DynDom - Protein Domain Motions

Outer Protein Yopm

(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	Outer Protein Yopm
Conformer 1 (PDB)	1jl5 (A)
Conformer 2 (PDB)	1g9u (A)
Window Length	5
Minimum ratio	1.0
Minimum domain size	20

Domains

Domain	Size	Backbone RMSD (A)	Residues
1	253	0.94	1056 - 1056 1079 - 1082 1093 - 1093 1095 - 1100 1111 - 1114 1131 - 1139 1143 - 1145 1151 - 1160 1165 - 1171 1173 - 1181 1184 - 1382
2	88	0.69	1042 - 1055 1057 - 1078 1083 - 1092 1094 - 1094 1101 - 1110 1115 - 1130 1140 - 1142 1146 - 1150 1161 - 1164 1172 - 1172 1182 - 1183

Sequence

`__________________1055___________________1078_______1089_______1100______1110____________1126_________1139_______1150___` `1jl5(A) : KSKTEYYNAWSEWERNAPPGNGEQREMAVSRLRDCLDRQAHELELNNLGLSSLPELPPHLESLVASCNSLTELPELPQSLKSLLVDNNNLKALSDLPPLLEYLGVSNNQLEKLPELQNSS` `:` `1g9u(A) : KSKTEYYNAWSEWERNAPPGNGEQREMAVSRLRDCLDRQAHELELNNLGLSSLPELPPHLESLVASCNSLTELPELPQSLKSLLVDNNNLKALSDLPPLLEYLGVSNNQLEKLPELQNSS` `____________________55_____________________78__82_____89________100_______110_114_________126__________139________150___` `___1160_______1171______1181____________________________________________________________________________________________` `1jl5(A) : FLKIIDVDNNSLKKLPDLPPSLEFIAAGNNQLEELPELQNLPFLTAIYADNNSLKKLPDLPLSLESIVAGNNILEELPELQNLPFLTTIYADNNLLKTLPDLPPSLEALNVRDNYLTDLP` `:` `1g9u(A) : FLKIIDVDNNSLKKLPDLPPSLEFIAAGNNQLEELPELQNLPFLTAIYADNNSLKKLPDLPLSLESIVAGNNILEELPELQNLPFLTTIYADNNLLKTLPDLPPSLEALNVRDNYLTDLP` `____160_164____171_______181____________________________________________________________________________________________` `_________________________________________________________________________________________________________________` `1jl5(A) : ELPQSLTFLDVSENIFSGLSELPPNLYYLNASSNEIRSLCDLPPSLEELNVSNNKLIELPALPPRLERLIASFNHLAEVPELPQNLKQLHVEYNPLREFPDIPESVEDLRMNS` `:` `1g9u(A) : ELPQSLTFLDVSENIFSGLSELPPNLYYLNASSNEIRSLCDLPPSLEELNVSNNKLIELPALPPRLERLIASFNHLAEVPELPQNLKQLHVEYNPLREFPDIPESVEDLRMNS` `_________________________________________________________________________________________________________________`

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)	3.2
Translation (A)	-1.3
Closure (%)	29.6
Bending Residues ( green )	1055 - 1057 1078 - 1079 1082 - 1083 1089 - 1095 1100 - 1101 1110 - 1112 1114 - 1115 1126 - 1132 1139 - 1140 1142 - 1146 1150 - 1151 1160 - 1161 1164 - 1165 1171 - 1173 1181 - 1184
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

Download and extract PyMOL PML script file