Helicase: Difference between revisions
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<StructureSection load='1pjr' size='450' side='right' scene='' caption='DNA-dependent helicase PcrA (PDB code [[1pjr]])'> | <StructureSection load='1pjr' size='450' side='right' scene='' caption='DNA-dependent helicase PcrA (PDB code [[1pjr]])'> | ||
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Updated on {{REVISIONDAY2}}-{{MONTHNAME|{{REVISIONMONTH}}}}-{{REVISIONYEAR}} | Updated on {{REVISIONDAY2}}-{{MONTHNAME|{{REVISIONMONTH}}}}-{{REVISIONYEAR}} | ||
{{#tree:id=OrganizedByTopic|openlevels=0| | |||
*Helicase Mot1 | |||
**[[3oc3]] – Hel MOT1 heat domain + TFIID-1 – ''Encephalitozoon cuniculi''<BR /> | |||
*Helicase 308 | |||
**[[2p6r]] – AfHel 308 + DNA – ''Archaeoglobus fulgidus''<BR /> | |||
**[[2p6u]] - AfHel 308 | |||
*DNA helicase | |||
**[[3lfu]] – EcHel II – ''Escherichia coli''<BR /> | |||
**[[2is1]], [[2is2]] - EcHel II (mutant) + DNA<BR /> | |||
**[[2is4]], [[2is6]] - EcHel II (mutant) + ADP + DNA<BR /> | |||
**[[3fld]] – EcHel I C terminal<BR /> | |||
**[[4l0j]] – EcHel I translocation domain<br /> | |||
**[[2q7t]], [[2q7u]] – EcHel I relaxase domain (mutant) <BR /> | |||
**[[1p4d]] - EcHel I relaxase domain<BR /> | |||
**[[2a0i]] - EcHel I (mutant) + DNA<BR /> | |||
**[[1q2z]], [[1rw2]] – hHel II KU86 C terminal – NMR<BR /> | |||
**[[4c2t]], [[4c2u]], [[4c30]] – DrHel II + DNA - ''Deinococcus radiodurans''<br /> | |||
**[[1e0j]], [[1e0k]] – Hel 4D domain – Phage T7 | |||
*ATP-dependent helicase ATRX | |||
**[[3qln]] - hATRX ADD domain – human<BR /> | |||
**[[2ld1]], [[2jm1]] - hATRX ADD domain - NMR<BR /> | |||
**[[3ql9]] – hATRX ADD domain + histone H3 peptide <BR /> | |||
**[[2lbm]] - hATRX ADD domain + histone H3 peptide – NMR<BR /> | |||
**[[3qla]], [[3qlc]] - hATRX ADD domain (mutant) + histone H3 peptide<BR /> | |||
**[[2xzp]] - hRENT1 helicase domain<BR /> | |||
**[[2wjv]] - hRENT1 helicase CH and C terminal domains<BR /> | |||
**[[2wjy]] - hRENT1 helicase CH domains<BR /> | |||
**[[2xzo]] – hRENT1 helicase domain + RNA<BR /> | |||
*ATP-dependent helicase Rho | |||
**[[3l0o]] – TmRho – ''Thermotoga maritima''<BR /> | |||
**[[3ice]] – EcRho + ADP + BeF3 + RNA<BR /> | |||
**[[2ht1]] - EcRho + RNA<BR /> | |||
**[[1a8v]] – EcRho RNA-binding domain<br /> | |||
**[[2a8v]] – EcRho RNA-binding domain + RNA<br /> | |||
**[[1pv4]] – EcRho + DNA<br /> | |||
**[[1pvo]] – EcRho + ssRNA + ANPPNP<br /> | |||
**[[1xpr]], [[1xpu]] - EcRho + ssRNA + antibiotic | |||
*ATP-dependent helicase MFD | |||
**[[3hjh]] – EcMFD motor domain | |||
*ATP-dependent helicase HEPA | |||
**[[3dmq]] – EcHEPA | |||
*ATP-dependent helicase E1 | |||
**[[2v9p]] – PvE1 helicase domain – Bovine papillomavirus<br /> | |||
**[[2gxa]] – PvE1 + DNA + Mg-ADP<br /> | |||
**[[1tue]] – PvE1 + E2 – human papillomavirus | |||
*ATP-dependent helicase CHD | |||
**[[2h1e]], [[2xb0]], [[3mwy]] – yCHD1 chromodomain<BR /> | |||
**[[2dy7]] - yCHD1 chromodomain 1 – NMR<BR /> | |||
**[[2dy8]] - yCHD1 chromodomain 2 – NMR<BR /> | |||
**[[3ted]] - yCHD1 chromodomain 1 + DNA<br /> | |||
**[[2b2y]] – hCHD1 <br /> | |||
**[[4b4c]] – hCHD1 DNA-binding domain<br /> | |||
**[[2b2t]], [[2b2u]], [[2b2v]], [[2b2w]] – hCHD1 (mutant) + histone H3 tail<br /> | |||
**[[4nw2]] – hCHD1 + NS1 peptide<br /> | |||
**[[2ee1]] – hCHD4 chromodomain – NMR<br /> | |||
**[[2l5u]] – hCHD4 PHD1 domain – NMR<br /> | |||
**[[2l75]] – hCHD4 PHD2 domain + histone H3 peptide– NMR<br /> | |||
**[[2epb]] – hCHD6 chromodomain – NMR<br /> | |||
**[[2ckc]], [[2v0e]], [[2v0f]] – hCHD7 BRK domain - NMR <br /> | |||
**[[2dl6]] – hCHD8 BRK domain - NMR <br /> | |||
**[[2cka]] – hCHD8 <br /> | |||
*Dead box ATP-dependent RNA helicase | |||
**[[3fho]] – DBP5 – fission yeast<BR /> | |||
**[[2kbe]] – yDBP5 N terminal – NMR<BR /> | |||
**[[2kbf]] - yDBP5 C terminal – NMR<BR /> | |||
**[[3gfp]] - yDBP5 C-terminal<BR /> | |||
**[[2i4i]] – hDDX3X<BR /> | |||
**[[2jgn]] – hDDX3X helicase domain<BR /> | |||
**[[3ly5]] – hDDX18 dead domain<BR /> | |||
**[[2rb4]] – hDDX25 helicase domain<BR /> | |||
**[[2p6n]] – hDDX41 helicase domain (mutant) <BR /> | |||
**[[2e29]], [[2m3d]] - hDDX50 GUCT domain - NMR<BR /> | |||
**[[2rqa]] – hDHX58 C terminal – NMR<BR /> | |||
**[[3eqt]] - hDHX58 C terminal + RNA<BR /> | |||
**[[2eqs]] – hDHX8 S1 domain<BR /> | |||
**[[3i4u]]– hDHX8 residues 950-1183<br /> | |||
**[[1vec]] – hP54 N terminal<BR /> | |||
**[[2hjv]] – BsDBPA domain 2 – ''Bacillus subtilis''<BR /> | |||
**[[2g0c]] - BsDBPA RNA-binding domain<br /> | |||
**[[3eaq]], [[3ear]], [[3eas]] – TtHera residues 215-426 - ''Thermus thermophilus''<br /> | |||
**[[3i31]] - TtHera residues 431-517<br /> | |||
**[[3i32]] - TtHera residues 218-517<br /> | |||
**[[3nej]] - TtHera N terminal (mutant) | |||
*''Dead box ATP-dependent RNA helicase complexes'' | |||
**[[3rrm]] – yDBP5 residues 91-482 (mutant) + GLE1 + NUP159 + ADP + IP6 – yeast<BR /> | |||
**[[3rrn]] - yDBP5 residues 91-482 (mutant) + GLE1 + IP6<BR /> | |||
**[[3pew]], [[3pey]] - yDBP5 residues 91-482 (mutant) + ADP + BeF3 + RNA<BR /> | |||
**[[3peu]], [[3pev]] - yDBP5 C-terminal (mutant) + GLE1 + IP6<BR /> | |||
**[[3jrv]] – DDX3X + protein K7 – Vaccinia virus<BR /> | |||
**[[3fmo]], [[3fhc]] – hDBP5 + Nup214<BR /> | |||
**[[3fht]] – hDBP5 + AMPPNP + RNA<BR /> | |||
**[[3fmp]] – hDDX19B + Nup214<br /> | |||
**[[3g0h]] – hDDX19B residues 54-275 + ATP analog + RNA<BR /> | |||
**[[3ews]] - hDDX19B residues 54-275 + ADP<BR /> | |||
**[[3dkp]] – hDDX52 domain I + ADP<BR /> | |||
**[[3tmi]] - hDHX58 residues 232-925 + RNA<br /> | |||
**[[2wax]], [[2way]] – hDDX6 C terminal + EDC3-FDF peptide<BR /> | |||
**[[2j0s]], [[2j0q]], [[2hyi]] – hDDX48 + protein mago nashi homolog + RNA-binding protein 8A + protein CASC3 + RNA<BR /> | |||
**[[2j0u]] - hDDX48 + protein CASC3<BR /> | |||
**[[2db3]] – VASA residues 200-623 + RNA – ''Drosophila melanogaster''<br /> | |||
**[[3nbf]] - TtHera N terminal (mutant) + 8-oxo-ADP<br /> | |||
**[[3moj]] - BsDBPA RNA-binding domain + RNA | |||
*ATP-dependent RNA helicase | |||
**[[2xzl]] – yNAM7 CH and helicase domains + RNA<BR /> | |||
**[[2xgj]] – yDOB1 residues 81-1073 + RNA<BR /> | |||
**[[3l9o]] - yDOB1 residues 1-1073 + peptide<BR /> | |||
**[[2xau]], [[3kx2]] – yPRP43 + ADP<BR /> | |||
**[[3i5x]], [[3i5y]] – yMSS116 residues 37-597 + AMPPNP + RNA<BR /> | |||
**[[3sqw]], [[3sqx]] - yMSS116 residues 88-664 + AMPPNP + RNA<br /> | |||
**[[3i61]] - yMSS116 residues 37-597 + ADP + BeF3 + RNA<BR /> | |||
**[[3i62]] - yMSS116 residues 37-597 + ADP + AlF4 + RNA<BR /> | |||
**[[2vso]], [[2vsx]] – yEIF4A + initiation factor 4F middle domain<BR /> | |||
**[[2g9n]] - hEIF4A dead domain | |||
*Viral ATP-dependent RNA helicase NS3 | |||
**[[3o8b]], [[3o8d]], [[1cu1]], [[8ohm]], [[1hei]], [[4a92]] – HvHel NS3 – Hepatitis C virus<BR /> | |||
**[[1onb]], [[1jr6]] - HvHel NS3 arginine-rich domain – NMR<BR /> | |||
**[[2jlq]], [[2bhr]], [[2bmf]], [[2whx]], [[2wzq]] – DvHel NS3 residues 1646-2092 – Dengue virus<BR /> | |||
**[[2z83]] – Hel NS3 residues 167-624 – Japanese encephalitis virus<BR /> | |||
**[[2v8o]], [[2wv9]] - Hel NS3 helicase domain – Murray valley encephalitis virus<BR /> | |||
**[[2qeq]] - Hel NS3 residues 1691-2124 – Kunjin virus<BR /> | |||
**[[2v6i]] – KvHel helicase domain – Kokobera virus<BR /> | |||
**[[2v6j]] - KvHel helicase domain (mutant) | |||
*''Viral ATP-dependent RNA helicase NS3 complexes'' | |||
**[[3o8c]], [[3o8r]], [[3kqh]], [[3kqk]], [[3kql]], [[3kqn]], [[3kqu]], [[1a1v]] - HvHel NS3 + RNA<BR /> | |||
**[[2f9v]] - HvHel NS3 protease domain + polyprotein<BR /> | |||
**[[2a4g]], [[1rtl]], [[1w3c]], [[1dxp]] - HvHel NS3 protease domain + NS4A peptide<BR /> | |||
**[[2a4q]], [[2a4r]], [[2f9u]], [[2fm2]], [[1dy8]], [[1dy9]] - HvHel NS3 protease domain + NS4A peptide + inhibitor<BR /> | |||
**[[2jlr]] - DvHel NS3 residues 1646-2092 + AMPPNP<BR /> | |||
**[[2jls]] - DvHel NS3 residues 1646-2092 + ADP<BR /> | |||
**[[2jlu]], [[2jlw]] - DvHel NS3 residues 1646-2092 + RNA<BR /> | |||
**[[2jlv]] - DvHel NS3 residues 1646-2092 + AMPPNP + RNA<BR /> | |||
**[[2jlx]], [[2jly]], [[2jlz]] - DvHel NS3 residues 1646-2092 + ADP + RNA<BR /> | |||
**[[2vbc]] - DvHel NS3 residues 1475-2092 + NS2A peptide | |||
*ATP-dependent RNA helicase SUV3 | |||
**[[3rc3]] – hSUV3 residues 47-722<BR /> | |||
**[[3og8]] – hDDX58 C terminal + RNA<BR /> | |||
**[[3rc8]] - hSUV3 residues 47-722 + RNA<BR /> | |||
*ATP-dependent RNA helicase A | |||
**[[3llm]] – hHel A<BR /> | |||
**[[3vyx]], [[3vyy]] - hHel A RNA-binding domain + RNA<br /> | |||
**[[1whq]], [[2rs6]], [[2rs7]] – Hel A RNA-binding domain – mouse - NMR<BR /> | |||
*ATP-dependent RNA helicase Repa | |||
**[[1uaa]] – EcRepa + DNA<br /> | |||
**[[1nlf]] - EcRepa + sulfate<br /> | |||
**[[1g8y]], [[1olo]] - EcRepa | |||
*ATP-dependent RNA helicase HEF | |||
**[[1x2i]] – HEF DNA-binding domain – ''Pyrococcus furiosus'' | |||
*Werner syndrome ATP-dependent DNA helicase | |||
**[[2e1e]], [[2e1f]], [[2dgz]] – hWRN HRDC domain<BR /> | |||
**[[2fbt]] - hWRN exonuclease domain<BR /> | |||
**[[2fbv]], [[2fbx]], [[2fby]], [[2fc0]] - hWRN exonuclease domain + metal ion | |||
**[[3aaf]] – hWRN C terminal + DNA<br /> | |||
**[[2e6l]], [[2e6m]]- WRN exonuclease domain - mouse | |||
*ATP-dependent DNA helicase Q | |||
**[[2v1x]] - hQ1 residues 49-616<BR /> | |||
**[[2wwy]] – hQ1 residues 49-616 + DNA<br /> | |||
**[[2kmu]] – hQ4 N terminal - NMR | |||
*ATP-dependent DNA helicase RecG | |||
**[[1gm5]] – TmRecG + DNA <BR /> | |||
*ATP-dependent DNA helicase RecQ | |||
**[[3iuo]] – RecQ residues 604-725 – ''Porphyromonas gingivalis''<BR /> | |||
**[[2rhf]] – DrRecQ HRDC domain 3 – ''Deinococcus radiodurans''<BR /> | |||
**[[2ma1]] - DrRecQ HRDC domain – NMR <br /> | |||
**[[1wud]] - EcRecQ HRDC domain<BR /> | |||
**[[1oyw]] - EcRecQ catalytic domain<BR /> | |||
**[[1oyy]] - EcRecQ catalytic domain + ATP<BR /> | |||
**[[1d8b]] - yRecQ HRDC domain - NMR<BR /> | |||
*ATP-dependent DNA helicase RuvA, RuvB | |||
**[[2ztc]], [[2ztd]], [[2zte]], [[2h5x]] – MtRuvA – ''Mycobacterium tuberculosis''<BR /> | |||
**[[1bvs]] - RuvA – ''Mycobacterium leprae''<BR /> | |||
**[[1cuk]], [[1hjp]] – EcRuvA<br /> | |||
**[[1d8l]] – EcRuvA N terminal<BR /> | |||
**[[1c7y]], [[1bdx]] – EcRuvA + DNA<BR /> | |||
**[[1hqc]] – TtRuvB<br /> | |||
**[[1ixr]], [[1ixs]] – TtRuvA + RuvB (mutant) <BR /> | |||
**[[1in4]] – TmRuvB<BR /> | |||
**[[1in5]], [[1in6]], [[1in7]], [[1in8]], [[1j7k]] – TmRuvB (mutant)<br /> | |||
**[[3pfi]] – RuvB + ADP – ''Campylobacter jejuni'' | |||
*ATP-dependent DNA helicase UVSW | |||
**[[2oca]], [[1rif]]- T4UVSW (mutant) – Enterobacteria phage T4<BR /> | |||
**[[2jpn]] - T4UVSW | |||
*ATP-dependent DNA helicase UVRD | |||
**[[2is1]] - EcUVRD + DNA | |||
*ATP-dependent DNA helicase PriA | |||
**[[2d7e]] – EcPriA DNA-binding domain<BR /> | |||
**[[2d7g]], [[2d7h]], [[2dwl]], [[2dwm]], [[2dwn]] – EcPriA N terminal + polynucleotide | |||
*ATP-dependent DNA helicase PcrA | |||
**[[1qhg]] – GsPcrA (mutant) + ADPNP – ''Geobacillus stearothermophilus''<BR /> | |||
**[[1qhh]] - GsPcrA + ADPNP<br /> | |||
**[[2pjr]], [[3pjr]] - GsPcrA + DNA<br /> | |||
**[[1pjr]] - GsPcrA | |||
*DnaB helicase | |||
**[[3gxv]] – HpDnaB – ''Helicobacter pylori''<BR /> | |||
**[[4a1f]] – HpDnaB C terminal<br /> | |||
**[[2r6d]] – BsDnaB – ''Bacillus stearothermophilus''<BR /> | |||
**[[2r6e]], [[2r6d]] - GsDnaB <BR /> | |||
**[[2r5u]] – MtDnaB N terminal<BR /> | |||
**[[3bgw]] – BpDnaB-like – Bacillus phage SPP1<BR /> | |||
**[[3bh0]] - BpDnaB-like G40P ATPase domain<BR /> | |||
**[[2q6t]] – DnaB – ''Thermus aquaticus''<BR /> | |||
**[[1mi8]] – DnaB – ''Synechocystis''<BR /> | |||
**[[1b79]] - EcDnaB N terminal<BR /> | |||
**[[1jwe]] - EcDnaB N terminal - NMR<BR /> | |||
**[[2r6c]], [[2r6a]] – BsDnaB + DnaG helicase-binding domain | |||
*DnaC helicase | |||
**[[2vyf]]– GkDnaC – ''Geobacillus kaustophilus''<br /> | |||
**[[2vye]] – GkDnaC + DNA <br /> | |||
**[[3ec2]] – AaDnaC – ''Aquifex aeolicus''<br /> | |||
**[[3ecc]] – AaDnaC + ADP<br /> | |||
*Helicase NSP2 | |||
**[[2hwk]] – NSP2 – Venzuelan equine encephalitis virus | |||
*Helicase SNF2 | |||
**[[1z5z]] – SsSNF2 C terminal – ''Sulfolobus solfataricus''<br /> | |||
**[[1z63]] - SsSNF2 ATPase core + DNA<br /> | |||
**[[1z6a]] - SsSNF2 ATPase core | |||
*Helicase SKI2 | |||
**[[2va8]] – SsSKI2<br /> | |||
**[[4a4k]] – ySKI2 insertion domain<br /> | |||
**[[4a4z]] – ySKI2 + AMPPNP | |||
*Helicase XPD | |||
**[[3crv]], [[3crw]] – XPD – ''Sulfolobus acidocaldarius''<br /> | |||
*Pre-mRNA-splicing Helicase (Brr2) | |||
**[[3hib]], [[3im1]], [[3im2]] – yBrr2 2nd SEC63 domain<br /> | |||
**[[4bgd]] – yBrr2 + pre-mRNA-splicing factor 8<br /> | |||
}} | |||
==References== | ==References== | ||
Crystal structure of a DExx box DNA helicase., Subramanya HS, Bird LE, Brannigan JA, Wigley DB, Nature. 1996 Nov 28;384(6607):379-83. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/8934527 8934527]<br /> | Crystal structure of a DExx box DNA helicase., Subramanya HS, Bird LE, Brannigan JA, Wigley DB, Nature. 1996 Nov 28;384(6607):379-83. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/8934527 8934527]<br /> | ||