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(-) Description

Title :  CRYSTAL STRUCTURE OF HUMAN FRIZZLED 4 CYSTEINE-RICH DOMAIN (CRD)
 
Authors :  J. Ke, N. Parker, X. Gu, C. Zhang, K. Melcher, H. E. Xu
Date :  16 Jul 15  (Deposition) - 12 Aug 15  (Release) - 16 Sep 15  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.40
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Keywords :  Wnt Signaling, Norrin Signaling, Frizzled 4 Extracelluar Domain, Cysteine-Rich Domain, Signaling Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  G. Shen, J. Ke, Z. Wang, Z. Cheng, X. Gu, Y. Wei, K. Melcher, H. E. Xu, W. Xu
Structural Basis Of The Norrin-Frizzled 4 Interaction.
Cell Res. V. 25 1078 2015
PubMed-ID: 26227961  |  Reference-DOI: 10.1038/CR.2015.92

(-) Compounds

Molecule 1 - FRIZZLED-4
    Chains: A, B
    Engineered: YES
    Expression System: HOMO SAPIENS
    Expression System Cell Line: HEK293
    Expression System Plasmid: PCDNA6-FZ4CRD-FCH6
    Expression System Taxid: 9606
    Expression System Vector Type: PLASMID
    Fragment: UNP RESIDUES 40-164
    Gene: FZD4
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Synonym: HFZ4,FZE4

 Structural Features

(-) Chains, Units

  12
Asymmetric Unit : AB
Biological Unit 1 (1x): A 
Biological Unit 2 (1x):  B

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 5)

Asymmetric Unit (1, 5)
No.NameCountTypeFull Name
1NAG5Ligand/IonN-ACETYL-D-GLUCOSAMINE
Biological Unit 1 (1, 3)
No.NameCountTypeFull Name
1NAG3Ligand/IonN-ACETYL-D-GLUCOSAMINE
Biological Unit 2 (1, 2)
No.NameCountTypeFull Name
1NAG2Ligand/IonN-ACETYL-D-GLUCOSAMINE

(-) Sites  (4, 4)

Asymmetric Unit (4, 4)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREASN A:59binding site for Mono-Saccharide NAG A 301 bound to ASN A 59
2AC2SOFTWAREGLU A:141 , ASN A:144 , SER A:146 , ARG B:126binding site for Poly-Saccharide residues NAG A 302 through NAG A 303 bound to ASN A 144
3AC3SOFTWAREASN B:59binding site for Mono-Saccharide NAG B 301 bound to ASN B 59
4AC4SOFTWAREGLU B:141 , ASN B:144 , HOH B:401binding site for Mono-Saccharide NAG B 302 bound to ASN B 144

(-) SS Bonds  (10, 10)

Asymmetric Unit
No.Residues
1A:45 -A:106
2A:53 -A:99
3A:90 -A:128
4A:117 -A:158
5A:121 -A:145
6B:45 -B:106
7B:53 -B:99
8B:90 -B:128
9B:117 -B:158
10B:121 -B:145

(-) Cis Peptide Bonds  (2, 2)

Asymmetric Unit
No.Residues
1Met A:63 -Pro A:64
2Met B:63 -Pro B:64

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 5CM4)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 5CM4)

(-) Exons   (0, 0)

(no "Exon" information available for 5CM4)

(-) Sequences/Alignments

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:121
                                                                                                                                                         
               SCOP domains ------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..ee..hhhhh.....ee.........hhhhhhhhhh.hhhhhhhh...hhhhhhhhhhh.eee..eeeee..hhhhhhhhhhhhhhhhhhh....hhhhhhhhh................ Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------- Transcript
                 5cm4 A  44 RCDPIRISMCQNLGYNVTKMPNLVGHELQTDAELQLTTFTPLIQYGCSSQLQFFLCSVYVPMCTEKINIPIGPCGGMCLSVKRRCEPVLKEFGFAWPESLNCSKFPPQNDHNHMCMEGPGD 164
                                    53        63        73        83        93       103       113       123       133       143       153       163 


Chain B from PDB  Type:PROTEIN  Length:121
                                                                                                                                                         
               SCOP domains ------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..ee..hhhhh.....ee.........hhhhhhhhhhhhhhhhhhh...hhhhhhhhhhh.eee..eeeee..hhhhhhhhhhhhhhhhhhh....hhhhhhhhh................ Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------- Transcript
                 5cm4 B  44 RCDPIRISMCQNLGYNVTKMPNLVGHELQTDAELQLTTFTPLIQYGCSSQLQFFLCSVYVPMCTEKINIPIGPCGGMCLSVKRRCEPVLKEFGFAWPESLNCSKFPPQNDHNHMCMEGPGD 164
                                    53        63        73        83        93       103       113       123       133       143       153       163
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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 5CM4)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 5CM4)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 5CM4)

(-) Gene Ontology  (45, 45)

Asymmetric Unit(hide GO term definitions)

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 Related Entries

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

UniProtKB/Swiss-Prot
        FZD4_HUMAN | Q9ULV1: 5bpb 5bpq 5bqc 5bqe 5cl1 5uwg

(-) Related Entries Specified in the PDB File

5cl1 COMPLEX STRUCTURE OF NORRIN WITH HUMAN FRIZZLED 4 CRD