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cd11338: AmyAc_CMD 
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Alpha amylase catalytic domain found in cyclomaltodextrinases and related proteins
Cyclomaltodextrinase (CDase; EC3.2.1.54), neopullulanase (NPase; EC 3.2.1.135), and maltogenic amylase (MA; EC 3.2.1.133) catalyze the hydrolysis of alpha-(1,4) glycosidic linkages on a number of substrates including cyclomaltodextrins (CDs), pullulan, and starch. These enzymes hydrolyze CDs and starch to maltose and pullulan to panose by cleavage of alpha-1,4 glycosidic bonds whereas alpha-amylases essentially lack activity on CDs and pullulan. They also catalyze transglycosylation of oligosaccharides to the C3-, C4- or C6-hydroxyl groups of various acceptor sugar molecules. Since these proteins are nearly indistinguishable from each other, they are referred to as cyclomaltodextrinases (CMDs). The Alpha-amylase family comprises the largest family of glycoside hydrolases (GH), with the majority of enzymes acting on starch, glycogen, and related oligo- and polysaccharides. These proteins catalyze the transformation of alpha-1,4 and alpha-1,6 glucosidic linkages with retention of the anomeric center. The protein is described as having 3 domains: A, B, C. A is a (beta/alpha) 8-barrel; B is a loop between the beta 3 strand and alpha 3 helix of A; C is the C-terminal extension characterized by a Greek key. The majority of the enzymes have an active site cleft found between domains A and B where a triad of catalytic residues (Asp, Glu and Asp) performs catalysis. Other members of this family have lost the catalytic activity as in the case of the human 4F2hc, or only have 2 residues that serve as the catalytic nucleophile and the acid/base, such as Thermus A4 beta-galactosidase with 2 Glu residues (GH42) and human alpha-galactosidase with 2 Asp residues (GH31). The family members are quite extensive and include: alpha amylase, maltosyltransferase, cyclodextrin glycotransferase, maltogenic amylase, neopullulanase, isoamylase, 1,4-alpha-D-glucan maltotetrahydrolase, 4-alpha-glucotransferase, oligo-1,6-glucosidase, amylosucrase, sucrose phosphorylase, and amylomaltase.
Statistics
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PSSM-Id: 200477
View PSSM: cd11338
Aligned: 193 rows
Threshold Bit Score: 369.121
Threshold Setting Gi: 192361115
Created: 25-Nov-2011
Updated: 17-Jan-2013
Structure
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Program:
Drawing:
Aligned Rows:
Hierarchy
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Display:
 
Conserved site includes 12 residues -Click on image for an interactive view with Cn3D
Feature 1:active site [active site]
Evidence:

cd11338 is part of a hierarchy of related CD models.
Use the graphical representation to navigate this hierarchy.
cd11338 is a member of the superfamily cl07893.
cd00551:AmyAc_familycd11313:AmyAc_arch_bac_AmyAcd11314:AmyAc_arch_bac_plant_AmyAcd11315:AmyAc_bac1_AmyAcd11316:AmyAc_bac2_AmyAcd11317:AmyAc_bac_euk_AmyAcd11318:AmyAc_bac_fung_AmyAcd11319:AmyAc_euk_AmyAcd11320:AmyAc_AmyMalt_CGTase_likecd11321:AmyAc_bac_euk_BEcd11322:AmyAc_Glg_BEcd11323:AmyAc_AGScd11324:AmyAc_Amylosucrasecd11325:AmyAc_GTHasecd11326:AmyAc_Glg_debranchcd11327:AmyAc_Glg_debranch_2cd11328:AmyAc_maltasecd11329:AmyAc_maltase-likecd11330:AmyAc_OligoGlucd11331:AmyAc_OligoGlu_likecd11332:AmyAc_OligoGlu_TScd11333:AmyAc_SI_OligoGlu_DGasecd11334:AmyAc_TreScd11335:AmyAc_MTase_Ncd11336:AmyAc_MTSasecd11337:AmyAc_CMD_likecd11338:AmyAc_CMDcd11339:AmyAc_bac_CMD_like_2cd11340:AmyAc_bac_CMD_like_3cd11341:AmyAc_Pullulanase_LD-likecd11343:AmyAc_Sucrose_phosphorylase-likecd11344:AmyAc_GlgE_likecd11345:AmyAc_SLC3A2cd11346:AmyAc_plant_IsoAcd11347:AmyAc_1cd11348:AmyAc_2cd11349:AmyAc_3cd11350:AmyAc_4cd11352:AmyAc_5cd11353:AmyAc_euk_bac_CMD_likecd11354:AmyAc_bac_CMD_likecd11355:AmyAc_Sucrose_phosphorylasecd11356:AmyAc_Sucrose_phosphorylase-like_1cd11359:AmyAc_SLC3A11UH3 A218289486273617005430891511756031129716505732643130283646849887981914196916384710064584292975656024619721131367949829756124823806260127196481433610397025865479231712602227196248988855961119961116307700206227494788325971296323128014192360861192361115145847498218134799160901853307297604239616594161985419160902721156445791542492751500214551542489203199963071599008482698393071638462891599008498879936746068725565880325451838325179916629153665411407620689565239301283768835345897718302336466328943401257784848291556797160932411291541870295101515317132932167772488348597873150274458284047784341823264320529877260888752115249900310658278332982542255524324183090483340924713388149511885851963108294298989478115039070425706439825904685830724413529155901128376997116105648332638698315639651345284920156726833259563843343075921637894902396183691041620041186395751EA9 C2517950802614062641GVI A1J0J A257386280295398411323467414348600591347526287241894759160805152608892953478146892298239042837924531388464733949873533643055829152498021061173034550114625745664617190234018144465335428143345359019229918221325836866339276577335430252331082172161985624227486270156752552915187333026720393267910293252627652535744453364288863308370122298280423333934042845070792972430252975677671G1Y A3333715513377487092080824122093245232679290830440706234499740233642755222982660431094629922982966433642937132678942634550048729153705626043904512571353857641705189783112962426343201005451264655193023488721608130084394912188835842975658432912972762WC7 A15674197564588723199949552Z1K A11344497261415267336405782945087678879998425508889015989959221896127583590690760970123453021512571268733023916081UH3 A218289486273617005430891511756031129716505732643130283646849887981914196916384710064584292975656024619721131367949829756124823806260127196481433610397025865479231712602227196248988855961119961116307700206227494788325971296323128014192360861192361115145847498218134799160901853307297604239616594161985419160902721156445791542492751500214551542489203199963071599008482698393071638462891599008498879936746068725565880325451838325179916629153665411407620689565239301283768835345897718302336466328943401257784848291556797160932411291541870295101515317132932167772488348597873150274458284047784341823264320529877260888752115249900310658278332982542255524324183090483340924713388149511885851963108294298989478115039070425706439825904685830724413529155901128376997116105648332638698315639651345284920156726833259563843343075921637894902396183691041620041186395751EA9 C2517950802614062641GVI A1J0J A257386280295398411323467414348600591347526287241894759160805152608892953478146892298239042837924531388464733949873533643055829152498021061173034550114625745664617190234018144465335428143345359019229918221325836866339276577335430252331082172161985624227486270156752552915187333026720393267910293252627652535744453364288863308370122298280423333934042845070792972430252975677671G1Y A3333715513377487092080824122093245232679290830440706234499740233642755222982660431094629922982966433642937132678942634550048729153705626043904512571353857641705189783112962426343201005451264655193023488721608130084394912188835842975658432912972762WC7 A15674197564588723199949552Z1K A1134449726141526733640578294508767887999842550888901598995922189612758359069076097012345302151257126873302391608
cd11338 Sequence Cluster
cd11338 Sequence Cluster
Sub-family Hierarchy
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 cd11338 Branch
 Whole Hierarchy
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CD Hierarchy
Sequence Alignment
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Format: Row Display: Color Bits: Type Selection:
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
Feature 1                                                                                        
1EA9_C       130 DAIFYQIFPERFANGDtrndpegt-------------------lpwgsadPTPSCFFGGDLQGVIDHLDHLSkLGVNAVY 190
1GVI_A       134 DTVWYQIFPERFANGNpaispkga-------------------rpwgsedPTPTSFFGGDLQGIIDHLDYLAdLGITGIY 194
gi 145847498 118 GAVMYQIFVDRFCNGDptndvedgeyiyiga-----psvkikdwskvpaaMDIRNFYGGDLQGVMDKLDYLQdLGVEVVY 192
gi 15644579   11 DSVVYQIFPDRFFIGKgktvedkkdlylkrgg---viekwgvpprklpgaQHVKIFYGGDLWGIAEKVDYFEeLGINVLY 87
gi 218134799 144 GAVMYQIFVDRFCNGDktndvltneyayigq-----hverveewdsrpneMDVRRFYGGDLQGVMDKLDYLQdLGVDVIY 218
gi 239616594   7 SKVVYQIFPDRFNIGDgktakqkeneglyplpg-qrtvdwkekpkrtgdrTQQLLFWGGDLKGITEKIDYIKsLGAEIIY 85
gi 150021455  11 DTVIYQIFPDRFFIGKgltveekkqlyekrgg---rvekwgvppkrdeknDHVRVFYGGDLWGIAEKIEYLRdLGVNAIY 87
gi 154248920  11 ESVIYQIFPDRFAIGKgktvhdkahlytkrgg---kivewntlpkhkpniEHCFEFYGGDLWGIAEKIDYLKdLGVNLIY 87
gi 154249275  18 ESVVYEIFPDRFAIGKgksikdkahlykdgi-----lkdwdeppvstgdgKQNKWFYGGDLWGIAEKVGYLKeLAINAVY 92
gi 161985419  16 GALVYQVLVDRFNPSShleskkglylypktlndwhslpkpgtfleehrywSHELDFWGGDLNSLNERLEYIKhLGVDVLY 95
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
Feature 1                  # #                                                                   
1EA9_C       191 FTPLFkATTNHKYDTEDYFQIDPQFG-----------------------------------DKDTLKKLVDLCHERGIRV 235
1GVI_A       195 LTPIFrAPSNHKYDTADYFEIDPHFG-----------------------------------DKETLKTLVKRCHEKGIRV 239
gi 145847498 193 FNPLFvSPSNHKYDIQDYDYIDPHYGkivsdggetlpkgakdntgatkyqkrtgdirnleaSNELFARLVEEMHKRGMRV 272
gi 15644579   88 LTPIFlSDTNHKYDTIDYFRVDPQFG-----------------------------------GKRAFLHLLRVLHERSMKL 132
gi 218134799 219 FNPLFvSPSNHKYDIQDYDYIDPHIGritddggslldegdndntkasryikrvtgknnleaGNEFFAQLVSEAHRRNMKV 298
gi 239616594  86 LTPIFyAHTNHKYDTIDFFRIDPAFG-----------------------------------TLQDFKELCETAHQKDLKI 130
gi 150021455  88 LTPIFlSNSNHKYDTIDYFKVDPQFG-----------------------------------GIRALKRLINSLHAENMKL 132
gi 154248920  88 TTPIFlSPSNHKYDIIDYMKIDPQFG-----------------------------------GEAAFKYYLKKAKENGFRV 132
gi 154249275  93 LTPIFkSPSNHKYDAVDYFKVDSQFG-----------------------------------GMNAFKSLLKSLKSNNIRL 137
gi 161985419  96 LNPIFeSLSNHKYDATNFLEISKEYG-----------------------------------TKEDLKKLIQNVHAHDMKI 140
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
Feature 1               #                                                            #           
1EA9_C       236 LLDAVFNHSGRTFPPFvDVLKNGEKSKYkdwfhirsl------------plevvdgipTYDTFAFEPLMPKLNT-EHPDV 302
1GVI_A       240 MLDAVFNHCGYEFAPFqDVLKNGAASRYkdwfhiref-------------plqteprpNYDTFAFVPHMPKLNT-AHPEV 305
gi 145847498 273 ILDGVFNHCGSFNKWIdRERIYEQQPEYpkgayvsgespyrkffrfhderkeawpynkSYDGWWGHDTLPKLSYeDSPEL 352
gi 15644579  133 ILDGVFNHVGSQHPWFkKAKKNDPEYVNrffl-----------------------ykdRHRSWFDVGSLPELNV-EVEEV 188
gi 218134799 299 IIDGVFNHCGSFNKWLdREHIYYASEENyekgayvdrnspyh--dffkfygdtwpdnnSYDSWWGNDTLPKLNYqGSPKL 376
gi 239616594 131 ILDGVFNHVGFASKWFnGLNLFPEKGAYqspnspyr--------------dyfyfsgdKYRSWVNSGSLPELNL-DNPEL 195
gi 150021455 133 ILDGVFNHVGRENVYFkKALKGKNKYRNmfif-----------------------yenNYRGWWGTKSLPELVL-EEVSV 188
gi 154248920 133 MLDGVFNHLSKENKWFkSALRGKKEHLAkfsf-----------------------yknGYRAWQNVDGMPEWNW-EETPV 188
gi 154249275 138 ILDGVFNHVSSQHPWFlKAKRWMRDYVSrfsi-----------------------yedGHRGWWGIRSLPEFHL-EENVV 193
gi 161985419 141 MLDGVFNHVGVGNPMFqKALKHEGFRHFfdfnd---------------------syprGVRLWADAPSLPELNL-EHEDV 198
                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
Feature 1                                   ##                                 # #               
1EA9_C       303 KEY----LLKAAEYWIREt-gIDGWRLDVANE------VSHQFWREFRRVVKQanpDAYILGEVWHessiWLEGDQFDAV 371
1GVI_A       306 KRY----LLDVATYWIREf-dIDGWRLDVANE------IDHQFWREFRQAVKAlkpDVYILGLIWHdampWLRGDQFDAV 374
gi 145847498 353 EQY----IMDIGKKWVSPpynADGWRLDVAADlgcsneYNHMFWKRFRKEVKEanpEALILAEHYGdpgeWLQGDEWDSV 428
gi 15644579  189 KEY----ILKVVEHYLKLg--IDGWRLDCGHD------LGPTVNLWINMKVKEfsaEKYLVSEIWTy---PAGWDMVDGL 253
gi 218134799 377 EEY----ILRIAAKWVSApynVDGWRLDVAADlgygteYNHEFWRKFRNVVKKanpDALILAENYGdsydWLQGDQWDTI 452
gi 239616594 196 QEIlftgKNSVVKYWLKQg--ADGWRIDCAHDi----gNLNHIIVEAAKSVKP---DALIIGEVWNypkgWNEFARLDGI 266
gi 150021455 189 KNY----VIDVLIKYLELg--IDGWRLDCGQD------LGPEFNRYITSKVKEyssEKYVISELWTy---TGGWDMVDGI 253
gi 154248920 189 REY----LLNVVEHYLKMg--VDGWRLDVGFD------VGYVNNALITSRAKSvstEKYVVTETWNf---PSNWEVVDGI 253
gi 154249275 194 REY----IASVVEHYLKLg--IDGWRLDCGQD------LGPVNNAFITSIVKSvsvDKYVVSELWTy---PDRWDMVDGI 258
gi 161985419 199 KNYifkqDDSVIRTYIKMg--IDGWRLDVAFD------IGFDILSELRDYARKdklDVMIVGEIWNy--pEKWLKSIDGV 268
                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
Feature 1                                                                    ##                  
1EA9_C       372 MNY-PFTNAVLDFFih-----------qiADAEKFSFMLGKQLAGYPrqaSEVMFNLLDSHDTARLLTQADgd------- 432
1GVI_A       375 MNY-PLADAALRFFak-----------edMSASEFADRLMHVLHSYPkqvNEAAFNLLGSHDTPRLLTVCGgd------- 435
gi 145847498 429 MNYdAFMEPLTWFLtgmekhsderrtdlwGNADNFIGGMRHFMASMLtpsLQVAMNELSNHDHSRFLTRTNhivgraehv 508
gi 15644579  254 MNY-NFRNLVLSYVn--------------GETDSIGFHLERAYRETKn--IFGCWNMLDSHDTPRLATMVPd-------- 308
gi 218134799 453 MNYdAFMEPVTWFLtgmqkhsdefrqdmlGNVDNFFGVMNHNMARMGgqaVGIAMNELSNHDHSRFLTRTNrtvgrlask 532
gi 239616594 267 MNY-HFRSLVIDLLka------------dMPVETVAKIMKDTVEDCGidyLSKCWNMLSSHDVPRLSNLFDn-------- 325
gi 150021455 254 MNY-HLRENIVSYIe--------------GTNKNFGFYLERMYNETDn--ILACWNMLDSHDTERLATTINd-------- 308
gi 154248920 254 MNY-HFRESVIGWLn--------------DSLKNIGYALQSAYDKTPn--IYGCWNMLDSHDTQRIATVLPd-------- 308
gi 154249275 259 MNY-NLREVVFSYLn--------------GELKEPGNALEGVFKSTRn--IYGCWNMLDSHDTERLANSIPd-------- 313
gi 161985419 269 MNF-TFREITLRLLsg------------eLSPHKAIHMLKDTIDDAGiepILKSWNLLDNHDVARLKHLLPk-------- 327
                        410       420       430       440       450       460       470       480
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
Feature 1                                                  #   #                                 
1EA9_C       433 ----------kRKMKLAVLFQFTYFGTPCIYYGDEVGLDgGHDPgcRKCMEWDEtkhDKDLFAFYQTVIRLRQAHAALRT 502
1GVI_A       436 ----------vRKVKLLFLFQLTFTGSPCIYYGDEIGMTgGNDPecRKCMVWDPekqNKELYEHVKQLIALRKQYRALRR 505
gi 145847498 509 gakaaeegvnyAVMREAVTVQMTWVGAPTVYYGDEAGVCgFTDPdnRRTYPWGRe--NKELLAFHKEMIRIHKQEKPLRK 586
gi 15644579  309 ----------rDLRKLAVVLQFTYPGVPLVYYGTEIGLTgGEDPecRATMEWNRekwDVDLFEFYKKMIRLRRTDPGLRF 378
gi 218134799 533 gsdaasqgvnkAVFMEGVVIQMTWPGAPTIYYGDEAGVCgWTDPdnRRTYPWGHe--DKELIAFHRDIIAVHKSSPALMH 610
gi 239616594 326 ----------eRDIRLAIALQFSFPGVPMIYYGEELEMTgGEDPenRDAMRWENlsnSPERLNFYKKLTEIRKKKIALQI 395
gi 150021455 309 ----------kFLRKFAIFMQFTYPGVPVIYYGTEVGINgGPDPecRKTMIWNEekwDNDLRDFYKKLIYLRKNEPALRY 378
gi 154248920 309 ----------kDLRKLAIALQFTYPGVPFVYYGSEIGMEgGWDPenRAGMIWDEkrwDNDLREFYKKLIKIRKTETALKI 378
gi 154249275 314 ----------kALRKLAIVLQFTFPGVPVVYYGTEIGLDgGKDPecRKTMVWDRskwDLDMFEFYKKLIALRKSEIAFKV 383
gi 161985419 328 ----------lELQRLAQVMQFTLPGSPNLYYGTELGMDgANDPmnRAPMNWDLfndKNETLKWTQSLISLHKRERSLKI 397

                 ...
Feature 1           
1EA9_C       503 GTF 505
1GVI_A       506 GDV 508
gi 145847498 587 GSI 589
gi 15644579  379 GEF 381
gi 218134799 611 GSY 613
gi 239616594 396 GSF 398
gi 150021455 379 GSF 381
gi 154248920 379 GTF 381
gi 154249275 384 GSF 386
gi 161985419 398 GDF 400

Citing CDD
Marchler-Bauer A et al. (2013), "CDD: conserved domains and protein three-dimensional structure.", Nucleic Acids Res. 41(D1):D384-52.
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Conserved site includes 12 residues -Click on image for an interactive view with Cn3D