Query 010921
Match_columns 497
No_of_seqs 343 out of 1503
Neff 6.1
Searched_HMMs 46136
Date Fri Mar 29 06:04:42 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/010921.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/010921hhsearch_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 4E-117 1E-121 910.3 31.3 472 19-494 14-501 (541)
2 KOG2443 Uncharacterized conser 100.0 2.5E-55 5.3E-60 438.3 19.2 273 187-493 22-323 (362)
3 PF04258 Peptidase_A22B: Signa 100.0 1.1E-57 2.4E-62 463.2 -0.0 250 240-494 2-283 (298)
4 smart00730 PSN Presenilin, sig 100.0 8.8E-44 1.9E-48 352.4 16.7 225 244-493 3-241 (249)
5 cd02132 PA_GO-like PA_GO-like: 100.0 1.5E-29 3.1E-34 230.5 16.5 139 42-180 1-139 (139)
6 cd02129 PA_hSPPL_like PA_hSPPL 99.9 2.6E-23 5.6E-28 184.4 12.1 117 43-180 1-120 (120)
7 cd02126 PA_EDEM3_like PA_EDEM3 99.9 1.7E-22 3.7E-27 181.1 12.7 116 62-180 2-126 (126)
8 cd02127 PA_hPAP21_like PA_hPAP 99.9 1.9E-21 4.1E-26 172.6 13.1 110 66-180 1-116 (118)
9 cd02125 PA_VSR PA_VSR: Proteas 99.9 1.9E-21 4.2E-26 174.6 13.3 112 66-180 1-127 (127)
10 cd02123 PA_C_RZF_like PA_C-RZF 99.9 6.2E-21 1.3E-25 176.5 14.9 116 56-175 20-142 (153)
11 cd02122 PA_GRAIL_like PA _GRAI 99.8 1.9E-20 4.1E-25 170.4 14.5 110 63-180 18-138 (138)
12 cd04818 PA_subtilisin_1 PA_sub 99.8 2.5E-19 5.5E-24 158.2 12.9 114 63-180 1-118 (118)
13 cd04813 PA_1 PA_1: Protease-as 99.8 2.2E-19 4.7E-24 159.1 11.0 103 62-171 5-110 (117)
14 cd04816 PA_SaNapH_like PA_SaNa 99.8 2.7E-18 5.9E-23 152.7 13.6 113 63-180 4-122 (122)
15 cd02130 PA_ScAPY_like PA_ScAPY 99.7 1.9E-17 4E-22 147.3 13.5 113 58-180 7-122 (122)
16 cd02124 PA_PoS1_like PA_PoS1_l 99.7 1.8E-16 3.9E-21 142.8 11.6 89 86-180 38-129 (129)
17 cd04817 PA_VapT_like PA_VapT_l 99.7 3.8E-16 8.3E-21 142.2 13.4 95 78-176 35-137 (139)
18 KOG4628 Predicted E3 ubiquitin 99.6 4.5E-15 9.8E-20 152.1 15.1 109 59-174 35-151 (348)
19 KOG3920 Uncharacterized conser 99.6 1.1E-15 2.5E-20 138.7 5.7 140 37-183 26-174 (193)
20 PF02225 PA: PA domain; Inter 99.5 1.6E-14 3.5E-19 122.8 6.3 91 78-170 5-101 (101)
21 cd00538 PA PA: Protease-associ 99.5 5.8E-14 1.3E-18 123.7 10.0 93 87-180 28-126 (126)
22 cd02133 PA_C5a_like PA_C5a_lik 99.4 2.8E-12 6.1E-17 117.2 13.2 95 78-180 25-120 (143)
23 cd04819 PA_2 PA_2: Protease-as 99.4 3.7E-12 8E-17 114.4 12.0 114 59-179 9-126 (127)
24 PF06550 DUF1119: Protein of u 99.3 2.3E-11 4.9E-16 121.0 14.5 116 327-455 96-227 (283)
25 cd04815 PA_M28_2 PA_M28_2: Pro 99.3 6.7E-12 1.5E-16 113.8 7.9 104 77-180 15-134 (134)
26 cd02120 PA_subtilisin_like PA_ 99.2 1.2E-10 2.6E-15 103.3 9.3 82 88-175 36-121 (126)
27 COG3389 Uncharacterized protei 99.0 6.9E-10 1.5E-14 106.9 5.3 131 331-477 98-243 (277)
28 cd02128 PA_TfR PA_TfR: Proteas 98.9 8.1E-09 1.8E-13 98.2 8.7 91 78-171 28-154 (183)
29 cd04822 PA_M28_1_3 PA_M28_1_3: 98.3 3.9E-06 8.4E-11 77.8 10.6 90 78-170 19-132 (151)
30 cd02121 PA_GCPII_like PA_GCPII 98.3 1.8E-06 4E-11 84.6 8.6 91 79-172 45-189 (220)
31 cd04814 PA_M28_1 PA_M28_1: Pro 98.2 3.3E-06 7.2E-11 77.5 7.7 88 79-168 20-133 (142)
32 cd04820 PA_M28_1_1 PA_M28_1_1: 98.2 4.4E-06 9.6E-11 76.2 7.6 58 78-135 21-96 (137)
33 cd02131 PA_hNAALADL2_like PA_h 97.9 1.7E-05 3.8E-10 73.1 6.2 92 78-170 14-137 (153)
34 cd04821 PA_M28_1_2 PA_M28_1_2: 94.6 0.043 9.2E-07 51.4 4.4 57 79-135 22-103 (157)
35 KOG2195 Transferrin receptor a 78.1 3.4 7.3E-05 47.5 5.5 73 60-135 142-219 (702)
36 PF01080 Presenilin: Presenili 50.5 28 0.0006 37.6 5.4 54 431-492 326-382 (403)
37 COG4882 Predicted aminopeptida 48.1 97 0.0021 33.2 8.7 113 98-215 87-204 (486)
38 COG1786 Swiveling domain assoc 43.4 71 0.0015 29.1 6.0 73 97-179 47-122 (131)
39 KOG2927 Membrane component of 40.5 14 0.00031 38.8 1.4 27 329-355 239-265 (372)
40 PRK11588 hypothetical protein; 36.4 1.9E+02 0.0042 32.2 9.3 43 244-286 280-323 (506)
41 PF06305 DUF1049: Protein of u 35.1 1.4E+02 0.003 23.2 6.0 55 171-226 2-58 (68)
42 KOG2736 Presenilin [Signal tra 33.2 20 0.00043 38.1 1.0 54 433-493 322-377 (406)
43 PF03606 DcuC: C4-dicarboxylat 32.8 1.2E+02 0.0026 33.3 7.0 16 433-448 414-431 (465)
44 PF07787 DUF1625: Protein of u 24.8 1.4E+02 0.0031 29.7 5.5 12 330-341 236-247 (248)
45 PF06541 DUF1113: Protein of u 22.3 5.1E+02 0.011 24.0 8.3 26 362-387 129-154 (157)
46 PRK03955 hypothetical protein; 21.6 3.1E+02 0.0066 25.1 6.4 71 97-179 47-120 (131)
47 cd04468 S1_eIF5A S1_eIF5A: Euk 21.0 2.3E+02 0.0049 23.1 4.9 34 145-182 23-56 (69)
No 1
>KOG2442 consensus Uncharacterized conserved protein, contains PA domain [General function prediction only]
Probab=100.00 E-value=4.4e-117 Score=910.29 Aligned_cols=472 Identities=50% Similarity=0.869 Sum_probs=446.6
Q ss_pred ccccCCCCCCcCCCCCCCCCCCCCeEEEEeeeeecCCCcceEEeeecCCCCccccccCCceeeEEEecCCCCCCCCCCCC
Q 010921 19 CLASAGDIVHQDNNAPKRPGCDNNFVLVKVPTWVDGGEDTEYVGVGARFGRTLEAKEKDASQNRLVLADPPDCCSKPKNK 98 (497)
Q Consensus 19 ~~~~~~d~~~~d~~~~~~p~c~n~f~lvkv~~wv~g~e~~~~~~~~A~FG~~lp~~~~~~~~~~Lv~a~p~daC~~~~~~ 98 (497)
....++|..|+|+..|+.|||+|+||++|+++|+||+|..++.++.++||...+...+++...++..++|.|.|+++.+.
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 55678999999999999999999999999999999999999999999999999888777777788899999999999999
Q ss_pred CCCcEEEEecCCCCHHHHHHHHHhcCCcEEEEEecCCcccccccCCCCCCCcccceEEEechhhhHHHHHHHhcCcEEEE
Q 010921 99 LTGEAILVHRGGCSFTAKANFAEEANASAILIINNKTELFKMVCESNETDVDIRIPAIMLPQDAGANLEKLIKNNSVVSV 178 (497)
Q Consensus 99 l~g~IaLV~RG~CsF~~Ka~nAq~aGA~avIV~n~~~~l~~m~~~~~~~~~~i~IPvv~Is~~~G~~L~~~L~~G~~V~V 178 (497)
++|+++++.||+|+|++|+++||++||+|++++||.+++..|.|++.++..+++||++|+++++|+.+.+....|++|++
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 EeecCCCcccchhHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHhhhhcCCCCccccccCCCCCCceeeCccchhhhhHHH
Q 010921 179 QLYSPRRPVVDVAEVFLWLMAVGTILCASYWSAWTARETAIELDKLLKDGSDEFSNMEGVNSNGFVDINMASAVSFVVIA 258 (497)
Q Consensus 179 ~l~~p~~p~vD~s~~~L~l~Av~ti~~gs~ws~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~is~~~a~~fpv~a 258 (497)
++|+|++|.+|++++++|+||++||.+|+|||.+++||+..|+++.++|..+++.+++|++|++..++|+..|+.|++++
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 99999999999999999999999999999999999999999999988877777667778888999999999999999999
Q ss_pred HHHHHHHHHHhHHHHHHHHHHHHHHHhHHHHHHHHHHHHhcccccccCCCCceeeccccccccchhchhhhhhhhhheee
Q 010921 259 SCFLVMLYKLMSFWFIEVLVVLFCIGGVEGLQTCVVALLSCFRWFQHAGDSFIKVPFFGAVSYLTLAVCPFCIAFSVVWA 338 (497)
Q Consensus 259 s~~Ll~Ly~~~~~~~~~ll~~~f~i~g~~~l~~~l~~~l~~~~~~~~~~~~~~~~p~~g~~~~~~l~~~~~~~~~~~~w~ 338 (497)
|.+|++||||++ |++++++++|||+|..+|++|+.++++ |++.+..+.....|..|..++.++++.++|++++++|+
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 999999999997 599999999999999999999999998 77665555556678888999999999999999999999
Q ss_pred eeecCCcchhHHHHHHHHHHHHHHHhcccCchhhHHHHHHHHHHhhhheeeecccccc--cceEEEeeccCCCCCCCCCE
Q 010921 339 VYRRISFAWIGQDILGIALMITVLQIVRVPNLKVGTVLLSCAFLYDIFWVFVSKWWFH--ESVMIVVARGDRSGEDGIPM 416 (497)
Q Consensus 339 ~~~~~~~~W~l~nilgi~~~~~~i~~~~l~~~k~~~ilL~~lf~YDif~VF~sp~~~~--~svMv~VA~~~~~~~~~~P~ 416 (497)
++||++|+|++||++|||+|++++|.+|+||+|++++||.++|+|||||||+||++|+ ||||++||+|.++++|++||
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 EEEccccc-----CCCCCceeecccchhhhHHHHHHHHHHhhhcccCCCcchhHHHHHHHHHHHHHHHHH---------H
Q 010921 417 LLKIPRLF-----DPWGGYSVIGFGDIILPGLIVAFSLRYDWLMKKNFRSGYFVWAMTAYGLGMGKAKFV---------K 482 (497)
Q Consensus 417 ~l~~P~~~-----~~~~~~s~LGlGDIviPGl~i~~~~rfD~~~~~~~~~~YF~~~~~~Y~~GL~~t~~~---------a 482 (497)
+|++||++ ++|++|||||||||++||++|+||+|||...++. +++||.|+++||++||++|-.+ |
T Consensus 411 lLkVPrl~~s~~~~~~~~~silGFGDIl~PGlLVa~c~RfD~~~~~~-~~iYfv~~tvaYgiGLlvTfvaL~LM~~GQPA 489 (541)
T KOG2442|consen 411 LLKVPRLFFSVLSDPWGGYSILGFGDILVPGLLVAFCLRFDVQVNSV-SNIYFVWSTVAYGIGLLVTFVALVLMKGGQPA 489 (541)
T ss_pred EEEcchhccccccccCCCeeEeeecccccchHHHHHHHHhhhhcccc-ceeEEehhHHHHHHHHHHHHHHHHHhcCCCce
Confidence 99999999 8899999999999999999999999999998875 6899999999999999998663 9
Q ss_pred HHHhhccccccc
Q 010921 483 LETIIPCLYKER 494 (497)
Q Consensus 483 L~~i~P~~~~~~ 494 (497)
|+|+|||-|...
T Consensus 490 LLYLVP~TL~t~ 501 (541)
T KOG2442|consen 490 LLYLVPCTLGTA 501 (541)
T ss_pred EEEEechHHHHH
Confidence 999999988744
No 2
>KOG2443 consensus Uncharacterized conserved protein [Function unknown]
Probab=100.00 E-value=2.5e-55 Score=438.32 Aligned_cols=273 Identities=28% Similarity=0.462 Sum_probs=225.0
Q ss_pred ccchhHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHhhhhcCCCCccccccCCCCCCceeeCccchhh-hhHHHHHHHHHH
Q 010921 187 VVDVAEVFLWLMAVGTILCASYWSAWTARETAIELDKLLKDGSDEFSNMEGVNSNGFVDINMASAVS-FVVIASCFLVML 265 (497)
Q Consensus 187 ~vD~s~~~L~l~Av~ti~~gs~ws~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~is~~~a~~-fpv~as~~Ll~L 265 (497)
..+.+.+.+.++|+.+|++||+||+...+|.. ++++..+.++.++|.. ||+++||+|++|
T Consensus 22 ~~~~~~~sl~l~A~l~i~~GsfRS~~~~~~~~-------------------d~~~~~es~t~~~a~~~fPi~~s~tLl~l 82 (362)
T KOG2443|consen 22 LLASAYVSLILIALLLIVIGSFRSLNYIKENE-------------------DKKDKSESITKRDAGKMFPIIGSCTLLLL 82 (362)
T ss_pred hhcccchHHHHHHHHHHHHHHHHHhhhhhhhh-------------------cccchhhhhhhhhhcccCCcccchHHHHH
Confidence 56778899999999999999999987665410 1113445677777777 999999999999
Q ss_pred HHHhHHH---HHHHHHHHHHHHhHHHHHHHHHHHHhc--ccccc---------cCCCCceeeccccccccchhchhhhhh
Q 010921 266 YKLMSFW---FIEVLVVLFCIGGVEGLQTCVVALLSC--FRWFQ---------HAGDSFIKVPFFGAVSYLTLAVCPFCI 331 (497)
Q Consensus 266 y~~~~~~---~~~ll~~~f~i~g~~~l~~~l~~~l~~--~~~~~---------~~~~~~~~~p~~g~~~~~~l~~~~~~~ 331 (497)
|++++.. ..++++.||++.|+.++.+.+.|++.. ++..| +..+.+...-+.++++..+++.+..|.
T Consensus 83 yl~fk~ls~~~~~ll~~~ff~~g~~al~~~~~p~~~~~~~~l~p~~~~~~~~~~~~~~~~~~~~~~~Ft~~~iv~~vls~ 162 (362)
T KOG2443|consen 83 YLLFKPLSKELINLLTMYFFFLGVIALLSLLDPFINAFKFLLLPMCQYHLLFPRGPGEKKEFICNGKFTRAQIVALVLSS 162 (362)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHhhhhhhcCccchhheeeeccCCcccceeecccccHHHHHHHHHHH
Confidence 9988643 234789999999999999999888761 11111 111222222234678888999999999
Q ss_pred hhhheeeeeecCCcchhHHHHHHHHHHHHHHHhcccCchhhHHHHHHHHHHhhhheeeecccccccceEEEeeccCCCCC
Q 010921 332 AFSVVWAVYRRISFAWIGQDILGIALMITVLQIVRVPNLKVGTVLLSCAFLYDIFWVFVSKWWFHESVMIVVARGDRSGE 411 (497)
Q Consensus 332 ~~~~~w~~~~~~~~~W~l~nilgi~~~~~~i~~~~l~~~k~~~ilL~~lf~YDif~VF~sp~~~~~svMv~VA~~~~~~~ 411 (497)
.+++.|++++| |++||++|+++|+++++.+|+||+|+|++||.+||+|||||||+ ++||++|||+.+
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 99999999885 99999999999999999999999999999999999999999995 569999999975
Q ss_pred CCCCEEEEcccccCCC----CCceeecccchhhhHHHHHHHHHHhhhcccC-CCcchhHHHHHHHHHHHHHHHHH-----
Q 010921 412 DGIPMLLKIPRLFDPW----GGYSVIGFGDIILPGLIVAFSLRYDWLMKKN-FRSGYFVWAMTAYGLGMGKAKFV----- 481 (497)
Q Consensus 412 ~~~P~~l~~P~~~~~~----~~~s~LGlGDIviPGl~i~~~~rfD~~~~~~-~~~~YF~~~~~~Y~~GL~~t~~~----- 481 (497)
+|+||++|+..... .+||||||||||+||+|+|+++|||.++++. ..+.||..+++||.+||++|+++
T Consensus 230 --~PikL~fP~~l~~~~~~as~fsMLGLGDIviPGiflAl~lRfD~~k~~~s~~~~YF~~t~i~Y~~gL~~ti~~~~~Fk 307 (362)
T KOG2443|consen 230 --APIKLVFPQKLLFPGLTASNFSMLGLGDIVIPGIFLALVLRFDIRKKRNSKVRTYFHNTFIAYFLGLLTTIVVLHIFK 307 (362)
T ss_pred --CceEEecchhhccCCCccccceeccccchhhHHHHHHHHHHhhHHHHhcccCceEEEEeHHHHHhhhHHHhhhhhhhh
Confidence 99999999976532 3599999999999999999999999876542 44679999999999999999985
Q ss_pred ----HHHHhhcccccc
Q 010921 482 ----KLETIIPCLYKE 493 (497)
Q Consensus 482 ----aL~~i~P~~~~~ 493 (497)
||+|+||+.+.+
T Consensus 308 aAQPALLYlVP~~l~~ 323 (362)
T KOG2443|consen 308 AAQPALLYLVPACLGP 323 (362)
T ss_pred ccchhhhhhhHHHHhH
Confidence 999999998865
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=1.1e-57 Score=463.18 Aligned_cols=250 Identities=37% Similarity=0.676 Sum_probs=1.0
Q ss_pred CCCceeeCccchhhhhHHHHHHHHHHHHHhHHHH------HHHHHHHHHHHhHHHHHHHHHHHHhcccccc-----cCCC
Q 010921 240 SNGFVDINMASAVSFVVIASCFLVMLYKLMSFWF------IEVLVVLFCIGGVEGLQTCVVALLSCFRWFQ-----HAGD 308 (497)
Q Consensus 240 ~~~~~~is~~~a~~fpv~as~~Ll~Ly~~~~~~~------~~ll~~~f~i~g~~~l~~~l~~~l~~~~~~~-----~~~~ 308 (497)
|++.+++|.++|++||++||++|++|||+++++. +++++.+|+++|+.++..++.+.+. +.++ +..+
T Consensus 2 ~~~~~~is~~~A~~fpv~~S~~L~gLY~~~k~l~~~~i~~~~vl~~~f~~~gv~a~~~~i~~~l~--~~~~~~~~~~~~~ 79 (298)
T PF04258_consen 2 EEEEETISSKDALIFPVVASCVLLGLYFFFKYLDKDLINIIYVLTVYFCLAGVIALSFLILPFLT--YIFPFFPCRSFPW 79 (298)
T ss_dssp --------------------------------------------------------------------------------
T ss_pred CccccccCHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--Hhhcccccccccc
Confidence 4556789999999999999999999999997655 4689999999999987777766554 2211 1122
Q ss_pred Cceee--------ccccccccchhchhhhhhhhhheeeeeecCCcchhHHHHHHHHHHHHHHHhcccCchhhHHHHHHHH
Q 010921 309 SFIKV--------PFFGAVSYLTLAVCPFCIAFSVVWAVYRRISFAWIGQDILGIALMITVLQIVRVPNLKVGTVLLSCA 380 (497)
Q Consensus 309 ~~~~~--------p~~g~~~~~~l~~~~~~~~~~~~w~~~~~~~~~W~l~nilgi~~~~~~i~~~~l~~~k~~~ilL~~l 380 (497)
.+.++ ++.++.+..+++..++|+++++.|+++|++ +|++||++|+|+|+++++.+|+||+|++++||+++
T Consensus 80 ~~~~~~~~~~~~~~~~~~~~~~~l~~~~~s~~~~~~w~~~~~~--~W~l~nilgi~~~i~~i~~i~l~s~k~~~ilL~~l 157 (298)
T PF04258_consen 80 KKWKLSFPRRDIKPFSGSFTLSDLLSFLISLAIAVVWYVYRNE--HWILQNILGICFCINIISLIRLPSFKTATILLIGL 157 (298)
T ss_dssp -----------------------------------S--------------------------------------------
T ss_pred ceEEEEEEcccccceeeeeeHHHHHHHHHHHHHHHHHHHhccc--hHHHHhHHHHHHHHHHHHheeccchHHHHHHHHHH
Confidence 22222 455677888899999999999999998875 59999999999999999999999999999999999
Q ss_pred HHhhhheeeecccccccceEEEeeccCCCCCCCCCEEEEcccccC----CCCCceeecccchhhhHHHHHHHHHHhhhcc
Q 010921 381 FLYDIFWVFVSKWWFHESVMIVVARGDRSGEDGIPMLLKIPRLFD----PWGGYSVIGFGDIILPGLIVAFSLRYDWLMK 456 (497)
Q Consensus 381 f~YDif~VF~sp~~~~~svMv~VA~~~~~~~~~~P~~l~~P~~~~----~~~~~s~LGlGDIviPGl~i~~~~rfD~~~~ 456 (497)
|+|||||||+||++||+|||++|||+..++++++|+|+++|+..+ ..+++|||||||||+||+|+++|+|||.+++
T Consensus 158 f~YDif~VF~s~~~~g~svM~~VA~~~~~~~~~~P~~l~~P~~~~~~~~~~~~~s~LGlGDIviPGl~i~~~~rfD~~~~ 237 (298)
T PF04258_consen 158 FLYDIFWVFISPYFFGTSVMVTVATGGFDAPEKLPIKLQFPRFFDSNSSCPKPFSMLGLGDIVIPGLFIAFCLRFDKSRN 237 (298)
T ss_dssp --------------------------------------------------------------------------------
T ss_pred HHHHHHHHHhccccCCCchhhhhhccccccccCCCeEEEEeccccccccCCCCeeEeccchHHHHHHHHHHHHHhhHhhc
Confidence 999999999999999999999999995445678899999999863 4589999999999999999999999999884
Q ss_pred cCCCcchhHHHHHHHHHHHHHHHHH---------HHHHhhccccccc
Q 010921 457 KNFRSGYFVWAMTAYGLGMGKAKFV---------KLETIIPCLYKER 494 (497)
Q Consensus 457 ~~~~~~YF~~~~~~Y~~GL~~t~~~---------aL~~i~P~~~~~~ 494 (497)
+ .+++||.++++||++||++|.++ ||+|++|+++++-
T Consensus 238 ~-~~~~Yf~~~~~~Y~~Gl~~t~~~~~~~~~~QPALlylvP~~l~~~ 283 (298)
T PF04258_consen 238 K-SRKPYFIASLIGYALGLLLTFVALHLFKHGQPALLYLVPCTLGSV 283 (298)
T ss_dssp -----------------------------------------------
T ss_pred c-ccchHHHHHHHHHHHHHHHHHHHHHHhCCCCCeehHHHHHHHHHH
Confidence 3 24679999999999999999774 9999999998764
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=8.8e-44 Score=352.42 Aligned_cols=225 Identities=35% Similarity=0.566 Sum_probs=195.5
Q ss_pred eeeCccchhhhhHHHHHHHHHHHHHhHHHHHHHHHHHHHHHhHHHHHHHHHHHHhcccccccCCCCceeeccccccccch
Q 010921 244 VDINMASAVSFVVIASCFLVMLYKLMSFWFIEVLVVLFCIGGVEGLQTCVVALLSCFRWFQHAGDSFIKVPFFGAVSYLT 323 (497)
Q Consensus 244 ~~is~~~a~~fpv~as~~Ll~Ly~~~~~~~~~ll~~~f~i~g~~~l~~~l~~~l~~~~~~~~~~~~~~~~p~~g~~~~~~ 323 (497)
+.+|+.+++.||+++|++|+++|++.++| +..+..+|++.|+.+++.++.+... .. .+..+
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 7788999999999999888776543 11 23345
Q ss_pred hchhhhhhhhhheeeeeecCCcchhHHHHHHHHHHHHHHHhcccCchhhHHHHHHHHHHhhhheeeecccccccceEEEe
Q 010921 324 LAVCPFCIAFSVVWAVYRRISFAWIGQDILGIALMITVLQIVRVPNLKVGTVLLSCAFLYDIFWVFVSKWWFHESVMIVV 403 (497)
Q Consensus 324 l~~~~~~~~~~~~w~~~~~~~~~W~l~nilgi~~~~~~i~~~~l~~~k~~~ilL~~lf~YDif~VF~sp~~~~~svMv~V 403 (497)
.+...++++++.+|.++++ ++|+.||++|+|+|+.+++.+|+||+|++++||+++++||+||||+||. +++||++|
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 5667788888889988876 6899999999999999999999999999999999999999999999987 89999999
Q ss_pred eccCCCCCCCCCEEEEccccc-----CCCCCceeecccchhhhHHHHHHHHHHhhhcccCCCcchhHHHHHHHHHHHHHH
Q 010921 404 ARGDRSGEDGIPMLLKIPRLF-----DPWGGYSVIGFGDIILPGLIVAFSLRYDWLMKKNFRSGYFVWAMTAYGLGMGKA 478 (497)
Q Consensus 404 A~~~~~~~~~~P~~l~~P~~~-----~~~~~~s~LGlGDIviPGl~i~~~~rfD~~~~~~~~~~YF~~~~~~Y~~GL~~t 478 (497)
|++.+...|++|+++..||.. +..+++++||+||||+||+++++|+|||..+++ +++||..+++||++||+.|
T Consensus 140 A~~~~~~~~~~P~ll~~p~~~~~~~~~~~~~~~~LGLGDiv~Pgilv~~a~~fd~~~~~--~~~yf~~~~~ay~~GL~~t 217 (249)
T smart00730 140 ATGRDEPIKVFPALLYVPRLVVSFEDDEEGRFSMLGLGDIVFPGILVASAARFDVSVRS--DSNYFLACFVAYGIGLILT 217 (249)
T ss_pred hccCCCCcccCChhhcccccccccccCCCCccceecCCCeeeHHHHHHHHHHhhhcccC--CcccHHHHHHHHHHHHHHH
Confidence 999864335799999999842 235689999999999999999999999987543 4689999999999999999
Q ss_pred HHH---------HHHHhhcccccc
Q 010921 479 KFV---------KLETIIPCLYKE 493 (497)
Q Consensus 479 ~~~---------aL~~i~P~~~~~ 493 (497)
.++ ||+|++|+.+.+
T Consensus 218 ~~~l~~~~~aqPALlylvp~~l~~ 241 (249)
T smart00730 218 LVLLALFKKAQPALPYLVPFTLVF 241 (249)
T ss_pred HHHHHHhCCCCccHHHHHHHHHHH
Confidence 874 999999998765
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=1.5e-29 Score=230.48 Aligned_cols=139 Identities=53% Similarity=0.895 Sum_probs=126.9
Q ss_pred CeEEEEeeeeecCCCcceEEeeecCCCCccccccCCceeeEEEecCCCCCCCCCCCCCCCcEEEEecCCCCHHHHHHHHH
Q 010921 42 NFVLVKVPTWVDGGEDTEYVGVGARFGRTLEAKEKDASQNRLVLADPPDCCSKPKNKLTGEAILVHRGGCSFTAKANFAE 121 (497)
Q Consensus 42 ~f~lvkv~~wv~g~e~~~~~~~~A~FG~~lp~~~~~~~~~~Lv~a~p~daC~~~~~~l~g~IaLV~RG~CsF~~Ka~nAq 121 (497)
+|++|++.+|.+|+|.++|.+.+|+||..+|++..++.+++++.++|.++|++.+++++|+|+||+||+|+|.+|++|||
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 48999999999999999999999999999998877778999999999999999999999999999999999999999999
Q ss_pred hcCCcEEEEEecCCcccccccCCCCCCCcccceEEEechhhhHHHHHHHhcCcEEEEEe
Q 010921 122 EANASAILIINNKTELFKMVCESNETDVDIRIPAIMLPQDAGANLEKLIKNNSVVSVQL 180 (497)
Q Consensus 122 ~aGA~avIV~n~~~~l~~m~~~~~~~~~~i~IPvv~Is~~~G~~L~~~L~~G~~V~V~l 180 (497)
++||+++||||+.+++..|.+.++++..++.||+++|++++|+.|++.+++|++|++++
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 99999999999987777776543344456899999999999999999999999998864
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=2.6e-23 Score=184.43 Aligned_cols=117 Identities=22% Similarity=0.387 Sum_probs=98.7
Q ss_pred eEEEEeeeeecCCCcceEEeeecCCCCccccccCCceeeEEEecCCCCCCCCCC---CCCCCcEEEEecCCCCHHHHHHH
Q 010921 43 FVLVKVPTWVDGGEDTEYVGVGARFGRTLEAKEKDASQNRLVLADPPDCCSKPK---NKLTGEAILVHRGGCSFTAKANF 119 (497)
Q Consensus 43 f~lvkv~~wv~g~e~~~~~~~~A~FG~~lp~~~~~~~~~~Lv~a~p~daC~~~~---~~l~g~IaLV~RG~CsF~~Ka~n 119 (497)
|++.++++|. .+|++.+++...|++.++|..+|++.+ .+++|+|+||+||+|+|.+|++|
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 6889999995 688888888999999999999999876 47899999999999999999999
Q ss_pred HHhcCCcEEEEEecCCcccccccCCCCCCCcccceEEEechhhhHHHHHHHhcCcEEEEEe
Q 010921 120 AEEANASAILIINNKTELFKMVCESNETDVDIRIPAIMLPQDAGANLEKLIKNNSVVSVQL 180 (497)
Q Consensus 120 Aq~aGA~avIV~n~~~~l~~m~~~~~~~~~~i~IPvv~Is~~~G~~L~~~L~~G~~V~V~l 180 (497)
||++||+|+|||||++.. .+. .+.+...+++||++||++++|++|++.+. +.|+|+|
T Consensus 64 Aq~aGA~aVII~nn~~~~-~~~-~~~~~~~~v~IP~v~Is~~dG~~i~~~l~--~~~~v~~ 120 (120)
T cd02129 64 AQSLGAEGLLIVSRERLV-PPS-GNRSEYEKIDIPVALLSYKDMLDIQQTFG--DSVKVAM 120 (120)
T ss_pred HHHCCCCEEEEEECCCCC-CCC-CCCCCCcCCcccEEEEeHHHHHHHHHHhc--cCcEEeC
Confidence 999999999999997642 111 11222467899999999999999999995 4566653
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=99.88 E-value=1.7e-22 Score=181.09 Aligned_cols=116 Identities=31% Similarity=0.515 Sum_probs=97.9
Q ss_pred eeecCCCCccccccCCceeeEEEecCCCCCCCCCCC--CCCCcEEEEecCCCCHHHHHHHHHhcCCcEEEEEecCCc---
Q 010921 62 GVGARFGRTLEAKEKDASQNRLVLADPPDCCSKPKN--KLTGEAILVHRGGCSFTAKANFAEEANASAILIINNKTE--- 136 (497)
Q Consensus 62 ~~~A~FG~~lp~~~~~~~~~~Lv~a~p~daC~~~~~--~l~g~IaLV~RG~CsF~~Ka~nAq~aGA~avIV~n~~~~--- 136 (497)
+.+|+||.++|... ...++|+.++|.++|++.++ +++|||+|++||+|+|.+|+++||++||+|+||+||.++
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 46899999999742 36789999999999998874 689999999999999999999999999999999997653
Q ss_pred ----ccccccCCCCCCCcccceEEEechhhhHHHHHHHhcCcEEEEEe
Q 010921 137 ----LFKMVCESNETDVDIRIPAIMLPQDAGANLEKLIKNNSVVSVQL 180 (497)
Q Consensus 137 ----l~~m~~~~~~~~~~i~IPvv~Is~~~G~~L~~~L~~G~~V~V~l 180 (497)
.+.|.+. .++.++++||+++|++++|+.|++.+++|++|++++
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 3456443 112346899999999999999999999999998864
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=99.86 E-value=1.9e-21 Score=172.55 Aligned_cols=110 Identities=28% Similarity=0.502 Sum_probs=93.8
Q ss_pred CCCCccccccCCceeeEEEecCCCCCCCCCCC--CCCCcEEEEecCCCCHHHHHHHHHhcCCcEEEEEecCCc----ccc
Q 010921 66 RFGRTLEAKEKDASQNRLVLADPPDCCSKPKN--KLTGEAILVHRGGCSFTAKANFAEEANASAILIINNKTE----LFK 139 (497)
Q Consensus 66 ~FG~~lp~~~~~~~~~~Lv~a~p~daC~~~~~--~l~g~IaLV~RG~CsF~~Ka~nAq~aGA~avIV~n~~~~----l~~ 139 (497)
.||..++.+ +..++|+.++|.++|++.++ +++|+|+||+||+|+|.+|++|||++||+|+||||++++ .+.
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 488888876 45679999999999998764 689999999999999999999999999999999998643 345
Q ss_pred cccCCCCCCCcccceEEEechhhhHHHHHHHhcCcEEEEEe
Q 010921 140 MVCESNETDVDIRIPAIMLPQDAGANLEKLIKNNSVVSVQL 180 (497)
Q Consensus 140 m~~~~~~~~~~i~IPvv~Is~~~G~~L~~~L~~G~~V~V~l 180 (497)
|.+. +...+++||+++|++++|+.|++.+++|..+++.+
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 23467899999999999999999999999887655
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=99.86 E-value=1.9e-21 Score=174.56 Aligned_cols=112 Identities=29% Similarity=0.430 Sum_probs=91.6
Q ss_pred CCCCccccccCCceeeEEEec-CCCCCCCCCCC---------CCCCcEEEEecCCCCHHHHHHHHHhcCCcEEEEEecCC
Q 010921 66 RFGRTLEAKEKDASQNRLVLA-DPPDCCSKPKN---------KLTGEAILVHRGGCSFTAKANFAEEANASAILIINNKT 135 (497)
Q Consensus 66 ~FG~~lp~~~~~~~~~~Lv~a-~p~daC~~~~~---------~l~g~IaLV~RG~CsF~~Ka~nAq~aGA~avIV~n~~~ 135 (497)
+||.+ |+.+ ...+.|+.+ ++.++|++..+ ...++|+||+||+|+|.+|++|||++||+++||||+.+
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 58843 4443 367778777 67899998763 36788999999999999999999999999999999976
Q ss_pred c-ccccccCCC----CCCCcccceEEEechhhhHHHHHHHhcCcEEEEEe
Q 010921 136 E-LFKMVCESN----ETDVDIRIPAIMLPQDAGANLEKLIKNNSVVSVQL 180 (497)
Q Consensus 136 ~-l~~m~~~~~----~~~~~i~IPvv~Is~~~G~~L~~~L~~G~~V~V~l 180 (497)
+ +..|.+.++ +...+++||+++|++++|+.|++.+++|++|+|++
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 5 567754322 22457899999999999999999999999999875
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=6.2e-21 Score=176.55 Aligned_cols=116 Identities=26% Similarity=0.420 Sum_probs=99.6
Q ss_pred CcceEEeeecCCCCccccccCCceeeEEEecCCCCCCCCCC------CCCCCcEEEEecCCCCHHHHHHHHHhcCCcEEE
Q 010921 56 EDTEYVGVGARFGRTLEAKEKDASQNRLVLADPPDCCSKPK------NKLTGEAILVHRGGCSFTAKANFAEEANASAIL 129 (497)
Q Consensus 56 e~~~~~~~~A~FG~~lp~~~~~~~~~~Lv~a~p~daC~~~~------~~l~g~IaLV~RG~CsF~~Ka~nAq~aGA~avI 129 (497)
+..++.+..|+||...+.. +.+++|+.++|.+||++.+ +...|+|+||+||+|+|.+|++|||++||+|+|
T Consensus 20 ~~~~~~~~~A~FG~~~~~~---~~~g~lv~~~p~~gC~~~~~~~~~~~~~~g~IvLV~RG~CtF~~Kv~nAq~aGA~avI 96 (153)
T cd02123 20 LTDEFDDLPANFGPIPPGS---GLKGVLVVAEPLNACSPIENPPLNSNASGSFIVLIRRGNCSFETKVRNAQRAGYKAAI 96 (153)
T ss_pred ccceEeeecccCCCCCCCC---ceEEEEEeCCccccCCCCcccccccccCCCeEEEEECCCCCHHHHHHHHHHCCCCEEE
Confidence 5678999999999877643 5788999999999999876 468899999999999999999999999999999
Q ss_pred EEecCCc-ccccccCCCCCCCcccceEEEechhhhHHHHHHHhcCcE
Q 010921 130 IINNKTE-LFKMVCESNETDVDIRIPAIMLPQDAGANLEKLIKNNSV 175 (497)
Q Consensus 130 V~n~~~~-l~~m~~~~~~~~~~i~IPvv~Is~~~G~~L~~~L~~G~~ 175 (497)
|||++++ +..|.+.+ ....+++||+++|++++|+.|++.+++++.
T Consensus 97 I~n~~~~~~~~m~~~~-~~~~~v~IP~v~Is~~dg~~L~~~l~~~~~ 142 (153)
T cd02123 97 VYNDESNDLISMSGND-QEIKGIDIPSVFVGKSTGEILKKYASYEKG 142 (153)
T ss_pred EEECCCCcceeccCCC-CCCcCCEEEEEEeeHHHHHHHHHHHhcCCc
Confidence 9999754 56676532 222578999999999999999999998877
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=99.84 E-value=1.9e-20 Score=170.44 Aligned_cols=110 Identities=26% Similarity=0.389 Sum_probs=91.8
Q ss_pred eecCCCCccccccCCceeeEEEec---CCCCCCCCCCC-----CCCCcEEEEecCCCCHHHHHHHHHhcCCcEEEEEecC
Q 010921 63 VGARFGRTLEAKEKDASQNRLVLA---DPPDCCSKPKN-----KLTGEAILVHRGGCSFTAKANFAEEANASAILIINNK 134 (497)
Q Consensus 63 ~~A~FG~~lp~~~~~~~~~~Lv~a---~p~daC~~~~~-----~l~g~IaLV~RG~CsF~~Ka~nAq~aGA~avIV~n~~ 134 (497)
..|+||.++|... ..+.|+.+ ++.+||+++++ +++|+||||+||+|+|.+|++|||++||+++||||++
T Consensus 18 ~~a~fg~~~~~~~---~~G~l~~~~~~~~~~gC~~~~~~~~~~~~~g~IaLV~RG~C~F~~K~~nA~~aGA~aVIIyn~~ 94 (138)
T cd02122 18 ESGRYGEHSPKEE---AKGLVVVPDPPNDHYGCDPDTRFPIPPNGEPWIALIQRGNCTFEEKIKLAAERNASAVVIYNNP 94 (138)
T ss_pred cccccCCCCCCCc---cEEEEecCCCCCCcCCCCCCccccCCccCCCeEEEEECCCCCHHHHHHHHHHCCCcEEEEEECC
Confidence 4899999888763 56666654 45899998764 5789999999999999999999999999999999998
Q ss_pred C-c--ccccccCCCCCCCcccceEEEechhhhHHHHHHHhcCcEEEEEe
Q 010921 135 T-E--LFKMVCESNETDVDIRIPAIMLPQDAGANLEKLIKNNSVVSVQL 180 (497)
Q Consensus 135 ~-~--l~~m~~~~~~~~~~i~IPvv~Is~~~G~~L~~~L~~G~~V~V~l 180 (497)
+ . .+.|... ...+||+++|++++|+.|++.+++|++|++++
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 5566432 12478999999999999999999999998864
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=2.5e-19 Score=158.21 Aligned_cols=114 Identities=32% Similarity=0.481 Sum_probs=98.2
Q ss_pred eecCCCCccccccCCceeeEEEecCCCCCCCCCC--CCCCCcEEEEecCCCCHHHHHHHHHhcCCcEEEEEecCCc--cc
Q 010921 63 VGARFGRTLEAKEKDASQNRLVLADPPDCCSKPK--NKLTGEAILVHRGGCSFTAKANFAEEANASAILIINNKTE--LF 138 (497)
Q Consensus 63 ~~A~FG~~lp~~~~~~~~~~Lv~a~p~daC~~~~--~~l~g~IaLV~RG~CsF~~Ka~nAq~aGA~avIV~n~~~~--l~ 138 (497)
++|+||+.++......+.++++.++|.++|++.. ++++|||+|++||+|+|.+|+++|+++||+|+|+||+.++ .+
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 4799999999754446889999999999999876 4799999999999999999999999999999999998764 34
Q ss_pred ccccCCCCCCCcccceEEEechhhhHHHHHHHhcCcEEEEEe
Q 010921 139 KMVCESNETDVDIRIPAIMLPQDAGANLEKLIKNNSVVSVQL 180 (497)
Q Consensus 139 ~m~~~~~~~~~~i~IPvv~Is~~~G~~L~~~L~~G~~V~V~l 180 (497)
.|... .....||+++|++++|+.|++.+++|++|++++
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 55321 234679999999999999999999999998875
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=99.80 E-value=2.2e-19 Score=159.12 Aligned_cols=103 Identities=26% Similarity=0.479 Sum_probs=84.6
Q ss_pred eeecCCCCccccccCCceeeEEEecCCCCCCCCCC-CCCCCcEEEEecCCCCHHHHHHHHHhcCCcEEEEEecCCc--cc
Q 010921 62 GVGARFGRTLEAKEKDASQNRLVLADPPDCCSKPK-NKLTGEAILVHRGGCSFTAKANFAEEANASAILIINNKTE--LF 138 (497)
Q Consensus 62 ~~~A~FG~~lp~~~~~~~~~~Lv~a~p~daC~~~~-~~l~g~IaLV~RG~CsF~~Ka~nAq~aGA~avIV~n~~~~--l~ 138 (497)
+..|+||+.+....++. ..++|.++|++.+ ++++||||||+||+|+|.+|++|||++||+++||||+.++ +.
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 47799999887654321 2278899999876 5799999999999999999999999999999999998753 45
Q ss_pred ccccCCCCCCCcccceEEEechhhhHHHHHHHh
Q 010921 139 KMVCESNETDVDIRIPAIMLPQDAGANLEKLIK 171 (497)
Q Consensus 139 ~m~~~~~~~~~~i~IPvv~Is~~~G~~L~~~L~ 171 (497)
.|.+. +...+++||+++|++++|+.|++.+.
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 22457899999999999999988763
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=2.7e-18 Score=152.74 Aligned_cols=113 Identities=24% Similarity=0.470 Sum_probs=90.7
Q ss_pred eecCCCCccccccCCceeeEEEecCC--CCCCCCCC---CCCCCcEEEEecCCCCHHHHHHHHHhcCCcEEEEEecCCcc
Q 010921 63 VGARFGRTLEAKEKDASQNRLVLADP--PDCCSKPK---NKLTGEAILVHRGGCSFTAKANFAEEANASAILIINNKTEL 137 (497)
Q Consensus 63 ~~A~FG~~lp~~~~~~~~~~Lv~a~p--~daC~~~~---~~l~g~IaLV~RG~CsF~~Ka~nAq~aGA~avIV~n~~~~l 137 (497)
+...|++..|. ++.+++++..++ .++|++.+ .+++|||+|++||+|+|.+|++|||++||+|+|+||+.++.
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 34567766664 368899998775 59999764 47999999999999999999999999999999999987642
Q ss_pred -cccccCCCCCCCcccceEEEechhhhHHHHHHHhcCcEEEEEe
Q 010921 138 -FKMVCESNETDVDIRIPAIMLPQDAGANLEKLIKNNSVVSVQL 180 (497)
Q Consensus 138 -~~m~~~~~~~~~~i~IPvv~Is~~~G~~L~~~L~~G~~V~V~l 180 (497)
..+.- .+......||+++|++++|++|++.+++|++|++++
T Consensus 81 ~~~~~~--~~~~~~~~iP~~~Is~~~G~~l~~~l~~g~~v~~~~ 122 (122)
T cd04816 81 GTAGTL--GAPNIDLKVPVGVITKAAGAALRRRLGAGETLELDA 122 (122)
T ss_pred cccccc--cCCCCCCeeeEEEEcHHHHHHHHHHHcCCCEEEEeC
Confidence 11111 111245789999999999999999999999998864
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=1.9e-17 Score=147.31 Aligned_cols=113 Identities=23% Similarity=0.342 Sum_probs=88.7
Q ss_pred ceEEeeecCCCCccccccCCceeeEEEecCCCCCCCCCC--CCCCCcEEEEecCCCCHHHHHHHHHhcCCcEEEEEecC-
Q 010921 58 TEYVGVGARFGRTLEAKEKDASQNRLVLADPPDCCSKPK--NKLTGEAILVHRGGCSFTAKANFAEEANASAILIINNK- 134 (497)
Q Consensus 58 ~~~~~~~A~FG~~lp~~~~~~~~~~Lv~a~p~daC~~~~--~~l~g~IaLV~RG~CsF~~Ka~nAq~aGA~avIV~n~~- 134 (497)
..|...+..|.+. + ..+++++.. +.++|++.+ .+++|||+||+||+|+|.+|++|||++||+++|+||+.
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 4555555555533 2 356888886 478999755 46999999999999999999999999999999999987
Q ss_pred CcccccccCCCCCCCcccceEEEechhhhHHHHHHHhcCcEEEEEe
Q 010921 135 TELFKMVCESNETDVDIRIPAIMLPQDAGANLEKLIKNNSVVSVQL 180 (497)
Q Consensus 135 ~~l~~m~~~~~~~~~~i~IPvv~Is~~~G~~L~~~L~~G~~V~V~l 180 (497)
++..... .....+..||+++|++++|+.|++.+++|++|+++|
T Consensus 80 ~~~~~~~---~~~~~~~~Ip~v~Is~~~G~~L~~~l~~g~~v~~~~ 122 (122)
T cd02130 80 AGGLSGT---LGEPSGPYVPTVGISQEDGKALVAALANGGEVSANL 122 (122)
T ss_pred Ccccccc---cCCCCCCEeeEEEecHHHHHHHHHHHhcCCcEEEeC
Confidence 3332211 112235789999999999999999999999999875
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=99.69 E-value=1.8e-16 Score=142.85 Aligned_cols=89 Identities=28% Similarity=0.358 Sum_probs=72.9
Q ss_pred cCCCCCCCCCC---CCCCCcEEEEecCCCCHHHHHHHHHhcCCcEEEEEecCCcccccccCCCCCCCcccceEEEechhh
Q 010921 86 ADPPDCCSKPK---NKLTGEAILVHRGGCSFTAKANFAEEANASAILIINNKTELFKMVCESNETDVDIRIPAIMLPQDA 162 (497)
Q Consensus 86 a~p~daC~~~~---~~l~g~IaLV~RG~CsF~~Ka~nAq~aGA~avIV~n~~~~l~~m~~~~~~~~~~i~IPvv~Is~~~ 162 (497)
+++.++|++++ ++++|+|+||+||+|+|.+|++|||++||+++||||++++...+... ....+|.+.+ +++
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 1233555555 999
Q ss_pred hHHHHHHHhcCcEEEEEe
Q 010921 163 GANLEKLIKNNSVVSVQL 180 (497)
Q Consensus 163 G~~L~~~L~~G~~V~V~l 180 (497)
|++|++.+++|++|+++|
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=99.68 E-value=3.8e-16 Score=142.17 Aligned_cols=95 Identities=22% Similarity=0.316 Sum_probs=75.5
Q ss_pred ceeeEEEecCCCCCCCCCCCCCCCcEEEEecCCCC-----HHHHHHHHHhcCCcEEEEEecC--Cccc-ccccCCCCCCC
Q 010921 78 ASQNRLVLADPPDCCSKPKNKLTGEAILVHRGGCS-----FTAKANFAEEANASAILIINNK--TELF-KMVCESNETDV 149 (497)
Q Consensus 78 ~~~~~Lv~a~p~daC~~~~~~l~g~IaLV~RG~Cs-----F~~Ka~nAq~aGA~avIV~n~~--~~l~-~m~~~~~~~~~ 149 (497)
..+++|+..... +|+....+++|||+||+||+|+ |.+|++|||++||+|+|||||. ++.+ .+.+. ...
T Consensus 35 ~~tg~lv~~g~~-g~d~~~~d~~GkIaLI~RG~c~~~~~~f~~Kv~~A~~aGA~avIIyNn~~~~g~~~~~lg~---~~~ 110 (139)
T cd04817 35 SATGSLYYCGTS-GGSYICGGMAGKICLIERGGNSKSVYPEIDKVKACQNAGAIAAIVYSNAALAGLQNPFLVD---TNN 110 (139)
T ss_pred cceEEEEEccCC-CccccCCCcCccEEEEECCCCCCCcccHHHHHHHHHHCCCeEEEEEeCCCCCCcccccccC---CCC
Confidence 567899888743 3755456899999999999999 9999999999999999999998 4433 22221 123
Q ss_pred cccceEEEechhhhHHHHHHHhcCcEE
Q 010921 150 DIRIPAIMLPQDAGANLEKLIKNNSVV 176 (497)
Q Consensus 150 ~i~IPvv~Is~~~G~~L~~~L~~G~~V 176 (497)
+++||+++|++++|++|++.+.++.+|
T Consensus 111 ~~~IP~v~is~~dG~~L~~~l~~~~tv 137 (139)
T cd04817 111 DTTIPSVSVDRADGQALLAALGQSTTV 137 (139)
T ss_pred CceEeEEEeeHHHHHHHHHHhcCCCee
Confidence 689999999999999999999655444
No 18
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.63 E-value=4.5e-15 Score=152.06 Aligned_cols=109 Identities=27% Similarity=0.432 Sum_probs=91.4
Q ss_pred eEEeeecCCCCccccccCCceeeEEEecCCCCCCCCCCC------CCCCcEEEEecCCCCHHHHHHHHHhcCCcEEEEEe
Q 010921 59 EYVGVGARFGRTLEAKEKDASQNRLVLADPPDCCSKPKN------KLTGEAILVHRGGCSFTAKANFAEEANASAILIIN 132 (497)
Q Consensus 59 ~~~~~~A~FG~~lp~~~~~~~~~~Lv~a~p~daC~~~~~------~l~g~IaLV~RG~CsF~~Ka~nAq~aGA~avIV~n 132 (497)
+|.+.+|.||+.++.+ +..+-++.++|.+||++..+ .-...++|++||+|+|.+|+++||++|++|+||||
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 7899999999998876 46778999999999999863 35568999999999999999999999999999999
Q ss_pred cCC--cccccccCCCCCCCcccceEEEechhhhHHHHHHHhcCc
Q 010921 133 NKT--ELFKMVCESNETDVDIRIPAIMLPQDAGANLEKLIKNNS 174 (497)
Q Consensus 133 ~~~--~l~~m~~~~~~~~~~i~IPvv~Is~~~G~~L~~~L~~G~ 174 (497)
|.+ ++..|.. ...++.|++++++...|+.|.+...++.
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 864 3555532 2357999999999999999999654443
No 19
>KOG3920 consensus Uncharacterized conserved protein, contains PA domain [General function prediction only]
Probab=99.59 E-value=1.1e-15 Score=138.74 Aligned_cols=140 Identities=26% Similarity=0.351 Sum_probs=110.3
Q ss_pred CCCCCCeEEEEeeeeecCCCcceEEeeecC-CCCccccccCCceeeEEEecCCCCCCCCCCC--CCCCcEEEEecCCCCH
Q 010921 37 PGCDNNFVLVKVPTWVDGGEDTEYVGVGAR-FGRTLEAKEKDASQNRLVLADPPDCCSKPKN--KLTGEAILVHRGGCSF 113 (497)
Q Consensus 37 p~c~n~f~lvkv~~wv~g~e~~~~~~~~A~-FG~~lp~~~~~~~~~~Lv~a~p~daC~~~~~--~l~g~IaLV~RG~CsF 113 (497)
|-...++++..+- +++....+|+..+|. ||...|+..+ ..++|.++|..||+.+.| ...|.|+|++||+|+|
T Consensus 26 ~v~~qD~~~F~vl--sP~~l~Yty~~~pAkdfG~~F~~r~e---~~~lV~adPp~aC~elrN~~f~~d~vaL~eRGeCSF 100 (193)
T KOG3920|consen 26 EVENQDNMLFTVL--SPYTLAYTYQMKPAKDFGVHFPDRFE---NLELVLADPPHACEELRNEIFAPDSVALMERGECSF 100 (193)
T ss_pred eeeecceEEEEec--CcccEEEEEEecchhhhccccchhhc---CcceeecCChhHHHHHhhcccCCCcEEEEecCCcee
Confidence 3333344443332 456668889999998 9999998643 569999999999999886 5789999999999999
Q ss_pred HHHHHHHHhcCCcEEEEEecCCc------ccccccCCCCCCCcccceEEEechhhhHHHHHHHhcCcEEEEEeecC
Q 010921 114 TAKANFAEEANASAILIINNKTE------LFKMVCESNETDVDIRIPAIMLPQDAGANLEKLIKNNSVVSVQLYSP 183 (497)
Q Consensus 114 ~~Ka~nAq~aGA~avIV~n~~~~------l~~m~~~~~~~~~~i~IPvv~Is~~~G~~L~~~L~~G~~V~V~l~~p 183 (497)
..|.+|+|++||.++||-++..+ .++|.. +++.++-+||++++-..+|-.++..|++-..+...+.-|
T Consensus 101 l~Ktl~~e~aGa~aiiitd~~~~~~sf~~YveMI~--D~sq~~AniPa~fllg~~Gy~ir~sL~r~~r~ha~i~IP 174 (193)
T KOG3920|consen 101 LVKTLNGEKAGATAIIITDSQNYEYSFHQYVEMIP--DESQDRANIPAVFLLGVTGYYIRVSLKRYFRDHAKIDIP 174 (193)
T ss_pred eehhhhhhhcCceEEEEecCCCCchhHHHHHHhcC--cccccccCCceEEEeccceEEEehhHHHhCCccEEEecc
Confidence 99999999999999999887532 457875 345677899999999999999988888765555555444
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=99.52 E-value=1.6e-14 Score=122.78 Aligned_cols=91 Identities=29% Similarity=0.445 Sum_probs=65.1
Q ss_pred ceeeEEEecCC---CCCCCCC---CCCCCCcEEEEecCCCCHHHHHHHHHhcCCcEEEEEecCCcccccccCCCCCCCcc
Q 010921 78 ASQNRLVLADP---PDCCSKP---KNKLTGEAILVHRGGCSFTAKANFAEEANASAILIINNKTELFKMVCESNETDVDI 151 (497)
Q Consensus 78 ~~~~~Lv~a~p---~daC~~~---~~~l~g~IaLV~RG~CsF~~Ka~nAq~aGA~avIV~n~~~~l~~m~~~~~~~~~~i 151 (497)
..+++|+...+ ...|.+. ..+++|||||++||+|+|.+|++|||++||+|+|++|+.+....+.. .....+.
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 35678884432 2223222 25799999999999999999999999999999999993322222211 1224568
Q ss_pred cceEEEechhhhHHHHHHH
Q 010921 152 RIPAIMLPQDAGANLEKLI 170 (497)
Q Consensus 152 ~IPvv~Is~~~G~~L~~~L 170 (497)
.||+++|++++|++|++++
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=99.52 E-value=5.8e-14 Score=123.75 Aligned_cols=93 Identities=31% Similarity=0.487 Sum_probs=74.8
Q ss_pred CCCCCCCCCC-----CCCCCcEEEEecCCCCHHHHHHHHHhcCCcEEEEEecCCc-ccccccCCCCCCCcccceEEEech
Q 010921 87 DPPDCCSKPK-----NKLTGEAILVHRGGCSFTAKANFAEEANASAILIINNKTE-LFKMVCESNETDVDIRIPAIMLPQ 160 (497)
Q Consensus 87 ~p~daC~~~~-----~~l~g~IaLV~RG~CsF~~Ka~nAq~aGA~avIV~n~~~~-l~~m~~~~~~~~~~i~IPvv~Is~ 160 (497)
.+.++|++.. .+++|||+|++||+|+|.+|+++||++||+|+|++|+.+. ...+... ........||+++|++
T Consensus 28 ~~~~~C~~~~~~~~~~~~~GkIvl~~~g~~~~~~k~~~a~~~GA~gvii~~~~~~~~~~~~~~-~~~~~~~~iP~~~is~ 106 (126)
T cd00538 28 GPLVGCGYGTTDDSGADVKGKIVLVRRGGCSFSEKVKNAQKAGAKAVIIYNNGDDPGPQMGSV-GLESTDPSIPTVGISY 106 (126)
T ss_pred cceEEEecCcccccCCCccceEEEEECCCcCHHHHHHHHHHCCCEEEEEEECCCCcccccccc-cCCCCCCcEeEEEeCH
Confidence 4567787753 4699999999999999999999999999999999998763 2222211 1112456899999999
Q ss_pred hhhHHHHHHHhcCcEEEEEe
Q 010921 161 DAGANLEKLIKNNSVVSVQL 180 (497)
Q Consensus 161 ~~G~~L~~~L~~G~~V~V~l 180 (497)
++|+.|++.+++|+++++++
T Consensus 107 ~~g~~l~~~~~~~~~v~~~~ 126 (126)
T cd00538 107 ADGEALLSLLEAGKTVTVDL 126 (126)
T ss_pred HHHHHHHHHHhcCCceEEeC
Confidence 99999999999999888763
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=99.41 E-value=2.8e-12 Score=117.16 Aligned_cols=95 Identities=21% Similarity=0.316 Sum_probs=72.6
Q ss_pred ceeeEEEecCCCCCCCCCC-CCCCCcEEEEecCCCCHHHHHHHHHhcCCcEEEEEecCCcccccccCCCCCCCcccceEE
Q 010921 78 ASQNRLVLADPPDCCSKPK-NKLTGEAILVHRGGCSFTAKANFAEEANASAILIINNKTELFKMVCESNETDVDIRIPAI 156 (497)
Q Consensus 78 ~~~~~Lv~a~p~daC~~~~-~~l~g~IaLV~RG~CsF~~Ka~nAq~aGA~avIV~n~~~~l~~m~~~~~~~~~~i~IPvv 156 (497)
...++++.+.... .++.. .+++|||+|++||+|+|.+|+++||++||+|+|++|+.++...+... ....||++
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 4677888864221 11222 46999999999999999999999999999999999998665444221 13579999
Q ss_pred EechhhhHHHHHHHhcCcEEEEEe
Q 010921 157 MLPQDAGANLEKLIKNNSVVSVQL 180 (497)
Q Consensus 157 ~Is~~~G~~L~~~L~~G~~V~V~l 180 (497)
+|++++|++|++.+++ ++++++
T Consensus 99 ~Is~~dG~~L~~~l~~--~~~i~~ 120 (143)
T cd02133 99 FISKEDGEALKAALES--SKKLTF 120 (143)
T ss_pred EecHHHHHHHHHHHhC--CCeEEE
Confidence 9999999999999987 344443
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=99.38 E-value=3.7e-12 Score=114.35 Aligned_cols=114 Identities=17% Similarity=0.177 Sum_probs=81.6
Q ss_pred eEEeeecCCCCccccccCCceeeEEEecCCCCCCCCC-CCCCCCcEEEEecCCC--CHHHHHHHHHhcCCcEEEEEecCC
Q 010921 59 EYVGVGARFGRTLEAKEKDASQNRLVLADPPDCCSKP-KNKLTGEAILVHRGGC--SFTAKANFAEEANASAILIINNKT 135 (497)
Q Consensus 59 ~~~~~~A~FG~~lp~~~~~~~~~~Lv~a~p~daC~~~-~~~l~g~IaLV~RG~C--sF~~Ka~nAq~aGA~avIV~n~~~ 135 (497)
++...+..|.+ . +..+++++.+..... ++. ..+++|||||++||.| +|.+|+++|+++||+|+|++|+.+
T Consensus 9 ~~~~~~~~~s~---~---~~~~~~lV~~g~G~~-~d~~~~~v~GkIvlv~~g~~~~~~~~k~~~A~~~GA~avi~~~~~~ 81 (127)
T cd04819 9 AFDAIALPRSP---S---GEAKGEPVDAGYGLP-KDFDGLDLEGKIAVVKRDDPDVDRKEKYAKAVAAGAAAFVVVNTVP 81 (127)
T ss_pred eEEEEEcCCCC---C---CCeeEEEEEeCCCCH-HHcCCCCCCCeEEEEEcCCCchhHHHHHHHHHHCCCEEEEEEeCCC
Confidence 35555555553 1 235788888752210 111 2369999999999999 999999999999999999999876
Q ss_pred cccccccCC-CCCCCcccceEEEechhhhHHHHHHHhcCcEEEEE
Q 010921 136 ELFKMVCES-NETDVDIRIPAIMLPQDAGANLEKLIKNNSVVSVQ 179 (497)
Q Consensus 136 ~l~~m~~~~-~~~~~~i~IPvv~Is~~~G~~L~~~L~~G~~V~V~ 179 (497)
+........ ........||++.|+++||++|++++++|+++.++
T Consensus 82 g~~~~~~~~~~~~~~~~~IP~v~Is~edg~~L~~~l~~g~~~~~~ 126 (127)
T cd04819 82 GVLPATGDEGTEDGPPSPIPAASVSGEDGLRLARVAERNDTLVLR 126 (127)
T ss_pred CcCcccccccccCCCCCCCCEEEEeHHHHHHHHHHHhcCCceEee
Confidence 532211111 11133468999999999999999999999887663
No 24
>PF06550 DUF1119: Protein of unknown function (DUF1119); InterPro: IPR010545 This family consists of several hypothetical archaeal proteins of unknown function.
Probab=99.32 E-value=2.3e-11 Score=121.03 Aligned_cols=116 Identities=24% Similarity=0.346 Sum_probs=90.9
Q ss_pred hhhhhhhhheeeeeecCCcchhHHHHHHHHHHHH--HHHhcccCchhhHHHHHHHHHHhhhheeeecccccccceEEEee
Q 010921 327 CPFCIAFSVVWAVYRRISFAWIGQDILGIALMIT--VLQIVRVPNLKVGTVLLSCAFLYDIFWVFVSKWWFHESVMIVVA 404 (497)
Q Consensus 327 ~~~~~~~~~~w~~~~~~~~~W~l~nilgi~~~~~--~i~~~~l~~~k~~~ilL~~lf~YDif~VF~sp~~~~~svMv~VA 404 (497)
...++.+++..+.+. .|+..|+.|+.++.. .+-.+++.-+. +.+||..+-+||..-||.|+ +|++.|
T Consensus 96 ~~~ai~~~~~L~~yp----EWYviD~~Gil~~aG~aaiFGISl~~lp-aiiLL~iLAVYDaISVYkTk------HMltLA 164 (283)
T PF06550_consen 96 LILAIALTALLYKYP----EWYVIDIAGILMGAGAAAIFGISLGILP-AIILLAILAVYDAISVYKTK------HMLTLA 164 (283)
T ss_pred HHHHHHHHHHHHhcc----hHHHHHHHHHHHHhHHHHHHhhhccHHH-HHHHHHHHHHhhhhheecch------HHHHHH
Confidence 334444444434344 499999999999877 55567887766 79999999999999999655 899999
Q ss_pred ccCCCCCCCCCEEEEcccccCC--------------CCCceeecccchhhhHHHHHHHHHHhhhc
Q 010921 405 RGDRSGEDGIPMLLKIPRLFDP--------------WGGYSVIGFGDIILPGLIVAFSLRYDWLM 455 (497)
Q Consensus 405 ~~~~~~~~~~P~~l~~P~~~~~--------------~~~~s~LGlGDIviPGl~i~~~~rfD~~~ 455 (497)
+|.- +.|+|+.+++|+..+- .++-.++|+||.++|.++++.+..|....
T Consensus 165 egv~--d~klPilfViP~~~~ySf~~~~~~~~~~~~~r~a~fiGlGD~vmPtILVvSa~~f~~~~ 227 (283)
T PF06550_consen 165 EGVM--DLKLPILFVIPKKRGYSFLKDGFDNREEKEERDAFFIGLGDAVMPTILVVSAAFFLSAP 227 (283)
T ss_pred HHHh--ccCCceEEEEecccCccccccccccccccccccceEeccchhhhHHHHHHHHHHhcccc
Confidence 9975 3689999999986431 13446899999999999999999997653
No 25
>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=99.29 E-value=6.7e-12 Score=113.80 Aligned_cols=104 Identities=18% Similarity=0.204 Sum_probs=77.1
Q ss_pred CceeeEEEecCCCCCCCCC-CCCCCCcEEEEecCCC------CHHHH-------HHHHHhcCCcEEEEEecCCcccccc-
Q 010921 77 DASQNRLVLADPPDCCSKP-KNKLTGEAILVHRGGC------SFTAK-------ANFAEEANASAILIINNKTELFKMV- 141 (497)
Q Consensus 77 ~~~~~~Lv~a~p~daC~~~-~~~l~g~IaLV~RG~C------sF~~K-------a~nAq~aGA~avIV~n~~~~l~~m~- 141 (497)
++++++++.++..+.=+.. ..+++|||||++||.| +|..| .++|+++||.|+|++|+.+....+.
T Consensus 15 ~gvta~vv~v~~~~~~~~~~~~~v~GKIvlv~~~~~~~~~~~~~~~k~~~r~~~~~~A~~~GA~avIv~s~~~~~~~~~~ 94 (134)
T cd04815 15 EGITAEVVVVKSFDELKAAPAGAVKGKIVFFNQPMVRTQTGSGYGPTVAYRRRGAVEAAKKGAVAVLIRSIGTDSHRSPH 94 (134)
T ss_pred CCcEEEEEEECCHHHHHhcchhhcCCeEEEecCCccccCchhhcCchhhhhhHHHHHHHhCCCEEEEEEecCcccCCCCc
Confidence 4578898877532211111 2479999999999999 99999 7999999999999999754322111
Q ss_pred -cCCCCCCCcccceEEEechhhhHHHHHHHhcCcEEEEEe
Q 010921 142 -CESNETDVDIRIPAIMLPQDAGANLEKLIKNNSVVSVQL 180 (497)
Q Consensus 142 -~~~~~~~~~i~IPvv~Is~~~G~~L~~~L~~G~~V~V~l 180 (497)
+..........||++.|+.++|+.|.+.+++|++|++++
T Consensus 95 ~G~~~~~~~~~~IP~v~is~ed~~~L~r~l~~g~~v~~~l 134 (134)
T cd04815 95 TGMMSYDDGVPKIPAAAISVEDADMLERLAARGKPIRVNL 134 (134)
T ss_pred CCccccCCCCCCCCEEEechhcHHHHHHHHhCCCCeEEeC
Confidence 111111234679999999999999999999999998864
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=99.17 E-value=1.2e-10 Score=103.32 Aligned_cols=82 Identities=23% Similarity=0.397 Sum_probs=68.6
Q ss_pred CCCCCCCCC---CCCCCcEEEEecCCC-CHHHHHHHHHhcCCcEEEEEecCCcccccccCCCCCCCcccceEEEechhhh
Q 010921 88 PPDCCSKPK---NKLTGEAILVHRGGC-SFTAKANFAEEANASAILIINNKTELFKMVCESNETDVDIRIPAIMLPQDAG 163 (497)
Q Consensus 88 p~daC~~~~---~~l~g~IaLV~RG~C-sF~~Ka~nAq~aGA~avIV~n~~~~l~~m~~~~~~~~~~i~IPvv~Is~~~G 163 (497)
....|++.. .+++|||+|++||+| +|.+|+++||++||.|+|++|+.++...+.. ....||++.|++++|
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 347898764 369999999999999 9999999999999999999998765433321 235799999999999
Q ss_pred HHHHHHHhcCcE
Q 010921 164 ANLEKLIKNNSV 175 (497)
Q Consensus 164 ~~L~~~L~~G~~ 175 (497)
+.|+++++++..
T Consensus 110 ~~l~~y~~~~~~ 121 (126)
T cd02120 110 TAILSYINSTSN 121 (126)
T ss_pred HHHHHHHHcCCC
Confidence 999999988654
No 27
>COG3389 Uncharacterized protein conserved in archaea [Function unknown]
Probab=98.95 E-value=6.9e-10 Score=106.93 Aligned_cols=131 Identities=25% Similarity=0.376 Sum_probs=95.5
Q ss_pred hhhhheeeeeecCCcchhHHHHHHHHHHHHHH--HhcccCchhhHHHHHHHHHHhhhheeeecccccccceEEEeeccCC
Q 010921 331 IAFSVVWAVYRRISFAWIGQDILGIALMITVL--QIVRVPNLKVGTVLLSCAFLYDIFWVFVSKWWFHESVMIVVARGDR 408 (497)
Q Consensus 331 ~~~~~~w~~~~~~~~~W~l~nilgi~~~~~~i--~~~~l~~~k~~~ilL~~lf~YDif~VF~sp~~~~~svMv~VA~~~~ 408 (497)
.+++.++.++++. .|+..|..|.+++...- -.+++.-+. +.+||..+-+||..-|+. |.+|++.|++.-
T Consensus 98 ~aI~~~~lL~~~p--eWyVid~ag~~la~Giaai~GIsfgv~p-avvlL~~lavYDaIsVYk------T~HMIslA~~v~ 168 (277)
T COG3389 98 LAIGLVYLLYKYP--EWYVIDLAGFFLAVGIAAIFGISFGVLP-AVVLLIALAVYDAISVYK------TRHMISLAEGVM 168 (277)
T ss_pred HHHHHHHhhhhcc--ceEEeehHHHHHHhhHHHhheeecchHH-HHHHHHHHHHHHHHHHHh------HHHHHHHHHHHH
Confidence 3344444444432 59999999999887654 467777666 688999999999999995 559999999974
Q ss_pred CCCCCCCEEEEcccccC-----------CCCCceeecccchhhhHHHHHHHHHHhhhcccCCCcchhH--HHHHHHHHHH
Q 010921 409 SGEDGIPMLLKIPRLFD-----------PWGGYSVIGFGDIILPGLIVAFSLRYDWLMKKNFRSGYFV--WAMTAYGLGM 475 (497)
Q Consensus 409 ~~~~~~P~~l~~P~~~~-----------~~~~~s~LGlGDIviPGl~i~~~~rfD~~~~~~~~~~YF~--~~~~~Y~~GL 475 (497)
+.++||++++|...+ .+++--|+|+||+++|.+++..+.-|-.+.. -+|. .++.|=.+|+
T Consensus 169 --d~~lPmlfviP~~l~ysf~~~~fe~r~dgna~miG~GDavmPsIlVvSaa~f~~s~~-----l~f~~Lpal~GglvGl 241 (277)
T COG3389 169 --DLDLPMLFVIPENLAYSFVEDAFENRGDGNAYMIGLGDAVMPSILVVSAAFFLISPI-----LAFIVLPALAGGLVGL 241 (277)
T ss_pred --hcCCceEEEeecccccceeehhhhcCCCCceEEEeechhhcccceeeehHHhccCCc-----hhhhhHHHHhccHHHH
Confidence 367999999996432 1456779999999999999998888865432 1222 2455555555
Q ss_pred HH
Q 010921 476 GK 477 (497)
Q Consensus 476 ~~ 477 (497)
.+
T Consensus 242 ~v 243 (277)
T COG3389 242 AV 243 (277)
T ss_pred HH
Confidence 54
No 28
>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=98.85 E-value=8.1e-09 Score=98.20 Aligned_cols=91 Identities=25% Similarity=0.271 Sum_probs=67.0
Q ss_pred ceeeEEEecCCCCCCCCC--------CCCCCCcEEEEecCCCCHHHHHHHHHhcCCcEEEEEecCCccccc---------
Q 010921 78 ASQNRLVLADPPDCCSKP--------KNKLTGEAILVHRGGCSFTAKANFAEEANASAILIINNKTELFKM--------- 140 (497)
Q Consensus 78 ~~~~~Lv~a~p~daC~~~--------~~~l~g~IaLV~RG~CsF~~Ka~nAq~aGA~avIV~n~~~~l~~m--------- 140 (497)
.++++++.++ .| ... ..+++|||+|++||+|++.+|+++||++||+|+|+|||..+...+
T Consensus 28 ~v~g~lVyvn--~G-~~~Df~~L~~~gv~v~GkIvLvr~G~~~~~~Kv~~A~~~GA~gvIiy~Dp~d~~~~~~~~~~~g~ 104 (183)
T cd02128 28 TVTGKLVYAN--YG-RKKDFEDLQSVGVSVNGSVVLVRAGKISFAEKVANAEKLGAVGVLIYPDPADFPIDPSETALFGH 104 (183)
T ss_pred ceEEEEEEcC--CC-CHHHHHHHHhcCCCCCCeEEEEECCCCCHHHHHHHHHHCCCEEEEEecCHHHcCcccCcceeecc
Confidence 4688999884 22 222 137899999999999999999999999999999999985321110
Q ss_pred ---ccCC---------C-------CCCCcccceEEEechhhhHHHHHHHh
Q 010921 141 ---VCES---------N-------ETDVDIRIPAIMLPQDAGANLEKLIK 171 (497)
Q Consensus 141 ---~~~~---------~-------~~~~~i~IPvv~Is~~~G~~L~~~L~ 171 (497)
..++ . +...-.+||+.-|++++++.|++.|.
T Consensus 105 ~~~~~GDplTPG~ps~~~~~~~~~~~~~lP~IPs~PIS~~da~~lL~~l~ 154 (183)
T cd02128 105 VHLGTGDPYTPGFPSFNHTQFPPSQSSGLPNIPAQTISAAAAAKLLSKMG 154 (183)
T ss_pred eeccCCCcCCCCCccccccccCcccccCCCCCCEeccCHHHHHHHHHHcC
Confidence 0000 0 00123589999999999999999985
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=98.33 E-value=3.9e-06 Score=77.82 Aligned_cols=90 Identities=16% Similarity=0.094 Sum_probs=63.4
Q ss_pred ceeeEEEecC---CCCCCCCCC---CCCCCcEEEEecCC------------------CCHHHHHHHHHhcCCcEEEEEec
Q 010921 78 ASQNRLVLAD---PPDCCSKPK---NKLTGEAILVHRGG------------------CSFTAKANFAEEANASAILIINN 133 (497)
Q Consensus 78 ~~~~~Lv~a~---p~daC~~~~---~~l~g~IaLV~RG~------------------CsF~~Ka~nAq~aGA~avIV~n~ 133 (497)
..++++|.+. ..+.|...+ .+++||||||.||+ |++..|+++|+++||+|+|+||+
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 3678898875 346776554 48999999999985 99999999999999999999998
Q ss_pred CCcccccccCCCCCCCcccceEEEechhhhHHHHHHH
Q 010921 134 KTELFKMVCESNETDVDIRIPAIMLPQDAGANLEKLI 170 (497)
Q Consensus 134 ~~~l~~m~~~~~~~~~~i~IPvv~Is~~~G~~L~~~L 170 (497)
.++... ..+.....+.. .++.++.+..+.+..++
T Consensus 99 ~~~~~~--~~~~~~~~~~~-~~~~~~~~~~~~~~~~~ 132 (151)
T cd04822 99 PNSHSG--DADRLPRFGGT-APQRVDIAAADPWFTAA 132 (151)
T ss_pred CcccCc--ccccccccCcc-ceEEechHHHHHHhhhh
Confidence 654211 00000000111 27788888877777753
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=98.32 E-value=1.8e-06 Score=84.62 Aligned_cols=91 Identities=19% Similarity=0.208 Sum_probs=66.8
Q ss_pred eeeEEEecCCCCCCCCC--------CCCCCCcEEEEecCCCCHHHHHHHHHhcCCcEEEEEecCCcc----------c--
Q 010921 79 SQNRLVLADPPDCCSKP--------KNKLTGEAILVHRGGCSFTAKANFAEEANASAILIINNKTEL----------F-- 138 (497)
Q Consensus 79 ~~~~Lv~a~p~daC~~~--------~~~l~g~IaLV~RG~CsF~~Ka~nAq~aGA~avIV~n~~~~l----------~-- 138 (497)
.++++|.++ .|... ..+++|||||+++|.|.+.+|+++||++||+|+|+|++..+. +
T Consensus 45 v~g~lVyvn---yG~~~D~~~L~~~gvdv~GKIvLvr~G~~~~~~Kv~~A~~~GA~gVIiy~Dp~d~~~~~~~~~~~yP~ 121 (220)
T cd02121 45 VTAELVYAN---YGSPEDFEYLEDLGIDVKGKIVIARYGGIFRGLKVKNAQLAGAVGVIIYSDPADDGYITGENGKTYPD 121 (220)
T ss_pred ceEEEEEcC---CCcHHHHHHHhhcCCCCCCeEEEEECCCccHHHHHHHHHHcCCEEEEEEeCchhcccccccccccCCC
Confidence 578888876 34332 247999999999999999999999999999999999974221 0
Q ss_pred ---------cc--------ccCC---------C--------CCCCcccceEEEechhhhHHHHHHHhc
Q 010921 139 ---------KM--------VCES---------N--------ETDVDIRIPAIMLPQDAGANLEKLIKN 172 (497)
Q Consensus 139 ---------~m--------~~~~---------~--------~~~~~i~IPvv~Is~~~G~~L~~~L~~ 172 (497)
.. ..++ . +...-.+||+.=|+..|++.|++.|..
T Consensus 122 g~~~~~~~vqRgsv~~~~~~~GDplTPG~ps~~~~~r~~~~~~~~lP~IPs~PIS~~da~~lL~~L~g 189 (220)
T cd02121 122 GPARPPSGVQRGSVLFMSIGPGDPLTPGYPSKPGAERRDKEESKGLPKIPSLPISYRDAQPLLKALGG 189 (220)
T ss_pred CCCCCCCcceecceeccccCCCCCCCCCCCCCCCCcccCcccccCCCCCCcccCCHHHHHHHHHHcCC
Confidence 00 0000 0 001124799999999999999999963
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=98.23 E-value=3.3e-06 Score=77.47 Aligned_cols=88 Identities=16% Similarity=0.185 Sum_probs=59.8
Q ss_pred eeeEEEecC---CCCCCCCCC---CCCCCcEEEEecCCC------------------CHHHHHHHHHhcCCcEEEEEecC
Q 010921 79 SQNRLVLAD---PPDCCSKPK---NKLTGEAILVHRGGC------------------SFTAKANFAEEANASAILIINNK 134 (497)
Q Consensus 79 ~~~~Lv~a~---p~daC~~~~---~~l~g~IaLV~RG~C------------------sF~~Ka~nAq~aGA~avIV~n~~ 134 (497)
..+++|.+. ...+|...+ .+++||||||.||+| +|..|+++|+++||+|+|++|+.
T Consensus 20 ~~aelVfvGyGi~a~~~~~dDYag~DVkGKIVlv~~g~P~~~~~~~~~~~~~~~~~~~~~~K~~~A~~~GA~gvIii~~~ 99 (142)
T cd04814 20 KDAPLVFVGYGIKAPELSWDDYAGLDVKGKVVVVLRNDPQGEPGAGDFGGKAMTYYGRWTYKYEEAARHGAAGVLIVHEL 99 (142)
T ss_pred cceeeEEecCCcCCCCCChhhcCCCCCCCcEEEEEcCCCCcccccccccccccccccCHHHHHHHHHHCCCcEEEEEeCC
Confidence 567888774 345676544 489999999999999 69999999999999999999986
Q ss_pred Ccc-cccccCCCCCCCcccce-EEEechhhhHHHHH
Q 010921 135 TEL-FKMVCESNETDVDIRIP-AIMLPQDAGANLEK 168 (497)
Q Consensus 135 ~~l-~~m~~~~~~~~~~i~IP-vv~Is~~~G~~L~~ 168 (497)
+.. .+...-.+. ....++ ...|+...+.+|.+
T Consensus 100 ~~~~~p~~~~~~~--~~~~~~~~~~i~~~~a~~l~~ 133 (142)
T cd04814 100 APASYGWATWKNP--AKVHPNLEAAIQRAVAVDLFE 133 (142)
T ss_pred CcccCChhhhhcc--cccCCceeeEecHHHHHHHHh
Confidence 421 110000001 112222 45677777777655
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=98.19 E-value=4.4e-06 Score=76.20 Aligned_cols=58 Identities=19% Similarity=0.300 Sum_probs=48.4
Q ss_pred ceeeEEEecC---CCCCCCCCC---CCCCCcEEEEecCCCC------------HHHHHHHHHhcCCcEEEEEecCC
Q 010921 78 ASQNRLVLAD---PPDCCSKPK---NKLTGEAILVHRGGCS------------FTAKANFAEEANASAILIINNKT 135 (497)
Q Consensus 78 ~~~~~Lv~a~---p~daC~~~~---~~l~g~IaLV~RG~Cs------------F~~Ka~nAq~aGA~avIV~n~~~ 135 (497)
..++++|.+. ..++|...+ .+++|||||++||+|. +.+|.++|+++||+|+|+||+.+
T Consensus 21 ~v~gelVfvGyG~~~~~~~~~Dy~~iDVkGKIVlv~~g~p~~~~~~~~~~~~~~~~K~~~A~~~GA~aVIi~~d~~ 96 (137)
T cd04820 21 SVEAPLVFVGYGLVAPELGHDDYAGLDVKGKIVVVLSGGPAGIPSEEGAHAHSSNEKARYAAKAGAIGMITLTTPR 96 (137)
T ss_pred CceEeEEEecCCcCccCcCHhhccCCCCCCeEEEEEcCCCCccccccccccccHHHHHHHHHHCCCeEEEEEeCCc
Confidence 4678888775 346776443 4899999999999995 88999999999999999999864
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=97.93 E-value=1.7e-05 Score=73.12 Aligned_cols=92 Identities=14% Similarity=0.065 Sum_probs=63.6
Q ss_pred ceeeEEEecCCC---CC--CCCCCCCCCCcEEEEecCCCCHHHHHHHHHhcCCcEEEEEecCCccc---------c--cc
Q 010921 78 ASQNRLVLADPP---DC--CSKPKNKLTGEAILVHRGGCSFTAKANFAEEANASAILIINNKTELF---------K--MV 141 (497)
Q Consensus 78 ~~~~~Lv~a~p~---da--C~~~~~~l~g~IaLV~RG~CsF~~Ka~nAq~aGA~avIV~n~~~~l~---------~--m~ 141 (497)
.+++++|.++-. |- =.. ..+++|||+|++.|......|++|||++||.|+|||.|..+.- . +.
T Consensus 14 ~Vtg~~VYvNyG~~eDf~~L~~-~V~v~GkIvi~RyG~~~RG~Kv~~A~~~GA~GviIYsDP~d~~~~~~~~~~v~~v~~ 92 (153)
T cd02131 14 TLQAEVVDVQYGSVEDLRRIRD-NMNVTNQIALLKLGQAPLLYKLSLLEEAGFGGVLLYVDPCDLPKTRHTWHQAFMVSL 92 (153)
T ss_pred ceEEEEEEecCCCHHHHHHHHh-CCCccceEEEEeccCcchHHHHHHHHHCCCeEEEEecChhhccCcCCCccceEEEec
Confidence 457777777521 00 011 1479999999999999999999999999999999999853210 0 00
Q ss_pred c--CC--------------CCCCCcccceEEEechhhhHHHHHHH
Q 010921 142 C--ES--------------NETDVDIRIPAIMLPQDAGANLEKLI 170 (497)
Q Consensus 142 ~--~~--------------~~~~~~i~IPvv~Is~~~G~~L~~~L 170 (497)
+ ++ .+...-.+||+.-|+..|++.|+++-
T Consensus 93 ~~~GDP~TPG~PS~~~~~R~~~~~lP~IPs~PIS~~dA~~lL~~~ 137 (153)
T cd02131 93 NPGGDPSTPGYPSADQSCRQCRGNLTSLLVQPISAYLAKKLLSAP 137 (153)
T ss_pred CCCCCCCCCCCccccCcccCCcCCCCCCcccccCHHHHHHHHhCC
Confidence 0 10 00112357999999999999987754
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=94.62 E-value=0.043 Score=51.40 Aligned_cols=57 Identities=21% Similarity=0.279 Sum_probs=40.3
Q ss_pred eeeEEEecC-----CCCCCCCCC-CCCCCcEEEEecCCCCH-------------------HHHHHHHHhcCCcEEEEEec
Q 010921 79 SQNRLVLAD-----PPDCCSKPK-NKLTGEAILVHRGGCSF-------------------TAKANFAEEANASAILIINN 133 (497)
Q Consensus 79 ~~~~Lv~a~-----p~daC~~~~-~~l~g~IaLV~RG~CsF-------------------~~Ka~nAq~aGA~avIV~n~ 133 (497)
..++||.+. |...-++.. .+++||||++.+|+=.| ..|.+.|+++||+|+|++++
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 345666653 222223332 58999999999886533 35999999999999999987
Q ss_pred CC
Q 010921 134 KT 135 (497)
Q Consensus 134 ~~ 135 (497)
..
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=78.15 E-value=3.4 Score=47.47 Aligned_cols=73 Identities=19% Similarity=0.166 Sum_probs=50.6
Q ss_pred EEeeecCCCCccccccCCceeeEEEecCCCCCC-----CCCCCCCCCcEEEEecCCCCHHHHHHHHHhcCCcEEEEEecC
Q 010921 60 YVGVGARFGRTLEAKEKDASQNRLVLADPPDCC-----SKPKNKLTGEAILVHRGGCSFTAKANFAEEANASAILIINNK 134 (497)
Q Consensus 60 ~~~~~A~FG~~lp~~~~~~~~~~Lv~a~p~daC-----~~~~~~l~g~IaLV~RG~CsF~~Ka~nAq~aGA~avIV~n~~ 134 (497)
......+|+...|.. ..++++|.++-...= ++..-+++|+|+|++-|.-.+.+|++||+++||.|+++|.+.
T Consensus 142 ~~~~~~~~~~~s~~g---~~~~~~Vy~N~~~~~d~~~l~~~~i~~~g~i~l~r~~~i~~g~~~~na~~~~a~gviiy~d~ 218 (702)
T KOG2195|consen 142 LPDIVEPFRAYSPSG---SVTGELVYANYGRIEDFYKLEDLGINLSGKIVLARVGKIYRGKKVKNAEAAGADGVIIYTDP 218 (702)
T ss_pred CccccCchhccCcCC---CccceEEEEecCchhhhhHhhcCcccccCceEEEEccccchhhhHhhHHHhhcCcEEEeecc
Confidence 334455565444433 345677766522111 122246889999999999999999999999999999999975
Q ss_pred C
Q 010921 135 T 135 (497)
Q Consensus 135 ~ 135 (497)
.
T Consensus 219 ~ 219 (702)
T KOG2195|consen 219 Y 219 (702)
T ss_pred c
Confidence 3
No 36
>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=50.48 E-value=28 Score=37.57 Aligned_cols=54 Identities=24% Similarity=0.430 Sum_probs=37.5
Q ss_pred eeecccchhhhHHHHHHHHHH-hhhcccCCCcchhHHHHHHHHHHHHHHHHH-H-HHHhhccccc
Q 010921 431 SVIGFGDIILPGLIVAFSLRY-DWLMKKNFRSGYFVWAMTAYGLGMGKAKFV-K-LETIIPCLYK 492 (497)
Q Consensus 431 s~LGlGDIviPGl~i~~~~rf-D~~~~~~~~~~YF~~~~~~Y~~GL~~t~~~-a-L~~i~P~~~~ 492 (497)
--|||||-|+=+++++-+.++ |+. -..++++|-.+||+.|... + .....|||=|
T Consensus 326 ~klGlGDFiFYs~Lvg~aa~~~~~~--------~~~~~~~ail~Gl~~Tl~~l~~~~~alPALPi 382 (403)
T PF01080_consen 326 IKLGLGDFIFYSVLVGRAAMYGDWN--------TVVACFVAILIGLCLTLLLLAIFRKALPALPI 382 (403)
T ss_dssp -SS-TTTHHHHHHHHHHHHHH-TTT--------THHHHHHHHHHHHHHHHHHHHHHT-S-SSSSS
T ss_pred eeecchhHHHHHHHHhHHHhcCCHH--------HHHHHHHHHHHHHHHHHHHHHhcCCCCCCCcH
Confidence 359999999999999988876 332 2458889999999988764 2 2345666644
No 37
>COG4882 Predicted aminopeptidase, Iap family [General function prediction only]
Probab=48.06 E-value=97 Score=33.21 Aligned_cols=113 Identities=16% Similarity=0.148 Sum_probs=70.4
Q ss_pred CCCCcEEEEecCCCCHHHHHH--HHHhcCCcEEEEEecCCcccccccCCCC---CCCcccceEEEechhhhHHHHHHHhc
Q 010921 98 KLTGEAILVHRGGCSFTAKAN--FAEEANASAILIINNKTELFKMVCESNE---TDVDIRIPAIMLPQDAGANLEKLIKN 172 (497)
Q Consensus 98 ~l~g~IaLV~RG~CsF~~Ka~--nAq~aGA~avIV~n~~~~l~~m~~~~~~---~~~~i~IPvv~Is~~~G~~L~~~L~~ 172 (497)
+..|++++-+|-.--...|.. .|.++||.|+|+-.+++.-+. .+++.. ......||+..++..+++..+.
T Consensus 87 D~~Gr~~Va~~pq~vdd~k~~~i~Aae~ga~a~~f~~~~~rriV-~~Gd~gy~~~s~PtPIPva~v~en~~~y~~~---- 161 (486)
T COG4882 87 DAGGRVVVARAPQVVDDLKAAAILAAEAGAEALLFESRDPRRIV-TGGDWGYSVSSSPTPIPVAVVPENYSRYAEE---- 161 (486)
T ss_pred CCCCeEEeeeccccHHHHHHHHHHHHHcCCeEEEEecCCceeEE-ecccccccCCCCCCCcceEEeccCcchhhcc----
Confidence 577899888886655566654 577899999999887654211 111111 1245679999999999887753
Q ss_pred CcEEEEEeecCCCcccchhHHHHHHHHHHHHHHHHHHhhhhhH
Q 010921 173 NSVVSVQLYSPRRPVVDVAEVFLWLMAVGTILCASYWSAWTAR 215 (497)
Q Consensus 173 G~~V~V~l~~p~~p~vD~s~~~L~l~Av~ti~~gs~ws~~~~~ 215 (497)
...+++..+.-++...|++.+..=--==.+++++++|-+|-..
T Consensus 162 ~~rvrl~vD~~~~~ty~y~~Ia~~~~en~vv~i~AH~DHW~~G 204 (486)
T COG4882 162 AGRVRLWVDACVERTYDYNVIAVDGGENGVVLIGAHLDHWYTG 204 (486)
T ss_pred ceeEEEEEecccceeEEEEEEEecCCCCCceEEeechhhhhhc
Confidence 3467777776666656665221100000356677777766443
No 38
>COG1786 Swiveling domain associated with predicted aconitase [Energy production and conversion]
Probab=43.40 E-value=71 Score=29.07 Aligned_cols=73 Identities=16% Similarity=0.177 Sum_probs=48.7
Q ss_pred CCCCCcEEEEe--cCCCCHHHHHHHHHhcC-CcEEEEEecCCcccccccCCCCCCCcccceEEEechhhhHHHHHHHhcC
Q 010921 97 NKLTGEAILVH--RGGCSFTAKANFAEEAN-ASAILIINNKTELFKMVCESNETDVDIRIPAIMLPQDAGANLEKLIKNN 173 (497)
Q Consensus 97 ~~l~g~IaLV~--RG~CsF~~Ka~nAq~aG-A~avIV~n~~~~l~~m~~~~~~~~~~i~IPvv~Is~~~G~~L~~~L~~G 173 (497)
.+++|||.+.. ||.|.=.-=...+.+.| |-+.|+.-+.|......+ ---.||.+-... .+.+.++.|
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 47999999987 78898888888888888 555555544443333222 112688776554 466677888
Q ss_pred cEEEEE
Q 010921 174 SVVSVQ 179 (497)
Q Consensus 174 ~~V~V~ 179 (497)
.+|++.
T Consensus 117 ~~v~v~ 122 (131)
T COG1786 117 DRVRVN 122 (131)
T ss_pred CEEEEc
Confidence 877764
No 39
>KOG2927 consensus Membrane component of ER protein translocation complex [Intracellular trafficking, secretion, and vesicular transport]
Probab=40.50 E-value=14 Score=38.84 Aligned_cols=27 Identities=15% Similarity=0.258 Sum_probs=20.2
Q ss_pred hhhhhhheeeeeecCCcchhHHHHHHH
Q 010921 329 FCIAFSVVWAVYRRISFAWIGQDILGI 355 (497)
Q Consensus 329 ~~~~~~~~w~~~~~~~~~W~l~nilgi 355 (497)
=+++|+++|++++-.+--|++-|++.=
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 366788999999833347999998873
No 40
>PRK11588 hypothetical protein; Provisional
Probab=36.39 E-value=1.9e+02 Score=32.20 Aligned_cols=43 Identities=14% Similarity=0.406 Sum_probs=26.9
Q ss_pred eeeCccchhhhhHHHHHHHHHHHHHhH-HHHHHHHHHHHHHHhH
Q 010921 244 VDINMASAVSFVVIASCFLVMLYKLMS-FWFIEVLVVLFCIGGV 286 (497)
Q Consensus 244 ~~is~~~a~~fpv~as~~Ll~Ly~~~~-~~~~~ll~~~f~i~g~ 286 (497)
.++|.+|-+..-++...+....|=..+ .|-..=+..+|.+.|+
T Consensus 280 ~~~t~r~klvL~~f~~~~~~~i~Gv~~~gW~~~Eia~~Fl~~gi 323 (506)
T PRK11588 280 RPFTFGDWLVLLVLTAVMVWVIWGVVVNAWFIPEIASQFFTMGL 323 (506)
T ss_pred cCcChhhHHHHHHHHHHHHHHHHHhhcccccHHHHHHHHHHHHH
Confidence 479999988887777777777774432 3433334555555443
No 41
>PF06305 DUF1049: Protein of unknown function (DUF1049); InterPro: IPR010445 This entry consists of several hypothetical bacterial proteins of unknown function.
Probab=35.06 E-value=1.4e+02 Score=23.17 Aligned_cols=55 Identities=24% Similarity=0.193 Sum_probs=26.1
Q ss_pred hcCcEEEEEeecCCCcccchhHHHH--HHHHHHHHHHHHHHhhhhhHHHHHHHhhhhc
Q 010921 171 KNNSVVSVQLYSPRRPVVDVAEVFL--WLMAVGTILCASYWSAWTARETAIELDKLLK 226 (497)
Q Consensus 171 ~~G~~V~V~l~~p~~p~vD~s~~~L--~l~Av~ti~~gs~ws~~~~~~~~~~~~~~~~ 226 (497)
++...|++.+..-..+ .-.+.+.+ +++++...++.+.+..++.+.+.++..++++
T Consensus 2 qN~~~V~v~~~~~~~~-~pl~l~il~~f~~G~llg~l~~~~~~~~~r~~~~~~~k~l~ 58 (68)
T PF06305_consen 2 QNTQPVTVNFLFGQFP-LPLGLLILIAFLLGALLGWLLSLPSRLRLRRRIRRLRKELK 58 (68)
T ss_pred CCCceEEEEEEeeecc-chHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3455788887644333 33333333 3444444444555555544444433333333
No 42
>KOG2736 consensus Presenilin [Signal transduction mechanisms]
Probab=33.21 E-value=20 Score=38.12 Aligned_cols=54 Identities=19% Similarity=0.322 Sum_probs=0.0
Q ss_pred ecccchhhhHHHHHHHHHHhhhcccCCCcchhHHHHHHHHHHHHHHHHH--HHHHhhcccccc
Q 010921 433 IGFGDIILPGLIVAFSLRYDWLMKKNFRSGYFVWAMTAYGLGMGKAKFV--KLETIIPCLYKE 493 (497)
Q Consensus 433 LGlGDIviPGl~i~~~~rfD~~~~~~~~~~YF~~~~~~Y~~GL~~t~~~--aL~~i~P~~~~~ 493 (497)
|||||-|+=.++++-+.-+| .... .| +|.+|-.+||++|... ---...||+=++
T Consensus 322 LGlGDFIFYSvLvGkAa~~~-d~~T----vi--AC~vaIL~GL~~TL~llsv~~kALPALPis 377 (406)
T KOG2736|consen 322 LGLGDFIFYSVLVGKAAAYG-DLNT----VI--ACFVAILIGLCLTLLLLSVFKKALPALPIS 377 (406)
T ss_pred eccCceEEEEeeccchhhcC-ChHH----HH--HHHHHHHHHHHHHHHHHHHHhhcCcCCchH
No 43
>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=32.81 E-value=1.2e+02 Score=33.27 Aligned_cols=16 Identities=38% Similarity=0.719 Sum_probs=11.2
Q ss_pred ecccchhhh--HHHHHHH
Q 010921 433 IGFGDIILP--GLIVAFS 448 (497)
Q Consensus 433 LGlGDIviP--Gl~i~~~ 448 (497)
=|+|+.+-| |.+++.+
T Consensus 414 ~gl~n~isPtsg~~m~~l 431 (465)
T PF03606_consen 414 DGLGNSISPTSGVLMAVL 431 (465)
T ss_pred HHHHhhccchHHHHHHHh
Confidence 488999999 4555543
No 44
>PF07787 DUF1625: Protein of unknown function (DUF1625); InterPro: IPR012430 Sequences making up this family are derived from hypothetical proteins expressed by both prokaryotic and eukaryotic species. The region in question is approximately 250 residues long.
Probab=24.81 E-value=1.4e+02 Score=29.70 Aligned_cols=12 Identities=25% Similarity=0.874 Sum_probs=8.4
Q ss_pred hhhhhheeeeee
Q 010921 330 CIAFSVVWAVYR 341 (497)
Q Consensus 330 ~~~~~~~w~~~~ 341 (497)
.+++++.|++||
T Consensus 236 l~~Ia~aW~~yR 247 (248)
T PF07787_consen 236 LLTIALAWLFYR 247 (248)
T ss_pred HHHHHHhheeeC
Confidence 344568888887
No 45
>PF06541 DUF1113: Protein of unknown function (DUF1113); InterPro: IPR010540 This family consists of several bacterial proteins of unknown function.
Probab=22.32 E-value=5.1e+02 Score=23.95 Aligned_cols=26 Identities=19% Similarity=0.252 Sum_probs=18.9
Q ss_pred HHhcccCchhhHHHHHHHHHHhhhhe
Q 010921 362 LQIVRVPNLKVGTVLLSCAFLYDIFW 387 (497)
Q Consensus 362 i~~~~l~~~k~~~ilL~~lf~YDif~ 387 (497)
++.+.-...+..++++..+++.|...
T Consensus 129 ~~~i~~~~~~~~~~~l~~~~~~D~~~ 154 (157)
T PF06541_consen 129 LSKIPPIIRNILALVLLALFLIDFVF 154 (157)
T ss_pred HHhCCHHHHHHHHHHHHHHHHHHHHH
Confidence 44555556677888889999999754
No 46
>PRK03955 hypothetical protein; Reviewed
Probab=21.65 E-value=3.1e+02 Score=25.08 Aligned_cols=71 Identities=13% Similarity=0.099 Sum_probs=44.8
Q ss_pred CCCCCcEEEEe--cCCCCHHHHHHHHHhcC-CcEEEEEecCCcccccccCCCCCCCcccceEEEechhhhHHHHHHHhcC
Q 010921 97 NKLTGEAILVH--RGGCSFTAKANFAEEAN-ASAILIINNKTELFKMVCESNETDVDIRIPAIMLPQDAGANLEKLIKNN 173 (497)
Q Consensus 97 ~~l~g~IaLV~--RG~CsF~~Ka~nAq~aG-A~avIV~n~~~~l~~m~~~~~~~~~~i~IPvv~Is~~~G~~L~~~L~~G 173 (497)
.+++|||.+.. ||.|.=.--...+...| |-+.||..+.+......+- --.||.+.-. . .+.++.|
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------ISGIPLVDKV-----D-ISKLKDG 114 (131)
T ss_pred CccCCEEEEEeCCCcccchHHHHHHHHHcCCCceEEEEecCCceeEeeee------ecCCceEccc-----c-ceecCCC
Confidence 36899999986 78898655555555544 5566666655544333221 1268887622 2 5568889
Q ss_pred cEEEEE
Q 010921 174 SVVSVQ 179 (497)
Q Consensus 174 ~~V~V~ 179 (497)
..|+|.
T Consensus 115 ~~V~Vd 120 (131)
T PRK03955 115 DRVVVD 120 (131)
T ss_pred CEEEEe
Confidence 988885
No 47
>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=20.95 E-value=2.3e+02 Score=23.05 Aligned_cols=34 Identities=24% Similarity=0.423 Sum_probs=27.1
Q ss_pred CCCCCcccceEEEechhhhHHHHHHHhcCcEEEEEeec
Q 010921 145 NETDVDIRIPAIMLPQDAGANLEKLIKNNSVVSVQLYS 182 (497)
Q Consensus 145 ~~~~~~i~IPvv~Is~~~G~~L~~~L~~G~~V~V~l~~ 182 (497)
.++.+++.+| ..+-|+++++...+|+++.|+..+
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 3455678888 468899999999999999888754
Done!