DynDom - Protein Domain Motions

Myosin II Heavy Chain

(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	Myosin II Heavy Chain
Conformer 1 (PDB)	1vom
Conformer 2 (PDB)	1fmw (A)
Window Length	5
Minimum ratio	1.0
Minimum domain size	20

Domains

Domain	Size	Backbone RMSD (A)	Residues
1	653	1.94	4 - 486 509 - 689
2	57	1.37	487 - 499 690 - 745

Sequence

`________________________________________________________________________________________________________________________` `1vom : NPIHDRTSDYHKYLKVKQGDSDLFKLTVSDKRYIWYNPDPDERDSYECGEIVSETSDSFTFKTVDGQDRQVKKDDANQRNPIKFDGVEDMSELSYLNEPAVFHNLRVRYNQDLIYTYSGL` `:` `1fmw(A) : NPIHDRTSDYHKYLKVKQGDSDLFKLTVSDKRYIWYNPDPKERDSYECGEIVSETSDSFTFKTVDGQDRQVKKDDANQRNPIKFDGVEDMSELSYLNEPAVFHNLRVRYNQDLIYTYSGL` `________________________________________________________________________________________________________________________` `________________________________________________________________________________________________________________________` `1vom : FLVAVNPFKRIPIYTQEMVDIFKGRRRNEVAPHIFAISDVAYRSMLDDRQNQSLLITGESGAGKTENTKKVIQYLASVAGRNQgVLEQQILQANPILEAFGNAKTTRNNNSSRFGKFIEI` `:` `1fmw(A) : FLVAVNPFKRIPIYTQEMVDIFKGRRRNEVAPHIFAISDVAYRSMLDDRQNQSLLITGESGAGKTENTKKVIQYLASVAGR--gVLEQQILQANPILEAFGNAKTTRNNNSSRFGKFIEI` `________________________________________________________________________________________________________________________` `________________________________________________________________________________________________________________________` `1vom : QFNNAGFISGASIQSYLLEKSRVVFQSETERNYHIFYQLLAGATAEEKKALHLAGPESFNYLNQSGCVDIKGVSDEDEFKITRQAMDIVGFSQEEQMSIFKIIAGILHLGNIKFEKGAGE` `:` `1fmw(A) : QFNNAGFISGASIQSYLLEKSRVVFQSETERNYHIFYQLLAGATAEEKKALHLAGPESFNYLNQSGCVDIKGVSDSEEFKITRQAMDIVGFSQEEQMSIFKIIAGILHLGNIKFEKGAGE` `________________________________________________________________________________________________________________________` `______________________________________________________________________________________________________________________48` `1vom : GAVLKDKTALNAASTVFGVNPSVLEKALMEPRILAGRDLVAQHLNVEKSSSSRDALVKALYGRLFLWLVKKINNVLCSERAAYFIGVLDISGFEIFKVNSFEQLCINYTNEKLQQFFNHH` `:` `1fmw(A) : GAVLKDKTALNAASTVFGVNPSVLEKALMEPRILAGRDLVAQHLNVEKSSSSRDALVKALYGRLFLWLVKKINNVLCQERKAYFIGVLDISGFEIFKVNSFEQLCINYTNEKLQQFFNHH` `______________________________________________________________________________________________________________________48` `6_________498___________________________________________________________________________________________________________` `1vom : MFKVEQEEYLKEKINWTFIDFGLDSQATIDLIDGRQPPGILALLDEQSVFPNATDNTLITKLHSHFSKKNAKYEEPRFSKTEFGVTHYAGQVMYEIQDWLEKNKDPLQQDLELCFKDSSD` `:` `1fmw(A) : MFKVEQEEYLKEKI---------dSQATIDLIDGRQPPGILALLDEQSVFPNATDNTLITKLHSHFSKKNAKYEEPRFSKTEFGVTHYAGQVMYEIQDWLEKNKDPLQQDLELCFKDSSD` `6_________498___________________________________________________________________________________________________________` `_________________________________________________________________________681____________________________________________` `1vom : NVVTKLFNDPNIASRAKKGANFITVAAQYKEQLASLMATLETTNPHFVRCIIPNNKQLPAKLEDKVVLDQLRCNGVLEGIRITRKGFPNRIIYADFVKRYYLLAP-vPRD----qKAT--` `:` `1fmw(A) : NVVTKLFNDPNIASRA-----fITVAAQYKEQLASLMATLETTNPHFVRCIIPNNKQLPAKLEDKVVLDQLRCNGVLEGIRITRKGFPNRIIYADFVKRYYLLAPNVPRDAEDSQKATDA` `_________________________________________________________________________681____________________________________________` `__________________________________` `1vom :` `-----nIDPEQYRFGITKIFFR************` `:` `1fmw(A) :` `VLKHLNIDPEQYRFGITKIFFRAGQLARIEEARE` `__________________________________`

Morph

Morph animation in progress.
Status: Initialising

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)	72.8
Translation (A)	1.8
Closure (%)	11.3
Bending Residues ( green )	486 - 487 498 - 510 681 - 691
Bending Region Analysis

Dynamic Contact Graph

The dynamic contact graph is still being generated. Progress: Initialising

PyMOL Script

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