DynDom - Protein Domain Motions

Gtp-Binding Protein Lepa

(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	Gtp-Binding Protein Lepa
Conformer 1 (PDB)	3cb4 (A)
Conformer 2 (PDB)	3cb4 (C)
Window Length	5
Minimum ratio	1.0
Minimum domain size	20

Domains

Domain	Size	Backbone RMSD (A)	Residues
1	261	0.51	79 - 82 295 - 341 344 - 553
2	260	0.44	3 - 78 83 - 294 342 - 343

Sequence

`______________________________________________78________________________________________________________________________` `3cb4(A) : MKNIRNFSIIAHIsTLSDRIIQICGGqSVTLDYKASDGETYQLNFIDTPGHVDFSYEVSRSLAACEGALLVVDAGQGVEAQTLANCYTAMEMDLEVVPVLNKIDLPAADPERVAEEIEDI` `:` `3cb4(C) : MKNIRNFSIIAHIsTLSDRIIQICGGqSVTLDYKASDGETYQLNFIDTPGHVDFSYEVSRSLAACEGALLVVDAGQGVEAQTLANCYTAMEMDLEVVPVLNKIDLPAADPERVAEEIEDI` `______________________________________________78________________________________________________________________________` `________________________________________________________________________________________________________________________` `3cb4(A) : VGIDATDAVRCSAKTGVGVQDVLERLVRDIPPPEGDPEGPLQALIIDSWFDNYLGVVSLIRIKNGTLRKGDKVKVMSTGQTYNADRLGIFTPKQVDRTELKCGEVGWLVCAIKDIHGAPV` `:` `3cb4(C) : VGIDATDAVRCSAKTGVGVQDVLERLVRDIPPPEGDPEGPLQALIIDSWFDNYLGVVSLIRIKNGTLRKGDKVKVMSTGQTYNADRLGIFTPKQVDRTELKCGEVGWLVCAIKDIHGAPV` `________________________________________________________________________________________________________________________` `_____________________294____________________________________________341_________________________________________________` `3cb4(A) : GDTLTLARNPAEKALPGFKKVKPQVYAGLFPVSSDDYEAFRDALGKLSLNDASLFYEPESSSALGFGFRCGFLGLLHMEIIQERLEREYDLDLITTAPTVVYEVETTSREVIYVDSPSKL` `:` `3cb4(C) : GDTLTLARNPAEKALPGFKKVKPQVYAGLFPVSSDDYEAFRDALGKLSLNDASLFYEPESSSALGFGFRCGFLGLLHMEIIQERLEREYDLDLITTAPTVVYEVETTSREVIYVDSPSKL` `_____________________294____________________________________________341_________________________________________________` `________________________________________________________________________________________________________________________` `3cb4(A) : PAVNNIYELREPIAECHMLLPQAYLGNVITLCVEKRGVQTNMVYHGNQVALTYEIPMAEVVLDFFDRLKSTSRGYASLDYNFKRFQASDMVRVDVLINGERVDALALITHRDNSQNRGRE` `:` `3cb4(C) : PAVNNIYELREPIAECHMLLPQAYLGNVITLCVEKRGVQTNMVYHGNQVALTYEIPMAEVVLDFFDRLKSTSRGYASLDYNFKRFQASDMVRVDVLINGERVDALALITHRDNSQNRGRE` `________________________________________________________________________________________________________________________` `_____________________________________________` `3cb4(A) : LVEKMKDLIPRQQFDIAIQAAIGTHIIARSTVKQLRKNVLAKCYG` `:` `3cb4(C) : LVEKMKDLIPRQQFDIAIQAAIGTHIIARSTVKQLRKNVLAKCYG` `_____________________________________________`

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)	4.8
Translation (A)	0.1
Closure (%)	99.8
Bending Residues ( green )	78 - 83 294 - 295 341 - 344
Bending Region Analysis

Dynamic Contact Graph

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

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

Movement classification: Mixed

PyMOL Script

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