Query 009527
Match_columns 532
No_of_seqs 376 out of 1464
Neff 6.1
Searched_HMMs 46136
Date Thu Mar 28 14:12:29 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/009527.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/009527hhsearch_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 8E-128 2E-132 998.5 36.6 500 19-523 14-522 (541)
2 KOG2443 Uncharacterized conser 100.0 2.5E-67 5.5E-72 528.8 20.9 309 187-531 22-353 (362)
3 PF04258 Peptidase_A22B: Signa 100.0 1.5E-68 3.2E-73 547.7 -0.1 274 240-517 2-298 (298)
4 smart00730 PSN Presenilin, sig 100.0 1.2E-50 2.7E-55 405.0 22.8 242 244-509 3-249 (249)
5 cd02132 PA_GO-like PA_GO-like: 100.0 1.3E-28 2.9E-33 226.3 16.5 138 43-180 1-139 (139)
6 cd02129 PA_hSPPL_like PA_hSPPL 99.9 5E-23 1.1E-27 184.3 12.1 116 44-180 1-120 (120)
7 cd02126 PA_EDEM3_like PA_EDEM3 99.9 4.1E-22 8.9E-27 180.3 12.9 115 63-180 2-126 (126)
8 cd02127 PA_hPAP21_like PA_hPAP 99.9 3.7E-21 8.1E-26 172.3 12.9 109 67-180 1-116 (118)
9 cd02122 PA_GRAIL_like PA _GRAI 99.8 4.3E-20 9.4E-25 169.7 13.8 109 64-180 18-138 (138)
10 cd02125 PA_VSR PA_VSR: Proteas 99.8 4.4E-20 9.5E-25 167.4 13.3 101 80-180 11-127 (127)
11 cd02123 PA_C_RZF_like PA_C-RZF 99.8 6.6E-20 1.4E-24 171.3 14.7 115 57-175 20-142 (153)
12 cd04813 PA_1 PA_1: Protease-as 99.8 1.9E-19 4.1E-24 161.0 10.7 101 63-170 5-109 (117)
13 cd04818 PA_subtilisin_1 PA_sub 99.8 8.2E-19 1.8E-23 156.4 12.9 113 64-180 1-118 (118)
14 cd04816 PA_SaNapH_like PA_SaNa 99.7 1.6E-17 3.5E-22 149.2 13.3 110 66-180 6-122 (122)
15 cd02130 PA_ScAPY_like PA_ScAPY 99.7 1.1E-16 2.4E-21 143.7 13.2 97 80-180 22-122 (122)
16 PF06550 DUF1119: Protein of u 99.7 8.2E-16 1.8E-20 153.8 20.6 173 324-510 95-282 (283)
17 KOG4628 Predicted E3 ubiquitin 99.7 1.6E-16 3.5E-21 164.1 15.3 109 58-173 33-150 (348)
18 cd02124 PA_PoS1_like PA_PoS1_l 99.7 3.9E-16 8.5E-21 142.0 13.2 89 86-180 37-129 (129)
19 KOG3920 Uncharacterized conser 99.6 1.9E-16 4.1E-21 145.1 5.8 164 3-183 1-174 (193)
20 cd04817 PA_VapT_like PA_VapT_l 99.6 2.3E-15 4.9E-20 138.5 12.9 93 80-176 36-137 (139)
21 COG3389 Uncharacterized protei 99.5 9.5E-14 2.1E-18 134.4 12.8 161 329-507 98-272 (277)
22 PF02225 PA: PA domain; Inter 99.5 5.1E-14 1.1E-18 120.9 6.8 89 80-170 6-101 (101)
23 cd00538 PA PA: Protease-associ 99.5 3.1E-13 6.8E-18 120.2 10.0 93 87-180 27-126 (126)
24 cd02133 PA_C5a_like PA_C5a_lik 99.4 5.7E-12 1.2E-16 116.3 12.5 93 80-180 26-120 (143)
25 cd04819 PA_2 PA_2: Protease-as 99.3 2.9E-11 6.3E-16 109.6 11.8 98 80-179 23-126 (127)
26 cd04815 PA_M28_2 PA_M28_2: Pro 99.2 7.6E-11 1.6E-15 108.0 8.0 102 79-180 16-134 (134)
27 cd02120 PA_subtilisin_like PA_ 99.1 2.8E-10 6.1E-15 101.9 9.5 81 89-175 36-121 (126)
28 cd02128 PA_TfR PA_TfR: Proteas 98.7 5E-08 1.1E-12 93.7 10.0 89 80-171 29-154 (183)
29 cd04822 PA_M28_1_3 PA_M28_1_3: 98.2 1.1E-05 2.3E-10 75.7 10.4 87 80-169 20-131 (151)
30 cd04814 PA_M28_1 PA_M28_1: Pro 98.1 8.5E-06 1.8E-10 75.5 7.7 89 80-169 20-134 (142)
31 cd02121 PA_GCPII_like PA_GCPII 98.1 9.8E-06 2.1E-10 80.3 7.4 89 80-171 45-188 (220)
32 cd04820 PA_M28_1_1 PA_M28_1_1: 98.0 1.4E-05 3E-10 73.7 7.3 57 80-136 22-97 (137)
33 cd02131 PA_hNAALADL2_like PA_h 97.9 3.3E-05 7.1E-10 72.0 6.7 73 98-170 38-137 (153)
34 KOG2736 Presenilin [Signal tra 95.6 0.17 3.7E-06 53.5 12.8 68 429-506 320-387 (406)
35 cd04821 PA_M28_1_2 PA_M28_1_2: 94.6 0.065 1.4E-06 50.7 5.6 37 98-134 47-102 (157)
36 PF01080 Presenilin: Presenili 93.7 0.16 3.4E-06 54.8 7.0 67 429-506 326-393 (403)
37 KOG2195 Transferrin receptor a 77.6 4 8.6E-05 47.4 5.9 38 98-135 182-219 (702)
38 KOG2927 Membrane component of 61.7 13 0.00028 39.5 5.1 26 327-352 239-264 (372)
39 TIGR00819 ydaH p-Aminobenzoyl- 61.0 1.6E+02 0.0035 33.2 13.7 44 432-479 441-489 (513)
40 PF06541 DUF1113: Protein of u 46.8 2.5E+02 0.0054 26.3 11.4 27 360-386 129-155 (157)
41 COG1786 Swiveling domain assoc 43.8 66 0.0014 29.6 5.9 72 98-179 48-122 (131)
42 COG4882 Predicted aminopeptida 38.5 92 0.002 33.7 6.9 90 98-191 87-180 (486)
43 PRK11588 hypothetical protein; 37.0 4.1E+02 0.0089 30.0 12.1 43 244-286 280-323 (506)
44 PF03606 DcuC: C4-dicarboxylat 26.9 1.3E+02 0.0029 33.2 6.2 15 431-445 414-430 (465)
45 PRK03955 hypothetical protein; 26.8 2.3E+02 0.005 26.2 6.7 70 98-179 48-120 (131)
46 PF15345 TMEM51: Transmembrane 25.4 1E+02 0.0022 31.2 4.4 23 191-213 5-27 (233)
47 COG5540 RING-finger-containing 25.2 25 0.00054 36.8 0.1 33 104-136 150-182 (374)
48 KOG3455 Predicted membrane pro 24.9 1.7E+02 0.0037 27.2 5.4 50 460-510 74-123 (139)
49 PF07787 DUF1625: Protein of u 24.6 2.2E+02 0.0048 28.6 6.9 12 328-339 236-247 (248)
50 PF06305 DUF1049: Protein of u 23.7 91 0.002 24.5 3.1 30 171-201 2-31 (68)
51 PHA02898 virion envelope prote 21.8 4.5E+02 0.0098 22.8 6.9 23 368-390 52-74 (92)
No 1
>KOG2442 consensus Uncharacterized conserved protein, contains PA domain [General function prediction only]
Probab=100.00 E-value=7.5e-128 Score=998.46 Aligned_cols=500 Identities=49% Similarity=0.886 Sum_probs=472.8
Q ss_pred hhcccCCCcCCCCCCCCCCCCCCCceEEEEEeecCCCCccceeecccCCcCCCCCccccCceeEeEEeCCCCCCCCCCC-
Q 009527 19 SFAAAGDVTLDDDDSSPNIPGCNNKLQLVKVKNWVDNVEGESFAGLTARFGLPLPSDAAKAFKLPAVLSNPLNCCSTAS- 97 (532)
Q Consensus 19 ~~~~~~d~~~~d~~~~p~~p~c~~~f~lVkv~~~~~g~e~~~~~~~~A~FG~~lp~~~~~a~~~~Lv~~~p~daC~~~~- 97 (532)
....++|..|+|+.. |++|||+|+||++|+.+|+|+.|..++.++.++||..++...+++...++..++|.|.|++++
T Consensus 14 ~~v~a~~~~~~~~~~-~~s~gc~nd~~~l~~~~w~~~~~~~~~a~~~~~~~~t~~~~~~~a~~~~~a~~~pld~cs~~~~ 92 (541)
T KOG2442|consen 14 SFVTAGDGGHTGNSH-PKSPGCSNDFQMLKVPTWVNGVEYLEFAGMLARFGITLPSKCKAADIPHLAQVDPLDSCSTLQS 92 (541)
T ss_pred heEeecccccccccc-cCCCCCcCceEEEeccccccccchhhhhhhhhhcCCcCCCCccccccchhhhcCCccccCCCCc
Confidence 566889999998888 999999999999999999999999999999999999999888878888888999999999988
Q ss_pred CCCCcEEEEecCCCCHHHHHHHHHHcCCcEEEEEeCCCcchhcccCCCCCCCcccceEEEechHhHHHHHHHhcccceEE
Q 009527 98 KLSGSIALSMRGDCAFTTKAEVAQAAGAAALVVINDEEDLYKMVCSENDTALNISIPVLMIPKSRGDALNKSIADKQRVE 177 (532)
Q Consensus 98 ~l~g~IaLV~RG~CsF~~Ka~nAq~aGA~avIV~n~~~~l~~m~~~~~~~~~~i~IPvv~Is~~~G~~L~~~l~~G~~V~ 177 (532)
+++|+++++.||||+|++|+++||++||+|++|.||.+++..|+|.+.++..+++||++||++++|+++.+....+++|+
T Consensus 93 kl~~~~~~v~RGnC~Ft~Ka~~Aq~aGAsaLliin~~~d~~~~~~~~~~~~~dv~IPv~mi~~~~~~~l~~~~~~~~~V~ 172 (541)
T KOG2442|consen 93 KLSGKVALVFRGNCSFTEKAKLAQAAGASALLIINNKKDLLFMPCGNKETSLDVTIPVAMISYSDGRDLNKSTRSNDNVE 172 (541)
T ss_pred cccceeEEEecccceeehhhhhhhhcCceEEEEEcCchhhccCCCCCCCccccccceEEEEEhhhHHHHHhhhccCCeEE
Confidence 99999999999999999999999999999999999999999999998888999999999999999999999999999999
Q ss_pred EEeecCCCCCcchhhHHHHHHHHHHHHHHHHHhhcc-chhhhHhhhhcCCCCCCccccccccCcccceecCccchhhhHH
Q 009527 178 LLLYAPNRPDVDFAVIFLWMMAVGTIIAAALWSLLT-SEQTDERYNELSPKESSNLEAVKDDSEKEVLDITAKGAIVFVI 256 (532)
Q Consensus 178 V~l~~p~~p~vD~s~~~l~lmAv~tI~~gs~~S~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~a~~f~v 256 (532)
+++|+|++|.+|++++++|+|||+||.+|+|||+++ ||+..|+++.++|..++ +++.+|++|++..++|+..|+.|++
T Consensus 173 ~~lYaPk~P~vD~~~v~iwlmAVgTVa~ggyWs~~t~~~~~~~a~~~~~d~~s~-~~~~~~~~e~~~vd~s~i~~~~fvv 251 (541)
T KOG2442|consen 173 LALYAPKRPAVDYAMVFIWLMAVGTVACGGYWSGLTEREKAIEADRLLDDDSSS-EGNTKETKEEEVVDISPITAVFFVV 251 (541)
T ss_pred EEEECCCCCCccHHHHHHHHHHHhHhhccchhhhccChhhhhhhhhhccccccc-ccccccCCccccEEeeeeEEEEehh
Confidence 999999999999999999999999999999999999 88888888877755443 3356677788999999999999999
Q ss_pred HHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCceeeccccccchhhHHHHHHHHHHHHhhhh
Q 009527 257 VASTFLVLLYFFMSSWFVWLLVVLFCIGGIEGMHNIIVTLVLSKCRNCGRKTVHLPLLDEVSVLSLVVLLFCVVFAVVWA 336 (532)
Q Consensus 257 ~as~~L~~ly~f~~~~~~~~l~~~f~i~g~~~l~~~l~~~~~~~~~~~~~~~~~~p~~~~~~~~~l~~~~~~~~~~~~w~ 336 (532)
++|.+|++||||++ |++|+++++|||+|..|||+|+.+++.|++.+..+.....|..|..++..+++.++|++++++|+
T Consensus 252 ~~c~~LvLlyfF~~-~~V~v~iiif~i~g~~gLy~Cl~~lv~r~~~~~~~~~~~~~~l~~~~~~~l~l~~~Cia~aV~W~ 330 (541)
T KOG2442|consen 252 TACGFLVLLYFFYS-YLVYVLIIIFCIGGAQGLYNCLAALVHRLPYGAARFPTLAPRLGNMSYRLLFLSILCIAVAVVWA 330 (541)
T ss_pred hhHHHHHHHHHHHH-HHHHHHhhheeecccchHHHHHHHHHhhhhhhcccccccccccCChhHHHHHHHHhhhheeEEEE
Confidence 99999999999996 59999999999999999999999999999877666667788889999999999999999999999
Q ss_pred hhccCccchhHhhHHHHHHHHHHHHhcccCchHHHHHHHHHHHHHHHHhhhcccccc--ccceeeeecccCCCCCCCCCE
Q 009527 337 VRRQASYSWVGQDILGICLMITVLQMARLPNIKVASVLLCCAFVYDIFWVFVSPLIF--HESVMIAVARGDNSGGESIPM 414 (532)
Q Consensus 337 ~~~~~~~~W~~~nilg~~~~~~~i~~i~l~~~k~~~ilL~~lf~YDif~Vf~s~~~f--g~svMv~VA~~~~~~~~~~P~ 414 (532)
++||++|+|++||++|||+|++++|.+|+||+|++++||.++|+|||||||+||++| |||||++||+|.++++|++||
T Consensus 331 v~R~e~~AwilqDvLGIalci~vLk~vRLPnlK~~tiLL~c~f~YDiF~VFitp~~t~~geSVMieVA~G~~s~~EkiPM 410 (541)
T KOG2442|consen 331 VFRNEDWAWILQDVLGIALCITVLKTVRLPNLKVCTILLLCLFLYDIFFVFITPFITKNGESVMIEVARGPSSTEEKIPM 410 (541)
T ss_pred EeecCchHHHHHhhHhHHHHHHHHHHhcCCchhHHHHHHHHHHHHhhheeeeehhhccCCceEEEEEecCCCCCCCCcce
Confidence 999999999999999999999999999999999999999999999999999999999 599999999999999999999
Q ss_pred EEEecccc-----CCCCcccccCCCccchhhHHHHHHhhhccccccCcccchHHHHHHHHHHHHHHHHHHHHHhcCCCcc
Q 009527 415 LLRIPRLF-----DPWGGYDMIGFGDILFPGLLICFAFRYDKENKKGVVKGYFLWLIIGYGFGLFLTYLGLYLMNGHGQP 489 (532)
Q Consensus 415 ~l~~P~~~-----~~~~~~s~LGlGDIviPGl~i~~~~rfD~~~~~~~~~~YF~~~~~gY~~GL~~t~~~~~~~~~~~QP 489 (532)
++++||++ ++|++|||||||||++||++|+||+|||...++. ++.||.++++||++||++||+|+++| +.|||
T Consensus 411 lLkVPrl~~s~~~~~~~~~silGFGDIl~PGlLVa~c~RfD~~~~~~-~~iYfv~~tvaYgiGLlvTfvaL~LM-~~GQP 488 (541)
T KOG2442|consen 411 LLKVPRLFFSVLSDPWGGYSILGFGDILVPGLLVAFCLRFDVQVNSV-SNIYFVWSTVAYGIGLLVTFVALVLM-KGGQP 488 (541)
T ss_pred EEEcchhccccccccCCCeeEeeecccccchHHHHHHHHhhhhcccc-ceeEEehhHHHHHHHHHHHHHHHHHh-cCCCc
Confidence 99999999 8899999999999999999999999999988875 68999999999999999999999999 66999
Q ss_pred cccccchhhhHHHHHHHHHhchhhhcccccCCCC
Q 009527 490 ALLYLVPCTLGLTVILGLARGELKHLWDYSREPS 523 (532)
Q Consensus 490 ALlYlvP~~l~~~~~~a~~rgel~~lw~~~~~~~ 523 (532)
||||||||||++.+.+|++|||++++|+|.....
T Consensus 489 ALLYLVP~TL~t~~~lal~R~El~~fWtg~~~~~ 522 (541)
T KOG2442|consen 489 ALLYLVPCTLGTAVVLALCRGELKKFWTGGSYQK 522 (541)
T ss_pred eEEEEechHHHHHHHHHHHHHHHHHHhccCCccc
Confidence 9999999999999999999999999999987543
No 2
>KOG2443 consensus Uncharacterized conserved protein [Function unknown]
Probab=100.00 E-value=2.5e-67 Score=528.81 Aligned_cols=309 Identities=28% Similarity=0.507 Sum_probs=260.4
Q ss_pred CcchhhHHHHHHHHHHHHHHHHHhhcc-chhhhHhhhhcCCCCCCccccccccCcccceecCccchhh-hHHHHHHHHHH
Q 009527 187 DVDFAVIFLWMMAVGTIIAAALWSLLT-SEQTDERYNELSPKESSNLEAVKDDSEKEVLDITAKGAIV-FVIVASTFLVL 264 (532)
Q Consensus 187 ~vD~s~~~l~lmAv~tI~~gs~~S~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~a~~-f~v~as~~L~~ 264 (532)
..+.+.+.+.+||+.+|++||+||.+. +| .||+ ++..+.++.++|.. ||+++||.|++
T Consensus 22 ~~~~~~~sl~l~A~l~i~~GsfRS~~~~~~-------------------~~d~-~~~~es~t~~~a~~~fPi~~s~tLl~ 81 (362)
T KOG2443|consen 22 LLASAYVSLILIALLLIVIGSFRSLNYIKE-------------------NEDK-KDKSESITKRDAGKMFPIIGSCTLLL 81 (362)
T ss_pred hhcccchHHHHHHHHHHHHHHHHHhhhhhh-------------------hhcc-cchhhhhhhhhhcccCCcccchHHHH
Confidence 467788999999999999999999975 21 0111 13445677777777 99999999999
Q ss_pred HHHHhHHHH---HHHHHHHHHHHHHHHHHHHHHHHHhh----hhcC---------CCCceeeccccccchhhHHHHHHHH
Q 009527 265 LYFFMSSWF---VWLLVVLFCIGGIEGMHNIIVTLVLS----KCRN---------CGRKTVHLPLLDEVSVLSLVVLLFC 328 (532)
Q Consensus 265 ly~f~~~~~---~~~l~~~f~i~g~~~l~~~l~~~~~~----~~~~---------~~~~~~~~p~~~~~~~~~l~~~~~~ 328 (532)
||++++... ..+++.||++.|+.++.+.+.|+++. ..|. ...++...-+.++++..+++.+..|
T Consensus 82 lyl~fk~ls~~~~~ll~~~ff~~g~~al~~~~~p~~~~~~~~l~p~~~~~~~~~~~~~~~~~~~~~~~Ft~~~iv~~vls 161 (362)
T KOG2443|consen 82 LYLLFKPLSKELINLLTMYFFFLGVIALLSLLDPFINAFKFLLLPMCQYHLLFPRGPGEKKEFICNGKFTRAQIVALVLS 161 (362)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHhhhhhhcCccchhheeeeccCCcccceeecccccHHHHHHHHHH
Confidence 999875432 34789999999999999999998871 1111 1111212223467888999999999
Q ss_pred HHHHhhhhhhccCccchhHhhHHHHHHHHHHHHhcccCchHHHHHHHHHHHHHHHHhhhccccccccceeeeecccCCCC
Q 009527 329 VVFAVVWAVRRQASYSWVGQDILGICLMITVLQMARLPNIKVASVLLCCAFVYDIFWVFVSPLIFHESVMIAVARGDNSG 408 (532)
Q Consensus 329 ~~~~~~w~~~~~~~~~W~~~nilg~~~~~~~i~~i~l~~~k~~~ilL~~lf~YDif~Vf~s~~~fg~svMv~VA~~~~~~ 408 (532)
..++++|++++| |++||++|+++|++.|+.+|+||+|+|++||.++|+|||||||+ ++||++|||+.+
T Consensus 162 ~~i~v~~ll~~H----Wl~nN~lgms~~I~~I~~lrL~s~ktgalLL~gLffYDIfwVFg------TnVMVtVAt~~D-- 229 (362)
T KOG2443|consen 162 SMIVVWYLLTKH----WLANNLLGMSFCIAGIEFLRLPSLKTGALLLGGLFFYDIFWVFG------TNVMVTVATSLD-- 229 (362)
T ss_pred HHHHHHHHhhhH----HHHHhHHHHHHHHHHHHHhcccchhhhHHHHHHHHHHheEEEec------CceEEEeecccC--
Confidence 999999999886 99999999999999999999999999999999999999999995 569999999864
Q ss_pred CCCCCEEEEeccccCCC----CcccccCCCccchhhHHHHHHhhhccccccC-cccchHHHHHHHHHHHHHHHHHHHHHh
Q 009527 409 GESIPMLLRIPRLFDPW----GGYDMIGFGDILFPGLLICFAFRYDKENKKG-VVKGYFLWLIIGYGFGLFLTYLGLYLM 483 (532)
Q Consensus 409 ~~~~P~~l~~P~~~~~~----~~~s~LGlGDIviPGl~i~~~~rfD~~~~~~-~~~~YF~~~~~gY~~GL~~t~~~~~~~ 483 (532)
+|+|+++|+..... .+||||||||||+||+|+|+++|||.++++. ..+.||..+++||.+||..|+++|+++
T Consensus 230 ---~PikL~fP~~l~~~~~~as~fsMLGLGDIviPGiflAl~lRfD~~k~~~s~~~~YF~~t~i~Y~~gL~~ti~~~~~F 306 (362)
T KOG2443|consen 230 ---APIKLVFPQKLLFPGLTASNFSMLGLGDIVIPGIFLALVLRFDIRKKRNSKVRTYFHNTFIAYFLGLLTTIVVLHIF 306 (362)
T ss_pred ---CceEEecchhhccCCCccccceeccccchhhHHHHHHHHHHhhHHHHhcccCceEEEEeHHHHHhhhHHHhhhhhhh
Confidence 89999999976543 3599999999999999999999999876542 457899999999999999999999999
Q ss_pred cCCCcccccccchhhhHHHHHHHHHhchhhhcccccCCCCCCCCCCCC
Q 009527 484 NGHGQPALLYLVPCTLGLTVILGLARGELKHLWDYSREPSSDMNRPVE 531 (532)
Q Consensus 484 ~~~~QPALlYlvP~~l~~~~~~a~~rgel~~lw~~~~~~~~~~~~~~~ 531 (532)
+++|||||||||+|+++.+++|++|||+|.+|+++++..+|+.+.-|
T Consensus 307 -kaAQPALLYlVP~~l~~~ll~A~~~gdlk~l~s~~~~~~~~~~~~~e 353 (362)
T KOG2443|consen 307 -KAAQPALLYLVPACLGPLLLMAYWRGDLKVLWSFDESTKEESAEQDE 353 (362)
T ss_pred -hccchhhhhhhHHHHhHHHHHHHHccchHhhhCccccCCCCcHHHHh
Confidence 99999999999999999999999999999999999987766654433
No 3
>PF04258 Peptidase_A22B: Signal peptide peptidase; InterPro: IPR007369 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Aspartic endopeptidases 3.4.23. from EC of vertebrate, fungal and retroviral origin have been characterised []. More recently, aspartic endopeptidases associated with the processing of bacterial type 4 prepilin [] and archaean preflagellin have been described [, ]. Structurally, aspartic endopeptidases are bilobal enzymes, each lobe contributing a catalytic Asp residue, with an extended active site cleft localised between the two lobes of the molecule. One lobe has probably evolved from the other through a gene duplication event in the distant past. In modern-day enzymes, although the three-dimensional structures are very similar, the amino acid sequences are more divergent, except for the catalytic site motif, which is very conserved. The presence and position of disulphide bridges are other conserved features of aspartic peptidases. All or most aspartate peptidases are endopeptidases. These enzymes have been assigned into clans (proteins which are evolutionary related), and further sub-divided into families, largely on the basis of their tertiary structure. This group of sequences contain aspartic endopeptidases belong to MEROPS peptidase family A22 (presenilin family, clan AD): subfamily A22B. The peptidases were originally classified by hierarchical homology to the most conserved member - IMPAS 1. They are also known as signal peptide peptidase (SPP) []. They belong to the I-CliP family of peptidases. SPP cleaves cleaves remnant signal peptides left behind in the membrane by the action of signal peptidase and also plays key roles in immune surveillance and the maturation of certain viral proteins []. SPPs do not require cofactors as demonstrated by expression in bacteria and purification of a proteolytically active form. The C-terminal region defines the functional domain, which is in itself sufficient for proteolytic activity []. ; GO: 0004190 aspartic-type endopeptidase activity, 0016021 integral to membrane; PDB: 1JUF_C 1INQ_C.
Probab=100.00 E-value=1.5e-68 Score=547.73 Aligned_cols=274 Identities=43% Similarity=0.825 Sum_probs=1.0
Q ss_pred cccceecCccchhhhHHHHHHHHHHHHHHhHHHH------HHHHHHHHHHHHHHHHHHHHHHHHhhhhcC-----CCCce
Q 009527 240 EKEVLDITAKGAIVFVIVASTFLVLLYFFMSSWF------VWLLVVLFCIGGIEGMHNIIVTLVLSKCRN-----CGRKT 308 (532)
Q Consensus 240 ~~~~~~i~~~~a~~f~v~as~~L~~ly~f~~~~~------~~~l~~~f~i~g~~~l~~~l~~~~~~~~~~-----~~~~~ 308 (532)
|++.+++|.++|++||++||++|++||++++++. .++++.+|+++|+.++...+.+.+.+.++. ..+++
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 468999999999999877777766653321 12223
Q ss_pred eec--------cccccchhhHHHHHHHHHHHHhhhhhhccCccchhHhhHHHHHHHHHHHHhcccCchHHHHHHHHHHHH
Q 009527 309 VHL--------PLLDEVSVLSLVVLLFCVVFAVVWAVRRQASYSWVGQDILGICLMITVLQMARLPNIKVASVLLCCAFV 380 (532)
Q Consensus 309 ~~~--------p~~~~~~~~~l~~~~~~~~~~~~w~~~~~~~~~W~~~nilg~~~~~~~i~~i~l~~~k~~~ilL~~lf~ 380 (532)
.++ ++.++++..++++.++|+++++.|+++|++ +|++||++|+|+|+++++.+|+||+|++++||+++|+
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 333 455678888999999999999999998875 5999999999999999999999999999999999999
Q ss_pred HHHHhhhccccccccceeeeecccCCCCCCCCCEEEEeccccC----CCCcccccCCCccchhhHHHHHHhhhccccccC
Q 009527 381 YDIFWVFVSPLIFHESVMIAVARGDNSGGESIPMLLRIPRLFD----PWGGYDMIGFGDILFPGLLICFAFRYDKENKKG 456 (532)
Q Consensus 381 YDif~Vf~s~~~fg~svMv~VA~~~~~~~~~~P~~l~~P~~~~----~~~~~s~LGlGDIviPGl~i~~~~rfD~~~~~~ 456 (532)
|||||||+||++||+|||++|||+..++++++|+|+++|+..+ ..++|||||+||||+||+|+++|+|||..++++
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 9999999999999999999999994334578899999999864 468899999999999999999999999988432
Q ss_pred cccchHHHHHHHHHHHHHHHHHHHHHhcCCCcccccccchhhhHHHHHHHHHhchhhhccc
Q 009527 457 VVKGYFLWLIIGYGFGLFLTYLGLYLMNGHGQPALLYLVPCTLGLTVILGLARGELKHLWD 517 (532)
Q Consensus 457 ~~~~YF~~~~~gY~~GL~~t~~~~~~~~~~~QPALlYlvP~~l~~~~~~a~~rgel~~lw~ 517 (532)
+++||.++++||++||++|+++++++ ++||||||||||+|+++++++|++|||++++|+
T Consensus 240 -~~~Yf~~~~~~Y~~Gl~~t~~~~~~~-~~~QPALlylvP~~l~~~~~~a~~r~el~~~w~ 298 (298)
T PF04258_consen 240 -RKPYFIASLIGYALGLLLTFVALHLF-KHGQPALLYLVPCTLGSVLLVAWIRGELKDFWN 298 (298)
T ss_dssp -------------------------------------------------------------
T ss_pred -cchHHHHHHHHHHHHHHHHHHHHHHh-CCCCCeehHHHHHHHHHHHHHHHHhhHHHHhhC
Confidence 46799999999999999999999999 999999999999999999999999999999997
No 4
>smart00730 PSN Presenilin, signal peptide peptidase, family. Presenilin 1 and presenilin 2 are polytopic membrane proteins, whose genes are mutated in some individuals with Alzheimer's disease. Distant homologues, present in eukaryotes and archaea, also contain conserved aspartic acid residues which are predicted to contribute to catalysis. At least one member of this family has been shown to possess signal peptide peptidase activity.
Probab=100.00 E-value=1.2e-50 Score=405.00 Aligned_cols=242 Identities=39% Similarity=0.628 Sum_probs=214.7
Q ss_pred eecCccchhhhHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCceeeccccccchhhHHH
Q 009527 244 LDITAKGAIVFVIVASTFLVLLYFFMSSWFVWLLVVLFCIGGIEGMHNIIVTLVLSKCRNCGRKTVHLPLLDEVSVLSLV 323 (532)
Q Consensus 244 ~~i~~~~a~~f~v~as~~L~~ly~f~~~~~~~~l~~~f~i~g~~~l~~~l~~~~~~~~~~~~~~~~~~p~~~~~~~~~l~ 323 (532)
+.+|+++++.||+++|++|+++|++++.+ +..+.++|+++|+.+++.++.+..... .+..+..
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 46789999999999999999999999876 788899999999999998887654432 2345566
Q ss_pred HHHHHHHHHhhhhhhccCccchhHhhHHHHHHHHHHHHhcccCchHHHHHHHHHHHHHHHHhhhccccccccceeeeecc
Q 009527 324 VLLFCVVFAVVWAVRRQASYSWVGQDILGICLMITVLQMARLPNIKVASVLLCCAFVYDIFWVFVSPLIFHESVMIAVAR 403 (532)
Q Consensus 324 ~~~~~~~~~~~w~~~~~~~~~W~~~nilg~~~~~~~i~~i~l~~~k~~~ilL~~lf~YDif~Vf~s~~~fg~svMv~VA~ 403 (532)
...+++++...|.++++ ++|+.||++|+++++.+++.+++||+|++.+||+++++||+||||+||. +++||++||+
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 77788888899998876 6799999999999999999999999999999999999999999999997 9999999999
Q ss_pred cCCCCCCCCCEEEEeccc-----cCCCCcccccCCCccchhhHHHHHHhhhccccccCcccchHHHHHHHHHHHHHHHHH
Q 009527 404 GDNSGGESIPMLLRIPRL-----FDPWGGYDMIGFGDILFPGLLICFAFRYDKENKKGVVKGYFLWLIIGYGFGLFLTYL 478 (532)
Q Consensus 404 ~~~~~~~~~P~~l~~P~~-----~~~~~~~s~LGlGDIviPGl~i~~~~rfD~~~~~~~~~~YF~~~~~gY~~GL~~t~~ 478 (532)
+.++..|.+|+++..||. .+..+++++||+||||+||+++++|+|||..+++ +..||..+++||++||+.|++
T Consensus 142 ~~~~~~~~~P~ll~~p~~~~~~~~~~~~~~~~LGLGDiv~Pgilv~~a~~fd~~~~~--~~~yf~~~~~ay~~GL~~t~~ 219 (249)
T smart00730 142 GRDEPIKVFPALLYVPRLVVSFEDDEEGRFSMLGLGDIVFPGILVASAARFDVSVRS--DSNYFLACFVAYGIGLILTLV 219 (249)
T ss_pred cCCCCcccCChhhcccccccccccCCCCccceecCCCeeeHHHHHHHHHHhhhcccC--CcccHHHHHHHHHHHHHHHHH
Confidence 986432468999999984 2235789999999999999999999999987543 468999999999999999999
Q ss_pred HHHHhcCCCcccccccchhhhHHHHHHHHHh
Q 009527 479 GLYLMNGHGQPALLYLVPCTLGLTVILGLAR 509 (532)
Q Consensus 479 ~~~~~~~~~QPALlYlvP~~l~~~~~~a~~r 509 (532)
+++.+ ++|||||+|+||+++++.++.|+.|
T Consensus 220 ~l~~~-~~aqPALlylvp~~l~~~~~~~~~r 249 (249)
T smart00730 220 LLALF-KKAQPALPYLVPFTLVFYLLTALLR 249 (249)
T ss_pred HHHHh-CCCCccHHHHHHHHHHHHHHHHHhC
Confidence 99999 8999999999999999999999976
No 5
>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=1.3e-28 Score=226.28 Aligned_cols=138 Identities=64% Similarity=1.042 Sum_probs=125.7
Q ss_pred ceEEEEEeecCCCCccceeecccCCcCCCCCccccCceeEeEEeCCCCCCCCCCC-CCCCcEEEEecCCCCHHHHHHHHH
Q 009527 43 KLQLVKVKNWVDNVEGESFAGLTARFGLPLPSDAAKAFKLPAVLSNPLNCCSTAS-KLSGSIALSMRGDCAFTTKAEVAQ 121 (532)
Q Consensus 43 ~f~lVkv~~~~~g~e~~~~~~~~A~FG~~lp~~~~~a~~~~Lv~~~p~daC~~~~-~l~g~IaLV~RG~CsF~~Ka~nAq 121 (532)
+|++|+|.+|+++.+.++|.+.+|+||..+|.+..++.+++++.++|.++|++.+ +++|+|+||+||+|+|.+|++|||
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 4899999999999999999999999999999887777899999999999999988 999999999999999999999999
Q ss_pred HcCCcEEEEEeCCCcchhcccCCCCCCCcccceEEEechHhHHHHHHHhcccceEEEEe
Q 009527 122 AAGAAALVVINDEEDLYKMVCSENDTALNISIPVLMIPKSRGDALNKSIADKQRVELLL 180 (532)
Q Consensus 122 ~aGA~avIV~n~~~~l~~m~~~~~~~~~~i~IPvv~Is~~~G~~L~~~l~~G~~V~V~l 180 (532)
++||+++||||+.++...|.+.++++..+++||+++|++++|+.|++.+++|++|++++
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 99999999999987777776544444446899999999999999999999999999864
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=5e-23 Score=184.29 Aligned_cols=116 Identities=27% Similarity=0.427 Sum_probs=97.8
Q ss_pred eEEEEEeecCCCCccceeecccCCcCCCCCccccCceeEeEEeCCCCCCCCCCC----CCCCcEEEEecCCCCHHHHHHH
Q 009527 44 LQLVKVKNWVDNVEGESFAGLTARFGLPLPSDAAKAFKLPAVLSNPLNCCSTAS----KLSGSIALSMRGDCAFTTKAEV 119 (532)
Q Consensus 44 f~lVkv~~~~~g~e~~~~~~~~A~FG~~lp~~~~~a~~~~Lv~~~p~daC~~~~----~l~g~IaLV~RG~CsF~~Ka~n 119 (532)
||++++.+|. .+|++.+++...+++.++|..+|++.+ +++|+|+||+||+|+|.+|++|
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 7888888884 689998999999999999999999876 6889999999999999999999
Q ss_pred HHHcCCcEEEEEeCCCcchhcccCCCCCCCcccceEEEechHhHHHHHHHhcccceEEEEe
Q 009527 120 AQAAGAAALVVINDEEDLYKMVCSENDTALNISIPVLMIPKSRGDALNKSIADKQRVELLL 180 (532)
Q Consensus 120 Aq~aGA~avIV~n~~~~l~~m~~~~~~~~~~i~IPvv~Is~~~G~~L~~~l~~G~~V~V~l 180 (532)
||++||+|+|||||++.. .+.. ......+++||++||++++|+.|++.+ |+.|+|+|
T Consensus 64 Aq~aGA~aVII~nn~~~~-~~~~-~~~~~~~v~IP~v~Is~~dG~~i~~~l--~~~~~v~~ 120 (120)
T cd02129 64 AQSLGAEGLLIVSRERLV-PPSG-NRSEYEKIDIPVALLSYKDMLDIQQTF--GDSVKVAM 120 (120)
T ss_pred HHHCCCCEEEEEECCCCC-CCCC-CCCCCcCCcccEEEEeHHHHHHHHHHh--ccCcEEeC
Confidence 999999999999997642 1211 112235789999999999999999999 46677664
No 7
>cd02126 PA_EDEM3_like PA_EDEM3_like: protease associated domain (PA) domain-containing EDEM3-like proteins. This group contains various PA domain-containing proteins similar to mouse EDEM3 (ER-degradation-enhancing mannosidase-like 3 protein). EDEM3 contains a region, similar to Class I alpha-mannosidases (gylcosyl hydrolase family 47), N-terminal to the PA domain. EDEM3 accelerates glycoprotein ERAD (ER-associated degradation). In transfected mammalian cells, overexpression of EDEM3 enhances the mannose trimming from the N-glycans, of a model misfolded protein [alpha1-antitrypsin null (Hong Kong)] as well as, from total glycoproteins. Mannose trimming appears to be involved in the selection of ERAD substrates. EDEM3 has a different specificity of trimming than ER alpha-mannosidase 1. The significance of the PA domain to EDEM3 has not been ascertained. It may be a protein-protein interaction domain. At peptidase active sites, the PA domain may participate in substrate binding and/or pr
Probab=99.88 E-value=4.1e-22 Score=180.35 Aligned_cols=115 Identities=35% Similarity=0.563 Sum_probs=97.2
Q ss_pred cccCCcCCCCCccccCceeEeEEeCCCCCCCCCCC---CCCCcEEEEecCCCCHHHHHHHHHHcCCcEEEEEeCCCc---
Q 009527 63 GLTARFGLPLPSDAAKAFKLPAVLSNPLNCCSTAS---KLSGSIALSMRGDCAFTTKAEVAQAAGAAALVVINDEED--- 136 (532)
Q Consensus 63 ~~~A~FG~~lp~~~~~a~~~~Lv~~~p~daC~~~~---~l~g~IaLV~RG~CsF~~Ka~nAq~aGA~avIV~n~~~~--- 136 (532)
..||+||.++|+.. ...++|+.++|.++|++.. +++|||+|++||+|+|.+|+++||++||+|+||+||.++
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 46899999999753 2578999999999999876 689999999999999999999999999999999997643
Q ss_pred ----chhcccCCCCCCCcccceEEEechHhHHHHHHHhcccceEEEEe
Q 009527 137 ----LYKMVCSENDTALNISIPVLMIPKSRGDALNKSIADKQRVELLL 180 (532)
Q Consensus 137 ----l~~m~~~~~~~~~~i~IPvv~Is~~~G~~L~~~l~~G~~V~V~l 180 (532)
.+.|.++. +...+++||+++|++++|+.|++.+++|.+|++.+
T Consensus 80 ~~~~~~~m~~~~-~~~~~~~IP~v~I~~~dG~~L~~~l~~~~~~~~~~ 126 (126)
T cd02126 80 DTAPMFAMSGDG-DSTDDVTIPVVFLFSKEGSKLLAAIKEHQNVEVLL 126 (126)
T ss_pred cccceeEeecCC-CCCCCCeEEEEEEEHHHHHHHHHHHHhCCceEEeC
Confidence 34554432 12246899999999999999999999999999864
No 8
>cd02127 PA_hPAP21_like PA_hPAP21_like: Protease-associated domain containing proteins like the human secreted glycoprotein hPAP21 (human protease-associated domain-containing protein, 21kDa). This group contains various PA domain-containing proteins similar to hPAP21. Complex N-glycosylation may be required for the secretion of hPAP21. The significance of the PA domain to hPAP21 has not been ascertained. It may be a protein-protein interaction domain. At peptidase active sites, the PA domain may participate in substrate binding and/or promoting conformational changes, which influence the stability and accessibility of the site to substrate.
Probab=99.86 E-value=3.7e-21 Score=172.26 Aligned_cols=109 Identities=28% Similarity=0.475 Sum_probs=93.6
Q ss_pred CcCCCCCccccCceeEeEEeCCCCCCCCCCC---CCCCcEEEEecCCCCHHHHHHHHHHcCCcEEEEEeCCCc----chh
Q 009527 67 RFGLPLPSDAAKAFKLPAVLSNPLNCCSTAS---KLSGSIALSMRGDCAFTTKAEVAQAAGAAALVVINDEED----LYK 139 (532)
Q Consensus 67 ~FG~~lp~~~~~a~~~~Lv~~~p~daC~~~~---~l~g~IaLV~RG~CsF~~Ka~nAq~aGA~avIV~n~~~~----l~~ 139 (532)
.||..++.+. ..++|+.++|.++|++.. +++|+|+||+||+|+|.+|+++||++||+|+||||+.++ .+.
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 4888888875 568999999999999866 689999999999999999999999999999999998643 345
Q ss_pred cccCCCCCCCcccceEEEechHhHHHHHHHhcccceEEEEe
Q 009527 140 MVCSENDTALNISIPVLMIPKSRGDALNKSIADKQRVELLL 180 (532)
Q Consensus 140 m~~~~~~~~~~i~IPvv~Is~~~G~~L~~~l~~G~~V~V~l 180 (532)
|.++ +...+++||+++|++++|+.|++.+++|..+++.+
T Consensus 78 m~~~--~~~~~i~IP~v~Is~~dG~~L~~~l~~g~~~~~~~ 116 (118)
T cd02127 78 MIQD--DSSRRADIPAAFLLGKNGYMIRKTLERLGLPYAII 116 (118)
T ss_pred ecCC--CCCCCceEEEEEecHHHHHHHHHHHHcCCceEEee
Confidence 6553 22356899999999999999999999999887765
No 9
>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=4.3e-20 Score=169.69 Aligned_cols=109 Identities=25% Similarity=0.360 Sum_probs=91.5
Q ss_pred ccCCcCCCCCccccCceeEeEEe---CCCCCCCCCCC------CCCCcEEEEecCCCCHHHHHHHHHHcCCcEEEEEeCC
Q 009527 64 LTARFGLPLPSDAAKAFKLPAVL---SNPLNCCSTAS------KLSGSIALSMRGDCAFTTKAEVAQAAGAAALVVINDE 134 (532)
Q Consensus 64 ~~A~FG~~lp~~~~~a~~~~Lv~---~~p~daC~~~~------~l~g~IaLV~RG~CsF~~Ka~nAq~aGA~avIV~n~~ 134 (532)
.+|+||.++|.+. ..+.|+. +++.++|++++ +.+|+||||+||+|+|.+|++|||++||+++||||+.
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 4799999998876 5666654 45689998765 4789999999999999999999999999999999998
Q ss_pred C-c--chhcccCCCCCCCcccceEEEechHhHHHHHHHhcccceEEEEe
Q 009527 135 E-D--LYKMVCSENDTALNISIPVLMIPKSRGDALNKSIADKQRVELLL 180 (532)
Q Consensus 135 ~-~--l~~m~~~~~~~~~~i~IPvv~Is~~~G~~L~~~l~~G~~V~V~l 180 (532)
+ . .+.|...+ ..+||+++|++++|+.|++.+++|++|+|++
T Consensus 95 ~~~~~~~~m~~~~-----~~~ip~v~Is~~~G~~l~~~l~~G~~Vtv~~ 138 (138)
T cd02122 95 GTGNETVKMSHPG-----TGDIVAIMITNPKGMEILELLERGISVTMVI 138 (138)
T ss_pred CCCCceeeccCCC-----CCcceEEEEcHHHHHHHHHHHHcCCcEEEeC
Confidence 5 2 55665431 3478999999999999999999999998864
No 10
>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=99.83 E-value=4.4e-20 Score=167.38 Aligned_cols=101 Identities=33% Similarity=0.407 Sum_probs=84.8
Q ss_pred eeEeEEeC-CCCCCCCCCCC----------CCCcEEEEecCCCCHHHHHHHHHHcCCcEEEEEeCCCc-chhcccCCCC-
Q 009527 80 FKLPAVLS-NPLNCCSTASK----------LSGSIALSMRGDCAFTTKAEVAQAAGAAALVVINDEED-LYKMVCSEND- 146 (532)
Q Consensus 80 ~~~~Lv~~-~p~daC~~~~~----------l~g~IaLV~RG~CsF~~Ka~nAq~aGA~avIV~n~~~~-l~~m~~~~~~- 146 (532)
..+.|+.+ ++.++|++.+. ..++|+||+||+|+|.+|++|||++||+++||||+.++ ++.|.+++++
T Consensus 11 ~~G~l~~~~~~~~gC~~~~~~~~~~~~~~~~~~~IvLv~RG~C~F~~K~~~Aq~aGA~avII~n~~~~~~~~m~~~~~~~ 90 (127)
T cd02125 11 LTGVVVYPKENRTGCKEFDVFFKPKKSEPGRRPVILLLDRGGCFFTLKAWNAQQAGAAAVLVADNVDEPLLTMDTPEESG 90 (127)
T ss_pred eEEEEEecCCccccCCCCcccccccccccCCCceEEEEECCCcCHHHHHHHHHHCCCcEEEEEECCCCccccccCccccc
Confidence 56677755 67899998771 55789999999999999999999999999999999765 5677653221
Q ss_pred ---CCCcccceEEEechHhHHHHHHHhcccceEEEEe
Q 009527 147 ---TALNISIPVLMIPKSRGDALNKSIADKQRVELLL 180 (532)
Q Consensus 147 ---~~~~i~IPvv~Is~~~G~~L~~~l~~G~~V~V~l 180 (532)
...+++||+++|++++|++|++.+++|++|+|++
T Consensus 91 ~~~~~~~i~IP~v~Is~~~G~~L~~~l~~g~~V~v~~ 127 (127)
T cd02125 91 SADYIEKITIPSALITKAFGEKLKKAISNGEMVVIKL 127 (127)
T ss_pred ccccCCCceEeEEEECHHHHHHHHHHHhcCCeEEEeC
Confidence 2356899999999999999999999999999875
No 11
>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=6.6e-20 Score=171.30 Aligned_cols=115 Identities=35% Similarity=0.522 Sum_probs=97.9
Q ss_pred ccceeecccCCcCCCCCccccCceeEeEEeCCCCCCCCCCC-------CCCCcEEEEecCCCCHHHHHHHHHHcCCcEEE
Q 009527 57 EGESFAGLTARFGLPLPSDAAKAFKLPAVLSNPLNCCSTAS-------KLSGSIALSMRGDCAFTTKAEVAQAAGAAALV 129 (532)
Q Consensus 57 e~~~~~~~~A~FG~~lp~~~~~a~~~~Lv~~~p~daC~~~~-------~l~g~IaLV~RG~CsF~~Ka~nAq~aGA~avI 129 (532)
+..++...+|+||...+... .+++|+.++|.++|++.+ ...|+|+||+||+|+|.+|++|||++||+++|
T Consensus 20 ~~~~~~~~~A~FG~~~~~~~---~~g~lv~~~p~~gC~~~~~~~~~~~~~~g~IvLV~RG~CtF~~Kv~nAq~aGA~avI 96 (153)
T cd02123 20 LTDEFDDLPANFGPIPPGSG---LKGVLVVAEPLNACSPIENPPLNSNASGSFIVLIRRGNCSFETKVRNAQRAGYKAAI 96 (153)
T ss_pred ccceEeeecccCCCCCCCCc---eEEEEEeCCccccCCCCcccccccccCCCeEEEEECCCCCHHHHHHHHHHCCCCEEE
Confidence 56789999999998877543 678899999999998766 46799999999999999999999999999999
Q ss_pred EEeCCCc-chhcccCCCCCCCcccceEEEechHhHHHHHHHhcccce
Q 009527 130 VINDEED-LYKMVCSENDTALNISIPVLMIPKSRGDALNKSIADKQR 175 (532)
Q Consensus 130 V~n~~~~-l~~m~~~~~~~~~~i~IPvv~Is~~~G~~L~~~l~~G~~ 175 (532)
|||++++ +..|.+.+.+ ..+++||+++|++++|+.|++.+++++.
T Consensus 97 I~n~~~~~~~~m~~~~~~-~~~v~IP~v~Is~~dg~~L~~~l~~~~~ 142 (153)
T cd02123 97 VYNDESNDLISMSGNDQE-IKGIDIPSVFVGKSTGEILKKYASYEKG 142 (153)
T ss_pred EEECCCCcceeccCCCCC-CcCCEEEEEEeeHHHHHHHHHHHhcCCc
Confidence 9998754 5667654322 2478999999999999999999998877
No 12
>cd04813 PA_1 PA_1: Protease-associated (PA) domain subgroup 1. A subgroup of PA-domain containing proteins. Proteins in this subgroup contain a RING-finger (Really Interesting New Gene) domain C-terminal to this PA domain. The PA domain is an insert domain in a diverse fraction of proteases. The significance of the PA domain to many of the proteins in which it is inserted is undetermined. It may be a protein-protein interaction domain. At peptidase active sites, the PA domain may participate in substrate binding and/or promoting conformational changes, which influence the stability and accessibility of the site to substrate. Proteins in this group contain a C-terminal RING-finger domain. Proteins into which the PA domain is inserted include the following: i) various signal peptide peptidases: such as hSPPL2a and 2b, ii) various E3 ubiquitin ligases similar to human GRAIL (gene related to anergy in lymphocytes) protein, iii) various proteins containing a RING finger motif such as Arabid
Probab=99.80 E-value=1.9e-19 Score=161.04 Aligned_cols=101 Identities=29% Similarity=0.457 Sum_probs=83.9
Q ss_pred cccCCcCCCCCccccCceeEeEEeCCCCCCCCCCC--CCCCcEEEEecCCCCHHHHHHHHHHcCCcEEEEEeCCCc--ch
Q 009527 63 GLTARFGLPLPSDAAKAFKLPAVLSNPLNCCSTAS--KLSGSIALSMRGDCAFTTKAEVAQAAGAAALVVINDEED--LY 138 (532)
Q Consensus 63 ~~~A~FG~~lp~~~~~a~~~~Lv~~~p~daC~~~~--~l~g~IaLV~RG~CsF~~Ka~nAq~aGA~avIV~n~~~~--l~ 138 (532)
++.|+||+.+....++. . .++|.++|++.+ +++|+||||+||+|+|.+|++|||++||+++||||+.++ +.
T Consensus 5 ~~~~~~~~~~~~~~~~~---~--~~~p~~gC~~~~~~~l~gkIvLV~RG~CsF~~K~~nAq~aGA~avII~n~~~~~~~~ 79 (117)
T cd04813 5 GRYASFSPILNPHLRGS---Y--KVSPTDACSLQEHAEIDGKVALVLRGGCGFLDKVMWAQRRGAKAVIVGDDEPGRGLI 79 (117)
T ss_pred ccccccCCccCcccccc---c--cCCCCCCCCCCCcCCcCCeEEEEECCCCCHHHHHHHHHHCCCcEEEEEECCCcccce
Confidence 36799999987765322 2 278899999887 899999999999999999999999999999999998753 45
Q ss_pred hcccCCCCCCCcccceEEEechHhHHHHHHHh
Q 009527 139 KMVCSENDTALNISIPVLMIPKSRGDALNKSI 170 (532)
Q Consensus 139 ~m~~~~~~~~~~i~IPvv~Is~~~G~~L~~~l 170 (532)
.|.+.+ ...+++||+++|++++|+.|++.+
T Consensus 80 ~m~~~~--~~~~v~IPav~Is~~~g~~L~~l~ 109 (117)
T cd04813 80 TMFSNG--DTDNVTIPAMFTSRTSYHLLSSLL 109 (117)
T ss_pred ecccCC--CCCCcEEEEEEEcHHHHHHHHHhc
Confidence 565432 235789999999999999998876
No 13
>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=8.2e-19 Score=156.43 Aligned_cols=113 Identities=34% Similarity=0.475 Sum_probs=96.9
Q ss_pred ccCCcCCCCCccccCceeEeEEeCCCCCCCCCCC---CCCCcEEEEecCCCCHHHHHHHHHHcCCcEEEEEeCCCc--ch
Q 009527 64 LTARFGLPLPSDAAKAFKLPAVLSNPLNCCSTAS---KLSGSIALSMRGDCAFTTKAEVAQAAGAAALVVINDEED--LY 138 (532)
Q Consensus 64 ~~A~FG~~lp~~~~~a~~~~Lv~~~p~daC~~~~---~l~g~IaLV~RG~CsF~~Ka~nAq~aGA~avIV~n~~~~--l~ 138 (532)
++|+||..++........++++.++|.++|++.. +++|||+|++||+|+|.+|+++|+++||+++|+||+.++ .+
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 4799999998754344789999999999998876 789999999999999999999999999999999998764 34
Q ss_pred hcccCCCCCCCcccceEEEechHhHHHHHHHhcccceEEEEe
Q 009527 139 KMVCSENDTALNISIPVLMIPKSRGDALNKSIADKQRVELLL 180 (532)
Q Consensus 139 ~m~~~~~~~~~~i~IPvv~Is~~~G~~L~~~l~~G~~V~V~l 180 (532)
.|..+ .....||+++|++++|++|++.+++|++|++++
T Consensus 81 ~~~~~----~~~~~iP~v~V~~~~g~~l~~~l~~g~~v~v~~ 118 (118)
T cd04818 81 TMGGD----DPDITIPAVMISQADGDALKAALAAGGTVTVTL 118 (118)
T ss_pred eccCC----CCCCEEeEEEecHHHHHHHHHHHhcCCcEEEeC
Confidence 45332 134679999999999999999999999999875
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=1.6e-17 Score=149.17 Aligned_cols=110 Identities=27% Similarity=0.486 Sum_probs=88.0
Q ss_pred CCcCCCCCccccCceeEeEEeCCC--CCCCCCCC----CCCCcEEEEecCCCCHHHHHHHHHHcCCcEEEEEeCCCcc-h
Q 009527 66 ARFGLPLPSDAAKAFKLPAVLSNP--LNCCSTAS----KLSGSIALSMRGDCAFTTKAEVAQAAGAAALVVINDEEDL-Y 138 (532)
Q Consensus 66 A~FG~~lp~~~~~a~~~~Lv~~~p--~daC~~~~----~l~g~IaLV~RG~CsF~~Ka~nAq~aGA~avIV~n~~~~l-~ 138 (532)
..|++..|..+ .+++++..++ .++|++.+ +++|||+|++||+|+|.+|++|||++||+++|+||+.++. .
T Consensus 6 ~~~~~~~~~~g---i~~~lv~~~~~~~~gC~~~~~~~~~~~GkIvLv~rg~c~f~~K~~~A~~aGA~avIi~n~~~~~~~ 82 (122)
T cd04816 6 LSYSPSTPPGG---VTAPLVPLDPERPAGCDASDYDGLDVKGAIVLVDRGGCPFADKQKVAAARGAVAVIVVNNSDGGGT 82 (122)
T ss_pred EeccCCCCCCC---cEEEEEEcCCCCccCCCccccCCCCcCCeEEEEECCCCCHHHHHHHHHHCCCcEEEEEeCCCCccc
Confidence 45776666544 6788887664 59999765 6899999999999999999999999999999999987642 1
Q ss_pred hcccCCCCCCCcccceEEEechHhHHHHHHHhcccceEEEEe
Q 009527 139 KMVCSENDTALNISIPVLMIPKSRGDALNKSIADKQRVELLL 180 (532)
Q Consensus 139 ~m~~~~~~~~~~i~IPvv~Is~~~G~~L~~~l~~G~~V~V~l 180 (532)
.+... +...+.+||+++|++++|+.|++.+++|++|++++
T Consensus 83 ~~~~~--~~~~~~~iP~~~Is~~~G~~l~~~l~~g~~v~~~~ 122 (122)
T cd04816 83 AGTLG--APNIDLKVPVGVITKAAGAALRRRLGAGETLELDA 122 (122)
T ss_pred ccccc--CCCCCCeeeEEEEcHHHHHHHHHHHcCCCEEEEeC
Confidence 11111 11245689999999999999999999999998874
No 15
>cd02130 PA_ScAPY_like PA_ScAPY_like: Protease-associated domain containing proteins like Saccharomyces cerevisiae aminopeptidase Y (ScAPY). This group contains various PA domain-containing proteins similar to the S. cerevisiae APY, including Trichophyton rubrum leucine aminopeptidase 1(LAP1). Proteins in this group belong to the peptidase M28 family. ScAPY hydrolyzes amino acid-4-methylcoumaryl-7-amides (MCAs). ScAPY more rapidly hydrolyzes dipeptidyl-MCAs. Hydrolysis of amino acid-MCAs or dipeptides is stimulated by Co2+ while the hydrolysis of dipeptidyl-MCAs, tripeptides, and longer peptides is inhibited by Co2+. ScAPY is vacuolar and is activated by proteolytic processing. LAP1 is a secreted leucine aminopeptidase. The significance of the PA domain to these proteins has not been ascertained. It may be a protein-protein interaction domain. At peptidase active sites, the PA domain may participate in substrate binding and/or promoting conformational changes, which influence the stab
Probab=99.71 E-value=1.1e-16 Score=143.70 Aligned_cols=97 Identities=31% Similarity=0.434 Sum_probs=80.1
Q ss_pred eeEeEEeCCCCCCCCCCC---CCCCcEEEEecCCCCHHHHHHHHHHcCCcEEEEEeCC-CcchhcccCCCCCCCcccceE
Q 009527 80 FKLPAVLSNPLNCCSTAS---KLSGSIALSMRGDCAFTTKAEVAQAAGAAALVVINDE-EDLYKMVCSENDTALNISIPV 155 (532)
Q Consensus 80 ~~~~Lv~~~p~daC~~~~---~l~g~IaLV~RG~CsF~~Ka~nAq~aGA~avIV~n~~-~~l~~m~~~~~~~~~~i~IPv 155 (532)
.+++++.. +.++|++.+ +++|||+||+||+|+|.+|++|||++||+++||||+. +........ ...+..||+
T Consensus 22 ~~g~lv~~-~~~gC~~~~~~~~~~gkIvlv~rg~c~f~~K~~~A~~aGA~~vIv~n~~~~~~~~~~~~---~~~~~~Ip~ 97 (122)
T cd02130 22 VTGPLVVV-PNLGCDAADYPASVAGNIALIERGECPFGDKSALAGAAGAAAAIIYNNVPAGGLSGTLG---EPSGPYVPT 97 (122)
T ss_pred cEEEEEEe-CCCCCCcccCCcCCCCEEEEEECCCCCHHHHHHHHHHCCCcEEEEEECCCCcccccccC---CCCCCEeeE
Confidence 46788875 468999755 6999999999999999999999999999999999987 333221111 123568999
Q ss_pred EEechHhHHHHHHHhcccceEEEEe
Q 009527 156 LMIPKSRGDALNKSIADKQRVELLL 180 (532)
Q Consensus 156 v~Is~~~G~~L~~~l~~G~~V~V~l 180 (532)
++|++++|+.|++.+++|++|+++|
T Consensus 98 v~Is~~~G~~L~~~l~~g~~v~~~~ 122 (122)
T cd02130 98 VGISQEDGKALVAALANGGEVSANL 122 (122)
T ss_pred EEecHHHHHHHHHHHhcCCcEEEeC
Confidence 9999999999999999999999875
No 16
>PF06550 DUF1119: Protein of unknown function (DUF1119); InterPro: IPR010545 This family consists of several hypothetical archaeal proteins of unknown function.
Probab=99.71 E-value=8.2e-16 Score=153.79 Aligned_cols=173 Identities=24% Similarity=0.300 Sum_probs=130.2
Q ss_pred HHHHHHHHHhhhhhhccCccchhHhhHHHHHHHHHHHHhcccC-chHHHHHHHHHHHHHHHHhhhccccccccceeeeec
Q 009527 324 VLLFCVVFAVVWAVRRQASYSWVGQDILGICLMITVLQMARLP-NIKVASVLLCCAFVYDIFWVFVSPLIFHESVMIAVA 402 (532)
Q Consensus 324 ~~~~~~~~~~~w~~~~~~~~~W~~~nilg~~~~~~~i~~i~l~-~~k~~~ilL~~lf~YDif~Vf~s~~~fg~svMv~VA 402 (532)
....++.+... +++++ .|+..|+.|+.++..+-..+.+. ++-.+.+||..+-+||..-||.|+ +|++.|
T Consensus 95 a~~~ai~~~~~-L~~yp---EWYviD~~Gil~~aG~aaiFGISl~~lpaiiLL~iLAVYDaISVYkTk------HMltLA 164 (283)
T PF06550_consen 95 ALILAIALTAL-LYKYP---EWYVIDIAGILMGAGAAAIFGISLGILPAIILLAILAVYDAISVYKTK------HMLTLA 164 (283)
T ss_pred HHHHHHHHHHH-HHhcc---hHHHHHHHHHHHHhHHHHHHhhhccHHHHHHHHHHHHHhhhhheecch------HHHHHH
Confidence 34444444443 34444 39999999999999987777766 777899999999999999999776 999999
Q ss_pred ccCCCCCCCCCEEEEeccccCC--------------CCcccccCCCccchhhHHHHHHhhhccccccCcccchHHHHHHH
Q 009527 403 RGDNSGGESIPMLLRIPRLFDP--------------WGGYDMIGFGDILFPGLLICFAFRYDKENKKGVVKGYFLWLIIG 468 (532)
Q Consensus 403 ~~~~~~~~~~P~~l~~P~~~~~--------------~~~~s~LGlGDIviPGl~i~~~~rfD~~~~~~~~~~YF~~~~~g 468 (532)
++.- +.++|+++++|+..+. .++-.++|+||.++|.++++.+..|.....-...+-.-+.+++|
T Consensus 165 egv~--d~klPilfViP~~~~ySf~~~~~~~~~~~~~r~a~fiGlGD~vmPtILVvSa~~f~~~~~~~~~~lpalga~~G 242 (283)
T PF06550_consen 165 EGVM--DLKLPILFVIPKKRGYSFLKDGFDNREEKEERDAFFIGLGDAVMPTILVVSAAFFLSAPILGGLNLPALGAMLG 242 (283)
T ss_pred HHHh--ccCCceEEEEecccCccccccccccccccccccceEeccchhhhHHHHHHHHHHhccccchhhhhHHHHHHHHH
Confidence 9975 4789999999986431 13346899999999999999999997654321011112456777
Q ss_pred HHHHHHHHHHHHHHhcCCCcccccccchhhhHHHHHHHHHhc
Q 009527 469 YGFGLFLTYLGLYLMNGHGQPALLYLVPCTLGLTVILGLARG 510 (532)
Q Consensus 469 Y~~GL~~t~~~~~~~~~~~QPALlYlvP~~l~~~~~~a~~rg 510 (532)
-.+|+.+-... .+++++||+|.||.-..++..++-+...|
T Consensus 243 tl~gl~vL~~~--v~kgrp~aGLP~LN~GaI~Gflig~l~sg 282 (283)
T PF06550_consen 243 TLAGLAVLLRF--VMKGRPQAGLPFLNGGAIAGFLIGALASG 282 (283)
T ss_pred HHHHHHHHHHH--HHcCCCCCCCCccchhHHHHHHHHHHHcC
Confidence 77777766542 24689999999999999998887766543
No 17
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.70 E-value=1.6e-16 Score=164.10 Aligned_cols=109 Identities=32% Similarity=0.477 Sum_probs=91.6
Q ss_pred cceeecccCCcCCCCCccccCceeEeEEeCCCCCCCCCCC-------CCCCcEEEEecCCCCHHHHHHHHHHcCCcEEEE
Q 009527 58 GESFAGLTARFGLPLPSDAAKAFKLPAVLSNPLNCCSTAS-------KLSGSIALSMRGDCAFTTKAEVAQAAGAAALVV 130 (532)
Q Consensus 58 ~~~~~~~~A~FG~~lp~~~~~a~~~~Lv~~~p~daC~~~~-------~l~g~IaLV~RG~CsF~~Ka~nAq~aGA~avIV 130 (532)
+.+|.+.+|.||+.++.++ ..+-++.++|.+||++.. .-..+++|++||+|+|.+|+++||++|++|+||
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 3489999999999998876 678899999999999876 244579999999999999999999999999999
Q ss_pred EeCCC--cchhcccCCCCCCCcccceEEEechHhHHHHHHHhccc
Q 009527 131 INDEE--DLYKMVCSENDTALNISIPVLMIPKSRGDALNKSIADK 173 (532)
Q Consensus 131 ~n~~~--~l~~m~~~~~~~~~~i~IPvv~Is~~~G~~L~~~l~~G 173 (532)
|||.+ ++..|... ..++.|++++++...|+.|.+....+
T Consensus 110 ynn~~~~~lv~~~~~----~~~v~i~~~~vs~~~ge~l~~~~~~~ 150 (348)
T KOG4628|consen 110 YNNVGSEDLVAMASN----PSKVDIHIVFVSVFSGELLSSYAGRT 150 (348)
T ss_pred ecCCCCchheeeccC----CccceeEEEEEeeehHHHHHHhhccc
Confidence 99864 35556432 24789999999999999999865433
No 18
>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=99.68 E-value=3.9e-16 Score=141.98 Aligned_cols=89 Identities=30% Similarity=0.358 Sum_probs=73.5
Q ss_pred eCCCCCCCCCCC----CCCCcEEEEecCCCCHHHHHHHHHHcCCcEEEEEeCCCcchhcccCCCCCCCcccceEEEechH
Q 009527 86 LSNPLNCCSTAS----KLSGSIALSMRGDCAFTTKAEVAQAAGAAALVVINDEEDLYKMVCSENDTALNISIPVLMIPKS 161 (532)
Q Consensus 86 ~~~p~daC~~~~----~l~g~IaLV~RG~CsF~~Ka~nAq~aGA~avIV~n~~~~l~~m~~~~~~~~~~i~IPvv~Is~~ 161 (532)
.+++.++|++++ +++|+|+||+||+|+|.+|++|||++||+++||||++++...+... ....+|.+.+ ++
T Consensus 37 ~~~~~~gC~~~~~~~~~~~g~IaLv~rg~c~f~~K~~nA~~aGA~aviiyn~~~~~~~~~~~-----~~~~~~~~~~-~~ 110 (129)
T cd02124 37 TSVADDACQPLPDDTPDLSGYIVLVRRGTCTFATKAANAAAKGAKYVLIYNNGSGPTDQVGS-----DADSIIAAVT-PE 110 (129)
T ss_pred cCCCcccCcCCCcccccccCeEEEEECCCCCHHHHHHHHHHcCCcEEEEEECCCCcccccCC-----CCcceeeEEe-HH
Confidence 346789999876 6799999999999999999999999999999999998665444321 1234566556 99
Q ss_pred hHHHHHHHhcccceEEEEe
Q 009527 162 RGDALNKSIADKQRVELLL 180 (532)
Q Consensus 162 ~G~~L~~~l~~G~~V~V~l 180 (532)
+|++|++.+++|++|+++|
T Consensus 111 ~G~~l~~~l~~G~~vtv~f 129 (129)
T cd02124 111 DGEAWIDALAAGSNVTVDF 129 (129)
T ss_pred HHHHHHHHHhcCCeEEEeC
Confidence 9999999999999999875
No 19
>KOG3920 consensus Uncharacterized conserved protein, contains PA domain [General function prediction only]
Probab=99.64 E-value=1.9e-16 Score=145.07 Aligned_cols=164 Identities=23% Similarity=0.314 Sum_probs=124.2
Q ss_pred chhhHHHHHHHHHHhhhhcccCCCcCCCCCCCCCCCCCCCceEEEEEeecCCCCccceeecccCC-cCCCCCccccCcee
Q 009527 3 MARRMATFICLFVVGLSFAAAGDVTLDDDDSSPNIPGCNNKLQLVKVKNWVDNVEGESFAGLTAR-FGLPLPSDAAKAFK 81 (532)
Q Consensus 3 ~~~~~~~~~~~~~~~~~~~~~~d~~~~d~~~~p~~p~c~~~f~lVkv~~~~~g~e~~~~~~~~A~-FG~~lp~~~~~a~~ 81 (532)
|-||-.+++.++|.. +.++++ . |..|--..++.+-.| .++++...+|...+|. ||..+|++. ..
T Consensus 1 M~p~gWl~l~~~L~~-~vaa~~--------~-~~~~v~~qD~~~F~v--lsP~~l~Yty~~~pAkdfG~~F~~r~---e~ 65 (193)
T KOG3920|consen 1 MKPRGWLLLSFLLII-QVAAAK--------I-PYEEVENQDNMLFTV--LSPYTLAYTYQMKPAKDFGVHFPDRF---EN 65 (193)
T ss_pred CCcceehHHHHHHHH-HHHHcc--------C-CcceeeecceEEEEe--cCcccEEEEEEecchhhhccccchhh---cC
Confidence 345444444444444 333333 2 444455566676666 5578888899999995 999999876 56
Q ss_pred EeEEeCCCCCCCCCCC---CCCCcEEEEecCCCCHHHHHHHHHHcCCcEEEEEeCCCc------chhcccCCCCCCCccc
Q 009527 82 LPAVLSNPLNCCSTAS---KLSGSIALSMRGDCAFTTKAEVAQAAGAAALVVINDEED------LYKMVCSENDTALNIS 152 (532)
Q Consensus 82 ~~Lv~~~p~daC~~~~---~l~g~IaLV~RG~CsF~~Ka~nAq~aGA~avIV~n~~~~------l~~m~~~~~~~~~~i~ 152 (532)
.+++.++|..||+.+. ...|.|+|++||+|+|..|.+++|++||.++||.++... .++|..+ ++.++.+
T Consensus 66 ~~lV~adPp~aC~elrN~~f~~d~vaL~eRGeCSFl~Ktl~~e~aGa~aiiitd~~~~~~sf~~YveMI~D--~sq~~An 143 (193)
T KOG3920|consen 66 LELVLADPPHACEELRNEIFAPDSVALMERGECSFLVKTLNGEKAGATAIIITDSQNYEYSFHQYVEMIPD--ESQDRAN 143 (193)
T ss_pred cceeecCChhHHHHHhhcccCCCcEEEEecCCceeeehhhhhhhcCceEEEEecCCCCchhHHHHHHhcCc--ccccccC
Confidence 8999999999999888 688999999999999999999999999999999987532 4678764 3456789
Q ss_pred ceEEEechHhHHHHHHHhcccceEEEEeecC
Q 009527 153 IPVLMIPKSRGDALNKSIADKQRVELLLYAP 183 (532)
Q Consensus 153 IPvv~Is~~~G~~L~~~l~~G~~V~V~l~~p 183 (532)
||++++-..+|-.++..|++-......+.-|
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 9999999999988877777655555555444
No 20
>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=99.64 E-value=2.3e-15 Score=138.45 Aligned_cols=93 Identities=23% Similarity=0.298 Sum_probs=73.2
Q ss_pred eeEeEEeCCCCCCCCCCC-CCCCcEEEEecCCCC-----HHHHHHHHHHcCCcEEEEEeCC--Ccchh-cccCCCCCCCc
Q 009527 80 FKLPAVLSNPLNCCSTAS-KLSGSIALSMRGDCA-----FTTKAEVAQAAGAAALVVINDE--EDLYK-MVCSENDTALN 150 (532)
Q Consensus 80 ~~~~Lv~~~p~daC~~~~-~l~g~IaLV~RG~Cs-----F~~Ka~nAq~aGA~avIV~n~~--~~l~~-m~~~~~~~~~~ 150 (532)
.+++++.... .+|+... +.+|||+||+||+|+ |.+|++|||++||+|+|||||. +..+. +.+. ...+
T Consensus 36 ~tg~lv~~g~-~g~d~~~~d~~GkIaLI~RG~c~~~~~~f~~Kv~~A~~aGA~avIIyNn~~~~g~~~~~lg~---~~~~ 111 (139)
T cd04817 36 ATGSLYYCGT-SGGSYICGGMAGKICLIERGGNSKSVYPEIDKVKACQNAGAIAAIVYSNAALAGLQNPFLVD---TNND 111 (139)
T ss_pred ceEEEEEccC-CCccccCCCcCccEEEEECCCCCCCcccHHHHHHHHHHCCCeEEEEEeCCCCCCcccccccC---CCCC
Confidence 5678887764 3475544 799999999999999 9999999999999999999998 44332 2222 2236
Q ss_pred ccceEEEechHhHHHHHHHhcccceE
Q 009527 151 ISIPVLMIPKSRGDALNKSIADKQRV 176 (532)
Q Consensus 151 i~IPvv~Is~~~G~~L~~~l~~G~~V 176 (532)
++||+++|++++|++|++.+.++.+|
T Consensus 112 ~~IP~v~is~~dG~~L~~~l~~~~tv 137 (139)
T cd04817 112 TTIPSVSVDRADGQALLAALGQSTTV 137 (139)
T ss_pred ceEeEEEeeHHHHHHHHHHhcCCCee
Confidence 79999999999999999998544333
No 21
>COG3389 Uncharacterized protein conserved in archaea [Function unknown]
Probab=99.52 E-value=9.5e-14 Score=134.40 Aligned_cols=161 Identities=25% Similarity=0.370 Sum_probs=125.8
Q ss_pred HHHHhhhhhhccCccchhHhhHHHHHHHHHHHHhcccC-chHHHHHHHHHHHHHHHHhhhccccccccceeeeecccCCC
Q 009527 329 VVFAVVWAVRRQASYSWVGQDILGICLMITVLQMARLP-NIKVASVLLCCAFVYDIFWVFVSPLIFHESVMIAVARGDNS 407 (532)
Q Consensus 329 ~~~~~~w~~~~~~~~~W~~~nilg~~~~~~~i~~i~l~-~~k~~~ilL~~lf~YDif~Vf~s~~~fg~svMv~VA~~~~~ 407 (532)
++++.++.++++. .|+..|..|++++..+-..+.+. ....+.+||..+-+||..-||.|. +|++.|++.-
T Consensus 98 ~aI~~~~lL~~~p--eWyVid~ag~~la~Giaai~GIsfgv~pavvlL~~lavYDaIsVYkT~------HMIslA~~v~- 168 (277)
T COG3389 98 LAIGLVYLLYKYP--EWYVIDLAGFFLAVGIAAIFGISFGVLPAVVLLIALAVYDAISVYKTR------HMISLAEGVM- 168 (277)
T ss_pred HHHHHHHhhhhcc--ceEEeehHHHHHHhhHHHhheeecchHHHHHHHHHHHHHHHHHHHhHH------HHHHHHHHHH-
Confidence 3444444444331 49999999999999988877666 566789999999999999999665 9999999974
Q ss_pred CCCCCCEEEEeccccCC-----------CCcccccCCCccchhhHHHHHHhhhccccccCcccchHH--HHHHHHHHHHH
Q 009527 408 GGESIPMLLRIPRLFDP-----------WGGYDMIGFGDILFPGLLICFAFRYDKENKKGVVKGYFL--WLIIGYGFGLF 474 (532)
Q Consensus 408 ~~~~~P~~l~~P~~~~~-----------~~~~s~LGlGDIviPGl~i~~~~rfD~~~~~~~~~~YF~--~~~~gY~~GL~ 474 (532)
+.++||++++|+..+. +++--|+|+||+++|.+++.-+.-|-.+.- .+|. .++.|-.+|++
T Consensus 169 -d~~lPmlfviP~~l~ysf~~~~fe~r~dgna~miG~GDavmPsIlVvSaa~f~~s~~-----l~f~~Lpal~GglvGl~ 242 (277)
T COG3389 169 -DLDLPMLFVIPENLAYSFVEDAFENRGDGNAYMIGLGDAVMPSILVVSAAFFLISPI-----LAFIVLPALAGGLVGLA 242 (277)
T ss_pred -hcCCceEEEeecccccceeehhhhcCCCCceEEEeechhhcccceeeehHHhccCCc-----hhhhhHHHHhccHHHHH
Confidence 4689999999975321 356779999999999999999988865442 3442 36899999998
Q ss_pred HHHHHHHHhcCCCcccccccchhhhHHHHHHHH
Q 009527 475 LTYLGLYLMNGHGQPALLYLVPCTLGLTVILGL 507 (532)
Q Consensus 475 ~t~~~~~~~~~~~QPALlYlvP~~l~~~~~~a~ 507 (532)
+-+. ++.+++||.|.|+.-.++.+.++-+.
T Consensus 243 vL~~---v~r~Rp~pGLP~lN~GaIaGflig~V 272 (277)
T COG3389 243 VLYF---VNRGRPHPGLPFLNTGAIAGFLIGFV 272 (277)
T ss_pred HHHH---HhcCCCCCCCceeccchHHHHHHHHH
Confidence 8753 34589999999999998888766543
No 22
>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=99.48 E-value=5.1e-14 Score=120.86 Aligned_cols=89 Identities=31% Similarity=0.464 Sum_probs=63.3
Q ss_pred eeEeEEeCCC---CCCCCCCC----CCCCcEEEEecCCCCHHHHHHHHHHcCCcEEEEEeCCCcchhcccCCCCCCCccc
Q 009527 80 FKLPAVLSNP---LNCCSTAS----KLSGSIALSMRGDCAFTTKAEVAQAAGAAALVVINDEEDLYKMVCSENDTALNIS 152 (532)
Q Consensus 80 ~~~~Lv~~~p---~daC~~~~----~l~g~IaLV~RG~CsF~~Ka~nAq~aGA~avIV~n~~~~l~~m~~~~~~~~~~i~ 152 (532)
.+++|+...+ ...|.+.+ +++|||+|++||+|+|.+|+++||++||+|+||+|+.+....+... ....+.+
T Consensus 6 ~~~~lV~~~~~~~~~~~~~~~~~~~~~~gkIvlv~rg~~~~~~k~~~a~~~GA~gvIi~~~~~~~~~~~~~--~~~~~~~ 83 (101)
T PF02225_consen 6 VTGPLVPAGNGIDEGDCCPSDYNGSDVKGKIVLVERGSCSFDDKVRNAQKAGAKGVIIYNPPPNNGSMIDS--EDPDPID 83 (101)
T ss_dssp EEEEEEEETTEEECCHHHHHHTSTSTCTTSEEEEESTSSCHHHHHHHHHHTTESEEEEE-TSCSCTTTTCE--BTTTSTB
T ss_pred EEEEEEEecCCCCcccccccccCCccccceEEEEecCCCCHHHHHHHHHHcCCEEEEEEeCCccccCcccc--cCCCCcE
Confidence 5678873322 22232222 7999999999999999999999999999999999933222222111 2235679
Q ss_pred ceEEEechHhHHHHHHHh
Q 009527 153 IPVLMIPKSRGDALNKSI 170 (532)
Q Consensus 153 IPvv~Is~~~G~~L~~~l 170 (532)
||+++|++++|++|++.+
T Consensus 84 iP~v~I~~~~g~~L~~~i 101 (101)
T PF02225_consen 84 IPVVFISYEDGEALLAYI 101 (101)
T ss_dssp SEEEEE-HHHHHHHHHHH
T ss_pred EEEEEeCHHHHhhhhccC
Confidence 999999999999998764
No 23
>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=3.1e-13 Score=120.22 Aligned_cols=93 Identities=32% Similarity=0.471 Sum_probs=73.9
Q ss_pred CCCCCCCCCC----C--CCCCcEEEEecCCCCHHHHHHHHHHcCCcEEEEEeCCCc-chhcccCCCCCCCcccceEEEec
Q 009527 87 SNPLNCCSTA----S--KLSGSIALSMRGDCAFTTKAEVAQAAGAAALVVINDEED-LYKMVCSENDTALNISIPVLMIP 159 (532)
Q Consensus 87 ~~p~daC~~~----~--~l~g~IaLV~RG~CsF~~Ka~nAq~aGA~avIV~n~~~~-l~~m~~~~~~~~~~i~IPvv~Is 159 (532)
..+.++|++. . +++|||+|++||+|+|.+|+++||++||+|+|++|+.+. ...+.... +...+..||+++|+
T Consensus 27 ~~~~~~C~~~~~~~~~~~~~GkIvl~~~g~~~~~~k~~~a~~~GA~gvii~~~~~~~~~~~~~~~-~~~~~~~iP~~~is 105 (126)
T cd00538 27 AGPLVGCGYGTTDDSGADVKGKIVLVRRGGCSFSEKVKNAQKAGAKAVIIYNNGDDPGPQMGSVG-LESTDPSIPTVGIS 105 (126)
T ss_pred ccceEEEecCcccccCCCccceEEEEECCCcCHHHHHHHHHHCCCEEEEEEECCCCccccccccc-CCCCCCcEeEEEeC
Confidence 3456778664 2 689999999999999999999999999999999998753 22222211 11235679999999
Q ss_pred hHhHHHHHHHhcccceEEEEe
Q 009527 160 KSRGDALNKSIADKQRVELLL 180 (532)
Q Consensus 160 ~~~G~~L~~~l~~G~~V~V~l 180 (532)
+++|+.|++.+++|+++++++
T Consensus 106 ~~~g~~l~~~~~~~~~v~~~~ 126 (126)
T cd00538 106 YADGEALLSLLEAGKTVTVDL 126 (126)
T ss_pred HHHHHHHHHHHhcCCceEEeC
Confidence 999999999999999888764
No 24
>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=99.37 E-value=5.7e-12 Score=116.29 Aligned_cols=93 Identities=27% Similarity=0.357 Sum_probs=71.2
Q ss_pred eeEeEEeCCCCCCCCCCC--CCCCcEEEEecCCCCHHHHHHHHHHcCCcEEEEEeCCCcchhcccCCCCCCCcccceEEE
Q 009527 80 FKLPAVLSNPLNCCSTAS--KLSGSIALSMRGDCAFTTKAEVAQAAGAAALVVINDEEDLYKMVCSENDTALNISIPVLM 157 (532)
Q Consensus 80 ~~~~Lv~~~p~daC~~~~--~l~g~IaLV~RG~CsF~~Ka~nAq~aGA~avIV~n~~~~l~~m~~~~~~~~~~i~IPvv~ 157 (532)
..++++..... ..++.. +++|||+|++||+|+|.+|+++||++||+++|++|+.+....+... ....||+++
T Consensus 26 ~~~~lv~~g~g-~~~d~~~~dv~GkIvL~~rg~c~~~~K~~~a~~aGA~gvIi~n~~~~~~~~~~~-----~~~~iP~v~ 99 (143)
T cd02133 26 KTYELVDAGLG-TPEDFEGKDVKGKIALIQRGEITFVEKIANAKAAGAVGVIIYNNVDGLIPGTLG-----EAVFIPVVF 99 (143)
T ss_pred cEEEEEEccCC-chhccCCCCccceEEEEECCCCCHHHHHHHHHHCCCeEEEEeecCCCcccccCC-----CCCeEeEEE
Confidence 56788875321 112222 6999999999999999999999999999999999988654443221 135799999
Q ss_pred echHhHHHHHHHhcccceEEEEe
Q 009527 158 IPKSRGDALNKSIADKQRVELLL 180 (532)
Q Consensus 158 Is~~~G~~L~~~l~~G~~V~V~l 180 (532)
|++++|++|++.+++ ++++++
T Consensus 100 Is~~dG~~L~~~l~~--~~~i~~ 120 (143)
T cd02133 100 ISKEDGEALKAALES--SKKLTF 120 (143)
T ss_pred ecHHHHHHHHHHHhC--CCeEEE
Confidence 999999999999976 444444
No 25
>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=99.29 E-value=2.9e-11 Score=109.61 Aligned_cols=98 Identities=24% Similarity=0.193 Sum_probs=73.8
Q ss_pred eeEeEEeCCCCCCC-CCC-C-CCCCcEEEEecCCC--CHHHHHHHHHHcCCcEEEEEeCCCcchh-cccCCCCCCCcccc
Q 009527 80 FKLPAVLSNPLNCC-STA-S-KLSGSIALSMRGDC--AFTTKAEVAQAAGAAALVVINDEEDLYK-MVCSENDTALNISI 153 (532)
Q Consensus 80 ~~~~Lv~~~p~daC-~~~-~-~l~g~IaLV~RG~C--sF~~Ka~nAq~aGA~avIV~n~~~~l~~-m~~~~~~~~~~i~I 153 (532)
.+++++... .+- ++. . +++|||||++||.| +|.+|+++|+++||+|+|++|+.+..+. +......+.....|
T Consensus 23 ~~~~lV~~g--~G~~~d~~~~~v~GkIvlv~~g~~~~~~~~k~~~A~~~GA~avi~~~~~~g~~~~~~~~~~~~~~~~~I 100 (127)
T cd04819 23 AKGEPVDAG--YGLPKDFDGLDLEGKIAVVKRDDPDVDRKEKYAKAVAAGAAAFVVVNTVPGVLPATGDEGTEDGPPSPI 100 (127)
T ss_pred eeEEEEEeC--CCCHHHcCCCCCCCeEEEEEcCCCchhHHHHHHHHHHCCCEEEEEEeCCCCcCcccccccccCCCCCCC
Confidence 567888664 121 111 2 69999999999999 9999999999999999999998755332 11111111234689
Q ss_pred eEEEechHhHHHHHHHhcccceEEEE
Q 009527 154 PVLMIPKSRGDALNKSIADKQRVELL 179 (532)
Q Consensus 154 Pvv~Is~~~G~~L~~~l~~G~~V~V~ 179 (532)
|++.|++++|+.|.+++++|+.+.++
T Consensus 101 P~v~Is~edg~~L~~~l~~g~~~~~~ 126 (127)
T cd04819 101 PAASVSGEDGLRLARVAERNDTLVLR 126 (127)
T ss_pred CEEEEeHHHHHHHHHHHhcCCceEee
Confidence 99999999999999999999887664
No 26
>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=99.16 E-value=7.6e-11 Score=107.96 Aligned_cols=102 Identities=17% Similarity=0.149 Sum_probs=74.2
Q ss_pred ceeEeEEeCCCCCCCCCC-C-CCCCcEEEEecCCC------CHHHH-------HHHHHHcCCcEEEEEeCCCcchhcc--
Q 009527 79 AFKLPAVLSNPLNCCSTA-S-KLSGSIALSMRGDC------AFTTK-------AEVAQAAGAAALVVINDEEDLYKMV-- 141 (532)
Q Consensus 79 a~~~~Lv~~~p~daC~~~-~-~l~g~IaLV~RG~C------sF~~K-------a~nAq~aGA~avIV~n~~~~l~~m~-- 141 (532)
+.+++++.....+.=+.. . +++|||||++||.| +|..| .++|+++||.|+|++|+.+....+.
T Consensus 16 gvta~vv~v~~~~~~~~~~~~~v~GKIvlv~~~~~~~~~~~~~~~k~~~r~~~~~~A~~~GA~avIv~s~~~~~~~~~~~ 95 (134)
T cd04815 16 GITAEVVVVKSFDELKAAPAGAVKGKIVFFNQPMVRTQTGSGYGPTVAYRRRGAVEAAKKGAVAVLIRSIGTDSHRSPHT 95 (134)
T ss_pred CcEEEEEEECCHHHHHhcchhhcCCeEEEecCCccccCchhhcCchhhhhhHHHHHHHhCCCEEEEEEecCcccCCCCcC
Confidence 356777755422211112 2 79999999999999 99999 7999999999999999753321111
Q ss_pred cCCCCCCCcccceEEEechHhHHHHHHHhcccceEEEEe
Q 009527 142 CSENDTALNISIPVLMIPKSRGDALNKSIADKQRVELLL 180 (532)
Q Consensus 142 ~~~~~~~~~i~IPvv~Is~~~G~~L~~~l~~G~~V~V~l 180 (532)
+..........||++.|++++|+.|.+.+++|++|++++
T Consensus 96 G~~~~~~~~~~IP~v~is~ed~~~L~r~l~~g~~v~~~l 134 (134)
T cd04815 96 GMMSYDDGVPKIPAAAISVEDADMLERLAARGKPIRVNL 134 (134)
T ss_pred CccccCCCCCCCCEEEechhcHHHHHHHHhCCCCeEEeC
Confidence 111111224579999999999999999999999998875
No 27
>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=99.12 E-value=2.8e-10 Score=101.95 Aligned_cols=81 Identities=26% Similarity=0.389 Sum_probs=67.7
Q ss_pred CCCCCCCCC----CCCCcEEEEecCCC-CHHHHHHHHHHcCCcEEEEEeCCCcchhcccCCCCCCCcccceEEEechHhH
Q 009527 89 PLNCCSTAS----KLSGSIALSMRGDC-AFTTKAEVAQAAGAAALVVINDEEDLYKMVCSENDTALNISIPVLMIPKSRG 163 (532)
Q Consensus 89 p~daC~~~~----~l~g~IaLV~RG~C-sF~~Ka~nAq~aGA~avIV~n~~~~l~~m~~~~~~~~~~i~IPvv~Is~~~G 163 (532)
....|++.. +.+|||+|++||+| +|.+|+.+|+++||.|+|++|+.++...+.. ....||+++|++++|
T Consensus 36 ~~~~C~~~~~~~~~v~GkIVlc~~~~~~~~~~k~~~~~~~GA~gvI~~~~~~~~~~~~~------~~~~iP~v~I~~~~g 109 (126)
T cd02120 36 DASLCLPGSLDPSKVKGKIVLCDRGGNTSRVAKGDAVKAAGGAGMILANDPTDGLDVVA------DAHVLPAVHVDYEDG 109 (126)
T ss_pred ccccCCCCCCChhhccccEEEEeCCCCccHHHHHHHHHHcCCcEEEEEecCCCCceecc------cccccceEEECHHHH
Confidence 447898764 68999999999999 9999999999999999999998765433221 135799999999999
Q ss_pred HHHHHHhcccce
Q 009527 164 DALNKSIADKQR 175 (532)
Q Consensus 164 ~~L~~~l~~G~~ 175 (532)
+.|++.++++..
T Consensus 110 ~~l~~y~~~~~~ 121 (126)
T cd02120 110 TAILSYINSTSN 121 (126)
T ss_pred HHHHHHHHcCCC
Confidence 999999987654
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=98.74 E-value=5e-08 Score=93.74 Aligned_cols=89 Identities=20% Similarity=0.236 Sum_probs=65.0
Q ss_pred eeEeEEeCCCCCCCCCC--------C-CCCCcEEEEecCCCCHHHHHHHHHHcCCcEEEEEeCCCcchhc----------
Q 009527 80 FKLPAVLSNPLNCCSTA--------S-KLSGSIALSMRGDCAFTTKAEVAQAAGAAALVVINDEEDLYKM---------- 140 (532)
Q Consensus 80 ~~~~Lv~~~p~daC~~~--------~-~l~g~IaLV~RG~CsF~~Ka~nAq~aGA~avIV~n~~~~l~~m---------- 140 (532)
.+++++.++ .| +.. . +++|||||++||+|++.+|+++||++||+|+|+|||..+...+
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 577888774 22 221 1 6899999999999999999999999999999999985321110
Q ss_pred ----------ccCC-C-------CCCCcccceEEEechHhHHHHHHHhc
Q 009527 141 ----------VCSE-N-------DTALNISIPVLMIPKSRGDALNKSIA 171 (532)
Q Consensus 141 ----------~~~~-~-------~~~~~i~IPvv~Is~~~G~~L~~~l~ 171 (532)
.... + +...-.+||+.-|+.++++.|++.+.
T Consensus 106 ~~~~GDplTPG~ps~~~~~~~~~~~~~lP~IPs~PIS~~da~~lL~~l~ 154 (183)
T cd02128 106 HLGTGDPYTPGFPSFNHTQFPPSQSSGLPNIPAQTISAAAAAKLLSKMG 154 (183)
T ss_pred eccCCCcCCCCCccccccccCcccccCCCCCCEeccCHHHHHHHHHHcC
Confidence 0000 0 00012479999999999999999985
No 29
>cd04822 PA_M28_1_3 PA_M28_1_3: Protease-associated (PA) domain, peptidase family M28, subfamily-1, subgroup 3. A subgroup of PA-domain containing proteins belonging to the peptidase family M28. Family M28 contains aminopeptidases and carboxypeptidases, and has co-catalytic zinc ions. The PA domain is an insert domain in a diverse fraction of proteases. The significance of the PA domain to many of the proteins in which it is inserted is undetermined. It may be a protein-protein interaction domain. At peptidase active sites, the PA domain may participate in substrate binding and/or promoting conformational changes, which influence the stability and accessibility of the site to substrate. Proteins into which the PA domain is inserted include the following members of the peptidase family M28: i) prostate-specific membrane antigen (PSMA), ii) yeast aminopeptidase Y, and ii) human TfR (transferrin receptor)1 and human TfR2. The proteins listed above belong to other subgroups; relatively litt
Probab=98.20 E-value=1.1e-05 Score=75.68 Aligned_cols=87 Identities=18% Similarity=0.213 Sum_probs=61.3
Q ss_pred eeEeEEeCC---CCCCCCCCC----CCCCcEEEEecCC------------------CCHHHHHHHHHHcCCcEEEEEeCC
Q 009527 80 FKLPAVLSN---PLNCCSTAS----KLSGSIALSMRGD------------------CAFTTKAEVAQAAGAAALVVINDE 134 (532)
Q Consensus 80 ~~~~Lv~~~---p~daC~~~~----~l~g~IaLV~RG~------------------CsF~~Ka~nAq~aGA~avIV~n~~ 134 (532)
.++++|.+. ..+.|...+ +++|||||+.||+ |++..|+++|+++||+|||+||+.
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 567888664 356786444 8999999999985 999999999999999999999987
Q ss_pred CcchhcccCCCCCCCcccceEEEechHhHHHHHHH
Q 009527 135 EDLYKMVCSENDTALNISIPVLMIPKSRGDALNKS 169 (532)
Q Consensus 135 ~~l~~m~~~~~~~~~~i~IPvv~Is~~~G~~L~~~ 169 (532)
++.- ...+.-+..+.. .++.++.+..+.+..+
T Consensus 100 ~~~~--~~~~~~~~~~~~-~~~~~~~~~~~~~~~~ 131 (151)
T cd04822 100 NSHS--GDADRLPRFGGT-APQRVDIAAADPWFTA 131 (151)
T ss_pred cccC--cccccccccCcc-ceEEechHHHHHHhhh
Confidence 5421 111000100111 2778888887777665
No 30
>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=98.11 E-value=8.5e-06 Score=75.55 Aligned_cols=89 Identities=17% Similarity=0.171 Sum_probs=59.2
Q ss_pred eeEeEEeCC---CCCCCCCCC----CCCCcEEEEecCCC------------------CHHHHHHHHHHcCCcEEEEEeCC
Q 009527 80 FKLPAVLSN---PLNCCSTAS----KLSGSIALSMRGDC------------------AFTTKAEVAQAAGAAALVVINDE 134 (532)
Q Consensus 80 ~~~~Lv~~~---p~daC~~~~----~l~g~IaLV~RG~C------------------sF~~Ka~nAq~aGA~avIV~n~~ 134 (532)
..+++|.+. ....|...+ +++|||||+.||+| ++..|+++|+++||.|+|++|+.
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 456777543 345676444 89999999999999 69999999999999999999986
Q ss_pred CcchhcccCCCCCCCcccce-EEEechHhHHHHHHH
Q 009527 135 EDLYKMVCSENDTALNISIP-VLMIPKSRGDALNKS 169 (532)
Q Consensus 135 ~~l~~m~~~~~~~~~~i~IP-vv~Is~~~G~~L~~~ 169 (532)
+.. .+++..--......++ ...|+...+.+|.+.
T Consensus 100 ~~~-~~p~~~~~~~~~~~~~~~~~i~~~~a~~l~~~ 134 (142)
T cd04814 100 APA-SYGWATWKNPAKVHPNLEAAIQRAVAVDLFEA 134 (142)
T ss_pred Ccc-cCChhhhhcccccCCceeeEecHHHHHHHHhh
Confidence 421 1211100000112233 356788777776553
No 31
>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=98.05 E-value=9.8e-06 Score=80.32 Aligned_cols=89 Identities=24% Similarity=0.283 Sum_probs=64.9
Q ss_pred eeEeEEeCCCCCCCCCC--------C-CCCCcEEEEecCCCCHHHHHHHHHHcCCcEEEEEeCCCcc----------hh-
Q 009527 80 FKLPAVLSNPLNCCSTA--------S-KLSGSIALSMRGDCAFTTKAEVAQAAGAAALVVINDEEDL----------YK- 139 (532)
Q Consensus 80 ~~~~Lv~~~p~daC~~~--------~-~l~g~IaLV~RG~CsF~~Ka~nAq~aGA~avIV~n~~~~l----------~~- 139 (532)
.+++++.++ .|... . +++|||||+++|+|.+.+|+++||++||+|||+|++..+. +.
T Consensus 45 v~g~lVyvn---yG~~~D~~~L~~~gvdv~GKIvLvr~G~~~~~~Kv~~A~~~GA~gVIiy~Dp~d~~~~~~~~~~~yP~ 121 (220)
T cd02121 45 VTAELVYAN---YGSPEDFEYLEDLGIDVKGKIVIARYGGIFRGLKVKNAQLAGAVGVIIYSDPADDGYITGENGKTYPD 121 (220)
T ss_pred ceEEEEEcC---CCcHHHHHHHhhcCCCCCCeEEEEECCCccHHHHHHHHHHcCCEEEEEEeCchhcccccccccccCCC
Confidence 567888764 44332 1 6899999999999999999999999999999999975221 00
Q ss_pred ----------c-------ccCCC------------------CCCCcccceEEEechHhHHHHHHHhc
Q 009527 140 ----------M-------VCSEN------------------DTALNISIPVLMIPKSRGDALNKSIA 171 (532)
Q Consensus 140 ----------m-------~~~~~------------------~~~~~i~IPvv~Is~~~G~~L~~~l~ 171 (532)
. .+.++ +...-.+||+.=|+..+++.|++.|.
T Consensus 122 g~~~~~~~vqRgsv~~~~~~~GDplTPG~ps~~~~~r~~~~~~~~lP~IPs~PIS~~da~~lL~~L~ 188 (220)
T cd02121 122 GPARPPSGVQRGSVLFMSIGPGDPLTPGYPSKPGAERRDKEESKGLPKIPSLPISYRDAQPLLKALG 188 (220)
T ss_pred CCCCCCCcceecceeccccCCCCCCCCCCCCCCCCcccCcccccCCCCCCcccCCHHHHHHHHHHcC
Confidence 0 00000 00012379999999999999999986
No 32
>cd04820 PA_M28_1_1 PA_M28_1_1: Protease-associated (PA) domain, peptidase family M28, subfamily-1, subgroup 1. A subgroup of PA-domain containing proteins belonging to the peptidase family M28. Family M28 contains aminopeptidases and carboxypeptidases, and has co-catalytic zinc ions. The PA domain is an insert domain in a diverse fraction of proteases. The significance of the PA domain to many of the proteins in which it is inserted is undetermined. It may be a protein-protein interaction domain. At peptidase active sites, the PA domain may participate in substrate binding and/or promoting conformational changes, which influence the stability and accessibility of the site to substrate. Proteins into which the PA domain is inserted include the following members of the peptidase family M28: i) prostate-specific membrane antigen (PSMA), ii) yeast aminopeptidase Y, and ii) human TfR (transferrin receptor)1 and human TfR2. The proteins listed above belong to other subgroups; relatively litt
Probab=98.02 E-value=1.4e-05 Score=73.72 Aligned_cols=57 Identities=21% Similarity=0.299 Sum_probs=46.9
Q ss_pred eeEeEEeCC---CCCCCCCCC----CCCCcEEEEecCCCC------------HHHHHHHHHHcCCcEEEEEeCCCc
Q 009527 80 FKLPAVLSN---PLNCCSTAS----KLSGSIALSMRGDCA------------FTTKAEVAQAAGAAALVVINDEED 136 (532)
Q Consensus 80 ~~~~Lv~~~---p~daC~~~~----~l~g~IaLV~RG~Cs------------F~~Ka~nAq~aGA~avIV~n~~~~ 136 (532)
.+++++.+. +.+.|...+ +++|||||++||+|+ +.+|.++|+++||+|+|++|+.+.
T Consensus 22 v~gelVfvGyG~~~~~~~~~Dy~~iDVkGKIVlv~~g~p~~~~~~~~~~~~~~~~K~~~A~~~GA~aVIi~~d~~~ 97 (137)
T cd04820 22 VEAPLVFVGYGLVAPELGHDDYAGLDVKGKIVVVLSGGPAGIPSEEGAHAHSSNEKARYAAKAGAIGMITLTTPRS 97 (137)
T ss_pred ceEeEEEecCCcCccCcCHhhccCCCCCCeEEEEEcCCCCccccccccccccHHHHHHHHHHCCCeEEEEEeCCcc
Confidence 567888653 356776433 899999999999995 889999999999999999998643
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=97.86 E-value=3.3e-05 Score=72.02 Aligned_cols=73 Identities=19% Similarity=0.146 Sum_probs=54.7
Q ss_pred CCCCcEEEEecCCCCHHHHHHHHHHcCCcEEEEEeCCCcch------------hcc-cCCC--------------CCCCc
Q 009527 98 KLSGSIALSMRGDCAFTTKAEVAQAAGAAALVVINDEEDLY------------KMV-CSEN--------------DTALN 150 (532)
Q Consensus 98 ~l~g~IaLV~RG~CsF~~Ka~nAq~aGA~avIV~n~~~~l~------------~m~-~~~~--------------~~~~~ 150 (532)
+++|||+|++.|......|++|||++||.|+|||.|..+.- ... .++. +...-
T Consensus 38 ~v~GkIvi~RyG~~~RG~Kv~~A~~~GA~GviIYsDP~d~~~~~~~~~~v~~v~~~~~GDP~TPG~PS~~~~~R~~~~~l 117 (153)
T cd02131 38 NVTNQIALLKLGQAPLLYKLSLLEEAGFGGVLLYVDPCDLPKTRHTWHQAFMVSLNPGGDPSTPGYPSADQSCRQCRGNL 117 (153)
T ss_pred CccceEEEEeccCcchHHHHHHHHHCCCeEEEEecChhhccCcCCCccceEEEecCCCCCCCCCCCccccCcccCCcCCC
Confidence 69999999999999999999999999999999999863210 000 0100 01112
Q ss_pred ccceEEEechHhHHHHHHHh
Q 009527 151 ISIPVLMIPKSRGDALNKSI 170 (532)
Q Consensus 151 i~IPvv~Is~~~G~~L~~~l 170 (532)
.+||+.-|+..+++.|.++-
T Consensus 118 P~IPs~PIS~~dA~~lL~~~ 137 (153)
T cd02131 118 TSLLVQPISAYLAKKLLSAP 137 (153)
T ss_pred CCCcccccCHHHHHHHHhCC
Confidence 47999999999999987654
No 34
>KOG2736 consensus Presenilin [Signal transduction mechanisms]
Probab=95.64 E-value=0.17 Score=53.49 Aligned_cols=68 Identities=29% Similarity=0.407 Sum_probs=55.0
Q ss_pred cccCCCccchhhHHHHHHhhhccccccCcccchHHHHHHHHHHHHHHHHHHHHHhcCCCcccccccchhhhHHHHHHH
Q 009527 429 DMIGFGDILFPGLLICFAFRYDKENKKGVVKGYFLWLIIGYGFGLFLTYLGLYLMNGHGQPALLYLVPCTLGLTVILG 506 (532)
Q Consensus 429 s~LGlGDIviPGl~i~~~~rfD~~~~~~~~~~YF~~~~~gY~~GL~~t~~~~~~~~~~~QPALlYlvP~~l~~~~~~a 506 (532)
--||+||-|+=.+++.=+.-||-.. . -++|++|-.+||.+|...+.++ +++-|||.. |.++|.++-.+
T Consensus 320 ikLGlGDFIFYSvLvGkAa~~~d~~-----T--viAC~vaIL~GL~~TL~llsv~-~kALPALPi--sI~~G~iFYF~ 387 (406)
T KOG2736|consen 320 IKLGLGDFIFYSVLVGKAAAYGDLN-----T--VIACFVAILIGLCLTLLLLSVF-KKALPALPI--SITFGLIFYFS 387 (406)
T ss_pred eeeccCceEEEEeeccchhhcCChH-----H--HHHHHHHHHHHHHHHHHHHHHH-hhcCcCCch--HHHHHHHHHHH
Confidence 4699999999888887776666111 1 3589999999999999999999 899999987 88888876554
No 35
>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=94.60 E-value=0.065 Score=50.68 Aligned_cols=37 Identities=24% Similarity=0.386 Sum_probs=31.7
Q ss_pred CCCCcEEEEecCCCC-------------------HHHHHHHHHHcCCcEEEEEeCC
Q 009527 98 KLSGSIALSMRGDCA-------------------FTTKAEVAQAAGAAALVVINDE 134 (532)
Q Consensus 98 ~l~g~IaLV~RG~Cs-------------------F~~Ka~nAq~aGA~avIV~n~~ 134 (532)
+++||||++.+|+=. ...|.+.|+++||.|+|++++.
T Consensus 47 DVkGKiVvvl~~~P~~~~~~~~~f~~~~~~~~~~~~~K~~~A~~~GA~gvi~v~~~ 102 (157)
T cd04821 47 DVKGKTVVILVNDPGFATPDSGLFNGKAMTYYGRWTYKYEEAARQGAAGALIVHET 102 (157)
T ss_pred CcCCcEEEEEcCCCCcccccccccCcccccccccHHHHHHHHHHCCCeEEEEEeCC
Confidence 899999999987643 3359999999999999999875
No 36
>PF01080 Presenilin: Presenilin Alzheimer disease; InterPro: IPR001108 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Aspartic endopeptidases 3.4.23. from EC of vertebrate, fungal and retroviral origin have been characterised []. More recently, aspartic endopeptidases associated with the processing of bacterial type 4 prepilin [] and archaean preflagellin have been described [, ]. Structurally, aspartic endopeptidases are bilobal enzymes, each lobe contributing a catalytic Asp residue, with an extended active site cleft localised between the two lobes of the molecule. One lobe has probably evolved from the other through a gene duplication event in the distant past. In modern-day enzymes, although the three-dimensional structures are very similar, the amino acid sequences are more divergent, except for the catalytic site motif, which is very conserved. The presence and position of disulphide bridges are other conserved features of aspartic peptidases. All or most aspartate peptidases are endopeptidases. These enzymes have been assigned into clans (proteins which are evolutionary related), and further sub-divided into families, largely on the basis of their tertiary structure. This group of aspartic peptidases belong to MEROPS peptidase family A22 (presenilin family, clan AD): subfamily A22A, the type example being presenilin 1 from Homo sapiens (Human). Presenilins are polytopic transmembrane (TM) proteins, mutations in which are associated with the occurrence of early-onset familial Alzheimer's disease, a rare form of the disease that results from a single-gene mutation [, ]. The physiological functions of presenilins are unknown, but they may be related to developmental signalling, apoptotic signal transduction, or processing of selected proteins, such as the beta-amyloid precursor protein(beta-APP). There are a number of subtypes which belong to this presenilin family. That presenilin homologues have been identified in species that do not have an Alzhemier's disease correlate suggests that they may have functions unrelated to the disease, homologues having been identified in mouse, Drosophila melanogaster, Caenorhabditis elegans [] and other members of the eukarya including plants. ; GO: 0004190 aspartic-type endopeptidase activity, 0016021 integral to membrane; PDB: 2KR6_A.
Probab=93.70 E-value=0.16 Score=54.80 Aligned_cols=67 Identities=30% Similarity=0.377 Sum_probs=48.7
Q ss_pred cccCCCccchhhHHHHHHhhh-ccccccCcccchHHHHHHHHHHHHHHHHHHHHHhcCCCcccccccchhhhHHHHHHH
Q 009527 429 DMIGFGDILFPGLLICFAFRY-DKENKKGVVKGYFLWLIIGYGFGLFLTYLGLYLMNGHGQPALLYLVPCTLGLTVILG 506 (532)
Q Consensus 429 s~LGlGDIviPGl~i~~~~rf-D~~~~~~~~~~YF~~~~~gY~~GL~~t~~~~~~~~~~~QPALlYlvP~~l~~~~~~a 506 (532)
--|||||-|+=+++++-+.++ |.. -...|++|-.+||.+|.+.+.++ +++-|||.- +.++|.++-.+
T Consensus 326 ~klGlGDFiFYs~Lvg~aa~~~~~~--------~~~~~~~ail~Gl~~Tl~~l~~~-~~alPALPi--si~~g~~~yf~ 393 (403)
T PF01080_consen 326 IKLGLGDFIFYSVLVGRAAMYGDWN--------TVVACFVAILIGLCLTLLLLAIF-RKALPALPI--SIALGLIFYFL 393 (403)
T ss_dssp -SS-TTTHHHHHHHHHHHHHH-TTT--------THHHHHHHHHHHHHHHHHHHHHH-T-S-SSSSS------HHHHHHH
T ss_pred eeecchhHHHHHHHHhHHHhcCCHH--------HHHHHHHHHHHHHHHHHHHHHhc-CCCCCCCcH--HHHHHHHHHHH
Confidence 359999999999999988876 442 25688999999999999999988 899999976 66666655443
No 37
>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=77.55 E-value=4 Score=47.35 Aligned_cols=38 Identities=34% Similarity=0.427 Sum_probs=35.5
Q ss_pred CCCCcEEEEecCCCCHHHHHHHHHHcCCcEEEEEeCCC
Q 009527 98 KLSGSIALSMRGDCAFTTKAEVAQAAGAAALVVINDEE 135 (532)
Q Consensus 98 ~l~g~IaLV~RG~CsF~~Ka~nAq~aGA~avIV~n~~~ 135 (532)
+++|+|++++-|.-...+|++||+++||.++++|.+..
T Consensus 182 ~~~g~i~l~r~~~i~~g~~~~na~~~~a~gviiy~d~~ 219 (702)
T KOG2195|consen 182 NLSGKIVLARVGKIYRGKKVKNAEAAGADGVIIYTDPY 219 (702)
T ss_pred cccCceEEEEccccchhhhHhhHHHhhcCcEEEeeccc
Confidence 68899999999999999999999999999999999753
No 38
>KOG2927 consensus Membrane component of ER protein translocation complex [Intracellular trafficking, secretion, and vesicular transport]
Probab=61.73 E-value=13 Score=39.49 Aligned_cols=26 Identities=12% Similarity=0.385 Sum_probs=19.2
Q ss_pred HHHHHHhhhhhhccCccchhHhhHHH
Q 009527 327 FCVVFAVVWAVRRQASYSWVGQDILG 352 (532)
Q Consensus 327 ~~~~~~~~w~~~~~~~~~W~~~nilg 352 (532)
=++.|++.|++++--.--|++-|++.
T Consensus 239 RlILF~I~~il~~g~~g~W~FPNL~e 264 (372)
T KOG2927|consen 239 RLILFGITWILTGGKHGFWLFPNLTE 264 (372)
T ss_pred HHHHHHHHHHHhCCCCceEeccchhh
Confidence 35778889999983334699888875
No 39
>TIGR00819 ydaH p-Aminobenzoyl-glutamate transporter family. The p-Aminobenzoyl-glutamate transporter family includes two transporters, the AbgT (YdaH) protein of E. coli and MtrF of Neisseria gonorrhoea. AbgT is apparently cryptic in wild type cells, but when expressed on a high copy number plasmid, or when expressed at higher levels due to mutation, it allows utilization of p-aminobenzoyl-glutamate as a source of p-aminobenzoate for p-aminobenzoate auxotrophs. p-Aminobenzoate is a constituent of and a precursor for the biosynthesis of folic acid.
Probab=60.96 E-value=1.6e+02 Score=33.23 Aligned_cols=44 Identities=23% Similarity=0.521 Sum_probs=29.0
Q ss_pred CCCccchh-----hHHHHHHhhhccccccCcccchHHHHHHHHHHHHHHHHHH
Q 009527 432 GFGDILFP-----GLLICFAFRYDKENKKGVVKGYFLWLIIGYGFGLFLTYLG 479 (532)
Q Consensus 432 GlGDIviP-----Gl~i~~~~rfD~~~~~~~~~~YF~~~~~gY~~GL~~t~~~ 479 (532)
|.-+++-| ++.++++.|||+..+- +=....++=|.+.++++-.+
T Consensus 441 s~tNiItP~~~y~~lil~~~~~y~k~~g~----Gtl~s~mlPysi~~l~~w~~ 489 (513)
T TIGR00819 441 SSTLIIAPMMPFFGLFLAFLMKYKKDAGL----GTLISLMLPYPAFFLIAWIA 489 (513)
T ss_pred hHHHhhccCcchHHHHHHHHHHhccCCcH----HHHHHHHHHHHHHHHHHHHH
Confidence 33456666 7899999999987542 22345566677777766544
No 40
>PF06541 DUF1113: Protein of unknown function (DUF1113); InterPro: IPR010540 This family consists of several bacterial proteins of unknown function.
Probab=46.81 E-value=2.5e+02 Score=26.32 Aligned_cols=27 Identities=15% Similarity=0.208 Sum_probs=19.9
Q ss_pred HHhcccCchHHHHHHHHHHHHHHHHhh
Q 009527 360 LQMARLPNIKVASVLLCCAFVYDIFWV 386 (532)
Q Consensus 360 i~~i~l~~~k~~~ilL~~lf~YDif~V 386 (532)
++.+.-...+..++++..+++.|...-
T Consensus 129 ~~~i~~~~~~~~~~~l~~~~~~D~~~s 155 (157)
T PF06541_consen 129 LSKIPPIIRNILALVLLALFLIDFVFS 155 (157)
T ss_pred HHhCCHHHHHHHHHHHHHHHHHHHHHH
Confidence 455555566788889999999998653
No 41
>COG1786 Swiveling domain associated with predicted aconitase [Energy production and conversion]
Probab=43.82 E-value=66 Score=29.58 Aligned_cols=72 Identities=19% Similarity=0.191 Sum_probs=48.2
Q ss_pred CCCCcEEEEe--cCCCCHHHHHHHHHHcC-CcEEEEEeCCCcchhcccCCCCCCCcccceEEEechHhHHHHHHHhcccc
Q 009527 98 KLSGSIALSM--RGDCAFTTKAEVAQAAG-AAALVVINDEEDLYKMVCSENDTALNISIPVLMIPKSRGDALNKSIADKQ 174 (532)
Q Consensus 98 ~l~g~IaLV~--RG~CsF~~Ka~nAq~aG-A~avIV~n~~~~l~~m~~~~~~~~~~i~IPvv~Is~~~G~~L~~~l~~G~ 174 (532)
+++|+|.+.. ||.|.=.-=...+.+.| |-+.||.-+.|..+...+- --.||.+-... +..+.++.|.
T Consensus 48 ~l~Gkilv~P~grGStvGSyVl~~l~~~G~AP~aIv~~e~EpIla~Gai------~a~iPlv~~~~----e~~~~l~~g~ 117 (131)
T COG1786 48 SLTGKILVFPGGRGSTVGSYVLYELAKNGRAPAAIVNEEAEPILAVGAI------LAGIPLVDGVD----EFFEELKTGD 117 (131)
T ss_pred cccceEEEeeCCCCccccHHHHHHHHHcCCCchhhhhcCCcceeeehhh------hcCCceEeccH----HHHHHhccCC
Confidence 6899999987 78898777777888888 6666666555554443332 12678776654 3556677777
Q ss_pred eEEEE
Q 009527 175 RVELL 179 (532)
Q Consensus 175 ~V~V~ 179 (532)
.|++.
T Consensus 118 ~v~v~ 122 (131)
T COG1786 118 RVRVN 122 (131)
T ss_pred EEEEc
Confidence 66654
No 42
>COG4882 Predicted aminopeptidase, Iap family [General function prediction only]
Probab=38.51 E-value=92 Score=33.70 Aligned_cols=90 Identities=20% Similarity=0.188 Sum_probs=57.4
Q ss_pred CCCCcEEEEecCCCCHHHHH--HHHHHcCCcEEEEEeCCCcchhcccCC-C-CCCCcccceEEEechHhHHHHHHHhccc
Q 009527 98 KLSGSIALSMRGDCAFTTKA--EVAQAAGAAALVVINDEEDLYKMVCSE-N-DTALNISIPVLMIPKSRGDALNKSIADK 173 (532)
Q Consensus 98 ~l~g~IaLV~RG~CsF~~Ka--~nAq~aGA~avIV~n~~~~l~~m~~~~-~-~~~~~i~IPvv~Is~~~G~~L~~~l~~G 173 (532)
+..|++++-+|-.--...|. ..|.++||.|+|+-.+++..+...++- . -+....-||+..++..++..... .
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 67889988888655555554 567899999999988765432111110 0 12234579999999999887653 3
Q ss_pred ceEEEEeecCCCCCcchh
Q 009527 174 QRVELLLYAPNRPDVDFA 191 (532)
Q Consensus 174 ~~V~V~l~~p~~p~vD~s 191 (532)
..+++..+.-..-..|++
T Consensus 163 ~rvrl~vD~~~~~ty~y~ 180 (486)
T COG4882 163 GRVRLWVDACVERTYDYN 180 (486)
T ss_pred eeEEEEEecccceeEEEE
Confidence 456666655444445544
No 43
>PRK11588 hypothetical protein; Provisional
Probab=37.00 E-value=4.1e+02 Score=30.01 Aligned_cols=43 Identities=14% Similarity=0.362 Sum_probs=26.2
Q ss_pred eecCccchhhhHHHHHHHHHHHHHHh-HHHHHHHHHHHHHHHHH
Q 009527 244 LDITAKGAIVFVIVASTFLVLLYFFM-SSWFVWLLVVLFCIGGI 286 (532)
Q Consensus 244 ~~i~~~~a~~f~v~as~~L~~ly~f~-~~~~~~~l~~~f~i~g~ 286 (532)
.++|.+|-+...++.-.+....|=.. ..|..-=+..+|.+.|+
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 47899988877777777766676432 23433334555555543
No 44
>PF03606 DcuC: C4-dicarboxylate anaerobic carrier; InterPro: IPR018385 Escherichia coli contains four different secondary carriers (DcuA, DcuB, DcuC, and DctA) for C4-dicarboxylates [, , , ] DcuA is used for aerobic growth on C4-dicarboxylates [, ], whereas the Dcu carriers (encoded by the dcuA, dcuB, and dcuC genes) are used under anaerobic conditions and form a distinct family of carriers [, , , , , ]. Each of the Dcu carriers is able to catalyze the uptake, antiport, and possibly also efflux of C4-dicarboxylates. DcuB is the major C4-dicarboxylate carrier for fumarate respiration with high fumarate-succinate exchange activity. It is synthesized only in the absence of oxygen and nitrate and in the presence of C4-dicarboxylates [, , , ]. DcuA is expressed constitutively in aerobic and anaerobic growth and can substitute for DcuB [, ]. These proteins are members of the C4-dicarboxylate Uptake C (DcuC) family. DcuC has 12 GES predicted transmembrane regions, is induced only under anaerobic conditions, and is not repressed by glucose. DcuC may therefore function as a succinate efflux system during anaerobic glucose fermentation. However, when overexpressed, it can replace either DcuA or DcuB in catalyzing fumarate-succinate exchange and fumarate uptake [, ]. DcuC shows the same transport modes as DcuA and DcuB (exchange, uptake, and presumably efflux of C4-dicarboxylates) [].; GO: 0016021 integral to membrane
Probab=26.92 E-value=1.3e+02 Score=33.23 Aligned_cols=15 Identities=27% Similarity=0.605 Sum_probs=10.1
Q ss_pred cCCCccchhh--HHHHH
Q 009527 431 IGFGDILFPG--LLICF 445 (532)
Q Consensus 431 LGlGDIviPG--l~i~~ 445 (532)
=|+|+.+-|- .+++.
T Consensus 414 ~gl~n~isPtsg~~m~~ 430 (465)
T PF03606_consen 414 DGLGNSISPTSGVLMAV 430 (465)
T ss_pred HHHHhhccchHHHHHHH
Confidence 5788888884 44443
No 45
>PRK03955 hypothetical protein; Reviewed
Probab=26.81 E-value=2.3e+02 Score=26.16 Aligned_cols=70 Identities=16% Similarity=0.126 Sum_probs=44.7
Q ss_pred CCCCcEEEEe--cCCCCHHHHHHHHHHcC-CcEEEEEeCCCcchhcccCCCCCCCcccceEEEechHhHHHHHHHhcccc
Q 009527 98 KLSGSIALSM--RGDCAFTTKAEVAQAAG-AAALVVINDEEDLYKMVCSENDTALNISIPVLMIPKSRGDALNKSIADKQ 174 (532)
Q Consensus 98 ~l~g~IaLV~--RG~CsF~~Ka~nAq~aG-A~avIV~n~~~~l~~m~~~~~~~~~~i~IPvv~Is~~~G~~L~~~l~~G~ 174 (532)
.++|||.+.. ||.|.=.-=...+.+.| |-+.||..+.+......+- --.||++.-. . .+.++.|.
T Consensus 48 si~gkIlv~p~~kGSt~gs~vl~~l~~~g~aP~aiI~~~~~~ils~GaI------vAgIP~V~~~-----~-~~~l~~G~ 115 (131)
T PRK03955 48 SIKGKILVFPHGKGSTVGSYVIYQLAKNGTAPKAIINLEAEPIVATGAI------ISGIPLVDKV-----D-ISKLKDGD 115 (131)
T ss_pred ccCCEEEEEeCCCcccchHHHHHHHHHcCCCceEEEEecCCceeEeeee------ecCCceEccc-----c-ceecCCCC
Confidence 5899998886 78998554444444444 5577777766655433321 1268888622 2 45788899
Q ss_pred eEEEE
Q 009527 175 RVELL 179 (532)
Q Consensus 175 ~V~V~ 179 (532)
.|+|.
T Consensus 116 ~V~Vd 120 (131)
T PRK03955 116 RVVVD 120 (131)
T ss_pred EEEEe
Confidence 88875
No 46
>PF15345 TMEM51: Transmembrane protein 51
Probab=25.43 E-value=1e+02 Score=31.18 Aligned_cols=23 Identities=13% Similarity=0.153 Sum_probs=18.4
Q ss_pred hhHHHHHHHHHHHHHHHHHhhcc
Q 009527 191 AVIFLWMMAVGTIIAAALWSLLT 213 (532)
Q Consensus 191 s~~~l~lmAv~tI~~gs~~S~~~ 213 (532)
+.-.|..++++.++.|..+..|.
T Consensus 5 shYAL~AiG~Gml~LGiiM~vW~ 27 (233)
T PF15345_consen 5 SHYALTAIGVGMLALGIIMIVWN 27 (233)
T ss_pred hhHHHHHHhHhHHHHhhHheeee
Confidence 34456778889999999999997
No 47
>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=25.18 E-value=25 Score=36.82 Aligned_cols=33 Identities=6% Similarity=0.041 Sum_probs=29.5
Q ss_pred EEEecCCCCHHHHHHHHHHcCCcEEEEEeCCCc
Q 009527 104 ALSMRGDCAFTTKAEVAQAAGAAALVVINDEED 136 (532)
Q Consensus 104 aLV~RG~CsF~~Ka~nAq~aGA~avIV~n~~~~ 136 (532)
..++||||+..+|.+.+|+-|-+|+|..++.+.
T Consensus 150 ~~~~rgn~t~~d~~rer~r~~fkgvi~Gs~r~~ 182 (374)
T COG5540 150 RCNRRGNETEEDPTRERRRTRFKGVIRGSERNG 182 (374)
T ss_pred HHHHccCccccCccccchhccccceeeccccCC
Confidence 457899999999999999999999999988754
No 48
>KOG3455 consensus Predicted membrane protein [Function unknown]
Probab=24.89 E-value=1.7e+02 Score=27.21 Aligned_cols=50 Identities=10% Similarity=0.107 Sum_probs=39.1
Q ss_pred chHHHHHHHHHHHHHHHHHHHHHhcCCCcccccccchhhhHHHHHHHHHhc
Q 009527 460 GYFLWLIIGYGFGLFLTYLGLYLMNGHGQPALLYLVPCTLGLTVILGLARG 510 (532)
Q Consensus 460 ~YF~~~~~gY~~GL~~t~~~~~~~~~~~QPALlYlvP~~l~~~~~~a~~rg 510 (532)
+-|..++..|++.+.-...=..++ +..-++-..+.|+++.++.++....+
T Consensus 74 ~i~~~~~~s~~lal~HflTE~l~y-rT~tig~~~~~p~vv~s~Sl~~M~~~ 123 (139)
T KOG3455|consen 74 PIYIATFLSFILALGHFLTELLFY-RTMTIGIGVLTPLVVNSISLVGMLKF 123 (139)
T ss_pred chHHHHHHHHHHHHHHHHHHHHHH-hhccccceEEeeeeehhhhHHHHHHH
Confidence 556777777777776655544566 88999999999999999998887664
No 49
>PF07787 DUF1625: Protein of unknown function (DUF1625); InterPro: IPR012430 Sequences making up this family are derived from hypothetical proteins expressed by both prokaryotic and eukaryotic species. The region in question is approximately 250 residues long.
Probab=24.63 E-value=2.2e+02 Score=28.62 Aligned_cols=12 Identities=25% Similarity=0.600 Sum_probs=8.2
Q ss_pred HHHHHhhhhhhc
Q 009527 328 CVVFAVVWAVRR 339 (532)
Q Consensus 328 ~~~~~~~w~~~~ 339 (532)
.+.+++.|++||
T Consensus 236 l~~Ia~aW~~yR 247 (248)
T PF07787_consen 236 LLTIALAWLFYR 247 (248)
T ss_pred HHHHHHhheeeC
Confidence 345667888877
No 50
>PF06305 DUF1049: Protein of unknown function (DUF1049); InterPro: IPR010445 This entry consists of several hypothetical bacterial proteins of unknown function.
Probab=23.70 E-value=91 Score=24.53 Aligned_cols=30 Identities=17% Similarity=0.320 Sum_probs=15.6
Q ss_pred cccceEEEEeecCCCCCcchhhHHHHHHHHH
Q 009527 171 ADKQRVELLLYAPNRPDVDFAVIFLWMMAVG 201 (532)
Q Consensus 171 ~~G~~V~V~l~~p~~p~vD~s~~~l~lmAv~ 201 (532)
++.+.|++++..-..+ .-.....+..++++
T Consensus 2 qN~~~V~v~~~~~~~~-~pl~l~il~~f~~G 31 (68)
T PF06305_consen 2 QNTQPVTVNFLFGQFP-LPLGLLILIAFLLG 31 (68)
T ss_pred CCCceEEEEEEeeecc-chHHHHHHHHHHHH
Confidence 4556788888654444 33344444333333
No 51
>PHA02898 virion envelope protein; Provisional
Probab=21.79 E-value=4.5e+02 Score=22.77 Aligned_cols=23 Identities=13% Similarity=0.262 Sum_probs=20.0
Q ss_pred hHHHHHHHHHHHHHHHHhhhccc
Q 009527 368 IKVASVLLCCAFVYDIFWVFVSP 390 (532)
Q Consensus 368 ~k~~~ilL~~lf~YDif~Vf~s~ 390 (532)
|-.|.+++.|+++|+.+--|.+|
T Consensus 52 FIlgivl~lG~~ifs~y~r~C~~ 74 (92)
T PHA02898 52 FILAIILILGIIFFKGYNMFCGG 74 (92)
T ss_pred HHHHHHHHHHHHHHHHHhhhcCC
Confidence 34588999999999999989998
Done!