DynDom - Protein Domain Motions

Unconventional Myosin-Va

(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	Unconventional Myosin-Va
Conformer 1 (PDB)	7pm5 (A)
Conformer 2 (PDB)	7plt (A)
Window Length	5
Minimum ratio	1.0
Minimum domain size	20

Domains

Domain	Size	Backbone RMSD (A)	Residues
1	181	1.04	8 - 73 79 - 92 97 - 109 112 - 127 134 - 144 162 - 162 169 - 185 193 - 195 211 - 215 234 - 235 438 - 439 490 - 492 659 - 660 662 - 693
2	93	0.65	75 - 78 697 - 785
3	452	0.54	93 - 96 110 - 111 128 - 132 145 - 161 166 - 168 186 - 187 196 - 210 216 - 233 236 - 437 440 - 489 493 - 658 661 - 661

Sequence

`_____________________________________________________________73___78____________92__96__________109_______________127__1` `7pm5(A) : ELYTKYARVWIPDPEEVWKSAELLKDYKPkVLQLRLEEGKDLEYCLDPlPPLRNPDILVGENDLTALSYLHEPAVLHNLKVRFIDSKLIYTYCGIVLVAINPYEQLPIYGEDIINAYSGQ` `:` `7plt(A) : ELYTKYARVWIPDPEEVWKSAELLKDYKPkVLQLRLEEGKDLEYCLDPlPPLRNPDILVGENDLTALSYLHEPAVLHNLKVRFIDSKLIYTYCGIVLVAINPYEQLPIYGEDIINAYSGQ` `_____________________________________________________________73___78____________92__96__________109_______________127__1` `32_________144______________161_____________________185____________________210__215___________229_______________________` `7pm5(A) : NMGDMDPHIFAVAEEAYKQMARDERNQSIIVSGESGAGKTVSAKYAMRYFATVSGSA-nVEEKVLASNPIMESIGNAKTTRNDNSSRFGKYIEIGFDKRYRIIGANMRTYLLEKSRVVFQ` `:` `7plt(A) : NMGDMDPHIFAVAEEAYKQMARDERNQSIIVSGESGAGKTVSAKYAMRYFATVSGSAaNVEEKVLASNPIMESIGNAKTTRNDNSSRFGKYIEIGFDKRYRIIGANMRTYLLEKSRVVFQ` `32_________144______________161_____________________185____________________210__215___________229_______________________` `________________________________________________________________________________________________________________________` `7pm5(A) : AEEERNYHIFYQLCASAALPEFKTLRLGNANYFHYTKQGGSPVIDGIDDAKEMVNTRQACTLLGISDSYQMGIFRILAGILHLGNVEFASRDSDSCAIPPKHDPLTIFCDLMGVDYEEMA` `:` `7plt(A) : AEEERNYHIFYQLCASAALPEFKTLRLGNANYFHYTKQGGSPVIDGIDDAKEMVNTRQACTLLGISDSYQMGIFRILAGILHLGNVEFASRDSDSCAIPPKHDPLTIFCDLMGVDYEEMA` `________________________________________________________________________________________________________________________` `______________________________________________________________437_______________________________________________487__492` `7pm5(A) : HWLCHRKLATATETYIKPISKLHAINARDALAKHIYANLFNWIVDHVNKALHSTVKQHSFIGVLDIYGFETFEINSFEQFCINYANEKLQQQFNMHVFKLEQEEYMKEQIPWTLIDFYDN` `:` `7plt(A) : HWLCHRKLATATETYIKPISKLHAINARDALAKHIYANLFNWIVDHVNKALHSTVKQHSFIGVLDIYGFETFEINSFEQFCINYANEKLQQQFNMHVFKLEQEEYMKEQIPWTLIDFYDN` `______________________________________________________________437_______________________________________________487__492` `________________________________________________________________________________________________________________________` `7pm5(A) : QPCINLIEAKMGVLDLLDEECKMPKGSDDTWAQKLYNTHLNKCALFEKPRLSNKAFIIKHFADKVEYQCEGFLEKNKDTVYEEQIKVLKSSKKFKLLPELFQDsKEHKKTVGHQFRNSLH` `:` `7plt(A) : QPCINLIEAKMGVLDLLDEECKMPKGSDDTWAQKLYNTHLNKCALFEKPRLSNKAFIIKHFADKVEYQCEGFLEKNKDTVYEEQIKVLKSSKKFKLLPELFQDsKEHKKTVGHQFRNSLH` `________________________________________________________________________________________________________________________` `__________658________________________________693________________________________________________________________________` `7pm5(A) : LLMETLNATTPHYVRCIKPNDFKFPFTFDEKRAVQQLRACGVLETIRISAAGFPSRWTYQEFFSRYRVLMKQKDVLSDRKQTCKNVLEKLILDKDKYQFGKTKIFFRAGQVAYLEKIRAD` `:` `7plt(A) : LLMETLNATTPHYVRCIKPNDFKFPFTFDEKRAVQQLRACGVLETIRISAAGFPSRWTYQEFFSRYRVLMKQKDVLSDRKQTCKNVLEKLILDKDKYQFGKTKIFFRAGQVAYLEKIRAD` `__________658________________________________693________________________________________________________________________` `___________________________` `7pm5(A) : KLRAACIRIQKTIRGWLMRKKYMRMRR` `:` `7plt(A) : KLRAACIRIQKTIRGWLMRKKYMRMRR` `___________________________`

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)	10.8
Translation (A)	0.0
Closure (%)	61.4
Bending Residues ( green )	73 - 75 78 - 79 693 - 697
Bending Region Analysis

Property	Value
Fixed Domain ( blue )	1
Moving Domain ( yellow )	3
Rotation Angle (deg)	5.9
Translation (A)	0.2
Closure (%)	33.2
Bending Residues ( green )	92 - 93 96 - 97 109 - 112 127 - 128 132 - 134 144 - 145 161 - 169 185 - 198 210 - 211 215 - 216 229 - 238 437 - 440 487 - 490 492 - 493 658 - 662
Bending Region Analysis

Dynamic Contact Graph

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

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

Movement classification: Hinge

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

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

Movement classification: Mixed

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