DynDom - Protein Domain Motions

Protein Phosphatase Pp2a

(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	Protein Phosphatase Pp2a
Conformer 1 (PDB)	1b3u (A)
Conformer 2 (PDB)	2nym (D)
Window Length	5
Minimum ratio	1.0
Minimum domain size	20

Domains

Domain	Size	Backbone RMSD (A)	Residues
1	368	1.42	35 - 409
2	26	2.53	9 - 34
3	52	1.33	410 - 463
4	119	0.74	464 - 586

Sequence

`________________________________34______________________________________________________________________________________` `1b3u(A) : AAADGDDSLYPIAVLIDELRNEDVQLRLNSIKKLSTIALALGVERTRSELLPFLTDTIYDEDEVLLALAEQLGTFTTLVGGPEYVHCLLPPLESLATVEETVVRDKAVESLRAISHEHSP` `:` `2nym(D) : ******DSLYPIAVLIDELRNEDVQLRLNSIKKLSTIALALGVERTRSELLPFLTDTIYDEDEVLLALAEQLGTFTTLVGGPEYVHCLLPPLESLATVEETVVRDKAVESLRAISHEHSP` `________________________________35______________________________________________________________________________________` `________________________________________________________________________________________________________________________` `1b3u(A) : SDLEAHFVPLVKRLAGGDWFTSRTSACGLFSVCYPRVSSAVKAELRQYFRNLCSDDTPMVRRAAASKLGEFAKVLELDNVKSEIIPMFSNLASDEQDSVRLLAVEACVNIAQLLPQEDLE` `:` `2nym(D) : SDLEAHFVPLVKRLAGGDWFTSRTSACGLFSVCYPRVSSAVKAELRQYFRNLCSDDTP-vRRAAASKLGEFAKVLELDNVKSEIIP-fSNLASDEQDSVRLLAVEACVNIAQLLPQEDLE` `________________________________________________________________________________________________________________________` `________________________________________________________________________________________________________________________` `1b3u(A) : ALVMPTLRQAAEDKSWRVRYMVADKFTELQKAVGPEITKTDLVPAFQNLMKDCEAEVRAAASHKVKEFCENLSADCRENVIMSQILPCIKELVSDANQHVKSALASVIMGLSPILGKDNT` `:` `2nym(D) : ALV-pTLRQAAEDKSWRVRY-vADKFTELQKAVGPEITKTDLVPAFQNL-kDCEAEVRAAASHKVKEFCENLSADCRENVI-sQILPCIKELVSDANQHVKSALASVI-gLSPILGKDNT` `________________________________________________________________________________________________________________________` `_______________________________________402__________________________________________________________463_________________` `1b3u(A) : IEHLLPLFLAQLKDECPEVRLNIISNLDCVNEVIGIRQLSQSLLPAIVELAEDAKWRVRLAIIEYMPLLAGQLGVEFFDEKLNSLCMAWLVDHVYAIREAATSNLKKLVEKFGKEWAHAT` `:` `2nym(D) : IEHLLPLFLAQLKDECPEVRLNIISNLDCVNEVIGIRQLSQSLLPAIVELAEDAKWRVRLAIIEY-pLLAGQLGVEFFDEKLNSLC-aWLVDHVYAIREAATSNLKKLVEKFGKEWAHAT` `_______________________________________403__________________________________________________________464_________________` `____________________________________________________________________________________________________________` `1b3u(A) : IIPKVLAMSGDPNYLHRMTTLFCINVLSEVCGQDITTKHMLPTVLRMAGDPVANVRFNVAKSLQKIGPILDNSTLQSEVKPILEKLTQDQDVDVKYFAQEALTVLSLA` `:` `2nym(D) : IIPKVLA-sGDPNYLHR-tTLFCINVLSEVCGQDITTKH-lPTVLR-aGDPVANVRFNVAKSLQKIGPILDNSTLQSEVKPILEKLTQDQDVDVKYFAQEALTVLSLA` `____________________________________________________________________________________________________________`

Morph

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Status: Initialising

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Domain Pairs

Property	Value
Fixed Domain ( blue )	1
Moving Domain ( red )	2
Rotation Angle (deg)	132.1
Translation (A)	-1.2
Closure (%)	26.1
Bending Residues ( green )	238 - 243
Bending Region Analysis

Dynamic Contact Graph

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

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

Movement classification: Hinge

ASPARTYL-TRNA SYNTHETASE

PyMOL Script

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