DynDom - Protein Domain Motions

Photosystem I P700 Chlorophyll A Apoprotein A1

(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	Photosystem I P700 Chlorophyll A Apoprotein A1
Conformer 1 (PDB)	1jb0 (A)
Conformer 2 (PDB)	1jb0 (B)
Window Length	11
Minimum ratio	1.0
Minimum domain size	20

Domains

Domain	Size	Backbone RMSD (A)	Residues
1	645	3.98	33 - 223 279 - 750
2	37	11.33	224 - 269

Sequence

`________________________________________________________________________________________________________________________` `1jb0(A) : RVVVDNDPVPTSFEKWAKPGHFDRTLARGPQTTTWIWNLHALAHDFDTHTS-DLEDISRKIFSAHFGHLAVVFIWLSGMYFHGAKFSNYEAWLADPTGIKPSAQVVW-PIVGQGILNG-D` `:` `1jb0(B) : ***************ATKFPKFSQDLAQDP-TTRRIWYAIAMAHDFESHDGMTEENLYQKIFASHFGHLAIIFLWVSGSLFHVAWQGNFEQWVQDPVNTRPIAHAIWDPQFGKAAVDAFT` `________________________________________________________________________________________________________________________` `_____________________________________________________________________________________________223________________________` `1jb0(A) : VGGGFHGIQIT-SGLFQLWRASGITNEFQLYCTAIGGLVMAGLMLFAGWFHYH-KRAPKLEWFQNVESMLNHHLAGLLGLGSLAWAGHQIHVSLPINKLLDAGVAAKDIPLPHEFILNPS` `:` `1jb0(B) : QAGASNPVDIAYSGVYHWWYTIGMRTNGDLYQGAIFLLILASLALFAGWLHLQPKFRPSLSWFKNAESRLNHHLAGLFGVSSLAWAGHLIHVAIPESRGQHVGWDNFLSTMPH-----PA` `_____________________________________________________________________________________________200________________________` `_____________________267________________________________________________________________________________________________` `1jb0(A) : LMAELYPKVDWGFF-------SpFFTFNWAAYSDFLTFNGGLNPVTGGLWLSDTAHHHLAIAVLFIIAGHMYRTNWGIGHSLKEILEAH-------KGPFTGAGHKGLYEVLTTSWHAQL` `:` `1jb0(B) : GLAPFFTG-NWGVYAQNPDTASHVFGTAQGAGTAILTFLGGFHPQTESLWLTDMAHHHLAIAVLFIVAGHMYRTQFGIGHSIKEMMDAKDFFGTKVEGPFN-MPHQGIYETYNNSLHFQL` `_____________________242________________________________________________________________________________________________` `________________________________________________________________________________________________________________________` `1jb0(A) : AINLAMMGSLSIIVAQHMYAMPPYPYLATDYPTQLSLFTHHMWIGGFLVVGGAAHGAIFMVRDYDPAMNQNNVLDRVLRHRDAIISHLNWVCIFLGFHSFGLYVHNDTMRAFGRPQDMFS` `:` `1jb0(B) : GWHLACLGVITSLVAQHMYSLPPYAFIAQDHTTMAALYTHHQYIAGFLMVGAFAHGAIFLVRDYDPAQNKGNVLDRVLQHKEAIISHLSWVSLFLGFHTLGLYVHNDVVVAFGTPEKQ--` `________________________________________________________________________________________________________________________` `________________________________________________________________________________________________________________________` `1jb0(A) :` `DTGIQLQPVFAQWVQNLHTLAPGG-----TAPNA-AATASVAFG-----GDVVAVGGKVAMMPIVLGTADFMVHHIHAFTIHVTVLILLKGVLFARSSRLIPDKANLGFRFPCDGPGRGG` `:` `1jb0(B) :` `---ILIEPVFAQFIQAAHGKLLYGFDTLLSNPDSIASTAWPNYGNVWLPGWLDAINSGTNSLFLTIGPGDFLVHHAIALGLHTTTLILVKGALDARGSKLMPDKKDFGYAFPCDGPGRGG` `________________________________________________________________________________________________________________________` `________________________________________________________________________________________________________________________` `1jb0(A) : TCQVSGWDHVFLGLFWMYNCISVVIFHFSWKMQSDVWGTVAPDGTVSHITGGNFAQSAITINGWLRDFLWAQASQVIGSYG----SALSAYGLLFLGAHFIWAFSLMFLFSGRGYWQELI` `:` `1jb0(B) : TCDISAWDAFYLAMFWMLNTIGWVTFYWHWK-HLGVW-----EGNVAQ-----FNESSTYLMGWLRDYLWLNSSQLINGYNPFGTNNLSVWAWMFLFGHLVWATGFMFLISWRGYWQELI` `________________________________________________________________________________________________________________________` `__________________________________________________________` `1jb0(A) : ESIVWAHNKLKVAPAI----QPRALSIIQGRAVGVAHYLLGGIATTWAFFLARIISVG` `:` `1jb0(B) : ETLVWAHERTPLANLVRWKDKPVALSIVQARLVGLAHFSVGYILTYAAFLIASTAAKF` `__________________________________________________________`

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)	101.6
Translation (A)	-0.3
Closure (%)	42.8
Bending Residues ( green )	223 - 224 267 - 279
Bending Region Analysis

Dynamic Contact Graph

Conformer 1 Contact:
Residue 1 ———› Residue 2

Conformer 2 Contact:
Residue 2 ———› Residue 1

Movement classification: Hinge

PyMOL Script

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