1NPD,1NPY,1NVT,1NYT,1P74,1WXD,2D5C,2EGG,2HK9


Conserved Protein Domain Family
NAD_bind_Shikimate_DH

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cd01065: NAD_bind_Shikimate_DH 
Click on image for an interactive view with Cn3D
NAD(P) binding domain of Shikimate dehydrogenase
Shikimate dehydrogenase (DH) is an amino acid DH family member. Shikimate pathway links metabolism of carbohydrates to de novo biosynthesis of aromatic amino acids, quinones and folate. It is essential in plants, bacteria, and fungi but absent in mammals, thus making enzymes involved in this pathway ideal targets for broad spectrum antibiotics and herbicides. Shikimate DH catalyzes the reduction of 3-hydroshikimate to shikimate using the cofactor NADH. Amino acid DH-like NAD(P)-binding domains are members of the Rossmann fold superfamily and include glutamate, leucine, and phenylalanine DHs, methylene tetrahydrofolate DH, methylene-tetrahydromethanopterin DH, methylene-tetrahydropholate DH/cyclohydrolase, Shikimate DH-like proteins, malate oxidoreductases, and glutamyl tRNA reductase. Amino acid DHs catalyze the deamination of amino acids to keto acids with NAD(P)+ as a cofactor. The NAD(P)-binding Rossmann fold superfamily includes a wide variety of protein families including NAD(P)- binding domains of alcohol DHs, tyrosine-dependent oxidoreductases, glyceraldehyde-3-phosphate DH, lactate/malate DHs, formate/glycerate DHs, siroheme synthases, 6-phosphogluconate DHs, amino acid DHs, repressor rex, NAD-binding potassium channel domain, CoA-binding, and ornithine cyclodeaminase-like domains. These domains have an alpha-beta-alpha configuration. NAD binding involves numerous hydrogen and van der Waals contacts.
Statistics
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PSSM-Id: 133443
View PSSM: cd01065
Aligned: 72 rows
Threshold Bit Score: 97.3419
Threshold Setting Gi: 21219999
Created: 13-Aug-2003
Updated: 17-Jan-2013
Structure
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Program:
Drawing:
Aligned Rows:
 
NAD(P) bindingshikimate
Conserved site includes 11 residues -Click on image for an interactive view with Cn3D
Feature 1:NAD(P) binding site [chemical binding site]
Evidence:

Sequence Alignment
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Format: Row Display: Color Bits: Type Selection:
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
Feature 1                                 #  #                    ##                            
1NPD_A      106 TDGTGHIRAIKESgfdikGKTXVLLGAGGASTAIGAQGAieg-lkEIKLFNRRdeffDKALAFAQRVnent---dcvvTV 181
gi 2792323  108 FDGTGFVAGLVEAghdpkARRVSLVGAGGAGSAIAAAVLaag-adRLALCDPDt---AKLAALKGRLdvhwpgrtsvsAE 183
gi 15595441 110 TDCLGFAEGFRRGladapRQRVVQMGAGGAGAAVAHALLaeg-veRLVLFDVDp---ARAQALADNLnqhfg-apralAG 184
gi 17549617 112 TDWWGFAESFKRGlpgapMGQVVQLGAGGAGAAVAHAMLtlg-aqSLTLFDVEp---ERARQLAASLcgrfg-pgraqAG 186
gi 22002038 109 TDVSGFGRGMEEGlpnakLDSVVQVGAGGVGNAVAYALVthg-vqKLQVADLDt---SRAQALADVInnavg--reavVG 182
gi 23463368 108 LDGVGFVRGLANAghdvkGRSVYLAGAGGAASAIAFALAeag-vvRLTVVNRSs---EKAGQLVARLkehf----pagMF 179
gi 24211475  99 TDVAGVKRAFAHHdvslsGAQAVVVGAGGAGRAAAFALAda--gaTVRIANRTr---AAADELAADVggt------avGL 167
gi 27378654 108 LDARGFVASLAQHqiavrGRKVLQVGAGGAGRATAFGLAeag-arELTIMNRDg---AKAHALAEAVsrr-----ypeTK 178
gi 27378771 111 VDGLGFVGAVRANgydptGKCALLVGAGGAGSAIAMALVeag-vrSLAIHDNEa---ARRDQLIAKLatlgk-agigpGS 185
gi 34222587 107 TDIDGFAAPLLPMaesirNRPVCIFGNGGAALAAVEAFRlrfnpsSVLLVVRDt---QKAEDMLEEYayrdlvtihagRE 183
                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
Feature 1                            ###                                  #                     
1NPD_A      182 TDladqqafaealasaDILTNGTKVgxkp---lenESLVndisl-----lhpglLVTECVYNPHxtkLLQQAQQAGcKTI 253
gi 2792323  184 PDta----------gaDLVVNATPLglr----pgdPLPFrpdrl------apgrVVADIIMKPRetrLLREAAALG-HDV 242
gi 15595441 185 SDlaga------lgdaQGLVNTTPVgma----klpGMPVpaell------radlWVAEVIYFPLeteLLRQARALGcRTL 248
gi 17549617 187 TDlaaa------maaaDGLVHATPTgma----ghpGLPLppdll------qsrhWVAEIVYFPLeteLLRRARALGcRTL 250
gi 22002038 183 VDargied---viaaaDGVVNATPM----------GMPAhpgtafdvscltkdhWVGDVVYMPIeteLLKAARALGcETL 249
gi 23463368 180 VSqgtp-------aghDIIVNGTSLglk----egdALPVdpqyl------rpemLVAEVIMSPEvtpLLQIAKDSGcSIH 242
gi 24211475 168 GDlprs------ladaTVLVHATTVgmd----dpdTSPVsadal------hddlAVLDAVYSPVetrLLRDAAAAGaTTI 231
gi 27378654 179 VNagrae-----arafDLIVNTTSLgmk----tddPLPLdiegv------gpatAVSDIIVTPEvtrLLEQAAAQGaRTI 243
gi 27378771 186 ADps----------gfELVANATPLgmk----agdPLPLdaskl------kastFVGCVITSPAvspLVEAARRLGcKTS 245
gi 34222587 184 IDqpacsk---lirdcRVLVNATPVgtagrndhihSILPtghgl-----lhdgqIVYDMVYNPPetpLLAEARAAGaTVI 255
                       170
                ....*....|....*....
Feature 1        #  ##             
1NPD_A      254 DGYGXLLWQGAEQFTLWTG 272
gi 2792323  243 HYGSHMLAGQLDSYRDFFG 261
gi 15595441 249 DGGTMAVFQAVKAFELFSG 267
gi 17549617 251 DGGGMAVFQAVGAFELFTG 269
gi 22002038 250 DGTRMAIHQAVDAFRLFTG 268
gi 23463368 243 PGKAMLDGQLAEMFDFFTR 261
gi 24211475 232 DGAWMLLYQGAEAFERWTG 250
gi 27378654 244 GGKPMLDAQMALVARFIAR 262
gi 27378771 246 TGTEMYNALQSSMVDFLLA 264
gi 34222587 256 AGIEMLIAQAARAFSIWTG 274

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