Motif confirmation by HMMer


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).
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HMM file:                 /home/niguts/usr02/tshini/ykclst/db/Pfam_fs
Sequence file:            hmm2/seq/C54D1.5
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Query:  C54D1.5  CE30916    status:Partially_confirmed TN:AAC48152 protein_id:AAC48152.2

Scores for sequence family classification (score includes all domains):
Model         Description                               Score    E-value  N
--------      -----------                               -----    ------- ---
laminin_EGF   Laminin EGF-like (Domains III and V)      452.5   3.6e-132  11
laminin_Nterm Laminin N-terminal (Domain VI)            375.4   1.9e-113   1
laminin_B     Laminin B (Domain IV)                     111.6    9.6e-30   1
zf-C3HC4      Zinc finger, C3HC4 type (RING finger)       5.5       0.51   1
LEA           Late embryogenesis abundant protein         5.1        6.7   1
DUF712        Protein if unknown function (DUF712)        4.2        7.8   1
DUF567        Protein of unknown function (DUF567)        4.1        5.7   1

Parsed for domains:
Model         Domain  seq-f seq-t    hmm-f hmm-t      score  E-value
--------      ------- ----- -----    ----- -----      -----  -------
DUF567          1/1     132   154 ..     1    23 [.     4.1      5.7
laminin_Nterm   1/1      36   270 ..     1   264 []   375.4 1.9e-113
laminin_EGF     1/11    272   329 ..     1    59 []    39.9  6.6e-10
zf-C3HC4        1/1     356   372 ..    37    50 .]     5.5     0.51
laminin_EGF     2/11    332   385 ..     1    59 []    49.1  1.4e-12
laminin_EGF     3/11    388   432 ..     1    59 []    57.1  7.4e-15
laminin_EGF     4/11    435   485 ..     1    59 []    60.1    1e-15
laminin_B       1/1     550   685 ..     1   148 []   111.6  9.6e-30
laminin_EGF     5/11    686   718 ..    27    59 .]    10.8     0.15
laminin_EGF     6/11    721   767 ..     1    59 []    56.1  1.5e-14
laminin_EGF     7/11    770   817 ..     1    59 []    29.9  4.7e-07
laminin_EGF     8/11    820   875 ..     1    59 []    51.5  3.1e-13
laminin_EGF     9/11    893   928 ..    13    59 .]    47.2    5e-12
laminin_EGF    10/11    931   976 ..     1    59 []    73.8  1.2e-19
laminin_EGF    11/11    979  1029 ..     1    59 []    53.0  1.1e-13
LEA             1/1    1068  1104 ..    34    75 .]     5.1      6.7
DUF712          1/1    1187  1208 ..   111   132 .]     4.2      7.8

Alignments of top-scoring domains:
DUF567: domain 1 of 1, from 132 to 154: score 4.1, E = 5.7
                   *->gvvvsseylspepvdLtvwrKsl<-*
                      ++ v  +++sp p+++t+ +K +
     C54D1.5   132    ITYVRLKFISPRPESFTIYKKTH    154

laminin_Nterm: domain 1 of 1, from 36 to 270: score 375.4, E = 1.9e-113
                   *->CyPAtgNLainradrlsatsTCGlhsPEeyCilshlqpGRPVrdKkC
                      C P ++N+a+n++  + +t+TCG++ P ++C++s++++        C
     C54D1.5    36    CVPDFVNAAFNLE--VQVTNTCGTKRPTKFCVQSGHTG----QRSVC 76

                   flCDsnspnkrddnpnsHpisflvdttnpqrlttWWQSetmlnGvqYpnn
                   + CD + +        sHp+ +l+d + +++  tWWQS tm++G qYp
     C54D1.5    77 ETCDDRHEG------FSHPAKYLTDFNVGNN-ETWWQSDTMQEGQQYPTT 119

                   VTitLDLeaeFhiTYvIikFkNtfRPEaamiieRSsDfGktWipYqYYay
                    ++tL L+++F+iTYv++kF  ++RPE+++i++ +  +   W p+q+Y++
     C54D1.5   120 TNLTLVLGKSFDITYVRLKFI-SPRPESFTIYKKTHTDS-EWEPWQFYSG 167

                   dDsECeatYpgiprrpirtgraeddvlCTSrYSdiePlteGEViFsvLeG
                   +   C+atY + +r+pi   + e+ + CT ++Sdi+P t+G+++Fs+LeG
     C54D1.5   168 S---CRATYGLSDRAPILP-GNEATAQCTKEFSDISPITGGNIAFSTLEG 213

                   RPsadifDpYSprlQewlkaTniRitLtRLhTLGDnLldsSHRelkeLdp
                   RPsa  f+  S++lQ w++a  iRi L+R++T+GD+++          dp
     C54D1.5   214 RPSAHAFEE-SEVLQKWVTASAIRISLNRMNTFGDEVFK---------DP 253

                   evlekYYYAIsDivVGG<-*
                   +vl++YYYAIsD++VGG
     C54D1.5   254 QVLRSYYYAISDFAVGG    270

laminin_EGF: domain 1 of 11, from 272 to 329: score 39.9, E = 6.6e-10
                   *->CdCnphGslsddtCdsddelf....geetGqClkCkpnvtGrrCdrC
                      C Cn+h+    ++C      +++ +ge+  +C+ C +n++G +C++C
     C54D1.5   272    CKCNGHA----SECVG----SssvdGENRLVCR-CEHNTQGADCNEC 309

                   kpGyyglpsg....dpgqgC<-*
                   +p y ++p++++++  ++ C
     C54D1.5   310 LPFYNDRPWRsgtsVEANEC    329

zf-C3HC4: domain 1 of 1, from 356 to 372: score 5.5, E = 0.51
                   *->rWls..gntt.vkCplC<-*
                      ++++ +gnt++v+C++C
     C54D1.5   356    HCIDcqGNTQgVHCEQC    372

laminin_EGF: domain 2 of 11, from 332 to 385: score 49.1, E = 1.4e-12
                   *->CdCnphGslsddtCdsddelf..geetGqClkCkpnvtGrrCdrCkp
                      C+C+ ++     +C++d+ lf++++++G+C +C+ n++G +C++C
     C54D1.5   332    CNCSQLS----NRCYFDQQLFeeTGHGGHCIDCQGNTQGVHCEQCIA 374

                   GyyglpsgdpgqgC<-*
                   +++++     ++ C
     C54D1.5   375 NHWRR---PGENYC    385

laminin_EGF: domain 3 of 11, from 388 to 432: score 57.1, E = 7.4e-15
                   *->CdCnphGslsddtCdsddelfgeetGqClkCkpnvtGrrCdrCkpGy
                      C Cn+ Gsls  +Cd          G C+ Ckp+vtGr Cd+C++G+
     C54D1.5   388    CGCNEIGSLS-TQCDN--------EGKCQ-CKPGVTGRFCDQCLDGF 424

                   yglpsgdpgqgC<-*
                   y++   +   gC
     C54D1.5   425 YDF---STN-GC    432

laminin_EGF: domain 4 of 11, from 435 to 485: score 60.1, E = 1e-15
                   *->CdCnphGslsd.dtCdsddelfgeetGqClkCkpnvtGrrCdrCkpG
                      C C   Gsl+++++Cds       ++G C+ Ck nv+Gr+Cd CkpG
     C54D1.5   435    CGCETSGSLNNqPRCDS-------SSGSCS-CKLNVEGRQCDKCKPG 473

                   yyglpsgdpgqgC<-*
                   y++l++  + +gC
     C54D1.5   474 YFDLST-ENQFGC    485

laminin_B: domain 1 of 1, from 550 to 685: score 111.6, E = 9.6e-30
                   *->YWrlPekFLGDkvtsYGGkLkYsvafdgPvegvgstsnseadViLkG
                      Y+ +Pe+FLGD++ sY+++L +++++        +t+  + d+i+ G
     C54D1.5   550    YFVAPEQFLGDQRSSYNQDLVFTLKVAK-----HVTNQDVKDIIIVG 591

                   n.glrlsvplraqgnslrPseervkvtvrlhEtfwkdfnsqpaKavtred
                   +++  ls+ + aqgn+  P  e + + +r+h     +f + p   +   d
     C54D1.5   592 AdRQELSTSITAQGNPF-PTTEAQTYRFRVHADP--YFGWYPR--INELD 636

                   llsvLanLtaiLIRATYNsakqaqsrLddVsLeiArpgaqgpaEdvvAae
                   +  +L+n+tai+IR+TY s k  ++ L++V+L +A  ++   a    A++
     C54D1.5   637 FIGILSNITAIKIRGTY-SYKDIGY-LSNVNLGTAGVAPS-AANPKQATW 683

                   VE<-*
                   +E
     C54D1.5   684 IE    685

laminin_EGF: domain 5 of 11, from 686 to 718: score 10.8, E = 0.15
                   *->qClkCkpnvtGrrCdrCkpGyyglpsg..dpgqgC<-*
                      +C  C+p++ G+ C+ C+ G+ +  ++++ +   C
     C54D1.5   686    HCE-CLPGFVGQFCESCESGFRRETKFggPFN-HC    718

laminin_EGF: domain 6 of 11, from 721 to 767: score 56.1, E = 1.5e-14
                   *->CdCnphGslsddtCdsddelfgeetGqClkCkpnvtGrrCdrCkpGy
                      CdC++h+     +C         e+G C  C +n++G+ C+rC+ Gy
     C54D1.5   721    CDCHNHS----NSCEA-------ESGSCI-CEHNTAGDTCERCARGY 755

                   yglpsg.dpgqgC<-*
                   yg++++++ + +C
     C54D1.5   756 YGDALQgTEE-DC    767

	[output cut off at A = 10 top alignments]


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