2DPH,1KOL


Conserved Protein Domain Family
PFDH_like

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cd08282: PFDH_like 
Click on image for an interactive view with Cn3D
Pseudomonas putida aldehyde-dismutating formaldehyde dehydrogenase (PFDH)
Formaldehyde dehydrogenase (FDH) is a member of the zinc-dependent/medium chain alcohol dehydrogenase family. Unlike typical FDH, Pseudomonas putida aldehyde-dismutating FDH (PFDH) is glutathione-independent. PFDH converts 2 molecules of aldehydes to corresponding carboxylic acid and alcohol. MDH family uses NAD(H) as a cofactor in the interconversion of alcohols and aldehydes, or ketones. Like the zinc-dependent alcohol dehydrogenases (ADH) of the medium chain alcohol dehydrogenase/reductase family (MDR), these tetrameric FDHs have a catalytic zinc that resides between the catalytic and NAD(H)binding domains and a structural zinc in a lobe of the catalytic domain. Unlike ADH, where NAD(P)(H) acts as a cofactor, NADH in FDH is a tightly bound redox cofactor (similar to nicotinamide proteins). The medium chain alcohol dehydrogenase family (MDR) has a NAD(P)(H)-binding domain in a Rossmann fold of an beta-alpha form. The N-terminal region typically has an all-beta catalytic domain. These proteins typically form dimers (typically higher plants, mammals) or tetramers (yeast, bacteria), and have 2 tightly bound zinc atoms per subunit.
Statistics
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PSSM-Id: 176242
View PSSM: cd08282
Aligned: 33 rows
Threshold Bit Score: 450.12
Threshold Setting Gi: 256732402
Created: 14-May-2009
Updated: 2-Oct-2020
Structure
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Program:
Drawing:
Aligned Rows:
 
Conserved site includes 4 residues -Click on image for an interactive view with Cn3D
Feature 1:catalytic Zn binding site [ion binding site]
Evidence:
  • Structure:2DPH: Pseudomonas putida formaldehyde dismutase binds zinc, contacts at 4A
    View structure with Cn3D
  • Structure:1KOL: Pseudomonas putida formaldehyde dehydrogenase binds zinc, contacts at 4A
    View structure with Cn3D

Sequence Alignment
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Format: Row Display: Color Bits: Type Selection:
Feature 1                                                  # #                   #               
2DPH_A         3 NKSVVYHGTRDLRVETVPYPklehnnRKLEHAVILKVVSTNICGSDQHIYRGrfi-vpkGHVLGHEITGEVVEKGSDVeL 81  Pseudomonas putida
CAP79461       2 LAVVWNGIPYNMSVETRPRPv-----IINSTDAIVRLSSASICGTDLHVYHGlygsyqpGWIMGHEGVGYVESVGDGVhS 76  Penicillium chr...
XP_001226420  67 RAVVWEGKPYEMAVRDVPKPe-----IIHSQDAIVRITTAAICGTDLHTYHGifgsptpPWTMGHEGVGIITEVGHAVgH 141 Chaetomium glob...
XP_365503     19 MRAVIFVGLGEVETRDVPFPe-----IEEPEDVILRITTSAVCGSDLHNYRGyfgppkfPYPIGHEAVGVVYKVGPAVdS 93  Magnaporthe gri...
XP_001594499   2 RAVIWAGVPFQMNVTNLPMPt-----VQSPTDALVRITTAAICGTDLHVYHGvygssnvPYTIGHEAIGVISEIGSAVtG 76  Sclerotinia scl...
XP_001389906   2 RSVIFDGQPLNVNVRDVPKAh-----ITRQTDAVVRVTSAAICGSDLHNYHGvsgsdqvPYPIGHEAMGIVEEAGAEVsS 76  Aspergillus nig...
XP_001264148  12 RAVAWFGQPYNVSVIDMPVPh-----IINQTDAIIRIPTSAICGSDLHFYHGysgspnvPWGLGHEAVGYVSEVGSAVsS 86  Neosartorya fis...
XP_364814     21 VRAVFHDAVGKVSVRHVPFPe-----LKEPEDAIVRITTSAICGSDLHNYRGfygpenyPYRAGHEAMGVVHKIGPAVdS 95  Magnaporthe gri...
XP_002384323  14 RAVVWQGDAYNVAVVDLPRPt-----IINQTDVIVRMSRAAICGSDLHIYRGttegmpaPFGLGHEGFGYVSDVGSGVgS 88  Aspergillus fla...
EEU45751       1 MRAVALVGAYNITVIDVPKPt-----IVNGTDAIVRITAAAICGSDLHNYHQdlgspenPLRIGHEAIGFIEEVGDSVeT 75  Nectria haemato...
Feature 1                                                                                        
2DPH_A        82 MDIGDLVSVPFNv-aCGRCRNCKEARSDVCENnlvnpdadlgafgfdlkgwsGGQAEYVLVPYADyMLLKFGDkEQAMek 160 Pseudomonas putida
CAP79461      77 HQVGDYVVVPDN---FGTGQYPSRDIPNEEWTpgygpdy------tggqlvgGTQAEYARVPWADfALTPIPKgPDGKwn 147 Penicillium chr...
XP_001226420 142 FKPGDRVLIPCSa-nCGFFSVDKRQRDQGHLYgagpq----------fspdgGAQAEYLHVPFADdSLVAIPDdFSSDl- 209 Chaetomium glob...
XP_365503     94 FKVGDRVITAIP---DDRPITTKNAFTSPGLDlllg-------------gefGTQAEYMRIPFADsSLIPIPNrISDK-- 155 Magnaporthe gri...
XP_001594499  77 FSVGDRVIIPDGv-qDGHIGGQSHLAYGLGSDygm---------------sdGLQAEYARVPWADgNLMAIPPsNGTNld 140 Sclerotinia scl...
XP_001389906  77 VKVGDRVIIPDIldgIGLDTKSIAVFGEGPQFgn----------------lgGCQAEFVRVPLAEkFLIVLDKeFDKIsd 140 Aspergillus nig...
XP_001264148  87 LQVGDYVIIPDNa-hDGHYGQNHPLSFGSGSPdy-----------------gGLQAEYARVPFADmSLIPIPFnNQTGna 148 Neosartorya fis...
XP_364814     96 LKVGDRVVIAFPddhPIRTENTTVPDIDFFFDpe-----------------fGLQTEYARVPFADsSLIPIPNrLPDK-- 156 Magnaporthe gri...
XP_002384323  89 LRVGDPVIVPFTvdeGHLHTELTTGLYGAFGN--------------------GGDLGGTQVPTLN-YTDPSTNdSVSLl- 146 Aspergillus fla...
EEU45751      76 LKAGDWVVIPFAl-dDGHYQYGPSIDAPLASEt-------------------GMQAEYARIPYADdSLMPVPInSSANss 135 Nectria haemato...
Feature 1                   #                                                                    
2DPH_A       161 ---ikDLTLISDILPTGFHGCVSAGVkPGSHVYIAGAGPVGRCAAAGARLLGaACVIVGDQnpERLKLLSDag--fETID 235 Pseudomonas putida
CAP79461     148 tskelDYIMTSDVFATAWEGLTWSGFeAGDSVAVFGAGPVGQMAAYSAVLRGaSRVYIIDRieSRLTLAQTig--aIPIN 225 Penicillium chr...
XP_001226420 210 -----DWLFLTDIFITAWAGLDYAHFqAGDSVAVFGAGPVGLLCAYAAILRGaSKVYAIDHvrERLDKAASvg--aVPID 282 Chaetomium glob...
XP_365503    156 -----EWIMVSDAFATAWQGLDWAGFqPGDSVAVFGAGPVGLMAAYSASLRGaSRIYIVDHnqQRLDKALEigsavIPIN 230 Magnaporthe gri...
XP_001594499 141 ----nDYLLVGDIWGTAWGAIDYSGFqPGDTVAVFGAGPVGLLAAYTAILRGaSRVYSVDHvpERLKIAESig--aIPIN 214 Sclerotinia scl...
XP_001389906 141 ----kDLVVLSDIFPTAWAGVTWSGFeAGDRVAIFGAGPVGLLAAYSAILRGaSRVYSVDSvrDRLELAASig--aIPID 214 Aspergillus nig...
XP_001264148 149 t-kelDYLMVSDIFSTGWQALSYSGFqPGDTVAVFGAGPVGLMAAYSAMLRGaKRVYSVDQvpSRLELASSig--aVPIS 225 Neosartorya fis...
XP_364814    157 -----EWLFLGDIFTTGWMVLNGAGFeAGDSVAVFGAGPVGLMAAYSACIRGaSRIYVVDHvqQRLDKAREigpgvVPID 231 Magnaporthe gri...
XP_002384323 147 ----nDYVMLSDIFGTGWASLDYAGFeAGDTVAVFGAGPVGLMAAYSAILRGaSTVYSVDYipERLQLAESig--aIPIN 220 Aspergillus fla...
EEU45751     136 t--iyDYLFMSDILATGWAALDFAGLrPGDTVAVFGAGPVGQMAVISAGVRGaSKIYVVDHvqDRLDLAAAhg--aIPVD 211 Nectria haemato...
Feature 1                                                                                        
2DPH_A       236 LRNsaplRDQIDQILGKp--EVDCGVDAVGFEAHGLgdeantetpnGALNSLFDVVRAGGAIGIPGIYVgsdpdpvnkd- 312 Pseudomonas putida
CAP79461     226 YVN----TSAAQQIMALepqGVDRAVDAVGMEARAAngsy---dqnLAVQEAFNVVRSGGGIGIVGVYAtsndapghphs 298 Penicillium chr...
XP_001226420 283 FSSn--aGTASEQILRRqplGVERSVDCIGQECLDHdlkp---rqnYVLQEAVRVTKYNGGIGILGVYIaqgksagaprg 357 Chaetomium glob...
XP_365503    231 FLT----EKASDQILKTspgGVNRAIDCVGQEGVNQklki---ewdYVLRECIRVTTTGGGIGLVGAYVkfaksegvpna 303 Magnaporthe gri...
XP_001594499 215 FNN----SDPVEQILRYepqGVRRSLDCIGFEAVDQqgnp---renEVIMNMIAVTGQQGGIGQIGIFGasntstgtpla 287 Sclerotinia scl...
XP_001389906 215 FTK----GEPSAQILARepnGVQRTIDCVGEECLNEelkp---dqsFVITQATKCTSMDGGLAVIGVYLaeasskgvqrg 287 Aspergillus nig...
XP_001264148 226 FNT----SDPVAQILALepnGVTRALDCVGFESVNAtgqr---vdgLVPRDLIAVVAQQGGIAIAGVYTggqnstrgapf 298 Neosartorya fis...
XP_364814    232 FTKp--gQSASEQILALdggGVNRAVDCVGQECLNRelvv---qqdYVLRECVAVTAAGGGVGVAGVHIvlppapgrpnv 306 Magnaporthe gri...
XP_002384323 221 FRD----ADPVEQILALepnGVTRSIDAVGYEQVNRnltv---qsdVIIRNMLAVTSTGGGLGTVGVYThesnntstapr 293 Aspergillus fla...
EEU45751     212 FAS----EDPVEALLRVepgGITRVVDCVGWEAEDAqgnv---nssIVLHQAGQVVAPQGGIGIVGVYGagdqa------ 278 Nectria haemato...
Feature 1                                                                                        
2DPH_A       313 --agsgrlhldfGKMWTKSIRIMTGMApv--tnYNRHLTEAILWDQmpYLSKVMNIEVITL-DQAPDGYAKFDKGsPAKF 387 Pseudomonas putida
CAP79461     299 -tmlpsmfpfalSDAFMKTFRFQIGIAda--rpSAPQLIDLISSGE--ASPGYIVSSQINI-TQAPEYYQRFNNWlESKV 372 Penicillium chr...
XP_001226420 358 -dlmdkdlaiamPEIFKKNLSFGSGPVnpslyeIMPTAVELVKNGR--AKLSWITTSQIGI-EDAPKAYERFDQKlEIKV 433 Chaetomium glob...
XP_365503    304 -devpaelsvpvAELFAKQLSVKAGTMdp--trTARQMVSLVENGR--AKPSFVIDEGPFDlDQAPQLYRRFNEGkIIKV 378 Magnaporthe gri...
XP_001594499 288 -dtlshtidfpmSDFFSKGLSMRSGPVdi--eaVAPNLIELISSGR--ARPSFIVSSEINI-EQAPEYFRRFDEHlETKV 361 Sclerotinia scl...
XP_001389906 288 -ntispsitfplTSFWGNNMTIRGGIVds--klYVGPLLELVRVGR--AKPGFVFSSTINI-DDAPNAYRRFSDHlETKV 361 Aspergillus nig...
XP_001264148 299 adqipaqvpisiASLWRKALTVGSGIVlp--lnHAQALIDLIAAGR--ATPSFVVSSIIDI-EQVPEYYRRYSDHlEHKV 373 Neosartorya fis...
XP_364814    307 -gqvqpeilfgfPEFWLRGLKLGAVLAdp--akMAPTLSRLVDAGR--ARPGFIVDEGPFDlDEAPELYRRFNEQkIIKV 381 Magnaporthe gri...
XP_002384323 294 astvnthvdfslAQFFYGEFTWGAGPSkp--idLAPELLHLVTSGK--ARPGFIVSDVINI-EDAPEAYARFERHnTTKV 368 Aspergillus fla...
EEU45751     279 -------qtvdlKPLFLDGFSVRGGISap--laLGTEMLNLISAGK--VHPSSIVSAVIDI-EQAPEYYARFDRRqETKV 346 Nectria haemato...
Feature 1            
2DPH_A       388 VIDP 391 Pseudomonas putida
CAP79461     373 VIRF 376 Penicillium chrysogenum Wisconsin 54-1255
XP_001226420 434 VIRF 437 Chaetomium globosum CBS 148.51
XP_365503    379 LFRG 382 Magnaporthe grisea 70-15
XP_001594499 362 MIRF 365 Sclerotinia sclerotiorum 1980
XP_001389906 362 LIKF 365 Aspergillus niger CBS 513.88
XP_001264148 374 VIRF 377 Neosartorya fischeri NRRL 181
XP_364814    382 LFKG 385 Magnaporthe grisea 70-15
XP_002384323 369 IISF 372 Aspergillus flavus NRRL3357
EEU45751     347 VIEF 350 Nectria haematococca mpVI 77-13-4

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