Nad-Dependent Malic Enzyme, Mitochondrial

(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 Nad-Dependent Malic Enzyme, Mitochondrial
  Conformer 1
(PDB)
1pj3 (C)
  Conformer 2
(PDB)
1pjl (A)
  Window Length 5
  Minimum ratio 1.0
  Minimum domain size 20

Domains

Domain Size Backbone RMSD
(A)
Residues
1 347 0.57   2026 - 2287   2293 - 2293   2465 - 2500   2514 - 2571
2 185 0.59   2288 - 2292   2294 - 2464   2501 - 2513

Sequence


           ________________________________________________________________________________________________________________________ 
 1pj3(C) : IKEKGKPLlNPRTNKGaFTLQERQlGLQGLLPPKIETQDIQALRFHRNLKKtSPLEKYIYIgIQERNEKLFYRILQDDIESLpIVYTPTVGLACSQYGHIFRRPKGLFISISDRGHVRSI 
         :                                                                                                                          
 1pjl(A) : **EKGKPLlNPRTNKGaFTLQERQlGLQGLLPPKIETQDIQALRFHRNLKKtSPLEKYIYIgIQERNEKLFYRILQDDIESLpIVYTPTVGLACSQYGHIFRRPKGLFISISDRGHVRSI 
           ________________________________________________________________________________________________________________________ 

           ________________________________________________________________________________________________________________________ 
 1pj3(C) : VDNWPENHVKAVVVTDGERILGLGDLGVYGgIPVGKLCLYTACAGIRPDRCLPVCIDVGTDNIALLKDPFYgLYQKRDRTQQYDDLIDEFkAITDRYGRNTLIQFEDFGNHNAFRFLRKY 
         :                                                                                                                          
 1pjl(A) : VDNWPENHVKAVVVTDGERILGLGDLGVYGgIPVGKLCLYTACAGIRPDRCLPVCIDVGTDNIALLKDPFYgLYQKRDRTQQYDDLIDEFkAITDRYGRNTLIQFEDFGNHNAFRFLRKY 
           ________________________________________________________________________________________________________________________ 

           ______________2287_2292_________________________________________________________________________________________________ 
 1pj3(C) : REKYCTFNDDIQGTAAVALAGLLAAQKVISKPISEHKILFLGAGEAALGIANLIVsvENGLSEQEAQKKIWfDKYGLLVKGRKAKIDSYQEPFTHSAPESIPDTFEDAVNILKPSTIIGV 
         :                                                                                                                          
 1pjl(A) : REKYCTFNDDIQGTAAVALAGLLAAQKVISKPISEHKILFLGAGEAALGIANLIVsvENGLSEQEAQKKIWfDKYGLLVKGRKAKIDSYQEPFTHSAPESIPDTFEDAVNILKPSTIIGV 
           _______________287__292_________________________________________________________________________________________________ 

           __________________________________________________________________2463_________________________________2500_________2513 
 1pj3(C) : AGAGRLFTPDVIRAaSINERPVIFALSNPTAQAECTAEEAYTLTEGRCLFASGSPFGPVKLTDGRVFTPGQGNNVYIFPGVALAVILCNTRHISDSVFLEAAKALTSQLTDEELAQGRLY 
         :                                                                                                                          
 1pjl(A) : AGAGRLFTPDVIRAaSINERPVIFALSNPTAQAECTAEEAYTLTEGRCLFASGSPFGPVKLTDGRVFTPGQGNNVYIFPGVALAVILCNTRHISDSVFLEAAKALTSQLTDEELAQGRLY 
           ___________________________________________________________________463__________________________________500__________513 

           ___________________________________________________________                                                              
 1pj3(C) : PPLANIQEVSINIAIKVTEYLYANKaFRYPEPEDKAKYVKERTWRSEYDSLLPDVYEWP                                                              
         :                                                                                                                          
 1pjl(A) : PPLANIQEVSINIAIKVTEYLYANKaFRYPEPEDKAKYVKERTWRSEYDSLLPDVYEWP                                                              
           ___________________________________________________________                                                              

Morph

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Domain Pairs

Property Value
Fixed Domain
( blue )
1
Moving Domain
( red )
2
Rotation Angle
(deg)
10.6
Translation
(A)
-0.3
Closure
(%)
95.9
Bending Residues
( green )
  2287 - 2288
  2292 - 2297
  2463 - 2470
  2500 - 2501
  2513 - 2514
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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