Query 036232
Match_columns 259
No_of_seqs 150 out of 1216
Neff 6.7
Searched_HMMs 46136
Date Fri Mar 29 10:45:38 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/036232.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/036232hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PTZ00029 60S ribosomal protein 100.0 8.9E-59 1.9E-63 406.0 23.9 216 44-259 1-216 (216)
2 PTZ00225 60S ribosomal protein 100.0 2.3E-57 5E-62 396.0 24.8 214 44-259 1-214 (214)
3 PRK04203 rpl1P 50S ribosomal p 100.0 1.2E-54 2.7E-59 379.8 23.9 211 47-259 2-214 (215)
4 cd00403 Ribosomal_L1 Ribosomal 100.0 5.7E-48 1.2E-52 335.5 22.6 205 52-258 1-208 (208)
5 COG0081 RplA Ribosomal protein 100.0 6.3E-48 1.4E-52 334.7 20.8 211 39-259 10-226 (228)
6 CHL00129 rpl1 ribosomal protei 100.0 1.7E-46 3.7E-51 330.5 21.9 201 47-258 17-223 (229)
7 PRK05424 rplA 50S ribosomal pr 100.0 1.4E-45 3.1E-50 325.3 22.0 203 45-258 15-223 (230)
8 TIGR01169 rplA_bact ribosomal 100.0 3.4E-45 7.4E-50 322.2 21.9 202 46-258 15-222 (227)
9 PF00687 Ribosomal_L1: Ribosom 100.0 1.2E-43 2.5E-48 310.6 17.8 200 56-255 1-220 (220)
10 KOG1570 60S ribosomal protein 100.0 2.3E-38 4.9E-43 269.3 12.4 216 44-259 2-218 (218)
11 KOG1685 Uncharacterized conser 100.0 8.6E-37 1.9E-41 278.5 9.7 218 38-259 10-259 (343)
12 KOG1569 50S ribosomal protein 100.0 1.2E-29 2.6E-34 226.4 16.2 203 47-258 87-303 (323)
13 TIGR01170 rplA_mito ribosomal 99.9 4.3E-26 9.3E-31 187.1 13.9 135 51-195 2-140 (141)
14 PF13003 MRL1: Ribosomal prote 96.7 0.0035 7.6E-08 50.8 5.7 63 47-110 67-133 (133)
15 TIGR01170 rplA_mito ribosomal 82.3 0.83 1.8E-05 37.6 1.8 23 159-181 106-129 (141)
16 CHL00129 rpl1 ribosomal protei 73.8 2 4.4E-05 38.1 1.8 21 160-180 124-145 (229)
17 TIGR01169 rplA_bact ribosomal 72.2 2.3 5E-05 37.7 1.8 21 160-180 123-144 (227)
18 PRK05424 rplA 50S ribosomal pr 71.1 2.5 5.3E-05 37.6 1.7 21 160-180 124-145 (230)
19 COG0081 RplA Ribosomal protein 69.6 3.2 6.9E-05 36.9 2.0 21 160-180 126-147 (228)
20 PRK02228 V-type ATP synthase s 66.0 14 0.0003 28.4 4.7 85 106-195 2-95 (100)
21 PRK01395 V-type ATP synthase s 54.0 43 0.00094 25.9 5.7 84 105-195 4-100 (104)
22 TIGR00853 pts-lac PTS system, 46.1 66 0.0014 24.3 5.5 52 104-165 3-67 (95)
23 KOG2219 Uncharacterized conser 42.6 30 0.00065 35.4 3.8 84 147-237 64-151 (864)
24 COG4844 Uncharacterized protei 31.7 30 0.00066 25.0 1.5 16 215-230 58-73 (78)
25 COG1436 NtpG Archaeal/vacuolar 31.2 77 0.0017 24.7 3.8 85 105-195 3-99 (104)
26 PRK01189 V-type ATP synthase s 29.0 1.8E+02 0.0038 22.6 5.5 82 106-195 4-98 (104)
27 PRK04203 rpl1P 50S ribosomal p 28.9 43 0.00093 29.3 2.3 19 161-179 120-139 (215)
28 PF00370 FGGY_N: FGGY family o 28.0 50 0.0011 28.7 2.6 45 212-256 39-83 (245)
29 cd05565 PTS_IIB_lactose PTS_II 27.0 1.7E+02 0.0036 22.5 5.0 50 106-165 2-64 (99)
30 cd05564 PTS_IIB_chitobiose_lic 24.5 2E+02 0.0043 21.5 5.1 40 117-166 21-64 (96)
31 TIGR03260 met_CoM_red_D methyl 23.4 91 0.002 26.0 3.1 46 205-253 67-114 (150)
No 1
>PTZ00029 60S ribosomal protein L10a; Provisional
Probab=100.00 E-value=8.9e-59 Score=405.98 Aligned_cols=216 Identities=70% Similarity=1.116 Sum_probs=208.8
Q ss_pred cCCCCHHHHHHHHHHHHhhhhhccCCCCCeEEEEEEEcccCCCCCCccceeEecCCCCCCCcEEEEEeCcccHHHHHHcC
Q 036232 44 NSKLSSEVLREAVSTICGDAKEKNRNFVETIELQIGLKNYDPQKDKRFSGSVKLPHIPRPMMKVCMLGDAQHVEQAEKIG 123 (259)
Q Consensus 44 ~s~v~~~~v~kAv~~L~~~~~~~~~~f~e~I~l~i~lK~i~~kk~~~~r~~I~LPh~~~~~~~Vcvf~~~~~~~~a~~~g 123 (259)
||.++++++++||++++++...++++|+|+|+++|+||++|+++++++|+.|.|||+++++.+||||++++.+++|+++|
T Consensus 1 m~~~~~~~~~~av~~~~~~~~~~~~~f~esv~~~i~Lk~id~~~~~~ir~~v~LP~~~gk~~~v~V~a~~~~~~~Ak~aG 80 (216)
T PTZ00029 1 MSKLSSEALRKAIAEILEGSEEKKRKFVETVELQIGLKDYDTQKDKRFSGSVKLPNVPKPNLKVCVLGDAVHCDEAKKLG 80 (216)
T ss_pred CCcCCHHHHHHHHHHHHhhccccccCCceEEEEEEEcCCCCCCcCcccceeEecCCCCCCCcEEEEECCcHHHHHHHHcC
Confidence 56789999999999999876556789999999999999999999999999999999999999999999999999999999
Q ss_pred CceeCHHHHHHhhhcHHHHHHHhhhcCEEEEeHhhHhhhhhccCCCCCCCCCCCccccCcccHHHHHHHhhcceeeEecc
Q 036232 124 MDYMDVEALKKLNKNKKLVKKLAKKYHAFLASEAVIKQIPRLLGPGLNKAGKFPTLVTHQESLEAKVNETKAVVKFQLKK 203 (259)
Q Consensus 124 a~~vg~~eL~k~~k~~e~~rkL~~~yD~fLad~~i~~~L~rlLGk~f~~~~K~P~~v~~~~dl~~~I~~~~~s~~~~~~~ 203 (259)
|+++|.++|++.+++++.+++|+.+||+||||+++|+.||++|||+|||++|+|++|+++.|+.++|++++++++|++++
T Consensus 81 a~vvg~edL~~~~k~~k~~kkl~~~fD~flA~~~im~~l~riLGp~l~p~~K~P~~v~~~~d~~~~i~~~k~~v~~r~~k 160 (216)
T PTZ00029 81 LDFMDIEGLKKFNKNKKLVKKLAKKYDAFLASQSLLPQIPRLLGPGLNKAGKFPTLITHNDDIEDKINELKSSVKFQLKK 160 (216)
T ss_pred CCEecHHHHHHhhhhHHHHhcccccCCEEEECHHHHHHHHHHhccccccCCCCCCcccCccCHHHHHHHHHheEEEEECC
Confidence 99999999999999999999999999999999999999999999999999999999988899999999999999999999
Q ss_pred ccEEEEEEecCCCChhHHhccHHHHHHHHHHhccccccCeeEEEEEcCCCCCeecC
Q 036232 204 VLCMGVAVGNCSMEEKQVFQNVQLSVNFLVSLLKKSWQNVRCLHLKSTMGRPQRIY 259 (259)
Q Consensus 204 ~~~i~v~IG~~sm~~eql~eNi~avl~~l~~~~p~~~~nI~sv~Lkst~sp~lpIy 259 (259)
++|++++||+++|+++||+|||.+++++|.+.+++||.||+++||||||||+++||
T Consensus 161 ~~~i~v~VG~~~~~~e~l~eNi~avl~~i~~~~~kg~~~Iksv~lktTmgp~v~v~ 216 (216)
T PTZ00029 161 VLCLGVAVGNVEMTEEQLRQNIVLSINFLVSLLKKNWQNIKTLHIKSTMGKPQRIY 216 (216)
T ss_pred CCEEEEEEcCCCCCHHHHHHHHHHHHHHHHHHhccccccEeEEEEECCCCCCEeCC
Confidence 99999999999999999999999999999999999999999999999999999998
No 2
>PTZ00225 60S ribosomal protein L10a; Provisional
Probab=100.00 E-value=2.3e-57 Score=395.96 Aligned_cols=214 Identities=57% Similarity=0.906 Sum_probs=206.6
Q ss_pred cCCCCHHHHHHHHHHHHhhhhhccCCCCCeEEEEEEEcccCCCCCCccceeEecCCCCCCCcEEEEEeCcccHHHHHHcC
Q 036232 44 NSKLSSEVLREAVSTICGDAKEKNRNFVETIELQIGLKNYDPQKDKRFSGSVKLPHIPRPMMKVCMLGDAQHVEQAEKIG 123 (259)
Q Consensus 44 ~s~v~~~~v~kAv~~L~~~~~~~~~~f~e~I~l~i~lK~i~~kk~~~~r~~I~LPh~~~~~~~Vcvf~~~~~~~~a~~~g 123 (259)
||+++++++++||+.+++.. +.++|+|+|+|+|+||++||++++++|+.|.|||++++..+||||++++++++|+++|
T Consensus 1 m~k~~~~~i~~Av~~~lk~~--~~~kF~Etvdl~v~Lk~iDp~kd~~irg~v~LPhg~gk~~kV~v~~~~~~~~~Ak~aG 78 (214)
T PTZ00225 1 MSKIPPQTLSEAIQAVLKVD--KERKFKESIDLQVNLKNYDPQKDKRFSGSLKLPNVCRPRMTVCLLCDLVHEDIAKKEG 78 (214)
T ss_pred CCcCCHHHHHHHHHHHHHhc--ccCCCCceEEEEEeccCcCCCcCcccceeEECCCCCCCCcEEEEECChHHHHHHHHCC
Confidence 56789999999999988744 5678999999999999999999999999999999999999999999999999999999
Q ss_pred CceeCHHHHHHhhhcHHHHHHHhhhcCEEEEeHhhHhhhhhccCCCCCCCCCCCccccCcccHHHHHHHhhcceeeEecc
Q 036232 124 MDYMDVEALKKLNKNKKLVKKLAKKYHAFLASEAVIKQIPRLLGPGLNKAGKFPTLVTHQESLEAKVNETKAVVKFQLKK 203 (259)
Q Consensus 124 a~~vg~~eL~k~~k~~e~~rkL~~~yD~fLad~~i~~~L~rlLGk~f~~~~K~P~~v~~~~dl~~~I~~~~~s~~~~~~~ 203 (259)
|+++|.++|+++.++++++|+|+.+||+|||++++||.||++|||.|+|++|+|+++++++|+.+.|+++++++.|++++
T Consensus 79 ad~v~~e~l~~l~k~~~~~kkl~~~fD~fiA~~~~m~~lgk~LGp~~~p~gK~P~~~~~~~dl~~~i~~~k~~v~~r~~k 158 (214)
T PTZ00225 79 VPTMNQEELKKLNKNKKLVKKMCNQYDAFLCSESIIKTVPRLVGPHMHRMGKFPTVCSPSESLPDKVVELRSTVKFQLKK 158 (214)
T ss_pred CCEECHHHHHHHHhccHHHHHHHhhCCEEEECHHHHHhhhhhcCCCCCcCCCCCcccCCccCHHHHHHHHhheeEEEecC
Confidence 99999999999999999999999999999999999999999999988899999999988899999999999999999999
Q ss_pred ccEEEEEEecCCCChhHHhccHHHHHHHHHHhccccccCeeEEEEEcCCCCCeecC
Q 036232 204 VLCMGVAVGNCSMEEKQVFQNVQLSVNFLVSLLKKSWQNVRCLHLKSTMGRPQRIY 259 (259)
Q Consensus 204 ~~~i~v~IG~~sm~~eql~eNi~avl~~l~~~~p~~~~nI~sv~Lkst~sp~lpIy 259 (259)
.++++++||+++|+++||+||+.++++.|.+.+|+||+||+++||||||||+..||
T Consensus 159 ~~~~~~~VGk~~m~~e~i~eNi~a~l~~l~~~~p~k~~nIksv~iktTMGp~~~~~ 214 (214)
T PTZ00225 159 VLCLGTCVGHVEMTEEQLRQNVVMAINFLVSLLKKNWQNLKSAYIKSTMGKPQRIY 214 (214)
T ss_pred ccEEEeEEccCCCCHHHHHHHHHHHHHHHHHhCCcCCceEeEEEEECCCCCCEeCC
Confidence 99999999999999999999999999999999999999999999999999999987
No 3
>PRK04203 rpl1P 50S ribosomal protein L1P; Reviewed
Probab=100.00 E-value=1.2e-54 Score=379.78 Aligned_cols=211 Identities=30% Similarity=0.472 Sum_probs=201.5
Q ss_pred CCHHHHHHHHHHHHhhhhhccCCCCCeEEEEEEEcccCCCC-CCccceeEecCCCCCCCcEEEEEeCcccHHHHHHcCCc
Q 036232 47 LSSEVLREAVSTICGDAKEKNRNFVETIELQIGLKNYDPQK-DKRFSGSVKLPHIPRPMMKVCMLGDAQHVEQAEKIGMD 125 (259)
Q Consensus 47 v~~~~v~kAv~~L~~~~~~~~~~f~e~I~l~i~lK~i~~kk-~~~~r~~I~LPh~~~~~~~Vcvf~~~~~~~~a~~~ga~ 125 (259)
++++++.+||+.++++. +.++|+|+|+|+|+||++|+++ ++++|+.|.|||+++++.+|||||+++++++|+++||+
T Consensus 2 ~~~~~~~eai~~~k~~~--~~~kf~esvel~v~Lk~id~~k~~~~irg~i~LP~~~~k~~~V~vf~~~~~~~~Ak~aGa~ 79 (215)
T PRK04203 2 MDREKIEEAVKEALEEA--PKRNFTQSVDLIVNLKDIDLKKPENRIDEEVVLPHGRGKEVKIAVIAKGELALQAKEAGAD 79 (215)
T ss_pred CcHHHHHHHHHHHHHhc--ccCCCCceEEEEEEecCCCCCccCceeeEEEECCCCCCCCcEEEEEcChHhHHHHHHcCCC
Confidence 58899999999999853 4679999999999999999988 88999999999999999999999999999999999999
Q ss_pred -eeCHHHHHHhhhcHHHHHHHhhhcCEEEEeHhhHhhhhhccCCCCCCCCCCCccccCcccHHHHHHHhhcceeeEeccc
Q 036232 126 -YMDVEALKKLNKNKKLVKKLAKKYHAFLASEAVIKQIPRLLGPGLNKAGKFPTLVTHQESLEAKVNETKAVVKFQLKKV 204 (259)
Q Consensus 126 -~vg~~eL~k~~k~~e~~rkL~~~yD~fLad~~i~~~L~rlLGk~f~~~~K~P~~v~~~~dl~~~I~~~~~s~~~~~~~~ 204 (259)
++|.++|.+...+++++|+|+.+||+||||++||+.||++||+.|+|++|||.|+..+.|+.++|++++++++|+.+++
T Consensus 80 ~v~~~e~L~~i~~~~k~~rkl~~~fD~~lA~~~im~~l~k~LGk~lgprgkmP~p~~~t~di~~~i~~~~~~~~~r~~k~ 159 (215)
T PRK04203 80 YVITREELEELGGDKRAAKKLANEYDFFIAEADLMPLIGRYLGPVLGPRGKMPTPLPPNADIKPLVERLKNTVRIRTKDQ 159 (215)
T ss_pred EEeCHHHHHHHhcChHHHhhhhhcCCEEEECHHHHHHHHHHHhhhcCcCCCCCCCcCCCCCHHHHHHHHhhceEEEeCCC
Confidence 7788888888888999999999999999999999999999999999999999999888899999999999999999999
Q ss_pred cEEEEEEecCCCChhHHhccHHHHHHHHHHhccccccCeeEEEEEcCCCCCeecC
Q 036232 205 LCMGVAVGNCSMEEKQVFQNVQLSVNFLVSLLKKSWQNVRCLHLKSTMGRPQRIY 259 (259)
Q Consensus 205 ~~i~v~IG~~sm~~eql~eNi~avl~~l~~~~p~~~~nI~sv~Lkst~sp~lpIy 259 (259)
+|++++||+++|+++||+||+.+++++|.+.+|+||.||+++||||||||+++||
T Consensus 160 ~~i~v~VG~~~m~~e~l~eNi~avl~~i~~~~p~g~~~Iksi~lktTmgp~i~i~ 214 (215)
T PRK04203 160 PTFHVRVGTEDMSPEELAENIDAVLNRIESKLEKGRQNIKSVYVKTTMGPAVKVE 214 (215)
T ss_pred CEEEEEEeCCCCCHHHHHHHHHHHHHHHHHhCccccccEEEEEEECCCCCCEEee
Confidence 9999999999999999999999999999999999999999999999999999997
No 4
>cd00403 Ribosomal_L1 Ribosomal protein L1. The L1 protein, located near the E-site of the ribosome, forms part of the L1 stalk along with 23S rRNA. In bacteria and archaea, L1 functions both as a ribosomal protein that binds rRNA, and as a translation repressor that binds its own mRNA. Like several other large ribosomal subunit proteins, L1 displays RNA chaperone activity. L1 is one of the largest ribosomal proteins. It is composed of two domains that cycle between open and closed conformations via a hinge motion. The RNA-binding site of L1 is highly conserved, with both mRNA and rRNA binding the same binding site.
Probab=100.00 E-value=5.7e-48 Score=335.53 Aligned_cols=205 Identities=39% Similarity=0.568 Sum_probs=193.3
Q ss_pred HHHHHHHHHhhhhhccCCCCCeEEEEEEEcccCCCCCCccceeEecCCCCCCCcEEEEEeCcccHHHHHHcCCceeCHHH
Q 036232 52 LREAVSTICGDAKEKNRNFVETIELQIGLKNYDPQKDKRFSGSVKLPHIPRPMMKVCMLGDAQHVEQAEKIGMDYMDVEA 131 (259)
Q Consensus 52 v~kAv~~L~~~~~~~~~~f~e~I~l~i~lK~i~~kk~~~~r~~I~LPh~~~~~~~Vcvf~~~~~~~~a~~~ga~~vg~~e 131 (259)
+.+|+++|+++.. ....++|+|+|+|+++.++.+++.++++.|.|||+++++.+|||||+|++.++|+++|++++|+++
T Consensus 1 ~~~Ai~~l~~~~~-~~~~~~~~v~l~i~l~~~~~~~~~~~~~~i~LPh~~~~~~~i~v~~~d~~~~~a~~~~a~vig~~~ 79 (208)
T cd00403 1 LEEAIKALKKTSV-KKRKFDETVELQINLKKDDRKKDQRIRGTVILPHGLGKDVKVCVFAKDEQAKEAKAAGADVVGGED 79 (208)
T ss_pred CHHHHHHHHHhcc-ccCCCCceEEEEEEeCCCCCccccccceeEECCCCCCCCeEEEEEcChHhHHHHHHcCCCEEcHHH
Confidence 3689999998764 356788999999999776545578899999999999999999999999999999999999999999
Q ss_pred HHHhhhcHHHHHHHhhhcCEEEEeHhhHhhhhhccCCCCCCCCCCCccccC--cccHHHHHHHhhcceeeEeccccEEEE
Q 036232 132 LKKLNKNKKLVKKLAKKYHAFLASEAVIKQIPRLLGPGLNKAGKFPTLVTH--QESLEAKVNETKAVVKFQLKKVLCMGV 209 (259)
Q Consensus 132 L~k~~k~~e~~rkL~~~yD~fLad~~i~~~L~rlLGk~f~~~~K~P~~v~~--~~dl~~~I~~~~~s~~~~~~~~~~i~v 209 (259)
|++.+++++++ +|+.+||+||||+++++.+++.||+.|++++|+|++++. ++|+.++|++++++++|+.++++++++
T Consensus 80 L~~~~~~~~~~-~l~~~~D~fla~~~~~~~~~~~lgk~~~~k~k~P~~~~~t~~~~l~~~i~~~~~~~~~~~~~~~~~~v 158 (208)
T cd00403 80 LKKKIKNGEAK-KLAKDFDLFLADPRIMMLLPKLLGKVLGPRGKMPNPKTGTVTEDLAKAIEEAKSSVEFRLDKGGCIHV 158 (208)
T ss_pred HHHHhhcchhh-hhhhcCCEEEECHHHHHHHHHHhccccccCCCCCcCCCCCCcccHHHHHHHHHhCeEEEECCCCEEEE
Confidence 99999999999 999999999999999999999999999999999999987 689999999999999999999999999
Q ss_pred EEecCCCChhHHhccHHHHHHHHHHhcc-ccccCeeEEEEEcCCCCCeec
Q 036232 210 AVGNCSMEEKQVFQNVQLSVNFLVSLLK-KSWQNVRCLHLKSTMGRPQRI 258 (259)
Q Consensus 210 ~IG~~sm~~eql~eNi~avl~~l~~~~p-~~~~nI~sv~Lkst~sp~lpI 258 (259)
+||+++|+++||+|||.++++++.+++| +||.||++|||+|||||+|||
T Consensus 159 ~VG~~~m~~~~l~eNi~~vi~~i~~~~~~~~~~~i~~v~lktt~~~~lpI 208 (208)
T cd00403 159 PVGKVSMSPEQLVENIEAVINALVKKLPSKKGQNIKSIYLKTTMGPSLPI 208 (208)
T ss_pred EEeCCCCCHHHHHHHHHHHHHHHHHhCCcccCeEEEEEEEECCCCCCeEC
Confidence 9999999999999999999999999999 899999999999999999997
No 5
>COG0081 RplA Ribosomal protein L1 [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=6.3e-48 Score=334.73 Aligned_cols=211 Identities=27% Similarity=0.430 Sum_probs=195.2
Q ss_pred hhhhhcCCCCHHHHHHHHHHHHhhhhhccCCCCCeEEEEEEEcccCCCC-CCccceeEecCCCCCCCcEEEEEeCcccHH
Q 036232 39 KSEIENSKLSSEVLREAVSTICGDAKEKNRNFVETIELQIGLKNYDPQK-DKRFSGSVKLPHIPRPMMKVCMLGDAQHVE 117 (259)
Q Consensus 39 ~~~~~~s~v~~~~v~kAv~~L~~~~~~~~~~f~e~I~l~i~lK~i~~kk-~~~~r~~I~LPh~~~~~~~Vcvf~~~~~~~ 117 (259)
.........+.+.+++||+.+++.. ..+|+|+|+++|+| ++|+++ ++++|+.|.|||+.++..+||||++++.++
T Consensus 10 ~~~~~~d~~~~~~i~eai~~~ke~~---~~kF~etVevav~L-~vD~~k~dq~vrg~VvLP~g~gk~vrV~Vfa~g~~~~ 85 (228)
T COG0081 10 AASEKVDRNKLYSLEEAVKLLKETS---KRKFDETVEVAVNL-KVDPRKPDQRVRGSVVLPNGTGKTVRVAVFADGEKAE 85 (228)
T ss_pred HHHHhhhhhhhhhHHHHHHHHHhcc---ccCcceEEEEEEEc-ccCCCCcccccceeEECCCCCCCccEEEEEcChHhHH
Confidence 3445566788999999999999965 58999999999999 599987 999999999999999999999999999999
Q ss_pred HHHHcCCceeCHHHHHHhhhcHHHHHHHhhhcCEEEEeHhhHhhhhhccCCCCCCCCCCCcccc--CcccHHHHHHHhhc
Q 036232 118 QAEKIGMDYMDVEALKKLNKNKKLVKKLAKKYHAFLASEAVIKQIPRLLGPGLNKAGKFPTLVT--HQESLEAKVNETKA 195 (259)
Q Consensus 118 ~a~~~ga~~vg~~eL~k~~k~~e~~rkL~~~yD~fLad~~i~~~L~rlLGk~f~~~~K~P~~v~--~~~dl~~~I~~~~~ 195 (259)
+|+++||++||.+||.+++++.+ +.+||+|||+|++|+.+ +.||+.|.|+++||.|+. ++.|+.++|+++++
T Consensus 86 ~A~~AGad~Vg~edl~e~ik~~r-----~~~fD~~IAtpdmM~~v-~~LG~vLGPRGlMP~Pk~gTvt~Dv~~av~~~K~ 159 (228)
T COG0081 86 EAKAAGADYVGGEDLIELIKNGR-----AKDFDVFIATPDMMPLV-GKLGKVLGPRGLMPNPKTGTVTDDVAKAVEELKK 159 (228)
T ss_pred HHHHcCCCEecHHHHHHHHhCcc-----hhcCCEEEECchHHHHH-HHHhhhcCCCCCCCCCCCCCCCcCHHHHHHHHhc
Confidence 99999999999999999988864 79999999999999998 777777777888888887 68999999999999
Q ss_pred -ceeeEeccccEEEEEEecCCCChhHHhccHHHHHHHHHHhcccc--ccCeeEEEEEcCCCCCeecC
Q 036232 196 -VVKFQLKKVLCMGVAVGNCSMEEKQVFQNVQLSVNFLVSLLKKS--WQNVRCLHLKSTMGRPQRIY 259 (259)
Q Consensus 196 -s~~~~~~~~~~i~v~IG~~sm~~eql~eNi~avl~~l~~~~p~~--~~nI~sv~Lkst~sp~lpIy 259 (259)
++.||.++.+++|+.||+.+|+++||+||+.++++.|.+.+|.+ |+||+++||||||||++.||
T Consensus 160 g~v~~R~dk~g~ih~~iGk~sf~~e~L~eNi~a~l~~i~~~~p~~~kg~~ik~v~vstTMGP~v~v~ 226 (228)
T COG0081 160 GTVEFRADKAGVIHVPIGKVSFDDEKLAENIEALLNAIVKAKPAGAKGQYIKSVYVSTTMGPGVKVD 226 (228)
T ss_pred CcEEEEECCCceEEEEecCCCCCHHHHHHHHHHHHHHHHHhCcCCcccceEeEEEEecCCCCCEEec
Confidence 99999999999999999999999999999999999999999985 99999999999999999986
No 6
>CHL00129 rpl1 ribosomal protein L1; Reviewed
Probab=100.00 E-value=1.7e-46 Score=330.47 Aligned_cols=201 Identities=21% Similarity=0.331 Sum_probs=183.8
Q ss_pred CCHHHHHHHHHHHHhhhhhccCCCCCeEEEEEEEcccCCCC-CCccceeEecCCCCCCCcEEEEEeCcccHHHHHHcCCc
Q 036232 47 LSSEVLREAVSTICGDAKEKNRNFVETIELQIGLKNYDPQK-DKRFSGSVKLPHIPRPMMKVCMLGDAQHVEQAEKIGMD 125 (259)
Q Consensus 47 v~~~~v~kAv~~L~~~~~~~~~~f~e~I~l~i~lK~i~~kk-~~~~r~~I~LPh~~~~~~~Vcvf~~~~~~~~a~~~ga~ 125 (259)
-..+.+++||+.+++.. ..+|+|+|+++|+| ++++++ ++++||.|.|||+++++.+|||||+++++++|+++||+
T Consensus 17 ~~~y~l~eAi~~~k~~~---~~kF~esvel~i~L-~id~kk~~~~irg~v~LP~~~gk~~kV~Vfa~~~~~~eAk~aGad 92 (229)
T CHL00129 17 KKLYSPEEAINLLKETA---TAKFIETAEAHISL-NIDPKYADQQLRTTVTLPKGTGKTIRIAVLTNEEKITEAKNAGAD 92 (229)
T ss_pred ccccCHHHHHHHHHHhC---cCCCCccEEEEEEE-CCCCCCCCCceeeEEECCCCCCCCcEEEEECChHhHHHHHHcCCC
Confidence 34778999999999743 67899999999999 999997 89999999999999999999999999999999999999
Q ss_pred eeCHHHHHHhhhcHHHHHHHhhhcCEEEEeHhhHhhhhhccCCCCCCCCCCCccccC--cccHHHHHHHhhc-ceeeEec
Q 036232 126 YMDVEALKKLNKNKKLVKKLAKKYHAFLASEAVIKQIPRLLGPGLNKAGKFPTLVTH--QESLEAKVNETKA-VVKFQLK 202 (259)
Q Consensus 126 ~vg~~eL~k~~k~~e~~rkL~~~yD~fLad~~i~~~L~rlLGk~f~~~~K~P~~v~~--~~dl~~~I~~~~~-s~~~~~~ 202 (259)
++|++||++.++ +++.+||+|||++++|+.|++ ||+.|.|+++||+|... ++|+.++|+++++ ++.||++
T Consensus 93 ~vg~edLi~~ik------~~~~~fd~~iAt~d~m~~l~k-LgriLGprGlMP~pk~gTvt~di~~~V~~~k~G~v~~r~d 165 (229)
T CHL00129 93 IVGSDDLIEEIT------KGNLDFDLLIATPDMMPKLAK-LGRVLGPRGLMPSPKSGTVTTDLASAINEFKKGKLEYRAD 165 (229)
T ss_pred EeCHHHHHHHHH------cCcccCCEEEECHHHHHHHHH-hcCcccccCCCCCCCCCCccccHHHHHHHHhcCcEEEEec
Confidence 999999998654 457899999999999999887 77777777777777764 5999999999997 8999999
Q ss_pred cccEEEEEEecCCCChhHHhccHHHHHHHHHHhcccccc--CeeEEEEEcCCCCCeec
Q 036232 203 KVLCMGVAVGNCSMEEKQVFQNVQLSVNFLVSLLKKSWQ--NVRCLHLKSTMGRPQRI 258 (259)
Q Consensus 203 ~~~~i~v~IG~~sm~~eql~eNi~avl~~l~~~~p~~~~--nI~sv~Lkst~sp~lpI 258 (259)
+.++++++||+++|+++||+||+.+++++|.+++|.++. ||+++||+|||||+++|
T Consensus 166 k~g~i~~~VG~~~m~~~~l~eNi~a~l~~i~~~~p~~~kg~~ik~v~issTMGp~v~i 223 (229)
T CHL00129 166 KTGIVHVLFGKSNFTEEDLLENLQAIYESIEQNRPSGVKGKYWKSFYICSTMGPSIQI 223 (229)
T ss_pred CCcEEEEEEeCCCCCHHHHHHHHHHHHHHHHHhCcccccCceEEEEEEECCCCCCEEe
Confidence 999999999999999999999999999999999998665 99999999999999986
No 7
>PRK05424 rplA 50S ribosomal protein L1; Validated
Probab=100.00 E-value=1.4e-45 Score=325.25 Aligned_cols=203 Identities=23% Similarity=0.375 Sum_probs=184.6
Q ss_pred CCCCHHHHHHHHHHHHhhhhhccCCCCCeEEEEEEEcccCCCC-CCccceeEecCCCCCCCcEEEEEeCcccHHHHHHcC
Q 036232 45 SKLSSEVLREAVSTICGDAKEKNRNFVETIELQIGLKNYDPQK-DKRFSGSVKLPHIPRPMMKVCMLGDAQHVEQAEKIG 123 (259)
Q Consensus 45 s~v~~~~v~kAv~~L~~~~~~~~~~f~e~I~l~i~lK~i~~kk-~~~~r~~I~LPh~~~~~~~Vcvf~~~~~~~~a~~~g 123 (259)
.....+.+.+||+.+++.. .++|+|+|+++|+| +++++| +++++|.|.|||+++++.+|||||+++++++|+++|
T Consensus 15 ~~~~~y~l~eAi~~lk~~~---~~kF~esvel~v~L-~id~kK~~~~irg~v~LP~~~gk~~kI~Vfa~~~~~~~Ak~aG 90 (230)
T PRK05424 15 DRTKLYSLEEAIALVKETA---TAKFDETVDVAVNL-GVDPRKADQQVRGAVVLPHGTGKTVRVAVFAKGEKAEEAKAAG 90 (230)
T ss_pred cccCccCHHHHHHHHHhhc---cCCCCCcEEEEEEe-CCCCCCCCCeeeEEEECCCCCCCCcEEEEECChHhHHHHHHcC
Confidence 3455788999999999843 67899999999999 999998 889999999999999999999999998999999999
Q ss_pred CceeCHHHHHHhhhcHHHHHHHhhhcCEEEEeHhhHhhhhhccCCCCCCCCCCCccccC--cccHHHHHHHhhc-ceeeE
Q 036232 124 MDYMDVEALKKLNKNKKLVKKLAKKYHAFLASEAVIKQIPRLLGPGLNKAGKFPTLVTH--QESLEAKVNETKA-VVKFQ 200 (259)
Q Consensus 124 a~~vg~~eL~k~~k~~e~~rkL~~~yD~fLad~~i~~~L~rlLGk~f~~~~K~P~~v~~--~~dl~~~I~~~~~-s~~~~ 200 (259)
|+++|++||++.+++. +.+||+|||++++||.|++ ||+.|.|+++||+|... ++|+.+.|+++++ ++.|+
T Consensus 91 a~~vg~eeLi~~ik~~------~~~fd~~iat~~~m~~l~~-Lg~iLGPrGlMP~pk~gTv~~di~~~I~~~k~g~v~~r 163 (230)
T PRK05424 91 ADIVGGEDLIEKIKGG------WLDFDVVIATPDMMGKVGK-LGRILGPRGLMPNPKTGTVTMDVAKAVKEAKAGKVEFR 163 (230)
T ss_pred CCEeCHHHHHHHHhcC------CCcCCEEEECHHHHHHHHH-hccccccccCCCCCCCCCcchhHHHHHHHHhcCcEEEE
Confidence 9999999999887643 4589999999999999877 77777777777777764 4899999999997 79999
Q ss_pred eccccEEEEEEecCCCChhHHhccHHHHHHHHHHhccccc--cCeeEEEEEcCCCCCeec
Q 036232 201 LKKVLCMGVAVGNCSMEEKQVFQNVQLSVNFLVSLLKKSW--QNVRCLHLKSTMGRPQRI 258 (259)
Q Consensus 201 ~~~~~~i~v~IG~~sm~~eql~eNi~avl~~l~~~~p~~~--~nI~sv~Lkst~sp~lpI 258 (259)
.++.++++++||+++|+++||.|||.+++++|.++.|.+| .+|++|||+|||||++.|
T Consensus 164 ~~k~g~i~~~IG~~~m~~e~i~eNi~a~l~~i~~~~p~~~kg~~Ik~v~lssTmGp~~~i 223 (230)
T PRK05424 164 VDKAGIIHAPIGKVSFDAEKLKENLKALIDAIKKAKPATAKGTYIKSVSLSSTMGPGVKV 223 (230)
T ss_pred ecCCCEEEEEEeCCCCCHHHHHHHHHHHHHHHHHhCccccCCCEEEEEEEECCCCCCEEe
Confidence 9999999999999999999999999999999999999876 899999999999999976
No 8
>TIGR01169 rplA_bact ribosomal protein L1, bacterial/chloroplast. This model describes bacterial (and chloroplast) ribosomal protein L1. The apparent mitochondrial L1 is sufficiently diverged to be the subject of a separate model.
Probab=100.00 E-value=3.4e-45 Score=322.24 Aligned_cols=202 Identities=24% Similarity=0.371 Sum_probs=181.1
Q ss_pred CCCHHHHHHHHHHHHhhhhhccCCCCCeEEEEEEEcccCCCC-CCccceeEecCCCCCCCcEEEEEeCcccHHHHHHcCC
Q 036232 46 KLSSEVLREAVSTICGDAKEKNRNFVETIELQIGLKNYDPQK-DKRFSGSVKLPHIPRPMMKVCMLGDAQHVEQAEKIGM 124 (259)
Q Consensus 46 ~v~~~~v~kAv~~L~~~~~~~~~~f~e~I~l~i~lK~i~~kk-~~~~r~~I~LPh~~~~~~~Vcvf~~~~~~~~a~~~ga 124 (259)
.-..+.+.+||+.|++.. .++|+|+|+|+|+| +++++| +++++|.|.|||+++++.+|||||+++++++|+++||
T Consensus 15 ~~~~y~l~eAi~~lk~~~---~~~f~esvel~i~L-~id~kK~~~~irg~v~LP~~~gk~~kV~Vfa~~~~~~~Ak~aGa 90 (227)
T TIGR01169 15 RNKLYSLDEAIALLKETA---TAKFDETVEVAIRL-GIDPRKSDQQVRGTVVLPHGTGKTVRVAVFAKGEKAEEAKAAGA 90 (227)
T ss_pred cCCccCHHHHHHHHHhhc---cCCCCCCEEEEEEE-CcCCCcCCCeeeEEEECCCCCCCCcEEEEEcCchhHHHHHHcCC
Confidence 345778999999999743 67899999999999 999998 8899999999999999999999999999999999999
Q ss_pred ceeCHHHHHHhhhcHHHHHHHhhhcCEEEEeHhhHhhhhhccCCCCCCCCCCCccccC--cccHHHHHHHhhc-ceeeEe
Q 036232 125 DYMDVEALKKLNKNKKLVKKLAKKYHAFLASEAVIKQIPRLLGPGLNKAGKFPTLVTH--QESLEAKVNETKA-VVKFQL 201 (259)
Q Consensus 125 ~~vg~~eL~k~~k~~e~~rkL~~~yD~fLad~~i~~~L~rlLGk~f~~~~K~P~~v~~--~~dl~~~I~~~~~-s~~~~~ 201 (259)
++||++||++.++ +++.+||+|||++++|+.|+ .||+.|.|+++||++... ++|+.++|+++++ ++.|++
T Consensus 91 ~~vg~~eLi~~ik------~~~~~fd~~iat~~~m~~l~-~Lg~iLGPrGlMP~~k~gtv~~di~~~I~~~k~g~v~~r~ 163 (227)
T TIGR01169 91 DYVGSDDLIEKIK------KGWLDFDVVIATPDMMRVVG-KLGRILGPRGLMPNPKTGTVTADVAKAVKNAKKGQVEFRA 163 (227)
T ss_pred CEeCHHHHHHHHH------cCCccCCEEEECHHHHHHHH-HhccccccccCCCCCCCCCccccHHHHHHHHHcCcEEEEe
Confidence 9999999998654 45789999999999999986 555555556666666554 4899999999997 799999
Q ss_pred ccccEEEEEEecCCCChhHHhccHHHHHHHHHHhccccc--cCeeEEEEEcCCCCCeec
Q 036232 202 KKVLCMGVAVGNCSMEEKQVFQNVQLSVNFLVSLLKKSW--QNVRCLHLKSTMGRPQRI 258 (259)
Q Consensus 202 ~~~~~i~v~IG~~sm~~eql~eNi~avl~~l~~~~p~~~--~nI~sv~Lkst~sp~lpI 258 (259)
++.++++++||+++|+++||.|||.+++++|.++.|.+| .+|++|||+|||||++.|
T Consensus 164 ~k~g~i~~~VG~~~m~~e~i~eNi~a~l~~i~~~~p~~~kg~~Ik~v~lssTmGp~~~i 222 (227)
T TIGR01169 164 DKAGNIHASIGKVSFDSEKLKENLEALLDAIKKAKPSGAKGQYIKNIALSSTMGPGIKV 222 (227)
T ss_pred CCCCEEEEEEecCCCCHHHHHHHHHHHHHHHHHhCccccCCCEEEEEEEECCCCCCEEe
Confidence 999999999999999999999999999999999999866 899999999999999976
No 9
>PF00687 Ribosomal_L1: Ribosomal protein L1p/L10e family; InterPro: IPR002143 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 L1 is the largest protein from the large ribosomal subunit. The L1 protein contains two domains: 2-layer alpha/beta domain and a 3-layer alpha/beta domain (interrupts the first domain). In Escherichia coli, L1 is known to bind to the 23S rRNA. It belongs to a family of ribosomal proteins which, on the basis of sequence similarities [, ], groups: Eubacterial L1. Algal and plant chloroplast L1. Cyanelle L1. Archaebacterial L1. Vertebrate L10A. Yeast SSM1. ; GO: 0003723 RNA binding, 0003735 structural constituent of ribosome, 0006412 translation, 0015934 large ribosomal subunit; PDB: 3QOY_A 3BBO_D 1VSA_A 1VSP_A 2NOQ_G 3IZS_A 1S1I_A 3O5H_A 3O58_A 2WRL_C ....
Probab=100.00 E-value=1.2e-43 Score=310.57 Aligned_cols=200 Identities=35% Similarity=0.548 Sum_probs=179.4
Q ss_pred HHHHHhhhhh-----ccCCCCCeEEEEEEEcccCCCCCCcc-ceeEecCCCCC-CCcEEEEEeCcccHHH---------H
Q 036232 56 VSTICGDAKE-----KNRNFVETIELQIGLKNYDPQKDKRF-SGSVKLPHIPR-PMMKVCMLGDAQHVEQ---------A 119 (259)
Q Consensus 56 v~~L~~~~~~-----~~~~f~e~I~l~i~lK~i~~kk~~~~-r~~I~LPh~~~-~~~~Vcvf~~~~~~~~---------a 119 (259)
|+||++|.+. ...+++++|+|+|++++++.+++.++ ++.|.|||+++ ++.+||||++|++.+. +
T Consensus 1 ~~aL~k~~~~~~~~~~~~~~~~~v~l~i~~~~~~~~~~~~~~~~~i~LPh~~~~~~~~vcli~~d~~~~~~~~~~~~~~~ 80 (220)
T PF00687_consen 1 IKALKKYIKKKKEENEDDNFDESVYLQITLKKIPKKKDKSFKPGRIPLPHPLYIKNSKVCLIVKDPQKKAKEKEKLEEKA 80 (220)
T ss_dssp HTCHHHHHHHHHHCCCCSSSSTEEEEEEEESSSTTSSCTST-EEEEEBSTSSS-SSSBEEEEESCHHHHHH-------HH
T ss_pred ChHHHHHHHHHHhhcccCCCCcEEEEEEEeCcCCCccccccccceeeecCCCCCCccEEEEEecCcchhhhhhhhhhhhh
Confidence 4567776643 23456789999999988765556677 99999999998 8999999998876433 4
Q ss_pred HHcCCceeCHHHHHHhhhcHHHHHHHhhhcCEEEEeHhhHhhhhhccCCCC-CCCCCCCccccCc-ccHHHHHHHhhcce
Q 036232 120 EKIGMDYMDVEALKKLNKNKKLVKKLAKKYHAFLASEAVIKQIPRLLGPGL-NKAGKFPTLVTHQ-ESLEAKVNETKAVV 197 (259)
Q Consensus 120 ~~~ga~~vg~~eL~k~~k~~e~~rkL~~~yD~fLad~~i~~~L~rlLGk~f-~~~~K~P~~v~~~-~dl~~~I~~~~~s~ 197 (259)
.++|+.++|+++|++.|++++++|+|+.+||+||||++|++.|++.||+.| .+++|+|++|.++ +++.++|+++.+++
T Consensus 81 ~~~~~~vi~~~~L~~~~~~~~~~r~l~~~~d~flad~~i~~~l~~~Lgk~~~~~k~k~P~~v~~~~~~l~~~i~~~~~~~ 160 (220)
T PF00687_consen 81 VEAGAKVIGGEELKKKYKTIEAKRKLAKSYDFFLADPRIMPKLPKLLGKIFYGKKGKMPIPVTLSKEDLKEQIEKALNST 160 (220)
T ss_dssp HHTTCSEEECHHHHHHHCHHHHCHHHHHCSSEEEEEGGGHHHHHHHTHHHH-CCTTTSCEEBSSHTSCHHHHHHHHHTEE
T ss_pred hhcccceecHHHHHHHHHHHHHHHHHHhhcCEEEECHHHHHHHHHhhhhheecccCCcceEEeccchhHHHHHHHHHCCE
Confidence 578999999999999999999999999999999999999999999999987 6788999999874 89999999999988
Q ss_pred eeEec-cccEEEEEEecCCCChhHHhccHHHHHHHHHHh-ccccccCeeEEEEEcCCCCC
Q 036232 198 KFQLK-KVLCMGVAVGNCSMEEKQVFQNVQLSVNFLVSL-LKKSWQNVRCLHLKSTMGRP 255 (259)
Q Consensus 198 ~~~~~-~~~~i~v~IG~~sm~~eql~eNi~avl~~l~~~-~p~~~~nI~sv~Lkst~sp~ 255 (259)
.|+.. +|++++|+||+++|+++||+|||.++++++.++ +|+||.||++|||+||||||
T Consensus 161 ~~~~~~~~~~~~v~VG~~~~~~~~i~eNi~~~i~~i~~~~~~~g~~~I~~i~ikst~s~~ 220 (220)
T PF00687_consen 161 KFRLSGKGGCISVKVGHLSMTDEQIVENIKAVIKAIVSKPLPKGWKNIKSIYIKSTMSPS 220 (220)
T ss_dssp EEEETBTSSEEEEEEEETTSCHHHHHHHHHHHHHHHHHTTTSSSSGSEEEEEEEESSSEE
T ss_pred EEEeeccCCeeecCccCCCCCHHHHHHHHHHHHHHHHHhhhccCcceEEEEEEECCCCCC
Confidence 88888 999999999999999999999999999999999 99999999999999999986
No 10
>KOG1570 consensus 60S ribosomal protein L10A [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=2.3e-38 Score=269.26 Aligned_cols=216 Identities=68% Similarity=1.057 Sum_probs=207.3
Q ss_pred cCCCCHHHHHHHHHHHHhhh-hhccCCCCCeEEEEEEEcccCCCCCCccceeEecCCCCCCCcEEEEEeCcccHHHHHHc
Q 036232 44 NSKLSSEVLREAVSTICGDA-KEKNRNFVETIELQIGLKNYDPQKDKRFSGSVKLPHIPRPMMKVCMLGDAQHVEQAEKI 122 (259)
Q Consensus 44 ~s~v~~~~v~kAv~~L~~~~-~~~~~~f~e~I~l~i~lK~i~~kk~~~~r~~I~LPh~~~~~~~Vcvf~~~~~~~~a~~~ 122 (259)
++.+.++++.+||..++... +.+.++|.|+|++|++||+++|.|++++.+.+.|||.+++..++|+|.+..+.++|++.
T Consensus 2 ~sk~~~~~l~~~v~~i~~~~~~~k~~~~~~tielQi~Lk~ydp~Kdkr~s~~~~l~~~~~p~~k~cv~gd~~h~~~ak~~ 81 (218)
T KOG1570|consen 2 SSKVEEEALREAVAEILLRSKEFKNRNFVETIELQINLKNYDPQKDKRFSGSVKLPHAPRPKMKVCVIGDQQHCDEAKAI 81 (218)
T ss_pred CcchhHHHHHHHHHHHHhccccccCccceeeeeeeecccccChhHhCcccceEecCCCCCccceeeeechHHHHHHhhcC
Confidence 46788999999999999887 44668899999999999999999999999999999999999999999999999999999
Q ss_pred CCceeCHHHHHHhhhcHHHHHHHhhhcCEEEEeHhhHhhhhhccCCCCCCCCCCCccccCcccHHHHHHHhhcceeeEec
Q 036232 123 GMDYMDVEALKKLNKNKKLVKKLAKKYHAFLASEAVIKQIPRLLGPGLNKAGKFPTLVTHQESLEAKVNETKAVVKFQLK 202 (259)
Q Consensus 123 ga~~vg~~eL~k~~k~~e~~rkL~~~yD~fLad~~i~~~L~rlLGk~f~~~~K~P~~v~~~~dl~~~I~~~~~s~~~~~~ 202 (259)
|.+.+..++|++.-++++.+++++.+||.|||..+++.+||++|||++-..+|+|+++...+++.+.+++.+.+..|+..
T Consensus 82 ~~p~m~~d~lkklnk~Kklvkklakky~~flase~~ikQlpr~lgp~l~kaGkfps~l~~~d~l~akv~evk~t~k~q~k 161 (218)
T KOG1570|consen 82 DLPAMDIDALKKLNKNKKLVKKLAKKYDAFLASESLIKQLPRILGPGLSKAGKFPSLLVHGDSLYAKVEEVKSTIKFQMK 161 (218)
T ss_pred CCCCcCHHHHhcCcccchHHHHHHHHhhhHHhhHHHHHHhhhhhcccccccccCCccccchHHHHHHHHHHHhhHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999988779999999999999999999
Q ss_pred cccEEEEEEecCCCChhHHhccHHHHHHHHHHhccccccCeeEEEEEcCCCCCeecC
Q 036232 203 KVLCMGVAVGNCSMEEKQVFQNVQLSVNFLVSLLKKSWQNVRCLHLKSTMGRPQRIY 259 (259)
Q Consensus 203 ~~~~i~v~IG~~sm~~eql~eNi~avl~~l~~~~p~~~~nI~sv~Lkst~sp~lpIy 259 (259)
+.-|++|.|||+.|++|||++||.-.++.+++.+.++|+|+++++|+||||++.-+|
T Consensus 162 kvKOGavaVGhv~M~d~el~~nI~l~vnFlVSlLKknwQNvral~iKst~g~p~~ly 218 (218)
T KOG1570|consen 162 KVLCLAVAVGHVGMTDEELVYNIHLAVNFLVSLLKKNWQNVRALYIKSTMGKPQRLY 218 (218)
T ss_pred hhhheeeeecCCCCCHHHHHHhhhhhhhhHHHHHhhcccchhheeeccCCCCceecC
Confidence 999999999999999999999999999999999999999999999999999998887
No 11
>KOG1685 consensus Uncharacterized conserved protein [Function unknown]
Probab=100.00 E-value=8.6e-37 Score=278.52 Aligned_cols=218 Identities=23% Similarity=0.369 Sum_probs=180.0
Q ss_pred ChhhhhcCCCCHHHHHHHHHHHHhhhhhc--c--CC------CCCeEEEEEEEcccCCCCCCccceeEecCCCC----C-
Q 036232 38 DKSEIENSKLSSEVLREAVSTICGDAKEK--N--RN------FVETIELQIGLKNYDPQKDKRFSGSVKLPHIP----R- 102 (259)
Q Consensus 38 ~~~~~~~s~v~~~~v~kAv~~L~~~~~~~--~--~~------f~e~I~l~i~lK~i~~kk~~~~r~~I~LPh~~----~- 102 (259)
.+.+++.+.+.+..++-|++++.+....+ . .. +...++++.++ +......+..|++||++ .
T Consensus 10 ~~~~~~~~~v~~~~~e~~~k~~~~~~~~~~k~~~~~~~~~~k~~~~~~~~k~~----~~~~~~n~~~IP~k~~~~~~~~~ 85 (343)
T KOG1685|consen 10 SSTAIPRESVSPKNVESAVKALDKEREKKSKAENPQLLEALKNVYKVVLQKNT----PQKVGTNKLKIPLKHLLKKLLLK 85 (343)
T ss_pred ccccccccccCchhhhHHHhhhhhhhHHHHHhhhhhhhhhhhhhHHHHHHHhc----ccccccccccccCcchhcccccC
Confidence 45567777888888888888888765221 0 11 11234444443 22222233455667764 2
Q ss_pred -CCcEEEEEeCcccH---------HHHHHcCCc----eeCHHHHHHhhhcHHHHHHHhhhcCEEEEeHhhHhhhhhccCC
Q 036232 103 -PMMKVCMLGDAQHV---------EQAEKIGMD----YMDVEALKKLNKNKKLVKKLAKKYHAFLASEAVIKQIPRLLGP 168 (259)
Q Consensus 103 -~~~~Vcvf~~~~~~---------~~a~~~ga~----~vg~~eL~k~~k~~e~~rkL~~~yD~fLad~~i~~~L~rlLGk 168 (259)
.+.+||||++|.+. +...++|++ ||++.+|+..|+.||++|+|+.+||+||||.||+++||++||+
T Consensus 86 ~~~~~vcLIvkD~~~~~~t~~~~~d~l~~~gi~~itkVI~~~~LK~~yksyeaKr~L~~sfDlflaD~RV~~~LP~llGK 165 (343)
T KOG1685|consen 86 HDDTDVCLIVKDLQQSYLTEEDAEDLLESEGIKSITKVISLSKLKRDYKSYEAKRKLLSSFDLFLADDRVIPLLPKLLGK 165 (343)
T ss_pred CCCCceEEEecCchhccccHHHHHHHHHHcCCccceeeeehHHHHHHHHHHHHHHHHHhhccEEEEcchhHhHHHHHhhh
Confidence 48899999998642 345678987 7899999999999999999999999999999999999999999
Q ss_pred CCCCCCCCCccccCc-cc--HHHHHHHhhcceeeEeccccEEEEEEecCCCChhHHhccHHHHHHHHHHhccccccCeeE
Q 036232 169 GLNKAGKFPTLVTHQ-ES--LEAKVNETKAVVKFQLKKVLCMGVAVGNCSMEEKQVFQNVQLSVNFLVSLLKKSWQNVRC 245 (259)
Q Consensus 169 ~f~~~~K~P~~v~~~-~d--l~~~I~~~~~s~~~~~~~~~~i~v~IG~~sm~~eql~eNi~avl~~l~~~~p~~~~nI~s 245 (259)
.|++++|.|+++++. ++ |.++|++++++++|++..|.|+.++||+++|+.+||.|||.++++.+...+|+||.||++
T Consensus 166 ~f~q~kk~Pv~i~l~k~~~~l~~qi~~a~~~t~~~~~~g~~~~i~vg~l~~~~~~l~ENv~~vlk~l~e~~P~~~~~Irs 245 (343)
T KOG1685|consen 166 EFYQKKKVPVSIRLSKKNELLKQQIENACGSTYFRLRKGTSSAIKVGHLGNTSEELAENVVAVLKGLSEILPGGWKNIRS 245 (343)
T ss_pred hhcccccCceEEEecccchHHHHHHHHHhhhheeeccCCceeEEEeccccccHHHHHHHHHHHHHHHHHHccchHhHhHH
Confidence 999999999999984 44 899999999999999999999999999999999999999999999999999999999999
Q ss_pred EEEEcCCCCCeecC
Q 036232 246 LHLKSTMGRPQRIY 259 (259)
Q Consensus 246 v~Lkst~sp~lpIy 259 (259)
+||||..|++||||
T Consensus 246 l~lKt~~s~aLPly 259 (343)
T KOG1685|consen 246 LHLKTSRSPALPLY 259 (343)
T ss_pred HhhhccCCccccee
Confidence 99999999999998
No 12
>KOG1569 consensus 50S ribosomal protein L1 [Translation, ribosomal structure and biogenesis]
Probab=99.97 E-value=1.2e-29 Score=226.35 Aligned_cols=203 Identities=20% Similarity=0.228 Sum_probs=169.3
Q ss_pred CCHHHHHHHHHHHHhhhhhc-cCCCCCeEEEEEEEcccCCC----CCCccceeEecCCCCC--CCcEEEEEeCc-ccHHH
Q 036232 47 LSSEVLREAVSTICGDAKEK-NRNFVETIELQIGLKNYDPQ----KDKRFSGSVKLPHIPR--PMMKVCMLGDA-QHVEQ 118 (259)
Q Consensus 47 v~~~~v~kAv~~L~~~~~~~-~~~f~e~I~l~i~lK~i~~k----k~~~~r~~I~LPh~~~--~~~~Vcvf~~~-~~~~~ 118 (259)
..-+.+.+|+..++++.... .....+++++.|.+ ++... ....+.+.+..|||++ +..+|+||+.| ...++
T Consensus 87 r~~y~vq~a~~~~ke~~~~sa~~~pk~~~~l~i~l-~~~a~~~~k~~~~~~~~v~vP~Pf~~ge~r~IavFtn~~~kvee 165 (323)
T KOG1569|consen 87 RQIYEVQKAVHLHKELQILSAYNVPKQPVNLRIEL-NMLAEKETKGVAPLQGSVTVPHPFAHGEIRKIAVFTNDASKVEE 165 (323)
T ss_pred cchhhHHHHHHHHHHhccchhhhCCCCceeeeEEe-eeeeeeeccccCCCceeEeccccCCCCceEEEEEecCChHHHHH
Confidence 34567889999999887321 22345777877777 55333 2556778999999985 47779999988 56899
Q ss_pred HHHcCCceeCHHHHHHhhhcHHHHHHHhhhcCEEEEeHhhHhhh---hhccCCCCCCCCCCCccccCcccHHHHHHHhhc
Q 036232 119 AEKIGMDYMDVEALKKLNKNKKLVKKLAKKYHAFLASEAVIKQI---PRLLGPGLNKAGKFPTLVTHQESLEAKVNETKA 195 (259)
Q Consensus 119 a~~~ga~~vg~~eL~k~~k~~e~~rkL~~~yD~fLad~~i~~~L---~rlLGk~f~~~~K~P~~v~~~~dl~~~I~~~~~ 195 (259)
|+++||.++|+.+|++++++++ +..+||+++|+|+||+.| .++||+. ||+.|.++ ++.||.++|+++++
T Consensus 166 ArEaGA~l~GG~dLIkkI~~Ge----i~~Dyd~~vA~Pdim~~l~~Lr~iL~~r-~Pn~k~gt---vg~nipemieeFk~ 237 (323)
T KOG1569|consen 166 AREAGAALAGGTDLIKKIKSGE----IVADYDFYVAHPDIMPELNRLRKILGPR-FPNPKRGT---VGRNIPEMIEEFKN 237 (323)
T ss_pred HHhccccccccHHHHHHhhcCe----EEEeeceeeecchHHHHHHHHHHHhccc-CCCcccCc---cccchHHHHHHhhC
Confidence 9999999999999999998875 456699999999999986 6677775 67777777 48999999999999
Q ss_pred c--eeeEeccccEEEEEEecCCCChhHHhccHHHHHHHHHHhccc-cccCeeEEEEEcCCCCCeec
Q 036232 196 V--VKFQLKKVLCMGVAVGNCSMEEKQVFQNVQLSVNFLVSLLKK-SWQNVRCLHLKSTMGRPQRI 258 (259)
Q Consensus 196 s--~~~~~~~~~~i~v~IG~~sm~~eql~eNi~avl~~l~~~~p~-~~~nI~sv~Lkst~sp~lpI 258 (259)
+ +.|+....+.++++||+++|+++||.+||.+++.+++.+.|+ .+.+|.+.+|+|++|+++-|
T Consensus 238 G~~i~~d~~~~~~~~~~vGkl~mt~e~i~~Ni~a~i~av~t~rp~~~G~fv~ra~L~Ss~g~~i~l 303 (323)
T KOG1569|consen 238 GHEIKFDEERENILQIKVGKLDMTSEQILANIQAVIAAVCTHRPKALGPFVVRALLRSSPGEGILL 303 (323)
T ss_pred CcccccccccCceeeeeeeeecCCHHHHHHHHHHHHHHHHhcCCcccCceeeeeEeecCCCCceeE
Confidence 7 888887788889999999999999999999999999999987 67899999999999998754
No 13
>TIGR01170 rplA_mito ribosomal protein L1, mitochondrial. This model represents the mitochondrial homolog of bacterial ribosomal protein L1. Unlike chloroplast L1, this form was not sufficiently similar to bacterial forms to include in a single bacterial/organellar L1.
Probab=99.94 E-value=4.3e-26 Score=187.12 Aligned_cols=135 Identities=19% Similarity=0.261 Sum_probs=110.5
Q ss_pred HHHHHHHHHHhhhhhccCCCCCeEEEEEEEcccCCCCCCccceeEecCCCCCCCcEEEEEeCccc-HHHHHHcCCceeCH
Q 036232 51 VLREAVSTICGDAKEKNRNFVETIELQIGLKNYDPQKDKRFSGSVKLPHIPRPMMKVCMLGDAQH-VEQAEKIGMDYMDV 129 (259)
Q Consensus 51 ~v~kAv~~L~~~~~~~~~~f~e~I~l~i~lK~i~~kk~~~~r~~I~LPh~~~~~~~Vcvf~~~~~-~~~a~~~ga~~vg~ 129 (259)
.+.+|++.|+++.... .+|+|+|+++|+| ++++.+ ..+++.|.|||+++++.+|||||++++ .++|+++||+++|+
T Consensus 2 ~i~eA~~~lk~~~~~~-~~~~etvel~i~L-~~~~~~-~~irg~v~LP~~~~k~~kV~Vf~~~~~~~~~Ak~aGa~~vg~ 78 (141)
T TIGR01170 2 KVIKAFVYLKTKSISM-YVPKQSVNLDIGL-LMELGK-ESVQGMFSFPHPFGKEPKIAVFTKGASEVEEAREAGADYVGG 78 (141)
T ss_pred CHHHHHHHHHHhcccC-CCCCceEEEEEEE-CCCCCC-CCceEEEECCCCCCCCCEEEEECCChHHHHHHHHcCCCEeCH
Confidence 4789999999986432 3899999999999 776544 449999999999999999999999887 68899999999999
Q ss_pred HHHHHhhhcHHHHHHHhhh-cCEEEEeHhhHhhhhhccCCCCCCCCCCCccccC--cccHHHHHHHhhc
Q 036232 130 EALKKLNKNKKLVKKLAKK-YHAFLASEAVIKQIPRLLGPGLNKAGKFPTLVTH--QESLEAKVNETKA 195 (259)
Q Consensus 130 ~eL~k~~k~~e~~rkL~~~-yD~fLad~~i~~~L~rlLGk~f~~~~K~P~~v~~--~~dl~~~I~~~~~ 195 (259)
+||++.+++.+ .+ ||+|||++++|+.|+ .||+.|.|+++||++... ++|+.++|+++++
T Consensus 79 edLi~~i~~g~------~~~fd~~iA~~~~m~~l~-~Lg~iLGprGlMP~~k~gTv~~di~~~I~~~k~ 140 (141)
T TIGR01170 79 DDLIKKIEDGE------IKPFDYLIAHPDIVPELA-QLRRLLGPKGLMPSPKRGTVGDNLLSMIETFKK 140 (141)
T ss_pred HHHHHHHhcCC------cccccEEEECHHHHHHHH-HhhcccccCcCCCCCCCCCcccCHHHHHHHHhC
Confidence 99988776553 44 999999999999975 555555555555555544 4899999999876
No 14
>PF13003 MRL1: Ribosomal protein L1; InterPro: IPR024663 This entry represents a ribosomal protein L1 domain found mainly in chordates.
Probab=96.75 E-value=0.0035 Score=50.77 Aligned_cols=63 Identities=14% Similarity=0.095 Sum_probs=47.8
Q ss_pred CCHHHHHHHHHHHHhhhhhccCCCCCeEEEEEEEcccCCCC---CCccceeEecCCCCC-CCcEEEEE
Q 036232 47 LSSEVLREAVSTICGDAKEKNRNFVETIELQIGLKNYDPQK---DKRFSGSVKLPHIPR-PMMKVCML 110 (259)
Q Consensus 47 v~~~~v~kAv~~L~~~~~~~~~~f~e~I~l~i~lK~i~~kk---~~~~r~~I~LPh~~~-~~~~Vcvf 110 (259)
-.-+.+++||..|+++..-+.+.-.+.||+.++| ++...| ..++...|.|||++- ...+|+||
T Consensus 67 r~Iyeve~Ai~mLKkfQ~lDfT~pkQ~VYldL~L-dm~l~KKkkVePF~s~i~lPypF~~eiNKv~VF 133 (133)
T PF13003_consen 67 RPIYEVEKAIDMLKKFQILDFTSPKQPVYLDLTL-DMKLEKKKKVEPFASVILLPYPFTSEINKVLVF 133 (133)
T ss_pred ccHHHHHHHHHHHHhcccccCCCCCCcEEEeeee-hhhhccccccCCCccceecccccccccceeeeC
Confidence 3457899999999999754444556899999999 554432 678889999999984 46677775
No 15
>TIGR01170 rplA_mito ribosomal protein L1, mitochondrial. This model represents the mitochondrial homolog of bacterial ribosomal protein L1. Unlike chloroplast L1, this form was not sufficiently similar to bacterial forms to include in a single bacterial/organellar L1.
Probab=82.34 E-value=0.83 Score=37.62 Aligned_cols=23 Identities=43% Similarity=0.589 Sum_probs=20.0
Q ss_pred HhhhhhccCC-CCCCCCCCCcccc
Q 036232 159 IKQIPRLLGP-GLNKAGKFPTLVT 181 (259)
Q Consensus 159 ~~~L~rlLGk-~f~~~~K~P~~v~ 181 (259)
++.|+++||| |+||+.|.||++.
T Consensus 106 l~~Lg~iLGprGlMP~~k~gTv~~ 129 (141)
T TIGR01170 106 LAQLRRLLGPKGLMPSPKRGTVGD 129 (141)
T ss_pred HHHhhcccccCcCCCCCCCCCccc
Confidence 3468999999 9999999999764
No 16
>CHL00129 rpl1 ribosomal protein L1; Reviewed
Probab=73.76 E-value=2 Score=38.15 Aligned_cols=21 Identities=38% Similarity=0.594 Sum_probs=18.5
Q ss_pred hhhhhccCC-CCCCCCCCCccc
Q 036232 160 KQIPRLLGP-GLNKAGKFPTLV 180 (259)
Q Consensus 160 ~~L~rlLGk-~f~~~~K~P~~v 180 (259)
+.|+++||| |+||+.|.||++
T Consensus 124 ~kLgriLGprGlMP~pk~gTvt 145 (229)
T CHL00129 124 AKLGRVLGPRGLMPSPKSGTVT 145 (229)
T ss_pred HHhcCcccccCCCCCCCCCCcc
Confidence 458999999 999999999965
No 17
>TIGR01169 rplA_bact ribosomal protein L1, bacterial/chloroplast. This model describes bacterial (and chloroplast) ribosomal protein L1. The apparent mitochondrial L1 is sufficiently diverged to be the subject of a separate model.
Probab=72.20 E-value=2.3 Score=37.73 Aligned_cols=21 Identities=38% Similarity=0.586 Sum_probs=18.6
Q ss_pred hhhhhccCC-CCCCCCCCCccc
Q 036232 160 KQIPRLLGP-GLNKAGKFPTLV 180 (259)
Q Consensus 160 ~~L~rlLGk-~f~~~~K~P~~v 180 (259)
+.|+++||| |+||+.|.||++
T Consensus 123 ~~Lg~iLGPrGlMP~~k~gtv~ 144 (227)
T TIGR01169 123 GKLGRILGPRGLMPNPKTGTVT 144 (227)
T ss_pred HHhccccccccCCCCCCCCCcc
Confidence 468999999 999999999865
No 18
>PRK05424 rplA 50S ribosomal protein L1; Validated
Probab=71.09 E-value=2.5 Score=37.63 Aligned_cols=21 Identities=38% Similarity=0.586 Sum_probs=18.4
Q ss_pred hhhhhccCC-CCCCCCCCCccc
Q 036232 160 KQIPRLLGP-GLNKAGKFPTLV 180 (259)
Q Consensus 160 ~~L~rlLGk-~f~~~~K~P~~v 180 (259)
+.|+++||| |+||+.|.||+.
T Consensus 124 ~~Lg~iLGPrGlMP~pk~gTv~ 145 (230)
T PRK05424 124 GKLGRILGPRGLMPNPKTGTVT 145 (230)
T ss_pred HHhccccccccCCCCCCCCCcc
Confidence 458999999 999999999955
No 19
>COG0081 RplA Ribosomal protein L1 [Translation, ribosomal structure and biogenesis]
Probab=69.57 E-value=3.2 Score=36.91 Aligned_cols=21 Identities=33% Similarity=0.539 Sum_probs=18.1
Q ss_pred hhhhhccCC-CCCCCCCCCccc
Q 036232 160 KQIPRLLGP-GLNKAGKFPTLV 180 (259)
Q Consensus 160 ~~L~rlLGk-~f~~~~K~P~~v 180 (259)
..|+++||| |+||+.|.||+-
T Consensus 126 ~~LG~vLGPRGlMP~Pk~gTvt 147 (228)
T COG0081 126 GKLGKVLGPRGLMPNPKTGTVT 147 (228)
T ss_pred HHHhhhcCCCCCCCCCCCCCCC
Confidence 568999999 999999997654
No 20
>PRK02228 V-type ATP synthase subunit F; Provisional
Probab=66.01 E-value=14 Score=28.43 Aligned_cols=85 Identities=16% Similarity=0.262 Sum_probs=55.5
Q ss_pred EEEEEeCcccHHHHHHcCCc--e-eCH-HHHHHhhhcHHHHHHHhhhcCEEEEeHhhHhhhhhccCCCCCCCCCCCcccc
Q 036232 106 KVCMLGDAQHVEQAEKIGMD--Y-MDV-EALKKLNKNKKLVKKLAKKYHAFLASEAVIKQIPRLLGPGLNKAGKFPTLVT 181 (259)
Q Consensus 106 ~Vcvf~~~~~~~~a~~~ga~--~-vg~-~eL~k~~k~~e~~rkL~~~yD~fLad~~i~~~L~rlLGk~f~~~~K~P~~v~ 181 (259)
+|+|++|.+..--.+-+|+. + +.. +++.+.+...- -..+|.+++.+.++...++..+-. .+.+...|..+.
T Consensus 2 kIaVIGD~dtv~GFrLaGi~~~~~~~~~ee~~~~l~~l~----~~~d~gII~Ite~~~~~i~e~i~~-~~~~~~~P~ii~ 76 (100)
T PRK02228 2 EIAVIGSPEFTTGFRLAGIRKVYEVPDDEKLDEAVEEVL----EDDDVGILVMHDDDLEKLPRRLRR-TLEESVEPTVVT 76 (100)
T ss_pred EEEEEeCHHHHHHHHHcCCceEEeeCCHHHHHHHHHHHh----hCCCEEEEEEehhHhHhhHHHHHH-HHhcCCCCEEEE
Confidence 68999996656666778986 2 333 45555443220 046799999999998888775533 445667887775
Q ss_pred C-----cccHHHHHHHhhc
Q 036232 182 H-----QESLEAKVNETKA 195 (259)
Q Consensus 182 ~-----~~dl~~~I~~~~~ 195 (259)
. ++.+.+.++++.+
T Consensus 77 IP~~~~~~~i~~~v~raIG 95 (100)
T PRK02228 77 LGGGGGSGGLREKIKRAIG 95 (100)
T ss_pred ECCCccchHHHHHHHHHhC
Confidence 3 2356666666655
No 21
>PRK01395 V-type ATP synthase subunit F; Provisional
Probab=54.01 E-value=43 Score=25.93 Aligned_cols=84 Identities=14% Similarity=0.314 Sum_probs=54.0
Q ss_pred cEEEEEeCcccHHHHHHcCCce---eCHHHHHHhhhcHHHHHHHhhhcCEEEEeHhhHhhhhhccCCCCCCCCCCCcccc
Q 036232 105 MKVCMLGDAQHVEQAEKIGMDY---MDVEALKKLNKNKKLVKKLAKKYHAFLASEAVIKQIPRLLGPGLNKAGKFPTLVT 181 (259)
Q Consensus 105 ~~Vcvf~~~~~~~~a~~~ga~~---vg~~eL~k~~k~~e~~rkL~~~yD~fLad~~i~~~L~rlLGk~f~~~~K~P~~v~ 181 (259)
.+|+|++|.+..-=-+-+|++. ...+++.+.+..- ...+|.+++.+.++...++..+-. +.+...|..+.
T Consensus 4 ~kIaVIGD~dtv~GFrLaGi~~~~v~~~ee~~~~i~~l-----~~~d~gII~Ite~~a~~i~~~i~~--~~~~~~P~Il~ 76 (104)
T PRK01395 4 YKIGVVGDKDSILPFKALGIDVFPVIDEQEAINTLRKL-----AMEDYGIIYITEQIAADIPETIER--YDNQVLPAIIL 76 (104)
T ss_pred eeEEEEECHHHHHHHHHcCCeeEEecChHHHHHHHHHH-----hcCCcEEEEEcHHHHHHhHHHHHH--hcCCCCCEEEE
Confidence 4799999865555566778873 3556665544321 146799999999999999876633 24557777664
Q ss_pred C-----c-----ccHHHHHHHhhc
Q 036232 182 H-----Q-----ESLEAKVNETKA 195 (259)
Q Consensus 182 ~-----~-----~dl~~~I~~~~~ 195 (259)
. + +.+.+.|+++.+
T Consensus 77 IP~~~g~~~~g~~~i~~~v~kAIG 100 (104)
T PRK01395 77 IPSNQGSLGIGLSRIQDNVEKAVG 100 (104)
T ss_pred eCCCCCCccccHHHHHHHHHHHhC
Confidence 2 1 245566666554
No 22
>TIGR00853 pts-lac PTS system, lactose/cellobiose family IIB component. Bacterial PTS transporters transport and concomitantly phosphorylate their sugar substrates, and typically consist of multiple subunits or protein domains.The Lac family includes several sequenced lactose (b-galactoside) permeases of Gram-positive bacteria as well as those in E. coli. While the Lac family usually consists of two polypeptide components IIA and IICB, the Chb permease of E. coli consists of three IIA, IIB and IIC. This family is specific for the IIB subunit of the Lac PTS family.
Probab=46.11 E-value=66 Score=24.33 Aligned_cols=52 Identities=19% Similarity=0.165 Sum_probs=36.1
Q ss_pred CcEEEEEeCccc---------HHHHHHcCCce----eCHHHHHHhhhcHHHHHHHhhhcCEEEEeHhhHhhhhhc
Q 036232 104 MMKVCMLGDAQH---------VEQAEKIGMDY----MDVEALKKLNKNKKLVKKLAKKYHAFLASEAVIKQIPRL 165 (259)
Q Consensus 104 ~~~Vcvf~~~~~---------~~~a~~~ga~~----vg~~eL~k~~k~~e~~rkL~~~yD~fLad~~i~~~L~rl 165 (259)
..+|+++|..-. .+.+++.|.++ .+..++.+. ..+||++|..|.+-..+..+
T Consensus 3 ~~~ILl~C~~G~sSS~l~~k~~~~~~~~gi~~~v~a~~~~~~~~~----------~~~~Dvill~pqi~~~~~~i 67 (95)
T TIGR00853 3 ETNILLLCAAGMSTSLLVNKMNKAAEEYGVPVKIAAGSYGAAGEK----------LDDADVVLLAPQVAYMLPDL 67 (95)
T ss_pred ccEEEEECCCchhHHHHHHHHHHHHHHCCCcEEEEEecHHHHHhh----------cCCCCEEEECchHHHHHHHH
Confidence 467888886421 35677888863 466665543 35799999999997766655
No 23
>KOG2219 consensus Uncharacterized conserved protein [Function unknown]
Probab=42.59 E-value=30 Score=35.43 Aligned_cols=84 Identities=14% Similarity=0.216 Sum_probs=58.1
Q ss_pred hhcCEEEEeHhhHhhhhhccCCCCCCCCCCCccccCc--ccHHHHHHHhhc--ceeeEeccccEEEEEEecCCCChhHHh
Q 036232 147 KKYHAFLASEAVIKQIPRLLGPGLNKAGKFPTLVTHQ--ESLEAKVNETKA--VVKFQLKKVLCMGVAVGNCSMEEKQVF 222 (259)
Q Consensus 147 ~~yD~fLad~~i~~~L~rlLGk~f~~~~K~P~~v~~~--~dl~~~I~~~~~--s~~~~~~~~~~i~v~IG~~sm~~eql~ 222 (259)
.-||+|| ...|+...-++|.. |.+.+|.+. ..+.=.++.+++ ++||-+.+.-.=++-+-+.+|++|||.
T Consensus 64 svFdFFl-Ekqml~yFl~Ilrq------~st~~v~VQLLQTlnIlfeNirhEtslYyLlSNnyVNsiI~hkFDfq~eEim 136 (864)
T KOG2219|consen 64 SVFDFFL-EKQMLGYFLRILRQ------KSTVTVCVQLLQTLNILFENIRHETSLYYLLSNNYVNSIIVHKFDFQDEEIM 136 (864)
T ss_pred HHHHHHH-HHHHHHHHHHHHhh------cCCceEeHHHHHHHHHHHHhccccceeeeeecccceeeeEEEeecCCcHHHH
Confidence 4477776 45666666677633 334444442 344556677776 788888776555677788899999999
Q ss_pred ccHHHHHHHHHHhcc
Q 036232 223 QNVQLSVNFLVSLLK 237 (259)
Q Consensus 223 eNi~avl~~l~~~~p 237 (259)
.=-..+++.+--++.
T Consensus 137 aYYISFLktlS~KLN 151 (864)
T KOG2219|consen 137 AYYISFLKTLSGKLN 151 (864)
T ss_pred HHHHHHHHHhhcccC
Confidence 988888888876654
No 24
>COG4844 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=31.75 E-value=30 Score=25.02 Aligned_cols=16 Identities=6% Similarity=0.198 Sum_probs=13.6
Q ss_pred CCChhHHhccHHHHHH
Q 036232 215 SMEEKQVFQNVQLSVN 230 (259)
Q Consensus 215 sm~~eql~eNi~avl~ 230 (259)
+-+++||+|||.+.++
T Consensus 58 Get~eeLv~NIY~~i~ 73 (78)
T COG4844 58 GETPEELVENIYTFIE 73 (78)
T ss_pred CCCHHHHHHHHHHHHh
Confidence 4589999999998875
No 25
>COG1436 NtpG Archaeal/vacuolar-type H+-ATPase subunit F [Energy production and conversion]
Probab=31.17 E-value=77 Score=24.71 Aligned_cols=85 Identities=19% Similarity=0.298 Sum_probs=52.2
Q ss_pred cEEEEEeCcccHHHHHHcCCce---eCHH--HHHHhhhcHHHHHHHhhhcCEEEEeHhhHhhhhhccCCCCCCCCCCCcc
Q 036232 105 MKVCMLGDAQHVEQAEKIGMDY---MDVE--ALKKLNKNKKLVKKLAKKYHAFLASEAVIKQIPRLLGPGLNKAGKFPTL 179 (259)
Q Consensus 105 ~~Vcvf~~~~~~~~a~~~ga~~---vg~~--eL~k~~k~~e~~rkL~~~yD~fLad~~i~~~L~rlLGk~f~~~~K~P~~ 179 (259)
.+|||+.+.+-.---+=+|+.. +..+ ++.+...... -.+|++++.+.++++.++..+-. ....+-.|+.
T Consensus 3 ~~I~VIGd~dtvtGFrLaGv~~~~v~~~~~~~~~~~~~~l~-----~~~~~iIiite~~a~~i~~~i~~-~~~~~~~P~i 76 (104)
T COG1436 3 MKIAVIGDRDTVTGFRLAGVRVVYVADDEEDELRAALRVLA-----EDDVGIILITEDLAEKIREEIRR-IIRSSVLPAI 76 (104)
T ss_pred eEEEEEEccchhhceeeecceeEEEecChhHHHHHHHHhhc-----cCCceEEEEeHHHHhhhHHHHHH-HhhccCccEE
Confidence 4789999876544334456652 4443 3455443332 24899999999999998776644 2223445666
Q ss_pred ccC-------cccHHHHHHHhhc
Q 036232 180 VTH-------QESLEAKVNETKA 195 (259)
Q Consensus 180 v~~-------~~dl~~~I~~~~~ 195 (259)
+.+ ...+.+.|.++.+
T Consensus 77 v~IPs~~~~~~~~~~~~I~k~vG 99 (104)
T COG1436 77 VEIPSPGKEEEEPLRELIRRAVG 99 (104)
T ss_pred EEeCCCCCCccchHHHHHHHHHh
Confidence 542 1457777776654
No 26
>PRK01189 V-type ATP synthase subunit F; Provisional
Probab=29.01 E-value=1.8e+02 Score=22.57 Aligned_cols=82 Identities=17% Similarity=0.230 Sum_probs=52.0
Q ss_pred EEEEEeCcccHHHHHHcCCc-ee--CHH-HHHHhhhcHHHHHHH-hhhcCEEEEeHhhHhhhh-hccCCCCCCCCCCCcc
Q 036232 106 KVCMLGDAQHVEQAEKIGMD-YM--DVE-ALKKLNKNKKLVKKL-AKKYHAFLASEAVIKQIP-RLLGPGLNKAGKFPTL 179 (259)
Q Consensus 106 ~Vcvf~~~~~~~~a~~~ga~-~v--g~~-eL~k~~k~~e~~rkL-~~~yD~fLad~~i~~~L~-rlLGk~f~~~~K~P~~ 179 (259)
+|+|+.+.+..-=-+-+|++ ++ ..+ ++.+. .+.| ..+|-+++.+.++...+| ..+- -+++...|..
T Consensus 4 kIaVvGd~DtilGFrlaGi~~v~~~~~~e~~~~~------~~~l~~~~~gII~iTE~~a~~i~~~~i~--~~~~~~~P~I 75 (104)
T PRK01189 4 CITVIGERDVVLGFRLLGIGDTIEAEGKDLVKKF------LEIFNNPKCKYIFVSESTKNMFDKNTLR--SLESSSKPLV 75 (104)
T ss_pred eEEEEcCHHHHHHHHHcCCceEEEcCCHHHHHHH------HHHHhcCCeEEEEEEHHHHhhCCHHHHH--HHhccCCCeE
Confidence 68999887655556678985 43 222 23222 2234 356999999999999998 4442 2446788887
Q ss_pred cc--C-----cccHHHHHHHhhc
Q 036232 180 VT--H-----QESLEAKVNETKA 195 (259)
Q Consensus 180 v~--~-----~~dl~~~I~~~~~ 195 (259)
|. . .+.+.+.++++.+
T Consensus 76 I~Ipipg~~~~~~i~~~ik~aiG 98 (104)
T PRK01189 76 VFIPLPGISEEESIEEMAKRILG 98 (104)
T ss_pred EEEeCCCCccchhHHHHHHHHhc
Confidence 72 1 1356666666654
No 27
>PRK04203 rpl1P 50S ribosomal protein L1P; Reviewed
Probab=28.87 E-value=43 Score=29.30 Aligned_cols=19 Identities=26% Similarity=0.357 Sum_probs=15.5
Q ss_pred hhhhccCC-CCCCCCCCCcc
Q 036232 161 QIPRLLGP-GLNKAGKFPTL 179 (259)
Q Consensus 161 ~L~rlLGk-~f~~~~K~P~~ 179 (259)
.|+++||| ++||+.+.++.
T Consensus 120 ~LGk~lgprgkmP~p~~~t~ 139 (215)
T PRK04203 120 YLGPVLGPRGKMPTPLPPNA 139 (215)
T ss_pred HHhhhcCcCCCCCCCcCCCC
Confidence 47889999 89998887764
No 28
>PF00370 FGGY_N: FGGY family of carbohydrate kinases, N-terminal domain; InterPro: IPR018484 It has been shown [] that four different type of carbohydrate kinases seem to be evolutionary related. These enzymes include L-fucolokinase (2.7.1.51 from EC) (gene fucK); gluconokinase (2.7.1.12 from EC) (gene gntK); glycerol kinase (2.7.1.30 from EC) (gene glpK); xylulokinase (2.7.1.17 from EC) (gene xylB); and L-xylulose kinase (2.7.1.53 from EC) (gene lyxK). These enzymes are proteins of from 480 to 520 amino acid residues. This entry represents the N-terminal domain of these proteins. It adopts a ribonuclease H-like fold and is structurally related to the C-terminal domain [, ].; GO: 0016773 phosphotransferase activity, alcohol group as acceptor, 0005975 carbohydrate metabolic process; PDB: 3G25_D 3GE1_D 2NLX_A 2ITM_A 2ZF5_Y 3L0Q_B 3GG4_B 3I8B_A 3H3O_C 3FLC_X ....
Probab=28.01 E-value=50 Score=28.69 Aligned_cols=45 Identities=7% Similarity=0.107 Sum_probs=35.7
Q ss_pred ecCCCChhHHhccHHHHHHHHHHhccccccCeeEEEEEcCCCCCe
Q 036232 212 GNCSMEEKQVFQNVQLSVNFLVSLLKKSWQNVRCLHLKSTMGRPQ 256 (259)
Q Consensus 212 G~~sm~~eql~eNi~avl~~l~~~~p~~~~nI~sv~Lkst~sp~l 256 (259)
|...++++++.+-+..+++.+.+..+.....|.+|.+++.+.--+
T Consensus 39 g~~e~d~~~~~~~~~~~~~~~~~~~~~~~~~I~aI~is~~~~~~v 83 (245)
T PF00370_consen 39 GWAEQDPDEIWEAICEALKELLSQAGIDPEQIKAIGISGQGHGLV 83 (245)
T ss_dssp TEEEE-HHHHHHHHHHHHHHHHHHCTSCGGGEEEEEEEE-SSEEE
T ss_pred cccccChHHHHHHHHHHHHHHHhhcCcccceeEEEEeccccCCcc
Confidence 566789999999999999999988855678899999998875433
No 29
>cd05565 PTS_IIB_lactose PTS_IIB_lactose: subunit IIB of enzyme II (EII) of the lactose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS) found in Firmicutes as well as Actinobacteria. In this system, EII is a lactose-specific permease with two cytoplasmic domains (IIA and IIB) and a transmembrane channel IIC domain. The IIC and IIB domains are expressed as a single protein from the lac operon. The IIB domain fold includes a central four-stranded parallel open twisted beta-sheet flanked by alpha-helices on both sides. The seven major PTS systems with this IIB fold include lactose, chitobiose/lichenan, ascorbate, galactitol, mannitol, fructose, and a sensory system with similarity to the bacterial bgl system.
Probab=27.02 E-value=1.7e+02 Score=22.47 Aligned_cols=50 Identities=12% Similarity=0.113 Sum_probs=32.9
Q ss_pred EEEEEeCcc---------cHHHHHHcCCce----eCHHHHHHhhhcHHHHHHHhhhcCEEEEeHhhHhhhhhc
Q 036232 106 KVCMLGDAQ---------HVEQAEKIGMDY----MDVEALKKLNKNKKLVKKLAKKYHAFLASEAVIKQIPRL 165 (259)
Q Consensus 106 ~Vcvf~~~~---------~~~~a~~~ga~~----vg~~eL~k~~k~~e~~rkL~~~yD~fLad~~i~~~L~rl 165 (259)
+|+|+|-.- ..+.|++.|.++ .+..++... ..+||++|..|.+--.+..+
T Consensus 2 ~Ill~C~~GaSSs~la~km~~~a~~~gi~~~i~a~~~~e~~~~----------~~~~Dvill~PQv~~~~~~i 64 (99)
T cd05565 2 NVLVLCAGGGTSGLLANALNKGAKERGVPLEAAAGAYGSHYDM----------IPDYDLVILAPQMASYYDEL 64 (99)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEEeeHHHHHHh----------ccCCCEEEEcChHHHHHHHH
Confidence 578888431 136678889874 355555543 46799999999885554443
No 30
>cd05564 PTS_IIB_chitobiose_lichenan PTS_IIB_chitobiose_lichenan: subunit IIB of enzyme II (EII) of the N,N-diacetylchitobiose-specific and lichenan-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In these systems, EII is either a lichenan- or an N,N-diacetylchitobiose-specific permease with two cytoplasmic domains (IIA and IIB) and a transmembrane channel IIC domain. In the chitobiose system, these subunits are expressed as separate proteins from chbA, chbB, and chbC of the chb operon (formerly the cel (cellulose) operon). In the lichenan system, these subunits are expressed from licA, licB, and licC of the lic operon. The lic operon of Bacillus subtilis is required for the transport and degradation of oligomeric beta-glucosides, which are produced by extracellular enzymes on substrates such as lichenan or barley glucan. The lic operon is transcribed from a gammaA-dependent promoter and is inducible by lichenan, lichenan hydrolysate, and cellobiose. The IIB d
Probab=24.49 E-value=2e+02 Score=21.54 Aligned_cols=40 Identities=20% Similarity=0.220 Sum_probs=27.8
Q ss_pred HHHHHcCCce----eCHHHHHHhhhcHHHHHHHhhhcCEEEEeHhhHhhhhhcc
Q 036232 117 EQAEKIGMDY----MDVEALKKLNKNKKLVKKLAKKYHAFLASEAVIKQIPRLL 166 (259)
Q Consensus 117 ~~a~~~ga~~----vg~~eL~k~~k~~e~~rkL~~~yD~fLad~~i~~~L~rlL 166 (259)
+.+++.|.++ .+..++... ..+||++|..|.+...+..+-
T Consensus 21 ~~~~~~~~~~~v~~~~~~~~~~~----------~~~~Diil~~Pqv~~~~~~i~ 64 (96)
T cd05564 21 KAAEKRGIDAEIEAVPESELEEY----------IDDADVVLLGPQVRYMLDEVK 64 (96)
T ss_pred HHHHHCCCceEEEEecHHHHHHh----------cCCCCEEEEChhHHHHHHHHH
Confidence 5567778763 455665532 467999999999977766653
No 31
>TIGR03260 met_CoM_red_D methyl-coenzyme M reductase operon protein D. Members of this protein family are protein D, a non-structural protein, of the operon for methyl coenzyme M reductase, also called coenzyme-B sulfoethylthiotransferase (EC 2.8.4.1). That enzyme, with alpha, beta, and gamma subunits, catalyzes the last step in methanogenesis; it has several modified sites, so accessory proteins are expected. Several methanogens have encode two such enzymes, designated I and II; this model does not separate the isozymes. Proteins in this family are expressed at much lower levels than the methyl-coenzyme M reductase itself and associate and have been shown to form at least transient associations. The precise function is unknown.
Probab=23.39 E-value=91 Score=25.98 Aligned_cols=46 Identities=13% Similarity=0.211 Sum_probs=31.5
Q ss_pred cEEEEEEecCCCC--hhHHhccHHHHHHHHHHhccccccCeeEEEEEcCCC
Q 036232 205 LCMGVAVGNCSME--EKQVFQNVQLSVNFLVSLLKKSWQNVRCLHLKSTMG 253 (259)
Q Consensus 205 ~~i~v~IG~~sm~--~eql~eNi~avl~~l~~~~p~~~~nI~sv~Lkst~s 253 (259)
--+.|.||+.-.. +++..++|.++++.+ +|-+...-...|+++..+
T Consensus 67 veL~V~VGrI~le~~~~~~i~~I~eiC~e~---~pF~y~i~~g~f~r~~~T 114 (150)
T TIGR03260 67 VELRVQVGRIILELEDEDIVEEIEEICKEM---LPFGYEVRVGKFLRTKPT 114 (150)
T ss_pred EEEEEEEeEEEEEecCHHHHHHHHHHHHhh---CCCceEeeeeeEeecCCc
Confidence 4578999999766 999999999988665 443333233347776543
Done!