Query 016196
Match_columns 393
No_of_seqs 219 out of 480
Neff 5.4
Searched_HMMs 46136
Date Fri Mar 29 04:40:40 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/016196.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/016196hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2442 Uncharacterized conser 100.0 2E-112 4E-117 858.0 28.9 380 1-384 135-522 (541)
2 KOG2443 Uncharacterized conser 100.0 2E-71 4.4E-76 542.3 20.2 310 48-392 22-353 (362)
3 PF04258 Peptidase_A22B: Signa 100.0 2.2E-72 4.8E-77 552.2 -0.1 274 101-378 2-298 (298)
4 smart00730 PSN Presenilin, sig 100.0 1.7E-53 3.8E-58 409.1 22.5 242 105-370 3-249 (249)
5 PF06550 DUF1119: Protein of u 99.7 3.8E-16 8.3E-21 151.4 19.9 172 186-371 96-282 (283)
6 COG3389 Uncharacterized protei 99.4 1.1E-12 2.5E-17 123.8 12.2 161 190-368 98-272 (277)
7 KOG2736 Presenilin [Signal tra 94.0 0.048 1E-06 55.8 3.5 68 290-367 320-387 (406)
8 PF01080 Presenilin: Presenili 93.7 0.17 3.7E-06 52.7 6.9 64 291-365 327-391 (403)
9 cd02127 PA_hPAP21_like PA_hPAP 92.0 0.18 4E-06 43.6 3.8 31 9-39 84-114 (118)
10 cd04816 PA_SaNapH_like PA_SaNa 88.2 0.55 1.2E-05 40.3 3.6 31 10-40 91-121 (122)
11 cd02130 PA_ScAPY_like PA_ScAPY 87.8 0.48 1E-05 40.6 2.9 32 10-41 91-122 (122)
12 cd04818 PA_subtilisin_1 PA_sub 86.4 0.75 1.6E-05 39.1 3.4 32 10-41 87-118 (118)
13 TIGR00819 ydaH p-Aminobenzoyl- 55.7 3.1E+02 0.0066 29.9 14.2 43 294-340 442-489 (513)
14 cd04813 PA_1 PA_1: Protease-as 55.4 8.7 0.00019 33.2 2.2 27 9-37 87-113 (117)
15 KOG2927 Membrane component of 48.5 31 0.00067 35.6 5.1 74 136-213 191-264 (372)
16 PF03806 ABG_transport: AbgT p 43.8 4.6E+02 0.01 28.5 14.0 35 301-339 447-481 (502)
17 KOG3455 Predicted membrane pro 35.8 76 0.0016 28.6 5.0 53 321-374 74-126 (139)
18 cd02133 PA_C5a_like PA_C5a_lik 35.7 49 0.0011 29.0 3.8 31 11-41 92-122 (143)
19 PF07698 7TM-7TMR_HD: 7TM rece 29.0 1.8E+02 0.004 26.4 6.6 71 302-376 17-87 (194)
20 PF06541 DUF1113: Protein of u 28.1 4.5E+02 0.0097 23.7 11.0 27 221-247 129-155 (157)
21 PF03606 DcuC: C4-dicarboxylat 27.0 1.3E+02 0.0027 32.0 5.8 48 292-340 414-463 (465)
22 PRK14415 membrane protein; Pro 25.8 2.1E+02 0.0046 27.4 6.6 35 355-389 182-216 (216)
23 PF06305 DUF1049: Protein of u 20.3 1E+02 0.0022 23.3 2.7 35 33-68 3-37 (68)
No 1
>KOG2442 consensus Uncharacterized conserved protein, contains PA domain [General function prediction only]
Probab=100.00 E-value=1.9e-112 Score=858.03 Aligned_cols=380 Identities=49% Similarity=0.912 Sum_probs=355.6
Q ss_pred CccCCCCCccccCceEEEeechhhhHHHHhhhcCCeEEEEEecCCCCCcchhHHHHHHHHHHHHHHhhhhhccc-chhhh
Q 016196 1 MVCSENDTALNISIPVLMIPKSRGDALNKSIADKQRVELLLYAPNRPDVDFAVIFLWMMAVGTIIAAALWSLLT-SEQTD 79 (393)
Q Consensus 1 m~c~~~~~~~~i~Ipv~~~~~~~~~~l~~~~~~g~~v~v~ly~p~~p~~d~s~v~l~lmAv~tV~~Gs~wS~~~-~~~~~ 79 (393)
|+|.++++..|++|||+||+++||++++++.+++++|+++||||++|.+|+|+++||+||||||++|||||+++ +|+..
T Consensus 135 ~~~~~~~~~~dv~IPv~mi~~~~~~~l~~~~~~~~~V~~~lYaPk~P~vD~~~v~iwlmAVgTVa~ggyWs~~t~~~~~~ 214 (541)
T KOG2442|consen 135 MPCGNKETSLDVTIPVAMISYSDGRDLNKSTRSNDNVELALYAPKRPAVDYAMVFIWLMAVGTVACGGYWSGLTEREKAI 214 (541)
T ss_pred CCCCCCCccccccceEEEEEhhhHHHHHhhhccCCeEEEEEECCCCCCccHHHHHHHHHHHhHhhccchhhhccChhhhh
Confidence 89999999999999999999999999999999999999999999999999999999999999999999999999 77666
Q ss_pred HhhhhcCCCcCCccccccccCccceeecCcccchhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 016196 80 ERYNELSPKESSNLEAVKDDSEKEVLDITAKGAIVFVIVASTFLVLLYFFMSSWFVWLLVVLFCIGGIEGMHNIIVTLVL 159 (393)
Q Consensus 80 ~~~~~~~~~~~~~~~~~~~~~~~~~~~it~~~a~~Fpv~as~~Ll~LY~f~~~~~~~vl~~~F~i~g~~~l~~~l~~~~~ 159 (393)
|+++.++++.+ ++++++|++|||..++|+.+|+.|++++|++|+++|||++ +++|+++++||++|..|||+|+.++++
T Consensus 215 ~a~~~~~d~~s-~~~~~~~~~e~~~vd~s~i~~~~fvv~~c~~LvLlyfF~~-~~V~v~iiif~i~g~~gLy~Cl~~lv~ 292 (541)
T KOG2442|consen 215 EADRLLDDDSS-SEGNTKETKEEEVVDISPITAVFFVVTACGFLVLLYFFYS-YLVYVLIIIFCIGGAQGLYNCLAALVH 292 (541)
T ss_pred hhhhhcccccc-cccccccCCccccEEeeeeEEEEehhhhHHHHHHHHHHHH-HHHHHHhhheeecccchHHHHHHHHHh
Confidence 66666654433 2335667788999999999999999999999999999995 599999999999999999999999999
Q ss_pred hhhccCCCceeeccccccchhHHHHHHHHHHHHHhhhhhhcccccchhhhhHHHHHHHHHHHHhcccCchhHHHHHHHHH
Q 016196 160 SKCRNCGRKTVHLPLLDEVSVLSLVVLLFCVVFAVVWAVRRQASYSWVGQDILGICLMITVLQMARLPNIKVASVLLCCA 239 (393)
Q Consensus 160 ~~~~~~~~~~~~~p~~~~~~~~~l~~~~~~~~~~~~w~~~~~~~~~Wil~nilgi~~~i~~i~~i~l~s~k~~~iLL~~l 239 (393)
|++.+..+.+...|..|+.+++.+++.++|++++++|+++|||+|+|++||++|||+|++++|.+|+||+|+|++||+++
T Consensus 293 r~~~~~~~~~~~~~~l~~~~~~~l~l~~~Cia~aV~W~v~R~e~~AwilqDvLGIalci~vLk~vRLPnlK~~tiLL~c~ 372 (541)
T KOG2442|consen 293 RLPYGAARFPTLAPRLGNMSYRLLFLSILCIAVAVVWAVFRNEDWAWILQDVLGIALCITVLKTVRLPNLKVCTILLLCL 372 (541)
T ss_pred hhhhhcccccccccccCChhHHHHHHHHhhhheeEEEEEeecCchHHHHHhhHhHHHHHHHHHHhcCCchhHHHHHHHHH
Confidence 98765444555677788899999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHhhhhhhhhccccc--ccceeeeecccCCCCCCCCCEEEEecccc-----CCCCccccccCCCcchhhHHHHHHHhhhc
Q 016196 240 FVYDIFWVFVSPLIF--HESVMIAVARGDNSGGESIPMLLRIPRLF-----DPWGGYDMIGFGDILFPGLLICFAFRYDK 312 (393)
Q Consensus 240 f~YDiF~VF~tp~~f--g~sVMv~VA~~~~~~~~~lP~~l~~P~~~-----~~~~~~s~LGlGDIviPGllia~~~rfD~ 312 (393)
|+|||||||+||++| |||||++||+|+++++|++||++++||++ +++++|||||||||++||++||||+|||.
T Consensus 373 f~YDiF~VFitp~~t~~geSVMieVA~G~~s~~EkiPMlLkVPrl~~s~~~~~~~~~silGFGDIl~PGlLVa~c~RfD~ 452 (541)
T KOG2442|consen 373 FLYDIFFVFITPFITKNGESVMIEVARGPSSTEEKIPMLLKVPRLFFSVLSDPWGGYSILGFGDILVPGLLVAFCLRFDV 452 (541)
T ss_pred HHHhhheeeeehhhccCCceEEEEEecCCCCCCCCcceEEEcchhccccccccCCCeeEeeecccccchHHHHHHHHhhh
Confidence 999999999999999 79999999999999999999999999999 78999999999999999999999999999
Q ss_pred ccccCccchhHHHHHHHHHHHHHHHHHHHHHhcCCCcceehhhchhhhHHHHHHHHHhchhhhccccccCCC
Q 016196 313 ENKKGVVKGYFLWLIIGYGFGLFLTYLGLYLMNGHGQPALLYLVPCTLGLTVILGLARGELKHLWDYSREPS 384 (393)
Q Consensus 313 ~~~~~~~~~YF~~~~igY~~GL~~t~~~l~~~~~~~QPALLYLvP~~L~~~~~~A~~rgEl~~~W~~~~~~~ 384 (393)
+.++. ++.||.++++||++||++||+|+++| |.|||||||||||||++.+.+|++|||++++|+|..+..
T Consensus 453 ~~~~~-~~iYfv~~tvaYgiGLlvTfvaL~LM-~~GQPALLYLVP~TL~t~~~lal~R~El~~fWtg~~~~~ 522 (541)
T KOG2442|consen 453 QVNSV-SNIYFVWSTVAYGIGLLVTFVALVLM-KGGQPALLYLVPCTLGTAVVLALCRGELKKFWTGGSYQK 522 (541)
T ss_pred hcccc-ceeEEehhHHHHHHHHHHHHHHHHHh-cCCCceEEEEechHHHHHHHHHHHHHHHHHHhccCCccc
Confidence 98874 68999999999999999999999999 779999999999999999999999999999999988543
No 2
>KOG2443 consensus Uncharacterized conserved protein [Function unknown]
Probab=100.00 E-value=2e-71 Score=542.31 Aligned_cols=310 Identities=28% Similarity=0.519 Sum_probs=263.2
Q ss_pred CcchhHHHHHHHHHHHHHHhhhhhcccchhhhHhhhhcCCCcCCccccccccCccceeecCcccchh-hhHHHHHHHHHH
Q 016196 48 DVDFAVIFLWMMAVGTIIAAALWSLLTSEQTDERYNELSPKESSNLEAVKDDSEKEVLDITAKGAIV-FVIVASTFLVLL 126 (393)
Q Consensus 48 ~~d~s~v~l~lmAv~tV~~Gs~wS~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~it~~~a~~-Fpv~as~~Ll~L 126 (393)
.+|.+++.+.+||+.+|++||+||....+ . .||+ +|+.+++|.++|.- ||+++||+|++|
T Consensus 22 ~~~~~~~sl~l~A~l~i~~GsfRS~~~~~-----~-------------~~d~-~~~~es~t~~~a~~~fPi~~s~tLl~l 82 (362)
T KOG2443|consen 22 LLASAYVSLILIALLLIVIGSFRSLNYIK-----E-------------NEDK-KDKSESITKRDAGKMFPIIGSCTLLLL 82 (362)
T ss_pred hhcccchHHHHHHHHHHHHHHHHHhhhhh-----h-------------hhcc-cchhhhhhhhhhcccCCcccchHHHHH
Confidence 68899999999999999999999996511 0 0111 24556788888888 999999999999
Q ss_pred HHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHh----hhccC---------CCceeeccccccchhHHHHHHHHHH
Q 016196 127 YFFMSSW---FVWLLVVLFCIGGIEGMHNIIVTLVLS----KCRNC---------GRKTVHLPLLDEVSVLSLVVLLFCV 190 (393)
Q Consensus 127 Y~f~~~~---~~~vl~~~F~i~g~~~l~~~l~~~~~~----~~~~~---------~~~~~~~p~~~~~~~~~l~~~~~~~ 190 (393)
|++++.. ...+++.||++.|+.++.+.+.|+++. ..|.+ ...+...-+.++++..+++....|.
T Consensus 83 yl~fk~ls~~~~~ll~~~ff~~g~~al~~~~~p~~~~~~~~l~p~~~~~~~~~~~~~~~~~~~~~~~Ft~~~iv~~vls~ 162 (362)
T KOG2443|consen 83 YLLFKPLSKELINLLTMYFFFLGVIALLSLLDPFINAFKFLLLPMCQYHLLFPRGPGEKKEFICNGKFTRAQIVALVLSS 162 (362)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHhhhhhhcCccchhheeeeccCCcccceeecccccHHHHHHHHHHH
Confidence 9988643 233789999999999999999999982 12222 1111112234578889999999999
Q ss_pred HHHhhhhhhcccccchhhhhHHHHHHHHHHHHhcccCchhHHHHHHHHHHHhhhhhhhhcccccccceeeeecccCCCCC
Q 016196 191 VFAVVWAVRRQASYSWVGQDILGICLMITVLQMARLPNIKVASVLLCCAFVYDIFWVFVSPLIFHESVMIAVARGDNSGG 270 (393)
Q Consensus 191 ~~~~~w~~~~~~~~~Wil~nilgi~~~i~~i~~i~l~s~k~~~iLL~~lf~YDiF~VF~tp~~fg~sVMv~VA~~~~~~~ 270 (393)
.+++.|+..+| |++||++|+++|+++++.+||||+|+|++||.++|+||||||| |++|||+|||+.|
T Consensus 163 ~i~v~~ll~~H----Wl~nN~lgms~~I~~I~~lrL~s~ktgalLL~gLffYDIfwVF------gTnVMVtVAt~~D--- 229 (362)
T KOG2443|consen 163 MIVVWYLLTKH----WLANNLLGMSFCIAGIEFLRLPSLKTGALLLGGLFFYDIFWVF------GTNVMVTVATSLD--- 229 (362)
T ss_pred HHHHHHHhhhH----HHHHhHHHHHHHHHHHHHhcccchhhhHHHHHHHHHHheEEEe------cCceEEEeecccC---
Confidence 99999988885 9999999999999999999999999999999999999999999 6779999999965
Q ss_pred CCCCEEEEeccccCCC----CccccccCCCcchhhHHHHHHHhhhccccc-CccchhHHHHHHHHHHHHHHHHHHHHHhc
Q 016196 271 ESIPMLLRIPRLFDPW----GGYDMIGFGDILFPGLLICFAFRYDKENKK-GVVKGYFLWLIIGYGFGLFLTYLGLYLMN 345 (393)
Q Consensus 271 ~~lP~~l~~P~~~~~~----~~~s~LGlGDIviPGllia~~~rfD~~~~~-~~~~~YF~~~~igY~~GL~~t~~~l~~~~ 345 (393)
+|+|+++|+..... .+|||||+||||+||+|+|+++|||.++++ +..+.||+.+++||.+||+.|+++|+.+
T Consensus 230 --~PikL~fP~~l~~~~~~as~fsMLGLGDIviPGiflAl~lRfD~~k~~~s~~~~YF~~t~i~Y~~gL~~ti~~~~~F- 306 (362)
T KOG2443|consen 230 --APIKLVFPQKLLFPGLTASNFSMLGLGDIVIPGIFLALVLRFDIRKKRNSKVRTYFHNTFIAYFLGLLTTIVVLHIF- 306 (362)
T ss_pred --CceEEecchhhccCCCccccceeccccchhhHHHHHHHHHHhhHHHHhcccCceEEEEeHHHHHhhhHHHhhhhhhh-
Confidence 79999999976432 359999999999999999999999987653 2457899999999999999999999999
Q ss_pred CCCcceehhhchhhhHHHHHHHHHhchhhhccccccCCCCCCCCCCC
Q 016196 346 GHGQPALLYLVPCTLGLTVILGLARGELKHLWDYSREPSSDMNRPVE 392 (393)
Q Consensus 346 ~~~QPALLYLvP~~L~~~~~~A~~rgEl~~~W~~~~~~~~~~~~~~~ 392 (393)
|++||||||+||+|+++.+++|++|||++.+|+++++..+|.++..|
T Consensus 307 kaAQPALLYlVP~~l~~~ll~A~~~gdlk~l~s~~~~~~~~~~~~~e 353 (362)
T KOG2443|consen 307 KAAQPALLYLVPACLGPLLLMAYWRGDLKVLWSFDESTKEESAEQDE 353 (362)
T ss_pred hccchhhhhhhHHHHhHHHHHHHHccchHhhhCccccCCCCcHHHHh
Confidence 99999999999999999999999999999999999987777665544
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=2.2e-72 Score=552.19 Aligned_cols=274 Identities=43% Similarity=0.825 Sum_probs=1.0
Q ss_pred ccceeecCcccchhhhHHHHHHHHHHHHHHHHHH------HHHHHHHHHHHHHHHHHHHHHHHHHhhhcc-----CCCce
Q 016196 101 EKEVLDITAKGAIVFVIVASTFLVLLYFFMSSWF------VWLLVVLFCIGGIEGMHNIIVTLVLSKCRN-----CGRKT 169 (393)
Q Consensus 101 ~~~~~~it~~~a~~Fpv~as~~Ll~LY~f~~~~~------~~vl~~~F~i~g~~~l~~~l~~~~~~~~~~-----~~~~~ 169 (393)
||+.+++|++||++||++||++|++||+++|.+. +++++.+|+++|+.++..++.+.+.+.++. ..+.+
T Consensus 2 ~~~~~~is~~~A~~fpv~~S~~L~gLY~~~k~l~~~~i~~~~vl~~~f~~~gv~a~~~~i~~~l~~~~~~~~~~~~~~~~ 81 (298)
T PF04258_consen 2 EEEEETISSKDALIFPVVASCVLLGLYFFFKYLDKDLINIIYVLTVYFCLAGVIALSFLILPFLTYIFPFFPCRSFPWKK 81 (298)
T ss_dssp --------------------------------------------------------------------------------
T ss_pred CccccccCHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccccccce
Confidence 4556789999999999999999999999987554 468999999999999888877776654331 11222
Q ss_pred eec--------cccccchhHHHHHHHHHHHHHhhhhhhcccccchhhhhHHHHHHHHHHHHhcccCchhHHHHHHHHHHH
Q 016196 170 VHL--------PLLDEVSVLSLVVLLFCVVFAVVWAVRRQASYSWVGQDILGICLMITVLQMARLPNIKVASVLLCCAFV 241 (393)
Q Consensus 170 ~~~--------p~~~~~~~~~l~~~~~~~~~~~~w~~~~~~~~~Wil~nilgi~~~i~~i~~i~l~s~k~~~iLL~~lf~ 241 (393)
.++ +..++++..++++.++|+++++.|+++||+ +|++||++|+|+|+++++.+|+||+|++++||+++|+
T Consensus 82 ~~~~~~~~~~~~~~~~~~~~~l~~~~~s~~~~~~w~~~~~~--~W~l~nilgi~~~i~~i~~i~l~s~k~~~ilL~~lf~ 159 (298)
T PF04258_consen 82 WKLSFPRRDIKPFSGSFTLSDLLSFLISLAIAVVWYVYRNE--HWILQNILGICFCINIISLIRLPSFKTATILLIGLFL 159 (298)
T ss_dssp ---------------------------------S----------------------------------------------
T ss_pred EEEEEEcccccceeeeeeHHHHHHHHHHHHHHHHHHHhccc--hHHHHhHHHHHHHHHHHHheeccchHHHHHHHHHHHH
Confidence 222 345567888899999999999999998876 6999999999999999999999999999999999999
Q ss_pred hhhhhhhhcccccccceeeeecccCCCCCCCCCEEEEeccccC----CCCccccccCCCcchhhHHHHHHHhhhcccccC
Q 016196 242 YDIFWVFVSPLIFHESVMIAVARGDNSGGESIPMLLRIPRLFD----PWGGYDMIGFGDILFPGLLICFAFRYDKENKKG 317 (393)
Q Consensus 242 YDiF~VF~tp~~fg~sVMv~VA~~~~~~~~~lP~~l~~P~~~~----~~~~~s~LGlGDIviPGllia~~~rfD~~~~~~ 317 (393)
|||||||+||++||+|||++||++..++++++|+|+++|+..+ ..+++||||+||||+||+|+++|+|||++++++
T Consensus 160 YDif~VF~s~~~~g~svM~~VA~~~~~~~~~~P~~l~~P~~~~~~~~~~~~~s~LGlGDIviPGl~i~~~~rfD~~~~~~ 239 (298)
T PF04258_consen 160 YDIFWVFISPYFFGTSVMVTVATGGFDAPEKLPIKLQFPRFFDSNSSCPKPFSMLGLGDIVIPGLFIAFCLRFDKSRNKS 239 (298)
T ss_dssp --------------------------------------------------------------------------------
T ss_pred HHHHHHHhccccCCCchhhhhhccccccccCCCeEEEEeccccccccCCCCeeEeccchHHHHHHHHHHHHHhhHhhccc
Confidence 9999999999999999999999995445678999999999863 457899999999999999999999999988432
Q ss_pred ccchhHHHHHHHHHHHHHHHHHHHHHhcCCCcceehhhchhhhHHHHHHHHHhchhhhccc
Q 016196 318 VVKGYFLWLIIGYGFGLFLTYLGLYLMNGHGQPALLYLVPCTLGLTVILGLARGELKHLWD 378 (393)
Q Consensus 318 ~~~~YF~~~~igY~~GL~~t~~~l~~~~~~~QPALLYLvP~~L~~~~~~A~~rgEl~~~W~ 378 (393)
+++||.++++||++||++|+++++++ |+||||||||||+|+++++++|++|||++++||
T Consensus 240 -~~~Yf~~~~~~Y~~Gl~~t~~~~~~~-~~~QPALlylvP~~l~~~~~~a~~r~el~~~w~ 298 (298)
T PF04258_consen 240 -RKPYFIASLIGYALGLLLTFVALHLF-KHGQPALLYLVPCTLGSVLLVAWIRGELKDFWN 298 (298)
T ss_dssp -------------------------------------------------------------
T ss_pred -cchHHHHHHHHHHHHHHHHHHHHHHh-CCCCCeehHHHHHHHHHHHHHHHHhhHHHHhhC
Confidence 36799999999999999999999999 999999999999999999999999999999997
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=1.7e-53 Score=409.15 Aligned_cols=242 Identities=39% Similarity=0.634 Sum_probs=216.0
Q ss_pred eecCcccchhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhccCCCceeeccccccchhHHHH
Q 016196 105 LDITAKGAIVFVIVASTFLVLLYFFMSSWFVWLLVVLFCIGGIEGMHNIIVTLVLSKCRNCGRKTVHLPLLDEVSVLSLV 184 (393)
Q Consensus 105 ~~it~~~a~~Fpv~as~~Ll~LY~f~~~~~~~vl~~~F~i~g~~~l~~~l~~~~~~~~~~~~~~~~~~p~~~~~~~~~l~ 184 (393)
+.+|+++++.||+++|++|+++|++++.+ ++.+.++||++|+.+++.++.+..... .+..+.+
T Consensus 3 ~~~n~~~~i~fii~~s~~Ll~Ly~~~~~~-~i~~~~~f~~~~~~~~~~~~~~~~~~~----------------~~~~~~~ 65 (249)
T smart00730 3 SLLNSLVAIVFPIVATFVLVLLYKFFKYL-VIVLVIYFSSLGVLFLYSLLYPLEVFR----------------VDYPTLL 65 (249)
T ss_pred ccccHHHHhhHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHH----------------HhHHHHH
Confidence 46899999999999999999999999765 888899999999999999988765432 2334556
Q ss_pred HHHHHHHHHhhhhhhcccccchhhhhHHHHHHHHHHHHhcccCchhHHHHHHHHHHHhhhhhhhhcccccccceeeeecc
Q 016196 185 VLLFCVVFAVVWAVRRQASYSWVGQDILGICLMITVLQMARLPNIKVASVLLCCAFVYDIFWVFVSPLIFHESVMIAVAR 264 (393)
Q Consensus 185 ~~~~~~~~~~~w~~~~~~~~~Wil~nilgi~~~i~~i~~i~l~s~k~~~iLL~~lf~YDiF~VF~tp~~fg~sVMv~VA~ 264 (393)
...+++++..+|.+++| ++|+.||++|+++|+++++.+|+||+|++++||+++++||+||||+||. |++||++||+
T Consensus 66 ~~~~~~~v~~~~~~~~~--~~w~~~~~lgi~~~~~~~~~~~l~~~~~~~iLL~~l~iYDif~Vf~t~~--~~~vMv~vA~ 141 (249)
T smart00730 66 ILLLNFAVVGFWCIHRK--GAWIQQDLIGISLCMAILFILRLPSEWTAWILLGALFIYDIFAVFGTPG--PLRVMVEVAT 141 (249)
T ss_pred HHHHHHHHHHHHHHHhh--hHHHHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHheeecCCC--CchHHhhHhc
Confidence 77788899999998886 7899999999999999999999999999999999999999999999997 9999999999
Q ss_pred cCCCCCCCCCEEEEecccc-----CCCCccccccCCCcchhhHHHHHHHhhhcccccCccchhHHHHHHHHHHHHHHHHH
Q 016196 265 GDNSGGESIPMLLRIPRLF-----DPWGGYDMIGFGDILFPGLLICFAFRYDKENKKGVVKGYFLWLIIGYGFGLFLTYL 339 (393)
Q Consensus 265 ~~~~~~~~lP~~l~~P~~~-----~~~~~~s~LGlGDIviPGllia~~~rfD~~~~~~~~~~YF~~~~igY~~GL~~t~~ 339 (393)
+.+++.|++|+++..||.. +..+++++||+||||+||+++++|+|||...++ ++.||..|++||++||+.|++
T Consensus 142 ~~~~~~~~~P~ll~~p~~~~~~~~~~~~~~~~LGLGDiv~Pgilv~~a~~fd~~~~~--~~~yf~~~~~ay~~GL~~t~~ 219 (249)
T smart00730 142 GRDEPIKVFPALLYVPRLVVSFEDDEEGRFSMLGLGDIVFPGILVASAARFDVSVRS--DSNYFLACFVAYGIGLILTLV 219 (249)
T ss_pred cCCCCcccCChhhcccccccccccCCCCccceecCCCeeeHHHHHHHHHHhhhcccC--CcccHHHHHHHHHHHHHHHHH
Confidence 9764335789999999842 234689999999999999999999999987543 368999999999999999999
Q ss_pred HHHHhcCCCcceehhhchhhhHHHHHHHHHh
Q 016196 340 GLYLMNGHGQPALLYLVPCTLGLTVILGLAR 370 (393)
Q Consensus 340 ~l~~~~~~~QPALLYLvP~~L~~~~~~A~~r 370 (393)
+++.+ |+|||||+|+||+++++.++.|+.|
T Consensus 220 ~l~~~-~~aqPALlylvp~~l~~~~~~~~~r 249 (249)
T smart00730 220 LLALF-KKAQPALPYLVPFTLVFYLLTALLR 249 (249)
T ss_pred HHHHh-CCCCccHHHHHHHHHHHHHHHHHhC
Confidence 99999 8999999999999999999999976
No 5
>PF06550 DUF1119: Protein of unknown function (DUF1119); InterPro: IPR010545 This family consists of several hypothetical archaeal proteins of unknown function.
Probab=99.72 E-value=3.8e-16 Score=151.36 Aligned_cols=172 Identities=24% Similarity=0.300 Sum_probs=130.4
Q ss_pred HHHHHHHHhhhhhhcccccchhhhhHHHHHHHHHHHHhcccC-chhHHHHHHHHHHHhhhhhhhhcccccccceeeeecc
Q 016196 186 LLFCVVFAVVWAVRRQASYSWVGQDILGICLMITVLQMARLP-NIKVASVLLCCAFVYDIFWVFVSPLIFHESVMIAVAR 264 (393)
Q Consensus 186 ~~~~~~~~~~w~~~~~~~~~Wil~nilgi~~~i~~i~~i~l~-s~k~~~iLL~~lf~YDiF~VF~tp~~fg~sVMv~VA~ 264 (393)
...++++.+..+ .++ .|+..|+.|+.++..+...+.+. ++-.+.+||..+-+||..-||.|+ +|++.|+
T Consensus 96 ~~~ai~~~~~L~-~yp---EWYviD~~Gil~~aG~aaiFGISl~~lpaiiLL~iLAVYDaISVYkTk------HMltLAe 165 (283)
T PF06550_consen 96 LILAIALTALLY-KYP---EWYVIDIAGILMGAGAAAIFGISLGILPAIILLAILAVYDAISVYKTK------HMLTLAE 165 (283)
T ss_pred HHHHHHHHHHHH-hcc---hHHHHHHHHHHHHhHHHHHHhhhccHHHHHHHHHHHHHhhhhheecch------HHHHHHH
Confidence 334444444433 444 49999999999998877766655 666799999999999999999555 9999999
Q ss_pred cCCCCCCCCCEEEEeccccCC--------------CCccccccCCCcchhhHHHHHHHhhhcccccCccchhHHHHHHHH
Q 016196 265 GDNSGGESIPMLLRIPRLFDP--------------WGGYDMIGFGDILFPGLLICFAFRYDKENKKGVVKGYFLWLIIGY 330 (393)
Q Consensus 265 ~~~~~~~~lP~~l~~P~~~~~--------------~~~~s~LGlGDIviPGllia~~~rfD~~~~~~~~~~YF~~~~igY 330 (393)
|.- +.|+|+.+++|+..+. +|+-.++|+||.++|.++++-+..|.....-...+-.-+.+++|-
T Consensus 166 gv~--d~klPilfViP~~~~ySf~~~~~~~~~~~~~r~a~fiGlGD~vmPtILVvSa~~f~~~~~~~~~~lpalga~~Gt 243 (283)
T PF06550_consen 166 GVM--DLKLPILFVIPKKRGYSFLKDGFDNREEKEERDAFFIGLGDAVMPTILVVSAAFFLSAPILGGLNLPALGAMLGT 243 (283)
T ss_pred HHh--ccCCceEEEEecccCccccccccccccccccccceEeccchhhhHHHHHHHHHHhccccchhhhhHHHHHHHHHH
Confidence 975 4689999999997532 134579999999999999999999975532111122335667777
Q ss_pred HHHHHHHHHHHHHhcCCCcceehhhchhhhHHHHHHHHHhc
Q 016196 331 GFGLFLTYLGLYLMNGHGQPALLYLVPCTLGLTVILGLARG 371 (393)
Q Consensus 331 ~~GL~~t~~~l~~~~~~~QPALLYLvP~~L~~~~~~A~~rg 371 (393)
.+|+.+-... ++++++||+|.||.-..+++.++-++..|
T Consensus 244 l~gl~vL~~~--v~kgrp~aGLP~LN~GaI~Gflig~l~sg 282 (283)
T PF06550_consen 244 LAGLAVLLRF--VMKGRPQAGLPFLNGGAIAGFLIGALASG 282 (283)
T ss_pred HHHHHHHHHH--HHcCCCCCCCCccchhHHHHHHHHHHHcC
Confidence 7777766542 34689999999999999999988877654
No 6
>COG3389 Uncharacterized protein conserved in archaea [Function unknown]
Probab=99.43 E-value=1.1e-12 Score=123.80 Aligned_cols=161 Identities=25% Similarity=0.373 Sum_probs=123.1
Q ss_pred HHHHhhhhhhcccccchhhhhHHHHHHHHHHHHhcccC-chhHHHHHHHHHHHhhhhhhhhcccccccceeeeecccCCC
Q 016196 190 VVFAVVWAVRRQASYSWVGQDILGICLMITVLQMARLP-NIKVASVLLCCAFVYDIFWVFVSPLIFHESVMIAVARGDNS 268 (393)
Q Consensus 190 ~~~~~~w~~~~~~~~~Wil~nilgi~~~i~~i~~i~l~-s~k~~~iLL~~lf~YDiF~VF~tp~~fg~sVMv~VA~~~~~ 268 (393)
.+++.++..+++. .|+..|..|.+++...-..+.+. ..-.+..||..+-+||..-|+ +|.+|++.|++.-
T Consensus 98 ~aI~~~~lL~~~p--eWyVid~ag~~la~Giaai~GIsfgv~pavvlL~~lavYDaIsVY------kT~HMIslA~~v~- 168 (277)
T COG3389 98 LAIGLVYLLYKYP--EWYVIDLAGFFLAVGIAAIFGISFGVLPAVVLLIALAVYDAISVY------KTRHMISLAEGVM- 168 (277)
T ss_pred HHHHHHHhhhhcc--ceEEeehHHHHHHhhHHHhheeecchHHHHHHHHHHHHHHHHHHH------hHHHHHHHHHHHH-
Confidence 3444444444332 59999999999998877665554 444588999999999999999 5559999999964
Q ss_pred CCCCCCEEEEeccccCC-----------CCccccccCCCcchhhHHHHHHHhhhcccccCccchhHH--HHHHHHHHHHH
Q 016196 269 GGESIPMLLRIPRLFDP-----------WGGYDMIGFGDILFPGLLICFAFRYDKENKKGVVKGYFL--WLIIGYGFGLF 335 (393)
Q Consensus 269 ~~~~lP~~l~~P~~~~~-----------~~~~s~LGlGDIviPGllia~~~rfD~~~~~~~~~~YF~--~~~igY~~GL~ 335 (393)
+.++||++++|...+. +++--|+|+||+++|-++++-+.-|-.+.. .+|. .++.|-.+|+.
T Consensus 169 -d~~lPmlfviP~~l~ysf~~~~fe~r~dgna~miG~GDavmPsIlVvSaa~f~~s~~-----l~f~~Lpal~GglvGl~ 242 (277)
T COG3389 169 -DLDLPMLFVIPENLAYSFVEDAFENRGDGNAYMIGLGDAVMPSILVVSAAFFLISPI-----LAFIVLPALAGGLVGLA 242 (277)
T ss_pred -hcCCceEEEeecccccceeehhhhcCCCCceEEEeechhhcccceeeehHHhccCCc-----hhhhhHHHHhccHHHHH
Confidence 3589999999965321 467789999999999999999988865442 3333 36888899988
Q ss_pred HHHHHHHHhcCCCcceehhhchhhhHHHHHHHH
Q 016196 336 LTYLGLYLMNGHGQPALLYLVPCTLGLTVILGL 368 (393)
Q Consensus 336 ~t~~~l~~~~~~~QPALLYLvP~~L~~~~~~A~ 368 (393)
+-.. ++.+++||.|.|+.-.++.+.++-+.
T Consensus 243 vL~~---v~r~Rp~pGLP~lN~GaIaGflig~V 272 (277)
T COG3389 243 VLYF---VNRGRPHPGLPFLNTGAIAGFLIGFV 272 (277)
T ss_pred HHHH---HhcCCCCCCCceeccchHHHHHHHHH
Confidence 7744 34489999999999999888776544
No 7
>KOG2736 consensus Presenilin [Signal transduction mechanisms]
Probab=93.98 E-value=0.048 Score=55.81 Aligned_cols=68 Identities=29% Similarity=0.391 Sum_probs=54.3
Q ss_pred ccccCCCcchhhHHHHHHHhhhcccccCccchhHHHHHHHHHHHHHHHHHHHHHhcCCCcceehhhchhhhHHHHHHH
Q 016196 290 DMIGFGDILFPGLLICFAFRYDKENKKGVVKGYFLWLIIGYGFGLFLTYLGLYLMNGHGQPALLYLVPCTLGLTVILG 367 (393)
Q Consensus 290 s~LGlGDIviPGllia~~~rfD~~~~~~~~~~YF~~~~igY~~GL~~t~~~l~~~~~~~QPALLYLvP~~L~~~~~~A 367 (393)
--||+||.|+=-+++.=+.-+|... .+ ++|.+|-.+||.+|...+.++ |++-|||.. |.+++.++-.+
T Consensus 320 ikLGlGDFIFYSvLvGkAa~~~d~~-----Tv--iAC~vaIL~GL~~TL~llsv~-~kALPALPi--sI~~G~iFYF~ 387 (406)
T KOG2736|consen 320 IKLGLGDFIFYSVLVGKAAAYGDLN-----TV--IACFVAILIGLCLTLLLLSVF-KKALPALPI--SITFGLIFYFS 387 (406)
T ss_pred eeeccCceEEEEeeccchhhcCChH-----HH--HHHHHHHHHHHHHHHHHHHHH-hhcCcCCch--HHHHHHHHHHH
Confidence 3599999998887777776666221 12 589999999999999999999 899999987 77777776544
No 8
>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=93.67 E-value=0.17 Score=52.67 Aligned_cols=64 Identities=31% Similarity=0.424 Sum_probs=47.2
Q ss_pred cccCCCcchhhHHHHHHHhh-hcccccCccchhHHHHHHHHHHHHHHHHHHHHHhcCCCcceehhhchhhhHHHHH
Q 016196 291 MIGFGDILFPGLLICFAFRY-DKENKKGVVKGYFLWLIIGYGFGLFLTYLGLYLMNGHGQPALLYLVPCTLGLTVI 365 (393)
Q Consensus 291 ~LGlGDIviPGllia~~~rf-D~~~~~~~~~~YF~~~~igY~~GL~~t~~~l~~~~~~~QPALLYLvP~~L~~~~~ 365 (393)
-||+||.|+=+++++-+.++ |. .-..+|++|-.+||.+|...+..+ +++-|||.- +.+++.++-
T Consensus 327 klGlGDFiFYs~Lvg~aa~~~~~--------~~~~~~~~ail~Gl~~Tl~~l~~~-~~alPALPi--si~~g~~~y 391 (403)
T PF01080_consen 327 KLGLGDFIFYSVLVGRAAMYGDW--------NTVVACFVAILIGLCLTLLLLAIF-RKALPALPI--SIALGLIFY 391 (403)
T ss_dssp SS-TTTHHHHHHHHHHHHHH-TT--------TTHHHHHHHHHHHHHHHHHHHHHH-T-S-SSSSS------HHHHH
T ss_pred eecchhHHHHHHHHhHHHhcCCH--------HHHHHHHHHHHHHHHHHHHHHHhc-CCCCCCCcH--HHHHHHHHH
Confidence 59999999999999988876 43 224689999999999999999998 899999975 555555443
No 9
>cd02127 PA_hPAP21_like PA_hPAP21_like: Protease-associated domain containing proteins like the human secreted glycoprotein hPAP21 (human protease-associated domain-containing protein, 21kDa). This group contains various PA domain-containing proteins similar to hPAP21. Complex N-glycosylation may be required for the secretion of hPAP21. The significance of the PA domain to hPAP21 has not been ascertained. It may be a protein-protein interaction domain. At peptidase active sites, the PA domain may participate in substrate binding and/or promoting conformational changes, which influence the stability and accessibility of the site to substrate.
Probab=91.99 E-value=0.18 Score=43.62 Aligned_cols=31 Identities=13% Similarity=0.144 Sum_probs=27.6
Q ss_pred ccccCceEEEeechhhhHHHHhhhcCCeEEE
Q 016196 9 ALNISIPVLMIPKSRGDALNKSIADKQRVEL 39 (393)
Q Consensus 9 ~~~i~Ipv~~~~~~~~~~l~~~~~~g~~v~v 39 (393)
..+++||+++|+++||..|++.+..|..+..
T Consensus 84 ~~~i~IP~v~Is~~dG~~L~~~l~~g~~~~~ 114 (118)
T cd02127 84 SRRADIPAAFLLGKNGYMIRKTLERLGLPYA 114 (118)
T ss_pred CCCceEEEEEecHHHHHHHHHHHHcCCceEE
Confidence 3578999999999999999999998988754
No 10
>cd04816 PA_SaNapH_like PA_SaNapH_like: Protease-associated domain containing proteins like Streptomyces anulatus N-acetylpuromycin N-acetylhydrolase (SaNapH).This group contains various PA domain-containing proteins similar SaNapH. Proteins in this group belong to the peptidase M28 family. NapH is a terminal enzyme in the puromycin biosynthetic pathway; NapH hydrolyzes N-acetylpuromycin to the active antibiotic. The significance of the PA domain to these proteins has not been ascertained. It may be a protein-protein interaction domain. At peptidase active sites, the PA domain may participate in substrate binding and/or promoting conformational changes, which influence the stability and accessibility of the site to substrate.
Probab=88.20 E-value=0.55 Score=40.28 Aligned_cols=31 Identities=29% Similarity=0.552 Sum_probs=28.2
Q ss_pred cccCceEEEeechhhhHHHHhhhcCCeEEEE
Q 016196 10 LNISIPVLMIPKSRGDALNKSIADKQRVELL 40 (393)
Q Consensus 10 ~~i~Ipv~~~~~~~~~~l~~~~~~g~~v~v~ 40 (393)
.+.+||+++|+++||+.|.+.+..|.+|++.
T Consensus 91 ~~~~iP~~~Is~~~G~~l~~~l~~g~~v~~~ 121 (122)
T cd04816 91 IDLKVPVGVITKAAGAALRRRLGAGETLELD 121 (122)
T ss_pred CCCeeeEEEEcHHHHHHHHHHHcCCCEEEEe
Confidence 4678999999999999999999999998875
No 11
>cd02130 PA_ScAPY_like PA_ScAPY_like: Protease-associated domain containing proteins like Saccharomyces cerevisiae aminopeptidase Y (ScAPY). This group contains various PA domain-containing proteins similar to the S. cerevisiae APY, including Trichophyton rubrum leucine aminopeptidase 1(LAP1). Proteins in this group belong to the peptidase M28 family. ScAPY hydrolyzes amino acid-4-methylcoumaryl-7-amides (MCAs). ScAPY more rapidly hydrolyzes dipeptidyl-MCAs. Hydrolysis of amino acid-MCAs or dipeptides is stimulated by Co2+ while the hydrolysis of dipeptidyl-MCAs, tripeptides, and longer peptides is inhibited by Co2+. ScAPY is vacuolar and is activated by proteolytic processing. LAP1 is a secreted leucine aminopeptidase. The significance of the PA domain to these proteins has not been ascertained. It may be a protein-protein interaction domain. At peptidase active sites, the PA domain may participate in substrate binding and/or promoting conformational changes, which influence the stab
Probab=87.79 E-value=0.48 Score=40.62 Aligned_cols=32 Identities=25% Similarity=0.311 Sum_probs=29.0
Q ss_pred cccCceEEEeechhhhHHHHhhhcCCeEEEEE
Q 016196 10 LNISIPVLMIPKSRGDALNKSIADKQRVELLL 41 (393)
Q Consensus 10 ~~i~Ipv~~~~~~~~~~l~~~~~~g~~v~v~l 41 (393)
.+..||++.|+++||+.|.+.++.|++|++.|
T Consensus 91 ~~~~Ip~v~Is~~~G~~L~~~l~~g~~v~~~~ 122 (122)
T cd02130 91 SGPYVPTVGISQEDGKALVAALANGGEVSANL 122 (122)
T ss_pred CCCEeeEEEecHHHHHHHHHHHhcCCcEEEeC
Confidence 46789999999999999999999999998864
No 12
>cd04818 PA_subtilisin_1 PA_subtilisin_1: Protease-associated domain containing subtilisin-like proteases, subgroup 1. A subgroup of PA domain-containing subtilisin-like proteases. The significance of the PA domain to many of the proteins in which it is inserted is undetermined. It may be a protein-protein interaction domain. At peptidase active sites, the PA domain may participate in substrate binding and/or promoting conformational changes, which influence the stability and accessibility of the site to substrate. Proteins into which the PA domain is inserted include the following subtilisin-like proteases: i) melon cucumisin, ii) Arabidopsis thaliana Ara12, iii) Alnus glutinosa ag12, iv) members of the tomato P69 family, and v) tomato LeSBT2. However, these proteins belong to other subtilisin-like subgroups. Relatively little is known about proteins in this subgroup.
Probab=86.40 E-value=0.75 Score=39.06 Aligned_cols=32 Identities=38% Similarity=0.620 Sum_probs=28.6
Q ss_pred cccCceEEEeechhhhHHHHhhhcCCeEEEEE
Q 016196 10 LNISIPVLMIPKSRGDALNKSIADKQRVELLL 41 (393)
Q Consensus 10 ~~i~Ipv~~~~~~~~~~l~~~~~~g~~v~v~l 41 (393)
.+..||+++++++|+++|.+.++.|++|++.|
T Consensus 87 ~~~~iP~v~V~~~~g~~l~~~l~~g~~v~v~~ 118 (118)
T cd04818 87 PDITIPAVMISQADGDALKAALAAGGTVTVTL 118 (118)
T ss_pred CCCEEeEEEecHHHHHHHHHHHhcCCcEEEeC
Confidence 35689999999999999999999899998864
No 13
>TIGR00819 ydaH p-Aminobenzoyl-glutamate transporter family. The p-Aminobenzoyl-glutamate transporter family includes two transporters, the AbgT (YdaH) protein of E. coli and MtrF of Neisseria gonorrhoea. AbgT is apparently cryptic in wild type cells, but when expressed on a high copy number plasmid, or when expressed at higher levels due to mutation, it allows utilization of p-aminobenzoyl-glutamate as a source of p-aminobenzoate for p-aminobenzoate auxotrophs. p-Aminobenzoate is a constituent of and a precursor for the biosynthesis of folic acid.
Probab=55.66 E-value=3.1e+02 Score=29.93 Aligned_cols=43 Identities=23% Similarity=0.530 Sum_probs=29.4
Q ss_pred CCCcchh-----hHHHHHHHhhhcccccCccchhHHHHHHHHHHHHHHHHHH
Q 016196 294 FGDILFP-----GLLICFAFRYDKENKKGVVKGYFLWLIIGYGFGLFLTYLG 340 (393)
Q Consensus 294 lGDIviP-----Gllia~~~rfD~~~~~~~~~~YF~~~~igY~~GL~~t~~~ 340 (393)
.-+++-| ++.++++.|||+..+- +=.+..++-|.+.++++-.+
T Consensus 442 ~tNiItP~~~y~~lil~~~~~y~k~~g~----Gtl~s~mlPysi~~l~~w~~ 489 (513)
T TIGR00819 442 STLIIAPMMPFFGLFLAFLMKYKKDAGL----GTLISLMLPYPAFFLIAWIA 489 (513)
T ss_pred HHHhhccCcchHHHHHHHHHHhccCCcH----HHHHHHHHHHHHHHHHHHHH
Confidence 4446666 7899999999987542 22455677788776666444
No 14
>cd04813 PA_1 PA_1: Protease-associated (PA) domain subgroup 1. A subgroup of PA-domain containing proteins. Proteins in this subgroup contain a RING-finger (Really Interesting New Gene) domain C-terminal to this PA domain. The PA domain is an insert domain in a diverse fraction of proteases. The significance of the PA domain to many of the proteins in which it is inserted is undetermined. It may be a protein-protein interaction domain. At peptidase active sites, the PA domain may participate in substrate binding and/or promoting conformational changes, which influence the stability and accessibility of the site to substrate. Proteins in this group contain a C-terminal RING-finger domain. Proteins into which the PA domain is inserted include the following: i) various signal peptide peptidases: such as hSPPL2a and 2b, ii) various E3 ubiquitin ligases similar to human GRAIL (gene related to anergy in lymphocytes) protein, iii) various proteins containing a RING finger motif such as Arabid
Probab=55.44 E-value=8.7 Score=33.18 Aligned_cols=27 Identities=15% Similarity=0.351 Sum_probs=22.2
Q ss_pred ccccCceEEEeechhhhHHHHhhhcCCeE
Q 016196 9 ALNISIPVLMIPKSRGDALNKSIADKQRV 37 (393)
Q Consensus 9 ~~~i~Ipv~~~~~~~~~~l~~~~~~g~~v 37 (393)
..+++||+++++++|++.|++.+ ++..
T Consensus 87 ~~~v~IPav~Is~~~g~~L~~l~--~~~~ 113 (117)
T cd04813 87 TDNVTIPAMFTSRTSYHLLSSLL--PKSL 113 (117)
T ss_pred CCCcEEEEEEEcHHHHHHHHHhc--cccc
Confidence 45789999999999999998865 5443
No 15
>KOG2927 consensus Membrane component of ER protein translocation complex [Intracellular trafficking, secretion, and vesicular transport]
Probab=48.49 E-value=31 Score=35.63 Aligned_cols=74 Identities=14% Similarity=0.271 Sum_probs=37.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhhccCCCceeeccccccchhHHHHHHHHHHHHHhhhhhhcccccchhhhhHHH
Q 016196 136 WLLVVLFCIGGIEGMHNIIVTLVLSKCRNCGRKTVHLPLLDEVSVLSLVVLLFCVVFAVVWAVRRQASYSWVGQDILG 213 (393)
Q Consensus 136 ~vl~~~F~i~g~~~l~~~l~~~~~~~~~~~~~~~~~~p~~~~~~~~~l~~~~~~~~~~~~w~~~~~~~~~Wil~nilg 213 (393)
+++.++|.+ + .+.-||.|+--+.++. +...+.++-.|-......+..+=+++|+++|++++--.--|++-|++.
T Consensus 191 ~vl~~~fvl-~--tlaivLFPLWP~~mR~-gvyY~sig~~gfl~~IlvLaIvRlILF~I~~il~~g~~g~W~FPNL~e 264 (372)
T KOG2927|consen 191 QVLGVLFVL-V--TLAIVLFPLWPRRMRQ-GVYYLSIGAGGFLAFILVLAIVRLILFGITWILTGGKHGFWLFPNLTE 264 (372)
T ss_pred HHHHHHHHH-H--HHHHHhcccCcHHHhc-ceeeeecchhHHHHHHHHHHHHHHHHHHHHHHHhCCCCceEeccchhh
Confidence 444555533 2 3455777764444332 122233332222222222222336778889999883334699888876
No 16
>PF03806 ABG_transport: AbgT putative transporter family; InterPro: IPR004697 The p-aminobenzoyl-glutamate transporter family includes two putative transporters, the AbgT protein of Escherichia coli and MtrF of Neisseria gonorrhoeae. AbgT expression is apparently cryptic in wild type cells, but when present on a high copy number plasmid, or when expressed at higher levels due to mutation, it allows utilization of p-aminobenzoyl-glutamate as a source of p-aminobenzoate for p-aminobenzoate auxotrophs []. p-Aminobenzoate is a constituent of, and a precursor for, the biosynthesis of folic acid. It is not currently known if AbgT is naturally involved in transporting p-aminobenzoyl-glutamate, or if it only becomes involved when under altered regulation. MtrF is an inner membrane protein which, together with the MtrCDE efflux pump, is required for high-level resistance to hydrophobic antimicrobial agents in N. gonorrhoeae []. Its role in this process is not known, but it has been suggested that it may be a component of the efflux pump which is dispensible for basal activity, but required for high-level activity [].
Probab=43.85 E-value=4.6e+02 Score=28.54 Aligned_cols=35 Identities=26% Similarity=0.582 Sum_probs=21.9
Q ss_pred hHHHHHHHhhhcccccCccchhHHHHHHHHHHHHHHHHH
Q 016196 301 GLLICFAFRYDKENKKGVVKGYFLWLIIGYGFGLFLTYL 339 (393)
Q Consensus 301 Gllia~~~rfD~~~~~~~~~~YF~~~~igY~~GL~~t~~ 339 (393)
.+.++||.|||+..+-+ =-+.-++-|.+..+++-.
T Consensus 447 ~lil~~~qkY~k~~giG----Tlis~mlPysi~~lv~w~ 481 (502)
T PF03806_consen 447 PLILGFAQKYDKKAGIG----TLISLMLPYSIAFLVVWT 481 (502)
T ss_pred HHHHHHHHHhCcCccHH----HHHHHHHHHHHHHHHHHH
Confidence 47899999999865432 223445556666554433
No 17
>KOG3455 consensus Predicted membrane protein [Function unknown]
Probab=35.81 E-value=76 Score=28.62 Aligned_cols=53 Identities=11% Similarity=0.125 Sum_probs=40.8
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHhcCCCcceehhhchhhhHHHHHHHHHhchhh
Q 016196 321 GYFLWLIIGYGFGLFLTYLGLYLMNGHGQPALLYLVPCTLGLTVILGLARGELK 374 (393)
Q Consensus 321 ~YF~~~~igY~~GL~~t~~~l~~~~~~~QPALLYLvP~~L~~~~~~A~~rgEl~ 374 (393)
+-+..++..|++.+.-..-=..++ +...++-..+.|+++.++.++....+-.+
T Consensus 74 ~i~~~~~~s~~lal~HflTE~l~y-rT~tig~~~~~p~vv~s~Sl~~M~~~l~~ 126 (139)
T KOG3455|consen 74 PIYIATFLSFILALGHFLTELLFY-RTMTIGIGVLTPLVVNSISLVGMLKFLLR 126 (139)
T ss_pred chHHHHHHHHHHHHHHHHHHHHHH-hhccccceEEeeeeehhhhHHHHHHHHcc
Confidence 556777777777776665555667 88999999999999999999887764333
No 18
>cd02133 PA_C5a_like PA_C5a_like: Protease-associated domain containing proteins like Streptococcus pyogenes C5a peptidase. This group contains various PA domain-containing proteins similar to S. pyogenes C5a, including, i) Vpr, a minor extracellular serine protease from Bacillus subtilis, ii) a large molecular mass collagenolytic protease from Geobacillus collagenovorans MO-1, and iii) PrtS, a cell envelope protease from Streptococcus thermophilus CNRZ 385. Proteins in this group belong to the peptidase S8 family. C5a peptidase is a cell surface serine protease which specifically inactivates C5a [a chemotactic peptide, which attracts polymorphonuclear leukocytes (PMNs)], by cleaving it to release a 7-residue carboxy-terminal fragment which contains the PMN binding site. The significance of the PA domain to these proteins has not been ascertained. It may be a protein-protein interaction domain. At peptidase active sites, the PA domain may participate in substrate binding and/or promotin
Probab=35.68 E-value=49 Score=29.00 Aligned_cols=31 Identities=26% Similarity=0.539 Sum_probs=23.9
Q ss_pred ccCceEEEeechhhhHHHHhhhcCCeEEEEE
Q 016196 11 NISIPVLMIPKSRGDALNKSIADKQRVELLL 41 (393)
Q Consensus 11 ~i~Ipv~~~~~~~~~~l~~~~~~g~~v~v~l 41 (393)
...||+++|+++||+.|.+.+.....++...
T Consensus 92 ~~~iP~v~Is~~dG~~L~~~l~~~~~i~~~~ 122 (143)
T cd02133 92 AVFIPVVFISKEDGEALKAALESSKKLTFNT 122 (143)
T ss_pred CCeEeEEEecHHHHHHHHHHHhCCCeEEEEe
Confidence 3579999999999999999886544454443
No 19
>PF07698 7TM-7TMR_HD: 7TM receptor with intracellular HD hydrolase; InterPro: IPR011621 These bacterial 7TM receptor proteins have an intracellular domain IPR006674 from INTERPRO. This entry corresponds to the 7 helix transmembrane domain. These proteins also contain an N-terminal extracellular domain.
Probab=28.96 E-value=1.8e+02 Score=26.39 Aligned_cols=71 Identities=20% Similarity=0.319 Sum_probs=44.4
Q ss_pred HHHHHHHhhhcccccCccchhHHHHHHHHHHHHHHHHHHHHHhcCCCcceehhhchhhhHHHHHHHHHhchhhhc
Q 016196 302 LLICFAFRYDKENKKGVVKGYFLWLIIGYGFGLFLTYLGLYLMNGHGQPALLYLVPCTLGLTVILGLARGELKHL 376 (393)
Q Consensus 302 llia~~~rfD~~~~~~~~~~YF~~~~igY~~GL~~t~~~l~~~~~~~QPALLYLvP~~L~~~~~~A~~rgEl~~~ 376 (393)
.+.-+.+|+.+...++ +.++..-..-+.++++++-.....+ + .++...|++|....+.++......+..-+
T Consensus 17 ~~~~~~~~~~~~~~~~--~~~l~l~~~l~~l~l~l~~~~~~~~-~-~~~~~~~~~P~a~~~~l~~~l~~~~~ai~ 87 (194)
T PF07698_consen 17 ILYLYLRRFRPRILRS--NKYLLLLSLLLLLSLLLAKIILFFI-S-DISYFPYLIPVAAAAMLLTILIDPRLAIL 87 (194)
T ss_pred HHHHHHHHHCcHhhhc--hhHHHHHHHHHHHHHHHHHHHHHhc-c-cchhhhhhhHHHHHHHHHHHHhcchHHHH
Confidence 3455666764433322 2343333455666766666543333 2 57889999999999998888877776543
No 20
>PF06541 DUF1113: Protein of unknown function (DUF1113); InterPro: IPR010540 This family consists of several bacterial proteins of unknown function.
Probab=28.12 E-value=4.5e+02 Score=23.66 Aligned_cols=27 Identities=15% Similarity=0.208 Sum_probs=19.6
Q ss_pred HHhcccCchhHHHHHHHHHHHhhhhhh
Q 016196 221 LQMARLPNIKVASVLLCCAFVYDIFWV 247 (393)
Q Consensus 221 i~~i~l~s~k~~~iLL~~lf~YDiF~V 247 (393)
++.+.-...+..+..+.++++.|...-
T Consensus 129 ~~~i~~~~~~~~~~~l~~~~~~D~~~s 155 (157)
T PF06541_consen 129 LSKIPPIIRNILALVLLALFLIDFVFS 155 (157)
T ss_pred HHhCCHHHHHHHHHHHHHHHHHHHHHH
Confidence 455555566778888999999998653
No 21
>PF03606 DcuC: C4-dicarboxylate anaerobic carrier; InterPro: IPR018385 Escherichia coli contains four different secondary carriers (DcuA, DcuB, DcuC, and DctA) for C4-dicarboxylates [, , , ] DcuA is used for aerobic growth on C4-dicarboxylates [, ], whereas the Dcu carriers (encoded by the dcuA, dcuB, and dcuC genes) are used under anaerobic conditions and form a distinct family of carriers [, , , , , ]. Each of the Dcu carriers is able to catalyze the uptake, antiport, and possibly also efflux of C4-dicarboxylates. DcuB is the major C4-dicarboxylate carrier for fumarate respiration with high fumarate-succinate exchange activity. It is synthesized only in the absence of oxygen and nitrate and in the presence of C4-dicarboxylates [, , , ]. DcuA is expressed constitutively in aerobic and anaerobic growth and can substitute for DcuB [, ]. These proteins are members of the C4-dicarboxylate Uptake C (DcuC) family. DcuC has 12 GES predicted transmembrane regions, is induced only under anaerobic conditions, and is not repressed by glucose. DcuC may therefore function as a succinate efflux system during anaerobic glucose fermentation. However, when overexpressed, it can replace either DcuA or DcuB in catalyzing fumarate-succinate exchange and fumarate uptake [, ]. DcuC shows the same transport modes as DcuA and DcuB (exchange, uptake, and presumably efflux of C4-dicarboxylates) [].; GO: 0016021 integral to membrane
Probab=26.96 E-value=1.3e+02 Score=31.99 Aligned_cols=48 Identities=19% Similarity=0.259 Sum_probs=23.1
Q ss_pred ccCCCcchh--hHHHHHHHhhhcccccCccchhHHHHHHHHHHHHHHHHHH
Q 016196 292 IGFGDILFP--GLLICFAFRYDKENKKGVVKGYFLWLIIGYGFGLFLTYLG 340 (393)
Q Consensus 292 LGlGDIviP--Gllia~~~rfD~~~~~~~~~~YF~~~~igY~~GL~~t~~~ 340 (393)
=|+|+.+-| |.+++.+--=+.+..+ .-|.-.....+.+.++.+..+++
T Consensus 414 ~gl~n~isPtsg~~m~~l~ia~V~~~~-w~K~~~~~~~~~~v~~~v~l~ia 463 (465)
T PF03606_consen 414 DGLGNSISPTSGVLMAVLGIAKVSYGK-WVKRTWPPMLIWFVLSIVFLIIA 463 (465)
T ss_pred HHHHhhccchHHHHHHHhhhcCCCHHH-HHHHHHHHHHHHHHHHHHHHHHh
Confidence 578899999 4555544221221111 01122334455555555555543
No 22
>PRK14415 membrane protein; Provisional
Probab=25.77 E-value=2.1e+02 Score=27.43 Aligned_cols=35 Identities=17% Similarity=0.263 Sum_probs=25.9
Q ss_pred hchhhhHHHHHHHHHhchhhhccccccCCCCCCCC
Q 016196 355 LVPCTLGLTVILGLARGELKHLWDYSREPSSDMNR 389 (393)
Q Consensus 355 LvP~~L~~~~~~A~~rgEl~~~W~~~~~~~~~~~~ 389 (393)
.....+++.++.--.|.+++++++|+|..-+.++|
T Consensus 182 ~~~~~~~~~lii~rHr~NI~Rl~~g~E~k~~~k~~ 216 (216)
T PRK14415 182 MIYAVIGSLLITIMHRDNIKRLLAGKERKLNEKAR 216 (216)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHcCCCCCcCcCCC
Confidence 34455566666667799999999999988765554
No 23
>PF06305 DUF1049: Protein of unknown function (DUF1049); InterPro: IPR010445 This entry consists of several hypothetical bacterial proteins of unknown function.
Probab=20.25 E-value=1e+02 Score=23.26 Aligned_cols=35 Identities=14% Similarity=0.295 Sum_probs=21.7
Q ss_pred cCCeEEEEEecCCCCCcchhHHHHHHHHHHHHHHhh
Q 016196 33 DKQRVELLLYAPNRPDVDFAVIFLWMMAVGTIIAAA 68 (393)
Q Consensus 33 ~g~~v~v~ly~p~~p~~d~s~v~l~lmAv~tV~~Gs 68 (393)
+...|++.++--..+ .-.+.+++..+++|.+..+-
T Consensus 3 N~~~V~v~~~~~~~~-~pl~l~il~~f~~G~llg~l 37 (68)
T PF06305_consen 3 NTQPVTVNFLFGQFP-LPLGLLILIAFLLGALLGWL 37 (68)
T ss_pred CCceEEEEEEeeecc-chHHHHHHHHHHHHHHHHHH
Confidence 456788887766555 55556666666666555443
Done!