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)	7pm0 (A)
Conformer 2 (PDB)	7pm9 (A)
Window Length	5
Minimum ratio	1.0
Minimum domain size	20

Domains

Domain	Size	Backbone RMSD (A)	Residues
1	493	0.86	94 - 101 103 - 107 116 - 120 123 - 123 128 - 130 133 - 136 138 - 161 173 - 175 184 - 193 197 - 438 443 - 470 477 - 477 479 - 663 685 - 686 688 - 696
2	207	1.25	8 - 93 102 - 102 108 - 115 121 - 122 124 - 127 131 - 132 137 - 137 162 - 172 176 - 183 194 - 196 439 - 442 471 - 476 478 - 478 664 - 684 687 - 687 697 - 760

Sequence

`___________________________________________________________________________________93_____101___107_____115__120____127_` `7pm0(A) : ELYTKYARVWIPDPEEVWKSAELLKDYKPkVLQLRLEEGKDLEYCLDPkELPPLRNPDILVGENDLTALSYLHEPAVLHNLKVRFIDSKLIYTYCGIVLVAINPYEQLPIYGEDIINAYS` `:` `7pm9(A) : ELYTKYARVWIPDPEEVWKSAELLKDYKPkVLQLRL---kDLEYCLDP--lPPLRNPDILVGENDLTALSYLHEPAVLHNLKVRFIDSKLIYTYCGIVLVAINPYEQLPIYGEDIINAYS` `___________________________________________________________________________________93_____101___107_____115__120____127_` `_____136______________________161________172________183______192_196____________________________________________________` `7pm0(A) : GQNMGDMDPHIFAVAEEAYKQMARDERNQSIIVSGESGAGKTVSAKYAMRYFATVSGSASEANVEEKVLASNPIMESIGNAKTTRNDNSSRFGKYIEIGFDKRYRIIGANMRTYLLEKSR` `:` `7pm9(A) : GQNMGDMDPHIFAVAEEAYKQMARDERNQSIIVSGESGAGKTVSAKYAMRYFATVSGS----nVEEKVLASNPIMESIGNAKTTRNDNSSRFGKYIEIGFDKRYRIIGANMRTYLLEKSR` `_____136______________________161________172________183______192_196____________________________________________________` `________________________________________________________________________________________________________________________` `7pm0(A) : VVFQAEEERNYHIFYQLCASAALPEFKTLRLGNANYFHYTKQGGSPVIDGIDDAKEMVNTRQACTLLGISDSYQMGIFRILAGILHLGNVEFASRDSDSCAIPPKHDPLTIFCDLMGVDY` `:` `7pm9(A) : VVFQAEEERNYHIFYQLCASAALPEFKTLRLGNANYFHYTKQGGSPVIDGIDDAKEMVNTRQACTLLGISDSYQMGIFRILAGILHLGNVEFASRDSDSCAIPPKHDPLTIFCDLMGVDY` `________________________________________________________________________________________________________________________` `___________________________________________________________________438_442_________________________470___476____________` `7pm0(A) : EEMAHWLCHRKLATATETYIKPISKLHAINARDALAKHIYANLFNWIVDHVNKALHSTVKQHSFIGVLDIYGFETFEINSFEQFCINYANEKLQQQFNMHVFKLEQEEYMKEQIPWTLID` `:` `7pm9(A) : EEMAHWLCHRKLATATETYIKPISKLHAINARDALAKHIYANLFNWIVDHVNKALHSTVKQHSFIGVLDIYGFETFEINSFEQFCINYANEKLQQQFNMHVFKLEQEEYMKEQIPWTLID` `___________________________________________________________________438_442_________________________470___476____________` `________________________________________________________________________________________________________________________` `7pm0(A) : FYDNQPCINLIEAKMGVLDLLDEECKMPKGSDDTWAQKLYNTHLNKCALFEKPRLSNKAFIIKHFADKVEYQCEGFLEKNKDTVYEEQIKVLKSSKKFKLLPELFQDsKEHKKTVGHQFR` `:` `7pm9(A) : FYDNQPCINLIEAKMGVLDLLDEECKMPKGSDDTWAQKLYNTHLNKCALFEKPRLSNKAFIIKHFADKVEYQCEGFLEKNKDTVYEEQIKVLKSSKKFKLLPELFQDsKEHKKTVGHQFR` `________________________________________________________________________________________________________________________` `___________________663__________________684_________696_________________________________________________________________` `7pm0(A) : NSLHLLMETLNATTPHYVRCIKPNDFKFPFTFDEKRAVQQLRACGVLETIRISAAGFPSRWTYQEFFSRYRVLMKQKDVLSDRKQTCKNVLEKLILDKDKYQFGKTKIFFRAGQVAYLEK` `:` `7pm9(A) : NSLHLLMETLNATTPHYVRCIKPNDFKFPFTFDEKRAVQQLRACGVLETIRISAAGFPSRWTYQEFFSRYRVL-------sDRKQTCKNVLEKLILDKDKYQFGKTKIFFRAGQVAYLEK` `___________________663__________________684_________696_________________________________________________________________` `_______________________________` `7pm0(A) : IRADKLRAACIRIQKTIRGWLMRKKYMRMRR` `:` `7pm9(A) : IRADKLRAACIRIQKTIRGWLMRKKYMRMRR` `_______________________________`

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)	6.4
Translation (A)	-0.1
Closure (%)	47.6
Bending Residues ( green )	93 - 99 101 - 103 107 - 108 115 - 116 120 - 124 127 - 128 130 - 133 136 - 138 161 - 162 172 - 173 175 - 176 183 - 184 192 - 194 196 - 197 438 - 439 442 - 443 470 - 471 476 - 479 663 - 664 684 - 691 696 - 697
Bending Region Analysis

Dynamic Contact Graph

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

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

Movement classification: Shear

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