hmmpfam - search one or more sequences against HMM database HMMER 2.3.2 (Oct 2003) Copyright (C) 1992-2003 HHMI/Washington University School of Medicine Freely distributed under the GNU General Public License (GPL) - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - HMM file: /db/iprscan/data/Pfam.bin Sequence file: /db/iprscan/tmp/20090416/iprscan-20090416-17452540/chunk_1/iprscan-20090416-17452540.nocrc - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query sequence: pj00648 Accession: [none] Description: [none] Scores for sequence family classification (score includes all domains): Model Description Score E-value N -------- ----------- ----- ------- --- PF05337.2.ls Macrophage colony stimulating factor-1 (CSF- 1031.7 0 2 PF05337.2.fs Macrophage colony stimulating factor-1 (CSF- 1028.1 0 2 Parsed for domains: Model Domain seq-f seq-t hmm-f hmm-t score E-value -------- ------- ----- ----- ----- ----- ----- ------- PF05337.2.fs 1/2 64 331 .. 1 311 [] 532.4 4.4e-158 PF05337.2.ls 1/2 64 331 .. 1 311 [] 534.2 1.3e-157 PF05337.2.fs 2/2 335 617 .] 1 311 [] 495.7 3.5e-147 PF05337.2.ls 2/2 335 617 .] 1 311 [] 497.5 1.4e-146 Alignments of top-scoring domains: PF05337.2.fs: domain 1 of 2, from 64 to 331: score 532.4, E = 4.4e-158 *->mTarGaaGrcPsttwlGslledlLdcLLvsnsvteEvSeecShmPIg mTa+GaaGrcP+ttwlGsll lL+cLL+s+s+teEvSe+cShm Ig pj00648 64 MTAPGAAGRCPPTTWLGSLL--LLVCLLASRSITEEVSEYCSHM-IG 107 nGhllslqqLGGidsqmEpaspshtppTscqisGsGkGfeFVDqssPlPa +Ghl+slq+L idsqmE Tscqi+ feFVDq pj00648 108 SGHLQSLQRL--IDSQME---------TSCQIT-----FEFVDQ------ 135 seqlddPvcylkkAfllVqdiiedTmRpsasfnhtPqKDpntPnAkateP eql+dPvcylkkAfllVqdi+edTmR f +D ntPnA+a++ pj00648 136 -EQLKDPVCYLKKAFLLVQDIMEDTMR----F-----RD-NTPNAIAIV- 173 PePGsPrLhpqeLSlprGLkScftkdyeeqdkacvrtfhetPLqlLEkik +L qeLSl r LkScftkdyee+dkacvrtf+etPLqlLEk+k pj00648 174 ------QL--QELSL-R-LKSCFTKDYEEHDKACVRTFYETPLQLLEKVK 213 nvfnEtKnllekdWnifskncnnSfakcsSvPltdtdvvrkpdceasdPq nvfnEtKnll+kdWnifskncnnSfa+csS +dvv+kpdc++++P+ pj00648 214 NVFNETKNLLDKDWNIFSKNCNNSFAECSS-----QDVVTKPDCNCLYPK 258 .lpesvfrllvPsiilv..lLAvgGllfyrrr.......rrshqepqavD +p+s++++++P+++l++++++v+Gl++++++++++++ +++q+ ++vD pj00648 259 aIPSSDPASVSPHQPLApsMAPVAGLTWEDSEgtegsslLPGEQPLHTVD 308 .GspleqpegSlltqdedrqeelPv<-* +Gs++++p++S t+++++++e+Pv pj00648 309 pGSAKQRPPRS--TCQSFEPPETPV 331 PF05337.2.ls: domain 1 of 2, from 64 to 331: score 534.2, E = 1.3e-157 *->mTarGaaGrcPsttwlGslledlLdcLLvsnsvteEvSeecShmPIg mTa+GaaGrcP+ttwlGsll lL+cLL+s+s+teEvSe+cShm Ig pj00648 64 MTAPGAAGRCPPTTWLGSLL--LLVCLLASRSITEEVSEYCSHM-IG 107 nGhllslqqLGGidsqmEpaspshtppTscqisGsGkGfeFVDqssPlPa +Ghl+slq+L idsqmE Tscqi+ feFVDq pj00648 108 SGHLQSLQRL--IDSQME---------TSCQIT-----FEFVDQ------ 135 seqlddPvcylkkAfllVqdiiedTmRpsasfnhtPqKDpntPnAkateP eql+dPvcylkkAfllVqdi+edTmR f +D ntPnA+a++ pj00648 136 -EQLKDPVCYLKKAFLLVQDIMEDTMR----F-----RD-NTPNAIAIV- 173 PePGsPrLhpqeLSlprGLkScftkdyeeqdkacvrtfhetPLqlLEkik +L qeLSl r LkScftkdyee+dkacvrtf+etPLqlLEk+k pj00648 174 ------QL--QELSL-R-LKSCFTKDYEEHDKACVRTFYETPLQLLEKVK 213 nvfnEtKnllekdWnifskncnnSfakcsSvPltdtdvvrkpdceasdPq nvfnEtKnll+kdWnifskncnnSfa+csS +dvv+kpdc++++P+ pj00648 214 NVFNETKNLLDKDWNIFSKNCNNSFAECSS-----QDVVTKPDCNCLYPK 258 .lpesvfrllvPsiilv..lLAvgGllfyrrr.......rrshqepqavD +p+s++++++P+++l++++++v+Gl++++++++++++ +++q+ ++vD pj00648 259 aIPSSDPASVSPHQPLApsMAPVAGLTWEDSEgtegsslLPGEQPLHTVD 308 .GspleqpegSlltqdedrqeelPv<-* +Gs++++p++S t+++++++e+Pv pj00648 309 pGSAKQRPPRS--TCQSFEPPETPV 331 PF05337.2.fs: domain 2 of 2, from 335 to 617: score 495.7, E = 3.5e-147 *->mTarGaaGrcPsttwlGslledlLdcLLvsnsvteEvSeecShmPIg +T++G+++++Ps++++++++ed+Ld+++++n+v+eE+S+e+S++P++ pj00648 335 STIGGSPQPRPSVGAFNPGMEDILDSAMGTNWVPEEASGEASEIPVP 381 nGhllslqqLGGidsqmEpaspshtppTscqisGsGkGfeFVDqssPlPa +G++ls++++ ++++m+ T+++++ ++F+++ssPlPa pj00648 382 QGTELSPSRP--GGGSMQ---------TEPARP-----SNFLSASSPLPA 415 seqlddPvcylkkAfllVqdiiedTmRpsasfnhtPqKDpntPnAkateP s+++++P++++++A+++V+++++++++ +nhtPqK+ ++P+A++++P pj00648 416 SAKGQQPADVTGTALPRVGPVRPTGQD----WNHTPQKT-DHPSALLRDP 460 PePGsPrLhpqeLSlprGLkScftkdyeeqdkacvrtfhetPLqlLEkik PePGsPr+ ++ ++ +GL++++t+++++q+++++++++++PL++LE+++ pj00648 461 PEPGSPRI--SSPRP-QGLSNPSTLSAQPQLSRSHSSGSVLPLGELEGRR 507 nvfnEtKnllekdWnifskncnnSfakcsSvPltdtdvvrkpdceasdPq ++ +++++++e++++++s+++++++++++SvPltdt+++r+++ ++s+Pq pj00648 508 ST-RDRRSPAEPEGGPASEGAARPLPRFNSVPLTDTGHERQSE-GSSSPQ 555 lpesvfrllvPsiilvlLAvgGllfyrrrrrshqepqavDGspleqpegS l+esvf+llvPs+ilvlLAvgGllfyr+rrrshqepq++D spleqpegS pj00648 556 LQESVFHLLVPSVILVLLAVGGLLFYRWRRRSHQEPQRAD-SPLEQPEGS 604 lltqdedrqeelPv<-* +ltqd drq+elPv pj00648 605 PLTQD-DRQVELPV 617 PF05337.2.ls: domain 2 of 2, from 335 to 617: score 497.5, E = 1.4e-146 *->mTarGaaGrcPsttwlGslledlLdcLLvsnsvteEvSeecShmPIg +T++G+++++Ps++++++++ed+Ld+++++n+v+eE+S+e+S++P++ pj00648 335 STIGGSPQPRPSVGAFNPGMEDILDSAMGTNWVPEEASGEASEIPVP 381 nGhllslqqLGGidsqmEpaspshtppTscqisGsGkGfeFVDqssPlPa +G++ls++++ ++++m+ T+++++ ++F+++ssPlPa pj00648 382 QGTELSPSRP--GGGSMQ---------TEPARP-----SNFLSASSPLPA 415 seqlddPvcylkkAfllVqdiiedTmRpsasfnhtPqKDpntPnAkateP s+++++P++++++A+++V+++++++++ +nhtPqK+ ++P+A++++P pj00648 416 SAKGQQPADVTGTALPRVGPVRPTGQD----WNHTPQKT-DHPSALLRDP 460 PePGsPrLhpqeLSlprGLkScftkdyeeqdkacvrtfhetPLqlLEkik PePGsPr+ ++ ++ +GL++++t+++++q+++++++++++PL++LE+++ pj00648 461 PEPGSPRI--SSPRP-QGLSNPSTLSAQPQLSRSHSSGSVLPLGELEGRR 507 nvfnEtKnllekdWnifskncnnSfakcsSvPltdtdvvrkpdceasdPq ++ +++++++e++++++s+++++++++++SvPltdt+++r+++ ++s+Pq pj00648 508 ST-RDRRSPAEPEGGPASEGAARPLPRFNSVPLTDTGHERQSE-GSSSPQ 555 lpesvfrllvPsiilvlLAvgGllfyrrrrrshqepqavDGspleqpegS l+esvf+llvPs+ilvlLAvgGllfyr+rrrshqepq++D spleqpegS pj00648 556 LQESVFHLLVPSVILVLLAVGGLLFYRWRRRSHQEPQRAD-SPLEQPEGS 604 lltqdedrqeelPv<-* +ltqd drq+elPv pj00648 605 PLTQD-DRQVELPV 617 //