Query 038653
Match_columns 437
No_of_seqs 178 out of 503
Neff 5.3
Searched_HMMs 46136
Date Fri Mar 29 13:16:01 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/038653.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/038653hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2189 Vacuolar H+-ATPase V0 100.0 1E-130 3E-135 1045.9 27.6 390 1-407 61-660 (829)
2 PF01496 V_ATPase_I: V-type AT 100.0 1.9E-66 4.2E-71 572.1 6.4 316 74-410 149-618 (759)
3 COG1269 NtpI Archaeal/vacuolar 99.9 2E-22 4.3E-27 220.2 13.2 214 115-366 234-531 (660)
4 PRK05771 V-type ATP synthase s 99.8 3.1E-19 6.7E-24 194.7 14.8 159 115-281 220-426 (646)
5 PF10538 ITAM_Cys-rich: Immuno 85.3 0.41 8.9E-06 30.9 0.9 22 154-177 3-24 (24)
6 PF01496 V_ATPase_I: V-type AT 79.0 0.62 1.4E-05 52.8 0.0 18 412-429 741-758 (759)
7 PF12459 DUF3687: D-Ala-teicho 74.5 2 4.4E-05 31.6 1.6 19 248-266 17-42 (42)
8 PF02060 ISK_Channel: Slow vol 68.7 4.1 8.9E-05 36.7 2.5 18 246-263 44-61 (129)
9 COG1862 YajC Preprotein transl 62.2 10 0.00022 32.7 3.6 42 377-420 6-48 (97)
10 PF08261 Carcinustatin: Carcin 56.2 4.7 0.0001 19.7 0.3 7 315-321 2-8 (8)
11 PRK05886 yajC preprotein trans 43.3 28 0.00061 30.6 3.4 39 380-420 4-43 (109)
12 TIGR00739 yajC preprotein tran 42.5 31 0.00068 28.7 3.5 39 380-420 3-42 (84)
13 PF02699 YajC: Preprotein tran 41.1 26 0.00057 28.9 2.8 39 380-420 2-41 (82)
14 COG1511 Predicted membrane pro 39.7 18 0.0004 41.4 2.2 67 251-340 655-721 (780)
15 PRK05585 yajC preprotein trans 36.0 45 0.00099 29.0 3.6 41 378-420 16-57 (106)
16 PF03188 Cytochrom_B561: Eukar 28.1 48 0.001 28.9 2.5 21 248-268 116-136 (137)
17 PRK06531 yajC preprotein trans 27.4 77 0.0017 28.1 3.6 37 381-420 4-41 (113)
18 PF04530 Viral_Beta_CD: Viral 26.4 21 0.00046 32.0 -0.1 10 316-325 113-122 (122)
19 PRK11638 lipopolysaccharide bi 22.4 77 0.0017 33.0 3.1 37 235-272 11-47 (342)
20 PF13947 GUB_WAK_bind: Wall-as 21.5 35 0.00075 28.7 0.3 9 316-324 14-22 (106)
21 PHA01815 hypothetical protein 20.7 68 0.0015 24.3 1.6 16 246-261 40-55 (55)
No 1
>KOG2189 consensus Vacuolar H+-ATPase V0 sector, subunit a [Energy production and conversion]
Probab=100.00 E-value=1.2e-130 Score=1045.94 Aligned_cols=390 Identities=41% Similarity=0.688 Sum_probs=330.1
Q ss_pred CchhHHHHHHHHHhCCCCCC---CCCCCCcchhhhhhh------------------------------------hhhhhh
Q 038653 1 MASKLRFIREEMSKAGLLPS---TQSAGSVDIDFASLE------------------------------------AGEFFS 41 (437)
Q Consensus 1 meRklRf~~~ei~k~~~~~~---~~~~~~~~~~ld~le------------------------------------~~~ff~ 41 (437)
|||||||+++||.|++++.. +.+.++.+.+++++| +++||+
T Consensus 61 meRklrfl~~ei~k~~i~~~~~~~~~~~p~~~~i~dle~~l~klE~el~eln~n~~~L~~n~~eL~E~~~vl~~t~~Ff~ 140 (829)
T KOG2189|consen 61 MERKLRFLESEIKKAGIPLPDLDESPPAPPPREIIDLEEQLEKLESELRELNANKEALKANYNELLELKYVLEKTDEFFS 140 (829)
T ss_pred HHHHHHHHHHHHHhcCCCCCCccccCCCCCchHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhhhhhcc
Confidence 79999999999999998754 233455666777777 455666
Q ss_pred hhhhhHHHHHHHhhhccCCCCCCCCCCCCCC-------------cCccCCchhhHHHHHHHhcCCceEEEeeecCCCccC
Q 038653 42 SALSRAAAQQKELESHHLGEGFIDSPLSVEQ-------------WPYYKRKDNGFERILFHATRGNVFLKQSVVEDPVAD 108 (437)
Q Consensus 42 ~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~-------------~~I~~~k~~~FeRiLwRatRGN~~~~~~~i~~~~~d 108 (437)
.+.+..-. .+.. .+..+.++.... .+|+|+|.++|||+||||||||+|+|+++||+|+.|
T Consensus 141 ~~~~~~~~-~~~~------~~~~~~~~~~~~~~~~~~~~l~FvaGvI~r~k~~~fER~LWRa~Rgn~f~r~~~ie~~l~d 213 (829)
T KOG2189|consen 141 TSVQESFE-DDET------ADLGEGPLESAEKGPFDGLKLGFVAGVINREKVFAFERMLWRACRGNLFIRQSDIEEPLED 213 (829)
T ss_pred cchhhhhc-chhh------hhhcccccchhccCCCCcccceeEEeeechhHHHHHHHHHHHHhccceEEEeecccccccC
Confidence 42210000 0000 000001111100 159999999999999999999999999999999999
Q ss_pred CCCccc----------------------------------------------hhcchHHHHHHHHHHHHHHHHHHHHHHH
Q 038653 109 PVSGEK----------------------------------------------VSGRISELRTTIDVGLVHRSNLLQTIAD 142 (437)
Q Consensus 109 p~tge~----------------------------------------------v~~ri~dl~~vl~~t~~~~~~~L~~ia~ 142 (437)
|+|||. |++||+||++||++|++||+++|+.+++
T Consensus 214 p~Tge~~~K~vFivF~~Geql~~kIkKIcd~f~a~~yp~p~~~~er~~~~~~v~~ri~DL~~Vl~~t~~~r~~vL~~~~~ 293 (829)
T KOG2189|consen 214 PKTGEPVEKNVFIVFFQGEQLKQKIKKICDGFGATLYPCPESPEERKEMLLEVNTRISDLQTVLDQTEDHRSRVLQAAAK 293 (829)
T ss_pred CccCCcceeEEEEEEeecHHHHHHHHHHHhccCcEeecCCCChHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHh
Confidence 999987 9999999999999999999999999999
Q ss_pred HhHHHHHH--HHHHHHHHhcccccccCCceEEEEEEeecCChhHHHHHHHHHHHhcCCcccceeEecccCCCCCCccCCC
Q 038653 143 QFEQWNLL--MEKVIYRTLNMLSMDVTKKCLVAESWCPVSAANQIENTLQRATINSNSQIGAIFQVLQIKGSLPTYFPDK 220 (437)
Q Consensus 143 ~l~~W~~~--KEKaIY~tLN~~~~D~t~k~LiaE~W~P~~~~~~I~~aL~~~~~~sgs~v~~i~~~i~t~~~PPTyfrTN 220 (437)
+++.|.++ |||||||||||||+|+|+||||||||||+.|++.||+||++++..+||+|++|+|+++|+++||||||||
T Consensus 294 ~l~~W~~~v~K~KaIyhtLN~fn~Dvt~KCLIaE~W~P~~dl~~vq~aL~~~~~~sgS~v~~i~nv~~T~e~PPTy~RTN 373 (829)
T KOG2189|consen 294 NLPSWLIKVRKEKAIYHTLNMFNFDVTQKCLIAEGWCPVADLPDLQRALERGSEESGSQVPSILNVMETNEMPPTYFRTN 373 (829)
T ss_pred hhhhHHHHHHHHHHHHHHHhccCccccCceEEEEeecchhhHHHHHHHHHHhhhhcCCcchhhHhheecCCCCCcchhcc
Confidence 99999999 9999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ceeccee-------------eccce------------------------------ee--------c-cchhhhhhcchhH
Q 038653 221 QFCFCFS-------------RNCGC------------------------------IW--------K-LGDIVEMTFGGRY 248 (437)
Q Consensus 221 kFT~~FQ-------------vNPa~------------------------------il--------~-~~ei~~m~f~GRY 248 (437)
|||++|| ||||+ |+ | .||||+|+|+|||
T Consensus 374 KFT~~FQ~IvDaYGVa~YrEvNPa~yTiITFPFLFAVMFGD~GHG~imlL~al~~Vl~Ekkl~~~k~~~EI~~mfF~GRY 453 (829)
T KOG2189|consen 374 KFTAGFQNIVDAYGVASYREVNPAPYTIITFPFLFAVMFGDLGHGLIMLLAALWMVLNEKKLASQKIGDEIFNMFFGGRY 453 (829)
T ss_pred hhhHHHHHHHHhcccccccccCCCceeEeehHHHHHHHhcccchHHHHHHHHHHHHHhcchhhhhhhHHHHHHHHhcchH
Confidence 9999999 99999 11 2 4799999999999
Q ss_pred HHHHHHHHHHHHhhhhhcccccccccCCCCCccccCCCCccceeeccccccCCcCCCccccccccCCccccccchHH---
Q 038653 249 VIMMMALFSIYTGLIYNEFFSAPSELFGPSAYACCDPSCRYIISVIDSRIYGHTCDSTTVGLIKVQPTYPFNVDPRW--- 325 (437)
Q Consensus 249 iILLMGlFSiYtGfIYND~FS~slnlFg~S~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~YPFGiDP~W--- 325 (437)
||||||+||||||||||||||||+|||| |+|+++++... ...+..+. .|+.. + .+.++||||||||+|
T Consensus 454 IIlLMGlFSiYTGliYND~FSks~niFg-S~W~~~~~~~~-~~~~e~~~-~p~~~-----~-~~~~gpYPfGvDPiW~~a 524 (829)
T KOG2189|consen 454 IILLMGLFSIYTGLIYNDFFSKSMNIFG-SSWSNPYNVTA-VLCSEALL-TPEIG-----G-AKFGGPYPFGVDPIWHLA 524 (829)
T ss_pred HHHHHHHHHHHHhhhhhhhccccccccc-CcccCccccch-hccccccc-cCCCC-----c-ccccCCCCCcCChhhhcc
Confidence 9999999999999999999999999999 99999875431 11111111 13322 1 123569999999999
Q ss_pred -------------------------------------------------HHHHHHHHhhhheeeEEEeccC------CCC
Q 038653 326 -------------------------------------------------QMIFLNSLFGYLSILIIVKLCT------GSQ 350 (437)
Q Consensus 326 -------------------------------------------------qllFl~~lFGYL~~lIi~KW~~------~~a 350 (437)
|++||+|+||||||+||||||. .||
T Consensus 525 ~N~L~FLNS~KMKmSIIlGi~hM~fGv~lS~~N~~~Fk~~~~I~~~FIPq~iFl~~iFgYL~~~IiyKW~~~~~~~~~~a 604 (829)
T KOG2189|consen 525 DNKLSFLNSMKMKMSIILGIIHMTFGVILSVFNHIYFKSKLDIILVFIPQLIFLLSLFGYLVFLIIYKWLVFWAKTSNCA 604 (829)
T ss_pred cccchhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHhccchheeeeccHHHHHHHHHHHHHHHHHHHHHhhcccccCCCC
Confidence 9999999999999999999994 379
Q ss_pred chHHHHHHHhhccCCCCCCCcccccchhhHHHHHHHHHHHHhhcccccchhhhHHHh
Q 038653 351 ADLYHVMIYMFLSPTGDLGENQLFVGQKFLQILLLLSALVAVSWMPFPKPFLLKKQY 407 (437)
Q Consensus 351 PSLl~~lInMfL~pg~~~~~~~ly~gQ~~vQ~~LlliAlicVP~MLl~KPl~l~~~~ 407 (437)
||||++||||||+|+++. +.+|||||+.||++||++|++|||||||+||++++++|
T Consensus 605 PslLi~lInMFl~~~~~~-~~~lyp~Q~~vQ~~ll~~Al~cVPwmLl~KPl~l~~~~ 660 (829)
T KOG2189|consen 605 PSLLIMLINMFLFPGTDA-GFQLYPGQKQVQLILLVLALVCVPWMLLGKPLYLRRRH 660 (829)
T ss_pred chHHHHHHHHHhCCCCCC-ccccCCchHHHHHHHHHHHHHHHHHHHhcchHHHHHHh
Confidence 999999999999999754 34999999999999999999999999999999998876
No 2
>PF01496 V_ATPase_I: V-type ATPase 116kDa subunit family ; InterPro: IPR002490 ATPases (or ATP synthases) are membrane-bound enzyme complexes/ion transporters that combine ATP synthesis and/or hydrolysis with the transport of protons across a membrane. ATPases can harness the energy from a proton gradient, using the flux of ions across the membrane via the ATPase proton channel to drive the synthesis of ATP. Some ATPases work in reverse, using the energy from the hydrolysis of ATP to create a proton gradient. There are different types of ATPases, which can differ in function (ATP synthesis and/or hydrolysis), structure (e.g., F-, V- and A-ATPases, which contain rotary motors) and in the type of ions they transport [, ]. The different types include: F-ATPases (F1F0-ATPases), which are found in mitochondria, chloroplasts and bacterial plasma membranes where they are the prime producers of ATP, using the proton gradient generated by oxidative phosphorylation (mitochondria) or photosynthesis (chloroplasts). V-ATPases (V1V0-ATPases), which are primarily found in eukaryotic vacuoles and catalyse ATP hydrolysis to transport solutes and lower pH in organelles. A-ATPases (A1A0-ATPases), which are found in Archaea and function like F-ATPases (though with respect to their structure and some inhibitor responses, A-ATPases are more closely related to the V-ATPases). P-ATPases (E1E2-ATPases), which are found in bacteria and in eukaryotic plasma membranes and organelles, and function to transport a variety of different ions across membranes. E-ATPases, which are cell-surface enzymes that hydrolyse a range of NTPs, including extracellular ATP. The V-ATPases (or V1V0-ATPase) and A-ATPases (or A1A0-ATPase) are each composed of two linked complexes: the V1 or A1 complex contains the catalytic core that hydrolyses/synthesizes ATP, and the V0 or A0 complex that forms the membrane-spanning pore. The V- and A-ATPases both contain rotary motors, one that drives proton translocation across the membrane and one that drives ATP synthesis/hydrolysis [, , ]. The V- and A-ATPases more closely resemble one another in subunit structure than they do the F-ATPases, although the function of A-ATPases is closer to that of F-ATPases. This entry represents the 116kDa subunit (or subunit a) and subunit I found in the V0 or A0 complex of V- or A-ATPases, respectively. The 116kDa subunit is a transmembrane glycoprotein required for the assembly and proton transport activity of the ATPase complex. Several isoforms of the 116kDa subunit exist, providing a potential role in the differential targeting and regulation of the V-ATPase for specific organelles []. More information about this protein can be found at Protein of the Month: ATP Synthases [].; GO: 0015078 hydrogen ion transmembrane transporter activity, 0015991 ATP hydrolysis coupled proton transport, 0033177 proton-transporting two-sector ATPase complex, proton-transporting domain; PDB: 2RPW_X 2NVJ_A 2JTW_A 3RRK_A.
Probab=100.00 E-value=1.9e-66 Score=572.10 Aligned_cols=316 Identities=33% Similarity=0.545 Sum_probs=92.8
Q ss_pred CccCCchhhHHHHHHHhcCCceEEEeeecCCCccCCC------------Cccc---------------------------
Q 038653 74 PYYKRKDNGFERILFHATRGNVFLKQSVVEDPVADPV------------SGEK--------------------------- 114 (437)
Q Consensus 74 ~I~~~k~~~FeRiLwRatRGN~~~~~~~i~~~~~dp~------------tge~--------------------------- 114 (437)
+|++++..+|+|+|||++|||+|+++.+|+++..|+. +++.
T Consensus 149 ~I~~~~~~~f~~~l~r~~~~N~fi~~~~Ie~~~~d~~e~~~k~v~vv~~~~~~~~~kv~~il~~~~f~~~~~p~~~~~p~ 228 (759)
T PF01496_consen 149 VIPREKIESFERILWRATRGNIFIRFSEIEEILEDPKEEVEKEVFVVFFSGKELEEKVKKILRSFGFERYDLPEDEGTPE 228 (759)
T ss_dssp ---HHHHHHHHHHHHHHHTT-----S------EEEE-EE-SSSEEEEEEEEGGGHHHHHHHHHTTT--B----GGGGG-H
T ss_pred EEehhhHHHHHHHHHHhccCCeEEEEEeeecccccccceeeeeeEEEEEEchhhHHHHHHHhhccCceecCCCCccccHH
Confidence 5999999999999999999999999999998887765 1111
Q ss_pred -----hhcchHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHH--HHHHHHHHhcccccccCCceEEEEEEeecCChhHHHH
Q 038653 115 -----VSGRISELRTTIDVGLVHRSNLLQTIADQFEQWNLL--MEKVIYRTLNMLSMDVTKKCLVAESWCPVSAANQIEN 187 (437)
Q Consensus 115 -----v~~ri~dl~~vl~~t~~~~~~~L~~ia~~l~~W~~~--KEKaIY~tLN~~~~D~t~k~LiaE~W~P~~~~~~I~~ 187 (437)
++++|+|+++.++++++++++++...++.+..|..+ +||++|+++|++..+.+ +|++++||||+++++++++
T Consensus 229 e~~~~l~~~i~~l~~~~~~~~~~l~~~~~~~~~~l~~~~~~l~~~~~~~~~~~~~~~~~~-~~~~~~GWvP~~~~~~l~~ 307 (759)
T PF01496_consen 229 EAIKELEEEIEELEKELEELEEELKKLLEKYAEELEAWYEYLRKEKEIYEALNKFASTET-NVFILEGWVPEKDVEELKK 307 (759)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTT----SEEEEEEE-TTTHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccc-cEEEEEEeccHHHHHHHHH
Confidence 889999999999999999999999999999999998 99999999999997665 8999999999999999999
Q ss_pred HHHHHHHhcCCcccceeEecccCCCCCCccCCCceeccee-------------eccce---------------------e
Q 038653 188 TLQRATINSNSQIGAIFQVLQIKGSLPTYFPDKQFCFCFS-------------RNCGC---------------------I 233 (437)
Q Consensus 188 aL~~~~~~sgs~v~~i~~~i~t~~~PPTyfrTNkFT~~FQ-------------vNPa~---------------------i 233 (437)
+|++++...+..+..+.+..++.+.|||++|+|+||.+|| +||++ +
T Consensus 308 ~l~~~~~~~~~~v~~~~~~~~~~~~pPt~lknn~~~~pFe~iv~~Yg~P~Y~EiDPt~~~ai~fp~fFG~MfGD~GyGll 387 (759)
T PF01496_consen 308 ALEEATDGSEYSVPSIEEEPEEEEEPPTKLKNNKFTKPFEMIVDMYGLPKYREIDPTPFMAITFPFFFGMMFGDAGYGLL 387 (759)
T ss_dssp T--SS-EEEE----------------------------------------------------------------------
T ss_pred HHHhhccccccccccccccccccCCCCeeecCchhhhHHHHHHHhcCCCCCCccccchHHHHHHHHHHHHHHhhHHHHHH
Confidence 9998877666656667777778899999999999999999 99998 1
Q ss_pred e----------------ccchhhhhhcchhHHHHHHHHHHHHHhhhhhcccccccccCCCCCccccCCCCccceeecccc
Q 038653 234 W----------------KLGDIVEMTFGGRYVIMMMALFSIYTGLIYNEFFSAPSELFGPSAYACCDPSCRYIISVIDSR 297 (437)
Q Consensus 234 l----------------~~~ei~~m~f~GRYiILLMGlFSiYtGfIYND~FS~slnlFg~S~w~~~~~~~~~~~~~~~~~ 297 (437)
+ ..+||++|++.+||++++||+||||+|+|||||||.++++|+ |+|.++.+... ...+.
T Consensus 388 l~l~~l~l~~~~~~~~~~~~e~~~~~~~~~~il~~~gi~si~~G~iyg~~FG~~~~~f~-~~~~~~~~~~~----~~~~~ 462 (759)
T PF01496_consen 388 LLLFGLLLIKKFKKLKKMKNEIFNMLFKLRYILLLMGISSIIFGFIYGSFFGDSLNIFG-SGWNWPMNIKE----GESIT 462 (759)
T ss_dssp --------------------------------------------------------------------------------
T ss_pred HHHHHHHHHHhccccchhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHhcCcchhcC-ccccccccccC----Cceee
Confidence 0 238999999999999999999999999999999999999999 99987642111 00000
Q ss_pred ccCCcCCCccccccccCCccccccchHH----------------------------------------------------
Q 038653 298 IYGHTCDSTTVGLIKVQPTYPFNVDPRW---------------------------------------------------- 325 (437)
Q Consensus 298 ~~~~~~~~~~~~~~~~~~~YPFGiDP~W---------------------------------------------------- 325 (437)
..| ..++||||+||+|
T Consensus 463 ~~~------------~~~~yp~g~dp~~~~~~n~l~f~ns~~m~~SiiiGvi~m~~G~~l~~~n~i~~~~~~d~~~~~~~ 530 (759)
T PF01496_consen 463 LAP------------SVGPYPFGIDPIWNPATNELLFLNSFKMKLSIIIGVIHMLFGLILKIINNIRFKDKIDIFFAFIP 530 (759)
T ss_dssp --------------------------------------------------------------------------------
T ss_pred ccC------------ccccccccccccccccccccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCcchhhhhcch
Confidence 011 1248999999999
Q ss_pred HHHHHHHHhhhheeeEEEeccCC------CCchHHHHHHHhhccCCCCCCCcccccchhhHHHHHHHHHHHHhhcccccc
Q 038653 326 QMIFLNSLFGYLSILIIVKLCTG------SQADLYHVMIYMFLSPTGDLGENQLFVGQKFLQILLLLSALVAVSWMPFPK 399 (437)
Q Consensus 326 qllFl~~lFGYL~~lIi~KW~~~------~aPSLl~~lInMfL~pg~~~~~~~ly~gQ~~vQ~~LlliAlicVP~MLl~K 399 (437)
|++|+.|+|||||++|+|||++. ++|+|+++||+|||+||.. ++||+||..+|.+|+++|++||||||++|
T Consensus 531 ~~~~~~~l~Gyl~~li~~kw~~~~~~~~~~~p~il~~li~m~l~~~~~---~~~~~~q~~~~~~l~~~~~~~vp~~l~~~ 607 (759)
T PF01496_consen 531 QLLFLISLFGYLVFLIIYKWLTPWFADSICAPSILIGLINMFLFPGTV---QPLYPGQSTVQVILLLIALISVPWMLLPK 607 (759)
T ss_dssp --------------------------------------------------------------------------------
T ss_pred HHHHHHHHHHHHHHHHHHHHhhhhhhcccCCchHHHHHHHhhcCCCCh---hhhccCcchhhHHHHHHHHHHHHHHHHHH
Confidence 99999999999999999999973 6899999999999999864 88999999999999999999999999999
Q ss_pred hhhhHHHhhHH
Q 038653 400 PFLLKKQYQEL 410 (437)
Q Consensus 400 Pl~l~~~~~~~ 410 (437)
|++++++|+++
T Consensus 608 p~~~~~~~~~~ 618 (759)
T PF01496_consen 608 PLILKRKHKKK 618 (759)
T ss_dssp -----------
T ss_pred HHHHHHHhhhh
Confidence 99999998883
No 3
>COG1269 NtpI Archaeal/vacuolar-type H+-ATPase subunit I [Energy production and conversion]
Probab=99.88 E-value=2e-22 Score=220.22 Aligned_cols=214 Identities=18% Similarity=0.214 Sum_probs=172.1
Q ss_pred hhcchHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHH--HHHHHHHHhcccccccCCceEEEEEEeecCChhHHHHHHHHH
Q 038653 115 VSGRISELRTTIDVGLVHRSNLLQTIADQFEQWNLL--MEKVIYRTLNMLSMDVTKKCLVAESWCPVSAANQIENTLQRA 192 (437)
Q Consensus 115 v~~ri~dl~~vl~~t~~~~~~~L~~ia~~l~~W~~~--KEKaIY~tLN~~~~D~t~k~LiaE~W~P~~~~~~I~~aL~~~ 192 (437)
.+.+|+|++..++++++.++.+.+.++..+..|+.. .||+++..+|.+.. |.+|++.|||+|+++.+.++++++++
T Consensus 234 ~~~~i~~~~~~~~~~~~~l~~~~~~~~~~l~~~~~~l~~e~~~~~~~~~~~~--t~~~~~~eGWvP~~~~~~~~~~i~~~ 311 (660)
T COG1269 234 LEEVIAEIQDELESLRSELEALAEKIAEELLAVREILEIEKALGDVLSKLAR--TEYTLAIEGWVPADEVEKLKKIINRA 311 (660)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc--cceEEEEEEeccHHHHHHHHHHHHHh
Confidence 888999999999999999999999999999999999 99999999999985 55899999999999999999999987
Q ss_pred HHhcCCcccceeEecccC---CCCCCccCCCceeccee-------------eccceee--ccchhhhh------------
Q 038653 193 TINSNSQIGAIFQVLQIK---GSLPTYFPDKQFCFCFS-------------RNCGCIW--KLGDIVEM------------ 242 (437)
Q Consensus 193 ~~~sgs~v~~i~~~i~t~---~~PPTyfrTNkFT~~FQ-------------vNPa~il--~~~ei~~m------------ 242 (437)
+. ....++..+++ +.|||++|+|+|++.|| |||++++ --.=.|.+
T Consensus 312 ~~-----~~~~~~~~~~~~~~e~~Pt~l~n~~~i~~Fe~l~emY~iPkY~EidPt~~~a~~Fp~fFG~M~gD~gyGlll~ 386 (660)
T COG1269 312 TG-----GAAYFEVSETDEDKEEVPTKLRNPKFISPFESLTEMYGIPKYGEIDPTPFLALFFPLFFGIMFGDLGYGLLLF 386 (660)
T ss_pred cC-----CceEEEeecCCCccCCCCEeecCCcccchHHHHHHHhcCCCCCCcCCcchHHHHHHHHHHHHHHhHHHHHHHH
Confidence 54 35778888888 79999999999999999 9999922 00000111
Q ss_pred ---hcchhHH--HHHHHHHHHHHhhhhhcccccccccCCCCCccccCCCCccceeeccccccCCcCCCccccccccCCcc
Q 038653 243 ---TFGGRYV--IMMMALFSIYTGLIYNEFFSAPSELFGPSAYACCDPSCRYIISVIDSRIYGHTCDSTTVGLIKVQPTY 317 (437)
Q Consensus 243 ---~f~GRYi--ILLMGlFSiYtGfIYND~FS~slnlFg~S~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Y 317 (437)
++--||. .+.+|+..++++++|++++++.+.++- ++|-.+. . .-..|
T Consensus 387 l~sl~l~~~~~~~~~~~~~~l~~~~~~~~i~t~i~G~l~-g~~fG~~-------------------------~--~~~~~ 438 (660)
T COG1269 387 LISLLLLRYFKKRLPEGLKKLGKILLYLGISTIIWGFLY-GEFFGPA-------------------------V--LLSTL 438 (660)
T ss_pred HHHHHHHHhcccccchhHHHHHHHHHHHHHHHHHHHHHh-ccccCCc-------------------------c--ccccC
Confidence 1111222 367777778888888888887777775 5553320 0 01257
Q ss_pred ccccchHH-----------------------------------------------HHHHHHHHhhhheeeEEEeccCCCC
Q 038653 318 PFNVDPRW-----------------------------------------------QMIFLNSLFGYLSILIIVKLCTGSQ 350 (437)
Q Consensus 318 PFGiDP~W-----------------------------------------------qllFl~~lFGYL~~lIi~KW~~~~a 350 (437)
|+++|.+| |++++.+++||+.+++.+||+.
T Consensus 439 p~~~~~~~~~~~~~~~~~~~m~~sl~iG~~hl~~G~~lg~~~~~~~~~~~~a~~~~~~w~~~~~G~~~~~~~~~~~~--- 515 (660)
T COG1269 439 PIGLLFVYHGLDEGLLFSNILILSLLIGVLHLSLGLLLGFINRVRSGDIKGAILPQLLWLLIILGLLLLILGYKWSV--- 515 (660)
T ss_pred CcccccccccccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcchHHHhhhhHHHHHHHHHHHHHHHHhhhcc---
Confidence 77777777 9999999999999999999998
Q ss_pred chHHHHHHHhhccCCC
Q 038653 351 ADLYHVMIYMFLSPTG 366 (437)
Q Consensus 351 PSLl~~lInMfL~pg~ 366 (437)
|.++++.++|+..+|.
T Consensus 516 ~~l~~~~~~~~~~~g~ 531 (660)
T COG1269 516 PELLGMVGAMFGAFGI 531 (660)
T ss_pred cchhhHHHHHhhhccH
Confidence 8999999999999885
No 4
>PRK05771 V-type ATP synthase subunit I; Validated
Probab=99.80 E-value=3.1e-19 Score=194.66 Aligned_cols=159 Identities=16% Similarity=0.210 Sum_probs=132.6
Q ss_pred hhcchHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHH--HHHHHHHHhcccccccCCceEEEEEEeecCChhHHHHHHHHH
Q 038653 115 VSGRISELRTTIDVGLVHRSNLLQTIADQFEQWNLL--MEKVIYRTLNMLSMDVTKKCLVAESWCPVSAANQIENTLQRA 192 (437)
Q Consensus 115 v~~ri~dl~~vl~~t~~~~~~~L~~ia~~l~~W~~~--KEKaIY~tLN~~~~D~t~k~LiaE~W~P~~~~~~I~~aL~~~ 192 (437)
+++|++++++.++..+++++++....+..+..|... .|+..|.++|++. .|+++++.+||||+++.++++++|++.
T Consensus 220 l~~~l~~l~~~~~~~~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~--~t~~~~~l~GWvP~~~~~~l~~~l~~~ 297 (646)
T PRK05771 220 IKEELEEIEKERESLLEELKELAKKYLEELLALYEYLEIELERAEALSKFL--KTDKTFAIEGWVPEDRVKKLKELIDKA 297 (646)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh--cCCcEEEEEEEeehhHHHHHHHHHHHh
Confidence 889999999999999999999999888888878877 9999999999986 478999999999999999999999875
Q ss_pred HHhcCCcccceeEecc---cCCCCCCccCCCceeccee-------------eccce---------------------ee-
Q 038653 193 TINSNSQIGAIFQVLQ---IKGSLPTYFPDKQFCFCFS-------------RNCGC---------------------IW- 234 (437)
Q Consensus 193 ~~~sgs~v~~i~~~i~---t~~~PPTyfrTNkFT~~FQ-------------vNPa~---------------------il- 234 (437)
+.. ..++...+ ..+.|||+.|+|+|+.+|| +||++ |+
T Consensus 298 ~~~-----~~~v~~~~~~~~~~~~Pt~l~N~~~~~pFE~lv~mYg~P~Y~EiDPT~~~ai~f~lfFGmM~gD~GyGLil~ 372 (646)
T PRK05771 298 TGG-----SAYVEFVEPDEEEEEVPTKLKNPKFIKPFESLTEMYSLPKYNEIDPTPFLAIFFPLFFGMMLGDAGYGLLLL 372 (646)
T ss_pred cCC-----cEEEEEeCCCCcCCCCCEEeeCCchhhhHHHHHHHcCCCCCCCcCCccHHHHHHHHHHHHHHHhHHHHHHHH
Confidence 422 13343333 3478999999999999999 99998 10
Q ss_pred --------ccchhhhhhcchhHHHHHHHHHHHHHhhhhhcccccccccCCCCCcc
Q 038653 235 --------KLGDIVEMTFGGRYVIMMMALFSIYTGLIYNEFFSAPSELFGPSAYA 281 (437)
Q Consensus 235 --------~~~ei~~m~f~GRYiILLMGlFSiYtGfIYND~FS~slnlFg~S~w~ 281 (437)
+....-.++...+|+++.||++||++|+|||+||+.+++.++ +.|.
T Consensus 373 l~~~~l~~~~~k~~~~~~~~~~il~~~gi~sii~G~lyG~fFG~~~~~~~-~~~~ 426 (646)
T PRK05771 373 LIGLLLSFKLKKKSEGLKRLLKILIYLGISTIIWGLLTGSFFGFSLPIFL-PGGY 426 (646)
T ss_pred HHHHHHHHhcccccHHHHHHHHHHHHHHHHHHHHHHHHHhHhcCcccccc-cccc
Confidence 211223466788999999999999999999999999999887 6543
No 5
>PF10538 ITAM_Cys-rich: Immunoreceptor tyrosine-based activation motif; InterPro: IPR012316 Signal transduction by T and B cell antigen receptors and certain receptors for Ig Fc regions involves a conserved sequence motif, termed an immunoreceptor tyrosine-based activation motif (ITAM). It is also found in the cytoplasmic domain of the apoptosis receptor. Phosphorylation of the two ITAM tyrosines is a critical event in signal transduction. All (p)2ITAMs, but not their nonphosphorylated counterparts, induced extensive protein tyrosine phosphorylation in permeabilised cells. After binding of the ligand via an SH2 domain, phosphorylation of the two conserved tyrosines of ITAM creates binding sites for downstream signalling molecules and thus enables the initiation of signalling events. This phosphorylation was found to reflect activation of the src family kinases Lyn and Syk. Different ITAMs may preferentially activate distinct signalling pathways as a consequence of distinct SH2 effector binding preference [, ]. Furthermore, in viruses, ITAMs may play key roles in viral pathogenesis by regulating viral clearance, immune cell activation, immune cell recruitment through binding of cellular kinases and thereby down regulate their function []. This motif can be found in one to three copies and in association with the Ig-like domain. Proteins currently known to contain an ITAM motif are: Mammalian alpha and beta immunoglobulin proteins, TCR gamma receptors, FCR gamma receptors subunits, CD3 chains receptors and NFAT activation molecule. Hantavirus cytoplasmic elements. ; GO: 0007165 signal transduction
Probab=85.32 E-value=0.41 Score=30.89 Aligned_cols=22 Identities=32% Similarity=0.904 Sum_probs=19.5
Q ss_pred HHHHHhcccccccCCceEEEEEEe
Q 038653 154 VIYRTLNMLSMDVTKKCLVAESWC 177 (437)
Q Consensus 154 aIY~tLN~~~~D~t~k~LiaE~W~ 177 (437)
..|.+||+|.+ ..+|+|+-.||
T Consensus 3 g~Yr~L~~FrY--ksrCyi~~vW~ 24 (24)
T PF10538_consen 3 GCYRTLSLFRY--KSRCYIFTVWC 24 (24)
T ss_pred chheeeeeeEE--eeeEEEEEEEC
Confidence 46999999998 67899999997
No 6
>PF01496 V_ATPase_I: V-type ATPase 116kDa subunit family ; InterPro: IPR002490 ATPases (or ATP synthases) are membrane-bound enzyme complexes/ion transporters that combine ATP synthesis and/or hydrolysis with the transport of protons across a membrane. ATPases can harness the energy from a proton gradient, using the flux of ions across the membrane via the ATPase proton channel to drive the synthesis of ATP. Some ATPases work in reverse, using the energy from the hydrolysis of ATP to create a proton gradient. There are different types of ATPases, which can differ in function (ATP synthesis and/or hydrolysis), structure (e.g., F-, V- and A-ATPases, which contain rotary motors) and in the type of ions they transport [, ]. The different types include: F-ATPases (F1F0-ATPases), which are found in mitochondria, chloroplasts and bacterial plasma membranes where they are the prime producers of ATP, using the proton gradient generated by oxidative phosphorylation (mitochondria) or photosynthesis (chloroplasts). V-ATPases (V1V0-ATPases), which are primarily found in eukaryotic vacuoles and catalyse ATP hydrolysis to transport solutes and lower pH in organelles. A-ATPases (A1A0-ATPases), which are found in Archaea and function like F-ATPases (though with respect to their structure and some inhibitor responses, A-ATPases are more closely related to the V-ATPases). P-ATPases (E1E2-ATPases), which are found in bacteria and in eukaryotic plasma membranes and organelles, and function to transport a variety of different ions across membranes. E-ATPases, which are cell-surface enzymes that hydrolyse a range of NTPs, including extracellular ATP. The V-ATPases (or V1V0-ATPase) and A-ATPases (or A1A0-ATPase) are each composed of two linked complexes: the V1 or A1 complex contains the catalytic core that hydrolyses/synthesizes ATP, and the V0 or A0 complex that forms the membrane-spanning pore. The V- and A-ATPases both contain rotary motors, one that drives proton translocation across the membrane and one that drives ATP synthesis/hydrolysis [, , ]. The V- and A-ATPases more closely resemble one another in subunit structure than they do the F-ATPases, although the function of A-ATPases is closer to that of F-ATPases. This entry represents the 116kDa subunit (or subunit a) and subunit I found in the V0 or A0 complex of V- or A-ATPases, respectively. The 116kDa subunit is a transmembrane glycoprotein required for the assembly and proton transport activity of the ATPase complex. Several isoforms of the 116kDa subunit exist, providing a potential role in the differential targeting and regulation of the V-ATPase for specific organelles []. More information about this protein can be found at Protein of the Month: ATP Synthases [].; GO: 0015078 hydrogen ion transmembrane transporter activity, 0015991 ATP hydrolysis coupled proton transport, 0033177 proton-transporting two-sector ATPase complex, proton-transporting domain; PDB: 2RPW_X 2NVJ_A 2JTW_A 3RRK_A.
Probab=79.02 E-value=0.62 Score=52.77 Aligned_cols=18 Identities=61% Similarity=1.215 Sum_probs=0.0
Q ss_pred hhccccCCCCcccCCcee
Q 038653 412 FQNKFYKGDGYKFPPFSF 429 (437)
Q Consensus 412 ~~~~~~~~~~~~~~~~~~ 429 (437)
+++|||.|+||+|.||+|
T Consensus 741 ~~~kfy~g~g~~f~p~~~ 758 (759)
T PF01496_consen 741 FFSKFYEGGGRPFEPFSF 758 (759)
T ss_dssp ------------------
T ss_pred HhhhhccCCCeecCCCCC
Confidence 999999999999999997
No 7
>PF12459 DUF3687: D-Ala-teichoic acid biosynthesis protein; InterPro: IPR021008 Proteins in this family are bacterial proteins of approximately 50 amino acids in length. There are two completely conserved residues (L and Y) that may be functionally important. A number of entries are annotated as D-Ala-teichoic acid biosynthesis protein; however there is no direct evidence to support this annotation.
Probab=74.52 E-value=2 Score=31.60 Aligned_cols=19 Identities=42% Similarity=0.873 Sum_probs=17.4
Q ss_pred HHHHHHHHHHHHH-------hhhhhc
Q 038653 248 YVIMMMALFSIYT-------GLIYNE 266 (437)
Q Consensus 248 YiILLMGlFSiYt-------GfIYND 266 (437)
|.+.||+|+=+|- +|||||
T Consensus 17 Yf~Ill~L~ylYgy~g~~~~~FIYNE 42 (42)
T PF12459_consen 17 YFAILLALIYLYGYSGIGQGPFIYNE 42 (42)
T ss_pred HHHHHHHHHHHHhcCCCCCCCeecCC
Confidence 8999999999996 699997
No 8
>PF02060 ISK_Channel: Slow voltage-gated potassium channel; InterPro: IPR000369 Potassium channels are the most diverse group of the ion channel family [, ]. They are important in shaping the action potential, and in neuronal excitability and plasticity []. The potassium channel family is composed of several functionally distinct isoforms, which can be broadly separated into 2 groups []: the practically non-inactivating 'delayed' group and the rapidly inactivating 'transient' group. These are all highly similar proteins, with only small amino acid changes causing the diversity of the voltage-dependent gating mechanism, channel conductance and toxin binding properties. Each type of K+ channel is activated by different signals and conditions depending on their type of regulation: some open in response to depolarisation of the plasma membrane; others in response to hyperpolarisation or an increase in intracellular calcium concentration; some can be regulated by binding of a transmitter, together with intracellular kinases; while others are regulated by GTP-binding proteins or other second messengers []. In eukaryotic cells, K+ channels are involved in neural signalling and generation of the cardiac rhythm, act as effectors in signal transduction pathways involving G protein-coupled receptors (GPCRs) and may have a role in target cell lysis by cytotoxic T-lymphocytes []. In prokaryotic cells, they play a role in the maintenance of ionic homeostasis []. All K+ channels discovered so far possess a core of alpha subunits, each comprising either one or two copies of a highly conserved pore loop domain (P-domain). The P-domain contains the sequence (T/SxxTxGxG), which has been termed the K+ selectivity sequence. In families that contain one P-domain, four subunits assemble to form a selective pathway for K+ across the membrane. However, it remains unclear how the 2 P-domain subunits assemble to form a selective pore. The functional diversity of these families can arise through homo- or hetero-associations of alpha subunits or association with auxiliary cytoplasmic beta subunits. K+ channel subunits containing one pore domain can be assigned into one of two superfamilies: those that possess six transmembrane (TM) domains and those that possess only two TM domains. The six TM domain superfamily can be further subdivided into conserved gene families: the voltage-gated (Kv) channels; the KCNQ channels (originally known as KvLQT channels); the EAG-like K+ channels; and three types of calcium (Ca)-activated K+ channels (BK, IK and SK) []. The 2TM domain family comprises inward-rectifying K+ channels. In addition, there are K+ channel alpha-subunits that possess two P-domains. These are usually highly regulated K+ selective leak channels. Two types of beta subunit (KCNE and KCNAB) are presently known to associate with voltage-gated alpha subunits (Kv, KCNQ and eag-like). However, not all combinations of alpha and beta subunits are possible. The KCNE family of K+ channel subunits are membrane glycoproteins that possess a single transmembrane (TM) domain. They share no structural relationship with the alpha subunit proteins, which possess pore forming domains. The subunits appear to have a regulatory function, modulating the kinetics and voltage dependence of the alpha subunits of voltage-dependent K+ channels. KCNE subunits are formed from short polypeptides of ~130 amino acids, and are divided into five subfamilies: KCNE1 (MinK/IsK), KCNE2 (MiRP1), KCNE3 (MiRP2), KCNE4 (MiRP3) and KCNE1L (AMMECR2). ; GO: 0005249 voltage-gated potassium channel activity, 0006811 ion transport, 0016020 membrane; PDB: 2K21_A.
Probab=68.67 E-value=4.1 Score=36.73 Aligned_cols=18 Identities=28% Similarity=0.552 Sum_probs=14.4
Q ss_pred hhHHHHHHHHHHHHHhhh
Q 038653 246 GRYVIMMMALFSIYTGLI 263 (437)
Q Consensus 246 GRYiILLMGlFSiYtGfI 263 (437)
-=||+++||+||+++|=|
T Consensus 44 ~lYIL~vmgfFgff~~gI 61 (129)
T PF02060_consen 44 YLYILVVMGFFGFFTVGI 61 (129)
T ss_dssp T-HHHHHHHHHHHHHHHH
T ss_pred eehHHHHHHHHHHHHHHH
Confidence 359999999999998643
No 9
>COG1862 YajC Preprotein translocase subunit YajC [Intracellular trafficking and secretion]
Probab=62.20 E-value=10 Score=32.72 Aligned_cols=42 Identities=29% Similarity=0.417 Sum_probs=34.4
Q ss_pred hhhHHHHHHHHHHHHhhcccccchhhhHHHhhHHH-hhccccCCC
Q 038653 377 QKFLQILLLLSALVAVSWMPFPKPFLLKKQYQELK-FQNKFYKGD 420 (437)
Q Consensus 377 Q~~vQ~~LlliAlicVP~MLl~KPl~l~~~~~~~~-~~~~~~~~~ 420 (437)
...++.++.++.+..|.+.|+-.|- ++|.++++ ++|...+||
T Consensus 6 ~~~~~~ll~~vl~~~ifyFli~RPQ--rKr~K~~~~ml~sL~kGD 48 (97)
T COG1862 6 GSGLVLLLPLVLIFAIFYFLIIRPQ--RKRMKEHQELLNSLKKGD 48 (97)
T ss_pred cccHHHHHHHHHHHHHHHHhhcCHH--HHHHHHHHHHHHhccCCC
Confidence 4578889999999999999999995 55555555 999999887
No 10
>PF08261 Carcinustatin: Carcinustatin peptide
Probab=56.24 E-value=4.7 Score=19.71 Aligned_cols=7 Identities=29% Similarity=0.757 Sum_probs=5.6
Q ss_pred Ccccccc
Q 038653 315 PTYPFNV 321 (437)
Q Consensus 315 ~~YPFGi 321 (437)
+||.||+
T Consensus 2 gpy~fgl 8 (8)
T PF08261_consen 2 GPYSFGL 8 (8)
T ss_pred CcccccC
Confidence 4899985
No 11
>PRK05886 yajC preprotein translocase subunit YajC; Validated
Probab=43.30 E-value=28 Score=30.62 Aligned_cols=39 Identities=15% Similarity=0.163 Sum_probs=27.4
Q ss_pred HHHHHHHHHHHHhhcccccchhhhHHHhhHHH-hhccccCCC
Q 038653 380 LQILLLLSALVAVSWMPFPKPFLLKKQYQELK-FQNKFYKGD 420 (437)
Q Consensus 380 vQ~~LlliAlicVP~MLl~KPl~l~~~~~~~~-~~~~~~~~~ 420 (437)
+..+|.+++++.+.|.|+.+|= |||+++.+ +++..-+||
T Consensus 4 ~~~ll~lv~i~~i~yF~~iRPQ--kKr~K~~~~m~~~Lk~GD 43 (109)
T PRK05886 4 LVLFLPFLLIMGGFMYFASRRQ--RKAMQATIDLHESLQPGD 43 (109)
T ss_pred HHHHHHHHHHHHHHHHHHccHH--HHHHHHHHHHHHhcCCCC
Confidence 4556677777888888888885 44444443 888888776
No 12
>TIGR00739 yajC preprotein translocase, YajC subunit. While this protein is part of the preprotein translocase in Escherichia coli, it is not essential for viability or protein secretion. The N-terminus region contains a predicted membrane-spanning region followed by a region consisting almost entirely of residues with charged (acidic, basic, or zwitterionic) side chains. This small protein is about 100 residues in length, and is restricted to bacteria; however, this protein is absent from some lineages, including spirochetes and Mycoplasmas.
Probab=42.49 E-value=31 Score=28.72 Aligned_cols=39 Identities=26% Similarity=0.397 Sum_probs=26.5
Q ss_pred HHHHHHHHHHHHhhcccccchhhhHHHhhHH-HhhccccCCC
Q 038653 380 LQILLLLSALVAVSWMPFPKPFLLKKQYQEL-KFQNKFYKGD 420 (437)
Q Consensus 380 vQ~~LlliAlicVP~MLl~KPl~l~~~~~~~-~~~~~~~~~~ 420 (437)
.+.++.++.++.+-+.+.-+|- |||+++. ++++..-.||
T Consensus 3 ~~~l~~~vv~~~i~yf~~~rpq--kK~~k~~~~m~~~L~~Gd 42 (84)
T TIGR00739 3 LTTLLPLVLIFLIFYFLIIRPQ--RKRRKAHKKLIESLKKGD 42 (84)
T ss_pred HHHHHHHHHHHHHHHHheechH--HHHHHHHHHHHHhCCCCC
Confidence 4556666667778888888885 4444444 3888887776
No 13
>PF02699 YajC: Preprotein translocase subunit; InterPro: IPR003849 Secretion across the inner membrane in some Gram-negative bacteria occurs via the preprotein translocase pathway. Proteins are produced in the cytoplasm as precursors, and require a chaperone subunit to direct them to the translocase component []. From there, the mature proteins are either targeted to the outer membrane, or remain as periplasmic proteins []. The translocase protein subunits are encoded on the bacterial chromosome. The translocase itself comprises 7 proteins, including a chaperone (SecB), ATPase (SecA), an integral membrane complex (SecY, SecE and SecG), and two additional membrane proteins that promote the release of the mature peptide into the periplasm (SecD and SecF) []. Other cytoplasmic/periplasmic proteins play a part in preprotein translocase activity, namely YidC and YajC []. The latter is bound in a complex to SecD and SecF, and plays a part in stabilising and regulating secretion through the SecYEG integral membrane component via SecA []. Homologues of the YajC gene have been found in a range of pathogenic and commensal microbes. Brucella abortis YajC- and SecD-like proteins were shown to stimulate a Th1 cell-mediated immune response in mice, and conferred protection when challenged with B.abortis []. Therefore, these proteins may have an antigenic role as well as a secretory one in virulent bacteria []. A number of previously uncharacterised "hypothetical" proteins also show similarity to E.coli YajC, suggesting that this family is wider than first thought []. More recently, the precise interactions between the E.coli SecYEG complex, SecD, SecF, YajC and YidC have been studied []. Rather than acting individually, the four proteins form a heterotetrameric complex and associate with the SecYEG heterotrimeric complex []. The SecF and YajC subunits link the complex to the integral membrane translocase. ; PDB: 2RDD_B.
Probab=41.08 E-value=26 Score=28.89 Aligned_cols=39 Identities=26% Similarity=0.422 Sum_probs=22.4
Q ss_pred HHHHHHHHHHHHhhcccccchhhhHHHhhHHH-hhccccCCC
Q 038653 380 LQILLLLSALVAVSWMPFPKPFLLKKQYQELK-FQNKFYKGD 420 (437)
Q Consensus 380 vQ~~LlliAlicVP~MLl~KPl~l~~~~~~~~-~~~~~~~~~ 420 (437)
++.++.+++++.+.+.+..+|= |||+++++ .++..-.||
T Consensus 2 l~~li~lv~~~~i~yf~~~rpq--kk~~k~~~~m~~~Lk~Gd 41 (82)
T PF02699_consen 2 LSMLIPLVIIFVIFYFLMIRPQ--KKQQKEHQEMLASLKPGD 41 (82)
T ss_dssp -HHHHHHHHHHHHHHHHTHHHH--HHHHHHHTTGGG------
T ss_pred hHHHHHHHHHHHHHhhheecHH--HHHHHHHHHHHHcCCCCC
Confidence 4567778888888888888884 44444333 777777766
No 14
>COG1511 Predicted membrane protein [Function unknown]
Probab=39.74 E-value=18 Score=41.43 Aligned_cols=67 Identities=19% Similarity=0.388 Sum_probs=38.0
Q ss_pred HHHHHHHHHHhhhhhcccccccccCCCCCccccCCCCccceeeccccccCCcCCCccccccccCCccccccchHHHHHHH
Q 038653 251 MMMALFSIYTGLIYNEFFSAPSELFGPSAYACCDPSCRYIISVIDSRIYGHTCDSTTVGLIKVQPTYPFNVDPRWQMIFL 330 (437)
Q Consensus 251 LLMGlFSiYtGfIYND~FS~slnlFg~S~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~YPFGiDP~WqllFl 330 (437)
++|++|+|++|++|+=+--.=+.+|| -.|+.-. .+ -+.+ -....+|.||+++.| -|+
T Consensus 655 ~~~~~~~i~~s~~f~~ii~~lv~~~g-~~g~~i~-----iv---llvl----------q~~~~~G~~pi~~~~----~~~ 711 (780)
T COG1511 655 LLLVLFAIFSSVAFMIIIYLLVSLFG-NPGKFIA-----IV---LLVL----------QIAGSGGTFPIQLSP----SFF 711 (780)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHhC-cchHHHH-----HH---HHHH----------HHhccccccchhccH----HHH
Confidence 57789999999996654444456776 4333210 00 0000 001135699999999 355
Q ss_pred HHHhhhheee
Q 038653 331 NSLFGYLSIL 340 (437)
Q Consensus 331 ~~lFGYL~~l 340 (437)
.-+.+|+-+.
T Consensus 712 ~~l~~~lp~t 721 (780)
T COG1511 712 QILHPALPLT 721 (780)
T ss_pred HHHHHhccHH
Confidence 5555665443
No 15
>PRK05585 yajC preprotein translocase subunit YajC; Validated
Probab=35.98 E-value=45 Score=29.02 Aligned_cols=41 Identities=29% Similarity=0.380 Sum_probs=24.9
Q ss_pred hhHHHHHHHHHHHHhhcccccchhhhHHHhhHH-HhhccccCCC
Q 038653 378 KFLQILLLLSALVAVSWMPFPKPFLLKKQYQEL-KFQNKFYKGD 420 (437)
Q Consensus 378 ~~vQ~~LlliAlicVP~MLl~KPl~l~~~~~~~-~~~~~~~~~~ 420 (437)
.....++.++.++.+.+.+.-+|- ||+.+++ ++++..-+||
T Consensus 16 ~~~~~ll~lvii~~i~yf~~~Rpq--kK~~k~~~~~~~~Lk~Gd 57 (106)
T PRK05585 16 SGLSSLLPLVVFFAIFYFLIIRPQ--QKRQKEHKKMLSSLAKGD 57 (106)
T ss_pred CcHHHHHHHHHHHHHHHHHhccHH--HHHHHHHHHHHHhcCCCC
Confidence 445555666666666666666774 3333333 3888887776
No 16
>PF03188 Cytochrom_B561: Eukaryotic cytochrome b561; InterPro: IPR004877 Cytochrome b561 is a secretory vesicle-specific electron transport protein []. It is an integral membrane protein, that binds two haem groups non-covalently. This entry represents the eukaryotic family. Members of the 'bacterial cytochrome b561' family can be found in IPR011577 from INTERPRO.; GO: 0016021 integral to membrane
Probab=28.06 E-value=48 Score=28.89 Aligned_cols=21 Identities=33% Similarity=0.773 Sum_probs=19.0
Q ss_pred HHHHHHHHHHHHHhhhhhccc
Q 038653 248 YVIMMMALFSIYTGLIYNEFF 268 (437)
Q Consensus 248 YiILLMGlFSiYtGfIYND~F 268 (437)
|++.++|+.++++|+.++|.|
T Consensus 116 ~~~~~l~~~~i~~G~~~~~~f 136 (137)
T PF03188_consen 116 YLIYVLAIATIFLGLTEKAWF 136 (137)
T ss_pred HHHHHHHHHHHHHHHHHHHHh
Confidence 577889999999999999987
No 17
>PRK06531 yajC preprotein translocase subunit YajC; Validated
Probab=27.38 E-value=77 Score=28.09 Aligned_cols=37 Identities=24% Similarity=0.414 Sum_probs=23.1
Q ss_pred HHHHHHHHHHHhhcccccchhhhHHHhhHHH-hhccccCCC
Q 038653 381 QILLLLSALVAVSWMPFPKPFLLKKQYQELK-FQNKFYKGD 420 (437)
Q Consensus 381 Q~~LlliAlicVP~MLl~KPl~l~~~~~~~~-~~~~~~~~~ 420 (437)
..+++++.++.+-|+ +..|= +||+++++ +++..-+||
T Consensus 4 ~~il~~vv~~~i~yf-~iRPQ--kKr~Ke~~em~~sLk~GD 41 (113)
T PRK06531 4 PTIIMFVVMLGLIFF-MQRQQ--KKQAQERQNQLNAIQKGD 41 (113)
T ss_pred HHHHHHHHHHHHHHh-eechH--HHHHHHHHHHHHhcCCCC
Confidence 445566667777665 45663 44444443 888888887
No 18
>PF04530 Viral_Beta_CD: Viral Beta C/D like family; InterPro: IPR007617 This is a family of ssRNA positive-strand viral proteins. Conserved region is found in the Beta C and Beta D transcripts.
Probab=26.42 E-value=21 Score=32.04 Aligned_cols=10 Identities=60% Similarity=1.597 Sum_probs=9.3
Q ss_pred ccccccchHH
Q 038653 316 TYPFNVDPRW 325 (437)
Q Consensus 316 ~YPFGiDP~W 325 (437)
-||||.||.|
T Consensus 113 k~PfG~~p~~ 122 (122)
T PF04530_consen 113 KYPFGESPRW 122 (122)
T ss_pred hCCCCCCCCC
Confidence 5999999999
No 19
>PRK11638 lipopolysaccharide biosynthesis protein WzzE; Provisional
Probab=22.38 E-value=77 Score=33.02 Aligned_cols=37 Identities=22% Similarity=0.399 Sum_probs=32.3
Q ss_pred ccchhhhhhcchhHHHHHHHHHHHHHhhhhhccccccc
Q 038653 235 KLGDIVEMTFGGRYVIMMMALFSIYTGLIYNEFFSAPS 272 (437)
Q Consensus 235 ~~~ei~~m~f~GRYiILLMGlFSiYtGfIYND~FS~sl 272 (437)
+.-|++..+..|.++|+++.++..-.|++|. ++..|.
T Consensus 11 dl~~L~~~Lw~~k~~Ii~~t~~~~~~~~~~s-~~~~~~ 47 (342)
T PRK11638 11 DIRGLCRTLWAGKLWIIGMALLFALIALGYS-FLARQE 47 (342)
T ss_pred cHHHHHHHHHHhhHHHHHHHHHHHHHHHHHH-hcCCce
Confidence 4468999999999999999999999999999 777554
No 20
>PF13947 GUB_WAK_bind: Wall-associated receptor kinase galacturonan-binding
Probab=21.46 E-value=35 Score=28.70 Aligned_cols=9 Identities=44% Similarity=1.209 Sum_probs=8.0
Q ss_pred ccccccchH
Q 038653 316 TYPFNVDPR 324 (437)
Q Consensus 316 ~YPFGiDP~ 324 (437)
|||||+.+-
T Consensus 14 pYPFgi~~~ 22 (106)
T PF13947_consen 14 PYPFGIGPG 22 (106)
T ss_pred cCCCccCCC
Confidence 899999984
No 21
>PHA01815 hypothetical protein
Probab=20.74 E-value=68 Score=24.27 Aligned_cols=16 Identities=31% Similarity=0.856 Sum_probs=14.0
Q ss_pred hhHHHHHHHHHHHHHh
Q 038653 246 GRYVIMMMALFSIYTG 261 (437)
Q Consensus 246 GRYiILLMGlFSiYtG 261 (437)
--|+|+||-+.|.|-|
T Consensus 40 ifyiifl~viyalygg 55 (55)
T PHA01815 40 IFYIIFLMVIYALYGG 55 (55)
T ss_pred HHHHHHHHHHHHHhCC
Confidence 4699999999999976
Done!