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)	2jc0 (B)
Conformer 2 (PDB)	1gx5 (A)
Window Length	5
Minimum ratio	1.0
Minimum domain size	20

Domains

Domain	Size	Backbone RMSD (A)	Residues
1	370	0.55	5 - 19 29 - 31 33 - 91 96 - 370 374 - 378 383 - 387 393 - 398 419 - 419 422 - 422 426 - 428 474 - 474 482 - 490
2	138	1.12	20 - 28 32 - 32 92 - 95 371 - 373 379 - 382 388 - 392 399 - 418 420 - 421 423 - 423 429 - 473 475 - 481 491 - 528

Sequence

`_________________19__23________________________________________________________________89____95_________________________` `2jc0(B) : SMSYTWTGALITPCAAEESKLPINALSNSLLRHHNMVYATTSRSASLRQKKVTFDRLQVLDDHYRDVLKEMKAKASTVKAKLLSVEEACKLTPPHSAKSKFGYGAKDVRNLSSKAVNHIH` `:` `1gx5(A) : SsYTWTGALITPCAAEESKLPINALSNSLLRHHN-vYATTSRSAGLRQKKVTFDRLQVLDDHYRDVLKE-kAKASTVKAKLLSVEEACKLTPPHSAKSKFGYGAKDVRNLSSKAVNHIH` `_________________19__23________________________________________________________________89____95_________________________` `________________________________________________________________________________________________________________________` `2jc0(B) : SVWKDLLEDTVTPIDTTIMAKNEVFCVQ-----rKPARLIVFPDLGVRVCEKMALYDVVSTLPQVVMGSSYGFQYSPGQRVEFLVNTWKSKKNPMGFSYDTRCFDSTVTENDIRVEESIY` `:` `1gx5(A) : SVWKDLLEDTVTPIDTTI-aKNEVFCVQPEKGGRKPARLIVFPDLGVRVCEK-aLYDVVSTLPQVV-gSSYGFQYSPGQRVEFLVNTWKSKKNP-gFSYDTRCFDSTVTENDIRVEESIY` `________________________________________________________________________________________________________________________` `________________________________________________________________________________________________________________________` `2jc0(B) : QCCDLAPEARQAIKSLTERLYIGGPLTNSKGQNCGYRRCRASGVLTTSCGNTLTCYLKASAACRAAKLQDCTMLVNGDDLVVICESAGVQEDAASLRVFTEAMTRYSAPPGDPPQPEYDL` `:` `1gx5(A) : QCCDLAPEARQAIKSLTERLYIGGPLTNSKGQNCGYRRCRASGVLTTSCGNTLTCYLKASAACRAAKLQDCT-lVNGDDLVVICESAGTQEDAASLRVFTEA-tRYSAPPGDPPQPEYDL` `________________________________________________________________________________________________________________________` `_______370_____378_382__387__392___398_________________418____________________________________________________473_____48` `2jc0(B) : ELITSCSSNVSVAHDASGKRVYYLTRDPTTPLARAAWETARHTPVNSWLGNIIMYAPTLWARMILMTHFFSILLAQEQLEKALDCQIYGACYSIEPLDLPQIIERLHGLSAFSLHSYSPG` `:` `1gx5(A) : ELITSCSSNVSVAHDASGKRVYYLTRDPTTPLARAAWETARHTPVNSWLGNII-yAPTLWARi--LtHFFSILLAQEQLEKALDCQIYGACYSIEPLDLPQIIERLHGLSAFSLHSYSPG` `_______370_____378_382__387__392___398_________________418____________________________________________________473_____48` `1______490_______________________________________________________________________` `2jc0(B) : EINRVASCLRKLGVPPLRVWRHRARSVRARLLSQGGRAATCGKYLFNWAVKTKlTPIPAASQLDLSSWFVAGYSGGDIYHS` `:` `1gx5(A) : EINRVASCLRKLGVPPLRVWRHRARSVRARLLSQGGRAATCGKYLFNWAV******************************` `1______490_______________________________________________________________________`

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)	7.8
Translation (A)	-0.1
Closure (%)	99.7
Bending Residues ( green )	19 - 21 23 - 35 89 - 92 95 - 98 370 - 371 373 - 374 378 - 379 382 - 383 387 - 388 392 - 393 398 - 406 418 - 429 473 - 475 481 - 482 490 - 491
Bending Region Analysis

Dynamic Contact Graph

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

PyMOL Script

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