DynDom - Protein Domain Motions

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)	4qu4 (A)
Conformer 2 (PDB)	4u4c (A)
Window Length	5
Minimum ratio	1.0
Minimum domain size	20

Domains

Domain	Size	Backbone RMSD (A)	Residues
1	657	3.01	119 - 628 872 - 1069
2	237	2.51	629 - 871

Sequence

`________________________________________________________________________________________________________________________` `4qu4(A) : PVLADSFEQEASREVaSKGLTNSETLQVEQDGKVRLSHQVRHQVALPPNYDYTPIAEHKRVNEARTYPFTLDPFQDTAISCIDRGESVLVSAHTSAGKTVVAEYAIAQSLKNKQRVIYTS` `:` `4u4c(A) : ************************************HQVRHQVALPPNYDYTPIAEHKRVNEARTYPFTLDPFQDTAISCIDRGESVLVSAHTSAGKTVVAEYAIAQSLKNKQRVIYTS` `________________________________________________________________________________________________________________________` `________________________________________________________________________________________________________________________` `4qu4(A) : PIKALSNQKYRELLAEFGDVGLMTGDITINPDAGCLVMTTEILRSMLYRGSEVMREVAWVIFDEVHYMRDKERGVVWEETIILLPDKVRYVFLSATIPNAMEFAEWICKIHSQPCHIVYT` `:` `4u4c(A) : PIKALSNQKYRELLAEFGDVGLMTGDITINPDAGCLVMTTEILRSMLYRGSEVMREVAWVIFDEVHYMRDKERGVVWEETIILLPDKVRYVFLSATIPNAMEFAEWICKIHSQPCHIVYT` `________________________________________________________________________________________________________________________` `________________________________________________________________________________________________________________________` `4qu4(A) : NFRPTPLQHYLFPAHGDGIYLVVDEKSTFREENFQKAMASIa--KGDIYKIVKMIWKKKYNPVIVFSFSKRDCEELALKMSKLDFNSDDEKEALTKIFNNAIALLPETDRELPQIKHILP` `:` `4u4c(A) : NFRPTPLQHYLFPAHGDGIYLVVDEKSTFREENFQKAMASISNQkGDIYKIVKMIWKKKYNPVIVFSFSKRDCEELALKMSKLDFNSDDEKEALTKIFNNAIALLPETDRELPQIKHILP` `________________________________________________________________________________________________________________________` `________________________________________________________________________________________________________________________` `4qu4(A) : LLRRGIGIHHSGLLPILKEVIEILFQEGFLKVLFATETFSIGLNMPAKTVVFTSVRKWDGQQFRWVSGGEYIQMSGRAGRRGLDDRGIVIMMIDEKMEPQVAKGMVKGQADRLDSAFHLG` `:` `4u4c(A) : LLRRGIGIHHSGLLPILKEVIEILFQEGFLKVLFATETFSIGLNMPAKTVVFTSVRKWDGQQFRWVSGGEYIQMSGRAGRRGLDDRGIVIMMIDEKMEPQVAKGMVKGQADRLDSAFHLG` `________________________________________________________________________________________________________________________` `_______________________________________628______________________________________________________________________________` `4qu4(A) : YNMILNLMRVEGISPEFMLEHSFFQFQNVISVPVMEKKLAELKKDFDGIEVEDEENVKEYHEIEQAIKGYREDVRQVVTHPANALSFLQPGRLVEISVNGKDNYGWGAVVDFAKRINKRN` `:` `4u4c(A) : YNMILNLMRVEGISPEFMLEHSFFQFQNVISVPVMEKKLAELKKDFDGIEVEDEENVKEYHEIEQAIKGYREDVRQVVTHPANALSFLQPGRLVEISVNGKDNYGWGAVVDFAKRIN---` `_______________________________________628______________________________________________________________________________` `________________________________________________________________________________________________________________________` `4qu4(A) :` `PSAVYTDHESYIVNVVVNTMYIDSPVNLLKPFNPTLPEGIRPAEEGEKSICAVIPITLDSIKSIGNLRLYMPKDIRASGQKETVGKSLREVNRRFPDGIPVLDPVKNMKIEDEDFLKLMK` `:` `4u4c(A) :` `---vYTDHESYIVNVVVNTMYIDSPVNLLKPFNPTLPEGIRPAEEGEKSICAVIPITLDSIKSIGNLRLYMPKDIRASGQKETVGKSLREVNRRFPDGIPVLDPVKNMKIEDEDFLKLMK` `________________________________________________________________________________________________________________________` `__________________________________________871___________________________________________________________________________` `4qu4(A) : KIDVLNTKLSSNPLTNSMRLEELYGKYSRKHDLHEDMKQLKRKISE--aVIQLDDLRRRKRVLRRLGFCTPNDIIELKGRVACEISSGDELLLTELIFNGNFNELKPEQAAALLSC----` `:` `4u4c(A) : KIDVLNTKLSSNPLTNSMRLEELYGKYSRKHDLHEDMKQLKRKISESQAVIQLDDLRRRKRVLRRLGFCTPNDIIELKGRVACEISSGDELLLTELIFNGNFNELKPEQAAALLSCFAFQ` `__________________________________________871___________________________________________________________________________` `________________________________________________________________________________________________________________________` `4qu4(A) :` `------------lAEPLKAMREIAAKIAKIMKDSKIEVVEKDYVESFRHELMEVVYEWCRG-tFTQICKMTDVYEGSLIRMFKRLEELVKEL-dVA-tI-nSSLKEKMEAVLKLIHRDIV` `:` `4u4c(A) :` `ERCKEAPRLKPELAEPLKAMREIAAKIAKIMKDSKIEVVEKDYVESFRHELMEVVYEWCRGATFTQICKMTDVYEGSLIRMFKRLEELVKELVDVANTIGNSSLKEKMEAVLKLIHRDIV` `________________________________________________________________________________________________________________________` `_______` `4qu4(A) : SAGSLY` `:` `4u4c(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)	41.6
Translation (A)	3.0
Closure (%)	35.7
Bending Residues ( green )	628 - 629 871 - 872
Bending Region Analysis

Dynamic Contact Graph

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

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

Movement classification: Hinge

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