Conserved Protein Domain Family
idonate-5-DH

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cd08232: idonate-5-DH 
L-idonate 5-dehydrogenase
L-idonate 5-dehydrogenase (L-ido 5-DH ) catalyzes the conversion of L-lodonate to 5-ketogluconate in the metabolism of L-Idonate to 6-P-gluconate. In E. coli, this GntII pathway is a subsidiary pathway to the canonical GntI system, which also phosphorylates and transports gluconate. L-ido 5-DH is found in an operon with a regulator indR, transporter idnT, 5-keto-D-gluconate 5-reductase, and Gnt kinase. L-ido 5-DH is a zinc-dependent alcohol dehydrogenase-like protein. The alcohol dehydrogenase ADH-like family of proteins is a diverse group of proteins related to the first identified member, class I mammalian ADH. This group is also called the medium chain dehydrogenases/reductase family (MDR) which displays a broad range of activities and are distinguished from the smaller short chain dehydrogenases(~ 250 amino acids vs. the ~ 350 amino acids of the MDR). The MDR proteins have 2 domains: a C-terminal NAD(P) binding-Rossmann fold domain of a beta-alpha form and an N-terminal GroES-like catalytic domain. The MDR group contains a host of activities, including the founding alcohol dehydrogenase (ADH), quinone reductase, sorbitol dehydrogenase, formaldehyde dehydrogenase, butanediol DH, ketose reductase, cinnamyl reductase, and numerous others. The zinc-dependent alcohol dehydrogenases (ADHs) catalyze the NAD(P)(H)-dependent interconversion of alcohols to aldehydes or ketones. ADH-like proteins typically form dimers (typically higher plants, mammals) or tetramers (yeast, bacteria), and generally have 2 tightly bound zinc atoms per subunit. The active site zinc is coordinated by a histidine, two cysteines, and a water molecule. The second zinc seems to play a structural role, affects subunit interactions, and is typically coordinated by 4 cysteines.
Statistics
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PSSM-Id: 176194
View PSSM: cd08232
Aligned: 29 rows
Threshold Bit Score: 353.464
Threshold Setting Gi: 152964804
Created: 3-Feb-2009
Updated: 2-Oct-2020
Structure
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Aligned Rows:
 
putative NAD(P)catalytic Zn
Feature 1:putative NAD(P) binding site [chemical binding site]
Evidence:
  • Comment:MDR family binds NAD(P) as a cofactor
  • Comment:defined by comparison to MDR alcohol dehydrogenase like family

Sequence Alignment
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Format: Row Display: Color Bits: Type Selection:
Feature 1                                         ###  #                                         
NP_771918      4 VVIHapkDLRIDSypdpapgpGEVRVKiaNGGICGSDLHYYHHGGFGvvriqqPMALGHEIAGVVaavgdg-vtsvkPGT 82  Bradyrhizobium ...
YP_998301      4 CEIHgarDLRIADrpaeplaaHQVRVGvkAVGICGSDLHYYQHGRVGdfviraPLTPGHEASGQVlelgaq-vqglqPGQ 82  Verminephrobact...
YP_001045408   4 CVIRaarDLSIEPwaepalqaGEVRLDlaWGGICGSDLHYFQHGRVAnsilrePMILGHEFSGRIrevgpg-vqwlkPGM 82  Rhodobacter sph...
YP_001601458  60 LVIHgkgDLRMDRiatpppgpGEVRVRiaWGGICGSDMHYLRHGGVGasvlrePMVLGHEVSGTVeacgpd-vhgwqAGE 138 Gluconacetobact...
YP_001360588   4 VTVHapgDLRVEEvdapepapGEVLVRivYGGICGSDLHYAADGRNGayvvtePLVLGHEVVGVVeragpdtpaappAGT 83  Kineococcus rad...
CAJ88723      31 VVVHragDVRVDErarpvpgaGEVLLSveWGGICGSDIAYWKKGASGtarlahPLVLGHEFAGRIaelgeg-vtglsVGQ 109 Streptomyces am...
YP_001107130   4 LFIHgaeDMRLEDvavpepadGEVLLRvrYVGICGSDLHYYFHGKNGenvvrePFAPGHEFSATVeadps---gqwaKGT 80  Saccharopolyspo...
YP_887232      4 VVVHganDLRVEElpdpapgtGEVLVAmeWGGICGSDISYWRHGSTG------TAVLKHPMVLGHe----------vAGH 67  Mycobacterium s...
YP_002486560  21 LVAHaagDLRIDDvplaepaeDQAVVEvlYGGICGSDLHYWLHGAAGesilkdPLVLGHEISGVVvraaan-gegpqAGI 99  Arthrobacter ch...
YP_001632562   5 CKIHgarDLRLETdddaplapHEVELRlgAAGICGSDLHYYLHGRVGafvirePLIPGHEASGVVlrvgsa-vtrvqPGM 83  Bordetella petr...
Feature 1                                                                               #   #    
NP_771918     83 RVAVNPSKPCGKCLHCq--eGMRNQCLDMRFLGSAMrFPHVQGGFREFLTIDAtQAVPIADElSLAEAAVAEPLAVCLHA 160 Bradyrhizobium ...
YP_998301     83 RVALNPSRSCGVCRFCr--aGAANHCENVHFFGSASkWPHMQGAMREQVVLDAaQCIAVPDAlSYEVAAFGEPLAVALHA 160 Verminephrobact...
YP_001045408  83 AVAVNPSRPCGSCDQCs--aGLTHLCRSMRFMGSAAhFPHTHGGFAERPVVLAsQCVALPETvDLALAALSEPYAVALHA 160 Rhodobacter sph...
YP_001601458 139 PVAIHPAKPCGTCPECr--rGLHNLCRNMRFFGSAAyLPHTQGGFRRTMTVAAsQLHRLPPGlDLRRAALAEPFAVALHA 216 Gluconacetobact...
YP_001360588  84 RVAVHPATPCAPAGAAa--pTGLHLRPGGTYLGSAStHPHTQGGFTGLLAVGVeRLRELPAAlPLRRAVLAEPLAVALHA 161 Kineococcus rad...
CAJ88723     110 AATVHPARPVGDGVLPerlaGRTNLYPRVRYFGSAAfDPHTDGGFSEYRTVHAtQIRPLPDGvPTEQGALAEPLAVALHA 189 Streptomyces am...
YP_001107130  81 PVTVHPARYGTPVEGIa---DRPHLWPGGDYLGSAAdFPHRQGAAAEYVLVEKpMLRRLPEGlSLRDAALAEPLGVALHA 157 Saccharopolyspo...
YP_887232     68 IAGVGAGVTGLREGDRv---TIHPATESGGYFGSAAfDPHTDGGFCGLKVVRAeQIRRLPDAvDTVRGALAEPLAVAMHA 144 Mycobacterium s...
YP_002486560 100 AVAVHPATPGPGAAKYp--aDRPNLSPGCTYLGSAArHPHTDGAFSRFVNLPVrMLRPLPEGiDLRTAALIEPASVAWHA 177 Arthrobacter ch...
YP_001632562  84 KVAINPSHPCGQCDYCr--aGRDNLCRNMRFLGSASvYPHVQGMFRERFVMGErQLTAVHEDiSLGELACAEPLSIGLHG 161 Bordetella petr...
Feature 1                        ######                  ##   #               #                  
NP_771918    161 GKQAGPL-LGKRVLITGCGPIGALMILVSRFGGAsEIVVTDVadAPLAVARKl-GATHAINVathataldpWRAGKGVF- 237 Bradyrhizobium ...
YP_998301    161 VRQAGSL-LGKSVMVVGAGPIGALVLMAARLAGAsALIAADIvdQPLAVCARv-GATMSINLsrdaaalqaLTQGRGQV- 237 Verminephrobact...
YP_001045408 161 VELAQIA-AGASVLVTGAGTIGSLVAVAARQAGAgRLIVTDIaePALARVRKvtGAETHLVGdpea--traAEAAIGEV- 236 Rhodobacter sph...
YP_001601458 217 IARAGSC-AGKSVLVQGAGPIGALIVAGLAVRGAaRIVAADLhdFPLSVARRl-GATETWNTgap----apDASRDEEF- 289 Gluconacetobact...
YP_001360588 162 VGRLEGRvAGARVLVSGAGPIGVLAVAALKRAGAaHVTAADLqeLPLRVATAv-GADEVVDLsr------gGSLPEAGF- 233 Kineococcus rad...
CAJ88723     190 VGRVPEL-RGRTVLVNGCGPIGSLVVAAARYRGAgRVVAADLasSSLAVARAm-GADETRDLs-------aGEKLPEDV- 259 Streptomyces am...
YP_001107130 158 LTIAGGH-LGDRALVLGAGPVGLLIVAALAARGVeHVAAGDIqeSALDRARAl-GAHETLLI---------GRDDVPTTs 226 Saccharopolyspo...
YP_887232    145 VNRAGTV-RGRDVLVNGAGPIGALVVAAAKYAGAaSVVAADVveAPLAIAKAm-GADGVVNLa-------gGEQLPSDV- 214 Mycobacterium s...
YP_002486560 178 VSRAGDV-RGKTALVIGSGPIGALAVAVLKRAGAaHITAVDLhaKPLEIAAAa-GADHVINAa--------DTAAIEAVe 247 Arthrobacter ch...
YP_001632562 162 VNRAGPL-LGKTVLVTGGGTIGCMTVIAARLAGAaRVVVADIadRPLQMARQv-GADDTLRS---------DQAAPADIa 230 Bordetella petr...
Feature 1                ## #                   ##                       ###                     
NP_771918    238 ---DTLFEASGNQaALRTALDVLRPGATLVQLGLGg--EMTLPINSIVaKELQLRGTFRFDpEFELAVRLMgeglIDVKP 312 Bradyrhizobium ...
YP_998301    238 ---DVCFEVSGSHaALANCIRATRPCGTVVQVGSLggsSEGCPFNQIMvKSLHYIGSFRFVdEYAWAVDYLsrglLDVAP 314 Verminephrobact...
YP_001045408 237 ---DVVLEASGVSaALDMAIRCIRPRGRIVQVGFLp-pEARLSLAGLLiREATLVGAYRFLgEFDEAVRQIstgaVDLAP 312 Rhodobacter sph...
YP_001601458 290 ---DIVFEATGVVaALPFAIAHTRRGGVLVQVGMFppgTIEVPMAQIIaRELDLRGTFRFDaEFAEALDLLaahpQIADG 366 Gluconacetobact...
YP_001360588 234 ---DVVVEAAGVVpSLLAAIRAVRPGGSILQLGILpagPQPVPVGELLsKEVALFGTQRFDtELDAAVELLaa-dDSLDA 309 Kineococcus rad...
CAJ88723     260 ---EVVFEASGAPaALGPVLRATARGGTLVQVGNLpgtAVPAALGDLVtREITWIGSYRFVeEIDDALRALrd-gLDVTP 335 Streptomyces am...
YP_001107130 227 --yPVVFECSGAPaSLTQAVASAARAGVVVQVGMLadtAIGVNLAPLVsKEVQLRGTFRFStEIDEAVDMLaa-hPSIAQ 303 Saccharopolyspo...
YP_887232    215 ---AVVFEASGAVaALGGVLHAAARNGVVVQVGNLpgqPTPASLGDLVsRELTWIGSFRFVdEITDAVAALnd-gLDVTP 290 Mycobacterium s...
YP_002486560 248 --aDVVIESSGNHhGLASAIRGAVRGGTVVMVGLLptgMQPLPISLAItRELDLKGSFRFNdEIDEVIAALadgsLHIDP 325 Arthrobacter ch...
YP_001632562 231 dsaDVAIEAAGSPaALGTCLAAARRGGRIVQVGTLpaeGMVFPANNIMaRELDYVGAFRAGiEFDWAVSFLrtrrVDVRP 310 Bordetella petr...
Feature 1                                        
NP_771918    313 LITATMPFeNAVAAFELAs-DRSQSMKVQLSF 343 Bradyrhizobium japonicum USDA 110
YP_998301    315 LLTQALPVeRVHEAFALAa-DRHQAMKVMVTF 345 Verminephrobacter eiseniae EF01-2
YP_001045408 313 FVTARFGMdAAEEAFAAAa-DRTHNVKVLLSF 343 Rhodobacter sphaeroides ATCC 17029
YP_001601458 367 LVTHEFAFdAYAAAFDASs-NRQAASKVMLEI 397 Gluconacetobacter diazotrophicus PAl 5
YP_001360588 310 VVTDVFGIeDAAAAFARAr-DSANSSKTVLRI 340 Kineococcus radiotolerans SRS30216
CAJ88723     336 LITHRFPLeRAGEALAVAadPASGSSKVMLRL 367 Streptomyces ambofaciens ATCC 23877
YP_001107130 304 VVTHVLPAtEAVEAFATAk-DSAASGKVLIEF 334 Saccharopolyspora erythraea NRRL 2338
YP_887232    291 LITHRYPIdHAAEAIAVAadRNTGSGKVLIQL 322 Mycobacterium smegmatis str. MC2 155
YP_002486560 326 VITHEFPLsDALHAFEVAk-DSTNSGKVLLSF 356 Arthrobacter chlorophenolicus A6
YP_001632562 311 LMSAQLPLeRAAEAFELAa-DRTRSTKVQLVC 341 Bordetella petrii DSM 12804

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