DynDom - Protein Domain Motions

Serine/threonine-Protein Kinase Mtor

(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	Serine/threonine-Protein Kinase Mtor
Conformer 1 (PDB)	4jsn (B)
Conformer 2 (PDB)	4jsn (A)
Window Length	5
Minimum ratio	1.0
Minimum domain size	20

Domains

Domain	Size	Backbone RMSD (A)	Residues
1	211	0.06	1870 - 1901 1907 - 2018 2123 - 2189
2	76	0.03	1737 - 1812
3	280	0.04	1902 - 1904 2215 - 2221 2223 - 2547
4	91	0.02	2023 - 2113
5	21	0.05	2191 - 2210 2222 - 2222
6	52	0.03	1681 - 1732
7	170	0.08	1489 - 1489 1503 - 1511 1513 - 1522 1524 - 1677
8	61	0.04	1443 - 1488 1490 - 1502 1512 - 1512 1523 - 1523
9	55	0.03	1387 - 1441

Sequence

`_____________________________________________________1441___________________________________________1488__________1502__` `4jsn(B) : ERAAKCRAYAKALHYKELEFQKGPTPAILESLISINNKLQQPEAAAGVLEYAMKHFGELEIQATWYEKLHEWEDALVAYDKKMDTNKDDPELMLGRMRCLEALGEWGQLHQQCCEKWTLV` `:` `4jsn(A) : ERAAKCRAYAKALHYKELEFQKGPTPAILESLISINNKLQQPEAAAGVLEYAMKHFGELEIQATWYEKLHEWEDALVAYDKKMDTNKDDPELMLGRMRCLEALGEWGQLHQQCCEKWTLV` `_____________________________________________________1441___________________________________________1488__________1502__` `___1511_______1522______________________________________________________________________________________________________` `4jsn(B) : NDETQAKMARMAAAAAWGLGQWDSMEEYTCMIPRDTHDGAFYRAVLALHQDLFSLAQQCIDKARDLLDAELTAMAGESYSRAYGAMVSCHMLSELEEVIQYKLVPERREIIRQIWWERLQ` `:` `4jsn(A) : NDETQAKMARMAAAAAWGLGQWDSMEEYTCMIPRDTHDGAFYRAVLALHQDLFSLAQQCIDKARDLLDAELTAMAGESYSRAYGAMVSCHMLSELEEVIQYK----rREIIRQIWWERLQ` `___1511_______1522______________________________________________________________________________________________________` `_________________________________________________1677___________________________________________________1732____________` `4jsn(B) : GCQRIVEDWQKILMVRSLVVSPHEDMRTWLKYASLCGKSGRLALAHKTLVLLLGVDPSRQLDHPLPTVHPQVTYAYMKNMWKSARKIDAFQHMQHFVQTMQQQAQHAIATEDQQHKQELH` `:` `4jsn(A) : GCQRIVEDWQKILMVRSLVVSPHEDMRTWLKYASLCGKSGRLALAHKTLVLLLGVDPSRQLDHPLPTVHPQVTYAYMKNMWKSARKIDAFQHMQHFVQTMQQQAQHAIATEDQQHKQELH` `_________________________________________________1677___________________________________________________1732____________` `________________________________________________________________1812_________________________________1901_______________` `4jsn(B) : KLMARCFLKLGEWQLNLQGINESTIPKVLQYYSAATEHDRSWYKAWHAWAVMNFEAVLHYKHQNQARDEKkKVTEDLSKTLLMYTVPAVQGFFRSISLSRGNNLQDTLRVLTLWFDYGHW` `:` `4jsn(A) : KLMARCFLKLGEWQLNLQGINESTIPKVLQYYSAATEHDRSWYKAWHAWAVMNFEAVLHYKHQNQARDEKkKVTEDLSKTLLMYTVPAVQGFFRSISLSRGNNLQDTLRVLTLWFDYGHW` `________________________________________________________________1812_________________________________1901_______________` `__________________________________________________________________________________________________2018__________________` `4jsn(B) : PDVNEALVEGVKAIQIDTWLQVIPQLIARIDTPRPLVGRLIHQLLTDIGRYHPQALIYPLTVASKSTTTARHNAANKILKNMCEHSNTLVQQAMMVSEELIRVAILWHEMWHEGLEEASR` `:` `4jsn(A) : PDVNEALVEGVKAIQIDTWLQVIPQLIARIDTPRPLVGRLIHQLLTDIGRYHPQALIYPLTVASKSTTTARHNAANKILKNMCEHSNTLVQQAMMVSEELIRVAILWHEMWHEGLEEASR` `__________________________________________________________________________________________________2018__________________` `_________________________________________________________________________2113___________________________________________` `4jsn(B) : LYFGERNVKGMFEVLEPLHAMMERGPQTLKETSFNQAYGRDLMEAQEWCRKYMKSGNVKDLTQAWDLYYHVFRRISKQLPQLTSLELQYVSPKLLMCRDLELAVPGTYDPNQPIIRIQSI` `:` `4jsn(A) : LYFGERNVKGMFEVLEPLHAMMERGPQTLKETSFNQAYGRDLMEAQEWCRKYMKSGNVKDLTQAWDLYYHVFRRISKQLPQLTSLELQYVSPKLLMCRDLELAVPGTYDPNQPIIRIQSI` `_________________________________________________________________________2113___________________________________________` `____________________________2188__________________2210_______2221_______________________________________________________` `4jsn(B) : APSLQVITSKQRPRKLTLMGSNGHEFVFLLKGHEDLRQDERVMQLFGLVNTLLANDPTSLRKNLSIQRYAVIPLSTNSGLIGWVPHCDTLHALIRDYREKKKILLNIEHRIMLRMAPDYD` `:` `4jsn(A) : APSLQVITSKQRPRKLTLMGSNGHEFVFLLKGHEDLRQDERVMQLFGLVNTLLANDPTSLRKNLSIQRYAVIPLSTNSGLIGWVPHCDTLHALIRDYREKKKILLNIEHRIMLRMAPDYD` `____________________________2188__________________2210_______2221_______________________________________________________` `________________________________________________________________________________________________________________________` `4jsn(B) : HLTLMQKVEVFEHAVNNTAGDDLAKLLWLKSPSSEVWFDRRTNYTRSLAVMSMVGYILGLGDRHPSNLMLDRLSGKILHIDFGDCFEVAMTREKFPEKIPFRLTRMLTNAMEVTGLDGNY` `:` `4jsn(A) : HLTLMQKVEVFEHAVNNTAGDDLAKLLWLKSPSSEVWFDRRTNYTRSLAVMSMVGYILGLGDRHPSNLMLDRLSGKILHIDFGDCFEVAMTREKFPEKIPFRLTRMLTNAMEVTGLDGNY` `________________________________________________________________________________________________________________________` `__________________________________________________________________________________________________` `4jsn(B) : RITCHTVMEVLREHKDSVMAVLEAFVYDPLLNWRLMDTNTaLNKKAIQIINRVRDKLTGRDFSHDDTLDVPTQVELLIKQATSHENLCQCYIGWCPFW` `:` `4jsn(A) : RITCHTVMEVLREHKDSVMAVLEAFVYDPLLNWRLMDTNTaLNKKAIQIINRVRDKLTGRDFSHDDTLDVPTQVELLIKQATSHENLCQCYIGWCPFW` `__________________________________________________________________________________________________`

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	0.9	-0.1	51.0	1812 - 1870	Bending Region Analysis
1	3	0.8	0.0	95.9	1901 - 1902 1904 - 1907	Bending Region Analysis
1	4	0.5	-0.1	88.5	2018 - 2023 2113 - 2123	Bending Region Analysis
1	5	1.1	0.0	84.8	2188 - 2191	Bending Region Analysis
6	7	1.6	0.1	79.8	1677 - 1681	Bending Region Analysis
6	2	0.7	0.0	0.6	1732 - 1737	Bending Region Analysis
8	9	1.1	0.0	93.8	1441 - 1443	Bending Region Analysis
8	7	0.7	-0.1	91.4	1488 - 1490 1502 - 1503 1511 - 1513 1522 - 1524	Bending Region Analysis
5	3	0.8	-0.1	99.4	2210 - 2215 2221 - 2223	Bending Region Analysis

Dynamic Contact Graph

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

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

Movement classification: Hinge

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 1 ———› Residue 5

Conformer 2 Contact:
Residue 5 ———› Residue 1

Movement classification: Hinge

Conformer 1 Contact:
Residue 6 ———› Residue 7

Conformer 2 Contact:
Residue 7 ———› Residue 6

Movement classification: Hinge

Conformer 1 Contact:
Residue 6 ———› Residue 2

Conformer 2 Contact:
Residue 2 ———› Residue 6

Movement classification: Hinge

Conformer 1 Contact:
Residue 8 ———› Residue 9

Conformer 2 Contact:
Residue 9 ———› Residue 8

Movement classification:

No Contacts

Conformer 1 Contact:
Residue 8 ———› Residue 7

Conformer 2 Contact:
Residue 7 ———› Residue 8

Movement classification: Hinge

Conformer 1 Contact:
Residue 5 ———› Residue 3

Conformer 2 Contact:
Residue 3 ———› Residue 5

Movement classification: Hinge

PyMOL Script

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