Query 012531
Match_columns 461
No_of_seqs 337 out of 1461
Neff 6.1
Searched_HMMs 46136
Date Fri Mar 29 03:37:02 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/012531.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/012531hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2442 Uncharacterized conser 100.0 2E-110 5E-115 853.5 27.0 428 23-451 14-462 (541)
2 KOG2443 Uncharacterized conser 100.0 1.3E-50 2.8E-55 401.2 19.1 236 177-446 22-278 (362)
3 PF04258 Peptidase_A22B: Signa 100.0 1E-51 2.2E-56 415.3 -0.1 217 230-448 2-241 (298)
4 smart00730 PSN Presenilin, sig 100.0 3E-39 6.5E-44 316.9 16.0 200 234-454 3-207 (249)
5 cd02132 PA_GO-like PA_GO-like: 100.0 4.4E-28 9.5E-33 218.6 15.3 125 46-170 1-139 (139)
6 cd02129 PA_hSPPL_like PA_hSPPL 99.9 4.2E-23 9E-28 181.4 10.7 104 47-169 1-119 (120)
7 cd02126 PA_EDEM3_like PA_EDEM3 99.9 2.5E-21 5.5E-26 171.8 11.3 103 66-170 2-126 (126)
8 cd02127 PA_hPAP21_like PA_hPAP 99.8 1.3E-20 2.7E-25 165.6 12.1 98 70-170 1-116 (118)
9 cd02123 PA_C_RZF_like PA_C-RZF 99.8 4.9E-20 1.1E-24 168.9 13.6 103 60-165 20-142 (153)
10 cd02122 PA_GRAIL_like PA _GRAI 99.8 3.3E-20 7.2E-25 167.2 12.1 101 67-170 18-138 (138)
11 cd02125 PA_VSR PA_VSR: Proteas 99.8 3.2E-19 6.9E-24 158.7 12.0 98 70-170 1-127 (127)
12 cd04818 PA_subtilisin_1 PA_sub 99.8 6E-19 1.3E-23 154.2 12.0 104 67-170 1-118 (118)
13 cd04813 PA_1 PA_1: Protease-as 99.8 5E-19 1.1E-23 155.3 10.0 90 66-160 5-109 (117)
14 cd04816 PA_SaNapH_like PA_SaNa 99.8 1E-17 2.2E-22 147.6 12.5 101 67-170 4-122 (122)
15 cd02130 PA_ScAPY_like PA_ScAPY 99.7 4.6E-17 1E-21 143.3 12.8 102 62-170 7-122 (122)
16 KOG3920 Uncharacterized conser 99.7 4.7E-17 1E-21 146.6 6.5 152 4-173 2-174 (193)
17 cd02124 PA_PoS1_like PA_PoS1_l 99.7 3.8E-16 8.3E-21 139.3 10.8 80 90-170 38-129 (129)
18 KOG4628 Predicted E3 ubiquitin 99.6 2.4E-15 5.3E-20 152.6 15.5 101 61-164 33-151 (348)
19 cd04817 PA_VapT_like PA_VapT_l 99.6 2.3E-15 5E-20 135.8 12.2 85 81-166 34-137 (139)
20 PF02225 PA: PA domain; Inter 99.5 3E-14 6.6E-19 119.8 6.2 78 83-160 6-101 (101)
21 cd00538 PA PA: Protease-associ 99.5 2.3E-13 5E-18 118.6 9.1 81 90-170 27-126 (126)
22 cd02133 PA_C5a_like PA_C5a_lik 99.3 1.1E-11 2.4E-16 112.1 11.5 85 82-171 25-121 (143)
23 cd04819 PA_2 PA_2: Protease-as 99.3 3.1E-11 6.8E-16 107.3 11.1 100 62-169 8-126 (127)
24 cd04815 PA_M28_2 PA_M28_2: Pro 99.2 2.8E-11 6.2E-16 108.6 7.4 90 81-170 15-134 (134)
25 cd02120 PA_subtilisin_like PA_ 99.1 1.7E-10 3.7E-15 101.3 8.9 75 92-166 36-122 (126)
26 PF06550 DUF1119: Protein of u 99.0 2.6E-09 5.5E-14 105.6 13.0 116 314-442 95-226 (283)
27 COG3389 Uncharacterized protei 98.7 2.3E-08 4.9E-13 95.8 6.8 113 318-441 97-222 (277)
28 cd02128 PA_TfR PA_TfR: Proteas 98.7 5E-08 1.1E-12 92.0 8.1 76 83-161 29-154 (183)
29 cd04814 PA_M28_1 PA_M28_1: Pro 98.2 4.7E-06 1E-10 75.8 7.7 57 83-139 20-100 (142)
30 cd04822 PA_M28_1_3 PA_M28_1_3: 98.1 6.8E-06 1.5E-10 75.5 7.8 57 83-139 20-100 (151)
31 cd04820 PA_M28_1_1 PA_M28_1_1: 98.1 7.4E-06 1.6E-10 74.0 7.5 57 83-139 22-96 (137)
32 cd02121 PA_GCPII_like PA_GCPII 98.1 6.4E-06 1.4E-10 80.1 6.7 52 83-137 45-104 (220)
33 cd02131 PA_hNAALADL2_like PA_h 97.7 4.7E-05 1E-09 69.7 4.9 39 101-139 37-75 (153)
34 cd04821 PA_M28_1_2 PA_M28_1_2: 94.9 0.034 7.4E-07 51.5 4.4 39 101-139 46-103 (157)
35 KOG2195 Transferrin receptor a 65.6 6.7 0.00014 44.7 4.1 39 101-139 181-219 (702)
36 KOG2927 Membrane component of 64.7 11 0.00023 39.4 5.0 29 315-343 237-265 (372)
37 COG4882 Predicted aminopeptida 50.5 64 0.0014 34.2 7.8 100 102-205 87-204 (486)
38 PRK11588 hypothetical protein; 49.7 1.3E+02 0.0029 33.1 10.5 43 234-276 280-323 (506)
39 cd03028 GRX_PICOT_like Glutare 47.6 90 0.0019 25.5 7.0 60 104-164 7-88 (90)
40 cd03027 GRX_DEP Glutaredoxin ( 43.2 79 0.0017 24.4 5.8 28 105-132 1-29 (73)
41 COG1786 Swiveling domain assoc 43.0 79 0.0017 28.5 6.2 65 101-169 47-122 (131)
42 TIGR02189 GlrX-like_plant Glut 38.8 1.1E+02 0.0025 25.6 6.5 60 104-164 7-86 (99)
43 PRK10824 glutaredoxin-4; Provi 37.8 1.1E+02 0.0025 26.8 6.4 61 104-164 14-95 (115)
44 PF06541 DUF1113: Protein of u 37.6 2.9E+02 0.0063 25.3 9.4 121 239-375 32-154 (157)
45 cd03029 GRX_hybridPRX5 Glutare 36.7 95 0.0021 23.9 5.3 25 106-130 2-27 (72)
46 PF06305 DUF1049: Protein of u 36.4 83 0.0018 24.2 4.9 47 161-208 2-50 (68)
47 TIGR00365 monothiol glutaredox 35.9 1.7E+02 0.0036 24.5 7.0 60 104-164 11-92 (97)
48 cd03418 GRX_GRXb_1_3_like Glut 33.7 2E+02 0.0044 21.8 6.8 31 106-136 1-31 (75)
49 PF03606 DcuC: C4-dicarboxylat 30.7 1.1E+02 0.0023 33.2 6.2 14 421-434 414-429 (465)
50 TIGR02190 GlrX-dom Glutaredoxi 29.7 1.4E+02 0.003 23.6 5.3 30 103-132 6-36 (79)
51 PF05768 DUF836: Glutaredoxin- 27.3 3.2E+02 0.007 21.8 7.3 46 106-151 1-58 (81)
52 PRK11200 grxA glutaredoxin 1; 25.6 2.1E+02 0.0044 22.8 5.7 22 106-127 2-23 (85)
53 PRK10638 glutaredoxin 3; Provi 25.5 3.1E+02 0.0067 21.7 6.7 46 106-151 3-61 (83)
54 PHA03050 glutaredoxin; Provisi 25.4 2.8E+02 0.0062 23.7 6.8 60 104-163 12-93 (108)
55 cd02066 GRX_family Glutaredoxi 22.1 2.8E+02 0.0061 20.1 5.5 31 106-136 1-31 (72)
56 smart00037 CNX Connexin homolo 21.3 44 0.00095 23.2 0.7 8 38-45 14-21 (34)
57 COG0695 GrxC Glutaredoxin and 21.3 3.4E+02 0.0073 21.8 6.1 45 106-150 2-61 (80)
58 PRK03955 hypothetical protein; 21.1 3.3E+02 0.0072 24.6 6.5 63 101-169 47-120 (131)
59 COG3065 Slp Starvation-inducib 21.0 2.7E+02 0.0058 26.7 6.0 65 1-78 1-65 (191)
60 PF07787 DUF1625: Protein of u 20.9 2.7E+02 0.0059 27.3 6.5 12 318-329 236-247 (248)
61 PTZ00062 glutaredoxin; Provisi 20.0 3.6E+02 0.0078 26.0 7.0 60 104-164 112-193 (204)
62 cd04727 pdxS PdxS is a subunit 20.0 2E+02 0.0043 29.4 5.3 53 115-167 15-91 (283)
No 1
>KOG2442 consensus Uncharacterized conserved protein, contains PA domain [General function prediction only]
Probab=100.00 E-value=2.3e-110 Score=853.46 Aligned_cols=428 Identities=51% Similarity=0.873 Sum_probs=404.4
Q ss_pred cccccCcccccCCCCCCCCCCCCCeEEEEEeeeecCccceeEEeeecccCCccccccCCcceEEEeecCCCCCCCCCCCC
Q 012531 23 ASVTAGDIVHDDDLAPKKPGCENDFVLVKVQTWIDGIENEEFVGVGARFGTTIVSKEKNANQIHLTLSHPRDCCSMPKHK 102 (461)
Q Consensus 23 ~~~~~~~i~~~d~~~~~~p~c~~~f~lvkv~~~v~g~~~~~~~~~~A~FG~~lp~~~~~~~~~~Lv~~~p~~aC~~~~~~ 102 (461)
....++|+.|+++..|+.|||+|+||++|+++|++|++..++.++.++||..++...+.+...++..++|.|.|+++.++
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 55678999999999999999999999999999999999999999999999999988777777788889999999999999
Q ss_pred CcceEEEEecCCCCHHHHHHHHHHcCCcEEEEEecCC--------------CccccEEEechhhhHHHHHHHhcCceEEE
Q 012531 103 YAGDVIMVDRGNCKFTTKANIAEAAGASALLIINNQK--------------DIHIPAVMMPQDAGASLEKMLLNTSSVSV 168 (461)
Q Consensus 103 l~g~IaLV~RG~CsF~~Ka~~Aq~aGA~avIV~n~~~--------------~i~IPvv~Is~~~G~~L~~~l~~g~~V~v 168 (461)
++|+++++.||||+|++|+++||++||+|++|+||.+ +++||++||++++|+++.+....|.+|++
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 9999999999999999999999999999999999943 89999999999999999999999999999
Q ss_pred EEecCCCCcccchhhhHHHHHHHHHHHHHHHhhhhhhHHHHHHHHhhccccCCCCcccccCCCCeeeeCccchhhhhHHH
Q 012531 169 QLYSPRRPVVDVAEVFLWLMAVGTILCASYWSAWSARETAIEQEKLLKDAVDEIPDAKAVGVSGVVDINTASAVLFVLVA 248 (461)
Q Consensus 169 ~l~~p~~p~~D~s~~~L~l~Av~tV~~gs~wS~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~is~~~a~~Fpv~a 248 (461)
.+|+|++|.+|++++++|+|||+||++|+|||++++||+..|+++.++|..+++.+.+|++|++..++|+..|+.|++++
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 99999999999999999999999999999999999999988888888876666667778889999999999999999999
Q ss_pred HHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcccCCceeeeccccccchhhhhhhhHHHHHHHhhhhh
Q 012531 249 SCFLVMLYKLMSNWFLELLVILFCIGGVEGLQTCLVALLSRWFRRAGESFIKVPFFGAVSHLTLAVTPFCIAFAVVWAIY 328 (461)
Q Consensus 249 s~~Ll~Ly~f~~~~~~~ll~~~F~i~g~~~l~~~l~~~~~~~~~~~~~~~~~~p~~~~~~~~~l~~~~~~~~~~~~w~~~ 328 (461)
|.+|++||||++ +++++++++|||+|+.++++|+.++++|++.+..+.....|..|+.++..+++.++|++++++|+++
T Consensus 254 c~~LvLlyfF~~-~~V~v~iiif~i~g~~gLy~Cl~~lv~r~~~~~~~~~~~~~~l~~~~~~~l~l~~~Cia~aV~W~v~ 332 (541)
T KOG2442|consen 254 CGFLVLLYFFYS-YLVYVLIIIFCIGGAQGLYNCLAALVHRLPYGAARFPTLAPRLGNMSYRLLFLSILCIAVAVVWAVF 332 (541)
T ss_pred HHHHHHHHHHHH-HHHHHHhhheeecccchHHHHHHHHHhhhhhhcccccccccccCChhHHHHHHHHhhhheeEEEEEe
Confidence 999999999997 5999999999999999999999999999876655555667788899999999999999999999999
Q ss_pred hccccceeecchhHHHHHHHHHHhcccCchhHHHHHHHHHHhhhheeeeecccccc--ceeEEEeccCCCCCCCCCCEEE
Q 012531 329 RKVSFAWIGQDILGIALIITVLQIVHIPNLKVGTVLLSCAFMYDIFWVFVSKKLFH--ESVMIVVARGDKSGEDGIPMLL 406 (461)
Q Consensus 329 ~~~~~~Wil~nilgi~~~i~~l~~i~l~~~k~~~iLL~~lf~YDIFwVF~sp~~f~--~sVMv~VA~g~~~~~~~~P~~l 406 (461)
|||+|+|++||++|||+|+++++.+||||+|+|++||+++|+|||||||+||++|| ||||++||+|.++++|++||+|
T Consensus 333 R~e~~AwilqDvLGIalci~vLk~vRLPnlK~~tiLL~c~f~YDiF~VFitp~~t~~geSVMieVA~G~~s~~EkiPMlL 412 (541)
T KOG2442|consen 333 RNEDWAWILQDVLGIALCITVLKTVRLPNLKVCTILLLCLFLYDIFFVFITPFITKNGESVMIEVARGPSSTEEKIPMLL 412 (541)
T ss_pred ecCchHHHHHhhHhHHHHHHHHHHhcCCchhHHHHHHHHHHHHhhheeeeehhhccCCceEEEEEecCCCCCCCCcceEE
Confidence 99999999999999999999999999999999999999999999999999999998 9999999999999999999999
Q ss_pred Eecccc-----CCCCceeeccCcchhhHHHHHHHHHHhhcccCCCCccch
Q 012531 407 KIPRMF-----DPWGGYSIIGFGDILLPGLIIAFSLRFKLSDLSSHHIPI 451 (461)
Q Consensus 407 ~~P~~~-----~~~~~~smLGlGDIviPGl~ia~~lrfD~~~~~~~~~~~ 451 (461)
++||++ ++|++|||||||||++||++||||+|||...++.|++|.
T Consensus 413 kVPrl~~s~~~~~~~~~silGFGDIl~PGlLVa~c~RfD~~~~~~~~iYf 462 (541)
T KOG2442|consen 413 KVPRLFFSVLSDPWGGYSILGFGDILVPGLLVAFCLRFDVQVNSVSNIYF 462 (541)
T ss_pred EcchhccccccccCCCeeEeeecccccchHHHHHHHHhhhhccccceeEE
Confidence 999999 899999999999999999999999999999998555543
No 2
>KOG2443 consensus Uncharacterized conserved protein [Function unknown]
Probab=100.00 E-value=1.3e-50 Score=401.18 Aligned_cols=236 Identities=27% Similarity=0.486 Sum_probs=195.2
Q ss_pred cccchhhhHHHHHHHHHHHHHHHhhhhhhHHHHHHHHhhccccCCCCcccccCCCCeeeeCccchhh-hhHHHHHHHHHH
Q 012531 177 VVDVAEVFLWLMAVGTILCASYWSAWSARETAIEQEKLLKDAVDEIPDAKAVGVSGVVDINTASAVL-FVLVASCFLVML 255 (461)
Q Consensus 177 ~~D~s~~~L~l~Av~tV~~gs~wS~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~is~~~a~~-Fpv~as~~Ll~L 255 (461)
..+.+.+.+.++|+.+|++|++||++..+|. +++++..+.++.++|.. ||+++||+|++|
T Consensus 22 ~~~~~~~sl~l~A~l~i~~GsfRS~~~~~~~-------------------~d~~~~~es~t~~~a~~~fPi~~s~tLl~l 82 (362)
T KOG2443|consen 22 LLASAYVSLILIALLLIVIGSFRSLNYIKEN-------------------EDKKDKSESITKRDAGKMFPIIGSCTLLLL 82 (362)
T ss_pred hhcccchHHHHHHHHHHHHHHHHHhhhhhhh-------------------hcccchhhhhhhhhhcccCCcccchHHHHH
Confidence 5677888999999999999999998766431 11124556788888887 999999999999
Q ss_pred HHHhHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHh----hhc---------ccCCceeeeccccccchhhhhhhhHHH
Q 012531 256 YKLMSNW---FLELLVILFCIGGVEGLQTCLVALLSR----WFR---------RAGESFIKVPFFGAVSHLTLAVTPFCI 319 (461)
Q Consensus 256 y~f~~~~---~~~ll~~~F~i~g~~~l~~~l~~~~~~----~~~---------~~~~~~~~~p~~~~~~~~~l~~~~~~~ 319 (461)
|++++.. ..++++.||++.|+.++.+.+.|+++. ..+ +....+...-+.++++..+++....|.
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 9988633 234789999999999999999999871 111 111111122234578888999999999
Q ss_pred HHHHhhhhhhccccceeecchhHHHHHHHHHHhcccCchhHHHHHHHHHHhhhheeeeeccccccceeEEEeccCCCCCC
Q 012531 320 AFAVVWAIYRKVSFAWIGQDILGIALIITVLQIVHIPNLKVGTVLLSCAFMYDIFWVFVSKKLFHESVMIVVARGDKSGE 399 (461)
Q Consensus 320 ~~~~~w~~~~~~~~~Wil~nilgi~~~i~~l~~i~l~~~k~~~iLL~~lf~YDIFwVF~sp~~f~~sVMv~VA~g~~~~~ 399 (461)
.+++.|+.++| |++||++|+++|+++|+.+||||+|+|++||.|||+|||||||+ ++|||+|||+.|
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 679999999976
Q ss_pred CCCCEEEEeccccCCC----CceeeccCcchhhHHHHHHHHHHhhcccCCC
Q 012531 400 DGIPMLLKIPRMFDPW----GGYSIIGFGDILLPGLIIAFSLRFKLSDLSS 446 (461)
Q Consensus 400 ~~~P~~l~~P~~~~~~----~~~smLGlGDIviPGl~ia~~lrfD~~~~~~ 446 (461)
+|+||++|+..... .+||||||||||+||+|+|+++|||.++...
T Consensus 230 --~PikL~fP~~l~~~~~~as~fsMLGLGDIviPGiflAl~lRfD~~k~~~ 278 (362)
T KOG2443|consen 230 --APIKLVFPQKLLFPGLTASNFSMLGLGDIVIPGIFLALVLRFDIRKKRN 278 (362)
T ss_pred --CceEEecchhhccCCCccccceeccccchhhHHHHHHHHHHhhHHHHhc
Confidence 99999999976432 3599999999999999999999999886443
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=1e-51 Score=415.26 Aligned_cols=217 Identities=37% Similarity=0.671 Sum_probs=1.0
Q ss_pred CCCeeeeCccchhhhhHHHHHHHHHHHHHhHHHH------HHHHHHHHHHHHHHHHHHHHHHHHHhhhcc-----cCCce
Q 012531 230 VSGVVDINTASAVLFVLVASCFLVMLYKLMSNWF------LELLVILFCIGGVEGLQTCLVALLSRWFRR-----AGESF 298 (461)
Q Consensus 230 ~~~~~~is~~~a~~Fpv~as~~Ll~Ly~f~~~~~------~~ll~~~F~i~g~~~l~~~l~~~~~~~~~~-----~~~~~ 298 (461)
|++.+++|.+||++||++||++|++|||+++++. +++++.||+++|+.++..++.+.+.+.++. ..+.+
T Consensus 2 ~~~~~~is~~~A~~fpv~~S~~L~gLY~~~k~l~~~~i~~~~vl~~~f~~~gv~a~~~~i~~~l~~~~~~~~~~~~~~~~ 81 (298)
T PF04258_consen 2 EEEEETISSKDALIFPVVASCVLLGLYFFFKYLDKDLINIIYVLTVYFCLAGVIALSFLILPFLTYIFPFFPCRSFPWKK 81 (298)
T ss_dssp --------------------------------------------------------------------------------
T ss_pred CccccccCHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccccccce
Confidence 4566789999999999999999999999987654 468999999999999887777777654331 11222
Q ss_pred eee--------ccccccchhhhhhhhHHHHHHHhhhhhhccccceeecchhHHHHHHHHHHhcccCchhHHHHHHHHHHh
Q 012531 299 IKV--------PFFGAVSHLTLAVTPFCIAFAVVWAIYRKVSFAWIGQDILGIALIITVLQIVHIPNLKVGTVLLSCAFM 370 (461)
Q Consensus 299 ~~~--------p~~~~~~~~~l~~~~~~~~~~~~w~~~~~~~~~Wil~nilgi~~~i~~l~~i~l~~~k~~~iLL~~lf~ 370 (461)
.++ ++.++++..++++.++|+++++.|+++|++ +|++||++|+|+|+++++.+|+||+|++++||+++|+
T Consensus 82 ~~~~~~~~~~~~~~~~~~~~~l~~~~~s~~~~~~w~~~~~~--~W~l~nilgi~~~i~~i~~i~l~s~k~~~ilL~~lf~ 159 (298)
T PF04258_consen 82 WKLSFPRRDIKPFSGSFTLSDLLSFLISLAIAVVWYVYRNE--HWILQNILGICFCINIISLIRLPSFKTATILLIGLFL 159 (298)
T ss_dssp ---------------------------------S----------------------------------------------
T ss_pred EEEEEEcccccceeeeeeHHHHHHHHHHHHHHHHHHHhccc--hHHHHhHHHHHHHHHHHHheeccchHHHHHHHHHHHH
Confidence 222 445677888899999999999999998875 5999999999999999999999999999999999999
Q ss_pred hhheeeeeccccccceeEEEeccCCCCCCCCCCEEEEeccccC----CCCceeeccCcchhhHHHHHHHHHHhhcccCCC
Q 012531 371 YDIFWVFVSKKLFHESVMIVVARGDKSGEDGIPMLLKIPRMFD----PWGGYSIIGFGDILLPGLIIAFSLRFKLSDLSS 446 (461)
Q Consensus 371 YDIFwVF~sp~~f~~sVMv~VA~g~~~~~~~~P~~l~~P~~~~----~~~~~smLGlGDIviPGl~ia~~lrfD~~~~~~ 446 (461)
|||||||+||++||+|||++||||..++++++|||+++||..+ ..++||||||||||+||+|+++|+|||.+++..
T Consensus 160 YDif~VF~s~~~~g~svM~~VA~~~~~~~~~~P~~l~~P~~~~~~~~~~~~~s~LGlGDIviPGl~i~~~~rfD~~~~~~ 239 (298)
T PF04258_consen 160 YDIFWVFISPYFFGTSVMVTVATGGFDAPEKLPIKLQFPRFFDSNSSCPKPFSMLGLGDIVIPGLFIAFCLRFDKSRNKS 239 (298)
T ss_dssp --------------------------------------------------------------------------------
T ss_pred HHHHHHHhccccCCCchhhhhhccccccccCCCeEEEEeccccccccCCCCeeEeccchHHHHHHHHHHHHHhhHhhccc
Confidence 9999999999999999999999994445578899999999863 457999999999999999999999999998443
Q ss_pred Cc
Q 012531 447 HH 448 (461)
Q Consensus 447 ~~ 448 (461)
++
T Consensus 240 ~~ 241 (298)
T PF04258_consen 240 RK 241 (298)
T ss_dssp --
T ss_pred cc
Confidence 33
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=3e-39 Score=316.90 Aligned_cols=200 Identities=36% Similarity=0.538 Sum_probs=172.0
Q ss_pred eeeCccchhhhhHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcccCCceeeeccccccchhhhh
Q 012531 234 VDINTASAVLFVLVASCFLVMLYKLMSNWFLELLVILFCIGGVEGLQTCLVALLSRWFRRAGESFIKVPFFGAVSHLTLA 313 (461)
Q Consensus 234 ~~is~~~a~~Fpv~as~~Ll~Ly~f~~~~~~~ll~~~F~i~g~~~l~~~l~~~~~~~~~~~~~~~~~~p~~~~~~~~~l~ 313 (461)
+.+|+++++.||+++|++|++||++++.+ +..+.++|+++|+.+++.++.+..... .+..+.+
T Consensus 3 ~~~n~~~~i~fii~~s~~Ll~Ly~~~~~~-~i~~~~~f~~~~~~~~~~~~~~~~~~~----------------~~~~~~~ 65 (249)
T smart00730 3 SLLNSLVAIVFPIVATFVLVLLYKFFKYL-VIVLVIYFSSLGVLFLYSLLYPLEVFR----------------VDYPTLL 65 (249)
T ss_pred ccccHHHHhhHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHH----------------HhHHHHH
Confidence 46899999999999999999999999876 788899999999999999888765432 2345566
Q ss_pred hhhHHHHHHHhhhhhhccccceeecchhHHHHHHHHHHhcccCchhHHHHHHHHHHhhhheeeeeccccccceeEEEecc
Q 012531 314 VTPFCIAFAVVWAIYRKVSFAWIGQDILGIALIITVLQIVHIPNLKVGTVLLSCAFMYDIFWVFVSKKLFHESVMIVVAR 393 (461)
Q Consensus 314 ~~~~~~~~~~~w~~~~~~~~~Wil~nilgi~~~i~~l~~i~l~~~k~~~iLL~~lf~YDIFwVF~sp~~f~~sVMv~VA~ 393 (461)
...++++++..|.++|+ ++|+.||++|+++|+.+++.+|+||+|++++||+++|+|||||||+||. +++|||+|||
T Consensus 66 ~~~~~~~v~~~~~~~~~--~~w~~~~~lgi~~~~~~~~~~~l~~~~~~~iLL~~l~iYDif~Vf~t~~--~~~vMv~vA~ 141 (249)
T smart00730 66 ILLLNFAVVGFWCIHRK--GAWIQQDLIGISLCMAILFILRLPSEWTAWILLGALFIYDIFAVFGTPG--PLRVMVEVAT 141 (249)
T ss_pred HHHHHHHHHHHHHHHhh--hHHHHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHheeecCCC--CchHHhhHhc
Confidence 77788889999998886 6899999999999999999999999999999999999999999999997 8999999999
Q ss_pred CCCCCCCCCCEEEEeccc-----cCCCCceeeccCcchhhHHHHHHHHHHhhcccCCCCccchhhh
Q 012531 394 GDKSGEDGIPMLLKIPRM-----FDPWGGYSIIGFGDILLPGLIIAFSLRFKLSDLSSHHIPISAL 454 (461)
Q Consensus 394 g~~~~~~~~P~~l~~P~~-----~~~~~~~smLGlGDIviPGl~ia~~lrfD~~~~~~~~~~~~~~ 454 (461)
|.++..|.+|+++..||. .+..++++||||||||+||+++++|+|||..++..+....+++
T Consensus 142 ~~~~~~~~~P~ll~~p~~~~~~~~~~~~~~~~LGLGDiv~Pgilv~~a~~fd~~~~~~~~yf~~~~ 207 (249)
T smart00730 142 GRDEPIKVFPALLYVPRLVVSFEDDEEGRFSMLGLGDIVFPGILVASAARFDVSVRSDSNYFLACF 207 (249)
T ss_pred cCCCCcccCChhhcccccccccccCCCCccceecCCCeeeHHHHHHHHHHhhhcccCCcccHHHHH
Confidence 987333568999999984 2234689999999999999999999999987665555555444
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=99.96 E-value=4.4e-28 Score=218.58 Aligned_cols=125 Identities=55% Similarity=0.888 Sum_probs=117.6
Q ss_pred CeEEEEEeeeecCccceeEEeeecccCCccccccCCcceEEEeecCCCCCCCCCCCCCcceEEEEecCCCCHHHHHHHHH
Q 012531 46 DFVLVKVQTWIDGIENEEFVGVGARFGTTIVSKEKNANQIHLTLSHPRDCCSMPKHKYAGDVIMVDRGNCKFTTKANIAE 125 (461)
Q Consensus 46 ~f~lvkv~~~v~g~~~~~~~~~~A~FG~~lp~~~~~~~~~~Lv~~~p~~aC~~~~~~l~g~IaLV~RG~CsF~~Ka~~Aq 125 (461)
+|+||+|.+|.+|.+.++|.+.+|+||+.+|++..++.+++++.++|.+||++.+++++|+|+||+||+|+|.+|++|||
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 59999999999999999999999999999998877788999999999999999988999999999999999999999999
Q ss_pred HcCCcEEEEEecCC--------------CccccEEEechhhhHHHHHHHhcCceEEEEE
Q 012531 126 AAGASALLIINNQK--------------DIHIPAVMMPQDAGASLEKMLLNTSSVSVQL 170 (461)
Q Consensus 126 ~aGA~avIV~n~~~--------------~i~IPvv~Is~~~G~~L~~~l~~g~~V~v~l 170 (461)
++||+++||||+.+ +++||+++|++++|+.|++++++|++|++++
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 99999999998764 3589999999999999999999999998864
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=99.89 E-value=4.2e-23 Score=181.43 Aligned_cols=104 Identities=26% Similarity=0.473 Sum_probs=93.5
Q ss_pred eEEEEEeeeecCccceeEEeeecccCCccccccCCcceEEEeecCCCCCCCCCC---CCCcceEEEEecCCCCHHHHHHH
Q 012531 47 FVLVKVQTWIDGIENEEFVGVGARFGTTIVSKEKNANQIHLTLSHPRDCCSMPK---HKYAGDVIMVDRGNCKFTTKANI 123 (461)
Q Consensus 47 f~lvkv~~~v~g~~~~~~~~~~A~FG~~lp~~~~~~~~~~Lv~~~p~~aC~~~~---~~l~g~IaLV~RG~CsF~~Ka~~ 123 (461)
||+.++++|. .+|++.+++.+.||+.++|..||++.+ .+++|+|+||+||+|+|.+|++|
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 7889999993 589888889999999999999999887 47899999999999999999999
Q ss_pred HHHcCCcEEEEEecCC------------CccccEEEechhhhHHHHHHHhcCceEEEE
Q 012531 124 AEAAGASALLIINNQK------------DIHIPAVMMPQDAGASLEKMLLNTSSVSVQ 169 (461)
Q Consensus 124 Aq~aGA~avIV~n~~~------------~i~IPvv~Is~~~G~~L~~~l~~g~~V~v~ 169 (461)
||++||+|+|||||++ +++||++||++++|+.|++.+. ..|+|+
T Consensus 64 Aq~aGA~aVII~nn~~~~~~~~~~~~~~~v~IP~v~Is~~dG~~i~~~l~--~~~~v~ 119 (120)
T cd02129 64 AQSLGAEGLLIVSRERLVPPSGNRSEYEKIDIPVALLSYKDMLDIQQTFG--DSVKVA 119 (120)
T ss_pred HHHCCCCEEEEEECCCCCCCCCCCCCCcCCcccEEEEeHHHHHHHHHHhc--cCcEEe
Confidence 9999999999999875 4789999999999999999996 445554
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=99.86 E-value=2.5e-21 Score=171.83 Aligned_cols=103 Identities=27% Similarity=0.490 Sum_probs=91.0
Q ss_pred eeecccCCccccccCCcceEEEeecCCCCCCCCCCC--CCcceEEEEecCCCCHHHHHHHHHHcCCcEEEEEecCC----
Q 012531 66 GVGARFGTTIVSKEKNANQIHLTLSHPRDCCSMPKH--KYAGDVIMVDRGNCKFTTKANIAEAAGASALLIINNQK---- 139 (461)
Q Consensus 66 ~~~A~FG~~lp~~~~~~~~~~Lv~~~p~~aC~~~~~--~l~g~IaLV~RG~CsF~~Ka~~Aq~aGA~avIV~n~~~---- 139 (461)
+.+|+||.++|... ...++|+.++|.++|++.++ +++|||+|++||+|+|.+|+++||++||+|+||+|+.+
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 46899999999743 25779999999999998874 68999999999999999999999999999999997542
Q ss_pred ----------------CccccEEEechhhhHHHHHHHhcCceEEEEE
Q 012531 140 ----------------DIHIPAVMMPQDAGASLEKMLLNTSSVSVQL 170 (461)
Q Consensus 140 ----------------~i~IPvv~Is~~~G~~L~~~l~~g~~V~v~l 170 (461)
+++||+++|++++|+.|++++++|.+|++.+
T Consensus 80 ~~~~~~~m~~~~~~~~~~~IP~v~I~~~dG~~L~~~l~~~~~~~~~~ 126 (126)
T cd02126 80 DTAPMFAMSGDGDSTDDVTIPVVFLFSKEGSKLLAAIKEHQNVEVLL 126 (126)
T ss_pred cccceeEeecCCCCCCCCeEEEEEEEHHHHHHHHHHHHhCCceEEeC
Confidence 3579999999999999999999999998864
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=99.84 E-value=1.3e-20 Score=165.65 Aligned_cols=98 Identities=27% Similarity=0.469 Sum_probs=87.1
Q ss_pred ccCCccccccCCcceEEEeecCCCCCCCCCCC--CCcceEEEEecCCCCHHHHHHHHHHcCCcEEEEEecCC--------
Q 012531 70 RFGTTIVSKEKNANQIHLTLSHPRDCCSMPKH--KYAGDVIMVDRGNCKFTTKANIAEAAGASALLIINNQK-------- 139 (461)
Q Consensus 70 ~FG~~lp~~~~~~~~~~Lv~~~p~~aC~~~~~--~l~g~IaLV~RG~CsF~~Ka~~Aq~aGA~avIV~n~~~-------- 139 (461)
.||..++.+. ..++|+.++|.+||++.++ +++|+|+||+||+|+|.+|+++||++||+|+||||+.+
T Consensus 1 ~~~~~~~~~~---~~~~lv~~~p~~gC~~~~~~~~~~g~I~Lv~RG~C~F~~K~~~Aq~aGA~avII~n~~~~~~~~~~~ 77 (118)
T cd02127 1 DFGTIFNTRY---KHVPLVPADPLEACEELRNIHDINGNIALIERGGCSFLTKAINAQKAGALAVIITDVNNDSDEYYVE 77 (118)
T ss_pred CCCccccccc---cceEEEECCccccCCCCCCccccCCeEEEEECCCCCHHHHHHHHHHCCCcEEEEEECCCCccccceE
Confidence 4888888764 5678999999999998763 68999999999999999999999999999999999743
Q ss_pred --------CccccEEEechhhhHHHHHHHhcCceEEEEE
Q 012531 140 --------DIHIPAVMMPQDAGASLEKMLLNTSSVSVQL 170 (461)
Q Consensus 140 --------~i~IPvv~Is~~~G~~L~~~l~~g~~V~v~l 170 (461)
+++||+++|++++|+.|++.+++|..+++.+
T Consensus 78 m~~~~~~~~i~IP~v~Is~~dG~~L~~~l~~g~~~~~~~ 116 (118)
T cd02127 78 MIQDDSSRRADIPAAFLLGKNGYMIRKTLERLGLPYAII 116 (118)
T ss_pred ecCCCCCCCceEEEEEecHHHHHHHHHHHHcCCceEEee
Confidence 3689999999999999999999999887765
No 9
>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=99.83 E-value=4.9e-20 Score=168.87 Aligned_cols=103 Identities=27% Similarity=0.457 Sum_probs=92.1
Q ss_pred cceeEEeeecccCCccccccCCcceEEEeecCCCCCCCCCC------CCCcceEEEEecCCCCHHHHHHHHHHcCCcEEE
Q 012531 60 ENEEFVGVGARFGTTIVSKEKNANQIHLTLSHPRDCCSMPK------HKYAGDVIMVDRGNCKFTTKANIAEAAGASALL 133 (461)
Q Consensus 60 ~~~~~~~~~A~FG~~lp~~~~~~~~~~Lv~~~p~~aC~~~~------~~l~g~IaLV~RG~CsF~~Ka~~Aq~aGA~avI 133 (461)
+..++.+.+|+||+..+. ++..++|+.++|.+||++.+ ++.+|+|+||+||+|+|.+|++|||++||+|+|
T Consensus 20 ~~~~~~~~~A~FG~~~~~---~~~~g~lv~~~p~~gC~~~~~~~~~~~~~~g~IvLV~RG~CtF~~Kv~nAq~aGA~avI 96 (153)
T cd02123 20 LTDEFDDLPANFGPIPPG---SGLKGVLVVAEPLNACSPIENPPLNSNASGSFIVLIRRGNCSFETKVRNAQRAGYKAAI 96 (153)
T ss_pred ccceEeeecccCCCCCCC---CceEEEEEeCCccccCCCCcccccccccCCCeEEEEECCCCCHHHHHHHHHHCCCCEEE
Confidence 567899999999988774 34678899999999999876 468899999999999999999999999999999
Q ss_pred EEecCC--------------CccccEEEechhhhHHHHHHHhcCce
Q 012531 134 IINNQK--------------DIHIPAVMMPQDAGASLEKMLLNTSS 165 (461)
Q Consensus 134 V~n~~~--------------~i~IPvv~Is~~~G~~L~~~l~~g~~ 165 (461)
|||+++ +++||+++|++++|+.|++.+++++.
T Consensus 97 I~n~~~~~~~~m~~~~~~~~~v~IP~v~Is~~dg~~L~~~l~~~~~ 142 (153)
T cd02123 97 VYNDESNDLISMSGNDQEIKGIDIPSVFVGKSTGEILKKYASYEKG 142 (153)
T ss_pred EEECCCCcceeccCCCCCCcCCEEEEEEeeHHHHHHHHHHHhcCCc
Confidence 999864 36899999999999999999998877
No 10
>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=99.83 E-value=3.3e-20 Score=167.22 Aligned_cols=101 Identities=24% Similarity=0.367 Sum_probs=87.1
Q ss_pred eecccCCccccccCCcceEEEeec---CCCCCCCCCCC-----CCcceEEEEecCCCCHHHHHHHHHHcCCcEEEEEecC
Q 012531 67 VGARFGTTIVSKEKNANQIHLTLS---HPRDCCSMPKH-----KYAGDVIMVDRGNCKFTTKANIAEAAGASALLIINNQ 138 (461)
Q Consensus 67 ~~A~FG~~lp~~~~~~~~~~Lv~~---~p~~aC~~~~~-----~l~g~IaLV~RG~CsF~~Ka~~Aq~aGA~avIV~n~~ 138 (461)
..|+||.++|.++ ..+.|+.. ++.+||+++++ +.+|+||||+||+|+|.+|++|||++||+++||||++
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 4899999988765 45556544 45799998764 5789999999999999999999999999999999987
Q ss_pred C------------CccccEEEechhhhHHHHHHHhcCceEEEEE
Q 012531 139 K------------DIHIPAVMMPQDAGASLEKMLLNTSSVSVQL 170 (461)
Q Consensus 139 ~------------~i~IPvv~Is~~~G~~L~~~l~~g~~V~v~l 170 (461)
+ ..+||+++|++++|+.|++++++|++|++++
T Consensus 95 ~~~~~~~~m~~~~~~~ip~v~Is~~~G~~l~~~l~~G~~Vtv~~ 138 (138)
T cd02122 95 GTGNETVKMSHPGTGDIVAIMITNPKGMEILELLERGISVTMVI 138 (138)
T ss_pred CCCCceeeccCCCCCcceEEEEcHHHHHHHHHHHHcCCcEEEeC
Confidence 4 2479999999999999999999999998863
No 11
>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=99.80 E-value=3.2e-19 Score=158.71 Aligned_cols=98 Identities=29% Similarity=0.423 Sum_probs=81.0
Q ss_pred ccCCccccccCCcceEEEeec-CCCCCCCCCCC---------CCcceEEEEecCCCCHHHHHHHHHHcCCcEEEEEecCC
Q 012531 70 RFGTTIVSKEKNANQIHLTLS-HPRDCCSMPKH---------KYAGDVIMVDRGNCKFTTKANIAEAAGASALLIINNQK 139 (461)
Q Consensus 70 ~FG~~lp~~~~~~~~~~Lv~~-~p~~aC~~~~~---------~l~g~IaLV~RG~CsF~~Ka~~Aq~aGA~avIV~n~~~ 139 (461)
.||.+.... ...+.|+.+ ++.++|++.+. ...++|+||+||+|+|.+|++|||++||+++||||+.+
T Consensus 1 ~FG~~~yg~---~~~G~l~~~~~~~~gC~~~~~~~~~~~~~~~~~~~IvLv~RG~C~F~~K~~~Aq~aGA~avII~n~~~ 77 (127)
T cd02125 1 NFGLPQYGG---TLTGVVVYPKENRTGCKEFDVFFKPKKSEPGRRPVILLLDRGGCFFTLKAWNAQQAGAAAVLVADNVD 77 (127)
T ss_pred CCCCCCcCC---eeEEEEEecCCccccCCCCcccccccccccCCCceEEEEECCCcCHHHHHHHHHHCCCcEEEEEECCC
Confidence 367553321 245566665 57899998763 36789999999999999999999999999999999854
Q ss_pred -------------------CccccEEEechhhhHHHHHHHhcCceEEEEE
Q 012531 140 -------------------DIHIPAVMMPQDAGASLEKMLLNTSSVSVQL 170 (461)
Q Consensus 140 -------------------~i~IPvv~Is~~~G~~L~~~l~~g~~V~v~l 170 (461)
+++||+++|++++|+.|++.+++|++|+|++
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 2469999999999999999999999999875
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=99.79 E-value=6e-19 Score=154.21 Aligned_cols=104 Identities=35% Similarity=0.557 Sum_probs=93.3
Q ss_pred eecccCCccccccCCcceEEEeecCCCCCCCCCC--CCCcceEEEEecCCCCHHHHHHHHHHcCCcEEEEEecCC-----
Q 012531 67 VGARFGTTIVSKEKNANQIHLTLSHPRDCCSMPK--HKYAGDVIMVDRGNCKFTTKANIAEAAGASALLIINNQK----- 139 (461)
Q Consensus 67 ~~A~FG~~lp~~~~~~~~~~Lv~~~p~~aC~~~~--~~l~g~IaLV~RG~CsF~~Ka~~Aq~aGA~avIV~n~~~----- 139 (461)
++|+||+.++........++++.+++.++|++.. ++++|||+|++||+|+|.+|+++|+++||+|+|+||+.+
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 4799999998754456889999999999999876 479999999999999999999999999999999998765
Q ss_pred -------CccccEEEechhhhHHHHHHHhcCceEEEEE
Q 012531 140 -------DIHIPAVMMPQDAGASLEKMLLNTSSVSVQL 170 (461)
Q Consensus 140 -------~i~IPvv~Is~~~G~~L~~~l~~g~~V~v~l 170 (461)
...||+++|++++|+.|++++++|++|++++
T Consensus 81 ~~~~~~~~~~iP~v~V~~~~g~~l~~~l~~g~~v~v~~ 118 (118)
T cd04818 81 TMGGDDPDITIPAVMISQADGDALKAALAAGGTVTVTL 118 (118)
T ss_pred eccCCCCCCEEeEEEecHHHHHHHHHHHhcCCcEEEeC
Confidence 2469999999999999999999999998874
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=99.79 E-value=5e-19 Score=155.33 Aligned_cols=90 Identities=27% Similarity=0.475 Sum_probs=77.5
Q ss_pred eeecccCCccccccCCcceEEEeecCCCCCCCCCC-CCCcceEEEEecCCCCHHHHHHHHHHcCCcEEEEEecCC-----
Q 012531 66 GVGARFGTTIVSKEKNANQIHLTLSHPRDCCSMPK-HKYAGDVIMVDRGNCKFTTKANIAEAAGASALLIINNQK----- 139 (461)
Q Consensus 66 ~~~A~FG~~lp~~~~~~~~~~Lv~~~p~~aC~~~~-~~l~g~IaLV~RG~CsF~~Ka~~Aq~aGA~avIV~n~~~----- 139 (461)
+++|+|||.+....++. ..++|.+||++.+ .+++|||+||+||+|+|.+|++|||++||+++||||+.+
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 47899999987654321 2378899999886 579999999999999999999999999999999998654
Q ss_pred ---------CccccEEEechhhhHHHHHHH
Q 012531 140 ---------DIHIPAVMMPQDAGASLEKML 160 (461)
Q Consensus 140 ---------~i~IPvv~Is~~~G~~L~~~l 160 (461)
+++||+++|++++|+.|++.+
T Consensus 80 ~m~~~~~~~~v~IPav~Is~~~g~~L~~l~ 109 (117)
T cd04813 80 TMFSNGDTDNVTIPAMFTSRTSYHLLSSLL 109 (117)
T ss_pred ecccCCCCCCcEEEEEEEcHHHHHHHHHhc
Confidence 468999999999999998876
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=99.75 E-value=1e-17 Score=147.60 Aligned_cols=101 Identities=26% Similarity=0.511 Sum_probs=86.3
Q ss_pred eecccCCccccccCCcceEEEeecCC--CCCCCCCC---CCCcceEEEEecCCCCHHHHHHHHHHcCCcEEEEEecCC--
Q 012531 67 VGARFGTTIVSKEKNANQIHLTLSHP--RDCCSMPK---HKYAGDVIMVDRGNCKFTTKANIAEAAGASALLIINNQK-- 139 (461)
Q Consensus 67 ~~A~FG~~lp~~~~~~~~~~Lv~~~p--~~aC~~~~---~~l~g~IaLV~RG~CsF~~Ka~~Aq~aGA~avIV~n~~~-- 139 (461)
+...|++..|. ++.+++++..++ .++|++.+ .+++|||+|++||+|+|.+|++|||++||+++|+||+.+
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 45677777664 346778888765 58999865 479999999999999999999999999999999999765
Q ss_pred -----------CccccEEEechhhhHHHHHHHhcCceEEEEE
Q 012531 140 -----------DIHIPAVMMPQDAGASLEKMLLNTSSVSVQL 170 (461)
Q Consensus 140 -----------~i~IPvv~Is~~~G~~L~~~l~~g~~V~v~l 170 (461)
...||+++|++++|+.|++++++|.+|++++
T Consensus 81 ~~~~~~~~~~~~~~iP~~~Is~~~G~~l~~~l~~g~~v~~~~ 122 (122)
T cd04816 81 GTAGTLGAPNIDLKVPVGVITKAAGAALRRRLGAGETLELDA 122 (122)
T ss_pred cccccccCCCCCCeeeEEEEcHHHHHHHHHHHcCCCEEEEeC
Confidence 2469999999999999999999999998864
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=99.72 E-value=4.6e-17 Score=143.27 Aligned_cols=102 Identities=29% Similarity=0.461 Sum_probs=85.1
Q ss_pred eeEEeeecccCCccccccCCcceEEEeecCCCCCCCCCC--CCCcceEEEEecCCCCHHHHHHHHHHcCCcEEEEEecC-
Q 012531 62 EEFVGVGARFGTTIVSKEKNANQIHLTLSHPRDCCSMPK--HKYAGDVIMVDRGNCKFTTKANIAEAAGASALLIINNQ- 138 (461)
Q Consensus 62 ~~~~~~~A~FG~~lp~~~~~~~~~~Lv~~~p~~aC~~~~--~~l~g~IaLV~RG~CsF~~Ka~~Aq~aGA~avIV~n~~- 138 (461)
..|...+..|.+. . ...++++.. +.++|++.+ .+++|||+||+||+|+|.+|++|||++||+++||||+.
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 4566666555544 1 246788875 468999765 47999999999999999999999999999999999987
Q ss_pred C-----------CccccEEEechhhhHHHHHHHhcCceEEEEE
Q 012531 139 K-----------DIHIPAVMMPQDAGASLEKMLLNTSSVSVQL 170 (461)
Q Consensus 139 ~-----------~i~IPvv~Is~~~G~~L~~~l~~g~~V~v~l 170 (461)
+ +..||+++|++++|+.|++.+++|++|++++
T Consensus 80 ~~~~~~~~~~~~~~~Ip~v~Is~~~G~~L~~~l~~g~~v~~~~ 122 (122)
T cd02130 80 AGGLSGTLGEPSGPYVPTVGISQEDGKALVAALANGGEVSANL 122 (122)
T ss_pred CcccccccCCCCCCEeeEEEecHHHHHHHHHHHhcCCcEEEeC
Confidence 2 3579999999999999999999999998874
No 16
>KOG3920 consensus Uncharacterized conserved protein, contains PA domain [General function prediction only]
Probab=99.68 E-value=4.7e-17 Score=146.59 Aligned_cols=152 Identities=23% Similarity=0.344 Sum_probs=117.6
Q ss_pred ccchHHHHHHHHHHHhhcccccccCcccccCCCCCCCCCCCCCeEEEEEeeeecCccceeEEeeecc-cCCccccccCCc
Q 012531 4 KRLSWVLFPVAVVSLVCYPASVTAGDIVHDDDLAPKKPGCENDFVLVKVQTWIDGIENEEFVGVGAR-FGTTIVSKEKNA 82 (461)
Q Consensus 4 ~~~~~~~~~~~~~~l~~~~~~~~~~~i~~~d~~~~~~p~c~~~f~lvkv~~~v~g~~~~~~~~~~A~-FG~~lp~~~~~~ 82 (461)
++++|+++.+.+...+..+... +..+..+| +.+..+ ..++....+|...+|. ||...|++-.
T Consensus 2 ~p~gWl~l~~~L~~~vaa~~~~--~~~v~~qD-----------~~~F~v--lsP~~l~Yty~~~pAkdfG~~F~~r~e-- 64 (193)
T KOG3920|consen 2 KPRGWLLLSFLLIIQVAAAKIP--YEEVENQD-----------NMLFTV--LSPYTLAYTYQMKPAKDFGVHFPDRFE-- 64 (193)
T ss_pred CcceehHHHHHHHHHHHHccCC--cceeeecc-----------eEEEEe--cCcccEEEEEEecchhhhccccchhhc--
Confidence 5799999988887775444322 22222233 333333 2356677889999998 9999998653
Q ss_pred ceEEEeecCCCCCCCCCCC--CCcceEEEEecCCCCHHHHHHHHHHcCCcEEEEEecCC------------------Ccc
Q 012531 83 NQIHLTLSHPRDCCSMPKH--KYAGDVIMVDRGNCKFTTKANIAEAAGASALLIINNQK------------------DIH 142 (461)
Q Consensus 83 ~~~~Lv~~~p~~aC~~~~~--~l~g~IaLV~RG~CsF~~Ka~~Aq~aGA~avIV~n~~~------------------~i~ 142 (461)
..+||.++|+.||+.+.| ...|.|+|++||+|+|..|.+|+|++||.++||.++.. +-+
T Consensus 65 -~~~lV~adPp~aC~elrN~~f~~d~vaL~eRGeCSFl~Ktl~~e~aGa~aiiitd~~~~~~sf~~YveMI~D~sq~~An 143 (193)
T KOG3920|consen 65 -NLELVLADPPHACEELRNEIFAPDSVALMERGECSFLVKTLNGEKAGATAIIITDSQNYEYSFHQYVEMIPDESQDRAN 143 (193)
T ss_pred -CcceeecCChhHHHHHhhcccCCCcEEEEecCCceeeehhhhhhhcCceEEEEecCCCCchhHHHHHHhcCcccccccC
Confidence 568999999999999885 57899999999999999999999999999999987644 579
Q ss_pred ccEEEechhhhHHHHHHHhcCceEEEEEecC
Q 012531 143 IPAVMMPQDAGASLEKMLLNTSSVSVQLYSP 173 (461)
Q Consensus 143 IPvv~Is~~~G~~L~~~l~~g~~V~v~l~~p 173 (461)
||++++-..+|-.++..|++-..+...+.-|
T Consensus 144 iPa~fllg~~Gy~ir~sL~r~~r~ha~i~IP 174 (193)
T KOG3920|consen 144 IPAVFLLGVTGYYIRVSLKRYFRDHAKIDIP 174 (193)
T ss_pred CceEEEeccceEEEehhHHHhCCccEEEecc
Confidence 9999999999999888887766555555444
No 17
>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=99.66 E-value=3.8e-16 Score=139.33 Aligned_cols=80 Identities=34% Similarity=0.476 Sum_probs=69.7
Q ss_pred cCCCCCCCCCC---CCCcceEEEEecCCCCHHHHHHHHHHcCCcEEEEEecCC---------CccccEEEechhhhHHHH
Q 012531 90 SHPRDCCSMPK---HKYAGDVIMVDRGNCKFTTKANIAEAAGASALLIINNQK---------DIHIPAVMMPQDAGASLE 157 (461)
Q Consensus 90 ~~p~~aC~~~~---~~l~g~IaLV~RG~CsF~~Ka~~Aq~aGA~avIV~n~~~---------~i~IPvv~Is~~~G~~L~ 157 (461)
+++.+||++++ .+++|||+||+||+|+|.+|++|||++||+++||||+++ ...+|.+++ +++|+.|+
T Consensus 38 ~~~~~gC~~~~~~~~~~~g~IaLv~rg~c~f~~K~~nA~~aGA~aviiyn~~~~~~~~~~~~~~~~~~~~~-~~~G~~l~ 116 (129)
T cd02124 38 SVADDACQPLPDDTPDLSGYIVLVRRGTCTFATKAANAAAKGAKYVLIYNNGSGPTDQVGSDADSIIAAVT-PEDGEAWI 116 (129)
T ss_pred CCCcccCcCCCcccccccCeEEEEECCCCCHHHHHHHHHHcCCcEEEEEECCCCcccccCCCCcceeeEEe-HHHHHHHH
Confidence 45779999875 368999999999999999999999999999999999875 234666666 99999999
Q ss_pred HHHhcCceEEEEE
Q 012531 158 KMLLNTSSVSVQL 170 (461)
Q Consensus 158 ~~l~~g~~V~v~l 170 (461)
+++++|++|++++
T Consensus 117 ~~l~~G~~vtv~f 129 (129)
T cd02124 117 DALAAGSNVTVDF 129 (129)
T ss_pred HHHhcCCeEEEeC
Confidence 9999999998874
No 18
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.65 E-value=2.4e-15 Score=152.61 Aligned_cols=101 Identities=25% Similarity=0.371 Sum_probs=87.3
Q ss_pred ceeEEeeecccCCccccccCCcceEEEeecCCCCCCCCCCC------CCcceEEEEecCCCCHHHHHHHHHHcCCcEEEE
Q 012531 61 NEEFVGVGARFGTTIVSKEKNANQIHLTLSHPRDCCSMPKH------KYAGDVIMVDRGNCKFTTKANIAEAAGASALLI 134 (461)
Q Consensus 61 ~~~~~~~~A~FG~~lp~~~~~~~~~~Lv~~~p~~aC~~~~~------~l~g~IaLV~RG~CsF~~Ka~~Aq~aGA~avIV 134 (461)
+.+|.+.+|.||+.++.++ ..+-++.++|.+||+|..+ .-...++||+||+|+|.+|+++||++|++|+||
T Consensus 33 S~sf~d~~a~f~~s~~~e~---~~G~l~~~ep~~aC~~i~~~p~~~~~~~~~laLI~Rg~CsFe~Kv~~AQ~aGfkaaIV 109 (348)
T KOG4628|consen 33 SLSFADLPALFGPSLPSEG---NLGVLVVAEPLNACNPITNFPEHSTRSTSFLALIRRGGCSFEDKVLNAQRAGFKAAIV 109 (348)
T ss_pred cccccCCccccCCcccccc---ceeeeecCCCccccCccccCccCCCCCcceEEEEEccCCchHHHHhhcccccCceEEE
Confidence 3488999999999998765 5677899999999999753 456789999999999999999999999999999
Q ss_pred EecCC------------CccccEEEechhhhHHHHHHHhcCc
Q 012531 135 INNQK------------DIHIPAVMMPQDAGASLEKMLLNTS 164 (461)
Q Consensus 135 ~n~~~------------~i~IPvv~Is~~~G~~L~~~l~~g~ 164 (461)
|||.. ++.|++++++...|+.|.+....+.
T Consensus 110 ynn~~~~~lv~~~~~~~~v~i~~~~vs~~~ge~l~~~~~~~~ 151 (348)
T KOG4628|consen 110 YNNVGSEDLVAMASNPSKVDIHIVFVSVFSGELLSSYAGRTE 151 (348)
T ss_pred ecCCCCchheeeccCCccceeEEEEEeeehHHHHHHhhcccc
Confidence 99644 7899999999999999998654443
No 19
>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=99.63 E-value=2.3e-15 Score=135.80 Aligned_cols=85 Identities=24% Similarity=0.292 Sum_probs=71.1
Q ss_pred CcceEEEeecCCCCCCCCCCCCCcceEEEEecCCCC-----HHHHHHHHHHcCCcEEEEEecC--C------------Cc
Q 012531 81 NANQIHLTLSHPRDCCSMPKHKYAGDVIMVDRGNCK-----FTTKANIAEAAGASALLIINNQ--K------------DI 141 (461)
Q Consensus 81 ~~~~~~Lv~~~p~~aC~~~~~~l~g~IaLV~RG~Cs-----F~~Ka~~Aq~aGA~avIV~n~~--~------------~i 141 (461)
+...++|+..... +|+-...+.+|||+||+||+|+ |.+|++|||++||+|+|||||. + ++
T Consensus 34 g~~tg~lv~~g~~-g~d~~~~d~~GkIaLI~RG~c~~~~~~f~~Kv~~A~~aGA~avIIyNn~~~~g~~~~~lg~~~~~~ 112 (139)
T cd04817 34 GSATGSLYYCGTS-GGSYICGGMAGKICLIERGGNSKSVYPEIDKVKACQNAGAIAAIVYSNAALAGLQNPFLVDTNNDT 112 (139)
T ss_pred CcceEEEEEccCC-CccccCCCcCccEEEEECCCCCCCcccHHHHHHHHHHCCCeEEEEEeCCCCCCcccccccCCCCCc
Confidence 3456788887643 4754445799999999999999 9999999999999999999997 3 36
Q ss_pred cccEEEechhhhHHHHHHHhcCceE
Q 012531 142 HIPAVMMPQDAGASLEKMLLNTSSV 166 (461)
Q Consensus 142 ~IPvv~Is~~~G~~L~~~l~~g~~V 166 (461)
+||+++|++++|+.|++++.++.+|
T Consensus 113 ~IP~v~is~~dG~~L~~~l~~~~tv 137 (139)
T cd04817 113 TIPSVSVDRADGQALLAALGQSTTV 137 (139)
T ss_pred eEeEEEeeHHHHHHHHHHhcCCCee
Confidence 8999999999999999998555444
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=99.49 E-value=3e-14 Score=119.79 Aligned_cols=78 Identities=27% Similarity=0.479 Sum_probs=60.5
Q ss_pred ceEEEeecCC---CCCCCCC---CCCCcceEEEEecCCCCHHHHHHHHHHcCCcEEEEEecCC------------Ccccc
Q 012531 83 NQIHLTLSHP---RDCCSMP---KHKYAGDVIMVDRGNCKFTTKANIAEAAGASALLIINNQK------------DIHIP 144 (461)
Q Consensus 83 ~~~~Lv~~~p---~~aC~~~---~~~l~g~IaLV~RG~CsF~~Ka~~Aq~aGA~avIV~n~~~------------~i~IP 144 (461)
.+++||...+ ...|.+. ..+++|||+|++||+|+|.+|+++||++||+|+||+|+.+ +.+||
T Consensus 6 ~~~~lV~~~~~~~~~~~~~~~~~~~~~~gkIvlv~rg~~~~~~k~~~a~~~GA~gvIi~~~~~~~~~~~~~~~~~~~~iP 85 (101)
T PF02225_consen 6 VTGPLVPAGNGIDEGDCCPSDYNGSDVKGKIVLVERGSCSFDDKVRNAQKAGAKGVIIYNPPPNNGSMIDSEDPDPIDIP 85 (101)
T ss_dssp EEEEEEEETTEEECCHHHHHHTSTSTCTTSEEEEESTSSCHHHHHHHHHHTTESEEEEE-TSCSCTTTTCEBTTTSTBSE
T ss_pred EEEEEEEecCCCCcccccccccCCccccceEEEEecCCCCHHHHHHHHHHcCCEEEEEEeCCccccCcccccCCCCcEEE
Confidence 4667773332 2233322 2579999999999999999999999999999999999211 68999
Q ss_pred EEEechhhhHHHHHHH
Q 012531 145 AVMMPQDAGASLEKML 160 (461)
Q Consensus 145 vv~Is~~~G~~L~~~l 160 (461)
+++|++++|+.|++++
T Consensus 86 ~v~I~~~~g~~L~~~i 101 (101)
T PF02225_consen 86 VVFISYEDGEALLAYI 101 (101)
T ss_dssp EEEE-HHHHHHHHHHH
T ss_pred EEEeCHHHHhhhhccC
Confidence 9999999999999864
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=99.46 E-value=2.3e-13 Score=118.62 Aligned_cols=81 Identities=33% Similarity=0.554 Sum_probs=71.1
Q ss_pred cCCCCCCCCCC-----CCCcceEEEEecCCCCHHHHHHHHHHcCCcEEEEEecCC--------------CccccEEEech
Q 012531 90 SHPRDCCSMPK-----HKYAGDVIMVDRGNCKFTTKANIAEAAGASALLIINNQK--------------DIHIPAVMMPQ 150 (461)
Q Consensus 90 ~~p~~aC~~~~-----~~l~g~IaLV~RG~CsF~~Ka~~Aq~aGA~avIV~n~~~--------------~i~IPvv~Is~ 150 (461)
..+.++|++.. .+++|||+|++||+|+|.+|+++||++||+|+|++|+.+ +..||+++|++
T Consensus 27 ~~~~~~C~~~~~~~~~~~~~GkIvl~~~g~~~~~~k~~~a~~~GA~gvii~~~~~~~~~~~~~~~~~~~~~~iP~~~is~ 106 (126)
T cd00538 27 AGPLVGCGYGTTDDSGADVKGKIVLVRRGGCSFSEKVKNAQKAGAKAVIIYNNGDDPGPQMGSVGLESTDPSIPTVGISY 106 (126)
T ss_pred ccceEEEecCcccccCCCccceEEEEECCCcCHHHHHHHHHHCCCEEEEEEECCCCcccccccccCCCCCCcEeEEEeCH
Confidence 34667887753 468999999999999999999999999999999998763 24799999999
Q ss_pred hhhHHHHHHHhcCceEEEEE
Q 012531 151 DAGASLEKMLLNTSSVSVQL 170 (461)
Q Consensus 151 ~~G~~L~~~l~~g~~V~v~l 170 (461)
++|+.|++++++|.++++++
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=99.33 E-value=1.1e-11 Score=112.07 Aligned_cols=85 Identities=25% Similarity=0.396 Sum_probs=68.7
Q ss_pred cceEEEeecCCCCCCCC--CC-CCCcceEEEEecCCCCHHHHHHHHHHcCCcEEEEEecCC---------CccccEEEec
Q 012531 82 ANQIHLTLSHPRDCCSM--PK-HKYAGDVIMVDRGNCKFTTKANIAEAAGASALLIINNQK---------DIHIPAVMMP 149 (461)
Q Consensus 82 ~~~~~Lv~~~p~~aC~~--~~-~~l~g~IaLV~RG~CsF~~Ka~~Aq~aGA~avIV~n~~~---------~i~IPvv~Is 149 (461)
...++++.+.. |++ .. .+++|||+|++||+|+|.+|+++||++||+|+|++|+.+ ...||+++|+
T Consensus 25 ~~~~~lv~~g~---g~~~d~~~~dv~GkIvL~~rg~c~~~~K~~~a~~aGA~gvIi~n~~~~~~~~~~~~~~~iP~v~Is 101 (143)
T cd02133 25 GKTYELVDAGL---GTPEDFEGKDVKGKIALIQRGEITFVEKIANAKAAGAVGVIIYNNVDGLIPGTLGEAVFIPVVFIS 101 (143)
T ss_pred CcEEEEEEccC---CchhccCCCCccceEEEEECCCCCHHHHHHHHHHCCCeEEEEeecCCCcccccCCCCCeEeEEEec
Confidence 35667877542 232 22 469999999999999999999999999999999999876 2479999999
Q ss_pred hhhhHHHHHHHhcCceEEEEEe
Q 012531 150 QDAGASLEKMLLNTSSVSVQLY 171 (461)
Q Consensus 150 ~~~G~~L~~~l~~g~~V~v~l~ 171 (461)
+++|+.|++++++ ++++++.
T Consensus 102 ~~dG~~L~~~l~~--~~~i~~~ 121 (143)
T cd02133 102 KEDGEALKAALES--SKKLTFN 121 (143)
T ss_pred HHHHHHHHHHHhC--CCeEEEE
Confidence 9999999999977 4444443
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=99.27 E-value=3.1e-11 Score=107.26 Aligned_cols=100 Identities=17% Similarity=0.171 Sum_probs=76.6
Q ss_pred eeEEeeecccCCccccccCCcceEEEeecCCCCCC-CCC-CCCCcceEEEEecCCC--CHHHHHHHHHHcCCcEEEEEec
Q 012531 62 EEFVGVGARFGTTIVSKEKNANQIHLTLSHPRDCC-SMP-KHKYAGDVIMVDRGNC--KFTTKANIAEAAGASALLIINN 137 (461)
Q Consensus 62 ~~~~~~~A~FG~~lp~~~~~~~~~~Lv~~~p~~aC-~~~-~~~l~g~IaLV~RG~C--sF~~Ka~~Aq~aGA~avIV~n~ 137 (461)
.+|...+..|.+. +...++++.+.. +- ++. ..+++|||||++||.| +|.+|+++|+++||+|+|++|+
T Consensus 8 ~~~~~~~~~~s~~------~~~~~~lV~~g~--G~~~d~~~~~v~GkIvlv~~g~~~~~~~~k~~~A~~~GA~avi~~~~ 79 (127)
T cd04819 8 LAFDAIALPRSPS------GEAKGEPVDAGY--GLPKDFDGLDLEGKIAVVKRDDPDVDRKEKYAKAVAAGAAAFVVVNT 79 (127)
T ss_pred ceEEEEEcCCCCC------CCeeEEEEEeCC--CCHHHcCCCCCCCeEEEEEcCCCchhHHHHHHHHHHCCCEEEEEEeC
Confidence 3455555555532 224667877642 21 111 2369999999999999 9999999999999999999987
Q ss_pred CC---------------CccccEEEechhhhHHHHHHHhcCceEEEE
Q 012531 138 QK---------------DIHIPAVMMPQDAGASLEKMLLNTSSVSVQ 169 (461)
Q Consensus 138 ~~---------------~i~IPvv~Is~~~G~~L~~~l~~g~~V~v~ 169 (461)
.+ ...||++.|+++||+.|++++++|+.+.++
T Consensus 80 ~~g~~~~~~~~~~~~~~~~~IP~v~Is~edg~~L~~~l~~g~~~~~~ 126 (127)
T cd04819 80 VPGVLPATGDEGTEDGPPSPIPAASVSGEDGLRLARVAERNDTLVLR 126 (127)
T ss_pred CCCcCcccccccccCCCCCCCCEEEEeHHHHHHHHHHHhcCCceEee
Confidence 54 257999999999999999999999877664
No 24
>cd04815 PA_M28_2 PA_M28_2: Protease-associated (PA) domain, peptidase family M28, subfamily-2. A subfamily of PA-domain containing proteins belonging to the peptidase family M28. Family M28 contains aminopeptidases and carboxypeptidases, and has co-catalytic zinc ions. The PA domain is an insert domain in a diverse fraction of proteases. The significance of the PA domain to many of the proteins in which it is inserted is undetermined. It may be a protein-protein interaction domain. At peptidase active sites, the PA domain may participate in substrate binding and/or promoting conformational changes, which influence the stability and accessibility of the site to substrate. Proteins into which the PA domain is inserted include the following members of the peptidase family M28: i) prostate-specific membrane antigen (PSMA), ii) yeast aminopeptidase Y, and ii) human TfR (transferrin receptor)1 and human TfR2. The proteins listed above belong to other subfamilies; relatively little is known a
Probab=99.21 E-value=2.8e-11 Score=108.61 Aligned_cols=90 Identities=18% Similarity=0.222 Sum_probs=72.6
Q ss_pred CcceEEEeecCCCCCCCCC-CCCCcceEEEEecCCC------CHHHH-------HHHHHHcCCcEEEEEecCC-------
Q 012531 81 NANQIHLTLSHPRDCCSMP-KHKYAGDVIMVDRGNC------KFTTK-------ANIAEAAGASALLIINNQK------- 139 (461)
Q Consensus 81 ~~~~~~Lv~~~p~~aC~~~-~~~l~g~IaLV~RG~C------sF~~K-------a~~Aq~aGA~avIV~n~~~------- 139 (461)
++++++++.....+.=... ..+++|||||++||.| +|..| .++|+++||.|+|++|+.+
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 4567788876532211111 2479999999999999 99999 7999999999999999531
Q ss_pred ---------CccccEEEechhhhHHHHHHHhcCceEEEEE
Q 012531 140 ---------DIHIPAVMMPQDAGASLEKMLLNTSSVSVQL 170 (461)
Q Consensus 140 ---------~i~IPvv~Is~~~G~~L~~~l~~g~~V~v~l 170 (461)
...||++.|+.++|+.|.+.+++|+.|++++
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 3579999999999999999999999898864
No 25
>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=99.14 E-value=1.7e-10 Score=101.26 Aligned_cols=75 Identities=23% Similarity=0.406 Sum_probs=65.9
Q ss_pred CCCCCCCCC---CCCcceEEEEecCCC-CHHHHHHHHHHcCCcEEEEEecCC--------CccccEEEechhhhHHHHHH
Q 012531 92 PRDCCSMPK---HKYAGDVIMVDRGNC-KFTTKANIAEAAGASALLIINNQK--------DIHIPAVMMPQDAGASLEKM 159 (461)
Q Consensus 92 p~~aC~~~~---~~l~g~IaLV~RG~C-sF~~Ka~~Aq~aGA~avIV~n~~~--------~i~IPvv~Is~~~G~~L~~~ 159 (461)
....|++.. .+.+|||+|++||+| +|.+|+++||++||.|+|++|+.. ...||++.|++++|+.|+++
T Consensus 36 ~~~~C~~~~~~~~~v~GkIVlc~~~~~~~~~~k~~~~~~~GA~gvI~~~~~~~~~~~~~~~~~iP~v~I~~~~g~~l~~y 115 (126)
T cd02120 36 DASLCLPGSLDPSKVKGKIVLCDRGGNTSRVAKGDAVKAAGGAGMILANDPTDGLDVVADAHVLPAVHVDYEDGTAILSY 115 (126)
T ss_pred ccccCCCCCCChhhccccEEEEeCCCCccHHHHHHHHHHcCCcEEEEEecCCCCceecccccccceEEECHHHHHHHHHH
Confidence 346898764 368999999999999 999999999999999999999865 26899999999999999999
Q ss_pred HhcCceE
Q 012531 160 LLNTSSV 166 (461)
Q Consensus 160 l~~g~~V 166 (461)
++++..-
T Consensus 116 ~~~~~~~ 122 (126)
T cd02120 116 INSTSNP 122 (126)
T ss_pred HHcCCCc
Confidence 9877543
No 26
>PF06550 DUF1119: Protein of unknown function (DUF1119); InterPro: IPR010545 This family consists of several hypothetical archaeal proteins of unknown function.
Probab=99.03 E-value=2.6e-09 Score=105.62 Aligned_cols=116 Identities=23% Similarity=0.364 Sum_probs=88.2
Q ss_pred hhhHHHHHHHhhhhhhccccceeecchhHHHHHHH--HHHhcccCchhHHHHHHHHHHhhhheeeeeccccccceeEEEe
Q 012531 314 VTPFCIAFAVVWAIYRKVSFAWIGQDILGIALIIT--VLQIVHIPNLKVGTVLLSCAFMYDIFWVFVSKKLFHESVMIVV 391 (461)
Q Consensus 314 ~~~~~~~~~~~w~~~~~~~~~Wil~nilgi~~~i~--~l~~i~l~~~k~~~iLL~~lf~YDIFwVF~sp~~f~~sVMv~V 391 (461)
....++++++..+.++ .|+..|+.|+.++.. .+=-+++.-+. +.+||..+=+||-.=|| ||..|++.
T Consensus 95 a~~~ai~~~~~L~~yp----EWYviD~~Gil~~aG~aaiFGISl~~lp-aiiLL~iLAVYDaISVY------kTkHMltL 163 (283)
T PF06550_consen 95 ALILAIALTALLYKYP----EWYVIDIAGILMGAGAAAIFGISLGILP-AIILLAILAVYDAISVY------KTKHMLTL 163 (283)
T ss_pred HHHHHHHHHHHHHhcc----hHHHHHHHHHHHHhHHHHHHhhhccHHH-HHHHHHHHHHhhhhhee------cchHHHHH
Confidence 3344445444444444 499999999999866 44456666554 78999999999999999 45579999
Q ss_pred ccCCCCCCCCCCEEEEeccccCC--------------CCceeeccCcchhhHHHHHHHHHHhhcc
Q 012531 392 ARGDKSGEDGIPMLLKIPRMFDP--------------WGGYSIIGFGDILLPGLIIAFSLRFKLS 442 (461)
Q Consensus 392 A~g~~~~~~~~P~~l~~P~~~~~--------------~~~~smLGlGDIviPGl~ia~~lrfD~~ 442 (461)
|.|.- +.++|+++++|+..+. .++-.++|+||.++|.++++-...|...
T Consensus 164 Aegv~--d~klPilfViP~~~~ySf~~~~~~~~~~~~~r~a~fiGlGD~vmPtILVvSa~~f~~~ 226 (283)
T PF06550_consen 164 AEGVM--DLKLPILFVIPKKRGYSFLKDGFDNREEKEERDAFFIGLGDAVMPTILVVSAAFFLSA 226 (283)
T ss_pred HHHHh--ccCCceEEEEecccCccccccccccccccccccceEeccchhhhHHHHHHHHHHhccc
Confidence 99964 3589999999986421 1233689999999999999999998655
No 27
>COG3389 Uncharacterized protein conserved in archaea [Function unknown]
Probab=98.72 E-value=2.3e-08 Score=95.83 Aligned_cols=113 Identities=27% Similarity=0.469 Sum_probs=84.9
Q ss_pred HHHHHHhhhhhhccccceeecchhHHHHHHHHH--HhcccCchhHHHHHHHHHHhhhheeeeeccccccceeEEEeccCC
Q 012531 318 CIAFAVVWAIYRKVSFAWIGQDILGIALIITVL--QIVHIPNLKVGTVLLSCAFMYDIFWVFVSKKLFHESVMIVVARGD 395 (461)
Q Consensus 318 ~~~~~~~w~~~~~~~~~Wil~nilgi~~~i~~l--~~i~l~~~k~~~iLL~~lf~YDIFwVF~sp~~f~~sVMv~VA~g~ 395 (461)
.++++.++..+++. .|+..|..|.+++...- --+++.-+. +.+||..+=+||-.=|+ ||..|++.|+|.
T Consensus 97 ~~aI~~~~lL~~~p--eWyVid~ag~~la~Giaai~GIsfgv~p-avvlL~~lavYDaIsVY------kT~HMIslA~~v 167 (277)
T COG3389 97 GLAIGLVYLLYKYP--EWYVIDLAGFFLAVGIAAIFGISFGVLP-AVVLLIALAVYDAISVY------KTRHMISLAEGV 167 (277)
T ss_pred HHHHHHHHhhhhcc--ceEEeehHHHHHHhhHHHhheeecchHH-HHHHHHHHHHHHHHHHH------hHHHHHHHHHHH
Confidence 34455555555532 59999999999876544 446666554 78899999999999999 667899999996
Q ss_pred CCCCCCCCEEEEeccccC-----------CCCceeeccCcchhhHHHHHHHHHHhhc
Q 012531 396 KSGEDGIPMLLKIPRMFD-----------PWGGYSIIGFGDILLPGLIIAFSLRFKL 441 (461)
Q Consensus 396 ~~~~~~~P~~l~~P~~~~-----------~~~~~smLGlGDIviPGl~ia~~lrfD~ 441 (461)
- ..++||++++|...+ ..++--|+|+||+++|-+++.-+.-|-.
T Consensus 168 ~--d~~lPmlfviP~~l~ysf~~~~fe~r~dgna~miG~GDavmPsIlVvSaa~f~~ 222 (277)
T COG3389 168 M--DLDLPMLFVIPENLAYSFVEDAFENRGDGNAYMIGLGDAVMPSILVVSAAFFLI 222 (277)
T ss_pred H--hcCCceEEEeecccccceeehhhhcCCCCceEEEeechhhcccceeeehHHhcc
Confidence 3 257999999996432 1345679999999999999877666543
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=98.69 E-value=5e-08 Score=91.99 Aligned_cols=76 Identities=25% Similarity=0.259 Sum_probs=62.3
Q ss_pred ceEEEeecCCCCCCCCCC--------CCCcceEEEEecCCCCHHHHHHHHHHcCCcEEEEEecCC---------------
Q 012531 83 NQIHLTLSHPRDCCSMPK--------HKYAGDVIMVDRGNCKFTTKANIAEAAGASALLIINNQK--------------- 139 (461)
Q Consensus 83 ~~~~Lv~~~p~~aC~~~~--------~~l~g~IaLV~RG~CsF~~Ka~~Aq~aGA~avIV~n~~~--------------- 139 (461)
..++++.++ .| ++.+ .+++|||+|++||+|++.+|+++||++||+|+|+|||..
T Consensus 29 v~g~lVyvn--~G-~~~Df~~L~~~gv~v~GkIvLvr~G~~~~~~Kv~~A~~~GA~gvIiy~Dp~d~~~~~~~~~~~g~~ 105 (183)
T cd02128 29 VTGKLVYAN--YG-RKKDFEDLQSVGVSVNGSVVLVRAGKISFAEKVANAEKLGAVGVLIYPDPADFPIDPSETALFGHV 105 (183)
T ss_pred eEEEEEEcC--CC-CHHHHHHHHhcCCCCCCeEEEEECCCCCHHHHHHHHHHCCCEEEEEecCHHHcCcccCcceeecce
Confidence 567888774 22 2221 378999999999999999999999999999999999831
Q ss_pred ---------------------------CccccEEEechhhhHHHHHHHh
Q 012531 140 ---------------------------DIHIPAVMMPQDAGASLEKMLL 161 (461)
Q Consensus 140 ---------------------------~i~IPvv~Is~~~G~~L~~~l~ 161 (461)
--.||+.=|++.+++.|.+.+.
T Consensus 106 ~~~~GDplTPG~ps~~~~~~~~~~~~~lP~IPs~PIS~~da~~lL~~l~ 154 (183)
T cd02128 106 HLGTGDPYTPGFPSFNHTQFPPSQSSGLPNIPAQTISAAAAAKLLSKMG 154 (183)
T ss_pred eccCCCcCCCCCccccccccCcccccCCCCCCEeccCHHHHHHHHHHcC
Confidence 0259999999999999999885
No 29
>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=98.19 E-value=4.7e-06 Score=75.76 Aligned_cols=57 Identities=23% Similarity=0.262 Sum_probs=46.7
Q ss_pred ceEEEeecC---CCCCCCCCC---CCCcceEEEEecCCC------------------CHHHHHHHHHHcCCcEEEEEecC
Q 012531 83 NQIHLTLSH---PRDCCSMPK---HKYAGDVIMVDRGNC------------------KFTTKANIAEAAGASALLIINNQ 138 (461)
Q Consensus 83 ~~~~Lv~~~---p~~aC~~~~---~~l~g~IaLV~RG~C------------------sF~~Ka~~Aq~aGA~avIV~n~~ 138 (461)
..+++|.+. ...+|...+ .+++||||||.||+| ++..|+++|+++||+|+|++|+.
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 456777653 235676544 489999999999999 69999999999999999999987
Q ss_pred C
Q 012531 139 K 139 (461)
Q Consensus 139 ~ 139 (461)
+
T Consensus 100 ~ 100 (142)
T cd04814 100 A 100 (142)
T ss_pred C
Confidence 6
No 30
>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=98.14 E-value=6.8e-06 Score=75.45 Aligned_cols=57 Identities=18% Similarity=0.251 Sum_probs=47.5
Q ss_pred ceEEEeecC---CCCCCCCCC---CCCcceEEEEecCC------------------CCHHHHHHHHHHcCCcEEEEEecC
Q 012531 83 NQIHLTLSH---PRDCCSMPK---HKYAGDVIMVDRGN------------------CKFTTKANIAEAAGASALLIINNQ 138 (461)
Q Consensus 83 ~~~~Lv~~~---p~~aC~~~~---~~l~g~IaLV~RG~------------------CsF~~Ka~~Aq~aGA~avIV~n~~ 138 (461)
..+++|.+. ..++|...+ .+++||||||.||+ |++..|+++|+++||+|+|+||+.
T Consensus 20 vtg~lVfvGyGi~~~~~~~~Dy~giDVkGKIVlv~~g~P~~~~~~~~~~~~~~~~~~~~~~K~~~A~~~GA~aVIv~~d~ 99 (151)
T cd04822 20 VTAPVVFAGYGITAPELGYDDYAGLDVKGKIVLVLRHEPQEDDANSRFNGPGLTRHAGLRYKATNARRHGAAAVIVVNGP 99 (151)
T ss_pred ceEeEEEecCCcCccccchhhccCCCCCCeEEEEEcCCcccccccccccccccccccCHHHHHHHHHHCCCeEEEEEeCC
Confidence 466787764 346786554 48999999999985 999999999999999999999987
Q ss_pred C
Q 012531 139 K 139 (461)
Q Consensus 139 ~ 139 (461)
+
T Consensus 100 ~ 100 (151)
T cd04822 100 N 100 (151)
T ss_pred c
Confidence 6
No 31
>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=98.13 E-value=7.4e-06 Score=74.04 Aligned_cols=57 Identities=18% Similarity=0.197 Sum_probs=47.1
Q ss_pred ceEEEeecC---CCCCCCCCC---CCCcceEEEEecCCCC------------HHHHHHHHHHcCCcEEEEEecCC
Q 012531 83 NQIHLTLSH---PRDCCSMPK---HKYAGDVIMVDRGNCK------------FTTKANIAEAAGASALLIINNQK 139 (461)
Q Consensus 83 ~~~~Lv~~~---p~~aC~~~~---~~l~g~IaLV~RG~Cs------------F~~Ka~~Aq~aGA~avIV~n~~~ 139 (461)
..+++|.+. ..++|...+ .+++|||||++||+|+ +.+|+++|+++||+|+|++|+..
T Consensus 22 v~gelVfvGyG~~~~~~~~~Dy~~iDVkGKIVlv~~g~p~~~~~~~~~~~~~~~~K~~~A~~~GA~aVIi~~d~~ 96 (137)
T cd04820 22 VEAPLVFVGYGLVAPELGHDDYAGLDVKGKIVVVLSGGPAGIPSEEGAHAHSSNEKARYAAKAGAIGMITLTTPR 96 (137)
T ss_pred ceEeEEEecCCcCccCcCHhhccCCCCCCeEEEEEcCCCCccccccccccccHHHHHHHHHHCCCeEEEEEeCCc
Confidence 566777654 345676444 4899999999999995 88999999999999999999876
No 32
>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=98.09 E-value=6.4e-06 Score=80.06 Aligned_cols=52 Identities=19% Similarity=0.224 Sum_probs=43.4
Q ss_pred ceEEEeecCCCCCCCCCC--------CCCcceEEEEecCCCCHHHHHHHHHHcCCcEEEEEec
Q 012531 83 NQIHLTLSHPRDCCSMPK--------HKYAGDVIMVDRGNCKFTTKANIAEAAGASALLIINN 137 (461)
Q Consensus 83 ~~~~Lv~~~p~~aC~~~~--------~~l~g~IaLV~RG~CsF~~Ka~~Aq~aGA~avIV~n~ 137 (461)
..+++|.+. .|...+ .+++|||||+++|.|.+.+|+++||++||+|+|+|++
T Consensus 45 v~g~lVyvn---yG~~~D~~~L~~~gvdv~GKIvLvr~G~~~~~~Kv~~A~~~GA~gVIiy~D 104 (220)
T cd02121 45 VTAELVYAN---YGSPEDFEYLEDLGIDVKGKIVIARYGGIFRGLKVKNAQLAGAVGVIIYSD 104 (220)
T ss_pred ceEEEEEcC---CCcHHHHHHHhhcCCCCCCeEEEEECCCccHHHHHHHHHHcCCEEEEEEeC
Confidence 466787765 344322 3789999999999999999999999999999999986
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=97.70 E-value=4.7e-05 Score=69.70 Aligned_cols=39 Identities=15% Similarity=0.276 Sum_probs=36.8
Q ss_pred CCCcceEEEEecCCCCHHHHHHHHHHcCCcEEEEEecCC
Q 012531 101 HKYAGDVIMVDRGNCKFTTKANIAEAAGASALLIINNQK 139 (461)
Q Consensus 101 ~~l~g~IaLV~RG~CsF~~Ka~~Aq~aGA~avIV~n~~~ 139 (461)
.+++|||+|++.|...+..|++|||++||.|+|||.|..
T Consensus 37 V~v~GkIvi~RyG~~~RG~Kv~~A~~~GA~GviIYsDP~ 75 (153)
T cd02131 37 MNVTNQIALLKLGQAPLLYKLSLLEEAGFGGVLLYVDPC 75 (153)
T ss_pred CCccceEEEEeccCcchHHHHHHHHHCCCeEEEEecChh
Confidence 368999999999999999999999999999999999976
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=94.87 E-value=0.034 Score=51.51 Aligned_cols=39 Identities=23% Similarity=0.314 Sum_probs=33.2
Q ss_pred CCCcceEEEEecCCCCH-------------------HHHHHHHHHcCCcEEEEEecCC
Q 012531 101 HKYAGDVIMVDRGNCKF-------------------TTKANIAEAAGASALLIINNQK 139 (461)
Q Consensus 101 ~~l~g~IaLV~RG~CsF-------------------~~Ka~~Aq~aGA~avIV~n~~~ 139 (461)
.+++||||++.+|+=.+ ..|.+.|+++||.|+|++++..
T Consensus 46 ~DVkGKiVvvl~~~P~~~~~~~~~f~~~~~~~~~~~~~K~~~A~~~GA~gvi~v~~~~ 103 (157)
T cd04821 46 LDVKGKTVVILVNDPGFATPDSGLFNGKAMTYYGRWTYKYEEAARQGAAGALIVHETE 103 (157)
T ss_pred CCcCCcEEEEEcCCCCcccccccccCcccccccccHHHHHHHHHHCCCeEEEEEeCCC
Confidence 48999999999886533 3599999999999999998865
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=65.64 E-value=6.7 Score=44.66 Aligned_cols=39 Identities=26% Similarity=0.377 Sum_probs=36.1
Q ss_pred CCCcceEEEEecCCCCHHHHHHHHHHcCCcEEEEEecCC
Q 012531 101 HKYAGDVIMVDRGNCKFTTKANIAEAAGASALLIINNQK 139 (461)
Q Consensus 101 ~~l~g~IaLV~RG~CsF~~Ka~~Aq~aGA~avIV~n~~~ 139 (461)
-+++|+|+|++-|.-.+.+|++||+++||.|+++|++..
T Consensus 181 i~~~g~i~l~r~~~i~~g~~~~na~~~~a~gviiy~d~~ 219 (702)
T KOG2195|consen 181 INLSGKIVLARVGKIYRGKKVKNAEAAGADGVIIYTDPY 219 (702)
T ss_pred ccccCceEEEEccccchhhhHhhHHHhhcCcEEEeeccc
Confidence 368899999999999999999999999999999999765
No 36
>KOG2927 consensus Membrane component of ER protein translocation complex [Intracellular trafficking, secretion, and vesicular transport]
Probab=64.73 E-value=11 Score=39.40 Aligned_cols=29 Identities=14% Similarity=0.229 Sum_probs=21.3
Q ss_pred hhHHHHHHHhhhhhhccccceeecchhHH
Q 012531 315 TPFCIAFAVVWAIYRKVSFAWIGQDILGI 343 (461)
Q Consensus 315 ~~~~~~~~~~w~~~~~~~~~Wil~nilgi 343 (461)
.+=+++|+++|++++-.+--|++-|++.=
T Consensus 237 IvRlILF~I~~il~~g~~g~W~FPNL~eD 265 (372)
T KOG2927|consen 237 IVRLILFGITWILTGGKHGFWLFPNLTED 265 (372)
T ss_pred HHHHHHHHHHHHHhCCCCceEeccchhhh
Confidence 34467788999999833336999999863
No 37
>COG4882 Predicted aminopeptidase, Iap family [General function prediction only]
Probab=50.48 E-value=64 Score=34.21 Aligned_cols=100 Identities=20% Similarity=0.228 Sum_probs=65.3
Q ss_pred CCcceEEEEecCCCCHHHHHH--HHHHcCCcEEEEEecCC----------------CccccEEEechhhhHHHHHHHhcC
Q 012531 102 KYAGDVIMVDRGNCKFTTKAN--IAEAAGASALLIINNQK----------------DIHIPAVMMPQDAGASLEKMLLNT 163 (461)
Q Consensus 102 ~l~g~IaLV~RG~CsF~~Ka~--~Aq~aGA~avIV~n~~~----------------~i~IPvv~Is~~~G~~L~~~l~~g 163 (461)
|..|.+++-+|-+--...|.. .|.++||.|+|+-.+++ ...||+..++..++..... .
T Consensus 87 D~~Gr~~Va~~pq~vdd~k~~~i~Aae~ga~a~~f~~~~~rriV~~Gd~gy~~~s~PtPIPva~v~en~~~y~~~----~ 162 (486)
T COG4882 87 DAGGRVVVARAPQVVDDLKAAAILAAEAGAEALLFESRDPRRIVTGGDWGYSVSSSPTPIPVAVVPENYSRYAEE----A 162 (486)
T ss_pred CCCCeEEeeeccccHHHHHHHHHHHHHcCCeEEEEecCCceeEEecccccccCCCCCCCcceEEeccCcchhhcc----c
Confidence 567899888887666666654 57888999999987765 4679999999999887653 3
Q ss_pred ceEEEEEecCCCCcccchhhhHHHHHHHHHHHHHHHhhhhhh
Q 012531 164 SSVSVQLYSPRRPVVDVAEVFLWLMAVGTILCASYWSAWSAR 205 (461)
Q Consensus 164 ~~V~v~l~~p~~p~~D~s~~~L~l~Av~tV~~gs~wS~~~~~ 205 (461)
..+++..+.-.+...|++.+..=--==+++.++++|-+|-..
T Consensus 163 ~rvrl~vD~~~~~ty~y~~Ia~~~~en~vv~i~AH~DHW~~G 204 (486)
T COG4882 163 GRVRLWVDACVERTYDYNVIAVDGGENGVVLIGAHLDHWYTG 204 (486)
T ss_pred eeEEEEEecccceeEEEEEEEecCCCCCceEEeechhhhhhc
Confidence 457777665555455655321000001245566666665443
No 38
>PRK11588 hypothetical protein; Provisional
Probab=49.73 E-value=1.3e+02 Score=33.10 Aligned_cols=43 Identities=9% Similarity=0.371 Sum_probs=27.1
Q ss_pred eeeCccchhhhhHHHHHHHHHHHHHhH-HHHHHHHHHHHHHHHH
Q 012531 234 VDINTASAVLFVLVASCFLVMLYKLMS-NWFLELLVILFCIGGV 276 (461)
Q Consensus 234 ~~is~~~a~~Fpv~as~~Ll~Ly~f~~-~~~~~ll~~~F~i~g~ 276 (461)
.++|.+|-+...++...+....|=..+ .|...=+..+|.+.|+
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 3332234556655554
No 39
>cd03028 GRX_PICOT_like Glutaredoxin (GRX) family, PKC-interacting cousin of TRX (PICOT)-like subfamily; composed of PICOT and GRX-PICOT-like proteins. The non-PICOT members of this family contain only the GRX-like domain, whereas PICOT contains an N-terminal TRX-like domain followed by one to three GRX-like domains. It is interesting to note that PICOT from plants contain three repeats of the GRX-like domain, metazoan proteins (except for insect) have two repeats, while fungal sequences contain only one copy of the domain. PICOT is a protein that interacts with protein kinase C (PKC) theta, a calcium independent PKC isoform selectively expressed in skeletal muscle and T lymphocytes. PICOT inhibits the activation of c-Jun N-terminal kinase and the transcription factors, AP-1 and NF-kB, induced by PKC theta or T-cell activating stimuli. Both GRX and TRX domains of PICOT are required for its activity. Characterized non-PICOT members of this family include CXIP1, a CAX-interacting protein
Probab=47.65 E-value=90 Score=25.54 Aligned_cols=60 Identities=13% Similarity=0.206 Sum_probs=38.1
Q ss_pred cceEEEEecC-----CCCHHHHHHHH-HHcCCcEEEEEecCC-------------CccccEEEechh---hhHHHHHHHh
Q 012531 104 AGDVIMVDRG-----NCKFTTKANIA-EAAGASALLIINNQK-------------DIHIPAVMMPQD---AGASLEKMLL 161 (461)
Q Consensus 104 ~g~IaLV~RG-----~CsF~~Ka~~A-q~aGA~avIV~n~~~-------------~i~IPvv~Is~~---~G~~L~~~l~ 161 (461)
+++|++...| .|.|..|++.. ++.|..- -.+|-.. .-++|.++|... ..+.+.+..+
T Consensus 7 ~~~vvvf~k~~~~~~~Cp~C~~ak~~L~~~~i~y-~~idv~~~~~~~~~l~~~~g~~tvP~vfi~g~~iGG~~~l~~l~~ 85 (90)
T cd03028 7 ENPVVLFMKGTPEEPRCGFSRKVVQILNQLGVDF-GTFDILEDEEVRQGLKEYSNWPTFPQLYVNGELVGGCDIVKEMHE 85 (90)
T ss_pred cCCEEEEEcCCCCCCCCcHHHHHHHHHHHcCCCe-EEEEcCCCHHHHHHHHHHhCCCCCCEEEECCEEEeCHHHHHHHHH
Confidence 3578888776 89999999976 4556543 3334222 357888888765 3345555555
Q ss_pred cCc
Q 012531 162 NTS 164 (461)
Q Consensus 162 ~g~ 164 (461)
+|+
T Consensus 86 ~g~ 88 (90)
T cd03028 86 SGE 88 (90)
T ss_pred cCC
Confidence 553
No 40
>cd03027 GRX_DEP Glutaredoxin (GRX) family, Dishevelled, Egl-10, and Pleckstrin (DEP) subfamily; composed of uncharacterized proteins containing a GRX domain and additional domains DEP and DUF547, both of which have unknown functions. GRX is a glutathione (GSH) dependent reductase containing a redox active CXXC motif in a TRX fold. It has preference for mixed GSH disulfide substrates, in which it uses a monothiol mechanism where only the N-terminal cysteine is required. By altering the redox state of target proteins, GRX is involved in many cellular functions.
Probab=43.23 E-value=79 Score=24.44 Aligned_cols=28 Identities=21% Similarity=0.332 Sum_probs=22.3
Q ss_pred ceEEEEecCCCCHHHHHHHH-HHcCCcEE
Q 012531 105 GDVIMVDRGNCKFTTKANIA-EAAGASAL 132 (461)
Q Consensus 105 g~IaLV~RG~CsF~~Ka~~A-q~aGA~av 132 (461)
|+|.|-.+-+|++..|++.+ ++.|...-
T Consensus 1 ~~v~ly~~~~C~~C~ka~~~L~~~gi~~~ 29 (73)
T cd03027 1 GRVTIYSRLGCEDCTAVRLFLREKGLPYV 29 (73)
T ss_pred CEEEEEecCCChhHHHHHHHHHHCCCceE
Confidence 67889999999999999986 55565433
No 41
>COG1786 Swiveling domain associated with predicted aconitase [Energy production and conversion]
Probab=43.02 E-value=79 Score=28.50 Aligned_cols=65 Identities=18% Similarity=0.175 Sum_probs=44.1
Q ss_pred CCCcceEEEEe--cCCCCHHHHHHHHHHcC-CcEEEEEecCC--------CccccEEEechhhhHHHHHHHhcCceEEEE
Q 012531 101 HKYAGDVIMVD--RGNCKFTTKANIAEAAG-ASALLIINNQK--------DIHIPAVMMPQDAGASLEKMLLNTSSVSVQ 169 (461)
Q Consensus 101 ~~l~g~IaLV~--RG~CsF~~Ka~~Aq~aG-A~avIV~n~~~--------~i~IPvv~Is~~~G~~L~~~l~~g~~V~v~ 169 (461)
.+++|||.++. ||.|.=.--...+.+.| |-+.|+.-+.+ --.||.+-... ...+.++.|.+|++.
T Consensus 47 ~~l~Gkilv~P~grGStvGSyVl~~l~~~G~AP~aIv~~e~EpIla~Gai~a~iPlv~~~~----e~~~~l~~g~~v~v~ 122 (131)
T COG1786 47 ESLTGKILVFPGGRGSTVGSYVLYELAKNGRAPAAIVNEEAEPILAVGAILAGIPLVDGVD----EFFEELKTGDRVRVN 122 (131)
T ss_pred ccccceEEEeeCCCCccccHHHHHHHHHcCCCchhhhhcCCcceeeehhhhcCCceEeccH----HHHHHhccCCEEEEc
Confidence 47899999886 88998777777777777 54555544433 22677665543 456667788777764
No 42
>TIGR02189 GlrX-like_plant Glutaredoxin-like family. This family of glutaredoxin-like proteins is aparrently limited to plants. Multiple isoforms are found in A. thaliana and O.sativa.
Probab=38.82 E-value=1.1e+02 Score=25.60 Aligned_cols=60 Identities=15% Similarity=0.263 Sum_probs=38.6
Q ss_pred cceEEEEecCCCCHHHHHHHHHH-cCCcEEEEEec--CC--------------CccccEEEechhh--h-HHHHHHHhcC
Q 012531 104 AGDVIMVDRGNCKFTTKANIAEA-AGASALLIINN--QK--------------DIHIPAVMMPQDA--G-ASLEKMLLNT 163 (461)
Q Consensus 104 ~g~IaLV~RG~CsF~~Ka~~Aq~-aGA~avIV~n~--~~--------------~i~IPvv~Is~~~--G-~~L~~~l~~g 163 (461)
+++|++-.+-.|.|-.|++..-+ .|..-- ++|- .+ .-++|.++|...- | +.+.+..++|
T Consensus 7 ~~~Vvvysk~~Cp~C~~ak~~L~~~~i~~~-~vdid~~~~~~~~~~~l~~~tg~~tvP~Vfi~g~~iGG~ddl~~l~~~G 85 (99)
T TIGR02189 7 EKAVVIFSRSSCCMCHVVKRLLLTLGVNPA-VHEIDKEPAGKDIENALSRLGCSPAVPAVFVGGKLVGGLENVMALHISG 85 (99)
T ss_pred cCCEEEEECCCCHHHHHHHHHHHHcCCCCE-EEEcCCCccHHHHHHHHHHhcCCCCcCeEEECCEEEcCHHHHHHHHHcC
Confidence 46799999999999999998754 454332 3332 21 2578998887642 2 3455544444
Q ss_pred c
Q 012531 164 S 164 (461)
Q Consensus 164 ~ 164 (461)
+
T Consensus 86 ~ 86 (99)
T TIGR02189 86 S 86 (99)
T ss_pred C
Confidence 3
No 43
>PRK10824 glutaredoxin-4; Provisional
Probab=37.82 E-value=1.1e+02 Score=26.80 Aligned_cols=61 Identities=16% Similarity=0.236 Sum_probs=38.0
Q ss_pred cceEEEEecC-----CCCHHHHHHHH-HHcCCcEE-EEEecCC-----------CccccEEEechhh---hHHHHHHHhc
Q 012531 104 AGDVIMVDRG-----NCKFTTKANIA-EAAGASAL-LIINNQK-----------DIHIPAVMMPQDA---GASLEKMLLN 162 (461)
Q Consensus 104 ~g~IaLV~RG-----~CsF~~Ka~~A-q~aGA~av-IV~n~~~-----------~i~IPvv~Is~~~---G~~L~~~l~~ 162 (461)
+++|++...| .|.|..|++.. ++.|...- +-+++++ .-++|-++|...- .+.+.++.++
T Consensus 14 ~~~Vvvf~Kg~~~~p~Cpyc~~ak~lL~~~~i~~~~idi~~d~~~~~~l~~~sg~~TVPQIFI~G~~IGG~ddl~~l~~~ 93 (115)
T PRK10824 14 ENPILLYMKGSPKLPSCGFSAQAVQALSACGERFAYVDILQNPDIRAELPKYANWPTFPQLWVDGELVGGCDIVIEMYQR 93 (115)
T ss_pred cCCEEEEECCCCCCCCCchHHHHHHHHHHcCCCceEEEecCCHHHHHHHHHHhCCCCCCeEEECCEEEcChHHHHHHHHC
Confidence 4788999988 89999999976 45565432 2222221 3577888877652 2345554445
Q ss_pred Cc
Q 012531 163 TS 164 (461)
Q Consensus 163 g~ 164 (461)
|+
T Consensus 94 G~ 95 (115)
T PRK10824 94 GE 95 (115)
T ss_pred CC
Confidence 54
No 44
>PF06541 DUF1113: Protein of unknown function (DUF1113); InterPro: IPR010540 This family consists of several bacterial proteins of unknown function.
Probab=37.61 E-value=2.9e+02 Score=25.34 Aligned_cols=121 Identities=12% Similarity=0.054 Sum_probs=55.7
Q ss_pred cchhhhhHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcccC--Cceeeeccccccchhhhhhhh
Q 012531 239 ASAVLFVLVASCFLVMLYKLMSNWFLELLVILFCIGGVEGLQTCLVALLSRWFRRAG--ESFIKVPFFGAVSHLTLAVTP 316 (461)
Q Consensus 239 ~~a~~Fpv~as~~Ll~Ly~f~~~~~~~ll~~~F~i~g~~~l~~~l~~~~~~~~~~~~--~~~~~~p~~~~~~~~~l~~~~ 316 (461)
...-.+|+-|.+.++......+..-+.....+.+......+.....-.+++.++.+. -++.+..+.|.++....+..
T Consensus 32 l~gP~~piYG~g~vl~~~~~~~~~~~~~~~f~~~~i~~t~lEyi~g~~le~~~~~~~WDYS~~~~n~~G~Icl~~s~~w- 110 (157)
T PF06541_consen 32 LFGPFCPIYGFGAVLLILLLRPLRRSPILLFLLGMILITALEYITGWILEKLFGARWWDYSDLPFNIQGRICLPFSLFW- 110 (157)
T ss_pred ccccHHHHHhHHheeeHHHHhhhccchHHHHHHHHHHHHHHHHHHHHHHHHHHCCccCcCCCCcCCcCCEehHHHHHHH-
Confidence 344668999988887664433211133333333333333333333444455554321 12223344455443221111
Q ss_pred HHHHHHHhhhhhhccccceeecchhHHHHHHHHHHhcccCchhHHHHHHHHHHhhhhee
Q 012531 317 FCIAFAVVWAIYRKVSFAWIGQDILGIALIITVLQIVHIPNLKVGTVLLSCAFMYDIFW 375 (461)
Q Consensus 317 ~~~~~~~~w~~~~~~~~~Wil~nilgi~~~i~~l~~i~l~~~k~~~iLL~~lf~YDIFw 375 (461)
..+++...+.+.. . ....++.+.-...+..++++..+++.|...
T Consensus 111 g~l~~~~~~~i~P----------~-----~~~~~~~i~~~~~~~~~~~l~~~~~~D~~~ 154 (157)
T PF06541_consen 111 GLLGLLFVKVIHP----------L-----LFKLLSKIPPIIRNILALVLLALFLIDFVF 154 (157)
T ss_pred HHHHHHHHHHHHH----------H-----HHHHHHhCCHHHHHHHHHHHHHHHHHHHHH
Confidence 1111112222211 1 123345555555677888889999999753
No 45
>cd03029 GRX_hybridPRX5 Glutaredoxin (GRX) family, PRX5 hybrid subfamily; composed of hybrid proteins containing peroxiredoxin (PRX) and GRX domains, which is found in some pathogenic bacteria and cyanobacteria. PRXs are thiol-specific antioxidant (TSA) proteins that confer a protective antioxidant role in cells through their peroxidase activity in which hydrogen peroxide, peroxynitrate, and organic hydroperoxides are reduced and detoxified using reducing equivalents derived from either thioredoxin, glutathione, trypanothione and AhpF. GRX is a glutathione (GSH) dependent reductase, catalyzing the disulfide reduction of target proteins. PRX-GRX hybrid proteins from Haemophilus influenza and Neisseria meningitis exhibit GSH-dependent peroxidase activity. The flow of reducing equivalents in the catalytic cycle of the hybrid protein goes from NADPH - GSH reductase - GSH - GRX domain of hybrid - PRX domain of hybrid - peroxide substrate.
Probab=36.74 E-value=95 Score=23.85 Aligned_cols=25 Identities=28% Similarity=0.490 Sum_probs=20.5
Q ss_pred eEEEEecCCCCHHHHHHHHHH-cCCc
Q 012531 106 DVIMVDRGNCKFTTKANIAEA-AGAS 130 (461)
Q Consensus 106 ~IaLV~RG~CsF~~Ka~~Aq~-aGA~ 130 (461)
+|.+..+-+|.+-.|++.+.+ .|..
T Consensus 2 ~v~lys~~~Cp~C~~ak~~L~~~~i~ 27 (72)
T cd03029 2 SVSLFTKPGCPFCARAKAALQENGIS 27 (72)
T ss_pred eEEEEECCCCHHHHHHHHHHHHcCCC
Confidence 688899999999999998855 4544
No 46
>PF06305 DUF1049: Protein of unknown function (DUF1049); InterPro: IPR010445 This entry consists of several hypothetical bacterial proteins of unknown function.
Probab=36.36 E-value=83 Score=24.20 Aligned_cols=47 Identities=19% Similarity=0.084 Sum_probs=21.3
Q ss_pred hcCceEEEEEecCCCCcccchhhhHHHHHH--HHHHHHHHHhhhhhhHHH
Q 012531 161 LNTSSVSVQLYSPRRPVVDVAEVFLWLMAV--GTILCASYWSAWSARETA 208 (461)
Q Consensus 161 ~~g~~V~v~l~~p~~p~~D~s~~~L~l~Av--~tV~~gs~wS~~~~~~~~ 208 (461)
++...|++++..-..+ .-.+...+..+++ ...++.+.+..++.+.+.
T Consensus 2 qN~~~V~v~~~~~~~~-~pl~l~il~~f~~G~llg~l~~~~~~~~~r~~~ 50 (68)
T PF06305_consen 2 QNTQPVTVNFLFGQFP-LPLGLLILIAFLLGALLGWLLSLPSRLRLRRRI 50 (68)
T ss_pred CCCceEEEEEEeeecc-chHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3456788887644433 3333333333333 333334444444444333
No 47
>TIGR00365 monothiol glutaredoxin, Grx4 family. The gene for the member of this glutaredoxin family in E. coli, originally designated ydhD, is now designated grxD. Its protein, Grx4, is a monothiol glutaredoxin similar to Grx5 of yeast, which is involved in iron-sulfur cluster formation.
Probab=35.91 E-value=1.7e+02 Score=24.50 Aligned_cols=60 Identities=18% Similarity=0.289 Sum_probs=39.5
Q ss_pred cceEEEEecC-----CCCHHHHHHHH-HHcCCcEEEEEecCC-------------CccccEEEechhh---hHHHHHHHh
Q 012531 104 AGDVIMVDRG-----NCKFTTKANIA-EAAGASALLIINNQK-------------DIHIPAVMMPQDA---GASLEKMLL 161 (461)
Q Consensus 104 ~g~IaLV~RG-----~CsF~~Ka~~A-q~aGA~avIV~n~~~-------------~i~IPvv~Is~~~---G~~L~~~l~ 161 (461)
+++|++..+| .|.|..|++.. ++.|...- .+|-.. .-++|.++|...- .+.+.+..+
T Consensus 11 ~~~Vvvf~kg~~~~~~Cp~C~~ak~lL~~~~i~~~-~~di~~~~~~~~~l~~~tg~~tvP~vfi~g~~iGG~ddl~~l~~ 89 (97)
T TIGR00365 11 ENPVVLYMKGTPQFPQCGFSARAVQILKACGVPFA-YVNVLEDPEIRQGIKEYSNWPTIPQLYVKGEFVGGCDIIMEMYQ 89 (97)
T ss_pred cCCEEEEEccCCCCCCCchHHHHHHHHHHcCCCEE-EEECCCCHHHHHHHHHHhCCCCCCEEEECCEEEeChHHHHHHHH
Confidence 4688888876 59999999977 55676543 344322 3478888888652 244555555
Q ss_pred cCc
Q 012531 162 NTS 164 (461)
Q Consensus 162 ~g~ 164 (461)
+|+
T Consensus 90 ~g~ 92 (97)
T TIGR00365 90 SGE 92 (97)
T ss_pred CcC
Confidence 554
No 48
>cd03418 GRX_GRXb_1_3_like Glutaredoxin (GRX) family, GRX bacterial class 1 and 3 (b_1_3)-like subfamily; composed of bacterial GRXs, approximately 10 kDa in size, and proteins containing a GRX or GRX-like domain. GRX is a glutathione (GSH) dependent reductase, catalyzing the disulfide reduction of target proteins such as ribonucleotide reductase. It contains a redox active CXXC motif in a TRX fold and uses a similar dithiol mechanism employed by TRXs for intramolecular disulfide bond reduction of protein substrates. Unlike TRX, GRX has preference for mixed GSH disulfide substrates, in which it uses a monothiol mechanism where only the N-terminal cysteine is required. The flow of reducing equivalents in the GRX system goes from NADPH - GSH reductase - GSH - GRX - protein substrates. By altering the redox state of target proteins, GRX is involved in many cellular functions including DNA synthesis, signal transduction and the defense against oxidative stress. Different classes are known i
Probab=33.66 E-value=2e+02 Score=21.84 Aligned_cols=31 Identities=16% Similarity=0.240 Sum_probs=21.6
Q ss_pred eEEEEecCCCCHHHHHHHHHHcCCcEEEEEe
Q 012531 106 DVIMVDRGNCKFTTKANIAEAAGASALLIIN 136 (461)
Q Consensus 106 ~IaLV~RG~CsF~~Ka~~Aq~aGA~avIV~n 136 (461)
||.+..+-+|.+..|++..-+.-....-.+|
T Consensus 1 ~i~ly~~~~Cp~C~~ak~~L~~~~i~~~~i~ 31 (75)
T cd03418 1 KVEIYTKPNCPYCVRAKALLDKKGVDYEEID 31 (75)
T ss_pred CEEEEeCCCChHHHHHHHHHHHCCCcEEEEE
Confidence 4778888999999999986554333333444
No 49
>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=30.70 E-value=1.1e+02 Score=33.18 Aligned_cols=14 Identities=36% Similarity=0.862 Sum_probs=9.0
Q ss_pred ccCcchhhH--HHHHH
Q 012531 421 IGFGDILLP--GLIIA 434 (461)
Q Consensus 421 LGlGDIviP--Gl~ia 434 (461)
=|+|+.+-| |.+++
T Consensus 414 ~gl~n~isPtsg~~m~ 429 (465)
T PF03606_consen 414 DGLGNSISPTSGVLMA 429 (465)
T ss_pred HHHHhhccchHHHHHH
Confidence 467788888 34444
No 50
>TIGR02190 GlrX-dom Glutaredoxin-family domain. This C-terminal domain with homology to glutaredoxin is fused to an N-terminal peroxiredoxin-like domain.
Probab=29.69 E-value=1.4e+02 Score=23.64 Aligned_cols=30 Identities=20% Similarity=0.313 Sum_probs=23.7
Q ss_pred CcceEEEEecCCCCHHHHHHHHHH-cCCcEE
Q 012531 103 YAGDVIMVDRGNCKFTTKANIAEA-AGASAL 132 (461)
Q Consensus 103 l~g~IaLV~RG~CsF~~Ka~~Aq~-aGA~av 132 (461)
-+.+|.|..+-+|.+-.|++..-+ .|...-
T Consensus 6 ~~~~V~ly~~~~Cp~C~~ak~~L~~~gi~y~ 36 (79)
T TIGR02190 6 KPESVVVFTKPGCPFCAKAKATLKEKGYDFE 36 (79)
T ss_pred CCCCEEEEECCCCHhHHHHHHHHHHcCCCcE
Confidence 467899999999999999998754 454433
No 51
>PF05768 DUF836: Glutaredoxin-like domain (DUF836); InterPro: IPR008554 Glutaredoxins [, , ], also known as thioltransferases (disulphide reductases, are small proteins of approximately one hundred amino-acid residues which utilise glutathione and NADPH as cofactors. Oxidized glutathione is regenerated by glutathione reductase. Together these components compose the glutathione system []. Glutaredoxin functions as an electron carrier in the glutathione-dependent synthesis of deoxyribonucleotides by the enzyme ribonucleotide reductase. Like thioredoxin, which functions in a similar way, glutaredoxin possesses an active centre disulphide bond []. It exists in either a reduced or an oxidized form where the two cysteine residues are linked in an intramolecular disulphide bond. Glutaredoxin has been sequenced in a variety of species. On the basis of extensive sequence similarity, it has been proposed [] that Vaccinia virus protein O2L is most probably a glutaredoxin. Finally, it must be noted that Bacteriophage T4 thioredoxin seems also to be evolutionary related. In position 5 of the pattern T4 thioredoxin has Val instead of Pro. This family contains several viral glutaredoxins, and many related bacterial and eukaryotic proteins of unknown function. The best characterised member of this family is G4L (P68460 from SWISSPROT) from Vaccinia virus (strain Western Reserve/WR) (VACV), which is necessary for virion morphogenesis and virus replication []. This is a cytomplasmic protein which functions as a shuttle in a redox pathway between membrane-associated E10R and L1R or F9L []. ; PDB: 1TTZ_A 1XPV_A 2FGX_A 2G2Q_C 1WJK_A.
Probab=27.31 E-value=3.2e+02 Score=21.76 Aligned_cols=46 Identities=11% Similarity=0.152 Sum_probs=32.1
Q ss_pred eEEEEecCCCCHHHHHHHHHH----cCCcEEEEEecCC--------CccccEEEechh
Q 012531 106 DVIMVDRGNCKFTTKANIAEA----AGASALLIINNQK--------DIHIPAVMMPQD 151 (461)
Q Consensus 106 ~IaLV~RG~CsF~~Ka~~Aq~----aGA~avIV~n~~~--------~i~IPvv~Is~~ 151 (461)
++.|..|-+|..-+.++..-+ ...-.+-.+|-.+ +..|||+.+...
T Consensus 1 ~l~l~~k~~C~LC~~a~~~L~~~~~~~~~~l~~vDI~~d~~l~~~Y~~~IPVl~~~~~ 58 (81)
T PF05768_consen 1 TLTLYTKPGCHLCDEAKEILEEVAAEFPFELEEVDIDEDPELFEKYGYRIPVLHIDGI 58 (81)
T ss_dssp -EEEEE-SSSHHHHHHHHHHHHCCTTSTCEEEEEETTTTHHHHHHSCTSTSEEEETT-
T ss_pred CEEEEcCCCCChHHHHHHHHHHHHhhcCceEEEEECCCCHHHHHHhcCCCCEEEEcCc
Confidence 578899999999999987655 2334566666443 678999998873
No 52
>PRK11200 grxA glutaredoxin 1; Provisional
Probab=25.56 E-value=2.1e+02 Score=22.82 Aligned_cols=22 Identities=18% Similarity=0.385 Sum_probs=19.2
Q ss_pred eEEEEecCCCCHHHHHHHHHHc
Q 012531 106 DVIMVDRGNCKFTTKANIAEAA 127 (461)
Q Consensus 106 ~IaLV~RG~CsF~~Ka~~Aq~a 127 (461)
+|.+..+.+|.+-.|++..-+.
T Consensus 2 ~v~iy~~~~C~~C~~a~~~L~~ 23 (85)
T PRK11200 2 FVVIFGRPGCPYCVRAKELAEK 23 (85)
T ss_pred EEEEEeCCCChhHHHHHHHHHh
Confidence 5788899999999999988665
No 53
>PRK10638 glutaredoxin 3; Provisional
Probab=25.50 E-value=3.1e+02 Score=21.68 Aligned_cols=46 Identities=17% Similarity=0.361 Sum_probs=31.5
Q ss_pred eEEEEecCCCCHHHHHHHH-HHcCCcEEEEEecCC------------CccccEEEechh
Q 012531 106 DVIMVDRGNCKFTTKANIA-EAAGASALLIINNQK------------DIHIPAVMMPQD 151 (461)
Q Consensus 106 ~IaLV~RG~CsF~~Ka~~A-q~aGA~avIV~n~~~------------~i~IPvv~Is~~ 151 (461)
+|.+..+-+|.|..|++.+ ++.|.....+--+++ ..++|++++...
T Consensus 3 ~v~ly~~~~Cp~C~~a~~~L~~~gi~y~~~dv~~~~~~~~~l~~~~g~~~vP~i~~~g~ 61 (83)
T PRK10638 3 NVEIYTKATCPFCHRAKALLNSKGVSFQEIPIDGDAAKREEMIKRSGRTTVPQIFIDAQ 61 (83)
T ss_pred cEEEEECCCChhHHHHHHHHHHcCCCcEEEECCCCHHHHHHHHHHhCCCCcCEEEECCE
Confidence 6888899999999999987 556766554322222 346788877643
No 54
>PHA03050 glutaredoxin; Provisional
Probab=25.44 E-value=2.8e+02 Score=23.74 Aligned_cols=60 Identities=13% Similarity=0.133 Sum_probs=38.3
Q ss_pred cceEEEEecCCCCHHHHHHHHH-HcCCc--EEEEEecC----C------------CccccEEEechhh---hHHHHHHHh
Q 012531 104 AGDVIMVDRGNCKFTTKANIAE-AAGAS--ALLIINNQ----K------------DIHIPAVMMPQDA---GASLEKMLL 161 (461)
Q Consensus 104 ~g~IaLV~RG~CsF~~Ka~~Aq-~aGA~--avIV~n~~----~------------~i~IPvv~Is~~~---G~~L~~~l~ 161 (461)
+++|.+..+..|.|-.|++..- +.|.. ..-++|-+ . .-++|.++|...- .+.+.+.-+
T Consensus 12 ~~~V~vys~~~CPyC~~ak~~L~~~~i~~~~~~~i~i~~~~~~~~~~~~l~~~tG~~tVP~IfI~g~~iGG~ddl~~l~~ 91 (108)
T PHA03050 12 NNKVTIFVKFTCPFCRNALDILNKFSFKRGAYEIVDIKEFKPENELRDYFEQITGGRTVPRIFFGKTSIGGYSDLLEIDN 91 (108)
T ss_pred cCCEEEEECCCChHHHHHHHHHHHcCCCcCCcEEEECCCCCCCHHHHHHHHHHcCCCCcCEEEECCEEEeChHHHHHHHH
Confidence 4689999999999999999875 44542 22233321 1 3478999887652 234555444
Q ss_pred cC
Q 012531 162 NT 163 (461)
Q Consensus 162 ~g 163 (461)
+|
T Consensus 92 ~g 93 (108)
T PHA03050 92 MD 93 (108)
T ss_pred cC
Confidence 44
No 55
>cd02066 GRX_family Glutaredoxin (GRX) family; composed of GRX, approximately 10 kDa in size, and proteins containing a GRX or GRX-like domain. GRX is a glutathione (GSH) dependent reductase, catalyzing the disulfide reduction of target proteins such as ribonucleotide reductase. It contains a redox active CXXC motif in a TRX fold and uses a similar dithiol mechanism employed by TRXs for intramolecular disulfide bond reduction of protein substrates. Unlike TRX, GRX has preference for mixed GSH disulfide substrates, in which it uses a monothiol mechanism where only the N-terminal cysteine is required. The flow of reducing equivalents in the GRX system goes from NADPH - GSH reductase - GSH - GRX - protein substrates. By altering the redox state of target proteins, GRX is involved in many cellular functions including DNA synthesis, signal transduction and the defense against oxidative stress. Different classes are known including human GRX1 and GRX2, as well as E. coli GRX1 and GRX3, which
Probab=22.06 E-value=2.8e+02 Score=20.10 Aligned_cols=31 Identities=13% Similarity=0.281 Sum_probs=21.3
Q ss_pred eEEEEecCCCCHHHHHHHHHHcCCcEEEEEe
Q 012531 106 DVIMVDRGNCKFTTKANIAEAAGASALLIIN 136 (461)
Q Consensus 106 ~IaLV~RG~CsF~~Ka~~Aq~aGA~avIV~n 136 (461)
+|.+-.+.+|.+..|++.+-+.-......+|
T Consensus 1 ~v~ly~~~~Cp~C~~~~~~L~~~~i~~~~~d 31 (72)
T cd02066 1 KVVVFSKSTCPYCKRAKRLLESLGIEFEEID 31 (72)
T ss_pred CEEEEECCCCHHHHHHHHHHHHcCCcEEEEE
Confidence 4677888999999999987554333333333
No 56
>smart00037 CNX Connexin homologues. Connexin channels participate in the regulation of signaling between developing and differentiated cell types.
Probab=21.33 E-value=44 Score=23.22 Aligned_cols=8 Identities=63% Similarity=1.506 Sum_probs=6.6
Q ss_pred CCCCCCCC
Q 012531 38 PKKPGCEN 45 (461)
Q Consensus 38 ~~~p~c~~ 45 (461)
-.||||+|
T Consensus 14 T~QPGC~n 21 (34)
T smart00037 14 TQQPGCEN 21 (34)
T ss_pred CCCCCccc
Confidence 57999986
No 57
>COG0695 GrxC Glutaredoxin and related proteins [Posttranslational modification, protein turnover, chaperones]
Probab=21.26 E-value=3.4e+02 Score=21.82 Aligned_cols=45 Identities=13% Similarity=0.311 Sum_probs=31.8
Q ss_pred eEEEEecCCCCHHHHHHHH-HHcCCcEEEEEecCC--------------CccccEEEech
Q 012531 106 DVIMVDRGNCKFTTKANIA-EAAGASALLIINNQK--------------DIHIPAVMMPQ 150 (461)
Q Consensus 106 ~IaLV~RG~CsF~~Ka~~A-q~aGA~avIV~n~~~--------------~i~IPvv~Is~ 150 (461)
.|.+-.+-+|.+-.|++++ .+.|.....+..+.. ..+.|+++|..
T Consensus 2 ~v~iyt~~~CPyC~~ak~~L~~~g~~~~~i~~~~~~~~~~~~~~~~~~g~~tvP~I~i~~ 61 (80)
T COG0695 2 NVTIYTKPGCPYCKRAKRLLDRKGVDYEEIDVDDDEPEEAREMVKRGKGQRTVPQIFIGG 61 (80)
T ss_pred CEEEEECCCCchHHHHHHHHHHcCCCcEEEEecCCcHHHHHHHHHHhCCCCCcCEEEECC
Confidence 4566677789999999987 556776665444322 35788888887
No 58
>PRK03955 hypothetical protein; Reviewed
Probab=21.08 E-value=3.3e+02 Score=24.58 Aligned_cols=63 Identities=16% Similarity=0.109 Sum_probs=39.6
Q ss_pred CCCcceEEEEe--cCCCCHHHHHHHHHHc-CCcEEEEEecCC--------CccccEEEechhhhHHHHHHHhcCceEEEE
Q 012531 101 HKYAGDVIMVD--RGNCKFTTKANIAEAA-GASALLIINNQK--------DIHIPAVMMPQDAGASLEKMLLNTSSVSVQ 169 (461)
Q Consensus 101 ~~l~g~IaLV~--RG~CsF~~Ka~~Aq~a-GA~avIV~n~~~--------~i~IPvv~Is~~~G~~L~~~l~~g~~V~v~ 169 (461)
.+++|||.+.. ||.|+=.--...+... -|-+.||.++.+ --.||.+.- .. .+.++.|..|++.
T Consensus 47 ~si~gkIlv~p~~kGSt~gs~vl~~l~~~g~aP~aiI~~~~~~ils~GaIvAgIP~V~~-----~~-~~~l~~G~~V~Vd 120 (131)
T PRK03955 47 ESIKGKILVFPHGKGSTVGSYVIYQLAKNGTAPKAIINLEAEPIVATGAIISGIPLVDK-----VD-ISKLKDGDRVVVD 120 (131)
T ss_pred CccCCEEEEEeCCCcccchHHHHHHHHHcCCCceEEEEecCCceeEeeeeecCCceEcc-----cc-ceecCCCCEEEEe
Confidence 36899999886 8899754444444333 344555555444 227887762 22 5568889988875
No 59
>COG3065 Slp Starvation-inducible outer membrane lipoprotein [Cell envelope biogenesis, outer membrane]
Probab=21.04 E-value=2.7e+02 Score=26.70 Aligned_cols=65 Identities=12% Similarity=0.138 Sum_probs=34.8
Q ss_pred CCCccchHHHHHHHHHHHhhcccccccCcccccCCCCCCCCCCCCCeEEEEEeeeecCccceeEEeeecccCCccccc
Q 012531 1 MDFKRLSWVLFPVAVVSLVCYPASVTAGDIVHDDDLAPKKPGCENDFVLVKVQTWIDGIENEEFVGVGARFGTTIVSK 78 (461)
Q Consensus 1 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~i~~~d~~~~~~p~c~~~f~lvkv~~~v~g~~~~~~~~~~A~FG~~lp~~ 78 (461)
|++....|+=..+..+.+++.+|.+.-..+-..++.+ .+++ ++-| ++...|.+..||||..+-+.
T Consensus 1 ~~~~m~~~~~~l~~~laflLsgC~tiPk~l~g~~~~s------~~s~----~~~~---~~~~~~~gq~aR~GGkVvnv 65 (191)
T COG3065 1 KASQMNMKKGALIGTLAFLLSGCVTIPKALKGESPTS------QQSL----VRVM---SQPQLYVGQQARFGGKVVNV 65 (191)
T ss_pred CchHhhhHHHHHHHHHHHHHhhcccCChhhcCCCCcc------hhhe----eeec---cCCcccccceeeeCcEEEEE
Confidence 4566677755545455444444444333333222111 2222 2333 46678999999999876654
No 60
>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=20.91 E-value=2.7e+02 Score=27.35 Aligned_cols=12 Identities=33% Similarity=0.935 Sum_probs=7.7
Q ss_pred HHHHHHhhhhhh
Q 012531 318 CIAFAVVWAIYR 329 (461)
Q Consensus 318 ~~~~~~~w~~~~ 329 (461)
.+.+++.|+++|
T Consensus 236 l~~Ia~aW~~yR 247 (248)
T PF07787_consen 236 LLTIALAWLFYR 247 (248)
T ss_pred HHHHHHhheeeC
Confidence 344567787776
No 61
>PTZ00062 glutaredoxin; Provisional
Probab=20.04 E-value=3.6e+02 Score=26.03 Aligned_cols=60 Identities=12% Similarity=0.194 Sum_probs=40.7
Q ss_pred cceEEEEecC-----CCCHHHHHHHHHH-cCCcEEEEEecCC-------------CccccEEEechh---hhHHHHHHHh
Q 012531 104 AGDVIMVDRG-----NCKFTTKANIAEA-AGASALLIINNQK-------------DIHIPAVMMPQD---AGASLEKMLL 161 (461)
Q Consensus 104 ~g~IaLV~RG-----~CsF~~Ka~~Aq~-aGA~avIV~n~~~-------------~i~IPvv~Is~~---~G~~L~~~l~ 161 (461)
+.+|+|...| .|.|..|++..-+ .|...- .+|-.. ..++|.++|..+ ..+.+++..+
T Consensus 112 ~~~Vvvf~Kg~~~~p~C~~C~~~k~~L~~~~i~y~-~~DI~~d~~~~~~l~~~sg~~TvPqVfI~G~~IGG~d~l~~l~~ 190 (204)
T PTZ00062 112 NHKILLFMKGSKTFPFCRFSNAVVNMLNSSGVKYE-TYNIFEDPDLREELKVYSNWPTYPQLYVNGELIGGHDIIKELYE 190 (204)
T ss_pred cCCEEEEEccCCCCCCChhHHHHHHHHHHcCCCEE-EEEcCCCHHHHHHHHHHhCCCCCCeEEECCEEEcChHHHHHHHH
Confidence 4789999998 7999999998754 476643 344322 357899999877 2344555555
Q ss_pred cCc
Q 012531 162 NTS 164 (461)
Q Consensus 162 ~g~ 164 (461)
+|+
T Consensus 191 ~G~ 193 (204)
T PTZ00062 191 SNS 193 (204)
T ss_pred cCC
Confidence 554
No 62
>cd04727 pdxS PdxS is a subunit of the pyridoxal 5'-phosphate (PLP) synthase, an important enzyme in deoxyxylulose 5-phosphate (DXP)-independent pathway for de novo biosynthesis of PLP, present in some eubacteria, in archaea, fungi, plants, plasmodia, and some metazoa. Together with PdxT, PdxS forms the PLP synthase, a heteromeric glutamine amidotransferase (GATase), whereby PdxT produces ammonia from glutamine and PdxS combines ammonia with five- and three-carbon phosphosugars to form PLP. PLP is the biologically active form of vitamin B6, an essential cofactor in many biochemical processes. PdxS subunits form two hexameric rings.
Probab=20.00 E-value=2e+02 Score=29.43 Aligned_cols=53 Identities=19% Similarity=0.201 Sum_probs=37.3
Q ss_pred CCHHHHHHHHHHcCCcEEEEEecCC-----------------------CccccEEEechhhh-HHHHHHHhcCceEE
Q 012531 115 CKFTTKANIAEAAGASALLIINNQK-----------------------DIHIPAVMMPQDAG-ASLEKMLLNTSSVS 167 (461)
Q Consensus 115 CsF~~Ka~~Aq~aGA~avIV~n~~~-----------------------~i~IPvv~Is~~~G-~~L~~~l~~g~~V~ 167 (461)
-+-.++++.|++|||.+|++-..-+ .+++|++-+-+.+- ...+...+.|..+-
T Consensus 15 v~~~~qa~~ae~aga~~v~~~~~~~~~~~~~~~v~R~~~~~~I~~Ik~~V~iPVIGi~K~~~~~Ea~~L~eaGvDiI 91 (283)
T cd04727 15 VTNAEQARIAEEAGAVAVMALERVPADIRAAGGVARMADPKMIKEIMDAVSIPVMAKVRIGHFVEAQILEALGVDMI 91 (283)
T ss_pred eCCHHHHHHHHHcCceEEeeeccCchhhhhcCCeeecCCHHHHHHHHHhCCCCeEEeeehhHHHHHHHHHHcCCCEE
Confidence 3557899999999999999965433 57899999877763 33333344565443
Done!