Atp-Dependent RNA Helicase Dob1

(All numbering and residues are taken from first PDB file)

Run Details Domains Sequence Morph Domain Pairs Contact Graph

DynDom run details

  Property   Value
  Name Atp-Dependent RNA Helicase Dob1
  Conformer 1
(PDB)
4u4c (A)
  Conformer 2
(PDB)
2xgj (A)
  Window Length 5
  Minimum ratio 1.0
  Minimum domain size 20

Domains

Domain Size Backbone RMSD
(A)
Residues
1 41 0.57   617 - 636   853 - 873
2 666 1.31   119 - 616   874 - 1071
3 207 1.04   640 - 852

Sequence


           ________________________________________________________________________________________________________________________ 
 4u4c(A) : *************************************HQVRHQVALPPNYDYTPIAEHKRVNEARTYPFTLDPFQDTAISCIDRGESVLVSAHTSAGKTVVAEYAIAQSLKNKQRVIYTS 
         :                                                                                                                          
 2xgj(A) : MLADSFEQEASREVDASKGLTNSETLQVEQDGKVRLSHQVRHQVALPPNYDYTPIAEHKRVNEARTYPFTLDPFQDTAISCIDRGESVLVSAHTSAGKTVVAEYAIAQSLKNKQRVIYTS 
           ________________________________________________________________________________________________________________________ 

           ________________________________________________________________________________________________________________________ 
 4u4c(A) : PIKALSNQKYRELLAEFGDVGLMTGDITINPDAGCLVMTTEILRSMLYRGSEVMREVAWVIFDEVHYMRDKERGVVWEETIILLPDKVRYVFLSATIPNAMEFAEWICKIHSQPCHIVYT 
         :                                                                                                                          
 2xgj(A) : PIKALSNQKYRELLAEFGDVGLMTGDITINPDAGCLVMTTEILRSMLYRGSEVMREVAWVIFDEVHYMRDKERGVVWEETIILLPDKVRYVFLSATIPNAMEFAEWICKIHSQPCHIVYT 
           ________________________________________________________________________________________________________________________ 

           ________________________________________________________________________________________________________________________ 
 4u4c(A) : NFRPTPLQHYLFPAHGDGIYLVVDEKSTFREENFQKAMASISNQkGDIYKIVKMIWKKKYNPVIVFSFSKRDCEELALKMSKLDFNSDDEKEALTKIFNNAIALLPETDRELPQIKHILP 
         :                                                                                                                          
 2xgj(A) : NFRPTPLQHYLFPAHGDGIYLVVDEKSTFREENFQKAMASIS---gDIYKIVKMIWKKKYNPVIVFSFSKRDCEELALKMSKLDFNSDDEKEALTKIFNNAIALLPETDRELPQIKHILP 
           ________________________________________________________________________________________________________________________ 

           ________________________________________________________________________________________________________________________ 
 4u4c(A) : LLRRGIGIHHSGLLPILKEVIEILFQEGFLKVLFATETFSIGLNMPAKTVVFTSVRKWDGQQFRWVSGGEYIQMSGRAGRRGLDDRGIVIMMIDEKMEPQVAKGMVKGQADRLDSAFHLG 
         :                                                                                                                          
 2xgj(A) : LLRRGIGIHHSGLLPILKEVIEILFQEGFLKVLFATETFSIGLNMPAKTVVFTSVRKWDGQQFRWVSGGEYIQMSGRAGRRGLDDRGIVIMMIDEKMEPQVAKGMVKGQADRLDSAFHLG 
           ________________________________________________________________________________________________________________________ 

           ___________________________616_______________634________________________________________________________________________ 
 4u4c(A) : YNMILNLMRVEGISPEFMLEHSFFQFQNVISVPVMEKKLAELKKDFDGIEVEDEENVKEYHEIEQAIKGYREDVRQVVTHPANALSFLQPGRLVEISVNGKDNYGWGAVVDFAKRIN--- 
         :                                                                                                                          
 2xgj(A) : YNMILNLMRVEGISPEFMLEHSFFQFQNVISVPVMEKKLAELKKDFDGIEVEDEENVKEYHEIEQAIKGYREDVRQVVTHPANALSFLQPGRLVEISVNGKDNYGWGAVVDFAKRINKRN 
           ___________________________616_______________634________________________________________________________________________ 

           ________________________________________________________________________________________________________________________ 
 4u4c(A) : ---vYTDHESYIVNVVVNTMYIDSPVNLLKPFNPTLPEGIRPAEEGEKSICAVIPITLDSIKSIGNLRLYMPKDIRASGQKETVGKSLREVNRRFPDGIPVLDPVKNMKIEDEDFLKLMK 
         :                                                                                                                          
 2xgj(A) : PSAVYTDHESYIVNVVVNTMYIDSPVNLLKPFNPTLPEGIRPAEEGEKSICAVIPITLDSIKSIGNLRLYMPKDIRASGQKETVGKSLREVNRRFPDGIPVLDPVKNMKIEDEDFLKLMK 
           ________________________________________________________________________________________________________________________ 

           _______________________852__________________873_________________________________________________________________________ 
 4u4c(A) : KIDVLNTKLSSNPLTNSMRLEELYGKYSRKHDLHEDMKQLKRKISESQAVIQLDDLRRRKRVLRRLGFCTPNDIIELKGRVACEISSGDELLLTELIFNGNFNELKPEQAAALLSCFAFQ 
         :                                                                                                                          
 2xgj(A) : KIDVLNTKLSSNPLTNSMRLEELYGKYSRKHDLHEDMKQLKRKISESQAVIQLDDLRRRKRVLRRLGFCTPNDIIELKGRVACEISSGDELLLTELIFNGNFNELKPEQAAALLSCFAFQ 
           _______________________852__________________873_________________________________________________________________________ 

           ________________________________________________________________________________________________________________________ 
 4u4c(A) : ERCKEAPRLKPELAEPLKAMREIAAKIAKIMKDSKIEVVEKDYVESFRHELMEVVYEWCRGATFTQICKMTDVYEGSLIRMFKRLEELVKELVDVANTIGNSSLKEKMEAVLKLIHRDIV 
         :                                                                                                                          
 2xgj(A) : ERCKEAPRLKPELAEPLKAMREIAAKIAKIMKDSKIEVVEKDYVESFRHELMEVVYEWCRGATFTQICKMTDVYEGSLIRMFKRLEELVKELVDVANTIGNSSLKEKMEAVLKLIHRDIV 
           ________________________________________________________________________________________________________________________ 

           _______                                                                                                                  
 4u4c(A) : SAGSLYL                                                                                                                  
         :                                                                                                                          
 2xgj(A) : SAGSLYL                                                                                                                  
           _______                                                                                                                  

Morph

This morph was created using the MorphIt_Pro protein morphing technique.
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Domain Pairs

Property Value
Fixed Domain
( blue )
1
Moving Domain
( red )
2
Rotation Angle
(deg)
26.6
Translation
(A)
0.1
Closure
(%)
29.6
Bending Residues
( green )
  616 - 617
  873 - 879
Bending Region Analysis
Property Value
Fixed Domain
( blue )
1
Moving Domain
( yellow )
3
Rotation Angle
(deg)
19.8
Translation
(A)
-0.1
Closure
(%)
90.8
Bending Residues
( green )
  634 - 648
  852 - 853
Bending Region Analysis

Dynamic Contact Graph

Conformer 1 Contact:
Residue 1 ———› Residue 2

Conformer 2 Contact:
Residue 2 ———› Residue 1

Movement classification:

No Contacts

Conformer 1 Contact:
Residue 1 ———› Residue 3

Conformer 2 Contact:
Residue 3 ———› Residue 1

Movement classification:

No Contacts

PyMOL Script

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