FOR RESIDUE MES B 201
4AC4SOFTWAREARG B:46 , ASP B:134 , GLN B:157 , LYS B:158 , HOH B:334 , HOH B:335 , HOH B:368 , HOH B:374BINDING SITE FOR RESIDUE EDO B 202

(-) SS Bonds  (6, 6)

Asymmetric/Biological Unit
No.Residues
1A:28 -A:129
2A:53 -A:118
3A:77 -A:97
4B:28 -B:129
5B:53 -B:118
6B:77 -B:97

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 4PZ3)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4PZ3)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4PZ3)

(-) Exons   (0, 0)

(no "Exon" information available for 4PZ3)

(-) 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:150
                                                                                                                                                                                      
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .eeeeee..ee..eeeeee......hhhhhhhhhhhh.....hhhhhhhhhhh.......eee..eeeeee......hhhhh.eeee........eeeee.......ee..........eeeeeeeeee.....eeeeeee...hhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4pz3 A  20 AQIDLNITCRFAGVFHVEKNGRYSISRTEAADLCKAFNSTLPTMAQMEKALSIGFETCRYGFIEGHVVIPRIHPNSICAANNTGVYILTSNTSQYDTYCFNASAPPEEDCTSVTDLPNAFDGPITITIVNRDGTRYVQKGEYRTNPEDIY 169
                                    29        39        49        59        69        79        89        99       109       119       129       139       149       159       169


Chain B from PDB  Type:PROTEIN  Length:151
                                                                                                                                                                                       
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeee..ee..eeeeee......hhhhhhhhhhhh.....hhhhhhhhhhh.......eee..eeeeee............eeee........eeeee.......ee..........eeeeeeeeee.....eeeeeee...hhhhhh. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4pz3 B  20 AQIDLNITCRFAGVFHVEKNGRYSISRTEAADLCKAFNSTLPTMAQMEKALSIGFETCRYGFIEGHVVIPRIHPNSICAANNTGVYILTSNTSQYDTYCFNASAPPEEDCTSVTDLPNAFDGPITITIVNRDGTRYVQKGEYRTNPEDIYP 170
                                    29        39        49        59        69        79        89        99       109       119       129       139       149       159       169 


Chain C from PDB  Type:PROTEIN  Length:4
                                    
               SCOP domains ---- SCOP domains
               CATH domains ---- CATH domains
               Pfam domains ---- Pfam domains
         Sec.struct. author .... Sec.struct. author
                 SAPs(SNPs) ---- SAPs(SNPs)
                    PROSITE ---- PROSITE
                 Transcript ---- Transcript
                 4pz3 C   1 AAAV   4
   Legend:   → Mismatch (orange background)
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  extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '|'

 Classification and Annotation

(-) SCOP Domains  (0, 0)

(no "SCOP Domain" information available for 4PZ3)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4PZ3)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4PZ3)

(-) Gene Ontology  (35, 35)

Asymmetric/Biological Unit(hide GO term definitions)

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  4pz3
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  CD44_HUMAN | P16070
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 Related Entries

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

UniProtKB/Swiss-Prot
        CD44_HUMAN | P16070: 1poz 1uuh 2i83 4pz4

(-) Related Entries Specified in the PDB File

1uuh APO HUMAN CD44 HABD 20-178
4pz4