DynDom - Protein Domain Motions

Rna-Dependent Rna-Polymerase

(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	Rna-Dependent Rna-Polymerase
Conformer 1 (PDB)	1gx5 (A)
Conformer 2 (PDB)	1nb4 (A)
Window Length	9
Minimum ratio	1.0
Minimum domain size	20

Domains

Domain	Size	Backbone RMSD (A)	Residues
1	341	0.63	6 - 20 34 - 145 157 - 375 384 - 386
2	169	1.1	21 - 33 146 - 156 376 - 383 387 - 526

Sequence

`__________________20___________33_______________________________________________________________________________________` `1gx5(A) : SsYTWTGALITPCAAEESKLPINALSNSLLRHHN-vYATTSRSAGLRQKKVTFDRLQVLDDHYRDVLKE-kAKASTVKAKLLSVEEACKLTPPHSAKSKFGYGAKDVRNLSSKAVNHIH` `:` `1nb4(A) : SMSYTWTGALITPCAAEESKLPINPLSNSLLRHHNMVYATTSRSASLRQKKVTFDRLQVLDDHYRDVLKEMKAKASTVKAKLLSIEEACKLTPPHSAKSKFGYGAKDVRNLSSRAVNHIR` `__________________20___________33_______________________________________________________________________________________` `______________________145________156____________________________________________________________________________________` `1gx5(A) : SVWKDLLEDTVTPIDTTI-aKNEVFCVQPEKGGRKPARLIVFPDLGVRVCEK-aLYDVVSTLPQ-VVgSSYGFQYSPGQRVEFLVNTWKSKKNP-gFSYDTRCFDSTVTENDIRVEESIY` `:` `1nb4(A) : SVWEDLLEDTETPIDTTIMAKSEVFCVQPEKGGRKPARLIVFPDLGVRVCEKMALYDVVSTLPQAVMGSSYGFQYSPKQRVEFLVNTWKSKKCPMGFSYDTRCFDSTVTESDIRVEESIY` `______________________145________156____________________________________________________________________________________` `________________________________________________________________________________________________________________________` `1gx5(A) : QCCDLAPEARQAIKSLTERLYIGGPLTNSKGQNCGYRRCRASGVLTTSCGNTLTCYLKASAACRAAKLQDCT-lVNGDDLVVICESAGTQEDAASLRVFTEA-tRYSAPPGDPPQPEYDL` `:` `1nb4(A) : QCCDLAPEARQAIRSLTERLYIGGPLTNSKGQNCGYRRCRASGVLTTSCGNTLTCYLKATAACRAAKLQDCTMLVNGDDLVVICESAGTQEDAAALRAFTEAMTRYSAPPGDPPQPEYDL` `________________________________________________________________________________________________________________________` `____________375_____383_________________________________________________________________________________________________` `1gx5(A) : ELITSCSSNVSVAHDASGKRVYYLTRDPTTPLARAAWETARHTPVNSWLGNII-yAPTLWARi--LtHFFSILLAQEQLEKALDCQIYGACYSIEPLDLPQIIERLHGLSAFSLHSYSPG` `:` `1nb4(A) : ELITSCSSNVSVAHDASGKRVYYLTRDPTTPLARAAWETARHTPINSWLGNIIMYAPTLWARMILMTHFFSILLAQEQLEKALDCQIYGACYSIEPLDLPQIIERLHGLSAFTLHSYSPG` `____________375_____383_________________________________________________________________________________________________` `______________________________________________________________________________________` `1gx5(A) : EINRVASCLRKLGVPPLRVWRHRARSVRARLLSQGGRAATCGKYLFNWAV***********************************` `:` `1nb4(A) : EINRVASCLRKLGVPPLRTWRHRARSVRAKLLSQGGRAATCGRYLFNWAVRTKLKLTPIPAASQLDLSGWFVAGYSGGDIYHSLSR` `______________________________________________________________________________________`

Morph

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Status: Initialising

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)	8.2
Translation (A)	-0.1
Closure (%)	92.4
Bending Residues ( green )	20 - 21 33 - 34 145 - 146 156 - 157 375 - 376 383 - 384 386 - 387
Bending Region Analysis

Dynamic Contact Graph

The dynamic contact graph is still being generated. Progress: Initialising

PyMOL Script

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