Query 021270
Match_columns 315
No_of_seqs 160 out of 459
Neff 5.5
Searched_HMMs 46136
Date Fri Mar 29 08:56:18 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/021270.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/021270hhsearch_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 2.2E-73 4.7E-78 540.4 16.4 306 1-308 1-331 (362)
2 PF04258 Peptidase_A22B: Signa 100.0 2.5E-65 5.5E-70 486.5 -0.1 264 49-312 2-295 (298)
3 KOG2442 Uncharacterized conser 100.0 7.8E-61 1.7E-65 470.1 14.9 287 14-312 173-513 (541)
4 smart00730 PSN Presenilin, sig 100.0 2.7E-49 5.8E-54 368.4 17.7 221 52-300 2-239 (249)
5 PF06550 DUF1119: Protein of u 99.6 8E-15 1.7E-19 138.0 18.1 155 141-299 92-270 (283)
6 COG3389 Uncharacterized protei 99.4 6.9E-13 1.5E-17 121.7 6.1 150 145-300 96-264 (277)
7 PF01080 Presenilin: Presenili 93.9 0.082 1.8E-06 53.2 5.0 55 233-293 326-381 (403)
8 KOG2736 Presenilin [Signal tra 91.4 0.13 2.9E-06 51.1 2.6 58 231-293 318-375 (406)
9 PF14248 DUF4345: Domain of un 34.4 2.5E+02 0.0053 23.2 7.7 85 27-112 5-97 (124)
10 PF01080 Presenilin: Presenili 16.1 49 0.0011 33.7 0.0 61 158-219 147-213 (403)
No 1
>KOG2443 consensus Uncharacterized conserved protein [Function unknown]
Probab=100.00 E-value=2.2e-73 Score=540.37 Aligned_cols=306 Identities=45% Similarity=0.723 Sum_probs=261.9
Q ss_pred CcchhhhHHHHHHHhhhcCCCcccCcchhhHHHHHHHHhhhcccccCC------C-CCCCCCCccccch-hhhHHHHHHH
Q 021270 1 MKNCERIANLALAGLTLAPLLVKVDPNLNVILTACLTVYVGCYRSVKP------T-PPSETMSNEHAMR-FPFVGSAMLL 72 (315)
Q Consensus 1 ~~~~~~~~~~~l~~~~~~p~~~~v~~~~~li~~Av~~I~iGs~~sl~~------~-~~~e~is~~~A~~-fPv~aS~~L~ 72 (315)
|++|+.-+..+....+.++.....+.+..++++|+++|++||.||++. + +.+|+++.+||.. ||++|||+|+
T Consensus 1 ~~e~~~~~~~~~~~~~~~~~~~~~~~~~sl~l~A~l~i~~GsfRS~~~~~~~~d~~~~~es~t~~~a~~~fPi~~s~tLl 80 (362)
T KOG2443|consen 1 MAEQTNGIVPAAAGTHWTTSELLASAYVSLILIALLLIVIGSFRSLNYIKENEDKKDKSESITKRDAGKMFPIIGSCTLL 80 (362)
T ss_pred CchhhccccccccCCcccchhhhcccchHHHHHHHHHHHHHHHHHhhhhhhhhcccchhhhhhhhhhcccCCcccchHHH
Confidence 345555222344446677777788889999999999999999999962 1 2467899999999 9999999999
Q ss_pred HHHHHHhhccHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----hhCCCCcccCceeeeeccc---ccceeeeehhhHHhh
Q 021270 73 SLFLLFKFLSKDLVNAVLTCYFFVLGIIALSATILPAVK----RFLPNHWNEDLIIWHFPYF---RSLEIEFTRSQIIAA 145 (315)
Q Consensus 73 ~Ly~l~k~~~~~~v~~ll~~yf~~~g~~~l~~~l~~~~~----~~~p~~~~~~~~~~~~p~~---~~~~~~~t~~~l~~~ 145 (315)
+||+++|.++++++| +++.||++.|+.++.+.+.|+++ ...|..|.+... .+-|.- ...+.++|..|+++.
T Consensus 81 ~lyl~fk~ls~~~~~-ll~~~ff~~g~~al~~~~~p~~~~~~~~l~p~~~~~~~~-~~~~~~~~~~~~~~~Ft~~~iv~~ 158 (362)
T KOG2443|consen 81 LLYLLFKPLSKELIN-LLTMYFFFLGVIALLSLLDPFINAFKFLLLPMCQYHLLF-PRGPGEKKEFICNGKFTRAQIVAL 158 (362)
T ss_pred HHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHhhHHHHhhhhhhcCccchhheee-eccCCcccceeecccccHHHHHHH
Confidence 999999999999998 77899999999999999999998 344544432110 111111 124678999999999
Q ss_pred hhHHHhhhhhhcccchhHhhHHHHHHHHHhhhheecCchhhHHHHHHHHHhhhheeeeecceeeeecccCCCCEEEEecc
Q 021270 146 IPGTFFCAWYASQKHWLANNTLGLAFCIQGIEMLSLGSFKTGAILLAGLFVYDIFWVFFTPVMVSVAKSFDAPIKLLFPT 225 (315)
Q Consensus 146 ~~s~~~~~~~~~~~~W~l~nilgi~~~~~~i~~i~l~s~k~~~ilL~~lf~YDif~VF~t~vMv~VA~~~~~Pikl~~P~ 225 (315)
..|..+++||+.++||++||++|+++|+++|+.+|++|+|+|++||.|||+|||||||+|+|||||||++|.|+|+++|+
T Consensus 159 vls~~i~v~~ll~~HWl~nN~lgms~~I~~I~~lrL~s~ktgalLL~gLffYDIfwVFgTnVMVtVAt~~D~PikL~fP~ 238 (362)
T KOG2443|consen 159 VLSSMIVVWYLLTKHWLANNLLGMSFCIAGIEFLRLPSLKTGALLLGGLFFYDIFWVFGTNVMVTVATSLDAPIKLVFPQ 238 (362)
T ss_pred HHHHHHHHHHHhhhHHHHHhHHHHHHHHHHHHHhcccchhhhHHHHHHHHHHheEEEecCceEEEeecccCCceEEecch
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCC-----CCCceeccCCCeechhHHHHHHHHhhhccCCC---CcchhHhHHHHHHHHHHHHHHHHHhcCCceeehheec
Q 021270 226 RDT-----ARPFSMLGLGDIVIPGIFVALALRFDVSRGKG---SRYFKSAFLGYTVGLVLTIIVMNWFQAAQVTIACFFS 297 (315)
Q Consensus 226 ~~~-----~~~~s~LGlGDIviPGlfia~~lRfD~~~~~~---~~YF~~s~~gY~~GL~~t~~~~~~~~~~QPALLYLVP 297 (315)
+.. ..+||||||||||+||+|+|+++|||.+++.. ++||+.+++||.+|+..|+++|+++|++||||||+||
T Consensus 239 ~l~~~~~~as~fsMLGLGDIviPGiflAl~lRfD~~k~~~s~~~~YF~~t~i~Y~~gL~~ti~~~~~FkaAQPALLYlVP 318 (362)
T KOG2443|consen 239 KLLFPGLTASNFSMLGLGDIVIPGIFLALVLRFDIRKKRNSKVRTYFHNTFIAYFLGLLTTIVVLHIFKAAQPALLYLVP 318 (362)
T ss_pred hhccCCCccccceeccccchhhHHHHHHHHHHhhHHHHhcccCceEEEEeHHHHHhhhHHHhhhhhhhhccchhhhhhhH
Confidence 522 34699999999999999999999999876543 7899999999999999999999999999999999999
Q ss_pred ccc--cccccccc
Q 021270 298 FVF--PLNVHVPR 308 (315)
Q Consensus 298 ~~l--~~~v~~~r 308 (315)
+++ |.++|.+|
T Consensus 319 ~~l~~~ll~A~~~ 331 (362)
T KOG2443|consen 319 ACLGPLLLMAYWR 331 (362)
T ss_pred HHHhHHHHHHHHc
Confidence 874 56777766
No 2
>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=2.5e-65 Score=486.50 Aligned_cols=264 Identities=43% Similarity=0.783 Sum_probs=0.0
Q ss_pred CCCCCCCCccccchhhhHHHHHHHHHHHHHhhccHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHhhCCC----CcccCc
Q 021270 49 TPPSETMSNEHAMRFPFVGSAMLLSLFLLFKFLSKDLVNA--VLTCYFFVLGIIALSATILPAVKRFLPN----HWNEDL 122 (315)
Q Consensus 49 ~~~~e~is~~~A~~fPv~aS~~L~~Ly~l~k~~~~~~v~~--ll~~yf~~~g~~~l~~~l~~~~~~~~p~----~~~~~~ 122 (315)
+|+.|++|.+||+.||++||++|+++|+++|+++++++|. +++.||++.|+.++...+.+.+.+..+. ....++
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 4678999999999999999999999999999999999986 8999999999999988888877664432 111111
Q ss_pred eeeeeccc--ccceeeeehhhHHhhhhHHHhhh-hhhccc-chhHhhHHHHHHHHHhhhheecCchhhHHHHHHHHHhhh
Q 021270 123 IIWHFPYF--RSLEIEFTRSQIIAAIPGTFFCA-WYASQK-HWLANNTLGLAFCIQGIEMLSLGSFKTGAILLAGLFVYD 198 (315)
Q Consensus 123 ~~~~~p~~--~~~~~~~t~~~l~~~~~s~~~~~-~~~~~~-~W~l~nilgi~~~~~~i~~i~l~s~k~~~ilL~~lf~YD 198 (315)
.+.+.+.. +..+.+++..++++..+|+.++. |++.++ ||++||++|+|+|+++++.+|+||+|+++++|+++|+||
T Consensus 82 ~~~~~~~~~~~~~~~~~~~~~l~~~~~s~~~~~~w~~~~~~~W~l~nilgi~~~i~~i~~i~l~s~k~~~ilL~~lf~YD 161 (298)
T PF04258_consen 82 WKLSFPRRDIKPFSGSFTLSDLLSFLISLAIAVVWYVYRNEHWILQNILGICFCINIISLIRLPSFKTATILLIGLFLYD 161 (298)
T ss_dssp ---------------------------------S----------------------------------------------
T ss_pred EEEEEEcccccceeeeeeHHHHHHHHHHHHHHHHHHHhccchHHHHhHHHHHHHHHHHHheeccchHHHHHHHHHHHHHH
Confidence 11111111 23456778889999999988875 566677 999999999999999999999999999999999999999
Q ss_pred heeee------ecceeeeeccc-CCC----CEEEEeccC-----CCCCCceeccCCCeechhHHHHHHHHhhhcc-CCCC
Q 021270 199 IFWVF------FTPVMVSVAKS-FDA----PIKLLFPTR-----DTARPFSMLGLGDIVIPGIFVALALRFDVSR-GKGS 261 (315)
Q Consensus 199 if~VF------~t~vMv~VA~~-~~~----Pikl~~P~~-----~~~~~~s~LGlGDIviPGlfia~~lRfD~~~-~~~~ 261 (315)
||||| +++||++|||+ .|. |+|+++|+. ++++++||||+||||+||+++++|+|||.++ +.++
T Consensus 162 if~VF~s~~~~g~svM~~VA~~~~~~~~~~P~~l~~P~~~~~~~~~~~~~s~LGlGDIviPGl~i~~~~rfD~~~~~~~~ 241 (298)
T PF04258_consen 162 IFWVFISPYFFGTSVMVTVATGGFDAPEKLPIKLQFPRFFDSNSSCPKPFSMLGLGDIVIPGLFIAFCLRFDKSRNKSRK 241 (298)
T ss_dssp --------------------------------------------------------------------------------
T ss_pred HHHHHhccccCCCchhhhhhccccccccCCCeEEEEeccccccccCCCCeeEeccchHHHHHHHHHHHHHhhHhhccccc
Confidence 99999 88899999999 888 999999997 4688999999999999999999999999998 4567
Q ss_pred cchhHhHHHHHHHHHHHHHHHHHhcCCceeehheecccc-c-c-cccccccCcC
Q 021270 262 RYFKSAFLGYTVGLVLTIIVMNWFQAAQVTIACFFSFVF-P-L-NVHVPRNYSP 312 (315)
Q Consensus 262 ~YF~~s~~gY~~GL~~t~~~~~~~~~~QPALLYLVP~~l-~-~-~v~~~r~~~~ 312 (315)
+||.++++||++||++|+++++++|+|||||||+||+++ + . ..+.|+|.|.
T Consensus 242 ~Yf~~~~~~Y~~Gl~~t~~~~~~~~~~QPALlylvP~~l~~~~~~a~~r~el~~ 295 (298)
T PF04258_consen 242 PYFIASLIGYALGLLLTFVALHLFKHGQPALLYLVPCTLGSVLLVAWIRGELKD 295 (298)
T ss_dssp ------------------------------------------------------
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHhCCCCCeehHHHHHHHHHHHHHHHHhhHHHH
Confidence 899999999999999999999999999999999999984 3 3 4445556554
No 3
>KOG2442 consensus Uncharacterized conserved protein, contains PA domain [General function prediction only]
Probab=100.00 E-value=7.8e-61 Score=470.10 Aligned_cols=287 Identities=29% Similarity=0.446 Sum_probs=230.8
Q ss_pred HhhhcCCCcccCcchhhH-HHHHHHHhhhcccccCCCCC--------------CC------------CCCccccchhhhH
Q 021270 14 GLTLAPLLVKVDPNLNVI-LTACLTVYVGCYRSVKPTPP--------------SE------------TMSNEHAMRFPFV 66 (315)
Q Consensus 14 ~~~~~p~~~~v~~~~~li-~~Av~~I~iGs~~sl~~~~~--------------~e------------~is~~~A~~fPv~ 66 (315)
+..|+|.+|.+|+++.+| ++|++||..|||||..++++ +| .+|.-.|..|.+.
T Consensus 173 ~~lYaPk~P~vD~~~v~iwlmAVgTVa~ggyWs~~t~~~~~~~a~~~~~d~~s~~~~~~~~~e~~~vd~s~i~~~~fvv~ 252 (541)
T KOG2442|consen 173 LALYAPKRPAVDYAMVFIWLMAVGTVACGGYWSGLTEREKAIEADRLLDDDSSSEGNTKETKEEEVVDISPITAVFFVVT 252 (541)
T ss_pred EEEECCCCCCccHHHHHHHHHHHhHhhccchhhhccChhhhhhhhhhcccccccccccccCCccccEEeeeeEEEEehhh
Confidence 467999999999999999 89999999999999743210 11 1333345566667
Q ss_pred HHHHHHHHHHHHhhccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCcccCceeeeecccccceeeeehhhHHhhh
Q 021270 67 GSAMLLSLFLLFKFLSKDLVNAVLTCYFFVLGIIALSATILPAVKRFLPNHWNEDLIIWHFPYFRSLEIEFTRSQIIAAI 146 (315)
Q Consensus 67 aS~~L~~Ly~l~k~~~~~~v~~ll~~yf~~~g~~~l~~~l~~~~~~~~p~~~~~~~~~~~~p~~~~~~~~~t~~~l~~~~ 146 (315)
++.+|+.+|+++++ +++ +++++|++.|..++++|+.+++++..-+..+. .-.-|..+. .+..+++..+
T Consensus 253 ~c~~LvLlyfF~~~----~V~-v~iiif~i~g~~gLy~Cl~~lv~r~~~~~~~~---~~~~~~l~~----~~~~~l~l~~ 320 (541)
T KOG2442|consen 253 ACGFLVLLYFFYSY----LVY-VLIIIFCIGGAQGLYNCLAALVHRLPYGAARF---PTLAPRLGN----MSYRLLFLSI 320 (541)
T ss_pred hHHHHHHHHHHHHH----HHH-HHhhheeecccchHHHHHHHHHhhhhhhcccc---cccccccCC----hhHHHHHHHH
Confidence 77777766665544 444 45677999999999999999998754332221 111122222 2233566777
Q ss_pred hHHHhh-hhhhccc---chhHhhHHHHHHHHHhhhheecCchhhHHHHHHHHHhhhheeeeecc--------eeeeeccc
Q 021270 147 PGTFFC-AWYASQK---HWLANNTLGLAFCIQGIEMLSLGSFKTGAILLAGLFVYDIFWVFFTP--------VMVSVAKS 214 (315)
Q Consensus 147 ~s~~~~-~~~~~~~---~W~l~nilgi~~~~~~i~~i~l~s~k~~~ilL~~lf~YDif~VF~t~--------vMv~VA~~ 214 (315)
+|++++ .|.++|+ +|++||++|||+|++.+|.+|+||+|++++||..+|+|||||||+|| ||++||+|
T Consensus 321 ~Cia~aV~W~v~R~e~~AwilqDvLGIalci~vLk~vRLPnlK~~tiLL~c~f~YDiF~VFitp~~t~~geSVMieVA~G 400 (541)
T KOG2442|consen 321 LCIAVAVVWAVFRNEDWAWILQDVLGIALCITVLKTVRLPNLKVCTILLLCLFLYDIFFVFITPFITKNGESVMIEVARG 400 (541)
T ss_pred hhhheeEEEEEeecCchHHHHHhhHhHHHHHHHHHHhcCCchhHHHHHHHHHHHHhhheeeeehhhccCCceEEEEEecC
Confidence 777776 5777775 69999999999999999999999999999999999999999999997 89999998
Q ss_pred C-----CCCEEEEeccC------CCCCCceeccCCCeechhHHHHHHHHhhhccCC-CCcchhHhHHHHHHHHHHHHHHH
Q 021270 215 F-----DAPIKLLFPTR------DTARPFSMLGLGDIVIPGIFVALALRFDVSRGK-GSRYFKSAFLGYTVGLVLTIIVM 282 (315)
Q Consensus 215 ~-----~~Pikl~~P~~------~~~~~~s~LGlGDIviPGlfia~~lRfD~~~~~-~~~YF~~s~~gY~~GL~~t~~~~ 282 (315)
. ..||.+++||. ++.++|||||+|||++||+++|+|+|||.+.++ +..||.++++||++||++|++++
T Consensus 401 ~~s~~EkiPMlLkVPrl~~s~~~~~~~~~silGFGDIl~PGlLVa~c~RfD~~~~~~~~iYfv~~tvaYgiGLlvTfvaL 480 (541)
T KOG2442|consen 401 PSSTEEKIPMLLKVPRLFFSVLSDPWGGYSILGFGDILVPGLLVAFCLRFDVQVNSVSNIYFVWSTVAYGIGLLVTFVAL 480 (541)
T ss_pred CCCCCCCcceEEEcchhccccccccCCCeeEeeecccccchHHHHHHHHhhhhccccceeEEehhHHHHHHHHHHHHHHH
Confidence 3 57999999994 678999999999999999999999999998777 89999999999999999999999
Q ss_pred HHhcCCceeehheecccccc---cccccccCcC
Q 021270 283 NWFQAAQVTIACFFSFVFPL---NVHVPRNYSP 312 (315)
Q Consensus 283 ~~~~~~QPALLYLVP~~l~~---~v~~~r~~~~ 312 (315)
.+||.||||||||||||+.+ +.+.|+|.|.
T Consensus 481 ~LM~~GQPALLYLVP~TL~t~~~lal~R~El~~ 513 (541)
T KOG2442|consen 481 VLMKGGQPALLYLVPCTLGTAVVLALCRGELKK 513 (541)
T ss_pred HHhcCCCceEEEEechHHHHHHHHHHHHHHHHH
Confidence 99999999999999999642 4445556543
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=2.7e-49 Score=368.43 Aligned_cols=221 Identities=37% Similarity=0.620 Sum_probs=192.1
Q ss_pred CCCCCccccchhhhHHHHHHHHHHHHHhhccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCcccCceeeeecccc
Q 021270 52 SETMSNEHAMRFPFVGSAMLLSLFLLFKFLSKDLVNAVLTCYFFVLGIIALSATILPAVKRFLPNHWNEDLIIWHFPYFR 131 (315)
Q Consensus 52 ~e~is~~~A~~fPv~aS~~L~~Ly~l~k~~~~~~v~~ll~~yf~~~g~~~l~~~l~~~~~~~~p~~~~~~~~~~~~p~~~ 131 (315)
+|.+++++++.||+++|++|+++|...|+ .+..+.+||+..|+.++..++.+.....
T Consensus 2 ~~~~n~~~~i~fii~~s~~Ll~Ly~~~~~-----~~i~~~~~f~~~~~~~~~~~~~~~~~~~------------------ 58 (249)
T smart00730 2 YSLLNSLVAIVFPIVATFVLVLLYKFFKY-----LVIVLVIYFSSLGVLFLYSLLYPLEVFR------------------ 58 (249)
T ss_pred cccccHHHHhhHHHHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHHHHHHHHHHHHHHHH------------------
Confidence 56789999999999999999999887776 2677889999999999999988876532
Q ss_pred cceeeeehhhHHhhhhHHH-hhhhhhccc-chhHhhHHHHHHHHHhhhheecCchhhHHHHHHHHHhhhheeeeec----
Q 021270 132 SLEIEFTRSQIIAAIPGTF-FCAWYASQK-HWLANNTLGLAFCIQGIEMLSLGSFKTGAILLAGLFVYDIFWVFFT---- 205 (315)
Q Consensus 132 ~~~~~~t~~~l~~~~~s~~-~~~~~~~~~-~W~l~nilgi~~~~~~i~~i~l~s~k~~~ilL~~lf~YDif~VF~t---- 205 (315)
.+.........+.+ .+.|+.++| +|..||++|+++|+++++.+++||+|++.++|+++++||+||||+|
T Consensus 59 -----~~~~~~~~~~~~~~v~~~~~~~~~~~w~~~~~lgi~~~~~~~~~~~l~~~~~~~iLL~~l~iYDif~Vf~t~~~~ 133 (249)
T smart00730 59 -----VDYPTLLILLLNFAVVGFWCIHRKGAWIQQDLIGISLCMAILFILRLPSEWTAWILLGALFIYDIFAVFGTPGPL 133 (249)
T ss_pred -----HhHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHheeecCCCCc
Confidence 01112333333433 457887786 9999999999999999999999999999999999999999999999
Q ss_pred ceeeeecccCCC-----CEEEEecc------CCCCCCceeccCCCeechhHHHHHHHHhhhccCCCCcchhHhHHHHHHH
Q 021270 206 PVMVSVAKSFDA-----PIKLLFPT------RDTARPFSMLGLGDIVIPGIFVALALRFDVSRGKGSRYFKSAFLGYTVG 274 (315)
Q Consensus 206 ~vMv~VA~~~~~-----Pikl~~P~------~~~~~~~s~LGlGDIviPGlfia~~lRfD~~~~~~~~YF~~s~~gY~~G 274 (315)
++|++|||+.|. |+++..|| +++++++++||+|||++||++++.|+|||.+++.+++||..+++||.+|
T Consensus 134 ~vMv~vA~~~~~~~~~~P~ll~~p~~~~~~~~~~~~~~~~LGLGDiv~Pgilv~~a~~fd~~~~~~~~yf~~~~~ay~~G 213 (249)
T smart00730 134 RVMVEVATGRDEPIKVFPALLYVPRLVVSFEDDEEGRFSMLGLGDIVFPGILVASAARFDVSVRSDSNYFLACFVAYGIG 213 (249)
T ss_pred hHHhhHhccCCCCcccCChhhcccccccccccCCCCccceecCCCeeeHHHHHHHHHHhhhcccCCcccHHHHHHHHHHH
Confidence 899999999774 66777786 3456799999999999999999999999998877889999999999999
Q ss_pred HHHHHHHHHHhcCCceeehheecccc
Q 021270 275 LVLTIIVMNWFQAAQVTIACFFSFVF 300 (315)
Q Consensus 275 L~~t~~~~~~~~~~QPALLYLVP~~l 300 (315)
|+.|+++++.+|+|||||+|+||+++
T Consensus 214 L~~t~~~l~~~~~aqPALlylvp~~l 239 (249)
T smart00730 214 LILTLVLLALFKKAQPALPYLVPFTL 239 (249)
T ss_pred HHHHHHHHHHhCCCCccHHHHHHHHH
Confidence 99999999999999999999999984
No 5
>PF06550 DUF1119: Protein of unknown function (DUF1119); InterPro: IPR010545 This family consists of several hypothetical archaeal proteins of unknown function.
Probab=99.65 E-value=8e-15 Score=138.02 Aligned_cols=155 Identities=27% Similarity=0.322 Sum_probs=117.7
Q ss_pred hHHhhhhHHHhhhhhhcccchhHhhHHHHHHHHH--hhhheecCchhhHHHHHHHHHhhhheeeeecceeeeeccc---C
Q 021270 141 QIIAAIPGTFFCAWYASQKHWLANNTLGLAFCIQ--GIEMLSLGSFKTGAILLAGLFVYDIFWVFFTPVMVSVAKS---F 215 (315)
Q Consensus 141 ~l~~~~~s~~~~~~~~~~~~W~l~nilgi~~~~~--~i~~i~l~s~k~~~ilL~~lf~YDif~VF~t~vMv~VA~~---~ 215 (315)
+..+.+.+.++..+.+....|+..|+.|+..+.. ++-.+++ +...+.+||..+-+||..-||+|++|++.|++ .
T Consensus 92 ~~~a~~~ai~~~~~L~~ypEWYviD~~Gil~~aG~aaiFGISl-~~lpaiiLL~iLAVYDaISVYkTkHMltLAegv~d~ 170 (283)
T PF06550_consen 92 NIIALILAIALTALLYKYPEWYVIDIAGILMGAGAAAIFGISL-GILPAIILLAILAVYDAISVYKTKHMLTLAEGVMDL 170 (283)
T ss_pred HHHHHHHHHHHHHHHHhcchHHHHHHHHHHHHhHHHHHHhhhc-cHHHHHHHHHHHHHhhhhheecchHHHHHHHHHhcc
Confidence 3456666777777777889999999999999876 5667777 56678999999999999999999999999998 5
Q ss_pred CCCEEEEeccC---------------CCCCCceeccCCCeechhHHHHHHHHhhhccCC-CCcchhHhHHHHHHHHHHHH
Q 021270 216 DAPIKLLFPTR---------------DTARPFSMLGLGDIVIPGIFVALALRFDVSRGK-GSRYFKSAFLGYTVGLVLTI 279 (315)
Q Consensus 216 ~~Pikl~~P~~---------------~~~~~~s~LGlGDIviPGlfia~~lRfD~~~~~-~~~YF~~s~~gY~~GL~~t~ 279 (315)
+.|+.+++|+. +++|+--++|+||.++|.++++-+..|...... .-.++ .+|-.+|-+..+
T Consensus 171 klPilfViP~~~~ySf~~~~~~~~~~~~~r~a~fiGlGD~vmPtILVvSa~~f~~~~~~~~~~lp---alga~~Gtl~gl 247 (283)
T PF06550_consen 171 KLPILFVIPKKRGYSFLKDGFDNREEKEERDAFFIGLGDAVMPTILVVSAAFFLSAPILGGLNLP---ALGAMLGTLAGL 247 (283)
T ss_pred CCceEEEEecccCccccccccccccccccccceEeccchhhhHHHHHHHHHHhccccchhhhhHH---HHHHHHHHHHHH
Confidence 79999999973 112445689999999999999999999765321 01111 233334444444
Q ss_pred HHHHH---hcCCceeehheeccc
Q 021270 280 IVMNW---FQAAQVTIACFFSFV 299 (315)
Q Consensus 280 ~~~~~---~~~~QPALLYLVP~~ 299 (315)
.++.+ .+++||+|.||.-+.
T Consensus 248 ~vL~~~v~kgrp~aGLP~LN~Ga 270 (283)
T PF06550_consen 248 AVLLRFVMKGRPQAGLPFLNGGA 270 (283)
T ss_pred HHHHHHHHcCCCCCCCCccchhH
Confidence 44444 478999999998765
No 6
>COG3389 Uncharacterized protein conserved in archaea [Function unknown]
Probab=99.36 E-value=6.9e-13 Score=121.68 Aligned_cols=150 Identities=25% Similarity=0.296 Sum_probs=116.7
Q ss_pred hhhHHHhhhhhhcccchhHhhHHHHHHHHHh--hhheecCchhhHHHHHHHHHhhhheeeeecceeeeeccc---CCCCE
Q 021270 145 AIPGTFFCAWYASQKHWLANNTLGLAFCIQG--IEMLSLGSFKTGAILLAGLFVYDIFWVFFTPVMVSVAKS---FDAPI 219 (315)
Q Consensus 145 ~~~s~~~~~~~~~~~~W~l~nilgi~~~~~~--i~~i~l~s~k~~~ilL~~lf~YDif~VF~t~vMv~VA~~---~~~Pi 219 (315)
..+++.+....+.++.|+..|..|.+++... +-.++++ ...+..+|..+-+||..-|++|.+|.+.|++ .|+||
T Consensus 96 i~~aI~~~~lL~~~peWyVid~ag~~la~Giaai~GIsfg-v~pavvlL~~lavYDaIsVYkT~HMIslA~~v~d~~lPm 174 (277)
T COG3389 96 IGLAIGLVYLLYKYPEWYVIDLAGFFLAVGIAAIFGISFG-VLPAVVLLIALAVYDAISVYKTRHMISLAEGVMDLDLPM 174 (277)
T ss_pred HHHHHHHHHhhhhccceEEeehHHHHHHhhHHHhheeecc-hHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHhcCCce
Confidence 3344444444456789999999999988754 5566774 4667899999999999999999999999998 69999
Q ss_pred EEEeccC------------CCCCCceeccCCCeechhHHHHHHHHhhhccCCCCcchh--HhHHHHHHHHHHHHHHHHHh
Q 021270 220 KLLFPTR------------DTARPFSMLGLGDIVIPGIFVALALRFDVSRGKGSRYFK--SAFLGYTVGLVLTIIVMNWF 285 (315)
Q Consensus 220 kl~~P~~------------~~~~~~s~LGlGDIviPGlfia~~lRfD~~~~~~~~YF~--~s~~gY~~GL~~t~~~~~~~ 285 (315)
.+++|++ ..+++.-|.|+||+++|.+++.-+.-|-.+. ..+|. .++.|-.+|+..- -+..-
T Consensus 175 lfviP~~l~ysf~~~~fe~r~dgna~miG~GDavmPsIlVvSaa~f~~s~---~l~f~~Lpal~GglvGl~vL--~~v~r 249 (277)
T COG3389 175 LFVIPENLAYSFVEDAFENRGDGNAYMIGLGDAVMPSILVVSAAFFLISP---ILAFIVLPALAGGLVGLAVL--YFVNR 249 (277)
T ss_pred EEEeecccccceeehhhhcCCCCceEEEeechhhcccceeeehHHhccCC---chhhhhHHHHhccHHHHHHH--HHHhc
Confidence 9999962 3466778999999999999999888875532 34443 3677878887764 34456
Q ss_pred cCCceeehheecccc
Q 021270 286 QAAQVTIACFFSFVF 300 (315)
Q Consensus 286 ~~~QPALLYLVP~~l 300 (315)
+++||.|.|+.-+++
T Consensus 250 ~Rp~pGLP~lN~GaI 264 (277)
T COG3389 250 GRPHPGLPFLNTGAI 264 (277)
T ss_pred CCCCCCCceeccchH
Confidence 889999999988753
No 7
>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=93.94 E-value=0.082 Score=53.20 Aligned_cols=55 Identities=27% Similarity=0.506 Sum_probs=44.5
Q ss_pred eeccCCCeechhHHHHHHHHh-hhccCCCCcchhHhHHHHHHHHHHHHHHHHHhcCCceeeh
Q 021270 233 SMLGLGDIVIPGIFVALALRF-DVSRGKGSRYFKSAFLGYTVGLVLTIIVMNWFQAAQVTIA 293 (315)
Q Consensus 233 s~LGlGDIviPGlfia~~lRf-D~~~~~~~~YF~~s~~gY~~GL~~t~~~~~~~~~~QPALL 293 (315)
--|||||-|+=+++++-+.++ |. .-..+|++|-.+||.+|...+.++|++-|||.
T Consensus 326 ~klGlGDFiFYs~Lvg~aa~~~~~------~~~~~~~~ail~Gl~~Tl~~l~~~~~alPALP 381 (403)
T PF01080_consen 326 IKLGLGDFIFYSVLVGRAAMYGDW------NTVVACFVAILIGLCLTLLLLAIFRKALPALP 381 (403)
T ss_dssp -SS-TTTHHHHHHHHHHHHHH-TT------TTHHHHHHHHHHHHHHHHHHHHHHT-S-SSSS
T ss_pred eeecchhHHHHHHHHhHHHhcCCH------HHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCc
Confidence 359999999999999988775 33 33578899999999999999999999999985
No 8
>KOG2736 consensus Presenilin [Signal transduction mechanisms]
Probab=91.41 E-value=0.13 Score=51.08 Aligned_cols=58 Identities=24% Similarity=0.412 Sum_probs=46.8
Q ss_pred CceeccCCCeechhHHHHHHHHhhhccCCCCcchhHhHHHHHHHHHHHHHHHHHhcCCceeeh
Q 021270 231 PFSMLGLGDIVIPGIFVALALRFDVSRGKGSRYFKSAFLGYTVGLVLTIIVMNWFQAAQVTIA 293 (315)
Q Consensus 231 ~~s~LGlGDIviPGlfia~~lRfD~~~~~~~~YF~~s~~gY~~GL~~t~~~~~~~~~~QPALL 293 (315)
+---||+||-++=.++++-+.-+|.. .==++|++|-.+||.+|...+.++|++-|||.
T Consensus 318 r~ikLGlGDFIFYSvLvGkAa~~~d~-----~TviAC~vaIL~GL~~TL~llsv~~kALPALP 375 (406)
T KOG2736|consen 318 RGIKLGLGDFIFYSVLVGKAAAYGDL-----NTVIACFVAILIGLCLTLLLLSVFKKALPALP 375 (406)
T ss_pred cceeeccCceEEEEeeccchhhcCCh-----HHHHHHHHHHHHHHHHHHHHHHHHhhcCcCCc
Confidence 34469999999888777766666521 11278999999999999999999999999986
No 9
>PF14248 DUF4345: Domain of unknown function (DUF4345)
Probab=34.37 E-value=2.5e+02 Score=23.15 Aligned_cols=85 Identities=19% Similarity=0.240 Sum_probs=56.4
Q ss_pred chhhHHHHHHHHhhhcccccCCCC--------CCCCCCccccchhhhHHHHHHHHHHHHHhhccHHHHHHHHHHHHHHHH
Q 021270 27 NLNVILTACLTVYVGCYRSVKPTP--------PSETMSNEHAMRFPFVGSAMLLSLFLLFKFLSKDLVNAVLTCYFFVLG 98 (315)
Q Consensus 27 ~~~li~~Av~~I~iGs~~sl~~~~--------~~e~is~~~A~~fPv~aS~~L~~Ly~l~k~~~~~~v~~ll~~yf~~~g 98 (315)
+..+.+.++.++.+|...-+.+.+ ..++.+.++...+ ..|...-+|++++.-..+++....-+..-..+.+
T Consensus 5 ~~~l~~~~l~~~~~Gl~~~~~p~~~~~~~~~~~~~~~~~~s~~R~-~~G~~~g~Gl~~l~~~~~~~~~~~al~~l~~~~~ 83 (124)
T PF14248_consen 5 RIFLILSALVFIGIGLAYFLAPSSTAPWFGGVLANAAALDSEFRA-YGGLYLGLGLLLLWAAFKPEYRRPALRLLALFIG 83 (124)
T ss_pred HHHHHHHHHHHHHHHHHHHhCcHHHHhhcccccCCchhHHHHHHH-HHHHHHHHHHHHHHHHccHhHHHHHHHHHHHHHH
Confidence 455668899999999887776532 1223334566666 4566677777777777777666655554455677
Q ss_pred HHHHHHHHHHHHHh
Q 021270 99 IIALSATILPAVKR 112 (315)
Q Consensus 99 ~~~l~~~l~~~~~~ 112 (315)
..++...++-..+.
T Consensus 84 ~~~lgRlis~~~dG 97 (124)
T PF14248_consen 84 GGGLGRLISLALDG 97 (124)
T ss_pred HHHHHHHHHHHHcC
Confidence 78888888877654
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=16.14 E-value=49 Score=33.69 Aligned_cols=61 Identities=25% Similarity=0.366 Sum_probs=0.0
Q ss_pred ccchhHhhHHHHHHHHHhh-hhee-cCchhhHHHHHHHHHhhhheeeeec--c--eeeeecccCCCCE
Q 021270 158 QKHWLANNTLGLAFCIQGI-EMLS-LGSFKTGAILLAGLFVYDIFWVFFT--P--VMVSVAKSFDAPI 219 (315)
Q Consensus 158 ~~~W~l~nilgi~~~~~~i-~~i~-l~s~k~~~ilL~~lf~YDif~VF~t--~--vMv~VA~~~~~Pi 219 (315)
+++=.+|..-=++.|.-.. -.++ +|. +|.-.+|+.+-+||++-|-.+ | ..++.|+.-|.|+
T Consensus 147 ~~Pl~l~Q~YLI~is~l~A~~~l~~lPe-WTtW~lL~~iaiyDl~AVL~P~GPLr~Lve~a~er~e~i 213 (403)
T PF01080_consen 147 KGPLLLQQAYLIMISVLMALFFLKYLPE-WTTWFLLVAIAIYDLFAVLCPCGPLRMLVELAQERNEPI 213 (403)
T ss_dssp --------------------------------------------------------------------
T ss_pred CCcHHHHHHHHHHHHHHHHHHHHHcCCc-hHHHHHHHHHHHHHHeeEeCCCCcHHHHHHHHHHcCCcc
Confidence 5566666655555554332 3444 777 777899999999999999865 2 7888998877664
Done!