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/F20B6.3
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Query:  F20B6.3  CE04425  locus:mrp-6 ABC transporter status:Partially_confirmed TR:Q19625 protein_id:AAA82317.1

Scores for sequence family classification (score includes all domains):
Model           Description                             Score    E-value  N
--------        -----------                             -----    ------- ---
ABC_tran        ABC transporter                         272.5    5.6e-78   2
ABC_membrane    ABC transporter transmembrane region    124.0    2.8e-33   2
Cloacin_immun   Cloacin immunity protein                  3.4        8.9   1
AIG1            AIG1 family                               3.4        8.8   1
Glyco_hydro_2_C Glycosyl hydrolases family 2, TIM bar     3.2        5.8   1
UPF0149         Uncharacterised protein family (UPF01     3.1        9.9   1
GatB_N          PET112 family, N terminal region          2.7        5.4   1
NB-ARC          NB-ARC domain                             2.2        9.5   1
Baculo_gp41     Structural glycoprotein p40/gp41 cons     2.2          9   1

Parsed for domains:
Model           Domain  seq-f seq-t    hmm-f hmm-t      score  E-value
--------        ------- ----- -----    ----- -----      -----  -------
UPF0149           1/1       4    17 ..   177   191 .]     3.1      9.9
ABC_membrane      1/2     102   374 ..     1   285 []    44.0  2.7e-10
ABC_tran          1/2     510   681 ..     1   199 []   125.3  3.9e-35
Glyco_hydro_2_C   1/1     665   698 ..   259   292 ..     3.2      5.8
Cloacin_immun     1/1     895   919 ..     1    26 [.     3.4      8.9
ABC_membrane      2/2     794  1082 ..     1   285 []    88.1  1.7e-22
GatB_N            1/1    1085  1095 ..   279   289 .]     2.7      5.4
AIG1              1/1    1162  1176 ..     1    15 [.     3.4      8.8
NB-ARC            1/1    1164  1182 ..    44    62 ..     2.2      9.5
Baculo_gp41       1/1    1313  1323 ..   252   262 .]     2.2        9
ABC_tran          2/2    1161  1343 ..     1   199 []   147.4  1.6e-41

Alignments of top-scoring domains:
UPF0149: domain 1 of 1, from 4 to 17: score 3.1, E = 9.9
                   *->hfgkkleeaqKPtLH<-*
                      hf+k++ e +KP ++
     F20B6.3     4    HFQKTPDE-TKPDVN    17

ABC_membrane: domain 1 of 2, from 102 to 374: score 44.0, E = 2.7e-10
                   *->lliailllilagatalvtfplllgrlldsgfplsdgnddh.....ar
                      + +  ++l l ++t ++ +plll  l+++   ++   + + +  +a+
     F20B6.3   102    VMAHAISLCLEELTRVA-QPLLLRELMSY---YDIEEGQEfpywpAM 144

                   sslislailslfavfvliglllqgsfyllagerlgqrlrkrlfrallrqi
                     ++++++l  f++    ++  + +f++  + ++g ++r+++   l+r+
     F20B6.3   145 QVALIISLL-SFVT----VCIHHPYFHG--LLKVGNHARVATGVLLYRKS 187

                   lglfdsffdtnsvGeltsRltnDvekirdglgeklgllfqslatvvggli
                   l+ +   + ++++G+++++l +D++k+++++ ++  +++ +l++++ ++i
     F20B6.3   188 LRISLTSLFETNSGQIIQLLNTDAAKLEQAFLFAHYVWLCPLLMFFYAYI 237

                   vmfyyswkLtLillailpllillsavlakklrklsrkeqkayakagsvae
                   +++ ++   +L+ l ++  ++ +++ ++  l   +r   ++++ + +v+
     F20B6.3   238 LWSMFGFCCLLGFL-VMMAIVSFQVHYSYQLGVNRRNIGDKMDSRLKVMS 286

                   EslsgirTVkafgrEeyelerfdkaledaekagikkaiiagllfgitqli
                   E+++gi+++k  g+E ++ e++   +ed +ka    a++++ + gi ++
     F20B6.3   287 EIINGIKVIKMHGWENAFAEKIRILREDEIKAVGTSAFYSSMVMGIYFIS 336

                   sylsyalalwfGgylvasvisgglsvgtlfaflslgnqligpl<-*
                   + +  ++++ f++       +++l+   +fa+  l+n+ + p+
     F20B6.3   337 AKI-GLFVYIFACDY----FDEILTTRGVFASSALFNSVRLPF    374

ABC_tran: domain 1 of 2, from 510 to 681: score 125.3, E = 3.9e-35
                   *->GevlalvGpNGaGKSTLLklisGllppteGtilldGardlsdlsklk
                      G  ++++G+ G+GKS+LL +i+ + + t G ++++G
     F20B6.3   510    GTCYGIIGSVGSGKSSLLLTILSESRMTRGNLSVNG-S--------- 546

                   erlerlrknigvvfQdptlfpnpeltvreniafglrlslglskdeqrdrl
                             +++ Q+p +f   ++++++ni+fg +     +k++++++l
     F20B6.3   547 ---------FAYCAQEPWIF---TGSIQDNIVFGSEF----NKERYENAL 580

                   kkagaeelLerlglgydhlldrrpgtLSGGqkQRvaiARaLltkpklLlL
                   +++ +   L+++  g+ + ++++++tLSGGq+ Rva+ARa++ +++++lL
     F20B6.3   581 ELCLLTPDLRQFANGDMTIVGDNGSTLSGGQRARVALARAVYADADIYLL 630

                   DEPTagLDpasraqllellrelrqqggTvllitHdldlldrlaDrilvle
                   D P ++ D++  ++l+e l +     + v+l+tH++ + +   D ++ ++
     F20B6.3   631 DDPLSAVDAHVGKKLYENLIRGFLSDKLVILVTHQIHF-LSELDSVILMK 679

                   dG<-*
                   +
     F20B6.3   680 NN    681

Glyco_hydro_2_C: domain 1 of 1, from 665 to 698: score 3.2, E = 5.8
                   *->QggfiwdwidqaiqkrdpnvgdGkLhevlayGGD<-*
                      Q++f+++++++++ k  + vg+G L e+ +++ D
     F20B6.3   665    QIHFLSELDSVILMKNNKMVGNGSLDELKSTFTD    698

Cloacin_immun: domain 1 of 1, from 895 to 919: score 3.4, E = 8.9
                   *->GLKLdltWFDKktEdFKGeEYsKDFG<-*
                       LK +  +FDK  E    + +sKD G
     F20B6.3   895    -LKTESEFFDKNSEGMILNRFSKDIG    919

ABC_membrane: domain 2 of 2, from 794 to 1082: score 88.1, E = 1.7e-22
                   *->lliailllilagatalvtfplllgrlldsgfplsdgnddh......a
                      ++++ ++li +  +++v   ++l+++l     l++ n d++++++++
     F20B6.3   794    IWLVVCVLITQLMNNFV--DWWLNKWLVD---LDMNNADNstskeeF 835

                   rsslislails..........lfavfvliglllqgsfyllagerlgqrlr
                   + +   l+++++ + ++ + +++++ v+ ++l  +++ +  + +    ++
     F20B6.3   836 NRNVDVLGYTFnvtfqtyeltFIISTVIMSILGVVRSVW--FRNAQLMAS 883

                   krlfrallrqilglfdsffdtnsvGeltsRltnDvekirdglgeklgllf
                   + l+ ++++ +l+   +ffd+ns G +++R+++D+   +d+l+++ + ++
     F20B6.3   884 RILHNSMFDCVLKTESEFFDKNSEGMILNRFSKDIGLTDDLLAFTYFEFV 933

                   qslatvvgglivmfyyswkLtLillailpllillsavlakklrklsrkeq
                      +t+vg++++ + + +   L++ +i+  ++++ + +  ++r+l+r e+
     F20B6.3   934 FGTLTFVGIVGLVSMVRPIVILACAFITAGFYFCRKMYVHRSRELKRIEA 983

                   kayakagsvaeEslsgirTVkafgrEeyelerfdkaledaekagikkaii
                    a++++++ ++ ++ g+ T++a++ E  ++e+f+   + +  a+ + +++
     F20B6.3   984 AARSPLNTTITSTVHGLSTIRAYRKENEMIEKFCALHDVYMAAYNMGLLS 1033

                   agllfgitqlisylsyalalwfGgylvasvisgglsvgtlfaflslgnql
                   a+++++++++++++ ++ ++ + ++l    +++ l+vg++ ++l+   ql
     F20B6.3  1034 ARWFGICIDFLVSV-FVSIVAIVVVL----QYETLTVGEVGLCLVCAVQL 1078

                   igpl<-*
                   +g +
     F20B6.3  1079 SGFF    1082

GatB_N: domain 1 of 1, from 1085 to 1095: score 2.7, E = 5.4
                   *->iqRQvnllerG<-*
                      i+RQ ++le+G
     F20B6.3  1085    IMRQSAELENG    1095

AIG1: domain 1 of 1, from 1162 to 1176: score 3.4, E = 8.8
                   *->rnIVLVGRTGNGKSA<-*
                        I  VGRTG+GKS+
     F20B6.3  1162    QKIGVVGRTGAGKST    1176

NB-ARC: domain 1 of 1, from 1164 to 1182: score 2.2, E = 9.5
                   *->vgivGMGGvGKTTLAkqiy<-*
                      +g+vG+ G GK+TL k i+
     F20B6.3  1164    IGVVGRTGAGKSTLIKIIF    1182

Baculo_gp41: domain 1 of 1, from 1313 to 1323: score 2.2, E = 9
                   *->PdlFqgAtflT<-*
                      +d F +At +T
     F20B6.3  1313    RDFFKNATIIT    1323

	[output cut off at A = 10 top alignments]


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