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Domain name : PF00482.15_GSPII_F
Domain size : 77
Domain Description : Bacterial type II secretion system protein F domain
Domain gathering score : 17.8
Domain trusted cutoff : 17.9
Domain architecture : non-TM/SP [1 165], TM [166 185]
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Example 1
gi|70726732|ref|YP_253646.1| hypothetical protein SH1731 [Staphylococcus haemolyticus JCSC1435]gi|68447456|dbj|BAE05040.1| unnamed protein product [Staphylococcus haemolyticus JCSC1435] 442 (length) 157 196 .. (wrt seq) 135 185 .] (wrt HMM) 
No.of residues in non-TM/SP region : 31 [19%(over non-TM/SP length)]

Scores for sequence family classification:
Model        Description                                Score    E-value  N
--------     -----------                                -----    ------- ---
FtsQ            Cell division protein FtsQ               88.4    2.6e-23   1
POTRA_1         POTRA domain, FtsQ-type                  64.6    3.3e-18   1
GSPII_F         Bacterial type II secretion system pr    18.0    0.00044   1
Surf_Ag_VNR     Surface antigen variable number repea    15.7     0.0014   1

Parsed for domains:
Model           Domain  seq-f seq-t    hmm-f hmm-t      score  E-value
--------        ------- ----- -----    ----- -----      -----  -------
GSPII_F           1/1     157   196 ..    97   136 .]    18.0  0.00044
POTRA_1           1/1     198   266 ..     1    74 []    64.6  3.3e-18
Surf_Ag_VNR       1/1     198   266 ..     1    84 []    15.7   0.0014
FtsQ              1/1     269   391 ..     1   131 []    88.4  2.6e-23

Alignments of top-scoring domains:
GSPII_F: domain 1 of 1, from 157 to 196: score 18.0, E = 0.00044
                   *->dllrerresrrqllagllypllllivallilllllaillp<-*
                      ++++e+++++r++++ +++++++ +++lli+l+ll +++p   
  gi|7072673   157    QERKEQLRIQRRKRQKRIQYVIITFLVLLIILFLLYMFTP    196  

POTRA_1: domain 1 of 1, from 198 to 266: score 64.6, E = 3.3e-18
                   *->fpikeveVsGdnkrvsaeeirkalgiqksdgtsffsldlnairdrLe
                      ++i+++++sG n++vs+ +++kal ++   ++ + + ++ +  ++L+
  gi|7072673   198    SRISNIKISG-NNNVSNSQVEKALDVKD--NSRMYTYSKRKGIQNLK 241  

                   kklPWiksasVrrqLwPntleIrvvEr<-*
                   k + +ik++++++q +Pntl+++++E    
  gi|7072673   242 K-NDLIKDVKIKKQ-LPNTLKVQITEN    266  

Surf_Ag_VNR: domain 1 of 1, from 198 to 266: score 15.7, E = 0.0014
                   *->ykikvdInieGNwalkrtsdevLrrellklkeGdvynrekleedier
                       +i+ +I+i+GN   + +s ++++++l  +k ++       ++ i++
  gi|7072673   198    SRIS-NIKISGN---NNVSNSQVEKAL-DVKDNSRMYTYSKRKGIQN 239  

                   LkdfYlnlGYafadVsvepe.dpekdggVdltfnVkEg<-*
                   Lk    ++     dV+++ +  +      +l++ ++E+   
  gi|7072673   240 LK----KNDL-IKDVKIKKQlPN------TLKVQITEN    266  
  
FtsQ: domain 1 of 1, from 269 to 391: score 88.4, E = 2.6e-23
                   *->vAyWqqkggglylidenGevfsaplasraappdLPllvGpegaekav
                      v+++ + ++++ +i e  + ++    +++  +  P+l G++g+ek  
  gi|7072673   269    VGVV-KEKNKYVPIIEGNQELKN--FDGNIAGSGPILEGFKGEEK-- 310  

                   lellkllnallpplglrvselvlsptrrrWdlvLdyMndGirvkLgredp
                    +++k l++++p++++++se+ + p+  +++++L+yM+d+++v+ ++ ++
  gi|7072673   311 SNMIKSLSKMSPEIRDMISEIKYAPKQNSPNRILLYMQDDMQVVGNIKTI 360  

                   aderlqrfaalypqlllkleknknkrgiayvDLR<-*
                   a +++++++++ ++l  k++++++ +   y+DL    
  gi|7072673   361 A-NKIKYYPQMSQSL-SKDDSGNL-KTQGYIDLS    391  

Example 2
gi|120599464|ref|YP_964038.1| methyl-accepting chemotaxis sensory transducer [Shewanella sp. W3-18-1]gi|124547313|ref|ZP_01706244.1| methyl-accepting chemotaxis sensory transducer [Shewanella putrefaciens 200]gi|146292538|ref|YP_001182962.1| methyl-accepting chemotaxis sensory transducer [Shewanella putrefaciens CN-32]gi|120559557|gb|ABM25484.1| methyl-accepting chemotaxis sensory transducer [Shewanella sp. W3-18-1]gi|124509315|gb|EAY53396.1| methyl-accepting chemotaxis sensory transducer [Shewanella putrefaciens 200]gi|145564228|gb|ABP75163.1| methyl-accepting chemotaxis sensory transducer [Shewanella putrefaciens CN-32] 540 (length) 157 206 .. (wrt seq) 125 185 .] (wrt HMM) 
No.of residues in non-TM/SP region : 41 [25%(over non-TM/SP length)]

Scores for sequence family classification:
Model        Description                                Score    E-value  N
--------     -----------                                -----    ------- ---
MCPsignal       Methyl-accepting chemotaxis protein (   221.2    2.7e-63   1
HAMP            HAMP domain                              58.0    2.5e-15   1
GSPII_F         Bacterial type II secretion system pr    17.6    0.00055   1

Parsed for domains:
Model           Domain  seq-f seq-t    hmm-f hmm-t      score  E-value
--------        ------- ----- -----    ----- -----      -----  -------
GSPII_F           1/1     157   206 ..    87   136 .]    17.6  0.00055
HAMP              1/1     191   260 ..     1    79 []    58.0  2.5e-15
MCPsignal         1/1     284   540 .]     1   288 []   221.2  2.7e-63

Alignments of top-scoring domains:
GSPII_F: domain 1 of 1, from 157 to 206: score 17.6, E = 0.00055
                   *->nlseaLerladllrerresrrqllagllypllllivallilllllai
                      ++s+a+++lad+ +er  ++++ ++ +++++l+ ++a++++ ++ a+
  gi|1205994   157    KVSNAISALADYQQERSLVEANSAKHTIELALSTMIAIVVFAVIGAV 203  

                   llp<-*
                   +l+   
  gi|1205994   204 VLA    206  

HAMP: domain 1 of 1, from 191 to 260: score 58.0, E = 2.5e-15
                CS    HHHHHHHHHHHHHHHHHH-XXXXXXXXXXXXXXXXXXXXX.XXXXXX
                   *->lllvllialllalllalllarrilrPlrrLaeaarriasGtdLdvri
                      +++++++a++ a++la++++r+++ P ++ ++  +riasG dL+   
  gi|1205994   191    MIAIVVFAVIGAVVLAYFFSRSLIGPMQNAVAICQRIASG-DLT--- 233  

                CS XXXXX.........XXXXXXXXXXXXXXXXXX   
                   esgrdrvlpvsgpDEigeLarafNqMaerLre<-*
                       + +   +  DE g+++r++  M+++L++   
  gi|1205994   234 ----QKF-ADDAADEAGDMIRSMAVMQQQLQQ    260  

MCPsignal: domain 1 of 1, from 284 to 540: score 221.2, E = 2.7e-63
                CS    -----HHHHHH..............HHHHHHHHHHHHHHHHH...HH
                   *->eeqAsaieQvANGaedQierIEtaeasleqltATvreiAsNAEDVaq
                      ++    + Q +          E a+++  +lt  + e+A+ A   + 
  gi|1205994   284    DQSSQTLHQQS-------QELELAATAVTELTTAIEEVARSA---SA 320  

                CS HHHHHHHHTTTH..............HHHHHHTTTHHHHHHHHHHHHHHH
                   AsdlAkqAseeAdeGgKevanvvdemsqigqevddavqvveeLatssknI
                   +s  +++A+ +A  G+  v  +   +++++ e+++a q + +La ++++I
  gi|1205994   321 TSSDSETANIKARQGKERVQHTIQTIQTLEGELQQARQGIQQLASRVNEI 370  

                CS HHHHHHHHHHHHHHHHHHHHHHHHHHHTG..GGGHHHHHHHHHHHHHHHH
                   sdIisVIdeIAfQTNLLALNAAIEAARAGGNEqGRGFAVVAdEVRkLAer
                   s++++VI++IA+QTNLLALNAAIEAARAG  E GRGFAVVAdEVR+LA r
  gi|1205994   371 SSVLDVIRGIAEQTNLLALNAAIEAARAG--ESGRGFAVVADEVRALAHR 418  

                CS HHHHHHHHHHHHHHHHHH..............HHHHHHHHHHTTTTTTSH
                   SAqaAkEIeqLIeeivkesndavesmektrtevevGveivekTgealkeI
                   +++++kEIe     +++e+ + v  m+    ++ +++ i++++g+al+ I
  gi|1205994   419 TQESTKEIERMMHLVQAETQTTVNTMQNSSNRATETLLIAQQAGDALQQI 468  

                CS HHHHHHHHHHHHHHHHHHHHHHHHHHHHH....HHHHHHHHHHHHH....
                   veaiaeiadevqeIAaaseEQSagieqinDsFAqaveridqvTqqnsAHi
                   ++aia+i+ ++  IA+a+eEQ++++ ++     ++   i +++ q+    
  gi|1205994   469 ATAIAQINEQNLTIASAAEEQATVAREVD----GNLLNIRDLSHQT---- 510  

                CS ..........HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHT   
                   rdiAAlaEEQaalveEasaAsesLseqAeeLtalvaqFklk<-*
                             +a + E  a+s+ L ++Ae L  lv +Fk     
  gi|1205994   511 ----------SAGAHETQASSADLARLAETLNSLVTSFK-V    540  
