Conserved Protein Domain Family
Peptidases_S53

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cd04056: Peptidases_S53 
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Peptidase domain in the S53 family
Members of the peptidases S53 (sedolisin) family include endopeptidases and exopeptidases sedolisin, kumamolysin, and (PSCP) Pepstatin-insensitive Carboxyl Proteinase. The S53 family contains a catalytic triad Glu/Asp/Ser with an additional acidic residue Asp in the oxyanion hole, similar to that of Asn in subtilisin. The stability of these enzymes may be enhanced by calcium, some members have been shown to bind up to 4 ions via binding sites with different affinity. Some members of this clan contain disulfide bonds. These enzymes can be intra- and extracellular, some function at extreme temperatures and pH values. Characterized sedolisins include Kumamolisin, an extracellular calcium-dependent thermostable endopeptidase from Bacillus. The enzyme is synthesized with a 188 amino acid N-terminal preprotein region which is cleaved after the extraction into the extracellular space with low pH. One kumamolysin paralog, kumamolisin-As, is believed to be a collagenase. TPP1 is a serine protease that functions as a tripeptidyl exopeptidase as well as an endopeptidase. Less is known about PSCP from Pseudomonas which is thought to be an aspartic proteinase.
BioAssay Targets and Results
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CID: 5287986
AID: 1811
GI: 17943333
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Experimentally measured binding affinity data derived from PDB
Chemical Name: CSI-LEU-PHA
CID: 5288649
AID: 1811
GI: 17943334
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Experimentally measured binding affinity data derived from PDB
Chemical Name: IVA-TYR-TYB
CID: 23585940
AID: 1811
GI: 17943335
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Experimentally measured binding affinity data derived from PDB
Chemical Name: 1kdz
Statistics
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PSSM-Id: 173788
View PSSM: cd04056
Aligned: 149 rows
Threshold Bit Score: 179.049
Threshold Setting Gi: 158422604
Created: 4-Oct-2006
Updated: 17-Jan-2013
Structure
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Program:
Drawing:
Aligned Rows:
Hierarchy
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Display:
 
Conserved site includes 10 residues -Click on image for an interactive view with Cn3D
Feature 1:active site [active site]
Evidence:

cd04056 is part of a hierarchy of related CD models.
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cd04056 is a member of the superfamily cl10459.
cd00306:Peptidases_S8_S53cd04056:Peptidases_S53cd04059:Peptidases_S8_Protein_convertases_Kexins_Furin-likecd04077:Peptidases_S8_PCSK9_ProteinaseK_likecd04842:Peptidases_S8_Kp43_proteasecd04843:Peptidases_S8_11cd04847:Peptidases_S8_Subtilisin_like_2cd04848:Peptidases_S8_Autotransporter_serine_protease_likecd04852:Peptidases_S8_3cd04857:Peptidases_S8_Tripeptidyl_Aminopeptidase_IIcd05561:Peptidases_S8_4cd05562:Peptidases_S53_likecd07473:Peptidases_S8_Subtilisin_likecd07474:Peptidases_S8_subtilisin_Vpr-likecd07475:Peptidases_S8_C5a_Peptidasecd07476:Peptidases_S8_thiazoline_oxidase_subtilisin-like_proteasecd07477:Peptidases_S8_Subtilisin_subsetcd07478:Peptidases_S8_CspA-likecd07479:Peptidases_S8_SKI-1_likecd07480:Peptidases_S8_12cd07481:Peptidases_S8_BacillopeptidaseF-likecd07482:Peptidases_S8_Lantibiotic_specific_proteasecd07483:Peptidases_S8_Subtilisin_Novo-likecd07484:Peptidases_S8_Thermitase_likecd07485:Peptidases_S8_Fervidolysin_likecd07487:Peptidases_S8_1cd07488:Peptidases_S8_2cd07489:Peptidases_S8_5cd07490:Peptidases_S8_6cd07491:Peptidases_S8_7cd07492:Peptidases_S8_8cd07493:Peptidases_S8_9cd07494:Peptidases_S8_10cd07496:Peptidases_S8_13cd07497:Peptidases_S8_14cd07498:Peptidases_S8_151976239251592294814630309815898872160825511GT9 11SIO A22587342512487635611661971311122026550120389777486612737580518647167411122208873541448209520830170103851163753239949696621624488121591233423EDY A6121721446250161192453602156386294668260931675269321675336001591479016681123866807071668039897481783615788753466819495167523062675420758376869621871870694730360218719390211592831145583573169614057189195206220731460170089867861968062207320211161913974611446083771602145616433171677241851099794282081188178940169623064281890877102407117010515616986177822556243215603244988176046226282193156045984169596636461376551696194852207261898240836021871813439972515371812604611116985090428171688080851054061584226041584233161675319851GA4 A324552121578112209979355124875268115350820344974233449742017069735021241565158989601592249470608075159042150158979974847728115921996158992851463041351592269648477259160820151590405945095446011792887029832492949701681204068591962285671962306751248708681153611221608990978374956189900369833087545189340819623415614853629121828901715893913344989741163329031624487691624558171499220511499225942182903761179288861179286681638418939496946594967481949671362258740729496712922587292694967490225874163225872935116624689116624687116623072212413231976239251592294814630309815898872160825511GT9 11SIO A22587342512487635611661971311122026550120389777486612737580518647167411122208873541448209520830170103851163753239949696621624488121591233423EDY A6121721446250161192453602156386294668260931675269321675336001591479016681123866807071668039897481783615788753466819495167523062675420758376869621871870694730360218719390211592831145583573169614057189195206220731460170089867861968062207320211161913974611446083771602145616433171677241851099794282081188178940169623064281890877102407117010515616986177822556243215603244988176046226282193156045984169596636461376551696194852207261898240836021871813439972515371812604611116985090428171688080851054061584226041584233161675319851GA4 A32455212157811220997935512487526811535082034497423344974201706973502124156515898960159224947060807515904215015897997484772811592199615899285146304135159226964847725916082015159040594509544601179288702983249294970168120406859196228567196230675124870868115361122160899097837495618990036983308754518934081962341561485362912182890171589391334498974116332903162448769162455817149922051149922594218290376117928886117928668163841893949694659496748194967136225874072949671292258729269496749022587416322587293511662468911662468711662307221241323
cd04056 Sequence Cluster
cd04056 Sequence Cluster
Sub-family Hierarchy
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 cd04056 Branch
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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                                                                                         
1GT9_1          5 AYTPLDVAQAYQFpe---------------glDGQGQCIAIIELGggy-----------------deTSLAQYFAslgv- 51
1GA4_A          7 GHNPTEFPTIYDAss---------------apTAANTTVGIITIGgvs-----------------qtLQDLQQFTsang- 53
gi 158422604  325 NPTPTQVAEAYNFp-----------------lTSKGVVTTPIGLVeg------------------gvPANLETALnayrt 369
gi 167531985  479 GLDAAALREAFEVdsqaa---------achrrNRGGVAVLSASEMysydglyry-----laannlplNAVLRTRDvtqt- 543
gi 85090428   212 GTFPGCIRKLYNLtytps----------pdfrSPSPVRFGIASFLeqy-----------------itHRDVTSFLatyar 264
gi 171688080  295 ATSPRCIKQLYNItyppy---------npatsPRSPINFGVAGFLeqw-----------------ilHADVAYFLsqyqp 348
gi 85105406    43 YSLPSRVARYIDYvlpapdpdpvssapksvavQDPPTLKGVIGARqtrdvdclqyiapqclrqlawlAEDLDMFFg---- 118
gi 158423316  242 ELYPQDIAALYNFpls--------------gpAHQTGTLALIEIGigdal------------nptipGPSFQSRLqayl- 294
gi 15922948   224 VISPLTIQQYFNFtl---------------ayEHGLNGKGSDIAIegvp---------------ecyVNVSDIYAfwkly 273
gi 146303098  226 IFTPNTIQQYFNFssly-----------aqgkTGSGSTIAIEGVPecy-----------------vnTTDIYSFWrlfn- 276
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
Feature 1                                                                  #   #                  
1GT9_1         52 ----------------------------sapQVVSVSVdgatnqp---tgdpngPDGEVELDIEVAGAlap--gaKIAVY 98
1GA4_A         54 ---------------------------lasvNTQTIQTgssngd----ysddqqGQGEWDLDSQSIVGsaggavqQLLFY 102
gi 158422604  370 sv-----------------------lglpayTGSQFQIisgana-----rigvgDPGEESLDVSIIAGaap--nsQQLYY 419
gi 167531985  544 ---------------------------dlnpSFSYPYVlglhnaa---pndyrtAGDETMLDLAMMAAfap--gaYLDQI 591
gi 85090428   265 ellplrptpsrggsggsltlppvtnttseppYNITITLlnnatrwdphstdpalSGLEANLDVQYALSlgh--ptRVIYY 342
gi 171688080  349 dyly-------------------rsatptgpYNFTVELingginp---qndpanAGIEASLDVEYAMAlgy--ptNVIYY 404
gi 85105406   119 -------------------------------DFAPDLLt--------------nFNLEPNLDYKYTMAmak--piPVTNI 151
gi 158423316  295 ---------------------------atagVPGSGAYyvqnsan---erynadNADERSLDVGVVSAivp--nsLIGLY 342
gi 15922948   274 ---------------------------niprTGSLEVImfgnd-------tsggQSAENELDAEWSGAfsp--gaNVTIV 317
gi 146303098  277 ---------------------------iprtGSFNVITlgnd--------tsggQSGENELDAEYSGAfap--gaNIAIV 319
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
Feature 1                                                          ####                           
1GT9_1         99 FAPnt------------------daGFLNAITTAVhdpt--hkpSIVSISWGGPedswa---pasiAAMNRAFLDAAAlg 155
1GA4_A        103 MADqsas---------------gntGLTQAFNQAVsdn----vaKVINVSLGWCeadan--adgtlQAEDRIFATAAAqg 161
gi 158422604  420 AYTg--------------------nQTFVGYQNAIfdsv--nnpSVLSSSFTDQqrfsp--nspfaSAYQGLFVDAALkn 475
gi 167531985  592 VTGmvdinttv-------dpllttaEVFLATLAMQedl----rpTVLSASYTLTlgdn----avvrHYLDSVAQALALvg 656
gi 85090428   343 ATGgrgtkldssgrplptndprannEPFLEFLQALlalpdnqipHVLSISYADDeqsvp---rkyaHRVCDLFAAVAArg 419
gi 171688080  405 VTGgr------------------gtKLDRDGNPLLprrnrqralPRISVPRPYA------------LRVCDLFAALAArg 454
gi 85105406   152 QVGdfv-----------------vqGNMNIMLAAF---------NAHYCRTGLD------------PQFDPVYPNPAP-- 191
gi 158423316  343 VGSg--------------------dTVYTAYQTAIwdqq--nnpAVISSSWSDGlsfap--gspfaTAYRELFVDAALrg 398
gi 15922948   318 FSDgyvgg------------vnlvgNLLNYWYEYYymvn-ylypNVISISVSVPesylaayypamlDLIHNMMLQAAAeg 384
gi 146303098  320 FSDgyvgg-------------kalvGNLLNYYYEYyymanylnpDVVSISVSLPesylaayypamlYMIHNIMVQLSVqg 386
                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
Feature 1              # ##                                                                       
1GT9_1        156 VTVLAAAGDSGStdgeqdg---------------lyhvdfpAASPYVLACGGTRLVASagrieret-------------- 206
1GA4_A        162 QTFSVSSGDEGVyecnnrgypd----------gstysvswpASSPNVIAVGGTTLYTTsagaysnetvw----------- 220
gi 158422604  476 MSVFLSSGDGGSggeygag---------------tamgrpsHSSPYAVIVGGASISNLqtasgdptlsslytagmtndpv 540
gi 167531985  657 VSVVLSSGDDGVymdgdasspn----------dycgqpsvsPLTAYGLVVGGVQYLPEsgdavac--------------- 711
gi 85090428   420 TSVLVATGDGGAagigfsagggdtcikndgsgrrafvptfpASCPWVTSVGATDNTALnlt------------------- 480
gi 171688080  455 VSTFVASGDGGAag--------------------------tGQTRCVMNDGSGRKKMFiptfp----------------- 491
gi 85105406   192 GGYNASDCGTHVpprviaimyawnk---awysdadfasifpASDPWVTSVGGTQFLPVvsngsssttassgmpsssssss 268
gi 158423316  399 ISVFNDAFDGGSgnetgtg---------------ltnlftgSMSSYAMVVGGTSVSTLaaaqtdstlagvvlaaqqgdla 463
gi 15922948   385 ISVLAASGDWGFesdhpppnfr---------igtyntiwypESDPYVTSVGGIFINASsngsiv---------------- 439
gi 146303098  387 TSVLAASGDWGFesnhpppnfh---------igvyntiwypESDPLVTSVGGIFLNATstgqiy---------------- 441
                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
Feature 1                                                                                         
1GT9_1        207 ---------------------------------------vwndgpdgGSTGGGVSrifplpswqera------------- 234
1GA4_A        221 -------------------------------------negldsngklWATGGGYSvyeskpswq---------------- 247
gi 158422604  541 tlmaltasgmkvlpqhmtaetysifvqtvwntysvngesinssyasnSASTGGINagslipsyqtdf------------- 607
gi 167531985  712 ----------------------------------------sletgssITSSGGFDqfatrpayqddpvsty--------- 742
gi 85090428   481 ---------------------------------------------gaAFSSGGFSeyfdrplwqraavdpyvssllrsrs 515
gi 171688080  492 ------------------------------------------ascpyDFSAGGFSnyfdrpswqdeavkpyv-------- 521
gi 85105406   269 ss---------------------ssssssssssslfpgetalddnntGSSGGSFSrlfpgpwyqgnltreyla------- 320
gi 158423316  464 tlwqmvrgglta--wpvgagqlepfietvwnqyvlsgsrlfpgygenFATSGGVDttqatpgyqtafg------------ 529
gi 15922948   440 ------------------------------------------sfsgwDYSTGGYSvvfpaqyyel--------------- 462
gi 146303098  442 ------------------------------------------sfsgwDYSTGGNSvvfpvqiyel--------------- 464
                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
Feature 1                                                                 #                       
1GT9_1        235 --------nvppsanpgagsGRGVPDVAGnadpaTGYEVVid-----gETTVIGGTSAVAPLFAALVARINQKLg----k 297
1GA4_A        248 ------------svvsgtpgRRLLPDISFdaaqgTGALIYny-----gQLQQIGGTSLASPIFVGLWARLQSANs----n 306
gi 158422604  608 ---------gltptnaqgetGRGLPDVSAlaggnSKYSIL--------NGGASAGTSAATPLWAALTAQIDTIFkdqglp 670
gi 167531985  743 ----lekvapvdhmqaslagNRAFPDVAGp---aHNIEVYgr-----eHRTLMAGTSASAPMLAGLLVLVNDVLlqqdlp 810
gi 85090428   516 skpgqpsqprdlkgvyfshnGRGMPDMAAi---gSGFQIIhr-----gEMVEVRGTSASTPVVAAMVALVNDQRlrqgkr 587
gi 171688080  522 ---dgfvsrgdprvglfnstGRAVPDISAi---gSGFQIImg-----gEMSEVLGTSASAPVVAAMVALINDARmragkq 590
gi 85105406   321 ---sapgaaelarqgyfngsGRGYPDISAm---aRSFLVAlh-----gGYHAVSGTSASTPVVAAMVAKINDARlhagks 389
gi 158423316  530 --------ltptdadpshgvGRGAPDVSAlsqgnMGYLLPgsn---mlGVYPNGGTSAATPFWAALATEFNAIFkdqglp 598
gi 15922948   463 ----------tslipftptyARTYPDIAFvs--aGGYNIPefgfglplIFEGQLFLWYGTSGAAPMTAAMVSLPg----v 526
gi 146303098  465 ----------tslipftpitVRTYPDIAFvs--aGGYNIPefgfglplIFDGQLFVWYGTSGAAPMTAAMVSLVg----q 528
                         490       500       510       520       530       540       550       560
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
Feature 1                                                                                         
1GT9_1        298 PVGYLNPTLYQLpp--------------evFHDITEGNndia-------------------------------------- 325
1GA4_A        307 SLGFPAASFYSAisst-----------pslVHDVKSGNngy--------------------------------------- 336
gi 158422604  671 QLGYFNDLLYQAaaia-----------pgsFSDVTIGNntstyylytgteadk--------------------------- 712
gi 167531985  811 PLGDVTASIYAVarah-----------pevFQDVTRGSnrcgs------------------------------------- 842
gi 85090428   588 SLGWLNGHLYLDprv------------rrvLTDVKWGRsegcvfpgealeegrgkgkekywrhsvvekrqgnseedggth 655
gi 171688080  591 SLGWLNPLLYSAkvr-------------avLRDVMVGEsygclf------------------------------------ 621
gi 85105406   390 TVGFLNPVLYSAaagk-----------agvLRDVPLGKnhdc-------------------------------------- 420
gi 158423316  599 NLGYSNDLYYIAaaia-----------pasFNDITAGNnvstfipgstyt------------------------------ 637
gi 15922948   527 RFGALNYALYHIsyng----------ivvsPIGTFQGLvawip------------------------------------- 559
gi 146303098  529 RLGPLNYALYHIsysgevvtphgiikglsaWIPVTSGN------------------------------------------ 566
                         570       580       590       600       610
                  ....*....|....*....|....*....|....*....|....*....|....*.
Feature 1                                                                 
1GT9_1        326 -----------------------------nraRIYQAGPGWDPCTGLGSpigIRLL 352
1GA4_A        337 ------------------------------ggYGYNAGTGWDYPTGWGSldiAKLS 362
gi 158422604  713 -----------------pyvltqsgtkvvptgLGYPASAGYDQATGLGTpngLLLA 751
gi 167531985  843 ---------------------------svcceHGYPAKPGWDAVTGLGMprlPLLA 871
gi 85090428   656 ggdgegkadeedwggegevgegegdqsenvilGGWDARKGWDPVTGLGVpgdFQEM 711
gi 171688080  622 --------------------------pdgstqDGWPAVQGYDCVTGLGAvrqFDEL 651
gi 85105406   421 -----------------------------gvgEAFPARRAWDAVTGLGTpdfEKLK 447
gi 158423316  638 ---------------------spqlggisatgLGYAAGQGYDLTTGLGSpngLLLA 672
gi 15922948   560 ---------------------------vtsgnNPTPAHYGWNYVTGPGTydaYAMV 588
gi 146303098  567 --------------------------------NPMPAHYGWNYVTGPGTydaYGMV 590

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