DynDom - Protein Domain Motions

Endoplasmic Reticulum Aminopeptidase 1,Endoplasmic Reticulum Aminopeptidase 1

(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	Endoplasmic Reticulum Aminopeptidase 1,Endoplasmic Reticulum Aminopeptidase 1
Conformer 1 (PDB)	6q4r (A)
Conformer 2 (PDB)	6mgq (A)
Window Length	5
Minimum ratio	1.0
Minimum domain size	20

Domains

Domain	Size	Backbone RMSD (A)	Residues
1	166	0.78	401 - 418 438 - 439 520 - 652 660 - 677
2	420	0.97	47 - 400 419 - 437 440 - 519
3	255	1.47	653 - 659 678 - 934

Sequence

`________________________________________________________________________________________________________________________` `6q4r(A) : *TPFPWNKIRLPEYVIPVHYDLLIHANLTTLTFWGTTKVEITASQPTSTIILHSHHLQISRATLRK----rLSEEPLQVLEHPRQEQIALLAPEPLLVGLPYTVVIHYAGNLSETFHGF` `:` `6mgq(A) : DGTPFPWNKIRLPEYVIPVHYDLLIHANLTTLTFWGTTKVEITASQPTSTIILHSHHLQISRATLRKGAGERLSEEPLQVLEHPRQEQIALLAPEPLLVGLPYTVVIHYAGNLSETFHGF` `________________________________________________________________________________________________________________________` `________________________________________________________________________________________________________________________` `6q4r(A) : YKSTYRTKEGELRILASTQFEPTAARMAFPCFDEPAFKASFSIKIRREPRHLAISNMPLVKSVTVAEGLIEDHFDVTVKMSTYLVAFIISDFESVSKITKSGVKVSVYAVPDKINQADYA` `:` `6mgq(A) : YKSTYRTKEGELRILASTQFEPTAARMAFPCFDEPAFKASFSIKIRREPRHLAISNMPLVKSVTVAEGLIEDHFDVTVKMSTYLVAFIISDFESVSKITKSGVKVSVYAVPDKINQADYA` `________________________________________________________________________________________________________________________` `_______________________________________________________________________________________________________________396______` `6q4r(A) : LDAAVTLLEFYEDYFSIPYPLPKQDLAAIPDFQSGAMENWGLTTYRESALLFDAEKSSASSKLGITMTVAHELAHQWFGNLVTMEWWNDLWLNEGFAKFMEFVSVSVTHPELKVGDYFFG` `:` `6mgq(A) : LDAAVTLLEFYEDYFSIPYPLPKQDLAAIPDFQSGAMENWGLTTYRESALLFDAEKSSASSKLDITMTVAHELAHQWFGNLVTMEWWNDLWLNEGFAKFMEFVSVSVTHPELKVGDYFFG` `_______________________________________________________________________________________________________________396______` `_____________418_____426__________________________________________________________________519___________________________` `6q4r(A) : KCFDAMEVDALNSSHPVSTPVENPAQIREMFDDVSYDKGACILNMLREYLSADAFKSGIVQYLQKHSYKNTKNEDLWDSMASI-----vDVKTMMNTWTLQKGFPLITITVRGRNVHMKQ` `:` `6mgq(A) : KCFDAMEVDALNSSHPVSTPVENPAQIREMFDDVSYDKGACILNMLREYLSADAFKSGIVQYLQKHSYKNTKNEDLWDSMASICPTeRVDVKTMMNTWTLQRGFPLITITVRGRNVHMKQ` `_____________418_____426__________________________________________________________________519___________________________` `______________________________________________________________________________________________________651_____659_______` `6q4r(A) : EHYMKG-----dTGYLWHVPLTFITSKSDMVHRFLLKTKTDVLILPEEVEWIKFNVGMNGYYIVHYEDDGWDSLTGLLKGTHTAVSSNDRASLINNAFQLVSIGKLSIEKALDLSLYLKH` `:` `6mgq(A) : EHYMKGSDGAPDTGYLWHVPLTFITSKSDMVHRFLLKTKTDVLILPEEVEWIKFNVGMNGYYIVHYEDDGWDSLTGLLKGTHTAVSSNDRASLINNAFQLVSIGKLSIEKALDLSLYLKH` `______________________________________________________________________________________________________651_____659_______` `________677_____________________________________________________________________________________________________________` `6q4r(A) : ETEIMPVFQGLNELIPMYKLMEKRDMNEVETQFKAFLIRLLRDLIDKQTWTDEGSVSERMLRSQLLLLACVHNYQPCVQRAEGYFRKWKESNGNLSLPVDVTLAVFAVGAQSTEGWDFLY` `:` `6mgq(A) : ETEIMPVFQGLNELIPMYKLMEKRDMNEVETQFKAFLIRLLRDLIDKQTWTDEGSVSERMLRSELLLLACVHNYQPCVQRAEGYFRKWKESNGNLSLPVDVTLAVFAVGAQSTEGWDFLY` `________677_____________________________________________________________________________________________________________` `________________________________________________________________________________________________________________________` `6q4r(A) : SKYQFSLSSTEKSQIEFALCRTQNKEKLQWLLDESFKGDKIKTQEFPQILTLIGRNPVGYPLAWQFLRKNWNKLVQKFELGSSSIAHMVMGTTNQFSTRTRlEEVKGFFSSLKENGSQLR` `:` `6mgq(A) : SKYQFSLSSTEKSQIEFALCRTQNKEKLQWLLDESFKGD-----eFPQILTLIGRNPVGYPLAWQFLRKNWNKLVQKFELGSSSIAHMVMGTTNQFSTRTRLEEVKGFFSSL----sQLR` `________________________________________________________________________________________________________________________` `_______________________________` `6q4r(A) : CVQQTIETIEENIGWMDKNFDKIRVWLQSEK` `:` `6mgq(A) : CVQQTIETIEENIGWMDKNFDKIRVWLQSE` `_______________________________`

Morph

This morph was created using the MorphIt_Pro protein morphing technique.
For more advanced options, right click on the model.

play backwards

pause

play forwards

Domain Pairs

Property	Value
Fixed Domain ( blue )	1
Moving Domain ( red )	2
Rotation Angle (deg)	13.8
Translation (A)	0.1
Closure (%)	79.4
Bending Residues ( green )	396 - 407 418 - 419 426 - 440 519 - 522
Bending Region Analysis

Property	Value
Fixed Domain ( blue )	1
Moving Domain ( yellow )	3
Rotation Angle (deg)	21.2
Translation (A)	-0.4
Closure (%)	70.3
Bending Residues ( green )	651 - 653 659 - 661 677 - 678
Bending Region Analysis

Dynamic Contact Graph

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

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

Movement classification: Mixed

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

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

Movement classification: Hinge

PyMOL Script

Download and extract PyMOL PML script file

Download