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(-) Description

Title :  STRUCTURE OF THE N-TERMINAL DOMAIN (NTD) OF MERS-COV SPIKE PROTEIN
 
Authors :  Y. Yuan, Y. Zhang, J. Qi, Y. Shi, G. F. Gao
Date :  14 Feb 17  (Deposition) - 03 May 17  (Release) - 03 May 17  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.50
Chains :  Asym./Biol. Unit :  A
Keywords :  Mers-Cov, Spike, N-Terminal Domain, Viral Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  Y. Yuan, D. Cao, Y. Zhang, J. Ma, J. Qi, Q. Wang, G. Lu, Y. Wu, J. Yan, Y. Shi X. Zhang, G. F. Gao
Cryo-Em Structures Of Mers-Cov And Sars-Cov Spike Glycoproteins Reveal The Dynamic Receptor Binding Domains
Nat Commun V. 8 15092 2017
PubMed-ID: 28393837  |  Reference-DOI: 10.1038/NCOMMS15092

(-) Compounds

Molecule 1 - S PROTEIN
    Chains: A
    Engineered: YES
    Expression System: TRICHOPLUSIA NI
    Expression System Common: CABBAGE LOOPER
    Expression System Taxid: 7111
    Fragment: UNP RESIDUES 18-353
    Organism Scientific: MIDDLE EAST RESPIRATORY SYNDROME CORONAVIRUS
    Organism Taxid: 1335626
    Synonym: SPIKE GLYCOPROTEIN,SPIKE PROTEIN

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 4)

Asymmetric/Biological Unit (1, 4)
No.NameCountTypeFull Name
1NAG4Ligand/IonN-ACETYL-D-GLUCOSAMINE

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREGLY A:121 , ALA A:122 , ALA A:124 , ASN A:125 , GLU A:249 , HOH A:602 , HOH A:607 , HOH A:683 , HOH A:757 , HOH A:768 , HOH A:803 , HOH A:814binding site for Poly-Saccharide residues NAG A 501 through NAG A 502 bound to ASN A 108
2AC2SOFTWAREASP A:20 , GLY A:22 , ARG A:181 , ASN A:222 , LEU A:225 , MET A:240 , HOH A:614 , HOH A:626 , HOH A:643 , HOH A:791 , HOH A:794binding site for Poly-Saccharide residues NAG A 503 through NAG A 504 bound to ASN A 205

(-) SS Bonds  (4, 4)

Asymmetric/Biological Unit
No.Residues
1A:30 -A:195
2A:176 -A:214
3A:185 -A:237
4A:339 -A:349

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 5X4R)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 5X4R)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 5X4R)

(-) Exons   (0, 0)

(no "Exon" information available for 5X4R)

(-) 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:333
                                                                                                                                                                                                                                                                                                                                                                             
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...............eee.hhhhh.......hhhhh.............eeeeeeeee.......eee..ee..........eee.hhhhh.ee....eeeee......eee.......eeeee.....eeee..eee.....eeee..eeeeeeee....eeeeeeeeeee................eeehhhhhh.......hhhhhhhhhheeeeeeeeeeeee.......eeeeeeee..eeeeee...........eeeeee.......eeee..eee..hhhhh.ee..eeeee.eeeeeeeee.....eeeeee...hhhhhhhhh Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5x4r A  18 YVDVGPDSVKSACIEVDIQQTFFDKTWPRPIDVSKADGIIYPQGRTYSNITITYQGLFPYQGDHGDMYVYSAGHATGTTPQKLFVANYSQDVKQFANGFVVRIGAAANSTGTVIISPSTSATIRKIYPAFMLGSSVGNFSDGKMGRFFNHTLVLLPDGCGTLLRAFYCILEPRSGNHCPAGNSYTSFATYHTPATDCSDGNYNRNASLNSFKEYFNLRNCTFMYTYNITEDEILEWFGITQTAQGVHLFSSRYVDLYGGNMFQFATLPVYDTIKYYSIIPHSIRSIQSDRKAWAAFYVYKLQPLTFLLDFSVDGYIRRAIDCGFNDLSQLHCS 350
                                    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
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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 5X4R)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 5X4R)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 5X4R)

(-) Gene Ontology  (5, 5)

Asymmetric/Biological Unit(hide GO term definitions)

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 Related Entries

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UniProtKB/Swiss-Prot
        W6A028_9BETC | W6A028: 5x59 5x5c 5x5f

(-) Related Entries Specified in the PDB File

5x4s