DynDom - Protein Domain Motions

4-Coumarate--Coa Ligase 2

(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	4-Coumarate--Coa Ligase 2
Conformer 1 (PDB)	5bst (A)
Conformer 2 (PDB)	5bsr (A)
Window Length	7
Minimum ratio	1.0
Minimum domain size	20

Domains

Domain	Size	Backbone RMSD (A)	Residues
1	461	0.42	12 - 228 233 - 264 289 - 298 306 - 306 333 - 533
2	61	0.47	229 - 232 265 - 288 299 - 305 307 - 332

Sequence

`________________________________________________________________________________________________________________________` `5bst(A) : VDIIFRSKLPDIYIPNHLPLHSYCFENISEFSSRPCLINGANKQIYTYADVELNSRKVAAGLHKQGIQPKDTIMILLPNSPEFVFAFIGASYLGAISTMANPLFTPAEVVKQAKASSAKI` `:` `5bsr(A) : *DIIFRSKLPDIYIPNHLPLHSYCFENISEFSSRPCLINGANKQIYTYADVELNSRKVAAGLHKQGIQPKDTIMILLPNSPEFVFAFIGASYLGAISTMANPLFTPAEVVKQAKASSAKI` `________________________________________________________________________________________________________________________` `__________________________________________________________________________________________________228_232_______________` `5bst(A) : IVTQACHVNKVKDYAFENDVKIICIDSAPEGCLHFSVLTQANEHDIPEVEIQPDDVVALPYSSGTTGLPKGVMLTHKGLVTSVAQQVDGENPNLYIHSEDVMLCVLPLFHIYSLNSVLLC` `:` `5bsr(A) : IVTQACHVNKVKDYAFENDVKIICIDSAPEGCLHFSVLTQANEHDIPEVEIQPDDVVALPYSSGTTGLPKGVMLTHKGLVTSVAQQVDGENPNLYIHSEDVMLCVLPLFHIYSLNSVLLC` `__________________________________________________________________________________________________228_232_______________` `______________264_____________________288_______298____305________________________332___________________________________` `5bst(A) : GLRVGAAILIMQKFDIVSFLELIQRYKVTIGPFVPPIVLAIAKSPMVDDYDLSSVRTVMSGAAPLGKELEDTVRAKFPNAKLGQGYGMTEAGPVLAMCLAFAKEPFEIKSGACGTVVRNA` `:` `5bsr(A) : GLRVGAAILIMQKFDIVSFLELIQRYKVTIGPFVPPIVLAIAKSPMVDDYDLSSVRTVMSGAAPLGKELEDTVRAKFPNAKLGQGYGMTEAGPVLAMCLAFAKEPFEIKSGACGTVVRNA` `______________264_____________________288_______298____305________________________332___________________________________` `________________________________________________________________________________________________________________________` `5bst(A) : EMKIVDPKTGNSLPRNQSGEICIRGDQIMKGYLNDPEATARTIDKEGWLYTGDIGYIDDDDELFIVDRLKELIKYKGFQVAPAELEALLLNHPNISDAAVVPMKDEQAGEVPVAFVVRSN` `:` `5bsr(A) : EMKIVDPKTGNSLPRNQSGEICIRGDQIMKGYLNDPEATARTIDKEGWLYTGDIGYIDDDDELFIVDRLKELIKYKGFQVAPAELEALLLNHPNISDAAVVPMKDEQAGEVPVAFVVRSN` `________________________________________________________________________________________________________________________` `_________________________________________________` `5bst(A) : GSTITEDEVKDFISKQVIFYKRIKRVFFVDAIPKSPSGKILRKDLRAKL` `:` `5bsr(A) : GSTITEDEVKDFISKQVIFYKRIKRVFFVDAIPKSPSGKILRKDLRAKL` `_________________________________________________`

Morph

Jmol._Canvas2D (Jmol) "jmolApplet"[x]

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)	4.2
Translation (A)	0.1
Closure (%)	89.6
Bending Residues ( green )	228 - 229 232 - 233 264 - 265 288 - 296 298 - 299 305 - 310 332 - 333
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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