Query psy7821
Match_columns 231
No_of_seqs 249 out of 489
Neff 3.7
Searched_HMMs 46136
Date Fri Aug 16 19:46:37 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy7821.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/7821hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1678|consensus 100.0 9.1E-81 2E-85 530.6 7.3 160 70-231 1-204 (204)
2 PTZ00026 60S ribosomal protein 100.0 4.5E-74 9.8E-79 497.6 9.6 159 70-231 1-204 (204)
3 PF00827 Ribosomal_L15e: Ribos 100.0 4E-71 8.7E-76 476.1 9.5 173 2-220 1-192 (192)
4 PRK04243 50S ribosomal protein 100.0 1E-70 2.3E-75 474.3 5.6 174 1-220 3-193 (196)
5 COG1632 RPL15A Ribosomal prote 100.0 1.6E-57 3.5E-62 391.3 4.5 177 1-231 2-194 (195)
6 PTZ00026 60S ribosomal protein 100.0 6.6E-39 1.4E-43 278.4 4.4 109 1-146 1-112 (204)
7 PRK04243 50S ribosomal protein 100.0 1.5E-36 3.3E-41 262.4 8.6 132 69-206 2-170 (196)
8 KOG1678|consensus 100.0 9.4E-34 2E-38 242.4 2.8 129 1-166 1-142 (204)
9 PF00827 Ribosomal_L15e: Ribos 100.0 1.4E-31 3E-36 231.3 3.6 125 71-201 1-163 (192)
10 COG1632 RPL15A Ribosomal prote 99.9 9.3E-25 2E-29 188.8 6.9 134 70-206 2-169 (195)
No 1
>KOG1678|consensus
Probab=100.00 E-value=9.1e-81 Score=530.61 Aligned_cols=160 Identities=62% Similarity=1.115 Sum_probs=158.1
Q ss_pred chHHHHHHHHHhhhcchhHHHHHhhhhhhhccCCceeeeCCCCCCchhhhccccccccceeEEEEEEEeecCCCCCC---
Q psy7821 70 MGAYRFISELYRKKQSDVMRYIHRIRVWQYRQLTTLHRAPRPTRPDKARRMGYRAKQVTLFSVQRYDVEEGNVQYPR--- 146 (231)
Q Consensus 70 MgaYKYV~elwrkkqsdv~~~l~r~r~w~yrq~~~v~R~~RPtr~drArrLGyKaKqG~~~vi~Rv~vrRggrK~p~--- 146 (231)
||||+|++|||++||||||+||+|+|||||||+++|||+++||+||+|++|||||||| ||||||+|++||+|+|+
T Consensus 1 MgAykY~~El~rkKQSDvmrfLlRvr~weYrQ~~~~hr~~rPtrpdkARrLGYkAKQG--~viYrirVrrG~rKrpvpkG 78 (204)
T KOG1678|consen 1 MGAYKYLQELWRKKQSDVMRFLLRVRCWEYRQLSAIHRAPRPTRPDKARRLGYKAKQG--YVIYRIRVRRGGRKRPVPKG 78 (204)
T ss_pred CcHHHHHHHHHHHHHhHHHHHHHHHHHHHHhhhhhhhcCCCCCCchHHHhccccccce--eEEEEEEEecCCccCCCCCC
Confidence 9999999999999999999999999999999999999999999999999999999999 99999999999999999
Q ss_pred ----CC------------Ccchhhhhh----------ccc---------hhhhhh------hhhhcCCCCcccccCCccc
Q psy7821 147 ----VP------------TMNVSAEDV----------VTS---------VFLKLL------LAIRRDPKVNWICKPVHKH 185 (231)
Q Consensus 147 ----kp------------~~q~iaeer----------lnS---------k~~EvI------~~Ir~d~~~~wi~~~~hk~ 185 (231)
|| |+|++|||| ||| |||||| +||++||+|||||+|||||
T Consensus 79 ~tyGKp~~~GvnqlK~~rs~qs~AEer~Gr~~g~LrVlNSYWv~qDstYk~fEVIlvDp~h~aIRrdp~~nwI~kpvhKh 158 (204)
T KOG1678|consen 79 ATYGKPVNQGVNQLKFQRSLQSVAEERAGRRCGNLRVLNSYWVNQDSTYKYFEVILVDPFHKAIRRDPRINWICKPVHKH 158 (204)
T ss_pred CccCCccccchhhhhhhHHHHHHHHHHhhccccceeeeehhhccCccceeeEEEEEECcHHHHHhcCCCcccccchhhhh
Confidence 66 899999999 999 999999 9999999999999999999
Q ss_pred ccccCCccccccccCCCCCCCcccccCCCccceeeccceeeeeecC
Q psy7821 186 REMRGLTSISKKSRGLGKGHGFAQTIGGSRHAAWVRRNTLELRRKR 231 (231)
Q Consensus 186 r~~rglTsag~k~rgl~kg~~~~~~~g~s~~a~w~r~n~~~l~r~r 231 (231)
||+|||||||+|||||||||+|++|+|||++|+|+|+|||+|+|||
T Consensus 159 RE~rGLTsagkksrGlgKg~kf~~t~~gs~ra~Wkr~ntl~l~ryr 204 (204)
T KOG1678|consen 159 RELRGLTSAGKKSRGLGKGHKFNKTIGGSRRATWKRRNTLSLHRYR 204 (204)
T ss_pred HHhcccccccccccCcccccccccCCCchhHHHHhhcccceeeecC
Confidence 9999999999999999999999999999999999999999999997
No 2
>PTZ00026 60S ribosomal protein L15; Provisional
Probab=100.00 E-value=4.5e-74 Score=497.61 Aligned_cols=159 Identities=55% Similarity=0.986 Sum_probs=156.8
Q ss_pred chHHHHHHHHHhhhcchhHHHHHhhhhhhhccCCceeeeCCCCCCchhhhccccccccceeEEEEEEEeecCCCCCC---
Q psy7821 70 MGAYRFISELYRKKQSDVMRYIHRIRVWQYRQLTTLHRAPRPTRPDKARRMGYRAKQVTLFSVQRYDVEEGNVQYPR--- 146 (231)
Q Consensus 70 MgaYKYV~elwrkkqsdv~~~l~r~r~w~yrq~~~v~R~~RPtr~drArrLGyKaKqG~~~vi~Rv~vrRggrK~p~--- 146 (231)
||||+||+|+|++||||+|+||+++|||||||+++|+|+++|||||||++|||||||| |||+||+|++||+|+|+
T Consensus 1 Mg~Y~yi~e~wkkkqsd~~r~l~r~R~we~Rq~~~i~R~~rPTR~DkAR~LGYKAKQG--~vv~RvrVRrGgrkr~~~kg 78 (204)
T PTZ00026 1 MGAYKYLNELWKKKQSDVMRFLLRVRTWEYRQLPVIHRVSRPTRPDKARRLGYKAKQG--FVIYRVRVRRGGRKRPVRKG 78 (204)
T ss_pred CcHHHHHHHHHhcccchHHHHHHHHHHHHHhcCCceEEcCCCCChhHHHHcCCcccce--EEEEEEEEeeCCCCCCccCC
Confidence 9999999999999999999999999999999999999999999999999999999999 99999999999999998
Q ss_pred ----CC------------Ccchhhhhh----------ccc---------hhhhhh------hhhhcCCCCcccccCCccc
Q psy7821 147 ----VP------------TMNVSAEDV----------VTS---------VFLKLL------LAIRRDPKVNWICKPVHKH 185 (231)
Q Consensus 147 ----kp------------~~q~iaeer----------lnS---------k~~EvI------~~Ir~d~~~~wi~~~~hk~ 185 (231)
|| |||+||||| ||| |||||| |+|++||+|||||+|+|||
T Consensus 79 ~~~gkpk~~Gv~~lk~~kslq~iAEeRv~rk~~nLrVLNSYWV~qDg~yK~yEVILvDp~H~aIr~Dp~~nWI~~~~hk~ 158 (204)
T PTZ00026 79 IVYGKPKTQGVNKLKSTRNLRAVAEERVGKRCGNLRVLNSYWVGQDSTYKFYEVILVDPFHNAIRNDPRINWICNPVHKH 158 (204)
T ss_pred CCCCCccccCccccCcchhHHHHHHHHhhccCCCcEEecceeEcCCCCcccEEEEEecCCCccceeCcccceecccccch
Confidence 66 899999999 999 999999 9999999999999999999
Q ss_pred ccccCCccccccccCC-CCCCCcccccCCCccceeeccceeeeeecC
Q psy7821 186 REMRGLTSISKKSRGL-GKGHGFAQTIGGSRHAAWVRRNTLELRRKR 231 (231)
Q Consensus 186 r~~rglTsag~k~rgl-~kg~~~~~~~g~s~~a~w~r~n~~~l~r~r 231 (231)
||||||||||+|+||| +|||+++||+ ||++|+|+++|||+|+|||
T Consensus 159 Re~RGLTsAGkK~RGL~~kG~~~~k~r-~s~ra~~~r~n~~~l~r~r 204 (204)
T PTZ00026 159 RELRGLTSAGRKSRGLRVKGHRASKLR-PSRRANWKRRNRIVLRRYR 204 (204)
T ss_pred hhhccccccccccCCcCCCCCCcccCC-cchhhhhhhccceeeEecC
Confidence 9999999999999999 9999999998 9999999999999999997
No 3
>PF00827 Ribosomal_L15e: Ribosomal L15; InterPro: IPR000439 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 [, ]. A number of eukaryotic and archaebacterial ribosomal proteins can be grouped on the basis of sequence similarities []. One of these families consists of: Mammalian L15. Insect L15. Plant L15. Yeast YL10 (L13) (Rp15r). Archaebacterial L15e. These proteins have about 200 amino acid residues.; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 3IZR_P 4A1E_L 4A17_L 4A1A_L 4A1C_L 2ZKR_m 3IZS_P 1S1I_L 3O58_O 3O5H_O ....
Probab=100.00 E-value=4e-71 Score=476.14 Aligned_cols=173 Identities=53% Similarity=0.923 Sum_probs=147.9
Q ss_pred chHHHHHHHHhccCchHHHHHHHHHHHHHhcCCceeecCCCCChhhhhhhccccccceEEeecCCCccchHHHHHHHHHh
Q psy7821 2 GAYRFISELYRKKQSDVMRYIHRIRVWQYRQLTTLHRAPRPTRPDKARRMGYRAKQGGKLPRSNTSSIMGAYRFISELYR 81 (231)
Q Consensus 2 gaYkYi~elwkkkqsd~~~~l~r~R~we~Rq~~ai~Rv~rPTR~dkARrLGYKAKQG~vv~R~~~s~~MgaYKYV~elwr 81 (231)
|||+||+|+|++||||+|+||+++|||||||+|+|||||+||||||||+|||||||||||+|++| +
T Consensus 1 g~Ykyi~e~wk~k~~d~~~~l~r~R~~e~R~~~av~Ri~rPtR~dkAR~LGYKAKQG~vv~RvrV--------------r 66 (192)
T PF00827_consen 1 GAYKYIRELWKKKQSDVMRFLLRIRLWEWRQLPAVHRIERPTRPDKARRLGYKAKQGYVVYRVRV--------------R 66 (192)
T ss_dssp -SHHHHHHHHHTTTSHHHHHHHHHHHHHHHHS-SEEEESS-SSHHHHHHTT-SSSTTEEEEEEEE--------------E
T ss_pred CHHHHHHHHHhcccchHHHHHHHHHHHHHhcCCceEECCCCCCccHHHHcCCccCCeEEEEEEEE--------------e
Confidence 79999999999999999999999999999999999999999999999999999999999999999 3
Q ss_pred hhcchhHHHHHhhhhhhhccCCceeeeCCCCCCc--hhhhccc-cccccceeEEEEEEEeecCCCCCCCCCcchhhhhhc
Q psy7821 82 KKQSDVMRYIHRIRVWQYRQLTTLHRAPRPTRPD--KARRMGY-RAKQVTLFSVQRYDVEEGNVQYPRVPTMNVSAEDVV 158 (231)
Q Consensus 82 kkqsdv~~~l~r~r~w~yrq~~~v~R~~RPtr~d--rArrLGy-KaKqG~~~vi~Rv~vrRggrK~p~kp~~q~iaeerl 158 (231)
+ ++ .+.++|..+. |++++|. ++|.+ .+++.|+|+|+|+++|| |. -|
T Consensus 67 r-------------------Gg--rkr~~~kg~~~gKPk~~Gv~~~k~~--kslq~iAEeRagrk~~n---Lr-----VL 115 (192)
T PF00827_consen 67 R-------------------GG--RKRPRPKGGRYGKPKHQGVNQLKPA--KSLQSIAEERAGRKYPN---LR-----VL 115 (192)
T ss_dssp S-------------------SS-----SSSSSSSTSSCGGSSSTSS--S--S-HHHHHHHHHHHHSTT---SE-----EE
T ss_pred c-------------------CC--CCCcccCCccccccccceeeccCcc--ccHHHHhhhhhccccCC---ce-----EE
Confidence 3 56 7889999999 9999999 89988 55555555555555533 21 29
Q ss_pred cc---------hhhhhh------hhhhcCCCCcccccCCcccccccCCccccccccCC-CCCCCcccccCCCccceee
Q psy7821 159 TS---------VFLKLL------LAIRRDPKVNWICKPVHKHREMRGLTSISKKSRGL-GKGHGFAQTIGGSRHAAWV 220 (231)
Q Consensus 159 nS---------k~~EvI------~~Ir~d~~~~wi~~~~hk~r~~rglTsag~k~rgl-~kg~~~~~~~g~s~~a~w~ 220 (231)
|| |||||| |+|++||+|||||+|+|||||||||||||+|+||| +|||+++||+ ||.+|+|+
T Consensus 116 nSYwV~eDg~yK~fEVIlVDp~h~~Ir~D~~~nWI~~~~hk~R~~RGLTsAgkk~RGL~~kG~~~~k~r-pS~ra~wk 192 (192)
T PF00827_consen 116 NSYWVGEDGTYKWFEVILVDPNHPAIRNDPDINWICNPVHKHREFRGLTSAGKKSRGLRGKGHGAEKTR-PSRRANWK 192 (192)
T ss_dssp EEEEEEEESSEEEEEEEEE-TTSHHHHTTTTTGGGGSGGGTTTTTTTTSHHHHHHTTTT-SSTTCGGTS-STTTTTCC
T ss_pred eeEEeCCCCcceeEEEEEecCCcHHHhcCCccceecccccCccccccccchhhhhcccccCccccccCC-cccccccC
Confidence 99 999999 99999999999999999999999999999999999 9999999999 99999996
No 4
>PRK04243 50S ribosomal protein L15e; Validated
Probab=100.00 E-value=1e-70 Score=474.35 Aligned_cols=174 Identities=36% Similarity=0.604 Sum_probs=164.0
Q ss_pred CchHHHHHHHHhccCchHHHHHHHHHHHHHhcCCceeecCCCCChhhhhhhccccccceEEeecCCCccchHHHHHHHHH
Q psy7821 1 MGAYRFISELYRKKQSDVMRYIHRIRVWQYRQLTTLHRAPRPTRPDKARRMGYRAKQGGKLPRSNTSSIMGAYRFISELY 80 (231)
Q Consensus 1 mgaYkYi~elwkkkqsd~~~~l~r~R~we~Rq~~ai~Rv~rPTR~dkARrLGYKAKQG~vv~R~~~s~~MgaYKYV~elw 80 (231)
||||+||+|+|++||||+|+||+++|||||||+|+||||++||||||||+|||||||||||+|++|
T Consensus 3 m~~Y~yi~e~wkk~~~~~~~~L~r~R~~e~R~~~~i~Rv~rPTR~DrAR~LGYKAKQG~vv~RvrV-------------- 68 (196)
T PRK04243 3 MSMYSYIREAWKRPKESYVGELMWQRLQEWRREPAVVRIERPTRLDRARALGYKAKQGIVVVRVRV-------------- 68 (196)
T ss_pred ccHHHHHHHHHhccchHHHHHHHHHHHHHHhccCceEEcCCCCChhHHHHcCccccceEEEEEEEe--------------
Confidence 899999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhhcchhHHHHHhhhhhhhccCCceeeeCCCCCCchhhhccc-cccccceeEEEEEEEeecCCCCCCCCCcchhhhhhcc
Q psy7821 81 RKKQSDVMRYIHRIRVWQYRQLTTLHRAPRPTRPDKARRMGY-RAKQVTLFSVQRYDVEEGNVQYPRVPTMNVSAEDVVT 159 (231)
Q Consensus 81 rkkqsdv~~~l~r~r~w~yrq~~~v~R~~RPtr~drArrLGy-KaKqG~~~vi~Rv~vrRggrK~p~kp~~q~iaeerln 159 (231)
++ ++ .+.++|..+.|+++||+ ++|+. .+++.|+|||+|+++|| | |-||
T Consensus 69 Rr-------------------Gg--rkr~~~kg~~kPk~~Gv~~lk~~--kslq~iAEERa~rk~~n---l-----rVLN 117 (196)
T PRK04243 69 RR-------------------GG--LRKPRPKGGRRPKRMGVNKITPA--KSIQRIAEERAARKYPN---L-----EVLN 117 (196)
T ss_pred cc-------------------CC--CCCCCcCCCCCccccCccccchh--hhHHHHHHHHhhccCCC---c-----Eeee
Confidence 33 66 78999999999999999 89999 99999999999999965 2 1399
Q ss_pred c---------hhhhhh------hhhhcCCCCcccccCCcccccccCCccccccccCC-CCCCCcccccCCCccceee
Q psy7821 160 S---------VFLKLL------LAIRRDPKVNWICKPVHKHREMRGLTSISKKSRGL-GKGHGFAQTIGGSRHAAWV 220 (231)
Q Consensus 160 S---------k~~EvI------~~Ir~d~~~~wi~~~~hk~r~~rglTsag~k~rgl-~kg~~~~~~~g~s~~a~w~ 220 (231)
| |||||| |+|++||+|||||+|+|||||||||||||+|+||| +|||+++||+ ||.+|+=+
T Consensus 118 SYwV~qDg~yK~fEVIlVDp~H~aIr~Dp~~nWI~~~~~k~R~~RGLTSAGkK~RGl~~kg~~~~k~r-ps~ra~~~ 193 (196)
T PRK04243 118 SYWVGEDGKYKWYEVILVDPHHPAIKNDPDLNWICDKSHRGRVFRGLTSAGKKGRGLRKKGKGTEKVR-PSIRANER 193 (196)
T ss_pred eeEeccCCCcccEEEEEecCCCcchhcCcccceecccccchhhhhcccccccccccccccCCCceecC-cccccccc
Confidence 9 999999 99999999999999999999999999999999999 9999999998 89888744
No 5
>COG1632 RPL15A Ribosomal protein L15E [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=1.6e-57 Score=391.32 Aligned_cols=177 Identities=40% Similarity=0.665 Sum_probs=164.0
Q ss_pred CchHHHHHHHHhccCchHHHHHHHHHHHHHhcCCceeecCCCCChhhhhhhccccccceEEeecCCCccchHHHHHHHHH
Q psy7821 1 MGAYRFISELYRKKQSDVMRYIHRIRVWQYRQLTTLHRAPRPTRPDKARRMGYRAKQGGKLPRSNTSSIMGAYRFISELY 80 (231)
Q Consensus 1 mgaYkYi~elwkkkqsd~~~~l~r~R~we~Rq~~ai~Rv~rPTR~dkARrLGYKAKQG~vv~R~~~s~~MgaYKYV~elw 80 (231)
||||+||.|+|++++++++.+|+++|+|+||++|+|+||++|||+|+||.|||||||||||+|++|
T Consensus 2 ~~~y~yv~e~wkk~~~~~~~~l~~~r~~~wR~~~~i~R~erPTrldrAR~LGykaKqG~vvvrvrV-------------- 67 (195)
T COG1632 2 RSAYKYIREAWKKPKESVVRELLRQRLIEWRKEPSIVRIERPTRLDRARALGYKAKQGYVVVRVRV-------------- 67 (195)
T ss_pred ccHHHHHHHHHhCchHHHHhHHHhHHHHhhccCCceEEecCCCHHHHHHhcCCcccCceEEEEEee--------------
Confidence 689999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhhcchhHHHHHhhhhhhhccCCceeeeCCCCCCchhhhccc-cccccceeEEEEEEEeecCCCCCCCCCcchhhhhhcc
Q psy7821 81 RKKQSDVMRYIHRIRVWQYRQLTTLHRAPRPTRPDKARRMGY-RAKQVTLFSVQRYDVEEGNVQYPRVPTMNVSAEDVVT 159 (231)
Q Consensus 81 rkkqsdv~~~l~r~r~w~yrq~~~v~R~~RPtr~drArrLGy-KaKqG~~~vi~Rv~vrRggrK~p~kp~~q~iaeerln 159 (231)
++ ++ .+.+||..++++.+||+ +++.+ .++++|+|+++|+|+|| | |-||
T Consensus 68 rr-------------------G~--~~~~r~~~grrp~~mgvnki~~~--ks~~~iAEerA~RK~pN---L-----~vLn 116 (195)
T COG1632 68 RR-------------------GG--RNRKRPKKGRRPTRMGVNKIKRK--KSLQFIAEERAGRKYPN---L-----EVLN 116 (195)
T ss_pred ec-------------------cc--ccCcCccCCCCcCcccccccChh--hhHHHHHHHHhhccCCC---c-----Eeee
Confidence 22 44 67889999999999999 99999 99999999999999966 3 2388
Q ss_pred c---------hhhhhh------hhhhcCCCCcccccCCcccccccCCccccccccCCCCCCCcccccCCCccceeeccce
Q psy7821 160 S---------VFLKLL------LAIRRDPKVNWICKPVHKHREMRGLTSISKKSRGLGKGHGFAQTIGGSRHAAWVRRNT 224 (231)
Q Consensus 160 S---------k~~EvI------~~Ir~d~~~~wi~~~~hk~r~~rglTsag~k~rgl~kg~~~~~~~g~s~~a~w~r~n~ 224 (231)
| |||||| |||++||+|||||+++|+||++|||||||+|+|||.+|++ .+.|.|.++
T Consensus 117 SYwVgeDg~yK~fEvIlvDp~H~aIk~Dp~l~wI~~~~~kgR~~RgltsagkK~rgl~k~~k---------~~~~~R~~~ 187 (195)
T COG1632 117 SYWVGEDGYYKYFEVILVDPRHPAIKNDPNLNWICRPVHKGRVFRGLTSAGKKSRGLRKGGK---------GAEKKRPST 187 (195)
T ss_pred eEEeccccceeeEEEEEecCCChhhcCCCceeeecccccCCceeccccccchhhhhhhccCC---------cccccCcch
Confidence 8 999999 9999999999999999999999999999999999988774 678888888
Q ss_pred eeeeecC
Q psy7821 225 LELRRKR 231 (231)
Q Consensus 225 ~~l~r~r 231 (231)
..+.+|+
T Consensus 188 ~~~~~~~ 194 (195)
T COG1632 188 RALQRYR 194 (195)
T ss_pred hhhhhhc
Confidence 8887764
No 6
>PTZ00026 60S ribosomal protein L15; Provisional
Probab=100.00 E-value=6.6e-39 Score=278.44 Aligned_cols=109 Identities=42% Similarity=0.729 Sum_probs=104.5
Q ss_pred CchHHHHHHHHhccCchHHHHHHHHHHHHHhcCCceeecCCCCChhhhhhhccccccceEEeecCCCccchHHHHHHHHH
Q psy7821 1 MGAYRFISELYRKKQSDVMRYIHRIRVWQYRQLTTLHRAPRPTRPDKARRMGYRAKQGGKLPRSNTSSIMGAYRFISELY 80 (231)
Q Consensus 1 mgaYkYi~elwkkkqsd~~~~l~r~R~we~Rq~~ai~Rv~rPTR~dkARrLGYKAKQG~vv~R~~~s~~MgaYKYV~elw 80 (231)
||||+||+|+|++||||+|+||+++|||||||+|+||||++||||||||+|||||||||||+|++|
T Consensus 1 Mg~Y~yi~e~wkkkqsd~~r~l~r~R~we~Rq~~~i~R~~rPTR~DkAR~LGYKAKQG~vv~RvrV-------------- 66 (204)
T PTZ00026 1 MGAYKYLNELWKKKQSDVMRFLLRVRTWEYRQLPVIHRVSRPTRPDKARRLGYKAKQGFVIYRVRV-------------- 66 (204)
T ss_pred CcHHHHHHHHHhcccchHHHHHHHHHHHHHhcCCceEEcCCCCChhHHHHcCCcccceEEEEEEEE--------------
Confidence 999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhhcchhHHHHHhhhhhhhccCCceeeeCCCCC--Cchhhhccc-cccccceeEEEEEEEeecCCCCCC
Q psy7821 81 RKKQSDVMRYIHRIRVWQYRQLTTLHRAPRPTR--PDKARRMGY-RAKQVTLFSVQRYDVEEGNVQYPR 146 (231)
Q Consensus 81 rkkqsdv~~~l~r~r~w~yrq~~~v~R~~RPtr--~drArrLGy-KaKqG~~~vi~Rv~vrRggrK~p~ 146 (231)
++ ++ .+.++|.. ..|++++|+ ++|.. .+++.|+|+|+|+++||
T Consensus 67 Rr-------------------Gg--rkr~~~kg~~~gkpk~~Gv~~lk~~--kslq~iAEeRv~rk~~n 112 (204)
T PTZ00026 67 RR-------------------GG--RKRPVRKGIVYGKPKTQGVNKLKST--RNLRAVAEERVGKRCGN 112 (204)
T ss_pred ee-------------------CC--CCCCccCCCCCCCccccCccccCcc--hhHHHHHHHHhhccCCC
Confidence 33 55 78889998 689999999 99999 99999999999999999
No 7
>PRK04243 50S ribosomal protein L15e; Validated
Probab=100.00 E-value=1.5e-36 Score=262.41 Aligned_cols=132 Identities=29% Similarity=0.445 Sum_probs=112.5
Q ss_pred cchHHHHHHHHHhhhcchhHHHHHhhhhhhhccCCceeeeCCCCCCchhhhccccccccceeEEEEEEEeecCCCCCC--
Q psy7821 69 IMGAYRFISELYRKKQSDVMRYIHRIRVWQYRQLTTLHRAPRPTRPDKARRMGYRAKQVTLFSVQRYDVEEGNVQYPR-- 146 (231)
Q Consensus 69 ~MgaYKYV~elwrkkqsdv~~~l~r~r~w~yrq~~~v~R~~RPtr~drArrLGyKaKqG~~~vi~Rv~vrRggrK~p~-- 146 (231)
.||||+||+|+|+++|||+|+||+++|||||||+++|+|++||||||||++|||||||| |||+||+|+|||+|+|+
T Consensus 2 ~m~~Y~yi~e~wkk~~~~~~~~L~r~R~~e~R~~~~i~Rv~rPTR~DrAR~LGYKAKQG--~vv~RvrVRrGgrkr~~~k 79 (196)
T PRK04243 2 AMSMYSYIREAWKRPKESYVGELMWQRLQEWRREPAVVRIERPTRLDRARALGYKAKQG--IVVVRVRVRRGGLRKPRPK 79 (196)
T ss_pred cccHHHHHHHHHhccchHHHHHHHHHHHHHHhccCceEEcCCCCChhHHHHcCccccce--EEEEEEEeccCCCCCCCcC
Confidence 49999999999999999999999999999999999999999999999999999999999 99999999999999998
Q ss_pred ---CC------------Ccchhhhhhccc--hhhhhh--------------hhhhcCCCCcccccCCcccccccCCcc--
Q psy7821 147 ---VP------------TMNVSAEDVVTS--VFLKLL--------------LAIRRDPKVNWICKPVHKHREMRGLTS-- 193 (231)
Q Consensus 147 ---kp------------~~q~iaeerlnS--k~~EvI--------------~~Ir~d~~~~wi~~~~hk~r~~rglTs-- 193 (231)
|| |+|+|||||..- .-.||+ ..|--||.-.-|.++- +...+++
T Consensus 80 g~~kPk~~Gv~~lk~~kslq~iAEERa~rk~~nlrVLNSYwV~qDg~yK~fEVIlVDp~H~aIr~Dp----~~nWI~~~~ 155 (196)
T PRK04243 80 GGRRPKRMGVNKITPAKSIQRIAEERAARKYPNLEVLNSYWVGEDGKYKWYEVILVDPHHPAIKNDP----DLNWICDKS 155 (196)
T ss_pred CCCCccccCccccchhhhHHHHHHHHhhccCCCcEeeeeeEeccCCCcccEEEEEecCCCcchhcCc----ccceecccc
Confidence 66 899999999666 557888 6777777766666533 4445543
Q ss_pred -ccccccCC-CCCCC
Q psy7821 194 -ISKKSRGL-GKGHG 206 (231)
Q Consensus 194 -ag~k~rgl-~kg~~ 206 (231)
-++-.||| .-|.+
T Consensus 156 ~k~R~~RGLTSAGkK 170 (196)
T PRK04243 156 HRGRVFRGLTSAGKK 170 (196)
T ss_pred cchhhhhcccccccc
Confidence 45566788 33443
No 8
>KOG1678|consensus
Probab=99.98 E-value=9.4e-34 Score=242.38 Aligned_cols=129 Identities=43% Similarity=0.678 Sum_probs=104.0
Q ss_pred CchHHHHHHHHhccCchHHHHHHHHHHHHHhcCCceeecCCCCChhhhhhhccccccceEEeecCCCccchHHHHHHHHH
Q psy7821 1 MGAYRFISELYRKKQSDVMRYIHRIRVWQYRQLTTLHRAPRPTRPDKARRMGYRAKQGGKLPRSNTSSIMGAYRFISELY 80 (231)
Q Consensus 1 mgaYkYi~elwkkkqsd~~~~l~r~R~we~Rq~~ai~Rv~rPTR~dkARrLGYKAKQG~vv~R~~~s~~MgaYKYV~elw 80 (231)
||||+||+|||++||||||+||+++|||||||+++|||+++||||||||+|||||||||||.|.+|
T Consensus 1 MgAykY~~El~rkKQSDvmrfLlRvr~weYrQ~~~~hr~~rPtrpdkARrLGYkAKQG~viYrirV-------------- 66 (204)
T KOG1678|consen 1 MGAYKYLQELWRKKQSDVMRFLLRVRCWEYRQLSAIHRAPRPTRPDKARRLGYKAKQGYVIYRIRV-------------- 66 (204)
T ss_pred CcHHHHHHHHHHHHHhHHHHHHHHHHHHHHhhhhhhhcCCCCCCchHHHhccccccceeEEEEEEE--------------
Confidence 999999999999999999999999999999999999999999999999999999999999999998
Q ss_pred hhhcchhHHHHHhhhhhhhccCCceeeeCCCCC--Cchhhhccc-cccccceeEEEEEEEeecCCCCCC-C-CCcchhhh
Q psy7821 81 RKKQSDVMRYIHRIRVWQYRQLTTLHRAPRPTR--PDKARRMGY-RAKQVTLFSVQRYDVEEGNVQYPR-V-PTMNVSAE 155 (231)
Q Consensus 81 rkkqsdv~~~l~r~r~w~yrq~~~v~R~~RPtr--~drArrLGy-KaKqG~~~vi~Rv~vrRggrK~p~-k-p~~q~iae 155 (231)
++ ++ ...+=|.. --++..-|+ ..|.- -+.+-|+|+|+|++..+ + -|-=.|+|
T Consensus 67 rr-------------------G~--rKrpvpkG~tyGKp~~~GvnqlK~~--rs~qs~AEer~Gr~~g~LrVlNSYWv~q 123 (204)
T KOG1678|consen 67 RR-------------------GG--RKRPVPKGATYGKPVNQGVNQLKFQ--RSLQSVAEERAGRRCGNLRVLNSYWVNQ 123 (204)
T ss_pred ec-------------------CC--ccCCCCCCCccCCccccchhhhhhh--HHHHHHHHHHhhccccceeeeehhhccC
Confidence 22 33 12222222 137788888 78888 88999999999999987 1 14444444
Q ss_pred hh--------ccchhhhhh
Q psy7821 156 DV--------VTSVFLKLL 166 (231)
Q Consensus 156 er--------lnSk~~EvI 166 (231)
+- |=..|+++|
T Consensus 124 DstYk~fEVIlvDp~h~aI 142 (204)
T KOG1678|consen 124 DSTYKYFEVILVDPFHKAI 142 (204)
T ss_pred ccceeeEEEEEECcHHHHH
Confidence 43 444566666
No 9
>PF00827 Ribosomal_L15e: Ribosomal L15; InterPro: IPR000439 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 [, ]. A number of eukaryotic and archaebacterial ribosomal proteins can be grouped on the basis of sequence similarities []. One of these families consists of: Mammalian L15. Insect L15. Plant L15. Yeast YL10 (L13) (Rp15r). Archaebacterial L15e. These proteins have about 200 amino acid residues.; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 3IZR_P 4A1E_L 4A17_L 4A1A_L 4A1C_L 2ZKR_m 3IZS_P 1S1I_L 3O58_O 3O5H_O ....
Probab=99.97 E-value=1.4e-31 Score=231.27 Aligned_cols=125 Identities=45% Similarity=0.749 Sum_probs=104.4
Q ss_pred hHHHHHHHHHhhhcchhHHHHHhhhhhhhccCCceeeeCCCCCCchhhhccccccccceeEEEEEEEeecCCCCCC----
Q psy7821 71 GAYRFISELYRKKQSDVMRYIHRIRVWQYRQLTTLHRAPRPTRPDKARRMGYRAKQVTLFSVQRYDVEEGNVQYPR---- 146 (231)
Q Consensus 71 gaYKYV~elwrkkqsdv~~~l~r~r~w~yrq~~~v~R~~RPtr~drArrLGyKaKqG~~~vi~Rv~vrRggrK~p~---- 146 (231)
|||+||+|+|++||||+|+||+++|||||||+++|+|+++||++|||++|||||||| |||+||+|++||+|+|+
T Consensus 1 g~Ykyi~e~wk~k~~d~~~~l~r~R~~e~R~~~av~Ri~rPtR~dkAR~LGYKAKQG--~vv~RvrVrrGgrkr~~~kg~ 78 (192)
T PF00827_consen 1 GAYKYIRELWKKKQSDVMRFLLRIRLWEWRQLPAVHRIERPTRPDKARRLGYKAKQG--YVVYRVRVRRGGRKRPRPKGG 78 (192)
T ss_dssp -SHHHHHHHHHTTTSHHHHHHHHHHHHHHHHS-SEEEESS-SSHHHHHHTT-SSSTT--EEEEEEEEESSS---SSSSSS
T ss_pred CHHHHHHHHHhcccchHHHHHHHHHHHHHhcCCceEECCCCCCccHHHHcCCccCCe--EEEEEEEEecCCCCCcccCCc
Confidence 799999999999999999999999999999999999999999999999999999999 99999999999999998
Q ss_pred ---CC------------Ccchhhhhhccc--hhhhhh--------------hhhhcCCCCcccccCCcccccccCCccc-
Q psy7821 147 ---VP------------TMNVSAEDVVTS--VFLKLL--------------LAIRRDPKVNWICKPVHKHREMRGLTSI- 194 (231)
Q Consensus 147 ---kp------------~~q~iaeerlnS--k~~EvI--------------~~Ir~d~~~~wi~~~~hk~r~~rglTsa- 194 (231)
|| |||+|||||.+. .-+||+ ..|--||.-+-|.++- .+--+++.
T Consensus 79 ~~gKPk~~Gv~~~k~~kslq~iAEeRagrk~~nLrVLnSYwV~eDg~yK~fEVIlVDp~h~~Ir~D~----~~nWI~~~~ 154 (192)
T PF00827_consen 79 RYGKPKHQGVNQLKPAKSLQSIAEERAGRKYPNLRVLNSYWVGEDGTYKWFEVILVDPNHPAIRNDP----DINWICNPV 154 (192)
T ss_dssp STSSCGGSSSTSS--SS-HHHHHHHHHHHHSTTSEEEEEEEEEEESSEEEEEEEEE-TTSHHHHTTT----TTGGGGSGG
T ss_pred cccccccceeeccCccccHHHHhhhhhccccCCceEEeeEEeCCCCcceeEEEEEecCCcHHHhcCC----ccceecccc
Confidence 66 899999999887 558998 7888999888888654 44455554
Q ss_pred --cccccCC
Q psy7821 195 --SKKSRGL 201 (231)
Q Consensus 195 --g~k~rgl 201 (231)
++-.|||
T Consensus 155 hk~R~~RGL 163 (192)
T PF00827_consen 155 HKHREFRGL 163 (192)
T ss_dssp GTTTTTTTT
T ss_pred cCccccccc
Confidence 6777888
No 10
>COG1632 RPL15A Ribosomal protein L15E [Translation, ribosomal structure and biogenesis]
Probab=99.91 E-value=9.3e-25 Score=188.79 Aligned_cols=134 Identities=31% Similarity=0.472 Sum_probs=117.0
Q ss_pred chHHHHHHHHHhhhcchhHHHHHhhhhhhhccCCceeeeCCCCCCchhhhccccccccceeEEEEEEEeecCCCC--CC-
Q psy7821 70 MGAYRFISELYRKKQSDVMRYIHRIRVWQYRQLTTLHRAPRPTRPDKARRMGYRAKQVTLFSVQRYDVEEGNVQY--PR- 146 (231)
Q Consensus 70 MgaYKYV~elwrkkqsdv~~~l~r~r~w~yrq~~~v~R~~RPtr~drArrLGyKaKqG~~~vi~Rv~vrRggrK~--p~- 146 (231)
|++|+||.|.|++++++++.+|++.++|+||+.++|+|+++||++|+|+.|||||||| |+|+||+|++||... |+
T Consensus 2 ~~~y~yv~e~wkk~~~~~~~~l~~~r~~~wR~~~~i~R~erPTrldrAR~LGykaKqG--~vvvrvrVrrG~~~~~r~~~ 79 (195)
T COG1632 2 RSAYKYIREAWKKPKESVVRELLRQRLIEWRKEPSIVRIERPTRLDRARALGYKAKQG--YVVVRVRVRRGGRNRKRPKK 79 (195)
T ss_pred ccHHHHHHHHHhCchHHHHhHHHhHHHHhhccCCceEEecCCCHHHHHHhcCCcccCc--eEEEEEeeecccccCcCccC
Confidence 6899999999999999999999999999999999999999999999999999999999 999999999996544 44
Q ss_pred --CC------------Ccchhhhhhccc--hhhhhh--------------hhhhcCCCCcccccCCcccccccCCccccc
Q psy7821 147 --VP------------TMNVSAEDVVTS--VFLKLL--------------LAIRRDPKVNWICKPVHKHREMRGLTSISK 196 (231)
Q Consensus 147 --kp------------~~q~iaeerlnS--k~~EvI--------------~~Ir~d~~~~wi~~~~hk~r~~rglTsag~ 196 (231)
+| |+|.||||+-+- ...||+ .+|.=||+-.=|-+.-+=...+. -+.-|+
T Consensus 80 grrp~~mgvnki~~~ks~~~iAEerA~RK~pNL~vLnSYwVgeDg~yK~fEvIlvDp~H~aIk~Dp~l~wI~~-~~~kgR 158 (195)
T COG1632 80 GRRPTRMGVNKIKRKKSLQFIAEERAGRKYPNLEVLNSYWVGEDGYYKYFEVILVDPRHPAIKNDPNLNWICR-PVHKGR 158 (195)
T ss_pred CCCcCcccccccChhhhHHHHHHHHhhccCCCcEeeeeEEeccccceeeEEEEEecCCChhhcCCCceeeecc-cccCCc
Confidence 55 899999999555 557887 78999998887777666666666 567999
Q ss_pred cccCC-CCCCC
Q psy7821 197 KSRGL-GKGHG 206 (231)
Q Consensus 197 k~rgl-~kg~~ 206 (231)
..||| .-|.+
T Consensus 159 ~~RgltsagkK 169 (195)
T COG1632 159 VFRGLTSAGKK 169 (195)
T ss_pred eeccccccchh
Confidence 99999 55553
Done!