Conserved Protein Domain Family
CBM20

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cd05467: CBM20 
Click on image for an interactive view with Cn3D
The family 20 carbohydrate-binding module (CBM20), also known as the starch-binding domain, is found in a large number of starch degrading enzymes including alpha-amylase, beta-amylase, glucoamylase, and CGTase (cyclodextrin glucanotransferase). CBM20 is also present in proteins that have a regulatory role in starch metabolism in plants (e.g. alpha-amylase) or glycogen metabolism in mammals (e.g. laforin). CBM20 folds as an antiparallel beta-barrel structure with two starch binding sites. These two sites are thought to differ functionally with site 1 acting as the initial starch recognition site and site 2 involved in the specific recognition of appropriate regions of starch.
Statistics
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PSSM-Id: 119437
View PSSM: cd05467
Aligned: 47 rows
Threshold Bit Score: 67.7078
Threshold Setting Gi: 41176619
Created: 25-Apr-2007
Updated: 17-Jan-2013
Structure
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Program:
Drawing:
Aligned Rows:
 
starch-bindingstarch-binding
Conserved site includes 5 residues -Click on image for an interactive view with Cn3D
Feature 1:starch-binding site 1 [chemical binding site]
Evidence:
  • Comment:Site 1 is small relative to site 2 and exhibits minimal structural changes upon ligand binding. It acts as an initial starch recognition site.
  • Structure:1ACZ_A; Aspergillus niger glucoamylase CBM20 domain starch binding site 1 binds beta-cyclodextrin; defined at 4A contacts.
    View structure with Cn3D
  • Citation:PMID 9195884
  • Structure:1DTU_A; Bacillus circulans CGTase CBM20 domain starch binding site 1 binds maltopentaose inhibitor; defined at 4A contacts.
    View structure with Cn3D
  • Citation:PMID 8672460

Sequence Alignment
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Format: Row Display: Color Bits: Type Selection:
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
Feature 1                                    #                                         #         
1CYG_A       581 SVRFVVNnatTNLGQNIYIVGNVYELGNWDtsKAIGpMFNqvv-ysyPTWYIDVSVpe------gKTIEFKFIKKdsq-- 651
1ACZ_A         8 AVTFDLTa-tTTYGENIYLVGSISQLGDWEtsDGIA-LSAdkytssdPLWYVTVTLpa------gESFEYKFIRIesd-- 77
gi 156084154   6 SVHFRCQg-nLDFGRRLAVVGDHPSLGNWDi-NACHeLQRist--vdDVWTSRTPAslp----lkERREYRYVVLndlg- 76
gi 17227665  541 IVRVQLNgvhTQPGETIVVVGDCPELGNWDisKAYP-LEYin----sNTWFAEIPFdes----agKLISYKYAMWreg-- 609
gi 37519942  544 IVRIQVNgfrTQPGEVVAVIGDCPELGDWDlsRAFR-LEYin----dNTWFGEIPFnks----anQIVAYKYVIFren-- 612
gi 87123854  513 IVKFQINnffTRPGERIAVTGDVPELGCWDlhKSAA-LEYin----gDTWFNEIPFdes----vgQPICFKFVVLkega- 582
gi 123439946  11 IVHFHVRv-sTSYGQEVRVCGNIPELGIWDakKAIK-MQFen---nlDFWSADIKLpks---nedRTIEYKYVIVndd-- 80
gi 118384456  43 IVNWQISy-qTNYGERLAIVGNIHELGNWKkeEALN-LQWnn----nNIWNGQIIInlngssnvqKILEYKYILIdekn- 115
gi 25901062    5 QVAFEIRg-tLLPGEVFAICGSCDALGNWNpqNAVA-LLPendtgesMLWKATIVLsr------gVSVQYRYFKGyflep 76
gi 60683070    2 IVTFHIEy-rTSWGEEVRILGSVPELGKNNpeQAVA-LTTvd----gIHWSNEISIqlp----aeGVVEYSYHIYrdgk- 70
                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*.
Feature 1                     ##        #                      
1CYG_A       652 ---------gnvTWESGs-----NHVYt-TPTn----tTGKIIVDW 678
1ACZ_A        78 ---------dsvEWESDp-----NREYt-VPQacg-tsTATVTDTW 107
gi 156084154  77 ---------gfvQWHEDs-----IRHV--EPTg----qNMIVEDDY 102
gi 17227665  610 ---------rspLRENIl-----NRRW--VVAke---gTVKWRDTW 636
gi 37519942  613 ---------gppINENRt----sRRRF--VPDk----sIAKWRDVW 639
gi 87123854  583 ---------edpAWEARyenvlhRRFL--LPAs----gRVKLEFDW 613
gi 123439946  81 ---------nseQWEPEq-----NHKLv-FGAind-dcVINIEDHF 110
gi 118384456 116 ---------qkvQWEEGq-----NRFYyySQIlaesqeKENILFRN 147
gi 25901062   77 ktiggpcqvivhKWETHl----qPRSI--TPLe-----SEIIIDDG 111
gi 60683070   71 --------airtEWNSFp-----RRIY--LPAdv--kkSLRINDCW 99

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