Query 013758
Match_columns 437
No_of_seqs 181 out of 1094
Neff 3.3
Searched_HMMs 46136
Date Fri Mar 29 07:06:17 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/013758.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/013758hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PTZ00119 40S ribosomal protein 100.0 4.8E-33 1E-37 270.5 12.7 111 320-430 80-192 (302)
2 TIGR00952 S15_bact ribosomal p 100.0 8.8E-32 1.9E-36 223.5 11.1 83 347-429 2-86 (86)
3 PRK05626 rpsO 30S ribosomal pr 100.0 7.1E-32 1.5E-36 225.2 10.3 84 346-429 4-89 (89)
4 KOG2815 Mitochondrial/cholorop 100.0 1.9E-30 4.1E-35 250.2 7.8 225 206-434 23-255 (256)
5 PF00312 Ribosomal_S15: Riboso 100.0 3.9E-28 8.4E-33 198.8 10.6 80 349-428 2-83 (83)
6 cd00353 Ribosomal_S15p_S13e Ri 99.9 4.2E-28 9E-33 197.7 9.4 77 350-426 2-80 (80)
7 CHL00027 rps15 ribosomal prote 99.9 7.4E-28 1.6E-32 201.8 9.2 71 360-430 15-87 (90)
8 COG0184 RpsO Ribosomal protein 99.9 1.7E-26 3.6E-31 193.3 9.6 82 348-429 6-89 (89)
9 cd00677 S15_NS1_EPRS_RNA-bind 99.4 1.2E-13 2.7E-18 101.7 5.3 44 368-411 1-46 (46)
10 PRK08561 rps15p 30S ribosomal 98.9 9.3E-10 2E-14 100.5 5.3 44 371-414 88-133 (151)
11 KOG2815 Mitochondrial/cholorop 98.4 1.5E-07 3.1E-12 92.4 4.3 116 318-434 60-177 (256)
12 PTZ00072 40S ribosomal protein 93.7 0.12 2.5E-06 48.1 5.0 42 372-413 86-129 (148)
13 KOG2129 Uncharacterized conser 37.9 3E+02 0.0065 30.4 10.5 211 215-433 89-344 (552)
14 KOG0400 40S ribosomal protein 32.6 25 0.00054 32.9 1.5 42 372-413 89-132 (151)
15 PF04288 MukE: MukE-like famil 29.0 50 0.0011 33.1 3.0 50 226-284 82-135 (235)
16 PF03374 ANT: Phage antirepres 27.3 84 0.0018 26.3 3.7 49 367-415 1-50 (111)
17 PF11629 Mst1_SARAH: C termina 25.1 25 0.00055 27.6 0.1 13 258-270 9-21 (49)
18 PF08220 HTH_DeoR: DeoR-like h 24.6 38 0.00083 25.9 1.0 28 402-429 1-28 (57)
19 PF09905 DUF2132: Uncharacteri 20.3 75 0.0016 26.3 1.9 22 225-246 11-32 (64)
20 PF06637 PV-1: PV-1 protein (P 20.1 1.6E+02 0.0036 31.8 4.9 18 73-90 412-430 (442)
No 1
>PTZ00119 40S ribosomal protein S15; Provisional
Probab=100.00 E-value=4.8e-33 Score=270.51 Aligned_cols=111 Identities=27% Similarity=0.344 Sum_probs=107.9
Q ss_pred CCcCCCCchHHHHhhcCcCCCCHHHHHHHHHHHHHHHhccCCCCCCChhHHHHHHHHHHHHHHhhh--CCCCchhhhHHH
Q 013758 320 EYLLHPPKEHLVEKYFHPDNMSSAEKMKIELAKVREEFKMSESDCGSARVQIAQLTTKIKHLSSAL--HKKDKHSRKGLQ 397 (437)
Q Consensus 320 dy~~Lp~k~ElVKRifSLenaS~kEk~K~~kq~iI~kFqrhe~DTGS~EVQIAiLT~RI~~LteHL--nkKD~~SKRgL~ 397 (437)
...+++...|.|+|+|+|+||+.+|+.+.++++||++|+++++||||+|||||+||+||++|++|| |+||+|++|||+
T Consensus 80 ~~e~le~~~p~VkRILsLrNAs~kEi~K~rK~eIIkkfqr~~~DTGS~EVQIAiLTeRI~~LTeHLk~hkKD~~SrRGLl 159 (302)
T PTZ00119 80 QYDDIKHLRKNIINMLHLNCANSKQIHKYKKLCIRRCLQRRPFDTGSAPVQIGCLTEKILNLRAHLILRCKDHPKKRTMS 159 (302)
T ss_pred cccchhhhCHHHHHHhccccCChHHHHHHHHHHHHHHhcCCCCCCCCHHHHHHHHHHHHHHHHHHHHhCCCccHhHHHHH
Confidence 456788899999999999999999999999999999999999999999999999999999999999 999999999999
Q ss_pred HHHHHHHHHHHHHHhcCHHHHHHHHHhcCCCCC
Q 013758 398 AMVQRRKRLLKYLRRTDWDSYCFVLSKLGLRDN 430 (437)
Q Consensus 398 kLV~KRRKLLKYLRrkD~erY~~lI~kLGLR~~ 430 (437)
+||++|+|||+||+++|+++|.+||++||||..
T Consensus 160 kLV~KRRKLLkYLKrkD~erY~~lIkkLGLRkv 192 (302)
T PTZ00119 160 ILLARRQKLMKYLYKTDFELYKHTCNLLKIKCI 192 (302)
T ss_pred HHHHHHHHHHHHHHhcCHHHHHHHHHHhCCceE
Confidence 999999999999999999999999999999974
No 2
>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=8.8e-32 Score=223.46 Aligned_cols=83 Identities=49% Similarity=0.781 Sum_probs=80.0
Q ss_pred HHHHHHHHHHhccCCCCCCChhHHHHHHHHHHHHHHhhh--CCCCchhhhHHHHHHHHHHHHHHHHHhcCHHHHHHHHHh
Q 013758 347 KIELAKVREEFKMSESDCGSARVQIAQLTTKIKHLSSAL--HKKDKHSRKGLQAMVQRRKRLLKYLRRTDWDSYCFVLSK 424 (437)
Q Consensus 347 K~~kq~iI~kFqrhe~DTGS~EVQIAiLT~RI~~LteHL--nkKD~~SKRgL~kLV~KRRKLLKYLRrkD~erY~~lI~k 424 (437)
+.+++++|++|++|+.||||+|||||+||+||++|++|| |+||+|++|||++||++|+|||+||+++|+++|.+||++
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 346789999999999999999999999999999999999 999999999999999999999999999999999999999
Q ss_pred cCCCC
Q 013758 425 LGLRD 429 (437)
Q Consensus 425 LGLR~ 429 (437)
||||.
T Consensus 82 LglR~ 86 (86)
T TIGR00952 82 LGLRR 86 (86)
T ss_pred hCCCC
Confidence 99984
No 3
>PRK05626 rpsO 30S ribosomal protein S15; Reviewed
Probab=99.97 E-value=7.1e-32 Score=225.21 Aligned_cols=84 Identities=45% Similarity=0.742 Sum_probs=80.8
Q ss_pred HHHHHHHHHHHhccCCCCCCChhHHHHHHHHHHHHHHhhh--CCCCchhhhHHHHHHHHHHHHHHHHHhcCHHHHHHHHH
Q 013758 346 MKIELAKVREEFKMSESDCGSARVQIAQLTTKIKHLSSAL--HKKDKHSRKGLQAMVQRRKRLLKYLRRTDWDSYCFVLS 423 (437)
Q Consensus 346 ~K~~kq~iI~kFqrhe~DTGS~EVQIAiLT~RI~~LteHL--nkKD~~SKRgL~kLV~KRRKLLKYLRrkD~erY~~lI~ 423 (437)
.+.+++++|++|++|++||||+|||||+||+||++|++|| |+||++++|||++||++|+|||+||+++|+++|.++|+
T Consensus 4 ~~~~k~~li~~f~~~~~DTGS~eVQiA~LT~rI~~L~~Hlk~~~KD~~srrgL~~lv~kRkrlL~YL~~~d~~~Y~~li~ 83 (89)
T PRK05626 4 TKEKKAEIIKEYGRHEGDTGSPEVQVALLTERINHLTEHLKEHKKDHHSRRGLLKMVGQRRKLLDYLKKKDVERYRALIE 83 (89)
T ss_pred CHHHHHHHHHHHcCCCCCCCCHHHHHHHHHHHHHHHHHHHHHcccchhhHHHHHHHHHhHHHHHHHHHhcCHHHHHHHHH
Confidence 3556789999999999999999999999999999999999 99999999999999999999999999999999999999
Q ss_pred hcCCCC
Q 013758 424 KLGLRD 429 (437)
Q Consensus 424 kLGLR~ 429 (437)
+||||.
T Consensus 84 ~LglR~ 89 (89)
T PRK05626 84 RLGLRR 89 (89)
T ss_pred HhCCCC
Confidence 999984
No 4
>KOG2815 consensus Mitochondrial/choloroplast ribosomal protein S15 [Translation, ribosomal structure and biogenesis]
Probab=99.96 E-value=1.9e-30 Score=250.23 Aligned_cols=225 Identities=34% Similarity=0.389 Sum_probs=196.1
Q ss_pred CCcccccchhhhhHHHHHhhhhhhhHHHhhcChHHHHHHhhhcCCCCc--CCCcchHHHHHHHHHHHHhhhccccccCCC
Q 013758 206 ELPALVFGKEKKEEEKAVELERMKTDFVKMYSFEELGDKLKKLRPEGL--EGGFSLRELNERLMRLRVMEMNESNSKIGA 283 (437)
Q Consensus 206 ~lp~~vfgke~~~~~~~~~~~~~~~~~~~~y~~~elg~kl~~lrp~~~--~~wfsl~el~~rl~kl~~~e~~~~~~~~~g 283 (437)
.||..+++++.....+.+ +++...|++.|..+|||++++.++|.+. +.|||+.+|+.++.|+..+++.+ .+..-
T Consensus 23 ~lp~~~~~~~~~~~~~~e--~e~~~~~Lk~~~~~~lr~k~r~~~~~~~~~es~ksl~~l~~~~~k~~~~~~~e--l~ke~ 98 (256)
T KOG2815|consen 23 LLPKKGGAKEPDNSKGSE--SEKRSLFLKAYRGEELRKKYRDLKPLDKAPESVKSLFQLNPAIEKLDTVEKAE--LSKEV 98 (256)
T ss_pred hccccccccccccccccc--hHHHHHhcccccHHHHhhhhhhccccccCchhhHHHHHhhhhhHHHHHHHHHH--HHHHH
Confidence 678888888877777666 6788999999999999999999999988 99999999999999999999754 33333
Q ss_pred CchhHHhhhHHHHHHHH-HHHh--hhhhhhhhhccCCCCCCcCCCCchHHHHhhcCcCCCCHHHHHHHHHHHHHHH-hcc
Q 013758 284 GTISALRSSLARIQIEK-EEKA--RVQRINILEGFGGTPEYLLHPPKEHLVEKYFHPDNMSSAEKMKIELAKVREE-FKM 359 (437)
Q Consensus 284 ~~~~~~r~~l~~l~~~~-~~k~--~~q~~~~~~~~gg~pdy~~Lp~k~ElVKRifSLenaS~kEk~K~~kq~iI~k-Fqr 359 (437)
..+..+.+++..--.+. +... +.|..+++..++|+++|+.+++..+.|.|||+.+|+++.|+.+++...+... |++
T Consensus 99 ~~~~~~~~~~e~k~~k~t~a~~~d~~~~~~~~~e~~~~~r~~l~~~kr~~~lril~~~n~ss~e~~k~~lk~~~~e~~~~ 178 (256)
T KOG2815|consen 99 KNHKQDNNSLEEKFAKKTAAIRRDTFELEAIIIELSGKIRIKLLIDKREKILRILRRRNLSSFEKIKIKLKLVRKEPFQR 178 (256)
T ss_pred HHHHHHHHHHHHHHHHHHHhccccHHHHhcchhhhhchhhHhhcccHHHHHHHHhhhhccccHHHHHHHHHHhccCCccc
Confidence 34455555554222111 0101 6688888999999999999999999999999999999999999999999999 999
Q ss_pred CCCCCCChhHHHHHHHHHHHHHHhhh--CCCCchhhhHHHHHHHHHHHHHHHHHhcCHHHHHHHHHhcCCCCCCCcc
Q 013758 360 SESDCGSARVQIAQLTTKIKHLSSAL--HKKDKHSRKGLQAMVQRRKRLLKYLRRTDWDSYCFVLSKLGLRDNPDYK 434 (437)
Q Consensus 360 he~DTGS~EVQIAiLT~RI~~LteHL--nkKD~~SKRgL~kLV~KRRKLLKYLRrkD~erY~~lI~kLGLR~~P~y~ 434 (437)
.+.||||++||+|++|.+|+++..|. |+||.+++++|..+|++|+++|+||++.|+++|.+++++||+++.|.|+
T Consensus 179 ~e~dtgs~~vQ~~~~t~~i~~~~r~~~~Hkkd~~~~~~l~~~~qkR~r~Lkyl~~~~~~~y~~~~~kl~~r~~~~lk 255 (256)
T KOG2815|consen 179 FESDTGSAEVQAAFPTVEIRKLSRHEELHKKDQASVRGLRQEVQKRQRALKYLARANRQRYVRTIKKLALRDLPTLK 255 (256)
T ss_pred ccccccchhHhHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCcceeeccccccccchhhhc
Confidence 99999999999999999999999997 9999999999999999999999999999999999999999999998775
No 5
>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=99.95 E-value=3.9e-28 Score=198.83 Aligned_cols=80 Identities=51% Similarity=0.820 Sum_probs=78.1
Q ss_pred HHHHHHHHhccCCCCCCChhHHHHHHHHHHHHHHhhh--CCCCchhhhHHHHHHHHHHHHHHHHHhcCHHHHHHHHHhcC
Q 013758 349 ELAKVREEFKMSESDCGSARVQIAQLTTKIKHLSSAL--HKKDKHSRKGLQAMVQRRKRLLKYLRRTDWDSYCFVLSKLG 426 (437)
Q Consensus 349 ~kq~iI~kFqrhe~DTGS~EVQIAiLT~RI~~LteHL--nkKD~~SKRgL~kLV~KRRKLLKYLRrkD~erY~~lI~kLG 426 (437)
.++++|++|++|++||||+|||||+||+||++|++|+ ||||++++|+|.++|++|+|||+||+++|+++|.++|++||
T Consensus 2 ~k~~~i~~~~~~~~dtgs~evqia~LT~rI~~L~~Hl~~~kkD~~skr~L~~lv~kRrrlL~YLrr~~~~~Y~~~~~~Lg 81 (83)
T PF00312_consen 2 RKQKSIKKFQRHPNDTGSPEVQIAILTERIRNLQEHLKKNKKDKHSKRGLLKLVSKRRRLLKYLRRKDFERYEWVLKKLG 81 (83)
T ss_dssp HHHHHHHHHSSSTTSSSSHHHHHHHHHHHHHHHHHHHHHTTTSHHHHHHHHHHHHHHHHHHHHHHHHTHHHHHHHHHHHT
T ss_pred hHHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHHHHHHHHhccccccceehhHHHHHHHHHHHHHHhCCHHHHHHHHHHhC
Confidence 4688999999999999999999999999999999999 99999999999999999999999999999999999999999
Q ss_pred CC
Q 013758 427 LR 428 (437)
Q Consensus 427 LR 428 (437)
||
T Consensus 82 lr 83 (83)
T PF00312_consen 82 LR 83 (83)
T ss_dssp TT
T ss_pred cC
Confidence 96
No 6
>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=99.95 E-value=4.2e-28 Score=197.66 Aligned_cols=77 Identities=47% Similarity=0.770 Sum_probs=75.4
Q ss_pred HHHHHHHhccCCCCCCChhHHHHHHHHHHHHHHhhh--CCCCchhhhHHHHHHHHHHHHHHHHHhcCHHHHHHHHHhcC
Q 013758 350 LAKVREEFKMSESDCGSARVQIAQLTTKIKHLSSAL--HKKDKHSRKGLQAMVQRRKRLLKYLRRTDWDSYCFVLSKLG 426 (437)
Q Consensus 350 kq~iI~kFqrhe~DTGS~EVQIAiLT~RI~~LteHL--nkKD~~SKRgL~kLV~KRRKLLKYLRrkD~erY~~lI~kLG 426 (437)
+++++++|+++++||||+|||||+||+||++|++|| |+||++++|||.+||++|+|||+||+++|+++|.|+|+.||
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 578999999999999999999999999999999999 99999999999999999999999999999999999999997
No 7
>CHL00027 rps15 ribosomal protein S15
Probab=99.95 E-value=7.4e-28 Score=201.83 Aligned_cols=71 Identities=39% Similarity=0.660 Sum_probs=69.8
Q ss_pred CCCCCCChhHHHHHHHHHHHHHHhhh--CCCCchhhhHHHHHHHHHHHHHHHHHhcCHHHHHHHHHhcCCCCC
Q 013758 360 SESDCGSARVQIAQLTTKIKHLSSAL--HKKDKHSRKGLQAMVQRRKRLLKYLRRTDWDSYCFVLSKLGLRDN 430 (437)
Q Consensus 360 he~DTGS~EVQIAiLT~RI~~LteHL--nkKD~~SKRgL~kLV~KRRKLLKYLRrkD~erY~~lI~kLGLR~~ 430 (437)
+++||||+|||||+||+||++|++|| |+||++++|||++||++|+|||+||+++|+++|+++|++||||+.
T Consensus 15 ~~~DTGS~evQiA~LT~rI~~Lt~Hlk~hkKD~~s~RgL~~lv~kRkrLL~YL~r~d~~~Y~~li~~Lglr~~ 87 (90)
T CHL00027 15 KEENRGSVEFQVFSFTNKIRRLTSHLELHKKDYSSQRGLRKILGKRQRLLAYLSKKNRVRYKKLISQLGIREL 87 (90)
T ss_pred CCCCCCChHHHHHHHHHHHHHHHHHHHHCCCcchhHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHhCCCCC
Confidence 89999999999999999999999999 999999999999999999999999999999999999999999974
No 8
>COG0184 RpsO Ribosomal protein S15P/S13E [Translation, ribosomal structure and biogenesis]
Probab=99.94 E-value=1.7e-26 Score=193.29 Aligned_cols=82 Identities=48% Similarity=0.773 Sum_probs=79.0
Q ss_pred HHHHHHHHHhccCCCCCCChhHHHHHHHHHHHHHHhhh--CCCCchhhhHHHHHHHHHHHHHHHHHhcCHHHHHHHHHhc
Q 013758 348 IELAKVREEFKMSESDCGSARVQIAQLTTKIKHLSSAL--HKKDKHSRKGLQAMVQRRKRLLKYLRRTDWDSYCFVLSKL 425 (437)
Q Consensus 348 ~~kq~iI~kFqrhe~DTGS~EVQIAiLT~RI~~LteHL--nkKD~~SKRgL~kLV~KRRKLLKYLRrkD~erY~~lI~kL 425 (437)
..+++|+++|+.++.||||+|||||+||+||++|++|| ||||+||+|||+.||+||++||+||+++|.++|.|+|+.|
T Consensus 6 ~~k~~l~~eyg~~~~dtgs~evq~a~Lt~ri~~L~~Hlk~hkKD~~srRGL~~~vskrrrLl~Ylk~~~~~~y~~li~~l 85 (89)
T COG0184 6 EIKQELRDEYGIPEVDTGSGEVQLALLTERINNLTEHLKEHKKDHHSRRGLLLLVSKRRRLLKYLKRKDVLRYRWLIKKL 85 (89)
T ss_pred HHHHHHHHHhCCCCCCCCCcHHHHHHHHHHHHHHHHHHHHCCcchhHHHHHHHHHHHHHHHHHHHHhcCcchHHHHHHHh
Confidence 44578999999999999999999999999999999999 9999999999999999999999999999999999999999
Q ss_pred CCCC
Q 013758 426 GLRD 429 (437)
Q Consensus 426 GLR~ 429 (437)
||+.
T Consensus 86 ~lr~ 89 (89)
T COG0184 86 GLRR 89 (89)
T ss_pred hccC
Confidence 9973
No 9
>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=99.44 E-value=1.2e-13 Score=101.74 Aligned_cols=44 Identities=57% Similarity=0.888 Sum_probs=42.9
Q ss_pred hHHHHHHHHHHHHHHhhh--CCCCchhhhHHHHHHHHHHHHHHHHH
Q 013758 368 RVQIAQLTTKIKHLSSAL--HKKDKHSRKGLQAMVQRRKRLLKYLR 411 (437)
Q Consensus 368 EVQIAiLT~RI~~LteHL--nkKD~~SKRgL~kLV~KRRKLLKYLR 411 (437)
|||||+||++|++|++|+ |+||++++|+|.++|++|++||+||+
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 699999999999999999 99999999999999999999999995
No 10
>PRK08561 rps15p 30S ribosomal protein S15P; Reviewed
Probab=98.94 E-value=9.3e-10 Score=100.53 Aligned_cols=44 Identities=36% Similarity=0.618 Sum_probs=42.1
Q ss_pred HHHHHHHHHHHHhhh--CCCCchhhhHHHHHHHHHHHHHHHHHhcC
Q 013758 371 IAQLTTKIKHLSSAL--HKKDKHSRKGLQAMVQRRKRLLKYLRRTD 414 (437)
Q Consensus 371 IAiLT~RI~~LteHL--nkKD~~SKRgL~kLV~KRRKLLKYLRrkD 414 (437)
.-.||+||.+|++|| |+||+|++|||+.+|++|++||+||+++|
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 467999999999999 99999999999999999999999999986
No 11
>KOG2815 consensus Mitochondrial/choloroplast ribosomal protein S15 [Translation, ribosomal structure and biogenesis]
Probab=98.45 E-value=1.5e-07 Score=92.40 Aligned_cols=116 Identities=17% Similarity=0.215 Sum_probs=108.4
Q ss_pred CCCCcCCCCchHHHHhhcCcCCCCHHHHHHHHHHHHHHHhccCCCCCCChhHHHHHHHHHHHHHHhhh--CCCCchhhhH
Q 013758 318 TPEYLLHPPKEHLVEKYFHPDNMSSAEKMKIELAKVREEFKMSESDCGSARVQIAQLTTKIKHLSSAL--HKKDKHSRKG 395 (437)
Q Consensus 318 ~pdy~~Lp~k~ElVKRifSLenaS~kEk~K~~kq~iI~kFqrhe~DTGS~EVQIAiLT~RI~~LteHL--nkKD~~SKRg 395 (437)
+.++.++..+++.|+.+|.+.++..+.....+ +++++..+.|..|.++.|.++|.+|+=|++.+.|+ +..+...+..
T Consensus 60 ~r~~~~~~~~~es~ksl~~l~~~~~k~~~~~~-~el~ke~~~~~~~~~~~e~k~~k~t~a~~~d~~~~~~~~~e~~~~~r 138 (256)
T KOG2815|consen 60 YRDLKPLDKAPESVKSLFQLNPAIEKLDTVEK-AELSKEVKNHKQDNNSLEEKFAKKTAAIRRDTFELEAIIIELSGKIR 138 (256)
T ss_pred hhhccccccCchhhHHHHHhhhhhHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHhccccHHHHhcchhhhhchhh
Confidence 55777778899999999999999999999888 99999999999999999999999999999999998 7888889999
Q ss_pred HHHHHHHHHHHHHHHHhcCHHHHHHHHHhcCCCCCCCcc
Q 013758 396 LQAMVQRRKRLLKYLRRTDWDSYCFVLSKLGLRDNPDYK 434 (437)
Q Consensus 396 L~kLV~KRRKLLKYLRrkD~erY~~lI~kLGLR~~P~y~ 434 (437)
+..++.+|+++|+||++.|..++++++..|.+-+.++|.
T Consensus 139 ~~l~~~kr~~~lril~~~n~ss~e~~k~~lk~~~~e~~~ 177 (256)
T KOG2815|consen 139 IKLLIDKREKILRILRRRNLSSFEKIKIKLKLVRKEPFQ 177 (256)
T ss_pred HhhcccHHHHHHHHhhhhccccHHHHHHHHHHhccCCcc
Confidence 999999999999999999999999999999998876654
No 12
>PTZ00072 40S ribosomal protein S13; Provisional
Probab=93.65 E-value=0.12 Score=48.06 Aligned_cols=42 Identities=33% Similarity=0.419 Sum_probs=37.6
Q ss_pred HHHHHHHHHHHhhh--CCCCchhhhHHHHHHHHHHHHHHHHHhc
Q 013758 372 AQLTTKIKHLSSAL--HKKDKHSRKGLQAMVQRRKRLLKYLRRT 413 (437)
Q Consensus 372 AiLT~RI~~LteHL--nkKD~~SKRgL~kLV~KRRKLLKYLRrk 413 (437)
-.|-.|-.++..|| |+||++++++|...-++=++|.+|.+++
T Consensus 86 y~LikKAv~iRkHLe~n~kD~~sK~~LiLiESkI~RL~rYYk~~ 129 (148)
T PTZ00072 86 YFLIKKAVSIRKHLEKNRKDKDSKFRLILVESRIHRLARYYKRT 129 (148)
T ss_pred HHHHHHHHHHHHHHHHcccchhhhHHHHHHHHHHHHHHHHHhhc
Confidence 45666777889999 9999999999999999999999999777
No 13
>KOG2129 consensus Uncharacterized conserved protein H4 [Function unknown]
Probab=37.93 E-value=3e+02 Score=30.41 Aligned_cols=211 Identities=19% Similarity=0.229 Sum_probs=112.3
Q ss_pred hhhhHHHHHhhhhhhhHHHh-------------hcChHH------HHHHhhhcCCCCc--------CCCcchHHHHHHHH
Q 013758 215 EKKEEEKAVELERMKTDFVK-------------MYSFEE------LGDKLKKLRPEGL--------EGGFSLRELNERLM 267 (437)
Q Consensus 215 e~~~~~~~~~~~~~~~~~~~-------------~y~~~e------lg~kl~~lrp~~~--------~~wfsl~el~~rl~ 267 (437)
+|+-+++.|++--+.+.|.+ .|-.+| |-.||..||-+-. ..-|=+.+|- .
T Consensus 89 ~IQaraeqeeEfisntLlkkiqal~keketla~~Ye~eee~lTn~Lsrkl~qLr~ek~~lEq~leqeqef~vnKlm---~ 165 (552)
T KOG2129|consen 89 EIQARAEQEEEFISNTLLKKIQALFKEKETLATVYEVEEEFLTNPLSRKLKQLRHEKLPLEQLLEQEQEFFVNKLM---N 165 (552)
T ss_pred HHhhccchHHHHHHHHHHHHHHHhhccccccchhhhhhhhhccCchhHHHHHHHhhhccHHHHHHHHHHHHHHHHH---H
Confidence 66666665552333344433 355444 8999999995443 1113333333 3
Q ss_pred HHHHhhhccccccCCCCchhHHhhhHHHHHHH--HHHHh-------hhhhhhhhhccC--CCCCCcC-CCCchHHHHhhc
Q 013758 268 RLRVMEMNESNSKIGAGTISALRSSLARIQIE--KEEKA-------RVQRINILEGFG--GTPEYLL-HPPKEHLVEKYF 335 (437)
Q Consensus 268 kl~~~e~~~~~~~~~g~~~~~~r~~l~~l~~~--~~~k~-------~~q~~~~~~~~g--g~pdy~~-Lp~k~ElVKRif 335 (437)
|++.+|-++ -.+.- ++..||...+.|-.. |++.. .||.|..=.+.= .+ |... -|+.+--|.+|
T Consensus 166 ki~Klen~t--~~kq~-~leQLRre~V~lentlEQEqEalvN~LwKrmdkLe~ekr~Lq~Kl-Dqpvs~p~~prdia~~- 240 (552)
T KOG2129|consen 166 KIRKLENKT--LLKQN-TLEQLRREAVQLENTLEQEQEALVNSLWKRMDKLEQEKRYLQKKL-DQPVSTPSLPRDIAKI- 240 (552)
T ss_pred HHHHhhhhh--HHhhh-hHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-cCcccCCCchhhhhcC-
Confidence 444444332 11111 456677766655422 32221 444443222200 01 1111 14455566666
Q ss_pred CcCCCCHHHHHHHHHHHHHHHhccCCCCCCChhHHHHHHHHHHHHHHhhhCCCCchhhhHHHHHHHHHHHHHHHHHhc--
Q 013758 336 HPDNMSSAEKMKIELAKVREEFKMSESDCGSARVQIAQLTTKIKHLSSALHKKDKHSRKGLQAMVQRRKRLLKYLRRT-- 413 (437)
Q Consensus 336 SLenaS~kEk~K~~kq~iI~kFqrhe~DTGS~EVQIAiLT~RI~~LteHLnkKD~~SKRgL~kLV~KRRKLLKYLRrk-- 413 (437)
.-.++...+-.++-++.+..++-|-..|+.+++-|.-.-+.+.+.=..|+.--.-.-.|-|..-|.+|.-|-+.|...
T Consensus 241 ~~~~gD~a~~~~~hi~~l~~EveRlrt~l~~Aqk~~~ek~~qy~~Ee~~~reen~rlQrkL~~e~erRealcr~lsEses 320 (552)
T KOG2129|consen 241 PDVHGDEAAAEKLHIDKLQAEVERLRTYLSRAQKSYQEKLMQYRAEEVDHREENERLQRKLINELERREALCRMLSESES 320 (552)
T ss_pred ccccCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhH
Confidence 444556666666666666777777677777777665555544433333331222234677778888887777777654
Q ss_pred ----CHHHHHHHHHhcCCCCCCCc
Q 013758 414 ----DWDSYCFVLSKLGLRDNPDY 433 (437)
Q Consensus 414 ----D~erY~~lI~kLGLR~~P~y 433 (437)
|-++|..=.-..|..-...|
T Consensus 321 slemdeery~Ne~~~~g~s~~Va~ 344 (552)
T KOG2129|consen 321 SLEMDEERYLNEFVDFGDSVEVAL 344 (552)
T ss_pred HHHHHHHHHHhhhhccCCceeeec
Confidence 67888887777776544433
No 14
>KOG0400 consensus 40S ribosomal protein S13 [Translation, ribosomal structure and biogenesis]
Probab=32.56 E-value=25 Score=32.90 Aligned_cols=42 Identities=26% Similarity=0.378 Sum_probs=35.2
Q ss_pred HHHHHHHHHHHhhh--CCCCchhhhHHHHHHHHHHHHHHHHHhc
Q 013758 372 AQLTTKIKHLSSAL--HKKDKHSRKGLQAMVQRRKRLLKYLRRT 413 (437)
Q Consensus 372 AiLT~RI~~LteHL--nkKD~~SKRgL~kLV~KRRKLLKYLRrk 413 (437)
--|-.|-..+..|| |+||+.++-.|...-++=.+|-+|.+++
T Consensus 89 y~likkAv~iRkHLer~RKD~d~K~RLILveSRihRlARYYk~~ 132 (151)
T KOG0400|consen 89 YHLIKKAVAIRKHLERNRKDKDAKFRLILVESRIHRLARYYKTK 132 (151)
T ss_pred HHHHHHHHHHHHHHHHhccccccceEEEeehHHHHHHHHHHHhc
Confidence 45566777888999 9999999999988878888898998876
No 15
>PF04288 MukE: MukE-like family; InterPro: IPR007385 This family contains MukE, which are proteins involved in the segregation and condensation of prokaryotic chromosomes. MukE along with MukF (IPR005582 from INTERPRO) interact with MukB (IPR007406 from INTERPRO) in vivo forming a complex, which is required for chromosome condensation and segregation in Escherichia coli []. The Muk complex appears to be similar to the SMC-ScpA-ScpB complex in other prokaryotes where MukB is the homologue of SMC []. ScpA (IPR003768 from INTERPRO) and ScpB (IPR005234 from INTERPRO) have little sequence similarity to MukE or MukF, though they are predicted to be structurally similar, being predominantly alpha-helical with coiled coil regions. ; GO: 0007059 chromosome segregation, 0030261 chromosome condensation, 0005737 cytoplasm; PDB: 3EUK_M 3EUH_D 3RPU_Z.
Probab=28.99 E-value=50 Score=33.11 Aligned_cols=50 Identities=36% Similarity=0.394 Sum_probs=30.5
Q ss_pred hhhhhHHHhhcChHHHHHHhhhcCCCCc--CCCcchHHHHHHHHHHHHhhh--ccccccCCCC
Q 013758 226 ERMKTDFVKMYSFEELGDKLKKLRPEGL--EGGFSLRELNERLMRLRVMEM--NESNSKIGAG 284 (437)
Q Consensus 226 ~~~~~~~~~~y~~~elg~kl~~lrp~~~--~~wfsl~el~~rl~kl~~~e~--~~~~~~~~g~ 284 (437)
-+|.+..+=-|- -|-|+-. .+||+.+||.+||.-|..=++ +-...+.+|.
T Consensus 82 LdMlVGkvLc~L---------yLsperLa~~gift~qeL~eeLl~ladE~kLlklvn~R~~Gs 135 (235)
T PF04288_consen 82 LDMLVGKVLCYL---------YLSPERLAHEGIFTQQELYEELLSLADEEKLLKLVNQRSGGS 135 (235)
T ss_dssp CCCHHHHCCCCC---------CCSTCCHHHTTEEECHHHHHHHHHHS-HHHHHHCCSSS-SS-
T ss_pred HHHHHHHHHHHH---------hcCHHHHhcCCceeHHHHHHHHHHhhCHHHHHHHhcCCCCcc
Confidence 456655554443 3677755 999999999999987654221 1134666673
No 16
>PF03374 ANT: Phage antirepressor protein KilAC domain; InterPro: IPR005039 This entry is represented by Bacteriophage P1, Ant1 C-terminal domain, which represents the processed Ant2 chain. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. Prophages P1 and P7 exist as unit copy DNA plasmids in the bacterial cell. Maintenance of the prophage state requires the continuous expression of two repressors: (i) C1 is a protein which negatively regulates the expression of lytic genes including the C1 inactivator gene coi, and (ii) C4 is an antisense RNA which specifically inhibits the synthesis of an anti-repressor Ant.; GO: 0003677 DNA binding
Probab=27.31 E-value=84 Score=26.34 Aligned_cols=49 Identities=20% Similarity=0.418 Sum_probs=39.7
Q ss_pred hhHHHHHHHHHHHHHHhhhCCCCchhhhHHHHHHH-HHHHHHHHHHhcCH
Q 013758 367 ARVQIAQLTTKIKHLSSALHKKDKHSRKGLQAMVQ-RRKRLLKYLRRTDW 415 (437)
Q Consensus 367 ~EVQIAiLT~RI~~LteHLnkKD~~SKRgL~kLV~-KRRKLLKYLRrkD~ 415 (437)
.|.||+.+.-|+..+-.+++..|..+-+..-++++ .+++|.++|+..++
T Consensus 1 le~~i~~~~PKa~~~d~~~~~~~~~ti~~~AK~L~i~~~~l~~~Lr~~g~ 50 (111)
T PF03374_consen 1 LEAQIAELAPKAEFYDAFVDSDGLYTIREAAKLLGIGRNKLFQWLREKGW 50 (111)
T ss_pred ChHHHHHcChhhHHHHHHHcCCCCccHHHHHHHhCCCHHHHHHHHHhCCc
Confidence 47899999999999999997678777777777764 57888899988764
No 17
>PF11629 Mst1_SARAH: C terminal SARAH domain of Mst1; InterPro: IPR024205 The SARAH (Sav/Rassf/Hpo) domain is found at the C terminus in three classes of eukaryotic tumour suppressors that give the domain its name. In the Sav (Salvador) and Hpo (Hippo) families, the SARAH domain mediates signal transduction from Hpo via the Sav scaffolding protein to the downstream component Wts (Warts); the phosphorylation of Wts by Hpo triggers cell cycle arrest and apoptosis by down-regulating cyclin E, Diap 1 and other targets []. The SARAH domain is also involved in dimerisation, as in the human Hpo orthologue, Mst1, which homodimerises via its C-terminal SARAH domain. The SARAH domain is found associated with other domains, such as protein kinase domains, WW/rsp5/WWP domain (IPR001202 from INTERPRO), C1 domain (IPR002219 from INTERPRO), LIM domain (IPR001781 from INTERPRO), or the Ras-associating (RA) domain (IPR000159 from INTERPRO).; GO: 0004674 protein serine/threonine kinase activity; PDB: 2JO8_A.
Probab=25.10 E-value=25 Score=27.63 Aligned_cols=13 Identities=46% Similarity=0.618 Sum_probs=6.2
Q ss_pred chHHHHHHHHHHH
Q 013758 258 SLRELNERLMRLR 270 (437)
Q Consensus 258 sl~el~~rl~kl~ 270 (437)
|+.||++||+-|-
T Consensus 9 s~~eL~~rl~~LD 21 (49)
T PF11629_consen 9 SYEELQQRLASLD 21 (49)
T ss_dssp -HHHHHHHHHHHH
T ss_pred CHHHHHHHHHhCC
Confidence 4455555555553
No 18
>PF08220 HTH_DeoR: DeoR-like helix-turn-helix domain; InterPro: IPR001034 The deoR-type HTH domain is a DNA-binding, helix-turn-helix (HTH) domain of about 50-60 amino acids present in transcription regulators of the deoR family, involved in sugar catabolism. This family of prokaryotic regulators is named after the Escherichia coli protein DeoR, a repressor of the deo operon, which encodes nucleotide and deoxyribonucleotide catabolic enzymes. DeoR also negatively regulates the expression of nupG and tsx, a nucleoside-specific transport protein and a channel-forming protein, respectively. DeoR-like transcription repressors occur in diverse bacteria as regulators of sugar and nucleoside metabolic systems. The effector molecules for deoR-like regulators are generally phosphorylated intermediates of the relevant metabolic pathway. The DNA-binding deoR-type HTH domain occurs usually in the N-terminal part. The C-terminal part can contain an effector-binding domain and/or an oligomerisation domain. DeoR occurs as an octamer, whilst glpR and agaR are tetramers. Several operators may be bound simultaneously, which could facilitate DNA looping [, ].; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular
Probab=24.61 E-value=38 Score=25.94 Aligned_cols=28 Identities=18% Similarity=0.328 Sum_probs=24.7
Q ss_pred HHHHHHHHHHhcCHHHHHHHHHhcCCCC
Q 013758 402 RRKRLLKYLRRTDWDSYCFVLSKLGLRD 429 (437)
Q Consensus 402 KRRKLLKYLRrkD~erY~~lI~kLGLR~ 429 (437)
++.++|.||+..+.-....+.+.||+..
T Consensus 1 R~~~Il~~l~~~~~~s~~ela~~~~VS~ 28 (57)
T PF08220_consen 1 RQQQILELLKEKGKVSVKELAEEFGVSE 28 (57)
T ss_pred CHHHHHHHHHHcCCEEHHHHHHHHCcCH
Confidence 4789999999999999999999999854
No 19
>PF09905 DUF2132: Uncharacterized conserved protein (DUF2132); InterPro: IPR018668 This entry contains proteins that have no known function. ; PDB: 2JVW_A.
Probab=20.27 E-value=75 Score=26.32 Aligned_cols=22 Identities=41% Similarity=0.862 Sum_probs=18.3
Q ss_pred hhhhhhHHHhhcChHHHHHHhh
Q 013758 225 LERMKTDFVKMYSFEELGDKLK 246 (437)
Q Consensus 225 ~~~~~~~~~~~y~~~elg~kl~ 246 (437)
++.+-++++..|..++||+.+.
T Consensus 11 Le~il~~Lv~~yGW~~L~~~i~ 32 (64)
T PF09905_consen 11 LETILTELVEHYGWEELGERIN 32 (64)
T ss_dssp HHHHHHHHHHHT-HHHHHHHTT
T ss_pred HHHHHHHHHHHhCHHHHHhhcc
Confidence 3678899999999999999875
No 20
>PF06637 PV-1: PV-1 protein (PLVAP); InterPro: IPR009538 This family consists of several PV-1 (PLVAP) proteins, which seem to be specific to mammals. PV-1 is a novel protein component of the endothelial fenestral and stomatal diaphragms []. The function of this family is unknown.
Probab=20.07 E-value=1.6e+02 Score=31.84 Aligned_cols=18 Identities=44% Similarity=0.632 Sum_probs=11.8
Q ss_pred CCCCCCHHHHHHHH-HHhh
Q 013758 73 PSKVASLEEIRRNL-AEFR 90 (437)
Q Consensus 73 ~~~~as~~dIrrnL-~eFR 90 (437)
|--.+++||.+|-+ ++.|
T Consensus 412 pidp~~leefkrrilesqr 430 (442)
T PF06637_consen 412 PIDPASLEEFKRRILESQR 430 (442)
T ss_pred CCChHHHHHHHHHHHhccC
Confidence 44457889987665 4555
Done!