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(-) Description

Title :  INFLUENZA 2009 H1N1 ENDONUCLEASE WITH 100 MILLIMOLAR CALCIUM
 
Authors :  J. D. Bauman, D. Patel, K. Das, E. Arnold
Date :  08 Aug 13  (Deposition) - 18 Sep 13  (Release) - 11 Dec 13  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.80
Chains :  Asym. Unit :  A
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  A  (2x)
Keywords :  Cap-Snatching, Rna Binding Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  J. D. Bauman, D. Patel, S. F. Baker, R. S. Vijayan, A. Xiang, A. K. Parhi, L. Martinez-Sobrido, E. J. Lavoie, K. Das, E. Arnold
Crystallographic Fragment Screening And Structure-Based Optimization Yields A New Class Of Influenza Endonuclease Inhibitors.
Acs Chem. Biol. V. 8 2501 2013
PubMed-ID: 23978130  |  Reference-DOI: 10.1021/CB400400J

(-) Compounds

Molecule 1 - POLYMERASE PA
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PCDF-2
    Expression System Strain: BL21 (DE3) RIL
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Fragment: UNP RESIDUES 1-204
    Gene: PA
    Organism Scientific: INFLUENZA A VIRUS (A/LIMA/WRAIR1695P/2009(H1N1))
    Organism Taxid: 985958

 Structural Features

(-) Chains, Units

  1
Asymmetric Unit : A
Biological Unit 1 (1x): A
Biological Unit 2 (2x): A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 4)

Asymmetric Unit (2, 4)
No.NameCountTypeFull Name
1CA2Ligand/IonCALCIUM ION
2SO42Ligand/IonSULFATE ION
Biological Unit 1 (1, 2)
No.NameCountTypeFull Name
1CA-1Ligand/IonCALCIUM ION
2SO42Ligand/IonSULFATE ION
Biological Unit 2 (1, 4)
No.NameCountTypeFull Name
1CA-1Ligand/IonCALCIUM ION
2SO44Ligand/IonSULFATE ION

(-) Sites  (4, 4)

Asymmetric Unit (4, 4)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREALA A:183 , SER A:186 , LEU A:187 , TRP A:188 , ASP A:189 , HOH A:462 , HOH A:481BINDING SITE FOR RESIDUE SO4 A 301
2AC2SOFTWAREILE A:30 , GLU A:31 , THR A:32 , ASN A:33 , GLU A:165 , GLU A:166 , ALA A:169 , HOH A:412BINDING SITE FOR RESIDUE SO4 A 302
3AC3SOFTWAREGLU A:80 , HOH A:441 , HOH A:479 , HOH A:516 , HOH A:595BINDING SITE FOR RESIDUE CA A 303
4AC4SOFTWAREGLU A:80 , ASP A:108 , HOH A:437 , HOH A:448 , HOH A:452 , HOH A:455 , HOH A:495BINDING SITE FOR RESIDUE CA A 304

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4M5V)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 4M5V)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4M5V)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4M5V)

(-) Exons   (0, 0)

(no "Exon" information available for 4M5V)

(-) 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:200
                                                                                                                                                                                                                                        
               SCOP domains d4m5va_ A: PA N-terminal domain                                                                                                                                                                          SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....hhhhhhhhhhhhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhhh.eee.....eee..........ee.eee....hhhhhhhhhhhhhhhh..........eee....eeeeeeee..hhhhhhhhhhhhh.....eeeeee....eee.hhh...hhhhhhhhhhhhhhhhhhhhhh.hhhhhhhh. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4m5v A  -4 GPLGSMEDFVRQCFNPMIVELAEKAMKEYGEDPKIETNKFAAICTHLEVCFMYSDFHFIDERGESIIVESGDPNALLKHRFEIIEGRDRIMAWTVVNSICNTTGVEKPKFLPDLYDYKENRFIEIGVTRREVHIYYLEKANKIKSEKTHIHIFSFTGEEMATKADYTLDEESRARIKTRLFTIRQEMASRSLWDSFRQSE 195
                                     5        15        25        35        45        55        65        75        85        95       105       115       125       135       145       155       165       175       185       195
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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  (1, 1)

Asymmetric Unit
(-)
Class: Alpha and beta proteins (a/b) (23833)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4M5V)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4M5V)

(-) Gene Ontology  (0, 0)

Asymmetric Unit(hide GO term definitions)
    (no "Gene Ontology" information available for 4M5V)

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  4m5v
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 Related Entries

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

(no "Entries Sharing at Least One Protein Chain" available for 4M5V)

(-) Related Entries Specified in the PDB File

4kil 4ln7 4m5o 4m5q 4m5r 4m5u 4mk1 4mk2 4mk5