Beta-Agarase 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 Beta-Agarase B
  Conformer 1
(PDB) 		1o4z (B)
  Conformer 2
(PDB) 		4atf (B)
  Window Length 5
  Minimum ratio 1.0
  Minimum domain size 20

Domains

Domain Size Backbone RMSD
(A)		 Residues
1 249 0.27   63 - 212   214 - 215   230 - 270   272 - 272   297 - 351
2 40 0.35   213 - 213   216 - 229   271 - 271   273 - 296

Sequence


           ________________________________________________________________________________________________________________________ 
 1o4z(B) : VDWKDIPVPADAGPNMKWEFQEISDNFEYEAPADNKGSEFLEKWDDFYHNAWAGPGLTEWKRDRSYVADGELKMWATRKPGSDKINMGCITSKTRVVYPVYIEARAKVMNSTLASDVWLL 
         :                                                                                                                          
 4atf(B) : VDWKDIPVPADAGPNMKWEFQEISDNFEYEAPADNKGSEFLEKWDDFYHNAWAGPGLTEWKRDRSYVADGELKMWATRKPGSDKINMGCITSKTRVVYPVYIEARAKVMNSTLASDVWLL 
           ________________________________________________________________________________________________________________________ 

           ________________________________212______________229______________________________________270_______________________296_ 
 1o4z(B) : SADDTQEIDILEAYGADYSESAGKDHSYFSKKVHISHHVFIRDPFQDYQPKDAGSWFEDGTVWNKEFHRFGVYWRDPWHLEYYIDGVLVRTVSGKDIIDPKHFTNTTDPGNTEIDTRTGL 
         :                                                                                                                          
 4atf(B) : SADDTQEIDILDAYGADYSESAGKDHSYFSKKVHISHHVFIRDPFQDYQPKDAGSWFEDGTVWNKEFHRFGVYWRDPWHLEYYIDGVLVRTVSGKDIIDPKHFTNTTDPGNTEIDTRTGL 
           ________________________________212______________229______________________________________270_______________________296_ 

           _________________________________________________________                                                                
 1o4z(B) : NKEMDIIINTEDQTWRSSPASGLQSNTYTPTDNELSNIENNTFGVDWIRIYKPVEKL                                                                
         :                                                                                                                          
 4atf(B) : NKEMDIIINTEDQTWRSSPASGLQSNTYTPTDNELSNIENNTFGVDWIRIYKPVEK*                                                                
           _________________________________________________________                                                                

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Domain Pairs

Property Value
Fixed Domain
( blue ) 		1
Moving Domain
( red ) 		2
Rotation Angle
(deg) 		3.7
Translation
(A) 		-0.1
Closure
(%) 		92.8
Bending Residues
( green ) 		  212 - 216
  229 - 230
  270 - 273
  296 - 297
Bending Region Analysis

Dynamic Contact Graph

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

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

Movement classification: Shear

PyMOL Script

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