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(-) Description

Title :  CRYSTAL STRUCTURE OF MIDDLE EAST RESPIRATORY SYNDROME CORONAVIRUS HELICASE (MERS-COV NSP13)
 
Authors :  W. Hao, J. A. Wojdyla, R. Zhao, R. Han, R. Das, I. Zlatev, M. Manoharan, M. S. Cui
Date :  03 Jan 17  (Deposition) - 05 Jul 17  (Release) - 05 Jul 17  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  3.00
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  B  (1x)
Biol. Unit 2:  A  (1x)
Keywords :  Middle East Respiratory Syndrome Coronavirus, Nidovirales, Coronavirus, Mers, Nsp13, Helicase, Sf1 Superfamily, Atp Hydrolysis, Atpase, Rna 5'-Triphosphatase, Unwinding, Upf1 Helicase, Arterivirus Nsp10, Zinc Binding Domain, Ch Domain, 1B Beta-Barrel Domain, Viral Rna Synthesis, Reca-Like Domain, Cov Replication And Transcription, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  W. Hao, J. A. Wojdyla, R. Zhao, R. Han, R. Das, I. Zlatev, M. Manoharan, M. Wang, S. Cui
Crystal Structure Of Middle East Respiratory Syndrome Coronavirus Helicase
Plos Pathog. V. 13 06474 2017
PubMed-ID: 28651017  |  Reference-DOI: 10.1371/JOURNAL.PPAT.1006474

(-) Compounds

Molecule 1 - ORF1AB
    Chains: B, A
    Engineered: YES
    Expression System: TRICHOPLUSIA NI
    Expression System Plasmid: PFAST-BAC 1
    Expression System Taxid: 7111
    Expression System Vector Type: BACULOVIRUS
    Fragment: NSP13 HELICASE, UNP RESIDUES 5311-5908
    Gene: ORF1AB
    Organism Scientific: HUMAN BETACORONAVIRUS 2C EMC/2012
    Organism Taxid: 1235996

 Structural Features

(-) Chains, Units

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

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 11)

Asymmetric Unit (2, 11)
No.NameCountTypeFull Name
1SO45Ligand/IonSULFATE ION
2ZN6Ligand/IonZINC ION
Biological Unit 1 (1, 1)
No.NameCountTypeFull Name
1SO41Ligand/IonSULFATE ION
2ZN-1Ligand/IonZINC ION
Biological Unit 2 (1, 4)
No.NameCountTypeFull Name
1SO44Ligand/IonSULFATE ION
2ZN-1Ligand/IonZINC ION

(-) Sites  (11, 11)

Asymmetric Unit (11, 11)
No.NameEvidenceResiduesDescription
01AC1SOFTWARECYS B:5 , CYS B:8 , CYS B:26 , CYS B:29binding site for residue ZN B 601
02AC2SOFTWARECYS B:16 , CYS B:19 , HIS B:33 , HIS B:39binding site for residue ZN B 602
03AC3SOFTWARECYS B:50 , CYS B:55 , CYS B:72 , HIS B:75binding site for residue ZN B 603
04AC4SOFTWAREPRO B:284 , GLY B:285 , LYS B:288 , ARG B:443binding site for residue SO4 B 604
05AC5SOFTWARECYS A:5 , CYS A:8 , CYS A:26 , CYS A:29binding site for residue ZN A 601
06AC6SOFTWARECYS A:16 , CYS A:19 , HIS A:33binding site for residue ZN A 602
07AC7SOFTWARECYS A:50 , CYS A:55 , CYS A:72 , HIS A:75binding site for residue ZN A 603
08AC8SOFTWARETHR A:380 , ASN A:381 , ARG A:409 , PHE A:422binding site for residue SO4 A 604
09AC9SOFTWARESER A:486 , TYR A:515 , ASN A:516binding site for residue SO4 A 605
10AD1SOFTWAREGLY A:285 , THR A:286 , GLY A:287 , LYS A:288 , SO4 A:607binding site for residue SO4 A 606
11AD2SOFTWAREPRO A:284 , GLY A:285 , GLN A:404 , ARG A:443 , GLY A:538 , ARG A:567 , SO4 A:606binding site for residue SO4 A 607

(-) SS Bonds  (1, 1)

Asymmetric Unit
No.Residues
1B:79 -A:79

(-) Cis Peptide Bonds  (5, 5)

Asymmetric Unit
No.Residues
1Glu B:160 -Arg B:161
2Thr B:215 -Thr B:216
3Ile B:256 -Thr B:257
4Cys A:55 -Gly A:56
5Ile A:256 -Thr A:257

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 5WWP)

(-) 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:515
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                   
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...ee......ee.eee.......eehhhhhhhhhh......ee....................eee..eee.........ee.ee..ee............hhhhhhhhhhh...hhhhhhhh...hhhhhhhhhhhhhhhhhhhh...............................hhhhhhhhhhh....eeeee.....hhhhhhhhhhhhh....eeeee.hhhhhhhhhhhhhhhhhhh.eeee.............ee......eeeee......eee.eeee.hhhhhhhhhhhhhhhheee..eeeee.................hhhhhhhhhhhhhhhh..ee..ee...hhhhhhhhhhhh.....ee.......eeeee.....ee....eehhhhhhhhhhhhhhhhhhhh.eeee.hhhhhhhhhhhh..eeeehhhhh...eeeeeee.........hhhhhhhhhh.eeeeeeeee.hhhhhhh...ee......... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5wwp A   0 PAVGSCVVCHSQTSLRCGTCIRRPFLCCKCCYDHVIATPHKMVLSVSPYVCNAPGCGVSDVTKLYLGGMSYFCVDHRPVCSFPLCANGLVFGLYKNMCTGSPSIVEFNRLATCDWTESGDYTLANTTTEPLKLFAAETLRATEEASKSVATLTAPTIVNQERYVKITGLYPTITVPEEFASHVANFQKSGYSKYVTVQGPPGTGKSHFAIGLAIYYPTARVVYTACSHAAVDALCEKAFKYLNIAKCSRIIPAKARVECYDRFKVNETNSQYLFSTINALPETSADILVVDEVSMCTNYDLSIINARIKAKHIVYVGDPAQLPAPRTLLTRGTLEPENFNSVTRLMCNLGPDIFLSMCYRCPKEIVSTVSALVYNNKLLAKKELSGQCFKILYKGNVTHDASSAINRPQLTFVKNFITANPAWSKAVFISPYNSQNAVSRSMLGLTTQTVDSSQGSEYQYVIFCQTADTAHANNINRFNVAITRAQKGILCVMTSQALFESLEFTELSFTNYKLQ 598
                                     9        19        29        39        49        59        69        79        89        99       109       119       129       139      |233       243       253       263       273       283       293       303       313       323       333       343       353       363       373       383       393       403       413       423       433       443       453       463       473       483       493       503       513       523       533       543       553       563       573       583       593     
                                                                                                                                                                            146|                                                                                                                                                                                                                                                                                                                                                                               
                                                                                                                                                                             231                                                                                                                                                                                                                                                                                                                                                                               


Chain B from PDB  Type:PROTEIN  Length:591
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                               
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...ee......ee.eee.......eehhhhhhhhhhh.....ee....................eee..eee.........ee.ee..ee............hhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh....eeeeeeee..eeeeee..............eee......eeeeee......eeeee..........eeee.................................hhhhhhhhhhhh....eeeee.....hhhhhhhhhhhhh....eeeee.hhhhhhhhhhhhhh..hhh.eeee.............ee......eeeee......eeeeeeeee.hhhhhhhhhhhhhhheeeeeeeeee.................hhhhhhhhhhhhhhh...ee..ee...hhhhhhhhhh.......ee.......eeee..............hhhhhhhhhhhhhh.hhhhh.eee..hhhhhhhhhhhh..ee..hhhhh...eeeeeee....hhhhhhhhhhhhhhh.eeeeeeee..hhhhhh....ee....... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5wwp B   0 PAVGSCVVCHSQTSLRCGTCIRRPFLCCKCCYDHVIATPHKMVLSVSPYVCNAPGCGVSDVTKLYLGGMSYFCVDHRPVCSFPLCANGLVFGLYKNMCTGSPSIVEFNRLATCDWTESGDYTLANTTTEPLKLFAAETLRATEEASKQSYAIATIKEIVGERQLLLVWEAGKSKPPLNRNYVFTGYKVQLGEYIFERIDYSDAVSYKSSTTYKLTVGDIFVLTSHSVATLTAPTIVNQERYVKITGLYPTITVPEEFASHVANFQKSGYSKYVTVQGPPGTGKSHFAIGLAIYYPTARVVYTACSHAAVDALCEKAFKYLNIAKCSRIIPAKARVECYDRFKVNETNSQYLFSTINALPETSADILVVDEVSMCTNYDLSIINARIKAKHIVYVGDPAQLPAPRTLLTRGTLEPENFNSVTRLMCNLGPDIFLSMCYRCPKEIVSTVSALVYNNKLLAKKELSGQCFKILYKGNVTHDASSAINRPQLTFVKNFITANPAWSKAVFISPYNSQNAVSRSMLGLTTQTVDSSQGSEYQYVIFCQTADTAHANNINRFNVAITRAQKGILCVMTSQALFESLEFTELSFTNYK 596
                                     9        19        29        39        49        59        69        79        89        99       109       119       129       139       149       159       169       179     ||195       205       215       225       235       245       255       265       275       285       295       305       315       325       335       345       355       365       375       385       395       405       415       425       435       445       455       465       475       485       495       505       515       525       535       545       555       565       575       585       595 
                                                                                                                                                                                                                   185|                                                                                                                                                                                                                                                                                                                                                                                                                    
                                                                                                                                                                                                                    192
   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
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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  (0, 0)

(no "SCOP Domain" information available for 5WWP)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (32, 32)

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 Related Entries

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

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        K0BWD0_9BETC | K0BWD0: 5v69 5v6a
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        K0BWD0_9BETC | K0BWD0: 4p16

(-) Related Entries Specified in the PDB File

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