Query 027855
Match_columns 217
No_of_seqs 109 out of 1091
Neff 7.6
Searched_HMMs 46136
Date Fri Mar 29 02:28:13 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/027855.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/027855hhsearch_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 2.1E-60 4.6E-65 395.3 23.5 216 1-217 1-216 (216)
2 PTZ00225 60S ribosomal protein 100.0 5.4E-59 1.2E-63 385.5 24.3 214 1-217 1-214 (214)
3 PRK04203 rpl1P 50S ribosomal p 100.0 4.3E-56 9.2E-61 369.6 23.5 211 4-217 2-214 (215)
4 cd00403 Ribosomal_L1 Ribosomal 100.0 1.1E-49 2.4E-54 329.9 22.1 205 9-216 1-208 (208)
5 COG0081 RplA Ribosomal protein 100.0 1E-47 2.2E-52 315.7 20.5 203 4-217 18-226 (228)
6 CHL00129 rpl1 ribosomal protei 100.0 1.5E-46 3.2E-51 313.9 22.2 198 7-216 20-223 (229)
7 PRK05424 rplA 50S ribosomal pr 100.0 1E-45 2.3E-50 309.6 22.1 199 6-216 19-223 (230)
8 TIGR01169 rplA_bact ribosomal 100.0 1.6E-45 3.4E-50 307.9 22.2 198 7-216 19-222 (227)
9 PF00687 Ribosomal_L1: Ribosom 100.0 5.3E-46 1.2E-50 310.2 17.4 201 13-213 1-220 (220)
10 KOG1570 60S ribosomal protein 100.0 2.2E-39 4.9E-44 260.4 12.3 217 1-217 2-218 (218)
11 KOG1685 Uncharacterized conser 100.0 2.7E-39 5.8E-44 279.4 10.2 213 1-217 16-259 (343)
12 KOG1569 50S ribosomal protein 100.0 1.6E-30 3.4E-35 219.5 16.0 200 8-216 91-303 (323)
13 TIGR01170 rplA_mito ribosomal 99.9 1.2E-25 2.5E-30 174.9 14.6 134 9-153 3-140 (141)
14 PF13003 MRL1: Ribosomal prote 96.7 0.0042 9.1E-08 47.5 5.8 60 7-68 70-133 (133)
15 TIGR01170 rplA_mito ribosomal 81.5 1.1 2.4E-05 34.9 2.2 23 117-139 106-129 (141)
16 CHL00129 rpl1 ribosomal protei 71.7 2.5 5.3E-05 35.7 1.7 22 117-138 123-145 (229)
17 TIGR01169 rplA_bact ribosomal 70.0 2.7 5.9E-05 35.3 1.6 22 117-138 122-144 (227)
18 COG0081 RplA Ribosomal protein 69.1 3.5 7.5E-05 34.7 2.1 21 118-138 126-147 (228)
19 PRK05424 rplA 50S ribosomal pr 69.1 2.9 6.3E-05 35.3 1.6 22 117-138 123-145 (230)
20 PRK02228 V-type ATP synthase s 61.5 25 0.00053 25.5 5.2 85 64-153 2-95 (100)
21 PRK01395 V-type ATP synthase s 57.4 45 0.00097 24.4 6.0 70 63-139 4-76 (104)
22 TIGR00853 pts-lac PTS system, 48.0 76 0.0016 22.7 5.8 53 62-124 3-68 (95)
23 PRK01189 V-type ATP synthase s 37.4 1.2E+02 0.0025 22.3 5.4 82 64-153 4-98 (104)
24 COG1436 NtpG Archaeal/vacuolar 33.7 88 0.0019 23.0 4.3 85 63-153 3-99 (104)
25 COG4844 Uncharacterized protei 32.5 27 0.00059 23.7 1.2 17 173-189 58-74 (78)
26 PF00370 FGGY_N: FGGY family o 30.6 42 0.00092 27.7 2.5 45 170-214 39-83 (245)
27 TIGR03260 met_CoM_red_D methyl 30.0 54 0.0012 25.8 2.7 46 163-211 67-114 (150)
28 KOG2219 Uncharacterized conser 29.8 69 0.0015 31.3 3.9 84 105-195 64-151 (864)
29 KOG0780 Signal recognition par 27.7 69 0.0015 29.6 3.3 54 60-115 127-192 (483)
30 KOG3189 Phosphomannomutase [Li 26.3 21 0.00045 29.8 -0.2 33 82-116 46-78 (252)
31 PRK04203 rpl1P 50S ribosomal p 25.7 55 0.0012 27.1 2.3 18 119-136 120-138 (215)
32 PF14572 Pribosyl_synth: Phosp 23.6 1.3E+02 0.0028 24.5 4.0 76 62-153 82-175 (184)
33 PRK13562 acetolactate synthase 22.9 60 0.0013 23.0 1.7 36 179-214 8-43 (84)
34 PF15585 Imm46: Immunity prote 22.5 2.1E+02 0.0045 22.0 4.7 38 161-198 48-85 (129)
35 cd05565 PTS_IIB_lactose PTS_II 22.4 2.9E+02 0.0063 19.9 5.3 49 64-122 2-63 (99)
36 PF01990 ATP-synt_F: ATP synth 20.3 2.6E+02 0.0057 19.6 4.7 70 65-139 1-74 (95)
No 1
>PTZ00029 60S ribosomal protein L10a; Provisional
Probab=100.00 E-value=2.1e-60 Score=395.28 Aligned_cols=216 Identities=70% Similarity=1.123 Sum_probs=208.3
Q ss_pred CCCCCHHHHHHHHHHHHHHhhhhccCCCCCcEEEEEEEcccCCCCCCccceeEecCCCCCCCcEEEEEeCcccHHHHHHc
Q 027855 1 MSKLQSDALREAVSSIVQYSKETKKRNFTETIELQIGLKNYDPQKDKRFSGSVKLPHIPRPKMKVCMLGDAQHVEEAEKI 80 (217)
Q Consensus 1 ~s~~~~~~i~~Av~~L~~~~~~~~~~~~~e~i~l~i~lk~~~~~k~~~~~~~i~LPh~~~~~~~Icvf~~~~~~~~a~~~ 80 (217)
||+++++++++||+++++|. +.++++|+|+|+++|+|+++++++++++|+.|.|||+.++..+||||++++.+++|+++
T Consensus 1 m~~~~~~~~~~av~~~~~~~-~~~~~~f~esv~~~i~Lk~id~~~~~~ir~~v~LP~~~gk~~~v~V~a~~~~~~~Ak~a 79 (216)
T PTZ00029 1 MSKLSSEALRKAIAEILEGS-EEKKRKFVETVELQIGLKDYDTQKDKRFSGSVKLPNVPKPNLKVCVLGDAVHCDEAKKL 79 (216)
T ss_pred CCcCCHHHHHHHHHHHHhhc-cccccCCceEEEEEEEcCCCCCCcCcccceeEecCCCCCCCcEEEEECCcHHHHHHHHc
Confidence 89999999999999999864 34578899999999999999999989999999999999999999999999889999999
Q ss_pred CCCeeChHHHHhhhhcHHHHHHHhhhcCEEEechhhHhhhhhhhCCCCCCCCCCCceecccccHHHHHHHhhccceeEec
Q 027855 81 GLDYMDVEGLKKLNKNKKLVKKLAKKYHAFLASESVIKQIPRLLGPGLNKAGKFPTLVTHQESLESKVNETKATVKFQLK 160 (217)
Q Consensus 81 g~~~i~~~~l~k~~~~~~~~r~l~~~~D~flad~~i~~~l~~~LG~~f~~~~K~P~~v~~~~~l~~~i~~~~~~~~~~~~ 160 (217)
||+++|.++|++.+++++.+|+|+.+||+||||+|+|+.||++|||+|||++|+|+++++++|+.+.|++++++++|+++
T Consensus 80 Ga~vvg~edL~~~~k~~k~~kkl~~~fD~flA~~~im~~l~riLGp~l~p~~K~P~~v~~~~d~~~~i~~~k~~v~~r~~ 159 (216)
T PTZ00029 80 GLDFMDIEGLKKFNKNKKLVKKLAKKYDAFLASQSLLPQIPRLLGPGLNKAGKFPTLITHNDDIEDKINELKSSVKFQLK 159 (216)
T ss_pred CCCEecHHHHHHhhhhHHHHhcccccCCEEEECHHHHHHHHHHhccccccCCCCCCcccCccCHHHHHHHHHheEEEEEC
Confidence 99999999999999999999999999999999999999999999999999999999998889999999999999999999
Q ss_pred CccEEEEEEcCCCCChHHHhccHHHHHHHHHHhccccccceeEEEEEcCCCCceecC
Q 027855 161 KVLCMGVAVGNLSMEEKQIFQNVQMSVNFLVSLLKKNWQNVRCLYLKSTMGPSNRIF 217 (217)
Q Consensus 161 ~~~~~~v~VG~~~m~~~~i~eNi~a~i~~l~~~~p~~~~~I~~v~lkst~s~~lpiy 217 (217)
+++|++++||+++|+++||+|||.+++++|.+.+|+||.||+++||||||||+++||
T Consensus 160 k~~~i~v~VG~~~~~~e~l~eNi~avl~~i~~~~~kg~~~Iksv~lktTmgp~v~v~ 216 (216)
T PTZ00029 160 KVLCLGVAVGNVEMTEEQLRQNIVLSINFLVSLLKKNWQNIKTLHIKSTMGKPQRIY 216 (216)
T ss_pred CCCEEEEEEcCCCCCHHHHHHHHHHHHHHHHHHhccccccEeEEEEECCCCCCEeCC
Confidence 999999999999999999999999999999999999999999999999999999998
No 2
>PTZ00225 60S ribosomal protein L10a; Provisional
Probab=100.00 E-value=5.4e-59 Score=385.46 Aligned_cols=214 Identities=58% Similarity=0.947 Sum_probs=207.0
Q ss_pred CCCCCHHHHHHHHHHHHHHhhhhccCCCCCcEEEEEEEcccCCCCCCccceeEecCCCCCCCcEEEEEeCcccHHHHHHc
Q 027855 1 MSKLQSDALREAVSSIVQYSKETKKRNFTETIELQIGLKNYDPQKDKRFSGSVKLPHIPRPKMKVCMLGDAQHVEEAEKI 80 (217)
Q Consensus 1 ~s~~~~~~i~~Av~~L~~~~~~~~~~~~~e~i~l~i~lk~~~~~k~~~~~~~i~LPh~~~~~~~Icvf~~~~~~~~a~~~ 80 (217)
||+++++++.+||+.|+++. ++++|+|+|+|+|+||+++|++++++|+.|.|||+.++..+||||++++.+++|+++
T Consensus 1 m~k~~~~~i~~Av~~~lk~~---~~~kF~Etvdl~v~Lk~iDp~kd~~irg~v~LPhg~gk~~kV~v~~~~~~~~~Ak~a 77 (214)
T PTZ00225 1 MSKIPPQTLSEAIQAVLKVD---KERKFKESIDLQVNLKNYDPQKDKRFSGSLKLPNVCRPRMTVCLLCDLVHEDIAKKE 77 (214)
T ss_pred CCcCCHHHHHHHHHHHHHhc---ccCCCCceEEEEEeccCcCCCcCcccceeEECCCCCCCCcEEEEECChHHHHHHHHC
Confidence 89999999999999988765 567899999999999999999999999999999999999999999999989999999
Q ss_pred CCCeeChHHHHhhhhcHHHHHHHhhhcCEEEechhhHhhhhhhhCCCCCCCCCCCceecccccHHHHHHHhhccceeEec
Q 027855 81 GLDYMDVEGLKKLNKNKKLVKKLAKKYHAFLASESVIKQIPRLLGPGLNKAGKFPTLVTHQESLESKVNETKATVKFQLK 160 (217)
Q Consensus 81 g~~~i~~~~l~k~~~~~~~~r~l~~~~D~flad~~i~~~l~~~LG~~f~~~~K~P~~v~~~~~l~~~i~~~~~~~~~~~~ 160 (217)
|++++|.++|++++++++++|+|+.+||+|||++++||.||++|||.|+|++|+|+++++++|+.+.|+++++++.|+++
T Consensus 78 Gad~v~~e~l~~l~k~~~~~kkl~~~fD~fiA~~~~m~~lgk~LGp~~~p~gK~P~~~~~~~dl~~~i~~~k~~v~~r~~ 157 (214)
T PTZ00225 78 GVPTMNQEELKKLNKNKKLVKKMCNQYDAFLCSESIIKTVPRLVGPHMHRMGKFPTVCSPSESLPDKVVELRSTVKFQLK 157 (214)
T ss_pred CCCEECHHHHHHHHhccHHHHHHHhhCCEEEECHHHHHhhhhhcCCCCCcCCCCCcccCCccCHHHHHHHHhheeEEEec
Confidence 99999999999999999999999999999999999999999999998889999999998899999999999999999999
Q ss_pred CccEEEEEEcCCCCChHHHhccHHHHHHHHHHhccccccceeEEEEEcCCCCceecC
Q 027855 161 KVLCMGVAVGNLSMEEKQIFQNVQMSVNFLVSLLKKNWQNVRCLYLKSTMGPSNRIF 217 (217)
Q Consensus 161 ~~~~~~v~VG~~~m~~~~i~eNi~a~i~~l~~~~p~~~~~I~~v~lkst~s~~lpiy 217 (217)
+.++++++||+++|+++||+||+.++++.|.+.+|+||.||+++||||||||+..+|
T Consensus 158 k~~~~~~~VGk~~m~~e~i~eNi~a~l~~l~~~~p~k~~nIksv~iktTMGp~~~~~ 214 (214)
T PTZ00225 158 KVLCLGTCVGHVEMTEEQLRQNVVMAINFLVSLLKKNWQNLKSAYIKSTMGKPQRIY 214 (214)
T ss_pred CccEEEeEEccCCCCHHHHHHHHHHHHHHHHHhCCcCCceEeEEEEECCCCCCEeCC
Confidence 999999999999999999999999999999999999999999999999999999987
No 3
>PRK04203 rpl1P 50S ribosomal protein L1P; Reviewed
Probab=100.00 E-value=4.3e-56 Score=369.57 Aligned_cols=211 Identities=31% Similarity=0.517 Sum_probs=200.6
Q ss_pred CCHHHHHHHHHHHHHHhhhhccCCCCCcEEEEEEEcccCCCC-CCccceeEecCCCCCCCcEEEEEeCcccHHHHHHcCC
Q 027855 4 LQSDALREAVSSIVQYSKETKKRNFTETIELQIGLKNYDPQK-DKRFSGSVKLPHIPRPKMKVCMLGDAQHVEEAEKIGL 82 (217)
Q Consensus 4 ~~~~~i~~Av~~L~~~~~~~~~~~~~e~i~l~i~lk~~~~~k-~~~~~~~i~LPh~~~~~~~Icvf~~~~~~~~a~~~g~ 82 (217)
+++|++.+||+.++++. ++++|+|+|+|+|+||++++++ ++++|+.|.|||+.+++.+||||++++.+++|+++||
T Consensus 2 ~~~~~~~eai~~~k~~~---~~~kf~esvel~v~Lk~id~~k~~~~irg~i~LP~~~~k~~~V~vf~~~~~~~~Ak~aGa 78 (215)
T PRK04203 2 MDREKIEEAVKEALEEA---PKRNFTQSVDLIVNLKDIDLKKPENRIDEEVVLPHGRGKEVKIAVIAKGELALQAKEAGA 78 (215)
T ss_pred CcHHHHHHHHHHHHHhc---ccCCCCceEEEEEEecCCCCCccCceeeEEEECCCCCCCCcEEEEEcChHhHHHHHHcCC
Confidence 68999999999999754 4678999999999999999988 7899999999999999999999999888899999999
Q ss_pred C-eeChHHHHhhhhcHHHHHHHhhhcCEEEechhhHhhhhhhhCCCCCCCCCCCceecccccHHHHHHHhhccceeEecC
Q 027855 83 D-YMDVEGLKKLNKNKKLVKKLAKKYHAFLASESVIKQIPRLLGPGLNKAGKFPTLVTHQESLESKVNETKATVKFQLKK 161 (217)
Q Consensus 83 ~-~i~~~~l~k~~~~~~~~r~l~~~~D~flad~~i~~~l~~~LG~~f~~~~K~P~~v~~~~~l~~~i~~~~~~~~~~~~~ 161 (217)
+ ++|.++|.+....++++|+|+.+||+||||+|||+.||++||+.|+|++|||.|+..+.|+.+.|++++++++|++++
T Consensus 79 ~~v~~~e~L~~i~~~~k~~rkl~~~fD~~lA~~~im~~l~k~LGk~lgprgkmP~p~~~t~di~~~i~~~~~~~~~r~~k 158 (215)
T PRK04203 79 DYVITREELEELGGDKRAAKKLANEYDFFIAEADLMPLIGRYLGPVLGPRGKMPTPLPPNADIKPLVERLKNTVRIRTKD 158 (215)
T ss_pred CEEeCHHHHHHHhcChHHHhhhhhcCCEEEECHHHHHHHHHHHhhhcCcCCCCCCCcCCCCCHHHHHHHHhhceEEEeCC
Confidence 9 677888888888899999999999999999999999999999999999999999987779999999999999999999
Q ss_pred ccEEEEEEcCCCCChHHHhccHHHHHHHHHHhccccccceeEEEEEcCCCCceecC
Q 027855 162 VLCMGVAVGNLSMEEKQIFQNVQMSVNFLVSLLKKNWQNVRCLYLKSTMGPSNRIF 217 (217)
Q Consensus 162 ~~~~~v~VG~~~m~~~~i~eNi~a~i~~l~~~~p~~~~~I~~v~lkst~s~~lpiy 217 (217)
++|++++||+++|+++||+|||.+++++|.+.+|+||.||+++||||||||+++||
T Consensus 159 ~~~i~v~VG~~~m~~e~l~eNi~avl~~i~~~~p~g~~~Iksi~lktTmgp~i~i~ 214 (215)
T PRK04203 159 QPTFHVRVGTEDMSPEELAENIDAVLNRIESKLEKGRQNIKSVYVKTTMGPAVKVE 214 (215)
T ss_pred CCEEEEEEeCCCCCHHHHHHHHHHHHHHHHHhCccccccEEEEEEECCCCCCEEee
Confidence 99999999999999999999999999999999999999999999999999999997
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=1.1e-49 Score=329.95 Aligned_cols=205 Identities=42% Similarity=0.633 Sum_probs=192.3
Q ss_pred HHHHHHHHHHHhhhhccCCCCCcEEEEEEEcccCCCCCCccceeEecCCCCCCCcEEEEEeCcccHHHHHHcCCCeeChH
Q 027855 9 LREAVSSIVQYSKETKKRNFTETIELQIGLKNYDPQKDKRFSGSVKLPHIPRPKMKVCMLGDAQHVEEAEKIGLDYMDVE 88 (217)
Q Consensus 9 i~~Av~~L~~~~~~~~~~~~~e~i~l~i~lk~~~~~k~~~~~~~i~LPh~~~~~~~Icvf~~~~~~~~a~~~g~~~i~~~ 88 (217)
+.+|+++|+++.. ....+.|+|+|+|+++..+.+++.++++.|.|||+++++.+||||+++++.++|+++|++++|++
T Consensus 1 ~~~Ai~~l~~~~~--~~~~~~~~v~l~i~l~~~~~~~~~~~~~~i~LPh~~~~~~~i~v~~~d~~~~~a~~~~a~vig~~ 78 (208)
T cd00403 1 LEEAIKALKKTSV--KKRKFDETVELQINLKKDDRKKDQRIRGTVILPHGLGKDVKVCVFAKDEQAKEAKAAGADVVGGE 78 (208)
T ss_pred CHHHHHHHHHhcc--ccCCCCceEEEEEEeCCCCCccccccceeEECCCCCCCCeEEEEEcChHhHHHHHHcCCCEEcHH
Confidence 3689999998863 45668899999999977653557789999999999999999999999888889999999999999
Q ss_pred HHHhhhhcHHHHHHHhhhcCEEEechhhHhhhhhhhCCCCCCCCCCCceecc--cccHHHHHHHhhccceeEecCccEEE
Q 027855 89 GLKKLNKNKKLVKKLAKKYHAFLASESVIKQIPRLLGPGLNKAGKFPTLVTH--QESLESKVNETKATVKFQLKKVLCMG 166 (217)
Q Consensus 89 ~l~k~~~~~~~~r~l~~~~D~flad~~i~~~l~~~LG~~f~~~~K~P~~v~~--~~~l~~~i~~~~~~~~~~~~~~~~~~ 166 (217)
+|++.+++++++ +|+.+||+||||+++++.+++.||+.|++++|+|++++. ++++.++|++++++++|+.+++++++
T Consensus 79 ~L~~~~~~~~~~-~l~~~~D~fla~~~~~~~~~~~lgk~~~~k~k~P~~~~~t~~~~l~~~i~~~~~~~~~~~~~~~~~~ 157 (208)
T cd00403 79 DLKKKIKNGEAK-KLAKDFDLFLADPRIMMLLPKLLGKVLGPRGKMPNPKTGTVTEDLAKAIEEAKSSVEFRLDKGGCIH 157 (208)
T ss_pred HHHHHhhcchhh-hhhhcCCEEEECHHHHHHHHHHhccccccCCCCCcCCCCCCcccHHHHHHHHHhCeEEEECCCCEEE
Confidence 999999999999 999999999999999999999999999999999999986 68999999999999999999999999
Q ss_pred EEEcCCCCChHHHhccHHHHHHHHHHhcc-ccccceeEEEEEcCCCCceec
Q 027855 167 VAVGNLSMEEKQIFQNVQMSVNFLVSLLK-KNWQNVRCLYLKSTMGPSNRI 216 (217)
Q Consensus 167 v~VG~~~m~~~~i~eNi~a~i~~l~~~~p-~~~~~I~~v~lkst~s~~lpi 216 (217)
++||+++|+++||+|||.++++++.+++| +||.||+++||+||+||+|||
T Consensus 158 v~VG~~~m~~~~l~eNi~~vi~~i~~~~~~~~~~~i~~v~lktt~~~~lpI 208 (208)
T cd00403 158 VPVGKVSMSPEQLVENIEAVINALVKKLPSKKGQNIKSIYLKTTMGPSLPI 208 (208)
T ss_pred EEEeCCCCCHHHHHHHHHHHHHHHHHhCCcccCeEEEEEEEECCCCCCeEC
Confidence 99999999999999999999999999999 899999999999999999997
No 5
>COG0081 RplA Ribosomal protein L1 [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=1e-47 Score=315.67 Aligned_cols=203 Identities=32% Similarity=0.509 Sum_probs=188.9
Q ss_pred CCHHHHHHHHHHHHHHhhhhccCCCCCcEEEEEEEcccCCCC-CCccceeEecCCCCCCCcEEEEEeCcccHHHHHHcCC
Q 027855 4 LQSDALREAVSSIVQYSKETKKRNFTETIELQIGLKNYDPQK-DKRFSGSVKLPHIPRPKMKVCMLGDAQHVEEAEKIGL 82 (217)
Q Consensus 4 ~~~~~i~~Av~~L~~~~~~~~~~~~~e~i~l~i~lk~~~~~k-~~~~~~~i~LPh~~~~~~~Icvf~~~~~~~~a~~~g~ 82 (217)
.+...+.+||+.+++.. .++|+|||+++++| ++++++ ++++|+.+.|||+.++..+||||++++.+++|+++|+
T Consensus 18 ~~~~~i~eai~~~ke~~----~~kF~etVevav~L-~vD~~k~dq~vrg~VvLP~g~gk~vrV~Vfa~g~~~~~A~~AGa 92 (228)
T COG0081 18 NKLYSLEEAVKLLKETS----KRKFDETVEVAVNL-KVDPRKPDQRVRGSVVLPNGTGKTVRVAVFADGEKAEEAKAAGA 92 (228)
T ss_pred hhhhhHHHHHHHHHhcc----ccCcceEEEEEEEc-ccCCCCcccccceeEECCCCCCCccEEEEEcChHhHHHHHHcCC
Confidence 45667888888777765 68899999999999 599977 9999999999999999999999999999999999999
Q ss_pred CeeChHHHHhhhhcHHHHHHHhhhcCEEEechhhHhhhhhhhCCCCCCCCCCCceec--ccccHHHHHHHhhc-cceeEe
Q 027855 83 DYMDVEGLKKLNKNKKLVKKLAKKYHAFLASESVIKQIPRLLGPGLNKAGKFPTLVT--HQESLESKVNETKA-TVKFQL 159 (217)
Q Consensus 83 ~~i~~~~l~k~~~~~~~~r~l~~~~D~flad~~i~~~l~~~LG~~f~~~~K~P~~v~--~~~~l~~~i~~~~~-~~~~~~ 159 (217)
++||.++|.+++++.+ +.+||+|+|++++|+.+ +.||+.|.|+++||.|+. ++.|+.+.|+++++ ++.||.
T Consensus 93 d~Vg~edl~e~ik~~r-----~~~fD~~IAtpdmM~~v-~~LG~vLGPRGlMP~Pk~gTvt~Dv~~av~~~K~g~v~~R~ 166 (228)
T COG0081 93 DYVGGEDLIELIKNGR-----AKDFDVFIATPDMMPLV-GKLGKVLGPRGLMPNPKTGTVTDDVAKAVEELKKGTVEFRA 166 (228)
T ss_pred CEecHHHHHHHHhCcc-----hhcCCEEEECchHHHHH-HHHhhhcCCCCCCCCCCCCCCCcCHHHHHHHHhcCcEEEEE
Confidence 9999999999988874 79999999999999999 788888888888888887 78999999999998 999999
Q ss_pred cCccEEEEEEcCCCCChHHHhccHHHHHHHHHHhcccc--ccceeEEEEEcCCCCceecC
Q 027855 160 KKVLCMGVAVGNLSMEEKQIFQNVQMSVNFLVSLLKKN--WQNVRCLYLKSTMGPSNRIF 217 (217)
Q Consensus 160 ~~~~~~~v~VG~~~m~~~~i~eNi~a~i~~l~~~~p~~--~~~I~~v~lkst~s~~lpiy 217 (217)
++.+++|+.||+.+|+++||.||+.++++.|.+.+|.+ |.+|+++|+||||||++.+|
T Consensus 167 dk~g~ih~~iGk~sf~~e~L~eNi~a~l~~i~~~~p~~~kg~~ik~v~vstTMGP~v~v~ 226 (228)
T COG0081 167 DKAGVIHVPIGKVSFDDEKLAENIEALLNAIVKAKPAGAKGQYIKSVYVSTTMGPGVKVD 226 (228)
T ss_pred CCCceEEEEecCCCCCHHHHHHHHHHHHHHHHHhCcCCcccceEeEEEEecCCCCCEEec
Confidence 99999999999999999999999999999999999986 99999999999999999986
No 6
>CHL00129 rpl1 ribosomal protein L1; Reviewed
Probab=100.00 E-value=1.5e-46 Score=313.94 Aligned_cols=198 Identities=24% Similarity=0.377 Sum_probs=180.9
Q ss_pred HHHHHHHHHHHHHhhhhccCCCCCcEEEEEEEcccCCCC-CCccceeEecCCCCCCCcEEEEEeCcccHHHHHHcCCCee
Q 027855 7 DALREAVSSIVQYSKETKKRNFTETIELQIGLKNYDPQK-DKRFSGSVKLPHIPRPKMKVCMLGDAQHVEEAEKIGLDYM 85 (217)
Q Consensus 7 ~~i~~Av~~L~~~~~~~~~~~~~e~i~l~i~lk~~~~~k-~~~~~~~i~LPh~~~~~~~Icvf~~~~~~~~a~~~g~~~i 85 (217)
..+.+||+.++.. ..++|.|+|+++|+| ++++++ ++++|+.|.|||+.+++.+||||++++.+++|+++||+++
T Consensus 20 y~l~eAi~~~k~~----~~~kF~esvel~i~L-~id~kk~~~~irg~v~LP~~~gk~~kV~Vfa~~~~~~eAk~aGad~v 94 (229)
T CHL00129 20 YSPEEAINLLKET----ATAKFIETAEAHISL-NIDPKYADQQLRTTVTLPKGTGKTIRIAVLTNEEKITEAKNAGADIV 94 (229)
T ss_pred cCHHHHHHHHHHh----CcCCCCccEEEEEEE-CCCCCCCCCceeeEEECCCCCCCCcEEEEECChHhHHHHHHcCCCEe
Confidence 3578898888864 367899999999999 999997 8899999999999999999999999888899999999999
Q ss_pred ChHHHHhhhhcHHHHHHHhhhcCEEEechhhHhhhhhhhCCCCCCCCCCCceec--ccccHHHHHHHhhc-cceeEecCc
Q 027855 86 DVEGLKKLNKNKKLVKKLAKKYHAFLASESVIKQIPRLLGPGLNKAGKFPTLVT--HQESLESKVNETKA-TVKFQLKKV 162 (217)
Q Consensus 86 ~~~~l~k~~~~~~~~r~l~~~~D~flad~~i~~~l~~~LG~~f~~~~K~P~~v~--~~~~l~~~i~~~~~-~~~~~~~~~ 162 (217)
|++||++.++ +++.+||+|||++++|+.|++ ||+.|.|+++||+|.. +++|+.+.|+++++ ++.||+++.
T Consensus 95 g~edLi~~ik------~~~~~fd~~iAt~d~m~~l~k-LgriLGprGlMP~pk~gTvt~di~~~V~~~k~G~v~~r~dk~ 167 (229)
T CHL00129 95 GSDDLIEEIT------KGNLDFDLLIATPDMMPKLAK-LGRVLGPRGLMPSPKSGTVTTDLASAINEFKKGKLEYRADKT 167 (229)
T ss_pred CHHHHHHHHH------cCcccCCEEEECHHHHHHHHH-hcCcccccCCCCCCCCCCccccHHHHHHHHhcCcEEEEecCC
Confidence 9999998654 457899999999999999987 7888888888888776 45999999999997 899999999
Q ss_pred cEEEEEEcCCCCChHHHhccHHHHHHHHHHhcccccc--ceeEEEEEcCCCCceec
Q 027855 163 LCMGVAVGNLSMEEKQIFQNVQMSVNFLVSLLKKNWQ--NVRCLYLKSTMGPSNRI 216 (217)
Q Consensus 163 ~~~~v~VG~~~m~~~~i~eNi~a~i~~l~~~~p~~~~--~I~~v~lkst~s~~lpi 216 (217)
++++++||+++|+++||.||+.+++++|.+..|.+|. +|+++||||||||+++|
T Consensus 168 g~i~~~VG~~~m~~~~l~eNi~a~l~~i~~~~p~~~kg~~ik~v~issTMGp~v~i 223 (229)
T CHL00129 168 GIVHVLFGKSNFTEEDLLENLQAIYESIEQNRPSGVKGKYWKSFYICSTMGPSIQI 223 (229)
T ss_pred cEEEEEEeCCCCCHHHHHHHHHHHHHHHHHhCcccccCceEEEEEEECCCCCCEEe
Confidence 9999999999999999999999999999999998876 99999999999999986
No 7
>PRK05424 rplA 50S ribosomal protein L1; Validated
Probab=100.00 E-value=1e-45 Score=309.56 Aligned_cols=199 Identities=24% Similarity=0.412 Sum_probs=181.6
Q ss_pred HHHHHHHHHHHHHHhhhhccCCCCCcEEEEEEEcccCCCC-CCccceeEecCCCCCCCcEEEEEeCcccHHHHHHcCCCe
Q 027855 6 SDALREAVSSIVQYSKETKKRNFTETIELQIGLKNYDPQK-DKRFSGSVKLPHIPRPKMKVCMLGDAQHVEEAEKIGLDY 84 (217)
Q Consensus 6 ~~~i~~Av~~L~~~~~~~~~~~~~e~i~l~i~lk~~~~~k-~~~~~~~i~LPh~~~~~~~Icvf~~~~~~~~a~~~g~~~ 84 (217)
.-.+.+|++.|++.. .++|.|+|+++|+| +++++| ++++|+.|.|||+++++.+||||++++.+++|+++||++
T Consensus 19 ~y~l~eAi~~lk~~~----~~kF~esvel~v~L-~id~kK~~~~irg~v~LP~~~gk~~kI~Vfa~~~~~~~Ak~aGa~~ 93 (230)
T PRK05424 19 LYSLEEAIALVKETA----TAKFDETVDVAVNL-GVDPRKADQQVRGAVVLPHGTGKTVRVAVFAKGEKAEEAKAAGADI 93 (230)
T ss_pred ccCHHHHHHHHHhhc----cCCCCCcEEEEEEe-CCCCCCCCCeeeEEEECCCCCCCCcEEEEECChHhHHHHHHcCCCE
Confidence 346789999988743 67899999999999 999998 889999999999999999999999988889999999999
Q ss_pred eChHHHHhhhhcHHHHHHHhhhcCEEEechhhHhhhhhhhCCCCCCCCCCCceec--ccccHHHHHHHhhc-cceeEecC
Q 027855 85 MDVEGLKKLNKNKKLVKKLAKKYHAFLASESVIKQIPRLLGPGLNKAGKFPTLVT--HQESLESKVNETKA-TVKFQLKK 161 (217)
Q Consensus 85 i~~~~l~k~~~~~~~~r~l~~~~D~flad~~i~~~l~~~LG~~f~~~~K~P~~v~--~~~~l~~~i~~~~~-~~~~~~~~ 161 (217)
+|++||++.++.+ +.+||+|||++++||.|++ ||+.|.|+++||+|.. +++|+.+.|+++++ ++.|++++
T Consensus 94 vg~eeLi~~ik~~------~~~fd~~iat~~~m~~l~~-Lg~iLGPrGlMP~pk~gTv~~di~~~I~~~k~g~v~~r~~k 166 (230)
T PRK05424 94 VGGEDLIEKIKGG------WLDFDVVIATPDMMGKVGK-LGRILGPRGLMPNPKTGTVTMDVAKAVKEAKAGKVEFRVDK 166 (230)
T ss_pred eCHHHHHHHHhcC------CCcCCEEEECHHHHHHHHH-hccccccccCCCCCCCCCcchhHHHHHHHHhcCcEEEEecC
Confidence 9999999887754 4589999999999999887 7888888888888876 45899999999997 79999999
Q ss_pred ccEEEEEEcCCCCChHHHhccHHHHHHHHHHhccccc--cceeEEEEEcCCCCceec
Q 027855 162 VLCMGVAVGNLSMEEKQIFQNVQMSVNFLVSLLKKNW--QNVRCLYLKSTMGPSNRI 216 (217)
Q Consensus 162 ~~~~~v~VG~~~m~~~~i~eNi~a~i~~l~~~~p~~~--~~I~~v~lkst~s~~lpi 216 (217)
.++++++||+++|+++||.|||.+++++|.+..|.+| .+|+++||+|||||++.|
T Consensus 167 ~g~i~~~IG~~~m~~e~i~eNi~a~l~~i~~~~p~~~kg~~Ik~v~lssTmGp~~~i 223 (230)
T PRK05424 167 AGIIHAPIGKVSFDAEKLKENLKALIDAIKKAKPATAKGTYIKSVSLSSTMGPGVKV 223 (230)
T ss_pred CCEEEEEEeCCCCCHHHHHHHHHHHHHHHHHhCccccCCCEEEEEEEECCCCCCEEe
Confidence 9999999999999999999999999999999999887 899999999999999876
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=1.6e-45 Score=307.91 Aligned_cols=198 Identities=25% Similarity=0.416 Sum_probs=178.4
Q ss_pred HHHHHHHHHHHHHhhhhccCCCCCcEEEEEEEcccCCCC-CCccceeEecCCCCCCCcEEEEEeCcccHHHHHHcCCCee
Q 027855 7 DALREAVSSIVQYSKETKKRNFTETIELQIGLKNYDPQK-DKRFSGSVKLPHIPRPKMKVCMLGDAQHVEEAEKIGLDYM 85 (217)
Q Consensus 7 ~~i~~Av~~L~~~~~~~~~~~~~e~i~l~i~lk~~~~~k-~~~~~~~i~LPh~~~~~~~Icvf~~~~~~~~a~~~g~~~i 85 (217)
-.+.+||+.|+... .++|.|+|+++|+| +++++| ++++++.|.|||+++++.+||||++++.+++|+++||+++
T Consensus 19 y~l~eAi~~lk~~~----~~~f~esvel~i~L-~id~kK~~~~irg~v~LP~~~gk~~kV~Vfa~~~~~~~Ak~aGa~~v 93 (227)
T TIGR01169 19 YSLDEAIALLKETA----TAKFDETVEVAIRL-GIDPRKSDQQVRGTVVLPHGTGKTVRVAVFAKGEKAEEAKAAGADYV 93 (227)
T ss_pred cCHHHHHHHHHhhc----cCCCCCCEEEEEEE-CcCCCcCCCeeeEEEECCCCCCCCcEEEEEcCchhHHHHHHcCCCEe
Confidence 36789999988743 67899999999999 999998 8899999999999999999999999888899999999999
Q ss_pred ChHHHHhhhhcHHHHHHHhhhcCEEEechhhHhhhhhhhCCCCCCCCCCCceec--ccccHHHHHHHhhc-cceeEecCc
Q 027855 86 DVEGLKKLNKNKKLVKKLAKKYHAFLASESVIKQIPRLLGPGLNKAGKFPTLVT--HQESLESKVNETKA-TVKFQLKKV 162 (217)
Q Consensus 86 ~~~~l~k~~~~~~~~r~l~~~~D~flad~~i~~~l~~~LG~~f~~~~K~P~~v~--~~~~l~~~i~~~~~-~~~~~~~~~ 162 (217)
|+++|++.++ +++.+||+|||++++|+.|+ .||+.|.|+++||++.. +++|+.+.|+++++ ++.|++++.
T Consensus 94 g~~eLi~~ik------~~~~~fd~~iat~~~m~~l~-~Lg~iLGPrGlMP~~k~gtv~~di~~~I~~~k~g~v~~r~~k~ 166 (227)
T TIGR01169 94 GSDDLIEKIK------KGWLDFDVVIATPDMMRVVG-KLGRILGPRGLMPNPKTGTVTADVAKAVKNAKKGQVEFRADKA 166 (227)
T ss_pred CHHHHHHHHH------cCCccCCEEEECHHHHHHHH-HhccccccccCCCCCCCCCccccHHHHHHHHHcCcEEEEeCCC
Confidence 9999998654 45789999999999999986 56666666666666665 45899999999997 799999999
Q ss_pred cEEEEEEcCCCCChHHHhccHHHHHHHHHHhccccc--cceeEEEEEcCCCCceec
Q 027855 163 LCMGVAVGNLSMEEKQIFQNVQMSVNFLVSLLKKNW--QNVRCLYLKSTMGPSNRI 216 (217)
Q Consensus 163 ~~~~v~VG~~~m~~~~i~eNi~a~i~~l~~~~p~~~--~~I~~v~lkst~s~~lpi 216 (217)
++++++||+++|+++||.|||.+++++|.++.|.+| .+|++|||||||||++.|
T Consensus 167 g~i~~~VG~~~m~~e~i~eNi~a~l~~i~~~~p~~~kg~~Ik~v~lssTmGp~~~i 222 (227)
T TIGR01169 167 GNIHASIGKVSFDSEKLKENLEALLDAIKKAKPSGAKGQYIKNIALSSTMGPGIKV 222 (227)
T ss_pred CEEEEEEecCCCCHHHHHHHHHHHHHHHHHhCccccCCCEEEEEEEECCCCCCEEe
Confidence 999999999999999999999999999999999877 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=5.3e-46 Score=310.23 Aligned_cols=201 Identities=37% Similarity=0.623 Sum_probs=180.5
Q ss_pred HHHHHHHhhhh----ccCCCCCcEEEEEEEcccCCCCCCcc-ceeEecCCCCC-CCcEEEEEeCcccHHH---------H
Q 027855 13 VSSIVQYSKET----KKRNFTETIELQIGLKNYDPQKDKRF-SGSVKLPHIPR-PKMKVCMLGDAQHVEE---------A 77 (217)
Q Consensus 13 v~~L~~~~~~~----~~~~~~e~i~l~i~lk~~~~~k~~~~-~~~i~LPh~~~-~~~~Icvf~~~~~~~~---------a 77 (217)
|+||++|.++. ...++.++|+|+|++++++.+++.++ ++.|.|||+++ ++.+||||++|++.++ +
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 57888888653 23457789999999987655555677 89999999998 8999999997765333 3
Q ss_pred HHcCCCeeChHHHHhhhhcHHHHHHHhhhcCEEEechhhHhhhhhhhCCCC-CCCCCCCceeccc-ccHHHHHHHhhccc
Q 027855 78 EKIGLDYMDVEGLKKLNKNKKLVKKLAKKYHAFLASESVIKQIPRLLGPGL-NKAGKFPTLVTHQ-ESLESKVNETKATV 155 (217)
Q Consensus 78 ~~~g~~~i~~~~l~k~~~~~~~~r~l~~~~D~flad~~i~~~l~~~LG~~f-~~~~K~P~~v~~~-~~l~~~i~~~~~~~ 155 (217)
.+.|++++|+++|++.+++++++|+|+.+||+||||+||++.||+.||+.| .+++|+|++|+++ +++.+.|+++.+++
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 567999999999999999999999999999999999999999999999988 6788999998874 89999999999988
Q ss_pred eeEec-CccEEEEEEcCCCCChHHHhccHHHHHHHHHHh-ccccccceeEEEEEcCCCCc
Q 027855 156 KFQLK-KVLCMGVAVGNLSMEEKQIFQNVQMSVNFLVSL-LKKNWQNVRCLYLKSTMGPS 213 (217)
Q Consensus 156 ~~~~~-~~~~~~v~VG~~~m~~~~i~eNi~a~i~~l~~~-~p~~~~~I~~v~lkst~s~~ 213 (217)
.|+.. +|++++++||+++|+++||+|||.++++++.++ +|+||.||++|||+||+|||
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 88887 999999999999999999999999999999999 99999999999999999986
No 10
>KOG1570 consensus 60S ribosomal protein L10A [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=2.2e-39 Score=260.42 Aligned_cols=217 Identities=69% Similarity=1.075 Sum_probs=209.0
Q ss_pred CCCCCHHHHHHHHHHHHHHhhhhccCCCCCcEEEEEEEcccCCCCCCccceeEecCCCCCCCcEEEEEeCcccHHHHHHc
Q 027855 1 MSKLQSDALREAVSSIVQYSKETKKRNFTETIELQIGLKNYDPQKDKRFSGSVKLPHIPRPKMKVCMLGDAQHVEEAEKI 80 (217)
Q Consensus 1 ~s~~~~~~i~~Av~~L~~~~~~~~~~~~~e~i~l~i~lk~~~~~k~~~~~~~i~LPh~~~~~~~Icvf~~~~~~~~a~~~ 80 (217)
||++.++++..||..+..+.++.+.++|.|+|++|++|++++|+|+.++.+.+.|||.+++..++|+|.|..+.++|.+.
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 68899999999999999998777788999999999999999999999999999999999999999999999999999999
Q ss_pred CCCeeChHHHHhhhhcHHHHHHHhhhcCEEEechhhHhhhhhhhCCCCCCCCCCCceecccccHHHHHHHhhccceeEec
Q 027855 81 GLDYMDVEGLKKLNKNKKLVKKLAKKYHAFLASESVIKQIPRLLGPGLNKAGKFPTLVTHQESLESKVNETKATVKFQLK 160 (217)
Q Consensus 81 g~~~i~~~~l~k~~~~~~~~r~l~~~~D~flad~~i~~~l~~~LG~~f~~~~K~P~~v~~~~~l~~~i~~~~~~~~~~~~ 160 (217)
|++.+..++|++..++.+.+++++..||.|||..+++.+||++|||++-+.+|+|+++...+++.+.+++.+.+..|++.
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 99999999999999999999999999999999999999999999999999999999988789999999999999999999
Q ss_pred CccEEEEEEcCCCCChHHHhccHHHHHHHHHHhccccccceeEEEEEcCCCCceecC
Q 027855 161 KVLCMGVAVGNLSMEEKQIFQNVQMSVNFLVSLLKKNWQNVRCLYLKSTMGPSNRIF 217 (217)
Q Consensus 161 ~~~~~~v~VG~~~m~~~~i~eNi~a~i~~l~~~~p~~~~~I~~v~lkst~s~~lpiy 217 (217)
+--|.+|.||++.|+++||++||.-.++++++.+.++|.|+++++|+||||+.-.+|
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 999999999999999999999999999999999999999999999999999988877
No 11
>KOG1685 consensus Uncharacterized conserved protein [Function unknown]
Probab=100.00 E-value=2.7e-39 Score=279.40 Aligned_cols=213 Identities=23% Similarity=0.379 Sum_probs=174.7
Q ss_pred CCCCCHHHHHHHHHHHHHHhhhh-cc--CCC------CCcEEEEEEEcccCCCCCCccceeEecCCCC----C--CCcEE
Q 027855 1 MSKLQSDALREAVSSIVQYSKET-KK--RNF------TETIELQIGLKNYDPQKDKRFSGSVKLPHIP----R--PKMKV 65 (217)
Q Consensus 1 ~s~~~~~~i~~Av~~L~~~~~~~-~~--~~~------~e~i~l~i~lk~~~~~k~~~~~~~i~LPh~~----~--~~~~I 65 (217)
++++.+..++.|+.++.++..+. +. ... ...++++.++ +......+..|++||++ . .+.+|
T Consensus 16 ~~~v~~~~~e~~~k~~~~~~~~~~k~~~~~~~~~~k~~~~~~~~k~~----~~~~~~n~~~IP~k~~~~~~~~~~~~~~v 91 (343)
T KOG1685|consen 16 RESVSPKNVESAVKALDKEREKKSKAENPQLLEALKNVYKVVLQKNT----PQKVGTNKLKIPLKHLLKKLLLKHDDTDV 91 (343)
T ss_pred ccccCchhhhHHHhhhhhhhHHHHHhhhhhhhhhhhhhHHHHHHHhc----ccccccccccccCcchhcccccCCCCCce
Confidence 35677788888888888775332 11 111 1234444444 22222223345666653 2 58899
Q ss_pred EEEeCccc-----H----HHHHHcCCC----eeChHHHHhhhhcHHHHHHHhhhcCEEEechhhHhhhhhhhCCCCCCCC
Q 027855 66 CMLGDAQH-----V----EEAEKIGLD----YMDVEGLKKLNKNKKLVKKLAKKYHAFLASESVIKQIPRLLGPGLNKAG 132 (217)
Q Consensus 66 cvf~~~~~-----~----~~a~~~g~~----~i~~~~l~k~~~~~~~~r~l~~~~D~flad~~i~~~l~~~LG~~f~~~~ 132 (217)
|||++|.+ . +...++|++ +|++.+|+..++.||++|+|+++||+||||.||+|+||++||+.|++++
T Consensus 92 cLIvkD~~~~~~t~~~~~d~l~~~gi~~itkVI~~~~LK~~yksyeaKr~L~~sfDlflaD~RV~~~LP~llGK~f~q~k 171 (343)
T KOG1685|consen 92 CLIVKDLQQSYLTEEDAEDLLESEGIKSITKVISLSKLKRDYKSYEAKRKLLSSFDLFLADDRVIPLLPKLLGKEFYQKK 171 (343)
T ss_pred EEEecCchhccccHHHHHHHHHHcCCccceeeeehHHHHHHHHHHHHHHHHHhhccEEEEcchhHhHHHHHhhhhhcccc
Confidence 99998743 1 334577887 7999999999999999999999999999999999999999999999999
Q ss_pred CCCceeccc-cc--HHHHHHHhhccceeEecCccEEEEEEcCCCCChHHHhccHHHHHHHHHHhccccccceeEEEEEcC
Q 027855 133 KFPTLVTHQ-ES--LESKVNETKATVKFQLKKVLCMGVAVGNLSMEEKQIFQNVQMSVNFLVSLLKKNWQNVRCLYLKST 209 (217)
Q Consensus 133 K~P~~v~~~-~~--l~~~i~~~~~~~~~~~~~~~~~~v~VG~~~m~~~~i~eNi~a~i~~l~~~~p~~~~~I~~v~lkst 209 (217)
|.|+++++. .+ |.++|++++++++|++..|.|+.++||+++|+.+||.|||.++++.+...+|+||.+|+++||||.
T Consensus 172 k~Pv~i~l~k~~~~l~~qi~~a~~~t~~~~~~g~~~~i~vg~l~~~~~~l~ENv~~vlk~l~e~~P~~~~~Irsl~lKt~ 251 (343)
T KOG1685|consen 172 KVPVSIRLSKKNELLKQQIENACGSTYFRLRKGTSSAIKVGHLGNTSEELAENVVAVLKGLSEILPGGWKNIRSLHLKTS 251 (343)
T ss_pred cCceEEEecccchHHHHHHHHHhhhheeeccCCceeEEEeccccccHHHHHHHHHHHHHHHHHHccchHhHhHHHhhhcc
Confidence 999999974 34 899999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCceecC
Q 027855 210 MGPSNRIF 217 (217)
Q Consensus 210 ~s~~lpiy 217 (217)
.|++||||
T Consensus 252 ~s~aLPly 259 (343)
T KOG1685|consen 252 RSPALPLY 259 (343)
T ss_pred CCccccee
Confidence 99999999
No 12
>KOG1569 consensus 50S ribosomal protein L1 [Translation, ribosomal structure and biogenesis]
Probab=99.97 E-value=1.6e-30 Score=219.53 Aligned_cols=200 Identities=23% Similarity=0.285 Sum_probs=163.7
Q ss_pred HHHHHHHHHHHHhhhhccCCCCCcEEEEEEEcccCCCC----CCccceeEecCCCCCC--CcEEEEEeCc-ccHHHHHHc
Q 027855 8 ALREAVSSIVQYSKETKKRNFTETIELQIGLKNYDPQK----DKRFSGSVKLPHIPRP--KMKVCMLGDA-QHVEEAEKI 80 (217)
Q Consensus 8 ~i~~Av~~L~~~~~~~~~~~~~e~i~l~i~lk~~~~~k----~~~~~~~i~LPh~~~~--~~~Icvf~~~-~~~~~a~~~ 80 (217)
.+.+|+...+++.--.-.....+++++.|.+ ++...+ ..++.+.+.+|||++. ..+|+||++| ...++|+++
T Consensus 91 ~vq~a~~~~ke~~~~sa~~~pk~~~~l~i~l-~~~a~~~~k~~~~~~~~v~vP~Pf~~ge~r~IavFtn~~~kveeArEa 169 (323)
T KOG1569|consen 91 EVQKAVHLHKELQILSAYNVPKQPVNLRIEL-NMLAEKETKGVAPLQGSVTVPHPFAHGEIRKIAVFTNDASKVEEAREA 169 (323)
T ss_pred hHHHHHHHHHHhccchhhhCCCCceeeeEEe-eeeeeeeccccCCCceeEeccccCCCCceEEEEEecCChHHHHHHHhc
Confidence 4556666666653111123455788888888 665543 4567789999999854 6679999977 567899999
Q ss_pred CCCeeChHHHHhhhhcHHHHHHHhhhcCEEEechhhHhhh---hhhhCCCCCCCCCCCceecccccHHHHHHHhhcc--c
Q 027855 81 GLDYMDVEGLKKLNKNKKLVKKLAKKYHAFLASESVIKQI---PRLLGPGLNKAGKFPTLVTHQESLESKVNETKAT--V 155 (217)
Q Consensus 81 g~~~i~~~~l~k~~~~~~~~r~l~~~~D~flad~~i~~~l---~~~LG~~f~~~~K~P~~v~~~~~l~~~i~~~~~~--~ 155 (217)
|+.++|+.+|++++++++ +.-+||+++|+++|++.| .++||+. ||+.|.++ +++|+.++|++++++ +
T Consensus 170 GA~l~GG~dLIkkI~~Ge----i~~Dyd~~vA~Pdim~~l~~Lr~iL~~r-~Pn~k~gt---vg~nipemieeFk~G~~i 241 (323)
T KOG1569|consen 170 GAALAGGTDLIKKIKSGE----IVADYDFYVAHPDIMPELNRLRKILGPR-FPNPKRGT---VGRNIPEMIEEFKNGHEI 241 (323)
T ss_pred cccccccHHHHHHhhcCe----EEEeeceeeecchHHHHHHHHHHHhccc-CCCcccCc---cccchHHHHHHhhCCccc
Confidence 999999999999999886 456699999999999984 6677776 66767776 689999999999997 7
Q ss_pred eeEecCccEEEEEEcCCCCChHHHhccHHHHHHHHHHhcccc-ccceeEEEEEcCCCCceec
Q 027855 156 KFQLKKVLCMGVAVGNLSMEEKQIFQNVQMSVNFLVSLLKKN-WQNVRCLYLKSTMGPSNRI 216 (217)
Q Consensus 156 ~~~~~~~~~~~v~VG~~~m~~~~i~eNi~a~i~~l~~~~p~~-~~~I~~v~lkst~s~~lpi 216 (217)
.|+....+.++++||+++|+.+||.+||.+++.+++++.|+. +.++.+.+|+|++|+++-|
T Consensus 242 ~~d~~~~~~~~~~vGkl~mt~e~i~~Ni~a~i~av~t~rp~~~G~fv~ra~L~Ss~g~~i~l 303 (323)
T KOG1569|consen 242 KFDEERENILQIKVGKLDMTSEQILANIQAVIAAVCTHRPKALGPFVVRALLRSSPGEGILL 303 (323)
T ss_pred ccccccCceeeeeeeeecCCHHHHHHHHHHHHHHHHhcCCcccCceeeeeEeecCCCCceeE
Confidence 888777788899999999999999999999999999999874 8999999999999998754
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=1.2e-25 Score=174.95 Aligned_cols=134 Identities=22% Similarity=0.289 Sum_probs=109.9
Q ss_pred HHHHHHHHHHHhhhhccCCCCCcEEEEEEEcccCCCCCCccceeEecCCCCCCCcEEEEEeCccc-HHHHHHcCCCeeCh
Q 027855 9 LREAVSSIVQYSKETKKRNFTETIELQIGLKNYDPQKDKRFSGSVKLPHIPRPKMKVCMLGDAQH-VEEAEKIGLDYMDV 87 (217)
Q Consensus 9 i~~Av~~L~~~~~~~~~~~~~e~i~l~i~lk~~~~~k~~~~~~~i~LPh~~~~~~~Icvf~~~~~-~~~a~~~g~~~i~~ 87 (217)
+.+|++.|+++... ..+|.|+|+++|+| +++..+ .++|+.|.|||+++++.+||||++++. .++|+++||+++|+
T Consensus 3 i~eA~~~lk~~~~~--~~~~~etvel~i~L-~~~~~~-~~irg~v~LP~~~~k~~kV~Vf~~~~~~~~~Ak~aGa~~vg~ 78 (141)
T TIGR01170 3 VIKAFVYLKTKSIS--MYVPKQSVNLDIGL-LMELGK-ESVQGMFSFPHPFGKEPKIAVFTKGASEVEEAREAGADYVGG 78 (141)
T ss_pred HHHHHHHHHHhccc--CCCCCceEEEEEEE-CCCCCC-CCceEEEECCCCCCCCCEEEEECCChHHHHHHHHcCCCEeCH
Confidence 67899999887521 13799999999999 776654 349999999999999999999998776 67899999999999
Q ss_pred HHHHhhhhcHHHHHHHhhh-cCEEEechhhHhhhhhhhCCCCCCCCCCCceec--ccccHHHHHHHhhc
Q 027855 88 EGLKKLNKNKKLVKKLAKK-YHAFLASESVIKQIPRLLGPGLNKAGKFPTLVT--HQESLESKVNETKA 153 (217)
Q Consensus 88 ~~l~k~~~~~~~~r~l~~~-~D~flad~~i~~~l~~~LG~~f~~~~K~P~~v~--~~~~l~~~i~~~~~ 153 (217)
++|++.+++.+ .. ||+|||++++|+.|+ .||+.|.|+++||++.. +++|+.+.|+++++
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 99988877653 44 999999999999976 56666666666666665 45899999999875
No 14
>PF13003 MRL1: Ribosomal protein L1; InterPro: IPR024663 This entry represents a ribosomal protein L1 domain found mainly in chordates.
Probab=96.74 E-value=0.0042 Score=47.52 Aligned_cols=60 Identities=15% Similarity=0.190 Sum_probs=44.9
Q ss_pred HHHHHHHHHHHHHhhhhccCCCCCcEEEEEEEcccCCCC---CCccceeEecCCCCC-CCcEEEEE
Q 027855 7 DALREAVSSIVQYSKETKKRNFTETIELQIGLKNYDPQK---DKRFSGSVKLPHIPR-PKMKVCML 68 (217)
Q Consensus 7 ~~i~~Av~~L~~~~~~~~~~~~~e~i~l~i~lk~~~~~k---~~~~~~~i~LPh~~~-~~~~Icvf 68 (217)
..+++||..|+++. ..+-.+-.+.|++.++| +|...| -.||...|.||||+- +..+++||
T Consensus 70 yeve~Ai~mLKkfQ-~lDfT~pkQ~VYldL~L-dm~l~KKkkVePF~s~i~lPypF~~eiNKv~VF 133 (133)
T PF13003_consen 70 YEVEKAIDMLKKFQ-ILDFTSPKQPVYLDLTL-DMKLEKKKKVEPFASVILLPYPFTSEINKVLVF 133 (133)
T ss_pred HHHHHHHHHHHhcc-cccCCCCCCcEEEeeee-hhhhccccccCCCccceecccccccccceeeeC
Confidence 46899999999986 22233345799999999 775543 558889999999974 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=81.48 E-value=1.1 Score=34.88 Aligned_cols=23 Identities=43% Similarity=0.589 Sum_probs=20.3
Q ss_pred HhhhhhhhCC-CCCCCCCCCceec
Q 027855 117 IKQIPRLLGP-GLNKAGKFPTLVT 139 (217)
Q Consensus 117 ~~~l~~~LG~-~f~~~~K~P~~v~ 139 (217)
++.|+++||| ++||+.|.||+..
T Consensus 106 l~~Lg~iLGprGlMP~~k~gTv~~ 129 (141)
T TIGR01170 106 LAQLRRLLGPKGLMPSPKRGTVGD 129 (141)
T ss_pred HHHhhcccccCcCCCCCCCCCccc
Confidence 4588999999 9999999999765
No 16
>CHL00129 rpl1 ribosomal protein L1; Reviewed
Probab=71.67 E-value=2.5 Score=35.69 Aligned_cols=22 Identities=36% Similarity=0.610 Sum_probs=18.9
Q ss_pred HhhhhhhhCC-CCCCCCCCCcee
Q 027855 117 IKQIPRLLGP-GLNKAGKFPTLV 138 (217)
Q Consensus 117 ~~~l~~~LG~-~f~~~~K~P~~v 138 (217)
++.|+++||| ++||+.|.||..
T Consensus 123 l~kLgriLGprGlMP~pk~gTvt 145 (229)
T CHL00129 123 LAKLGRVLGPRGLMPSPKSGTVT 145 (229)
T ss_pred HHHhcCcccccCCCCCCCCCCcc
Confidence 3558999999 999999999865
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=70.02 E-value=2.7 Score=35.34 Aligned_cols=22 Identities=36% Similarity=0.607 Sum_probs=19.1
Q ss_pred HhhhhhhhCC-CCCCCCCCCcee
Q 027855 117 IKQIPRLLGP-GLNKAGKFPTLV 138 (217)
Q Consensus 117 ~~~l~~~LG~-~f~~~~K~P~~v 138 (217)
++.|+++||| ++||+.|.||+.
T Consensus 122 l~~Lg~iLGPrGlMP~~k~gtv~ 144 (227)
T TIGR01169 122 VGKLGRILGPRGLMPNPKTGTVT 144 (227)
T ss_pred HHHhccccccccCCCCCCCCCcc
Confidence 4578999999 999999999855
No 18
>COG0081 RplA Ribosomal protein L1 [Translation, ribosomal structure and biogenesis]
Probab=69.11 E-value=3.5 Score=34.72 Aligned_cols=21 Identities=33% Similarity=0.539 Sum_probs=17.8
Q ss_pred hhhhhhhCC-CCCCCCCCCcee
Q 027855 118 KQIPRLLGP-GLNKAGKFPTLV 138 (217)
Q Consensus 118 ~~l~~~LG~-~f~~~~K~P~~v 138 (217)
..|+++||| ++||+.|.||+=
T Consensus 126 ~~LG~vLGPRGlMP~Pk~gTvt 147 (228)
T COG0081 126 GKLGKVLGPRGLMPNPKTGTVT 147 (228)
T ss_pred HHHhhhcCCCCCCCCCCCCCCC
Confidence 778999999 999999996543
No 19
>PRK05424 rplA 50S ribosomal protein L1; Validated
Probab=69.09 E-value=2.9 Score=35.26 Aligned_cols=22 Identities=36% Similarity=0.607 Sum_probs=18.6
Q ss_pred HhhhhhhhCC-CCCCCCCCCcee
Q 027855 117 IKQIPRLLGP-GLNKAGKFPTLV 138 (217)
Q Consensus 117 ~~~l~~~LG~-~f~~~~K~P~~v 138 (217)
++.|+++||| ++||+.|.||..
T Consensus 123 l~~Lg~iLGPrGlMP~pk~gTv~ 145 (230)
T PRK05424 123 VGKLGRILGPRGLMPNPKTGTVT 145 (230)
T ss_pred HHHhccccccccCCCCCCCCCcc
Confidence 3458999999 999999999854
No 20
>PRK02228 V-type ATP synthase subunit F; Provisional
Probab=61.53 E-value=25 Score=25.53 Aligned_cols=85 Identities=16% Similarity=0.266 Sum_probs=53.7
Q ss_pred EEEEEeCcccHHHHHHcCCC--e-eCh-HHHHhhhhcHHHHHHHhhhcCEEEechhhHhhhhhhhCCCCCCCCCCCceec
Q 027855 64 KVCMLGDAQHVEEAEKIGLD--Y-MDV-EGLKKLNKNKKLVKKLAKKYHAFLASESVIKQIPRLLGPGLNKAGKFPTLVT 139 (217)
Q Consensus 64 ~Icvf~~~~~~~~a~~~g~~--~-i~~-~~l~k~~~~~~~~r~l~~~~D~flad~~i~~~l~~~LG~~f~~~~K~P~~v~ 139 (217)
+|+|+.|.+..--.+-+|++ + +.. +++.+.++..- -..+|.+++.+.++...++..+-. .+.+...|..+.
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 68899985555445667886 2 333 44554433220 046799999999998888775542 344678887665
Q ss_pred c-----cccHHHHHHHhhc
Q 027855 140 H-----QESLESKVNETKA 153 (217)
Q Consensus 140 ~-----~~~l~~~i~~~~~ 153 (217)
. ++.+.+.++++.+
T Consensus 77 IP~~~~~~~i~~~v~raIG 95 (100)
T PRK02228 77 LGGGGGSGGLREKIKRAIG 95 (100)
T ss_pred ECCCccchHHHHHHHHHhC
Confidence 3 2356666666654
No 21
>PRK01395 V-type ATP synthase subunit F; Provisional
Probab=57.38 E-value=45 Score=24.43 Aligned_cols=70 Identities=16% Similarity=0.337 Sum_probs=46.1
Q ss_pred cEEEEEeCcccHHHHHHcCCCe---eChHHHHhhhhcHHHHHHHhhhcCEEEechhhHhhhhhhhCCCCCCCCCCCceec
Q 027855 63 MKVCMLGDAQHVEEAEKIGLDY---MDVEGLKKLNKNKKLVKKLAKKYHAFLASESVIKQIPRLLGPGLNKAGKFPTLVT 139 (217)
Q Consensus 63 ~~Icvf~~~~~~~~a~~~g~~~---i~~~~l~k~~~~~~~~r~l~~~~D~flad~~i~~~l~~~LG~~f~~~~K~P~~v~ 139 (217)
.+|+|+.|.+..-=.+-+|++. .+.+++.+.+..- ...+|.+++.+.++...++..+-. +++...|..+.
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 4799999855544455678873 2345555443321 146799999999999999886643 24557777664
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=48.01 E-value=76 Score=22.67 Aligned_cols=53 Identities=17% Similarity=0.169 Sum_probs=35.2
Q ss_pred CcEEEEEeCcc-c--------HHHHHHcCCCe----eChHHHHhhhhcHHHHHHHhhhcCEEEechhhHhhhhhhh
Q 027855 62 KMKVCMLGDAQ-H--------VEEAEKIGLDY----MDVEGLKKLNKNKKLVKKLAKKYHAFLASESVIKQIPRLL 124 (217)
Q Consensus 62 ~~~Icvf~~~~-~--------~~~a~~~g~~~----i~~~~l~k~~~~~~~~r~l~~~~D~flad~~i~~~l~~~L 124 (217)
..+|+++|..- . .+.+++.|.++ .+..++... ..+||++|..|.+...+..+-
T Consensus 3 ~~~ILl~C~~G~sSS~l~~k~~~~~~~~gi~~~v~a~~~~~~~~~----------~~~~Dvill~pqi~~~~~~i~ 68 (95)
T TIGR00853 3 ETNILLLCAAGMSTSLLVNKMNKAAEEYGVPVKIAAGSYGAAGEK----------LDDADVVLLAPQVAYMLPDLK 68 (95)
T ss_pred ccEEEEECCCchhHHHHHHHHHHHHHHCCCcEEEEEecHHHHHhh----------cCCCCEEEECchHHHHHHHHH
Confidence 46888888531 1 35677788863 455555432 467999999999976655543
No 23
>PRK01189 V-type ATP synthase subunit F; Provisional
Probab=37.44 E-value=1.2e+02 Score=22.28 Aligned_cols=82 Identities=18% Similarity=0.213 Sum_probs=50.1
Q ss_pred EEEEEeCcccHHHHHHcCCC-eeC--hH-HHHhhhhcHHHHHHH-hhhcCEEEechhhHhhhh-hhhCCCCCCCCCCCce
Q 027855 64 KVCMLGDAQHVEEAEKIGLD-YMD--VE-GLKKLNKNKKLVKKL-AKKYHAFLASESVIKQIP-RLLGPGLNKAGKFPTL 137 (217)
Q Consensus 64 ~Icvf~~~~~~~~a~~~g~~-~i~--~~-~l~k~~~~~~~~r~l-~~~~D~flad~~i~~~l~-~~LG~~f~~~~K~P~~ 137 (217)
+|+|+.|.+..-=.+-+|++ +.. .+ +..+. .+.| ..+|-+++.+.++...+| ..+- -+++...|..
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 68888876554345567985 432 22 22222 2233 356999999999999998 4442 3446788877
Q ss_pred ec--c-c----ccHHHHHHHhhc
Q 027855 138 VT--H-Q----ESLESKVNETKA 153 (217)
Q Consensus 138 v~--~-~----~~l~~~i~~~~~ 153 (217)
|- . + +.+.+.++++.+
T Consensus 76 I~Ipipg~~~~~~i~~~ik~aiG 98 (104)
T PRK01189 76 VFIPLPGISEEESIEEMAKRILG 98 (104)
T ss_pred EEEeCCCCccchhHHHHHHHHhc
Confidence 72 1 1 356666666554
No 24
>COG1436 NtpG Archaeal/vacuolar-type H+-ATPase subunit F [Energy production and conversion]
Probab=33.65 E-value=88 Score=23.01 Aligned_cols=85 Identities=19% Similarity=0.301 Sum_probs=52.1
Q ss_pred cEEEEEeCcccHHHHHHcCCCe---eChH--HHHhhhhcHHHHHHHhhhcCEEEechhhHhhhhhhhCCCCCCCCCCCce
Q 027855 63 MKVCMLGDAQHVEEAEKIGLDY---MDVE--GLKKLNKNKKLVKKLAKKYHAFLASESVIKQIPRLLGPGLNKAGKFPTL 137 (217)
Q Consensus 63 ~~Icvf~~~~~~~~a~~~g~~~---i~~~--~l~k~~~~~~~~r~l~~~~D~flad~~i~~~l~~~LG~~f~~~~K~P~~ 137 (217)
.+||||.|.+-.---+=+|+.. +... ++.+...... ..+|++++.+.+++..++..+-. +...+-.|+.
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 5789999876543334457652 4433 3454443332 23799999999999998876654 2223446766
Q ss_pred ecc-------cccHHHHHHHhhc
Q 027855 138 VTH-------QESLESKVNETKA 153 (217)
Q Consensus 138 v~~-------~~~l~~~i~~~~~ 153 (217)
+.+ .+.+.+.|+++.+
T Consensus 77 v~IPs~~~~~~~~~~~~I~k~vG 99 (104)
T COG1436 77 VEIPSPGKEEEEPLRELIRRAVG 99 (104)
T ss_pred EEeCCCCCCccchHHHHHHHHHh
Confidence 542 1457777776654
No 25
>COG4844 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=32.45 E-value=27 Score=23.75 Aligned_cols=17 Identities=6% Similarity=0.143 Sum_probs=13.9
Q ss_pred CCChHHHhccHHHHHHH
Q 027855 173 SMEEKQIFQNVQMSVNF 189 (217)
Q Consensus 173 ~m~~~~i~eNi~a~i~~ 189 (217)
+-+++||+|||-+.++.
T Consensus 58 Get~eeLv~NIY~~i~E 74 (78)
T COG4844 58 GETPEELVENIYTFIEE 74 (78)
T ss_pred CCCHHHHHHHHHHHHhc
Confidence 46899999999888763
No 26
>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=30.63 E-value=42 Score=27.73 Aligned_cols=45 Identities=9% Similarity=0.092 Sum_probs=36.2
Q ss_pred cCCCCChHHHhccHHHHHHHHHHhccccccceeEEEEEcCCCCce
Q 027855 170 GNLSMEEKQIFQNVQMSVNFLVSLLKKNWQNVRCLYLKSTMGPSN 214 (217)
Q Consensus 170 G~~~m~~~~i~eNi~a~i~~l~~~~p~~~~~I~~v~lkst~s~~l 214 (217)
|...++++++.+-+..++..+.+..+.....|.+|.++++++--+
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 556689999999999999999998866678999999998875433
No 27
>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=30.00 E-value=54 Score=25.79 Aligned_cols=46 Identities=13% Similarity=0.273 Sum_probs=31.9
Q ss_pred cEEEEEEcCCCCC--hHHHhccHHHHHHHHHHhccccccceeEEEEEcCCC
Q 027855 163 LCMGVAVGNLSME--EKQIFQNVQMSVNFLVSLLKKNWQNVRCLYLKSTMG 211 (217)
Q Consensus 163 ~~~~v~VG~~~m~--~~~i~eNi~a~i~~l~~~~p~~~~~I~~v~lkst~s 211 (217)
--+.|+||+.-.+ .++..++|.++++.+. |-+...-...|+++..+
T Consensus 67 veL~V~VGrI~le~~~~~~i~~I~eiC~e~~---pF~y~i~~g~f~r~~~T 114 (150)
T TIGR03260 67 VELRVQVGRIILELEDEDIVEEIEEICKEML---PFGYEVRVGKFLRTKPT 114 (150)
T ss_pred EEEEEEEeEEEEEecCHHHHHHHHHHHHhhC---CCceEeeeeeEeecCCc
Confidence 4678999999877 9999999998888764 43333333346666543
No 28
>KOG2219 consensus Uncharacterized conserved protein [Function unknown]
Probab=29.76 E-value=69 Score=31.26 Aligned_cols=84 Identities=15% Similarity=0.238 Sum_probs=56.1
Q ss_pred hhcCEEEechhhHhhhhhhhCCCCCCCCCCCceeccc--ccHHHHHHHhhc--cceeEecCccEEEEEEcCCCCChHHHh
Q 027855 105 KKYHAFLASESVIKQIPRLLGPGLNKAGKFPTLVTHQ--ESLESKVNETKA--TVKFQLKKVLCMGVAVGNLSMEEKQIF 180 (217)
Q Consensus 105 ~~~D~flad~~i~~~l~~~LG~~f~~~~K~P~~v~~~--~~l~~~i~~~~~--~~~~~~~~~~~~~v~VG~~~m~~~~i~ 180 (217)
.-||+|+ ...|+...-++|. .|.+.+|++. .-+-=.+++++. +.||-+++.-.-++=+-+.+|+.|||.
T Consensus 64 svFdFFl-Ekqml~yFl~Ilr------q~st~~v~VQLLQTlnIlfeNirhEtslYyLlSNnyVNsiI~hkFDfq~eEim 136 (864)
T KOG2219|consen 64 SVFDFFL-EKQMLGYFLRILR------QKSTVTVCVQLLQTLNILFENIRHETSLYYLLSNNYVNSIIVHKFDFQDEEIM 136 (864)
T ss_pred HHHHHHH-HHHHHHHHHHHHh------hcCCceEeHHHHHHHHHHHHhccccceeeeeecccceeeeEEEeecCCcHHHH
Confidence 4477776 4555555556663 3444555542 334445777776 777777666555677789999999999
Q ss_pred ccHHHHHHHHHHhcc
Q 027855 181 QNVQMSVNFLVSLLK 195 (217)
Q Consensus 181 eNi~a~i~~l~~~~p 195 (217)
.=-..++.++.-++.
T Consensus 137 aYYISFLktlS~KLN 151 (864)
T KOG2219|consen 137 AYYISFLKTLSGKLN 151 (864)
T ss_pred HHHHHHHHHhhcccC
Confidence 888888888765553
No 29
>KOG0780 consensus Signal recognition particle, subunit Srp54 [Intracellular trafficking, secretion, and vesicular transport]
Probab=27.73 E-value=69 Score=29.57 Aligned_cols=54 Identities=13% Similarity=0.257 Sum_probs=32.4
Q ss_pred CCCcEEEEEeCc-c-------cHHHHHHcCCCeeCh-HHHH--hhhhcHHHHHHH-hhhcCEEEechh
Q 027855 60 RPKMKVCMLGDA-Q-------HVEEAEKIGLDYMDV-EGLK--KLNKNKKLVKKL-AKKYHAFLASES 115 (217)
Q Consensus 60 ~~~~~Icvf~~~-~-------~~~~a~~~g~~~i~~-~~l~--k~~~~~~~~r~l-~~~~D~flad~~ 115 (217)
.+..++|++|-| - ..+.|.++++++.|. .+.. +..... ..+. ...||++|+|.+
T Consensus 127 kkG~K~~LvcaDTFRagAfDQLkqnA~k~~iP~ygsyte~dpv~ia~eg--v~~fKke~fdvIIvDTS 192 (483)
T KOG0780|consen 127 KKGYKVALVCADTFRAGAFDQLKQNATKARVPFYGSYTEADPVKIASEG--VDRFKKENFDVIIVDTS 192 (483)
T ss_pred hcCCceeEEeecccccchHHHHHHHhHhhCCeeEecccccchHHHHHHH--HHHHHhcCCcEEEEeCC
Confidence 468899999943 1 245688889997652 3322 221111 1111 467999999965
No 30
>KOG3189 consensus Phosphomannomutase [Lipid transport and metabolism]
Probab=26.34 E-value=21 Score=29.83 Aligned_cols=33 Identities=6% Similarity=0.241 Sum_probs=23.9
Q ss_pred CCeeChHHHHhhhhcHHHHHHHhhhcCEEEechhh
Q 027855 82 LDYMDVEGLKKLNKNKKLVKKLAKKYHAFLASESV 116 (217)
Q Consensus 82 ~~~i~~~~l~k~~~~~~~~r~l~~~~D~flad~~i 116 (217)
+-+||+++|.+...+. =......||+.++...+
T Consensus 46 ig~VggsDl~k~~eql--G~~Vl~~fDY~F~ENGl 78 (252)
T KOG3189|consen 46 IGFVGGSDLSKQQEQL--GDNVLEEFDYVFSENGL 78 (252)
T ss_pred EEEeecHHHHHHHHHh--chhHHhhhcccccCCCe
Confidence 3479999999876543 13457899999987554
No 31
>PRK04203 rpl1P 50S ribosomal protein L1P; Reviewed
Probab=25.70 E-value=55 Score=27.14 Aligned_cols=18 Identities=28% Similarity=0.399 Sum_probs=12.1
Q ss_pred hhhhhhCC-CCCCCCCCCc
Q 027855 119 QIPRLLGP-GLNKAGKFPT 136 (217)
Q Consensus 119 ~l~~~LG~-~f~~~~K~P~ 136 (217)
.|+++||+ ++||..+.++
T Consensus 120 ~LGk~lgprgkmP~p~~~t 138 (215)
T PRK04203 120 YLGPVLGPRGKMPTPLPPN 138 (215)
T ss_pred HHhhhcCcCCCCCCCcCCC
Confidence 36777777 7777766654
No 32
>PF14572 Pribosyl_synth: Phosphoribosyl synthetase-associated domain; PDB: 2H07_B 2H06_B 3S5J_B 2HCR_A 3EFH_A 2H08_A 1DKR_B 1DKU_B 1IBS_B 2JI4_A ....
Probab=23.64 E-value=1.3e+02 Score=24.51 Aligned_cols=76 Identities=14% Similarity=0.253 Sum_probs=43.8
Q ss_pred CcEEEEEeCcc--c-------HHHHHHcCCCe---------eChHHHHhhhhcHHHHHHHhhhcCEEEechhhHhhhhhh
Q 027855 62 KMKVCMLGDAQ--H-------VEEAEKIGLDY---------MDVEGLKKLNKNKKLVKKLAKKYHAFLASESVIKQIPRL 123 (217)
Q Consensus 62 ~~~Icvf~~~~--~-------~~~a~~~g~~~---------i~~~~l~k~~~~~~~~r~l~~~~D~flad~~i~~~l~~~ 123 (217)
.-++|+|+||- . ++.+++.||.- .+++.+.++ -....|-++++..|-....++
T Consensus 82 ~gk~~IIvDDiIdtg~Tl~~aA~~Lk~~GA~~V~~~aTHgvfs~~A~~~l---------~~s~Id~vvvTnTIp~~~~~~ 152 (184)
T PF14572_consen 82 KGKICIIVDDIIDTGGTLIKAAELLKERGAKKVYACATHGVFSGDAPERL---------EESPIDEVVVTNTIPQEEQKL 152 (184)
T ss_dssp TTSEEEEEEEEESSTHHHHHHHHHHHHTTESEEEEEEEEE---TTHHHHH---------HHSSESEEEEETTS--HHHHH
T ss_pred cCCeEeeecccccchHHHHHHHHHHHHcCCCEEEEEEeCcccCchHHHHH---------hhcCCeEEEEeccccCchhhh
Confidence 55799999862 1 45667889861 233333322 134689999998885544333
Q ss_pred hCCCCCCCCCCCceecccccHHHHHHHhhc
Q 027855 124 LGPGLNKAGKFPTLVTHQESLESKVNETKA 153 (217)
Q Consensus 124 LG~~f~~~~K~P~~v~~~~~l~~~i~~~~~ 153 (217)
.++ |. ..++++.-+.+.|+++.+
T Consensus 153 ~~~------Ki-~vldis~llaeaI~rih~ 175 (184)
T PF14572_consen 153 QCP------KI-KVLDISPLLAEAIRRIHN 175 (184)
T ss_dssp H-T------TE-EEE--HHHHHHHHHHHHH
T ss_pred cCC------CE-eEeehHHHHHHHHHHHHc
Confidence 332 22 245556778888888876
No 33
>PRK13562 acetolactate synthase 1 regulatory subunit; Provisional
Probab=22.89 E-value=60 Score=23.01 Aligned_cols=36 Identities=14% Similarity=0.117 Sum_probs=30.7
Q ss_pred HhccHHHHHHHHHHhccccccceeEEEEEcCCCCce
Q 027855 179 IFQNVQMSVNFLVSLLKKNWQNVRCLYLKSTMGPSN 214 (217)
Q Consensus 179 i~eNi~a~i~~l~~~~p~~~~~I~~v~lkst~s~~l 214 (217)
++||---++..+....-+.+-||.|+...-|.-|++
T Consensus 8 lVeN~~GVL~Rit~lFsRRg~NI~SLtvg~Te~~~i 43 (84)
T PRK13562 8 QVADQVSTLNRITSAFVRLQYNIDTLHVTHSEQPGI 43 (84)
T ss_pred EEECCCCHHHHHHHHHhccCcCeeeEEecccCCCCc
Confidence 467878888899888888889999999998888775
No 34
>PF15585 Imm46: Immunity protein 46
Probab=22.54 E-value=2.1e+02 Score=21.99 Aligned_cols=38 Identities=11% Similarity=0.001 Sum_probs=34.1
Q ss_pred CccEEEEEEcCCCCChHHHhccHHHHHHHHHHhccccc
Q 027855 161 KVLCMGVAVGNLSMEEKQIFQNVQMSVNFLVSLLKKNW 198 (217)
Q Consensus 161 ~~~~~~v~VG~~~m~~~~i~eNi~a~i~~l~~~~p~~~ 198 (217)
.+|+..+.+|.++--.-+..++|.++.+.|.+..|+.+
T Consensus 48 ~NG~~~l~~~g~~NHr~~~~~eii~lf~~i~e~aPGSY 85 (129)
T PF15585_consen 48 MNGSYFLHFGGLSNHRGQEAPEIIELFERIAEIAPGSY 85 (129)
T ss_pred cCCcEEEEEccccCCCccchHHHHHHHHHHHHhCCCce
Confidence 46788999999999999999999999999999999853
No 35
>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=22.42 E-value=2.9e+02 Score=19.92 Aligned_cols=49 Identities=10% Similarity=0.099 Sum_probs=31.3
Q ss_pred EEEEEeC-ccc--------HHHHHHcCCCe----eChHHHHhhhhcHHHHHHHhhhcCEEEechhhHhhhhh
Q 027855 64 KVCMLGD-AQH--------VEEAEKIGLDY----MDVEGLKKLNKNKKLVKKLAKKYHAFLASESVIKQIPR 122 (217)
Q Consensus 64 ~Icvf~~-~~~--------~~~a~~~g~~~----i~~~~l~k~~~~~~~~r~l~~~~D~flad~~i~~~l~~ 122 (217)
+|+|+|- +-. .+.+++.|+++ .+..++... ..++|++|..|-+--.+..
T Consensus 2 ~Ill~C~~GaSSs~la~km~~~a~~~gi~~~i~a~~~~e~~~~----------~~~~Dvill~PQv~~~~~~ 63 (99)
T cd05565 2 NVLVLCAGGGTSGLLANALNKGAKERGVPLEAAAGAYGSHYDM----------IPDYDLVILAPQMASYYDE 63 (99)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEEeeHHHHHHh----------ccCCCEEEEcChHHHHHHH
Confidence 5788884 211 35677888874 344554432 5789999999888555433
No 36
>PF01990 ATP-synt_F: ATP synthase (F/14-kDa) subunit; InterPro: IPR008218 ATPases (or ATP synthases) are membrane-bound enzyme complexes/ion transporters that combine ATP synthesis and/or hydrolysis with the transport of protons across a membrane. ATPases can harness the energy from a proton gradient, using the flux of ions across the membrane via the ATPase proton channel to drive the synthesis of ATP. Some ATPases work in reverse, using the energy from the hydrolysis of ATP to create a proton gradient. There are different types of ATPases, which can differ in function (ATP synthesis and/or hydrolysis), structure (e.g., F-, V- and A-ATPases, which contain rotary motors) and in the type of ions they transport [, ]. The different types include: F-ATPases (F1F0-ATPases), which are found in mitochondria, chloroplasts and bacterial plasma membranes where they are the prime producers of ATP, using the proton gradient generated by oxidative phosphorylation (mitochondria) or photosynthesis (chloroplasts). V-ATPases (V1V0-ATPases), which are primarily found in eukaryotic vacuoles and catalyse ATP hydrolysis to transport solutes and lower pH in organelles. A-ATPases (A1A0-ATPases), which are found in Archaea and function like F-ATPases (though with respect to their structure and some inhibitor responses, A-ATPases are more closely related to the V-ATPases). P-ATPases (E1E2-ATPases), which are found in bacteria and in eukaryotic plasma membranes and organelles, and function to transport a variety of different ions across membranes. E-ATPases, which are cell-surface enzymes that hydrolyse a range of NTPs, including extracellular ATP. The V-ATPases (or V1V0-ATPase) and A-ATPases (or A1A0-ATPase) are each composed of two linked complexes: the V1 or A1 complex contains the catalytic core that hydrolyses/synthesizes ATP, and the V0 or A0 complex that forms the membrane-spanning pore. The V- and A-ATPases both contain rotary motors, one that drives proton translocation across the membrane and one that drives ATP synthesis/hydrolysis [, , ]. The V- and A-ATPases more closely resemble one another in subunit structure than they do the F-ATPases, although the function of A-ATPases is closer to that of F-ATPases. This entry represents subunit F found in the V1 complex of V-ATPases (both eukaryotic and bacterial), as well as in the A1 complex of A-ATPases. Subunit F is a 16 kDa protein that is required for the assembly and activity of V-ATPase, and has a potential role in the differential targeting and regulation of the enzyme for specific organelles. This subunit is not necessary for the rotation of the ATPase V1 rotor, but it does promote catalysis []. More information about this protein can be found at Protein of the Month: ATP Synthases [].; GO: 0046933 hydrogen ion transporting ATP synthase activity, rotational mechanism, 0046961 proton-transporting ATPase activity, rotational mechanism, 0015991 ATP hydrolysis coupled proton transport, 0033178 proton-transporting two-sector ATPase complex, catalytic domain; PDB: 2D00_E 3A5C_P 3J0J_H 3A5D_H 2OV6_A 2QAI_B 3AON_B 2I4R_A.
Probab=20.31 E-value=2.6e+02 Score=19.57 Aligned_cols=70 Identities=17% Similarity=0.258 Sum_probs=43.3
Q ss_pred EEEEeCcccHHHHHHcCCCe--e--ChHHHHhhhhcHHHHHHHhhhcCEEEechhhHhhhhhhhCCCCCCCCCCCceec
Q 027855 65 VCMLGDAQHVEEAEKIGLDY--M--DVEGLKKLNKNKKLVKKLAKKYHAFLASESVIKQIPRLLGPGLNKAGKFPTLVT 139 (217)
Q Consensus 65 Icvf~~~~~~~~a~~~g~~~--i--~~~~l~k~~~~~~~~r~l~~~~D~flad~~i~~~l~~~LG~~f~~~~K~P~~v~ 139 (217)
|+++.+.+...-.+-+|++. + ..+++.+.++..-. ..++.+++.+.+++..++..+-. +..+...|+.+.
T Consensus 1 IavIGd~~~v~gFrLaGv~~~~~~~~~ee~~~~l~~l~~----~~~~gIIii~e~~~~~~~~~l~~-~~~~~~~P~iv~ 74 (95)
T PF01990_consen 1 IAVIGDRDTVLGFRLAGVEGVYVNTDPEEAEEALKELLK----DEDVGIIIITEDLAEKIRDELDE-YREESSLPLIVE 74 (95)
T ss_dssp EEEEE-HHHHHHHHHTTSEEEEESHSHHHHHHHHHHHHH----HTTEEEEEEEHHHHTTHHHHHHH-HHHTSSSSEEEE
T ss_pred CEEEeCHHHHHHHHHcCCCCccCCCCHHHHHHHHHHHhc----CCCccEEEeeHHHHHHHHHHHHH-HHhccCCceEEE
Confidence 56777765555556678873 3 45566655432210 36899999999999888776643 222346676664
Done!