Helicase: Difference between revisions

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Michal Harel (talk | contribs)
32,831 edits
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Line 79: Line 79:
**[[2q7t]], [[2q7u]] – EcHel I relaxase domain (mutant) <BR />
**[[2q7t]], [[2q7u]] – EcHel I relaxase domain (mutant) <BR />
**[[1p4d]] - EcHel I relaxase domain<BR />
**[[1p4d]] - EcHel I relaxase domain<BR />
**[[4n8o]] - EcHel I + DNA<br />
**[[2a0i]] - EcHel I (mutant) + DNA<BR />
**[[2a0i]] - EcHel I (mutant) + DNA<BR />
**[[1q2z]], [[1rw2]] – hHel II KU86 C terminal – NMR<BR />
**[[1q2z]], [[1rw2]] – hHel II KU86 C terminal – NMR<BR />
Line 101: Line 102:
**[[2wjy]] - hRENT1 helicase CH domains<BR />
**[[2wjy]] - hRENT1 helicase CH domains<BR />
**[[2xzo]] – hRENT1 helicase domain + RNA<BR />
**[[2xzo]] – hRENT1 helicase domain + RNA<BR />
*ATP-dependent helicase Fun30
**[[5gn1]] – yFun C-terminal<br />


*ATP-dependent helicase Rho
*ATP-dependent helicase Rho
Line 145: Line 150:
**[[2dl6]] – hCHD8 BRK domain - NMR <br />
**[[2dl6]] – hCHD8 BRK domain - NMR <br />
**[[2cka]] – hCHD8 <br />
**[[2cka]] – hCHD8 <br />
*ATP-dependent DNA helicase PIF1
**[[5fhh]] – hPIF residues 200-641<br />
*ATP-dependent DNA helicase TA0057
**[[5h8w]] – TaTA0 + DNA – ''Thermoplasma acidophilum''<br />


*Dead box ATP-dependent RNA helicase
*Dead box ATP-dependent RNA helicase
Line 152: Line 165:
**[[2kbf]] - yDBP5 C terminal – NMR<BR />
**[[2kbf]] - yDBP5 C terminal – NMR<BR />
**[[3gfp]] - yDBP5 C-terminal<BR />
**[[3gfp]] - yDBP5 C-terminal<BR />
**[[4xw3]] – hDDX1 SPRY domain<br />
**[[2i4i]] – hDDX3X residues 167-581<BR />
**[[2i4i]] – hDDX3X residues 167-581<BR />
**[[4px9]] - hDDX3X residues 135-407<br />
**[[4px9]] - hDDX3X residues 135-407<br />
**[[4pxa]] - hDDX3X residues 135-407 (mutant)<br />
**[[4pxa]] - hDDX3X residues 135-407 (mutant)<br />
**[[5e7i]] - hDDX3X residues 133-584<br />
**[[2jgn]] – hDDX3X helicase domain residues 408-579<BR />
**[[2jgn]] – hDDX3X helicase domain residues 408-579<BR />
**[[3ly5]] – hDDX18 dead domain<BR />
**[[3ly5]] – hDDX18 dead domain<BR />
Line 170: Line 185:
**[[3i31]] - TtHera residues 431-517<br />
**[[3i31]] - TtHera residues 431-517<br />
**[[3i32]] - TtHera residues 218-517<br />
**[[3i32]] - TtHera residues 218-517<br />
**[[3nej]] - TtHera N terminal (mutant)
**[[3nej]] - TtHera N terminal (mutant)<br />
**[[5ivl]] – GsDB CSHA - ''Geobacillus stearothermophilus''<br />


*''Dead box ATP-dependent RNA helicase complexes''
*''Dead box ATP-dependent RNA helicase complexes''
Line 176: Line 192:
**[[3rrm]] – yDBP5 residues 91-482 (mutant) + GLE1 + NUP159 + ADP + IP6 – yeast<BR />
**[[3rrm]] – yDBP5 residues 91-482 (mutant) + GLE1 + NUP159 + ADP + IP6 – yeast<BR />
**[[3rrn]] - yDBP5 residues 91-482 (mutant) + GLE1 + IP6<BR />
**[[3rrn]] - yDBP5 residues 91-482 (mutant) + GLE1 + IP6<BR />
**[[5elx]] - yDBP5 residues 91-482 + RNA<br />
**[[3pew]], [[3pey]] - yDBP5 residues 91-482 (mutant) + ADP + BeF3 + RNA<BR />
**[[3pew]], [[3pey]] - yDBP5 residues 91-482 (mutant) + ADP + BeF3 + RNA<BR />
**[[3peu]], [[3pev]] - yDBP5 C-terminal (mutant) + GLE1 + IP6<BR />
**[[3peu]], [[3pev]] - yDBP5 C-terminal (mutant) + GLE1 + IP6<BR />
Line 183: Line 200:
**[[3i62]] - yMSS116 + ADP + AlF4 + RNA<BR />
**[[3i62]] - yMSS116 + ADP + AlF4 + RNA<BR />
**[[4tyn]] - yMSS116 + ADP + DNA<br />
**[[4tyn]] - yMSS116 + ADP + DNA<br />
**[[2xau]], [[3kx2]] – yPRP43 + ADP<BR />
**[[2xau]], [[3kx2]], [[5jpt]] – yPRP43 + nucleotide<BR />
**[[5i8q]] - yPRP43 + ADPNP + RNA<br />
**[[5ltk]], [[5ltj]], [[5ltk]], [[5d0u]] - CtPRP43 + ADP – ''Chaetomium thermophilum''<br />
**[[5lta]] - CtPRP43 + ADP + RNA<br />
**[[3jrv]] – DDX3X + protein K7 – Vaccinia virus<BR />
**[[3jrv]] – DDX3X + protein K7 – Vaccinia virus<BR />
**[[3fmo]], [[3fhc]] – hDBP5 + Nup214<BR />
**[[3fmo]], [[3fhc]] – hDBP5 + Nup214<BR />
Line 190: Line 210:
**[[3g0h]] – hDDX19B residues 54-275 + ATP analog + RNA<BR />
**[[3g0h]] – hDDX19B residues 54-275 + ATP analog + RNA<BR />
**[[3ews]] - hDDX19B residues 54-275 + ADP<BR />
**[[3ews]] - hDDX19B residues 54-275 + ADP<BR />
**[[5e7m]], [[5e7j]] – hDDX3X catalytic domain + nucleotide<br />
**[[3dkp]] – hDDX52 domain I + ADP<BR />
**[[3dkp]] – hDDX52 domain I + ADP<BR />
**[[5e3h]] - hDHX58 residues 232-925 + RNA<br />
**[[5e3h]] - hDHX58 residues 232-925 + RNA<br />
Line 205: Line 226:
**[[4u4c]] - yDOB1 residues 81-1073 + poly(A) RNA polymerase protein 2<br />
**[[4u4c]] - yDOB1 residues 81-1073 + poly(A) RNA polymerase protein 2<br />
**[[4qu4]] - yDOB1 <br />
**[[4qu4]] - yDOB1 <br />
**[[5suq]] – ySUB2 + TEX1 + THO2 <br />
**[[5sup]] – ySUB2 + YRA1 + RNA <br />
**[[2vso]], [[2vsx]] – yEIF4A + initiation factor 4F middle domain<BR />
**[[2vso]], [[2vsx]] – yEIF4A + initiation factor 4F middle domain<BR />
**[[2g9n]] - hEIF4A dead domain
**[[2g9n]] - hEIF4A dead domain
Line 216: Line 239:
**[[2v8o]], [[2wv9]] - Hel NS3 helicase domain – Murray valley encephalitis virus<BR />
**[[2v8o]], [[2wv9]] - Hel NS3 helicase domain – Murray valley encephalitis virus<BR />
**[[2qeq]] - Hel NS3 residues 1691-2124 – Kunjin virus<BR />
**[[2qeq]] - Hel NS3 residues 1691-2124 – Kunjin virus<BR />
**[[5txg]], [[5jmt]] - ZvHel NS3 residues 1676-2119 – Zika virus<br />
**[[5k8u]], [[5k8l]], [[5k8i]], [[5jwh]], [[5jrz]] - ZvHel NS3 residues 164-621<br />
**[[2v6i]] – KvHel helicase domain – Kokobera virus<BR />
**[[2v6i]] – KvHel helicase domain – Kokobera virus<BR />
**[[2v6j]] - KvHel helicase domain (mutant)
**[[2v6j]] - KvHel helicase domain (mutant)
Line 230: Line 255:
**[[2jlv]] - DvHel NS3 residues 1646-2092 + AMPPNP + RNA<BR />
**[[2jlv]] - DvHel NS3 residues 1646-2092 + AMPPNP + RNA<BR />
**[[2jlx]], [[2jly]], [[2jlz]] - DvHel NS3 residues 1646-2092 + ADP + RNA<BR />
**[[2jlx]], [[2jly]], [[2jlz]] - DvHel NS3 residues 1646-2092 + ADP + RNA<BR />
**[[2vbc]] - DvHel NS3 residues 1475-2092 + NS2A peptide
**[[2vbc]] - DvHel NS3 residues 1475-2092 + NS2A peptide<br />
**[[5k8t]] - ZvHel NS3 residues 164-621 + GTP<br />
**[[5gjc]] - ZvHel NS3 residues 1676-2119 + ATP<br />
**[[5gjb]] - ZvHel NS3 residues 1676-2119 + RNA<br />


*ATP-dependent RNA helicase SUV3
*ATP-dependent RNA helicase SUV3
Line 275: Line 303:
**[[2v1x]] - hQ1 residues 49-616<BR />
**[[2v1x]] - hQ1 residues 49-616<BR />
**[[2wwy]], [[4u7d]] – hQ1 residues 49-616 + DNA<br />
**[[2wwy]], [[4u7d]] – hQ1 residues 49-616 + DNA<br />
**[[2kmu]] – hQ4 N terminal - NMR
**[[2kmu]] – hQ4 N terminal - NMR<br />
**[[5lb8]] – hQ5 <br />
**[[5lb5]], [[5lb3]] – hQ5 + ADP<br />
**[[5lba]] – hQ5 + urea derivative<br />


*ATP-dependent DNA helicase RecG
*ATP-dependent DNA helicase RecG
Line 286: Line 317:
**[[2rhf]] – DrRecQ HRDC domain 3 – ''Deinococcus radiodurans''<BR />
**[[2rhf]] – DrRecQ HRDC domain 3 – ''Deinococcus radiodurans''<BR />
**[[2ma1]] - DrRecQ HRDC domain – NMR <br />
**[[2ma1]] - DrRecQ HRDC domain – NMR <br />
**[[4q48]] - DrRecQ catalytic domain  <br />
**[[4q47]] - DrRecQ catalytic domain + ADP <br />
**[[1wud]] - EcRecQ HRDC domain<BR />
**[[1wud]] - EcRecQ HRDC domain<BR />
**[[1oyw]] - EcRecQ catalytic domain<BR />
**[[1oyw]] - EcRecQ catalytic domain<BR />
Line 314: Line 347:


**[[3upu]] – T4DDA + DNA<br />
**[[3upu]] – T4DDA + DNA<br />
*ATP-dependent DNA helicase UVRD
**[[2is1]] - EcUVRD + DNA


*ATP-dependent DNA helicase PriA
*ATP-dependent DNA helicase PriA
Line 326: Line 355:
*ATP-dependent DNA helicase PcrA
*ATP-dependent DNA helicase PcrA


**[[1qhg]] – GsPcrA (mutant) + ADPNP – ''Geobacillus stearothermophilus''<BR />
**[[1qhg]] – GsPcrA (mutant) + ADPNP <BR />
**[[1qhh]] - GsPcrA + ADPNP<br />
**[[1qhh]] - GsPcrA + ADPNP<br />
**[[2pjr]], [[3pjr]] - GsPcrA + DNA<br />
**[[2pjr]], [[3pjr]] - GsPcrA + DNA<br />
**[[1pjr]] - GsPcrA
**[[1pjr]] - GsPcrA<br />
**[[5dma]] – GsPcrA C-terminal tudor domain<br />


*DnaB helicase
*DnaB helicase
Line 352: Line 382:
**[[3ec2]] – AaDnaC – ''Aquifex aeolicus''<br />
**[[3ec2]] – AaDnaC – ''Aquifex aeolicus''<br />
**[[3ecc]] – AaDnaC + ADP<br />
**[[3ecc]] – AaDnaC + ADP<br />
*Helicase BLM
**[[5lut]] – BLM DHBN domain - chicken<br />
**[[5lus]] – BLM DHBN domain - pelican<br />
**[[5lup]] – hBLM DHBN domain <br />


*Helicase NSP2
*Helicase NSP2


**[[2hwk]] – NSP2 – Venzuelan equine encephalitis virus
**[[2hwk]] – NSP2 – Venzuelan equine encephalitis virus
*Helicase SEN1
**[[5mzn]] – ySEN1<br />


*Helicase SNF2
*Helicase SNF2
Line 368: Line 408:
**[[4a4k]] – ySKI2 insertion domain<br />
**[[4a4k]] – ySKI2 insertion domain<br />
**[[4a4z]] – ySKI2 + AMPPNP
**[[4a4z]] – ySKI2 + AMPPNP
*Helicase SWR1
**[[5i9e]] – ySWR1 + actin + actin-related protein<br />


*Helicase XPD
*Helicase XPD


**[[3crv]], [[3crw]], [[5h8c]] – XPD – ''Sulfolobus acidocaldarius''<br />
**[[3crv]], [[3crw]], [[5h8c]] – XPD – ''Sulfolobus acidocaldarius''<br />
**[[4a15]] - TaXPD + DNA – ''Thermoplasma acidophilum''<br />
**[[4a15]] - TaXPD + DNA <br />
**[[2vsf]] - TaXPD<br />
**[[2vsf]] - TaXPD<br />
**[[2vl7]] - XPD - ''Sulfolobus tokodaii''<br />
**[[2vl7]] - XPD - ''Sulfolobus tokodaii''<br />
Line 380: Line 424:


**[[3hib]], [[3im1]], [[3im2]] – yBrr2 2nd SEC63 domain<br />
**[[3hib]], [[3im1]], [[3im2]] – yBrr2 2nd SEC63 domain<br />
**[[4bgd]] – yBrr2 + pre-mRNA-splicing factor 8<br />
**[[4bgd]], [[5m5p]], [[5m52]], [[5dca]] – yBrr2 + pre-mRNA-splicing factor 8<br />
**[[4w7s]] – yCa8<br />
**[[4w7s]] – yCa8<br />


Line 390: Line 434:
**[[4qqy]] – TfCas3 + ADP + HD nuclease<br />
**[[4qqy]] – TfCas3 + ADP + HD nuclease<br />
**[[4qqz]] – TfCas3 + AMPPNP <br />
**[[4qqz]] – TfCas3 + AMPPNP <br />
**[[5gqh]] – PaCas3 + anti-crispr protein 3 – ''Pseudomonas aeruginosa''<br />
**[[5b7i]] – PaCas3 + ACRF3<br />


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