Query psy5134
Match_columns 648
No_of_seqs 421 out of 1409
Neff 4.9
Searched_HMMs 46136
Date Fri Aug 16 18:12:36 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy5134.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/5134hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PLN03093 Protein SENSITIVITY T 100.0 3.4E-50 7.3E-55 409.1 17.3 207 139-346 55-269 (273)
2 KOG3131|consensus 100.0 2E-44 4.4E-49 359.4 18.5 242 118-369 19-270 (281)
3 PTZ00119 40S ribosomal protein 100.0 1.7E-34 3.7E-39 292.5 11.0 146 395-546 44-192 (302)
4 PRK05626 rpsO 30S ribosomal pr 100.0 2.7E-30 5.8E-35 226.2 11.0 86 459-544 3-88 (89)
5 TIGR00952 S15_bact ribosomal p 100.0 3.1E-30 6.7E-35 224.6 11.3 84 461-544 2-85 (86)
6 PF00312 Ribosomal_S15: Riboso 99.9 5E-27 1.1E-31 203.5 11.4 83 462-544 1-83 (83)
7 cd00353 Ribosomal_S15p_S13e Ri 99.9 1E-26 2.2E-31 200.3 9.9 79 464-542 2-80 (80)
8 CHL00027 rps15 ribosomal prote 99.9 2E-26 4.3E-31 201.7 9.6 74 473-546 14-87 (90)
9 COG0184 RpsO Ribosomal protein 99.9 8.8E-25 1.9E-29 191.2 9.8 85 460-544 4-88 (89)
10 PLN03093 Protein SENSITIVITY T 99.8 5.4E-22 1.2E-26 203.1 6.0 76 3-79 155-239 (273)
11 KOG2815|consensus 99.8 1.9E-20 4.1E-25 190.4 9.3 226 393-621 22-247 (256)
12 PF07985 SRR1: SRR1; InterPro 99.7 2.1E-18 4.5E-23 139.4 6.8 53 182-234 1-56 (56)
13 KOG3131|consensus 99.7 3.6E-17 7.9E-22 164.7 4.4 73 3-77 140-212 (281)
14 KOG2815|consensus 99.6 1.8E-15 3.8E-20 154.4 5.8 112 436-547 140-252 (256)
15 cd00677 S15_NS1_EPRS_RNA-bind 99.4 3.3E-13 7.2E-18 104.8 5.8 46 482-527 1-46 (46)
16 PRK08561 rps15p 30S ribosomal 98.8 3.6E-09 7.8E-14 101.0 5.8 46 485-530 88-133 (151)
17 PTZ00072 40S ribosomal protein 94.3 0.076 1.7E-06 51.2 5.3 45 485-529 85-129 (148)
18 PF04558 tRNA_synt_1c_R1: Glut 49.5 17 0.00038 35.9 3.5 25 604-628 106-130 (164)
19 KOG0400|consensus 42.0 15 0.00032 35.4 1.6 45 485-529 88-132 (151)
20 PF06574 FAD_syn: FAD syntheta 38.8 1E+02 0.0022 30.0 6.9 100 180-294 3-122 (157)
21 PF08317 Spc7: Spc7 kinetochor 37.3 2.7E+02 0.0058 30.2 10.5 65 569-633 203-291 (325)
22 PF00435 Spectrin: Spectrin re 36.4 1.4E+02 0.0031 24.8 6.7 47 587-633 2-49 (105)
23 PF04695 Pex14_N: Peroxisomal 36.1 27 0.00059 33.2 2.4 19 609-631 33-51 (136)
24 TIGR00379 cobB cobyrinic acid 34.7 69 0.0015 36.2 5.7 80 215-295 248-338 (449)
25 KOG0687|consensus 33.6 4.7E+02 0.01 29.4 11.3 94 517-633 39-133 (393)
26 KOG4715|consensus 32.7 3.9E+02 0.0084 29.6 10.4 103 531-639 195-303 (410)
27 KOG2019|consensus 31.2 90 0.002 37.8 5.9 29 489-517 409-437 (998)
28 PF10587 EF-1_beta_acid: Eukar 30.2 42 0.0009 24.3 1.9 17 567-583 11-27 (28)
29 KOG2072|consensus 27.7 1E+03 0.023 29.7 13.7 135 482-626 669-824 (988)
30 cd07675 F-BAR_FNBP1L The F-BAR 26.4 4.8E+02 0.01 27.8 9.8 78 568-646 113-202 (252)
31 KOG4409|consensus 25.5 53 0.0011 36.5 2.7 30 44-77 157-186 (365)
32 KOG4484|consensus 25.1 6.2E+02 0.013 25.7 9.6 60 572-633 52-124 (199)
33 PRK01077 cobyrinic acid a,c-di 23.6 1.5E+02 0.0033 33.5 6.0 78 215-293 249-337 (451)
34 PF05529 Bap31: B-cell recepto 23.3 1.2E+02 0.0026 30.2 4.5 17 616-632 173-189 (192)
35 PF07888 CALCOCO1: Calcium bin 21.4 1.4E+03 0.03 27.3 13.0 108 475-589 275-385 (546)
36 PF12128 DUF3584: Protein of u 20.7 1E+03 0.022 30.6 12.9 62 568-633 725-786 (1201)
37 KOG0250|consensus 20.6 1.9E+03 0.041 28.3 15.3 64 568-632 288-351 (1074)
38 PF07946 DUF1682: Protein of u 20.1 5.9E+02 0.013 27.7 9.3 56 567-626 258-313 (321)
No 1
>PLN03093 Protein SENSITIVITY TO RED LIGHT REDUCED 1; Provisional
Probab=100.00 E-value=3.4e-50 Score=409.11 Aligned_cols=207 Identities=23% Similarity=0.459 Sum_probs=183.3
Q ss_pred HHHHHHHHHHHHHccChHHHHHHHHHHH--hhhhcccCCCCCCcceEEEEecCCCCCChhhHHHHHHHHHHHHHcC-C-c
Q psy5134 139 SIFRRIESVKEELGSSDYYLQLINLISK--SLNLSSANSTTQGINQIICYGIGNFTDSIAAKYQFVLLLLLKIEYD-C-E 214 (648)
Q Consensus 139 sl~~~l~~~~~~l~~S~f~~~l~e~L~~--~l~~l~~~~~~~~i~~IVCLGLGSfs~s~~AryQLAlLL~L~e~l~-i-~ 214 (648)
.++++|+.++++++.|.||+.+.++++. .++.+....++....+|||||||||+.+.+|||||||+++|++.|+ + +
T Consensus 55 kL~~ki~~~~e~ve~S~F~~~l~~q~~~~~~~d~~~~~~gs~~~~~iVclGLGsf~~s~~AR~QLAflLlL~~~~~~i~~ 134 (273)
T PLN03093 55 KLIQKMEICIKKVESSQFYQAFLEQVKSPEVLDSFHLVLGSELKMQMVIYGIGSIESYETPRFQLSLAILMKREFDWIGD 134 (273)
T ss_pred HHHHHHHHHHHHHHhhHHHHHHHHHhcchHHHHHHHhhccccccceEEEEeecCccccccHHHHHHHHHHHHHHhCCccc
Confidence 5999999999999999999999999884 2333222223334689999999999999999999999999999997 3 7
Q ss_pred EEEEcCcCCHHHHHHHHHcCceEeecCcccccccCCCceEEEccCCCHHHHHHHHHhccCcCCCCcEEEEecCcchhhcc
Q psy5134 215 ILIYDPIFNELELELIEIFKLELIIQNEECKHTITHAKTLVYMPRCPIQLINNILYSNWTRENLSNLILLSNSISTVVDS 294 (648)
Q Consensus 215 v~iyDPvFt~~D~~~L~~LG~~Vl~ene~g~~~~~~~~TLfymPHcp~~Ly~nlL~aNws~~~L~~~iliGNsf~~y~~~ 294 (648)
|++|||||++.|+++|++||++|+++|++|++.++. ||||||||||+.||+|+||+||++++|+++|||||||++|.++
T Consensus 135 v~vYDPVFs~~e~~~Le~LG~~Vls~neegkr~a~~-pTLFYMPHCp~~LyeNLL~aNWs~e~L~~ivliGNSFe~y~~~ 213 (273)
T PLN03093 135 IEVFDPVLSATESRVLESLGCSVLSVNEQGRREATK-PTLFFMPHCEAELYNNLLQANWRMERLNHIALFGNSFEMYEEQ 213 (273)
T ss_pred EEEECCCCCHHHHHHHHHcCCeeccccccccccCCC-CeEEEeCCCCHHHHHHHHHHhCCHHHcCCEEEEeCCHHHHHHH
Confidence 999999999999999999999999999999999975 9999999999999999999999999999999999999999986
Q ss_pred cc---hhHhhhchhHHHHHhhhceeeccCC-CCCcccccccceeEeeCCCccCcCc
Q psy5134 295 NT---DAFLKSNLQFLFHIKEFLEEVPVVN-NFKFNDIFNDTSLHCFLPTKLNSIE 346 (648)
Q Consensus 295 ~~---~r~l~~~~~~I~~i~~~~~E~~lp~-~~~~~~AFNDtSih~Fp~~~l~~l~ 346 (648)
+. ++....+..||.++.++++|+++.+ +++|.+||||||||+||+..-..||
T Consensus 214 ~~~~~~~~~~~~~~hIla~~~~~~E~~l~~~~dd~~~~FnD~S~H~F~~~~~~~l~ 269 (273)
T PLN03093 214 VSEFFNSEVVDSTKHILAARKFTSEFAIKTVSDDYFAAFHDSSWHFFSPGIDTELP 269 (273)
T ss_pred HHHhcCcccccchHHHHHHHHHhhhheeccCCcchhhhhcccceeecCCccchhhh
Confidence 62 3445567899999999999999985 5589999999999999987665554
No 2
>KOG3131|consensus
Probab=100.00 E-value=2e-44 Score=359.41 Aligned_cols=242 Identities=24% Similarity=0.402 Sum_probs=209.7
Q ss_pred cceeccccCCCC-cccccccc----hHHHHHHHHHHHHHccChHHHHHHHHHHHhhhhcccCCCCCCcceE-EEEecCCC
Q psy5134 118 MMHVYNELNIPT-SWHILKCS----FSIFRRIESVKEELGSSDYYLQLINLISKSLNLSSANSTTQGINQI-ICYGIGNF 191 (648)
Q Consensus 118 ~~~~~~~~~ip~-~~~~~~~~----~sl~~~l~~~~~~l~~S~f~~~l~e~L~~~l~~l~~~~~~~~i~~I-VCLGLGSf 191 (648)
||..=.-+--++ .-+..+|+ ++++++|+..+.+|++|+|+..++++|++.+..+.. +|.+| ||||||+|
T Consensus 19 Rkk~k~rG~~~k~~dt~iD~~~v~~~~fq~klensr~kle~S~Fl~~~lEqLq~~l~~~~~-----piek~~vclglG~f 93 (281)
T KOG3131|consen 19 RKKLKRRGRHKKESDTLIDCPDVNVEKFQPKLENSRTKLEQSDFLLVALEQLQQQLEGIRK-----PIEKIIVCLGLGPF 93 (281)
T ss_pred hcccCccCCCccccccccCcccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHhhhcc-----chhheEEEEeeccc
Confidence 444333333333 22444565 469999999999999999999999999998865554 78886 99999999
Q ss_pred CCChhhHHHHHHHHHHHHHcCC---cEEEEcCcCCHHHHHHHHHcCceEeecCcccccccCCCceEEEccCCCHHHHHHH
Q psy5134 192 TDSIAAKYQFVLLLLLKIEYDC---EILIYDPIFNELELELIEIFKLELIIQNEECKHTITHAKTLVYMPRCPIQLINNI 268 (648)
Q Consensus 192 s~s~~AryQLAlLL~L~e~l~i---~v~iyDPvFt~~D~~~L~~LG~~Vl~ene~g~~~~~~~~TLfymPHcp~~Ly~nl 268 (648)
++..+|++|||++++|.++|++ .|++|||||+.+|+++|+++|+.|+++++.|++.+-. ||||||||||.+||+|+
T Consensus 94 ~~~~~a~~Qlal~iei~r~fk~~~~~~s~fDPvf~k~E~eyLeslG~cvLs~~e~~~~ealk-pTLyylPHcp~~LyeNi 172 (281)
T KOG3131|consen 94 SRTYHALHQLALVIEIHRHFKIRDVEASYFDPVFRKSEKEYLESLGGCVLSKDEAGKHEALK-PTLYYLPHCPYALYENI 172 (281)
T ss_pred cccccHHHHHHHHHHHHHHhccccceeeeeCcchhhhHHHHHHhcCCeEeccCccccccccc-eeeEecCCCchHHHHHH
Confidence 9999999999999999999987 5999999999999999999999999999999997764 99999999999999999
Q ss_pred HHhccCcCCCCcEEEEecCcchhhcccchhHhhhchhHHHHHhhhceeeccCCCCCcccccccceeEeeCCCccCcCcc-
Q psy5134 269 LYSNWTRENLSNLILLSNSISTVVDSNTDAFLKSNLQFLFHIKEFLEEVPVVNNFKFNDIFNDTSLHCFLPTKLNSIEQ- 347 (648)
Q Consensus 269 L~aNws~~~L~~~iliGNsf~~y~~~~~~r~l~~~~~~I~~i~~~~~E~~lp~~~~~~~AFNDtSih~Fp~~~l~~l~~- 347 (648)
||+||..+++++++++||||.+|++... ..+.+.++.|.++...+...++-..+++.+||||+|+|+||.+.....++
T Consensus 173 L~snw~~Drl~k~~LcgNsfqml~~~v~-~~i~nt~p~I~k~~~~~~ft~l~p~~~~~nafnDlSlhffps~sd~es~~p 251 (281)
T KOG3131|consen 173 LWSNWKRDRLPKVFLCGNSFQMLTMTVH-YPIRNTDPHITKIVEHCTFTPLEPDYEHHNAFNDLSLHFFPSESDPESNDP 251 (281)
T ss_pred HHHhhhhccccceEEecCcHHHHHhhcc-chhccCChHHHhhhhccccccccCcchhhhccccceeeecccccccccccc
Confidence 9999999999999999999999998765 34557789999999999999888889999999999999999999977775
Q ss_pred ccccCCCCCCCccccccceecc
Q psy5134 348 DIWDLRFLEPEYTECNFEKTKS 369 (648)
Q Consensus 348 ~fW~~~~~eP~y~~~~~e~~~~ 369 (648)
.||+++ .|.. ..+-++|++
T Consensus 252 ~f~~~~--~~~~-v~E~p~i~~ 270 (281)
T KOG3131|consen 252 AFWTRC--APLK-VNEDPLITE 270 (281)
T ss_pred hhhhhh--chhh-hccCcccch
Confidence 699996 5644 556677765
No 3
>PTZ00119 40S ribosomal protein S15; Provisional
Probab=100.00 E-value=1.7e-34 Score=292.50 Aligned_cols=146 Identities=17% Similarity=0.162 Sum_probs=135.4
Q ss_pred ceeeeeCCCCCccCCCCCccccccccCCCCCCCchhhhhCh---hhhhhHHHHHHHhcccCCCChhhHhHHHHHHHHHHh
Q psy5134 395 IKIKWKRPEPVAFNDPRKSGDQILELGPLELDKPTLEYAKC---ESLKSADEHVKKIFSCAHRGRKQAVELVKKKHVDSV 471 (648)
Q Consensus 395 ~ki~w~rPe~i~~~~P~kSgd~~~~l~~l~~s~~~~~y~~~---~ele~a~e~VkrilSLe~as~ke~~k~~k~~~i~~f 471 (648)
+...-++.+|.++|+-.++.-++ ...+++.+|... ++++..+|+|+|+|||+|||++|+.+++++++|++|
T Consensus 44 ~~~~k~~a~k~~wy~~ae~~fl~------er~~ip~gY~~~~~~e~le~~~p~VkRILsLrNAs~kEi~K~rK~eIIkkf 117 (302)
T PTZ00119 44 ITAIKTHAQKTEWYLKAERDFLS------ERNQIPNGYIGLWQYDDIKHLRKNIINMLHLNCANSKQIHKYKKLCIRRCL 117 (302)
T ss_pred eeeeeecCCCcHHHHHHHHHHHH------HhccCCccceecccccchhhhCHHHHHHhccccCChHHHHHHHHHHHHHHh
Confidence 34456677899999888888888 566777777764 889999999999999999999999999999999999
Q ss_pred hcCCCCCCCHhHHHHHHHHHHHHHHHHhhhCCCCchhhHHHHHHHHHHHHHHHHHHhhCHHHHHHHHHHcCCccc
Q psy5134 472 KRHDLDDTSREVLITKYTVSIRSLQEHHKAKPLDKRAKVWLKELIDKRNKHLRLLRTENYKVFEWLLDELKIVFR 546 (648)
Q Consensus 472 ~r~~~DtGS~EVQIA~LT~rIr~L~eHl~~~~KD~~~kr~L~~li~kRrKlLkYLrr~d~~~y~~li~~LgL~y~ 546 (648)
|++++||||+|||||+||+||++|++||+.|+||++++|||++||+||||||+||+++|+++|+++|++|||+..
T Consensus 118 qr~~~DTGS~EVQIAiLTeRI~~LTeHLk~hkKD~~SrRGLlkLV~KRRKLLkYLKrkD~erY~~lIkkLGLRkv 192 (302)
T PTZ00119 118 QRRPFDTGSAPVQIGCLTEKILNLRAHLILRCKDHPKKRTMSILLARRQKLMKYLYKTDFELYKHTCNLLKIKCI 192 (302)
T ss_pred cCCCCCCCCHHHHHHHHHHHHHHHHHHHHhCCCccHhHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHhCCceE
Confidence 999999999999999999999999999999999999999999999999999999999999999999999999964
No 4
>PRK05626 rpsO 30S ribosomal protein S15; Reviewed
Probab=99.97 E-value=2.7e-30 Score=226.25 Aligned_cols=86 Identities=24% Similarity=0.332 Sum_probs=83.5
Q ss_pred HhHHHHHHHHHHhhcCCCCCCCHhHHHHHHHHHHHHHHHHhhhCCCCchhhHHHHHHHHHHHHHHHHHHhhCHHHHHHHH
Q psy5134 459 AVELVKKKHVDSVKRHDLDDTSREVLITKYTVSIRSLQEHHKAKPLDKRAKVWLKELIDKRNKHLRLLRTENYKVFEWLL 538 (648)
Q Consensus 459 ~~k~~k~~~i~~f~r~~~DtGS~EVQIA~LT~rIr~L~eHl~~~~KD~~~kr~L~~li~kRrKlLkYLrr~d~~~y~~li 538 (648)
+++..++++|++|++||+||||+|||||+||+||++|++||+.||||++++|||+++|++|+|+|+||+++|+++|.++|
T Consensus 3 ~~~~~k~~li~~f~~~~~DTGS~eVQiA~LT~rI~~L~~Hlk~~~KD~~srrgL~~lv~kRkrlL~YL~~~d~~~Y~~li 82 (89)
T PRK05626 3 LTKEKKAEIIKEYGRHEGDTGSPEVQVALLTERINHLTEHLKEHKKDHHSRRGLLKMVGQRRKLLDYLKKKDVERYRALI 82 (89)
T ss_pred CCHHHHHHHHHHHcCCCCCCCCHHHHHHHHHHHHHHHHHHHHHcccchhhHHHHHHHHHhHHHHHHHHHhcCHHHHHHHH
Confidence 35668899999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHcCCc
Q psy5134 539 DELKIV 544 (648)
Q Consensus 539 ~~LgL~ 544 (648)
++|||+
T Consensus 83 ~~LglR 88 (89)
T PRK05626 83 ERLGLR 88 (89)
T ss_pred HHhCCC
Confidence 999997
No 5
>TIGR00952 S15_bact ribosomal protein S15, bacterial/organelle. This model is built to recognize specifically bacterial, chloroplast, and mitochondrial ribosomal protein S15. The homologous proteins of Archaea and Eukarya are designated S13.
Probab=99.97 E-value=3.1e-30 Score=224.55 Aligned_cols=84 Identities=26% Similarity=0.368 Sum_probs=82.1
Q ss_pred HHHHHHHHHHhhcCCCCCCCHhHHHHHHHHHHHHHHHHhhhCCCCchhhHHHHHHHHHHHHHHHHHHhhCHHHHHHHHHH
Q psy5134 461 ELVKKKHVDSVKRHDLDDTSREVLITKYTVSIRSLQEHHKAKPLDKRAKVWLKELIDKRNKHLRLLRTENYKVFEWLLDE 540 (648)
Q Consensus 461 k~~k~~~i~~f~r~~~DtGS~EVQIA~LT~rIr~L~eHl~~~~KD~~~kr~L~~li~kRrKlLkYLrr~d~~~y~~li~~ 540 (648)
+..|+++|++|++|++||||+|||||+||+||++|++||+.||||++++|||+++|++|+|+|+||+++|+++|.++|++
T Consensus 2 ~~~k~~li~~~~~~~~DtGS~eVQiA~LT~rI~~L~~Hl~~h~KD~~srrgL~~lv~kRkrlL~YL~~~d~~~Y~~li~~ 81 (86)
T TIGR00952 2 KERKQEIIKEFQLHEKDTGSPEVQIALLTERINQLTEHLKANKKDHHSRRGLLKLVGRRRRLLKYLKRTDVERYRSLIKR 81 (86)
T ss_pred HHHHHHHHHHHcCCCCCCCCHHHHHHHHHHHHHHHHHHHHHCCCchHHHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHH
Confidence 45789999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cCCc
Q psy5134 541 LKIV 544 (648)
Q Consensus 541 LgL~ 544 (648)
|||+
T Consensus 82 LglR 85 (86)
T TIGR00952 82 LGLR 85 (86)
T ss_pred hCCC
Confidence 9997
No 6
>PF00312 Ribosomal_S15: Ribosomal protein S15; InterPro: IPR000589 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. Ribosomal protein S15 is one of the proteins from the small ribosomal subunit. In Escherichia coli, this protein binds to 16S ribosomal RNA and functions at early steps in ribosome assembly. It belongs to a family of ribosomal proteins which, on the basis of sequence similarities [, ,], groups bacterial and plant chloroplast S15; archaeal Haloarcula marismortui HmaS15 (HS11); yeast mitochondrial S28; and mammalian, yeast, Brugia pahangi and Wuchereria bancrofti S13. S15 is a protein of 80 to 250 amino-acid residues.; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 1YSH_E 3U5C_N 3O30_G 3IZB_O 3O2Z_G 3U5G_N 1S1H_O 3MR8_O 3D5C_O 3MS0_O ....
Probab=99.94 E-value=5e-27 Score=203.46 Aligned_cols=83 Identities=37% Similarity=0.572 Sum_probs=80.8
Q ss_pred HHHHHHHHHhhcCCCCCCCHhHHHHHHHHHHHHHHHHhhhCCCCchhhHHHHHHHHHHHHHHHHHHhhCHHHHHHHHHHc
Q psy5134 462 LVKKKHVDSVKRHDLDDTSREVLITKYTVSIRSLQEHHKAKPLDKRAKVWLKELIDKRNKHLRLLRTENYKVFEWLLDEL 541 (648)
Q Consensus 462 ~~k~~~i~~f~r~~~DtGS~EVQIA~LT~rIr~L~eHl~~~~KD~~~kr~L~~li~kRrKlLkYLrr~d~~~y~~li~~L 541 (648)
+.++++|++|++||+||||+|||||+||+||++|++|++.||||++++|+|.++|++|+|+|+||+++|+++|.++|++|
T Consensus 1 ~~k~~~i~~~~~~~~dtgs~evqia~LT~rI~~L~~Hl~~~kkD~~skr~L~~lv~kRrrlL~YLrr~~~~~Y~~~~~~L 80 (83)
T PF00312_consen 1 MRKQKSIKKFQRHPNDTGSPEVQIAILTERIRNLQEHLKKNKKDKHSKRGLLKLVSKRRRLLKYLRRKDFERYEWVLKKL 80 (83)
T ss_dssp -HHHHHHHHHSSSTTSSSSHHHHHHHHHHHHHHHHHHHHHTTTSHHHHHHHHHHHHHHHHHHHHHHHHTHHHHHHHHHHH
T ss_pred ChHHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHHHHHHHHhccccccceehhHHHHHHHHHHHHHHhCCHHHHHHHHHHh
Confidence 46899999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCc
Q psy5134 542 KIV 544 (648)
Q Consensus 542 gL~ 544 (648)
||+
T Consensus 81 glr 83 (83)
T PF00312_consen 81 GLR 83 (83)
T ss_dssp TTT
T ss_pred CcC
Confidence 996
No 7
>cd00353 Ribosomal_S15p_S13e Ribosomal protein S15 (prokaryotic)_S13 (eukaryotic) binds the central domain of 16S rRNA and is required for assembly of the small ribosomal subunit and for intersubunit association, thus representing a key element in the assembly of the whole ribosome. S15 also plays an important autoregulatory role by binding and preventing its own mRNA from being translated. S15 has a predominantly alpha-helical fold that is highly structured except for the N-terminal alpha helix.
Probab=99.94 E-value=1e-26 Score=200.28 Aligned_cols=79 Identities=29% Similarity=0.405 Sum_probs=77.8
Q ss_pred HHHHHHHhhcCCCCCCCHhHHHHHHHHHHHHHHHHhhhCCCCchhhHHHHHHHHHHHHHHHHHHhhCHHHHHHHHHHcC
Q psy5134 464 KKKHVDSVKRHDLDDTSREVLITKYTVSIRSLQEHHKAKPLDKRAKVWLKELIDKRNKHLRLLRTENYKVFEWLLDELK 542 (648)
Q Consensus 464 k~~~i~~f~r~~~DtGS~EVQIA~LT~rIr~L~eHl~~~~KD~~~kr~L~~li~kRrKlLkYLrr~d~~~y~~li~~Lg 542 (648)
+++++++|+++++||||+|||||+||+||++|++||+.||||++++|+|.+++++|+|||+||+++|+++|.|+|++||
T Consensus 2 ~~~i~~~~~~~~~DtGs~evQia~LT~rI~~L~~Hl~~~~KD~~~krgL~~lv~kRrrLL~YLk~~~~~~y~~~i~~L~ 80 (80)
T cd00353 2 KQEILKEFGLAEGDTGSPEVQLALLTERIVNLTEHLEKNKKDKHSKRGLLLLVSKRRRLLKYLKRKDRLRYEWLIEKLG 80 (80)
T ss_pred HHHHHHHhCCCCCCCCChHHHHHHHHHHHHHHHHHHHHccccchHHHhHHHHHHHHHHHHHHHHHcCchhHHHHHHhcc
Confidence 6789999999999999999999999999999999999999999999999999999999999999999999999999997
No 8
>CHL00027 rps15 ribosomal protein S15
Probab=99.93 E-value=2e-26 Score=201.65 Aligned_cols=74 Identities=23% Similarity=0.293 Sum_probs=72.0
Q ss_pred cCCCCCCCHhHHHHHHHHHHHHHHHHhhhCCCCchhhHHHHHHHHHHHHHHHHHHhhCHHHHHHHHHHcCCccc
Q psy5134 473 RHDLDDTSREVLITKYTVSIRSLQEHHKAKPLDKRAKVWLKELIDKRNKHLRLLRTENYKVFEWLLDELKIVFR 546 (648)
Q Consensus 473 r~~~DtGS~EVQIA~LT~rIr~L~eHl~~~~KD~~~kr~L~~li~kRrKlLkYLrr~d~~~y~~li~~LgL~y~ 546 (648)
.+++||||+|||||+||+||++|++||+.||||++++|||++||++|+|||+||+++|+++|+++|++|||+.-
T Consensus 14 ~~~~DTGS~evQiA~LT~rI~~Lt~Hlk~hkKD~~s~RgL~~lv~kRkrLL~YL~r~d~~~Y~~li~~Lglr~~ 87 (90)
T CHL00027 14 EKEENRGSVEFQVFSFTNKIRRLTSHLELHKKDYSSQRGLRKILGKRQRLLAYLSKKNRVRYKKLISQLGIREL 87 (90)
T ss_pred cCCCCCCChHHHHHHHHHHHHHHHHHHHHCCCcchhHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHhCCCCC
Confidence 38999999999999999999999999999999999999999999999999999999999999999999999863
No 9
>COG0184 RpsO Ribosomal protein S15P/S13E [Translation, ribosomal structure and biogenesis]
Probab=99.91 E-value=8.8e-25 Score=191.21 Aligned_cols=85 Identities=26% Similarity=0.389 Sum_probs=82.5
Q ss_pred hHHHHHHHHHHhhcCCCCCCCHhHHHHHHHHHHHHHHHHhhhCCCCchhhHHHHHHHHHHHHHHHHHHhhCHHHHHHHHH
Q psy5134 460 VELVKKKHVDSVKRHDLDDTSREVLITKYTVSIRSLQEHHKAKPLDKRAKVWLKELIDKRNKHLRLLRTENYKVFEWLLD 539 (648)
Q Consensus 460 ~k~~k~~~i~~f~r~~~DtGS~EVQIA~LT~rIr~L~eHl~~~~KD~~~kr~L~~li~kRrKlLkYLrr~d~~~y~~li~ 539 (648)
....+++++++|++++.||||+|||||+||+||.+|++|++.||||++|||||..+++||++||+||+++|.++|.|+++
T Consensus 4 ~~~~k~~l~~eyg~~~~dtgs~evq~a~Lt~ri~~L~~Hlk~hkKD~~srRGL~~~vskrrrLl~Ylk~~~~~~y~~li~ 83 (89)
T COG0184 4 TSEIKQELRDEYGIPEVDTGSGEVQLALLTERINNLTEHLKEHKKDHHSRRGLLLLVSKRRRLLKYLKRKDVLRYRWLIK 83 (89)
T ss_pred hHHHHHHHHHHhCCCCCCCCCcHHHHHHHHHHHHHHHHHHHHCCcchhHHHHHHHHHHHHHHHHHHHHhcCcchHHHHHH
Confidence 45678999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HcCCc
Q psy5134 540 ELKIV 544 (648)
Q Consensus 540 ~LgL~ 544 (648)
.|||+
T Consensus 84 ~l~lr 88 (89)
T COG0184 84 KLGLR 88 (89)
T ss_pred Hhhcc
Confidence 99996
No 10
>PLN03093 Protein SENSITIVITY TO RED LIGHT REDUCED 1; Provisional
Probab=99.85 E-value=5.4e-22 Score=203.12 Aligned_cols=76 Identities=29% Similarity=0.488 Sum_probs=70.5
Q ss_pred cccccccccccccccCCCeEEEccCCChhHHHHHHHhcCCcCCCCceEEEecChhhhhhccc---------hHHHHHHhh
Q psy5134 3 LDRMTQNEECKHTITHAKTLVYMPRCPIQLINNILYSNWTRENLSNLILLSNSISTVVDSNT---------DALCILALA 73 (648)
Q Consensus 3 ~~vl~~ne~gkr~~~~~~TlfymPHC~~~LynnlL~~Nw~~~~L~~~~ligNsf~~~~~~~~---------~~~~~~~~~ 73 (648)
|+||++||+|||.+. +||||||||||++|||||||+||++++|+++|||||||++|+++.. ....|+++.
T Consensus 155 ~~Vls~neegkr~a~-~pTLFYMPHCp~~LyeNLL~aNWs~e~L~~ivliGNSFe~y~~~~~~~~~~~~~~~~~hIla~~ 233 (273)
T PLN03093 155 CSVLSVNEQGRREAT-KPTLFFMPHCEAELYNNLLQANWRMERLNHIALFGNSFEMYEEQVSEFFNSEVVDSTKHILAAR 233 (273)
T ss_pred CeeccccccccccCC-CCeEEEeCCCCHHHHHHHHHHhCCHHHcCCEEEEeCCHHHHHHHHHHhcCcccccchHHHHHHH
Confidence 689999999999996 8999999999999999999999999999999999999999998432 568899999
Q ss_pred HHHHhh
Q psy5134 74 NVVKDK 79 (648)
Q Consensus 74 ~~~~~~ 79 (648)
..+.|.
T Consensus 234 ~~~~E~ 239 (273)
T PLN03093 234 KFTSEF 239 (273)
T ss_pred HHhhhh
Confidence 999887
No 11
>KOG2815|consensus
Probab=99.82 E-value=1.9e-20 Score=190.38 Aligned_cols=226 Identities=21% Similarity=0.162 Sum_probs=220.0
Q ss_pred ccceeeeeCCCCCccCCCCCccccccccCCCCCCCchhhhhChhhhhhHHHHHHHhcccCCCChhhHhHHHHHHHHHHhh
Q psy5134 393 QLIKIKWKRPEPVAFNDPRKSGDQILELGPLELDKPTLEYAKCESLKSADEHVKKIFSCAHRGRKQAVELVKKKHVDSVK 472 (648)
Q Consensus 393 ~d~ki~w~rPe~i~~~~P~kSgd~~~~l~~l~~s~~~~~y~~~~ele~a~e~VkrilSLe~as~ke~~k~~k~~~i~~f~ 472 (648)
++++.+|.+++.++++.++.+++.. .|++..++.+...|++...+..+++.|+.++++.++-.+.....+ ++++++++
T Consensus 22 ~~lp~~~~~~~~~~~~~~e~e~~~~-~Lk~~~~~~lr~k~r~~~~~~~~~es~ksl~~l~~~~~k~~~~~~-~el~ke~~ 99 (256)
T KOG2815|consen 22 SLLPKKGGAKEPDNSKGSESEKRSL-FLKAYRGEELRKKYRDLKPLDKAPESVKSLFQLNPAIEKLDTVEK-AELSKEVK 99 (256)
T ss_pred hhccccccccccccccccchHHHHH-hcccccHHHHhhhhhhccccccCchhhHHHHHhhhhhHHHHHHHH-HHHHHHHH
Confidence 4899999999999999999999998 999999999999999999999999999999999999999998888 99999999
Q ss_pred cCCCCCCCHhHHHHHHHHHHHHHHHHhhhCCCCchhhHHHHHHHHHHHHHHHHHHhhCHHHHHHHHHHcCCcccCCCCCc
Q psy5134 473 RHDLDDTSREVLITKYTVSIRSLQEHHKAKPLDKRAKVWLKELIDKRNKHLRLLRTENYKVFEWLLDELKIVFRPGPTIL 552 (648)
Q Consensus 473 r~~~DtGS~EVQIA~LT~rIr~L~eHl~~~~KD~~~kr~L~~li~kRrKlLkYLrr~d~~~y~~li~~LgL~y~~pp~~~ 552 (648)
.|..|.+|.|.++|.+|+-|+..+.|+..+..+...+..+..++++|+++|+||++.|+..|+++..+|.+.|.+|+..+
T Consensus 100 ~~~~~~~~~e~k~~k~t~a~~~d~~~~~~~~~e~~~~~r~~l~~~kr~~~lril~~~n~ss~e~~k~~lk~~~~e~~~~~ 179 (256)
T KOG2815|consen 100 NHKQDNNSLEEKFAKKTAAIRRDTFELEAIIIELSGKIRIKLLIDKREKILRILRRRNLSSFEKIKIKLKLVRKEPFQRF 179 (256)
T ss_pred HHHHHHHHHHHHHHHHHHhccccHHHHhcchhhhhchhhHhhcccHHHHHHHHhhhhccccHHHHHHHHHHhccCCcccc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred chhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHhHHHHHHHHHHHHHHHHHHhCCCCCCCHHHHH
Q psy5134 553 NKVHRKESLRFLVDKHIGDVKTERLTQLRNKFNQEKINFYKKKAEFLEWTMEQEKKYGKEPTVTKEEIE 621 (648)
Q Consensus 553 ~~~tRk~~lr~lt~~~C~~~~~~kL~~~~~~l~~~~~~f~~ek~~~l~~i~~ee~~~~~~~tvt~~~i~ 621 (648)
+++|++.+++..+.. |...+..++.++|+++.+++..+..+-.++..+++...+++..+.++|.+.+.
T Consensus 180 e~dtgs~~vQ~~~~t-~~i~~~~r~~~~Hkkd~~~~~~l~~~~qkR~r~Lkyl~~~~~~~y~~~~~kl~ 247 (256)
T KOG2815|consen 180 ESDTGSAEVQAAFPT-VEIRKLSRHEELHKKDQASVRGLRQEVQKRQRALKYLARANRQRYVRTIKKLA 247 (256)
T ss_pred cccccchhHhHHhHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCcceeecccccc
Confidence 999999999999998 99999999999999999999999999999999999999999999999988776
No 12
>PF07985 SRR1: SRR1; InterPro: IPR012942 Sensitivity To Red Light Reduced proteins (SRR1) are signalling proteins thought to be involved in regulating the circadian clock input pathway, which is required for normal oscillator function. In Arabidopsis thaliana it regulates the expression of clock-regulated genes such as CCA1 and TOC1. It is also involved in both the phytochrome B (PHYB) and PHYB-independent signaling pathways [].
Probab=99.75 E-value=2.1e-18 Score=139.44 Aligned_cols=53 Identities=43% Similarity=0.874 Sum_probs=51.4
Q ss_pred eEEEEecCCCCCChhhHHHHHHHHHHHHHcCC---cEEEEcCcCCHHHHHHHHHcC
Q psy5134 182 QIICYGIGNFTDSIAAKYQFVLLLLLKIEYDC---EILIYDPIFNELELELIEIFK 234 (648)
Q Consensus 182 ~IVCLGLGSfs~s~~AryQLAlLL~L~e~l~i---~v~iyDPvFt~~D~~~L~~LG 234 (648)
+|||||||||+.+.+|+||||++++|++.|++ +|++|||+||+.|+++|++||
T Consensus 1 ~ivclGLGsf~~~~~a~~QLA~ll~l~~~l~~~~~~v~~yDPvft~~d~~~L~~lG 56 (56)
T PF07985_consen 1 KIVCLGLGSFSSSRSARYQLALLLLLKEELSIPRDQVSIYDPVFTEVDKAFLESLG 56 (56)
T ss_pred CEEEEEecCccccccHHHHHHHHHHHHHHhCCCCCcEEEECCCCCHHHHHHHHHcC
Confidence 69999999999999999999999999999997 699999999999999999998
No 13
>KOG3131|consensus
Probab=99.66 E-value=3.6e-17 Score=164.68 Aligned_cols=73 Identities=30% Similarity=0.481 Sum_probs=64.6
Q ss_pred cccccccccccccccCCCeEEEccCCChhHHHHHHHhcCCcCCCCceEEEecChhhhhhccchHHHHHHhhHHHH
Q psy5134 3 LDRMTQNEECKHTITHAKTLVYMPRCPIQLINNILYSNWTRENLSNLILLSNSISTVVDSNTDALCILALANVVK 77 (648)
Q Consensus 3 ~~vl~~ne~gkr~~~~~~TlfymPHC~~~LynnlL~~Nw~~~~L~~~~ligNsf~~~~~~~~~~~~~~~~~~~~~ 77 (648)
+.||.+||.|+|.+. +||||||||||.+||+|+||+||-.|.|++++++||||++|++..+ +..-.+.++|.+
T Consensus 140 ~cvLs~~e~~~~eal-kpTLyylPHcp~~LyeNiL~snw~~Drl~k~~LcgNsfqml~~~v~-~~i~nt~p~I~k 212 (281)
T KOG3131|consen 140 GCVLSKDEAGKHEAL-KPTLYYLPHCPYALYENILWSNWKRDRLPKVFLCGNSFQMLTMTVH-YPIRNTDPHITK 212 (281)
T ss_pred CeEeccCcccccccc-ceeeEecCCCchHHHHHHHHHhhhhccccceEEecCcHHHHHhhcc-chhccCChHHHh
Confidence 569999999999987 9999999999999999999999999999999999999999999877 444455555543
No 14
>KOG2815|consensus
Probab=99.57 E-value=1.8e-15 Score=154.39 Aligned_cols=112 Identities=21% Similarity=0.255 Sum_probs=106.5
Q ss_pred hhhhhHHHHHHHhcccCCCChhhHhHHHHHHHHHH-hhcCCCCCCCHhHHHHHHHHHHHHHHHHhhhCCCCchhhHHHHH
Q psy5134 436 ESLKSADEHVKKIFSCAHRGRKQAVELVKKKHVDS-VKRHDLDDTSREVLITKYTVSIRSLQEHHKAKPLDKRAKVWLKE 514 (648)
Q Consensus 436 ~ele~a~e~VkrilSLe~as~ke~~k~~k~~~i~~-f~r~~~DtGS~EVQIA~LT~rIr~L~eHl~~~~KD~~~kr~L~~ 514 (648)
..+....+.+-|||+.+|.++.+..++.-..+... |++++.||||++||+|.+|.+|+++..|...|+||.+++++|+.
T Consensus 140 ~l~~~kr~~~lril~~~n~ss~e~~k~~lk~~~~e~~~~~e~dtgs~~vQ~~~~t~~i~~~~r~~~~Hkkd~~~~~~l~~ 219 (256)
T KOG2815|consen 140 KLLIDKREKILRILRRRNLSSFEKIKIKLKLVRKEPFQRFESDTGSAEVQAAFPTVEIRKLSRHEELHKKDQASVRGLRQ 219 (256)
T ss_pred hhcccHHHHHHHHhhhhccccHHHHHHHHHHhccCCcccccccccchhHhHHhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44556789999999999999999999999999999 99999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHhhCHHHHHHHHHHcCCcccC
Q psy5134 515 LIDKRNKHLRLLRTENYKVFEWLLDELKIVFRP 547 (648)
Q Consensus 515 li~kRrKlLkYLrr~d~~~y~~li~~LgL~y~~ 547 (648)
++++|+++|+||++.|.++|.+++++||+++-|
T Consensus 220 ~~qkR~r~Lkyl~~~~~~~y~~~~~kl~~r~~~ 252 (256)
T KOG2815|consen 220 EVQKRQRALKYLARANRQRYVRTIKKLALRDLP 252 (256)
T ss_pred HHHHHHHHHHHHHHhCCcceeeccccccccchh
Confidence 999999999999999999999999999988764
No 15
>cd00677 S15_NS1_EPRS_RNA-bind S15/NS1/EPRS_RNA-binding domain. This short domain consists of a helix-turn-helix structure, which can bind to several types of RNA. It is found in the ribosomal protein S15, the influenza A viral nonstructural protein (NSA) and in several eukaryotic aminoacyl tRNA synthetases (aaRSs), where it occurs as a single or a repeated unit. It is involved in both protein-RNA interactions by binding tRNA and protein-protein interactions in the formation of tRNA-synthetases into multienzyme complexes. While this domain lacks significant sequence similarity between the subgroups in which it is found, they share similar electrostatic surface potentials and thus are likely to bind to RNA via the same mechanism.
Probab=99.41 E-value=3.3e-13 Score=104.81 Aligned_cols=46 Identities=39% Similarity=0.462 Sum_probs=45.0
Q ss_pred hHHHHHHHHHHHHHHHHhhhCCCCchhhHHHHHHHHHHHHHHHHHH
Q psy5134 482 EVLITKYTVSIRSLQEHHKAKPLDKRAKVWLKELIDKRNKHLRLLR 527 (648)
Q Consensus 482 EVQIA~LT~rIr~L~eHl~~~~KD~~~kr~L~~li~kRrKlLkYLr 527 (648)
|||||.+|++|++|++|++.||||++++|+|..+|++|++||+||+
T Consensus 1 ~vqia~lt~~i~~L~~hl~~~~kD~~~kr~L~~~v~kr~rLl~ylk 46 (46)
T cd00677 1 EVQIALLTERIRNLKEHLAKNKKDKHSKRGLDLLVSKRLRLLKYLK 46 (46)
T ss_pred CHHHHHHHHHHHHHHHHHHHCCCCcchHHHHHHHHHHHHHHHHHhC
Confidence 6999999999999999999999999999999999999999999995
No 16
>PRK08561 rps15p 30S ribosomal protein S15P; Reviewed
Probab=98.84 E-value=3.6e-09 Score=101.05 Aligned_cols=46 Identities=15% Similarity=0.221 Sum_probs=44.4
Q ss_pred HHHHHHHHHHHHHHhhhCCCCchhhHHHHHHHHHHHHHHHHHHhhC
Q psy5134 485 ITKYTVSIRSLQEHHKAKPLDKRAKVWLKELIDKRNKHLRLLRTEN 530 (648)
Q Consensus 485 IA~LT~rIr~L~eHl~~~~KD~~~kr~L~~li~kRrKlLkYLrr~d 530 (648)
.-.||.||.+|++||+.|+||+++||+|..++++|+|||+||+++|
T Consensus 88 L~~L~~ri~~L~~HL~~nkKD~~skRgL~~~~skrrRLl~Yyk~~~ 133 (151)
T PRK08561 88 LRNLIKKAVNLRKHLEENPKDLHNKRGLQLIESKIRRLVKYYKRTG 133 (151)
T ss_pred HHHHHHHHHHHHHHHHhCCCcchhHHHHHHHHHHHHHHHHHHHhcC
Confidence 6789999999999999999999999999999999999999999985
No 17
>PTZ00072 40S ribosomal protein S13; Provisional
Probab=94.29 E-value=0.076 Score=51.23 Aligned_cols=45 Identities=16% Similarity=0.152 Sum_probs=41.2
Q ss_pred HHHHHHHHHHHHHHhhhCCCCchhhHHHHHHHHHHHHHHHHHHhh
Q psy5134 485 ITKYTVSIRSLQEHHKAKPLDKRAKVWLKELIDKRNKHLRLLRTE 529 (648)
Q Consensus 485 IA~LT~rIr~L~eHl~~~~KD~~~kr~L~~li~kRrKlLkYLrr~ 529 (648)
.-.|-.|--++.+||+.|+||+++|++|...-++=+||-+|-+++
T Consensus 85 ly~LikKAv~iRkHLe~n~kD~~sK~~LiLiESkI~RL~rYYk~~ 129 (148)
T PTZ00072 85 LYFLIKKAVSIRKHLEKNRKDKDSKFRLILVESRIHRLARYYKRT 129 (148)
T ss_pred HHHHHHHHHHHHHHHHHcccchhhhHHHHHHHHHHHHHHHHHhhc
Confidence 566778888999999999999999999999999999999999776
No 18
>PF04558 tRNA_synt_1c_R1: Glutaminyl-tRNA synthetase, non-specific RNA binding region part 1 ; InterPro: IPR007639 The aminoacyl-tRNA synthetases (6.1.1. from EC) catalyse the attachment of an amino acid to its cognate transfer RNA molecule in a highly specific two-step reaction. These proteins differ widely in size and oligomeric state, and have limited sequence homology []. The 20 aminoacyl-tRNA synthetases are divided into two classes, I and II. Class I aminoacyl-tRNA synthetases contain a characteristic Rossman fold catalytic domain and are mostly monomeric []. Class II aminoacyl-tRNA synthetases share an anti-parallel beta-sheet fold flanked by alpha-helices [], and are mostly dimeric or multimeric, containing at least three conserved regions [, , ]. However, tRNA binding involves an alpha-helical structure that is conserved between class I and class II synthetases. In reactions catalysed by the class I aminoacyl-tRNA synthetases, the aminoacyl group is coupled to the 2'-hydroxyl of the tRNA, while, in class II reactions, the 3'-hydroxyl site is preferred. The synthetases specific for arginine, cysteine, glutamic acid, glutamine, isoleucine, leucine, methionine, tyrosine, tryptophan and valine belong to class I synthetases. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases []. Based on their mode of binding to the tRNA acceptor stem, both classes of tRNA synthetases have been subdivided into three subclasses, designated 1a, 1b, 1c and 2a, 2b, 2c. This is a domain found N-terminal to the catalytic domain of glutaminyl-tRNA synthetase (6.1.1.18 from EC) in eukaryotes but not in Escherichia coli. This domain is thought to bind RNA in a non-specific manner, enhancing interactions between the tRNA and enzyme, but is not essential for enzyme function [].; GO: 0000166 nucleotide binding, 0004812 aminoacyl-tRNA ligase activity, 0005524 ATP binding, 0006418 tRNA aminoacylation for protein translation, 0005737 cytoplasm; PDB: 3TL4_X.
Probab=49.47 E-value=17 Score=35.89 Aligned_cols=25 Identities=44% Similarity=0.462 Sum_probs=17.0
Q ss_pred HHHHHhCCCCCCCHHHHHHHHHHHH
Q psy5134 604 EQEKKYGKEPTVTKEEIESIWKKYE 628 (648)
Q Consensus 604 ~ee~~~~~~~tvt~~~i~~~~k~~~ 628 (648)
+-|++||+=++||+|||+++=.++-
T Consensus 106 ~Fe~~cGVGV~VT~E~I~~~V~~~i 130 (164)
T PF04558_consen 106 EFEKACGVGVVVTPEQIEAAVEKYI 130 (164)
T ss_dssp HHHHTTTTT----HHHHHHHHHHHH
T ss_pred HHHHHcCCCeEECHHHHHHHHHHHH
Confidence 4488999999999999998766653
No 19
>KOG0400|consensus
Probab=42.03 E-value=15 Score=35.43 Aligned_cols=45 Identities=18% Similarity=0.211 Sum_probs=37.6
Q ss_pred HHHHHHHHHHHHHHhhhCCCCchhhHHHHHHHHHHHHHHHHHHhh
Q psy5134 485 ITKYTVSIRSLQEHHKAKPLDKRAKVWLKELIDKRNKHLRLLRTE 529 (648)
Q Consensus 485 IA~LT~rIr~L~eHl~~~~KD~~~kr~L~~li~kRrKlLkYLrr~ 529 (648)
.--|-.|-..+..|++.|+||+.+|=.|-..-++=.|+-+|.+++
T Consensus 88 Ly~likkAv~iRkHLer~RKD~d~K~RLILveSRihRlARYYk~~ 132 (151)
T KOG0400|consen 88 LYHLIKKAVAIRKHLERNRKDKDAKFRLILVESRIHRLARYYKTK 132 (151)
T ss_pred HHHHHHHHHHHHHHHHHhccccccceEEEeehHHHHHHHHHHHhc
Confidence 445667778899999999999999999877777778888888775
No 20
>PF06574 FAD_syn: FAD synthetase; InterPro: IPR015864 Riboflavin is converted into catalytically active cofactors (FAD and FMN) by the actions of riboflavin kinase (2.7.1.26 from EC), which converts it into FMN, and FAD synthetase (2.7.7.2 from EC), which adenylates FMN to FAD. Eukaryotes usually have two separate enzymes, while most prokaryotes have a single bifunctional protein that can carry out both catalyses, although exceptions occur in both cases. While eukaryotic monofunctional riboflavin kinase is orthologous to the bifunctional prokaryotic enzyme [], the monofunctional FAD synthetase differs from its prokaryotic counterpart, and is instead related to the PAPS-reductase family []. The bacterial FAD synthetase that is part of the bifunctional enzyme has remote similarity to nucleotidyl transferases and, hence, it may be involved in the adenylylation reaction of FAD synthetases []. This entry represents prokaryotic-type FAD synthetase, which occurs primarily as part of a bifunctional enzyme.; GO: 0003919 FMN adenylyltransferase activity, 0009231 riboflavin biosynthetic process; PDB: 2X0K_B 3OP1_B 1T6Z_A 2I1L_A 1T6Y_B 1T6X_B 1S4M_A 1MRZ_A.
Probab=38.80 E-value=1e+02 Score=30.03 Aligned_cols=100 Identities=20% Similarity=0.268 Sum_probs=49.1
Q ss_pred cceEEEEecCCCCCChhhHHHH-HHHHHHHHHcCC--cEEEEcC--------------cCCHHH-HHHHHHcCceEeecC
Q psy5134 180 INQIICYGIGNFTDSIAAKYQF-VLLLLLKIEYDC--EILIYDP--------------IFNELE-LELIEIFKLELIIQN 241 (648)
Q Consensus 180 i~~IVCLGLGSfs~s~~AryQL-AlLL~L~e~l~i--~v~iyDP--------------vFt~~D-~~~L~~LG~~Vl~en 241 (648)
..+-.|+.||+|++-.-+.-.| .-+..+++.-+. -|..||| ..+..| .++|+++|+..+-.-
T Consensus 3 ~~~~~~v~iG~FDGvH~GHq~Li~~~~~~a~~~~~~~~v~tF~~~P~~~~~~~~~~~~l~s~~ek~~~l~~~Gvd~~~~~ 82 (157)
T PF06574_consen 3 NNKKSVVAIGNFDGVHLGHQKLIKKAVEIAKEKGLKSVVLTFDPHPKEVLNPDKPPKLLTSLEEKLELLESLGVDYVIVI 82 (157)
T ss_dssp T-S-EEEEES--TT--HHHHHHHHHHHHHHHHCT-EEEEEEESS-CHHHHSCTCCGGBSS-HHHHHHHHHHTTESEEEEE
T ss_pred CCCCcEEEEeCCCCccHHHHHHHHHHhhhhhhcccceEEEEcccCHHHHhcCCCcccCCCCHHHHHHHHHHcCCCEEEEe
Confidence 4566789999999986654332 123333444443 3667776 344444 578999997753221
Q ss_pred ccc--ccccCCCceEEEccCCCHHHHHHHHHhccCcCCCCcEEEEecCcchhhcc
Q psy5134 242 EEC--KHTITHAKTLVYMPRCPIQLINNILYSNWTRENLSNLILLSNSISTVVDS 294 (648)
Q Consensus 242 e~g--~~~~~~~~TLfymPHcp~~Ly~nlL~aNws~~~L~~~iliGNsf~~y~~~ 294 (648)
+-. ....+ |.+..+.+|..... . ..|++|.+|.-=..+
T Consensus 83 ~F~~~~~~ls-----------~~~Fi~~iL~~~l~---~-~~ivvG~DfrFG~~~ 122 (157)
T PF06574_consen 83 PFTEEFANLS-----------PEDFIEKILKEKLN---V-KHIVVGEDFRFGKNR 122 (157)
T ss_dssp -CCCHHCCS------------HHHHHHHHCCCHCT---E-EEEEEETT-EESGGG
T ss_pred cchHHHHcCC-----------HHHHHHHHHHhcCC---c-cEEEEccCccCCCCC
Confidence 111 11111 23455666653322 2 568899998754433
No 21
>PF08317 Spc7: Spc7 kinetochore protein; InterPro: IPR013253 This entry consists of cell division proteins which are required for kinetochore-spindle association [].
Probab=37.32 E-value=2.7e+02 Score=30.21 Aligned_cols=65 Identities=25% Similarity=0.289 Sum_probs=34.3
Q ss_pred HHHHHHHHHHHHHHHHHHhHHhHH------------------------HHHHHHHHHHHHHHHHhCCCCCCCHHHHHHHH
Q psy5134 569 IGDVKTERLTQLRNKFNQEKINFY------------------------KKKAEFLEWTMEQEKKYGKEPTVTKEEIESIW 624 (648)
Q Consensus 569 C~~~~~~kL~~~~~~l~~~~~~f~------------------------~ek~~~l~~i~~ee~~~~~~~tvt~~~i~~~~ 624 (648)
++..-+++|.+++.+|.+.....- .+|.+.++-|.+-|..+.---.+|..||...+
T Consensus 203 ~~~~D~~eL~~lr~eL~~~~~~i~~~k~~l~el~~el~~l~~~i~~~~~~k~~l~~eI~e~~~~~~~~r~~t~~Ev~~Lk 282 (325)
T PF08317_consen 203 IESCDQEELEALRQELAEQKEEIEAKKKELAELQEELEELEEKIEELEEQKQELLAEIAEAEKIREECRGWTRSEVKRLK 282 (325)
T ss_pred hhhcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHHH
Confidence 444445666666666665555433 23333344444444444333344666666666
Q ss_pred HHHHHHHHH
Q psy5134 625 KKYEELAEK 633 (648)
Q Consensus 625 k~~~~~~~~ 633 (648)
.+++.|+..
T Consensus 283 ~~~~~Le~~ 291 (325)
T PF08317_consen 283 AKVDALEKL 291 (325)
T ss_pred HHHHHHHHH
Confidence 666666654
No 22
>PF00435 Spectrin: Spectrin repeat; InterPro: IPR002017 Spectrin repeats [] are found in several proteins involved in cytoskeletal structure. These include spectrin alpha and beta subunits [, ], alpha-actinin [] and dystrophin. The spectrin repeat forms a three-helix bundle. The second helix is interrupted by proline in some sequences. The repeats are defined by a characteristic tryptophan (W) residue at position 17 in helix A and a leucine (L) at 2 residues from the carboxyl end of helix C.; GO: 0005515 protein binding; PDB: 1HCI_A 1QUU_A 3FB2_B 1S35_A 1U5P_A 1U4Q_A 1CUN_B 1YDI_B 3EDV_A 1AJ3_A ....
Probab=36.37 E-value=1.4e+02 Score=24.79 Aligned_cols=47 Identities=36% Similarity=0.541 Sum_probs=37.7
Q ss_pred hHHhHHHHHHHHHHHHHHHHHHhC-CCCCCCHHHHHHHHHHHHHHHHH
Q psy5134 587 EKINFYKKKAEFLEWTMEQEKKYG-KEPTVTKEEIESIWKKYEELAEK 633 (648)
Q Consensus 587 ~~~~f~~ek~~~l~~i~~ee~~~~-~~~tvt~~~i~~~~k~~~~~~~~ 633 (648)
+...|..+..+.+.||.+.|..+. .+++-+.++++...++.+++...
T Consensus 2 ~~~~f~~~~~~l~~Wl~~~e~~l~~~~~~~~~~~~~~~~~~~~~~~~e 49 (105)
T PF00435_consen 2 QLQQFQQEADELLDWLQETEAKLSSSEPGSDLEELEEQLKKHKELQEE 49 (105)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHCSCTHSSSHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhCCCCCCCHHHHHHHHHHHhhhhhH
Confidence 456799999999999999999994 44566778888888887777653
No 23
>PF04695 Pex14_N: Peroxisomal membrane anchor protein (Pex14p) conserved region; InterPro: IPR006785 This conserved region defines a group of peroxisomal membrane anchor proteins which bind the PTS1 (peroxisomal targeting signal) receptor and are required for the import of PTS1-containing proteins into peroxisomes. Loss of functional Pex14p results in defects in both the PTS1 and PTS2-dependent import pathways. Deletion analysis of this conserved region implicates it in selective peroxisome degradation. In the majority of members this region is situated at the N terminus of the protein [, ].; GO: 0005777 peroxisome, 0016020 membrane; PDB: 2W85_A 2W84_A 3FF5_B.
Probab=36.10 E-value=27 Score=33.25 Aligned_cols=19 Identities=26% Similarity=0.274 Sum_probs=13.3
Q ss_pred hCCCCCCCHHHHHHHHHHHHHHH
Q psy5134 609 YGKEPTVTKEEIESIWKKYEELA 631 (648)
Q Consensus 609 ~~~~~tvt~~~i~~~~k~~~~~~ 631 (648)
.|| |++||+++.+++..-.
T Consensus 33 KGL----t~~EI~~al~~a~~~~ 51 (136)
T PF04695_consen 33 KGL----TEEEIDEALGRAGSPP 51 (136)
T ss_dssp CT------HHHHHHHHHHHT--S
T ss_pred CCC----CHHHHHHHHHhcCCcc
Confidence 488 9999999999987765
No 24
>TIGR00379 cobB cobyrinic acid a,c-diamide synthase. This model describes cobyrinic acid a,c-diamide synthase, the cobB (cbiA in Salmonella) protein of cobalamin biosynthesis. It is responsible for the amidation of carboxylic groups at positions A and C of either cobyrinic acid or hydrogenobrynic acid. NH(2) groups are provided by glutamine and one molecule of ATP hydrogenolyzed for each amidation.
Probab=34.73 E-value=69 Score=36.24 Aligned_cols=80 Identities=15% Similarity=0.069 Sum_probs=56.9
Q ss_pred EEEEcCcCCH---HHHHHHHHcCceEeecCcccccccCCCceEEEccCCCHHHHHHHHHhccCc-CCC-------CcEEE
Q psy5134 215 ILIYDPIFNE---LELELIEIFKLELIIQNEECKHTITHAKTLVYMPRCPIQLINNILYSNWTR-ENL-------SNLIL 283 (648)
Q Consensus 215 v~iyDPvFt~---~D~~~L~~LG~~Vl~ene~g~~~~~~~~TLfymPHcp~~Ly~nlL~aNws~-~~L-------~~~il 283 (648)
..++||+|+- .+.+.|+..|+++..-++-...... +.-++|+|+....++...|.+|.+- +.| .+++-
T Consensus 248 ava~d~afnFy~~~~~~~L~~~g~~~~~~~~~~d~~l~-~~d~l~ipGG~~~~~~~~l~~~~~~~~~i~~~~~~G~pv~g 326 (449)
T TIGR00379 248 AVAQDQAFNFYYQDNLDALTHNAAELVPFSPLEDTELP-DVDAVYIGGGFPELFAEELSQNQALRDSIKTFIHQGLPIYG 326 (449)
T ss_pred EEEechhhceeHHHHHHHHHHCCCEEEEECCccCCCCC-CCCEEEeCCcHHHHHHHHHHhhhHHHHHHHHHHHcCCCEEE
Confidence 4688999999 9999999999999765543111222 3569999999999998888776432 111 25677
Q ss_pred EecCcchhhccc
Q psy5134 284 LSNSISTVVDSN 295 (648)
Q Consensus 284 iGNsf~~y~~~~ 295 (648)
+|+.|.......
T Consensus 327 ~CgG~~~L~~~i 338 (449)
T TIGR00379 327 ECGGLMYLSQSL 338 (449)
T ss_pred EcHHHHHHHhhh
Confidence 777777665444
No 25
>KOG0687|consensus
Probab=33.65 E-value=4.7e+02 Score=29.37 Aligned_cols=94 Identities=19% Similarity=0.228 Sum_probs=68.9
Q ss_pred HHHHHHHHHHHhhC-HHHHHHHHHHcCCcccCCCCCcchhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHhHHHHH
Q psy5134 517 DKRNKHLRLLRTEN-YKVFEWLLDELKIVFRPGPTILNKVHRKESLRFLVDKHIGDVKTERLTQLRNKFNQEKINFYKKK 595 (648)
Q Consensus 517 ~kRrKlLkYLrr~d-~~~y~~li~~LgL~y~~pp~~~~~~tRk~~lr~lt~~~C~~~~~~kL~~~~~~l~~~~~~f~~ek 595 (648)
..|-+++.-+|..| .+-|+.+|+.++|.... -+.+..| +-.++|++++-++.+..+++ +-|-
T Consensus 39 ~~~e~l~~~Ird~~Map~Ye~lce~~~i~~D~---------------~~l~~m~-~~neeki~eld~~iedaeen-lGE~ 101 (393)
T KOG0687|consen 39 AAREKLLAAIRDEDMAPLYEYLCESLVIKLDQ---------------DLLNSMK-KANEEKIKELDEKIEDAEEN-LGES 101 (393)
T ss_pred HHHHHHHHHHHhcccchHHHHHHhhcceeccH---------------HHHHHHH-HhhHHHHHHHHHHHHHHHHh-cchH
Confidence 46788888899886 78899999999887651 1222222 24678888888888888887 7777
Q ss_pred HHHHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHHHHHH
Q psy5134 596 AEFLEWTMEQEKKYGKEPTVTKEEIESIWKKYEELAEK 633 (648)
Q Consensus 596 ~~~l~~i~~ee~~~~~~~tvt~~~i~~~~k~~~~~~~~ 633 (648)
.-...|+|+.|==|.+ -|++.+.+.+...-++
T Consensus 102 ev~ea~~~kaeYycqi------gDkena~~~~~~t~~k 133 (393)
T KOG0687|consen 102 EVREAMLRKAEYYCQI------GDKENALEALRKTYEK 133 (393)
T ss_pred HHHHHHHHHHHHHHHh------ccHHHHHHHHHHHHHH
Confidence 7778888888888877 4666666666655444
No 26
>KOG4715|consensus
Probab=32.65 E-value=3.9e+02 Score=29.63 Aligned_cols=103 Identities=24% Similarity=0.222 Sum_probs=63.3
Q ss_pred HHHHHHHHHHcCCcccCCCCCcch--hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHhHHHHHHHHHHHHH----H
Q psy5134 531 YKVFEWLLDELKIVFRPGPTILNK--VHRKESLRFLVDKHIGDVKTERLTQLRNKFNQEKINFYKKKAEFLEWTM----E 604 (648)
Q Consensus 531 ~~~y~~li~~LgL~y~~pp~~~~~--~tRk~~lr~lt~~~C~~~~~~kL~~~~~~l~~~~~~f~~ek~~~l~~i~----~ 604 (648)
|.|=..+|.++= .-..-|+--.- -+|-..|++.... --+-|.||++ +|..-...|-.+|++.|+..- +
T Consensus 195 f~rN~rLIsei~-SesvVpDvrsVVtt~RMqvlkrQv~S--L~~HQ~KLEa---EL~q~Ee~hq~kKrk~~estdsf~~e 268 (410)
T KOG4715|consen 195 FQRNHRLISEIL-SESVVPDVRSVVTTARMQVLKRQVQS--LMVHQRKLEA---ELLQIEERHQEKKRKFLESTDSFNNE 268 (410)
T ss_pred hhhhhHHHHHHh-ccccccchhhhhhHHHHHHHHHHHHH--HHHHHHHHHH---HHHHHHHHHHHHHHHHHhccHHHHHH
Confidence 555566777653 22222332222 4677777765443 3477888775 343344567777777776443 3
Q ss_pred HHHHhCCCCCCCHHHHHHHHHHHHHHHHHHhhhcC
Q psy5134 605 QEKKYGKEPTVTKEEIESIWKKYEELAEKELEQYE 639 (648)
Q Consensus 605 ee~~~~~~~tvt~~~i~~~~k~~~~~~~~~~~~~~ 639 (648)
=-.-||+-|-|+.|-+.+--+|.+|-.-+|+|.|+
T Consensus 269 LKr~c~~kvevd~eK~~~~i~q~eeq~rkr~eE~~ 303 (410)
T KOG4715|consen 269 LKRLCGLKVEVDMEKMAAEIAQAEEQARKRQEERE 303 (410)
T ss_pred HHHhcCCcccccHHHHHHHHHHHHHHHHHhHhHHH
Confidence 33468999999998887777777777767766554
No 27
>KOG2019|consensus
Probab=31.23 E-value=90 Score=37.79 Aligned_cols=29 Identities=7% Similarity=-0.002 Sum_probs=21.0
Q ss_pred HHHHHHHHHHhhhCCCCchhhHHHHHHHH
Q psy5134 489 TVSIRSLQEHHKAKPLDKRAKVWLKELID 517 (648)
Q Consensus 489 T~rIr~L~eHl~~~~KD~~~kr~L~~li~ 517 (648)
+.||..+-.-++...|+...-+||..+.+
T Consensus 409 ~drieAil~qiEislk~qst~fGL~L~~~ 437 (998)
T KOG2019|consen 409 NDRIEAILHQIEISLKHQSTGFGLSLMQS 437 (998)
T ss_pred hHHHHHHHHHhhhhhhccccchhHHHHHH
Confidence 45777777777777787777788876543
No 28
>PF10587 EF-1_beta_acid: Eukaryotic elongation factor 1 beta central acidic region; InterPro: IPR018940 Translation elongation factors are responsible for two main processes during protein synthesis on the ribosome [, , ]. EF1A (or EF-Tu) is responsible for the selection and binding of the cognate aminoacyl-tRNA to the A-site (acceptor site) of the ribosome. EF2 (or EF-G) is responsible for the translocation of the peptidyl-tRNA from the A-site to the P-site (peptidyl-tRNA site) of the ribosome, thereby freeing the A-site for the next aminoacyl-tRNA to bind. Elongation factors are responsible for achieving accuracy of translation and both EF1A and EF2 are remarkably conserved throughout evolution. Elongation factor EF1B (also known as EF-Ts or EF-1beta/gamma/delta) is a nucleotide exchange factor that is required to regenerate EF1A from its inactive form (EF1A-GDP) to its active form (EF1A-GTP). EF1A is then ready to interact with a new aminoacyl-tRNA to begin the cycle again. EF1B is more complex in eukaryotes than in bacteria, and can consist of three subunits: EF1B-alpha (or EF-1beta), EF1B-gamma (or EF-1gamma) and EF1B-beta (or EF-1delta) []. This region is found in the centre of the beta subunits of Elongation factor-1. More information about these proteins can be found at Protein of the Month: Elongation Factors [].
Probab=30.18 E-value=42 Score=24.29 Aligned_cols=17 Identities=24% Similarity=0.401 Sum_probs=14.4
Q ss_pred HHHHHHHHHHHHHHHHH
Q psy5134 567 KHIGDVKTERLTQLRNK 583 (648)
Q Consensus 567 ~~C~~~~~~kL~~~~~~ 583 (648)
..+.++|++||++|..+
T Consensus 11 ~ea~r~reeRla~y~aK 27 (28)
T PF10587_consen 11 EEAERIREERLAAYAAK 27 (28)
T ss_pred HHHHHHHHHHHHHHHcc
Confidence 46888999999999864
No 29
>KOG2072|consensus
Probab=27.73 E-value=1e+03 Score=29.73 Aligned_cols=135 Identities=16% Similarity=0.125 Sum_probs=74.1
Q ss_pred hHHHHHHHHHHHHHHHHhhhC-CC-CchhhHHHHHHHHHHHHHHHHHHhhCHHHHHHH----HHHcCCcccCCCCCcchh
Q psy5134 482 EVLITKYTVSIRSLQEHHKAK-PL-DKRAKVWLKELIDKRNKHLRLLRTENYKVFEWL----LDELKIVFRPGPTILNKV 555 (648)
Q Consensus 482 EVQIA~LT~rIr~L~eHl~~~-~K-D~~~kr~L~~li~kRrKlLkYLrr~d~~~y~~l----i~~LgL~y~~pp~~~~~~ 555 (648)
.+||+-+...=..|++-|+.- +| |+.-+-.=+.-|--+++-++-..-+|.+-|+-. +...-..+. -+..
T Consensus 669 ~~q~eel~Ke~kElq~rL~~q~KkiDh~ERA~R~EeiPL~e~~~~~~~~~d~e~~e~~Ek~Ri~~~~ae~e-----~~vk 743 (988)
T KOG2072|consen 669 ARQIEELEKERKELQSRLQYQEKKIDHLERAKRLEEIPLIEKAYDERQEEDRELYEAREKQRIEAAIAERE-----SAVK 743 (988)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHhhhhHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHH-----HHHH
Confidence 478888888888888887654 33 776665555667777777777777787777622 222222221 1123
Q ss_pred hhHHHHHHHHHH--HH-------HHHHHHHHHHHHHHHHHhHHhHHHHHHH------HHHHHHHHHHHhCCCCCCCHHHH
Q psy5134 556 HRKESLRFLVDK--HI-------GDVKTERLTQLRNKFNQEKINFYKKKAE------FLEWTMEQEKKYGKEPTVTKEEI 620 (648)
Q Consensus 556 tRk~~lr~lt~~--~C-------~~~~~~kL~~~~~~l~~~~~~f~~ek~~------~l~~i~~ee~~~~~~~tvt~~~i 620 (648)
.++.+.+-+-+. |- ....++||..++++|++++ +-+.|+.+ +.+++|+-|+|-.- -+||+
T Consensus 744 ~k~~l~rm~~d~~~f~e~vk~~rqs~~~e~~~~~ea~leaer-~rl~erk~~R~eerk~~~~re~EEEr~R----r~EEe 818 (988)
T KOG2072|consen 744 DKKRLSRMYDDRDKFKEHVKGERQSEYEEKLKQFEARLEAER-NRLAERKRARIEERKQAYYREIEEERAR----REEEE 818 (988)
T ss_pred HHHHHHHHhhhHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHH-hHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHH
Confidence 333333322211 22 3345677888888888877 44444332 23555544444332 34444
Q ss_pred HHHHHH
Q psy5134 621 ESIWKK 626 (648)
Q Consensus 621 ~~~~k~ 626 (648)
..+.++
T Consensus 819 ~~ae~~ 824 (988)
T KOG2072|consen 819 ANAERQ 824 (988)
T ss_pred HHHHHH
Confidence 444443
No 30
>cd07675 F-BAR_FNBP1L The F-BAR (FES-CIP4 Homology and Bin/Amphiphysin/Rvs) domain of Formin Binding Protein 1-Like. F-BAR domains are dimerization modules that bind and bend membranes and are found in proteins involved in membrane dynamics and actin reorganization. FormiN Binding Protein 1-Like (FNBP1L), also known as Toca-1 (Transducer of Cdc42-dependent actin assembly), forms a complex with neural Wiskott-Aldrich syndrome protein (N-WASP). The FNBP1L/N-WASP complex induces the formation of filopodia and endocytic vesicles. FNBP1L is required for Cdc42-induced actin assembly and is essential for autophagy of intracellular pathogens. It contains an N-terminal F-BAR domain, a central Cdc42-binding HR1 domain, and a C-terminal SH3 domain. F-BAR domains form banana-shaped dimers with a positively-charged concave surface that binds to negatively-charged lipid membranes. They can induce membrane deformation in the form of long tubules.
Probab=26.39 E-value=4.8e+02 Score=27.78 Aligned_cols=78 Identities=15% Similarity=0.233 Sum_probs=55.0
Q ss_pred HHHHHHHHHHHHHHHHHHHhHHhHHHHHHHHHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHHHHHH----------Hhhh
Q psy5134 568 HIGDVKTERLTQLRNKFNQEKINFYKKKAEFLEWTMEQEKKYGKEPTVTKEEIESIWKKYEELAEK----------ELEQ 637 (648)
Q Consensus 568 ~C~~~~~~kL~~~~~~l~~~~~~f~~ek~~~l~~i~~ee~~~~~~~tvt~~~i~~~~k~~~~~~~~----------~~~~ 637 (648)
.|.+.-|.-|+..-..|++.+..|-..-.+.... |.-+..-+..+.+|.++.+.++.+++.-... .|.+
T Consensus 113 ~~~~klqk~l~~~~~~leksKk~Y~~acke~E~A-~~k~~ka~~d~~~tk~~~eK~k~~~~~~~q~~e~aKn~Y~~~L~~ 191 (252)
T cd07675 113 QEGRKAQQYLDMCWKQMDNSKKKFERECREAEKA-QQSYERLDNDTNATKSDVEKAKQQLNLRTHMADESKNEYAAQLQN 191 (252)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHhcccCcccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3445556678888889999999998776665554 5555557778889999999999888765332 2333
Q ss_pred c--CCCccccc
Q psy5134 638 Y--EPPKHYHQ 646 (648)
Q Consensus 638 ~--~~~~~~~~ 646 (648)
+ .-|+|||+
T Consensus 192 ~N~~q~k~Y~e 202 (252)
T cd07675 192 FNGEQHKHFYI 202 (252)
T ss_pred HHHhhHhHHHH
Confidence 3 46788875
No 31
>KOG4409|consensus
Probab=25.51 E-value=53 Score=36.54 Aligned_cols=30 Identities=23% Similarity=0.300 Sum_probs=23.8
Q ss_pred CCCCceEEEecChhhhhhccchHHHHHHhhHHHH
Q psy5134 44 ENLSNLILLSNSISTVVDSNTDALCILALANVVK 77 (648)
Q Consensus 44 ~~L~~~~ligNsf~~~~~~~~~~~~~~~~~~~~~ 77 (648)
..|.+++|+|+||++|. ...|-+++++-|+
T Consensus 157 ~~L~KmilvGHSfGGYL----aa~YAlKyPerV~ 186 (365)
T KOG4409|consen 157 MGLEKMILVGHSFGGYL----AAKYALKYPERVE 186 (365)
T ss_pred cCCcceeEeeccchHHH----HHHHHHhChHhhc
Confidence 47899999999999997 4566677776654
No 32
>KOG4484|consensus
Probab=25.12 E-value=6.2e+02 Score=25.75 Aligned_cols=60 Identities=13% Similarity=0.150 Sum_probs=38.0
Q ss_pred HHHHHHHHHHHHHH------HhHHhHHH-------HHHHHHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHHHHHH
Q psy5134 572 VKTERLTQLRNKFN------QEKINFYK-------KKAEFLEWTMEQEKKYGKEPTVTKEEIESIWKKYEELAEK 633 (648)
Q Consensus 572 ~~~~kL~~~~~~l~------~~~~~f~~-------ek~~~l~~i~~ee~~~~~~~tvt~~~i~~~~k~~~~~~~~ 633 (648)
..+.+|.+++++|+ .+|..|.+ |+.+.+..||.=|+-.. -|-.++.-..+.+|+..+++-
T Consensus 52 e~er~L~~Lk~ql~~~~l~~k~rkif~ryrkVRFFErkKaeR~irrLeK~~k--eS~ad~kd~~i~~qlrk~kid 124 (199)
T KOG4484|consen 52 ELERKLQDLKKQLDNHELLAKERKIFKRYRKVRFFERKKAERSIRRLEKLIK--ESGADVKDKQIQQQLRKLKID 124 (199)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--hhccchhhHHHHHHHHHHHHH
Confidence 34556666666554 34455543 55677888998888777 344455555677888777754
No 33
>PRK01077 cobyrinic acid a,c-diamide synthase; Validated
Probab=23.58 E-value=1.5e+02 Score=33.48 Aligned_cols=78 Identities=15% Similarity=0.116 Sum_probs=50.0
Q ss_pred EEEEcCcCCHH---HHHHHHHcCceEeecCcccccccCCCceEEEccCCCHHHHHHHHHhccCc-C-------CCCcEEE
Q psy5134 215 ILIYDPIFNEL---ELELIEIFKLELIIQNEECKHTITHAKTLVYMPRCPIQLINNILYSNWTR-E-------NLSNLIL 283 (648)
Q Consensus 215 v~iyDPvFt~~---D~~~L~~LG~~Vl~ene~g~~~~~~~~TLfymPHcp~~Ly~nlL~aNws~-~-------~L~~~il 283 (648)
..++||+|+-. +.+.|+..|+++..-++-...... +.-++|+|+....++..-|..|-.. + .=.+++-
T Consensus 249 ava~d~af~f~y~e~~~~L~~~g~~~~~~~~~~~~~l~-~~D~lilpGG~~~~~~~~l~~~~~~~~~i~~~~~~g~~i~a 327 (451)
T PRK01077 249 AVARDAAFNFYYPENLELLRAAGAELVFFSPLADEALP-DCDGLYLGGGYPELFAAELAANTSMRASIRAAAAAGKPIYA 327 (451)
T ss_pred EEEecCcccccHHHHHHHHHHCCCEEEEeCCcCCCCCC-CCCEEEeCCCchhhHHHHHhhCchhHHHHHHHHHcCCCEEE
Confidence 36789999988 999999999998765442111222 2569999999888776655555321 0 0124566
Q ss_pred EecCcchhhc
Q psy5134 284 LSNSISTVVD 293 (648)
Q Consensus 284 iGNsf~~y~~ 293 (648)
+|+++.....
T Consensus 328 iCgG~~~L~~ 337 (451)
T PRK01077 328 ECGGLMYLGE 337 (451)
T ss_pred EcHHHHHHHh
Confidence 6666654443
No 34
>PF05529 Bap31: B-cell receptor-associated protein 31-like ; InterPro: IPR008417 Bap31 is a polytopic integral protein of the endoplasmic reticulum membrane and a substrate of caspase-8. Bap31 is cleaved within its cytosolic domain, generating pro-apoptotic p20 Bap31 [].; GO: 0006886 intracellular protein transport, 0005783 endoplasmic reticulum, 0016021 integral to membrane
Probab=23.35 E-value=1.2e+02 Score=30.17 Aligned_cols=17 Identities=35% Similarity=0.485 Sum_probs=13.8
Q ss_pred CHHHHHHHHHHHHHHHH
Q psy5134 616 TKEEIESIWKKYEELAE 632 (648)
Q Consensus 616 t~~~i~~~~k~~~~~~~ 632 (648)
.+.|++..+||++.+++
T Consensus 173 ~~~~~~~LkkQ~~~l~~ 189 (192)
T PF05529_consen 173 KEKEIEALKKQSEGLQK 189 (192)
T ss_pred HHHHHHHHHHHHHHHHh
Confidence 78888888888887764
No 35
>PF07888 CALCOCO1: Calcium binding and coiled-coil domain (CALCOCO1) like; InterPro: IPR012852 Proteins found in this family are similar to the coiled-coil transcriptional coactivator protein expressed by Mus musculus (CoCoA, Q8CGU1 from SWISSPROT). This protein binds to a highly conserved N-terminal domain of p160 coactivators, such as GRIP1 (Q61026 from SWISSPROT), and thus enhances transcriptional activation by a number of nuclear receptors. CoCoA has a central coiled-coil region with three leucine zipper motifs, which is required for its interaction with GRIP1 and may regulate the autonomous transcriptional activation activity of the C-terminal region [].
Probab=21.36 E-value=1.4e+03 Score=27.26 Aligned_cols=108 Identities=11% Similarity=0.125 Sum_probs=65.9
Q ss_pred CCCCCCHhHHHHHHHHHHHHHHHHhhhC-CCCchhhHHHHHHHHHHHHHHHHHHhhCHHHHHHH--HHHcCCcccCCCCC
Q psy5134 475 DLDDTSREVLITKYTVSIRSLQEHHKAK-PLDKRAKVWLKELIDKRNKHLRLLRTENYKVFEWL--LDELKIVFRPGPTI 551 (648)
Q Consensus 475 ~~DtGS~EVQIA~LT~rIr~L~eHl~~~-~KD~~~kr~L~~li~kRrKlLkYLrr~d~~~y~~l--i~~LgL~y~~pp~~ 551 (648)
....-...++...|-..+|.+++.++.. .+.---+.-|..++..|.+.+.=|.+-..+.=+-. +.+..+.
T Consensus 275 ~~~~~~~~~e~e~LkeqLr~~qe~lqaSqq~~~~L~~EL~~~~~~RDrt~aeLh~aRLe~aql~~qLad~~l~------- 347 (546)
T PF07888_consen 275 ETQAQQLQQENEALKEQLRSAQEQLQASQQEAELLRKELSDAVNVRDRTMAELHQARLEAAQLKLQLADASLE------- 347 (546)
T ss_pred hhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHH-------
Confidence 3344566788888889999999988755 35666778889999999999998888655422211 1222111
Q ss_pred cchhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHH
Q psy5134 552 LNKVHRKESLRFLVDKHIGDVKTERLTQLRNKFNQEKI 589 (648)
Q Consensus 552 ~~~~tRk~~lr~lt~~~C~~~~~~kL~~~~~~l~~~~~ 589 (648)
.+-...+|+-.+-+-.+-.....+++..+..++..-..
T Consensus 348 lke~~~q~~qEk~~l~~~~e~~k~~ie~L~~el~~~e~ 385 (546)
T PF07888_consen 348 LKEGRSQWAQEKQALQHSAEADKDEIEKLSRELQMLEE 385 (546)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHH
Confidence 22233344444444334445555666666666655444
No 36
>PF12128 DUF3584: Protein of unknown function (DUF3584); InterPro: IPR021979 This family consist of uncharacterised bacterial proteins.
Probab=20.65 E-value=1e+03 Score=30.61 Aligned_cols=62 Identities=15% Similarity=0.198 Sum_probs=51.4
Q ss_pred HHHHHHHHHHHHHHHHHHHhHHhHHHHHHHHHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHHHHHH
Q psy5134 568 HIGDVKTERLTQLRNKFNQEKINFYKKKAEFLEWTMEQEKKYGKEPTVTKEEIESIWKKYEELAEK 633 (648)
Q Consensus 568 ~C~~~~~~kL~~~~~~l~~~~~~f~~ek~~~l~~i~~ee~~~~~~~tvt~~~i~~~~k~~~~~~~~ 633 (648)
-.+...+.++++++.++++.+..+-.++.+.-+|...|=..-|+ ..+.|...+++++++.+.
T Consensus 725 ~~~~~~d~~i~~i~~~i~~~~~~~~~~~~~le~~~~~eL~~~Gv----D~~~I~~l~~~i~~L~~~ 786 (1201)
T PF12128_consen 725 ELEAELDEQIEQIKQEIAAAKQEAKEQLKELEQQYNQELAGKGV----DPERIQQLKQEIEQLEKE 786 (1201)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCC----CHHHHHHHHHHHHHHHHH
Confidence 46677888999999999999999999999999999888888998 566677777777766554
No 37
>KOG0250|consensus
Probab=20.57 E-value=1.9e+03 Score=28.27 Aligned_cols=64 Identities=19% Similarity=0.199 Sum_probs=50.5
Q ss_pred HHHHHHHHHHHHHHHHHHHhHHhHHHHHHHHHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHHHHH
Q psy5134 568 HIGDVKTERLTQLRNKFNQEKINFYKKKAEFLEWTMEQEKKYGKEPTVTKEEIESIWKKYEELAE 632 (648)
Q Consensus 568 ~C~~~~~~kL~~~~~~l~~~~~~f~~ek~~~l~~i~~ee~~~~~~~tvt~~~i~~~~k~~~~~~~ 632 (648)
.=++-+|+|++.++++++.++.. .++...++.-|.....+.--++++++++|+.+++-+.-++.
T Consensus 288 ~~i~~~qek~~~l~~ki~~~~~k-~~~~r~k~teiea~i~~~~~e~~~~d~Ei~~~r~~~~~~~r 351 (1074)
T KOG0250|consen 288 EEIKKKQEKVDTLQEKIEEKQGK-IEEARQKLTEIEAKIGELKDEVDAQDEEIEEARKDLDDLRR 351 (1074)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH-HHHHhhhhhHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHH
Confidence 34567899999999999887765 45666777778788888888999999999999887765544
No 38
>PF07946 DUF1682: Protein of unknown function (DUF1682); InterPro: IPR012879 The members of this family are all hypothetical eukaryotic proteins of unknown function. One member (Q920S6 from SWISSPROT) is described as being an adipocyte-specific protein, but no evidence of this was found.
Probab=20.09 E-value=5.9e+02 Score=27.66 Aligned_cols=56 Identities=18% Similarity=0.086 Sum_probs=35.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHhHHhHHHHHHHHHHHHHHHHHHhCCCCCCCHHHHHHHHHH
Q psy5134 567 KHIGDVKTERLTQLRNKFNQEKINFYKKKAEFLEWTMEQEKKYGKEPTVTKEEIESIWKK 626 (648)
Q Consensus 567 ~~C~~~~~~kL~~~~~~l~~~~~~f~~ek~~~l~~i~~ee~~~~~~~tvt~~~i~~~~k~ 626 (648)
+.+.+.|++-.+++.+.-++++.+=..++.+..+=-.++++.-++ |.||.+...++
T Consensus 258 ~K~~k~R~~~~~~~~K~~~~~r~E~~~~~k~e~kr~e~~~~~~~l----speeQrK~eeK 313 (321)
T PF07946_consen 258 KKAKKNREEEEEKILKEAHQERQEEAQEKKEEKKREERERKLSKL----SPEEQRKYEEK 313 (321)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC----CHHHHHHHHHH
Confidence 466778888888888887777776555555554444444444555 66665544433
Done!