HELICchelicase superfamily c-terminal domain
|SMART accession number:||SM00490|
|Interpro abstract (IPR001650):|
Helicases have been classified in 5 superfamilies (SF1-SF5). For the two largest groups, commonly referred to as SF1 and SF2, a total of seven characteristic motifs has been identified [(PUBMED:2546125)]. These two superfamilies encompass a large number of DNA and RNA helicases from archaea, eubacteria, eukaryotes and viruses.
This entry represents the C-terminal domain found in proteins belonging to the helicase superfamilies 1 and 2. Included in this group is the eukaryotic translation initiation factor 4A (eIF4A), a member of the DEA(D/H)-box RNA helicase family. The structure of the carboxyl-terminal domain of eIF4A has been determined; it has a parallel alpha-beta topology that superimposes, with minor variations, on the structures and conserved motifs of the equivalent domain in other, distantly related helicases [(PUBMED:11087862)].
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- Evolution (species in which this domain is found)
Taxonomic distribution of proteins containing HELICc domain.
This tree includes only several representative species. The complete taxonomic breakdown of all proteins with HELICc domain is also avaliable.
Click on the protein counts, or double click on taxonomic names to display all proteins containing HELICc domain in the selected taxonomic class.
- Literature (relevant references for this domain)
Primary literature is listed below; Automatically-derived, secondary literature is also avaliable.
- Bork P, Koonin EV
- An expanding family of helicases within the 'DEAD/H' superfamily.
- Nucleic Acids Res. 1993; 21: 751-2
- Disease (disease genes where sequence variants are found in this domain)
SwissProt sequences and OMIM curated human diseases associated with missense mutations within the HELICc domain.
Protein Disease Transcriptional regulator ATRX (P46100) (SMART) OMIM:300032: Alpha-thalassemia/mental retardation syndrome
OMIM:301040: Juberg-Marsidi syndrome
OMIM:309590: Sutherland-Haan syndrome
OMIM:309470: Smith-Fineman-Myers syndrome
- Metabolism (metabolic pathways involving proteins which contain this domain)
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% proteins involved KEGG pathway ID Description 42.40 map00500 Starch and sucrose metabolism 42.40 map00790 Folate biosynthesis 8.69 map00230 Purine metabolism 5.69 map03090 Type II secretion system 0.52 map04310 Wnt signaling pathway 0.10 map00970 Aminoacyl-tRNA biosynthesis 0.10 map03020 RNA polymerase 0.10 map00330 Arginine and proline metabolism
This information is based on mapping of SMART genomic protein database to KEGG orthologous groups. Percentage points are related to the number of proteins with HELICc domain which could be assigned to a KEGG orthologous group, and not all proteins containing HELICc domain. Please note that proteins can be included in multiple pathways, ie. the numbers above will not always add up to 100%.
- Structure (3D structures containing this domain)
3D Structures of HELICc domains in PDB
PDB code Main view Title 1c4o CRYSTAL STRUCTURE OF THE DNA NUCLEOTIDE EXCISION REPAIR ENZYME UVRB FROM THERMUS THERMOPHILUS 1d2m UVRB PROTEIN OF THERMUS THERMOPHILUS HB8; A NUCLEOTIDE EXCISION REPAIR ENZYME 1d9x CRYSTAL STRUCTURE OF THE DNA REPAIR PROTEIN UVRB 1d9z CRYSTAL STRUCTURE OF THE DNA REPAIR PROTEIN UVRB IN COMPLEX WITH ATP 1fuk CRYSTAL STRUCTURE OF THE CARBOXY TERMINAL DOMAIN OF YEAST EIF4A 1fuu YEAST INITIATION FACTOR 4A 1gm5 Structure of RecG bound to three-way DNA junction 1hv8 CRYSTAL STRUCTURE OF A DEAD BOX PROTEIN FROM THE HYPERTHERMOPHILE METHANOCOCCUS JANNASCHII 1jr6 Solution Structure of an Engineered Arginine-rich Subdomain 2 of the Hepatitis C Virus NS3 RNA Helicase 1onb Solution structure of an engineered arginine-rich subdomain 2 of the hepatitis C virus NS3 RNA helicase 1oyw Structure of the RecQ Catalytic Core 1oyy Structure of the RecQ Catalytic Core bound to ATP-gamma-S 1s2m Crystal Structure of the DEAD box protein Dhh1p 1t5i Crystal structure of the C-terminal domain of UAP56 1t5l Crystal structure of the DNA repair protein UvrB point mutant Y96A revealing a novel fold for domain 2 1wp9 Crystal structure of Pyrococcus furiosus Hef helicase domain 1xti Structure of Wildtype human UAP56 1xtj structure of human UAP56 in complex with ADP 1xtk structure of DECD to DEAD mutation of human UAP56 1yks Crystal structure of yellow fever virus NS3 helicase 1ymf crystal structure of yellow fever virus NS3 helicase complexed with ADP 1z3i Structure of the SWI2/SNF2 chromatin remodeling domain of eukaryotic Rad54 1z5z Sulfolobus solfataricus SWI2/SNF2 ATPase C-terminal domain 1z63 Sulfolobus solfataricus SWI2/SNF2 ATPase core in complex with dsDNA 1z6a Sulfolobus solfataricus SWI2/SNF2 ATPase core domain 2bhr Dengue virus RNA helicase 2bmf Dengue virus RNA helicase at 2.4A 2d7d Structural insights into the cryptic DNA dependent ATP-ase activity of UvrB 2db3 Structural basis for RNA unwinding by the DEAD-box protein Drosophila Vasa 2eyq Crystal structure of Escherichia coli transcription-repair coupling factor 2fdc Structural Basis of DNA Damage Recognition and Processing by UvrB: crystal structure of a UvrB/DNA complex 2fwr Structure of Archaeoglobus Fulgidis XPB 2fzl Structure of C-terminal domain of Archaeoglobus fulgidus XPB 2hjv Structure of the second domain (residues 207-368) of the Bacillus subtilis YxiN protein 2hxy Crystal structure of human apo-eIF4AIII 2hyi Structure of the human exon junction complex with a trapped DEAD-box helicase bound to RNA 2i4i Crystal Structure of human DEAD-box RNA helicase DDX3X 2j0q The crystal structure of the Exon Junction Complex at 3.2 A resolution 2j0s The crystal structure of the Exon Junction Complex at 2.2 A resolution 2j0u The crystal structure of eIF4AIII-Barentsz complex at 3.0 A resolution 2jgn DDX3 helicase domain 2kbf solution structure of carboxyl-terminal domain of Dbp5p 2nmv Damage detection by the UvrABC pathway: Crystal structure of UvrB bound to fluorescein-adducted DNA 2oca The crystal structure of T4 UvsW 2p6n Human DEAD-box RNA helicase DDX41, helicase domain 2p6r Crystal structure of superfamily 2 helicase Hel308 in complex with unwound DNA 2p6u Apo structure of the Hel308 superfamily 2 helicase 2qeq Crystal structure of kunjin virus ns3 helicase 2rb4 Crystal structure of the Helicase domain of human DDX25 RNA helicase 2v1x Crystal structure of human RECQ-like DNA helicase 2v6i Kokobera Virus Helicase 2v6j Kokobera Virus Helicase: Mutant Met47Thr 2v8o Structure of the Murray Valley encephalitis virus RNA helicase to 1. 9A resolution 2va8 DNA Repair Helicase Hel308 2vso Crystal Structure of a Translation Initiation Complex 2vsx Crystal Structure of a Translation Initiation Complex 2wax Structure of the human DDX6 C-terminal domain in complex with an EDC3- FDF peptide 2way Structure of the human DDX6 C-terminal domain in complex with an EDC3- FDF peptide 2wv9 Crystal Structure of the NS3 protease-helicase from Murray Valley encephalitis virus 2wwy Structure of human RECQ-like helicase in complex with a DNA substrate 2xau Crystal structure of the Prp43p DEAH-box RNA helicase in complex with ADP 2xb2 Crystal structure of the core Mago-Y14-eIF4AIII-Barentsz-UPF3b assembly shows how the EJC is bridged to the NMD machinery 2xgj Structure of Mtr4, a DExH helicase involved in nuclear RNA processing and surveillance 2yjt Crystal structure of E. coli DEAD-box protein SrmB bound to regulator of ribonuclease activity A (RraA) 2ykg Structural insights into RNA recognition by RIG-I 2z0m Crystal structure of hypothetical ATP-dependent RNA helicase from Sulfolobus tokodaii 2z83 Crystal Structure of Catalytic Domain of Japanese Encephalitis Virus NS3 Helicase/Nucleoside Triphosphatase at a Resolution 1.8 2zj2 Archaeal DNA helicase Hjm apo state in form 1 2zj5 Archaeal DNA helicase Hjm complexed with ADP in form 1 2zj8 Archaeal DNA helicase Hjm apo state in form 2 2zja Archaeal DNA helicase Hjm complexed with AMPPCP in form 2 2zu6 crystal structure of the eIF4A-PDCD4 complex 3dmq Crystal structure of RapA, a Swi2/Snf2 protein that recycles RNA polymerase during transcription 3eaq Novel dimerization motif in the DEAD box RNA helicase Hera form 2, complete dimer, symmetric 3ear Novel dimerization motif in the DEAD box RNA helicase Hera: form 1, partial dimer 3eas Novel dimerization motif in the DEAD box RNA helicase Hera: form 1, complete dimer, asymmetric 3eiq Crystal structure of Pdcd4-eIF4A 3ews Human DEAD-box RNA-helicase DDX19 in complex with ADP 3ex7 The crystal structure of EJC in its transition state 3fho Structure of S. pombe Dbp5 3fht Crystal structure of human Dbp5 in complex with AMPPNP and RNA 3fmp Crystal structure of the nucleoporin Nup214 in complex with the DEAD-box helicase Ddx19 3g0h Human dead-box RNA helicase DDX19, in complex with an ATP-analogue and RNA 3gfp Structure of the C-terminal domain of the DEAD-box protein Dbp5 3i32 Dimeric structure of a Hera helicase fragment including the C-terminal RecA domain, the dimerization domain, and the RNA binding domain 3i5x Structure of Mss116p bound to ssRNA and AMP-PNP 3i5y Structure of Mss116p bound to ssRNA containing a single 5-BrU and AMP-PNP 3i61 Structure of Mss116p bound to ssRNA and ADP-Beryllium Fluoride 3i62 Structure of Mss116p bound to ssRNA and ADP-Aluminum Fluoride 3kx2 Crystal structure of Prp43p in complex with ADP 3l9o Crystal Structure of Mtr4, a co-factor of the Nuclear Exosome 3mwy Crystal structure of the chromodomain-ATPase portion of the yeast Chd1 chromatin remodeler 3oiy Helicase domain of reverse gyrase from Thermotoga maritima 3p4x Helicase domain of reverse gyrase from Thermotoga maritima 3p4y Helicase domain of reverse gyrase from Thermotoga maritima - P2 form 3peu S. cerevisiae Dbp5 L327V C-terminal domain bound to Gle1 H337R and IP6 3pev S. cerevisiae Dbp5 L327V C-terminal domain bound to Gle1 and IP6 3pew S. cerevisiae Dbp5 L327V bound to RNA and ADP BeF3 3pey S. cerevisiae Dbp5 bound to RNA and ADP BeF3 3rc3 Human Mitochondrial Helicase Suv3 3rc8 Human Mitochondrial Helicase Suv3 in Complex with Short RNA Fragment 3rrm S. cerevisiae dbp5 l327v bound to nup159, gle1 h337r, ip6 and adp 3rrn S. cerevisiae dbp5 l327v bound to gle1 h337r and ip6 3sqw Structure of Mss116p (NTE deletion) bound to ssRNA and AMP-PNP 3sqx Structure of Mss116p (NTE and C-tail double deletion) bound to ssRNA and AMP-PNP 3tbk Mouse RIG-I ATPase Domain 3tmi Structural Basis for RNA Recognition and Activation of RIG-I 3uwx Crystal structure of UvrA-UvrB complex 3v4r Crystal structure of a UvrB dimer-DNA complex 3zd6 Snapshot 1 of RIG-I scanning on RNA duplex 3zd7 Snapshot 3 of RIG-I scanning on RNA duplex 4a2p Structure of duck RIG-I helicase domain 4a2q Structure of duck RIG-I tandem CARDs and helicase domain 4a2w Structure of full-length duck RIG-I 4a36 Structure of duck RIG-I helicase domain bound to 19-mer dsRNA and ATP transition state analogue 4a4z CRYSTAL STRUCTURE OF THE S. CEREVISIAE DEXH HELICASE SKI2 BOUND TO AMPPNP 4ay2 Capturing 5' tri-phosphorylated RNA duplex by RIG-I 4bgd Crystal structure of Brr2 in complex with the Jab1/MPN domain of Prp8 4bpb STRUCTURAL INSIGHTS INTO RNA RECOGNITION BY RIG-I 4bru Crystal structure of the yeast Dhh1-Edc3 complex 4brw Crystal structure of the yeast Dhh1-Pat1 complex 4buj Crystal structure of the S. cerevisiae Ski2-3-8 complex 4c9b Crystal structure of eIF4AIII-CWC22 complex 4cdg Crystal structure of the Bloom's syndrome helicase BLM in complex with Nanobody 4cgz Crystal structure of the Bloom's syndrome helicase BLM in complex with DNA 4crw Complex of human DDX6 (RECA-C) and CNOT1 (MIF4G) 4ct4 CNOT1 MIF4G domain - DDX6 complex 4ct5 DDX6 4db2 Mss116p DEAD-box helicase domain 2 bound to an RNA duplex 4db4 Mss116p DEAD-box helicase domain 2 bound to a chimaeric RNA-DNA duplex 4ern Crystal structure of the C-terminal domain of human XPB/ERCC-3 excision repair protein at 1.80 A 4f91 Brr2 Helicase Region 4f92 Brr2 Helicase Region S1087L 4f93 Brr2 Helicase Region S1087L, Mg-ATP 4gl2 Structural Basis for dsRNA duplex backbone recognition by MDA5 4kbf two different open conformations of the helicase core of the RNA helicase Hera 4kbg almost closed conformation of the helicase core of the RNA helicase Hera 4kit Crystal structure of human Brr2 in complex with the Prp8 Jab1/MPN domain 4ljy Crystal structure of RNA splicing effector Prp5 in complex with ADP 4lk2 Crystal structure of RNA splicing effector Prp5 4nl4 PriA Helicase Bound to ADP 4nl8 PriA Helicase Bound to SSB C-terminal Tail Peptide 4o3m Ternary complex of Bloom's syndrome helicase
- Links (links to other resources describing this domain)
PFAM helicase_C INTERPRO IPR001650