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(-) Description

Title :  STRUCTURE OF THE GENOME PACKAGING NTPASE B204 FROM SULFOLOBUS TURRETED ICOSAHEDRAL VIRUS 2 IN COMPLEX WITH AMP
 
Authors :  L. J. Happonen, E. Oksanen, T. Kajander, A. Goldman, S. Butcher
Date :  27 Apr 13  (Deposition) - 22 May 13  (Release) - 24 Jul 13  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.95
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Keywords :  Ftsk-Hera Superfamily, P-Loop Atpase, Genome Packaging Ntpase, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  L. J. Happonen, E. Oksanen, L. Liljeroos, A. Goldman, T. Kajander, S. J. Butcher
The Structure Of The Ntpase That Powers Dna Packaging Into Sulfolobus Turreted Icosahedral Virus 2.
J. Virol. V. 87 8388 2013
PubMed-ID: 23698307  |  Reference-DOI: 10.1128/JVI.00831-13

(-) Compounds

Molecule 1 - GENOME PACKAGING NTPASE B204
    Chains: A, B
    EC Number: 3.-.-.-
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET22B
    Expression System Strain: ER2566/PTF16
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Gene: B204, STIV2_B204
    Organism Common: STIV2
    Organism Scientific: SULFOLOBUS TURRETED ICOSAHEDRAL VIRUS 2
    Organism Taxid: 754004

 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  (5, 7)

Asymmetric Unit (5, 7)
No.NameCountTypeFull Name
1AMP1Ligand/IonADENOSINE MONOPHOSPHATE
2FLC2Ligand/IonCITRATE ANION
3MG2Ligand/IonMAGNESIUM ION
4SO41Ligand/IonSULFATE ION
5ZN1Ligand/IonZINC ION
Biological Unit 1 (2, 2)
No.NameCountTypeFull Name
1AMP1Ligand/IonADENOSINE MONOPHOSPHATE
2FLC-1Ligand/IonCITRATE ANION
3MG-1Ligand/IonMAGNESIUM ION
4SO41Ligand/IonSULFATE ION
5ZN-1Ligand/IonZINC ION
Biological Unit 2 (1, 2)
No.NameCountTypeFull Name
1AMP-1Ligand/IonADENOSINE MONOPHOSPHATE
2FLC2Ligand/IonCITRATE ANION
3MG-1Ligand/IonMAGNESIUM ION
4SO4-1Ligand/IonSULFATE ION
5ZN-1Ligand/IonZINC ION

(-) Sites  (7, 7)

Asymmetric Unit (7, 7)
No.NameEvidenceResiduesDescription
1AC1SOFTWARELYS A:14 , SER A:15 , GLY A:16 , LYS A:17 , SER A:18 , TYR A:19 , TYR A:186 , ILE A:204 , HOH A:429 , HOH A:452BINDING SITE FOR RESIDUE AMP A 301
2AC2SOFTWAREASP A:39 , HIS A:41 , ASP A:73 , HIS A:108BINDING SITE FOR RESIDUE ZN A 302
3AC3SOFTWARELEU A:123 , ASN A:126 , ARG A:127 , GLN A:150 , ASP A:152 , HOH A:449BINDING SITE FOR RESIDUE SO4 A 303
4AC4SOFTWAREASN B:194 , FLC B:303 , HOH B:428 , HOH B:429 , HOH B:458BINDING SITE FOR RESIDUE MG B 301
5AC5SOFTWAREFLC B:304 , HOH B:448 , HOH B:449 , HOH B:450BINDING SITE FOR RESIDUE MG B 302
6AC6SOFTWAREASP B:192 , ASN B:194 , MG B:301 , HOH B:429 , HOH B:458BINDING SITE FOR RESIDUE FLC B 303
7AC7SOFTWAREHIS B:124 , ALA B:125 , ASN B:126 , ARG B:127 , HIS B:128 , GLN B:150 , MG B:302 , HOH B:418 , HOH B:448 , HOH B:449 , HOH B:450 , HOH B:451 , HOH B:454BINDING SITE FOR RESIDUE FLC B 304

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 4KFS)

(-) 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:202
                                                                                                                                                                                                                                          
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....eeeee.....hhhhhhhhhhhhhhhhh..eeeeee.......hhhhhee..hhhhhhhh.eeeee.....hhhhhhhhhhhhhhhhhh.eeeee..hhhhhh.....hhhhhhhhhh.....eeeeeee.hhhhhhhhhhhhh.eeee....hhhhhhhhhhhhhhhhhhhhh......eeeee....eeeee.... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4kfs A   1 MNPDDIVVLVGRKKSGKSYLIKHYFIPVLKAHKISYIIDDHNLSGSEYSKFGYNATSLSDIVSKQYVVVYDRANDDFFEKLWQASKLHSKKYGTTVLIIDEAYYHFKYKQKVTPAIDEALHANRHAGLGLILSTQRVYDLMPIVYKQADLIIMFYTREPNELRWISKYISAEAAEKVKTLKQYHFLIYDVNSQTIKIHKPIL 205
                                    10        20        30        40  ||    52        62        72  ||    83        93       103       113       123       133       143       153       163       173       183       193       203  
                                                                     43|                           75|                                                                                                                                
                                                                      46                            77                                                                                                                                


Chain B from PDB  Type:PROTEIN  Length:199
                                                                                                                                                                                                                                       
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....eeeee.....hhhhhhhhhhhhhhhhh..eeeeee....hhhhheee.hhhhhhhh.eeeee......hhhhhhhhhhhhhhhhhh.eeeee..hhhhhh.....hhhhhhhhhh.....eeeeeee.hhhhhhhhhhhhh.eeee....hhhhhhhhhhhhhhhhhhhhh.......eeee....ee...... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4kfs B   1 MNPDDIVVLVGRKKSGKSYLIKHYFIPVLKAHKISYIIDDHNLEYSKFGYNATSLSDIVSKQYVVVYDRAKNDDFFEKLWQASKLHSKKYGTTVLIIDEAYYHFKYKQKVTPAIDEALHANRHAGLGLILSTQRVYDLMPIVYKQADLIIMFYTREPNELRWISKYISAEAAEKVKTLKQYHFLIYDVNSQTIKIHKPI 204
                                    10        20        30        40  ||    55        65        75        85        95       105       115       125       135       145       155       165       175       185       195         
                                                                     43|                                                                                                                                                           
                                                                      49
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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 4KFS)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (2, 2)

Asymmetric Unit(hide GO term definitions)

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 Related Entries

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

UniProtKB/TrEMBL
        D5IEZ9_9VIRU | D5IEZ9: 4kfr 4kft 4kfu

(-) Related Entries Specified in the PDB File

4kfr STRUCTURE OF THE GENOME PACKAGING NTPASE B204 FROM SULFOLOBUS TURRETED ICOSAHEDRAL VIRUS 2 IN COMPLEX WITH SULFATE
4kft STRUCTURE OF THE GENOME PACKAGING NTPASE B204 FROM SULFOLOBUS TURRETED ICOSAHEDRAL VIRUS 2 IN COMPLEX WITH ATPGAMMAS
4kfu STRUCTURE OF THE GENOME PACKAGING NTPASE B204 FROM SULFOLOBUS TURRETED ICOSAHEDRAL VIRUS 2 IN COMPLEX WITH AMPPCP