1NM5,1X13,1X13,1F8G,3P2Y,4DIO,1NM5


Conserved Protein Domain Family
Rubrum_tdh

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cd05304: Rubrum_tdh 
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Rubrum transdehydrogenase NAD-binding and catalytic domains
Transhydrogenases found in bacterial and inner mitochondrial membranes link NAD(P)(H)-dependent redox reactions to proton translocation. The energy of the proton electrochemical gradient (delta-p), generated by the respiratory electron transport chain, is consumed by transhydrogenase in NAD(P)+ reduction. Transhydrogenase is likely involved in the regulation of the citric acid cycle. Rubrum transhydrogenase has 3 components, dI, dII, and dIII. dII spans the membrane while dI and dIII protrude on the cytoplasmic/matrix side. DI contains 2 domains in Rossmann-like folds, linked by a long alpha helix, and contains a NAD binding site. Two dI polypeptides (represented in this sub-family) spontaneously form a heterotrimer with dIII in the absence of dII. In the heterotrimer, both dI chains may bind NAD, but only one is well-ordered. dIII also binds a well-ordered NADP, but in a different orientation than a classical Rossmann domain.
Statistics
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PSSM-Id: 240629
Aligned: 175 rows
Threshold Bit Score: 426.822
Created: 23-Aug-2005
Updated: 2-Oct-2020
Structure
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Program:
Drawing:
Aligned Rows:
 
Conserved site includes 19 residues -Click on image for an interactive view with Cn3D
Feature 1:NAD(P) binding site [chemical binding site]
Evidence:
  • Structure:1NM5: Rhodospirillum rubrum Transhydrogenase bound to NAD; contacts at 4A
  • Structure:1F8G: Rhodospirillum rubrum Transhydrogenase bound to NAD+; contacts at 4A.
  • Comment:GxGxxG(17-18x)D is the characteristic NAD binding site motif of FDH-like proteins

Sequence Alignment
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Format: Row Display: Color Bits: Type Selection:
Feature 1                                                                                      
1NM5_A       1 MKIAIPKERr-----------pGEDRVAISPEVVKKLVGLGFEVIVEQGAGVGa----SITDDALTAAGATIASTaaqal 65   Rhodospirillum r...
EER18484   611 VMVGFVNECifesa----eateTERRVAVTPVVTRKLRMLGFDVAFEEGSGEAa----GFSDEEYELMGATRLKTaeevy 682  Perkinsus marinu...
AAN37121   636 KVENAPNIKdqk-------rdvNLSIVPISPKFIPKLRLMGFRILVERDIGTNi----LMQNDEYTKYGAEVVSRnvi-l 703  Plasmodium falci...
EEA07398   533 KTIAILPSYnem-------gneKTALFLIPPSFVQKFRNFGYGIAVSRDSLKDqh--lHFTEKQYKQGGAIISNTieeli 603  Cryptosporidium ...
EEE21998   495 RTVGVLKDSng----------rGTPLVSLAPRFVKRLRKQAFRVIVESGAGAEa----NFSDDDYVKAGAEIMPNadtvi 560  Toxoplasma gondi...
EAK89427   586 MTIGVLKEDl-----------pSEKLVAIAPNFVKKLRKLGFRVLVESGAGTKs----QFDDQKYENASCTIMATrqdvv 650  Cryptosporidium ...
ACI65904     2 VKVGVVKEIe-----------kGECKVAIVPDGAKRLLKQGVMVCVERGAGNRg----DFSDSDYEKVGATVLNQaeevy 66   Phaeodactylum tr...
EER20496   534 YELGVLKDRy-----------pGEKRVALVPSICAKLYEKGYAIYIEKNAGAGa----GFSDAAYEAVGCVVLPDssgvc 598  Perkinsus marinu...
CBK19628   533 MTVGIPKEVg-----------eEETRVAMTPNAAINLRKMGFKVVIEEGAGEGs----MFTREEYEKVGVEIVSAeev-f 596  Blastocystis hom...
EAL35925   311 VSISVNKGSkkiallpivseqdKTLLFPIPPSKVYKFREKGYEVAISRDVLTSpfqskYFSEEIYMRSGALVYKNieeli 390  Cryptosporidium ...
Feature 1                                                                                  ##  
1NM5_A      66 sQADVVWKVQRPmtae-egtdEVALIKEg-------AVLMCHLGALt-------NRPVVEALTKRKITAYAMELMPRISR 130  Rhodospirillum r...
EER18484   683 aKADVMLRVGALcg------kDVRLCRDgnspegsvQVVISTFPVNd------eVLALLEQFRARKVTVINMAAVPRISR 750  Perkinsus marinu...
AAN37121   704 qQSNIILKVDPPtv------nFIEEIQNn-------TILISYLWPSiny---hlLDKMIQDEEKHNITYLAIDEVPRSTR 767  Plasmodium falci...
EEA07398   604 kISDIVVKLQRPte------gEVFYMKQg-------QVLVCNMYIGmyydkenqQDSLLTTLVKKGITVIALDEVPRISR 670  Cryptosporidium ...
EEE21998   561 sRSDVILKVSVPse------eLIRRIPRg-------KILISHVFPGq-------NAPLLELMASQGLTALAVDEVPRITR 620  Toxoplasma gondi...
EAK89427   651 sRSDVIVKVQKPtd------eEISQMKSg-------QTLVSYIWPAq-------NPSLLESLAKKGVTTIALDEVPRTTR 710  Cryptosporidium ...
ACI65904    67 aAADVIVKIREPimntdtgkhEIDMVGKg-------KTLISFVGPRtd-----qGKLLMDKAKAAGVNLLAVDAIPRISR 134  Phaeodactylum tr...
EER20496   599 aKAKMVFVIRPP---------PVDVLHRlr-----gKYCVSWVGRLtd-----aGKKEIEIANGEGVNLIDVTAVPRITI 659  Perkinsus marinu...
CBK19628   597 sMSDVIVKLNEPlp------nEIKMLREg-------QVLVSYASPAq-------NPDMLKAVADKNVQWLAMDSVPRTTT 656  Blastocystis hom...
EAL35925   391 kECDVVIKMARPse------kEAKCMKQr-------QILICNMHISqyqdkensQDQLLASLTKNGVTVIALDEVPRTSR 457  Cryptosporidium ...
Feature 1       #  #  #                                        ####                   ###      
1NM5_A     131 ANSMDILSSQSNLAGYRAVIDGAYeFARAFPMMMTAAGTVPPARVLVFGVGVAGLQAIATAKRLGAVVMATDVRaaTKEQ 210  Rhodospirillum r...
EER18484   751 AQKLDVLTSMANIAGYRAVVEAFHvLPRISRPSVTASGHLPAASVFVIGTGVAGLSAVATAQSLGARVYASDVRdtTKEQ 830  Perkinsus marinu...
AAN37121   768 AQKLDVRSSMSNLQGYRAVLEAFFiLPRFSKSSITAAGKINPAKVFVIGAGVAGLQAIITAKSLGAIVYSHDSRlaTEEE 847  Plasmodium falci...
EEA07398   671 AQSMDIRSTLSNISGYRAIVEAFNyLPKISRSLYSAAGKIQQSQVLVIGVGVAGLQAIATAKGMGAKIYAIDTRlaSKEE 750  Cryptosporidium ...
EEE21998   621 AQNVDVKSSMQGLQGYRAVLEAFNaLPRLSKTSITAAGRVDAARVLVLGAGVAGLQAISTAHGLQAEVFAYDVRaaTREE 700  Toxoplasma gondi...
EAK89427   711 AQKLDIRSSMSNLAGYRAVIEAFVqLPKLSKSSITAAGRVDAARVFVIGAGVAGLQAIATAKNLGADVYASDTRtaTREE 790  Cryptosporidium ...
ACI65904   135 AQSLDVLSSQAKIAGYRAVIQAANhYQRFLNGEVTSAGSFEAAKVLVVGAGVAGLAAISTASSMGAIVKAFDTRleTKEQ 214  Phaeodactylum tr...
EER20496   660 AQKLDCLSSQAKIAGHRAVLEAAHeYQKFFAPEITAAGKYPPCRVMVLGAGVAGLAAIGTAVSLGAEVRAWDVRd-VSDQ 738  Perkinsus marinu...
CBK19628   657 AQKLDSLSSMGKIAGYRAVIEACSaYQGFFAPQITAAGKFDPCKMLIIGAGVAGLEAIGAAKALGADVRCFDTRsvCREQ 736  Blastocystis hom...
EAL35925   458 AQTMDIRTTTSTISGYRAVVEAFNyLPRISKSISSAAGNVEESTVLVIGAGVAGLQAIATAKSMGTKVFAMDSRstSKEE 537  Cryptosporidium ...
Feature 1                               #          #                 ###      # #              
1NM5_A     211 VESLGGKFITvddeamktaeTAGGYAKEMGEEFRKKQAEAVLKELv-KTDIAITTALIPGKPAPVLITEEMVtKMKPGSV 289  Rhodospirillum r...
EER18484   831 IESMGATFVRiecrelsgagGVGGYAAEISSPEFKRAQMETYAAMvkKVDVVICTAMIPNRRAPVLVTAAMVrSMAPHSV 910  Perkinsus marinu...
AAN37121   848 VKSCGGIFIRipts---ergDILNMSTDMNNEEYIKVQSNLFKKIikKCDILICSASIPGKTSPKLVTTEMIkLMKPGSV 924  Plasmodium falci...
EEA07398   751 AESCGATFIHipsn---eleEDQVYSKEMSENYLKKQRSLISDMLr-STDIVITSAAIPGKPSPILITKEAVcEMKPGSI 826  Cryptosporidium ...
EEE21998   701 VESCGGTFLSvele--eegeVEGGYAREMGEAYEMAQKQMLSRVVp-NVDVIICTAAIHGKPSPKLISNDMLaTMRPGSV 777  Toxoplasma gondi...
EAK89427   791 VESLGAKFVTvdik--edgdSGSGYAKVMSPEYLKAQSKLYSKMIr-SCDVVITTALIPGKPSPKIITREMVnSMKPGSV 867  Cryptosporidium ...
ACI65904   215 VESLGGEFLMlsfss-gdggDSAGYAKVMSEDFYQKEMEMFFKQAk-ECDVIITTAAIPGRKAPVLIKQDAVdQMKPGSV 292  Phaeodactylum tr...
EER20496   739 VESMGGKWFSvdfk--eeggGSGGYAKESSDAFKAAQKATFHKHAk-ECDIIITTAAIPGRPSPRLIEGYMVdSMRPGSV 815  Perkinsus marinu...
CBK19628   737 VESMGGTFLDlkvastesgeGKGGYAKVMSKEYIDAEMALFLAQAk-ECNVIISTAAIPGKRAPILLKREHVeAMKTGSV 815  Blastocystis hom...
EAL35925   538 AESCGARFIQ----------VPSEGESLRKEEILKKQRDLIEKYLc-ISDIVITSACKPGEECPILITKEAVrKMKSGSV 606  Cryptosporidium ...
Feature 1                                                                                      
1NM5_A     290 IIDLAV-------EAGGNCPLSEPGKIVVk--HGVKIVGHTNVPSrvaADASPLFAKNLLNFLTPHVdkd---------- 350  Rhodospirillum r...
EER18484   911 IVDLAA-------TAGGNCELTVPGRTLVdgvSKVTLVGRTTLTSdmpQQSSTMLSHNLLGMLQLLRkdtssg---evgg 980  Perkinsus marinu...
AAN37121   925 AVDLSTefgdkknNWGGNIECSQSNENILi--NGVHVLGRDKIERnmpMQASDLFSMNMINLLEEMGgg----------- 991  Plasmodium falci...
EEA07398   827 IVDLSS-------QYGGNCELTQNNRIYIdesSGVMIIGKSDFIYsmpAQSSELCGNNMLSLFCEMGyt----------- 888  Cryptosporidium ...
EEE21998   778 VIDLATefgdrrsNWGGNVEGSPTDGETQi--HGVTIIGRSRIETqmpTQASELFSMNMSNLLEELGgg----------- 844  Toxoplasma gondi...
EAK89427   868 IVDMAAemadtasGWGGNCEITKKDQIYLdekSGVTIIGLTNLPStmpSQASELFSMNVVHMLEELGga----------- 936  Cryptosporidium ...
ACI65904   293 VIDLAG-------SSGGNCELTKKDEIYVh--KGVTIIGSDMTNQamaWQASTMYSNNIVNLFGILCke----------- 352  Phaeodactylum tr...
EER20496   816 IVDLGA-------EGGGNCELTRKGESYLy-eQKVRIIGYTDMASrmaDQASTMFAANMLNFLTHVHskgpeeardarsf 887  Perkinsus marinu...
CBK19628   816 IVDLAA-------RTGGNCELTQPGEVVVh--KGVTIIGYKQLPCrmsRIASEMYANNIFRLLEHMGka----------- 875  Blastocystis hom...
EAL35925   607 IVDLCS-------EFGGNCELTQKDRTFSdvqSGTTIIGKCNYVFsmpLQSSELFSGNLLSLISELGpt----------- 668  Cryptosporidium ...
Feature 1                                 
1NM5_A     351 tkTLVMKLED-----ETVSGTCVTRDG 372  Rhodospirillum rubrum
EER18484   981 paSLTFNFDD-----VVVRQSTFTRDG 1002 Perkinsus marinus ATCC 50983
AAN37121   992 -vHFNIDMNN-----DIIKSLVVIKDG 1012 Plasmodium falciparum 3D7
EEA07398   889 gdKFKCDLNN-----SVIGPMCVAGDF 910  Cryptosporidium muris RN66
EEE21998   845 -eNFRIDLTN-----EVIKGLCCVHEG 865  Toxoplasma gondii GT1
EAK89427   937 -eHFSVDMKD-----DLLKEMVVTINE 957  Cryptosporidium parvum Iowa II
ACI65904   353 -kRFNIDMKD-----TVIRGMTTVLDE 373  Phaeodactylum tricornutum CCAP 1055/1
EER20496   888 esHLEANIKEspesdIIVRSIVCCKDG 914  Perkinsus marinus ATCC 50983
CBK19628   876 -qDFKIDVSD-----DIIRSMLVCNGG 896  Blastocystis hominis
EAL35925   669 sdRFKCDLNN-----EIISKMCVAHEN 690  Cryptosporidium hominis TU502

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