DynDom - Protein Domain Motions

Asp/glu-Specific Dipeptidyl-Peptidase

(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	Asp/glu-Specific Dipeptidyl-Peptidase
Conformer 1 (PDB)	5jxk (A)
Conformer 2 (PDB)	5jwi (A)
Window Length	5
Minimum ratio	1.0
Minimum domain size	20

Domains

Domain	Size	Backbone RMSD (A)	Residues
1	490	1.0	23 - 294 338 - 385 542 - 715
2	199	0.75	295 - 337 386 - 541

Sequence

`________________________________________________________________________________________________________________________` `5jxk(A) : MDGGMWLMQQINGQVARMKSLGMQLEAADIYNPNGSSLKDAVVMFDGGCTGVLVSNQGLLLTNHHCGYDQIQKHSSVQHNYLKDGFWSYSLAEELVNPGLEVEIVDEITDVTAAVKKELE` `:` `5jwi(A) : MDGGMWLMQQINGQVARMKSLGMQLEAADIYNPNGSSLKDAVVMFDGGCTGVLVSNQGLLLTNHHCGYDQIQKHSSVQHNYLKDGFWSYSLAEELVNPGLEVEIVDEITDVTAAVKKELE` `________________________________________________________________________________________________________________________` `________________________________________________________________________________________________________________________` `5jxk(A) : RIKKPSGLEFLSPRYLSSLAPEIVGKK----pGYRYEIKAFYGGNRYYMFTKKVFRDVRLVAAPPSSIGKFGSDTDNWAWPRHTGDFSIFRLYADKNGNPAEYSKDNVPYRPKRWVKVNA` `:` `5jwi(A) : RIKKPSGLEFLSPRYLSSLAPEIVGKKAASRPGYRYEIKAFYGGNRYYMFTKKVFRDVRLVAAPPSSIGKFGSDTDNWAWPRHTGDFSIFRLYADKNGNPAEYSKDNVPYRPKRWVKVNA` `________________________________________________________________________________________________________________________` `_______________________________294___________________________________332________________________________________________` `5jxk(A) : QGVKEGDFALIMGYPGTTYKFFTADEVTEWSEIDNNIRIEMRGILQDVMLREMLADPKINIMYAAKYASSQNGYKRAQGANWAIRRRSLREIKLAQQQEVLAWAKQKGIATTEEAVRAIS` `:` `5jwi(A) : QGVKEGDFALIMGYPGTTYKFFTADEVTEWSEIDNNIRIEMRGILQDVMLREMLADPKINIMYAAKYASSQNGYKRAQGANWAIRRRSLREIKLAQQQEVLAWAKQKGIATTEEAVRAIS` `_______________________________294___________________________________332________________________________________________` `__385___________________________________________________________________________________________________________________` `5jxk(A) : KAIEGRQDLRMRQRYLLEGILMGIEMSNAPAADSDIADHWDDPARREAGLQSIRKQFEAFFNKDYSPEVEKDQLAIALLTRYAERIPAEKQPISIREGIAEYGSAKAYVEMIFDKSIYAS` `:` `5jwi(A) : KAIEGRQDLRMRQRYLLEGILMGIEMSNAPAADSDIADHWDDPARREAGLQSIRKQFEAFFNKDYSPEVEKDQLAIALLTRYAERIPAEKQPISIREGIAEYGSAKAYVEMIFDKSIYAS` `__385___________________________________________________________________________________________________________________` `______________________________________541_______________________________________________________________________________` `5jxk(A) : RERFEEFMKNPDRDRLLRDPMSRFAASVAYEHQKLAKEVAAFDAPLAAAQRSYVASVLDMKGQPNLAPDANLTLRFTYGEIKGYQPRDVVTYGAKSTLEGVMEKEDPNNWEYVVDPKLKA` `:` `5jwi(A) : RERFEEFMKNPDRDRLLRDPMSRFAASVAYEHQKLAKEVAAFDAPLAAAQRSYVASVLDMKGQPNLAPDANLTLRFTYGEIKGYQPRDVVTYGAKSTLEGVMEKEDPNNWEYVVDPKLKA` `______________________________________541_______________________________________________________________________________` `___________________________________________________________________________________________________` `5jxk(A) : LYEAKNYGRYANSDGSMPVNFCATTHTTGGNAGSPVMNARGELIGLNFDRNWEGVGGDIEYLPNYQRSIILDIRYLLFIIDKFAGCQRLIDEIQPQFHH` `:` `5jwi(A) : LYEAKNYGRYANSDGSMPVNFCATTHTTGGNAGSPVMNARGELIGLNFDRNWEGVGGDIEYLPNYQRSIILDIRYLLFIIDKFAGCQRLIDEIQPQF**` `___________________________________________________________________________________________________`

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)	22.6
Translation (A)	-1.1
Closure (%)	72.3
Bending Residues ( green )	294 - 295 332 - 349 385 - 386 541 - 543
Bending Region Analysis

Dynamic Contact Graph

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

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

Movement classification: Hinge

PyMOL Script

Download and extract PyMOL PML script file

Download