Query psy451
Match_columns 296
No_of_seqs 173 out of 1231
Neff 4.3
Searched_HMMs 46136
Date Fri Aug 16 18:59:57 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy451.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/451hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG3141|consensus 100.0 2E-80 4.3E-85 576.7 15.8 223 57-296 7-229 (310)
2 CHL00143 rpl3 ribosomal protei 100.0 1.2E-72 2.6E-77 508.1 18.3 167 116-296 1-167 (207)
3 TIGR03625 L3_bact 50S ribosoma 100.0 3.2E-71 6.9E-76 496.9 17.9 165 119-296 1-165 (202)
4 PRK00001 rplC 50S ribosomal pr 100.0 2.1E-70 4.6E-75 494.2 18.3 166 116-296 1-166 (210)
5 COG0087 RplC Ribosomal protein 100.0 8.3E-62 1.8E-66 439.8 13.9 167 117-296 1-170 (218)
6 PF00297 Ribosomal_L3: Ribosom 100.0 1E-54 2.3E-59 403.8 10.5 171 124-296 1-210 (263)
7 PRK04231 rpl3p 50S ribosomal p 100.0 4.9E-38 1.1E-42 299.6 15.4 176 105-296 29-258 (337)
8 TIGR03626 L3_arch archaeal rib 100.0 6.4E-38 1.4E-42 298.0 14.5 167 116-296 34-253 (330)
9 PTZ00103 60S ribosomal protein 100.0 3.3E-34 7.2E-39 276.7 14.3 186 106-296 32-271 (390)
10 KOG0746|consensus 99.5 5.9E-15 1.3E-19 140.8 6.1 176 116-296 29-261 (384)
11 smart00739 KOW KOW (Kyprides, 60.7 9.2 0.0002 23.1 2.4 26 229-255 1-26 (28)
12 PF13629 T2SS-T3SS_pil_N: Pilu 50.8 35 0.00075 25.8 4.6 30 115-144 39-70 (72)
13 PF00970 FAD_binding_6: Oxidor 26.2 97 0.0021 23.6 3.6 14 228-241 28-41 (99)
14 PF11325 DUF3127: Domain of un 25.9 1.1E+02 0.0025 24.5 4.0 28 222-249 44-72 (84)
15 COG1551 CsrA RNA-binding globa 24.1 1.3E+02 0.0028 23.9 3.8 35 120-157 3-38 (73)
16 COG1018 Hmp Flavodoxin reducta 22.8 1.1E+02 0.0024 28.9 4.0 47 206-262 18-64 (266)
17 PRK00568 carbon storage regula 21.7 1.5E+02 0.0033 23.6 3.9 35 120-157 3-38 (76)
18 PRK04306 50S ribosomal protein 21.5 60 0.0013 26.9 1.7 15 227-241 32-46 (98)
19 PRK01712 carbon storage regula 20.8 1.5E+02 0.0033 22.9 3.6 35 120-157 3-38 (64)
No 1
>KOG3141|consensus
Probab=100.00 E-value=2e-80 Score=576.67 Aligned_cols=223 Identities=43% Similarity=0.697 Sum_probs=214.2
Q ss_pred eeeeeccccccccChhHHHHHHHHHHhhcCCccccccccccCCCCCCCCCCCCCCCCCCceeeeeEEEeecceeecCCCc
Q psy451 57 FLQKERAEYIENLTRNNKAFIEEVVHDQCGAPAVKSGIETYNTPLKIEPLQPLEITTSSKRTGLIGKIIGQYPLWMKNGE 136 (296)
Q Consensus 57 ~~~k~~~~~~e~lt~en~~fl~~~~~~~~~~~~~~~~~~~~~~pl~~~~~~~~~w~~~s~r~GlIg~KiGMt~i~~~~G~ 136 (296)
+..++.+++++.+|.+|+.||++++.++...++.+. .++++++++....|.|+|+|+||||+|+|||++||+||+
T Consensus 7 ~~~~s~~k~~~~~s~~n~~li~~~~~~~~~~~~~~~-----l~~~~~~~~~~~v~~p~s~R~GvI~~K~GMmp~w~k~G~ 81 (310)
T KOG3141|consen 7 PVMASASKSVSRPSLENKTLIRTSISDETLAPAKSI-----LLLLKEEPNARKVWIPSSRRVGVIARKLGMMPLWDKDGE 81 (310)
T ss_pred ceeccchhhhccccccChhhhhhhhcCcccCcchhh-----hccCcCcccccccccCCcccceeEEEeccCchhhccCCC
Confidence 456788899999999999999999999988876443 678889999999999999999999999999999999999
Q ss_pred EEEeeEEEecCeEEEEEeCCCCCCCCCCCCCCCCCCCcceEEEeccccCCCcCChhhcchHHhcCCCCCceEEEEEeCCC
Q psy451 137 KCRTTLVQVVDNHIIKYIPPEEFKPNRKPYRGEPKRKLGCLLVGAESGDPSLYTKEYCGLFKNSGVPPKKKLCRFIITPD 216 (296)
Q Consensus 137 ~vpvTVLqv~pn~Vv~~kt~E~~~~~~~~~~~~~kdgY~avqVG~~~~~~~~~tKp~~G~F~kaGv~pKr~L~EFrVs~~ 216 (296)
+||||||||++|||++|+|+|+ ++||.|||||++..+++++||+|+|||+++|++||+||+||+|+++
T Consensus 82 ri~~TiL~v~d~~Vi~~~t~E~------------~~g~~avqVG~g~~~p~kltk~~~g~f~~~gv~pK~~l~eF~Vt~~ 149 (310)
T KOG3141|consen 82 RIPVTILQVDDNHVIKYITPEA------------KGGYFAVQVGYGTVKPKKLTKAELGHFRSAGVPPKRHLREFRVTEE 149 (310)
T ss_pred EEEEEEEEEecceEEEEechhh------------cCCeEEEEeccccCChHHhhHHHHHHHHHcCCChhhhhheEeechh
Confidence 9999999999999999999995 7999999999999999999999999999999999999999999999
Q ss_pred CCCCCCCeeecccCCCCCeeEEEEEeeeeccccceeeeccCCCCCCCCCCCCcCCCcccCCCCCCCcccCCCcCCCCCCC
Q psy451 217 AMLPPGTPLTAAHFRPREFLDVRGLTVDRGFQGVMKRWGFKGMPATHGVTKSHRRGGCIASGAGKARVYPGGVLQRGLKC 296 (296)
Q Consensus 217 a~l~~Gt~L~a~hF~~Gq~VDV~G~TkGKGFqGVmKRwGFkGgPaSHG~sK~HRrpGSIG~~~~PgRV~pGkKMpG~mG~ 296 (296)
+.+++||+|+++||++||||||+|+|+|||||||||||||+|||||||+||+||++||||++++|||||||+|||||||.
T Consensus 150 al~~pGt~l~~~hFk~GqyVDV~g~TigkGFqGvmKR~GFkG~pasHG~sksHR~~GS~G~~~~pgRV~pGrKMpGhMG~ 229 (310)
T KOG3141|consen 150 ALLPPGTPLFARHFKPGQYVDVTGKTIGKGFQGVMKRHGFKGGPASHGTSKSHRRPGSIGQGTTPGRVWPGRKMPGHMGN 229 (310)
T ss_pred ccCCCCcccchhhcCCCceEEEEeeEeccccccceeeccccCCccccCccccccCCccccCCCCCcccccCCcCCcccCc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999994
No 2
>CHL00143 rpl3 ribosomal protein L3; Validated
Probab=100.00 E-value=1.2e-72 Score=508.06 Aligned_cols=167 Identities=29% Similarity=0.485 Sum_probs=163.1
Q ss_pred ceeeeeEEEeecceeecCCCcEEEeeEEEecCeEEEEEeCCCCCCCCCCCCCCCCCCCcceEEEeccccCCCcCChhhcc
Q psy451 116 KRTGLIGKIIGQYPLWMKNGEKCRTTLVQVVDNHIIKYIPPEEFKPNRKPYRGEPKRKLGCLLVGAESGDPSLYTKEYCG 195 (296)
Q Consensus 116 ~r~GlIg~KiGMt~i~~~~G~~vpvTVLqv~pn~Vv~~kt~E~~~~~~~~~~~~~kdgY~avqVG~~~~~~~~~tKp~~G 195 (296)
+++||||+|+||||+||+||.+||||||||+||+|++++|.| +|||+|+|||+++.++++++||++|
T Consensus 1 m~~glig~KiGMt~~f~~~G~~vpvTvl~~~~~~V~~~kt~e-------------~dGY~avqvg~~~~~~k~~~K~~~G 67 (207)
T CHL00143 1 MSIGLLGTKIGMTQIFDETGNAIPVTILKVGPCVITQIKTLT-------------TDGYNAIQIGYKQVSTKKLTKPQLG 67 (207)
T ss_pred CcceEEEEEccceEEECCCCCEEEEEEEEECCeEEEEEecCC-------------CCCcEEEEEeeeecccccCChhhcc
Confidence 368999999999999999999999999999999999999999 8999999999999999999999999
Q ss_pred hHHhcCCCCCceEEEEEeCCCCCCCCCCeeecccCCCCCeeEEEEEeeeeccccceeeeccCCCCCCCCCCCCcCCCccc
Q psy451 196 LFKNSGVPPKKKLCRFIITPDAMLPPGTPLTAAHFRPREFLDVRGLTVDRGFQGVMKRWGFKGMPATHGVTKSHRRGGCI 275 (296)
Q Consensus 196 ~F~kaGv~pKr~L~EFrVs~~a~l~~Gt~L~a~hF~~Gq~VDV~G~TkGKGFqGVmKRwGFkGgPaSHG~sK~HRrpGSI 275 (296)
||+|+|++|+++|+||+|++++.+++|++|+|+||++||+|||+|+|||||||||||||||+|+||||| |++||+||||
T Consensus 68 ~f~ka~v~p~r~l~Efrv~~~~~~~vG~~l~v~~F~~Gq~VDV~g~sKGKGF~GvmKR~gF~g~pasHG-s~~HR~~GSi 146 (207)
T CHL00143 68 HLQKSNVPPLKYLKEFRVKSSEEFEVGQPLTVDAFSVGQLVNVSGKSIGKGFAGLQKRHNFSRGPMTHG-SKNHRAPGSI 146 (207)
T ss_pred hhHHcCCCcceEEEEEEcCCcccCCCCCEEEhhhccCCCEEEEEEEecCCcceeeeEeeccCCCCCccC-CCCCCCCccc
Confidence 999999999999999999998889999999999999999999999999999999999999999999999 5599999999
Q ss_pred CCCCCCCcccCCCcCCCCCCC
Q psy451 276 ASGAGKARVYPGGVLQRGLKC 296 (296)
Q Consensus 276 G~~~~PgRV~pGkKMpG~mG~ 296 (296)
|++++|+|||||||||||||.
T Consensus 147 G~~~~PgRV~kGkKMpG~mG~ 167 (207)
T CHL00143 147 GAGTTPGRVYPGKKMAGRLGN 167 (207)
T ss_pred CCCCCCCeEcCCCccCCCCCC
Confidence 999999999999999999995
No 3
>TIGR03625 L3_bact 50S ribosomal protein L3, bacterial. This model describes bacterial (and mitochondrial and chloroplast) class of ribosomal protein L3. A separate model describes the archaeal form, where both belong to Pfam family pfam00297. The name is phrased to meet the needs of bacterial genome annotation. Organellar forms typically will have transit peptides, N-terminal to the region modeled here.
Probab=100.00 E-value=3.2e-71 Score=496.95 Aligned_cols=165 Identities=30% Similarity=0.481 Sum_probs=162.8
Q ss_pred eeeEEEeecceeecCCCcEEEeeEEEecCeEEEEEeCCCCCCCCCCCCCCCCCCCcceEEEeccccCCCcCChhhcchHH
Q psy451 119 GLIGKIIGQYPLWMKNGEKCRTTLVQVVDNHIIKYIPPEEFKPNRKPYRGEPKRKLGCLLVGAESGDPSLYTKEYCGLFK 198 (296)
Q Consensus 119 GlIg~KiGMt~i~~~~G~~vpvTVLqv~pn~Vv~~kt~E~~~~~~~~~~~~~kdgY~avqVG~~~~~~~~~tKp~~G~F~ 198 (296)
||||+||||||+||++|++||||||||+||+|+|++|.| +|||+|||||+++.+++++|||++|||+
T Consensus 1 Glig~KiGMt~if~~~G~~ipvTVl~v~~~~V~q~kt~e-------------~dGY~AvqvG~~~~~~~~~~Kp~~G~f~ 67 (202)
T TIGR03625 1 GLLGKKVGMTQIFTEDGKAVPVTVIEVGPNVVTQVKTVE-------------KDGYSAVQLGFGEKKEKRVNKPEAGHFA 67 (202)
T ss_pred CccEEecceeEEECCCCcEEEEEEEEeCCcEEEEEeCCC-------------CCCcEEEEEeccccccccCChhhhhHHH
Confidence 799999999999999999999999999999999999999 8999999999999999999999999999
Q ss_pred hcCCCCCceEEEEEeCCCCCCCCCCeeecccCCCCCeeEEEEEeeeeccccceeeeccCCCCCCCCCCCCcCCCcccCCC
Q psy451 199 NSGVPPKKKLCRFIITPDAMLPPGTPLTAAHFRPREFLDVRGLTVDRGFQGVMKRWGFKGMPATHGVTKSHRRGGCIASG 278 (296)
Q Consensus 199 kaGv~pKr~L~EFrVs~~a~l~~Gt~L~a~hF~~Gq~VDV~G~TkGKGFqGVmKRwGFkGgPaSHG~sK~HRrpGSIG~~ 278 (296)
|+|++||++|+||++++++.+++|++|+|+||++||+|||+|+|||||||||||||||+|+|+|||+|++||++||||++
T Consensus 68 Kag~~pkr~l~Efrv~~~~~~~~G~~l~v~~F~~G~~VDV~g~skGKGFqGvmKR~gf~g~~~sHG~s~~hR~~GSiG~~ 147 (202)
T TIGR03625 68 KAGVEPKRHLREFRVDDLEGYEVGDEITVDIFEAGQKVDVTGTSKGKGFAGVMKRHNFSGGPASHGNSKSHRAPGSIGQR 147 (202)
T ss_pred HcCCCcCcEEEEEEcCCcccCCCCCEEEeeeecCCCEEEEEEEEcCCcceeceEecccCCCCcccCCCCCCCCCCccCCC
Confidence 99999999999999999889999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCcccCCCcCCCCCCC
Q psy451 279 AGKARVYPGGVLQRGLKC 296 (296)
Q Consensus 279 ~~PgRV~pGkKMpG~mG~ 296 (296)
++|+|||||+|||||||.
T Consensus 148 ~~PgrV~kgkkm~G~mG~ 165 (202)
T TIGR03625 148 QTPGRVFKGKKMAGHMGN 165 (202)
T ss_pred CCCCeEcCCCccCCCcCC
Confidence 999999999999999995
No 4
>PRK00001 rplC 50S ribosomal protein L3; Validated
Probab=100.00 E-value=2.1e-70 Score=494.24 Aligned_cols=166 Identities=28% Similarity=0.472 Sum_probs=162.0
Q ss_pred ceeeeeEEEeecceeecCCCcEEEeeEEEecCeEEEEEeCCCCCCCCCCCCCCCCCCCcceEEEeccccCCCcCChhhcc
Q psy451 116 KRTGLIGKIIGQYPLWMKNGEKCRTTLVQVVDNHIIKYIPPEEFKPNRKPYRGEPKRKLGCLLVGAESGDPSLYTKEYCG 195 (296)
Q Consensus 116 ~r~GlIg~KiGMt~i~~~~G~~vpvTVLqv~pn~Vv~~kt~E~~~~~~~~~~~~~kdgY~avqVG~~~~~~~~~tKp~~G 195 (296)
+|+||||+||||||+||++|++||||||||+||+|++++|.| +|||+|||||+++.+++++|||++|
T Consensus 1 m~~Glig~KiGMt~ifd~~G~~vpvTvl~v~~~~V~~~kt~e-------------~dGY~avqvG~~~~~~~~~~Kp~~G 67 (210)
T PRK00001 1 MMKGILGKKVGMTQIFTEDGESIPVTVIEAGPNVVTQVKTVE-------------KDGYNAVQLGFGDKKEKRVNKPEAG 67 (210)
T ss_pred CccEEEEEEecceEEECCCCCEEEEEEEEecCcEEEEEeCCC-------------CCCcEEEEEeccccCcccCCHHHhH
Confidence 478999999999999999999999999999999999999999 8999999999999999999999999
Q ss_pred hHHhcCCCCCceEEEEEeCCCCCCCCCCeeecccCCCCCeeEEEEEeeeeccccceeeeccCCCCCCCCCCCCcCCCccc
Q psy451 196 LFKNSGVPPKKKLCRFIITPDAMLPPGTPLTAAHFRPREFLDVRGLTVDRGFQGVMKRWGFKGMPATHGVTKSHRRGGCI 275 (296)
Q Consensus 196 ~F~kaGv~pKr~L~EFrVs~~a~l~~Gt~L~a~hF~~Gq~VDV~G~TkGKGFqGVmKRwGFkGgPaSHG~sK~HRrpGSI 275 (296)
||+|+|++|+++|+||+ +++.+++|++|+|+||++||+|||+|+|||||||||||||||+|+|+|||+|++||++|||
T Consensus 68 ~f~kag~~pkr~l~Efr--~~~~~~~G~~l~v~~F~~G~~VDV~g~tKGKGFqGvmKR~gf~g~p~sHG~s~~hR~~GSi 145 (210)
T PRK00001 68 HFAKAGVEPKRHLREFR--VVEEYEVGQEITVDIFEAGQKVDVTGTSKGKGFAGVIKRHNFSGGPASHGNSRSHRRPGSI 145 (210)
T ss_pred HHHHcCCCcceEEEEEc--cCCCCCCCCEEeehhccCCCEEEEEEEEcCCcceeceEecccCCCCCcCCcCcCCcCCccc
Confidence 99999999999999999 4567999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCCCCcccCCCcCCCCCCC
Q psy451 276 ASGAGKARVYPGGVLQRGLKC 296 (296)
Q Consensus 276 G~~~~PgRV~pGkKMpG~mG~ 296 (296)
|++++|+|||||+|||||||.
T Consensus 146 G~~~~PgrV~kgkkmaG~mG~ 166 (210)
T PRK00001 146 GARQTPGRVFKGKKMAGHMGN 166 (210)
T ss_pred CCCCCCCeECCCcccCCCCCC
Confidence 999999999999999999995
No 5
>COG0087 RplC Ribosomal protein L3 [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=8.3e-62 Score=439.82 Aligned_cols=167 Identities=32% Similarity=0.553 Sum_probs=161.6
Q ss_pred eeeeeEEEeecceeecCCCcEEEeeEEEecCeEEEEEeCCCCCCCCCCCCCCCCCCCcceEEEeccccCCCcCChhhcch
Q psy451 117 RTGLIGKIIGQYPLWMKNGEKCRTTLVQVVDNHIIKYIPPEEFKPNRKPYRGEPKRKLGCLLVGAESGDPSLYTKEYCGL 196 (296)
Q Consensus 117 r~GlIg~KiGMt~i~~~~G~~vpvTVLqv~pn~Vv~~kt~E~~~~~~~~~~~~~kdgY~avqVG~~~~~~~~~tKp~~G~ 196 (296)
+.||||+|+|||++|+++|..+|||||+++||.|++++|.| +|||.|+|||+++.+.+.++||+.||
T Consensus 1 ~~G~~G~KvGMT~vf~~~g~~vPVTVie~~p~~V~~vkt~e-------------~dGy~a~qv~~~~~k~~~~~k~~~g~ 67 (218)
T COG0087 1 MLGFLGYKVGMTHVFDERGISVPVTVIEVPPNVVVQVKTYE-------------TDGYRAVQVGAGDRKAKRVNKPLVGH 67 (218)
T ss_pred CcccceEeccceEEEccCCcEEEEEEEEcCCcEEEEEEecc-------------cCCcEEEEEeecceeeehhccceeee
Confidence 36999999999999999999999999999999999999999 89999999999999999999999999
Q ss_pred HHhcCCCCCceEEEEEeCCCC---CCCCCCeeecccCCCCCeeEEEEEeeeeccccceeeeccCCCCCCCCCCCCcCCCc
Q psy451 197 FKNSGVPPKKKLCRFIITPDA---MLPPGTPLTAAHFRPREFLDVRGLTVDRGFQGVMKRWGFKGMPATHGVTKSHRRGG 273 (296)
Q Consensus 197 F~kaGv~pKr~L~EFrVs~~a---~l~~Gt~L~a~hF~~Gq~VDV~G~TkGKGFqGVmKRwGFkGgPaSHG~sK~HRrpG 273 (296)
|+|+++.|+++|+||++++.+ .+++|++|.+++|++||+|||+|+||||||||+||||||+++|+|||++.+||++|
T Consensus 68 ~~k~~~~~k~~l~E~rv~~~~~~~~~e~g~ei~~dvF~~g~~VDV~gvTKGKGF~G~~KR~gf~~~p~sHg~~~~hR~~G 147 (218)
T COG0087 68 FAKAGVKPKRHLAEFRVGGGDVAEKFEVGQEITVDVFKEGELVDVTGVTKGKGFQGVMKRWGFKGGPASHGSSLSHRRPG 147 (218)
T ss_pred ecccCCCCCCeEEEEEecCccccceechhhhhchhhccCCCEEEEEEEecccccceeeeecccccCCcccCCCccccCCc
Confidence 999999999999999998753 48999999999999999999999999999999999999999999999998999999
Q ss_pred ccCCCCCCCcccCCCcCCCCCCC
Q psy451 274 CIASGAGKARVYPGGVLQRGLKC 296 (296)
Q Consensus 274 SIG~~~~PgRV~pGkKMpG~mG~ 296 (296)
|||+..+|+|||||+|||||||+
T Consensus 148 SiG~~~~P~rV~~g~kmaG~mG~ 170 (218)
T COG0087 148 SIGQRQTPGRVFKGKKMAGHMGN 170 (218)
T ss_pred ccCCCCCCCceeCCCccCccCCC
Confidence 99999999999999999999996
No 6
>PF00297 Ribosomal_L3: Ribosomal protein L3; InterPro: IPR000597 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 L3 is one of the proteins from the large ribosomal subunit. In Escherichia coli, L3 is known to bind to the 23S rRNA and may participate in the formation of the peptidyltransferase centre of the ribosome. It belongs to a family of ribosomal proteins which, on the basis of sequence similarities includes bacterial, red algal, cyanelle, mammalian, yeast and Arabidopsis thaliana L3 proteins; archaeal Haloarcula marismortui HmaL3 (HL1), and yeast mitochondrial YmL9 [, , , ].; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 3UZ8_E 2X9U_E 3UZ1_E 3KNM_E 4ABS_E 2WDI_E 3UYG_E 4DHC_E 2J01_E 2Y11_E ....
Probab=100.00 E-value=1e-54 Score=403.76 Aligned_cols=171 Identities=27% Similarity=0.481 Sum_probs=147.9
Q ss_pred Eeecceee---------cCC-CcEEEeeEEEecCeEEEEEeCCCC-----------CCCCCC----CCCCCCCCCcceEE
Q psy451 124 IIGQYPLW---------MKN-GEKCRTTLVQVVDNHIIKYIPPEE-----------FKPNRK----PYRGEPKRKLGCLL 178 (296)
Q Consensus 124 KiGMt~i~---------~~~-G~~vpvTVLqv~pn~Vv~~kt~E~-----------~~~~~~----~~~~~~kdgY~avq 178 (296)
|+||||+| +++ |..+||||||++||.|+++++.|+ |..... .+....+|||.|+|
T Consensus 1 K~GMT~v~~~~~~~~s~~~~~g~~~pVTVle~~p~~V~~ir~~~~~~~G~~~~~~~~~~~~~~~~~r~~~~~~~g~~a~~ 80 (263)
T PF00297_consen 1 KVGMTHVFMIDDRPGSPTEGKGVFVPVTVLEVPPCVVVGIRTYEDTNDGLKAVQEVWAEHISDDLKRRIYKNKDGYKAVQ 80 (263)
T ss_dssp EEEEEEEEEEB-STTSTTTTSEEEEEEEEEEE--EEEEEEEEEEEETTEEEEEEEEESS--STHHHGTCTSTTSSCHCCE
T ss_pred CCcceEEEEecCcCCCccCCCCEEEEEEEEEECCeEEEEEEeEecCCCcceeeEEEeccccccccceeeecccccchhhh
Confidence 89999999 776 999999999999999999999882 111000 01122389999999
Q ss_pred EeccccCCCcCChhhcchHHhcCCC---CCceEEEEEeCCC----------CCCCCCCeeec-ccCCCCCeeEEEEEeee
Q psy451 179 VGAESGDPSLYTKEYCGLFKNSGVP---PKKKLCRFIITPD----------AMLPPGTPLTA-AHFRPREFLDVRGLTVD 244 (296)
Q Consensus 179 VG~~~~~~~~~tKp~~G~F~kaGv~---pKr~L~EFrVs~~----------a~l~~Gt~L~a-~hF~~Gq~VDV~G~TkG 244 (296)
+|+++.++...+++.++||++++++ |+++|+||+|+++ +.|.+|++|++ ++|++||+|||+|+|||
T Consensus 81 ~~~~~~~~~~~~~~~~~~~~~~~~~i~~~k~~i~E~~v~~~~~~~~~~~a~~~l~~G~~i~v~dvF~~Gq~VDV~gvTKG 160 (263)
T PF00297_consen 81 LGFGEKKEKRVSKRLLGHFQKAGVPIPKKKPHIMEFRVSGGDVEEKLEYAKELLGVGKEIKVNDVFKEGQYVDVIGVTKG 160 (263)
T ss_dssp ECCCHHCCSTSCCECCEEHHGGGSSSS-CSSEEEEEECESSSHHHHHHHHHHHCSCSSEBSCCTTSSTTSEEEEEEEE-E
T ss_pred hhhhhccccccchhhhhcccccccchhhccceeEEecccccChhHhhhhhhhhcCccceeehhheecccceEEEEEeecC
Confidence 9999999999999999999999999 9999999999988 67999999999 89999999999999999
Q ss_pred eccccceeeeccCCCCCCCCCCCCcCCCcccCCCCCCCcccCCCcCCCCCCC
Q psy451 245 RGFQGVMKRWGFKGMPATHGVTKSHRRGGCIASGAGKARVYPGGVLQRGLKC 296 (296)
Q Consensus 245 KGFqGVmKRwGFkGgPaSHG~sK~HRrpGSIG~~~~PgRV~pGkKMpG~mG~ 296 (296)
||||||||||||+++|+|||+++ ||++||||+ .+|+|||||+|||||||+
T Consensus 161 KGFqGv~KR~gf~~~p~sHg~~~-hR~~GsiG~-~~PgrV~~g~kmaGqmG~ 210 (263)
T PF00297_consen 161 KGFQGVMKRWGFKGGPASHGSSK-HRKPGSIGA-WTPGRVFKGKKMAGQMGN 210 (263)
T ss_dssp EEEETHHHHCSS--S-SSSSSTT-SSSSS-SSC-SSSSSCGTTSTSSEEESS
T ss_pred ccccccccccCCCccCCCCCCcc-cCCCCcccc-cccceeecccccCccccc
Confidence 99999999999999999999988 999999999 789999999999999995
No 7
>PRK04231 rpl3p 50S ribosomal protein L3P; Reviewed
Probab=100.00 E-value=4.9e-38 Score=299.64 Aligned_cols=176 Identities=23% Similarity=0.260 Sum_probs=132.6
Q ss_pred CCCCCCCCCCCceeeeeEEEeecceeecCCCc----------EEEeeEEEecCeEEEEEeCCCCCCCCCCCCCCCCCCCc
Q psy451 105 PLQPLEITTSSKRTGLIGKIIGQYPLWMKNGE----------KCRTTLVQVVDNHIIKYIPPEEFKPNRKPYRGEPKRKL 174 (296)
Q Consensus 105 ~~~~~~w~~~s~r~GlIg~KiGMt~i~~~~G~----------~vpvTVLqv~pn~Vv~~kt~E~~~~~~~~~~~~~kdgY 174 (296)
.||...+.| ...|++|+|.|||++...|.. ..||||||++|..|+.+.-.. ++.|
T Consensus 29 swP~~d~~p--~l~~F~GyKaGMTHv~~~ddrp~S~~~gkEi~~~VTviEtPPm~V~gir~Y~-------------~~~~ 93 (337)
T PRK04231 29 SWPEIDGEP--KLLGFAGYKAGMTHVIMIDDRPNSPTEGKEIFVPVTVLETPPMRVAAIRAYE-------------KDPY 93 (337)
T ss_pred cccCCCCCc--ceeEeeeeccCCeEEEEecCCCCCccCCCeEEEeEEEEeCCCeEEEEEEEEe-------------ECCC
Confidence 355444433 789999999999999987653 799999999999999987555 2222
Q ss_pred ceEEEec---cccC---CCcCChh-------------------hc--------chHHh-cCCCCCc-eEEEEEeCCCC--
Q psy451 175 GCLLVGA---ESGD---PSLYTKE-------------------YC--------GLFKN-SGVPPKK-KLCRFIITPDA-- 217 (296)
Q Consensus 175 ~avqVG~---~~~~---~~~~tKp-------------------~~--------G~F~k-aGv~pKr-~L~EFrVs~~a-- 217 (296)
+--.++. ++.+ ..+++++ ++ -+=++ .|++-|+ +|.|++|...+
T Consensus 94 Gl~~~~evwa~~l~~~~~Rr~~~~~~~~~~~~~~~~~~~~~~~~~~~vR~i~~Tqp~~~~~l~kKkp~i~Ei~v~Gg~i~ 173 (337)
T PRK04231 94 GLKVLTEVWAEDLDKELERRITLPKKDEKKKAFEKLLKLLEEGKIVDVRVIVHTQPKLVTGVPKKKPEIMEIRIGGGSVE 173 (337)
T ss_pred CcEEEEEEecccchHHHhhhccccccchhhHHHHHHHHHhhcCCeeEEEEEEEechhhccCCCCCCCCEEEEeecCCCHH
Confidence 2111221 1110 0111111 00 00012 3677765 99999998742
Q ss_pred ------CCCCCCeeec-ccCCCCCeeEEEEEeeeeccccceeeeccCCCCCCCCCCCCcCCCcccCCCCCCCcccCCCcC
Q psy451 218 ------MLPPGTPLTA-AHFRPREFLDVRGLTVDRGFQGVMKRWGFKGMPATHGVTKSHRRGGCIASGAGKARVYPGGVL 290 (296)
Q Consensus 218 ------~l~~Gt~L~a-~hF~~Gq~VDV~G~TkGKGFqGVmKRwGFkGgPaSHG~sK~HRrpGSIG~~~~PgRV~pGkKM 290 (296)
.-.+|++|++ ++|++||+|||+|+|||||||||||||||+++|++||.++.||++||||++ +|+|||+|++|
T Consensus 174 ~k~~~a~~llG~~i~v~dvF~~Ge~VDV~gvTKGKGfqGvvKRwg~~~~p~~Hg~~~~~R~~GsiG~~-~P~rV~~~~~m 252 (337)
T PRK04231 174 ERLEYAKELLGKEISISDVFKEGQLVDVIAVTKGKGFQGVVKRWGVKLLPRKHKRRGGSRHIGTLGPW-NPSRVMWTVPQ 252 (337)
T ss_pred HHHHHHHHhcCCccchhhhccCCCEEEEEEEEeCCccccCeeccCcCCCCCccCCCCCCCCCcccCCC-CCCcccCCCcc
Confidence 1147999999 689999999999999999999999999999999999999999999999986 69999999999
Q ss_pred CCCCCC
Q psy451 291 QRGLKC 296 (296)
Q Consensus 291 pG~mG~ 296 (296)
|||||+
T Consensus 253 aGqmG~ 258 (337)
T PRK04231 253 AGQMGF 258 (337)
T ss_pred CCCCCC
Confidence 999996
No 8
>TIGR03626 L3_arch archaeal ribosomal protein L3. This model describes exclusively the archaeal class of ribosomal protein L3. A separate model (TIGR03625) describes the bacterial/organelle form, and both belong to Pfam family pfam00297. Eukaryotic proteins are excluded from this model.
Probab=100.00 E-value=6.4e-38 Score=297.96 Aligned_cols=167 Identities=24% Similarity=0.295 Sum_probs=127.8
Q ss_pred ceeeeeEEEeecceeecCCC----------cEEEeeEEEecCeEEEEEeCCCCCCCCCCCCCCCCCCCcceEEEe---cc
Q psy451 116 KRTGLIGKIIGQYPLWMKNG----------EKCRTTLVQVVDNHIIKYIPPEEFKPNRKPYRGEPKRKLGCLLVG---AE 182 (296)
Q Consensus 116 ~r~GlIg~KiGMt~i~~~~G----------~~vpvTVLqv~pn~Vv~~kt~E~~~~~~~~~~~~~kdgY~avqVG---~~ 182 (296)
...|++|+|.|||+|...|. ...||||||++|..|+.+.-..+ +.|+--.++ ++
T Consensus 34 ~l~~F~GyKaGMTHvv~~~drp~S~~~gkEv~~~VTviEtPPm~v~gir~Y~~-------------t~~Gl~~l~~vwa~ 100 (330)
T TIGR03626 34 KLQGFAGYKAGMTHVIMVDDRKNSPTEGKEISVPVTVLEAPPLRVAAIRAYGK-------------DPYGLKVLTEVWAN 100 (330)
T ss_pred eeeeeeeeccCCeEEEEecCCCCCCcCCCeEEeeeEEEecCCeEEEEEEEEEE-------------CCCCcEEEEEEeec
Confidence 68899999999999988654 47899999999999999875441 222211111 11
Q ss_pred ccCC---CcCChhh-----------cchH---------------Hh-cCCCCCc-eEEEEEeCCCC--------CCCCCC
Q psy451 183 SGDP---SLYTKEY-----------CGLF---------------KN-SGVPPKK-KLCRFIITPDA--------MLPPGT 223 (296)
Q Consensus 183 ~~~~---~~~tKp~-----------~G~F---------------~k-aGv~pKr-~L~EFrVs~~a--------~l~~Gt 223 (296)
+.+. .+++++. ...+ ++ +|++-|+ +|.|++|...+ .-.+|+
T Consensus 101 ~l~~e~~r~~~~~k~~~~~~~~~~~~~~l~~~~~~iRvi~~Tqp~~~~~~~kKkp~imEi~v~Gg~i~~k~~~a~~~lG~ 180 (330)
T TIGR03626 101 NLDKELSRKITLPKNYDVEEKLEKIEELLENDADDVRLIVHTQPKLVTGVPKKKPEIMEIRIGGGSVEERFEYALSILGK 180 (330)
T ss_pred cCcHHHhhccccccccchhhHHHHHHHHHhcCceEEEEEEEeccccccCcccCCccEEEEeecCCCHHHHhHhhHhcCCc
Confidence 1110 0111110 0000 12 3677765 99999998743 125799
Q ss_pred eeec-ccCCCCCeeEEEEEeeeeccccceeeeccCCCCCCCCCCCCcCCCcccCCCCCCCcccCCCcCCCCCCC
Q psy451 224 PLTA-AHFRPREFLDVRGLTVDRGFQGVMKRWGFKGMPATHGVTKSHRRGGCIASGAGKARVYPGGVLQRGLKC 296 (296)
Q Consensus 224 ~L~a-~hF~~Gq~VDV~G~TkGKGFqGVmKRwGFkGgPaSHG~sK~HRrpGSIG~~~~PgRV~pGkKMpG~mG~ 296 (296)
+|++ ++|++||+|||+|+|||||||||||||||+++|++||+++.||++||||++ +|+|||+|++||||||+
T Consensus 181 ~i~v~dvF~~Ge~VDV~gvTKGKGfqGvvKRwg~~~~p~~hg~~~~~R~~GsiG~~-~P~rV~~~~~maGqmG~ 253 (330)
T TIGR03626 181 EISVSDVFKEGQLVDVIAVTKGKGFQGVVKRWGVKLLPRKHKRRKGGRHIGTLGPW-TPSRVRWTVPQAGQMGY 253 (330)
T ss_pred EEehhheecCCCEEEEEEEEcCCccccCeeccccCCCCCccCCCCCCCCCcccCCC-CCCcccCCcccCCCCCC
Confidence 9999 579999999999999999999999999999999999999999999999987 69999999999999996
No 9
>PTZ00103 60S ribosomal protein L3; Provisional
Probab=100.00 E-value=3.3e-34 Score=276.74 Aligned_cols=186 Identities=19% Similarity=0.202 Sum_probs=127.4
Q ss_pred CCCCCCCCCCceeeeeEEEeecceeecCCC----------cEEEeeEEEecCeEEEEEeCCCCC-CCCCCC---------
Q psy451 106 LQPLEITTSSKRTGLIGKIIGQYPLWMKNG----------EKCRTTLVQVVDNHIIKYIPPEEF-KPNRKP--------- 165 (296)
Q Consensus 106 ~~~~~w~~~s~r~GlIg~KiGMt~i~~~~G----------~~vpvTVLqv~pn~Vv~~kt~E~~-~~~~~~--------- 165 (296)
||.....+....+|++|+|.|||+|...+- ...||||||++|..|+.+.-..+- ++....
T Consensus 32 wP~dd~~~~p~L~aF~GyKAGMTHvv~~~drp~S~~~~kEv~~~VTIiEtPPm~V~GirgY~~tp~Gl~~l~~vwA~~l~ 111 (390)
T PTZ00103 32 FPKDDPTQPPHLTAFMGYKAGMTHIVRDVDRPGSKLHKKEVVEAVTIIEAPPMVVVGIVGYRETPRGLRALTTVWAHHLS 111 (390)
T ss_pred CCCcCCCCCceEeeeeeeccCCeEEEEecCCCCCCcCCCeEEeeeEEEeCCCeEEEEEEEEEECCCCcEEeEEEeeccCc
Confidence 444444333468999999999999987654 479999999999999988744410 000000
Q ss_pred ----CCCCCCCCcceEEEeccccCCCc----CChh-------hc--------chHHhcCCCCCc-eEEEEEeCCCCC---
Q psy451 166 ----YRGEPKRKLGCLLVGAESGDPSL----YTKE-------YC--------GLFKNSGVPPKK-KLCRFIITPDAM--- 218 (296)
Q Consensus 166 ----~~~~~kdgY~avqVG~~~~~~~~----~tKp-------~~--------G~F~kaGv~pKr-~L~EFrVs~~a~--- 218 (296)
|... ++-|.+-.-+|...+.++ ..+. ++ -+-++..++-|+ +|.|++|.....
T Consensus 112 ~e~~rr~y-k~~~~s~k~af~k~~~~~~~~~~~~~~~~~l~k~~~~IRvi~hTqp~~~~l~kKkp~imEiqv~GGsv~~k 190 (390)
T PTZ00103 112 DEFRRRFY-KNWYKSKKKAFTKYKKFAATKKAEERTLKRIKKYCSVIRVIAHTQPSKLPLGQKKAHVMEIQVNGGSVAEK 190 (390)
T ss_pred HHHhhhhc-cccchhhhhhhhhhhhhhcchhhHHHHHHHHhhcccEEEEEEEcchhhcCcCCcCccEEEEeecCCCHHHH
Confidence 0000 111111111111100000 0000 11 000122355554 999999987531
Q ss_pred -----CCCCCeeec-ccCCCCCeeEEEEEeeeeccccceeeeccCCCCC-CCCCCCCcCCCcccCCCCCCCcccCCCcCC
Q psy451 219 -----LPPGTPLTA-AHFRPREFLDVRGLTVDRGFQGVMKRWGFKGMPA-THGVTKSHRRGGCIASGAGKARVYPGGVLQ 291 (296)
Q Consensus 219 -----l~~Gt~L~a-~hF~~Gq~VDV~G~TkGKGFqGVmKRwGFkGgPa-SHG~sK~HRrpGSIG~~~~PgRV~pGkKMp 291 (296)
=.+|++|++ ++|++||+|||+|+|||||||||||||||+++|+ ||| .||++||||+| +|+||++|++||
T Consensus 191 ~d~a~~llgk~i~v~dvF~~ge~VDVigvTKGKGfqGvvKRwg~~~~p~ktH~---~~RkvGsiG~w-~P~RV~~~v~~a 266 (390)
T PTZ00103 191 VDFAKSLLEKEVPVDSVFQQNEMIDVIGVTKGHGFEGVVKRWGVTRLPRKTHR---GLRKVACIGAW-HPARVQYTVPRA 266 (390)
T ss_pred HHHHHHHhcCeechhhhccCCCEeeeEEEEcCCccccCeeccccCCCCccccC---CCCCCCccCCC-CCCcccCCCccC
Confidence 146999999 7999999999999999999999999999999996 999 59999999998 699999999999
Q ss_pred CCCCC
Q psy451 292 RGLKC 296 (296)
Q Consensus 292 G~mG~ 296 (296)
||||+
T Consensus 267 GQmG~ 271 (390)
T PTZ00103 267 GQHGY 271 (390)
T ss_pred cCCCC
Confidence 99995
No 10
>KOG0746|consensus
Probab=99.54 E-value=5.9e-15 Score=140.80 Aligned_cols=176 Identities=20% Similarity=0.211 Sum_probs=117.1
Q ss_pred ceeeeeEEEeecceeecC---CC-------cEEEeeEEEecCeEEEEEeCCCC----CCCC----------CCCCCCCCC
Q psy451 116 KRTGLIGKIIGQYPLWMK---NG-------EKCRTTLVQVVDNHIIKYIPPEE----FKPN----------RKPYRGEPK 171 (296)
Q Consensus 116 ~r~GlIg~KiGMt~i~~~---~G-------~~vpvTVLqv~pn~Vv~~kt~E~----~~~~----------~~~~~~~~k 171 (296)
..+++||+|.|||+|..+ -| ..-+||||+.+|..|+.+.-..+ .... ...|... +
T Consensus 29 hlT~FlgYKAGMThivRe~drpgsK~~kkEv~eAVTi~etPpmvVvgvvgyv~Tp~Glr~l~tv~A~hlSde~~Rrfy-k 107 (384)
T KOG0746|consen 29 HLTAFLGYKAGMTHIVREVDRPGSKVNKKEVVEAVTIVETPPMVVVGIVGYVETPRGLRTLKTVWAEHLSDECKRRFY-K 107 (384)
T ss_pred eEeeeecccccceeeehhhcCcccccchhhheeeEEEeccCCEEEEEEeeeeecCchHHHHHHHHHHHhhHHHHHHHH-H
Confidence 467999999999999865 23 46799999999999998753321 1100 0001011 2
Q ss_pred CCcceEEEeccccCC--------CcCC------hhhcc--------hHHhcCC-CCCceEEEEEeCCCCC--------CC
Q psy451 172 RKLGCLLVGAESGDP--------SLYT------KEYCG--------LFKNSGV-PPKKKLCRFIITPDAM--------LP 220 (296)
Q Consensus 172 dgY~avqVG~~~~~~--------~~~t------Kp~~G--------~F~kaGv-~pKr~L~EFrVs~~a~--------l~ 220 (296)
|.|.+-.-++..... +.+. |.|+- +.+..-+ .-|.||+|++|+.... -.
T Consensus 108 nw~kskkkaft~~~k~~~~~~gk~~~~~~~~~~kky~~virv~ahtq~~~~~l~qkkahlmeiqvngGtia~KvdwA~~~ 187 (384)
T KOG0746|consen 108 NWHKSKKKAFTKYCKKWQDEDGKKQLEKDFSSMKKYCQVIRVIAHTQMRLLPLRQKKAHLMEIQVNGGTVAEKVDWARER 187 (384)
T ss_pred hhhhhhhHHHHHHhhhhhhhhcchhhHHHHHHHHhhhheeeeeeechhhhhhhhhhhhhheeeeecCCcHHHHhHHHHhh
Confidence 222211100000000 0000 11110 0011111 2368999999987642 13
Q ss_pred CCCeeecc-cCCCCCeeEEEEEeeeeccccceeeeccCCCC-CCCCCCCCcCCCcccCCCCCCCcccCCCcCCCCCCC
Q psy451 221 PGTPLTAA-HFRPREFLDVRGLTVDRGFQGVMKRWGFKGMP-ATHGVTKSHRRGGCIASGAGKARVYPGGVLQRGLKC 296 (296)
Q Consensus 221 ~Gt~L~a~-hF~~Gq~VDV~G~TkGKGFqGVmKRwGFkGgP-aSHG~sK~HRrpGSIG~~~~PgRV~pGkKMpG~mG~ 296 (296)
..+++.++ .|...+.+||+|.|+|+||.||..|||-+..| .||. .-|...|||+|. |+||-...-+|||+|.
T Consensus 188 lEkqv~v~~vF~qdemId~IgvtkGkGykGvt~rw~tkklprkthr---glrkvacigawh-pa~V~~sVaRaGqkgy 261 (384)
T KOG0746|consen 188 LEKQVPVNQVFGQDEMIDVIGVTKGKGYKGVTSRWHTKKLPRKTHR---GLRKVACIGAWH-PARVAFSVARAGQKGY 261 (384)
T ss_pred hhccCchhhccccccccceeeeeecccccccccccccccCcchhcc---cchheeeccccc-ccceeeeeeccccccc
Confidence 56777774 89999999999999999999999999999999 5664 689999999997 8999999999999984
No 11
>smart00739 KOW KOW (Kyprides, Ouzounis, Woese) motif. Motif in ribosomal proteins, NusG, Spt5p, KIN17 and T54.
Probab=60.69 E-value=9.2 Score=23.08 Aligned_cols=26 Identities=15% Similarity=0.106 Sum_probs=21.5
Q ss_pred cCCCCCeeEEEEEeeeeccccceeeec
Q psy451 229 HFRPREFLDVRGLTVDRGFQGVMKRWG 255 (296)
Q Consensus 229 hF~~Gq~VDV~G~TkGKGFqGVmKRwG 255 (296)
.|++|+.|-|++ -.-+|+.|.+.+..
T Consensus 1 ~~~~G~~V~I~~-G~~~g~~g~i~~i~ 26 (28)
T smart00739 1 KFEVGDTVRVIA-GPFKGKVGKVLEVD 26 (28)
T ss_pred CCCCCCEEEEeE-CCCCCcEEEEEEEc
Confidence 378999999998 56889999988764
No 12
>PF13629 T2SS-T3SS_pil_N: Pilus formation protein N terminal region
Probab=50.78 E-value=35 Score=25.77 Aligned_cols=30 Identities=27% Similarity=0.393 Sum_probs=23.0
Q ss_pred CceeeeeEEEeecce--eecCCCcEEEeeEEE
Q psy451 115 SKRTGLIGKIIGQYP--LWMKNGEKCRTTLVQ 144 (296)
Q Consensus 115 s~r~GlIg~KiGMt~--i~~~~G~~vpvTVLq 144 (296)
.+..-++|+|.|.|. +||++|...-..-+.
T Consensus 39 ~~~v~i~gk~~G~T~l~vw~~~~~~~~~~~V~ 70 (72)
T PF13629_consen 39 PNEVYITGKKPGTTTLIVWDKDGRVIQTYDVR 70 (72)
T ss_pred CCEEEEEEeCceeEEEEEECCCCCEEEEEEEE
Confidence 357789999999998 899999854443333
No 13
>PF00970 FAD_binding_6: Oxidoreductase FAD-binding domain; InterPro: IPR008333 These sequences contain an oxidoreductase FAD-binding domain. To date, the 3D-structures of the flavoprotein domain of Zea mays (Maize) nitrate reductase [] and of pig NADH:cytochrome b5 reductase [] have been solved. The overall fold is similar to that of ferredoxin:NADP+ reductase []: the FAD-binding domain (N-terminal) has the topology of an anti-parallel beta-barrel, while the NAD(P)-binding domain (C-terminal) has the topology of a classical pyridine dinucleotide-binding fold (i.e. a central parallel beta-sheet flanked by 2 helices on each side).; PDB: 1JB9_A 3LVB_A 3LO8_A 1FRN_A 1FND_A 1BX1_A 1FNC_A 1FNB_A 1BX0_A 1FRQ_A ....
Probab=26.18 E-value=97 Score=23.62 Aligned_cols=14 Identities=36% Similarity=0.691 Sum_probs=10.9
Q ss_pred ccCCCCCeeEEEEE
Q psy451 228 AHFRPREFLDVRGL 241 (296)
Q Consensus 228 ~hF~~Gq~VDV~G~ 241 (296)
..|.+||||.|+..
T Consensus 28 ~~~~pGQ~v~v~~~ 41 (99)
T PF00970_consen 28 LDFKPGQFVSVRVP 41 (99)
T ss_dssp -SSTTT-EEEEEEE
T ss_pred cccCcceEEEEEEc
Confidence 57899999999988
No 14
>PF11325 DUF3127: Domain of unknown function (DUF3127); InterPro: IPR021474 This bacterial family of proteins has no known function.
Probab=25.92 E-value=1.1e+02 Score=24.54 Aligned_cols=28 Identities=18% Similarity=0.272 Sum_probs=22.4
Q ss_pred CCeeec-ccCCCCCeeEEEEEeeeecccc
Q psy451 222 GTPLTA-AHFRPREFLDVRGLTVDRGFQG 249 (296)
Q Consensus 222 Gt~L~a-~hF~~Gq~VDV~G~TkGKGFqG 249 (296)
|+.++. +.|.+||.|.|+-.=.|+=++|
T Consensus 44 ~dk~~~l~~~~~Gd~V~Vsf~i~~RE~~g 72 (84)
T PF11325_consen 44 GDKIDLLDNFQVGDEVKVSFNIEGREWNG 72 (84)
T ss_pred cchhhhhccCCCCCEEEEEEEeeccEecc
Confidence 677776 7888999999988888877773
No 15
>COG1551 CsrA RNA-binding global regulator CsrA [Signal transduction mechanisms]
Probab=24.11 E-value=1.3e+02 Score=23.94 Aligned_cols=35 Identities=11% Similarity=0.294 Sum_probs=26.2
Q ss_pred eeEEEeecceeecCCCcEEEeeEEEecCeEEE-EEeCCC
Q psy451 120 LIGKIIGQYPLWMKNGEKCRTTLVQVVDNHII-KYIPPE 157 (296)
Q Consensus 120 lIg~KiGMt~i~~~~G~~vpvTVLqv~pn~Vv-~~kt~E 157 (296)
++.+|+|-+=+..+| |-+|||++..|+|- .+.-|+
T Consensus 3 ILsRk~~Esi~Igdd---I~itVl~i~gnqVkiGi~APk 38 (73)
T COG1551 3 ILSRKVGESIMIGDD---IEITVLSIKGNQVKIGINAPK 38 (73)
T ss_pred eEEeecCceEEecCC---eEEEEEEEcCCeEEEeecCCh
Confidence 578888887776544 88999999998873 555444
No 16
>COG1018 Hmp Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]
Probab=22.79 E-value=1.1e+02 Score=28.90 Aligned_cols=47 Identities=17% Similarity=0.440 Sum_probs=30.2
Q ss_pred ceEEEEEeCCCCCCCCCCeeecccCCCCCeeEEEEEeeeeccccceeeeccCCCCCC
Q psy451 206 KKLCRFIITPDAMLPPGTPLTAAHFRPREFLDVRGLTVDRGFQGVMKRWGFKGMPAT 262 (296)
Q Consensus 206 r~L~EFrVs~~a~l~~Gt~L~a~hF~~Gq~VDV~G~TkGKGFqGVmKRwGFkGgPaS 262 (296)
..+..|.+.+.. |-.+ .|++||||+|.=...|+ .++.=|-....|..
T Consensus 18 ~di~sf~l~~~~----g~~~---~f~pGQ~i~v~l~~~~~---~~~R~YSl~s~p~~ 64 (266)
T COG1018 18 DDVFSFTLEPPD----GLRL---DFEPGQYITVGLPNGGE---PLLRAYSLSSAPDE 64 (266)
T ss_pred CceEEEEEEcCC----CCcc---ccCCCCeEEEEecCCCc---eeeEEEEeccCCCC
Confidence 346666665543 3333 89999999997776666 55555666665543
No 17
>PRK00568 carbon storage regulator; Provisional
Probab=21.74 E-value=1.5e+02 Score=23.59 Aligned_cols=35 Identities=6% Similarity=0.204 Sum_probs=25.5
Q ss_pred eeEEEeecceeecCCCcEEEeeEEEecCeEEE-EEeCCC
Q psy451 120 LIGKIIGQYPLWMKNGEKCRTTLVQVVDNHII-KYIPPE 157 (296)
Q Consensus 120 lIg~KiGMt~i~~~~G~~vpvTVLqv~pn~Vv-~~kt~E 157 (296)
++.+|.|-+=+..+ -|-+||+++..++|- .+.-|.
T Consensus 3 VLtRK~gEsI~Igd---~I~I~Vl~i~g~~VrlGI~AP~ 38 (76)
T PRK00568 3 ILSRKVNEGIVIDD---NIHIKVISIDRGSVRLGFEAPE 38 (76)
T ss_pred eEEeeCCCeEEeCC---CeEEEEEEEcCCEEEEEEECCC
Confidence 57889998876644 489999999988863 444444
No 18
>PRK04306 50S ribosomal protein L21e; Reviewed
Probab=21.51 E-value=60 Score=26.91 Aligned_cols=15 Identities=7% Similarity=-0.017 Sum_probs=12.4
Q ss_pred cccCCCCCeeEEEEE
Q psy451 227 AAHFRPREFLDVRGL 241 (296)
Q Consensus 227 a~hF~~Gq~VDV~G~ 241 (296)
...|++||+|||.+.
T Consensus 32 l~~y~~Gd~V~I~~d 46 (98)
T PRK04306 32 LQEFEEGDKVHIVID 46 (98)
T ss_pred HHhccCCCEEEEEec
Confidence 356999999999875
No 19
>PRK01712 carbon storage regulator; Provisional
Probab=20.77 E-value=1.5e+02 Score=22.88 Aligned_cols=35 Identities=14% Similarity=0.261 Sum_probs=25.5
Q ss_pred eeEEEeecceeecCCCcEEEeeEEEecCeEEE-EEeCCC
Q psy451 120 LIGKIIGQYPLWMKNGEKCRTTLVQVVDNHII-KYIPPE 157 (296)
Q Consensus 120 lIg~KiGMt~i~~~~G~~vpvTVLqv~pn~Vv-~~kt~E 157 (296)
++.+|.|-+=+..+ -|-+||+++.+++|- .+..|.
T Consensus 3 vLtRk~gE~I~Igd---~I~I~V~~i~~~~VrlGI~AP~ 38 (64)
T PRK01712 3 ILTRKVGESLMIGD---DIEVTVLGVKGNQVRIGINAPK 38 (64)
T ss_pred eEEccCCCEEEeCC---CEEEEEEEEeCCEEEEEEECCC
Confidence 57888888877654 489999999888763 554444
Done!