DynDom - Protein Domain Motions

Protein Argonaute-2

(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	Protein Argonaute-2
Conformer 1 (PDB)	4ola (A)
Conformer 2 (PDB)	6mdz (A)
Window Length	5
Minimum ratio	1.0
Minimum domain size	20

Domains

Domain	Size	Backbone RMSD (A)	Residues
1	490	0.77	25 - 47 50 - 51 77 - 79 92 - 92 102 - 106 138 - 140 147 - 159 206 - 216 370 - 371 396 - 712 716 - 758 761 - 856
2	127	1.06	48 - 49 52 - 76 80 - 91 93 - 101 107 - 137 141 - 146 160 - 173 202 - 205 217 - 219 372 - 395 713 - 715 759 - 760
3	164	0.89	174 - 201 220 - 368

Sequence

`________________________47___________________________76_79______87___________101__106______________________137______146_` `4ola(A) : *FKPPPRPDFGTSGRTIKLQANFFEMDIPKIDIYHYELDIKPEKCPRRVNREIVEHMVQHFKTQIFGDRKPVFDGRKNLYTAMPLPIGRDKVELEVTLrIFKVSIKWVSCVSLQALHDAL` `:` `6mdz(A) : AFKPPPRPDFGTSGRTIKLQANFFEMDIPKIDIYHYELDIKPEKCPRRVNREIVEHMVQHFKTQIFG--kPVFDGRKNLYTAMPLPIGRDKVELEVTLPiFKVSIKWVSCVSLQALHDAL` `________________________47___________________________76_79______87___________101__106______________________137______146_` `_________159___________173________________________200__205________216___________________________________________________` `4ola(A) : SGRL--vPFETIQALDVVMRHLPSMRYTPVGRSFFTAS---sNPLGGGREVWFGFHQSVRPSLWKMMLNIDVSATAFYKAQPVIEFVCEVLDFKSIE--qKPLTDSQRVKFTKEIKGLKV` `:` `6mdz(A) : SGRLPSVPFETIQALDVVMRHLPSMRYTPVGRSFFTASEGCSNPLGGGREVWFGFHQSVRPSLWKMMLNIDVSATAFYKAQPVIEFVCEVLDFKSIEEQQKPLTDSQRVKFTKEIKGLKV` `_________159___________173________________________200__205________216___________________________________________________` `_________________________________________________________________________________________________370____________________` `4ola(A) : EIT---rKYRVCNVTRRPASHQTFPLQQESGQTVECTVAQYFKDRHKLVLRYPHLPCLQVGQE--hTYLPLEVCNIVAGQRCIKKLTDNQTSTMIRATARSAPDRQEEISKLMRSADFNT` `:` `6mdz(A) : EITHCkRKYRVCNVTRRPASHQTFPLQQESGQTVECTVAQYFKDRHKLVLRYPHLPCLQVGQEQKHTYLPLEVCNIVAGQRCIKKLTDNQTSTMIRATARSAPDRQEEISKLMRSADFNT` `_________________________________________________________________________________________________370____________________` `__395___________________________________________________________________________________________________________________` `4ola(A) : DPYVREFGIMVKDEMTDVTGRVLQPPSILYGGRNKAIATPVQGVWDMRNKQFHTGIEIKVWAIACFAPQRQCTEVHLKSFTEQLRKISRDAGMPIQGQPCFCKYAQGADSVEPMFRHLKN` `:` `6mdz(A) : DPYVREFGIMVKDEMTDVTGRVLQPPSILYGGRNKAIATPVQGVWDMRNKQFHTGIEIKVWAIACFAPQRQCTEVHLKSFTEQLRKISRDAGMPIQGQPCFCKYAQGADSVEPMFRHLKN` `__395___________________________________________________________________________________________________________________` `________________________________________________________________________________________________________________________` `4ola(A) : TYAGLQLVVVILPGKTPVYAEVKRVGDTVLGMATQCVQMKNVQRTTPQTLSNLCLKINVKLGGVNNILLPQGRPPVFQQPVIFLGADVTHP--kPSIAAVVGSMDAHPNRYCATVRVQQH` `:` `6mdz(A) : TYAGLQLVVVILPGKTPVYAEVKRVGDTVLGMATQCVQMKNVQRTTPQTLSNLCLKINVKLGGVNNILLPQGRPPVFQQPVIFLGADVTHPPkKPSIAAVVGSMDAHPNRYCATVRVQQH` `________________________________________________________________________________________________________________________` `___________________________________________________________________________712__________________________________________` `4ola(A) : RQEIIQDLAAMVRELLIQFYKSTRFKPTRIIFYRDGVSEGQFQQVLHHELLAIREACIKLEKDYQPGITFIVVQKRHHTRLFCTDKNERVGKSGNIPAGTTVDTKITHPTEFDFYLCSHA` `:` `6mdz(A) : RQEIIQDLAAMVRELLIQFYKSTRFKPTRIIFYRAGVSEGQFQQVLHHELLAIREACIKLEKDYQPGITFIVVQKRHHTRLFCTDKNERVGKSGNIPAGTTVDTKITHPTEFDFYLCSHA` `___________________________________________________________________________712__________________________________________` `_758__________________________________________________________________________________` `4ola(A) : GIQGTSRPSHYHVLWDDNRFSSDELQILTYQLCHTYVRCTRSVSIPAPAYYAHLVAFRARYHL--hQALAKAVQVHQDTLRTMYFA` `:` `6mdz(A) : GIQGTSRPSHYHVLWDDNRFSSDELQILTYQLCHTYVRCTRSVSIPAPAYYAHLVAFRARYHLVdHQALAKAVQVHQDTLRTMYFA` `_758__________________________________________________________________________________`

Morph

This morph was created using the MorphIt_Pro protein morphing technique.
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Domain Pairs

Fixed Domain	Moving Domain	Rotation Angle	Translation (A)	Closure	Bending Residues
1	2	7.4	-0.1	32.6	47 - 52 76 - 77 79 - 80 87 - 93 101 - 102 106 - 107 137 - 138 140 - 141 146 - 155 159 - 160 205 - 206 216 - 217 370 - 372 395 - 396 712 - 713 715 - 716 758 - 761	Bending Region Analysis
1	3	33.8	0.8	68.7	368 - 371	Bending Region Analysis
3	2	26.5	0.9	92.7	173 - 174 200 - 202 219 - 220	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:

No Contacts

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

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

Movement classification: Hinge

PyMOL Script

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