3N7U,2GSD,2NAC,3FN4,2FSS,2GUG


Conserved Protein Domain Family
FDH

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cd05302: FDH 
Click on image for an interactive view with Cn3D
NAD-dependent Formate Dehydrogenase (FDH)
NAD-dependent formate dehydrogenase (FDH) catalyzes the NAD+-dependent oxidation of a formate anion to carbon dioxide coupled with the reduction of NAD+ to NADH. Formate/glycerate and related dehydrogenases of the D-specific 2-hydroxy acid dehydrogenase family have 2 highly similar subdomains of the alpha/beta form, with NAD binding occurring in the cleft between subdomains. NAD contacts are primarily to the Rossmann-fold NAD-binding domain which is inserted within the linear sequence of the more diverse flavodoxin-like catalytic subdomain. Some related proteins have similar structural subdomain but with a tandem arrangement of the catalytic and NAD-binding subdomains in the linear sequence. FDHs of this family contain no metal ions or prosthetic groups. Catalysis occurs though direct transfer of the hydride ion to NAD+ without the stages of acid-base catalysis typically found in related dehydrogenases. FDHs are found in all methylotrophic microorganisms in energy production from C1 compounds such as methanol, and in the stress responses of plants. NAD-dependent FDH is useful in cofactor regeneration in asymmetrical biocatalytic reduction processes, where FDH irreversibly oxidizes formate to carbon dioxide, while reducing the oxidized form of the cofactor to the reduced form.
Statistics
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PSSM-Id: 240627
Aligned: 23 rows
Threshold Bit Score: 589.297
Created: 26-Oct-2005
Updated: 2-Oct-2020
Structure
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Program:
Drawing:
Aligned Rows:
 
Conserved site includes 25 residues -Click on image for an interactive view with Cn3D
Feature 1:NAD binding site [chemical binding site]
Evidence:
  • Structure:2GSD: Moraxella Formate Dehydrogenase binds NAD, contacts at 4A
  • Structure:3N7U: Arabidopsis thaliana Formate Dehydrogenase binds NAD, contacts at 4A
  • Comment:[AG]xGxxG[17x]D NAD binding motif
  • Citation:PMID 8053888

Sequence Alignment
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Format: Row Display: Color Bits: Type Selection:
Feature 1                                                                                        
3N7U_A         3 KKIVGVFYKAneyat-----------------------------knpnFLGCVENALGIRDWLESQGHQYIVTDDKEGpd 53  thale cress
2GSD_A         2 AKVVCVLYDDpingyptsyarddlpridkypdgqtlptpkaidftpgaLLGSVSGELGLRKYLESQGHELVVTSSKDGpd 81  Moraxella sp.
2FSS_A         2 AKIVLVLYDAgkhaa-----------------------------deekLYGCTENKLGIANWLKDQGHELITTSDEEGgn 52  Candida boidinii
Q07103         2 VKVLAVLYDGgkhge-----------------------------evpeLLGTIQNELGLRKWLEDQGHTLVTTCDKDGen 52  Neurospora cras...
EAK83044       2 VKIVAVLYTAgkygd-----------------------------aqprLLGTVENKLGIADWLKEQGHEFIVTSDKDSpd 52  Ustilago maydis...
Q08911         4 GKVLLVLYEGgkhae-----------------------------eqekLLGCIENELGIRNFIEEQGYELVTTIDKDPep 54  Saccharomyces c...
EDQ66326      54 KKILGVFFAAheya------------------------------knpeFLGCVENALGIREWLESKGHKYVVTSDKDGpd 103 Physcomitrella ...
ACR36271      55 GKILMVLYDGgehak-----------------------------qqpgLLGTTENELGLRKWLEEQGHTLVTTSDKEGen 105 maize
XP_002985142  22 LKVVGVFYKGgehaa-----------------------------knpkFIGNVENCLGIRQWLEDQGHDYIVTDDKEGpt 72  Selaginella moe...
EIE20521      19 KKIVAVLPKGgpaa------------------------------dnpkYLNCVENGLGLREWLEESGHTFIATADKEGsd 68  Coccomyxa sp. C...
Feature 1                          #                       #                         ##  #       
3N7U_A        54 -ceLEKHIPDLHVLISTPFHPAYVTAERIKKAKNLKLLLTAGIGSDHIDLQAAAa--aGLTVAEVTGSNVVSVAEDELMR 130 thale cress
2GSD_A        82 -seLEKHLHDAEVIISQPFWPAYLTAERIAKAPKLKLALTAGIGSDHVDLQAAId--nNITVAEVTYCNSNSVAEHVVMM 158 Moraxella sp.
2FSS_A        53 -svLDQHIPDADIIITTPFHPAYITKERIDKAKKLKLVVVAGVGSDHIDLDYINqtgkKISVLEVTGSNVVSVAEHVVMT 131 Candida boidinii
Q07103        53 -stFDKELEDAEIIITTPFHPGYLTAERLARAKKLKLAVTAGIGSDHVDLNAANktngGITVAEVTGSNVVSVAEHVLMT 131 Neurospora cras...
EAK83044      53 -seFRQHIKDAEIVITTPFHPAYLTAEVLESAKNLKCCITAGVGSDHVDLDVANk--rKISVYEVTGSNVVSVAEHVVMT 129 Ustilago maydis...
Q08911        55 tstVDRELKDAEIVITTPFFPAYISRNRIAEAPNLKLCVTAGVGSDHVDLEAANe--rKITVTEVTGSNVVSVAEHVMAT 132 Saccharomyces c...
EDQ66326     104 -seLDKELADAHILITTPFHPAYMTKERLAKAKNLELLVTAGVGSDHIDLHAAAe--kGLTVSEVTGSNVTSVAEDEVLR 180 Physcomitrella ...
ACR36271     106 -stFDKELVDAEVIITTPFHPGYLTAERLAKAKNLKIAVTAGVGSDHVDLNAANktngGITVAEVTGCNVVSVAEHVVMT 184 maize
XP_002985142  73 -ceLEKHIPDMDVLITTPFHPGYMTAERIQKAKNLKLALTAGIGSDHIDLTAASk--aGITVAEVTGSNVVSVAEDQLMR 149 Selaginella moe...
EIE20521      69 -seLQKNLSDANAIITTPFHPAYMTKELISNASNLELILTAGVGSDHIDLKAAAd--kGITVAEVTGSNVESVAEDEVMR 145 Coccomyxa sp. C...
Feature 1                                                # ###                   ###             
3N7U_A       131 ILILMRNFVPGYNQVVKGEWNVAGIAYRAYDLEGKTIGTVGAGRIGKLLLQRLKPFGC-NLLYHDRLQMapel------- 202 thale cress
2GSD_A       159 VLGLVRNYIPSHDWARNGGWNIADCVARSYDVEGMHVGTVAAGRIGLRVLRLLAPFDM-HLHYTDRHRLpeav------- 230 Moraxella sp.
2FSS_A       132 MLVLVRNFVPAHEQIINHDWEVAAIAKDAYDIEGKTIATIGAGRIGYRVLERLVPFNPkELLYYDYQALpkda------- 204 Candida boidinii
Q07103       132 ILVLVRNFVPAHEQIQEGRWDVAEAAKNEFDLEGKVVGTVGVGRIGERVLRRLKPFDCkELLYYDYQPLsaek------- 204 Neurospora cras...
EAK83044     130 ILVLVRNFVPANRQYLEGDWNVAEVARQSYDLEGKVVGTLGSGRIGSRVLQRLKPFDCaKLTYYDYQRNavle------- 202 Ustilago maydis...
Q08911       133 ILVLIRNYNGGHQQAINGEWDIAGVAKNEYDLEDKIISTVGAGRIGYRVLERLVAFNPkKLLYYDYQELpaeainrlnea 212 Saccharomyces c...
EDQ66326     181 ILVLVRNFAPGWKQVSEGGWNVAAVVHHAYDLIDRTVGTVGGGRIGQELMKRLKGFGLkEMLYYDRNSLgaer------- 253 Physcomitrella ...
ACR36271     185 ILTLVRNFVPAHEQIRRGEWDVAAVAKNEFDLEGKVVGTVAVGRIGERVLRRLKPFDCkELLYYDYQPLspev------- 257 maize
XP_002985142 150 VLILLRNYQNGWTQVNAGGWDVAEIVSKAYDVQGKTIGSVGAGRIGYHLLKRLKAFDC-NLLYYDRVAMpsdk------- 221 Selaginella moe...
EIE20521     146 MLILMRNFVPGYLQAINDEWDVPAIGVKAWDIKGKTVGTVGGGRIAYEVMKRLEPWGV-TRLYFDREQKpdkf------- 217 Coccomyxa sp. C...
Feature 1                                     ### #  #                    ###                    
3N7U_A       203 -----eketGAKFVEDLNEMLpKCDVIVINMPLTEkTRGMFNKELIGKLKKGVLIVNNARGAIMERQAVVDAVESGHIgG 277 thale cress
2GSD_A       231 -----ekelNLTWHATREDMYgACDVVTLNCPLHPeTEHMINDETLKLFKRGAYLVNTARGKLCDRDAIVRALESGRLaG 305 Moraxella sp.
2FSS_A       205 -----eekvGARRVENIEELVaQADIVTVNAPLHAgTKGLINKELLSKFKKGAWLVNTARGAICVAEDVAAALESGQLrG 279 Candida boidinii
Q07103       205 -----eaeiGCRRVADLEEMLaQCDVVTINCPLHEkTQGLFNKELISKMKKGSWLVNTARGAIVVKEDVAEALKSGHLrG 279 Neurospora cras...
EAK83044     203 ------eetGAVRVEDLKEFLsELDVLTINCPLYEgTKGLIDAEKLSWMKKGAWIVNTARGAIVNANDIKAALASGQIrG 276 Ustilago maydis...
Q08911       213 sklfngrgdIVQRVEKLEDMVaQSDVVTINCPLHKdSRGLFNKKLISHMKDGAYLVNTARGAICVAEDVAEAVKSGKLaG 292 Saccharomyces c...
EDQ66326     254 -----ekelGCKRETDLDTMLsKCDVVVVNTPLTDqTRGLFNKERIAKMKKGAYLVNNARGAIADTEAVKEACESGHLgG 328 Physcomitrella ...
ACR36271     258 -----ekeiGCRRVDDLEEMLaQCDVVTINCPLHEkTRGLFNKELISKMKKGSWLVNTARGAIVVKEDVAEAVKSGHLrG 332 maize
XP_002985142 222 -----eketGATREADLDTMLaKCDAVVMNVPLTEkTRGFFNKDRISKMKRGAVLVNNARGALMDANAVAEACKSGHLgG 296 Selaginella moe...
EIE20521     218 ------ddmGVTWEKDLDSLLsKCDIVTVNVPLTDsTKGMFNKEVIGKMKEGAFLINNARGAVVDPEAVEEALKSGQLgG 291 Coccomyxa sp. C...
Feature 1           ##                                   # ##                                    
3N7U_A       278 YSGDVWDPQPAPKDHPWRYM-------------PNQAMTPHTSGTTIDAQLRYAAGTKDMLERYFKGEDfp-tENYIVKD 343 thale cress
2GSD_A       306 YAGDVWFPQPAPNDHPWRTM-------------PHNGMTPHISGTSLSAQTRYAAGTREILECYFEGRPir-dEYLIVQG 371 Moraxella sp.
2FSS_A       280 YGGDVWFPQPAPKDHPWRDMrnk--------ygAGNAMTPHYSGTTLDAQTRYAQGTKNILESFFTGKFdyrpQDIILLN 351 Candida boidinii
Q07103       280 YGGDVWFPQPAPQDHPLRYAknp--------fgGGNAMVPHMSGTSLDAQKRYAAGTKAIIESYLSGKHdyrpEDLIVYG 351 Neurospora cras...
EAK83044     277 YGGDVTDQQPPPKNHPFYTMnanhdnipythgkGGVAMTPHISGTSIDAQARYAAGVKQILTNYFSGTPqt-pANIIVEA 355 Ustilago maydis...
Q08911       293 YGGDVWDKQPAPKDHPWRTMdnk--------dhVGNAMTVHISGTSLDAQKRYAQGVKNILNSYFSKKFdyrpQDIIVQN 364 Saccharomyces c...
EDQ66326     329 YGGDVWNAQPAGKDHPWRYM-------------PNHAMTPHISGTTLDAQKRFAAGTKDMIDRWLKHEAfp-eQNYIVRE 394 Physcomitrella ...
ACR36271     333 YGGDVWFPQPAPADHPLRTVqgp--------wgGGNAMVPHMSGTSIDAQIRYANGTKAILESYFSGRHdyrpQDLIVHG 404 maize
XP_002985142 297 YGGDVWYPQPPPKDHPWRSM-------------PNNAMTPHVSGSTLDAQARYSAGVKEMLRRYFVNEEfp-aDYYIVKD 362 Selaginella moe...
EIE20521     292 YAGDVWPEQPAPKDHPWRHM-------------PNHAMTPHISGTTLDAQERYAGGVRDMLEAWIEEKPfe-eDYYIVRE 357 Coccomyxa sp. C...
Feature 1               
3N7U_A       344 GELAPQY 350 thale cress
2GSD_A       372 GGLAGVG 378 Moraxella sp.
2FSS_A       352 GEYVTKA 358 Candida boidinii
Q07103       352 GDYATKS 358 Neurospora crassa OR74A
EAK83044     356 GEYATKA 362 Ustilago maydis 521
Q08911       365 GSYATRA 371 Saccharomyces cerevisiae S288c
EDQ66326     395 GKLASQY 401 Physcomitrella patens subsp. patens
ACR36271     405 GDYVTKA 411 maize
XP_002985142 363 GKIAPQY 369 Selaginella moellendorffii
EIE20521     358 GELASQY 364 Coccomyxa sp. C-169

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