Glycoprotein B

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

Domains

Domain Size Backbone RMSD
(A)		 Residues
1 219 0.35   113 - 145   358 - 361   374 - 374   386 - 388   405 - 407   410 - 422   425 - 429   433 - 438   455 - 455   507 - 507   509 - 509   511 - 658
2 288 0.36   146 - 357   362 - 373   375 - 385   389 - 404   408 - 409   423 - 424   430 - 432   439 - 454   456 - 506   508 - 508   510 - 510
3 35 0.19   688 - 722

Sequence


           __________________________________145___________________________________________________________________________________ 
 2gum(A) : **ANFYVCPPPTGATVVQFEQPRRCPTRPEGQNYTEGIAVVFKENIAPYKFKATMYYKDVTVSQVWFGHRYSQFMGIFEDRAPVPFEEVIDKINAKGVCRSTAKYVRNNLETTAFHRDDH 
         :                                                                                                                          
 2gum(B) : TDANFYVCPPPTGATVVQFEQPRRCPTRPEGQNYTEGIAVVFKENIAPYKFKATMYYKDVTVSQVWFGHRYSQFMGIFEDRAPVPFEEVIDKINAKGVCRSTAKYVRNNLETTAFHRDDH 
           __________________________________145___________________________________________________________________________________ 

           ________________________________________________________________________________________________________________________ 
 2gum(A) : ETDMELKPANAATRTSRGWHTTDLKYNPSRVEAFHRYGTTVNCIVEEVDARSVYPYDEFVLATGDFVYMSPFYGYREGSHTEHTTYAADRFKQVDGFYARDL-aPTTRNLLTTPKFTVAW 
         :                                                                                                                          
 2gum(B) : ETDMELKPANAATRTSRGWHTTDLKYNPSRVEAFHRYGTTVNCIVEEVDARSVYPYDEFVLATGDFVYMSPFYGYREGSHTEHTTYAADRFKQVDGFYARDLtAPTTRNLLTTPKFTVAW 
           ________________________________________________________________________________________________________________________ 

           357_361_________373_________385________________404_______________422____429______438_____________454____________________ 
 2gum(A) : DWVPKRPSVCTMTKWQEVDEMLRSEYGGSFRFSSDAISTTFTTNLTEYPLSRVDLGDCIGKDARDAMDRIFARRYNATHIKVGQPQYYQANGGFLIAYQPLLSNT---vERIKTTSSIEF 
         :                                                                                                                          
 2gum(B) : DWVPKRPSVCTMTKWQEVDEMLRSEYGGSFRFSSDAISTTFTTNLTEYPLSRVDLGDCIGKDARDAMDRIFARRYNATHIKVGQPQYYQANGGFLIAYQPLLSNTLAsVERIKTTSSIEF 
           357_361_________373_________385________________404_______________422____429______438_____________454____________________ 

           506_____________________________________________________________________________________________________________________ 
 2gum(A) : ARLQFTYNHIQRHVNDMLGRVAIAWCELQNHELTLWNEARKLNPNAIASVTVGRRVSARMLGDVMAVSTCVPVAADNVIVQNSMRISSRPGACYSRPLVSFRYEDQGPLVEGQLGENNEL 
         :                                                                                                                          
 2gum(B) : ARLQFTYNHIQRHVNDMLGRVAIAWCELQNHELTLWNEARKLNPNAIASVTVGRRVSARMLGDVMAVSTCVPVAADNVIVQNSMRISSRPGACYSRPLVSFRYEDQGPLVEGQLGENNEL 
           506_____________________________________________________________________________________________________________________ 

           ________________________________658___________________________________________________________________                   
 2gum(A) : RLTRDAIEPCTVGHRRYFTFGGGYVYFEEYAYSHQLSRADITTVSTFIDLNITMLEDHEFVPLEVYTRHEIKDSGLLDYTEVQRRNQLHDLRFADIDTVIHA                   
         :                                                                                                                          
 2gum(B) : RLTRDAIEPCTVGHRRYFTFGGGYVYFEEYAYSHQLSRADITTVSTFIDLNITMLEDHEFVPLEVYTRHEIKDSGLLDYTEVQRRNQLHDLRFADIDTVIH*                   
           ________________________________658___________________________________________________________________                   

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) 		1.5
Translation
(A) 		0.0
Closure
(%) 		89.8
Bending Residues
( green ) 		  145 - 146
  357 - 358
  361 - 362
  373 - 375
  385 - 386
  388 - 389
  404 - 412
  422 - 425
  429 - 430
  432 - 433
  438 - 439
  454 - 456
  506 - 511
Bending Region Analysis
Property Value
Fixed Domain
( blue ) 		1
Moving Domain
( yellow ) 		3
Rotation Angle
(deg) 		2.0
Translation
(A) 		-0.2
Closure
(%) 		77.0
Bending Residues
( green ) 		  658 - 688
Bending Region Analysis

Dynamic Contact Graph

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

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

Movement classification: Shear

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

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

Movement classification:

No Contacts

PyMOL Script

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