2E2L,3DLA,3DLA,3DLA,2E2L,2E11,2E11,1EMS,1J31,1J31,1UF8,1FO6,1FO6,2VHI,3HKX


Conserved Protein Domain Family
nitrilase

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cd07197: nitrilase 
Click on image for an interactive view with Cn3D
Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes
This superfamily (also known as the C-N hydrolase superfamily) contains hydrolases that break carbon-nitrogen bonds; it includes nitrilases, cyanide dihydratases, aliphatic amidases, N-terminal amidases, beta-ureidopropionases, biotinidases, pantotheinase, N-carbamyl-D-amino acid amidohydrolases, the glutaminase domain of glutamine-dependent NAD+ synthetase, apolipoprotein N-acyltransferases, and N-carbamoylputrescine amidohydrolases, among others. These enzymes depend on a Glu-Lys-Cys catalytic triad, and work through a thiol acylenzyme intermediate. Members of this superfamily generally form homomeric complexes, the basic building block of which is a homodimer. These oligomers include dimers, tetramers, hexamers, octamers, tetradecamers, octadecamers, as well as variable length helical arrangements and homo-oligomeric spirals. These proteins have roles in vitamin and co-enzyme metabolism, in detoxifying small molecules, in the synthesis of signaling molecules, and in the post-translational modification of proteins. They are used industrially, as biocatalysts in the fine chemical and pharmaceutical industry, in cyanide remediation, and in the treatment of toxic effluent. This superfamily has been classified previously in the literature, based on global and structure-based sequence analysis, into thirteen different enzyme classes (referred to as 1-13). This hierarchy includes those thirteen classes and a few additional subfamilies. A putative distant relative, the plasmid-borne TraB family, has not been included in the hierarchy.
Statistics
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PSSM-Id: 143587
View PSSM: cd07197
Aligned: 145 rows
Threshold Bit Score: 73.8979
Threshold Setting Gi: 117648
Created: 30-Sep-2008
Updated: 17-Jan-2013
Structure
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Program:
Drawing:
Aligned Rows:
 
Conserved site includes 9 residues -Click on image for an interactive view with Cn3D
Feature 1:active site [active site]
Evidence:
  • Structure:2E2L_A; Helicobacter pylori formamidase (HpAmiF, C166S mutant) monomer bound with formamide, contacts calculated at 4 A.
    View structure with Cn3D
  • Structure:3DLA_C; Mycobacterium tuberculosis glutamine-dependent NAD+ synthetase (GAT_Gln-NAD-synth) monomer bound with DON inhibitor in the GAT domain, contacts calculated at 4 A.
    View structure with Cn3D
  • Comment:M. tuberculosis GAT_Gln-NAD-synth is a bifunctional enzyme having a NAD+ synthetase domain in addition to this GAT domain.
  • Structure:1J31_A; Pyrococcus horikoshii hypothetical protein Ph0642 bound with acetate; contacts calculated at 4A.
    View structure with Cn3D
  • Structure:1UF8_A, Agrobacterium sp., N-carbamyl-D-amino acid amidohydrolase (DCase, C171aV236A mutant) homodimer bound with N-carbamyl-D-phenylalanine; contacts defined at 4A.
    View structure with Cn3D

Sequence Alignment
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Format: Row Display: Color Bits: Type Selection:
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
Feature 1                                                     #                                  
2E2L_B        16 VAAIQFPvpivn-srkdIDHNIESIIRTLHATkagypgVELIIFPEYSTQglntakwlse-------------eflldvp 81
gi 84387665    3 FALLQFPis------akSTDNYQTIKRAICEAse--ndAQVLLTQECALSgyppveissvs------------didfeqq 62
gi 14601345    3 IAILHSRvkl-----aaKRSNARRHSILIDKVvst-rtVDLIVLPAYPFTgpligyyppskarlklrelaekiseknipa 76
gi 124027241   5 VALTHMKlrp-----laKKSNLEKARKLVREAal--kgAKLVVLPSFVNIghfflhyprtrsra------itrnqaerip 71
gi 15920575    3 IGLLHLRlke-----msKKYNIEKAKKLIKAAkd--kgAKLVILPSLFPAgnifeiyendkksk-----siiknlaekip 70
gi 126466015  26 IAIGHLNvyi-----rdKRNNLDVARKSLLLAhe--nyVDTLILPYMQPYgpildnniskstl--------rkkyglslt 90
gi 15888970   43 VAVAQTSlfndprdvsaLKTCGNEIRRLMGNAhn--agTRLIHFPEGATCwphkrimsetgpreig--padwtrfewktl 118
gi 190892201  45 VAAAQTFvs------adIAANGRGIRKLISSAaa--qgVRLISFCEGTLSgygkfqimaqdd---------wqtydwaaq 107
gi 83643084    3 IALASPPip------ksVDNALQWVDRLVTEAtl--skVDLICFPEAYVPgirgmdfkve-------------ncsprkm 61
gi 229235242   3 VALASPPfp------ksLQDGLFWLEKLVKEAaa--asAAIICFPESYLPgypgmgyap----------------edrsr 58
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
Feature 1                                                                    #   #    #          
2E2L_B        82 gkeTELYAKACke---aKVYGVfSIM------ERnpdsnknpYNTAIIIDPQGeiiLKYRKLFPWn-pIE---PWYPGDl 148
gi 84387665   63 diaFNEIIELVke---kQIYLFlGCIrq--cgERa-------ANSIAIIEPSGy-vQYYDKRALWgwdAD---NFVVDSn 126
gi 14601345   77 gpsVSFMSRWSqe---yGVYILgGPIi-----ERagp---riYVTTVLTSPDGsiaGKYRKVSLTeeeRDm--GISPGKe 143
gi 124027241  72 gntFEYLSMVAle---nGVYIIaGPIi-----ERagp---kiFLTTMVISPNGsliAKYRKVASNgldEEl--GISPGKq 138
gi 15920575   71 gsvTDTLINLSme---gEIHLIaGPIl-----EQagp---kiFLTTLIISPQGeilGKYRKIIVSe--KDvrlGISAGKe 137
gi 126466015  91 sgyLASLSIIAkn---yGVNVLlMSTi-----EKags--kiyVTAFLIPGIIGepiEKYRKIVLSd--REkiiGFNKGKt 158
gi 15888970  119 reeLEAIRKLArk---lKLWTVlGAIhqltppHRp-------YNSLYVISDRGtliTRYDERLLSk-tKIs-fMYSPGRl 186
gi 190892201 108 daeLRAIAELCgk---lRIFAVvGGA------HRlsng-hppHNSLYVLSERGaliTRYDKRFLSn--SElggWYTPGTq 175
gi 83643084   62 qsaLDRICDLArk---tSINIIlPMEwp--apEGr-------RNVAFVVDRRGvllGKQTKNHLEq-gEEa--YFIPGAr 126
gi 229235242  59 kslLHALAKVCdiaaehAITIIvPMDwy--idEQl-------VNLAFVVSAKGevlGYQTKNQLDp--TEd-eLWTAGTt 126
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
Feature 1                            ## ##                      #                                
2E2L_B       149 gmPVCEGpg---gsKLAVCISHDGMIPEl-AREAAyk-gCNVYIRISGystqv---------------ndqwILTNRSNA 208
gi 84387665  127 fnGVVEIkg----iRIGVRVCYEIRFPEy-FRELYke-kVDVTVVCLCdvqdkpd----------dnrlsiiKSHLVSRA 190
gi 14601345  144 -pGIFKLkvngsdvSLGVFSDEDLATPEi-FRHLQlg-gSKIIVGTIFpynssflggiiddeglvtmdhtvvKTFLEVRS 220
gi 124027241 139 -tVVIDDig----rSIGVMAEDDILYPEi-ARSLLle-gATALIVTLRpged----------------vnrvKLALMARS 195
gi 15920575  138 --PVYMSld----kRYGIISEDDIFSPEi-NRLLSlnnvAAIVGTVKAyprng---------------ydiiKYMAIART 195
gi 126466015 159 -iKKFRCrn----iYYSIVLDDEILYPE--LAKLNlylgTDILFVGIApdyp----------------vknyMSIIKSLA 215
gi 15888970  187 -pVTFEVdc----fRFGCALGMEAHYPEi-FMEYEkl-nVDCVLFSTAgedas--------------nahafAAEILGHA 245
gi 190892201 176 -pIIFEVds----yRFGCAICIESQFEEv-FREYErl-gVDGVLFSSYgia------------------pyfQIALRAHA 230
gi 83643084  127 -rQLFDAdg----vKFGIVISHEGWRCPetVRWAAsr-gAKIVFHPHFtgshfkgvklt---qwgklenpfyERAMQCRA 197
gi 229235242 127 -rSIFDVng----vKFGITICHEGFRYPesVRWAAqq-dAKIVFMPHFggsetagpelk---ewgakenpyyEKAVMLRA 197
                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
Feature 1                                                                                        
2E2L_B       209 WHN-LMYTVSVNlagydn-vfyyfGEGQICNFd------GTTLVQGHrn-pwEIVTGEIYPK------MADNARlswgle 273
gi 84387665  191 IEN-VFTVISVNsstl-----eqtAPTSVIDQh------GNTLVQTVrn-seSITYYTYEKIe-----NGFGAKg----- 247
gi 14601345  221 RET-GVPIILVGsiidsgvetlayMSTIPVEPd-----eGVIEDKMFgp--dDESPIFIDLNe-----KATNPRkpp--- 284
gi 124027241 196 IEN-NVPILAVGsvfeaa-ervveIPTMVVDPq-----nGIVEEVNEpn--dTYILVEVMEQps---nIQDIVRts---- 259
gi 15920575  196 IENgLPYIIVGEtie------denGEIIGSSPtfvtsvnSLIYKQAEe---eDTVVYVESTVlt---qEAGRERigs--- 260
gi 126466015 216 LMT-RSKIVLVGgiyy-----yenKLSYIVPTiil-dqrGNVLFKYIs---dEQALIMLPTQy-----LIRENKkid--- 277
gi 15888970  246 ASN-TYWVSYSTlaaq-----spgAPSGIAAPd------GQWVAQCPmnglpAIALADVIIDre---hPARPWRq----- 305
gi 190892201 231 GLN-CIWIIAATpvqk-----ahkGPAGVIGPd------GDWAARCAalpepDFAMAMLDRNdaaydiPLQKARpw---- 294
gi 83643084  198 IEN-TVFFASVNyamd-----yqgSATTLIAPd------GACVAYQPya-evGALVINIDVRda---tGVNARRy----- 256
gi 229235242 198 MEN-TIYTASSNyasp-----ytdAASTLVAPd------GSCVAHEAyg-rvGVVVAEIDPE------KASGLLa----- 253

                 ....*..
Feature 1               
2E2L_B       274 nniYNLG 280
gi 84387665  248 --lIKYS 252
gi 14601345  285 -ehLKIL 290
gi 124027241 260 -lmAKAL 265
gi 15920575  261 innIDSV 267
gi 126466015 278 -qeTMFI 283
gi 15888970  306 ---KART 309
gi 190892201 295 -raKARQ 300
gi 83643084  257 --aPERD 261
gi 229235242 254 ---KRFK 257

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