DynDom - Protein Domain Motions

Benzoylformate Decarboxylase

(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	Benzoylformate Decarboxylase
Conformer 1 (PDB)	3fzn (A)
Conformer 2 (PDB)	5dgd (A)
Window Length	5
Minimum ratio	1.0
Minimum domain size	20

Domains

Domain	Size	Backbone RMSD (A)	Residues
1	302	0.29	4 - 61 63 - 184 359 - 359 366 - 367 372 - 379 397 - 494 510 - 522
2	217	0.31	62 - 62 185 - 358 360 - 365 368 - 371 380 - 396 495 - 509

Sequence

`__________________________________________________________61____________________________________________________________` `3fzn(A) : ASVHGTTYELLRRQGIDTVFGNPGSNELPFLKDFPEDFRYILALQEACVVGIADGYAQASRKPAFINLHSAAGTGNAMGALSNAWNSHSPLIVTAGQQTRAMIGVEALLTNVDAANLPRP` `:` `5dgd(A) : ASVHGTTYELLRRQGIDTVFGNPGSNELPFLKDFPEDFRYILALQEACVVGIADGYAQASRKPAFINLHSAAGTGNAMGALSNAWNSHSPLIVTAGQQTRAMIGVEALLTNVDAANLPRP` `__________________________________________________________61____________________________________________________________` `____________________________________________________________184_________________________________________________________` `3fzn(A) : LVKWSYEPASAAEVPHAMSRAIHMASMAPQGPVYLSVPYDDWDKDADPQSHHLFDRHVSSSVRLNDQDLDILVKALNSASNPAIVLGPDVDAANANADCVMLAERLKAPVWVAPSAPRCP` `:` `5dgd(A) : LVKWSYEPASAAEVPHAMSRAIHMASMAPQGPVYLSVPYDDWDKDADPQSHHLFDRHVSSSVRLNDQDLDILVKALNSASNPAIVLGPDVDAANANADCVMLAERLKAPVWVAPSAPRCP` `____________________________________________________________184_________________________________________________________` `__________________________________________________________________________________________________________________358___` `3fzn(A) : FPTRHPCFRGLMPAGIAAISQLLEGHDVVLVIGAPVFRYHQYDPGQYLKPGTRLISVTCDPLEAARAPMGDAIVADIGAMASALANLVEESSRQLPTAAPEPAKVDQDAGRLHPETVFDT` `:` `5dgd(A) : FPTRHPCFRGLMPAGIAAISQLLEGHDVVLVIGAPVFRYHQYDPGQYLKPGTRLISVTCDPLEAARAPMGDAIVADIGAMASALANLVEESSRQLPTAAPEPAKVDQDAGRLHPETVFDT` `__________________________________________________________________________________________________________________358___` `_365___371_____379______________396_____________________________________________________________________________________` `3fzn(A) : LNDMAPENAIYLNESTSTTAQMWQRLNMRNPGSYYFCAAGGLGFALPAAIGVQLAEPERQVIAVIGDGSANYSISALWTAAQYNIPTIFVIMNNGTYGALRWFAGVLEAENVPGLDVPGI` `:` `5dgd(A) : LNDMAPENAIYLNESTSTTAQMWQRLNMRNPGSYYFCAAGGLGFALPAAIGVQLAEPERQVIAVIGDGSANYSISALWTAAQYNIPTIFVIMNNGTYGVLRWIAGVLEAENVPGLDVPGI` `_365___371_____379______________396_____________________________________________________________________________________` `__________494____________509________________` `3fzn(A) : DFRALAKGYGVQALKADNLEQLKGSLQEALSAKGPVLIEVSTV*` `:` `5dgd(A) : DFRALAKGYGVQALKADNLEQLKGSLQEALSAKGPVLIEVSTVS` `__________494____________509________________`

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)	1.3
Translation (A)	0.2
Closure (%)	95.9
Bending Residues ( green )	61 - 63 184 - 185 358 - 360 365 - 368 371 - 372 379 - 380 396 - 397 494 - 496 509 - 512
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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