Query psy14535
Match_columns 155
No_of_seqs 106 out of 341
Neff 4.1
Searched_HMMs 46136
Date Fri Aug 16 22:21:09 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy14535.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/14535hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PTZ00159 60S ribosomal protein 100.0 7.5E-68 1.6E-72 411.2 10.1 132 24-155 2-133 (133)
2 KOG0878|consensus 100.0 4.7E-65 1E-69 389.0 1.7 124 22-145 1-124 (124)
3 PF01655 Ribosomal_L32e: Ribos 100.0 1.7E-60 3.6E-65 360.0 7.0 110 36-145 1-110 (110)
4 cd00513 Ribosomal_L32_L32e Rib 100.0 1.9E-59 4.1E-64 353.0 8.9 107 38-144 1-107 (107)
5 PRK08562 rpl32e 50S ribosomal 100.0 1E-58 2.3E-63 356.9 9.0 113 32-146 12-124 (125)
6 PRK12766 50S ribosomal protein 100.0 7.6E-54 1.6E-58 357.6 9.0 112 34-147 113-224 (232)
7 COG1717 RPL32 Ribosomal protei 100.0 9.4E-54 2E-58 331.2 -0.9 125 23-149 7-132 (133)
8 COG1458 Predicted DNA-binding 67.9 3.4 7.4E-05 35.2 1.8 43 98-146 158-200 (221)
9 PF09894 DUF2121: Uncharacteri 47.6 16 0.00035 30.7 2.4 32 102-144 31-62 (194)
10 PF01248 Ribosomal_L7Ae: Ribos 43.1 84 0.0018 21.8 5.3 49 98-146 16-65 (95)
11 PTZ00106 60S ribosomal protein 41.4 75 0.0016 23.8 5.0 39 105-144 34-72 (108)
12 PF08745 UPF0278: UPF0278 fami 39.0 15 0.00032 31.2 1.0 46 96-147 149-194 (205)
13 PRK13602 putative ribosomal pr 36.0 1.2E+02 0.0027 21.3 5.2 38 109-146 23-60 (82)
14 PRK01018 50S ribosomal protein 34.4 1.2E+02 0.0027 22.0 5.2 39 105-144 25-63 (99)
15 PRK12360 4-hydroxy-3-methylbut 31.7 97 0.0021 27.1 4.9 26 120-149 76-101 (281)
16 PRK01045 ispH 4-hydroxy-3-meth 30.2 1E+02 0.0022 27.2 4.7 46 98-147 39-96 (298)
17 TIGR01019 sucCoAalpha succinyl 29.3 1.2E+02 0.0026 26.3 5.0 35 113-147 88-122 (286)
18 PF01408 GFO_IDH_MocA: Oxidore 27.4 1.2E+02 0.0026 21.1 4.0 37 105-143 54-90 (120)
19 PRK06683 hypothetical protein; 26.7 2.2E+02 0.0047 20.2 5.2 41 105-146 20-60 (82)
20 PRK05678 succinyl-CoA syntheta 25.8 1.5E+02 0.0032 25.8 5.0 35 113-147 90-124 (291)
21 TIGR00431 TruB tRNA pseudourid 25.2 1.5E+02 0.0033 24.8 4.8 57 56-119 8-70 (209)
22 PF13727 CoA_binding_3: CoA-bi 25.1 1E+02 0.0022 22.4 3.4 45 98-142 126-171 (175)
23 PRK06091 membrane protein FdrA 24.6 1.3E+02 0.0029 28.9 4.8 67 79-147 104-175 (555)
24 PF12431 CitT: Transcriptional 24.5 32 0.00069 20.4 0.5 9 55-63 21-29 (30)
25 PRK13601 putative L7Ae-like ri 23.8 2.7E+02 0.0058 19.9 5.3 41 105-146 17-57 (82)
26 TIGR03677 rpl7ae 50S ribosomal 23.3 2.6E+02 0.0056 20.9 5.3 48 98-145 27-75 (117)
27 PF07988 LMSTEN: LMSTEN motif; 22.3 49 0.0011 22.1 1.1 12 101-112 29-40 (48)
28 PRK02193 truB tRNA pseudouridi 20.3 1.9E+02 0.004 25.3 4.5 58 56-120 6-69 (279)
29 PRK01528 truB tRNA pseudouridi 20.2 2.1E+02 0.0045 25.2 4.8 58 56-120 9-72 (292)
No 1
>PTZ00159 60S ribosomal protein L32; Provisional
Probab=100.00 E-value=7.5e-68 Score=411.20 Aligned_cols=132 Identities=62% Similarity=1.019 Sum_probs=130.3
Q ss_pred ecCCCCCccccccCCCcccccccccccccccccCCccCCcchhhhccCCcCCCCCCCCCCccccccCCCCceEEEEechh
Q psy14535 24 IKPVYRPKIVKKRRKVFIRHQSDRYKKLHRSWRKPKGIDNRVRRRFKGQYLMPNIGYGSAKKTRHMLPNHFLKVVVHNVK 103 (155)
Q Consensus 24 ~~pl~k~kivKKr~~kF~R~~sdr~~rvk~sWRKPrGiDnkvRrr~kG~~~mP~iGYgS~k~tR~l~PsGf~~vlV~Nvk 103 (155)
+.|+++++|+||++++|+|||||+|+||++|||||+||||+||++|+|+++||+||||||++|||||||||++|+|||++
T Consensus 2 ~~p~~~~~ivkkr~~kF~R~~s~ry~rl~~sWRKPrGiDnkvRrr~kG~~~mp~iGYgS~k~tR~l~PsG~~~vlV~N~k 81 (133)
T PTZ00159 2 VKPKVKKKIVKKRTKKFTRFQSERFPRVKPSWRKPRGIDNRVRRRFKGTRLMPKIGYGSDKKTRYLLPSGFYKFPVRNVK 81 (133)
T ss_pred CCCccccccccccCCcccccchhhccccccccCCCCCcccchhccccCccCCCcCccCCChhhcccCCCCCeeEEecCHH
Confidence 46999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhHHHhhcCcceEEEeecCCccccHHHHHHHHHHcCCceecCCcceeecccC
Q psy14535 104 ELEVLMMQNRKYCAEIGHAVSSKKRRDIVQRAQQLSIRLTNGNARIRTEENE 155 (155)
Q Consensus 104 eLe~L~m~n~~~aaeIAh~Vg~kkR~~I~erA~el~ikV~N~~arl~~ee~e 155 (155)
|||.|+|||++|||||||+||++||++|+++|+||||+|+||+|||++||+|
T Consensus 82 eLe~L~m~~~~~aa~Ia~~Vg~rKR~~I~~rA~eL~ikV~N~~arl~~ee~e 133 (133)
T PTZ00159 82 DLEMLLMHNRKYAAEIAHNVSARKRKAIVERAKELNVRVLNGNARLRKEEKE 133 (133)
T ss_pred HHHHHhcCCcceEEEEecccccchHHHHHHHHHHhCCcccCCCcccchhhcC
Confidence 9999999999999999999999999999999999999999999999999987
No 2
>KOG0878|consensus
Probab=100.00 E-value=4.7e-65 Score=388.98 Aligned_cols=124 Identities=72% Similarity=1.161 Sum_probs=121.8
Q ss_pred eeecCCCCCccccccCCCcccccccccccccccccCCccCCcchhhhccCCcCCCCCCCCCCccccccCCCCceEEEEec
Q psy14535 22 MSIKPVYRPKIVKKRRKVFIRHQSDRYKKLHRSWRKPKGIDNRVRRRFKGQYLMPNIGYGSAKKTRHMLPNHFLKVVVHN 101 (155)
Q Consensus 22 ~~~~pl~k~kivKKr~~kF~R~~sdr~~rvk~sWRKPrGiDnkvRrr~kG~~~mP~iGYgS~k~tR~l~PsGf~~vlV~N 101 (155)
|+++||++|||+||++++|+|||||+|++++++||||+||||+|||||+|+++||+||||||++||||+||||++|+|||
T Consensus 1 ~~~~pl~~~kivkkr~kkFirh~sdry~~v~~~WrkPrGiDnrVrRRFkgqilMPnIgYgsnKkTrh~lP~G~~kflv~n 80 (124)
T KOG0878|consen 1 ATMRPLVKPKIVKKRTKKFIRHQSDRYVRVKESWRKPRGIDNRVRRRFKGQILMPNIGYGSNKKTRHMLPNGFKKFLVHN 80 (124)
T ss_pred CCCccccccHHHHHhcccccccccchhhhhhhhccCCCcchhHHHHHhccceeccccccCCCccceecCChhhhHHhhhh
Confidence 45679999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhhhHHHhhcCcceEEEeecCCccccHHHHHHHHHHcCCceecC
Q psy14535 102 VKELEVLMMQNRKYCAEIGHAVSSKKRRDIVQRAQQLSIRLTNG 145 (155)
Q Consensus 102 vkeLe~L~m~n~~~aaeIAh~Vg~kkR~~I~erA~el~ikV~N~ 145 (155)
|+|||+|+|||++|||||||+||++||++|+|||+||||+|||+
T Consensus 81 vkele~Llm~nk~YcaEIAhnVsak~r~~Ivera~qL~i~vtn~ 124 (124)
T KOG0878|consen 81 VKELEVLLMHNKTYCAEIAHNVSAKKRKAIVERAAQLGIRVTNR 124 (124)
T ss_pred hhHHHHHHHhhHHHHHHHhhccccccHHHHHHHHHhhceeccCC
Confidence 99999999999999999999999999999999999999999996
No 3
>PF01655 Ribosomal_L32e: Ribosomal protein L32; InterPro: IPR001515 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 [, ]. The L32e family consists of proteins that have 135 to 240 amino-acid residues.; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 3O58_b 3IZS_h 1S1I 3O5H_b 2ZKR_y 1Q7Y_Z 1VQ7_Y 3CCQ_Y 3CCV_Y 3CC7_Y ....
Probab=100.00 E-value=1.7e-60 Score=360.03 Aligned_cols=110 Identities=67% Similarity=1.087 Sum_probs=86.5
Q ss_pred cCCCcccccccccccccccccCCccCCcchhhhccCCcCCCCCCCCCCccccccCCCCceEEEEechhhhHHHhhcCcce
Q psy14535 36 RRKVFIRHQSDRYKKLHRSWRKPKGIDNRVRRRFKGQYLMPNIGYGSAKKTRHMLPNHFLKVVVHNVKELEVLMMQNRKY 115 (155)
Q Consensus 36 r~~kF~R~~sdr~~rvk~sWRKPrGiDnkvRrr~kG~~~mP~iGYgS~k~tR~l~PsGf~~vlV~NvkeLe~L~m~n~~~ 115 (155)
+|++|+|||||+|+||++|||||+||||++|++|+|+++||+||||||++|||||||||++|+||||+|||.|+|||++|
T Consensus 1 k~~~F~R~~s~r~~rl~~sWRKPrGiDnk~Rrr~kG~~~mp~iGYgs~k~tR~l~PsG~~~~lV~n~~eLe~L~m~~~~~ 80 (110)
T PF01655_consen 1 KTKKFIRHQSDRYKRLKDSWRKPRGIDNKVRRRFKGKPLMPNIGYGSPKKTRGLHPSGFRKVLVHNVKELEVLLMDNKSY 80 (110)
T ss_dssp --S--B-TTTTTSTTS-SS-----SSS-TCCHT-TTS---S-GCGS--TTTTTB-TTSSEEEEESSHHHHHHCHHHTTTE
T ss_pred CCCcccccccccccccccccCCCCcccCcceeeecCccCccccccCCCccccccCCCCCeEEEEeccchHHHHhcCCcce
Confidence 58999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred EEEeecCCccccHHHHHHHHHHcCCceecC
Q psy14535 116 CAEIGHAVSSKKRRDIVQRAQQLSIRLTNG 145 (155)
Q Consensus 116 aaeIAh~Vg~kkR~~I~erA~el~ikV~N~ 145 (155)
||||||+||+|||++|+|+|+||||+|+||
T Consensus 81 ~~~Ia~~Vg~kkr~~I~erA~el~ikV~N~ 110 (110)
T PF01655_consen 81 AAEIAHNVGSKKRKEIVERAAELGIKVLNP 110 (110)
T ss_dssp EEEE-TTS-HHHHHHHHHHHHHHT-EBSSH
T ss_pred EEEEecCcccccHHHHHHHHHHhCCcccCC
Confidence 999999999999999999999999999996
No 4
>cd00513 Ribosomal_L32_L32e Ribosomal_L32_L32e: L32 is a protein from the large subunit that contains a surface-exposed globular domain and a finger-like projection that extends into the RNA core to stabilize the tertiary structure. L32 does not appear to play a role in forming the A (aminacyl), P (peptidyl) or E (exit) sites of the ribosome, but does interact with 23S rRNA, which has a "kink-turn" secondary structure motif. L32 is overexpressed in human prostate cancer and has been identified as a stably expressed housekeeping gene in macrophages of human chronic obstructive pulmonary disease (COPD) patients. In Schizosaccharomyces pombe, L32 has also been suggested to play a role as a transcriptional regulator in the nucleus. Found in archaea and eukaryotes, this protein is known as L32 in eukaryotes and L32e in archaea.
Probab=100.00 E-value=1.9e-59 Score=353.03 Aligned_cols=107 Identities=64% Similarity=1.047 Sum_probs=106.1
Q ss_pred CCcccccccccccccccccCCccCCcchhhhccCCcCCCCCCCCCCccccccCCCCceEEEEechhhhHHHhhcCcceEE
Q psy14535 38 KVFIRHQSDRYKKLHRSWRKPKGIDNRVRRRFKGQYLMPNIGYGSAKKTRHMLPNHFLKVVVHNVKELEVLMMQNRKYCA 117 (155)
Q Consensus 38 ~kF~R~~sdr~~rvk~sWRKPrGiDnkvRrr~kG~~~mP~iGYgS~k~tR~l~PsGf~~vlV~NvkeLe~L~m~n~~~aa 117 (155)
++|.|||||+|+||++|||||+||||+||++|+|+++||+||||||++|||||||||++|+|||++|||+|+|||++|||
T Consensus 1 ~kF~R~~s~r~~rl~~sWRkPrGiDnkvRrr~kg~~~mp~iGYgS~k~tR~l~PsG~~~~lV~N~~eLe~l~~~n~~~~a 80 (107)
T cd00513 1 KKFKRHQSDRYKRLGDSWRKPRGIDNKVRRRFKGKPAMPKIGYGSPKKTRGLHPSGFKKVLVHNVKELEVLDMHNRTYAA 80 (107)
T ss_pred CCccccchhcccccccccCCCCCcccchhccccCCCCCCcccCCCChhhcccCCCCCeEEEecCHHHHHHHhccCCeeEE
Confidence 58999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred EeecCCccccHHHHHHHHHHcCCceec
Q psy14535 118 EIGHAVSSKKRRDIVQRAQQLSIRLTN 144 (155)
Q Consensus 118 eIAh~Vg~kkR~~I~erA~el~ikV~N 144 (155)
||||+||+|||++|+++|+||||+|+|
T Consensus 81 ~Ia~~Vg~rKR~~I~~rA~el~ikV~N 107 (107)
T cd00513 81 RIAHTVGARKRKEIVERAKELGIKVLN 107 (107)
T ss_pred EEecccccchHHHHHHHHHHhCCcccC
Confidence 999999999999999999999999998
No 5
>PRK08562 rpl32e 50S ribosomal protein L32e; Validated
Probab=100.00 E-value=1e-58 Score=356.93 Aligned_cols=113 Identities=36% Similarity=0.685 Sum_probs=111.0
Q ss_pred cccccCCCcccccccccccccccccCCccCCcchhhhccCCcCCCCCCCCCCccccccCCCCceEEEEechhhhHHHhhc
Q psy14535 32 IVKKRRKVFIRHQSDRYKKLHRSWRKPKGIDNRVRRRFKGQYLMPNIGYGSAKKTRHMLPNHFLKVVVHNVKELEVLMMQ 111 (155)
Q Consensus 32 ivKKr~~kF~R~~sdr~~rvk~sWRKPrGiDnkvRrr~kG~~~mP~iGYgS~k~tR~l~PsGf~~vlV~NvkeLe~L~m~ 111 (155)
.+||++++|.|||||+|++|++|||||+||||+||++|+|+++||+||||||++|||||||||++|+||||+|||.| |
T Consensus 12 ~~kkk~~kF~R~~s~r~~rl~~sWRKPrGiDnkvRrr~kg~~~mp~iGYgS~k~tR~l~PsG~~~vlV~N~keLe~l--~ 89 (125)
T PRK08562 12 KLKRKKPEFKRQDWHRYKRLGDKWRRPRGLDSKMRLKLKGKPAIVEVGYRSPKAVRGLHPSGYEEVLVHNVKELEKL--D 89 (125)
T ss_pred HhhccCCCcccccccccccccccCCCCCCcccchhccccCCCCCCcCCcCCChhhcccCCCCCeeEEecCHHHhhhc--c
Confidence 56899999999999999999999999999999999999999999999999999999999999999999999999999 8
Q ss_pred CcceEEEeecCCccccHHHHHHHHHHcCCceecCC
Q psy14535 112 NRKYCAEIGHAVSSKKRRDIVQRAQQLSIRLTNGN 146 (155)
Q Consensus 112 n~~~aaeIAh~Vg~kkR~~I~erA~el~ikV~N~~ 146 (155)
|++|||||||+||++||++|+++|+||||+|+||.
T Consensus 90 ~~~~aa~Ia~~Vg~rKR~~I~~rA~el~ikV~N~~ 124 (125)
T PRK08562 90 PETQAARIASTVGKRKRLEILKKARELGIKVLNPG 124 (125)
T ss_pred CCceEEEEeccccchhHHHHHHHHHHhCCcccCCC
Confidence 99999999999999999999999999999999996
No 6
>PRK12766 50S ribosomal protein L32e; Provisional
Probab=100.00 E-value=7.6e-54 Score=357.56 Aligned_cols=112 Identities=28% Similarity=0.433 Sum_probs=109.6
Q ss_pred cccCCCcccccccccccccccccCCccCCcchhhhccCCcCCCCCCCCCCccccccCCCCceEEEEechhhhHHHhhcCc
Q psy14535 34 KKRRKVFIRHQSDRYKKLHRSWRKPKGIDNRVRRRFKGQYLMPNIGYGSAKKTRHMLPNHFLKVVVHNVKELEVLMMQNR 113 (155)
Q Consensus 34 KKr~~kF~R~~sdr~~rvk~sWRKPrGiDnkvRrr~kG~~~mP~iGYgS~k~tR~l~PsGf~~vlV~NvkeLe~L~m~n~ 113 (155)
++++|+|+|||||+|+||++|||||+||||+||++|+|+++||+||||||++|||||||||++|+||||+|||+| ||+
T Consensus 113 ~~~~p~F~R~~~~r~~r~~~sWRkPrGidnk~Rr~~kg~~~mp~iGYgS~k~~R~l~PsG~~~vlV~N~~eLe~l--~~~ 190 (232)
T PRK12766 113 REGKPQFNRQDYHKKKRTPTSWRRPRGGLSKQRRGIKGKGDTVEAGFRTPTAVRGKHPSGFEEVRVHNTDDLEGV--DGD 190 (232)
T ss_pred hccCCCeecccccccccccccCCCCCCCccchhcccCCCCCCCcCCCCCChhhcccCCCCCeeEEecCHHHHhhc--cCc
Confidence 567899999999999999999999999999999999999999999999999999999999999999999999999 899
Q ss_pred ceEEEeecCCccccHHHHHHHHHHcCCceecCCc
Q psy14535 114 KYCAEIGHAVSSKKRRDIVQRAQQLSIRLTNGNA 147 (155)
Q Consensus 114 ~~aaeIAh~Vg~kkR~~I~erA~el~ikV~N~~a 147 (155)
+|||+|||+||+|||++|+++|+||||+|+||+-
T Consensus 191 ~~aa~Ia~~Vg~rKR~~I~erA~el~ikV~N~~~ 224 (232)
T PRK12766 191 TEAVRIASKVGARKRERIEEVAEEQGIRVLNPTY 224 (232)
T ss_pred ceEEEeeccccchhHHHHHHHHHHhCCcccCCCc
Confidence 9999999999999999999999999999999984
No 7
>COG1717 RPL32 Ribosomal protein L32E [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=9.4e-54 Score=331.20 Aligned_cols=125 Identities=40% Similarity=0.695 Sum_probs=116.6
Q ss_pred eecCCCCCccccc-cCCCcccccccccccccccccCCccCCcchhhhccCCcCCCCCCCCCCccccccCCCCceEEEEec
Q psy14535 23 SIKPVYRPKIVKK-RRKVFIRHQSDRYKKLHRSWRKPKGIDNRVRRRFKGQYLMPNIGYGSAKKTRHMLPNHFLKVVVHN 101 (155)
Q Consensus 23 ~~~pl~k~kivKK-r~~kF~R~~sdr~~rvk~sWRKPrGiDnkvRrr~kG~~~mP~iGYgS~k~tR~l~PsGf~~vlV~N 101 (155)
...+|++++++.| ++|+|+||+||+|+|++++||+|+||||++|++++|.++||+|||+||+++||||||||++|||||
T Consensus 7 ~~~rLl~ir~~~k~kKp~F~R~~~~Rykrl~~~WRrPrG~dsK~Rr~~kg~p~~v~iGyrsPk~vRglhPSG~~~VlV~N 86 (133)
T COG1717 7 ERKRLLKIRRVLKRKKPEFKRQESDRYKRLGEKWRRPRGIDSKMRRKLKGKPPMVKIGYRSPKAVRGLHPSGYEEVLVHN 86 (133)
T ss_pred HHHHHHHHHHHHHhccchhhhHHHHHHhhhhhhccCCCCchHHHHHHhcCCCCCcccCCCCcHhhcccCCCccceeeeec
Confidence 3456778886655 567899999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhhhHHHhhcCcceEEEeecCCccccHHHHHHHHHHcCCceecCCcce
Q psy14535 102 VKELEVLMMQNRKYCAEIGHAVSSKKRRDIVQRAQQLSIRLTNGNARI 149 (155)
Q Consensus 102 vkeLe~L~m~n~~~aaeIAh~Vg~kkR~~I~erA~el~ikV~N~~arl 149 (155)
++|||.|+ +.++||+|||+||++||.+|+++|.||||+|+||++|+
T Consensus 87 v~dLe~ld--p~~~aarIAs~VG~rKR~eI~~rA~elGikVlN~~~r~ 132 (133)
T COG1717 87 VKDLEKLD--PETQAARIASTVGARKRIEILERARELGIKVLNPGGRV 132 (133)
T ss_pred HHHHhhcC--chhHHHHHHHhhhHHHHHHHHHHHHHhCcEEeCCcccc
Confidence 99999995 45789999999999999999999999999999999986
No 8
>COG1458 Predicted DNA-binding protein containing PIN domain [General function prediction only]
Probab=67.92 E-value=3.4 Score=35.19 Aligned_cols=43 Identities=19% Similarity=0.360 Sum_probs=36.7
Q ss_pred EEechhhhHHHhhcCcceEEEeecCCccccHHHHHHHHHHcCCceecCC
Q psy14535 98 VVHNVKELEVLMMQNRKYCAEIGHAVSSKKRRDIVQRAQQLSIRLTNGN 146 (155)
Q Consensus 98 lV~NvkeLe~L~m~n~~~aaeIAh~Vg~kkR~~I~erA~el~ikV~N~~ 146 (155)
...+..||++|+..-+=.||..|+..| |..-|.+||+++++|.
T Consensus 158 iLDSapDlDvLLLAkELdaavVssD~G------ir~WAe~LGlrfv~a~ 200 (221)
T COG1458 158 ILDSAPDLDVLLLAKELDAAVVSSDEG------IRTWAEKLGLRFVDAF 200 (221)
T ss_pred cccccchhHHHHHHHHhCceEEecchh------HHHHHHHhCCeeeCHh
Confidence 346789999999877778999999988 6778999999999986
No 9
>PF09894 DUF2121: Uncharacterized protein conserved in archaea (DUF2121); InterPro: IPR016754 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function. They do show distant similarity to NTPases and to nucleic acid binding enzymes.
Probab=47.63 E-value=16 Score=30.71 Aligned_cols=32 Identities=22% Similarity=0.529 Sum_probs=26.5
Q ss_pred hhhhHHHhhcCcceEEEeecCCccccHHHHHHHHHHcCCceec
Q psy14535 102 VKELEVLMMQNRKYCAEIGHAVSSKKRRDIVQRAQQLSIRLTN 144 (155)
Q Consensus 102 vkeLe~L~m~n~~~aaeIAh~Vg~kkR~~I~erA~el~ikV~N 144 (155)
-+.||.+| |+.+| +...++.++|.||||+|.=
T Consensus 31 re~LEeeL-----YsG~I------ktdeEL~kkA~Elgv~i~I 62 (194)
T PF09894_consen 31 REKLEEEL-----YSGKI------KTDEELLKKAEELGVKIKI 62 (194)
T ss_pred HHHHHHHH-----hCCcc------CCHHHHHHHHHHcCCEEEE
Confidence 46788876 88888 5789999999999998753
No 10
>PF01248 Ribosomal_L7Ae: Ribosomal protein L7Ae/L30e/S12e/Gadd45 family; InterPro: IPR004038 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 [, ]. This family includes: Ribosomal L7A from metazoa, Ribosomal L8-A and L8-B from fungi, 30S ribosomal protein HS6 from archaebacteria, 40S ribosomal protein S12 from eukaryotes, ribosomal protein L30 from eukaryotes and archaebacteria, Gadd45 and MyD118 [].; PDB: 2CZW_A 3V7E_B 2QEX_F 1YJ9_F 1VQ8_F 1YJN_F 3I56_F 1VQ6_F 2OTJ_F 1YIJ_F ....
Probab=43.13 E-value=84 Score=21.79 Aligned_cols=49 Identities=10% Similarity=0.112 Sum_probs=40.8
Q ss_pred EEechhhhHHHhhcCcceEEEeecCCccccHHH-HHHHHHHcCCceecCC
Q psy14535 98 VVHNVKELEVLMMQNRKYCAEIGHAVSSKKRRD-IVQRAQQLSIRLTNGN 146 (155)
Q Consensus 98 lV~NvkeLe~L~m~n~~~aaeIAh~Vg~kkR~~-I~erA~el~ikV~N~~ 146 (155)
+|.-.++....+...+...+-||.+++...... |..-|.+.+|.+..-.
T Consensus 16 lv~G~~~v~k~l~~~~~~lvilA~d~~~~~~~~~l~~~c~~~~Ip~~~~~ 65 (95)
T PF01248_consen 16 LVKGIKEVLKALKKGKAKLVILAEDCSPDSIKKHLPALCEEKNIPYVFVP 65 (95)
T ss_dssp EEESHHHHHHHHHTTCESEEEEETTSSSGHHHHHHHHHHHHTTEEEEEES
T ss_pred EEEchHHHHHHHHcCCCcEEEEcCCCChhhhcccchhheeccceeEEEEC
Confidence 555666777777677889999999999999999 8899999999887654
No 11
>PTZ00106 60S ribosomal protein L30; Provisional
Probab=41.39 E-value=75 Score=23.76 Aligned_cols=39 Identities=15% Similarity=0.141 Sum_probs=33.6
Q ss_pred hHHHhhcCcceEEEeecCCccccHHHHHHHHHHcCCceec
Q psy14535 105 LEVLMMQNRKYCAEIGHAVSSKKRRDIVQRAQQLSIRLTN 144 (155)
Q Consensus 105 Le~L~m~n~~~aaeIAh~Vg~kkR~~I~erA~el~ikV~N 144 (155)
+..|- ..+-..+-||.+++...++.|...|.+.+|.|.+
T Consensus 34 lkalk-~gkaklViiA~D~~~~~kkki~~~~~~~~Vpv~~ 72 (108)
T PTZ00106 34 LKALR-NGKAKLVIISNNCPPIRRSEIEYYAMLSKTGVHH 72 (108)
T ss_pred HHHHH-cCCeeEEEEeCCCCHHHHHHHHHHHhhcCCCEEE
Confidence 44443 4678899999999999999999999999999876
No 12
>PF08745 UPF0278: UPF0278 family; InterPro: IPR022785 This entry contains proteins of the UPF0278 family and proteins containing PIN domains. Members of the UPF0278 family are uncharacterised and about 200 amino acids in length.; PDB: 2LCQ_A.
Probab=38.99 E-value=15 Score=31.17 Aligned_cols=46 Identities=17% Similarity=0.309 Sum_probs=24.9
Q ss_pred EEEEechhhhHHHhhcCcceEEEeecCCccccHHHHHHHHHHcCCceecCCc
Q psy14535 96 KVVVHNVKELEVLMMQNRKYCAEIGHAVSSKKRRDIVQRAQQLSIRLTNGNA 147 (155)
Q Consensus 96 ~vlV~NvkeLe~L~m~n~~~aaeIAh~Vg~kkR~~I~erA~el~ikV~N~~a 147 (155)
.-.+-+..|+++|+..-+-.|+-++.--| |..-|.+|||+++||..
T Consensus 149 ~G~ldS~~D~dvl~LA~El~a~lvt~D~g------i~~~A~~lGi~~i~~~~ 194 (205)
T PF08745_consen 149 KGILDSREDIDVLLLALELDAVLVTDDYG------IQNWAEKLGIRFIDARD 194 (205)
T ss_dssp ------HHHHHHHHHHHHHT--EE---HH------HHHHHHHTT--EE----
T ss_pred cccCCChHhHHHHHHHHHcCCEEEeCCHh------HHHHHHHCCCEEEeccc
Confidence 44566899999999776667887777655 88899999999999863
No 13
>PRK13602 putative ribosomal protein L7Ae-like; Provisional
Probab=35.97 E-value=1.2e+02 Score=21.32 Aligned_cols=38 Identities=3% Similarity=0.069 Sum_probs=32.9
Q ss_pred hhcCcceEEEeecCCccccHHHHHHHHHHcCCceecCC
Q psy14535 109 MMQNRKYCAEIGHAVSSKKRRDIVQRAQQLSIRLTNGN 146 (155)
Q Consensus 109 ~m~n~~~aaeIAh~Vg~kkR~~I~erA~el~ikV~N~~ 146 (155)
+-..+-..+-||.+++..-++.|...|.+.+|.+..-.
T Consensus 23 i~~gkaklViiA~D~~~~~~~~i~~~c~~~~Vp~~~~~ 60 (82)
T PRK13602 23 LKRGSVKEVVVAEDADPRLTEKVEALANEKGVPVSKVD 60 (82)
T ss_pred HHcCCeeEEEEECCCCHHHHHHHHHHHHHcCCCEEEEC
Confidence 33578889999999999999999999999999886544
No 14
>PRK01018 50S ribosomal protein L30e; Reviewed
Probab=34.44 E-value=1.2e+02 Score=21.95 Aligned_cols=39 Identities=10% Similarity=0.116 Sum_probs=33.0
Q ss_pred hHHHhhcCcceEEEeecCCccccHHHHHHHHHHcCCceec
Q psy14535 105 LEVLMMQNRKYCAEIGHAVSSKKRRDIVQRAQQLSIRLTN 144 (155)
Q Consensus 105 Le~L~m~n~~~aaeIAh~Vg~kkR~~I~erA~el~ikV~N 144 (155)
++.|- ..+-..+-||..++..-++.|...|.+.+|.+.+
T Consensus 25 ~kai~-~gkaklViiA~D~~~~~~~~i~~~c~~~~Ip~~~ 63 (99)
T PRK01018 25 IKAIK-LGKAKLVIVASNCPKDIKEDIEYYAKLSGIPVYE 63 (99)
T ss_pred HHHHH-cCCceEEEEeCCCCHHHHHHHHHHHHHcCCCEEE
Confidence 34443 4677899999999999999999999999999866
No 15
>PRK12360 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Provisional
Probab=31.72 E-value=97 Score=27.05 Aligned_cols=26 Identities=12% Similarity=0.355 Sum_probs=21.0
Q ss_pred ecCCccccHHHHHHHHHHcCCceecCCcce
Q psy14535 120 GHAVSSKKRRDIVQRAQQLSIRLTNGNARI 149 (155)
Q Consensus 120 Ah~Vg~kkR~~I~erA~el~ikV~N~~arl 149 (155)
||.|+ .++.+.|++.|+.|...+.=+
T Consensus 76 AHGv~----~~~~~~~~~~g~~viDaTCP~ 101 (281)
T PRK12360 76 SHGVS----KKVYKDLKDKGLEIIDATCPF 101 (281)
T ss_pred CCCCC----HHHHHHHHHCCCeEEeCCCcc
Confidence 77776 578889999999999887633
No 16
>PRK01045 ispH 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed
Probab=30.19 E-value=1e+02 Score=27.19 Aligned_cols=46 Identities=20% Similarity=0.252 Sum_probs=31.2
Q ss_pred EEechhhhHHHhhc-----------CcceEEEe-ecCCccccHHHHHHHHHHcCCceecCCc
Q psy14535 98 VVHNVKELEVLMMQ-----------NRKYCAEI-GHAVSSKKRRDIVQRAQQLSIRLTNGNA 147 (155)
Q Consensus 98 lV~NvkeLe~L~m~-----------n~~~aaeI-Ah~Vg~kkR~~I~erA~el~ikV~N~~a 147 (155)
+|||+..++.|--. +..-.+-| ||.|+ .++.+.|++.|+.|++.+.
T Consensus 39 iIHN~~vv~~L~~~GV~~v~~~~~v~~~~~ViirAHGv~----~~~~~~~~~~g~~viDaTC 96 (298)
T PRK01045 39 IVHNRYVVERLEKKGAIFVEELDEVPDGAIVIFSAHGVS----PAVREEAKERGLTVIDATC 96 (298)
T ss_pred CccCHHHHHHHHHCCCEEecCcccCCCCCEEEEeCCCCC----HHHHHHHHHCCCeEEeCCC
Confidence 68888888777311 10112222 78877 5677889999999998876
No 17
>TIGR01019 sucCoAalpha succinyl-CoA synthetase, alpha subunit. ATP citrate lyases appear to form an outgroup.
Probab=29.31 E-value=1.2e+02 Score=26.32 Aligned_cols=35 Identities=11% Similarity=0.112 Sum_probs=28.8
Q ss_pred cceEEEeecCCccccHHHHHHHHHHcCCceecCCc
Q psy14535 113 RKYCAEIGHAVSSKKRRDIVQRAQQLSIRLTNGNA 147 (155)
Q Consensus 113 ~~~aaeIAh~Vg~kkR~~I~erA~el~ikV~N~~a 147 (155)
-..++-|++.++..-..+|++.|.+.|++|+=||.
T Consensus 88 vk~avIis~Gf~e~~~~~l~~~a~~~girilGPNc 122 (286)
T TIGR01019 88 IELIVCITEGIPVHDMLKVKRYMEESGTRLIGPNC 122 (286)
T ss_pred CCEEEEECCCCCHHHHHHHHHHHHHcCCEEECCCC
Confidence 35677788888776667999999999999998875
No 18
>PF01408 GFO_IDH_MocA: Oxidoreductase family, NAD-binding Rossmann fold; InterPro: IPR000683 This group of enzymes utilise NADP or NAD, and is known as the GFO/IDH/MOCA family in UniProtKB/Swiss-Prot. GFO is a glucose--fructose oxidoreductase, which converts D-glucose and D-fructose into D-gluconolactone and D-glucitol in the sorbitol-gluconate pathway. MOCA is a rhizopine catabolism protein which may catalyse the NADH-dependent dehydrogenase reaction involved in rhizopine catabolism. Other proteins belonging to this family include Gal80, a negative regulator for the expression of lactose and galactose metabolic genes; and several hypothetical proteins from yeast, Escherichia coli and Bacillus subtilis. The oxidoreductase, N-terminal domain is almost always associated with the oxidoreductase, C-terminal domain (see IPR004104 from INTERPRO).; GO: 0016491 oxidoreductase activity; PDB: 1LC0_A 1LC3_A 1GCU_A 3IP3_E 3CEA_C 3EVN_A 3NTQ_A 3NTR_B 3NT5_A 3MZ0_A ....
Probab=27.38 E-value=1.2e+02 Score=21.06 Aligned_cols=37 Identities=19% Similarity=0.213 Sum_probs=29.4
Q ss_pred hHHHhhcCcceEEEeecCCccccHHHHHHHHHHcCCcee
Q psy14535 105 LEVLMMQNRKYCAEIGHAVSSKKRRDIVQRAQQLSIRLT 143 (155)
Q Consensus 105 Le~L~m~n~~~aaeIAh~Vg~kkR~~I~erA~el~ikV~ 143 (155)
++.|+.++.-+++-|+..-+ .+.+++..|.+.|+.|+
T Consensus 54 ~~~ll~~~~~D~V~I~tp~~--~h~~~~~~~l~~g~~v~ 90 (120)
T PF01408_consen 54 LEELLADEDVDAVIIATPPS--SHAEIAKKALEAGKHVL 90 (120)
T ss_dssp HHHHHHHTTESEEEEESSGG--GHHHHHHHHHHTTSEEE
T ss_pred HHHHHHhhcCCEEEEecCCc--chHHHHHHHHHcCCEEE
Confidence 55566556788999988765 69999999999999775
No 19
>PRK06683 hypothetical protein; Provisional
Probab=26.67 E-value=2.2e+02 Score=20.20 Aligned_cols=41 Identities=20% Similarity=0.155 Sum_probs=33.8
Q ss_pred hHHHhhcCcceEEEeecCCccccHHHHHHHHHHcCCceecCC
Q psy14535 105 LEVLMMQNRKYCAEIGHAVSSKKRRDIVQRAQQLSIRLTNGN 146 (155)
Q Consensus 105 Le~L~m~n~~~aaeIAh~Vg~kkR~~I~erA~el~ikV~N~~ 146 (155)
|+.|- .++-..+-||...+..-++.|...|.+.+|.|..-.
T Consensus 20 ~kaik-~gkaklViiA~Da~~~~~~~i~~~~~~~~Vpv~~~~ 60 (82)
T PRK06683 20 LEAIK-NGIVKEVVIAEDADMRLTHVIIRTALQHNIPITKVE 60 (82)
T ss_pred HHHHH-cCCeeEEEEECCCCHHHHHHHHHHHHhcCCCEEEEC
Confidence 44443 467788999999999999999999999999886543
No 20
>PRK05678 succinyl-CoA synthetase subunit alpha; Validated
Probab=25.82 E-value=1.5e+02 Score=25.85 Aligned_cols=35 Identities=11% Similarity=0.075 Sum_probs=27.3
Q ss_pred cceEEEeecCCccccHHHHHHHHHHcCCceecCCc
Q psy14535 113 RKYCAEIGHAVSSKKRRDIVQRAQQLSIRLTNGNA 147 (155)
Q Consensus 113 ~~~aaeIAh~Vg~kkR~~I~erA~el~ikV~N~~a 147 (155)
-..++-|++.++.....+|++.|.+.|++|+=||.
T Consensus 90 vk~avI~s~Gf~~~~~~~l~~~a~~~girvlGPNc 124 (291)
T PRK05678 90 IDLIVCITEGIPVLDMLEVKAYLERKKTRLIGPNC 124 (291)
T ss_pred CCEEEEECCCCCHHHHHHHHHHHHHcCCEEECCCC
Confidence 34566777777755445999999999999998875
No 21
>TIGR00431 TruB tRNA pseudouridine 55 synthase. TruB, the tRNA pseudouridine 55 synthase, converts uracil to pseudouridine in the T loop (not the anticodon loop - beware mis-annotation in Swiss-Prot) of most tRNAs of all three domains of life. This model is built on a seed alignment of bacterial proteins only. Saccharomyces cerevisiae protein YNL292w (Pus4) has been shown to be the pseudouridine 55 synthase of both cytosolic and mitochondrial compartments, active at no other position on tRNA and the only enzyme active at that position in the species. A distinct yeast protein YLR175w, (centromere/microtubule-binding protein CBF5) is an rRNA pseudouridine synthase, and the archaeal set is much more similar to CBF5 than to Pus4. It is unclear whether the archaeal proteins found by this model are tRNA pseudouridine 55 synthases like TruB, rRNA pseudouridine synthases like CBF5, or (as suggested by the absence of paralogs in the Archaea) both. CBF5 likely has additional, eukaryotic-specific
Probab=25.18 E-value=1.5e+02 Score=24.79 Aligned_cols=57 Identities=26% Similarity=0.393 Sum_probs=42.1
Q ss_pred cCCccCC-----cchhhhccCCcCCCCCCCCCCccccccCCCCceEEEEec-hhhhHHHhhcCcceEEEe
Q psy14535 56 RKPKGID-----NRVRRRFKGQYLMPNIGYGSAKKTRHMLPNHFLKVVVHN-VKELEVLMMQNRKYCAEI 119 (155)
Q Consensus 56 RKPrGiD-----nkvRrr~kG~~~mP~iGYgS~k~tR~l~PsGf~~vlV~N-vkeLe~L~m~n~~~aaeI 119 (155)
-||.|+. +++|+-++- .+||.+..=. -+.+|.=.+.|.. .+-++.++-++++|.+.+
T Consensus 8 ~KP~g~tS~~vv~~vkk~~~~----kKvGH~GTLD---P~AsGvLiv~vG~~Tkl~~~~~~~~K~Y~~~~ 70 (209)
T TIGR00431 8 DKPQGMTSFDALAKVRRLLNV----KKVGHTGTLD---PFATGVLPILVGKATKLSPYLTDLDKEYRAEI 70 (209)
T ss_pred ECCCCCCHHHHHHHHHHHhCC----CcCCCCCCCC---CcCceEEEEEEChHhhhhHHHcCCCCeEEEEE
Confidence 4899998 677877743 4888877533 3677887888875 567777776799998877
No 22
>PF13727 CoA_binding_3: CoA-binding domain; PDB: 3NKL_B.
Probab=25.10 E-value=1e+02 Score=22.45 Aligned_cols=45 Identities=13% Similarity=0.211 Sum_probs=28.7
Q ss_pred EEechhhhHHHhhcCcceEEEeec-CCccccHHHHHHHHHHcCCce
Q psy14535 98 VVHNVKELEVLMMQNRKYCAEIGH-AVSSKKRRDIVQRAQQLSIRL 142 (155)
Q Consensus 98 lV~NvkeLe~L~m~n~~~aaeIAh-~Vg~kkR~~I~erA~el~ikV 142 (155)
.+.+++||..++..+.-+-+-||- ......-++|++.+.+.++.|
T Consensus 126 ~lg~~~~l~~~~~~~~id~v~ial~~~~~~~i~~ii~~~~~~~v~v 171 (175)
T PF13727_consen 126 VLGDLDDLPELVREHDIDEVIIALPWSEEEQIKRIIEELENHGVRV 171 (175)
T ss_dssp EE--GGGHHHHHHHHT--EEEE--TTS-HHHHHHHHHHHHTTT-EE
T ss_pred eEcCHHHHHHHHHhCCCCEEEEEcCccCHHHHHHHHHHHHhCCCEE
Confidence 667999999999776666666763 334455668999999999876
No 23
>PRK06091 membrane protein FdrA; Validated
Probab=24.64 E-value=1.3e+02 Score=28.89 Aligned_cols=67 Identities=10% Similarity=0.083 Sum_probs=49.7
Q ss_pred CCCCCccccccCCCCceEEEEech-----hhhHHHhhcCcceEEEeecCCccccHHHHHHHHHHcCCceecCCc
Q psy14535 79 GYGSAKKTRHMLPNHFLKVVVHNV-----KELEVLMMQNRKYCAEIGHAVSSKKRRDIVQRAQQLSIRLTNGNA 147 (155)
Q Consensus 79 GYgS~k~tR~l~PsGf~~vlV~Nv-----keLe~L~m~n~~~aaeIAh~Vg~kkR~~I~erA~el~ikV~N~~a 147 (155)
+|.+=+.....+|.. .-++|.-+ ..++..+-.. ..++-|+.++|..--.+|.+.|++.|++|+=||+
T Consensus 104 ~~~t~~~a~~~lpe~-DLAvIsVPa~~v~~al~ea~~~G-~~viI~S~gfg~~~E~~L~e~Ar~~GlrvmGPNC 175 (555)
T PRK06091 104 QVRRWDSACQKLPDA-NLALISVAGEYAAELAEQALDRN-LNVMMFSDNVTLEDEIRLKTRAREKGLLVMGPDC 175 (555)
T ss_pred ccccHHHHHhcCCCC-CEEEEecCHHHHHHHHHHHHHcC-CeEEEEcCCCCHHHHHHHHHHHHHcCCEEECCCC
Confidence 566666666667866 55566543 3444444333 5688899999988889999999999999999987
No 24
>PF12431 CitT: Transcriptional regulator
Probab=24.48 E-value=32 Score=20.41 Aligned_cols=9 Identities=67% Similarity=0.937 Sum_probs=6.7
Q ss_pred ccCCccCCc
Q psy14535 55 WRKPKGIDN 63 (155)
Q Consensus 55 WRKPrGiDn 63 (155)
=+=|+|||.
T Consensus 21 ~~LPKGID~ 29 (30)
T PF12431_consen 21 ERLPKGIDE 29 (30)
T ss_pred cCCCCCccc
Confidence 456899985
No 25
>PRK13601 putative L7Ae-like ribosomal protein; Provisional
Probab=23.82 E-value=2.7e+02 Score=19.88 Aligned_cols=41 Identities=12% Similarity=0.155 Sum_probs=33.9
Q ss_pred hHHHhhcCcceEEEeecCCccccHHHHHHHHHHcCCceecCC
Q psy14535 105 LEVLMMQNRKYCAEIGHAVSSKKRRDIVQRAQQLSIRLTNGN 146 (155)
Q Consensus 105 Le~L~m~n~~~aaeIAh~Vg~kkR~~I~erA~el~ikV~N~~ 146 (155)
|..| -.++-..+-||..++..-++.|...|.+.+|.|....
T Consensus 17 lkaI-k~gkakLViiA~Da~~~~~k~i~~~c~~~~Vpv~~~~ 57 (82)
T PRK13601 17 LKAI-TNCNVLQVYIAKDAEEHVTKKIKELCEEKSIKIVYID 57 (82)
T ss_pred HHHH-HcCCeeEEEEeCCCCHHHHHHHHHHHHhCCCCEEEeC
Confidence 3444 3467788999999999999999999999999986544
No 26
>TIGR03677 rpl7ae 50S ribosomal protein L7Ae. Multifunctional RNA-binding protein that recognizes the K-turn motif in ribosomal RNA, box H/ACA, box C/D and box C'/D' sRNAs. Interacts with protein L15e.
Probab=23.28 E-value=2.6e+02 Score=20.95 Aligned_cols=48 Identities=8% Similarity=0.015 Sum_probs=36.7
Q ss_pred EEechhhhHHHhhcCcceEEEeecCCccc-cHHHHHHHHHHcCCceecC
Q psy14535 98 VVHNVKELEVLMMQNRKYCAEIGHAVSSK-KRRDIVQRAQQLSIRLTNG 145 (155)
Q Consensus 98 lV~NvkeLe~L~m~n~~~aaeIAh~Vg~k-kR~~I~erA~el~ikV~N~ 145 (155)
++.-.++...-+-..+.+.+-||+.++.. .+..+...|.+.+|.+...
T Consensus 27 l~~G~~~v~kaikkgka~LVilA~D~s~~~~~~~i~~lc~~~~Ip~~~~ 75 (117)
T TIGR03677 27 IKKGTNEVTKAVERGIAKLVVIAEDVEPPEIVAHLPALCEEKGIPYVYV 75 (117)
T ss_pred EeEcHHHHHHHHHcCCccEEEEeCCCCcHHHHHHHHHHHHHcCCCEEEe
Confidence 44455555444446778899999999987 5899999999999976654
No 27
>PF07988 LMSTEN: LMSTEN motif; InterPro: IPR012642 Proteins containing the Wos2 domain are involved in the regulation of the cell cycle [] and are Myb-related transcriptional activators. ; GO: 0006355 regulation of transcription, DNA-dependent; PDB: 2AGH_A 1SB0_B.
Probab=22.29 E-value=49 Score=22.08 Aligned_cols=12 Identities=50% Similarity=0.850 Sum_probs=10.0
Q ss_pred chhhhHHHhhcC
Q psy14535 101 NVKELEVLMMQN 112 (155)
Q Consensus 101 NvkeLe~L~m~n 112 (155)
.++|||.|+|..
T Consensus 29 rikelelllms~ 40 (48)
T PF07988_consen 29 RIKELELLLMSA 40 (48)
T ss_dssp HHHHHHHHHHCH
T ss_pred HHHHHHHHHHhh
Confidence 479999999963
No 28
>PRK02193 truB tRNA pseudouridine synthase B; Provisional
Probab=20.35 E-value=1.9e+02 Score=25.34 Aligned_cols=58 Identities=26% Similarity=0.352 Sum_probs=42.0
Q ss_pred cCCccCC-----cchhhhccCCcCCCCCCCCCCccccccCCCCceEEEEec-hhhhHHHhhcCcceEEEee
Q psy14535 56 RKPKGID-----NRVRRRFKGQYLMPNIGYGSAKKTRHMLPNHFLKVVVHN-VKELEVLMMQNRKYCAEIG 120 (155)
Q Consensus 56 RKPrGiD-----nkvRrr~kG~~~mP~iGYgS~k~tR~l~PsGf~~vlV~N-vkeLe~L~m~n~~~aaeIA 120 (155)
-||.|+. +++|+.++- .+||.+..=+ -+.+|.=.+.|.. .+-++-|+-.+++|.+++-
T Consensus 6 ~KP~G~tS~dvv~~vrr~~~~----kKvGH~GTLD---P~AtGvL~v~vG~aTkl~~~l~~~~K~Y~a~~~ 69 (279)
T PRK02193 6 YKPKGISSFKFIKNFAKTNNI----KKIGHTGTLD---PLASGLLLVATDEDTKLIDYLDQKDKTYIAKIK 69 (279)
T ss_pred ECCCCCCHHHHHHHHHHHcCC----CccccCccCC---CcCeeEEEEEEChhhhhhHHhccCCcEEEEEEE
Confidence 4899998 567776643 4788776433 3567877888875 6677777767899998873
No 29
>PRK01528 truB tRNA pseudouridine synthase B; Provisional
Probab=20.23 E-value=2.1e+02 Score=25.24 Aligned_cols=58 Identities=21% Similarity=0.348 Sum_probs=42.8
Q ss_pred cCCccCC-----cchhhhccCCcCCCCCCCCCCccccccCCCCceEEEEec-hhhhHHHhhcCcceEEEee
Q psy14535 56 RKPKGID-----NRVRRRFKGQYLMPNIGYGSAKKTRHMLPNHFLKVVVHN-VKELEVLMMQNRKYCAEIG 120 (155)
Q Consensus 56 RKPrGiD-----nkvRrr~kG~~~mP~iGYgS~k~tR~l~PsGf~~vlV~N-vkeLe~L~m~n~~~aaeIA 120 (155)
-||.|+. +++|+-++ ..+||.+..=. -..+|.=.+.|.. .+-++-|+-.+++|.+++-
T Consensus 9 ~KP~G~TS~dvv~~vrk~~~----~kKvGH~GTLD---P~AtGvL~v~vG~aTKl~~~l~~~~K~Y~~~~~ 72 (292)
T PRK01528 9 YKPRGISSAKLVSIVKKILG----KVKIGHAGTLD---VEAEGVLPLAVGEATKLVQLLIDAKKTYIFTVK 72 (292)
T ss_pred eCCCCCCHHHHHHHHHHHcC----CCccCcCccCC---CcCceEEEEEEChHhhhhHHHhcCCceEEEEEE
Confidence 4899999 57777664 34888776433 3567877888874 6778888777999998874
Done!