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(-) Description

Title :  NOVEL DIMERIZATION MOTIF IN THE DEAD BOX RNA HELICASE HERA: FORM 1, COMPLETE DIMER, ASYMMETRIC
 
Authors :  D. Klostermeier, M. G. Rudolph
Date :  26 Aug 08  (Deposition) - 09 Dec 08  (Release) - 19 Jan 10  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.80
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Dead Box Rna Helicase, Dimer, Atp-Binding, Helicase, Hydrolase, Nucleotide-Binding (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  D. Klostermeier, M. G. Rudolph
A Novel Dimerization Motif In The C-Terminal Domain Of The Thermus Thermophilus Dead Box Helicase Hera Confers Substantial Flexibility.
Nucleic Acids Res. V. 37 421 2009
PubMed-ID: 19050012  |  Reference-DOI: 10.1093/NAR/GKN947
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - HERA
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET28A
    Expression System Strain: BL21 (DE3) RIL
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Fragment: INTERNAL FRAGMENT (UNP RESIDUES 215 TO 426)
    Gene: TT_C1895
    Organism Scientific: THERMUS THERMOPHILUS
    Organism Taxid: 262724
    Strain: HB27

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (0, 0)

(no "Ligand,Modified Residues,Ions" information available for 3EAS)

(-) Sites  (0, 0)

(no "Site" information available for 3EAS)

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 3EAS)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 3EAS)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3EAS)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 3EAS)

(-) Exons   (0, 0)

(no "Exon" information available for 3EAS)

(-) 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:206
 aligned with Q72GF3_THET2 | Q72GF3 from UniProtKB/TrEMBL  Length:517

    Alignment length:207
                                   229       239       249       259       269       279       289       299       309       319       329       339       349       359       369       379       389       399       409       419       
         Q72GF3_THET2   220 YEEEAVPAPVRGRLEVLSDLLYVASPDRAMVFTRTKAETEEIAQGLLRLGHPAQALHGDLSQGERERVLGAFRQGEVRVLVATDVAARGLDIPQVDLVVHYRLPDRAEAYQHRSGRTGRAGRGGRVVLLYGPRERRDVEALERAVGRRFKRVNPPTPEEVLEAKWRHLLARLARVPEKDYRLYQDFAGRLFAEGRVEVVAALLALLL 426
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeee....hhhhhhhhhhhhhh...eeee..hhhhhhhhhhhhhhhh..eeee....hhhhhhhhhhhhhhh...eeeehhhhhh........eeee.....hhhhhhhhhhhh...-....eeeee...hhhhhhhhhhhhh...ee....hhhhhhhhhhhhhhhhhhh.hhhhhh.hhhhhhhhhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3eas A 213 YEEEAVPAPVRGRLEVLSDLLYVASPDRAMVFTRTKAETEEIAQGLLRLGHPAQALHGDLSQGERERVLGAFRQGEVRVLVATDVAARGLDIPQVDLVVHYRLPDRAEAYQHRSGRTGRA-RGGRVVLLYGPRERRDVEALERAVGRRFKRVNPPTPEEVLEAKWRHLLARLARVPEKDYRLYQDFAGRLFAEGRVEVVAALLALLL 419
                                   222       232       242       252       262       272       282       292       302       312       322       332 |     342       352       362       372       382       392       402       412       
                                                                                                                                                 332 |                                                                                     
                                                                                                                                                   334                                                                                     


Chain B from PDB  Type:PROTEIN  Length:209
 aligned with Q72GF3_THET2 | Q72GF3 from UniProtKB/TrEMBL  Length:517

    Alignment length:209
                                   227       237       247       257       267       277       287       297       307       317       327       337       347       357       367       377       387       397       407       417         
         Q72GF3_THET2   218 VTYEEEAVPAPVRGRLEVLSDLLYVASPDRAMVFTRTKAETEEIAQGLLRLGHPAQALHGDLSQGERERVLGAFRQGEVRVLVATDVAARGLDIPQVDLVVHYRLPDRAEAYQHRSGRTGRAGRGGRVVLLYGPRERRDVEALERAVGRRFKRVNPPTPEEVLEAKWRHLLARLARVPEKDYRLYQDFAGRLFAEGRVEVVAALLALLL 426
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeeee....hhhhhhhhhhhhhh...eeeee.hhhhhhhhhhhhhhh...eeee....hhhhhhhhhhhhhhh...eeeeehhhhh........eeee.....hhhhhhhhhhh........eeeeee...hhhhhhhhhhhhh...ee....hhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3eas B 211 VTYEEEAVPAPVRGRLEVLSDLLYVASPDRAMVFTRTKAETEEIAQGLLRLGHPAQALHGDLSQGERERVLGAFRQGEVRVLVATDVAARGLDIPQVDLVVHYRLPDRAEAYQHRSGRTGRAGRGGRVVLLYGPRERRDVEALERAVGRRFKRVNPPTPEEVLEAKWRHLLARLARVPEKDYRLYQDFAGRLFAEGRVEVVAALLALLL 419
                                   220       230       240       250       260       270       280       290       300       310       320       330       340       350       360       370       380       390       400       410
   Legend:   → Mismatch (orange background)
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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 3EAS)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 3EAS)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 3EAS)

(-) Gene Ontology  (5, 5)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,B   (Q72GF3_THET2 | Q72GF3)
molecular function
    GO:0005524    ATP binding    Interacting selectively and non-covalently with ATP, adenosine 5'-triphosphate, a universally important coenzyme and enzyme regulator.
    GO:0004386    helicase activity    Catalysis of the reaction: NTP + H2O = NDP + phosphate, to drive the unwinding of a DNA or RNA helix.
    GO:0016787    hydrolase activity    Catalysis of the hydrolysis of various bonds, e.g. C-O, C-N, C-C, phosphoric anhydride bonds, etc. Hydrolase is the systematic name for any enzyme of EC class 3.
    GO:0003676    nucleic acid binding    Interacting selectively and non-covalently with any nucleic acid.
    GO:0000166    nucleotide binding    Interacting selectively and non-covalently with a nucleotide, any compound consisting of a nucleoside that is esterified with (ortho)phosphate or an oligophosphate at any hydroxyl group on the ribose or deoxyribose.

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 Related Entries

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

UniProtKB/TrEMBL
        Q72GF3_THET2 | Q72GF3: 3eaq 3ear 3i31 3i32 3mwj 3mwk 3mwl 3nbf 3nej 4i67 4i68 4i69 4kbf 4kbg 5mao

(-) Related Entries Specified in the PDB File

3eaq 3ear