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) 		4atf (A)
  Conformer 2
(PDB) 		1o4z (D)
  Window Length 9
  Minimum ratio 1.0
  Minimum domain size 20

Domains

Domain Size Backbone RMSD
(A)		 Residues
1 264 0.38   63 - 215   228 - 280   292 - 349
2 23 0.34   216 - 227   281 - 291

Sequence


           ________________________________________________________________________________________________________________________ 
 4atf(A) : *DWKDIPVPADAGPNMKWEFQEISDNFEYEAPADNKGSEFLEKWDDFYHNAWAGPGLTEWKRDRSYVADGELKMWATRKPGSDKINMGCITSKTRVVYPVYIEARAKVMNSTLASDVWLL 
         :                                                                                                                          
 1o4z(D) : VDWKDIPVPADAGPNMKWEFQEISDNFEYEAPADNKGSEFLEKWDDFYHNAWAGPGLTEWKRDRSYVADGELKMWATRKPGSDKINMGCITSKTRVVYPVYIEARAKVMNSTLASDVWLL 
           ________________________________________________________________________________________________________________________ 

           ___________________________________215_________227__________________________________________________280______289________ 
 4atf(A) : SADDTQEIDILDAYGADYSESAGKDHSYFSKKVHISHHVFIRDPFQDYQPKDAGSWFEDGTVWNKEFHRFGVYWRDPWHLEYYIDGVLVRTVSGKDIIDPKHFTNTTDPGNTEIDTRTGL 
         :                                                                                                                          
 1o4z(D) : SADDTQEIDILEAYGADYSESAGKDHSYFSKKVHISHHVFIRDPFQDYQPKDAGSWFEDGTVWNKEFHRFGVYWRDPWHLEYYIDGVLVRTVSGKDIIDPKHFTNTTDPGNTEIDTRTGL 
           ___________________________________215_________227__________________________________________________280______289________ 

           _________________________________________________________                                                                
 4atf(A) : NKEMDIIINTEDQTWRSSPASGLQSNTYTPTDNELSNIENNTFGVDWIRIYKPVEK*                                                                
         :                                                                                                                          
 1o4z(D) : NKEMDIIINTEDQTWRSSPASGLQSNTYTPTDNELSNIENNTFGVDWIRIYKPVEKL                                                                
           _________________________________________________________                                                                

Morph
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Domain Pairs

Property Value
Fixed Domain
( blue ) 		1
Moving Domain
( red ) 		2
Rotation Angle
(deg) 		3.5
Translation
(A) 		-0.1
Closure
(%) 		95.1
Bending Residues
( green ) 		  215 - 216
  227 - 228
  280 - 281
  289 - 292
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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