DynDom - Protein Domain Motions

Ubiquitin-Activating Enzyme E1c

(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	Ubiquitin-Activating Enzyme E1c
Conformer 1 (PDB)	1r4n (B)
Conformer 2 (PDB)	2nvu (B)
Window Length	5
Minimum ratio	1.0
Minimum domain size	20

Domains

Domain	Size	Backbone RMSD (A)	Residues
1	29	5.85	142 - 147 295 - 317
2	31	5.8	218 - 248
3	92	12.43	336 - 915

Sequence

`________________________________________________________________________________________________________________________` `1r4n(B) : ********************************************************DWEGRWNHVKKFLERSGPFTHPDFEPSTESLQFLLDTCKVLVIGAGGLGCELLKNLALSGFR` `:` `2nvu(B) : KIEEGKLVIWINGDKGYNGLAEVGKKFEKDTGIKVTVEHPDKLEEKFPQVAATGDGPDIIFWAHDRFGGYAQSGLLAEITPDKAFQDKLYPFTWDAVRYNGKLIAYPIAVEALSLIYNKD` `________________________________________________________________________________________________________________________` `_______________________________________________________________________147______________________________________________` `1r4n(B) : QIHVIDMDTIDVSNLNRQFLFRPKDIGRPKAEVAAEFLNDRVPNCNVVPHFNKIQDFNDTFYRQFHIIVCGLDSIIARRWINGMLISLLNYEDGVLDPSSIVPLIDGGTEGFKGNARVIL` `:` `2nvu(B) : LLPNPPKTWEEIPALDKELKAKGKSALMFNLQEPYFTWPLIAADGGYAFKYENGKYDIKDVGVDNAGAKAGLTFLVDLIKNKHMNADTDYSIAEAAFNKGETAMTINGPWAWSNIDTSKV` `______________________________________________________________________1195______________________________________________` `____________________________________________________248________________________________________________________________3` `1r4n(B) : PGMTACIECTLELYPPQVNFPMATIASMPRLPEHCIEYVRMLQWPKEQPFGEGVPLDGDDPEHIQWIFQKSLERASQYNIRGVTYRLTQGVVKRIIPAVASTNAVIAAVCATEVFKIATS` `:` `2nvu(B) : NYGVTVLPTFKGQPSKPFVGVLSAGINAASPNKELAKEFLENYLLTDEGLEAVNKDKvALKSYEEEaTMENAQKGEIMPNIPQMSAFWYAVRTAVINAASGRQTVDAALAAAQTNAAADW` `___________________________________________________1296_______________________________________________________________20` `15______________________________________________________________________________________________________________________` `1r4n(B) : AYIPLNNYLVFNDVDGLYTYTFEAERKENCPACSQLPQNIQFSPSAKLQEVLDYLTNSASLQMKSPAITAT----nRTLYLQSvTSIEERTR-------kELGLVDGQE-aVADVTTPQT` `:` `2nvu(B) : EGRWNHVKKFLERSGPFTHPDFEPSTESLQFLLDTCKVLVIGAGGLGCELLKNLALSGFRQIHVIDMDTIDVSNLNRQFLFRPKDIGRPKAEVAAEFLNDRVPNCNVVPHFNKIQDFNDT` `15______________________________________________________________________________________________________________________` `________________________________________________________________________________________________________________________` `1r4n(B) : VLFKLHFT************************************************************************************************************` `:` `2nvu(B) : FYRQFHIIVCGLDSIIARRWINGMLISLLNYEDGVLDPSSIVPLIDGGTEGFKGNARVILPGMTACIECTLELYPPQVNFPMCTIASMPRLPEHCIEYVRMLQWPKEQPFGEGVPLDGDD` `________________________________________________________________________________________________________________________` `________________________________________________________________________________________________________________________` `1r4n(B) : ********************************************************************************************************************` `:` `2nvu(B) : PEHIQWIFQKSLERASQYNIRGVTYRLTQGVVKRIIPAVASTNAVIAAVCATEVFKIATSAYIPLNNYLVFNDVDGLYTYTFEAERKENCPACSQLPQNIQFSPSAKLQEVLDYLTNSAS` `________________________________________________________________________________________________________________________` `_____________________________________________________________________` `1r4n(B) : *******************************************************************` `:` `2nvu(B) : LQMKSPAITATLEGKNRTLYLQSVTSIEERTRPNLSKTLKELGLVDGQELAVADVTTPQTVLFKLHFTS` `_____________________________________________________________________`

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)	165.2
Translation (A)	-30.2
Closure (%)	45.7
Bending Residues ( green )	147 - 219 248 - 295
Bending Region Analysis

Property	Value
Fixed Domain ( blue )	1
Moving Domain ( yellow )	3
Rotation Angle (deg)	123.1
Translation (A)	-32.6
Closure (%)	95.8
Bending Residues ( green )	315 - 336
Bending Region Analysis

Dynamic Contact Graph

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

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

Movement classification:

No Contacts

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

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

Movement classification: Hinge

PyMOL Script

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