DynDom - Protein Domain Motions

Phospholipid-Transporting Atpase

(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	Phospholipid-Transporting Atpase
Conformer 1 (PDB)	6k7l (A)
Conformer 2 (PDB)	6k7m (A)
Window Length	5
Minimum ratio	1.0
Minimum domain size	20

Domains

Domain	Size	Backbone RMSD (A)	Residues
1	136	1.66	37 - 42 144 - 283 484 - 487
2	70	1.66	43 - 124
3	528	0.71	287 - 423 643 - 1061
4	153	1.52	424 - 424 461 - 483 489 - 613 639 - 642

Sequence

`______42____________________________________________________________________________121_________________________________` `6k7l(A) : EVRTIFINQP------------aKYNIITFLPRFLYSQFRRAANSFFLFIALLQQIPDVSPTGRYTTLVPLLFILAVAAIKEIIEDIKRHKADNAVNKKQTQVLRNGAWEIVHWEKVNVG` `:` `6k7m(A) : EVRTIFINQPQLTKFCNNHVSTAKYNIITFLPRFLYSQFRRAANSFFLFIALLQQIPDVSPTGRYTTLVPLLFILAVAAIKEIIEDIKRHKADNAVNKKQTQVLRNGAWEIVHWEKVNVG` `______42____________________________________________________________________________121_________________________________` `________________________________________________________________________________________________________________________` `6k7l(A) : DIVIIKGKEYIPADTVLLSSSEPQAMCYIETSNLDGETNLKIRQGLPATSDIKDVDSLMRISGRIECESPNRHLYDFVGNIRvPLGADQILLRGAQLRNTQWVHGIVVYTGH--------` `:` `6k7m(A) : DIVIIKGKEYIPADTVLLSSSEPQAMCYIETSNLDGETNLKIRQGLPATSDIKDVDSLMRISGRIECESPNRHLYDFVGNIRvPLGADQILLRGAQLRNTQWVHGIVVYTGHDTKLMQNS` `________________________________________________________________________________________________________________________` `283_____________________________________________________________________________________________________________________` `6k7l(A) : tSPPLKLSNVERITNVQILILFCILIAMSLVCSVGSAIWNRRHSGKDWYLNLNYGGASNFGLNFLTFIILFNNLIPISLLVTLEVVKFTQAYFINWDLDMHYEPTDTAAMARTSNLNEEL` `:` `6k7m(A) : TSPPLKLSNVERITNVQILILFCILIAMSLVCSVGSAIWNRRHSGKDWYLNLNYGGASNFGLNFLTFIILFNNLIPISLLVTLEVVKFTQAYFINWDLDMHYEPTDTAAMARTSNLNEEL` `283_____________________________________________________________________________________________________________________` `______________417_______________________________________________476_____________________________________________________` `6k7l(A) : GQVKYIFSDKTGTLTCNVMQFKKCTIAGVAYGQfSDSSLLENLQNNHPTAPIICEFLTMMAVCHTAVPERERDKIIYQAASPDEGALVRAAKQLNFVFTGRTPDSVIIDSLGQEERYELL` `:` `6k7m(A) : GQVKYIFSDKTGTLTCNVMQFKKCTIAGVAYGQ---sSLLENLQNNHPTAPIICEFLTMMAVCHTAVPERERDKIIYQAASPDEGALVRAAKQLNFVFTGRTPDSVIIDSLGQEERYELL` `______________417_______________________________________________476_____________________________________________________` `______________________________________________________________________________________________________________642_______` `6k7l(A) : NVLEFTSARKRMSVIVRTPSGKLRLYCKGADTVIYDRLAETSKYKEITLKHLEQFATEGLRTLCFAVAEISESDFQEWRAVYQRASTSVQNRLLKLEESYELIEKNLQLLGATAIEDKLQ` `:` `6k7m(A) : NVLEFTSARKRMSVIVRTPSGKLRLYCKGADTVIYDRLAETSKYKEITLKHLEQFATEGLRTLCFAVAEISESDFQEWRAVYQRASTSVQNRLLKLEESYELIEKNLQLLGATAIEDKLQ` `______________________________________________________________________________________________________________642_______` `________________________________________________________________________________________________________________________` `6k7l(A) : DQVPETIETLMKADIKIWILTGDKQETAINIGHSCKLLKKNMGMIVINdFALIIDGKTLKYALTFGVRQYFLDLALSCKAVICCRVSPLQKSEVVEMVKKQVKVVTLAIGDGANDVSMIQ` `:` `6k7m(A) : DQVPETIETLMKADIKIWILTGDKQETAINIGHSCKLLKKNMGMIVI--fALIIDGKTLKYALTFGVRQYFLDLALSCKAVICCRVSPLQKSEVVEMVKKQVKVVTLAIGDGANDVSMIQ` `________________________________________________________________________________________________________________________` `________________________________________________________________________________________________________________________` `6k7l(A) : TAHVGVGISGNEGLQAANSSDYSIAQFKYLKNLLMIHGAWNYNRVSKCILYCFYKNIVLYIIEIWFAFVNGFSGQILFERWCIGLYNVMFTAMPPLTLGIFERSCRKENMLKYPELYKTS` `:` `6k7m(A) : TAHVGVGISGNEGLQAANSSDYSIAQFKYLKNLLMIHGAWNYNRVSKCILYCFYKNIVLYIIEIWFAFVNGFSGQILFERWCIGLYNVMFTAMPPLTLGIFERSCRKENMLKYPELYKTS` `________________________________________________________________________________________________________________________` `________________________________________________________________________________________________________________________` `6k7l(A) : QNALDFNTKVFWVHCLNGLFHSVILFWFPLKALQYGTAFGNGKTSDYLLLGNFVYTFVVITVCLKAGLETSYWTWFSHIAIWGSIALWVVFFGIYSSLWPAIPMAPDMSGEAAMLFSSGV` `:` `6k7m(A) : QNALDFNTKVFWVHCLNGLFHSVILFWFPLKALQYGTAFGNGKTSDYLLLGNFVYTFVVITVCLKAGLETSYWTWFSHIAIWGSIALWVVFFGIYSSLWPAIPMAPDMSGEAAMLFSSGV` `________________________________________________________________________________________________________________________` `____________________________________________________` `6k7l(A) : FWMGLLFIPVASLLLDVVYKVIKRTAFKlHGYAFSQDENGIVSQSEVIRAYD` `:` `6k7m(A) : FWMGLLFIPVASLLLDVVYKVIKRTAFK************************` `____________________________________________________`

Morph

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	22.1	-1.8	45.1	42 - 44 121 - 144	Bending Region Analysis
1	3	37.4	1.3	39.6	283 - 287	Bending Region Analysis
1	4	28.3	-2.9	51.9	476 - 489	Bending Region Analysis
4	3	18.9	0.0	33.1	417 - 424 642 - 647	Bending Region Analysis

Dynamic Contact Graph

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

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

Movement classification:

No Contacts

Conformer 1 Contact:
Residue 1 ———› Residue 3

Conformer 2 Contact:
Residue 3 ———› Residue 1

Movement classification: Hinge

Conformer 1 Contact:
Residue 1 ———› Residue 4

Conformer 2 Contact:
Residue 4 ———› Residue 1

Movement classification: Hinge

Conformer 1 Contact:
Residue 4 ———› Residue 3

Conformer 2 Contact:
Residue 3 ———› Residue 4

Movement classification: Hinge

PyMOL Script

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