DynDom - Protein Domain Motions

Capsid Protein

(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	Capsid Protein
Conformer 1 (PDB)	1ihm (A)
Conformer 2 (PDB)	1ihm (C)
Window Length	5
Minimum ratio	1.0
Minimum domain size	20

Domains

Domain	Size	Backbone RMSD (A)	Residues
1	80	0.83	1043 - 1061 1086 - 1109 1168 - 1182 1208 - 1229
2	47	0.6	1031 - 1033 1079 - 1084 1110 - 1110 1125 - 1150 1159 - 1167 1183 - 1184
3	62	0.66	1062 - 1078 1111 - 1124 1151 - 1158 1185 - 1207
4	277	0.39	1230 - 1506

Sequence

`_____________________________1061_____________1078__1084_____________________1109___________1124______________________11` `1ihm(A) : DPLAMDPVAGSSTAVATAGQVNPIDPWIINNFVQAPQGEFTISPNNTPGDVLFDLSLGPHLNPFLLHLSQMYNGWVGNMRVRIMLAGNAFTAGKIIVSCIPPGFGSHNLTIAQATLFPHV` `:` `1ihm(C) : DPLAMDPVAGSSTAVATAGQVNPIDPWIINNFVQAPQGEFTISPNNTPGDVLFDLSLGPHLNPFLLHLSQMYNGWVGNMRVRIMLAGNAFTAGKIIVSCIPPGFGSHNLTIAQATLFPHV` `_____________________________3061_____________3078__3084_____________________3109___________3124______________________31` `50____1158____1166____________1182_____________________1207__________________1229_______________________________________` `1ihm(A) : IADVRTLDPIEVPLEDVRNVLFHNNDRNQQTMRLVCMLYTPLRTGGGTGDSFVVAGRVMTCPSPDFNFLFLVPPTVEQKTRPFTLPNLPLSSLSNSRAPLPISSMGISPDNVQSVQFQNG` `:` `1ihm(C) : IADVRTLDPIEVPLEDVRNVLFHNNDRNQQTMRLVCMLYTPLRTGGGTGDSFVVAGRVMTCPSPDFNFLFLVPPTVEQKTRPFTLPNLPLSSLSNSRAPLPISSMGISPDNVQSVQFQNG` `50____3158____3166____________3182_____________________3207__________________3229_______________________________________` `________________________________________________________________________________________________________________________` `1ihm(A) : RCTLDGRLVGTTPVSLSHVAKIRGTSNGTVINLTELDGTPFHPFEGPAPIGFPDLGGCDWHINMTQFGHSSQTQYDVDTTPDTFVPHLGSIQANGIGSGNYVGVLSWISPPSHPSGSQVD` `:` `1ihm(C) : RCTLDGRLVGTTPVSLSHVAKIRGTSNGTVINLTELDGTPFHPFEGPAPIGFPDLGGCDWHINMTQFGHSSQTQYDVDTTPDTFVPHLGSIQANGIGSGNYVGVLSWISPPSHPSGSQVD` `________________________________________________________________________________________________________________________` `________________________________________________________________________________________________________________________` `1ihm(A) : LWKIPNYGSSITEATHLAPSVYPPGFGEVLVFFMSKMPGPGAYNLPCLLPQEYISHLASEQAPTVGEAALLHYVDPDTGRNLGEFKAYPDGFLTCVPNGASSGPQQLPINGVFVFVSWVS` `:` `1ihm(C) : LWKIPNYGSSITEATHLAPSVYPPGFGEVLVFFMSKMPGPGAYNLPCLLPQEYISHLASEQAPTVGEAALLHYVDPDTGRNLGEFKAYPDGFLTCVPNGASSGPQQLPINGVFVFVSWVS` `________________________________________________________________________________________________________________________` `____________` `1ihm(A) : RFYQLKPVGTAS` `:` `1ihm(C) : RFYQLKPVGTAS` `____________`

Morph

Morph animation in progress.
Status: Initialising

This morph was created using the MorphIt_Pro protein morphing technique.
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Domain Pairs

Fixed Domain	Moving Domain	Rotation Angle	Translation (A)	Closure	Bending Residues
1	2	10.4	-0.4	6.3	1031 - 1044 1084 - 1086 1109 - 1110 1166 - 1168 1182 - 1183	Bending Region Analysis
1	3	16.2	-1.0	79.7	1061 - 1062 1109 - 1111 1207 - 1208	Bending Region Analysis
1	4	10.0	-0.8	10.6	1229 - 1230	Bending Region Analysis
3	2	9.0	-0.1	46.2	1078 - 1079 1110 - 1111 1124 - 1125 1150 - 1151 1158 - 1159 1184 - 1185	Bending Region Analysis