DynDom - Protein Domain Motions

Putative Solute-Binding Protein

(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	Putative Solute-Binding Protein
Conformer 1 (PDB)	3ry3 (A)
Conformer 2 (PDB)	4ofl (A)
Window Length	5
Minimum ratio	1.0
Minimum domain size	20

Domains

Domain	Size	Backbone RMSD (A)	Residues
1	272	0.91	42 - 54 60 - 73 148 - 155 234 - 235 252 - 488 508 - 511
2	203	1.83	32 - 38 55 - 59 74 - 147 156 - 233 237 - 251 489 - 507 512 - 519

Sequence

`________38___________________59____65_______________________________________________________________________________147_` `3ry3(A) : TLQLAIGDE---gFDP-lGWSHGSYLLLHSPLLKQNEDFSWDSLLLSQYQPSDDGKTWLLTLKPDLKFSDGSPLTAKDVAFTYNNAAASGGKVD-gNFLSAEVIDPLNVRIHLKAPQST` `:` `4ofl(A) : HTLQLAIGDEPTEGFDPMLGWSHGSYLLLHSPLLKQNEDFSWDSLLLSQYQPSDDGKTWLLTLKPDLKFSDGSPLTAKDVAFTYNNAAASGGKVDMGNFLSAEVIDPLNVRIHLKAPQST` `________12___________________33____39_______________________________________________________________________________121_` `__________________________________________________________________________________233_______________251_________________` `3ry3(A) : FVNVLGSLGIVSADKYNAKTYAQKPIGAGPYRLVSFQPGQQ-iVEANPYYAGNKNDFDKLIFVFLDEDSAFAAAQSGQLGVVRIPPS-aVGSVNN-kLWVRPSVENRGIVFPTTPAGKKD` `:` `4ofl(A) : FVNVLGSLGIVSADKYNAKTYAQKPIGAGPYRLVSFQPGQQMIVEANPYYAGNKNDFDKLIFVFLDEDSAFAAAQSGQLGVVRIPPSMAVGSVNNMKLWVRPSVENRGIVFPTTPAGKKD` `__________________________________________________________________________________207_______________225_________________` `________________________________________________________________________________________________________________________` `3ry3(A) : AHGYPIGNDVTADVAIRRAINYAINRQLLADQI-eGHAIPAYTGVQGLPWNNPDSAIKDGDIDKAKQILEQAGWQLNSQGTREKNGLPAKITLWYTSGDTTRRDLAQALRS-lKPIGIDV` `:` `4ofl(A) : AHGYPIGNDVTADVAIRRAINYAINRQLLADQIMEGHAIPAYTGVQGLPWNNPDSAIKDGDIDKAKQILEQAGWQLNSQGTREKNGLPAKITLWYTSGDTTRRDLAQALRSMLKPIGIDV` `________________________________________________________________________________________________________________________` `_________________________________________________________________________________________________488________________507_` `3ry3(A) : DLKSGSWETVERN-hANPTLFGWGSLDP-eLYHHYSSNAAGVEYYNPGYYKNP-vDKHLQQALDAPTWQQAVPFWQQVDWDGTTGAGIRGDAAWAWLLNIQHTYLANNCVDLGKGTPEIH` `:` `4ofl(A) : DLKSGSWETVERNMHANPTLFGWGSLDPMELYHHYSSNAAGVEYYNPGYYKNPMVDKHLQQALDAPTWQQAVPFWQQVDWDGTTGAGIRGDAAWAWLLNIQHTYLANNCVDLGKGTPEIH` `_________________________________________________________________________________________________462________________481_` `________________` `3ry3(A) : GSWSLLNSIDSWK**` `:` `4ofl(A) : GSWSLLNSIDSWKWTC` `________________`

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)	13.6
Translation (A)	-0.2
Closure (%)	46.4
Bending Residues ( green )	38 - 55 59 - 60 65 - 74 147 - 156 233 - 237 251 - 254 488 - 489 507 - 512
Bending Region Analysis

Dynamic Contact Graph

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

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

Movement classification: Shear

PyMOL Script

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