Query 018319
Match_columns 358
No_of_seqs 163 out of 475
Neff 5.9
Searched_HMMs 46136
Date Fri Mar 29 08:00:22 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/018319.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/018319hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2443 Uncharacterized conser 100.0 1.3E-75 2.9E-80 562.2 22.2 311 3-358 15-354 (362)
2 KOG2442 Uncharacterized conser 100.0 3.2E-64 6.9E-69 500.0 21.0 302 14-349 186-522 (541)
3 PF04258 Peptidase_A22B: Signa 100.0 5.3E-64 1.1E-68 486.4 -0.5 261 50-343 5-298 (298)
4 smart00730 PSN Presenilin, sig 100.0 4.1E-45 9E-50 346.2 20.6 232 51-335 3-249 (249)
5 PF06550 DUF1119: Protein of u 99.0 2E-08 4.3E-13 96.3 15.9 126 129-282 92-226 (283)
6 COG3389 Uncharacterized protei 98.1 2.4E-06 5.3E-11 79.9 4.7 115 138-280 99-221 (277)
7 KOG2736 Presenilin [Signal tra 84.1 28 0.0006 35.6 13.5 46 257-319 318-363 (406)
8 COG1377 FlhB Flagellar biosynt 60.8 89 0.0019 31.9 10.6 21 172-192 194-214 (363)
9 PF01080 Presenilin: Presenili 56.9 27 0.00059 36.0 6.3 44 258-319 325-369 (403)
10 PF01080 Presenilin: Presenili 40.8 9.1 0.0002 39.4 0.0 47 146-194 147-195 (403)
11 KOG2927 Membrane component of 38.7 42 0.0009 34.1 4.2 21 136-156 240-264 (372)
12 PRK13755 putative mercury tran 35.6 3E+02 0.0066 24.1 10.4 39 57-95 23-62 (139)
13 PF12270 Cyt_c_ox_IV: Cytochro 31.4 3E+02 0.0066 24.3 7.9 82 12-93 34-124 (137)
14 PF13268 DUF4059: Protein of u 25.7 46 0.00099 26.2 1.6 26 18-44 18-43 (72)
15 PRK09108 type III secretion sy 25.4 7.2E+02 0.016 25.2 11.0 22 172-193 189-210 (353)
No 1
>KOG2443 consensus Uncharacterized conserved protein [Function unknown]
Probab=100.00 E-value=1.3e-75 Score=562.18 Aligned_cols=311 Identities=41% Similarity=0.686 Sum_probs=271.3
Q ss_pred hhhHHHHhhccchHHHHHHHHHHHhhhcchhhccchhhhhhccccccccccCccceeh-hhHHHHHHHHHHHHHHHHHH-
Q 018319 3 PLWKLLYLLEPAPVTLILTAVAVTFGSAFRALNYGKEMERNRDLSEASIMLDRSQALM-IPVMSSCSLVLMFYLFSSVS- 80 (358)
Q Consensus 3 ~~~~~~~~~~p~~~~l~~~a~~~i~~gs~rsl~~~~~~~~~~~~~e~~~~l~~~~A~~-FPv~aS~~Ll~Lyy~f~~v~- 80 (358)
+.|..-++++++++.++++|+++|++||+||++.++++|++|| .+++++.+||.. ||++|||+|+++|++|+.+.
T Consensus 15 ~~~~~~~~~~~~~~sl~l~A~l~i~~GsfRS~~~~~~~~d~~~---~~es~t~~~a~~~fPi~~s~tLl~lyl~fk~ls~ 91 (362)
T KOG2443|consen 15 THWTTSELLASAYVSLILIALLLIVIGSFRSLNYIKENEDKKD---KSESITKRDAGKMFPIIGSCTLLLLYLLFKPLSK 91 (362)
T ss_pred CcccchhhhcccchHHHHHHHHHHHHHHHHHhhhhhhhhcccc---hhhhhhhhhhcccCCcccchHHHHHHHHHHHHHH
Confidence 3588889999999999999999999999999999887766653 345789999987 99999999999999999764
Q ss_pred ---HHHHHHHHHHHHHHHHHHHHHHHHhhh----cccCC-----CCc--ccccccCCccchHHHHHHHHHHHHHHHHHhh
Q 018319 81 ---QLLTALTAVASVSSLFFCLSPYIAHVR----SQFGL-----ADP--FVSRCCSKSLTRIQWLLLLACTSVVVAWLVS 146 (358)
Q Consensus 81 ---~ll~~~~~i~g~~al~~~l~p~~~~~~----~~~~~-----~~~--~~~~~~~~~~~~~~~l~~~~~~~~~~~w~~~ 146 (358)
.+++.||++.|+.++...+.|+.+... +.++. +.+ ..+.++..+||+.+++++..|..++++|+.+
T Consensus 92 ~~~~ll~~~ff~~g~~al~~~~~p~~~~~~~~l~p~~~~~~~~~~~~~~~~~~~~~~~Ft~~~iv~~vls~~i~v~~ll~ 171 (362)
T KOG2443|consen 92 ELINLLTMYFFFLGVIALLSLLDPFINAFKFLLLPMCQYHLLFPRGPGEKKEFICNGKFTRAQIVALVLSSMIVVWYLLT 171 (362)
T ss_pred HHHHHHHHHHHHHHHHHHHHhhHHHHhhhhhhcCccchhheeeeccCCcccceeecccccHHHHHHHHHHHHHHHHHHhh
Confidence 367899999999999999999998322 11110 000 0234567899999999999999999999999
Q ss_pred chhhhhhHHHHHHHHHHHHhcccCcHhHHHHHHHHHHHHhhhhhhccccccCcceeeeeeccCCCCCcccccccCCCCcc
Q 018319 147 GHWILNNLLGIAICIAFVSHVRLPNIKICAMLLVCLFVYDIFWVFFSERFFGANVMVSVATQQASNPVHTVANSLSLPGL 226 (358)
Q Consensus 147 ~~Wil~Nilgi~~~i~~i~~l~l~s~k~~~iLL~~lf~YDIFwVF~tp~~fg~sVMvtVAtg~~~~~~~~~~~~~~~p~~ 226 (358)
+||++||++|+++|+++|+.+|+||+|+|++||.|||+||||||| ||||||||||
T Consensus 172 ~HWl~nN~lgms~~I~~I~~lrL~s~ktgalLL~gLffYDIfwVF------gTnVMVtVAt------------------- 226 (362)
T KOG2443|consen 172 KHWLANNLLGMSFCIAGIEFLRLPSLKTGALLLGGLFFYDIFWVF------GTNVMVTVAT------------------- 226 (362)
T ss_pred hHHHHHhHHHHHHHHHHHHHhcccchhhhHHHHHHHHHHheEEEe------cCceEEEeec-------------------
Confidence 999999999999999999999999999999999999999999997 5689999996
Q ss_pred cccccCcCCCEEEEecccCCCCCCCCCCCCccccccccchhhHHHHHHHHHHhhhccccCcccccccCCCCCcchhhhhh
Q 018319 227 QLITKKLELPVKIVFPRNLFGGVTPGGNATDFMMLGLGDMAMPAMLLALVLCFDHRKSSNTVSLFDLHSSKGHKYIWYAL 306 (358)
Q Consensus 227 ~~~~~~~~~PikL~~P~~~~~~~~~~~~~~~~SmLGLGDIViPGl~ia~~lrfD~~~~~~~~~~~~~~~~~~~~YF~~s~ 306 (358)
++|+|+||+||+..... +..+.+||||||||||+||+|+|+++|||.+++++ ++++.||+.++
T Consensus 227 -----~~D~PikL~fP~~l~~~---~~~as~fsMLGLGDIviPGiflAl~lRfD~~k~~~---------s~~~~YF~~t~ 289 (362)
T KOG2443|consen 227 -----SLDAPIKLVFPQKLLFP---GLTASNFSMLGLGDIVIPGIFLALVLRFDIRKKRN---------SKVRTYFHNTF 289 (362)
T ss_pred -----ccCCceEEecchhhccC---CCccccceeccccchhhHHHHHHHHHHhhHHHHhc---------ccCceEEEEeH
Confidence 58999999999987542 22266899999999999999999999999988653 24578999999
Q ss_pred HHHHHHHHHHHHhc-------------CCcccHHHHHHHHHHhhHHHhhcCCCCcCCCCcccccC
Q 018319 307 PGYAIGLVTALSAG-------------VPSTLGPVIVMSWVRKDLDELWEGTLSNINDKSHQIEV 358 (358)
Q Consensus 307 igY~~GL~~T~~a~-------------VP~~L~~~~~~A~~RgEl~~lW~~~~~~~~d~~~~~~~ 358 (358)
+||.+||+.|++++ ||+|+++.+++|++|||+|++|+++++...|+++++|+
T Consensus 290 i~Y~~gL~~ti~~~~~FkaAQPALLYlVP~~l~~~ll~A~~~gdlk~l~s~~~~~~~~~~~~~e~ 354 (362)
T KOG2443|consen 290 IAYFLGLLTTIVVLHIFKAAQPALLYLVPACLGPLLLMAYWRGDLKVLWSFDESTKEESAEQDEV 354 (362)
T ss_pred HHHHhhhHHHhhhhhhhhccchhhhhhhHHHHhHHHHHHHHccchHhhhCccccCCCCcHHHHhh
Confidence 99999999999864 99999999999999999999999999888888888874
No 2
>KOG2442 consensus Uncharacterized conserved protein, contains PA domain [General function prediction only]
Probab=100.00 E-value=3.2e-64 Score=500.04 Aligned_cols=302 Identities=29% Similarity=0.539 Sum_probs=256.3
Q ss_pred chHHHHHHHHHHHhhhcchhh-ccchhh-h--------------hhccccccccccCccceehhhHHHHHHHHHHHHHHH
Q 018319 14 APVTLILTAVAVTFGSAFRAL-NYGKEM-E--------------RNRDLSEASIMLDRSQALMIPVMSSCSLVLMFYLFS 77 (358)
Q Consensus 14 ~~~~l~~~a~~~i~~gs~rsl-~~~~~~-~--------------~~~~~~e~~~~l~~~~A~~FPv~aS~~Ll~Lyy~f~ 77 (358)
+.+-+.++|+..|..|++=|- ++.++. | ++|+.+|+..++++-.|..|.+.+|.+|+.+|||.+
T Consensus 186 ~~v~iwlmAVgTVa~ggyWs~~t~~~~~~~a~~~~~d~~s~~~~~~~~~e~~~vd~s~i~~~~fvv~~c~~LvLlyfF~~ 265 (541)
T KOG2442|consen 186 AMVFIWLMAVGTVACGGYWSGLTEREKAIEADRLLDDDSSSEGNTKETKEEEVVDISPITAVFFVVTACGFLVLLYFFYS 265 (541)
T ss_pred HHHHHHHHHHhHhhccchhhhccChhhhhhhhhhcccccccccccccCCccccEEeeeeEEEEehhhhHHHHHHHHHHHH
Confidence 345689999999988888553 221111 1 012345667789999999999999999999999989
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcccCCCCcccccccCCccchHHHHHHHHHHHHHHHHHhhc----hhhhhh
Q 018319 78 SVSQLLTALTAVASVSSLFFCLSPYIAHVRSQFGLADPFVSRCCSKSLTRIQWLLLLACTSVVVAWLVSG----HWILNN 153 (358)
Q Consensus 78 ~v~~ll~~~~~i~g~~al~~~l~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~w~~~~----~Wil~N 153 (358)
++.++++++||+.|+.++++|+.|+++++..+ ..++....+..++.+...+++..+|+++++.|.+.| +|++||
T Consensus 266 ~~V~v~iiif~i~g~~gLy~Cl~~lv~r~~~~--~~~~~~~~~~l~~~~~~~l~l~~~Cia~aV~W~v~R~e~~AwilqD 343 (541)
T KOG2442|consen 266 YLVYVLIIIFCIGGAQGLYNCLAALVHRLPYG--AARFPTLAPRLGNMSYRLLFLSILCIAVAVVWAVFRNEDWAWILQD 343 (541)
T ss_pred HHHHHHhhheeecccchHHHHHHHHHhhhhhh--cccccccccccCChhHHHHHHHHhhhheeEEEEEeecCchHHHHHh
Confidence 99999999999999999999999999987653 222222233456778889999999999999998764 699999
Q ss_pred HHHHHHHHHHHHhcccCcHhHHHHHHHHHHHHhhhhhhcccccc--CcceeeeeeccCCCCCcccccccCCCCccccccc
Q 018319 154 LLGIAICIAFVSHVRLPNIKICAMLLVCLFVYDIFWVFFSERFF--GANVMVSVATQQASNPVHTVANSLSLPGLQLITK 231 (358)
Q Consensus 154 ilgi~~~i~~i~~l~l~s~k~~~iLL~~lf~YDIFwVF~tp~~f--g~sVMvtVAtg~~~~~~~~~~~~~~~p~~~~~~~ 231 (358)
++|||+|++.++.+|+||+|++++||.++|+|||||||+||++| |+|||++||+|+.++
T Consensus 344 vLGIalci~vLk~vRLPnlK~~tiLL~c~f~YDiF~VFitp~~t~~geSVMieVA~G~~s~------------------- 404 (541)
T KOG2442|consen 344 VLGIALCITVLKTVRLPNLKVCTILLLCLFLYDIFFVFITPFITKNGESVMIEVARGPSST------------------- 404 (541)
T ss_pred hHhHHHHHHHHHHhcCCchhHHHHHHHHHHHHhhheeeeehhhccCCceEEEEEecCCCCC-------------------
Confidence 99999999999999999999999999999999999999999998 699999999998665
Q ss_pred CcCCCEEEEecccCCCCCCCCCCCCccccccccchhhHHHHHHHHHHhhhccccCcccccccCCCCCcchhhhhhHHHHH
Q 018319 232 KLELPVKIVFPRNLFGGVTPGGNATDFMMLGLGDMAMPAMLLALVLCFDHRKSSNTVSLFDLHSSKGHKYIWYALPGYAI 311 (358)
Q Consensus 232 ~~~~PikL~~P~~~~~~~~~~~~~~~~SmLGLGDIViPGl~ia~~lrfD~~~~~~~~~~~~~~~~~~~~YF~~s~igY~~ 311 (358)
.+.+||.|++||..... ..+++++|||||+|||++||++||||+|||.... +.++.||.++++||++
T Consensus 405 ~EkiPMlLkVPrl~~s~--~~~~~~~~silGFGDIl~PGlLVa~c~RfD~~~~-----------~~~~iYfv~~tvaYgi 471 (541)
T KOG2442|consen 405 EEKIPMLLKVPRLFFSV--LSDPWGGYSILGFGDILVPGLLVAFCLRFDVQVN-----------SVSNIYFVWSTVAYGI 471 (541)
T ss_pred CCCcceEEEcchhcccc--ccccCCCeeEeeecccccchHHHHHHHHhhhhcc-----------ccceeEEehhHHHHHH
Confidence 46899999999997321 2367899999999999999999999999998753 2267999999999999
Q ss_pred HHHHHHHhc-------------CCcccHHHHHHHHHHhhHHHhhcCCCCcC
Q 018319 312 GLVTALSAG-------------VPSTLGPVIVMSWVRKDLDELWEGTLSNI 349 (358)
Q Consensus 312 GL~~T~~a~-------------VP~~L~~~~~~A~~RgEl~~lW~~~~~~~ 349 (358)
||++|+.|+ |||||++....|++|||++++|+|..++.
T Consensus 472 GLlvTfvaL~LM~~GQPALLYLVP~TL~t~~~lal~R~El~~fWtg~~~~~ 522 (541)
T KOG2442|consen 472 GLLVTFVALVLMKGGQPALLYLVPCTLGTAVVLALCRGELKKFWTGGSYQK 522 (541)
T ss_pred HHHHHHHHHHHhcCCCceEEEEechHHHHHHHHHHHHHHHHHHhccCCccc
Confidence 999999873 99999999999999999999999988765
No 3
>PF04258 Peptidase_A22B: Signal peptide peptidase; InterPro: IPR007369 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Aspartic endopeptidases 3.4.23. from EC of vertebrate, fungal and retroviral origin have been characterised []. More recently, aspartic endopeptidases associated with the processing of bacterial type 4 prepilin [] and archaean preflagellin have been described [, ]. Structurally, aspartic endopeptidases are bilobal enzymes, each lobe contributing a catalytic Asp residue, with an extended active site cleft localised between the two lobes of the molecule. One lobe has probably evolved from the other through a gene duplication event in the distant past. In modern-day enzymes, although the three-dimensional structures are very similar, the amino acid sequences are more divergent, except for the catalytic site motif, which is very conserved. The presence and position of disulphide bridges are other conserved features of aspartic peptidases. All or most aspartate peptidases are endopeptidases. These enzymes have been assigned into clans (proteins which are evolutionary related), and further sub-divided into families, largely on the basis of their tertiary structure. This group of sequences contain aspartic endopeptidases belong to MEROPS peptidase family A22 (presenilin family, clan AD): subfamily A22B. The peptidases were originally classified by hierarchical homology to the most conserved member - IMPAS 1. They are also known as signal peptide peptidase (SPP) []. They belong to the I-CliP family of peptidases. SPP cleaves cleaves remnant signal peptides left behind in the membrane by the action of signal peptidase and also plays key roles in immune surveillance and the maturation of certain viral proteins []. SPPs do not require cofactors as demonstrated by expression in bacteria and purification of a proteolytically active form. The C-terminal region defines the functional domain, which is in itself sufficient for proteolytic activity []. ; GO: 0004190 aspartic-type endopeptidase activity, 0016021 integral to membrane; PDB: 1JUF_C 1INQ_C.
Probab=100.00 E-value=5.3e-64 Score=486.39 Aligned_cols=261 Identities=37% Similarity=0.726 Sum_probs=0.9
Q ss_pred ccccCccceehhhHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHHhhhcccC---CCCccc--
Q 018319 50 SIMLDRSQALMIPVMSSCSLVLMFYLFSSVS-------QLLTALTAVASVSSLFFCLSPYIAHVRSQFG---LADPFV-- 117 (358)
Q Consensus 50 ~~~l~~~~A~~FPv~aS~~Ll~Lyy~f~~v~-------~ll~~~~~i~g~~al~~~l~p~~~~~~~~~~---~~~~~~-- 117 (358)
.+++|++||++||++|||+|+++||+++++. .+++.|++++|+.++..++.|.+.+..+..+ ......
T Consensus 5 ~~~is~~~A~~fpv~~S~~L~gLY~~~k~l~~~~i~~~~vl~~~f~~~gv~a~~~~i~~~l~~~~~~~~~~~~~~~~~~~ 84 (298)
T PF04258_consen 5 EETISSKDALIFPVVASCVLLGLYFFFKYLDKDLINIIYVLTVYFCLAGVIALSFLILPFLTYIFPFFPCRSFPWKKWKL 84 (298)
T ss_dssp --------------------------------------------------------------------------------
T ss_pred ccccCHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccccccceEEE
Confidence 3479999999999999999999999999765 4889999999999988888887765433111 000000
Q ss_pred --c----cccCCccchHHHHHHHHHHHHHHHHHh-hc-hhhhhhHHHHHHHHHHHHhcccCcHhHHHHHHHHHHHHhhhh
Q 018319 118 --S----RCCSKSLTRIQWLLLLACTSVVVAWLV-SG-HWILNNLLGIAICIAFVSHVRLPNIKICAMLLVCLFVYDIFW 189 (358)
Q Consensus 118 --~----~~~~~~~~~~~~l~~~~~~~~~~~w~~-~~-~Wil~Nilgi~~~i~~i~~l~l~s~k~~~iLL~~lf~YDIFw 189 (358)
. +.+..+++..++++..+|+++++.|++ ++ ||++||++|+|+|+++++.+|+||+|+++++|+++|+|||||
T Consensus 85 ~~~~~~~~~~~~~~~~~~l~~~~~s~~~~~~w~~~~~~~W~l~nilgi~~~i~~i~~i~l~s~k~~~ilL~~lf~YDif~ 164 (298)
T PF04258_consen 85 SFPRRDIKPFSGSFTLSDLLSFLISLAIAVVWYVYRNEHWILQNILGICFCINIISLIRLPSFKTATILLIGLFLYDIFW 164 (298)
T ss_dssp ------------------------------S-------------------------------------------------
T ss_pred EEEcccccceeeeeeHHHHHHHHHHHHHHHHHHHhccchHHHHhHHHHHHHHHHHHheeccchHHHHHHHHHHHHHHHHH
Confidence 0 134567888899999999999999876 45 899999999999999999999999999999999999999999
Q ss_pred hhccccccCcceeeeeeccCCCCCcccccccCCCCcccccccCcCCCEEEEecccCCCCCCCCCCCCccccccccchhhH
Q 018319 190 VFFSERFFGANVMVSVATQQASNPVHTVANSLSLPGLQLITKKLELPVKIVFPRNLFGGVTPGGNATDFMMLGLGDMAMP 269 (358)
Q Consensus 190 VF~tp~~fg~sVMvtVAtg~~~~~~~~~~~~~~~p~~~~~~~~~~~PikL~~P~~~~~~~~~~~~~~~~SmLGLGDIViP 269 (358)
||+||++||+|||++||||+.++| .++|+|+++||..... .++.+++|||||||||+|
T Consensus 165 VF~s~~~~g~svM~~VA~~~~~~~-------------------~~~P~~l~~P~~~~~~---~~~~~~~s~LGlGDIviP 222 (298)
T PF04258_consen 165 VFISPYFFGTSVMVTVATGGFDAP-------------------EKLPIKLQFPRFFDSN---SSCPKPFSMLGLGDIVIP 222 (298)
T ss_dssp --------------------------------------------------------------------------------
T ss_pred HHhccccCCCchhhhhhccccccc-------------------cCCCeEEEEecccccc---ccCCCCeeEeccchHHHH
Confidence 999999999999999999754432 3579999999985421 245789999999999999
Q ss_pred HHHHHHHHHhhhccccCcccccccCCCCCcchhhhhhHHHHHHHHHHHHhc-------------CCcccHHHHHHHHHHh
Q 018319 270 AMLLALVLCFDHRKSSNTVSLFDLHSSKGHKYIWYALPGYAIGLVTALSAG-------------VPSTLGPVIVMSWVRK 336 (358)
Q Consensus 270 Gl~ia~~lrfD~~~~~~~~~~~~~~~~~~~~YF~~s~igY~~GL~~T~~a~-------------VP~~L~~~~~~A~~Rg 336 (358)
|+|+++|+|||.++. .++++||.++++||++||++|++++ ||+|+++++++|++||
T Consensus 223 Gl~i~~~~rfD~~~~-----------~~~~~Yf~~~~~~Y~~Gl~~t~~~~~~~~~~QPALlylvP~~l~~~~~~a~~r~ 291 (298)
T PF04258_consen 223 GLFIAFCLRFDKSRN-----------KSRKPYFIASLIGYALGLLLTFVALHLFKHGQPALLYLVPCTLGSVLLVAWIRG 291 (298)
T ss_dssp --------------------------------------------------------------------------------
T ss_pred HHHHHHHHHhhHhhc-----------cccchHHHHHHHHHHHHHHHHHHHHHHhCCCCCeehHHHHHHHHHHHHHHHHhh
Confidence 999999999999872 2356799999999999999999874 9999999999999999
Q ss_pred hHHHhhc
Q 018319 337 DLDELWE 343 (358)
Q Consensus 337 El~~lW~ 343 (358)
|++++||
T Consensus 292 el~~~w~ 298 (298)
T PF04258_consen 292 ELKDFWN 298 (298)
T ss_dssp -------
T ss_pred HHHHhhC
Confidence 9999997
No 4
>smart00730 PSN Presenilin, signal peptide peptidase, family. Presenilin 1 and presenilin 2 are polytopic membrane proteins, whose genes are mutated in some individuals with Alzheimer's disease. Distant homologues, present in eukaryotes and archaea, also contain conserved aspartic acid residues which are predicted to contribute to catalysis. At least one member of this family has been shown to possess signal peptide peptidase activity.
Probab=100.00 E-value=4.1e-45 Score=346.17 Aligned_cols=232 Identities=30% Similarity=0.473 Sum_probs=197.5
Q ss_pred cccCccceehhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcccCCCCcccccccCCccchHHH
Q 018319 51 IMLDRSQALMIPVMSSCSLVLMFYLFSSVSQLLTALTAVASVSSLFFCLSPYIAHVRSQFGLADPFVSRCCSKSLTRIQW 130 (358)
Q Consensus 51 ~~l~~~~A~~FPv~aS~~Ll~Lyy~f~~v~~ll~~~~~i~g~~al~~~l~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 130 (358)
+.+|+.+++.||+++|++|+++|+++++.+..+..|+++.|+.+++.++.+..... .+....
T Consensus 3 ~~~n~~~~i~fii~~s~~Ll~Ly~~~~~~~i~~~~~f~~~~~~~~~~~~~~~~~~~------------------~~~~~~ 64 (249)
T smart00730 3 SLLNSLVAIVFPIVATFVLVLLYKFFKYLVIVLVIYFSSLGVLFLYSLLYPLEVFR------------------VDYPTL 64 (249)
T ss_pred ccccHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH------------------HhHHHH
Confidence 36899999999999999999999999888888999999999999999988765432 123445
Q ss_pred HHHHHHHHHHHHHHhh-c-hhhhhhHHHHHHHHHHHHhcccCcHhHHHHHHHHHHHHhhhhhhccccccCcceeeeeecc
Q 018319 131 LLLLACTSVVVAWLVS-G-HWILNNLLGIAICIAFVSHVRLPNIKICAMLLVCLFVYDIFWVFFSERFFGANVMVSVATQ 208 (358)
Q Consensus 131 l~~~~~~~~~~~w~~~-~-~Wil~Nilgi~~~i~~i~~l~l~s~k~~~iLL~~lf~YDIFwVF~tp~~fg~sVMvtVAtg 208 (358)
+....+.+++..|.+. | ||+.||++|+++|+++++.+|+||+|++++||+++++||+||||.||. |++|||+||+|
T Consensus 65 ~~~~~~~~v~~~~~~~~~~~w~~~~~lgi~~~~~~~~~~~l~~~~~~~iLL~~l~iYDif~Vf~t~~--~~~vMv~vA~~ 142 (249)
T smart00730 65 LILLLNFAVVGFWCIHRKGAWIQQDLIGISLCMAILFILRLPSEWTAWILLGALFIYDIFAVFGTPG--PLRVMVEVATG 142 (249)
T ss_pred HHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHheeecCCC--CchHHhhHhcc
Confidence 6667777777777665 3 999999999999999999999999999999999999999999999984 99999999986
Q ss_pred CCCCCcccccccCCCCcccccccCcCCCEEEEecccCCCCCCCCCCCCccccccccchhhHHHHHHHHHHhhhccccCcc
Q 018319 209 QASNPVHTVANSLSLPGLQLITKKLELPVKIVFPRNLFGGVTPGGNATDFMMLGLGDMAMPAMLLALVLCFDHRKSSNTV 288 (358)
Q Consensus 209 ~~~~~~~~~~~~~~~p~~~~~~~~~~~PikL~~P~~~~~~~~~~~~~~~~SmLGLGDIViPGl~ia~~lrfD~~~~~~~~ 288 (358)
..++ .+..|+++..||...+ ..+.+.+++|||||||||+||+++++|+|||.+++
T Consensus 143 ~~~~-------------------~~~~P~ll~~p~~~~~--~~~~~~~~~~~LGLGDiv~Pgilv~~a~~fd~~~~---- 197 (249)
T smart00730 143 RDEP-------------------IKVFPALLYVPRLVVS--FEDDEEGRFSMLGLGDIVFPGILVASAARFDVSVR---- 197 (249)
T ss_pred CCCC-------------------cccCChhhcccccccc--cccCCCCccceecCCCeeeHHHHHHHHHHhhhccc----
Confidence 4331 1457999999986432 12345678999999999999999999999998642
Q ss_pred cccccCCCCCcchhhhhhHHHHHHHHHHHHhc-------------CCcccHHHHHHHHHH
Q 018319 289 SLFDLHSSKGHKYIWYALPGYAIGLVTALSAG-------------VPSTLGPVIVMSWVR 335 (358)
Q Consensus 289 ~~~~~~~~~~~~YF~~s~igY~~GL~~T~~a~-------------VP~~L~~~~~~A~~R 335 (358)
+++.||.+|++||.+||+.|++++ ||+++++.+++|+.|
T Consensus 198 --------~~~~yf~~~~~ay~~GL~~t~~~l~~~~~aqPALlylvp~~l~~~~~~~~~r 249 (249)
T smart00730 198 --------SDSNYFLACFVAYGIGLILTLVLLALFKKAQPALPYLVPFTLVFYLLTALLR 249 (249)
T ss_pred --------CCcccHHHHHHHHHHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHHHHHhC
Confidence 356799999999999999999863 999999999999987
No 5
>PF06550 DUF1119: Protein of unknown function (DUF1119); InterPro: IPR010545 This family consists of several hypothetical archaeal proteins of unknown function.
Probab=98.97 E-value=2e-08 Score=96.33 Aligned_cols=126 Identities=22% Similarity=0.343 Sum_probs=94.2
Q ss_pred HHHHHHHHHHHHHHHHhhchhhhhhHHHHHHHHH--HHHhcccCcHhHHHHHHHHHHHHhhhhhhccccccCcceeeeee
Q 018319 129 QWLLLLACTSVVVAWLVSGHWILNNLLGIAICIA--FVSHVRLPNIKICAMLLVCLFVYDIFWVFFSERFFGANVMVSVA 206 (358)
Q Consensus 129 ~~l~~~~~~~~~~~w~~~~~Wil~Nilgi~~~i~--~i~~l~l~s~k~~~iLL~~lf~YDIFwVF~tp~~fg~sVMvtVA 206 (358)
...+...+.++++..+....|+..|+.|+.++.. ++--+++.= -.+.+||..+-+||..=||.| .-|+|.|
T Consensus 92 ~~~a~~~ai~~~~~L~~ypEWYviD~~Gil~~aG~aaiFGISl~~-lpaiiLL~iLAVYDaISVYkT------kHMltLA 164 (283)
T PF06550_consen 92 NIIALILAIALTALLYKYPEWYVIDIAGILMGAGAAAIFGISLGI-LPAIILLAILAVYDAISVYKT------KHMLTLA 164 (283)
T ss_pred HHHHHHHHHHHHHHHHhcchHHHHHHHHHHHHhHHHHHHhhhccH-HHHHHHHHHHHHhhhhheecc------hHHHHHH
Confidence 3455666666677667778999999999999866 455556654 458899999999999999855 6999999
Q ss_pred ccCCCCCcccccccCCCCcccccccCcCCCEEEEecccCCCCCCC-------CCCCCccccccccchhhHHHHHHHHHHh
Q 018319 207 TQQASNPVHTVANSLSLPGLQLITKKLELPVKIVFPRNLFGGVTP-------GGNATDFMMLGLGDMAMPAMLLALVLCF 279 (358)
Q Consensus 207 tg~~~~~~~~~~~~~~~p~~~~~~~~~~~PikL~~P~~~~~~~~~-------~~~~~~~SmLGLGDIViPGl~ia~~lrf 279 (358)
.|- -..++|+.+++|+.......+ ..++|+--++|+||.++|.++++-...|
T Consensus 165 egv---------------------~d~klPilfViP~~~~ySf~~~~~~~~~~~~~r~a~fiGlGD~vmPtILVvSa~~f 223 (283)
T PF06550_consen 165 EGV---------------------MDLKLPILFVIPKKRGYSFLKDGFDNREEKEERDAFFIGLGDAVMPTILVVSAAFF 223 (283)
T ss_pred HHH---------------------hccCCceEEEEecccCccccccccccccccccccceEeccchhhhHHHHHHHHHHh
Confidence 752 246899999999875432211 0112344589999999999999988888
Q ss_pred hhc
Q 018319 280 DHR 282 (358)
Q Consensus 280 D~~ 282 (358)
...
T Consensus 224 ~~~ 226 (283)
T PF06550_consen 224 LSA 226 (283)
T ss_pred ccc
Confidence 643
No 6
>COG3389 Uncharacterized protein conserved in archaea [Function unknown]
Probab=98.14 E-value=2.4e-06 Score=79.87 Aligned_cols=115 Identities=26% Similarity=0.471 Sum_probs=82.2
Q ss_pred HHHHHHH--hhchhhhhhHHHHHHHHHH--HHhcccCcHhHHHHHHHHHHHHhhhhhhccccccCcceeeeeeccCCCCC
Q 018319 138 SVVVAWL--VSGHWILNNLLGIAICIAF--VSHVRLPNIKICAMLLVCLFVYDIFWVFFSERFFGANVMVSVATQQASNP 213 (358)
Q Consensus 138 ~~~~~w~--~~~~Wil~Nilgi~~~i~~--i~~l~l~s~k~~~iLL~~lf~YDIFwVF~tp~~fg~sVMvtVAtg~~~~~ 213 (358)
+++..+. ....|+.-|..|.+++... +--+++.-+. +..+|..+=+||..=|+.| .-|++.|.|-
T Consensus 99 aI~~~~lL~~~peWyVid~ag~~la~Giaai~GIsfgv~p-avvlL~~lavYDaIsVYkT------~HMIslA~~v---- 167 (277)
T COG3389 99 AIGLVYLLYKYPEWYVIDLAGFFLAVGIAAIFGISFGVLP-AVVLLIALAVYDAISVYKT------RHMISLAEGV---- 167 (277)
T ss_pred HHHHHHhhhhccceEEeehHHHHHHhhHHHhheeecchHH-HHHHHHHHHHHHHHHHHhH------HHHHHHHHHH----
Confidence 4444443 3467999999999887655 4445554443 6788999999999999855 6999999752
Q ss_pred cccccccCCCCcccccccCcCCCEEEEecccCCCCCC----CCCCCCccccccccchhhHHHHHHHHHHhh
Q 018319 214 VHTVANSLSLPGLQLITKKLELPVKIVFPRNLFGGVT----PGGNATDFMMLGLGDMAMPAMLLALVLCFD 280 (358)
Q Consensus 214 ~~~~~~~~~~p~~~~~~~~~~~PikL~~P~~~~~~~~----~~~~~~~~SmLGLGDIViPGl~ia~~lrfD 280 (358)
...|+||.+++|.+..-... +.-.+++-=|.|+||+++|-+++.-..-|-
T Consensus 168 -----------------~d~~lPmlfviP~~l~ysf~~~~fe~r~dgna~miG~GDavmPsIlVvSaa~f~ 221 (277)
T COG3389 168 -----------------MDLDLPMLFVIPENLAYSFVEDAFENRGDGNAYMIGLGDAVMPSILVVSAAFFL 221 (277)
T ss_pred -----------------HhcCCceEEEeecccccceeehhhhcCCCCceEEEeechhhcccceeeehHHhc
Confidence 24799999999976432211 112234555999999999999987666653
No 7
>KOG2736 consensus Presenilin [Signal transduction mechanisms]
Probab=84.11 E-value=28 Score=35.58 Aligned_cols=46 Identities=22% Similarity=0.309 Sum_probs=32.7
Q ss_pred ccccccccchhhHHHHHHHHHHhhhccccCcccccccCCCCCcchhhhhhHHHHHHHHHHHHh
Q 018319 257 DFMMLGLGDMAMPAMLLALVLCFDHRKSSNTVSLFDLHSSKGHKYIWYALPGYAIGLVTALSA 319 (358)
Q Consensus 257 ~~SmLGLGDIViPGl~ia~~lrfD~~~~~~~~~~~~~~~~~~~~YF~~s~igY~~GL~~T~~a 319 (358)
+---|||||-|+=-++++-+.-+|-. .=-++|.+|-.+||.+|...
T Consensus 318 r~ikLGlGDFIFYSvLvGkAa~~~d~-----------------~TviAC~vaIL~GL~~TL~l 363 (406)
T KOG2736|consen 318 RGIKLGLGDFIFYSVLVGKAAAYGDL-----------------NTVIACFVAILIGLCLTLLL 363 (406)
T ss_pred cceeeccCceEEEEeeccchhhcCCh-----------------HHHHHHHHHHHHHHHHHHHH
Confidence 34479999999877777655444411 12368899999999999864
No 8
>COG1377 FlhB Flagellar biosynthesis pathway, component FlhB [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=60.78 E-value=89 Score=31.88 Aligned_cols=21 Identities=24% Similarity=0.513 Sum_probs=13.9
Q ss_pred HhHHHHHHHHHHHHhhhhhhc
Q 018319 172 IKICAMLLVCLFVYDIFWVFF 192 (358)
Q Consensus 172 ~k~~~iLL~~lf~YDIFwVF~ 192 (358)
+-.+.+++..+-+.|++|--.
T Consensus 194 ~l~~~~~~liia~~D~~~qr~ 214 (363)
T COG1377 194 LLAVLLLLLIVAAFDYFYQRF 214 (363)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 334555566666789999854
No 9
>PF01080 Presenilin: Presenilin Alzheimer disease; InterPro: IPR001108 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Aspartic endopeptidases 3.4.23. from EC of vertebrate, fungal and retroviral origin have been characterised []. More recently, aspartic endopeptidases associated with the processing of bacterial type 4 prepilin [] and archaean preflagellin have been described [, ]. Structurally, aspartic endopeptidases are bilobal enzymes, each lobe contributing a catalytic Asp residue, with an extended active site cleft localised between the two lobes of the molecule. One lobe has probably evolved from the other through a gene duplication event in the distant past. In modern-day enzymes, although the three-dimensional structures are very similar, the amino acid sequences are more divergent, except for the catalytic site motif, which is very conserved. The presence and position of disulphide bridges are other conserved features of aspartic peptidases. All or most aspartate peptidases are endopeptidases. These enzymes have been assigned into clans (proteins which are evolutionary related), and further sub-divided into families, largely on the basis of their tertiary structure. This group of aspartic peptidases belong to MEROPS peptidase family A22 (presenilin family, clan AD): subfamily A22A, the type example being presenilin 1 from Homo sapiens (Human). Presenilins are polytopic transmembrane (TM) proteins, mutations in which are associated with the occurrence of early-onset familial Alzheimer's disease, a rare form of the disease that results from a single-gene mutation [, ]. The physiological functions of presenilins are unknown, but they may be related to developmental signalling, apoptotic signal transduction, or processing of selected proteins, such as the beta-amyloid precursor protein(beta-APP). There are a number of subtypes which belong to this presenilin family. That presenilin homologues have been identified in species that do not have an Alzhemier's disease correlate suggests that they may have functions unrelated to the disease, homologues having been identified in mouse, Drosophila melanogaster, Caenorhabditis elegans [] and other members of the eukarya including plants. ; GO: 0004190 aspartic-type endopeptidase activity, 0016021 integral to membrane; PDB: 2KR6_A.
Probab=56.92 E-value=27 Score=36.00 Aligned_cols=44 Identities=25% Similarity=0.350 Sum_probs=33.7
Q ss_pred cccccccchhhHHHHHHHHHHh-hhccccCcccccccCCCCCcchhhhhhHHHHHHHHHHHHh
Q 018319 258 FMMLGLGDMAMPAMLLALVLCF-DHRKSSNTVSLFDLHSSKGHKYIWYALPGYAIGLVTALSA 319 (358)
Q Consensus 258 ~SmLGLGDIViPGl~ia~~lrf-D~~~~~~~~~~~~~~~~~~~~YF~~s~igY~~GL~~T~~a 319 (358)
---|||||-|+=+++++-+.++ |. .-..+|++|=.+||.+|+..
T Consensus 325 ~~klGlGDFiFYs~Lvg~aa~~~~~------------------~~~~~~~~ail~Gl~~Tl~~ 369 (403)
T PF01080_consen 325 GIKLGLGDFIFYSVLVGRAAMYGDW------------------NTVVACFVAILIGLCLTLLL 369 (403)
T ss_dssp --SS-TTTHHHHHHHHHHHHHH-TT------------------TTHHHHHHHHHHHHHHHHHH
T ss_pred ceeecchhHHHHHHHHhHHHhcCCH------------------HHHHHHHHHHHHHHHHHHHH
Confidence 3469999999999999987765 32 23578899999999999865
No 10
>PF01080 Presenilin: Presenilin Alzheimer disease; InterPro: IPR001108 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Aspartic endopeptidases 3.4.23. from EC of vertebrate, fungal and retroviral origin have been characterised []. More recently, aspartic endopeptidases associated with the processing of bacterial type 4 prepilin [] and archaean preflagellin have been described [, ]. Structurally, aspartic endopeptidases are bilobal enzymes, each lobe contributing a catalytic Asp residue, with an extended active site cleft localised between the two lobes of the molecule. One lobe has probably evolved from the other through a gene duplication event in the distant past. In modern-day enzymes, although the three-dimensional structures are very similar, the amino acid sequences are more divergent, except for the catalytic site motif, which is very conserved. The presence and position of disulphide bridges are other conserved features of aspartic peptidases. All or most aspartate peptidases are endopeptidases. These enzymes have been assigned into clans (proteins which are evolutionary related), and further sub-divided into families, largely on the basis of their tertiary structure. This group of aspartic peptidases belong to MEROPS peptidase family A22 (presenilin family, clan AD): subfamily A22A, the type example being presenilin 1 from Homo sapiens (Human). Presenilins are polytopic transmembrane (TM) proteins, mutations in which are associated with the occurrence of early-onset familial Alzheimer's disease, a rare form of the disease that results from a single-gene mutation [, ]. The physiological functions of presenilins are unknown, but they may be related to developmental signalling, apoptotic signal transduction, or processing of selected proteins, such as the beta-amyloid precursor protein(beta-APP). There are a number of subtypes which belong to this presenilin family. That presenilin homologues have been identified in species that do not have an Alzhemier's disease correlate suggests that they may have functions unrelated to the disease, homologues having been identified in mouse, Drosophila melanogaster, Caenorhabditis elegans [] and other members of the eukarya including plants. ; GO: 0004190 aspartic-type endopeptidase activity, 0016021 integral to membrane; PDB: 2KR6_A.
Probab=40.78 E-value=9.1 Score=39.38 Aligned_cols=47 Identities=28% Similarity=0.463 Sum_probs=0.0
Q ss_pred hchhhhhhHHHHHHHHHHH-Hhcc-cCcHhHHHHHHHHHHHHhhhhhhccc
Q 018319 146 SGHWILNNLLGIAICIAFV-SHVR-LPNIKICAMLLVCLFVYDIFWVFFSE 194 (358)
Q Consensus 146 ~~~Wil~Nilgi~~~i~~i-~~l~-l~s~k~~~iLL~~lf~YDIFwVF~tp 194 (358)
.++=.+|..-=++.|.-.- -.++ +|. .+.=.+|+.+-+||+|=|- +|
T Consensus 147 ~~Pl~l~Q~YLI~is~l~A~~~l~~lPe-WTtW~lL~~iaiyDl~AVL-~P 195 (403)
T PF01080_consen 147 KGPLLLQQAYLIMISVLMALFFLKYLPE-WTTWFLLVAIAIYDLFAVL-CP 195 (403)
T ss_dssp ---------------------------------------------------
T ss_pred CCcHHHHHHHHHHHHHHHHHHHHHcCCc-hHHHHHHHHHHHHHHeeEe-CC
Confidence 3455666655455444332 3344 777 5677889999999999995 45
No 11
>KOG2927 consensus Membrane component of ER protein translocation complex [Intracellular trafficking, secretion, and vesicular transport]
Probab=38.69 E-value=42 Score=34.06 Aligned_cols=21 Identities=29% Similarity=0.841 Sum_probs=17.2
Q ss_pred HHHHHHHHHhhc--h--hhhhhHHH
Q 018319 136 CTSVVVAWLVSG--H--WILNNLLG 156 (358)
Q Consensus 136 ~~~~~~~w~~~~--~--Wil~Nilg 156 (358)
++++++.|++++ | |++-|++.
T Consensus 240 lILF~I~~il~~g~~g~W~FPNL~e 264 (372)
T KOG2927|consen 240 LILFGITWILTGGKHGFWLFPNLTE 264 (372)
T ss_pred HHHHHHHHHHhCCCCceEeccchhh
Confidence 567789998876 3 99999987
No 12
>PRK13755 putative mercury transport protein MerC; Provisional
Probab=35.57 E-value=3e+02 Score=24.06 Aligned_cols=39 Identities=15% Similarity=0.191 Sum_probs=24.3
Q ss_pred ceehhhHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHH
Q 018319 57 QALMIPVMSSCSL-VLMFYLFSSVSQLLTALTAVASVSSL 95 (358)
Q Consensus 57 ~A~~FPv~aS~~L-l~Lyy~f~~v~~ll~~~~~i~g~~al 95 (358)
=|..||-++|..- .+|-|+-+|=..+++...-+.+..++
T Consensus 23 CA~CFPAlASLGAAIGLGFLsq~EGLFi~~LlPlFA~iAL 62 (139)
T PRK13755 23 CAACFPALASLGAAIGLGFLSQYEGLFISTLLPLFAAIAL 62 (139)
T ss_pred HHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHH
Confidence 5789999999644 67777666544444444444444443
No 13
>PF12270 Cyt_c_ox_IV: Cytochrome c oxidase subunit IV; InterPro: IPR021050 This family of proteins is found in bacteria. Proteins in this family are approximately 140 amino acids in length. This family is the fourth subunit of the cytochrome c oxidase complex. This subunit does not have a catalytic capacity but instead, is required for assembly and/or stability of the complex []. ; GO: 0004129 cytochrome-c oxidase activity, 0055114 oxidation-reduction process, 0016021 integral to membrane
Probab=31.41 E-value=3e+02 Score=24.26 Aligned_cols=82 Identities=15% Similarity=0.090 Sum_probs=40.2
Q ss_pred ccch-HHHHHHHHHHHhhhcchhhccchhhhhhccc--------cccccccCccceehhhHHHHHHHHHHHHHHHHHHHH
Q 018319 12 EPAP-VTLILTAVAVTFGSAFRALNYGKEMERNRDL--------SEASIMLDRSQALMIPVMSSCSLVLMFYLFSSVSQL 82 (358)
Q Consensus 12 ~p~~-~~l~~~a~~~i~~gs~rsl~~~~~~~~~~~~--------~e~~~~l~~~~A~~FPv~aS~~Ll~Lyy~f~~v~~l 82 (358)
||+- .+|++++.+...+|-|-....+|...|-||. .-+.--.++..--=+.+-+++.++.+=..+-++..+
T Consensus 34 E~~Gt~aL~ls~~l~~mig~yl~~~~rr~~~rPED~~daEI~dgAGe~GfFsP~SwWPl~la~~~al~~lGla~g~Wl~~ 113 (137)
T PF12270_consen 34 EWVGTVALVLSGGLALMIGFYLRFTARRIGPRPEDREDAEIADGAGELGFFSPHSWWPLVLAAAAALVFLGLAFGWWLIL 113 (137)
T ss_pred CcchHHHHHHHHHHHHHHHHHHHHHHhhCCCCCccccccccccCCCCcCcCCCccHhHHHHHHHHHHHHHHHHHHHHHHH
Confidence 6664 4677777777777766544332211111111 111112455544444455667776666655554444
Q ss_pred HHHHHHHHHHH
Q 018319 83 LTALTAVASVS 93 (358)
Q Consensus 83 l~~~~~i~g~~ 93 (358)
+..-+.+.++.
T Consensus 114 iG~~~~i~~~~ 124 (137)
T PF12270_consen 114 IGAVLLIVAVV 124 (137)
T ss_pred HHHHHHHHHHH
Confidence 44334444443
No 14
>PF13268 DUF4059: Protein of unknown function (DUF4059)
Probab=25.68 E-value=46 Score=26.16 Aligned_cols=26 Identities=19% Similarity=0.305 Sum_probs=15.1
Q ss_pred HHHHHHHHHhhhcchhhccchhhhhhc
Q 018319 18 LILTAVAVTFGSAFRALNYGKEMERNR 44 (358)
Q Consensus 18 l~~~a~~~i~~gs~rsl~~~~~~~~~~ 44 (358)
+.+.-+..+|++ +|+.++.+|..|||
T Consensus 18 i~V~~~~~~wi~-~Ra~~~~DKT~~eR 43 (72)
T PF13268_consen 18 ILVLLVSGIWIL-WRALRKKDKTAKER 43 (72)
T ss_pred HHHHHHHHHHHH-HHHHHcCCCcHHHH
Confidence 334445566777 88887755444433
No 15
>PRK09108 type III secretion system protein HrcU; Validated
Probab=25.40 E-value=7.2e+02 Score=25.15 Aligned_cols=22 Identities=9% Similarity=-0.026 Sum_probs=16.0
Q ss_pred HhHHHHHHHHHHHHhhhhhhcc
Q 018319 172 IKICAMLLVCLFVYDIFWVFFS 193 (358)
Q Consensus 172 ~k~~~iLL~~lf~YDIFwVF~t 193 (358)
+....+.+..+-+.|..|--+.
T Consensus 189 ~~~~~~~~~via~~D~~~qr~~ 210 (353)
T PRK09108 189 LAVAAGVFLLVGAADWKIQRWL 210 (353)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 5556666777778999998643
Done!