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)	1pi3 (A)
Window Length	5
Minimum ratio	1.0
Minimum domain size	20

Domains

Domain	Size	Backbone RMSD (A)	Residues
1	305	0.3	4 - 61 63 - 185 209 - 210 303 - 308 353 - 353 365 - 366 372 - 374 378 - 378 397 - 421 424 - 494 510 - 522
2	214	0.31	62 - 62 186 - 208 211 - 302 309 - 352 354 - 364 367 - 371 375 - 377 379 - 396 422 - 423 495 - 509

Sequence

`__________________________________________________________61____________________________________________________________` `3fzn(A) : ASVHGTTYELLRRQGIDTVFGNPGSNELPFLKDFPEDFRYILALQEACVVGIADGYAQASRKPAFINLHSAAGTGNAMGALSNAWNSHSPLIVTAGQQTRAMIGVEALLTNVDAANLPRP` `:` `1pi3(A) : ASVHGTTYELLRRQGIDTVFGNPGSNQLPFLKDFPEDFRYILALQEACVVGIADGYAQASRKPAFINLHSAAGTGNAMGALSNAWNSHSPLIVTAGQQTRAMIGVEALLTNVDAANLPRP` `__________________________________________________________61____________________________________________________________` `_____________________________________________________________185____________________208_________________________________` `3fzn(A) : LVKWSYEPASAAEVPHAMSRAIHMASMAPQGPVYLSVPYDDWDKDADPQSHHLFDRHVSSSVRLNDQDLDILVKALNSASNPAIVLGPDVDAANANADCVMLAERLKAPVWVAPSAPRCP` `:` `1pi3(A) : LVKWSYEPASAAEVPHAMSRAIHMASMAPQGPVYLSVPYDDWDKDADPQSHHLFDRHVSSSVRLNDQDLDILVKALNSASNPAIVLGPDVDAANANADCVMLAERLKAPVWVAPSAPRCP` `_____________________________________________________________185____________________208_________________________________` `__________________________________________________________302___308_________________________________________352_________` `3fzn(A) : FPTRHPCFRGLMPAGIAAISQLLEGHDVVLVIGAPVFRYHQYDPGQYLKPGTRLISVTCDPLEAARAPMGDAIVADIGAMASALANLVEESSRQLPTAAPEPAKVDQDAGRLHPETVFDT` `:` `1pi3(A) : FPTRHPCFRGLMPAGIAAISQLLEGHDVVLVIGAPVFRYHQYDPGQYLKPGTRLISVTCDPLEAARAPMGDAIVADIGAMASALANLVEESSRQLPTAAPEPAKVDQDAGRLHPETVFDT` `__________________________________________________________302___308_________________________________________352_________` `364____371___377________________396______________________421____________________________________________________________` `3fzn(A) : LNDMAPENAIYLNESTSTTAQMWQRLNMRNPGSYYFCAAGGLGFALPAAIGVQLAEPERQVIAVIGDGSANYSISALWTAAQYNIPTIFVIMNNGTYGALRWFAGVLEAENVPGLDVPGI` `:` `1pi3(A) : LNDMAPENAIYLNESTSTTAQMWQRLNMRNPGSYYFCAAGGLGFALPAAIGVQLAEPERQVIAVIGDGSANYSISALWTAAQYNIPTIFVIMNNGTYGALRWFAGVLEAENVPGLDVPGI` `364____371___377________________396______________________421____________________________________________________________` `__________494____________509_______________` `3fzn(A) : DFRALAKGYGVQALKADNLEQLKGSLQEALSAKGPVLIEVSTV` `:` `1pi3(A) : DFRALAKGYGVQALKADNLEQLKGSLQEALSAKGPVLIEVSTV` `__________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 (%)	96.9
Bending Residues ( green )	61 - 63 185 - 186 208 - 211 302 - 303 308 - 309 352 - 354 364 - 367 371 - 372 374 - 375 377 - 379 396 - 397 421 - 424 494 - 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

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