Query psy6392
Match_columns 198
No_of_seqs 253 out of 1168
Neff 5.1
Searched_HMMs 46136
Date Fri Aug 16 16:42:31 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy6392.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/6392hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0846|consensus 100.0 1E-50 2.2E-55 351.0 12.6 170 5-189 79-274 (274)
2 PRK05592 rplO 50S ribosomal pr 99.8 4.9E-21 1.1E-25 155.3 8.5 85 4-102 59-143 (146)
3 TIGR01071 rplO_bact ribosomal 99.8 1.3E-20 2.9E-25 152.2 8.8 87 4-102 58-144 (145)
4 PF00828 Ribosomal_L18e: Ribos 99.7 2.2E-18 4.8E-23 135.7 1.4 87 5-101 37-125 (129)
5 COG0200 RplO Ribosomal protein 99.6 2.9E-16 6.4E-21 128.4 7.5 87 4-102 60-148 (152)
6 PRK06419 rpl15p 50S ribosomal 99.6 7.2E-16 1.6E-20 125.4 7.2 85 3-102 52-142 (148)
7 PTZ00160 60S ribosomal protein 99.3 1E-11 2.2E-16 101.2 6.7 88 3-101 50-142 (147)
8 PRK04005 50S ribosomal protein 99.0 3.2E-10 6.9E-15 88.6 3.9 69 5-102 23-91 (111)
9 COG1727 RPL18A Ribosomal prote 97.9 1.9E-05 4.2E-10 62.6 4.4 59 18-101 43-101 (122)
10 PTZ00469 60S ribosomal subunit 97.2 0.00045 9.7E-09 58.6 4.4 60 18-100 56-117 (187)
11 PTZ00195 60S ribosomal protein 96.7 0.0032 6.8E-08 53.9 5.6 65 18-99 56-124 (198)
12 KOG1742|consensus 91.2 0.16 3.5E-06 41.6 2.4 75 20-101 67-142 (147)
13 PF09494 Slx4: Slx4 endonuclea 64.6 8.6 0.00019 26.8 3.1 36 20-55 21-59 (64)
14 PF06760 DUF1221: Protein of u 53.4 12 0.00026 32.4 2.7 34 89-144 98-131 (217)
15 PF14237 DUF4339: Domain of un 50.8 12 0.00025 24.1 1.7 25 18-42 8-32 (45)
16 PRK00040 rpsP 30S ribosomal pr 35.3 33 0.00072 25.1 2.2 33 5-37 32-65 (75)
17 KOG1714|consensus 31.6 24 0.00052 30.1 1.1 24 78-101 96-119 (188)
18 PRK09570 rpoH DNA-directed RNA 29.5 73 0.0016 23.6 3.2 36 135-180 23-61 (79)
19 PRK14520 rpsP 30S ribosomal pr 28.3 48 0.001 27.6 2.3 32 5-37 33-64 (155)
20 PTZ00061 DNA-directed RNA poly 28.2 2E+02 0.0043 25.0 6.2 89 75-179 93-188 (205)
21 PLN03111 DNA-directed RNA poly 27.5 2.2E+02 0.0048 24.8 6.3 87 75-180 94-190 (206)
22 PF00886 Ribosomal_S16: Riboso 26.1 33 0.00071 24.0 0.8 29 8-36 28-58 (62)
23 PF05464 Phi-29_GP4: Phi-29-li 25.8 12 0.00026 29.6 -1.5 16 111-126 66-81 (125)
24 TIGR00002 S16 ribosomal protei 24.6 64 0.0014 23.7 2.2 32 5-37 31-62 (78)
25 PRK14522 rpsP 30S ribosomal pr 24.2 69 0.0015 25.5 2.4 43 5-52 33-75 (116)
26 PRK14525 rpsP 30S ribosomal pr 24.2 60 0.0013 24.5 2.0 32 5-37 33-64 (88)
27 PF15072 DUF4539: Domain of un 23.4 42 0.00091 25.0 1.0 20 170-189 47-66 (86)
28 PRK14521 rpsP 30S ribosomal pr 22.6 67 0.0015 27.5 2.2 50 3-56 31-81 (186)
29 PRK14524 rpsP 30S ribosomal pr 21.8 73 0.0016 24.3 2.1 32 5-37 32-63 (94)
30 CHL00005 rps16 ribosomal prote 21.3 76 0.0016 23.6 2.0 30 5-37 32-61 (82)
31 PRK14425 acylphosphatase; Prov 20.7 50 0.0011 24.7 1.0 14 170-184 33-46 (94)
No 1
>KOG0846|consensus
Probab=100.00 E-value=1e-50 Score=351.04 Aligned_cols=170 Identities=55% Similarity=0.872 Sum_probs=162.7
Q ss_pred ccCCCCCCCCCCCCcccceeehhhHHhHHhhCCCCCCCccCHHHHHHCCCCcCCCCCCCcceEEecccccccceeEEEEE
Q psy6392 5 LYLSQPLFTGADQRRQYPPLSLLQLQKFIDTNRIDPSKPIDLAALCNTGLYTFEPFHNHYGVNLTDEGADNFKAKINIEV 84 (198)
Q Consensus 5 RlPKrGF~~~~~~r~~y~~INL~~Lq~~id~Grid~~~~Idl~~L~~~Gli~~~~~~~k~gVKLLg~G~~~l~~kI~Iev 84 (198)
||||+||. |.++++|.+++|.+||+|||.||||++++|||++||++|+|. +..+++||+|+++|+++|+.+|+|||
T Consensus 79 r~Pk~~~~--~~~~r~~~pl~L~rlq~lID~grid~~q~Idm~tL~~~g~i~--p~~~eyGv~L~~~G~d~~~~~i~iEv 154 (274)
T KOG0846|consen 79 RFPKFGFG--NGGRRQYLPLSLGRLQKLIDTGRIDPSQPIDMKTLKDSGLIN--PKGREYGVQLTADGADEFKAKINIEV 154 (274)
T ss_pred hccccccc--ccccccCCcccHHHHHHHHHhcCCCccCceeHHHHHhccCCC--ccccccCceeeccCCccccceEEEEe
Confidence 79999999 889999999999999999999999999999999999999754 34689999999999999999999999
Q ss_pred eecCHHHHHHHHHcC--------------------------CCCCCCCCCCccccccccCcCCCCccCCccchhHHHHHH
Q psy6392 85 QWTSEPVIAAIERNG--------------------------EAIPLRFQPPQDAILYYSNPESRGYLADPEQISWQRFAL 138 (198)
Q Consensus 85 ~~aS~sAieaIE~aG--------------------------~pip~r~~p~~d~i~yY~~~~~RGYLa~~~~i~~~r~~~ 138 (198)
++||..||++||+|| .|+|.|++||+++++||||+++||||+.++.+..+|+.+
T Consensus 155 s~aS~~AiaaIEkaGG~vtt~yy~p~~Lra~lnP~~wf~~g~~vP~~~rPp~~~idyYtd~k~rGyl~~~~~~~~e~~~~ 234 (274)
T KOG0846|consen 155 SRASVQAIAAIEKAGGSVTTAYYDPLSLRAHLNPKKWFEPGSPVPKRARPPQKDIDYYTDPKNRGYLAAPEAKTSERAAS 234 (274)
T ss_pred hhhhHHHHHHHHhcCCeEEEEEEcchhhhhhcCchhhcccCCcCccccCCChhhhhhhhchhhcccccCccccccchhHH
Confidence 999999999999999 579999999999999999999999999999999999999
Q ss_pred HHHcCCCCCCCCCchhHHhhhccCCCcccccCCCCcceeecCcceeecCCC
Q psy6392 139 AQKYGYTLPEIEKDPDFEMLSMRKDPRQVFYGLEPGWVVNVIDKMILKPKD 189 (198)
Q Consensus 139 a~k~gy~lp~~~~~~~~~~l~~~k~p~q~f~gl~pg~vv~l~d~~~~~p~~ 189 (198)
||+|||++|.+++|..|||| || +|||||||+|++|+++++
T Consensus 235 Aq~~gy~~p~~~k~s~~~~~----dp-------~~gwv~~~~d~kv~~~k~ 274 (274)
T KOG0846|consen 235 AQKYGYELPVKPKDSALEML----DP-------EPGWVVNLADKKVFKTKN 274 (274)
T ss_pred HhhcCCcCCCCchhhhhhcc----CC-------CCCceeeeccceeeecCC
Confidence 99999999999999999999 66 899999999999999986
No 2
>PRK05592 rplO 50S ribosomal protein L15; Reviewed
Probab=99.84 E-value=4.9e-21 Score=155.28 Aligned_cols=85 Identities=24% Similarity=0.312 Sum_probs=76.8
Q ss_pred cccCCCCCCCCCCCCcccceeehhhHHhHHhhCCCCCCCccCHHHHHHCCCCcCCCCCCCcceEEecccccccceeEEEE
Q psy6392 4 FLYLSQPLFTGADQRRQYPPLSLLQLQKFIDTNRIDPSKPIDLAALCNTGLYTFEPFHNHYGVNLTDEGADNFKAKINIE 83 (198)
Q Consensus 4 ~RlPKrGF~~~~~~r~~y~~INL~~Lq~~id~Grid~~~~Idl~~L~~~Gli~~~~~~~k~gVKLLg~G~~~l~~kI~Ie 83 (198)
-||||+||+ +.++++|.+|||++|+. ++++++||+++|+++|+|+. ..++|||||+| +|+++|+|+
T Consensus 59 rrlPk~Gf~--~~~~~~y~~VNL~~L~~------~~~~~~I~~~~L~~~gli~~----~~~~vKvLg~G--~l~~~i~I~ 124 (146)
T PRK05592 59 RRLPKRGFT--NIFRKEYAVVNLGDLNK------FEEGTEVTLEALKAAGLIRK----NIKGVKVLGNG--ELTKKLTVK 124 (146)
T ss_pred EEcccCCcC--CCCcceEEEEeHHHhhc------cCCCCeECHHHHHHCCcccC----CCcceEEEecC--ccccCEEEE
Confidence 379999999 67899999999999994 56678999999999999986 34689999999 999999999
Q ss_pred EeecCHHHHHHHHHcCCCC
Q psy6392 84 VQWTSEPVIAAIERNGEAI 102 (198)
Q Consensus 84 v~~aS~sAieaIE~aG~pi 102 (198)
|++||++|+++||+||+.+
T Consensus 125 a~~~S~sA~e~IE~aGG~v 143 (146)
T PRK05592 125 AHKFSKSAKEAIEAAGGKV 143 (146)
T ss_pred EEccCHHHHHHHHHcCCEE
Confidence 9999999999999999654
No 3
>TIGR01071 rplO_bact ribosomal protein L15, bacterial/organelle.
Probab=99.83 E-value=1.3e-20 Score=152.21 Aligned_cols=87 Identities=20% Similarity=0.273 Sum_probs=76.8
Q ss_pred cccCCCCCCCCCCCCcccceeehhhHHhHHhhCCCCCCCccCHHHHHHCCCCcCCCCCCCcceEEecccccccceeEEEE
Q psy6392 4 FLYLSQPLFTGADQRRQYPPLSLLQLQKFIDTNRIDPSKPIDLAALCNTGLYTFEPFHNHYGVNLTDEGADNFKAKINIE 83 (198)
Q Consensus 4 ~RlPKrGF~~~~~~r~~y~~INL~~Lq~~id~Grid~~~~Idl~~L~~~Gli~~~~~~~k~gVKLLg~G~~~l~~kI~Ie 83 (198)
-||||+||++.+ ++.+|.+|||++|+++++.| ++||+++|+++++|.. ....|||||+| +|+.+|+|+
T Consensus 58 rrlPK~GF~~~~-~~~~~~~VNL~~L~~~~~~g-----~~i~~~~L~~~gli~~----~~~~vKvLg~G--~l~~~l~I~ 125 (145)
T TIGR01071 58 RRLPKRGFSNKR-FKKEYAEVNLGKLAKLFPNG-----EVVTLETLKEKGLITK----KIKFVKVLGNG--KLTKPLTVK 125 (145)
T ss_pred EECCCCCCCCcc-cCcceeEEEHHHHhhhhhcC-----CEecHHHHhhCccCcC----CCCceEEeCCC--CcCcCEEEE
Confidence 379999999532 78999999999999998876 6899999999999975 22369999999 899999999
Q ss_pred EeecCHHHHHHHHHcCCCC
Q psy6392 84 VQWTSEPVIAAIERNGEAI 102 (198)
Q Consensus 84 v~~aS~sAieaIE~aG~pi 102 (198)
|++||++|+++||+||+.+
T Consensus 126 a~~~S~sA~ekIE~aGG~v 144 (145)
T TIGR01071 126 AHRVSKSAKAAIEAAGGSV 144 (145)
T ss_pred EEEECHHHHHHHHHcCCEE
Confidence 9999999999999999654
No 4
>PF00828 Ribosomal_L18e: Ribosomal protein L18e/L15; InterPro: IPR021131 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 entry represents both L15 and L18e ribosomal proteins, which share a common structure consisting mainly of parallel beta sheets (beta-alpha-beta units) with a core of three turns of irregular (beta-beta-alpha)n superhelix [, ].; PDB: 3O58_Y 1S1I_V 3O5H_Y 3IZS_O 3IZR_R 2OTL_L 1M1K_M 3G6E_L 1VQ9_L 1YIT_L ....
Probab=99.70 E-value=2.2e-18 Score=135.66 Aligned_cols=87 Identities=26% Similarity=0.386 Sum_probs=75.9
Q ss_pred ccCCCCCCCCCC--CCcccceeehhhHHhHHhhCCCCCCCccCHHHHHHCCCCcCCCCCCCcceEEecccccccceeEEE
Q psy6392 5 LYLSQPLFTGAD--QRRQYPPLSLLQLQKFIDTNRIDPSKPIDLAALCNTGLYTFEPFHNHYGVNLTDEGADNFKAKINI 82 (198)
Q Consensus 5 RlPKrGF~~~~~--~r~~y~~INL~~Lq~~id~Grid~~~~Idl~~L~~~Gli~~~~~~~k~gVKLLg~G~~~l~~kI~I 82 (198)
||||+||++.+. .+..|.+|||++|++||+.++.+.. ++|.+.+++.+++. .++||||+| +|+.||+|
T Consensus 37 r~pK~Gf~~~~~~~~~~~~~~vnL~~L~~~i~~~~~~~~-~~~~~~~~~~~~~~-------~~~KvLg~G--~l~~~l~I 106 (129)
T PF00828_consen 37 RLPKRGFNNPHLRKNRREYPPVNLSKLQELIEKLKIDGT-EIDGKILVDAGLIK-------GYVKVLGKG--ELTKPLTI 106 (129)
T ss_dssp HSSSSSHHHCCHCSGTCCCEEEEHHHHHHHTTTSSSSSC-ECTTSEEEECCEES-------SEEEEESSS--SSSSSEEE
T ss_pred ccCcccccccccccCcceeEeeeHHHHHHHHHhcccccc-ccCCceeeeccccc-------cceeeeccC--CcccceEE
Confidence 699999996443 3469999999999999998877755 78888999988762 479999999 99999999
Q ss_pred EEeecCHHHHHHHHHcCCC
Q psy6392 83 EVQWTSEPVIAAIERNGEA 101 (198)
Q Consensus 83 ev~~aS~sAieaIE~aG~p 101 (198)
+|++||++|+++||+||+.
T Consensus 107 ~a~~~S~~A~ekIe~aGG~ 125 (129)
T PF00828_consen 107 KAHRFSKSAKEKIEAAGGE 125 (129)
T ss_dssp EESEETHHHHHHHHHTSEE
T ss_pred EEEecCHHHHHHHHHcCCE
Confidence 9999999999999999953
No 5
>COG0200 RplO Ribosomal protein L15 [Translation, ribosomal structure and biogenesis]
Probab=99.65 E-value=2.9e-16 Score=128.39 Aligned_cols=87 Identities=17% Similarity=0.274 Sum_probs=74.3
Q ss_pred cccCCCCCCCCCCCCc-ccceeehhhHHhHHhhCCCCCCCccCHHHHHHCCCCcCCCCCCCcceEEecccccccceeEEE
Q psy6392 4 FLYLSQPLFTGADQRR-QYPPLSLLQLQKFIDTNRIDPSKPIDLAALCNTGLYTFEPFHNHYGVNLTDEGADNFKAKINI 82 (198)
Q Consensus 4 ~RlPKrGF~~~~~~r~-~y~~INL~~Lq~~id~Grid~~~~Idl~~L~~~Gli~~~~~~~k~gVKLLg~G~~~l~~kI~I 82 (198)
.||||+||++ ..+.+ +|.+|||++|..+++.+ .+||+.+|.+.++|.. ...+|||||+| +|++++.|
T Consensus 60 rrlpK~GF~~-~~~~~~~~~~vn~~~l~~~~~~~-----~~v~~~~l~~~~~i~~----~~~~vKvLg~G--~l~~~~~~ 127 (152)
T COG0200 60 RRLPKRGFTN-SKFKKVEYAVVNLGKLAELLPEG-----EEVTLASLKAAGVIRK----LKDLVKVLGNG--KLTKAVPV 127 (152)
T ss_pred hhcCCCCCcc-ccccccceeEEEHHHhhhhcccc-----ccccHHHHhhCCeEec----cccccEEeccC--eeccceeE
Confidence 5899999995 35566 99999999999876554 7899999999999986 45679999999 99977777
Q ss_pred EEe-ecCHHHHHHHHHcCCCC
Q psy6392 83 EVQ-WTSEPVIAAIERNGEAI 102 (198)
Q Consensus 83 ev~-~aS~sAieaIE~aG~pi 102 (198)
+|. .||++|+++||+||+.+
T Consensus 128 ~v~a~~S~~A~ekIe~aGG~v 148 (152)
T COG0200 128 KVKAKASKSAIEKIEAAGGKV 148 (152)
T ss_pred EEEeeeCHHHHHHHHHcCCEE
Confidence 777 99999999999999643
No 6
>PRK06419 rpl15p 50S ribosomal protein L15P; Reviewed
Probab=99.62 E-value=7.2e-16 Score=125.37 Aligned_cols=85 Identities=16% Similarity=0.090 Sum_probs=63.9
Q ss_pred CcccCCCCCCCCCCCCcccceeehhhHHhHHhhCCCCCCCccCHHHHHHCCCCcCC-----CCC-CCcceEEeccccccc
Q psy6392 3 GFLYLSQPLFTGADQRRQYPPLSLLQLQKFIDTNRIDPSKPIDLAALCNTGLYTFE-----PFH-NHYGVNLTDEGADNF 76 (198)
Q Consensus 3 ~~RlPKrGF~~~~~~r~~y~~INL~~Lq~~id~Grid~~~~Idl~~L~~~Gli~~~-----~~~-~k~gVKLLg~G~~~l 76 (198)
...|||+||++++..+.+|.+|||++|+.+++ +|.+.|+++.. .+. ....+||||+| ++
T Consensus 52 p~~fpK~GF~~~~~~~~~~~~INL~~L~~l~~-------------~l~~~g~i~~~~~~~vid~~~~g~~KVLG~G--~l 116 (148)
T PRK06419 52 PDWYGKHGFKRPPKLIKEVSTINVGELDELAD-------------LLKAEGKAEEEDGKIVVDLTELGYDKVLGGG--KV 116 (148)
T ss_pred CCCCCCCCccCCCcCcceeeeEEHHHHHHhHH-------------HHHHCCcccccCCcceeeeccCCceEEeCCC--cc
Confidence 34699999996444458999999999999873 13333333321 000 11359999999 99
Q ss_pred ceeEEEEEeecCHHHHHHHHHcCCCC
Q psy6392 77 KAKINIEVQWTSEPVIAAIERNGEAI 102 (198)
Q Consensus 77 ~~kI~Iev~~aS~sAieaIE~aG~pi 102 (198)
+.||+|+|++||++|+++||+||+.+
T Consensus 117 ~~pl~Vka~~fS~~A~ekIe~aGG~v 142 (148)
T PRK06419 117 TRPLVIKADAFSEKAIEKIEAAGGEV 142 (148)
T ss_pred CcCEEEEEeccCHHHHHHHHHcCCEE
Confidence 99999999999999999999999653
No 7
>PTZ00160 60S ribosomal protein L27a; Provisional
Probab=99.26 E-value=1e-11 Score=101.20 Aligned_cols=88 Identities=11% Similarity=0.100 Sum_probs=62.0
Q ss_pred CcccCCCCCCCCCCCCccc--ceeehhhHHhHHhh-CCCCCCCccCHHHHHHCCCCcCCCCCCCc-ceEEeccccccc-c
Q psy6392 3 GFLYLSQPLFTGADQRRQY--PPLSLLQLQKFIDT-NRIDPSKPIDLAALCNTGLYTFEPFHNHY-GVNLTDEGADNF-K 77 (198)
Q Consensus 3 ~~RlPKrGF~~~~~~r~~y--~~INL~~Lq~~id~-Grid~~~~Idl~~L~~~Gli~~~~~~~k~-gVKLLg~G~~~l-~ 77 (198)
...++|+||++++..+.++ .+|||++|.++++. .+.. . ..+.+-+.. ++..+. .+||||+| ++ +
T Consensus 50 p~~fGK~Gfr~~~~~~~~~~~~~INl~~L~~lv~~~~~~~------~--a~~~~~~~v-IDl~~~g~~KVLG~G--~l~~ 118 (147)
T PTZ00160 50 PGYFGKVGMRHFHLKKNKYYCPTINVDKLWSLVPEETRYK------Y--AKKGDKAPV-IDVTKAGYFKVLGKG--HLPK 118 (147)
T ss_pred CCccCCCCccCCccccccccCceeEHHHHHHHhHHHHHHh------h--hhccCCceE-EEeeccCceEEecCC--eEcC
Confidence 4578999999766666777 89999999998754 1110 0 000010000 011223 48999999 99 7
Q ss_pred eeEEEEEeecCHHHHHHHHHcCCC
Q psy6392 78 AKINIEVQWTSEPVIAAIERNGEA 101 (198)
Q Consensus 78 ~kI~Iev~~aS~sAieaIE~aG~p 101 (198)
.|++|++..||++|+++||++|+.
T Consensus 119 ~~v~Vka~~~Sk~A~ekIe~aGG~ 142 (147)
T PTZ00160 119 QPVIVKARYFSKKAEKKIKAVGGA 142 (147)
T ss_pred ccEEEEEeecCHHHHHHHHHcCCE
Confidence 799999999999999999999954
No 8
>PRK04005 50S ribosomal protein L18e; Provisional
Probab=99.00 E-value=3.2e-10 Score=88.63 Aligned_cols=69 Identities=16% Similarity=0.223 Sum_probs=54.5
Q ss_pred ccCCCCCCCCCCCCcccceeehhhHHhHHhhCCCCCCCccCHHHHHHCCCCcCCCCCCCcceEEecccccccceeEEEEE
Q psy6392 5 LYLSQPLFTGADQRRQYPPLSLLQLQKFIDTNRIDPSKPIDLAALCNTGLYTFEPFHNHYGVNLTDEGADNFKAKINIEV 84 (198)
Q Consensus 5 RlPKrGF~~~~~~r~~y~~INL~~Lq~~id~Grid~~~~Idl~~L~~~Gli~~~~~~~k~gVKLLg~G~~~l~~kI~Iev 84 (198)
|++|| +.+ .+.+|.+|||++|+.+.+.| .+|+ .++||||+| +++++++|++
T Consensus 23 ~v~~r-l~~---~r~~y~vVNL~~L~~~~~~~-----~vv~------------------~~~KVLg~G--~l~k~l~V~a 73 (111)
T PRK04005 23 DVAER-LEK---PRRRRAEVNLSKINRYAKEG-----DTVV------------------VPGKVLGSG--KLDHKVTVAA 73 (111)
T ss_pred HHHHH-HhC---CCCccceEEHHHHHhhccCC-----CEEE------------------EeeEEEcCc--eEcCCEEEEE
Confidence 45666 331 35799999999999764333 2221 268999999 9999999999
Q ss_pred eecCHHHHHHHHHcCCCC
Q psy6392 85 QWTSEPVIAAIERNGEAI 102 (198)
Q Consensus 85 ~~aS~sAieaIE~aG~pi 102 (198)
+++|++|+++||++|+.+
T Consensus 74 ~~~Sk~A~ekIe~aGG~v 91 (111)
T PRK04005 74 LSFSETAKEKIEEAGGKA 91 (111)
T ss_pred eecCHHHHHHHHHcCCEE
Confidence 999999999999999654
No 9
>COG1727 RPL18A Ribosomal protein L18E [Translation, ribosomal structure and biogenesis]
Probab=97.85 E-value=1.9e-05 Score=62.64 Aligned_cols=59 Identities=14% Similarity=0.319 Sum_probs=48.4
Q ss_pred CcccceeehhhHHhHHhhCCCCCCCccCHHHHHHCCCCcCCCCCCCcceEEecccccccceeEEEEEeecCHHHHHHHHH
Q psy6392 18 RRQYPPLSLLQLQKFIDTNRIDPSKPIDLAALCNTGLYTFEPFHNHYGVNLTDEGADNFKAKINIEVQWTSEPVIAAIER 97 (198)
Q Consensus 18 r~~y~~INL~~Lq~~id~Grid~~~~Idl~~L~~~Gli~~~~~~~k~gVKLLg~G~~~l~~kI~Iev~~aS~sAieaIE~ 97 (198)
++.+.+|||++|+.+...|. ++ +|. =|+||.| .+.++++|-+-+||++|.++|++
T Consensus 43 rr~ra~VnlsKI~r~ak~~d-----~v---------vVp---------GkVLg~g--~l~~kVtVaAl~FS~~A~~KI~~ 97 (122)
T COG1727 43 RRNRAEVNVSKINRYAKEGD-----TV---------VVP---------GKVLGDG--KLDKKVTVAALRFSKTAREKIEE 97 (122)
T ss_pred cccCCceeHHHHHhhcCCCC-----EE---------EEe---------eeEecCc--ccccceEEEEEecCHHHHHHHHH
Confidence 67889999999998765442 11 222 2899999 99999999999999999999999
Q ss_pred cCCC
Q psy6392 98 NGEA 101 (198)
Q Consensus 98 aG~p 101 (198)
+|+.
T Consensus 98 aGGe 101 (122)
T COG1727 98 AGGE 101 (122)
T ss_pred cCCe
Confidence 9954
No 10
>PTZ00469 60S ribosomal subunit protein L18; Provisional
Probab=97.19 E-value=0.00045 Score=58.62 Aligned_cols=60 Identities=23% Similarity=0.354 Sum_probs=45.5
Q ss_pred CcccceeehhhHHhHHhhCCCCCCCccCHHHHHHCCCCcCCCCCCCcceEEecccccccc--eeEEEEEeecCHHHHHHH
Q psy6392 18 RRQYPPLSLLQLQKFIDTNRIDPSKPIDLAALCNTGLYTFEPFHNHYGVNLTDEGADNFK--AKINIEVQWTSEPVIAAI 95 (198)
Q Consensus 18 r~~y~~INL~~Lq~~id~Grid~~~~Idl~~L~~~Gli~~~~~~~k~gVKLLg~G~~~l~--~kI~Iev~~aS~sAieaI 95 (198)
++...+|||++|..+. .|+ +++++ +|- =|||++| .+. .+++|-+-+||++|.++|
T Consensus 56 rrnr~pVnLSkI~r~~-~~k--e~~~~---------VVv---------GkVl~dg--rl~~vpkvtVaAL~fS~~Ar~kI 112 (187)
T PTZ00469 56 KRFRPPLSLSKLHRHM-ASY--PDDVA---------VVV---------GSITDDK--RLYDCKKLKVCALRFTETARKRI 112 (187)
T ss_pred cccCCceeHHHHHHHh-ccC--CCCEE---------EEE---------eeEccCc--cccccCceEEEEEecCHHHHHHH
Confidence 5678899999998775 121 11111 111 1799999 888 899999999999999999
Q ss_pred HHcCC
Q psy6392 96 ERNGE 100 (198)
Q Consensus 96 E~aG~ 100 (198)
|+||+
T Consensus 113 ~~AGG 117 (187)
T PTZ00469 113 LDAGG 117 (187)
T ss_pred HHhCC
Confidence 99993
No 11
>PTZ00195 60S ribosomal protein L18; Provisional
Probab=96.73 E-value=0.0032 Score=53.90 Aligned_cols=65 Identities=14% Similarity=0.170 Sum_probs=46.4
Q ss_pred CcccceeehhhHHhHHhhCC--CCCCCccCHHHHHHCCCCcCCCCCCCcceEEecccccccce--eEEEEEeecCHHHHH
Q psy6392 18 RRQYPPLSLLQLQKFIDTNR--IDPSKPIDLAALCNTGLYTFEPFHNHYGVNLTDEGADNFKA--KINIEVQWTSEPVIA 93 (198)
Q Consensus 18 r~~y~~INL~~Lq~~id~Gr--id~~~~Idl~~L~~~Gli~~~~~~~k~gVKLLg~G~~~l~~--kI~Iev~~aS~sAie 93 (198)
+....||||++|..+...|- ..++. +...+- - -=+||++| .+.. +++|-+-+||++|.+
T Consensus 56 r~nRppVsLSrI~r~~k~~d~~~~~~~--------~~k~~V------V-vGkVtdd~--rl~~vPkvtVaALrfS~tAr~ 118 (198)
T PTZ00195 56 RSNRAPISLSRIAVVMKRKAVFTAKGK--------KAPIAV------V-VGDVLDDV--RMARIPAMRVCALRFSKSARQ 118 (198)
T ss_pred cccCCceeHHHHHHHHhccccccccCC--------CCcEEE------E-EeeEcCCc--cccccCceEEEEEecCHHHHH
Confidence 56788999999998865431 00110 000100 0 11799999 9888 999999999999999
Q ss_pred HHHHcC
Q psy6392 94 AIERNG 99 (198)
Q Consensus 94 aIE~aG 99 (198)
.|++||
T Consensus 119 rI~kAG 124 (198)
T PTZ00195 119 SIVAAG 124 (198)
T ss_pred HHHHhC
Confidence 999999
No 12
>KOG1742|consensus
Probab=91.18 E-value=0.16 Score=41.61 Aligned_cols=75 Identities=16% Similarity=0.185 Sum_probs=45.9
Q ss_pred ccceeehhhHHhHHhhCCCCCCCccCHHHHHHCCCCcCCCCCCCcc-eEEecccccccceeEEEEEeecCHHHHHHHHHc
Q psy6392 20 QYPPLSLLQLQKFIDTNRIDPSKPIDLAALCNTGLYTFEPFHNHYG-VNLTDEGADNFKAKINIEVQWTSEPVIAAIERN 98 (198)
Q Consensus 20 ~y~~INL~~Lq~~id~Grid~~~~Idl~~L~~~Gli~~~~~~~k~g-VKLLg~G~~~l~~kI~Iev~~aS~sAieaIE~a 98 (198)
-.++|||++|-.++..-. -.+... +++|.... ++....| -|+||.|.--.+.||.+++-.+|..|.++|.++
T Consensus 67 ~~P~vnldkLWtlv~~~~-----~~~~~~-~k~g~aPv-idv~~~Gy~kvlGkgklp~~~PvIVKak~~s~~AeekIk~~ 139 (147)
T KOG1742|consen 67 FCPTVNLDKLWTLVREQT-----RVKAAK-NKTGAAPV-IDVVQSGYYKVLGKGKLPEETPVIVKAKYFSRRAEEKIKKA 139 (147)
T ss_pred cCCcccHHHHHHhhhHHH-----HHHHhc-cCCCCCce-eeeeecceeEeeccccCCCCCcEEEeccccCccchHHHHhc
Confidence 456799999976662200 000000 12222211 1112333 579999933335899999999999999999999
Q ss_pred CCC
Q psy6392 99 GEA 101 (198)
Q Consensus 99 G~p 101 (198)
|+.
T Consensus 140 gg~ 142 (147)
T KOG1742|consen 140 GGA 142 (147)
T ss_pred Cce
Confidence 843
No 13
>PF09494 Slx4: Slx4 endonuclease; InterPro: IPR018574 The Slx4 protein is a heteromeric structure-specific endonuclease found in fungi. Slx4 with Slx1 acts as a nuclease on branched DNA substrates, particularly simple-Y, 5'-flap, or replication fork structures by cleaving the strand bearing the 5' non-homologous arm at the branch junction and thus generating ligatable nicked products from 5'-flap or replication fork substrates [].
Probab=64.58 E-value=8.6 Score=26.78 Aligned_cols=36 Identities=19% Similarity=0.389 Sum_probs=24.4
Q ss_pred ccceeehhhHHhHHhhCCCCCCCccCHHHH---HHCCCC
Q psy6392 20 QYPPLSLLQLQKFIDTNRIDPSKPIDLAAL---CNTGLY 55 (198)
Q Consensus 20 ~y~~INL~~Lq~~id~Grid~~~~Idl~~L---~~~Gli 55 (198)
.|.||+|++|..+.....++-...++...| +++.+|
T Consensus 21 ~YePI~L~el~~~L~~~g~~~~~~~~~~~l~~~lD~~gI 59 (64)
T PF09494_consen 21 MYEPINLEELHAWLKASGIGFDRKVDPSKLKEWLDSQGI 59 (64)
T ss_pred cCCCccHHHHHHHHHHcCCCccceeCHHHHHHHHHHCCc
Confidence 589999999999998655544445555554 444444
No 14
>PF06760 DUF1221: Protein of unknown function (DUF1221); InterPro: IPR010632 This is a group of plant proteins, most of which are hypothetical and of unknown function. All members contain the IPR000719 from INTERPRO domain, suggesting that they may possess kinase activity.
Probab=53.40 E-value=12 Score=32.44 Aligned_cols=34 Identities=41% Similarity=0.663 Sum_probs=23.6
Q ss_pred HHHHHHHHHcCCCCCCCCCCCccccccccCcCCCCccCCccchhHHHHHHHHHcCC
Q psy6392 89 EPVIAAIERNGEAIPLRFQPPQDAILYYSNPESRGYLADPEQISWQRFALAQKYGY 144 (198)
Q Consensus 89 ~sAieaIE~aG~pip~r~~p~~d~i~yY~~~~~RGYLa~~~~i~~~r~~~a~k~gy 144 (198)
.-+|+|||.||.. -| .|+++++..|+.+|+||--
T Consensus 98 ~vviEAIE~AgE~--------------------sG--~D~dE~~rkRl~~a~kYdk 131 (217)
T PF06760_consen 98 PVVIEAIETAGEI--------------------SG--SDQDEMARKRLVLARKYDK 131 (217)
T ss_pred HHHHHHHHHHhhc--------------------cC--CCHHHHHHHHHHHHHhhhh
Confidence 4589999999832 13 3556777778888888743
No 15
>PF14237 DUF4339: Domain of unknown function (DUF4339)
Probab=50.81 E-value=12 Score=24.08 Aligned_cols=25 Identities=36% Similarity=0.631 Sum_probs=20.6
Q ss_pred CcccceeehhhHHhHHhhCCCCCCC
Q psy6392 18 RRQYPPLSLLQLQKFIDTNRIDPSK 42 (198)
Q Consensus 18 r~~y~~INL~~Lq~~id~Grid~~~ 42 (198)
..++=|+++.+|..+|..|+|++..
T Consensus 8 g~~~GP~s~~el~~l~~~g~i~~~t 32 (45)
T PF14237_consen 8 GQQQGPFSLEELRQLISSGEIDPDT 32 (45)
T ss_pred CeEECCcCHHHHHHHHHcCCCCCCC
Confidence 4567799999999999999887653
No 16
>PRK00040 rpsP 30S ribosomal protein S16; Reviewed
Probab=35.30 E-value=33 Score=25.07 Aligned_cols=33 Identities=3% Similarity=0.014 Sum_probs=22.9
Q ss_pred ccCCCCCCCCCCCCc-ccceeehhhHHhHHhhCC
Q psy6392 5 LYLSQPLFTGADQRR-QYPPLSLLQLQKFIDTNR 37 (198)
Q Consensus 5 RlPKrGF~~~~~~r~-~y~~INL~~Lq~~id~Gr 37 (198)
-+-+-||.+|..... ....||+++++.|+..|-
T Consensus 32 ~iE~lG~ydP~~~~~~~~i~ln~eri~~Wl~~GA 65 (75)
T PRK00040 32 FIERVGFYNPLAKPAEEEVKLDEERVLYWLGQGA 65 (75)
T ss_pred ceeEEeecCCCCCCCcceEEEcHHHHHHHHHCCC
Confidence 344578886543221 255899999999999984
No 17
>KOG1714|consensus
Probab=31.63 E-value=24 Score=30.15 Aligned_cols=24 Identities=17% Similarity=0.209 Sum_probs=21.4
Q ss_pred eeEEEEEeecCHHHHHHHHHcCCC
Q psy6392 78 AKINIEVQWTSEPVIAAIERNGEA 101 (198)
Q Consensus 78 ~kI~Iev~~aS~sAieaIE~aG~p 101 (198)
-++.|.+-++|++|.+.|+++|+.
T Consensus 96 Pkl~v~al~~t~~ar~rI~kagg~ 119 (188)
T KOG1714|consen 96 PKLKVAALRFTKGARARILKAGGE 119 (188)
T ss_pred ccceeeeeecccchhhhhhccCce
Confidence 378999999999999999999943
No 18
>PRK09570 rpoH DNA-directed RNA polymerase subunit H; Reviewed
Probab=29.46 E-value=73 Score=23.61 Aligned_cols=36 Identities=31% Similarity=0.551 Sum_probs=25.5
Q ss_pred HHHHHHHcCCCC---CCCCCchhHHhhhccCCCcccccCCCCcceeecC
Q psy6392 135 RFALAQKYGYTL---PEIEKDPDFEMLSMRKDPRQVFYGLEPGWVVNVI 180 (198)
Q Consensus 135 r~~~a~k~gy~l---p~~~~~~~~~~l~~~k~p~q~f~gl~pg~vv~l~ 180 (198)
...+-++|+-.. |.+- ..||-=-+||+.||.||-+.
T Consensus 23 ~~~lL~~y~i~~~qLP~I~----------~~DPv~r~~g~k~GdVvkI~ 61 (79)
T PRK09570 23 AKKLLKEYGIKPEQLPKIK----------ASDPVVKAIGAKPGDVIKIV 61 (79)
T ss_pred HHHHHHHcCCCHHHCCcee----------ccChhhhhcCCCCCCEEEEE
Confidence 445666775443 5542 57888889999999999764
No 19
>PRK14520 rpsP 30S ribosomal protein S16; Provisional
Probab=28.25 E-value=48 Score=27.63 Aligned_cols=32 Identities=3% Similarity=-0.019 Sum_probs=23.5
Q ss_pred ccCCCCCCCCCCCCcccceeehhhHHhHHhhCC
Q psy6392 5 LYLSQPLFTGADQRRQYPPLSLLQLQKFIDTNR 37 (198)
Q Consensus 5 RlPKrGF~~~~~~r~~y~~INL~~Lq~~id~Gr 37 (198)
-|=+-||++++. ......||++++++|+..|-
T Consensus 33 ~IE~lG~YnP~~-~~~~i~ln~eRi~yWL~~GA 64 (155)
T PRK14520 33 AIEEIGRYHPKE-EPSLIEIDSERAQYWLSVGA 64 (155)
T ss_pred ceeeeeccCCCC-CCceEEEcHHHHHHHHHCCC
Confidence 345678986542 33456799999999999984
No 20
>PTZ00061 DNA-directed RNA polymerase; Provisional
Probab=28.23 E-value=2e+02 Score=25.00 Aligned_cols=89 Identities=20% Similarity=0.274 Sum_probs=51.6
Q ss_pred ccceeEEEEEeecCHHHHHHHHHcCC--CCCCCCCCCccccccccCcCCCCccCCccch--hHHHHHHHHHcCCC---CC
Q psy6392 75 NFKAKINIEVQWTSEPVIAAIERNGE--AIPLRFQPPQDAILYYSNPESRGYLADPEQI--SWQRFALAQKYGYT---LP 147 (198)
Q Consensus 75 ~l~~kI~Iev~~aS~sAieaIE~aG~--pip~r~~p~~d~i~yY~~~~~RGYLa~~~~i--~~~r~~~a~k~gy~---lp 147 (198)
.++..|-|.-+..|..|+.+|..... .|.- ..-.|++---|+. -|.++-.+ .++...+-++|+-. ||
T Consensus 93 n~~r~IlV~q~~ltp~Ar~~i~~~~~~~~iE~--F~E~eLlvnit~H----~lVPkH~~Ls~eEk~~lL~~y~i~~~qLP 166 (205)
T PTZ00061 93 DIQRAILVTQNVLTPFAKDAILEAAPRHIIEN--FLETELLVNITKH----ELVPKHIPLTDDEKLNLLQRYKVKESQLP 166 (205)
T ss_pred CCceEEEEECCCCCHHHHHHHHhhCCCcEEEE--eeehheEEecccc----eecCCeEEcCHHHHHHHHHHhCCCHHHCC
Confidence 68888999999999999999955521 0000 0001111111111 12221111 12345667777654 35
Q ss_pred CCCCchhHHhhhccCCCcccccCCCCcceeec
Q psy6392 148 EIEKDPDFEMLSMRKDPRQVFYGLEPGWVVNV 179 (198)
Q Consensus 148 ~~~~~~~~~~l~~~k~p~q~f~gl~pg~vv~l 179 (198)
.|- ..||-=-+||+.||.||-+
T Consensus 167 rI~----------~~DPvary~g~k~G~vvkI 188 (205)
T PTZ00061 167 RIQ----------SADPVARYFGLSKGQVVKI 188 (205)
T ss_pred ccc----------ccChhhHhcCCCCCCEEEE
Confidence 542 5788888999999999965
No 21
>PLN03111 DNA-directed RNA polymerase II subunit family protein; Provisional
Probab=27.54 E-value=2.2e+02 Score=24.76 Aligned_cols=87 Identities=23% Similarity=0.300 Sum_probs=53.5
Q ss_pred ccceeEEEEEeecCHHHHHHHHHcCCCCCCCCCCCccccccccCcCC-----CCccCCccch--hHHHHHHHHHcCCCC-
Q psy6392 75 NFKAKINIEVQWTSEPVIAAIERNGEAIPLRFQPPQDAILYYSNPES-----RGYLADPEQI--SWQRFALAQKYGYTL- 146 (198)
Q Consensus 75 ~l~~kI~Iev~~aS~sAieaIE~aG~pip~r~~p~~d~i~yY~~~~~-----RGYLa~~~~i--~~~r~~~a~k~gy~l- 146 (198)
.+...|-|.-+..|..|+.+|.....+ .-|+.|.-.+- .=-|.++-.+ .++...+-++|+-..
T Consensus 94 ~~~r~IlV~q~~itp~A~~~i~~~~~~---------~~iE~F~e~eLlvnit~H~lVPkH~~ls~eEk~~lL~~y~i~~~ 164 (206)
T PLN03111 94 NVSRAILVLQSKLTPFAKQALSEFNSK---------FKIEVFQETELLVNITKHVLVPKHQVLTDEEKKTLLKRYTVKET 164 (206)
T ss_pred CcceEEEEECCCCCHHHHHHHHhhCcC---------ceEEEeehhHheeccccceecCCeEEcCHHHHHHHHHHcCCCHH
Confidence 688888888899999999999887311 01222221110 0012211111 224567778887543
Q ss_pred --CCCCCchhHHhhhccCCCcccccCCCCcceeecC
Q psy6392 147 --PEIEKDPDFEMLSMRKDPRQVFYGLEPGWVVNVI 180 (198)
Q Consensus 147 --p~~~~~~~~~~l~~~k~p~q~f~gl~pg~vv~l~ 180 (198)
|.+- ..||-=-+||+.||.||-+.
T Consensus 165 qLPrI~----------~~DPvary~g~k~G~vvkI~ 190 (206)
T PLN03111 165 QLPRIQ----------VSDPIARYYGLKRGQVVKII 190 (206)
T ss_pred HCCccc----------ccChhhHhcCCCCCCEEEEE
Confidence 5542 57888889999999999653
No 22
>PF00886 Ribosomal_S16: Ribosomal protein S16; InterPro: IPR000307 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 S16 is one of the proteins from the small ribosomal subunit. It belongs to a family of ribosomal proteins which, on the basis of sequence similarities [], groups: Eubacterial S16. Algal and plant chloroplast S16. Cyanelle S16. Neurospora crassa mitochondrial S24 (cyt-21). S16 proteins have about 100 amino-acid residues.; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 2Y14_P 3UZ6_S 2J02_P 1HNZ_P 3V26_P 3KNL_P 1N34_P 2J00_P 1HNW_P 3OHC_P ....
Probab=26.07 E-value=33 Score=24.03 Aligned_cols=29 Identities=3% Similarity=0.151 Sum_probs=20.7
Q ss_pred CCCCCCCCCCC--cccceeehhhHHhHHhhC
Q psy6392 8 SQPLFTGADQR--RQYPPLSLLQLQKFIDTN 36 (198)
Q Consensus 8 KrGF~~~~~~r--~~y~~INL~~Lq~~id~G 36 (198)
.-||.+++... .....||++++..|+..|
T Consensus 28 ~lG~YdP~~~~~~~~~~~l~~eri~~Wl~~G 58 (62)
T PF00886_consen 28 ELGFYDPIPNPDEEKQIKLNFERIKYWLSKG 58 (62)
T ss_dssp EEEEEETTSSSSSSTSEEETHHHHHHHHHTT
T ss_pred ccceEcCCCCCCCceeEEeCHHHHHHHHHcC
Confidence 45777544332 136789999999999887
No 23
>PF05464 Phi-29_GP4: Phi-29-like late genes activator (early protein GP4); InterPro: IPR008771 This family consists of phi-29-like late genes activator (or early protein GP4). This protein is thought to be a positive regulator of late transcription and may function as a sigma-like component of the host RNA polymerase [].; GO: 0003899 DNA-directed RNA polymerase activity, 0016987 sigma factor activity, 0006355 regulation of transcription, DNA-dependent; PDB: 2FIP_B 2FIO_A.
Probab=25.78 E-value=12 Score=29.56 Aligned_cols=16 Identities=44% Similarity=0.765 Sum_probs=10.5
Q ss_pred cccccccCcCCCCccC
Q psy6392 111 DAILYYSNPESRGYLA 126 (198)
Q Consensus 111 d~i~yY~~~~~RGYLa 126 (198)
.+|.||++-++||++|
T Consensus 66 aDI~fY~~VEKRGF~~ 81 (125)
T PF05464_consen 66 ADITFYSQVEKRGFHA 81 (125)
T ss_dssp HHHHHHHHH-TS---E
T ss_pred HHHHHHHHHhhhhhhh
Confidence 3599999999999987
No 24
>TIGR00002 S16 ribosomal protein S16. This model describes ribosomal S16 of bacteria and organelles.
Probab=24.55 E-value=64 Score=23.74 Aligned_cols=32 Identities=3% Similarity=0.125 Sum_probs=23.4
Q ss_pred ccCCCCCCCCCCCCcccceeehhhHHhHHhhCC
Q psy6392 5 LYLSQPLFTGADQRRQYPPLSLLQLQKFIDTNR 37 (198)
Q Consensus 5 RlPKrGF~~~~~~r~~y~~INL~~Lq~~id~Gr 37 (198)
-+-+-||.+|.. ......||+++++.|+..|-
T Consensus 31 ~iE~lG~YnP~~-~~~~i~l~~~ri~~Wl~~GA 62 (78)
T TIGR00002 31 YIEELGFYNPLT-KESRVKLNVERIKYWLSKGA 62 (78)
T ss_pred ceeEeeeccCCC-CCcEEEEcHHHHHHHHHCCC
Confidence 345678886543 33456899999999999984
No 25
>PRK14522 rpsP 30S ribosomal protein S16; Provisional
Probab=24.25 E-value=69 Score=25.52 Aligned_cols=43 Identities=9% Similarity=0.070 Sum_probs=28.9
Q ss_pred ccCCCCCCCCCCCCcccceeehhhHHhHHhhCCCCCCCccCHHHHHHC
Q psy6392 5 LYLSQPLFTGADQRRQYPPLSLLQLQKFIDTNRIDPSKPIDLAALCNT 52 (198)
Q Consensus 5 RlPKrGF~~~~~~r~~y~~INL~~Lq~~id~Grid~~~~Idl~~L~~~ 52 (198)
-+-.-||.+|. ..+...||++++..|+..|- .|++ +...|++.
T Consensus 33 ~IE~lG~YdP~--~~~~v~Ln~eRi~yWL~~GA-qPS~--tV~~LLkk 75 (116)
T PRK14522 33 YIELLGWYDPH--SEQNYQLKSERIFYWLNQGA-ELTE--KAGALVKQ 75 (116)
T ss_pred cceeeeccCCC--CCCceEECHHHHHHHHHCCC-ccCH--HHHHHHHh
Confidence 34557899543 33466799999999999984 3443 34556554
No 26
>PRK14525 rpsP 30S ribosomal protein S16; Provisional
Probab=24.18 E-value=60 Score=24.51 Aligned_cols=32 Identities=6% Similarity=0.216 Sum_probs=23.1
Q ss_pred ccCCCCCCCCCCCCcccceeehhhHHhHHhhCC
Q psy6392 5 LYLSQPLFTGADQRRQYPPLSLLQLQKFIDTNR 37 (198)
Q Consensus 5 RlPKrGF~~~~~~r~~y~~INL~~Lq~~id~Gr 37 (198)
-+-+-||.++. .......||++++.+|+..|-
T Consensus 33 ~IE~lG~YnP~-~~~~~i~ln~eri~~WL~~GA 64 (88)
T PRK14525 33 YLEDVGIYDPT-KRPERIELKVERIEHWLKAGA 64 (88)
T ss_pred ceeEEecccCC-CCCceEEEcHHHHHHHHHCCC
Confidence 34457888643 233456899999999999984
No 27
>PF15072 DUF4539: Domain of unknown function (DUF4539)
Probab=23.39 E-value=42 Score=25.04 Aligned_cols=20 Identities=30% Similarity=0.509 Sum_probs=18.3
Q ss_pred CCCCcceeecCcceeecCCC
Q psy6392 170 GLEPGWVVNVIDKMILKPKD 189 (198)
Q Consensus 170 gl~pg~vv~l~d~~~~~p~~ 189 (198)
.|.||||+=|+|=.||.|+.
T Consensus 47 ~l~~GavLlLk~V~Vf~ps~ 66 (86)
T PF15072_consen 47 ELSPGAVLLLKDVTVFSPSP 66 (86)
T ss_pred ccccCEEEEEeeeeEEecCC
Confidence 57999999999999999984
No 28
>PRK14521 rpsP 30S ribosomal protein S16; Provisional
Probab=22.58 E-value=67 Score=27.52 Aligned_cols=50 Identities=10% Similarity=0.068 Sum_probs=32.5
Q ss_pred CcccCCCCCCCCCCCCcccceeehhhHHhHHhhCCCCCCCccCHHH-HHHCCCCc
Q psy6392 3 GFLYLSQPLFTGADQRRQYPPLSLLQLQKFIDTNRIDPSKPIDLAA-LCNTGLYT 56 (198)
Q Consensus 3 ~~RlPKrGF~~~~~~r~~y~~INL~~Lq~~id~Grid~~~~Idl~~-L~~~Gli~ 56 (198)
|-.|=+-||++|+. ......||++++++|+..|-- |+ -+... |...|++.
T Consensus 31 Gk~IE~lG~YnP~~-~~~~i~Ln~eRi~~WL~~GAq-PT--dtV~~lL~~~g~~~ 81 (186)
T PRK14521 31 GKFIEKIGTYNPNT-NPATVDLNFDRAVYWLMNGAQ-PT--DTARNILSYEGVLL 81 (186)
T ss_pred CCceeeeeecCCCC-CCceEEEcHHHHHHHHHCCCc-CC--HHHHHHHHHcccch
Confidence 44455679996543 334668999999999999843 33 33344 44556664
No 29
>PRK14524 rpsP 30S ribosomal protein S16; Provisional
Probab=21.80 E-value=73 Score=24.32 Aligned_cols=32 Identities=6% Similarity=-0.034 Sum_probs=23.3
Q ss_pred ccCCCCCCCCCCCCcccceeehhhHHhHHhhCC
Q psy6392 5 LYLSQPLFTGADQRRQYPPLSLLQLQKFIDTNR 37 (198)
Q Consensus 5 RlPKrGF~~~~~~r~~y~~INL~~Lq~~id~Gr 37 (198)
-+-.-||.+|. .......||++++++|+..|-
T Consensus 32 ~iE~lG~YnP~-~~~~~i~l~~eri~~Wl~~GA 63 (94)
T PRK14524 32 YIESLGYYNPL-KEPYEIKVDVERAVEWILKGA 63 (94)
T ss_pred ceeEeeecCCC-CCCceEEEcHHHHHHHHHcCC
Confidence 34457898644 233456899999999999984
No 30
>CHL00005 rps16 ribosomal protein S16
Probab=21.34 E-value=76 Score=23.64 Aligned_cols=30 Identities=7% Similarity=0.105 Sum_probs=21.8
Q ss_pred ccCCCCCCCCCCCCcccceeehhhHHhHHhhCC
Q psy6392 5 LYLSQPLFTGADQRRQYPPLSLLQLQKFIDTNR 37 (198)
Q Consensus 5 RlPKrGF~~~~~~r~~y~~INL~~Lq~~id~Gr 37 (198)
-+-.-||.+|. . +-..||++++++|+..|-
T Consensus 32 ~iE~lG~YnP~--~-~~~~ln~eri~~Wl~~GA 61 (82)
T CHL00005 32 DLEKVGFYDPI--K-NQTYLNVPAILYFLEKGA 61 (82)
T ss_pred ceeEeeeccCC--C-cccEEeHHHHHHHHHCcC
Confidence 34456888543 2 234899999999999984
No 31
>PRK14425 acylphosphatase; Provisional
Probab=20.73 E-value=50 Score=24.67 Aligned_cols=14 Identities=50% Similarity=0.907 Sum_probs=11.0
Q ss_pred CCCCcceeecCccee
Q psy6392 170 GLEPGWVVNVIDKMI 184 (198)
Q Consensus 170 gl~pg~vv~l~d~~~ 184 (198)
||. |||-|+.|..|
T Consensus 33 gl~-G~V~N~~dGsV 46 (94)
T PRK14425 33 GLT-GWVRNESDGSV 46 (94)
T ss_pred CCE-EEEEECCCCeE
Confidence 444 99999999844
Done!