dissectHMMER

dissectHMMER results

Overview of Sequence Annotation

Domain(s) to sequence segment[112,243]
Domain name?                      PDB?     Length?   Seq range?   Score[FC/R]?   FPR[FC/R]?   Score[FC]?   FPR[FC]?   Domaincoverage?   Total FPR?   Hits'classification?   
PF00230.15_MIP_seed           ?   1YMG|A   296       13,234       1              0.00         1            0.00       1                 0            TP,TP               
PF00654.15_Voltage_CLC_seed   ?   2HLF|A   730       1,236        0.345          0.28         0.55         0.01       1                 0.29         FN,TP               
PF01226.12_Form_Nir_trans_seed?   4FC4|A   366       17,238       0.325          0.32         0.49         0.03       1                 0.35         TP                  
PF07331.6_TctB_seed           ?   -        266       112,243      0.385          0.21         0.42         0.15       1                 0.36         TP                  
PF07155.7_ECF-ribofla_trS_seed?   4HZU|S   196       57,190       0.235          0.48         0.435        0.13       1                 0.61         TP                  
PF06912.6_DUF1275_seed        ?   -        290       57,216       0.225          0.50         0.435        0.13       1                 0.63         TP                  
PF01384.15_PHO4_seed          ?   -        1203      19,231       0.15           0.63         0.49         0.03       1                 0.66         TP                  
PF09490.5_CbtA_seed           ?   -        333       44,231       0.11           0.73         0.47         0.06       1                 0.79         TP                  
PF04211.8_MtrC_seed           ?   -        283       6,246        0.075          0.83         0.44         0.11       1                 0.94         TP                  
PF02028.12_BCCT_seed          ?   2WSW|A   722       28,242       0.01           0.98         0.495        0.03       1                 1.01         TP                  
PF13303.1_PTS_EIIC_2_seed     ?   -        464       19,248       0.03           0.93         0.435        0.13       1                 1.06         TP                  


Alignments

PF00230.15_MIP_seed:
E:1.46e-127[Original]   E:7.46e-33[Fold-critical]   E:1.05e-12[Remnant]   Ratio[FC/R]:7.10e-21   Classification:TP
 TM       -------------cccccccccccccccc--ccccc-------------------------------------------ccccccccccccccccccccc--cccc--------------------cccccccccccccccccccccc------------------------------------ccccccccccccccccccccccc--------------ccccccccccccccccccccccc---------------------------------cccccccccccccccccc-   TMSOC
STRUCT   ??????H--HHHHHHHHHHHHHHHHHHHH--HHHHHHHS??-------------------------???---------HHHHHHH-HHHHHHHHHHHHHH--HH?????HHHHHHHHHHS???GGGHHHHHHHHHHHHHHHHHHHHHHTHHHHHHHHHHTT??TTSGGGHHHHTTTS????TT??HHHHHHHHHHHHHHHHHHHHHHH?TTSSS??GG---GHHHHHHHHHHHHHHHTHHHH?????HHHHHHHHHHHHHTTTTTHHHH-?SSSS?TTHHHHHHHHHHHHHHHHHH   PDB/DSSP
MODEL    ELRSVSFTYLRAVIAEFLATLLFVFAGVGVVSALGVKKAYSQDNFNVALDNLNVTGSSAETIDAMKSLATLVSSCAGVGLLAVALAFGLALFVLVYCVGHSAISGAHLNPAVTLALLVGRRISLLRAIYYIIAQLLGAIVAAALLKGVTNGLLFEAESDWWIVRGSVESYLRAGGFANSLAPGVNAGQAFVVEIILTFQLVYTVFATTDDRRRGSLGSIPILAPLAIGFIVALNHLAGGPYTGASMNPARSFGPAVVTWKAGWGFVAKTLGVRDWDDHWVYWVGPLVGAALAALVY   HMMER2[PF00230.15_MIP_seed]
QUERY    ELSHPDT--AKAAVAEFISTLIFVFAGSG--SGMAFSKLTD-------------------------GGAATPA-----GLIAASLAHALALFVAVSVGAN--ISGGHVNPAVTFGAFVGGNISLLKALVYWVAQLLGSVVACLLLKIATGG-------------------AALGAFS--LSAGVGAMNAVVLEMVMTFGLVYTVYATAVDPKKGDLGVI---APIAIGFIVGANILAGGAFDGASMNPAVSFGPAVVTGV--------------WENHWVYWVGPLAGAAIAALVY   Q9ATM0|Aquaporin|TIP12_MAIZE[13 234]

E:8.50e-73[Original]   E:1.43e-72[Fold-critical]   E:4.54e-01[Remnant]   Ratio[FC/R]:3.15e-72   Classification:TP
 TM       -------------cccccccccccccccc--ccccc-------------------------------------------ccccccccccccccccccccc--cccc--------------------cccccccccccccccccccccc------------------------------------ccccccccccccccccccccccc--------------ccccccccccccccccccccccc---------------------------------cccccccccccccccccc-   TMSOC
STRUCT   ??????H--HHHHHHHHHHHHHHHHHHHH--HHHHHHHS??-------------------------???---------HHHHHHH-HHHHHHHHHHHHHH--HH?????HHHHHHHHHHS???GGGHHHHHHHHHHHHHHHHHHHHHHTHHHHHHHHHHTT??TTSGGGHHHHTTTS????TT??HHHHHHHHHHHHHHHHHHHHHHH?TTSSS??GG---GHHHHHHHHHHHHHHHTHHHH?????HHHHHHHHHHHHHTTTTTHHHH-?SSSS?TTHHHHHHHHHHHHHHHHHH   PDB/DSSP
MODEL    xLSSVKFTYLRAVLAEFLATLLFVFIGVGVVSALALKKKIQQDNFNVALDNLNVTGSSAETIDAMKSLASLVSSVAGVTLLAVALAFGLALAVLVYLAAGSAISGAHLNPAVTLALLVARKISLLRAILYIVAQLLGAIVAAALLKLLTKGLLQEAESDWWLNRGSVESESRAGLFANSLKPGLSAGQAFVVEIILTFVLVLTVFALTDDKRKLSLGSIPILAPLAIGLLVALIILVGIPLTGAAMNPARSLGPAVVLNKVGWGFDAKMLWVRDFEDHWVYLVGPLIGALLGALVY   HMMER3[PF00230.15_MIP_seed]
QUERY    xLSHPDT--AKAAVAEFISTLIFVFAGSG--SGMAFSKLTD-------------------------GGA-----ATPAGLIAASLAHALALFVAVSVGAN--ISGGHVNPAVTFGAFVGGNISLLKALVYWVAQLLGSVVACLLLKIATGGA-------------------ALGAFS--LSAGVGAMNAVVLEMVMTFGLVYTVYATAVDPKKGDLGV---IAPIAIGFIVGANILAGGAFDGASMNPAVSFGPAVVTGV--------------WENHWVYWVGPLAGAAIAALVY   Q9ATM0|Aquaporin|TIP12_MAIZE[14 234]


PF00654.15_Voltage_CLC_seed:
E:3.89e-01[Original]   E:7.03e-05[Fold-critical]   E:4.50e-06[Remnant]   Ratio[FC/R]:1.56e+01   Classification:FN
 TM       ----------------------------------------------------------------cccccccc--cccccccccc-----------------------------------------------------ccccccccccccccccccccccccc---------------------------------cc----cccccccccccccccccc--------cc---------------------------------------------cccccccccccccccccccccccccc------------------------------------cccccccccc---cc----cccc----cccccccc-------------------cccccc-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------cccccccccccccccccccccccccccccccccccccccccccccc-----cccccccc--------------------------------------------ccccccccccccccccccccccccccc-----ccccccccccccccccccc--   TMSOC
STRUCT   HHHHHH-------HHHHHHH-?GGG---S---S-?SHHHHHHHH---TT?S?-?-----?HHHHHHHHHHHH--HHHHHTT?S?BTHHHHHHHHHHHHHHH--H-----------HT------TT?--?SHH-HHHHHHHHHHHHHHHHHHT?HHHHHHHHHH-------------T-TS-?SSS???-------??----HHHHHHHHHHHHHHHHHH--------H?S?--?S-----------??-----?????----------?---??GGGHHHHHHHHHHHHH-HHHHHHHHHHHHH-H-----HHHHHHTT?HHH-------------HHHHHHHHHH---HH----HHHH----HHS-----------------------G-G--GSS?ST-------TH---------------------------------------------------------------------------------------------------------HHHHH---HT?---------------------------------------------------S?HHHHHHHHHHHHHHHHHHHHTT?SSBSHHHHHHHHHHHHH-HH-----H-HHHHHH-------------------------?GG-------GT??T----HHHHHHHHTTHHHHTT??HHHHHHHHHHHH?-?GGGHHHHHHHHHHHHHHHHT   PDB/DSSP
MODEL    IGGLLALVSLIAIGLLVKRFRAPEAFIAARRRGESGIPQVIAALLLHHGKKGYRRDRRLLPLRVLLVKFLGSICLLTIGSGGSLGREGPSVQIGAAIGSGLPSGQIFSKRYRSKIRRCHVHFLLKLFGSRNDRRRRELIAAGAAAGIAAAFNAPLAGVLFALEVGKFIEILTNSFKELLLGRDFRYSLFNESSPVRAGWGQLLPVLVASVVAALVSRLLLKLDNRGSFGNELGPLFPSFDLTGLFNFGEISAAVPSLFEVNFPFPYDLLSSKLSLLELPLFILLGILCGLGLGALFVRLLLKVEARGLSPGLFRRLRRKKPIPLLCNLLKVDYKPPPLLRPALGGLGMGLVGIVLGLLGYLGILLLASLLGAAPFQDMEDRGDVAVAGAPLEGRVLGGGYLIASVGNGLLLSKLFTPSSLFLSGSLDTLKYSSSSAVADVYVDKVSRPVVAVVRSGRNVTTIGFYGMNTLLDSADSIVVSDIVDITNVAEDPNNTEKVLKNLKAFLCDNCTGSPIQLLLCEDSGNTSMQLLSVLASDAASSAAASPWNLLAGGGNVSGSASTAVAAVFNESSTTGLLLLLLLLLLLLLKLLATALSLGSGAPGGIFAPSLFIGAALGATLLWRLLEGLLLLALLQFLSRKSSSSSSAFSTLSL-PAAFPFPIIFGEIACGGIAPSIPPGAFALVGMAAFLAAVTRAPLTAIVLVFELTGVSYSLLLPLMLAVLIAYLVSRL   HMMER2[PF00654.15_Voltage_CLC_seed]
QUERY    MPVSRI------------AV--GAP-------G---------EL---SHPDT-A--------KAAVAEFIST--LI-------------FVFAGSGSGMAF--S-----------KL-------------TD-----------------------GGAATPAG-------------LIAA------SL-------AH----ALALFVAVSVGANISGGH--------VNPA--VT-----------FG----AFVG----------------GNISLLK----------A-LVYWVAQLLGSVV-A--------------CLL--------------L-KIATGGA---AL----GAFS----LS--------------------------A------GV-------GA---------------------------------------------------------------------------------------------------------MNAVV---LE-----------------------------------------------------MVMT---FGLVYTVYATAVDPKKGDLGVIAPI-----AIGF-IV-----GANILAGG------------AFDGASMNPAVSFGP-----------------------------AVVTG--------VWE--N-HWVYWVGPLAGAAIAALVYDI   Q9ATM0|Aquaporin|TIP12_MAIZE[1 236]

E:6.52e-05[Original]   E:2.47e-08[Fold-critical]   E:1.48e+04[Remnant]   Ratio[FC/R]:1.67e-12   Classification:TP
 TM       ----------------------------------------------------------------cccccccc--cccccccccc-----------------------------------------------------ccccccccccccccccccccccccc---------------------------------cc----cccccccccccccccccc--------cc---------------------------------------------cccccccccccccccccccccccccc------------------------------------cccccccccc---cc----cccc----cccccccc-------------------cccccc-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------cccccccccccccccccccccccccccccccccccccccccccccc-----cccccccc-------------------------------------------ccccccccccccccccccccccccccc-----ccccccccccccccccccc--   TMSOC
STRUCT   HHHHHH-------HHHHHHH-?GGG---S---S-?SHHHHHHHH---TT?S?-?-----?HHHHHHHHHHHH--HHHHHTT?S?BTHHHHHHHHHHHHHHH--H-----------HT------TT?--?SHH-HHHHHHHHHHHHHHHHHHT?HHHHHHHHHH-------------T-TS-?SSS???-------??----HHHHHHHHHHHHHHHHHH--------H?S?--?S-----------??-----?????----------?---??GGGHHHHHHHHHHHHH-HHHHHHHHHHHHH-H-----HHHHHHTT?HHH-------------HHHHHHHHHH---HH----HHHH----HHS-----------------------G-G--GSS?ST-------TH---------------------------------------------------------------------------------------------------------HHHHH---HT?---------------------------------------------------S?HHHHHHHHHHHHHHHHHHHHTT?SSBSHHHHHHHHHHHHH-HH-----H-HHHHHH------------------------?GG-------GT??T----HHHHHHHHTTHHHHTT??HHHHHHHHHHHH?-?GGGHHHHHHHHHHHHHHHHT   PDB/DSSP
MODEL    xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxLLVLKFLATALTLGSGLPGGIFVPSLVIGAALGRTLVWRLLEGLLVLALLESLSRKSSSSSSAFSTLSLPARKLFPVLLGESASKGDASSIDPGAYALIGAAAFLAGVTRAPLTAIVIVFELTGADxxxxxxxxxxxxxxxxxxxx   HMMER3[PF00654.15_Voltage_CLC_seed]
QUERY    xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxLAHALALFVAVSVGANISGGHVNPAVTFGAFVGG-NI-SLLKA-LV-YWV--------------------AQLLGSVVAC----LL--LKI-ATGGAALGAFSLSAGVGA--MNAVVLEMVMTF-Gxxxxxxxxxxxxxxxxxxxx   Q9ATM0|Aquaporin|TIP12_MAIZE[63 154]


PF01226.12_Form_Nir_trans_seed:
E:3.54e-03[Original]   E:3.71e-06[Fold-critical]   E:2.29e-06[Remnant]   Ratio[FC/R]:1.62e+00   Classification:TP
 TM       ------------------------ccccccccccccccccccccccccc-----------------------------------cccccccccccccccccccccccccccccc--------------------ccccccccccccccccccccccccc-------------------------------------------------------------------------cccccccccccccccccccccccc---------------ccccccccccccccccccccccccccccc-----------------------------------------------ccccccccccccccccccccccccccc-   TMSOC
STRUCT   ???????????-????---????HHHHHHHHHHHHHHHHHHHHHHHHHHTTT--------------TSS?H----------HHHHHHHHHH-HTHHHHHHHHHT???TTTTHH-HHH--HHTTT?--??H-HHHTTTHHHHHHHHHHHHHHHHHHHHHH---TGGG---------TTTT--------HHHHHHHHHHH------HT--T------?S-?-------------HHHHHHHHHHHHHHHHHHHHHHT-T?-----?SH--HHHHHTTHHHHHHHHHTT???HHHHHHHHHHH-------HH--H-HHH??HHHHHHTT------??GGGGTT?S-HHHHHHHTHHHHHHHHHHHHHHHHHHHHHHHH   PDB/DSSP
MODEL    PAEIAEAAVAAIGVKKEALARLPLLKLLLLGILAGAFIGFGALLATVVATGLPTTKVTAADAAAGAAAAGPLIGIDSVEFAGLAKLLGGLVGFPVGLILVVLGGAELFTGNTLTLTL--ALLEKKTLITLFGDLLRNWGIVYIGNLIGALFVAYLLAYSGPNGGLTGTAAKSTGALDDGDHGAFTQLAVGAAAIKIAELYCSWKHKVTVSYEAAGSLISTGESISAGLVIGTFWEAFLRGILCNWLVCLAVWLALLAA-----KDVPNAGKILAIWLPIMAFVASGFEHSVANMFLIPAGIFHGDNPIF--LGGANVPVVFAAAIGQAAAGAVSPAQLADLTIWGGFILKNLIPVTLGNIVGGAVFVGLLYWFIY   HMMER2[PF01226.12_Form_Nir_trans_seed]
QUERY    PDT-----AKA-AVAE---------------FISTLIFVFAGSGSGMAFSKL------------TDGGAAT----------PAGLIAASLA-HALALFVAVSVGANISGGHVNPAVTFGAFVGGN--ISL-LKALVYWV----AQLLGSVVACLLLKIA---TGGA----------ALG--------AFSLSAGVGAM------NA--V------VL-E-------------MVMTF-----------GLVYTVY-ATAVDPKKGD------LGVIAPI----AIGF---IVGANILAGG-------AFDGA-SMNPAVSFGPAVVT--------------GVWENHWVYWVGP------LAGAAIAALVYDIIF   Q9ATM0|Aquaporin|TIP12_MAIZE[17 238]


PF07331.6_TctB_seed:
E:2.96e-02[Original]   E:1.25e-03[Fold-critical]   E:1.00e-02[Remnant]   Ratio[FC/R]:1.25e-01   Classification:TP
 TM       ----cccccc--ccccccccccccccc----------------ccccccccccccccccccccc-------------------------------------------------------------cccccccccccccccccccccc------------ccccc----------ccccccccc------------cccccccccc--------------------ccc---cccc------cccccc--cccc---cccccc----   TMSOC
STRUCT   CCHHHHHHHH11HHHHHHHHHHH---------------------HHHHHHHHHHHHHHHHHHHHH-----------------------------------------H11111111HH11111111HHHHHHHHH11HHHHHHH1111------------1111H1111111111HHHHHHHHH------------HHH1HHHHHH------------------HHHHH111HHHH111111HHHHHH11HHHH111HHHHCCCC1C   PredictedSECSTR
MODEL    RADFVAGLLLAFLALGLFFAWGALLDLPIGTAGAVKEDRMGPGYFPFILGILLALLGAALLVQALRGGRKEAPPSMDLDESEAIATVADELAEAEEREDGEPLGKVDERELLATVWRVRALPAVIRVLLVLGALALLLFALLLAGLPLRIPREGLPDLISIGLEVFALGSLFAPPLGFVIATFPFRGTSCGNAVDLLLGFIAALALGEAEGQLDGGERGEKKRWLKALRLVLIAVSAIAWLVLSLLVVFYLVFGSLVYGLGLPLKP   HMMER2[PF07331.6_TctB_seed]
QUERY    LGSVVACLLL--KIATGGAALGA-FSLSAGVGA-----------MNAVVLEMVMTFGLVYTVYATAV-----------------------------DPKKGDLGVIA--------PI--------AIGFIVGAN--ILAGGAF--------------------D----------GASMNPAVS------------FGP-AVVTGVWE---------------NHWVYW---VGPL------AGAAIA--ALVY---DIIFIGQR-P   Q9ATM0|Aquaporin|TIP12_MAIZE[112 243]


PF07155.7_ECF-ribofla_trS_seed:
E:8.10e-02[Original]   E:8.07e-04[Fold-critical]   E:2.41e-05[Remnant]   Ratio[FC/R]:3.35e+01   Classification:TP
 TM       ------cccccccccccccccccc---ccccc------------cccccccccccccccccccccccccc--------cccccccccccccccccccccccc----------------------ccccccccccccccccccc---ccccc--------------cccccccccccccccccccccccc--ccc--   TMSOC
STRUCT   ??-?TTHHHHHHHHHHHHHHHHH-H--???B?S--SS?B-??TTHHHHHHHHHHSS??STHHHHHHHHHHHHHHHSS-?G-GGHHHHHHHHHHHHHHHHHH??S?S?SSH-------HHHHH--HHHHHHHHHHHHHHHHHHH-----------------S?HHHHHHHHHHHHH-HHHHHHHHHHHHH--HHHHH   PDB/DSSP
MODEL    KLSSTKKVVATAILAALFVVLGRAFPFINIPTPIPNTGGVYINLGDAGIALAAVLFGPKVGFLVGGIGHALKDLLSGVYGSIWAPFTLIIKGLEGLIAGLIAKKLKKNLESHDKNGIFNLLGTFLLLFNIVMVIGYFIAWGLLNPAAAPIGDILIYQPSEPAWKVALQSIPGNIVGQAVVGAIVGLPLLTYKALAK   HMMER2[PF07155.7_ECF-ribofla_trS_seed]
QUERY    GL----------IAASLAHALAL-F--VAVSVGANISGG-HVNPAVTF------------GAFVGGNISLLKAL-------VYWVAQLLGS----VVACLLLKIATGGAA---------LGA--FSLSAGVGAMNAVVLEMVM----TFGLVYTVY----ATAVDPKKGDLGVIA-PIAIGFIVGANIL-----AG   Q9ATM0|Aquaporin|TIP12_MAIZE[57 190]


PF06912.6_DUF1275_seed:
E:1.20e-02[Original]   E:7.57e-04[Fold-critical]   E:1.61e-05[Remnant]   Ratio[FC/R]:4.70e+01   Classification:TP
 TM       -----ccccccccccccccccccccccccc----------------------cccccccccccccccccccccccccc----------------------cccccccccccccccccccccccccc----------------------cccccccccccccccccccccc---------------------------------------------------------------------ccccccccccccccc-ccccccccccccccccccccccccccccccccc---   TMSOC
STRUCT   CHHHHHHH1HHHHHHHHHHHHHH1CCHHHHH1HHHHHHHHHHHHH11CCCHHHHHHH1111HHHHHHHHHHHHHHHHH1111111111HHHHHHHCCHHHHHHHHHHHHHHHHHHHH111H------------------------------1HHHHHHHHHHHHHHHHHHH11HHCCCCC1CHHHHHHHHH1111HHHHHHH111HHH1111111-----------------111HHHHHHHHHHHHHHHHHHH-HHHHHHHHHHH1H11HHHHHHHHHHHHHHH1HC11C   PredictedSECSTR
MODEL    LRLALLLAGFVAGFVDAYGFLALKGGVFASHPMTGNVVLLGVALAGKGGNWALALHLWAKSLLALLAFVLGAALAGLLLRHLGGARVRINFGRRRRLRRWYALLLLLEAVLLLAAGLALLLPAALPPPGTPEDPLFESGSIDTLTGGDALAVLLAILLLAFAMGLQNAAFRSSKLSGAEIGRTTMMTGNLTLVMSDLGIDLGLFARLLRGKAKRDRAEPRERRRTQALWAPPVRADRRRLLLYLLIILGFLLGA-VLGALLFRHLGSFMAWALWLPAALLLILALWLYLSL   HMMER2[PF06912.6_DUF1275_seed]
QUERY    GLIAASLA------------HAL--ALFVAV-------SVGANIS--GGHVNPAVTF-------------GAFVGGNI-------------SLLKALVYWVAQLLGSVVACLLLKIA---TGGAA----------------------------LGAFSLSAGVGAMNAVVL------EMV--------MTF----GLVYTVY---A--------TA----------------VDPKKGDLGVIAPIAIGFIVGANILAGGAFDGAS--MNPAVSFGPAVVTGV--WEN--H   Q9ATM0|Aquaporin|TIP12_MAIZE[57 216]


PF01384.15_PHO4_seed:
E:9.35e-03[Original]   E:2.97e-06[Fold-critical]   E:2.99e-09[Remnant]   Ratio[FC/R]:9.93e+02   Classification:TP
 TM       ---------------------cccccccccccccccccccccccc--ccccccc-----------------------------------cc--------------------------cccccccccccccccccccccccc----cc----cccccccccccccccccccccccc------------------------cc---cccc-------------cccccccccccccccccccc-------cccccccccccccccccccccccccccc---ccc------------------------------------------------------------cccccccccccccccc-------------------ccccccccccccccccc-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------cccccccccccccccccccc-----ccccccccccc---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------cc-------------------ccc------ccccccccccccccccc-------------------ccccccccccccccccc---------ccc------ccccccccccccccccc--------------------------------------------------------------------------------------------------------------cccccccc----------------------------------------------ccccccc-----cccc-   TMSOC
STRUCT   CCCCCCCHHHHHHHHCCCCCHHH1HHHHHHHHHHHH1111HHHH11111HHHHHHHHH1111--------------------------HHH-------------------------1HHHHHHHHHHHHHHHHHHHHHHCCCCHHHH----HHHHHHHHHHHHHH------------------1111111111111111CC111CCHH-----------1111111111111111111111111111HHHHH111HHHHHHHHHHHHH1HHHHHHH111HHHHHHHHHCCC11111HHHH111-----------------------------------HHHHHH1111111111111------------1111111111111111111111111111111---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------111------------------111111111111111HHHHH1111111HHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHH111111HHH--------------11111111111111------------------------------------------------------1111111111111111111111------------------------111111111111111111111111111111111111111CCHH-----------------H11HH111111HHHHHHHHHHHHHHHHHHHHHHHHCCCCC11CCCHHHHHHHHHHHHHHHHHHH111111111111111111111HHHHHHHHHHHHHHH--------------11----------------------------------------------------------------------------------------H111HHHHHHHHH----------------------------------------------HHHHHHH11111HHHCC   PredictedSECSTR
MODEL    IGANDVANAFATAVGSRALTPRQVAVIIAAIFEFLGSVASAVLATYILAGGAVAKTIGKLGIVDPSLFTATAQYNATTNQYDTVDANDPAVLVGGWKSPDIMPGAPPVECAKYTSILLMLGMLAALLAAALWLLIATYLGLPVSTTH----AIVGGLIGAGLAAGLMNTGGSLVFSAVIWPSLSMILGVILYGLLGAVIGALSMVNWGWKADILKDPVKLALLLGAGFIGAVLAIPLAIIFGEFPFSGLVGKLLYIVASWIISPLLGGLLLAALLFRGLLLLRRLVLRRKNSKKPLKRALTLDRIELGALLIITIVFVYYQMIVYYLIDYPVVRSGAIRPVPFLVAVTAGIFSFFIVLKGLKSLLLDSLPLAAIAAAIVGAGIVVALLVLLFLLPYRRRKIKKRLKTRKAEHEIYGPSLWRREPPPPPPRGALRNKDYRYYDGFETASESATESVESQEDRKQPGAADTANAKESNQGGENKKPKNLTKDVAPVVTLDSLSLDRRNDGAADHDSSESSFTYGCPTHSRSKTSTDLVDLTNLVSSSISNSKSKKGDKNGKDSLANSDLSGTSPEGKSADSDEEDAGTDNEKDASDASSSSISGSSSKESSESEEDSRSAAGSNEKASTLEAKAKRLSLVSKASALLEAKSALKSGLLIGLAAALLGILVLRPDVRRVHARAENFDNRVEKLKPRLPFWFRRLQILSAALMSFAHGANDVANAIGPLAAILIGTYAPAIYSTGITGSVSSSKEIDRTRDAIANFEEYYQRNYELLKTILIENVLEAKLLEPLKPLKVNSASLNSSKLRFSDIIENIARNLLLSSSELKGAYASIKIQLRVDLRILRSALLLLENLDNYAQLNIDQRSYNRRYLLSISDFLAEKAALPEVSAKDKNFLKKLRKDLLHTTSVVPSWLAFMHPDAHAGDGIALGYWVHTGGRALLLGGLAIALGLLTGGYRVIKTVGKKITKRELTPSRGFSAELGAAITVLLASLQELSNFVVVLGLPPIPLIPVSTTHVIVGAIVGVGLAREWLKRKYERSLQYIREKSIELDPKNEKEFLDRFKKAGQRNLDSANAEDTVSTSQESDKKDESVSELKRIVKLLKKDADESKITKKERKNIKKRGGTLKTGAVNWINAGVVRKIVLAEKPEMSVNALTAETDTSVPDVGEESSQELTNQTLFDPGTTGRVIFDWILTLPAVGFSTAALLS   HMMER2[PF01384.15_PHO4_seed]
QUERY    -------------------TAKA------AVAEFIS----TLIF--------VFAGSGS-GMAFSKLTD-----------------GGAAT---------------------------PAGLIAASLAHALALFVAVSVGANISGGHVNPAVTFGAFVGGNISLL----------------------------------KA---LVYW-----------------------------------------VAQ------------LLGS-VVACLLL---KIATGGA--------ALGAFS----------LSAG--------------------VGAMNAVV--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------LEMV-------MTFGLV-------------------------YT------VYA---TA-VDPKK------------------------------------------------------------------------------------------------------------------------------------------------------------GD-------------------L--GV------IAPIAIGFIVGA--------NILAGGAFD--------------------GASM----NPAVSFGP---------------------AVVT----------------------------------------------------------------------------------------------G-VW--ENHW----------VY----------------------------------------------WVGPLAG-----AAIAA   Q9ATM0|Aquaporin|TIP12_MAIZE[19 231]


PF09490.5_CbtA_seed:
E:6.99e-02[Original]   E:7.32e-05[Fold-critical]   E:8.62e-09[Remnant]   Ratio[FC/R]:8.49e+03   Classification:TP
 TM       ----ccccccc--cccccccccccccccc-----------------------------------------------------------------------------------------------------------ccc----cccccccccccccccccccccc-------------ccccccccccccccccccccc-------------------------------------------ccccccccccccc-----cccccccccccccccccccccccccccc--------------------------cccccccccccccccccccccccc--   TMSOC
STRUCT   CHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHH1--------------------------------------------------------------------------------------------1HHHHH1111HHHHHHHHHHHH1HHHHHHHHHH-----------HHHHHHHHHHHHHHH11-------------1H-----------------------------HHHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHHHHHHHHHHHHHH-----------------------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHCC   PredictedSECSTR
MODEL    MFRRILTSALF--AGLLAGLLATLLQLLFVTPLILEAETYESAGEAAPAAPSRDETSFAPVIVEVHFHAEAGATHEHAASGTAMSSAPPAANSMSAADHAGAAAAAHEHEHDAAEHDHAEAEWAPADGLEEPVSRTLLTTLGLVLANVLVAVGFALLLLAALMALAEGRGGAKGTARQGLLWGLAGFAAFHLAPALGLPPELPGMAAADTITRRTVLYFLMLLISLIVVVLAFVIARLLAARQIWWLATVAATAL-----GLALIAFGRSWWLKALALVLLVAPHVIGAPQVDAPPLAAPESHAGPAPAELAAQFAAASLGTSAVFWAVLGLLAGWFWQR   HMMER2[PF09490.5_CbtA_seed]
QUERY    -FSKLTDGGAATPAGLIAASLAHALALFVAVSV--------GANI----------------------------------------------------------SGGHV--N-------------PAVTFGA-FVGGNIS----LLKALVYWV--AQLLGSVVACLL-LKI-ATGGAALG---------------AFSLSA---GVGAMN------------------AVVLEMVMTFGLVY-------TVYATAVDPKKGDLGVI-------------APIAIGFIVGANILAG---GAFDGASMNPAVSFGPAVVTGVWENHWVYWV--GPLAGAAIAA   Q9ATM0|Aquaporin|TIP12_MAIZE[44 231]


PF04211.8_MtrC_seed:
E:6.32e-02[Original]   E:5.91e-04[Fold-critical]   E:5.46e-09[Remnant]   Ratio[FC/R]:1.08e+05   Classification:TP
 STRUCT   111111111------11111111111111111111111111111111-----11111111111111-1111111---111111111111111111111111111111--111111111111----111111111111111111------111111--11111111111111111111111111111111-11111111111---1111111111111111111111111111111111111111111111111111111111111111111111111111111111111111111111111111111111111111   PredictedSECSTR
MODEL    MSAVAAGGE------AEEVEVAVAIPEEKLMALGIIGGLVGIYLANF-----APPYGVGPLIGGLG-AICAVVW---GADAVRRVASYGLGTGVPSIGMMSLGMGIL--AAVAGLAVSGVF----TLPALAAPIVGLVVAAVI------GAVVGV--LAKKVVKMKIPIMERCMTEISAAGALALLGLS-VAIAGSFTFQA---VVSYVIATGLIALLFIIAGMAILHPFNACLGPNEKQERTLKLAVECGFIALVVAGFASSLHEGLLKAGLVPGWWLVLLVGIILWLVAFVKFVELSKRDAAAVVWSGLLPKEE   HMMER2[PF04211.8_MtrC_seed]
QUERY    IAV-GAPGELSHPDTAKA---AVAEFISTLIFV-FAGSGSGMAFSKLTDGGAATP--AGLIAASLAHALALFVAVSVGAN---------------------ISGGHVNPAVTFGAFVGGNISLLKALVYWVAQLLGSVVACLLLKIATGGAALGAFSLSAGVGAMNAVVLEMVMTF----------GLVYTVYATAVDPKKGDLGVIAPIAIGFIVGANILAGGAFD---GASMNP----------AVSFG--PAVVT--------GVWENHWV--YWVGPLAGAAIAALVY------------DIIFIGQRPHQQ   Q9ATM0|Aquaporin|TIP12_MAIZE[6 246]


PF02028.12_BCCT_seed:
E:7.24e-02[Original]   E:1.05e-07[Fold-critical]   E:2.31e-19[Remnant]   Ratio[FC/R]:4.55e+11   Classification:TP
 STRUCT   HHHHHHHHHHHHHHHHH-----SS-SHHHHHHHHHTTHHHHHHTHHHHHHHHHHHHHHHHHHHHSG-GGG??S-SSTT???SS?HHHHHHHHHHHH??HHHHHHHHHHHHHHHHT?----------------?--TTS?-----------SS?H-HHHHHHHHHHHSHHHHHHH-HHHHHHHHHHTTT-S???----------------SSGGGGG-TTTS?-T-TT-??SS----SSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTTS-?-------?--??-?------??HH-HHHHHHHHHHHTTGGGTTS??S--HHHHHHHHHHHHHHHHHHHHHHHS?-HHHHHHHHHHHHHHHHHHH------------HHHHT??---TT---TT------SS?H----------------------------------------------HHHHHTTHHHHHHHHHTTHHHHHHHHHHHTTT??HHHHHHHHHHHHHHHHHHHHHHHHHHHH---------HHHH-----HT?--????--------------TT?S-HHHHHHHHHTS-------------TTHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHTTTT---?S--S??HHHHHHHHHHHHHHHHH-HHHH--HGG----GHHHHHHHHHHHHHHHHHHHHHHHHHHH---------------------HHHHHT?   PDB/DSSP
MODEL    VFIISALIILLFVLWGILPESLIFDPEAAGAVFNTLFAWITNNFGWFYLLLVLFFLVFLLFLAFSRKYGNIRLVGGDDEKPEFSTFSWFAMLFSAGMGIGLVFWGVAEPLYHFLSPFKLLGTAENTNYIAGTPDIPGGGAELGIEPGTIGPEAAAREAMAYTFFHWGLHAWAIYGALVGLALAYFAYRRKGLPGEKDEEDEEDEEDKGELLISSALRYPLLGDEKKRRIYGPASRVIGKAIDILAVFATVFGVATSLGLGVLQINAGLSYLFPGADDDDDWIMDPPENAGSGSLSLTVAQLIIIAIITALATISAVSGLDKEVGIKRLSNLNMVLALLLLLFVLIVGPMTLFILNTFVQSLGDYLQNFLSISFGAYGPQDVRMSFRTGAADPLGRFGGLGTDGDDGAGDALRGGATNAWGSFEGFKSGLEGEAAALSDEVLAAAYAAGEPGALAEWLGGWTIFYWAWWIAWAPFVGMFIARISRGRTIREFVLGVLLVPTLFTFLWFSVFGGTAILAEQLDRQTDLELSASWNNGGGGDLADDKAKYAAGTVLVLVAADVVEAALFALLEQLLFRLNLGGADMSGPLGTILALLASVLAIVLIIIFFVTSADSATLVLAMLTSGGLDSDLDLNPPRWQRVFWGVLLGAVAAVLLLLAGEGGTKGDADALDALQTASIIAALPFSVILLLMCISLDFLQIQWVGALVIILYFCCFTLKALREE   HMMER2[PF02028.12_BCCT_seed]
QUERY    IS------TLIFVFAGS-----GS------------------------------------GMAFSK------L--TDGGAA---------------------------------T-----------------P--AGL-------------IAA-SLA----------HALALF---VAVSVG----------------------------------ANISG-G--H-VNPA----------------VTFG----------------AFVG-G-----------N-I------S-LL-KALVYWVAQLLGSVVACLLL-K------------IATGGAALGAFSLSA-GVGAMNAVVLEMVMTFGLV--------------YTVYA---TA---VD------PKKGDL-------------------------------------------------------------------------------------GVIAPIAIGF----------I------------------VGAN-ILAG-------------GAFDG---------ASMN------------PAVSFG----PAVVT------------------------GVWENH-----------------------WVYW--VG--------------------PLAGAAIAALVYD---------------------IIFIGQR   Q9ATM0|Aquaporin|TIP12_MAIZE[28 242]


PF13303.1_PTS_EIIC_2_seed:
E:2.48e-02[Original]   E:7.21e-04[Fold-critical]   E:1.16e-11[Remnant]   Ratio[FC/R]:6.22e+07   Classification:TP
 STRUCT   CCCHHHHHHHHHHHHHHHHHHHHHHHHHCCC1111111111H-------------------HHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHCCCEEE---------------------------EECCCCHHHHHHHHHHHHHHHHHH11111111111EEEHHHHHHHHHHHHHHH1HHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHCH1HHHHHHHHHHCCCC---------------------HHHHHHHHHHHHHHH11HHHHHHHCCCCCCCHHHHHHCCCCCCCHHHHHCCH1HHHHHHHHHHHHHHHHHHH1--------------------------HHHHHHHHH11------------------H11HH1HHHHHHHHHHHHHHHHHHHHHHH------------------------HHHH11111111111   PredictedSECSTR
MODEL    IKVLNGMALGIFVTLIPGAILGTIGKLLGILFPIFALALVSSTGELAAKVAGLSMLNRFCWFLVQIGTLAQSLLGPAIGVAVAYQLKANPLVSFSAGIAGFIGSGAVKFVQTASVATATKTATGGVNATEGGVVDPLAGTGDPINAFIAAAIAVLVGKLISKNLGGKTKLDIILVPIVVILVGGLIGLLVILPYVKPITTAIGNVINSATDLQPLLMGILIAVIFGILITSPFISSAAIAIALGLTGFGVGNALAIPDPIAIVWNGLALAAGAAAIGCCAQMVMNGLAVASLKVNGLGGLIAQGLGTPKLQMPNILKNPIPILLPPLLAAAILGPIATLLFDGYQWFIGIQPNGTPASAVWAGFGTSGLVGPIAALNLMAVNGTVRDVADKMAGTGPSAGTVILLIILVFFVLPAVLALLIYKLFKGFAKKDYKLDEIPTNEINEKNDDIKKLGLIKPGDTLKL   HMMER2[PF13303.1_PTS_EIIC_2_seed]
QUERY    ------TAKAAVA-----EFISTLIFVFAGSGSG-------M-------------------AFSKLTDGGAATPAGLIAASLAHAL---ALFVAVSVGA----------------------------NISGGHV-------NP-----AVTFGAFVGGNIS----LLKAL------------VYWVAQL-LGSVVACLLLKIATGGAALGAFS-------------------L--SAGVGAM-----NAVV-----------------LEM------VMTFGL--VYTVYATAVDPKKGDLGVIA---------------PIAIGFIVGANILAGGAFDGA-------SMN----PAVS---------------------------------FGPAV--VTGVWENHWVYWVGPLAGAAIAALVY------------------------DIIFIGQRPHQ-QLP   Q9ATM0|Aquaporin|TIP12_MAIZE[19 248]


User sequence
Q9ATM0|Aquaporin|TIP12_MAIZE
MPVSRIAVGAPGELSHPDTAKAAVAEFISTLIFVFAGSGSGMAFSKLTDGGAATPAGLIAASLAHALALFVAVSVGANISG
GGHVNPAVTFGAFVGGNISLLKALVYWVAQLLGSVVACLLLKIATGGAALGAFSLSAGVGAMNAVVLEMVMTFGLVYTVYA
ATAVDPKKGDLGVIAPIAIGFIVGANILAGGAFDGASMNPAVSFGPAVVTGVWENHWVYWVGPLAGAAIAALVYDIIFIGQ
QRPHQQLPTTAADY

Main reference
1) Wing-Cheong Wong, Sebastian Maurer-Stroh, Birgit Eisenhaber, Frank Eisenhaber, 2014, The necessity of dissecting similarity scores for inferring homology: an essential issue in protein function prediction and annotation , BMC Bioinformatics, 15(1):166, doi:10.1186/1471-2105-15-166

Relevant references
1) Wing-Cheong Wong, Sebastian Maurer-Stroh, Georg Schneider, Frank Eisenhaber, 2012, Transmembrane helix: simple or complex , Nucleic Acids Research (Web Server issue), doi:10.1093/nar/gks379

2) Wing-Cheong Wong, Sebastian Maurer-Stroh, Frank Eisenhaber, 2011, Not all transmembrane helices are born equal: Towards the extension of the sequence homology concept to membrane proteins , Biology Direct, 6(57), doi:10.1186/1745-6150-6-57

3) Wing-Cheong Wong, Sebastian Maurer-Stroh, Frank Eisenhaber, 2011, The Janus-faced E-values of HMMER2: Extreme value distribution or logistic function , Journal of Bioinformatics and Computational Biology, 9(1), doi:10.1142/S0219720011005264

4) Wing-Cheong Wong, Sebastian Maurer-Stroh, Frank Eisenhaber, 2010, More than 1001 problems with protein domain databases: transmembrane regions, signalpeptides and the issue of sequence homology , PLoS Computational Biology, 6(7), doi:10.1371/journal.pcbi.1000867

Contact
wongwc@bii.a-star.edu.sg


24-03-2015 17:06:31 Copyrights Bioinformatics Institute A*STAR