Query 012828
Match_columns 455
No_of_seqs 341 out of 1520
Neff 6.3
Searched_HMMs 46136
Date Fri Mar 29 06:44:03 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/012828.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/012828hhsearch_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 3E-109 6E-114 842.3 29.5 434 19-455 14-454 (541)
2 KOG2443 Uncharacterized conser 100.0 1.4E-48 3.1E-53 385.0 17.7 234 187-454 22-274 (362)
3 PF04258 Peptidase_A22B: Signa 100.0 2.3E-50 5E-55 404.5 -0.0 213 240-454 2-235 (298)
4 smart00730 PSN Presenilin, sig 100.0 1.5E-37 3.2E-42 304.1 14.2 187 244-453 3-194 (249)
5 cd02132 PA_GO-like PA_GO-like: 100.0 1.1E-29 2.4E-34 228.3 16.3 139 42-180 1-139 (139)
6 cd02129 PA_hSPPL_like PA_hSPPL 99.9 1.7E-23 3.6E-28 183.2 11.9 116 43-179 1-119 (120)
7 cd02126 PA_EDEM3_like PA_EDEM3 99.9 1E-22 2.2E-27 180.2 12.5 116 62-180 2-126 (126)
8 cd02127 PA_hPAP21_like PA_hPAP 99.9 1.1E-21 2.5E-26 171.7 13.0 110 66-180 1-116 (118)
9 cd02125 PA_VSR PA_VSR: Proteas 99.9 1.6E-21 3.6E-26 172.7 13.2 112 66-180 1-127 (127)
10 cd02123 PA_C_RZF_like PA_C-RZF 99.9 4.1E-21 8.9E-26 175.4 14.8 116 56-175 20-142 (153)
11 cd02122 PA_GRAIL_like PA _GRAI 99.9 6.5E-21 1.4E-25 171.2 13.1 110 63-180 18-138 (138)
12 cd04818 PA_subtilisin_1 PA_sub 99.8 1.6E-19 3.5E-24 157.4 12.7 114 63-180 1-118 (118)
13 cd04813 PA_1 PA_1: Protease-as 99.8 1.2E-19 2.6E-24 158.7 10.9 103 62-171 5-110 (117)
14 cd04816 PA_SaNapH_like PA_SaNa 99.8 2.6E-18 5.6E-23 150.9 13.4 113 63-180 4-122 (122)
15 cd02130 PA_ScAPY_like PA_ScAPY 99.8 1.3E-17 2.7E-22 146.5 13.3 113 58-180 7-122 (122)
16 cd02124 PA_PoS1_like PA_PoS1_l 99.7 1E-16 2.2E-21 142.5 11.4 89 86-180 38-129 (129)
17 cd04817 PA_VapT_like PA_VapT_l 99.7 2.1E-16 4.5E-21 142.0 13.2 96 77-176 34-137 (139)
18 KOG4628 Predicted E3 ubiquitin 99.6 6.4E-15 1.4E-19 149.0 14.2 109 59-174 35-151 (348)
19 KOG3920 Uncharacterized conser 99.6 3.6E-15 7.7E-20 133.8 5.4 141 35-182 24-173 (193)
20 PF02225 PA: PA domain; Inter 99.5 9.5E-15 2.1E-19 122.6 6.6 91 78-170 5-101 (101)
21 cd00538 PA PA: Protease-associ 99.5 3.9E-14 8.5E-19 123.3 9.8 94 86-180 27-126 (126)
22 cd02133 PA_C5a_like PA_C5a_lik 99.4 2E-12 4.4E-17 116.6 13.2 95 78-180 25-120 (143)
23 cd04819 PA_2 PA_2: Protease-as 99.4 2.3E-12 5.1E-17 114.1 11.9 101 78-179 22-126 (127)
24 cd04815 PA_M28_2 PA_M28_2: Pro 99.3 4.8E-12 1E-16 113.2 7.8 107 74-180 12-134 (134)
25 PF06550 DUF1119: Protein of u 99.2 1.7E-10 3.8E-15 113.3 12.9 115 326-453 95-225 (283)
26 cd02120 PA_subtilisin_like PA_ 99.2 8.8E-11 1.9E-15 102.8 9.2 82 88-175 36-121 (126)
27 cd02128 PA_TfR PA_TfR: Proteas 98.9 6.6E-09 1.4E-13 97.5 8.9 92 77-171 27-154 (183)
28 COG3389 Uncharacterized protei 98.8 2.6E-09 5.7E-14 101.7 3.7 111 330-451 97-220 (277)
29 cd04822 PA_M28_1_3 PA_M28_1_3: 98.4 2.2E-06 4.9E-11 78.3 10.5 91 78-171 19-133 (151)
30 cd02121 PA_GCPII_like PA_GCPII 98.4 1.5E-06 3.3E-11 84.0 8.8 92 78-172 44-189 (220)
31 cd04814 PA_M28_1 PA_M28_1: Pro 98.3 1.9E-06 4.1E-11 78.0 7.6 58 78-135 19-100 (142)
32 cd04820 PA_M28_1_1 PA_M28_1_1: 98.3 2.8E-06 6E-11 76.5 7.5 59 78-136 21-97 (137)
33 cd02131 PA_hNAALADL2_like PA_h 98.0 1.5E-05 3.2E-10 72.5 6.4 74 97-170 37-137 (153)
34 cd04821 PA_M28_1_2 PA_M28_1_2: 95.6 0.022 4.7E-07 52.6 5.5 57 79-135 22-103 (157)
35 KOG2195 Transferrin receptor a 81.6 2.2 4.8E-05 48.2 5.4 71 62-135 144-219 (702)
36 COG1786 Swiveling domain assoc 46.7 63 0.0014 29.0 6.1 73 97-179 47-122 (131)
37 COG4882 Predicted aminopeptida 46.2 1.1E+02 0.0023 32.5 8.5 113 98-216 87-205 (486)
38 KOG2927 Membrane component of 38.7 18 0.00039 37.6 1.7 27 329-355 239-265 (372)
39 PF01736 Polyoma_agno: Polyoma 35.4 38 0.00083 25.8 2.6 32 3-34 22-53 (62)
40 COG5540 RING-finger-containing 29.2 21 0.00044 36.5 0.4 32 104-135 150-181 (374)
41 cd04468 S1_eIF5A S1_eIF5A: Euk 28.5 1.4E+02 0.0029 23.9 4.8 34 145-182 23-56 (69)
42 PF06305 DUF1049: Protein of u 26.4 2.3E+02 0.0049 21.6 5.8 54 171-225 2-57 (68)
43 PF06624 RAMP4: Ribosome assoc 25.1 43 0.00092 26.3 1.4 13 250-262 43-55 (63)
44 PRK03955 hypothetical protein; 24.7 2.5E+02 0.0054 25.2 6.4 71 97-179 47-120 (131)
45 PF03606 DcuC: C4-dicarboxylat 24.4 2.1E+02 0.0045 30.9 7.0 9 433-441 414-422 (465)
46 PF06541 DUF1113: Protein of u 24.0 4.8E+02 0.01 23.8 8.4 26 362-387 129-154 (157)
47 PRK13755 putative mercury tran 22.8 5.6E+02 0.012 23.0 9.3 24 249-273 22-46 (139)
48 PHA02621 agnoprotein; Provisio 20.9 92 0.002 24.1 2.4 29 3-31 22-50 (68)
49 PF01080 Presenilin: Presenili 20.7 33 0.00071 36.5 0.0 25 366-391 171-195 (403)
50 PRK13718 conjugal transfer pro 20.6 98 0.0021 25.4 2.7 22 249-270 44-65 (84)
No 1
>KOG2442 consensus Uncharacterized conserved protein, contains PA domain [General function prediction only]
Probab=100.00 E-value=2.6e-109 Score=842.28 Aligned_cols=434 Identities=52% Similarity=0.883 Sum_probs=412.0
Q ss_pred ccccCCCCCCcCCCCCCCCCCCCCeEEEEeeeeecCCCcceEEeeecCCCCccccccCCceeEEEEecCCCCCCCCCCCC
Q 012828 19 CLASAGDIVHQDNNAPKRPGCDNNFVLVKVPTWVDGGEDTEYVGVGARFGRTLEAKEKDASQNRLVLADPPDCCSKPKNK 98 (455)
Q Consensus 19 ~~~~~~~~~~~d~~~~~~p~c~n~f~lvkv~~wv~g~~~~~~~~~~A~FG~~lp~~~~~~~~~~Lv~~~p~daC~~~~~~ 98 (455)
....++|..|+++..|+.|||+|+||++|+++|+||++..++.++.++||..++...+++...++..++|.|.|+++.+.
T Consensus 14 ~~v~a~~~~~~~~~~~~s~gc~nd~~~l~~~~w~~~~~~~~~a~~~~~~~~t~~~~~~~a~~~~~a~~~pld~cs~~~~k 93 (541)
T KOG2442|consen 14 SFVTAGDGGHTGNSHPKSPGCSNDFQMLKVPTWVNGVEYLEFAGMLARFGITLPSKCKAADIPHLAQVDPLDSCSTLQSK 93 (541)
T ss_pred heEeecccccccccccCCCCCcCceEEEeccccccccchhhhhhhhhhcCCcCCCCccccccchhhhcCCccccCCCCcc
Confidence 56678999999999999999999999999999999999999999999999999888877777788889999999999999
Q ss_pred CCCcEEEEecCCCCHHHHHHHHHHcCCcEEEEEcCCCcccccccCCCCCCCcccceEEEechhhhHHHHHHHhcCcEEEE
Q 012828 99 LTGEAILVHRGGCSFTAKANFAEEANASAILIINNKTELFKMVCESNETDVDIRIPAIMLPQDAGANLEKLIKNNSVVSV 178 (455)
Q Consensus 99 l~g~IaLV~RG~CtF~~Ka~nAq~aGA~avII~n~~~~l~~m~~~~~~~~~~i~IPvv~Is~~~G~~L~~~L~~G~~V~v 178 (455)
++|+++++.||+|+|++|+++||++||.|++|+||.+|+..|.|.+.++..+++||++||++++|+.+.+....+++|++
T Consensus 94 l~~~~~~v~RGnC~Ft~Ka~~Aq~aGAsaLliin~~~d~~~~~~~~~~~~~dv~IPv~mi~~~~~~~l~~~~~~~~~V~~ 173 (541)
T KOG2442|consen 94 LSGKVALVFRGNCSFTEKAKLAQAAGASALLIINNKKDLLFMPCGNKETSLDVTIPVAMISYSDGRDLNKSTRSNDNVEL 173 (541)
T ss_pred ccceeEEEecccceeehhhhhhhhcCceEEEEEcCchhhccCCCCCCCccccccceEEEEEhhhHHHHHhhhccCCeEEE
Confidence 99999999999999999999999999999999999999999999888888999999999999999999999999999999
Q ss_pred EEecCCCccchhhHHHHHHHHHHHHHHHHhhhhhhhhHHHHHHhhhhcCCCCccccccCCCCCCceeeCccchhhhhHHH
Q 012828 179 QLYSPRRPVVDVAEVFLWLMAVGTILCASYWSAWTARETAIELDKLLKDGSDEFSNMEGVNSNGFVDINMASAVSFVVIA 258 (455)
Q Consensus 179 ~l~~p~~p~vD~s~~~L~l~Av~tI~~gs~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~a~~fpv~a 258 (455)
++|+|++|.+|++++++|+|||+||.+|+|||.+++||++.|+++.+++..+++.++++++|++..++|+..|+.|++++
T Consensus 174 ~lYaPk~P~vD~~~v~iwlmAVgTVa~ggyWs~~t~~~~~~~a~~~~~d~~s~~~~~~~~~e~~~vd~s~i~~~~fvv~~ 253 (541)
T KOG2442|consen 174 ALYAPKRPAVDYAMVFIWLMAVGTVACGGYWSGLTEREKAIEADRLLDDDSSSEGNTKETKEEEVVDISPITAVFFVVTA 253 (541)
T ss_pred EEECCCCCCccHHHHHHHHHHHhHhhccchhhhccChhhhhhhhhhcccccccccccccCCccccEEeeeeEEEEehhhh
Confidence 99999999999999999999999999999999999999999999888877777667778888999999999999999999
Q ss_pred HHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccCCCCcceeccceeccccccccccchhhhhhhhhh
Q 012828 259 SCFLVMLYKLMSFWFIEVLVVLFCIGGVEGLQTCVVALLSCFRWFQHAGDSFIKVPFFGAVSYLTLAVCPFCIAFSVVWA 338 (455)
Q Consensus 259 s~~Ll~ly~~~~~~~~~~l~~~f~i~g~~~l~~~l~~~l~~~~~~~~~~~~~~~~p~~~~~~~~~l~~~~~~~~~~~~w~ 338 (455)
|.+|++||||++ |++++++++|||+|..|+++|+.+++. |++.+..+.+...|..|..++..+++.++|++++++|+
T Consensus 254 c~~LvLlyfF~~-~~V~v~iiif~i~g~~gLy~Cl~~lv~--r~~~~~~~~~~~~~~l~~~~~~~l~l~~~Cia~aV~W~ 330 (541)
T KOG2442|consen 254 CGFLVLLYFFYS-YLVYVLIIIFCIGGAQGLYNCLAALVH--RLPYGAARFPTLAPRLGNMSYRLLFLSILCIAVAVVWA 330 (541)
T ss_pred HHHHHHHHHHHH-HHHHHHhhheeecccchHHHHHHHHHh--hhhhhcccccccccccCChhHHHHHHHHhhhheeEEEE
Confidence 999999999996 599999999999999999999999998 77655545556677788899999999999999999999
Q ss_pred hhhcCccchhHhhHHHHHHHHHHHHhcccCchhHHHHHHHHHHhhhhheeeecccccc--ceeEEEeecCCCCCCCCCCE
Q 012828 339 VYRRISFAWIGQDILGIALMITVLQIVRVPNLKVGTVLLSCAFLYDIFWVFVSKWWFH--ESVMIVVARGDRSGEDGIPM 416 (455)
Q Consensus 339 ~~~~~~~~W~l~nilg~~~~~~~i~~i~l~~~k~~~ilL~~lf~YDif~VF~sp~~~~--~sVMv~VA~~~~~~~~~~P~ 416 (455)
++||++|+|++||++|||+|++++|.+|+||+|++++||+++|+|||||||+||++|| ||||++||+|.++++|++||
T Consensus 331 v~R~e~~AwilqDvLGIalci~vLk~vRLPnlK~~tiLL~c~f~YDiF~VFitp~~t~~geSVMieVA~G~~s~~EkiPM 410 (541)
T KOG2442|consen 331 VFRNEDWAWILQDVLGIALCITVLKTVRLPNLKVCTILLLCLFLYDIFFVFITPFITKNGESVMIEVARGPSSTEEKIPM 410 (541)
T ss_pred EeecCchHHHHHhhHhHHHHHHHHHHhcCCchhHHHHHHHHHHHHhhheeeeehhhccCCceEEEEEecCCCCCCCCcce
Confidence 9999999999999999999999999999999999999999999999999999999998 99999999999999999999
Q ss_pred EEEecccc-----CCCCceeeecccchhhhHHHHHHHHhhcCCC
Q 012828 417 LLKIPRLF-----DPWGGYSVIGFGDIILPGLIVAFSLRSATVT 455 (455)
Q Consensus 417 ~l~~P~~~-----~~~~~~s~LGlGDIviPGl~i~~~~rfD~~~ 455 (455)
+|++||++ ++|++|||||||||++||++|+||+|||.++
T Consensus 411 lLkVPrl~~s~~~~~~~~~silGFGDIl~PGlLVa~c~RfD~~~ 454 (541)
T KOG2442|consen 411 LLKVPRLFFSVLSDPWGGYSILGFGDILVPGLLVAFCLRFDVQV 454 (541)
T ss_pred EEEcchhccccccccCCCeeEeeecccccchHHHHHHHHhhhhc
Confidence 99999999 8999999999999999999999999999763
No 2
>KOG2443 consensus Uncharacterized conserved protein [Function unknown]
Probab=100.00 E-value=1.4e-48 Score=384.96 Aligned_cols=234 Identities=28% Similarity=0.483 Sum_probs=193.1
Q ss_pred cchhhHHHHHHHHHHHHHHHHhhhhhhhhHHHHHHhhhhcCCCCccccccCCCCCCceeeCccchhh-hhHHHHHHHHHH
Q 012828 187 VVDVAEVFLWLMAVGTILCASYWSAWTARETAIELDKLLKDGSDEFSNMEGVNSNGFVDINMASAVS-FVVIASCFLVML 265 (455)
Q Consensus 187 ~vD~s~~~L~l~Av~tI~~gs~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~a~~-fpv~as~~Ll~l 265 (455)
..+.+.+.+.++|+.+|++||+||....+|. ||+ ++..+.++.++|.- ||+++||+|++|
T Consensus 22 ~~~~~~~sl~l~A~l~i~~GsfRS~~~~~~~------------------~d~-~~~~es~t~~~a~~~fPi~~s~tLl~l 82 (362)
T KOG2443|consen 22 LLASAYVSLILIALLLIVIGSFRSLNYIKEN------------------EDK-KDKSESITKRDAGKMFPIIGSCTLLLL 82 (362)
T ss_pred hhcccchHHHHHHHHHHHHHHHHHhhhhhhh------------------hcc-cchhhhhhhhhhcccCCcccchHHHHH
Confidence 4678888999999999999999998766541 111 13345677777777 999999999999
Q ss_pred HHHhHHH---HHHHHHHHHHHHHHHHHHHHHHHHhhc--ccc---------ccCCCCcceeccceeccccccccccchhh
Q 012828 266 YKLMSFW---FIEVLVVLFCIGGVEGLQTCVVALLSC--FRW---------FQHAGDSFIKVPFFGAVSYLTLAVCPFCI 331 (455)
Q Consensus 266 y~~~~~~---~~~~l~~~f~i~g~~~l~~~l~~~l~~--~~~---------~~~~~~~~~~~p~~~~~~~~~l~~~~~~~ 331 (455)
|++++.. ..++++.||++.|+.++...+.+++.. ... +++..+.+...-+.++++..+++.+..|.
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 9988632 234889999999999999998888761 111 12212222223345688999999999999
Q ss_pred hhhhhhhhhhcCccchhHhhHHHHHHHHHHHHhcccCchhHHHHHHHHHHhhhhheeeeccccccceeEEEeecCCCCCC
Q 012828 332 AFSVVWAVYRRISFAWIGQDILGIALMITVLQIVRVPNLKVGTVLLSCAFLYDIFWVFVSKWWFHESVMIVVARGDRSGE 411 (455)
Q Consensus 332 ~~~~~w~~~~~~~~~W~l~nilg~~~~~~~i~~i~l~~~k~~~ilL~~lf~YDif~VF~sp~~~~~sVMv~VA~~~~~~~ 411 (455)
.++++|++++| |++||++|+++|++.|+.+||||+|+|++||.+||+|||||||+ ++|||||||+.|
T Consensus 163 ~i~v~~ll~~H----Wl~nN~lgms~~I~~I~~lrL~s~ktgalLL~gLffYDIfwVFg------TnVMVtVAt~~D--- 229 (362)
T KOG2443|consen 163 MIVVWYLLTKH----WLANNLLGMSFCIAGIEFLRLPSLKTGALLLGGLFFYDIFWVFG------TNVMVTVATSLD--- 229 (362)
T ss_pred HHHHHHHhhhH----HHHHhHHHHHHHHHHHHHhcccchhhhHHHHHHHHHHheEEEec------CceEEEeecccC---
Confidence 99999999996 99999999999999999999999999999999999999999995 669999999976
Q ss_pred CCCCEEEEeccccCC----CCceeeecccchhhhHHHHHHHHhhcCC
Q 012828 412 DGIPMLLKIPRLFDP----WGGYSVIGFGDIILPGLIVAFSLRSATV 454 (455)
Q Consensus 412 ~~~P~~l~~P~~~~~----~~~~s~LGlGDIviPGl~i~~~~rfD~~ 454 (455)
+|+||++|+.... ...|||||||||++||+|+|+++|||.+
T Consensus 230 --~PikL~fP~~l~~~~~~as~fsMLGLGDIviPGiflAl~lRfD~~ 274 (362)
T KOG2443|consen 230 --APIKLVFPQKLLFPGLTASNFSMLGLGDIVIPGIFLALVLRFDIR 274 (362)
T ss_pred --CceEEecchhhccCCCccccceeccccchhhHHHHHHHHHHhhHH
Confidence 9999999997643 2359999999999999999999999964
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=2.3e-50 Score=404.46 Aligned_cols=213 Identities=39% Similarity=0.717 Sum_probs=1.0
Q ss_pred CCCceeeCccchhhhhHHHHHHHHHHHHHhHHHH------HHHHHHHHHHHHHHHHHHHHHHHhhc-ccccc--CCCCcc
Q 012828 240 SNGFVDINMASAVSFVVIASCFLVMLYKLMSFWF------IEVLVVLFCIGGVEGLQTCVVALLSC-FRWFQ--HAGDSF 310 (455)
Q Consensus 240 ~~~~~~i~~~~a~~fpv~as~~Ll~ly~~~~~~~------~~~l~~~f~i~g~~~l~~~l~~~l~~-~~~~~--~~~~~~ 310 (455)
|++.+++|.++|++||+++|++|++|||+++++. +++++.||+++|+.++..++.+.+.. .+.++ +..+.+
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 3455789999999999999999999999987654 46899999999999887777666551 11111 112222
Q ss_pred eec--------cceeccccccccccchhhhhhhhhhhhhcCccchhHhhHHHHHHHHHHHHhcccCchhHHHHHHHHHHh
Q 012828 311 IKV--------PFFGAVSYLTLAVCPFCIAFSVVWAVYRRISFAWIGQDILGIALMITVLQIVRVPNLKVGTVLLSCAFL 382 (455)
Q Consensus 311 ~~~--------p~~~~~~~~~l~~~~~~~~~~~~w~~~~~~~~~W~l~nilg~~~~~~~i~~i~l~~~k~~~ilL~~lf~ 382 (455)
.++ ++.++++..++++.++|+++++.|+++|++ +|++||++|+|+|+++++.+|+||+|++++||+++|+
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 455678888999999999999999988865 5999999999999999999999999999999999999
Q ss_pred hhhheeeeccccccceeEEEeecCCCCCCCCCCEEEEeccccC----CCCceeeecccchhhhHHHHHHHHhhcCC
Q 012828 383 YDIFWVFVSKWWFHESVMIVVARGDRSGEDGIPMLLKIPRLFD----PWGGYSVIGFGDIILPGLIVAFSLRSATV 454 (455)
Q Consensus 383 YDif~VF~sp~~~~~sVMv~VA~~~~~~~~~~P~~l~~P~~~~----~~~~~s~LGlGDIviPGl~i~~~~rfD~~ 454 (455)
|||||||+||++||+|||++|||+...+++++|||+++||..+ ..++||||||||||+||+|+++|+|||.+
T Consensus 160 YDif~VF~s~~~~g~svM~~VA~~~~~~~~~~P~~l~~P~~~~~~~~~~~~~s~LGlGDIviPGl~i~~~~rfD~~ 235 (298)
T PF04258_consen 160 YDIFWVFISPYFFGTSVMVTVATGGFDAPEKLPIKLQFPRFFDSNSSCPKPFSMLGLGDIVIPGLFIAFCLRFDKS 235 (298)
T ss_dssp ----------------------------------------------------------------------------
T ss_pred HHHHHHHhccccCCCchhhhhhccccccccCCCeEEEEeccccccccCCCCeeEeccchHHHHHHHHHHHHHhhHh
Confidence 9999999999999999999999994435578899999999963 45789999999999999999999999986
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=1.5e-37 Score=304.11 Aligned_cols=187 Identities=36% Similarity=0.566 Sum_probs=163.0
Q ss_pred eeeCccchhhhhHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccCCCCcceeccceecccccc
Q 012828 244 VDINMASAVSFVVIASCFLVMLYKLMSFWFIEVLVVLFCIGGVEGLQTCVVALLSCFRWFQHAGDSFIKVPFFGAVSYLT 323 (455)
Q Consensus 244 ~~i~~~~a~~fpv~as~~Ll~ly~~~~~~~~~~l~~~f~i~g~~~l~~~l~~~l~~~~~~~~~~~~~~~~p~~~~~~~~~ 323 (455)
+.+|+.+++.||+++|++|++||++.+.| +..+..+|++.|+.+++.++.+... .. .+..+
T Consensus 3 ~~~n~~~~i~fii~~s~~Ll~Ly~~~~~~-~i~~~~~f~~~~~~~~~~~~~~~~~--~~----------------~~~~~ 63 (249)
T smart00730 3 SLLNSLVAIVFPIVATFVLVLLYKFFKYL-VIVLVIYFSSLGVLFLYSLLYPLEV--FR----------------VDYPT 63 (249)
T ss_pred ccccHHHHhhHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHH--HH----------------HhHHH
Confidence 46789999999999999999999999876 7888999999999999888776554 11 23345
Q ss_pred ccccchhhhhhhhhhhhhcCccchhHhhHHHHHHHHHHHHhcccCchhHHHHHHHHHHhhhhheeeeccccccceeEEEe
Q 012828 324 LAVCPFCIAFSVVWAVYRRISFAWIGQDILGIALMITVLQIVRVPNLKVGTVLLSCAFLYDIFWVFVSKWWFHESVMIVV 403 (455)
Q Consensus 324 l~~~~~~~~~~~~w~~~~~~~~~W~l~nilg~~~~~~~i~~i~l~~~k~~~ilL~~lf~YDif~VF~sp~~~~~sVMv~V 403 (455)
.+...++++++..|.++++ ++|+.||++|+|+|+.+++.+|+||+|++++||+++++||+||||+||. +++||++|
T Consensus 64 ~~~~~~~~~v~~~~~~~~~--~~w~~~~~lgi~~~~~~~~~~~l~~~~~~~iLL~~l~iYDif~Vf~t~~--~~~vMv~v 139 (249)
T smart00730 64 LLILLLNFAVVGFWCIHRK--GAWIQQDLIGISLCMAILFILRLPSEWTAWILLGALFIYDIFAVFGTPG--PLRVMVEV 139 (249)
T ss_pred HHHHHHHHHHHHHHHHHhh--hHHHHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHheeecCCC--CchHHhhH
Confidence 5677788888899988875 6899999999999999999999999999999999999999999999997 89999999
Q ss_pred ecCCCCCCCCCCEEEEeccc-----cCCCCceeeecccchhhhHHHHHHHHhhcC
Q 012828 404 ARGDRSGEDGIPMLLKIPRL-----FDPWGGYSVIGFGDIILPGLIVAFSLRSAT 453 (455)
Q Consensus 404 A~~~~~~~~~~P~~l~~P~~-----~~~~~~~s~LGlGDIviPGl~i~~~~rfD~ 453 (455)
||+.+...|.+|+++..||. .+..++++||||||||+||+++++|+|||.
T Consensus 140 A~~~~~~~~~~P~ll~~p~~~~~~~~~~~~~~~~LGLGDiv~Pgilv~~a~~fd~ 194 (249)
T smart00730 140 ATGRDEPIKVFPALLYVPRLVVSFEDDEEGRFSMLGLGDIVFPGILVASAARFDV 194 (249)
T ss_pred hccCCCCcccCChhhcccccccccccCCCCccceecCCCeeeHHHHHHHHHHhhh
Confidence 99987333579999999984 223568999999999999999999999995
No 5
>cd02132 PA_GO-like PA_GO-like: Protease-associated domain containing proteins like Arabidopsis thaliana growth-on protein GRO10. This group contains various PA domain-containing proteins similar to the functionally uncharacterized Arabidopsis GRO10. The PA domain 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=99.97 E-value=1.1e-29 Score=228.28 Aligned_cols=139 Identities=53% Similarity=0.895 Sum_probs=126.6
Q ss_pred CeEEEEeeeeecCCCcceEEeeecCCCCccccccCCceeEEEEecCCCCCCCCCCCCCCCcEEEEecCCCCHHHHHHHHH
Q 012828 42 NFVLVKVPTWVDGGEDTEYVGVGARFGRTLEAKEKDASQNRLVLADPPDCCSKPKNKLTGEAILVHRGGCSFTAKANFAE 121 (455)
Q Consensus 42 ~f~lvkv~~wv~g~~~~~~~~~~A~FG~~lp~~~~~~~~~~Lv~~~p~daC~~~~~~l~g~IaLV~RG~CtF~~Ka~nAq 121 (455)
+|++|++.+|++|++.++|.+.+|+||+.+|++..++.+++++.++|.++|++.+++++|+|+||+||+|+|.+|++|||
T Consensus 1 ~~~~~~~~~~~~~~~~~~~~~~~a~FG~~~p~~~~~~~~~~lv~~~~~~gC~~~~~~~~g~IvLV~RG~C~F~~K~~nA~ 80 (139)
T cd02132 1 PFQLVKVQNWVDGDEGDELVGVTARFGASLPSKEDNANKTRAVLANPLDCCSPSTSKLSGSIALVERGECAFTEKAKIAE 80 (139)
T ss_pred CceEEEeeeccCCccccEEEeeccccCCCCCCcccCccEEEEEECCcccccCCCCcccCCeEEEEECCCCCHHHHHHHHH
Confidence 48999999999999999999999999999998877788999999999999999999999999999999999999999999
Q ss_pred HcCCcEEEEEcCCCcccccccCCCCCCCcccceEEEechhhhHHHHHHHhcCcEEEEEE
Q 012828 122 EANASAILIINNKTELFKMVCESNETDVDIRIPAIMLPQDAGANLEKLIKNNSVVSVQL 180 (455)
Q Consensus 122 ~aGA~avII~n~~~~l~~m~~~~~~~~~~i~IPvv~Is~~~G~~L~~~L~~G~~V~v~l 180 (455)
++||+++||||+.+++..|.+.++++..++.||+++|++++|+.|++.+++|++|++++
T Consensus 81 ~aGA~avIv~n~~~~~~~~~~~~~~~~~~~~IP~v~Is~~~G~~L~~~l~~g~~Vtv~~ 139 (139)
T cd02132 81 AGGASALLIINDQEELYKMVCEDNDTSLNISIPVVMIPQSAGDALNKSLDQGKKVEVLL 139 (139)
T ss_pred HcCCcEEEEEECCCcccccccCCCCCCCCCcEeEEEecHHHHHHHHHHHHcCCcEEEeC
Confidence 99999999999987777776543334446899999999999999999999999998864
No 6
>cd02129 PA_hSPPL_like PA_hSPPL_like: Protease-associated domain containing human signal peptide peptidase-like (hSPPL)-like. This group contains various PA domain-containing proteins similar to hSPPL2a and 2b. These SPPLs are GxGD aspartic proteases. SPPL2a is sorted to the late endosomes, SPPL2b to the plasma membrane. In activated dendritic cells, hSPPL2a and 2b catalyze the intramembrane proteolysis of tumor necrosis factor alpha triggering IL-12 production. hSPPL2a and 2b may have a broad substrate spectrum. The significance of the PA domain to these SPPLs 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=99.90 E-value=1.7e-23 Score=183.17 Aligned_cols=116 Identities=22% Similarity=0.384 Sum_probs=97.9
Q ss_pred eEEEEeeeeecCCCcceEEeeecCCCCccccccCCceeEEEEecCCCCCCCCCC---CCCCCcEEEEecCCCCHHHHHHH
Q 012828 43 FVLVKVPTWVDGGEDTEYVGVGARFGRTLEAKEKDASQNRLVLADPPDCCSKPK---NKLTGEAILVHRGGCSFTAKANF 119 (455)
Q Consensus 43 f~lvkv~~wv~g~~~~~~~~~~A~FG~~lp~~~~~~~~~~Lv~~~p~daC~~~~---~~l~g~IaLV~RG~CtF~~Ka~n 119 (455)
|++.++++|. .+|++.+++...||+.++|..||++.+ .+++|+|+||+||+|+|.+|++|
T Consensus 1 ~~~~~~~~~~-----------------~l~~~~~~~~~~~~~~~~~~~gC~~~~~~~~~l~gkIaLV~RG~CsF~~K~~~ 63 (120)
T cd02129 1 YCILYNSQWA-----------------SLPSDLDKATLLPLRNLTSSVLCSASDVPPGGLKGKAVVVMRGNCTFYEKARL 63 (120)
T ss_pred CcEEECCcce-----------------ECCcchhhCcceeeecCCCcCCCCccccCccccCCeEEEEECCCcCHHHHHHH
Confidence 6888999996 688888888999999999999999877 47899999999999999999999
Q ss_pred HHHcCCcEEEEEcCCCcccccccCCCCCCCcccceEEEechhhhHHHHHHHhcCcEEEEE
Q 012828 120 AEEANASAILIINNKTELFKMVCESNETDVDIRIPAIMLPQDAGANLEKLIKNNSVVSVQ 179 (455)
Q Consensus 120 Aq~aGA~avII~n~~~~l~~m~~~~~~~~~~i~IPvv~Is~~~G~~L~~~L~~G~~V~v~ 179 (455)
||++||+|+|||||+++. .+.. +.+...+++||++||++++|++|++.+.+ .|+|+
T Consensus 64 Aq~aGA~aVII~nn~~~~-~~~~-~~~~~~~v~IP~v~Is~~dG~~i~~~l~~--~~~v~ 119 (120)
T cd02129 64 AQSLGAEGLLIVSRERLV-PPSG-NRSEYEKIDIPVALLSYKDMLDIQQTFGD--SVKVA 119 (120)
T ss_pred HHHCCCCEEEEEECCCCC-CCCC-CCCCCcCCcccEEEEeHHHHHHHHHHhcc--CcEEe
Confidence 999999999999997642 1211 12223678999999999999999999964 45554
No 7
>cd02126 PA_EDEM3_like PA_EDEM3_like: protease associated domain (PA) domain-containing EDEM3-like proteins. This group contains various PA domain-containing proteins similar to mouse EDEM3 (ER-degradation-enhancing mannosidase-like 3 protein). EDEM3 contains a region, similar to Class I alpha-mannosidases (gylcosyl hydrolase family 47), N-terminal to the PA domain. EDEM3 accelerates glycoprotein ERAD (ER-associated degradation). In transfected mammalian cells, overexpression of EDEM3 enhances the mannose trimming from the N-glycans, of a model misfolded protein [alpha1-antitrypsin null (Hong Kong)] as well as, from total glycoproteins. Mannose trimming appears to be involved in the selection of ERAD substrates. EDEM3 has a different specificity of trimming than ER alpha-mannosidase 1. The significance of the PA domain to EDEM3 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 pr
Probab=99.89 E-value=1e-22 Score=180.16 Aligned_cols=116 Identities=31% Similarity=0.515 Sum_probs=97.7
Q ss_pred eeecCCCCccccccCCceeEEEEecCCCCCCCCCCC--CCCCcEEEEecCCCCHHHHHHHHHHcCCcEEEEEcCCCc---
Q 012828 62 GVGARFGRTLEAKEKDASQNRLVLADPPDCCSKPKN--KLTGEAILVHRGGCSFTAKANFAEEANASAILIINNKTE--- 136 (455)
Q Consensus 62 ~~~A~FG~~lp~~~~~~~~~~Lv~~~p~daC~~~~~--~l~g~IaLV~RG~CtF~~Ka~nAq~aGA~avII~n~~~~--- 136 (455)
+.+|+||.+++... ...++|+.++|.++|++..+ +++|||+|++||+|+|.+|+++||++||+|+||||+.++
T Consensus 2 ~~pa~FG~~~~~~~--~~~g~l~~~~p~~gC~~~~~~~~~~gkIaLv~RG~C~f~~K~~~Aq~aGA~avII~n~~~~~~~ 79 (126)
T cd02126 2 AGPAQFGMDLTGDK--AGVGRVVKAKPYRACSEITNAEEVKGKIAIMERGDCMFVEKARRVQKAGAIGGIVIDNNEGSSS 79 (126)
T ss_pred CCCcccCCcCCCCC--CceEEEEeCCchhcccCCCCccccCceEEEEECCCCcHHHHHHHHHHCCCcEEEEEECCCCccc
Confidence 46899999998753 36789999999999998874 689999999999999999999999999999999987653
Q ss_pred ----ccccccCCCCCCCcccceEEEechhhhHHHHHHHhcCcEEEEEE
Q 012828 137 ----LFKMVCESNETDVDIRIPAIMLPQDAGANLEKLIKNNSVVSVQL 180 (455)
Q Consensus 137 ----l~~m~~~~~~~~~~i~IPvv~Is~~~G~~L~~~L~~G~~V~v~l 180 (455)
.+.|.+. .+...+++||+++|++++|+.|++.+++|.+|++++
T Consensus 80 ~~~~~~~m~~~-~~~~~~~~IP~v~I~~~dG~~L~~~l~~~~~~~~~~ 126 (126)
T cd02126 80 DTAPMFAMSGD-GDSTDDVTIPVVFLFSKEGSKLLAAIKEHQNVEVLL 126 (126)
T ss_pred cccceeEeecC-CCCCCCCeEEEEEEEHHHHHHHHHHHHhCCceEEeC
Confidence 3455442 112246899999999999999999999999998864
No 8
>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=99.87 E-value=1.1e-21 Score=171.66 Aligned_cols=110 Identities=28% Similarity=0.502 Sum_probs=93.6
Q ss_pred CCCCccccccCCceeEEEEecCCCCCCCCCCC--CCCCcEEEEecCCCCHHHHHHHHHHcCCcEEEEEcCCCc----ccc
Q 012828 66 RFGRTLEAKEKDASQNRLVLADPPDCCSKPKN--KLTGEAILVHRGGCSFTAKANFAEEANASAILIINNKTE----LFK 139 (455)
Q Consensus 66 ~FG~~lp~~~~~~~~~~Lv~~~p~daC~~~~~--~l~g~IaLV~RG~CtF~~Ka~nAq~aGA~avII~n~~~~----l~~ 139 (455)
.||..++.. +..++|+.++|.+||++.++ +++|+|+||+||+|+|.+|+++||++||+|+||||+.++ .+.
T Consensus 1 ~~~~~~~~~---~~~~~lv~~~p~~gC~~~~~~~~~~g~I~Lv~RG~C~F~~K~~~Aq~aGA~avII~n~~~~~~~~~~~ 77 (118)
T cd02127 1 DFGTIFNTR---YKHVPLVPADPLEACEELRNIHDINGNIALIERGGCSFLTKAINAQKAGALAVIITDVNNDSDEYYVE 77 (118)
T ss_pred CCCcccccc---ccceEEEECCccccCCCCCCccccCCeEEEEECCCCCHHHHHHHHHHCCCcEEEEEECCCCccccceE
Confidence 488888776 45679999999999998764 689999999999999999999999999999999998643 345
Q ss_pred cccCCCCCCCcccceEEEechhhhHHHHHHHhcCcEEEEEE
Q 012828 140 MVCESNETDVDIRIPAIMLPQDAGANLEKLIKNNSVVSVQL 180 (455)
Q Consensus 140 m~~~~~~~~~~i~IPvv~Is~~~G~~L~~~L~~G~~V~v~l 180 (455)
|.+. +...+++||+++|++++|+.|++.+++|..+++.+
T Consensus 78 m~~~--~~~~~i~IP~v~Is~~dG~~L~~~l~~g~~~~~~~ 116 (118)
T cd02127 78 MIQD--DSSRRADIPAAFLLGKNGYMIRKTLERLGLPYAII 116 (118)
T ss_pred ecCC--CCCCCceEEEEEecHHHHHHHHHHHHcCCceEEee
Confidence 6542 23456899999999999999999999999887765
No 9
>cd02125 PA_VSR PA_VSR: Protease-associated (PA) domain-containing plant vacuolar sorting receptor (VSR). This group includes various PA domain-containing VSRs such as garden pea BP-80, pumpkin PV72, and various Arabidopsis VSRs including AtVSR1. In contrast to most eukaryotes, which only have one or two VSRs, plants have several. This may in part be a reflection of having a more complex vacuolar system with both lytic vacuoles and storage vacuoles. The lytic vacuole is thought to be equivalent to the mammalian lysosome and the yeast vacuole. Pea BP-80 is a type 1 transmembrane protein, involved in the targeting of proteins to the lytic vacuole; it has been suggested that this protein also mediates targeting to the storage vacuole. PV72 and AtVSR1 may mediate transport of seed storage proteins to protein storage vacuoles. The significance of the PA domain to VSRs has not been ascertained. It may be a protein-protein interaction domain. At peptidase active sites, the PA domain may partic
Probab=99.87 E-value=1.6e-21 Score=172.74 Aligned_cols=112 Identities=29% Similarity=0.430 Sum_probs=91.3
Q ss_pred CCCCccccccCCceeEEEEec-CCCCCCCCCCC---------CCCCcEEEEecCCCCHHHHHHHHHHcCCcEEEEEcCCC
Q 012828 66 RFGRTLEAKEKDASQNRLVLA-DPPDCCSKPKN---------KLTGEAILVHRGGCSFTAKANFAEEANASAILIINNKT 135 (455)
Q Consensus 66 ~FG~~lp~~~~~~~~~~Lv~~-~p~daC~~~~~---------~l~g~IaLV~RG~CtF~~Ka~nAq~aGA~avII~n~~~ 135 (455)
+||.+ |+.. ...+.|+.+ ++.++|++.+. ..+++|+||+||+|+|.+|++|||++||+++||||+.+
T Consensus 1 ~FG~~-~yg~--~~~G~l~~~~~~~~gC~~~~~~~~~~~~~~~~~~~IvLv~RG~C~F~~K~~~Aq~aGA~avII~n~~~ 77 (127)
T cd02125 1 NFGLP-QYGG--TLTGVVVYPKENRTGCKEFDVFFKPKKSEPGRRPVILLLDRGGCFFTLKAWNAQQAGAAAVLVADNVD 77 (127)
T ss_pred CCCCC-CcCC--eeEEEEEecCCccccCCCCcccccccccccCCCceEEEEECCCcCHHHHHHHHHHCCCcEEEEEECCC
Confidence 58844 4432 366777776 67899998763 36789999999999999999999999999999999987
Q ss_pred c-ccccccCCC----CCCCcccceEEEechhhhHHHHHHHhcCcEEEEEE
Q 012828 136 E-LFKMVCESN----ETDVDIRIPAIMLPQDAGANLEKLIKNNSVVSVQL 180 (455)
Q Consensus 136 ~-l~~m~~~~~----~~~~~i~IPvv~Is~~~G~~L~~~L~~G~~V~v~l 180 (455)
+ +..|.+.++ +...+++||+++|++++|+.|++.+++|++|+|++
T Consensus 78 ~~~~~m~~~~~~~~~~~~~~i~IP~v~Is~~~G~~L~~~l~~g~~V~v~~ 127 (127)
T cd02125 78 EPLLTMDTPEESGSADYIEKITIPSALITKAFGEKLKKAISNGEMVVIKL 127 (127)
T ss_pred CccccccCcccccccccCCCceEeEEEECHHHHHHHHHHHhcCCeEEEeC
Confidence 6 567754322 12356899999999999999999999999999875
No 10
>cd02123 PA_C_RZF_like PA_C-RZF_ like: Protease-associated (PA) domain C_RZF-like. This group includes various PA domain-containing proteins similar to C-RZF (chicken embryo RING zinc finger) protein. These proteins contain a C3H2C3 RING finger. C-RZF is expressed in embryo cells and is restricted mainly to brain and heart, it is localized to both the nucleus and endosomes. Additional C3H2C3 RING finger proteins belonging to this group, include Arabidopsis ReMembR-H2 protein and mouse sperizin. ReMembR-H2 is likely to be an integral membrane protein, and to traffic through the endosomal pathway. Sperizin is expressed in haploid germ cells and localized in the cytoplasm, it may participate in spermatogenesis. 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 acce
Probab=99.86 E-value=4.1e-21 Score=175.42 Aligned_cols=116 Identities=26% Similarity=0.418 Sum_probs=99.2
Q ss_pred CcceEEeeecCCCCccccccCCceeEEEEecCCCCCCCCCC------CCCCCcEEEEecCCCCHHHHHHHHHHcCCcEEE
Q 012828 56 EDTEYVGVGARFGRTLEAKEKDASQNRLVLADPPDCCSKPK------NKLTGEAILVHRGGCSFTAKANFAEEANASAIL 129 (455)
Q Consensus 56 ~~~~~~~~~A~FG~~lp~~~~~~~~~~Lv~~~p~daC~~~~------~~l~g~IaLV~RG~CtF~~Ka~nAq~aGA~avI 129 (455)
+..++.+..|+||+..+. ++.+++|+.++|.+||++.+ +..+|+|+||+||+|+|.+|++|||++||+|+|
T Consensus 20 ~~~~~~~~~A~FG~~~~~---~~~~g~lv~~~p~~gC~~~~~~~~~~~~~~g~IvLV~RG~CtF~~Kv~nAq~aGA~avI 96 (153)
T cd02123 20 LTDEFDDLPANFGPIPPG---SGLKGVLVVAEPLNACSPIENPPLNSNASGSFIVLIRRGNCSFETKVRNAQRAGYKAAI 96 (153)
T ss_pred ccceEeeecccCCCCCCC---CceEEEEEeCCccccCCCCcccccccccCCCeEEEEECCCCCHHHHHHHHHHCCCCEEE
Confidence 456799999999987664 35788999999999999876 478899999999999999999999999999999
Q ss_pred EEcCCCc-ccccccCCCCCCCcccceEEEechhhhHHHHHHHhcCcE
Q 012828 130 IINNKTE-LFKMVCESNETDVDIRIPAIMLPQDAGANLEKLIKNNSV 175 (455)
Q Consensus 130 I~n~~~~-l~~m~~~~~~~~~~i~IPvv~Is~~~G~~L~~~L~~G~~ 175 (455)
|||++++ +..|.+.+. ...+++||+++|++++|+.|++.+++++.
T Consensus 97 I~n~~~~~~~~m~~~~~-~~~~v~IP~v~Is~~dg~~L~~~l~~~~~ 142 (153)
T cd02123 97 VYNDESNDLISMSGNDQ-EIKGIDIPSVFVGKSTGEILKKYASYEKG 142 (153)
T ss_pred EEECCCCcceeccCCCC-CCcCCEEEEEEeeHHHHHHHHHHHhcCCc
Confidence 9999754 566765322 22478999999999999999999998877
No 11
>cd02122 PA_GRAIL_like PA _GRAIL_like: Protease-associated (PA) domain GRAIL-like. This group includes PA domain containing E3 (ubiquitin ligases) similar to human GRAIL (gene related to anergy in lymphocytes) protein. Proteins in this group contain a C3H2C3 RING finger. E3 ubiquitin ligase is part of an enzymic cascade, the end result of which is the ubiquitination of proteins. In this cascade, E1 activates the ubiquitin, the activated ubiquitin is carried by E2, and E3 recognizes the acceptor protein as well as catalyzes the transfer of the activated ubiquitin from E2 to this acceptor. GRAIL, a transmembrane protein localized in the endosomes, controls the development of T cell clonal anergy, and may ubiquitinate membrane-associated targets for T cell activation. GRAIL1 is associated with, and regulated by, two isoforms of otubain 1 (the ubiquitin-specific protease). Additional E3s belonging to this group include human (h)Goliath and Xenopus GREUL1 (Goliath Related E3 Ubiquitin Ligase
Probab=99.85 E-value=6.5e-21 Score=171.21 Aligned_cols=110 Identities=25% Similarity=0.378 Sum_probs=91.7
Q ss_pred eecCCCCccccccCCceeEEEEec---CCCCCCCCCCC-----CCCCcEEEEecCCCCHHHHHHHHHHcCCcEEEEEcCC
Q 012828 63 VGARFGRTLEAKEKDASQNRLVLA---DPPDCCSKPKN-----KLTGEAILVHRGGCSFTAKANFAEEANASAILIINNK 134 (455)
Q Consensus 63 ~~A~FG~~lp~~~~~~~~~~Lv~~---~p~daC~~~~~-----~l~g~IaLV~RG~CtF~~Ka~nAq~aGA~avII~n~~ 134 (455)
..|+||.++|.. +..+.|+.+ ++.+||++.++ +++|+||||+||+|+|.+|++|||++||+++||||+.
T Consensus 18 ~~a~fg~~~~~~---~~~G~l~~~~~~~~~~gC~~~~~~~~~~~~~g~IaLV~RG~C~F~~K~~nA~~aGA~aVIIyn~~ 94 (138)
T cd02122 18 ESGRYGEHSPKE---EAKGLVVVPDPPNDHYGCDPDTRFPIPPNGEPWIALIQRGNCTFEEKIKLAAERNASAVVIYNNP 94 (138)
T ss_pred cccccCCCCCCC---ccEEEEecCCCCCCcCCCCCCccccCCccCCCeEEEEECCCCCHHHHHHHHHHCCCcEEEEEECC
Confidence 489999888876 456666544 45899998764 5889999999999999999999999999999999998
Q ss_pred C-c--ccccccCCCCCCCcccceEEEechhhhHHHHHHHhcCcEEEEEE
Q 012828 135 T-E--LFKMVCESNETDVDIRIPAIMLPQDAGANLEKLIKNNSVVSVQL 180 (455)
Q Consensus 135 ~-~--l~~m~~~~~~~~~~i~IPvv~Is~~~G~~L~~~L~~G~~V~v~l 180 (455)
+ . ++.|... ...+||+++|++++|+.|++.+++|++|++++
T Consensus 95 ~~~~~~~~m~~~-----~~~~ip~v~Is~~~G~~l~~~l~~G~~Vtv~~ 138 (138)
T cd02122 95 GTGNETVKMSHP-----GTGDIVAIMITNPKGMEILELLERGISVTMVI 138 (138)
T ss_pred CCCCceeeccCC-----CCCcceEEEEcHHHHHHHHHHHHcCCcEEEeC
Confidence 6 2 5566532 12478999999999999999999999999864
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=99.81 E-value=1.6e-19 Score=157.39 Aligned_cols=114 Identities=32% Similarity=0.481 Sum_probs=98.0
Q ss_pred eecCCCCccccccCCceeEEEEecCCCCCCCCCC--CCCCCcEEEEecCCCCHHHHHHHHHHcCCcEEEEEcCCCc--cc
Q 012828 63 VGARFGRTLEAKEKDASQNRLVLADPPDCCSKPK--NKLTGEAILVHRGGCSFTAKANFAEEANASAILIINNKTE--LF 138 (455)
Q Consensus 63 ~~A~FG~~lp~~~~~~~~~~Lv~~~p~daC~~~~--~~l~g~IaLV~RG~CtF~~Ka~nAq~aGA~avII~n~~~~--l~ 138 (455)
++|+||+.++........++++.+++.++|++.. ++++|||+|++||+|+|.+|+++|+++||+|+|+||+.++ .+
T Consensus 1 ~~a~fg~~~~~~~~~~~~~~~~~~~~~~~C~~~~~~~~v~GkIvL~~rg~c~f~~k~~~a~~aGA~gvIi~~~~~~~~~~ 80 (118)
T cd04818 1 VSAGFGPALTNVTADVVLAGAAPASNTDGCTAFTNAAAFAGKIALIDRGTCNFTVKVLNAQNAGAIAVIVANNVAGGAPI 80 (118)
T ss_pred CCcccCCcCccccccceeEEEecCCcccccCCCCcCCCCCCEEEEEECCCCCHHHHHHHHHHCCCeEEEEEECCCCCcce
Confidence 4799999998765456889999999999999876 5799999999999999999999999999999999998764 34
Q ss_pred ccccCCCCCCCcccceEEEechhhhHHHHHHHhcCcEEEEEE
Q 012828 139 KMVCESNETDVDIRIPAIMLPQDAGANLEKLIKNNSVVSVQL 180 (455)
Q Consensus 139 ~m~~~~~~~~~~i~IPvv~Is~~~G~~L~~~L~~G~~V~v~l 180 (455)
.|... .....||+++|++++|+.|++++++|++|++++
T Consensus 81 ~~~~~----~~~~~iP~v~V~~~~g~~l~~~l~~g~~v~v~~ 118 (118)
T cd04818 81 TMGGD----DPDITIPAVMISQADGDALKAALAAGGTVTVTL 118 (118)
T ss_pred eccCC----CCCCEEeEEEecHHHHHHHHHHHhcCCcEEEeC
Confidence 45321 134679999999999999999999999998875
No 13
>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=99.81 E-value=1.2e-19 Score=158.70 Aligned_cols=103 Identities=26% Similarity=0.479 Sum_probs=84.5
Q ss_pred eeecCCCCccccccCCceeEEEEecCCCCCCCCCC-CCCCCcEEEEecCCCCHHHHHHHHHHcCCcEEEEEcCCCc--cc
Q 012828 62 GVGARFGRTLEAKEKDASQNRLVLADPPDCCSKPK-NKLTGEAILVHRGGCSFTAKANFAEEANASAILIINNKTE--LF 138 (455)
Q Consensus 62 ~~~A~FG~~lp~~~~~~~~~~Lv~~~p~daC~~~~-~~l~g~IaLV~RG~CtF~~Ka~nAq~aGA~avII~n~~~~--l~ 138 (455)
+..|+||+.+.+..++. ..++|.++|++.+ ++++|+|+||+||+|+|.+|++|||++||+++||||+.++ +.
T Consensus 5 ~~~~~~~~~~~~~~~~~-----~~~~p~~gC~~~~~~~l~gkIvLV~RG~CsF~~K~~nAq~aGA~avII~n~~~~~~~~ 79 (117)
T cd04813 5 GRYASFSPILNPHLRGS-----YKVSPTDACSLQEHAEIDGKVALVLRGGCGFLDKVMWAQRRGAKAVIVGDDEPGRGLI 79 (117)
T ss_pred ccccccCCccCcccccc-----ccCCCCCCCCCCCcCCcCCeEEEEECCCCCHHHHHHHHHHCCCcEEEEEECCCcccce
Confidence 47899998876654321 2378999999886 5899999999999999999999999999999999998763 45
Q ss_pred ccccCCCCCCCcccceEEEechhhhHHHHHHHh
Q 012828 139 KMVCESNETDVDIRIPAIMLPQDAGANLEKLIK 171 (455)
Q Consensus 139 ~m~~~~~~~~~~i~IPvv~Is~~~G~~L~~~L~ 171 (455)
.|.+. +...+++||+++|++++|+.|++++.
T Consensus 80 ~m~~~--~~~~~v~IPav~Is~~~g~~L~~l~~ 110 (117)
T cd04813 80 TMFSN--GDTDNVTIPAMFTSRTSYHLLSSLLP 110 (117)
T ss_pred ecccC--CCCCCcEEEEEEEcHHHHHHHHHhcc
Confidence 66543 22457899999999999999998773
No 14
>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=99.78 E-value=2.6e-18 Score=150.92 Aligned_cols=113 Identities=24% Similarity=0.466 Sum_probs=90.0
Q ss_pred eecCCCCccccccCCceeEEEEecCC--CCCCCCCC---CCCCCcEEEEecCCCCHHHHHHHHHHcCCcEEEEEcCCCcc
Q 012828 63 VGARFGRTLEAKEKDASQNRLVLADP--PDCCSKPK---NKLTGEAILVHRGGCSFTAKANFAEEANASAILIINNKTEL 137 (455)
Q Consensus 63 ~~A~FG~~lp~~~~~~~~~~Lv~~~p--~daC~~~~---~~l~g~IaLV~RG~CtF~~Ka~nAq~aGA~avII~n~~~~l 137 (455)
+...|++..|. ++++++++..++ .++|++.+ .+++|||+|++||+|+|.+|++|||++||+++|+||+.++.
T Consensus 4 ~~~~~~~~~~~---~gi~~~lv~~~~~~~~gC~~~~~~~~~~~GkIvLv~rg~c~f~~K~~~A~~aGA~avIi~n~~~~~ 80 (122)
T cd04816 4 VSLSYSPSTPP---GGVTAPLVPLDPERPAGCDASDYDGLDVKGAIVLVDRGGCPFADKQKVAAARGAVAVIVVNNSDGG 80 (122)
T ss_pred EEEeccCCCCC---CCcEEEEEEcCCCCccCCCccccCCCCcCCeEEEEECCCCCHHHHHHHHHHCCCcEEEEEeCCCCc
Confidence 34567766553 468899998765 59999865 47999999999999999999999999999999999987642
Q ss_pred -cccccCCCCCCCcccceEEEechhhhHHHHHHHhcCcEEEEEE
Q 012828 138 -FKMVCESNETDVDIRIPAIMLPQDAGANLEKLIKNNSVVSVQL 180 (455)
Q Consensus 138 -~~m~~~~~~~~~~i~IPvv~Is~~~G~~L~~~L~~G~~V~v~l 180 (455)
..+.-. +......||+++|++++|+.|++.+++|.+|++++
T Consensus 81 ~~~~~~~--~~~~~~~iP~~~Is~~~G~~l~~~l~~g~~v~~~~ 122 (122)
T cd04816 81 GTAGTLG--APNIDLKVPVGVITKAAGAALRRRLGAGETLELDA 122 (122)
T ss_pred ccccccc--CCCCCCeeeEEEEcHHHHHHHHHHHcCCCEEEEeC
Confidence 111111 11245689999999999999999999999998874
No 15
>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=99.75 E-value=1.3e-17 Score=146.50 Aligned_cols=113 Identities=23% Similarity=0.347 Sum_probs=87.8
Q ss_pred ceEEeeecCCCCccccccCCceeEEEEecCCCCCCCCCC--CCCCCcEEEEecCCCCHHHHHHHHHHcCCcEEEEEcCC-
Q 012828 58 TEYVGVGARFGRTLEAKEKDASQNRLVLADPPDCCSKPK--NKLTGEAILVHRGGCSFTAKANFAEEANASAILIINNK- 134 (455)
Q Consensus 58 ~~~~~~~A~FG~~lp~~~~~~~~~~Lv~~~p~daC~~~~--~~l~g~IaLV~RG~CtF~~Ka~nAq~aGA~avII~n~~- 134 (455)
..+...+..|.+. . +.+++++.. +.++|++.+ .+++|||+||+||+|+|.+|++|||++||+++||||+.
T Consensus 7 ~~~~~~~~~~~~~---~---~~~g~lv~~-~~~gC~~~~~~~~~~gkIvlv~rg~c~f~~K~~~A~~aGA~~vIv~n~~~ 79 (122)
T cd02130 7 EAIPTTAFTYSPA---G---EVTGPLVVV-PNLGCDAADYPASVAGNIALIERGECPFGDKSALAGAAGAAAAIIYNNVP 79 (122)
T ss_pred EEEeeeecccCCC---C---CcEEEEEEe-CCCCCCcccCCcCCCCEEEEEECCCCCHHHHHHHHHHCCCcEEEEEECCC
Confidence 3455555444432 2 346888886 578999754 47999999999999999999999999999999999987
Q ss_pred CcccccccCCCCCCCcccceEEEechhhhHHHHHHHhcCcEEEEEE
Q 012828 135 TELFKMVCESNETDVDIRIPAIMLPQDAGANLEKLIKNNSVVSVQL 180 (455)
Q Consensus 135 ~~l~~m~~~~~~~~~~i~IPvv~Is~~~G~~L~~~L~~G~~V~v~l 180 (455)
++...... ....+..||+++|++++|+.|++.+++|++|++++
T Consensus 80 ~~~~~~~~---~~~~~~~Ip~v~Is~~~G~~L~~~l~~g~~v~~~~ 122 (122)
T cd02130 80 AGGLSGTL---GEPSGPYVPTVGISQEDGKALVAALANGGEVSANL 122 (122)
T ss_pred Cccccccc---CCCCCCEeeEEEecHHHHHHHHHHHhcCCcEEEeC
Confidence 33322111 12235789999999999999999999999998875
No 16
>cd02124 PA_PoS1_like PA_PoS1_like: Protease-associated (PA) domain PoS1-like. This group includes various PA domain-containing proteins similar to Pleurotus ostreatus (Po)S1. PoSl, the main extracellular protease in P. ostreatus is a subtilisin-like serine protease belonging to the peptidase S8 family. Ca2+ and Mn2+ both stimulate the protease activity of (Po)S1. Ca2+ protects PoS1 from autolysis. PoS1 is a monomeric glycoprotein, which may play a role in the regulation of laccases in lignin formation. (Po)S1 participates in the degradation of POXA1b, and in the activation of POXA3, (POXA1b and POXA3 are laccase isoenzymes), but its effect may be indirect. The significance of the PA domain to PoS1 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=99.70 E-value=1e-16 Score=142.52 Aligned_cols=89 Identities=28% Similarity=0.358 Sum_probs=73.1
Q ss_pred cCCCCCCCCCC---CCCCCcEEEEecCCCCHHHHHHHHHHcCCcEEEEEcCCCcccccccCCCCCCCcccceEEEechhh
Q 012828 86 ADPPDCCSKPK---NKLTGEAILVHRGGCSFTAKANFAEEANASAILIINNKTELFKMVCESNETDVDIRIPAIMLPQDA 162 (455)
Q Consensus 86 ~~p~daC~~~~---~~l~g~IaLV~RG~CtF~~Ka~nAq~aGA~avII~n~~~~l~~m~~~~~~~~~~i~IPvv~Is~~~ 162 (455)
+++.+||++++ .+++|+|+||+||+|+|.+|++|||++||+++||||++++...+... ....+|.+.+ +++
T Consensus 38 ~~~~~gC~~~~~~~~~~~g~IaLv~rg~c~f~~K~~nA~~aGA~aviiyn~~~~~~~~~~~-----~~~~~~~~~~-~~~ 111 (129)
T cd02124 38 SVADDACQPLPDDTPDLSGYIVLVRRGTCTFATKAANAAAKGAKYVLIYNNGSGPTDQVGS-----DADSIIAAVT-PED 111 (129)
T ss_pred CCCcccCcCCCcccccccCeEEEEECCCCCHHHHHHHHHHcCCcEEEEEECCCCcccccCC-----CCcceeeEEe-HHH
Confidence 35789999875 36899999999999999999999999999999999998765444321 1234555555 999
Q ss_pred hHHHHHHHhcCcEEEEEE
Q 012828 163 GANLEKLIKNNSVVSVQL 180 (455)
Q Consensus 163 G~~L~~~L~~G~~V~v~l 180 (455)
|++|++.+++|++|+++|
T Consensus 112 G~~l~~~l~~G~~vtv~f 129 (129)
T cd02124 112 GEAWIDALAAGSNVTVDF 129 (129)
T ss_pred HHHHHHHHhcCCeEEEeC
Confidence 999999999999999875
No 17
>cd04817 PA_VapT_like PA_VapT_like: Protease-associated domain containing proteins like VapT from Vibrio metschnikovii strain RH530. This group contains various PA domain-containing proteins similar to V. metschnikovii VapT, including the serine alkaline protease SapSh from the psychotroph Shewanella strain Ac10 and the Apa1 protease from the psychrotroph Pseudoalteromonas Sp. As-11. VapT is a sodium dodecyl sulfate (SDS) resistant extracellular alkaline serine protease showing high activity over a broad pH range and temperature. SapSh has a high level of protease activity at low temperatures. Apa1 is also cold-adapted. 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=99.70 E-value=2.1e-16 Score=142.01 Aligned_cols=96 Identities=22% Similarity=0.318 Sum_probs=76.1
Q ss_pred CceeEEEEecCCCCCCCCCCCCCCCcEEEEecCCCC-----HHHHHHHHHHcCCcEEEEEcCC--Ccccc-cccCCCCCC
Q 012828 77 DASQNRLVLADPPDCCSKPKNKLTGEAILVHRGGCS-----FTAKANFAEEANASAILIINNK--TELFK-MVCESNETD 148 (455)
Q Consensus 77 ~~~~~~Lv~~~p~daC~~~~~~l~g~IaLV~RG~Ct-----F~~Ka~nAq~aGA~avII~n~~--~~l~~-m~~~~~~~~ 148 (455)
+..+++|+..... +|+....+.+|||+||+||+|+ |.+|++|||++||+|+|||||. ++.+. +.+ +..
T Consensus 34 g~~tg~lv~~g~~-g~d~~~~d~~GkIaLI~RG~c~~~~~~f~~Kv~~A~~aGA~avIIyNn~~~~g~~~~~lg---~~~ 109 (139)
T cd04817 34 GSATGSLYYCGTS-GGSYICGGMAGKICLIERGGNSKSVYPEIDKVKACQNAGAIAAIVYSNAALAGLQNPFLV---DTN 109 (139)
T ss_pred CcceEEEEEccCC-CccccCCCcCccEEEEECCCCCCCcccHHHHHHHHHHCCCeEEEEEeCCCCCCccccccc---CCC
Confidence 3567888887643 4755456899999999999999 9999999999999999999998 44332 222 112
Q ss_pred CcccceEEEechhhhHHHHHHHhcCcEE
Q 012828 149 VDIRIPAIMLPQDAGANLEKLIKNNSVV 176 (455)
Q Consensus 149 ~~i~IPvv~Is~~~G~~L~~~L~~G~~V 176 (455)
.+++||+++|++++|++|++.+.++.+|
T Consensus 110 ~~~~IP~v~is~~dG~~L~~~l~~~~tv 137 (139)
T cd04817 110 NDTTIPSVSVDRADGQALLAALGQSTTV 137 (139)
T ss_pred CCceEeEEEeeHHHHHHHHHHhcCCCee
Confidence 3579999999999999999999655444
No 18
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.61 E-value=6.4e-15 Score=148.99 Aligned_cols=109 Identities=27% Similarity=0.425 Sum_probs=91.0
Q ss_pred eEEeeecCCCCccccccCCceeEEEEecCCCCCCCCCCC------CCCCcEEEEecCCCCHHHHHHHHHHcCCcEEEEEc
Q 012828 59 EYVGVGARFGRTLEAKEKDASQNRLVLADPPDCCSKPKN------KLTGEAILVHRGGCSFTAKANFAEEANASAILIIN 132 (455)
Q Consensus 59 ~~~~~~A~FG~~lp~~~~~~~~~~Lv~~~p~daC~~~~~------~l~g~IaLV~RG~CtF~~Ka~nAq~aGA~avII~n 132 (455)
+|.+.+|.||+.++.+ +..+-++.++|.+||++..+ .-...++|++||+|+|.+|+++||++|++|+||||
T Consensus 35 sf~d~~a~f~~s~~~e---~~~G~l~~~ep~~aC~~i~~~p~~~~~~~~~laLI~Rg~CsFe~Kv~~AQ~aGfkaaIVyn 111 (348)
T KOG4628|consen 35 SFADLPALFGPSLPSE---GNLGVLVVAEPLNACNPITNFPEHSTRSTSFLALIRRGGCSFEDKVLNAQRAGFKAAIVYN 111 (348)
T ss_pred cccCCccccCCccccc---cceeeeecCCCccccCccccCccCCCCCcceEEEEEccCCchHHHHhhcccccCceEEEec
Confidence 6889999999988875 56778899999999999763 45578999999999999999999999999999999
Q ss_pred CCCc--ccccccCCCCCCCcccceEEEechhhhHHHHHHHhcCc
Q 012828 133 NKTE--LFKMVCESNETDVDIRIPAIMLPQDAGANLEKLIKNNS 174 (455)
Q Consensus 133 ~~~~--l~~m~~~~~~~~~~i~IPvv~Is~~~G~~L~~~L~~G~ 174 (455)
|.+. +..|.. ...++.|++++++...|+.|.+...++.
T Consensus 112 n~~~~~lv~~~~----~~~~v~i~~~~vs~~~ge~l~~~~~~~~ 151 (348)
T KOG4628|consen 112 NVGSEDLVAMAS----NPSKVDIHIVFVSVFSGELLSSYAGRTE 151 (348)
T ss_pred CCCCchheeecc----CCccceeEEEEEeeehHHHHHHhhcccc
Confidence 8643 555532 2357899999999999999999654443
No 19
>KOG3920 consensus Uncharacterized conserved protein, contains PA domain [General function prediction only]
Probab=99.55 E-value=3.6e-15 Score=133.76 Aligned_cols=141 Identities=26% Similarity=0.328 Sum_probs=110.8
Q ss_pred CCCCCCCCeEEEEeeeeecCCCcceEEeeecC-CCCccccccCCceeEEEEecCCCCCCCCCCC--CCCCcEEEEecCCC
Q 012828 35 KRPGCDNNFVLVKVPTWVDGGEDTEYVGVGAR-FGRTLEAKEKDASQNRLVLADPPDCCSKPKN--KLTGEAILVHRGGC 111 (455)
Q Consensus 35 ~~p~c~n~f~lvkv~~wv~g~~~~~~~~~~A~-FG~~lp~~~~~~~~~~Lv~~~p~daC~~~~~--~l~g~IaLV~RG~C 111 (455)
..|-...++.+..+- .+++....|+..+|. ||...+++.+ ..+||.++|+.||+.+.| ...|.|+|++||+|
T Consensus 24 ~~~v~~qD~~~F~vl--sP~~l~Yty~~~pAkdfG~~F~~r~e---~~~lV~adPp~aC~elrN~~f~~d~vaL~eRGeC 98 (193)
T KOG3920|consen 24 YEEVENQDNMLFTVL--SPYTLAYTYQMKPAKDFGVHFPDRFE---NLELVLADPPHACEELRNEIFAPDSVALMERGEC 98 (193)
T ss_pred cceeeecceEEEEec--CcccEEEEEEecchhhhccccchhhc---CcceeecCChhHHHHHhhcccCCCcEEEEecCCc
Confidence 333344444444332 466677889999998 9999998753 468999999999999875 67899999999999
Q ss_pred CHHHHHHHHHHcCCcEEEEEcCCCc------ccccccCCCCCCCcccceEEEechhhhHHHHHHHhcCcEEEEEEec
Q 012828 112 SFTAKANFAEEANASAILIINNKTE------LFKMVCESNETDVDIRIPAIMLPQDAGANLEKLIKNNSVVSVQLYS 182 (455)
Q Consensus 112 tF~~Ka~nAq~aGA~avII~n~~~~------l~~m~~~~~~~~~~i~IPvv~Is~~~G~~L~~~L~~G~~V~v~l~~ 182 (455)
+|..|.+++|++||.++||-++..+ ..+|... ++.++-+||++++-..+|-.++..|++-..+...+.-
T Consensus 99 SFl~Ktl~~e~aGa~aiiitd~~~~~~sf~~YveMI~D--~sq~~AniPa~fllg~~Gy~ir~sL~r~~r~ha~i~I 173 (193)
T KOG3920|consen 99 SFLVKTLNGEKAGATAIIITDSQNYEYSFHQYVEMIPD--ESQDRANIPAVFLLGVTGYYIRVSLKRYFRDHAKIDI 173 (193)
T ss_pred eeeehhhhhhhcCceEEEEecCCCCchhHHHHHHhcCc--ccccccCCceEEEeccceEEEehhHHHhCCccEEEec
Confidence 9999999999999999999876532 4678763 4456789999999999999999888876655555543
No 20
>PF02225 PA: PA domain; InterPro: IPR003137 The PA (Protease associated) domain is found as an insert domain in diverse proteases, which include the MEROPS peptidase families A22B, M28, and S8A []. The PA domain is also found in a plant vacuolar sorting receptor O22925 from SWISSPROT and members of the RZF family, e.g. O43567 from SWISSPROT.; PDB: 3EIF_A 1XF1_B 3BXM_A 2C6P_A 1Z8L_C 3SJF_A 3BHX_A 2C6G_A 3D7F_A 2XEG_A ....
Probab=99.54 E-value=9.5e-15 Score=122.64 Aligned_cols=91 Identities=29% Similarity=0.445 Sum_probs=65.1
Q ss_pred ceeEEEEecCC---CCCCCCC---CCCCCCcEEEEecCCCCHHHHHHHHHHcCCcEEEEEcCCCcccccccCCCCCCCcc
Q 012828 78 ASQNRLVLADP---PDCCSKP---KNKLTGEAILVHRGGCSFTAKANFAEEANASAILIINNKTELFKMVCESNETDVDI 151 (455)
Q Consensus 78 ~~~~~Lv~~~p---~daC~~~---~~~l~g~IaLV~RG~CtF~~Ka~nAq~aGA~avII~n~~~~l~~m~~~~~~~~~~i 151 (455)
..+++|+...+ ...|.+. ..+++|||+|++||+|+|.+|+++||++||+|+||+|+.+....+.. .....+.
T Consensus 5 ~~~~~lV~~~~~~~~~~~~~~~~~~~~~~gkIvlv~rg~~~~~~k~~~a~~~GA~gvIi~~~~~~~~~~~~--~~~~~~~ 82 (101)
T PF02225_consen 5 TVTGPLVPAGNGIDEGDCCPSDYNGSDVKGKIVLVERGSCSFDDKVRNAQKAGAKGVIIYNPPPNNGSMID--SEDPDPI 82 (101)
T ss_dssp EEEEEEEEETTEEECCHHHHHHTSTSTCTTSEEEEESTSSCHHHHHHHHHHTTESEEEEE-TSCSCTTTTC--EBTTTST
T ss_pred CEEEEEEEecCCCCcccccccccCCccccceEEEEecCCCCHHHHHHHHHHcCCEEEEEEeCCccccCccc--ccCCCCc
Confidence 35678884332 2233222 35899999999999999999999999999999999993322222211 1224567
Q ss_pred cceEEEechhhhHHHHHHH
Q 012828 152 RIPAIMLPQDAGANLEKLI 170 (455)
Q Consensus 152 ~IPvv~Is~~~G~~L~~~L 170 (455)
.||+++|++++|++|++++
T Consensus 83 ~iP~v~I~~~~g~~L~~~i 101 (101)
T PF02225_consen 83 DIPVVFISYEDGEALLAYI 101 (101)
T ss_dssp BSEEEEE-HHHHHHHHHHH
T ss_pred EEEEEEeCHHHHhhhhccC
Confidence 9999999999999999864
No 21
>cd00538 PA PA: Protease-associated (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 into which the PA domain is inserted include the following: i) various signal peptide peptidases including, hSPPL2a and 2b which catalyze the intramembrane proteolysis of tumor necrosis factor alpha, ii) various proteins containing a C3H2C3 RING finger including, Arabidopsis ReMembR-H2 protein and various E3 ubiquitin ligases such as human GRAIL (gene related to anergy in lymphocytes), iii) EDEM3 (ER-degradation-enhancing mannosidase-like 3 protein), iv) various plant vacuolar sorting receptors such as Pisum sativum BP-80, v) g
Probab=99.53 E-value=3.9e-14 Score=123.28 Aligned_cols=94 Identities=32% Similarity=0.490 Sum_probs=75.3
Q ss_pred cCCCCCCCCCC-----CCCCCcEEEEecCCCCHHHHHHHHHHcCCcEEEEEcCCCc-ccccccCCCCCCCcccceEEEec
Q 012828 86 ADPPDCCSKPK-----NKLTGEAILVHRGGCSFTAKANFAEEANASAILIINNKTE-LFKMVCESNETDVDIRIPAIMLP 159 (455)
Q Consensus 86 ~~p~daC~~~~-----~~l~g~IaLV~RG~CtF~~Ka~nAq~aGA~avII~n~~~~-l~~m~~~~~~~~~~i~IPvv~Is 159 (455)
..+.++|++.. .+++|||+|++||+|+|.+|+++||++||+|+|++|+.+. ...+... ........||+++|+
T Consensus 27 ~~~~~~C~~~~~~~~~~~~~GkIvl~~~g~~~~~~k~~~a~~~GA~gvii~~~~~~~~~~~~~~-~~~~~~~~iP~~~is 105 (126)
T cd00538 27 AGPLVGCGYGTTDDSGADVKGKIVLVRRGGCSFSEKVKNAQKAGAKAVIIYNNGDDPGPQMGSV-GLESTDPSIPTVGIS 105 (126)
T ss_pred ccceEEEecCcccccCCCccceEEEEECCCcCHHHHHHHHHHCCCEEEEEEECCCCcccccccc-cCCCCCCcEeEEEeC
Confidence 35677887753 5799999999999999999999999999999999998763 2222211 111245689999999
Q ss_pred hhhhHHHHHHHhcCcEEEEEE
Q 012828 160 QDAGANLEKLIKNNSVVSVQL 180 (455)
Q Consensus 160 ~~~G~~L~~~L~~G~~V~v~l 180 (455)
+++|+.|++++++|+++++++
T Consensus 106 ~~~g~~l~~~~~~~~~v~~~~ 126 (126)
T cd00538 106 YADGEALLSLLEAGKTVTVDL 126 (126)
T ss_pred HHHHHHHHHHHhcCCceEEeC
Confidence 999999999999999888763
No 22
>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=99.43 E-value=2e-12 Score=116.55 Aligned_cols=95 Identities=21% Similarity=0.316 Sum_probs=72.7
Q ss_pred ceeEEEEecCCCCCCCCCC-CCCCCcEEEEecCCCCHHHHHHHHHHcCCcEEEEEcCCCcccccccCCCCCCCcccceEE
Q 012828 78 ASQNRLVLADPPDCCSKPK-NKLTGEAILVHRGGCSFTAKANFAEEANASAILIINNKTELFKMVCESNETDVDIRIPAI 156 (455)
Q Consensus 78 ~~~~~Lv~~~p~daC~~~~-~~l~g~IaLV~RG~CtF~~Ka~nAq~aGA~avII~n~~~~l~~m~~~~~~~~~~i~IPvv 156 (455)
+.+++++...... ..+.. .+++|||+|++||+|+|.+|+++||++||+|+|+||+.++...+... ....||++
T Consensus 25 ~~~~~lv~~g~g~-~~d~~~~dv~GkIvL~~rg~c~~~~K~~~a~~aGA~gvIi~n~~~~~~~~~~~-----~~~~iP~v 98 (143)
T cd02133 25 GKTYELVDAGLGT-PEDFEGKDVKGKIALIQRGEITFVEKIANAKAAGAVGVIIYNNVDGLIPGTLG-----EAVFIPVV 98 (143)
T ss_pred CcEEEEEEccCCc-hhccCCCCccceEEEEECCCCCHHHHHHHHHHCCCeEEEEeecCCCcccccCC-----CCCeEeEE
Confidence 4677888764211 11222 47999999999999999999999999999999999998665444321 13579999
Q ss_pred EechhhhHHHHHHHhcCcEEEEEE
Q 012828 157 MLPQDAGANLEKLIKNNSVVSVQL 180 (455)
Q Consensus 157 ~Is~~~G~~L~~~L~~G~~V~v~l 180 (455)
+|++++|+.|++.+++ ++++.+
T Consensus 99 ~Is~~dG~~L~~~l~~--~~~i~~ 120 (143)
T cd02133 99 FISKEDGEALKAALES--SKKLTF 120 (143)
T ss_pred EecHHHHHHHHHHHhC--CCeEEE
Confidence 9999999999999987 344444
No 23
>cd04819 PA_2 PA_2: Protease-associated (PA) domain subgroup 2. A subgroup of PA-domain containing proteins. 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 Arabidopsis ReMembR-H2 protein, iv) EDEM3 (ER-degradation-enhancing mannosidase-like 3 protein), v) various plant vacuola
Probab=99.40 E-value=2.3e-12 Score=114.11 Aligned_cols=101 Identities=19% Similarity=0.194 Sum_probs=75.2
Q ss_pred ceeEEEEecCCCCCCCCC-CCCCCCcEEEEecCCC--CHHHHHHHHHHcCCcEEEEEcCCCcccccccCC-CCCCCcccc
Q 012828 78 ASQNRLVLADPPDCCSKP-KNKLTGEAILVHRGGC--SFTAKANFAEEANASAILIINNKTELFKMVCES-NETDVDIRI 153 (455)
Q Consensus 78 ~~~~~Lv~~~p~daC~~~-~~~l~g~IaLV~RG~C--tF~~Ka~nAq~aGA~avII~n~~~~l~~m~~~~-~~~~~~i~I 153 (455)
..+++++.+..... ++. ..+++|||||++||.| +|.+|+++|+++||+|+|++|+.++.+...... ........|
T Consensus 22 ~~~~~lV~~g~G~~-~d~~~~~v~GkIvlv~~g~~~~~~~~k~~~A~~~GA~avi~~~~~~g~~~~~~~~~~~~~~~~~I 100 (127)
T cd04819 22 EAKGEPVDAGYGLP-KDFDGLDLEGKIAVVKRDDPDVDRKEKYAKAVAAGAAAFVVVNTVPGVLPATGDEGTEDGPPSPI 100 (127)
T ss_pred CeeEEEEEeCCCCH-HHcCCCCCCCeEEEEEcCCCchhHHHHHHHHHHCCCEEEEEEeCCCCcCcccccccccCCCCCCC
Confidence 45788887642100 111 2469999999999999 999999999999999999999876532211111 111234689
Q ss_pred eEEEechhhhHHHHHHHhcCcEEEEE
Q 012828 154 PAIMLPQDAGANLEKLIKNNSVVSVQ 179 (455)
Q Consensus 154 Pvv~Is~~~G~~L~~~L~~G~~V~v~ 179 (455)
|++.|++++|+.|++++++|+++.+.
T Consensus 101 P~v~Is~edg~~L~~~l~~g~~~~~~ 126 (127)
T cd04819 101 PAASVSGEDGLRLARVAERNDTLVLR 126 (127)
T ss_pred CEEEEeHHHHHHHHHHHhcCCceEee
Confidence 99999999999999999999877653
No 24
>cd04815 PA_M28_2 PA_M28_2: Protease-associated (PA) domain, peptidase family M28, subfamily-2. A subfamily of PA-domain containing proteins belonging to the peptidase family M28. Family M28 contains aminopeptidases and carboxypeptidases, and has co-catalytic zinc ions. 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 into which the PA domain is inserted include the following members of the peptidase family M28: i) prostate-specific membrane antigen (PSMA), ii) yeast aminopeptidase Y, and ii) human TfR (transferrin receptor)1 and human TfR2. The proteins listed above belong to other subfamilies; relatively little is known a
Probab=99.31 E-value=4.8e-12 Score=113.22 Aligned_cols=107 Identities=18% Similarity=0.195 Sum_probs=78.2
Q ss_pred ccCCceeEEEEecCCCCCCCCC-CCCCCCcEEEEecCCC------CHHHH-------HHHHHHcCCcEEEEEcCCCcccc
Q 012828 74 KEKDASQNRLVLADPPDCCSKP-KNKLTGEAILVHRGGC------SFTAK-------ANFAEEANASAILIINNKTELFK 139 (455)
Q Consensus 74 ~~~~~~~~~Lv~~~p~daC~~~-~~~l~g~IaLV~RG~C------tF~~K-------a~nAq~aGA~avII~n~~~~l~~ 139 (455)
+..++++++++..+..+.=+.. ..+++|||||++||.| +|..| .++|+++||.|+|++|+.+....
T Consensus 12 t~~~gvta~vv~v~~~~~~~~~~~~~v~GKIvlv~~~~~~~~~~~~~~~k~~~r~~~~~~A~~~GA~avIv~s~~~~~~~ 91 (134)
T cd04815 12 TPPEGITAEVVVVKSFDELKAAPAGAVKGKIVFFNQPMVRTQTGSGYGPTVAYRRRGAVEAAKKGAVAVLIRSIGTDSHR 91 (134)
T ss_pred CCCCCcEEEEEEECCHHHHHhcchhhcCCeEEEecCCccccCchhhcCchhhhhhHHHHHHHhCCCEEEEEEecCcccCC
Confidence 3334678888876532211112 2479999999999999 99999 79999999999999997543211
Q ss_pred cc--cCCCCCCCcccceEEEechhhhHHHHHHHhcCcEEEEEE
Q 012828 140 MV--CESNETDVDIRIPAIMLPQDAGANLEKLIKNNSVVSVQL 180 (455)
Q Consensus 140 m~--~~~~~~~~~i~IPvv~Is~~~G~~L~~~L~~G~~V~v~l 180 (455)
+. +..........||++.|+.++|+.|.+++++|.+|++++
T Consensus 92 ~~~~G~~~~~~~~~~IP~v~is~ed~~~L~r~l~~g~~v~~~l 134 (134)
T cd04815 92 SPHTGMMSYDDGVPKIPAAAISVEDADMLERLAARGKPIRVNL 134 (134)
T ss_pred CCcCCccccCCCCCCCCEEEechhcHHHHHHHHhCCCCeEEeC
Confidence 11 110111224579999999999999999999999998864
No 25
>PF06550 DUF1119: Protein of unknown function (DUF1119); InterPro: IPR010545 This family consists of several hypothetical archaeal proteins of unknown function.
Probab=99.20 E-value=1.7e-10 Score=113.27 Aligned_cols=115 Identities=23% Similarity=0.346 Sum_probs=89.9
Q ss_pred ccchhhhhhhhhhhhhcCccchhHhhHHHHHHHHH--HHHhcccCchhHHHHHHHHHHhhhhheeeeccccccceeEEEe
Q 012828 326 VCPFCIAFSVVWAVYRRISFAWIGQDILGIALMIT--VLQIVRVPNLKVGTVLLSCAFLYDIFWVFVSKWWFHESVMIVV 403 (455)
Q Consensus 326 ~~~~~~~~~~~w~~~~~~~~~W~l~nilg~~~~~~--~i~~i~l~~~k~~~ilL~~lf~YDif~VF~sp~~~~~sVMv~V 403 (455)
....++++.+..+.++ .|+..|+.|+.++.. .+-.+++.-+ .+.+||..+-+||-.-||.| .+|++.
T Consensus 95 a~~~ai~~~~~L~~yp----EWYviD~~Gil~~aG~aaiFGISl~~l-paiiLL~iLAVYDaISVYkT------kHMltL 163 (283)
T PF06550_consen 95 ALILAIALTALLYKYP----EWYVIDIAGILMGAGAAAIFGISLGIL-PAIILLAILAVYDAISVYKT------KHMLTL 163 (283)
T ss_pred HHHHHHHHHHHHHhcc----hHHHHHHHHHHHHhHHHHHHhhhccHH-HHHHHHHHHHHhhhhheecc------hHHHHH
Confidence 3444555444444444 599999999999866 5777777755 88999999999999999955 589999
Q ss_pred ecCCCCCCCCCCEEEEeccccCC--------------CCceeeecccchhhhHHHHHHHHhhcC
Q 012828 404 ARGDRSGEDGIPMLLKIPRLFDP--------------WGGYSVIGFGDIILPGLIVAFSLRSAT 453 (455)
Q Consensus 404 A~~~~~~~~~~P~~l~~P~~~~~--------------~~~~s~LGlGDIviPGl~i~~~~rfD~ 453 (455)
|.|.- ..++|+++++|+..+. .++-.++|+||.++|.++++-+..|..
T Consensus 164 Aegv~--d~klPilfViP~~~~ySf~~~~~~~~~~~~~r~a~fiGlGD~vmPtILVvSa~~f~~ 225 (283)
T PF06550_consen 164 AEGVM--DLKLPILFVIPKKRGYSFLKDGFDNREEKEERDAFFIGLGDAVMPTILVVSAAFFLS 225 (283)
T ss_pred HHHHh--ccCCceEEEEecccCccccccccccccccccccceEeccchhhhHHHHHHHHHHhcc
Confidence 99963 3689999999997532 123468999999999999998888754
No 26
>cd02120 PA_subtilisin_like PA_subtilisin_like: Protease-associated domain containing subtilisin-like proteases. This group contains various PA domain-containing subtilisin-like proteases including melon cucumisin, Arabidopsis thaliana Ara12, a nodule specific serine protease from Alnus glutinosa ag12, members of the tomato P69 family, and tomato LeSBT2. These proteins belong to the peptidase S8 family. Cucumisin from the juice of melon fruits is a thermostable serine peptidase, with a broad substrate specificity for oligopeptides and proteins. A. thaliana Ara12 is a thermostable, extracellular serine protease, found chiefly in silique tissue and stem tissue. Ara12 is stimulated by Ca2+ ions. A. glutinosa ag12 is expressed at high levels in the nodules, and at low levels in the shoot tips; it is implicated in both symbiotic and non-symbiotic processes in plant development. The tomato P69 protease family is comprised of various protein isoforms of approximately 69KDa. These isoforms accu
Probab=99.18 E-value=8.8e-11 Score=102.84 Aligned_cols=82 Identities=23% Similarity=0.397 Sum_probs=68.8
Q ss_pred CCCCCCCCC---CCCCCcEEEEecCCC-CHHHHHHHHHHcCCcEEEEEcCCCcccccccCCCCCCCcccceEEEechhhh
Q 012828 88 PPDCCSKPK---NKLTGEAILVHRGGC-SFTAKANFAEEANASAILIINNKTELFKMVCESNETDVDIRIPAIMLPQDAG 163 (455)
Q Consensus 88 p~daC~~~~---~~l~g~IaLV~RG~C-tF~~Ka~nAq~aGA~avII~n~~~~l~~m~~~~~~~~~~i~IPvv~Is~~~G 163 (455)
....|++.. .+++|||+|++||+| +|.+|+++||++||.|+|++|+.++...+.. ....||++.|++++|
T Consensus 36 ~~~~C~~~~~~~~~v~GkIVlc~~~~~~~~~~k~~~~~~~GA~gvI~~~~~~~~~~~~~------~~~~iP~v~I~~~~g 109 (126)
T cd02120 36 DASLCLPGSLDPSKVKGKIVLCDRGGNTSRVAKGDAVKAAGGAGMILANDPTDGLDVVA------DAHVLPAVHVDYEDG 109 (126)
T ss_pred ccccCCCCCCChhhccccEEEEeCCCCccHHHHHHHHHHcCCcEEEEEecCCCCceecc------cccccceEEECHHHH
Confidence 457898764 469999999999999 9999999999999999999998766433321 135799999999999
Q ss_pred HHHHHHHhcCcE
Q 012828 164 ANLEKLIKNNSV 175 (455)
Q Consensus 164 ~~L~~~L~~G~~ 175 (455)
+.|++++++++.
T Consensus 110 ~~l~~y~~~~~~ 121 (126)
T cd02120 110 TAILSYINSTSN 121 (126)
T ss_pred HHHHHHHHcCCC
Confidence 999999988654
No 27
>cd02128 PA_TfR PA_TfR: Protease-associated domain containing proteins like transferrin receptor (TfR). This group contains various PA domain-containing proteins similar to human TfR1 and TfR2. TfR1 and TfR2 are type II membrane proteins, belonging to the peptidase M28 family. TfR1 is homodimeric, widely expressed, and a key player in the uptake of iron-loaded transferrin (Tf) into cells. The TfR1 homodimer binds two molecules of Tf and this complex is internalized. In addition to its role in iron uptake, TfR1 may participate in cell growth and proliferation. TfR2 also binds Tf but with a significantly lower affinity than does TfR1. TfR2 is expressed chiefly in hepatocytes, hematopoietic cells, and duodenal crypt cells; its expression overlaps with that of hereditary hemochromatosis protein (HFE). TfR2 is involved in iron homeostasis. HFE and TfR2 interact in cells. By one model for serum iron sensing, at low or basal iron concentrations, HFE and TFR1 form a complex at the plasma membra
Probab=98.88 E-value=6.6e-09 Score=97.48 Aligned_cols=92 Identities=25% Similarity=0.263 Sum_probs=67.2
Q ss_pred CceeEEEEecCCCCCCCCC--------CCCCCCcEEEEecCCCCHHHHHHHHHHcCCcEEEEEcCCCccccc--------
Q 012828 77 DASQNRLVLADPPDCCSKP--------KNKLTGEAILVHRGGCSFTAKANFAEEANASAILIINNKTELFKM-------- 140 (455)
Q Consensus 77 ~~~~~~Lv~~~p~daC~~~--------~~~l~g~IaLV~RG~CtF~~Ka~nAq~aGA~avII~n~~~~l~~m-------- 140 (455)
+..+++++.++ .| .+. ..+++|||+|++||+|++.+|+++||++||+|+|+|||..+...+
T Consensus 27 G~v~g~lVyvn--~G-~~~Df~~L~~~gv~v~GkIvLvr~G~~~~~~Kv~~A~~~GA~gvIiy~Dp~d~~~~~~~~~~~g 103 (183)
T cd02128 27 GTVTGKLVYAN--YG-RKKDFEDLQSVGVSVNGSVVLVRAGKISFAEKVANAEKLGAVGVLIYPDPADFPIDPSETALFG 103 (183)
T ss_pred CceEEEEEEcC--CC-CHHHHHHHHhcCCCCCCeEEEEECCCCCHHHHHHHHHHCCCEEEEEecCHHHcCcccCcceeec
Confidence 35688888874 23 222 247899999999999999999999999999999999985321110
Q ss_pred ----ccCC---------CC-------CCCcccceEEEechhhhHHHHHHHh
Q 012828 141 ----VCES---------NE-------TDVDIRIPAIMLPQDAGANLEKLIK 171 (455)
Q Consensus 141 ----~~~~---------~~-------~~~~i~IPvv~Is~~~G~~L~~~L~ 171 (455)
...+ .+ ...-.+||+.=|+.++++.|++.|.
T Consensus 104 ~~~~~~GDplTPG~ps~~~~~~~~~~~~~lP~IPs~PIS~~da~~lL~~l~ 154 (183)
T cd02128 104 HVHLGTGDPYTPGFPSFNHTQFPPSQSSGLPNIPAQTISAAAAAKLLSKMG 154 (183)
T ss_pred ceeccCCCcCCCCCccccccccCcccccCCCCCCEeccCHHHHHHHHHHcC
Confidence 0000 00 0012479999999999999999985
No 28
>COG3389 Uncharacterized protein conserved in archaea [Function unknown]
Probab=98.81 E-value=2.6e-09 Score=101.65 Aligned_cols=111 Identities=27% Similarity=0.439 Sum_probs=84.9
Q ss_pred hhhhhhhhhhhhcCccchhHhhHHHHHHHHHH--HHhcccCchhHHHHHHHHHHhhhhheeeeccccccceeEEEeecCC
Q 012828 330 CIAFSVVWAVYRRISFAWIGQDILGIALMITV--LQIVRVPNLKVGTVLLSCAFLYDIFWVFVSKWWFHESVMIVVARGD 407 (455)
Q Consensus 330 ~~~~~~~w~~~~~~~~~W~l~nilg~~~~~~~--i~~i~l~~~k~~~ilL~~lf~YDif~VF~sp~~~~~sVMv~VA~~~ 407 (455)
..+++.++.++++ ..|+..|..|.+++..+ +-.+++.-+ .+.+||..+-+||-.-|| |+..|++.|+|.
T Consensus 97 ~~aI~~~~lL~~~--peWyVid~ag~~la~Giaai~GIsfgv~-pavvlL~~lavYDaIsVY------kT~HMIslA~~v 167 (277)
T COG3389 97 GLAIGLVYLLYKY--PEWYVIDLAGFFLAVGIAAIFGISFGVL-PAVVLLIALAVYDAISVY------KTRHMISLAEGV 167 (277)
T ss_pred HHHHHHHHhhhhc--cceEEeehHHHHHHhhHHHhheeecchH-HHHHHHHHHHHHHHHHHH------hHHHHHHHHHHH
Confidence 3444555555543 25999999999987654 666777655 778899999999999999 556899999995
Q ss_pred CCCCCCCCEEEEeccccCC-----------CCceeeecccchhhhHHHHHHHHhh
Q 012828 408 RSGEDGIPMLLKIPRLFDP-----------WGGYSVIGFGDIILPGLIVAFSLRS 451 (455)
Q Consensus 408 ~~~~~~~P~~l~~P~~~~~-----------~~~~s~LGlGDIviPGl~i~~~~rf 451 (455)
- ..++||++++|...+. +++--|+|+||+++|-+++.-+.-|
T Consensus 168 ~--d~~lPmlfviP~~l~ysf~~~~fe~r~dgna~miG~GDavmPsIlVvSaa~f 220 (277)
T COG3389 168 M--DLDLPMLFVIPENLAYSFVEDAFENRGDGNAYMIGLGDAVMPSILVVSAAFF 220 (277)
T ss_pred H--hcCCceEEEeecccccceeehhhhcCCCCceEEEeechhhcccceeeehHHh
Confidence 3 2579999999975431 3456799999999999998766555
No 29
>cd04822 PA_M28_1_3 PA_M28_1_3: Protease-associated (PA) domain, peptidase family M28, subfamily-1, subgroup 3. A subgroup of PA-domain containing proteins belonging to the peptidase family M28. Family M28 contains aminopeptidases and carboxypeptidases, and has co-catalytic zinc ions. 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 into which the PA domain is inserted include the following members of the peptidase family M28: i) prostate-specific membrane antigen (PSMA), ii) yeast aminopeptidase Y, and ii) human TfR (transferrin receptor)1 and human TfR2. The proteins listed above belong to other subgroups; relatively litt
Probab=98.40 E-value=2.2e-06 Score=78.28 Aligned_cols=91 Identities=15% Similarity=0.097 Sum_probs=63.7
Q ss_pred ceeEEEEecC---CCCCCCCCC---CCCCCcEEEEecCC------------------CCHHHHHHHHHHcCCcEEEEEcC
Q 012828 78 ASQNRLVLAD---PPDCCSKPK---NKLTGEAILVHRGG------------------CSFTAKANFAEEANASAILIINN 133 (455)
Q Consensus 78 ~~~~~Lv~~~---p~daC~~~~---~~l~g~IaLV~RG~------------------CtF~~Ka~nAq~aGA~avII~n~ 133 (455)
..++++|.+. ..+.|...+ .+++|||||+.||+ |++..|+++|+++||+|+|+||+
T Consensus 19 ~vtg~lVfvGyGi~~~~~~~~Dy~giDVkGKIVlv~~g~P~~~~~~~~~~~~~~~~~~~~~~K~~~A~~~GA~aVIv~~d 98 (151)
T cd04822 19 AVTAPVVFAGYGITAPELGYDDYAGLDVKGKIVLVLRHEPQEDDANSRFNGPGLTRHAGLRYKATNARRHGAAAVIVVNG 98 (151)
T ss_pred CceEeEEEecCCcCccccchhhccCCCCCCeEEEEEcCCcccccccccccccccccccCHHHHHHHHHHCCCeEEEEEeC
Confidence 4578898875 356786554 48999999999985 99999999999999999999998
Q ss_pred CCcccccccCCCCCCCcccceEEEechhhhHHHHHHHh
Q 012828 134 KTELFKMVCESNETDVDIRIPAIMLPQDAGANLEKLIK 171 (455)
Q Consensus 134 ~~~l~~m~~~~~~~~~~i~IPvv~Is~~~G~~L~~~L~ 171 (455)
.++... ..+.....+.. .++.++.+..+.+.+++.
T Consensus 99 ~~~~~~--~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~ 133 (151)
T cd04822 99 PNSHSG--DADRLPRFGGT-APQRVDIAAADPWFTAAE 133 (151)
T ss_pred CcccCc--ccccccccCcc-ceEEechHHHHHHhhhhh
Confidence 654210 00000000111 277788888777776543
No 30
>cd02121 PA_GCPII_like PA_GCPII_like: Protease-associated domain containing protein, glutamate carboxypeptidase II (GCPII)-like. This group contains various PA domain-containing proteins similar to GCPII including, GCPIII (NAALADase2) and NAALADase L. These proteins belong to the peptidase M28 family. GCPII is also known N-acetylated-alpha-linked acidic dipeptidase (NAALDase1), folate hydrolase or prostate-specific membrane antigen (PSMA). GCPII is found in various human tissues including prostate, small intestine, and the central nervous system. In the brain, GCPII is known as NAALDase1, it functions as a NAALDase hydrolyzing the neuropeptide N-acetyl-L-aspartyl-L-glutamate (alpha-NAAG), to release free glutamate. In the small intestine, GCPII releases the terminal glutamate from poly-gamma-glutamated folates. GCPII (PSMA) is a useful cancer marker; its expression is markedly increased in prostate cancer and in tumor-associated neovasculature. GCPIII hydrolyzes alpha-NAAG with a lower
Probab=98.35 E-value=1.5e-06 Score=84.00 Aligned_cols=92 Identities=18% Similarity=0.204 Sum_probs=67.0
Q ss_pred ceeEEEEecCCCCCCCCC--------CCCCCCcEEEEecCCCCHHHHHHHHHHcCCcEEEEEcCCCcc----------c-
Q 012828 78 ASQNRLVLADPPDCCSKP--------KNKLTGEAILVHRGGCSFTAKANFAEEANASAILIINNKTEL----------F- 138 (455)
Q Consensus 78 ~~~~~Lv~~~p~daC~~~--------~~~l~g~IaLV~RG~CtF~~Ka~nAq~aGA~avII~n~~~~l----------~- 138 (455)
..++++|.++ .|... ..+++|||||+++|.|.+.+|+++||++||+|+|+|++..+. +
T Consensus 44 ~v~g~lVyvn---yG~~~D~~~L~~~gvdv~GKIvLvr~G~~~~~~Kv~~A~~~GA~gVIiy~Dp~d~~~~~~~~~~~yP 120 (220)
T cd02121 44 NVTAELVYAN---YGSPEDFEYLEDLGIDVKGKIVIARYGGIFRGLKVKNAQLAGAVGVIIYSDPADDGYITGENGKTYP 120 (220)
T ss_pred CceEEEEEcC---CCcHHHHHHHhhcCCCCCCeEEEEECCCccHHHHHHHHHHcCCEEEEEEeCchhcccccccccccCC
Confidence 3578888875 44332 247999999999999999999999999999999999974221 0
Q ss_pred ----------cc--------ccCC---------C--------CCCCcccceEEEechhhhHHHHHHHhc
Q 012828 139 ----------KM--------VCES---------N--------ETDVDIRIPAIMLPQDAGANLEKLIKN 172 (455)
Q Consensus 139 ----------~m--------~~~~---------~--------~~~~~i~IPvv~Is~~~G~~L~~~L~~ 172 (455)
+. ..+| . +...-.+||+.=|+..+++.|++.|..
T Consensus 121 ~g~~~~~~~vqRgsv~~~~~~~GDplTPG~ps~~~~~r~~~~~~~~lP~IPs~PIS~~da~~lL~~L~g 189 (220)
T cd02121 121 DGPARPPSGVQRGSVLFMSIGPGDPLTPGYPSKPGAERRDKEESKGLPKIPSLPISYRDAQPLLKALGG 189 (220)
T ss_pred CCCCCCCCcceecceeccccCCCCCCCCCCCCCCCCcccCcccccCCCCCCcccCCHHHHHHHHHHcCC
Confidence 00 0000 0 001123799999999999999999964
No 31
>cd04814 PA_M28_1 PA_M28_1: Protease-associated (PA) domain, peptidase family M28, subfamily-1. A subfamily of PA-domain containing proteins belonging to the peptidase family M28. Family M28 contains aminopeptidases and carboxypeptidases, and has co-catalytic zinc ions. 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 into which the PA domain is inserted include the following members of the peptidase family M28: i) prostate-specific membrane antigen (PSMA), ii) yeast aminopeptidase Y, and ii) human TfR (transferrin receptor)1 and human TfR2. The proteins listed above belong to other subfamilies, relatively little is known a
Probab=98.30 E-value=1.9e-06 Score=77.98 Aligned_cols=58 Identities=21% Similarity=0.233 Sum_probs=48.2
Q ss_pred ceeEEEEecC---CCCCCCCCC---CCCCCcEEEEecCCC------------------CHHHHHHHHHHcCCcEEEEEcC
Q 012828 78 ASQNRLVLAD---PPDCCSKPK---NKLTGEAILVHRGGC------------------SFTAKANFAEEANASAILIINN 133 (455)
Q Consensus 78 ~~~~~Lv~~~---p~daC~~~~---~~l~g~IaLV~RG~C------------------tF~~Ka~nAq~aGA~avII~n~ 133 (455)
...+++|.+. ...+|...+ .+++|||||+.||+| ++..|+++|+++||+|+|++|+
T Consensus 19 ~~~aelVfvGyGi~a~~~~~dDYag~DVkGKIVlv~~g~P~~~~~~~~~~~~~~~~~~~~~~K~~~A~~~GA~gvIii~~ 98 (142)
T cd04814 19 IKDAPLVFVGYGIKAPELSWDDYAGLDVKGKVVVVLRNDPQGEPGAGDFGGKAMTYYGRWTYKYEEAARHGAAGVLIVHE 98 (142)
T ss_pred ccceeeEEecCCcCCCCCChhhcCCCCCCCcEEEEEcCCCCcccccccccccccccccCHHHHHHHHHHCCCcEEEEEeC
Confidence 3567888764 345676544 489999999999999 6999999999999999999998
Q ss_pred CC
Q 012828 134 KT 135 (455)
Q Consensus 134 ~~ 135 (455)
.+
T Consensus 99 ~~ 100 (142)
T cd04814 99 LA 100 (142)
T ss_pred CC
Confidence 65
No 32
>cd04820 PA_M28_1_1 PA_M28_1_1: Protease-associated (PA) domain, peptidase family M28, subfamily-1, subgroup 1. A subgroup of PA-domain containing proteins belonging to the peptidase family M28. Family M28 contains aminopeptidases and carboxypeptidases, and has co-catalytic zinc ions. 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 into which the PA domain is inserted include the following members of the peptidase family M28: i) prostate-specific membrane antigen (PSMA), ii) yeast aminopeptidase Y, and ii) human TfR (transferrin receptor)1 and human TfR2. The proteins listed above belong to other subgroups; relatively litt
Probab=98.25 E-value=2.8e-06 Score=76.46 Aligned_cols=59 Identities=19% Similarity=0.296 Sum_probs=49.0
Q ss_pred ceeEEEEecC---CCCCCCCCC---CCCCCcEEEEecCCCC------------HHHHHHHHHHcCCcEEEEEcCCCc
Q 012828 78 ASQNRLVLAD---PPDCCSKPK---NKLTGEAILVHRGGCS------------FTAKANFAEEANASAILIINNKTE 136 (455)
Q Consensus 78 ~~~~~Lv~~~---p~daC~~~~---~~l~g~IaLV~RG~Ct------------F~~Ka~nAq~aGA~avII~n~~~~ 136 (455)
..++++|.+. +.++|...+ .+++|||||++||+|. +.+|.++|+++||+|+|+||+...
T Consensus 21 ~v~gelVfvGyG~~~~~~~~~Dy~~iDVkGKIVlv~~g~p~~~~~~~~~~~~~~~~K~~~A~~~GA~aVIi~~d~~~ 97 (137)
T cd04820 21 SVEAPLVFVGYGLVAPELGHDDYAGLDVKGKIVVVLSGGPAGIPSEEGAHAHSSNEKARYAAKAGAIGMITLTTPRS 97 (137)
T ss_pred CceEeEEEecCCcCccCcCHhhccCCCCCCeEEEEEcCCCCccccccccccccHHHHHHHHHHCCCeEEEEEeCCcc
Confidence 4678888774 356776544 5899999999999995 889999999999999999998653
No 33
>cd02131 PA_hNAALADL2_like PA_hNAALADL2_like: Protease-associated domain containing proteins like human N-acetylated alpha-linked acidic dipeptidase-like 2 protein (hNAALADL2). This group contains various PA domain-containing proteins similar to hNAALADL2. The function of hNAALADL2 is unknown. This gene has been mapped to a chromosomal region associated with Cornelia de Lange syndrome. The significance of the PA domain to hNAALADL2 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=97.97 E-value=1.5e-05 Score=72.55 Aligned_cols=74 Identities=14% Similarity=0.077 Sum_probs=55.5
Q ss_pred CCCCCcEEEEecCCCCHHHHHHHHHHcCCcEEEEEcCCCccc---------c--ccc--CC---------C-----CCCC
Q 012828 97 NKLTGEAILVHRGGCSFTAKANFAEEANASAILIINNKTELF---------K--MVC--ES---------N-----ETDV 149 (455)
Q Consensus 97 ~~l~g~IaLV~RG~CtF~~Ka~nAq~aGA~avII~n~~~~l~---------~--m~~--~~---------~-----~~~~ 149 (455)
-+++|||+|++.|......|++|||++||.|+|||.|..+.- . +.+ +| + +...
T Consensus 37 V~v~GkIvi~RyG~~~RG~Kv~~A~~~GA~GviIYsDP~d~~~~~~~~~~v~~v~~~~~GDP~TPG~PS~~~~~R~~~~~ 116 (153)
T cd02131 37 MNVTNQIALLKLGQAPLLYKLSLLEEAGFGGVLLYVDPCDLPKTRHTWHQAFMVSLNPGGDPSTPGYPSADQSCRQCRGN 116 (153)
T ss_pred CCccceEEEEeccCcchHHHHHHHHHCCCeEEEEecChhhccCcCCCccceEEEecCCCCCCCCCCCccccCcccCCcCC
Confidence 479999999999999999999999999999999999853210 0 000 10 0 0111
Q ss_pred cccceEEEechhhhHHHHHHH
Q 012828 150 DIRIPAIMLPQDAGANLEKLI 170 (455)
Q Consensus 150 ~i~IPvv~Is~~~G~~L~~~L 170 (455)
-.+||+.=|+..+++.|+++-
T Consensus 117 lP~IPs~PIS~~dA~~lL~~~ 137 (153)
T cd02131 117 LTSLLVQPISAYLAKKLLSAP 137 (153)
T ss_pred CCCCcccccCHHHHHHHHhCC
Confidence 247999999999999988764
No 34
>cd04821 PA_M28_1_2 PA_M28_1_2: Protease-associated (PA) domain, peptidase family M28, subfamily-1, subgroup 2. A subgroup of PA-domain containing proteins belonging to the peptidase family M28. Family M28 contains aminopeptidases and carboxypeptidases, and has co-catalytic zinc ions. 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 into which the PA domain is inserted include the following members of the peptidase family M28: i) prostate-specific membrane antigen (PSMA), ii) yeast aminopeptidase Y, and ii) human TfR (transferrin receptor)1 and human TfR2. The proteins listed above belong to other subgroups; relatively litt
Probab=95.62 E-value=0.022 Score=52.62 Aligned_cols=57 Identities=21% Similarity=0.279 Sum_probs=40.8
Q ss_pred eeEEEEecC-----CCCCCCCCC-CCCCCcEEEEecCCCCH-------------------HHHHHHHHHcCCcEEEEEcC
Q 012828 79 SQNRLVLAD-----PPDCCSKPK-NKLTGEAILVHRGGCSF-------------------TAKANFAEEANASAILIINN 133 (455)
Q Consensus 79 ~~~~Lv~~~-----p~daC~~~~-~~l~g~IaLV~RG~CtF-------------------~~Ka~nAq~aGA~avII~n~ 133 (455)
..++||++. |..+=++.. .+++||||++.+|+=.+ ..|.+.|+++||+|+|++++
T Consensus 22 ~~~elVFvGyGi~ape~~~dDy~g~DVkGKiVvvl~~~P~~~~~~~~~f~~~~~~~~~~~~~K~~~A~~~GA~gvi~v~~ 101 (157)
T cd04821 22 KDSPLVFVGYGIVAPEYGWDDYKGLDVKGKTVVILVNDPGFATPDSGLFNGKAMTYYGRWTYKYEEAARQGAAGALIVHE 101 (157)
T ss_pred ccCCEEEeccCccCcccCcccccCCCcCCcEEEEEcCCCCcccccccccCcccccccccHHHHHHHHHHCCCeEEEEEeC
Confidence 345677652 222333333 58999999999887543 35999999999999999987
Q ss_pred CC
Q 012828 134 KT 135 (455)
Q Consensus 134 ~~ 135 (455)
..
T Consensus 102 ~~ 103 (157)
T cd04821 102 TE 103 (157)
T ss_pred CC
Confidence 53
No 35
>KOG2195 consensus Transferrin receptor and related proteins containing the protease-associated (PA) domain [Posttranslational modification, protein turnover, chaperones; Inorganic ion transport and metabolism; General function prediction only]
Probab=81.57 E-value=2.2 Score=48.21 Aligned_cols=71 Identities=20% Similarity=0.179 Sum_probs=48.7
Q ss_pred eeecCCCCccccccCCceeEEEEecCCCCCC-----CCCCCCCCCcEEEEecCCCCHHHHHHHHHHcCCcEEEEEcCCC
Q 012828 62 GVGARFGRTLEAKEKDASQNRLVLADPPDCC-----SKPKNKLTGEAILVHRGGCSFTAKANFAEEANASAILIINNKT 135 (455)
Q Consensus 62 ~~~A~FG~~lp~~~~~~~~~~Lv~~~p~daC-----~~~~~~l~g~IaLV~RG~CtF~~Ka~nAq~aGA~avII~n~~~ 135 (455)
....+|+...+.. ..++.+|..+-...= ++..-+++|+|+|++-|.-.+.+|++||+++||.|+++|.+..
T Consensus 144 ~~~~~~~~~s~~g---~~~~~~Vy~N~~~~~d~~~l~~~~i~~~g~i~l~r~~~i~~g~~~~na~~~~a~gviiy~d~~ 219 (702)
T KOG2195|consen 144 DIVEPFRAYSPSG---SVTGELVYANYGRIEDFYKLEDLGINLSGKIVLARVGKIYRGKKVKNAEAAGADGVIIYTDPY 219 (702)
T ss_pred cccCchhccCcCC---CccceEEEEecCchhhhhHhhcCcccccCceEEEEccccchhhhHhhHHHhhcCcEEEeeccc
Confidence 3444455443332 345566665421111 1223468899999999999999999999999999999998753
No 36
>COG1786 Swiveling domain associated with predicted aconitase [Energy production and conversion]
Probab=46.70 E-value=63 Score=28.96 Aligned_cols=73 Identities=16% Similarity=0.177 Sum_probs=48.9
Q ss_pred CCCCCcEEEEe--cCCCCHHHHHHHHHHcC-CcEEEEEcCCCcccccccCCCCCCCcccceEEEechhhhHHHHHHHhcC
Q 012828 97 NKLTGEAILVH--RGGCSFTAKANFAEEAN-ASAILIINNKTELFKMVCESNETDVDIRIPAIMLPQDAGANLEKLIKNN 173 (455)
Q Consensus 97 ~~l~g~IaLV~--RG~CtF~~Ka~nAq~aG-A~avII~n~~~~l~~m~~~~~~~~~~i~IPvv~Is~~~G~~L~~~L~~G 173 (455)
.+++|||.+.. ||.|.=.-=...+.+.| |-+.|+....|......+ ---.||.+-... .+.+.++.|
T Consensus 47 ~~l~Gkilv~P~grGStvGSyVl~~l~~~G~AP~aIv~~e~EpIla~Ga------i~a~iPlv~~~~----e~~~~l~~g 116 (131)
T COG1786 47 ESLTGKILVFPGGRGSTVGSYVLYELAKNGRAPAAIVNEEAEPILAVGA------ILAGIPLVDGVD----EFFEELKTG 116 (131)
T ss_pred ccccceEEEeeCCCCccccHHHHHHHHHcCCCchhhhhcCCcceeeehh------hhcCCceEeccH----HHHHHhccC
Confidence 47999999997 78998888888888888 555555444333333222 112688776654 366677778
Q ss_pred cEEEEE
Q 012828 174 SVVSVQ 179 (455)
Q Consensus 174 ~~V~v~ 179 (455)
.+|++.
T Consensus 117 ~~v~v~ 122 (131)
T COG1786 117 DRVRVN 122 (131)
T ss_pred CEEEEc
Confidence 777665
No 37
>COG4882 Predicted aminopeptidase, Iap family [General function prediction only]
Probab=46.16 E-value=1.1e+02 Score=32.48 Aligned_cols=113 Identities=17% Similarity=0.156 Sum_probs=70.4
Q ss_pred CCCCcEEEEecCCCCHHHHHH--HHHHcCCcEEEEEcCCCcccccc-cCCCC---CCCcccceEEEechhhhHHHHHHHh
Q 012828 98 KLTGEAILVHRGGCSFTAKAN--FAEEANASAILIINNKTELFKMV-CESNE---TDVDIRIPAIMLPQDAGANLEKLIK 171 (455)
Q Consensus 98 ~l~g~IaLV~RG~CtF~~Ka~--nAq~aGA~avII~n~~~~l~~m~-~~~~~---~~~~i~IPvv~Is~~~G~~L~~~L~ 171 (455)
+..|++++-+|-+--...|.. .|.++||.|+|+-.+++.- |. +++.. ......||+..++..++...+.
T Consensus 87 D~~Gr~~Va~~pq~vdd~k~~~i~Aae~ga~a~~f~~~~~rr--iV~~Gd~gy~~~s~PtPIPva~v~en~~~y~~~--- 161 (486)
T COG4882 87 DAGGRVVVARAPQVVDDLKAAAILAAEAGAEALLFESRDPRR--IVTGGDWGYSVSSSPTPIPVAVVPENYSRYAEE--- 161 (486)
T ss_pred CCCCeEEeeeccccHHHHHHHHHHHHHcCCeEEEEecCCcee--EEecccccccCCCCCCCcceEEeccCcchhhcc---
Confidence 677999998887666666654 5778999999998776532 21 11111 1234579999999999887753
Q ss_pred cCcEEEEEEecCCCccchhhHHHHHHHHHHHHHHHHhhhhhhhhH
Q 012828 172 NNSVVSVQLYSPRRPVVDVAEVFLWLMAVGTILCASYWSAWTARE 216 (455)
Q Consensus 172 ~G~~V~v~l~~p~~p~vD~s~~~L~l~Av~tI~~gs~~s~~~~~~ 216 (455)
.+.+++..+.-.+...|++.+..=--=..++.++++|-+|-..+
T Consensus 162 -~~rvrl~vD~~~~~ty~y~~Ia~~~~en~vv~i~AH~DHW~~G~ 205 (486)
T COG4882 162 -AGRVRLWVDACVERTYDYNVIAVDGGENGVVLIGAHLDHWYTGF 205 (486)
T ss_pred -ceeEEEEEecccceeEEEEEEEecCCCCCceEEeechhhhhhcc
Confidence 35677777765554455543211000113566777777775443
No 38
>KOG2927 consensus Membrane component of ER protein translocation complex [Intracellular trafficking, secretion, and vesicular transport]
Probab=38.70 E-value=18 Score=37.58 Aligned_cols=27 Identities=15% Similarity=0.258 Sum_probs=20.5
Q ss_pred hhhhhhhhhhhhhcCccchhHhhHHHH
Q 012828 329 FCIAFSVVWAVYRRISFAWIGQDILGI 355 (455)
Q Consensus 329 ~~~~~~~~w~~~~~~~~~W~l~nilg~ 355 (455)
=+++|+++|++++-.+.-|++-|++.=
T Consensus 239 RlILF~I~~il~~g~~g~W~FPNL~eD 265 (372)
T KOG2927|consen 239 RLILFGITWILTGGKHGFWLFPNLTED 265 (372)
T ss_pred HHHHHHHHHHHhCCCCceEeccchhhh
Confidence 356788899999844457999998863
No 39
>PF01736 Polyoma_agno: Polyomavirus agnoprotein; InterPro: IPR002643 This family consists of the DNA-binding protein or agnoprotein from various polyomaviruses. This protein is highly basic and can bind single stranded and double stranded DNA []. Mutations in the agnoprotein produce smaller viral plaques, hence its function is not essential for growth in tissue culture cells but something has slowed in the normal replication cycle []. There is also evidence suggesting that the agnogene and agnoprotein act as regulators of structural protein synthesis [].; GO: 0003677 DNA binding
Probab=35.37 E-value=38 Score=25.83 Aligned_cols=32 Identities=34% Similarity=0.393 Sum_probs=25.2
Q ss_pred hhhHHHHHHHHHHhccccccCCCCCCcCCCCC
Q 012828 3 TKRVINIFIFILVSSPCLASAGDIVHQDNNAP 34 (455)
Q Consensus 3 ~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~ 34 (455)
.||.-.+|||||=+....|.+.|.++.-...+
T Consensus 22 KkrAQRifiFiLElLL~FC~GedsvdGK~k~~ 53 (62)
T PF01736_consen 22 KKRAQRIFIFILELLLEFCRGEDSVDGKNKKT 53 (62)
T ss_pred hHHHHHHHHHHHHHHHHHhcCCccccccccCc
Confidence 36788899999988878888888887655444
No 40
>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=29.24 E-value=21 Score=36.50 Aligned_cols=32 Identities=6% Similarity=0.005 Sum_probs=28.5
Q ss_pred EEEecCCCCHHHHHHHHHHcCCcEEEEEcCCC
Q 012828 104 ILVHRGGCSFTAKANFAEEANASAILIINNKT 135 (455)
Q Consensus 104 aLV~RG~CtF~~Ka~nAq~aGA~avII~n~~~ 135 (455)
.+++||+|+..+|.+.+|+-|-+|+|.-++..
T Consensus 150 ~~~~rgn~t~~d~~rer~r~~fkgvi~Gs~r~ 181 (374)
T COG5540 150 RCNRRGNETEEDPTRERRRTRFKGVIRGSERN 181 (374)
T ss_pred HHHHccCccccCccccchhccccceeeccccC
Confidence 35679999999999999999999999988754
No 41
>cd04468 S1_eIF5A S1_eIF5A: Eukaryotic translation Initiation Factor 5A (eIF5A), S1-like RNA-binding domain. eIF5A is an evolutionarily conserved protein found in eukaryotes. eIF5A is the only protein known to have the unusual amino acid hypusine. Hypusine is essential for eIF5A function and is a post-translationally modified lysine. eIF5A interacts with components of the 80S ribosome and translation elongation factors 2 (eEF2) in a hypusine-dependent manner. This C-terminal S1 domain resembles the oligonucleotides-binding fold (OB fold) which binds RNA. Moreover, eIF5A prefers binding to the actively translating ribosome. This evidence suggests that eIF5A plays a role in translation elongation instead of translation initiation as previously proposed.
Probab=28.50 E-value=1.4e+02 Score=23.94 Aligned_cols=34 Identities=24% Similarity=0.423 Sum_probs=27.6
Q ss_pred CCCCCcccceEEEechhhhHHHHHHHhcCcEEEEEEec
Q 012828 145 NETDVDIRIPAIMLPQDAGANLEKLIKNNSVVSVQLYS 182 (455)
Q Consensus 145 ~~~~~~i~IPvv~Is~~~G~~L~~~L~~G~~V~v~l~~ 182 (455)
.++..++.+| ..+-|+.+++...+|+.+.|+.-+
T Consensus 23 G~~k~DlklP----~~elg~~I~~~f~~gk~~~vtV~s 56 (69)
T cd04468 23 GETREDLKLP----EGELGKEIREKFDEGKDVLVTVLS 56 (69)
T ss_pred CCcccCCcCC----cHHHHHHHHHHHhCCCcEEEEEEc
Confidence 3456778888 468899999999999999988754
No 42
>PF06305 DUF1049: Protein of unknown function (DUF1049); InterPro: IPR010445 This entry consists of several hypothetical bacterial proteins of unknown function.
Probab=26.38 E-value=2.3e+02 Score=21.58 Aligned_cols=54 Identities=20% Similarity=0.145 Sum_probs=24.7
Q ss_pred hcCcEEEEEEecCCCccchhhHH--HHHHHHHHHHHHHHhhhhhhhhHHHHHHhhhh
Q 012828 171 KNNSVVSVQLYSPRRPVVDVAEV--FLWLMAVGTILCASYWSAWTARETAIELDKLL 225 (455)
Q Consensus 171 ~~G~~V~v~l~~p~~p~vD~s~~--~L~l~Av~tI~~gs~~s~~~~~~~~~~~~~~~ 225 (455)
++...|++.+..-..+ .-.+.+ ..+++++...++.+++..++.+.+.++..+++
T Consensus 2 qN~~~V~v~~~~~~~~-~pl~l~il~~f~~G~llg~l~~~~~~~~~r~~~~~~~k~l 57 (68)
T PF06305_consen 2 QNTQPVTVNFLFGQFP-LPLGLLILIAFLLGALLGWLLSLPSRLRLRRRIRRLRKEL 57 (68)
T ss_pred CCCceEEEEEEeeecc-chHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3456788887643333 222222 23344444444455555444444443333333
No 43
>PF06624 RAMP4: Ribosome associated membrane protein RAMP4; InterPro: IPR010580 This entry contains Serp1/Ramp4, which has been shown to interacts with target proteins during their translocation into the lumen of the endoplasmic reticulum. It has also been shown to protect unfolded target proteins against degradation during ER stress. It may facilitate glycosylation of target proteins after termination of ER stress and may modulate the use of N-glycosylation sites on target proteins [, ].
Probab=25.11 E-value=43 Score=26.32 Aligned_cols=13 Identities=31% Similarity=0.422 Sum_probs=6.9
Q ss_pred chhhhhHHHHHHH
Q 012828 250 SAVSFVVIASCFL 262 (455)
Q Consensus 250 ~a~~fpv~as~~L 262 (455)
.-++|+|+||..+
T Consensus 43 ~l~iFVV~Gs~if 55 (63)
T PF06624_consen 43 GLFIFVVCGSAIF 55 (63)
T ss_pred hhhheeeEcHHHH
Confidence 4455566666544
No 44
>PRK03955 hypothetical protein; Reviewed
Probab=24.68 E-value=2.5e+02 Score=25.25 Aligned_cols=71 Identities=13% Similarity=0.093 Sum_probs=45.2
Q ss_pred CCCCCcEEEEe--cCCCCHHHHHHHHHHcC-CcEEEEEcCCCcccccccCCCCCCCcccceEEEechhhhHHHHHHHhcC
Q 012828 97 NKLTGEAILVH--RGGCSFTAKANFAEEAN-ASAILIINNKTELFKMVCESNETDVDIRIPAIMLPQDAGANLEKLIKNN 173 (455)
Q Consensus 97 ~~l~g~IaLV~--RG~CtF~~Ka~nAq~aG-A~avII~n~~~~l~~m~~~~~~~~~~i~IPvv~Is~~~G~~L~~~L~~G 173 (455)
.+++|||.+.. ||.|.=.-=...+...| |-+.||..+.+......+- --.||++.-.. .+.++.|
T Consensus 47 ~si~gkIlv~p~~kGSt~gs~vl~~l~~~g~aP~aiI~~~~~~ils~GaI------vAgIP~V~~~~------~~~l~~G 114 (131)
T PRK03955 47 ESIKGKILVFPHGKGSTVGSYVIYQLAKNGTAPKAIINLEAEPIVATGAI------ISGIPLVDKVD------ISKLKDG 114 (131)
T ss_pred CccCCEEEEEeCCCcccchHHHHHHHHHcCCCceEEEEecCCceeEeeee------ecCCceEcccc------ceecCCC
Confidence 46899999987 88998666666555554 4455666554444332221 12689886222 5578889
Q ss_pred cEEEEE
Q 012828 174 SVVSVQ 179 (455)
Q Consensus 174 ~~V~v~ 179 (455)
..|++.
T Consensus 115 ~~V~Vd 120 (131)
T PRK03955 115 DRVVVD 120 (131)
T ss_pred CEEEEe
Confidence 988876
No 45
>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=24.43 E-value=2.1e+02 Score=30.89 Aligned_cols=9 Identities=44% Similarity=0.789 Sum_probs=5.6
Q ss_pred ecccchhhh
Q 012828 433 IGFGDIILP 441 (455)
Q Consensus 433 LGlGDIviP 441 (455)
=|+|+.+-|
T Consensus 414 ~gl~n~isP 422 (465)
T PF03606_consen 414 DGLGNSISP 422 (465)
T ss_pred HHHHhhccc
Confidence 356666666
No 46
>PF06541 DUF1113: Protein of unknown function (DUF1113); InterPro: IPR010540 This family consists of several bacterial proteins of unknown function.
Probab=23.96 E-value=4.8e+02 Score=23.78 Aligned_cols=26 Identities=19% Similarity=0.252 Sum_probs=19.4
Q ss_pred HHhcccCchhHHHHHHHHHHhhhhhe
Q 012828 362 LQIVRVPNLKVGTVLLSCAFLYDIFW 387 (455)
Q Consensus 362 i~~i~l~~~k~~~ilL~~lf~YDif~ 387 (455)
++.+.....+..++++..+++.|...
T Consensus 129 ~~~i~~~~~~~~~~~l~~~~~~D~~~ 154 (157)
T PF06541_consen 129 LSKIPPIIRNILALVLLALFLIDFVF 154 (157)
T ss_pred HHhCCHHHHHHHHHHHHHHHHHHHHH
Confidence 45555566678888899999999753
No 47
>PRK13755 putative mercury transport protein MerC; Provisional
Probab=22.83 E-value=5.6e+02 Score=23.01 Aligned_cols=24 Identities=25% Similarity=0.098 Sum_probs=15.2
Q ss_pred cchhhhhHHHHHHH-HHHHHHhHHHH
Q 012828 249 ASAVSFVVIASCFL-VMLYKLMSFWF 273 (455)
Q Consensus 249 ~~a~~fpv~as~~L-l~ly~~~~~~~ 273 (455)
.=|..||.+||.-- ++|=| +++|-
T Consensus 22 gCA~CFPAlASLGAAIGLGF-Lsq~E 46 (139)
T PRK13755 22 GCAACFPALASLGAAIGLGF-LSQYE 46 (139)
T ss_pred hHHHHHHHHHHHHHHHhhhH-HHHHH
Confidence 35789999999654 34444 34553
No 48
>PHA02621 agnoprotein; Provisional
Probab=20.88 E-value=92 Score=24.14 Aligned_cols=29 Identities=34% Similarity=0.391 Sum_probs=22.9
Q ss_pred hhhHHHHHHHHHHhccccccCCCCCCcCC
Q 012828 3 TKRVINIFIFILVSSPCLASAGDIVHQDN 31 (455)
Q Consensus 3 ~~~~~~~~~~~~~~~~~~~~~~~~~~~d~ 31 (455)
.||.-.+|||+|=+....|.+.|.++.-.
T Consensus 22 kkraqri~if~le~ll~fc~gedsvdgk~ 50 (68)
T PHA02621 22 KKRAQRIFIFILELLLDFCRGEDSVDGKK 50 (68)
T ss_pred hHHHHHHHHHHHHHHHHHhcCcccccccc
Confidence 47888999999988877888888776533
No 49
>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=20.71 E-value=33 Score=36.47 Aligned_cols=25 Identities=28% Similarity=0.468 Sum_probs=0.0
Q ss_pred ccCchhHHHHHHHHHHhhhhheeeec
Q 012828 366 RVPNLKVGTVLLSCAFLYDIFWVFVS 391 (455)
Q Consensus 366 ~l~~~k~~~ilL~~lf~YDif~VF~s 391 (455)
.+|.- +.-++|+++-+||+|=|-..
T Consensus 171 ~lPeW-TtW~lL~~iaiyDl~AVL~P 195 (403)
T PF01080_consen 171 YLPEW-TTWFLLVAIAIYDLFAVLCP 195 (403)
T ss_dssp --------------------------
T ss_pred cCCch-HHHHHHHHHHHHHHeeEeCC
Confidence 48884 78889999999999999743
No 50
>PRK13718 conjugal transfer protein TrbE; Provisional
Probab=20.62 E-value=98 Score=25.44 Aligned_cols=22 Identities=27% Similarity=0.480 Sum_probs=17.0
Q ss_pred cchhhhhHHHHHHHHHHHHHhH
Q 012828 249 ASAVSFVVIASCFLVMLYKLMS 270 (455)
Q Consensus 249 ~~a~~fpv~as~~Ll~ly~~~~ 270 (455)
..|..+..++.++++.+|+|++
T Consensus 44 l~a~~iI~~~gv~~~~ly~ffs 65 (84)
T PRK13718 44 LAAVFVILYSGVLLFILYFFFS 65 (84)
T ss_pred HHHHHHHHHHhHHHHHHHHHHH
Confidence 3667778888888888888874
Done!