hmmpfam - search a single seq against HMM database HMMER 2.1.1 (Dec 1998) Copyright (C) 1992-1998 Washington University School of Medicine HMMER is freely distributed under the GNU General Public License (GPL). - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - HMM file: /data11/genetics/InterProScan/iprscan/data/Pfam Sequence file: /cdna4/rodent/full/goal/mtj/mtj02754/w3open/interpro/cnk_1/seq.in - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: mKIAA1870 ( 857 res) mtj02754 Scores for sequence family classification (score includes all domains): Model Description Score E-value N -------- ----------- ----- ------- --- Collagen Collagen triple helix repeat (20 copies) 351.8 7.4e-102 10 COLFI Fibrillar collagen C-terminal domain 133.6 3.6e-36 1 Parsed for domains: Model Domain seq-f seq-t hmm-f hmm-t score E-value -------- ------- ----- ----- ----- ----- ----- ------- Collagen 1/10 9 68 .. 1 60 [] 49.3 8.7e-11 Collagen 2/10 69 128 .. 1 60 [] 43.5 4.7e-09 Collagen 3/10 129 188 .. 1 60 [] 42.2 1.2e-08 Collagen 4/10 189 248 .. 1 60 [] 52.6 8.8e-12 Collagen 5/10 252 311 .. 1 60 [] 43.8 3.7e-09 Collagen 6/10 315 375 .. 1 60 [] 21.7 0.00012 Collagen 7/10 376 435 .. 1 60 [] 40.8 3.2e-08 Collagen 8/10 436 495 .. 1 60 [] 40.2 4.7e-08 Collagen 9/10 496 555 .. 1 60 [] 47.7 2.6e-10 Collagen 10/10 556 615 .. 1 60 [] 42.3 1.1e-08 COLFI 1/1 673 856 .. 1 226 [] 133.6 3.6e-36 Alignments of top-scoring domains: Collagen: domain 1 of 10, from 9 to 68: score 49.3, E = 8.7e-11 *->GppGppGppGppGppGppGppGpaGapGppGppGepGpPGppGppGp G +G +GppG+pGp+G G+pG +G+ G+pG pG+ GpPG++G pG mKIAA1870 9 GDRGVMGPPGAPGPKGSMGHPGTPGGIGNPGEPGPWGPPGSRGLPGM 55 pGppGapGapGpp<-* +G +G G+ Gp mKIAA1870 56 RGAKGHRGPRGPD 68 Collagen: domain 2 of 10, from 69 to 128: score 43.5, E = 4.7e-09 *->GppGppGppGppGppGppGppGpaGapGppGppGepGpPGppGppGp Gp+G++G++G+ G Gp+G pG++G +G +G +G +G+ G G pGp mKIAA1870 69 GPAGEQGSKGLKGRVGPRGRPGQPGQQGAAGERGHSGAKGFLGIPGP 115 pGppGapGapGpp<-* GppGa+G pG+p mKIAA1870 116 SGPPGAKGLPGEP 128 Collagen: domain 3 of 10, from 129 to 188: score 42.2, E = 1.2e-08 *->GppGppGppGppGppGppGppGpaGapGppGppGepGpPGppGppGp G Gp+Gp GppG+ Gp+GppG+ G+pG pG++G +G Gp GppG mKIAA1870 129 GSQGPQGPVGPPGEMGPKGPPGAVGEPGLPGDSGMKGDLGPLGPPGE 175 pGppGapGapGpp<-* +G G+ G+pG mKIAA1870 176 QGLIGQRGEPGLE 188 Collagen: domain 4 of 10, from 189 to 248: score 52.6, E = 8.8e-12 *->GppGppGppGppGppGppGppGpaGapGppGppGepGpPGppGppGp G Gp Gp G+ G +G+pGp G+ G++G G +Ge+G+PGppG G mKIAA1870 189 GDHGPVGPDGLKGDRGDPGPDGEHGEKGQEGLKGEDGSPGPPGITGV 235 pGppGapGapGpp<-* pG +G+pG G+ mKIAA1870 236 PGREGKPGKQGEK 248 Collagen: domain 5 of 10, from 252 to 311: score 43.8, E = 3.7e-09 *->GppGppGppGppGppGppGppGpaGapGppGppGepGpPGppGppGp G++G G G G+ G pG+pGp+G pGp+G +G Gp G+pG++G+ mKIAA1870 252 GAKGAKGHQGYLGEMGIPGEPGPPGTPGPKGSRGTLGPTGAPGRMGA 298 pGppGapGapGpp<-* +G+pG +G G mKIAA1870 299 QGEPGLAGYNGHK 311 Collagen: domain 6 of 10, from 315 to 375: score 21.7, E = 0.00012 *->GppGppGppGppGppGppGpp.GpaGapGppGppGepGpPGppGppG Gp GppGp+G+ G G+ G ++Gp+G+pG++Gp G++G G pG pG mKIAA1870 315 GPLGPPGPKGEKGDQGEDGKTeGPPGPPGDRGPVGDRGDRGEPGDPG 361 ppGppGapGapGpp<-* pG++G G G+p mKIAA1870 362 YPGQEGVQGLRGEP 375 Collagen: domain 7 of 10, from 376 to 435: score 40.8, E = 3.2e-08 *->GppGppGppGppGppGppGppGpaGapGppGppGepGpPGppGppGp G G+pG pGp+G pGp+G +G+ G++G pG +G++G+ G +G G mKIAA1870 376 GQQGQPGHPGPRGRPGPKGSKGEEGPKGKPGKAGPSGRRGTQGLQGL 422 pGppGapGapGpp<-* pGp+G G Gp mKIAA1870 423 PGPRGVVGRQGPE 435 Collagen: domain 8 of 10, from 436 to 495: score 40.2, E = 4.7e-08 *->GppGppGppGppGppGppGppGpaGapGppGppGepGpPGppGppGp G +G+ G pG G pG G +G++G pGp Gp+G +G PG +G pG+ mKIAA1870 436 GTAGSDGIPGRDGRPGYQGDQGNDGDPGPVGPAGRRGNPGVAGLPGA 482 pGppGapGapGpp<-* +GppG +G+ G p mKIAA1870 483 QGPPGFKGESGLP 495 Collagen: domain 9 of 10, from 496 to 555: score 47.7, E = 2.6e-10 *->GppGppGppGppGppGppGppGpaGapGppGppGepGpPGppGppGp G GppG +G G +G pG +G++G++G pG++Ge G+PG +G Gp mKIAA1870 496 GQLGPPGKRGTEGGTGLPGNQGEPGSKGQPGDSGEMGFPGVAGLFGP 542 pGppGapGapGpp<-* +GppG +G +G mKIAA1870 543 KGPPGDIGFKGIQ 555 Collagen: domain 10 of 10, from 556 to 615: score 42.3, E = 1.1e-08 *->GppGppGppGppGppGppGppGpaGapGppGppGepGpPGppGppGp Gp+GppG G G GppG Gp+G pGp+G++G +G G +Gp Gp mKIAA1870 556 GPRGPPGLMGKEGIIGPPGMLGPSGLPGPKGDRGSRGDLGLQGPRGP 602 pGppGapGapGpp<-* pGp+G+pG+pGpp mKIAA1870 603 PGPRGRPGPPGPP 615 COLFI: domain 1 of 1, from 673 to 856: score 133.6, E = 3.6e-36 *->lksPeGksrknPARtCkDLfLchpefksGeYWiDPNqGCikDAikVf +k+P+G ++ nPAR C+DL c ++ +G+YW+DPN+GC+ D i+V mKIAA1870 673 IKTPLG-TKENPARVCRDLMDCEQRMADGTYWVDPNLGCSSDTIEVS 718 CnkrfetGvgeTCisptpksvpkRiksWykgkskdkKhvWFgetmegGfk Cn f+ G g+TC p + + +k +e+ mKIAA1870 719 CN--FTQG-GQTCLKP----ITA-------SK---------AEFA----- 740 fsYiddelnpeisnvQlTFLRLLSteAsQNiTYhCKNSvAYmDeatG..N +s+vQ+ FL LLS+e+ Q iT hC N + e G+++ mKIAA1870 741 -----------VSRVQMNFLHLLSSEGTQHITIHCLN-MTVWQEGPGrsS 778 lkkAlilmgSnDvElsadgnskFtYtvlGeDGCssrtgewgKTViEyeTk +A++++ n + a F+ +v DGC+ + g w +T + ++T+ mKIAA1870 779 ARQAVRFRAWNGQVFEAG--GQFRPEVS-MDGCKVHDGRWHQTLFTFRTQ 825 KttRLPIvDiApsDiGgedQeFGveiGPVCF<-* +++LPIv + + + +e+GP+CF mKIAA1870 826 DPQQLPIVSVDNLPPVSSGKQYRLEVGPACF 856 //