hmmsearch - search a sequence database with a profile HMM HMMER 2.2g (August 2001) Copyright (C) 1992-2001 HHMI/Washington University School of Medicine Freely distributed under the GNU General Public License (GPL) - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - HMM file: Peptidase_C1.hmm [Peptidase_C1] Sequence database: cysprot1b.fa per-sequence score cutoff: [none] per-domain score cutoff: [none] per-sequence Eval cutoff: <= 10 per-domain Eval cutoff: [none] - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query HMM: Peptidase_C1 Accession: PF00112 Description: Papain family cysteine protease [HMM has been calibrated; E-values are empirical estimates] Scores for complete sequences (score includes all domains): Sequence Description Score E-value N -------- ----------- ----- ------- --- CATL_RAT 449.4 2e-135 1 CATL_HUMAN 444.5 6.1e-134 1 CATH_RAT 381.8 4.8e-115 1 PAPA_CARPA 337.7 9e-102 1 Parsed for domains: Sequence Domain seq-f seq-t hmm-f hmm-t score E-value -------- ------- ----- ----- ----- ----- ----- ------- CATL_RAT 1/1 114 332 .. 1 337 [] 449.4 2e-135 CATL_HUMAN 1/1 114 332 .. 1 337 [] 444.5 6.1e-134 CATH_RAT 1/1 114 330 .. 1 337 [] 381.8 4.8e-115 PAPA_CARPA 1/1 134 343 .. 1 337 [] 337.7 9e-102 Alignments of top-scoring domains: CATL_RAT: domain 1 of 1, from 114 to 332: score 449.4, E = 2e-135 *->lPesfDWReWkggaVtpVKdQGiqCGSCWAFSavgalEgryciktgt +P+++DWRe kg VtpVK+QG qCGSCWAFSa g lEg+ ++kt CATL_RAT 114 IPKTVDWRE-KG-CVTPVKNQG-QCGSCWAFSASGCLEGQMFLKT-- 155 kawggklvsLSEQqLvDCdgedygnngesCGyGCnGGGlmdnAfeYikke gkl+sLSEQ+LvDC++ d gn+ GCnG Glmd Af+Yik+ CATL_RAT 156 ----GKLISLSEQNLVDCSH-DQGNQ------GCNG-GLMDFAFQYIKE- 192 qIsnNgGlvtEsdYekgCkPYtdfPCgkdggndtyypCpgkaydpndTgt NgGl++E++Y PY+ +kd g+ CATL_RAT 193 ----NGGLDSEESY-----PYE----AKD-------------------GS 210 CkynckknskypktyakikgygdvpynvsTydEealqkalaknGPvsVai Cky+ + ++ a+++g++d+p++ E+al+ka+a++GP+sVa+ CATL_RAT 211 CKYR-AEYAV-----ANDTGFVDIPQQ-----EKALMKAVATVGPISVAM 249 dasedskgDFqlYksGendvgyGvYkhtsageCggtpfteLdHAVliVGY das+ s q+Y+sG +Y+++ C+++ +LdH+Vl+VGY CATL_RAT 250 DASHPS---LQFYSSG-------IYYEP---NCSSK---DLDHGVLVVGY 283 GteneggtfdetssskksesgiqvssgsngssgSSgssgapiedkgkdYW G e+ ++++ +YW CATL_RAT 284 GYEG-T------------------------------------DSNKDKYW 296 IVKNSWGtdWGEnGYfriaRgknksgkneCGIaseasypi<-* +VKNSWG++WG++GY++ia+++n n+CG+a+ asypi CATL_RAT 297 LVKNSWGKEWGMDGYIKIAKDRN----NHCGLATAASYPI 332 CATL_HUMAN: domain 1 of 1, from 114 to 332: score 444.5, E = 6.1e-134 *->lPesfDWReWkggaVtpVKdQGiqCGSCWAFSavgalEgryciktgt +P s+DWRe kg +VtpVK+QG qCGSCWAFSa+galEg+ ++kt CATL_HUMAN 114 APRSVDWRE-KG-YVTPVKNQG-QCGSCWAFSATGALEGQMFRKT-- 155 kawggklvsLSEQqLvDCdgedygnngesCGyGCnGGGlmdnAfeYikke g l+sLSEQ+LvDC+g + gn+ GCnG Glmd+Af+Y+++ CATL_HUMAN 156 ----GRLISLSEQNLVDCSG-PQGNE------GCNG-GLMDYAFQYVQD- 192 qIsnNgGlvtEsdYekgCkPYtdfPCgkdggndtyypCpgkaydpndTgt NgGl++E++Y PY+ +++ + CATL_HUMAN 193 ----NGGLDSEESY-----PYE----ATE-------------------ES 210 CkynckknskypktyakikgygdvpynvsTydEealqkalaknGPvsVai Ckyn +k s+ a+++g++d+p + E+al+ka+a++GP+sVai CATL_HUMAN 211 CKYN-PKYSV-----ANDTGFVDIPKQ-----EKALMKAVATVGPISVAI 249 dasedskgDFqlYksGendvgyGvYkhtsageCggtpfteLdHAVliVGY da++ s F +Yk G +Y ++ +C+++ + dH+Vl+VGY CATL_HUMAN 250 DAGHES---FLFYKEG-------IYFEP---DCSSE---DMDHGVLVVGY 283 GteneggtfdetssskksesgiqvssgsngssgSSgssgapiedkgkdYW G e+ e+++ +YW CATL_HUMAN 284 GFES-T------------------------------------ESDNNKYW 296 IVKNSWGtdWGEnGYfriaRgknksgkneCGIaseasypi<-* +VKNSWG++WG+ GY+++a+++ n+CGIas asyp+ CATL_HUMAN 297 LVKNSWGEEWGMGGYVKMAKDRR----NHCGIASAASYPT 332 CATH_RAT: domain 1 of 1, from 114 to 330: score 381.8, E = 4.8e-115 *->lPesfDWReWkggaVtpVKdQGiqCGSCWAFSavgalEgryciktgt P s+DWR+ kg V+pVK+QG CGSCW FS++galE++ +i++ CATH_RAT 114 YPSSMDWRK-KGNVVSPVKNQG-ACGSCWTFSTTGALESAVAIAS-- 156 kawggklvsLSEQqLvDCdgedygnngesCGyGCnGGGlmdnAfeYikke gk L EQqLvDC +++n+ GC+G Gl+++AfeYi++ CATH_RAT 157 ----GKMMTLAEQQLVDCAQ-NFNNH------GCQG-GLPSQAFEYILY- 193 qIsnNgGlvtEsdYekgCkPYtdfPCgkdggndtyypCpgkaydpndTgt N+G++ E++Y PY gk+ g+ CATH_RAT 194 ----NKGIMGEDSY-----PYI----GKN-------------------GQ 211 CkynckknskypktyakikgygdvpynvsTydEealqkalaknGPvsVai Ck+n +++++ a++k+ ++++ n dE+a+ +a+a + Pvs a+ CATH_RAT 212 CKFN-PEKAV-----AFVKNVVNITLN----DEAAMVEAVALYNPVSFAF 251 dasedskgDFqlYksGendvgyGvYkhtsageCggtpfteLdHAVliVGY +++e DF++YksG vY++ +C +tp + ++HAVl+VGY CATH_RAT 252 EVTE----DFMMYKSG-------VYSSN---SCHKTP-DKVNHAVLAVGY 286 GteneggtfdetssskksesgiqvssgsngssgSSgssgapiedkgkdYW G +n g YW CATH_RAT 287 GEQN-GLL----------------------------------------YW 295 IVKNSWGtdWGEnGYfriaRgknksgkneCGIaseasypi<-* IVKNSWG++WG nGYf i+Rgkn +CG+a +asypi CATH_RAT 296 IVKNSWGSNWGNNGYFLIERGKN-----MCGLAACASYPI 330 PAPA_CARPA: domain 1 of 1, from 134 to 343: score 337.7, E = 9e-102 *->lPesfDWReWkggaVtpVKdQGiqCGSCWAFSavgalEgryciktgt +Pe +DWR+ kg aVtpVK+QG +CGSCWAFSav ++Eg+++i+t PAPA_CARPA 134 IPEYVDWRQ-KG-AVTPVKNQG-SCGSCWAFSAVVTIEGIIKIRT-- 175 kawggklvsLSEQqLvDCdgedygnngesCGyGCnGGGlmdnAfeYikke g+l +SEQ+L+DCd+ ++ GCnG G+++ A++ + + PAPA_CARPA 176 ----GNLNEYSEQELLDCDR---RSY------GCNG-GYPWSALQLVAQ- 210 qIsnNgGlvtEsdYekgCkPYtdfPCgkdggndtyypCpgkaydpndTgt G++ Y PY+ g++ PAPA_CARPA 211 -----YGIHYRNTY-----PYE----GVQ-------------------RY 227 CkynckknskypktyakikgygdvpynvsTydEealqkalaknGPvsVai C+++ +k+ + +ak +g ++v+++ +E al + +a+ +PvsV PAPA_CARPA 228 CRSR-EKGPY----AAKTDGVRQVQPY----NEGALLYSIAN-QPVSVVL 267 dasedskgDFqlYksGendvgyGvYkhtsageCggtpfteLdHAVliVGY +a + DFqlY++G ++++ +Cg+ +dHAV++VGY PAPA_CARPA 268 EAAGK---DFQLYRGG-------IFVG----PCGN----KVDHAVAAVGY 299 GteneggtfdetssskksesgiqvssgsngssgSSgssgapiedkgkdYW G +Y PAPA_CARPA 300 G---------------------------------------------PNYI 304 IVKNSWGtdWGEnGYfriaRgknksgkneCGIaseasypi<-* ++KNSWGt WGEnGY+ri+Rg+++s ++ CG+ ++ yp+ PAPA_CARPA 305 LIKNSWGTGWGENGYIRIKRGTGNS-YGVCGLYTSSFYPV 343 Histogram of all scores: score obs exp (one = represents 1 sequences) ----- --- --- > 337 4 -|==== % Statistical details of theoretical EVD fit: mu = -195.8384 lambda = 0.1423 chi-sq statistic = 0.0000 P(chi-square) = 0 Total sequences searched: 4 Whole sequence top hits: tophits_s report: Total hits: 4 Satisfying E cutoff: 4 Total memory: 16K Domain top hits: tophits_s report: Total hits: 4 Satisfying E cutoff: 4 Total memory: 20K