Query 001800
Match_columns 1011
No_of_seqs 174 out of 213
Neff 4.6
Searched_HMMs 46136
Date Fri Mar 29 09:37:18 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/001800.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/001800hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1895 mRNA cleavage and poly 100.0 7.2E-97 2E-101 881.2 36.7 850 3-984 96-955 (957)
2 PF12295 Symplekin_C: Sympleki 100.0 2.4E-54 5.3E-59 443.1 17.7 180 773-953 1-183 (183)
3 KOG1895 mRNA cleavage and poly 95.0 0.017 3.7E-07 72.8 3.7 75 473-560 859-933 (957)
4 PF05918 API5: Apoptosis inhib 81.6 87 0.0019 38.8 18.9 28 497-524 44-71 (556)
5 PF05918 API5: Apoptosis inhib 62.6 3.3E+02 0.0071 34.0 17.6 50 550-600 50-100 (556)
6 KOG2213 Apoptosis inhibitor 5/ 62.5 70 0.0015 38.1 11.3 101 497-610 46-161 (460)
7 KOG1248 Uncharacterized conser 54.6 5.1E+02 0.011 35.0 18.0 161 560-800 139-317 (1176)
8 PF10363 DUF2435: Protein of u 53.0 1.1E+02 0.0024 29.1 9.2 65 536-601 18-87 (92)
9 PF14676 FANCI_S2: FANCI solen 51.7 2.4E+02 0.0053 29.4 12.3 82 475-581 73-154 (158)
10 PF10508 Proteasom_PSMB: Prote 45.4 6.5E+02 0.014 30.7 19.3 54 535-588 51-106 (503)
11 PF02985 HEAT: HEAT repeat; I 44.8 35 0.00075 25.6 3.7 25 561-585 2-26 (31)
12 PF10155 DUF2363: Uncharacteri 43.8 1.1E+02 0.0024 30.9 8.0 83 824-918 8-100 (126)
13 PF11698 V-ATPase_H_C: V-ATPas 31.6 1.4E+02 0.0031 30.0 6.6 51 535-585 57-112 (119)
14 cd00020 ARM Armadillo/beta-cat 30.6 2.7E+02 0.0059 25.3 8.1 55 536-590 21-80 (120)
15 PRK09687 putative lyase; Provi 30.4 8.3E+02 0.018 27.5 18.8 73 499-585 43-117 (280)
16 KOG2956 CLIP-associating prote 29.2 1.2E+03 0.026 28.9 17.7 57 685-743 444-500 (516)
17 PF00220 Hormone_4: Neurohypop 27.4 28 0.0006 20.4 0.5 8 730-737 2-9 (9)
18 PF01602 Adaptin_N: Adaptin N 25.0 6E+02 0.013 30.1 11.5 80 674-767 436-519 (526)
19 COG5240 SEC21 Vesicle coat com 24.4 4.7E+02 0.01 33.1 10.2 77 690-768 413-494 (898)
20 KOG1078 Vesicle coat complex C 23.6 9.5E+02 0.021 31.4 12.9 196 497-768 267-473 (865)
21 cd08317 Death_ank Death domain 22.8 2.5E+02 0.0055 25.9 6.2 65 706-770 11-75 (84)
22 PF14500 MMS19_N: Dos2-interac 21.5 1.2E+03 0.026 26.3 20.1 57 848-904 193-252 (262)
23 COG5240 SEC21 Vesicle coat com 21.0 1.6E+03 0.034 28.8 13.7 82 475-583 462-550 (898)
24 KOG2038 CAATT-binding transcri 20.7 6.9E+02 0.015 32.6 10.9 101 478-591 198-336 (988)
25 cd08819 CARD_MDA5_2 Caspase ac 20.3 3.8E+02 0.0083 25.8 6.8 64 846-934 21-84 (88)
26 PF01602 Adaptin_N: Adaptin N 20.1 1.2E+03 0.027 27.5 12.8 95 497-601 399-498 (526)
No 1
>KOG1895 consensus mRNA cleavage and polyadenylation factor II complex, subunit PTA1 [RNA processing and modification]
Probab=100.00 E-value=7.2e-97 Score=881.23 Aligned_cols=850 Identities=32% Similarity=0.434 Sum_probs=701.9
Q ss_pred cchHHhhhhcccCCCCCCCccccchhhhccCCCCcCcccccCCCCCCccceecCCCcccchhhhhcccccCccccCCCCC
Q 001800 3 RNSERARENRVDRNDQPSTQLPLLRDLLKKRSMPQDNEERNNGLDVASKRVRYGPNNHLAMSAQMNESWQDSVSVNGVSP 82 (1011)
Q Consensus 3 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~k~~~~~~~~~~~~~~~~~~kr~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 82 (1011)
+|+|++|.++.++.-.+...| ++. +-.+|. ..|. .+-.++++.....+-++ ++..
T Consensus 96 ~~~~~~~~~~s~w~~~~~~k~----~i~--~~~~~G---~v~v-k~~~~~f~~~~i~~~t~---------------~l~~ 150 (957)
T KOG1895|consen 96 LHMEKNDLAESLWTAFHLFKD----RIC--LDDHQG---TVGV-KVLAAKFMEQSILLYTP---------------DLAR 150 (957)
T ss_pred HhcchhHHHHHHHHHHHHhHH----HHh--hccccC---cchh-hhhHHHHHHhhhhhhcc---------------cccc
Confidence 466778888888877777777 444 555555 5555 37777888777777665 6677
Q ss_pred CCCCCCCCCcHHHHHHHHHHHHHhcccccccchhhhhhccChhhHHHHHHHhCccCCCCCCCCccCCCCCccccccCCCC
Q 001800 83 SVPLLDSDLNPVEQMIAMIAALLAEGERGAESLELLISNIHPDLLADIVISNMKHLHKTPPPLTRLGNLPVTRQIGSLSS 162 (1011)
Q Consensus 83 ~~~~~~~~~~~v~q~i~~~~al~a~ge~~~~sl~il~s~~~~d~la~~v~~~m~~l~~~~~~~~~~~~~~~~~~~~~~~~ 162 (1011)
+.+.++...+++|++.-|+|+|.+.|++|+.||++.|++++.|++ +-|+|+|-.+|........+.+.++..
T Consensus 151 g~p~l~~~~~~~e~~~~~~~ll~~l~~p~s~~l~~~I~~l~~~~~-----~~~a~~~~~~pt~~s~~~~~~~~~v~~--- 222 (957)
T KOG1895|consen 151 GHPFLSYHKTSSEAEQNLSALLSQLAHPTSQSLITVIESLLMDLL-----TSPAEMPVILPTLLSVMPNLPDESVPK--- 222 (957)
T ss_pred CCcccccccchHHHHHHHHHHHHHhcCchhhhhHHHHHHHhhhhc-----cChhhccccchhhhcccCCCcccccHH---
Confidence 789999999999999999999999999999999999999999999 889999999988766666666653333
Q ss_pred CccccccccccccccchhhhhcccCCcchhh-cccccccCCCCCCCCCCCCCCCCCCCCCCCCccccCCCCCCccccccC
Q 001800 163 PAQVVVLPSQINTMQSSLLTAQVQLPSSVAA-ISSSLSDTATGNTSATDSKRDPRRDPRRLDPRRVATPVGVPSISTTED 241 (1011)
Q Consensus 163 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~~~~~~ 241 (1011)
-.++. +.+.-.+++|.+... ++...+..+-.+++.+|..|+|++++++++|.|....++.+.+.|.+.
T Consensus 223 ---------~~~~~--l~~~~~~~lp~~~pl~~~~~~~~~~~~~s~~~~~~~~~~~l~~~~~p~~l~~~v~~t~v~v~e~ 291 (957)
T KOG1895|consen 223 ---------VLKTA--LMPHFGALLPAKLPLAAPSTTSELDVVSSGSADANREPPFLAAQYLPLRLAMSVSTTDVLVPEN 291 (957)
T ss_pred ---------HHHhh--hcccchhcCCCcCccccccchhhhhhhccCCccccccchhhhhccCCCcchhcccccceecccc
Confidence 33322 235666777776555 888889999999999999999999999999999998888877777655
Q ss_pred CCCcccccCCCCCCCCCCCCcccCcccCCCCCccCCcCCCCCccCCCccccCCCCCcccccccccccccCcccccccccc
Q 001800 242 AGPVQSEFDDSSSITRPPSLDITTSAENLPAPLMTSAKSDDMTFESPSVCKMDQPNAEEGLSRSEEIVTLPEVCASSDHR 321 (1011)
Q Consensus 242 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 321 (1011)
-..+. .|......+.+-++....+...-+..+++-+.+..-.+...+..+.....++.+ -.+.
T Consensus 292 ~~~~~----------~~~~~~~~~~g~~~~~~~~~~~~a~~~t~~S~~r~v~~~~~~~e~~~~ek~i~~-------~~v~ 354 (957)
T KOG1895|consen 292 IVLIF----------APVPLVLDTVGATGNQEMFAQLCALKKTVLSLGRGVYDTRPCVEDEQIEKNIGS-------LLVL 354 (957)
T ss_pred hhhcc----------CcccchhhccccccChhhHHHHHHhhhhccccCcccccccchhhhhhhhccccc-------ceee
Confidence 44433 233334445555555555444444444444444332222222222110011111 1111
Q ss_pred cccccccccccccccccccccc---c---ccccccccCccccccccccccccCcccCCCCCCCcCCCHHHHHHHHHHHHH
Q 001800 322 ISSRAVDEDSAVVELSDVEVYG---T---STSSLVESDQHTSAVSNASAWEETCKDLPPLPLFVELTEEEQKSVRTFAVE 395 (1011)
Q Consensus 322 ~~~~~~~~~~~~~~~~~~~~~~---~---~~~~~~~~d~~~~~~~~~~~~~~~~~~LP~~ppp~~Ls~eek~~l~~~Av~ 395 (1011)
++ ++++ .....++.+++ . +.-+.+..|+-.|.++...+.+...+-+=..+....++.++.+.+++.|..
T Consensus 355 is-r~ie----~~~~~~t~~p~~~~l~~p~~~~~Pa~~~~~~~a~~~~~~~~s~~Ll~~v~~~~t~~~~~~~~~~~~a~~ 429 (957)
T KOG1895|consen 355 IS-RFIS----YVLLSKTSSPGLAELISPLSNMVPDEDVRPPTASELTAKRLSKKLLNYLEEAQPLTDSQAIGMGNSASE 429 (957)
T ss_pred ee-ehhh----hheeecccCCccchhcCchhhcCccccCCCcccccccccHHHHHHHhhhhhhcchhhHHHHHHHhhHHH
Confidence 22 2211 00011122221 1 111344444444443444444444455556777788999999999999999
Q ss_pred HHHhhhhhhcccccchhhHHHHHHhhhccCCchHHHHHHHHHHHHhhhcccchhHHHHHHHHHHHHHHhccCCCCCchhH
Q 001800 396 RIFESYKHLQGAECSQTRMGLLARLIAQIDADEDIVMMLQKYVVANYQEQKGHELVLHILYHLQSLMISSSNENSSYAAA 475 (1011)
Q Consensus 396 RIl~~ek~~~~~G~~~~w~~LLaRLaTR~~~~~~iRe~L~~fILeDfr~R~gidLAl~WLyEEys~~~~~~~~~~~~~~~ 475 (1011)
||...++.+...|....++.+.+||.++|+.+ -...+..|++++++.| +|++++|||++|+..+++.. ..
T Consensus 430 ~i~~~~r~V~~~~~nl~r~~vsa~l~~ef~sd--~~~~~~~f~~~~~~~~--~dl~~~~l~~~~~~~i~~s~------~~ 499 (957)
T KOG1895|consen 430 RILRAERRVIAIGANLLRQKVDARLVLRFKSD--FKKELKEFVLDAVKKR--HDLALQWLYKLYSAYIGSSD------YS 499 (957)
T ss_pred HHHHhhhHHHHhhhHHHHHHhhhhheeeeehh--HHHHHhHhhhhhhhhc--cchHHHHHHHHHHHHhhhhh------hh
Confidence 99999999999999999999999999999887 3456789999999988 99999999999998887631 12
Q ss_pred HHHHHHHHHHHHhhccCCCCchHHHHhhhcCCCCCHHHHHHHHhhccCcccccCCccccCchhhhhHHHHHHHHHhcCCh
Q 001800 476 VYEKLLLAVAKSLLDTFPASDKSFSRLLGEVPVLPDSVLQLLGNLCSSAVFDLHGKEVRDGERVTQGLGAVWSLILGRPY 555 (1011)
Q Consensus 476 ~Ye~wLl~LL~~L~~~l~~kDklf~RLLlElP~Lt~~aL~~Lk~lC~~~~~~~~~k~~~DpeRv~lGl~aLr~LIm~RPp 555 (1011)
-|+++++++.+++++.++.+|++|.+.++|+|.++.+++.+|+.+| +..|+++||.++|.+|+.||.
T Consensus 500 ~ye~~~~~l~~~~~e~~~~~~~~f~k~~~dapll~~~al~~l~~~c-------------~~~~~t~g~s~~~sli~~rp~ 566 (957)
T KOG1895|consen 500 SYEKFLITLLSALLESFSKKDKIFSKVLLEAPLLRQSALELLELWC-------------DALRVTLGMSTLRSLIFSRPA 566 (957)
T ss_pred hhhHHHHHHHHhhhcccCccccccccccccCccCCHHHHHHHHHHh-------------hhhhhhcchHHHHHHHhcCcc
Confidence 2999999999999999999999999999999999999999999999 568999999999999999999
Q ss_pred hhHHHHHHHHhhhcCCcHHHHHHHHHHHHHHccccchhhHHHHHHHHHHHHHhhcccCCccccccccchhhhhccccCCc
Q 001800 556 YRQACLDIALKSAAHSQDEIRAKAIRLVSNKLYQLSYITENIEQYATNMMLSAVNQHSSNLECSQSDSADLKAEGEVGSQ 635 (1011)
Q Consensus 556 ~R~~~L~iLLela~he~eevR~~AIrll~n~Ly~~~~l~~~Ie~FA~~~L~~l~~~~~~~~~~~q~~~~~~k~~~E~gs~ 635 (1011)
.|.+|+++++++..|+.+++|.+||++++ ++|.+.++++.|++||.+++..++++.++......
T Consensus 567 ~~~~~l~~l~~l~~~~k~~~r~~~i~~v~-~l~~~~~i~e~i~d~a~~~l~~~v~~~~~~~~~~~--------------- 630 (957)
T KOG1895|consen 567 TRSQCLNILLGLSVHEKEELRSKAIRLVT-KLYSLKFIRETIEDFASDMLSSLVNEDPPQVPDIL--------------- 630 (957)
T ss_pred cchhHHHHHHHHhhhhHHHHHHHHHHHHH-HHhchhhHHHHHHHHHHHhHHHhhcCCcccccccc---------------
Confidence 99999999999999999999999999987 89999999999999999999999886655321000
Q ss_pred ccccCCCCcCCCCCcccCcCCCCCCccCCCCCCCHHHHHHHHHHHHHhhcCCcccHHHHHHHhccCcHHHHHHHHhhhHH
Q 001800 636 ETSISGSQVSEPGTFEMDSVKGGQPISHSLSTISFPEAQRLTSLFFALCTKKPRLLQLIFDKYVQAPKSVKQAFHRHIPI 715 (1011)
Q Consensus 636 ~~~~~~~~~~E~~~~e~~~~~~~~~~~e~~~~~s~~~~kr~L~LylALc~k~p~LL~~Lf~VY~~a~~~VKraV~r~I~~ 715 (1011)
...+++ |.....+.++.+|.++.+..+.+++.+|.+|++....+||.+.+.++.
T Consensus 631 ---------------~~~s~~-----------~~~~~~~s~l~~~~~~~~s~~~~l~~~~~ls~~~~~~~~r~~d~~~~~ 684 (957)
T KOG1895|consen 631 ---------------TELSAQ-----------WIDEMDKSKLTVYLTLVPSRYKDLMSLAALSTQSLSSFKRQVDRDLDE 684 (957)
T ss_pred ---------------hhhhhh-----------HHHhhhhhHHHHHHhhccchhhHHHHHHHhcchhhhhhhhhhhhhcch
Confidence 000001 112456889999999999999999999999999999999999999999
Q ss_pred HHHhhCCCcHHHHHhhcCCCCChHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhcccCCceeeecccCCCChhhHhhhchh
Q 001800 716 LIRALGSSCSELLHIISDPPQGSENLLTLVLQILTQETTPSSDLIATVKHLYETKLKDATILIPMLSSLTKNEVLPIFPR 795 (1011)
Q Consensus 716 lIR~mG~ss~eLL~LIe~cP~GAEtLv~RIL~iLTek~~PS~eLV~~Vk~Ly~~r~~DVRfLIPIL~gL~K~EVl~~LPk 795 (1011)
.++.+|.++|+++.++++||.|+|+||.|++++||++-+||.+|+++||+||++|.+|+++|+||+++|+|+||++++|.
T Consensus 685 ~~~~~~~~~~~l~~~Ve~~~~~ae~lv~~~v~~ltde~~ps~~li~tv~~l~~~r~~dvs~L~pi~~~lerd~V~~~~p~ 764 (957)
T KOG1895|consen 685 DFEPLGVDSPELLALVEDCPAGAETLVPRLVVTLTDELPPSTDLIQTVKKLYETRLKDVSALLPILPGLERDEVLQLLPQ 764 (957)
T ss_pred hhhhhccchHHHHHHHHhccccCccchhhheeeccccCCCChHHHHHHHHHHHHhhhhHHHHHhhcCCCCHHHHHHhhhH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hccCChHHHHHHHHHHhhcCCCCC--CCCCHHHHHHHhhccCCchhhhhHHHHHHHhhhhccCCCCCCHHHHHHHHHHHh
Q 001800 796 LVDLPLEKFQMALAHILQGSAHTG--PALTPVEVLVAIHDIVPEREGLALKKITDACSACFEQRTVFTQQVLAKALNQMV 873 (1011)
Q Consensus 796 fV~L~~e~f~~~L~ril~~s~~tg--~~LtP~ELLVaLH~Id~~kd~I~lK~vi~Ai~lCF~~~~VFt~eVLA~aLqqLv 873 (1011)
++++++++|+.++.++++++...| ++++|.|+++++|.|++.++ +..|++++||++||+++.+|++++++.+++|++
T Consensus 765 ~~~l~~~~~~~~~~~~~~~~~~~~~l~~l~p~e~li~~H~i~~~~d-~~~~~~~~a~n~cf~~~~~f~~~~~~~~l~~l~ 843 (957)
T KOG1895|consen 765 LLKLPPKVVKLAFRRLLTGSSLSGRLPVLDPSEVLIALHAIDPLKD-VRGKLATDALNLCFESRNLFTQQVLAQALNQLV 843 (957)
T ss_pred hhhcchHHHHHHHHHHhhcccccCCCCccCcHHHHHHHHhcccccC-chHHHHHHHHHHHHhhhhcccHHHHHHHHHHHH
Confidence 999999999999999999888888 89999999999999999998 899999999999999999999999999999999
Q ss_pred cCCCccHHHHHHHHHHHHhCCchHHHHHHHHHHHHhhhhccCCcchHHHHHHHhhhCCCchhHHhcCChHHHHHHHHHhh
Q 001800 874 DQTPLPLLFMRTVIQAIDAFPTLVDFVMEILSKLVSKQVWRMPKLWVGFLKCVSQTRPHSFPVLLKLPPPQLESALNKYA 953 (1011)
Q Consensus 874 e~~pLP~LfMRTVIqal~~~P~L~~FV~nIL~rLI~KqVWk~~~lW~GFikCa~~~kP~Sf~vLLqLP~~QL~~~L~k~P 953 (1011)
++.++|.||||||||++.+||+|++||+++|+||++||+|+++++|+||.||+++++|++|+++|+||+.||..++.|+|
T Consensus 844 ~~~nlp~lf~rtv~q~~~~fp~l~~fV~e~Lsrlvekkiwk~~~~w~gf~kc~~~~~p~s~~V~L~l~~~qLg~~l~K~l 923 (957)
T KOG1895|consen 844 KWENLPLLFMRTVIQALPKFPKLSLFVLEILSRLVEKKIWKFPKRWEGFPKCTSATKPKSKPVCLDLPPTQLGFILKKFL 923 (957)
T ss_pred hccCCchhhHHHHHhhhhhchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccccceeeeCChHHHHHHHHhhh
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhhhHHHHhhcCcCCCCCCcHHHHHHhc-ccc
Q 001800 954 NLRGPLATYASQPSLKSSIPRSILAVLG-LAN 984 (1011)
Q Consensus 954 ~Lr~~L~~~~~~~~~~~~ipr~~l~vLg-~~~ 984 (1011)
.||.+|.+|+.++.+|+|.|++.+.++| +++
T Consensus 924 ~lR~~~~~~~~~~~~~~~~~~~~~~v~~~~~~ 955 (957)
T KOG1895|consen 924 MLRPPLTAHVLTPQQKSHDPNSHKSVLGLLDN 955 (957)
T ss_pred hhhhHHHHHhccHhhhhcChhHHHHHHhhccc
Confidence 9999999999999999999999999999 444
No 2
>PF12295 Symplekin_C: Symplekin tight junction protein C terminal; InterPro: IPR022075 This domain family is found in eukaryotes, and is approximately 180 amino acids in length. There is a single completely conserved residue P that may be functionally important. Symplekn has been localized, by light and electron microscopy, to the plaque associated with the cytoplasmic face of the tight junction-containing zone (zonula occludens) of polar epithelial cells and of Sertoli cells of testis. However, both the mRNA and the protein can also be detected in a wide range of cell types that do not form tight junctions. Careful analyses have revealed that the protein occurs in all these diverse cells in the nucleoplasm, and only in those cells forming tight junctions is it recruited, partly but specifically, to the plaque structure of the zonula occludens.
Probab=100.00 E-value=2.4e-54 Score=443.07 Aligned_cols=180 Identities=52% Similarity=0.917 Sum_probs=175.7
Q ss_pred CceeeecccCCCChhhHhhhchhhccC-ChHHHHHHHHHHhh--cCCCCCCCCCHHHHHHHhhccCCchhhhhHHHHHHH
Q 001800 773 DATILIPMLSSLTKNEVLPIFPRLVDL-PLEKFQMALAHILQ--GSAHTGPALTPVEVLVAIHDIVPEREGLALKKITDA 849 (1011)
Q Consensus 773 DVRfLIPIL~gL~K~EVl~~LPkfV~L-~~e~f~~~L~ril~--~s~~tg~~LtP~ELLVaLH~Id~~kd~I~lK~vi~A 849 (1011)
|+||||||++||+|+||+++||+||++ +++.|+.++.|+++ +..+.++++||+|||++||.+|++++ +++|++++|
T Consensus 1 DvrflIPil~~L~k~ev~~~LP~li~~~~~~~~k~~~~rll~~~~~~~~~~~ltp~ElLv~lH~id~~~~-~~~k~~~~a 79 (183)
T PF12295_consen 1 DVRFLIPILGGLDKDEVISLLPKLISLEPPKVVKEVFNRLLQAPSSSTGESPLTPSELLVALHNIDPEKD-VPLKKIIEA 79 (183)
T ss_pred CceeehhhccCCCHHHHHHHhHHHHHcCCHHHHHHHHHHHhcCCCCCCCCCCCCHHHHHHHHHhCCcccc-ccHHHHHHH
Confidence 899999999999999999999999999 88999999999997 66667789999999999999999988 899999999
Q ss_pred hhhhccCCCCCCHHHHHHHHHHHhcCCCccHHHHHHHHHHHHhCCchHHHHHHHHHHHHhhhhccCCcchHHHHHHHhhh
Q 001800 850 CSACFEQRTVFTQQVLAKALNQMVDQTPLPLLFMRTVIQAIDAFPTLVDFVMEILSKLVSKQVWRMPKLWVGFLKCVSQT 929 (1011)
Q Consensus 850 i~lCF~~~~VFt~eVLA~aLqqLve~~pLP~LfMRTVIqal~~~P~L~~FV~nIL~rLI~KqVWk~~~lW~GFikCa~~~ 929 (1011)
|++||+++++|++|||++|||||||++++|.|||||||||+++||+|++||+|||+|||+||||+++++|+||++||+++
T Consensus 80 ~~~Cf~~~~vf~~evla~~l~ql~~~~~lP~LfmRTviq~~~~~p~L~~FV~~iL~rLi~kqvW~~~~lW~Gfi~C~~~~ 159 (183)
T PF12295_consen 80 LDLCFSMRDVFTQEVLASALQQLVEQPPLPLLFMRTVIQALQKYPSLRSFVSNILSRLIQKQVWKNKKLWEGFIKCAKRL 159 (183)
T ss_pred HHHHHcccccCCHHHHHHHHHHHHCCCCCcHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHhcChhHHHHHHHHHHHh
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCchhHHhcCChHHHHHHHHHhh
Q 001800 930 RPHSFPVLLKLPPPQLESALNKYA 953 (1011)
Q Consensus 930 kP~Sf~vLLqLP~~QL~~~L~k~P 953 (1011)
+|+||++|+|||++||+++++++|
T Consensus 160 ~p~sf~~ll~LP~~ql~~~l~~~p 183 (183)
T PF12295_consen 160 KPSSFPALLQLPPEQLEELLKKLP 183 (183)
T ss_pred hhHHHHHHHhCCHHHHHHHHHhCc
Confidence 999999999999999999999987
No 3
>KOG1895 consensus mRNA cleavage and polyadenylation factor II complex, subunit PTA1 [RNA processing and modification]
Probab=95.01 E-value=0.017 Score=72.77 Aligned_cols=75 Identities=19% Similarity=0.101 Sum_probs=70.1
Q ss_pred hhHHHHHHHHHHHHHhhccCCCCchHHHHhhhcCCCCCHHHHHHHHhhccCcccccCCccccCchhhhhHHHHHHHHHhc
Q 001800 473 AAAVYEKLLLAVAKSLLDTFPASDKSFSRLLGEVPVLPDSVLQLLGNLCSSAVFDLHGKEVRDGERVTQGLGAVWSLILG 552 (1011)
Q Consensus 473 ~~~~Ye~wLl~LL~~L~~~l~~kDklf~RLLlElP~Lt~~aL~~Lk~lC~~~~~~~~~k~~~DpeRv~lGl~aLr~LIm~ 552 (1011)
....|.+|...+++.|..+.+.|..-|-+++.+.|-.+.......+..| +|+.+..+|+.+.+++ |+
T Consensus 859 ~~~~fp~l~~fV~e~Lsrlvekkiwk~~~~w~gf~kc~~~~~p~s~~V~------------L~l~~~qLg~~l~K~l-~l 925 (957)
T KOG1895|consen 859 ALPKFPKLSLFVLEILSRLVEKKIWKFPKRWEGFPKCTSATKPKSKPVC------------LDLPPTQLGFILKKFL-ML 925 (957)
T ss_pred hhhhchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccccccee------------eeCChHHHHHHHHhhh-hh
Confidence 4578999999999999999999998888888889999999999999999 7899999999999999 99
Q ss_pred CChhhHHH
Q 001800 553 RPYYRQAC 560 (1011)
Q Consensus 553 RPp~R~~~ 560 (1011)
||+++..+
T Consensus 926 R~~~~~~~ 933 (957)
T KOG1895|consen 926 RPPLTAHV 933 (957)
T ss_pred hhHHHHHh
Confidence 99999888
No 4
>PF05918 API5: Apoptosis inhibitory protein 5 (API5); InterPro: IPR008383 This family consists of apoptosis inhibitory protein 5 (API5) sequences from several organisms. Apoptosis or programmed cell death is a physiological form of cell death that occurs in embryonic development and organ formation. It is characterised by biochemical and morphological changes such as DNA fragmentation and cell volume shrinkage. API5 is an anti apoptosis gene located in Homo sapiens chromosome 11, whose expression prevents the programmed cell death that occurs upon the deprivation of growth factors [,].; PDB: 3U0R_A 3V6A_A.
Probab=81.58 E-value=87 Score=38.84 Aligned_cols=28 Identities=14% Similarity=0.387 Sum_probs=22.9
Q ss_pred hHHHHhhhcCCCCCHHHHHHHHhhccCc
Q 001800 497 KSFSRLLGEVPVLPDSVLQLLGNLCSSA 524 (1011)
Q Consensus 497 klf~RLLlElP~Lt~~aL~~Lk~lC~~~ 524 (1011)
..+.||...-|.|-+.+++.+-++|+++
T Consensus 44 q~I~kffk~FP~l~~~Ai~a~~DLcEDe 71 (556)
T PF05918_consen 44 QFIPKFFKHFPDLQEEAINAQLDLCEDE 71 (556)
T ss_dssp HHHHHHHCC-GGGHHHHHHHHHHHHT-S
T ss_pred HHHHHHHhhChhhHHHHHHHHHHHHhcc
Confidence 4678999999999999999999999543
No 5
>PF05918 API5: Apoptosis inhibitory protein 5 (API5); InterPro: IPR008383 This family consists of apoptosis inhibitory protein 5 (API5) sequences from several organisms. Apoptosis or programmed cell death is a physiological form of cell death that occurs in embryonic development and organ formation. It is characterised by biochemical and morphological changes such as DNA fragmentation and cell volume shrinkage. API5 is an anti apoptosis gene located in Homo sapiens chromosome 11, whose expression prevents the programmed cell death that occurs upon the deprivation of growth factors [,].; PDB: 3U0R_A 3V6A_A.
Probab=62.60 E-value=3.3e+02 Score=34.04 Aligned_cols=50 Identities=14% Similarity=0.187 Sum_probs=33.6
Q ss_pred HhcCChhhHHHHHHHHhhhcCCcHHHHHHHHHHHHHHcccc-chhhHHHHHH
Q 001800 550 ILGRPYYRQACLDIALKSAAHSQDEIRAKAIRLVSNKLYQL-SYITENIEQY 600 (1011)
Q Consensus 550 Im~RPp~R~~~L~iLLela~he~eevR~~AIrll~n~Ly~~-~~l~~~Ie~F 600 (1011)
.-.=|..++.+++.++++|..++..||.+||+-+-. ++.. +.+-..|.+-
T Consensus 50 fk~FP~l~~~Ai~a~~DLcEDed~~iR~~aik~lp~-~ck~~~~~v~kvaDv 100 (556)
T PF05918_consen 50 FKHFPDLQEEAINAQLDLCEDEDVQIRKQAIKGLPQ-LCKDNPEHVSKVADV 100 (556)
T ss_dssp HCC-GGGHHHHHHHHHHHHT-SSHHHHHHHHHHGGG-G--T--T-HHHHHHH
T ss_pred HhhChhhHHHHHHHHHHHHhcccHHHHHHHHHhHHH-HHHhHHHHHhHHHHH
Confidence 345578999999999999999999999999997644 4443 3343444333
No 6
>KOG2213 consensus Apoptosis inhibitor 5/fibroblast growth factor 2-interacting factor 2, and related proteins [Signal transduction mechanisms]
Probab=62.46 E-value=70 Score=38.07 Aligned_cols=101 Identities=20% Similarity=0.259 Sum_probs=71.5
Q ss_pred hHHHHhhhcCCCCCHHHHHHHHhhccCcccccCCccccCchhhhhHHHHHHHHHhcC--------ChhhHHH-----HHH
Q 001800 497 KSFSRLLGEVPVLPDSVLQLLGNLCSSAVFDLHGKEVRDGERVTQGLGAVWSLILGR--------PYYRQAC-----LDI 563 (1011)
Q Consensus 497 klf~RLLlElP~Lt~~aL~~Lk~lC~~~~~~~~~k~~~DpeRv~lGl~aLr~LIm~R--------Pp~R~~~-----L~i 563 (1011)
.++.||+---|.|..++++.--++|.++ .+.+--|+.|+|=.+= -++=.+| |..
T Consensus 46 q~ip~~fk~fp~la~~a~da~~d~~ed~-------------d~~ir~qaik~lp~fc~~d~~~rv~d~l~qLLnk~sl~~ 112 (460)
T KOG2213|consen 46 QFIPRFFKHFPSLADEAIDAQLDLCEDD-------------DVGIRRQAIKGLPLFCKGDALSRVNDVLVQLLNKASLTG 112 (460)
T ss_pred HHHHHHHhhCchhhhHHHHhhhcccccc-------------chhhHHHHHhccchhccCchhhhhHHHHHHHHHHHHHHH
Confidence 4667888889999999999999999433 2334445555442221 1122223 344
Q ss_pred HHhhhcCCcHHHHHHHHHHHHHHccccc--hhhHHHHHHHHHHHHHhhc
Q 001800 564 ALKSAAHSQDEIRAKAIRLVSNKLYQLS--YITENIEQYATNMMLSAVN 610 (1011)
Q Consensus 564 LLela~he~eevR~~AIrll~n~Ly~~~--~l~~~Ie~FA~~~L~~l~~ 610 (1011)
|+.-+...++.+|.++++.+..++..++ .+...||+++.+.+....+
T Consensus 113 Lf~~~~~~D~~irek~l~fi~tKl~~l~~e~L~kevE~~iv~eikkal~ 161 (460)
T KOG2213|consen 113 LFGQIEVGDEQIREKVLKFIRTKLITLKGEVLTKEVERHIVDEIKKALE 161 (460)
T ss_pred HHhhhhhhhHHHHHHHHHHHHHHhhcccHHHhhhHHHHHHHHHHHHHHH
Confidence 5554444699999999999999999985 5999999999998876654
No 7
>KOG1248 consensus Uncharacterized conserved protein [Function unknown]
Probab=54.57 E-value=5.1e+02 Score=34.98 Aligned_cols=161 Identities=18% Similarity=0.224 Sum_probs=98.1
Q ss_pred HHHHHHhhhcCCcHHHHHHHHHHHHHHccccchhh-------HHHHHHHHHHHHHhhcccCCccccccccchhhhhcccc
Q 001800 560 CLDIALKSAAHSQDEIRAKAIRLVSNKLYQLSYIT-------ENIEQYATNMMLSAVNQHSSNLECSQSDSADLKAEGEV 632 (1011)
Q Consensus 560 ~L~iLLela~he~eevR~~AIrll~n~Ly~~~~l~-------~~Ie~FA~~~L~~l~~~~~~~~~~~q~~~~~~k~~~E~ 632 (1011)
.+..+|.++.|..+.+|..|.+-++.-|++-+++- ..+-+|-..+|.....
T Consensus 139 ~~~~il~~~~h~~pkvRk~a~~~i~~VL~~p~~~~~~~HpA~~~vak~cl~~~e~~~~---------------------- 196 (1176)
T KOG1248|consen 139 ELFGILAFAAHKKPKVRKAAQRGIAAVLKGPPFAPDAEHPASLSVAKFCLALIESKLG---------------------- 196 (1176)
T ss_pred HHHHHHHHHhcCchHHHHHHHHHHHHHHcCCCCCccccchHHHHHHHHHHHHHHhhhc----------------------
Confidence 44556788899999999999999988888655432 2333333333321110
Q ss_pred CCcccccCCCCcCCCCCcccCcCCCCCCccCCCCCCCHHHHHHHHHHHHHhhcCCcc-cHHHHHHHh----ccCcHHHHH
Q 001800 633 GSQETSISGSQVSEPGTFEMDSVKGGQPISHSLSTISFPEAQRLTSLFFALCTKKPR-LLQLIFDKY----VQAPKSVKQ 707 (1011)
Q Consensus 633 gs~~~~~~~~~~~E~~~~e~~~~~~~~~~~e~~~~~s~~~~kr~L~LylALc~k~p~-LL~~Lf~VY----~~a~~~VKr 707 (1011)
+ . ...++-+-|.|.=-+|..-|. ++..|+++. +..+-.++-
T Consensus 197 -~---------------------------a------~~t~v~~~L~Ll~~~~~~~p~~li~sl~e~lL~i~~~s~v~v~~ 242 (1176)
T KOG1248|consen 197 -S---------------------------A------ENTTVLRSLMLLRDVLSTFPRPLIKSLCEVLLNITTESPVLVLL 242 (1176)
T ss_pred -h---------------------------H------HHHHHHHHHHHHHHhhccCCHHHHHHHHHHHHhhcccchHHHHH
Confidence 0 0 013457778888888888776 666665554 444556777
Q ss_pred HHHhhhHHHHHhhCCCcHHHHHhhcCCCCChHHHHHHHHHHHhcCCC------CCHHHHHHHHHHHhcccCCceeeeccc
Q 001800 708 AFHRHIPILIRALGSSCSELLHIISDPPQGSENLLTLVLQILTQETT------PSSDLIATVKHLYETKLKDATILIPML 781 (1011)
Q Consensus 708 aV~r~I~~lIR~mG~ss~eLL~LIe~cP~GAEtLv~RIL~iLTek~~------PS~eLV~~Vk~Ly~~r~~DVRfLIPIL 781 (1011)
.+...+..+.+.+-. .-++++-+|+|..|-+-.+ ++...+..+...+. ++
T Consensus 243 ~~~q~l~~lf~~~~~-------------~l~a~~~a~lL~al~~l~ps~~D~~~t~~W~~v~~~~~~-----------~l 298 (1176)
T KOG1248|consen 243 EVLQCLHSLFKKHPT-------------ALAAELNARLLTALMTLSPSENDDLLTVAWLKVLNEAHD-----------IL 298 (1176)
T ss_pred HHHHHHHHHHhcCCC-------------cchHHHHHHHHHHHHHhCCCccchHHHHHHHHHHHHHHH-----------HH
Confidence 777777777766522 3466777777777765443 12233333333332 34
Q ss_pred CCCChhhHhhhchhhccCC
Q 001800 782 SSLTKNEVLPIFPRLVDLP 800 (1011)
Q Consensus 782 ~gL~K~EVl~~LPkfV~L~ 800 (1011)
..+..+-.++.+|+++.+-
T Consensus 299 a~~q~~~~~~~~~~~~~~~ 317 (1176)
T KOG1248|consen 299 ATLQEEKALQALPRLFSLF 317 (1176)
T ss_pred HHhCHHHHHHhhhhhhhHH
Confidence 6677777788888777543
No 8
>PF10363 DUF2435: Protein of unknown function (DUF2435)
Probab=52.95 E-value=1.1e+02 Score=29.14 Aligned_cols=65 Identities=18% Similarity=0.168 Sum_probs=49.6
Q ss_pred chhhhhHHHHHHHHHhcCC---hhhHHHHHHHHhhhcCCcHHHHHHHHHHHHHH--ccccchhhHHHHHHH
Q 001800 536 GERVTQGLGAVWSLILGRP---YYRQACLDIALKSAAHSQDEIRAKAIRLVSNK--LYQLSYITENIEQYA 601 (1011)
Q Consensus 536 peRv~lGl~aLr~LIm~RP---p~R~~~L~iLLela~he~eevR~~AIrll~n~--Ly~~~~l~~~Ie~FA 601 (1011)
|-|+ .|+..|+.||..|- ...+..+++++..-.+++..|==.||+.++.- .++...+...++.|+
T Consensus 18 PvRa-~gL~~L~~Li~~~~~~~~~~~~il~l~l~~L~d~DsyVYL~aI~~L~~La~~~p~~vl~~L~~~y~ 87 (92)
T PF10363_consen 18 PVRA-HGLVLLRKLIESKSEPVIDIPKILDLFLSQLKDEDSYVYLNAIKGLAALADRHPDEVLPILLDEYA 87 (92)
T ss_pred chHH-HHHHHHHHHHHcCCcchhhHHHHHHHHHHHcCCCCchHHHHHHHHHHHHHHHChHHHHHHHHHHHh
Confidence 4555 89999999999998 46677899999988999999999999987652 222234555566664
No 9
>PF14676 FANCI_S2: FANCI solenoid 2; PDB: 3S51_A 3S4Z_A 3S4W_A.
Probab=51.70 E-value=2.4e+02 Score=29.42 Aligned_cols=82 Identities=22% Similarity=0.203 Sum_probs=53.2
Q ss_pred HHHHHHHHHHHHHhhccCCCCchHHHHhhhcCCCCCHHHHHHHHhhccCcccccCCccccCchhhhhHHHHHHHHHhcCC
Q 001800 475 AVYEKLLLAVAKSLLDTFPASDKSFSRLLGEVPVLPDSVLQLLGNLCSSAVFDLHGKEVRDGERVTQGLGAVWSLILGRP 554 (1011)
Q Consensus 475 ~~Ye~wLl~LL~~L~~~l~~kDklf~RLLlElP~Lt~~aL~~Lk~lC~~~~~~~~~k~~~DpeRv~lGl~aLr~LIm~RP 554 (1011)
.+|-.+|..++...--..-..-..+..++--++++|.+.-.. =+.+++-|+..++
T Consensus 73 ~~~idlL~~lv~~~p~~vle~~~~l~~~ld~l~~lp~~~a~~-------------------------ll~Al~PLi~~s~ 127 (158)
T PF14676_consen 73 SQYIDLLSELVRKAPLTVLECSSKLKELLDYLSFLPGDVAIG-------------------------LLRALLPLIKFSP 127 (158)
T ss_dssp HHHHHHHHHHHHH-HHHHS-S-HHHHGGGGGTTTS-HHHHHH-------------------------HHHHHHHHHTT-H
T ss_pred hHHHHHHHHHHHHChHHHHHHHHHHHHHHHHHHhCCHHHHHH-------------------------HHHHHHHHHhcCH
Confidence 468777777776542111112244556666666666544332 2344568999999
Q ss_pred hhhHHHHHHHHhhhcCCcHHHHHHHHH
Q 001800 555 YYRQACLDIALKSAAHSQDEIRAKAIR 581 (1011)
Q Consensus 555 p~R~~~L~iLLela~he~eevR~~AIr 581 (1011)
..|+.++-+|-+...+.+.+.|..|+.
T Consensus 128 ~lrd~lilvLRKamf~r~~~~R~~Av~ 154 (158)
T PF14676_consen 128 SLRDSLILVLRKAMFSRELDARQMAVN 154 (158)
T ss_dssp HHHHHHHHHHHHHTT-SSHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHccccHHHHHHHHH
Confidence 999999999999888999999999975
No 10
>PF10508 Proteasom_PSMB: Proteasome non-ATPase 26S subunit; InterPro: IPR019538 The 26S proteasome is an enzymatic complex that degrades ubiquitinated proteins in eukaryotic cells. 26S proteasome non-ATPase regulatory subunit 5 is one of a number of chaperones that are involved in the assembly of the proteasome. The chaperones dissociate before 26S proteasome formation is complete [].; GO: 0044183 protein binding involved in protein folding
Probab=45.44 E-value=6.5e+02 Score=30.72 Aligned_cols=54 Identities=11% Similarity=0.052 Sum_probs=42.8
Q ss_pred CchhhhhHHHHHHHHHhcCChh--hHHHHHHHHhhhcCCcHHHHHHHHHHHHHHcc
Q 001800 535 DGERVTQGLGAVWSLILGRPYY--RQACLDIALKSAAHSQDEIRAKAIRLVSNKLY 588 (1011)
Q Consensus 535 DpeRv~lGl~aLr~LIm~RPp~--R~~~L~iLLela~he~eevR~~AIrll~n~Ly 588 (1011)
+.+.+.+....|+.+.....+. -..+...|...-.|+++.||..|++.+.+-+.
T Consensus 51 ~~e~v~~~~~iL~~~l~~~~~~~l~~~~~~~L~~gL~h~~~~Vr~l~l~~l~~~~~ 106 (503)
T PF10508_consen 51 NREQVELICDILKRLLSALSPDSLLPQYQPFLQRGLTHPSPKVRRLALKQLGRIAR 106 (503)
T ss_pred ChHHHHHHHHHHHHHHhccCHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHhc
Confidence 4677777778888888877774 47788888888889999999999998766333
No 11
>PF02985 HEAT: HEAT repeat; InterPro: IPR000357 The HEAT repeat is a tandemly repeated, 37-47 amino acid long module occurring in a number of cytoplasmic proteins, including the four name-giving proteins huntingtin, elongation factor 3 (EF3), the 65 Kd alpha regulatory subunit of protein phosphatase 2A (PP2A) and the yeast PI3-kinase TOR1 []. Arrays of HEAT repeats consists of 3 to 36 units forming a rod-like helical structure and appear to function as protein-protein interaction surfaces. It has been noted that many HEAT repeat-containing proteins are involved in intracellular transport processes. In the crystal structure of PP2A PR65/A [], the HEAT repeats consist of pairs of antiparallel alpha helices [].; GO: 0005515 protein binding; PDB: 3FGA_A 2PF4_C 2IAE_A 2BKU_D 3EA5_B 3ND2_A 2BPT_A 2NYL_A 2NPP_D 2PKG_B ....
Probab=44.82 E-value=35 Score=25.62 Aligned_cols=25 Identities=24% Similarity=0.288 Sum_probs=20.7
Q ss_pred HHHHHhhhcCCcHHHHHHHHHHHHH
Q 001800 561 LDIALKSAAHSQDEIRAKAIRLVSN 585 (1011)
Q Consensus 561 L~iLLela~he~eevR~~AIrll~n 585 (1011)
+..++++..+++.+||..|++.+.+
T Consensus 2 lp~l~~~l~D~~~~VR~~a~~~l~~ 26 (31)
T PF02985_consen 2 LPILLQLLNDPSPEVRQAAAECLGA 26 (31)
T ss_dssp HHHHHHHHT-SSHHHHHHHHHHHHH
T ss_pred HHHHHHHcCCCCHHHHHHHHHHHHH
Confidence 5678888899999999999998754
No 12
>PF10155 DUF2363: Uncharacterized conserved protein (DUF2363); InterPro: IPR019312 This entry represents a region of 120 amino acids in proteins conserved from plants to humans. Their function is not known.
Probab=43.77 E-value=1.1e+02 Score=30.94 Aligned_cols=83 Identities=19% Similarity=0.334 Sum_probs=56.6
Q ss_pred HHHHHHHhhccCCchhhhhHHHHHHHhhhhccCCCCCCHHHHHHHHHHHhcCCCccHHHHHH----HHHHHHhCC-----
Q 001800 824 PVEVLVAIHDIVPEREGLALKKITDACSACFEQRTVFTQQVLAKALNQMVDQTPLPLLFMRT----VIQAIDAFP----- 894 (1011)
Q Consensus 824 P~ELLVaLH~Id~~kd~I~lK~vi~Ai~lCF~~~~VFt~eVLA~aLqqLve~~pLP~LfMRT----VIqal~~~P----- 894 (1011)
+.|+|+.++..+ ..+...+++ -.++ ..----.++++|.....+|.-|.+. .|+++...+
T Consensus 8 A~~~l~~l~~s~------~~~~yld~l---v~~~---~sl~s~EvVn~L~~~~~~p~efl~~yI~~cI~~ce~~kd~~~q 75 (126)
T PF10155_consen 8 AIEILVKLINSP------NFKEYLDVL---VSMD---MSLHSMEVVNRLTTSFSLPQEFLHMYISNCIKSCESIKDKYMQ 75 (126)
T ss_pred HHHHHHHHcCCc------hHHHHHHHH---HcCC---CchhHHHHHHHHHcCCCCcHHHHHHHHHHHHHHHHhhcccccc
Confidence 457788777764 255555543 1111 1122346788888888999877665 555655433
Q ss_pred -chHHHHHHHHHHHHhhhhccCCcc
Q 001800 895 -TLVDFVMEILSKLVSKQVWRMPKL 918 (1011)
Q Consensus 895 -~L~~FV~nIL~rLI~KqVWk~~~l 918 (1011)
+++..|+-+|+.||++++|..+.+
T Consensus 76 ~R~VRlvcvfl~sLir~~i~~~~~l 100 (126)
T PF10155_consen 76 NRLVRLVCVFLQSLIRNKIIDVEDL 100 (126)
T ss_pred cchhhhHHHHHHHHHHcCCCchHHH
Confidence 699999999999999999987654
No 13
>PF11698 V-ATPase_H_C: V-ATPase subunit H; InterPro: IPR011987 ATPases (or ATP synthases) are membrane-bound enzyme complexes/ion transporters that combine ATP synthesis and/or hydrolysis with the transport of protons across a membrane. ATPases can harness the energy from a proton gradient, using the flux of ions across the membrane via the ATPase proton channel to drive the synthesis of ATP. Some ATPases work in reverse, using the energy from the hydrolysis of ATP to create a proton gradient. There are different types of ATPases, which can differ in function (ATP synthesis and/or hydrolysis), structure (e.g., F-, V- and A-ATPases, which contain rotary motors) and in the type of ions they transport [, ]. The different types include: F-ATPases (F1F0-ATPases), which are found in mitochondria, chloroplasts and bacterial plasma membranes where they are the prime producers of ATP, using the proton gradient generated by oxidative phosphorylation (mitochondria) or photosynthesis (chloroplasts). V-ATPases (V1V0-ATPases), which are primarily found in eukaryotic vacuoles and catalyse ATP hydrolysis to transport solutes and lower pH in organelles. A-ATPases (A1A0-ATPases), which are found in Archaea and function like F-ATPases (though with respect to their structure and some inhibitor responses, A-ATPases are more closely related to the V-ATPases). P-ATPases (E1E2-ATPases), which are found in bacteria and in eukaryotic plasma membranes and organelles, and function to transport a variety of different ions across membranes. E-ATPases, which are cell-surface enzymes that hydrolyse a range of NTPs, including extracellular ATP. V-ATPases (also known as V1V0-ATPase or vacuolar ATPase) (3.6.3.14 from EC) are found in the eukaryotic endomembrane system, and in the plasma membrane of prokaryotes and certain specialised eukaryotic cells. V-ATPases hydrolyse ATP to drive a proton pump, and are involved in a variety of vital intra- and inter-cellular processes such as receptor mediated endocytosis, protein trafficking, active transport of metabolites, homeostasis and neurotransmitter release []. V-ATPases are composed of two linked complexes: the V1 complex (subunits A-H) contains the catalytic core that hydrolyses ATP, while the V0 complex (subunits a, c, c', c'', d) forms the membrane-spanning pore. V-ATPases may have an additional role in membrane fusion through binding to t-SNARE proteins []. This entry represents the C-terminal domain of subunit H (also known as Vma13p) found in the V1 complex of V-ATPases. This subunit has a regulatory function, being responsible for activating ATPase activity and coupling ATPase activity to proton flow []. The yeast enzyme contains five motifs similar to the HEAT or Armadillo repeats seen in the importins, and can be divided into two distinct domains: a large N-terminal domain consisting of stacked alpha helices, and a smaller C-terminal alpha-helical domain with a similar superhelical topology to an armadillo repeat []. More information about this protein can be found at Protein of the Month: ATP Synthases [].; GO: 0016820 hydrolase activity, acting on acid anhydrides, catalyzing transmembrane movement of substances, 0015991 ATP hydrolysis coupled proton transport, 0000221 vacuolar proton-transporting V-type ATPase, V1 domain; PDB: 1HO8_A.
Probab=31.63 E-value=1.4e+02 Score=29.97 Aligned_cols=51 Identities=16% Similarity=0.184 Sum_probs=36.6
Q ss_pred CchhhhhHHHHHHHHHhcCChhhHHH-----HHHHHhhhcCCcHHHHHHHHHHHHH
Q 001800 535 DGERVTQGLGAVWSLILGRPYYRQAC-----LDIALKSAAHSQDEIRAKAIRLVSN 585 (1011)
Q Consensus 535 DpeRv~lGl~aLr~LIm~RPp~R~~~-----L~iLLela~he~eevR~~AIrll~n 585 (1011)
|+....++..-+-.++-.=|.-|..+ -..+.++..|++++||..|+..+-+
T Consensus 57 d~~~laVac~Dig~~vr~~p~gr~ii~~lg~K~~vM~Lm~h~d~eVr~eAL~avQk 112 (119)
T PF11698_consen 57 DPTTLAVACHDIGEFVRHYPNGRNIIEKLGAKERVMELMNHEDPEVRYEALLAVQK 112 (119)
T ss_dssp HHHHHHHHHHHHHHHHHH-GGGHHHHHHHSHHHHHHHHTS-SSHHHHHHHHHHHHH
T ss_pred CcceeehhhcchHHHHHHChhHHHHHHhcChHHHHHHHhcCCCHHHHHHHHHHHHH
Confidence 55555566666777777777766654 5667888899999999999998755
No 14
>cd00020 ARM Armadillo/beta-catenin-like repeats. An approximately 40 amino acid long tandemly repeated sequence motif first identified in the Drosophila segment polarity gene armadillo; these repeats were also found in the mammalian armadillo homolog beta-catenin, the junctional plaque protein plakoglobin, the adenomatous polyposis coli (APC) tumor suppressor protein, and a number of other proteins. ARM has been implicated in mediating protein-protein interactions, but no common features among the target proteins recognized by the ARM repeats have been identified; related to the HEAT domain; three consecutive copies of the repeat are represented by this alignment model.
Probab=30.63 E-value=2.7e+02 Score=25.30 Aligned_cols=55 Identities=16% Similarity=0.039 Sum_probs=38.7
Q ss_pred chhhhhHHHHHHHHHhcCChhhHH-----HHHHHHhhhcCCcHHHHHHHHHHHHHHcccc
Q 001800 536 GERVTQGLGAVWSLILGRPYYRQA-----CLDIALKSAAHSQDEIRAKAIRLVSNKLYQL 590 (1011)
Q Consensus 536 peRv~lGl~aLr~LIm~RPp~R~~-----~L~iLLela~he~eevR~~AIrll~n~Ly~~ 590 (1011)
++-...++.+|..+....|..+.. ++..++++-.+++..+|..|+..+.+-....
T Consensus 21 ~~~~~~a~~~l~~l~~~~~~~~~~~~~~~~i~~l~~~l~~~~~~v~~~a~~~L~~l~~~~ 80 (120)
T cd00020 21 ENVQREAAWALSNLSAGNNDNIQAVVEAGGLPALVQLLKSEDEEVVKAALWALRNLAAGP 80 (120)
T ss_pred HHHHHHHHHHHHHHhcCCHHHHHHHHHCCChHHHHHHHhCCCHHHHHHHHHHHHHHccCc
Confidence 344556677777777665655444 4667788777888999999999988844443
No 15
>PRK09687 putative lyase; Provisional
Probab=30.38 E-value=8.3e+02 Score=27.54 Aligned_cols=73 Identities=21% Similarity=0.185 Sum_probs=47.8
Q ss_pred HHHhhhcCCCCCHHHHHHHHhhccCcccccCCccccCchhhhhHHHHHHHHHhcCCh-hhHHHHHHHHhh-hcCCcHHHH
Q 001800 499 FSRLLGEVPVLPDSVLQLLGNLCSSAVFDLHGKEVRDGERVTQGLGAVWSLILGRPY-YRQACLDIALKS-AAHSQDEIR 576 (1011)
Q Consensus 499 f~RLLlElP~Lt~~aL~~Lk~lC~~~~~~~~~k~~~DpeRv~lGl~aLr~LIm~RPp-~R~~~L~iLLel-a~he~eevR 576 (1011)
..+.|.+++ ++.++..+..+|.++ |+..-..|..+|-.|-. +. .+..++..|..+ ..+++..||
T Consensus 43 A~~aL~~~~--~~~~~~~l~~ll~~~----------d~~vR~~A~~aLg~lg~--~~~~~~~a~~~L~~l~~~D~d~~VR 108 (280)
T PRK09687 43 SIRVLQLRG--GQDVFRLAIELCSSK----------NPIERDIGADILSQLGM--AKRCQDNVFNILNNLALEDKSACVR 108 (280)
T ss_pred HHHHHHhcC--cchHHHHHHHHHhCC----------CHHHHHHHHHHHHhcCC--CccchHHHHHHHHHHHhcCCCHHHH
Confidence 344445554 477888888899432 44444466666666432 22 156788888876 467788999
Q ss_pred HHHHHHHHH
Q 001800 577 AKAIRLVSN 585 (1011)
Q Consensus 577 ~~AIrll~n 585 (1011)
..|+..+.+
T Consensus 109 ~~A~~aLG~ 117 (280)
T PRK09687 109 ASAINATGH 117 (280)
T ss_pred HHHHHHHhc
Confidence 999998755
No 16
>KOG2956 consensus CLIP-associating protein [General function prediction only]
Probab=29.16 E-value=1.2e+03 Score=28.94 Aligned_cols=57 Identities=14% Similarity=0.235 Sum_probs=46.5
Q ss_pred cCCcccHHHHHHHhccCcHHHHHHHHhhhHHHHHhhCCCcHHHHHhhcCCCCChHHHHH
Q 001800 685 TKKPRLLQLIFDKYVQAPKSVKQAFHRHIPILIRALGSSCSELLHIISDPPQGSENLLT 743 (1011)
Q Consensus 685 ~k~p~LL~~Lf~VY~~a~~~VKraV~r~I~~lIR~mG~ss~eLL~LIe~cP~GAEtLv~ 743 (1011)
..-++++.-++++|..++..|++++.=.+..++..+|+ .++...++.-+.+--+|+.
T Consensus 444 ~ll~diaP~~iqay~S~SS~VRKtaVfCLVamv~~vG~--~~mePhL~~Lt~sk~~Llq 500 (516)
T KOG2956|consen 444 NLLPDIAPCVIQAYDSTSSTVRKTAVFCLVAMVNRVGM--EEMEPHLEQLTSSKLNLLQ 500 (516)
T ss_pred HhhhhhhhHHHHHhcCchHHhhhhHHHhHHHHHHHHhH--HhhhhHhhhccHHHHHHHH
Confidence 34578999999999999999999999999999999997 4666666666666556654
No 17
>PF00220 Hormone_4: Neurohypophysial hormones, N-terminal Domain; InterPro: IPR022423 Oxytocin (or ocytocin) and vasopressin [] are small (nine amino acid residues), structurally and functionally related neurohypophysial peptide hormones. Oxytocin causes contraction of the smooth muscle of the uterus and of the mammary gland while vasopressin has a direct antidiuretic action on the kidney and also causes vasoconstriction of the peripheral vessels. Like the majority of active peptides, both hormones are synthesized as larger protein precursors that are enzymatically converted to their mature forms. Peptides belonging to this family are also found in birds, fish, reptiles and amphibians (mesotocin, isotocin, valitocin, glumitocin, aspargtocin, vasotocin, seritocin, asvatocin, phasvatocin), in worms (annetocin), octopi (cephalotocin), locust (locupressin or neuropeptide F1/F2) and in molluscs (conopressins G and S) []. The pattern developed to detect this category of peptides spans their entire sequence and includes four invariant amino acid residues. .; GO: 0005185 neurohypophyseal hormone activity, 0005576 extracellular region
Probab=27.42 E-value=28 Score=20.41 Aligned_cols=8 Identities=38% Similarity=0.604 Sum_probs=6.6
Q ss_pred hhcCCCCC
Q 001800 730 IISDPPQG 737 (1011)
Q Consensus 730 LIe~cP~G 737 (1011)
+|++||.|
T Consensus 2 ~i~nCP~G 9 (9)
T PF00220_consen 2 YIRNCPIG 9 (9)
T ss_pred ccccCCCC
Confidence 57899987
No 18
>PF01602 Adaptin_N: Adaptin N terminal region; InterPro: IPR002553 Proteins synthesized on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment. This traffic is bidirectional, to ensure that proteins required to form vesicles are recycled. Vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transfer []. Clathrin coats contain both clathrin and adaptor complexes that link clathrin to receptors in coated vesicles. Clathrin-associated protein complexes are believed to interact with the cytoplasmic tails of membrane proteins, leading to their selection and concentration. The two major types of clathrin adaptor complexes are the heterotetrameric adaptor protein (AP) complexes, and the monomeric GGA (Golgi-localising, Gamma-adaptin ear domain homology, ARF-binding proteins) adaptors []. All AP complexes are heterotetramers composed of two large subunits (adaptins), a medium subunit (mu) and a small subunit (sigma). Each subunit has a specific function. Adaptin subunits recognise and bind to clathrin through their hinge region (clathrin box), and recruit accessory proteins that modulate AP function through their C-terminal appendage domains. By contrast, GGAs are monomers composed of four domains, which have functions similar to AP subunits: an N-terminal VHS (Vps27p/Hrs/Stam) domain, a GAT (GGA and Tom1) domain, a hinge region, and a C-terminal GAE (gamma-adaptin ear) domain. The GAE domain is similar to the AP gamma-adaptin ear domain, being responsible for the recruitment of accessory proteins that regulate clathrin-mediated endocytosis []. While clathrin mediates endocytic protein transport from ER to Golgi, coatomers (COPI, COPII) primarily mediate intra-Golgi transport, as well as the reverse Golgi to ER transport of dilysine-tagged proteins []. Coatomers reversibly associate with Golgi (non-clathrin-coated) vesicles to mediate protein transport and for budding from Golgi membranes []. Coatomer complexes are hetero-oligomers composed of at least an alpha, beta, beta', gamma, delta, epsilon and zeta subunits. This entry represents the N-terminal domain of various adaptins from different AP clathrin adaptor complexes (including AP1, AP2, AP3 and AP4), and from the beta and gamma subunits of various coatomer (COP) adaptors. This domain has a 2-layer alpha/alpha fold that forms a right-handed superhelix, and is a member of the ARM repeat superfamily []. The N-terminal region of the various AP adaptor proteins share strong sequence identity; by contrast, the C-terminal domains of different adaptins share similar structural folds, but have little sequence identity []. It has been proposed that the N-terminal domain interacts with another uniform component of the coated vesicles. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0006886 intracellular protein transport, 0016192 vesicle-mediated transport, 0030117 membrane coat; PDB: 1W63_C 2JKR_A 2JKT_A 2XA7_A 2VGL_B 3TJZ_E.
Probab=24.99 E-value=6e+02 Score=30.14 Aligned_cols=80 Identities=11% Similarity=0.287 Sum_probs=51.3
Q ss_pred HHHHHHHHHhhcC---CcccHHHHHHHhccCcHHHHHHHHhhhHHHHHhhCCCcHHHHHhhcCCCCChH-HHHHHHHHHH
Q 001800 674 QRLTSLFFALCTK---KPRLLQLIFDKYVQAPKSVKQAFHRHIPILIRALGSSCSELLHIISDPPQGSE-NLLTLVLQIL 749 (1011)
Q Consensus 674 kr~L~LylALc~k---~p~LL~~Lf~VY~~a~~~VKraV~r~I~~lIR~mG~ss~eLL~LIe~cP~GAE-tLv~RIL~iL 749 (1011)
--+++=|.-++.. -+++++.+.+.|...+..+|-.+...+-++...-+.. ... .+...+....
T Consensus 436 ~wilGEy~~~~~~~~~~~~~~~~l~~~~~~~~~~vk~~ilt~~~Kl~~~~~~~-------------~~~~~i~~~~~~~~ 502 (526)
T PF01602_consen 436 IWILGEYGELIENTESAPDILRSLIENFIEESPEVKLQILTALAKLFKRNPEN-------------EVQNEILQFLLSLA 502 (526)
T ss_dssp HHHHHHHCHHHTTTTHHHHHHHHHHHHHTTSHHHHHHHHHHHHHHHHHHSCST-------------THHHHHHHHHHCHH
T ss_pred HhhhcccCCcccccccHHHHHHHHHHhhccccHHHHHHHHHHHHHHHhhCCch-------------hhHHHHHHHHHHHh
Confidence 4457777778877 6668999999999999999999988877776554321 121 3333333333
Q ss_pred hcCCCCCHHHHHHHHHHH
Q 001800 750 TQETTPSSDLIATVKHLY 767 (1011)
Q Consensus 750 Tek~~PS~eLV~~Vk~Ly 767 (1011)
++. -.+.|+-+|.+..+
T Consensus 503 ~~~-s~~~evr~Ra~~y~ 519 (526)
T PF01602_consen 503 TED-SSDPEVRDRAREYL 519 (526)
T ss_dssp HHS--SSHHHHHHHHHHH
T ss_pred ccC-CCCHHHHHHHHHHH
Confidence 422 24677777766543
No 19
>COG5240 SEC21 Vesicle coat complex COPI, gamma subunit [Intracellular trafficking and secretion]
Probab=24.39 E-value=4.7e+02 Score=33.10 Aligned_cols=77 Identities=18% Similarity=0.180 Sum_probs=50.2
Q ss_pred cHHHHHHHhc-cCcHHHHHHHHhhhHHHHHhhCCC----cHHHHHhhcCCCCChHHHHHHHHHHHhcCCCCCHHHHHHHH
Q 001800 690 LLQLIFDKYV-QAPKSVKQAFHRHIPILIRALGSS----CSELLHIISDPPQGSENLLTLVLQILTQETTPSSDLIATVK 764 (1011)
Q Consensus 690 LL~~Lf~VY~-~a~~~VKraV~r~I~~lIR~mG~s----s~eLL~LIe~cP~GAEtLv~RIL~iLTek~~PS~eLV~~Vk 764 (1011)
.|.-|-.+.. +..=..|+.+...|--.|.-...+ -++|++.||+| .--.+..|||+||-+.+|-.++=-.-|+
T Consensus 413 ~l~FL~~~L~~eGg~eFK~~~Vdaisd~~~~~p~skEraLe~LC~fIEDc--ey~~I~vrIL~iLG~EgP~a~~P~~yvr 490 (898)
T COG5240 413 YLDFLGSSLLQEGGLEFKKYMVDAISDAMENDPDSKERALEVLCTFIEDC--EYHQITVRILGILGREGPRAKTPGKYVR 490 (898)
T ss_pred HHHHHHHHHHhcccchHHHHHHHHHHHHHhhCchHHHHHHHHHHHHHhhc--chhHHHHHHHHHhcccCCCCCCcchHHH
Confidence 5666665554 445588998888777666665443 24677888888 3346889999999998863332223355
Q ss_pred HHHh
Q 001800 765 HLYE 768 (1011)
Q Consensus 765 ~Ly~ 768 (1011)
.+|.
T Consensus 491 hIyN 494 (898)
T COG5240 491 HIYN 494 (898)
T ss_pred HHHH
Confidence 5554
No 20
>KOG1078 consensus Vesicle coat complex COPI, gamma subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=23.63 E-value=9.5e+02 Score=31.42 Aligned_cols=196 Identities=15% Similarity=0.183 Sum_probs=0.0
Q ss_pred hHHHHhhhcCCCCCHHHHHHHHhhccCcccccCCccccCchhhhhHHHHHHHHHhcCChhhHHHHHHHHhhhcCCcHHHH
Q 001800 497 KSFSRLLGEVPVLPDSVLQLLGNLCSSAVFDLHGKEVRDGERVTQGLGAVWSLILGRPYYRQACLDIALKSAAHSQDEIR 576 (1011)
Q Consensus 497 klf~RLLlElP~Lt~~aL~~Lk~lC~~~~~~~~~k~~~DpeRv~lGl~aLr~LIm~RPp~R~~~L~iLLela~he~eevR 576 (1011)
+....|-...+..=..++..|+.+|++. ...--.-++.+|-.+.|.+|-.=..|--=|..+-...+..+-
T Consensus 267 rai~~l~~~~~r~l~pavs~Lq~flssp----------~~~lRfaAvRtLnkvAm~~P~~v~~cN~elE~lItd~NrsIa 336 (865)
T KOG1078|consen 267 RAIVSLPNTNSRELAPAVSVLQLFLSSP----------KVALRFAAVRTLNKVAMKHPQAVTVCNLDLESLITDSNRSIA 336 (865)
T ss_pred HHHhhccccCHhhcchHHHHHHHHhcCc----------HHHHHHHHHHHHHHHHHhCCccccccchhHHhhhcccccchh
Q ss_pred HHHHHHHHHHccccch--hhHHHHHHHHHHHHHhhcccCCccccccccchhhhhccccCCcccccCCCCcCCCCCcccCc
Q 001800 577 AKAIRLVSNKLYQLSY--ITENIEQYATNMMLSAVNQHSSNLECSQSDSADLKAEGEVGSQETSISGSQVSEPGTFEMDS 654 (1011)
Q Consensus 577 ~~AIrll~n~Ly~~~~--l~~~Ie~FA~~~L~~l~~~~~~~~~~~q~~~~~~k~~~E~gs~~~~~~~~~~~E~~~~e~~~ 654 (1011)
.-||-++-|---...- |-..|--|+-+.
T Consensus 337 t~AITtLLKTG~e~sv~rLm~qI~~fv~di-------------------------------------------------- 366 (865)
T KOG1078|consen 337 TLAITTLLKTGTESSVDRLMKQISSFVSDI-------------------------------------------------- 366 (865)
T ss_pred HHHHHHHHHhcchhHHHHHHHHHHHHHHhc--------------------------------------------------
Q ss_pred CCCCCCccCCCCCCCHHHHHHHHHHHHHhhcCCcc----cHHHHHHHhccCcH-HHHHHHHhhhHHHHHhhCCC----cH
Q 001800 655 VKGGQPISHSLSTISFPEAQRLTSLFFALCTKKPR----LLQLIFDKYVQAPK-SVKQAFHRHIPILIRALGSS----CS 725 (1011)
Q Consensus 655 ~~~~~~~~e~~~~~s~~~~kr~L~LylALc~k~p~----LL~~Lf~VY~~a~~-~VKraV~r~I~~lIR~mG~s----s~ 725 (1011)
+.+-..+..+.+. |||.+-|. ++.-|..+-.+-.. +.|+++...|-..|+..-.+ -.
T Consensus 367 -------sDeFKivvvdai~-------sLc~~fp~k~~~~m~FL~~~Lr~eGg~e~K~aivd~Ii~iie~~pdsKe~~L~ 432 (865)
T KOG1078|consen 367 -------SDEFKIVVVDAIR-------SLCLKFPRKHTVMMNFLSNMLREEGGFEFKRAIVDAIIDIIEENPDSKERGLE 432 (865)
T ss_pred -------cccceEEeHHHHH-------HHHhhccHHHHHHHHHHHHHHHhccCchHHHHHHHHHHHHHHhCcchhhHHHH
Q ss_pred HHHHhhcCCCCChHHHHHHHHHHHhcCCCCCHHHHHHHHHHHh
Q 001800 726 ELLHIISDPPQGSENLLTLVLQILTQETTPSSDLIATVKHLYE 768 (1011)
Q Consensus 726 eLL~LIe~cP~GAEtLv~RIL~iLTek~~PS~eLV~~Vk~Ly~ 768 (1011)
+|++.|++| ---.+..||||+|-..++-++.==.-|+..|.
T Consensus 433 ~LCefIEDc--e~~~i~~rILhlLG~EgP~a~~Pskyir~iyN 473 (865)
T KOG1078|consen 433 HLCEFIEDC--EFTQIAVRILHLLGKEGPKAPNPSKYIRFIYN 473 (865)
T ss_pred HHHHHHHhc--cchHHHHHHHHHHhccCCCCCCcchhhHHHhh
No 21
>cd08317 Death_ank Death domain associated with Ankyrins. Death Domain (DD) associated with Ankyrins. Ankyrins are modular proteins comprising three conserved domains, an N-terminal membrane-binding domain containing ANK repeats, a spectrin-binding domain and a C-terminal DD. Ankyrins function as adaptor proteins and they interact, through ANK repeats, with structurally diverse membrane proteins, including ion channels/pumps, calcium release channels, and cell adhesion molecules. They play critical roles in the proper expression and membrane localization of these proteins. In mammals, this family includes ankyrin-R for restricted (or ANK1), ankyrin-B for broadly expressed (or ANK2) and ankyrin-G for general or giant (or ANK3). They are expressed in different combinations in many tissues and play non-overlapping functions. In general, DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-associati
Probab=22.82 E-value=2.5e+02 Score=25.86 Aligned_cols=65 Identities=17% Similarity=0.177 Sum_probs=45.0
Q ss_pred HHHHHhhhHHHHHhhCCCcHHHHHhhcCCCCChHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhcc
Q 001800 706 KQAFHRHIPILIRALGSSCSELLHIISDPPQGSENLLTLVLQILTQETTPSSDLIATVKHLYETK 770 (1011)
Q Consensus 706 KraV~r~I~~lIR~mG~ss~eLL~LIe~cP~GAEtLv~RIL~iLTek~~PS~eLV~~Vk~Ly~~r 770 (1011)
-+.+-.--..+.|.||.+..++-.+-.++|.....=+..+|+...++.-.....-..+..|..-.
T Consensus 11 a~~lG~dW~~LAr~Lg~~~~dI~~i~~~~~~~~~eq~~~mL~~W~~r~g~~at~~~L~~AL~~i~ 75 (84)
T cd08317 11 SNLLGSDWPQLARELGVSETDIDLIKAENPNSLAQQAQAMLKLWLEREGKKATGNSLEKALKKIG 75 (84)
T ss_pred HHHHhhHHHHHHHHcCCCHHHHHHHHHHCCCCHHHHHHHHHHHHHHhcCCcchHHHHHHHHHHcC
Confidence 34445556788999999988998888899988777777888888776543443333444444433
No 22
>PF14500 MMS19_N: Dos2-interacting transcription regulator of RNA-Pol-II
Probab=21.46 E-value=1.2e+03 Score=26.25 Aligned_cols=57 Identities=18% Similarity=0.292 Sum_probs=40.1
Q ss_pred HHhhhhccCCCCCCHHHHHHHHHHHhcCCCc-cHHHHHHHHHHHHhCC--chHHHHHHHH
Q 001800 848 DACSACFEQRTVFTQQVLAKALNQMVDQTPL-PLLFMRTVIQAIDAFP--TLVDFVMEIL 904 (1011)
Q Consensus 848 ~Ai~lCF~~~~VFt~eVLA~aLqqLve~~pL-P~LfMRTVIqal~~~P--~L~~FV~nIL 904 (1011)
.++..||.....|.+..+--.+++|-...+. =.=-++|+...+..|+ .+..|+..|.
T Consensus 193 ~~L~~cl~s~~~fa~~~~p~LleKL~s~~~~~K~D~L~tL~~c~~~y~~~~~~~~~~~iw 252 (262)
T PF14500_consen 193 RALRNCLSSTPLFAPFAFPLLLEKLDSTSPSVKLDSLQTLKACIENYGADSLSPHWSTIW 252 (262)
T ss_pred HHHHHHhcCcHhhHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHHHHCCHHHHHHHHHHHH
Confidence 3677899999999999999999999533222 1335677777778887 3555555443
No 23
>COG5240 SEC21 Vesicle coat complex COPI, gamma subunit [Intracellular trafficking and secretion]
Probab=20.95 E-value=1.6e+03 Score=28.77 Aligned_cols=82 Identities=17% Similarity=0.207 Sum_probs=49.9
Q ss_pred HHHHHHHHHHHHHhhccC-CCC------chHHHHhhhcCCCCCHHHHHHHHhhccCcccccCCccccCchhhhhHHHHHH
Q 001800 475 AVYEKLLLAVAKSLLDTF-PAS------DKSFSRLLGEVPVLPDSVLQLLGNLCSSAVFDLHGKEVRDGERVTQGLGAVW 547 (1011)
Q Consensus 475 ~~Ye~wLl~LL~~L~~~l-~~k------Dklf~RLLlElP~Lt~~aL~~Lk~lC~~~~~~~~~k~~~DpeRv~lGl~aLr 547 (1011)
+.|.+.+.+++.-|-... .++ +.+..|+++|=-.+-..++..|-.+...-
T Consensus 462 cey~~I~vrIL~iLG~EgP~a~~P~~yvrhIyNR~iLEN~ivRsaAv~aLskf~ln~----------------------- 518 (898)
T COG5240 462 CEYHQITVRILGILGREGPRAKTPGKYVRHIYNRLILENNIVRSAAVQALSKFALNI----------------------- 518 (898)
T ss_pred cchhHHHHHHHHHhcccCCCCCCcchHHHHHHHHHHHhhhHHHHHHHHHHHHhccCc-----------------------
Confidence 468888888888773322 222 46777888877666666666655554211
Q ss_pred HHHhcCChhhHHHHHHHHhhhcCCcHHHHHHHHHHH
Q 001800 548 SLILGRPYYRQACLDIALKSAAHSQDEIRAKAIRLV 583 (1011)
Q Consensus 548 ~LIm~RPp~R~~~L~iLLela~he~eevR~~AIrll 583 (1011)
--|.....+.++|-.|....++++|..|--.+
T Consensus 519 ----~d~~~~~sv~~~lkRclnD~DdeVRdrAsf~l 550 (898)
T COG5240 519 ----SDVVSPQSVENALKRCLNDQDDEVRDRASFLL 550 (898)
T ss_pred ----cccccHHHHHHHHHHHhhcccHHHHHHHHHHH
Confidence 11123333445555677778888888886544
No 24
>KOG2038 consensus CAATT-binding transcription factor/60S ribosomal subunit biogenesis protein [Translation, ribosomal structure and biogenesis; Transcription]
Probab=20.73 E-value=6.9e+02 Score=32.61 Aligned_cols=101 Identities=18% Similarity=0.267 Sum_probs=68.2
Q ss_pred HHHHHHHHH-HhhccCCCCchHHHHhhhcCCCCCHHHHHHHHhhccCcccccCCccccCchhhhhHHHHHHHHHh-----
Q 001800 478 EKLLLAVAK-SLLDTFPASDKSFSRLLGEVPVLPDSVLQLLGNLCSSAVFDLHGKEVRDGERVTQGLGAVWSLIL----- 551 (1011)
Q Consensus 478 e~wLl~LL~-~L~~~l~~kDklf~RLLlElP~Lt~~aL~~Lk~lC~~~~~~~~~k~~~DpeRv~lGl~aLr~LIm----- 551 (1011)
-+|+..++. |. +..+...++=++-|-|.=+-..++.|-.+|. +.+ ...+..|+.+|++|.+
T Consensus 198 ~k~l~siiSsGT---~~DkitA~~LlvqesPvh~lk~lEtLls~c~-----KKs-----k~~a~~~l~~LkdlfI~~LLP 264 (988)
T KOG2038|consen 198 AKWLYSIISSGT---LTDKITAMTLLVQESPVHNLKSLETLLSSCK-----KKS-----KRDALQALPALKDLFINGLLP 264 (988)
T ss_pred HHHHHHHHhcCc---chhhhHHHHHhhcccchhHHHHHHHHHHHHh-----hhh-----HHHHHHHHHHHHHHHHhccCc
Confidence 356655554 21 1123467888888899888888998999993 112 3456678888877754
Q ss_pred --------cCChhh------------------------HHHHHHHHhhhcCCcHHHHHHHHHHHHHHccccc
Q 001800 552 --------GRPYYR------------------------QACLDIALKSAAHSQDEIRAKAIRLVSNKLYQLS 591 (1011)
Q Consensus 552 --------~RPp~R------------------------~~~L~iLLela~he~eevR~~AIrll~n~Ly~~~ 591 (1011)
.||-.. ..++++|-.++...-.+++.+|++++..-|...|
T Consensus 265 dRKLk~f~qrp~~~l~~~~~~~k~Ll~WyfE~~LK~ly~rfievLe~lS~D~L~~vk~raL~ti~~lL~~kP 336 (988)
T KOG2038|consen 265 DRKLKYFSQRPLLELTNKRLRDKILLMWYFEHELKILYFRFIEVLEELSKDPLEEVKKRALKTIYDLLTNKP 336 (988)
T ss_pred chhhHHHhhChhhhccccccccceehHHHHHHHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHhCCc
Confidence 244321 1256777778777889999999999888777765
No 25
>cd08819 CARD_MDA5_2 Caspase activation and recruitment domain found in MDA5, second repeat. Caspase activation and recruitment domain (CARD) found in MDA5 (melanoma-differentiation-associated gene 5), second repeat. MDA5, also known as IFIH1, contains two N-terminal CARD domains and a C-terminal RNA helicase domain. MDA5 is a cytoplasmic DEAD box RNA helicase that plays an important role in host antiviral response by sensing incoming viral RNA. Upon activation, the signal is transferred to downstream pathways via the adaptor molecule IPS-1 (MAVS, VISA, CARDIF), leading to the induction of type I interferons. Although very similar in sequence, MDA5 recognizes different sets of viruses compared to RIG-I, a related RNA helicase. MDA5 associates with IPS-1 through a CARD-CARD interaction. In general, CARDs are death domains (DDs) found associated with caspases. They are known to be important in the signaling pathways for apoptosis, inflammation, and host-defense mechanisms. DDs are protei
Probab=20.26 E-value=3.8e+02 Score=25.85 Aligned_cols=64 Identities=25% Similarity=0.418 Sum_probs=46.7
Q ss_pred HHHHhhhhccCCCCCCHHHHHHHHHHHhcCCCccHHHHHHHHHHHHhCCchHHHHHHHHHHHHhhhhccCCcchHHHHHH
Q 001800 846 ITDACSACFEQRTVFTQQVLAKALNQMVDQTPLPLLFMRTVIQAIDAFPTLVDFVMEILSKLVSKQVWRMPKLWVGFLKC 925 (1011)
Q Consensus 846 vi~Ai~lCF~~~~VFt~eVLA~aLqqLve~~pLP~LfMRTVIqal~~~P~L~~FV~nIL~rLI~KqVWk~~~lW~GFikC 925 (1011)
+-+.++-|++.. +||.+ |+--|+|.+-...-..=+-.+|.+|. +.|++..-|+-|
T Consensus 21 ~~~v~d~ll~~~-ilT~~-------------------d~e~I~aa~~~~g~~~~ar~LL~~L~-----rg~~aF~~Fl~a 75 (88)
T cd08819 21 TRDVCDKCLEQG-LLTEE-------------------DRNRIEAATENHGNESGARELLKRIV-----QKEGWFSKFLQA 75 (88)
T ss_pred HHHHHHHHHhcC-CCCHH-------------------HHHHHHHhccccCcHHHHHHHHHHhc-----cCCcHHHHHHHH
Confidence 445567788765 99988 67777776555555666667777776 456889999999
Q ss_pred HhhhCCCch
Q 001800 926 VSQTRPHSF 934 (1011)
Q Consensus 926 a~~~kP~Sf 934 (1011)
.+.++.+..
T Consensus 76 LreT~~~~L 84 (88)
T cd08819 76 LRETEHHEL 84 (88)
T ss_pred HHHcCchhh
Confidence 999987654
No 26
>PF01602 Adaptin_N: Adaptin N terminal region; InterPro: IPR002553 Proteins synthesized on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment. This traffic is bidirectional, to ensure that proteins required to form vesicles are recycled. Vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transfer []. Clathrin coats contain both clathrin and adaptor complexes that link clathrin to receptors in coated vesicles. Clathrin-associated protein complexes are believed to interact with the cytoplasmic tails of membrane proteins, leading to their selection and concentration. The two major types of clathrin adaptor complexes are the heterotetrameric adaptor protein (AP) complexes, and the monomeric GGA (Golgi-localising, Gamma-adaptin ear domain homology, ARF-binding proteins) adaptors []. All AP complexes are heterotetramers composed of two large subunits (adaptins), a medium subunit (mu) and a small subunit (sigma). Each subunit has a specific function. Adaptin subunits recognise and bind to clathrin through their hinge region (clathrin box), and recruit accessory proteins that modulate AP function through their C-terminal appendage domains. By contrast, GGAs are monomers composed of four domains, which have functions similar to AP subunits: an N-terminal VHS (Vps27p/Hrs/Stam) domain, a GAT (GGA and Tom1) domain, a hinge region, and a C-terminal GAE (gamma-adaptin ear) domain. The GAE domain is similar to the AP gamma-adaptin ear domain, being responsible for the recruitment of accessory proteins that regulate clathrin-mediated endocytosis []. While clathrin mediates endocytic protein transport from ER to Golgi, coatomers (COPI, COPII) primarily mediate intra-Golgi transport, as well as the reverse Golgi to ER transport of dilysine-tagged proteins []. Coatomers reversibly associate with Golgi (non-clathrin-coated) vesicles to mediate protein transport and for budding from Golgi membranes []. Coatomer complexes are hetero-oligomers composed of at least an alpha, beta, beta', gamma, delta, epsilon and zeta subunits. This entry represents the N-terminal domain of various adaptins from different AP clathrin adaptor complexes (including AP1, AP2, AP3 and AP4), and from the beta and gamma subunits of various coatomer (COP) adaptors. This domain has a 2-layer alpha/alpha fold that forms a right-handed superhelix, and is a member of the ARM repeat superfamily []. The N-terminal region of the various AP adaptor proteins share strong sequence identity; by contrast, the C-terminal domains of different adaptins share similar structural folds, but have little sequence identity []. It has been proposed that the N-terminal domain interacts with another uniform component of the coated vesicles. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0006886 intracellular protein transport, 0016192 vesicle-mediated transport, 0030117 membrane coat; PDB: 1W63_C 2JKR_A 2JKT_A 2XA7_A 2VGL_B 3TJZ_E.
Probab=20.06 E-value=1.2e+03 Score=27.53 Aligned_cols=95 Identities=14% Similarity=0.170 Sum_probs=53.7
Q ss_pred hHHHHhhhcCCCCCHHHHHHHHhhccCcccccCCccccCchhhhhHHHHHHHHHhcCCh--hhHHHHHHHHhhhcCCcHH
Q 001800 497 KSFSRLLGEVPVLPDSVLQLLGNLCSSAVFDLHGKEVRDGERVTQGLGAVWSLILGRPY--YRQACLDIALKSAAHSQDE 574 (1011)
Q Consensus 497 klf~RLLlElP~Lt~~aL~~Lk~lC~~~~~~~~~k~~~DpeRv~lGl~aLr~LIm~RPp--~R~~~L~iLLela~he~ee 574 (1011)
..+.+++..-|.+-..++..|-.+... ..+++-....++.+-+..-.=+. .-..+++.+.+....+.+.
T Consensus 399 ~~i~~ll~~~~~~~~~~l~~L~~~l~~---------~~~~~~~~~~~wilGEy~~~~~~~~~~~~~~~~l~~~~~~~~~~ 469 (526)
T PF01602_consen 399 NVIRDLLSNNPELREKILKKLIELLED---------ISSPEALAAAIWILGEYGELIENTESAPDILRSLIENFIEESPE 469 (526)
T ss_dssp HHHHHHHHHSTTTHHHHHHHHHHHHTS---------SSSHHHHHHHHHHHHHHCHHHTTTTHHHHHHHHHHHHHTTSHHH
T ss_pred HHHHHHhhcChhhhHHHHHHHHHHHHH---------hhHHHHHHHHHhhhcccCCcccccccHHHHHHHHHHhhccccHH
Confidence 456667777777777777766544421 13444444555555444333333 3445666666665667777
Q ss_pred HHHHHHHHHHHHcccc-c--hhhHHHHHHH
Q 001800 575 IRAKAIRLVSNKLYQL-S--YITENIEQYA 601 (1011)
Q Consensus 575 vR~~AIrll~n~Ly~~-~--~l~~~Ie~FA 601 (1011)
+|...+..++| ++.. + ...+.|.+|.
T Consensus 470 vk~~ilt~~~K-l~~~~~~~~~~~~i~~~~ 498 (526)
T PF01602_consen 470 VKLQILTALAK-LFKRNPENEVQNEILQFL 498 (526)
T ss_dssp HHHHHHHHHHH-HHHHSCSTTHHHHHHHHH
T ss_pred HHHHHHHHHHH-HHhhCCchhhHHHHHHHH
Confidence 88888887766 4433 3 2444554443
Done!