Query 041275
Match_columns 187
No_of_seqs 134 out of 735
Neff 5.0
Searched_HMMs 46136
Date Fri Mar 29 05:30:55 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/041275.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/041275hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 COG0051 RpsJ Ribosomal protein 100.0 6.3E-37 1.4E-41 233.9 11.3 100 88-187 3-102 (104)
2 PRK00596 rpsJ 30S ribosomal pr 100.0 1E-36 2.2E-41 231.7 11.1 99 89-187 4-102 (102)
3 TIGR01049 rpsJ_bact ribosomal 100.0 1.2E-36 2.7E-41 229.9 10.9 99 89-187 1-99 (99)
4 CHL00135 rps10 ribosomal prote 100.0 7.8E-36 1.7E-40 227.1 10.8 96 88-183 6-101 (101)
5 PRK12271 rps10p 30S ribosomal 100.0 1.3E-34 2.8E-39 220.7 13.0 98 89-187 2-100 (102)
6 TIGR01046 S10_Arc_S20_Euk ribo 100.0 1.6E-34 3.5E-39 219.0 13.5 98 89-187 1-99 (99)
7 PTZ00039 40S ribosomal protein 100.0 1.3E-34 2.8E-39 225.0 13.1 111 76-187 4-115 (115)
8 PF00338 Ribosomal_S10: Riboso 100.0 4.4E-32 9.6E-37 201.6 11.8 97 91-187 1-97 (97)
9 KOG3321 Mitochondrial ribosoma 99.9 6.7E-27 1.5E-31 190.6 -2.3 104 81-186 41-147 (175)
10 KOG0900 40S ribosomal protein 99.8 2.6E-20 5.7E-25 145.4 1.4 98 89-187 20-118 (121)
11 KOG4060 Uncharacterized conser 98.6 2.4E-07 5.2E-12 75.8 8.8 95 89-186 53-151 (176)
12 PLN03014 carbonic anhydrase 52.5 17 0.00036 33.7 3.6 61 1-61 1-70 (347)
13 TIGR00595 priA primosomal prot 36.4 3E+02 0.0065 26.2 9.4 43 89-131 415-460 (505)
14 PF02838 Glyco_hydro_20b: Glyc 34.3 1.9E+02 0.0041 21.3 6.6 73 89-167 22-95 (124)
15 PTZ00181 60S ribosomal protein 30.5 2.3E+02 0.005 21.1 6.9 36 148-184 32-67 (82)
16 cd01251 PH_centaurin_alpha Cen 30.5 1.3E+02 0.0028 22.2 4.8 53 122-174 40-94 (103)
17 KOG3499 60S ribosomal protein 29.8 1.3E+02 0.0029 21.5 4.4 36 148-184 32-67 (69)
18 PF00408 PGM_PMM_IV: Phosphogl 27.8 1.6E+02 0.0036 20.1 4.7 27 89-115 47-73 (73)
19 PF01781 Ribosomal_L38e: Ribos 20.8 1.4E+02 0.003 21.6 3.2 36 148-184 32-67 (69)
20 TIGR03653 arch_L6P archaeal ri 20.5 1.3E+02 0.0029 24.8 3.5 29 92-120 129-157 (170)
No 1
>COG0051 RpsJ Ribosomal protein S10 [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=6.3e-37 Score=233.93 Aligned_cols=100 Identities=57% Similarity=0.950 Sum_probs=98.0
Q ss_pred ccEEEEEEEecChhhHHHHHHHHHHHHHHhCCeeeccccCCCcceEEEEeecCCcCCCceeeEEEEEEEEEEEEECCCHH
Q 041275 88 KQKIRIKLRSYWVPLIEDSCKQIMDAARTTNAKTMGPVPLPTKKRIYCVLKSPHVHKDARFHFEIRTHQRLIDILYPTAQ 167 (187)
Q Consensus 88 ~~kIrIkLkS~d~~~Le~~~~~I~~~ak~~~i~v~GPipLPTKk~r~TVLRSPHV~KKSrEqFEiRtHKR~I~I~~~t~~ 167 (187)
.++++|+|+|||+..||.+|.+|++.|+..|+.++||+|||||+.+||+||||||||++|||||||+|||+|+|.+++++
T Consensus 3 ~~kirI~L~s~d~~~LD~~~~~Ive~akrtg~~v~GPiPLPTk~~~~tvlrsP~~~k~s~e~fEmr~HkRlidi~~~~~~ 82 (104)
T COG0051 3 KQKIRIRLKSFDHRLLDQVCREIVETAKRTGADVKGPIPLPTKRERVTVLRSPHGEKDSREQFEMRTHKRLIDIVDPTPK 82 (104)
T ss_pred CceEEEEEecCCHHHHHHHHHHHHHHHHHhCCeeeCCccCCCceEEEEEEeCCCCCCchHHHhhhheeeeEEEeecCCHH
Confidence 47999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHccCCCCCceEEEEC
Q 041275 168 TIDSLMQLDLPAGVDVEVKL 187 (187)
Q Consensus 168 ~i~~liq~~lP~GV~IeVkl 187 (187)
+++.||.+.+|+||+||+++
T Consensus 83 ~~~~Lm~i~~p~gV~vei~~ 102 (104)
T COG0051 83 TVDALMRLDLPAGVDVEIKL 102 (104)
T ss_pred HHHHHhcccCCCCceEEEEE
Confidence 99999999999999999985
No 2
>PRK00596 rpsJ 30S ribosomal protein S10; Reviewed
Probab=100.00 E-value=1e-36 Score=231.68 Aligned_cols=99 Identities=60% Similarity=0.975 Sum_probs=97.3
Q ss_pred cEEEEEEEecChhhHHHHHHHHHHHHHHhCCeeeccccCCCcceEEEEeecCCcCCCceeeEEEEEEEEEEEEECCCHHH
Q 041275 89 QKIRIKLRSYWVPLIEDSCKQIMDAARTTNAKTMGPVPLPTKKRIYCVLKSPHVHKDARFHFEIRTHQRLIDILYPTAQT 168 (187)
Q Consensus 89 ~kIrIkLkS~d~~~Le~~~~~I~~~ak~~~i~v~GPipLPTKk~r~TVLRSPHV~KKSrEqFEiRtHKR~I~I~~~t~~~ 168 (187)
++++|+|+|||+..||.+|++|.++|+.+|++++||+||||++++||+|||||||||+|||||+|+|||+|+|++.++++
T Consensus 4 ~~irI~l~S~d~~~L~~~~~~i~~~a~~~~i~v~GpipLPtk~~r~tvlrSPhv~KksreqfE~r~hkR~i~i~~~~~~~ 83 (102)
T PRK00596 4 QKIRIRLKAFDHRLLDQSAKKIVETAKRTGAQVRGPIPLPTKKERFTVLRSPHVNKDSREQFEIRTHKRLIDIVDPTPKT 83 (102)
T ss_pred cEEEEEEEECCHHHHHHHHHHHHHHHHHcCCeEECCcCCCcEEEEEEEeeCCCCCCCHHHHhhhhhheEEEEEECCCHHH
Confidence 78999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHccCCCCCceEEEEC
Q 041275 169 IDSLMQLDLPAGVDVEVKL 187 (187)
Q Consensus 169 i~~liq~~lP~GV~IeVkl 187 (187)
++.|+++++|+||+|+|++
T Consensus 84 ~~~l~~~~lp~gV~iev~~ 102 (102)
T PRK00596 84 VDALMKLDLPAGVDVEIKL 102 (102)
T ss_pred HHHHhcCCCCCCcEEEEEC
Confidence 9999999999999999985
No 3
>TIGR01049 rpsJ_bact ribosomal protein S10, bacterial/organelle. This model describes bacterial 30S ribosomal protein S10. In species that have a transcription antitermination complex, or N utilization substance, with NusA, NusB, NusG, and NusE, this ribosomal protein is responsible for NusE activity. Included in the family are one member each from Saccharomyces cerevisiae and Schizosaccharomyces pombe. These proteins lack an N-terminal mitochondrial transit peptide but contain additional sequence C-terminal to the ribosomal S10 protein region.
Probab=100.00 E-value=1.2e-36 Score=229.86 Aligned_cols=99 Identities=63% Similarity=0.995 Sum_probs=96.6
Q ss_pred cEEEEEEEecChhhHHHHHHHHHHHHHHhCCeeeccccCCCcceEEEEeecCCcCCCceeeEEEEEEEEEEEEECCCHHH
Q 041275 89 QKIRIKLRSYWVPLIEDSCKQIMDAARTTNAKTMGPVPLPTKKRIYCVLKSPHVHKDARFHFEIRTHQRLIDILYPTAQT 168 (187)
Q Consensus 89 ~kIrIkLkS~d~~~Le~~~~~I~~~ak~~~i~v~GPipLPTKk~r~TVLRSPHV~KKSrEqFEiRtHKR~I~I~~~t~~~ 168 (187)
++|+|+|+|||+..||.+|++|+++|+.+|++++||++|||++++||+|||||||||+|||||+|+|||+|+|++.++++
T Consensus 1 ~~irI~l~s~d~~~L~~~~~~i~~~a~~~gi~~~gpi~LPtk~~~~tvlrSPhv~kksreqfE~r~hkR~i~i~~~~~~~ 80 (99)
T TIGR01049 1 QKIRIKLKSYDHRLLDQSTKKIVETAKRTGAQVKGPIPLPTKKERYTVLRSPHVNKDSREQFEIRTHKRLIDIIDPNPKT 80 (99)
T ss_pred CeEEEEEEECCHHHHHHHHHHHHHHHHHcCCceecccCCCCEEEEEEEeeCCCCCCCHHHHhhhhhheEEEEEeCCCHHH
Confidence 46999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHccCCCCCceEEEEC
Q 041275 169 IDSLMQLDLPAGVDVEVKL 187 (187)
Q Consensus 169 i~~liq~~lP~GV~IeVkl 187 (187)
++.|++.++|+||+|+|++
T Consensus 81 ~~~l~~~~lp~gV~iei~~ 99 (99)
T TIGR01049 81 IDALMKLDLPAGVDIEIKL 99 (99)
T ss_pred HHHHHcCCCCCCcEEEEEC
Confidence 9999999999999999974
No 4
>CHL00135 rps10 ribosomal protein S10; Validated
Probab=100.00 E-value=7.8e-36 Score=227.06 Aligned_cols=96 Identities=66% Similarity=1.138 Sum_probs=93.9
Q ss_pred ccEEEEEEEecChhhHHHHHHHHHHHHHHhCCeeeccccCCCcceEEEEeecCCcCCCceeeEEEEEEEEEEEEECCCHH
Q 041275 88 KQKIRIKLRSYWVPLIEDSCKQIMDAARTTNAKTMGPVPLPTKKRIYCVLKSPHVHKDARFHFEIRTHQRLIDILYPTAQ 167 (187)
Q Consensus 88 ~~kIrIkLkS~d~~~Le~~~~~I~~~ak~~~i~v~GPipLPTKk~r~TVLRSPHV~KKSrEqFEiRtHKR~I~I~~~t~~ 167 (187)
.++|+|+|+|||+..||.+|++|.++|+.+|+.+.||+||||++++||||||||||||||||||+|+|||+|+|.+.+++
T Consensus 6 ~~kirI~LkS~d~~~L~~~~~~I~~~~k~~~~~~~GpipLPtk~~~~TvlrSPhv~KkSrEqfE~r~hKRlI~i~~~~~~ 85 (101)
T CHL00135 6 NAKIRIKLKSFNHELLNSSCKKIIDTASRTNATAVGPIPLPTKRRIYCVLRSPHVDKDSREHFEIRTHKRIIDIYYPSSE 85 (101)
T ss_pred cCeEEEEEEECCHHHHHHHHHHHHHHHHHcCCeEeCCcCCCcEEEEEEEecCCCCCCchHHhhhheeeeEEEEEeCCCHH
Confidence 47899999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHccCCCCCceE
Q 041275 168 TIDSLMQLDLPAGVDV 183 (187)
Q Consensus 168 ~i~~liq~~lP~GV~I 183 (187)
+++.|+++++|+||+|
T Consensus 86 ~i~~l~~~~lp~gV~i 101 (101)
T CHL00135 86 TIDSLMKLDLPPGVDI 101 (101)
T ss_pred HHHHHHcCCCCCCCcC
Confidence 9999999999999986
No 5
>PRK12271 rps10p 30S ribosomal protein S10P; Reviewed
Probab=100.00 E-value=1.3e-34 Score=220.71 Aligned_cols=98 Identities=37% Similarity=0.601 Sum_probs=93.9
Q ss_pred cEEEEEEEecChhhHHHHHHHHHHHHHHhCCeeeccccCCCcceEEEEeecCCcC-CCceeeEEEEEEEEEEEEECCCHH
Q 041275 89 QKIRIKLRSYWVPLIEDSCKQIMDAARTTNAKTMGPVPLPTKKRIYCVLKSPHVH-KDARFHFEIRTHQRLIDILYPTAQ 167 (187)
Q Consensus 89 ~kIrIkLkS~d~~~Le~~~~~I~~~ak~~~i~v~GPipLPTKk~r~TVLRSPHV~-KKSrEqFEiRtHKR~I~I~~~t~~ 167 (187)
++|+|+|+|||+..||.+|++|++.|+..|+.++||+|||||+++||++|||||+ |++|||||+|+|||+|+|. ++++
T Consensus 2 ~~irI~L~S~d~~~Ld~~~~~I~~~~k~~g~~~~GPipLPtk~~~~tv~rSPh~~gk~sreqfE~r~hKRlidi~-~~~~ 80 (102)
T PRK12271 2 QKARIRLSSTNPEDLDEVCDQIKEIAEKTGVDMSGPIPLPTKRLVVPTRKSPDGEGTATWDHWEMRIHKRLIDID-ADER 80 (102)
T ss_pred ceEEEEEEeCCHHHHHHHHHHHHHHHHHcCCeEECCCcCCceeEEEEeeeCCCCCCCcchHHeEEEEeEEEEEee-CCHH
Confidence 5799999999999999999999999999999999999999999999999999998 7899999999999999995 5679
Q ss_pred HHHHHHccCCCCCceEEEEC
Q 041275 168 TIDSLMQLDLPAGVDVEVKL 187 (187)
Q Consensus 168 ~i~~liq~~lP~GV~IeVkl 187 (187)
++++|+++++|+||+|+|++
T Consensus 81 ~~~~l~~~~lp~gV~iei~~ 100 (102)
T PRK12271 81 ALRQLMRIRVPEDVQIEIEL 100 (102)
T ss_pred HHHHHhCCCCCCCcEEEEEE
Confidence 99999999999999999985
No 6
>TIGR01046 S10_Arc_S20_Euk ribosomal protein S10(archaeal)/S20(eukaryotic). its equivalents in eukaryotes.
Probab=100.00 E-value=1.6e-34 Score=219.02 Aligned_cols=98 Identities=38% Similarity=0.567 Sum_probs=93.9
Q ss_pred cEEEEEEEecChhhHHHHHHHHHHHHHHhCCeeeccccCCCcceEEEEeecCCcCC-CceeeEEEEEEEEEEEEECCCHH
Q 041275 89 QKIRIKLRSYWVPLIEDSCKQIMDAARTTNAKTMGPVPLPTKKRIYCVLKSPHVHK-DARFHFEIRTHQRLIDILYPTAQ 167 (187)
Q Consensus 89 ~kIrIkLkS~d~~~Le~~~~~I~~~ak~~~i~v~GPipLPTKk~r~TVLRSPHV~K-KSrEqFEiRtHKR~I~I~~~t~~ 167 (187)
++|+|+|+|||+..||.+|++|++.|+..|+.++||+|||||+++||++|||||+| ++|||||||+|||+|+|.++ .+
T Consensus 1 ~~irI~L~S~d~~~Ld~~~~~I~~~ak~~g~~~~GPipLPtk~~~~tv~rsPh~~~~ks~e~fE~r~hKRlidi~~~-~~ 79 (99)
T TIGR01046 1 HKARIKLTSTNVRSLEKVCAQIKRIAEKTGVRMSGPVPLPTKRLRVPTRKSPDGEGSKTWDRWEMRIHKRLIDIEAD-ER 79 (99)
T ss_pred CcEEEEEEECCHHHHHHHHHHHHHHHHHcCCEEECCccCCcceEEEEeeeCCCCCCCcchHheEEEEEEEEEEEECC-HH
Confidence 36999999999999999999999999999999999999999999999999999987 79999999999999999976 68
Q ss_pred HHHHHHccCCCCCceEEEEC
Q 041275 168 TIDSLMQLDLPAGVDVEVKL 187 (187)
Q Consensus 168 ~i~~liq~~lP~GV~IeVkl 187 (187)
++++|+++++|+||+|+|++
T Consensus 80 ~~~~l~~~~lp~gV~vei~~ 99 (99)
T TIGR01046 80 ALRQIMRISVPEDVEIEITL 99 (99)
T ss_pred HHHHHhCCCCCCCcEEEEEC
Confidence 88999999999999999986
No 7
>PTZ00039 40S ribosomal protein S20; Provisional
Probab=100.00 E-value=1.3e-34 Score=225.00 Aligned_cols=111 Identities=29% Similarity=0.466 Sum_probs=101.1
Q ss_pred eeecCCccccCcccEEEEEEEecChhhHHHHHHHHHHHHHHhCCeeeccccCCCcceEEEEeecCCcC-CCceeeEEEEE
Q 041275 76 LSVSSGADQMAPKQKIRIKLRSYWVPLIEDSCKQIMDAARTTNAKTMGPVPLPTKKRIYCVLKSPHVH-KDARFHFEIRT 154 (187)
Q Consensus 76 ~~~~~~~~~~~~~~kIrIkLkS~d~~~Le~~~~~I~~~ak~~~i~v~GPipLPTKk~r~TVLRSPHV~-KKSrEqFEiRt 154 (187)
|..|++.....+.++|||+|+|||+..||.+|++|++.|+..|+.++||+|||||+.+||+||||||+ +++|||||+|+
T Consensus 4 ~~~~~~~~~~~~~~kirI~L~S~d~~~Ld~~~~~Ii~~ak~~g~~v~GPipLPtK~~~~tvlrSPhg~~kksreqfE~Ri 83 (115)
T PTZ00039 4 IKKGGEEEEQNRLHKIRITLTSKNLKSIEKVCADIITGAKEKNLKVTGPVRMPVKTLRITTRKSPCGEGTNTWDRFEMRI 83 (115)
T ss_pred cccccchhhhheeeEEEEEEEECCHHHHHHHHHHHHHHHHHcCCEeECCccCCceeEEEEeeeCCCCCCCchHHHheeee
Confidence 44455555544558999999999999999999999999999999999999999999999999999987 68999999999
Q ss_pred EEEEEEEECCCHHHHHHHHccCCCCCceEEEEC
Q 041275 155 HQRLIDILYPTAQTIDSLMQLDLPAGVDVEVKL 187 (187)
Q Consensus 155 HKR~I~I~~~t~~~i~~liq~~lP~GV~IeVkl 187 (187)
|||+|+|.++ .+++++|+++++|+||+|+|++
T Consensus 84 HKRlIdI~~~-~~~v~~l~~~~lp~GV~Iei~~ 115 (115)
T PTZ00039 84 YKRVIDLYSS-SDVVTQITSINIDPGVEVEVII 115 (115)
T ss_pred eeEEEEEeCC-HHHHHHHhCCCCCCCcEEEEeC
Confidence 9999999984 6889999999999999999985
No 8
>PF00338 Ribosomal_S10: Ribosomal protein S10p/S20e; InterPro: IPR001848 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 [, ]. Evidence suggests that, in prokaryotes, the peptidyl transferase reaction is performed by the large subunit 23S rRNA, whereas proteins probably have a greater role in eukaryotic ribosomes. Most of the proteins lie close to, or on the surface of, the 30S subunit, arranged peripherally around the rRNA []. The small subunit ribosomal proteins can be categorised as primary binding proteins, which bind directly and independently to 16S rRNA; secondary binding proteins, which display no specific affinity for 16S rRNA, but its assembly is contingent upon the presence of one or more primary binding proteins; and tertiary binding proteins, which require the presence of one or more secondary binding proteins and sometimes other tertiary binding proteins. The small ribosomal subunit protein S10 consists of about 100 amino acid residues. In Escherichia coli, S10 is involved in binding tRNA to the ribosome, and also operates as a transcriptional elongation factor []. Experimental evidence [] has revealed that S10 has virtually no groups exposed on the ribosomal surface, and is one of the "split proteins": these are a discrete group that are selectively removed from 30S subunits under low salt conditions and are required for the formation of activated 30S reconstitution intermediate (RI*) particles. S10 belongs to a family of proteins [] that includes: bacteria S10; algal chloroplast S10; cyanelle S10; archaebacterial S10; Marchantia polymorpha and Prototheca wickerhamii mitochondrial S10; Arabidopsis thaliana mitochondrial S10 (nuclear encoded); vertebrate S20; plant S20; and yeast URP2.; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 1S1H_J 3U5G_U 3O30_N 3O2Z_N 3IZB_J 3U5C_U 3R2C_J 3R2D_J 2ZKQ_j 2XQD_J ....
Probab=99.98 E-value=4.4e-32 Score=201.64 Aligned_cols=97 Identities=48% Similarity=0.768 Sum_probs=94.4
Q ss_pred EEEEEEecChhhHHHHHHHHHHHHHHhCCeeeccccCCCcceEEEEeecCCcCCCceeeEEEEEEEEEEEEECCCHHHHH
Q 041275 91 IRIKLRSYWVPLIEDSCKQIMDAARTTNAKTMGPVPLPTKKRIYCVLKSPHVHKDARFHFEIRTHQRLIDILYPTAQTID 170 (187)
Q Consensus 91 IrIkLkS~d~~~Le~~~~~I~~~ak~~~i~v~GPipLPTKk~r~TVLRSPHV~KKSrEqFEiRtHKR~I~I~~~t~~~i~ 170 (187)
|+|+|+|||+..||.+|++|.++|+.+|+++.||++|||++++||+|||||||||+|||||+|+|+|.|+|.+.+++++.
T Consensus 1 i~I~l~s~d~~~l~~~~~~i~~~~~~~~~~~~~~~~lPtk~~~~tvlrSPhv~kks~eqfe~~~~kr~i~i~~~~~~~~~ 80 (97)
T PF00338_consen 1 IRIKLKSYDKKLLESYVKFIHKLAKNLGIKVSGPIPLPTKKKRFTVLRSPHVDKKSREQFEIRTHKRLIQIKNLNSELAD 80 (97)
T ss_dssp EEEEEEESSHHHHHHHHHHHHHHHHCTSSCEEEEEEEEEEEEEEEEESSSSSSTTSEEEEEEEEEEEEEEESSSSHHHHH
T ss_pred CEEEEEECCHHHHHHHHHHHHHHHHHhCCcccccccCCccEEEEEEeecCcCCcchhhheeeeeeEEEEEEeCCCHHHHH
Confidence 68999999999999999999999999999999999999999999999999999999999999999999999888999999
Q ss_pred HHHccCCCCCceEEEEC
Q 041275 171 SLMQLDLPAGVDVEVKL 187 (187)
Q Consensus 171 ~liq~~lP~GV~IeVkl 187 (187)
.|+.+++|+||+|+|++
T Consensus 81 ~~l~~~~p~gV~i~i~i 97 (97)
T PF00338_consen 81 KLLYIQLPEGVQIEIKI 97 (97)
T ss_dssp HHHHSSTSSSSEEEEEE
T ss_pred HHhCcCCCCCCEEEEEC
Confidence 99999999999999985
No 9
>KOG3321 consensus Mitochondrial ribosomal protein S10 [Translation, ribosomal structure and biogenesis]
Probab=99.92 E-value=6.7e-27 Score=190.60 Aligned_cols=104 Identities=31% Similarity=0.489 Sum_probs=97.6
Q ss_pred CccccCcccEEEEEEEecChhhHHHHHHHHHHHHHHhCCeeeccccCCCcceEEEEeecCCcCCCceeeEEEEEEEEEEE
Q 041275 81 GADQMAPKQKIRIKLRSYWVPLIEDSCKQIMDAARTTNAKTMGPVPLPTKKRIYCVLKSPHVHKDARFHFEIRTHQRLID 160 (187)
Q Consensus 81 ~~~~~~~~~kIrIkLkS~d~~~Le~~~~~I~~~ak~~~i~v~GPipLPTKk~r~TVLRSPHV~KKSrEqFEiRtHKR~I~ 160 (187)
++|.++ ..+.|.++|+|...||.|..||+++|+++||+++||-|||+++++||+|||||+|||+|+|||+|||.|+|+
T Consensus 41 ~Pdkly--~~~ai~lrg~D~avLdsYt~Fi~~ta~~LgIp~~~~~plp~~~Er~TlLrS~fIhKK~k~~yE~rTH~R~i~ 118 (175)
T KOG3321|consen 41 LPDKLY--SLVAIELRGHDKAVLDSYTDFICRTAYYLGIPIKGPEPLPKKRERWTLLRSPFIHKKSKENYERRTHSRLIE 118 (175)
T ss_pred Cchhhc--ceeeEEeccCchHHHHHHHHHHHHHHHHhCCccCCCCCCchhhhhhhhhhchhhhhHHhhhHHHHHHHHHHH
Confidence 888888 678899999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred EECCCH---HHHHHHHccCCCCCceEEEE
Q 041275 161 ILYPTA---QTIDSLMQLDLPAGVDVEVK 186 (187)
Q Consensus 161 I~~~t~---~~i~~liq~~lP~GV~IeVk 186 (187)
+++.++ +++.+|+++++|+||+|+++
T Consensus 119 l~~~tgsTl~tfleYI~rn~pegV~mq~~ 147 (175)
T KOG3321|consen 119 LYSVTGSTLDTFLEYIQRNLPEGVGMQAK 147 (175)
T ss_pred HhhcCchHHHHHHHHHHhhChhhhcceec
Confidence 998765 56667899999999999975
No 10
>KOG0900 consensus 40S ribosomal protein S20 [Translation, ribosomal structure and biogenesis]
Probab=99.78 E-value=2.6e-20 Score=145.44 Aligned_cols=98 Identities=36% Similarity=0.600 Sum_probs=91.3
Q ss_pred cEEEEEEEecChhhHHHHHHHHHHHHHHhCCeeeccccCCCcceEEEEeecCCcCCCcee-eEEEEEEEEEEEEECCCHH
Q 041275 89 QKIRIKLRSYWVPLIEDSCKQIMDAARTTNAKTMGPVPLPTKKRIYCVLKSPHVHKDARF-HFEIRTHQRLIDILYPTAQ 167 (187)
Q Consensus 89 ~kIrIkLkS~d~~~Le~~~~~I~~~ak~~~i~v~GPipLPTKk~r~TVLRSPHV~KKSrE-qFEiRtHKR~I~I~~~t~~ 167 (187)
.+++|.+.|...+.|+++|..|.+.|+..|++++||++||||.+++|++|+||+.+..+| +|+||+|+|+||+..+. +
T Consensus 20 ~~~~it~~~~~~kslekvC~dl~~~ak~~nl~~kg~vr~Ptk~~~itt~k~p~g~g~k~w~~f~mRiH~R~idl~s~s-e 98 (121)
T KOG0900|consen 20 HKIRITLTSQKVKSLEKVCADLVRGAKEKNLKVKGPVRLPTKVLKITTRKTPCGEGSKTWDRFEMRVHKRLIDLHSPS-E 98 (121)
T ss_pred hccceeeeHHHHHHHHHHHHHHHHHHhhcCCcccCcccCCceeEEEEEeecCCcCCccHHHHHHHHHHHHHhccCChH-H
Confidence 678999999999999999999999999999999999999999999999999998887765 99999999999999875 5
Q ss_pred HHHHHHccCCCCCceEEEEC
Q 041275 168 TIDSLMQLDLPAGVDVEVKL 187 (187)
Q Consensus 168 ~i~~liq~~lP~GV~IeVkl 187 (187)
.++++.++.+++||++++.+
T Consensus 99 ~vkqitsi~~epgVevev~i 118 (121)
T KOG0900|consen 99 IVKQITSISIEPGVEVEVTI 118 (121)
T ss_pred HHHHhhhhccCCCceEEEEe
Confidence 59999999999999999874
No 11
>KOG4060 consensus Uncharacterized conserved protein [Function unknown]
Probab=98.61 E-value=2.4e-07 Score=75.84 Aligned_cols=95 Identities=19% Similarity=0.270 Sum_probs=83.6
Q ss_pred cEEEEEEEecChhhHHHHHHHHHHHHHHhCCeeeccccCCCcceEEEEeecCCcCCCcee-eEEEEEEEEEEEEECCC--
Q 041275 89 QKIRIKLRSYWVPLIEDSCKQIMDAARTTNAKTMGPVPLPTKKRIYCVLKSPHVHKDARF-HFEIRTHQRLIDILYPT-- 165 (187)
Q Consensus 89 ~kIrIkLkS~d~~~Le~~~~~I~~~ak~~~i~v~GPipLPTKk~r~TVLRSPHV~KKSrE-qFEiRtHKR~I~I~~~t-- 165 (187)
..+.+.+++||-..||+|.+++...|+.+++++..-..+|+++..+-.||- +..-.| .+.+.||-|.+.+.+.+
T Consensus 53 ~~lNV~i~gyD~~~lEsYq~yvH~la~~l~~~V~dsYA~p~qt~~v~~l~p---~stv~ese~~ltTyeRvvqls~v~Ap 129 (176)
T KOG4060|consen 53 GVLNVHITGYDMTLLESYQQYVHNLANSLSIKVEDSYAMPTQTIEVLQLQP---QSTVMESESVLTTYERVVQLSGVSAP 129 (176)
T ss_pred ceEEEEEEecccchHHHHHHHHHHHHHHcCceeEeeeccCccceeEEEecC---CceeeehhhhhhhhhheeeecccCch
Confidence 568999999999999999999999999999999999999999987777762 445556 79999999999998765
Q ss_pred -HHHHHHHHccCCCCCceEEEE
Q 041275 166 -AQTIDSLMQLDLPAGVDVEVK 186 (187)
Q Consensus 166 -~~~i~~liq~~lP~GV~IeVk 186 (187)
.+.|.+++|-.+|+||.+.|+
T Consensus 130 ~~~~Fl~iiqa~lPeGV~l~Vk 151 (176)
T KOG4060|consen 130 FAEIFLEIIQASLPEGVRLSVK 151 (176)
T ss_pred hHHHHHHHHHHhCCcceEEEee
Confidence 457778899999999999986
No 12
>PLN03014 carbonic anhydrase
Probab=52.47 E-value=17 Score=33.67 Aligned_cols=61 Identities=25% Similarity=0.142 Sum_probs=30.4
Q ss_pred CcccccceeecCCcccCCCCCCC--CCCceeecccccCC------CCccccCCCCc-cceeeeeCCccCC
Q 041275 1 MATFSLSAAISPSLTVPISSNSK--CPVFSVSFPSKNYA------GNTLKLEPLST-TNTRVFSAPETLA 61 (187)
Q Consensus 1 ~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~------~~~~~~~~~~~-~~~~~~~~~~~~~ 61 (187)
|.+.|...+.++|++.+-++..+ ..+++..+-..-+. .+++...++++ .+.-||+||-++-
T Consensus 1 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 70 (347)
T PLN03014 1 MSTAPLSGFFLTSLSPSQSSLQKLSLRTSSTVACLPPASSSSSSSSSSSSRSVPTLIRNEPVFAAPAPII 70 (347)
T ss_pred CccccccceeccccCcccccccccccCCcceEEEeccccccccccCCCCCCCCchhhcCCccccCCCccc
Confidence 66677777778888554333322 23323222111100 12222234444 4555999998865
No 13
>TIGR00595 priA primosomal protein N'. All proteins in this family for which functions are known are components of the primosome which is involved in replication, repair, and recombination.This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=36.39 E-value=3e+02 Score=26.24 Aligned_cols=43 Identities=19% Similarity=0.352 Sum_probs=32.5
Q ss_pred cEEEEEEEecChhhHHHHHHHHHHHHHHh---CCeeeccccCCCcc
Q 041275 89 QKIRIKLRSYWVPLIEDSCKQIMDAARTT---NAKTMGPVPLPTKK 131 (187)
Q Consensus 89 ~kIrIkLkS~d~~~Le~~~~~I~~~ak~~---~i~v~GPipLPTKk 131 (187)
.-+.|.+.+-+......+++.+.+..+.. ++.+-||++-|-.+
T Consensus 415 ~l~~i~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~lgP~~~~~~k 460 (505)
T TIGR00595 415 RLIRLIFRGKNEEKAQQTAQAAHELLKQNLDEKLEVLGPSPAPIAK 460 (505)
T ss_pred cEEEEEEecCCHHHHHHHHHHHHHHHHhhccCCcEEeCCccccchh
Confidence 46899999999888888888887766542 46678888766544
No 14
>PF02838 Glyco_hydro_20b: Glycosyl hydrolase family 20, domain 2; InterPro: IPR015882 Glycoside hydrolase family 20 GH20 from CAZY comprises enzymes with several known activities; beta-hexosaminidase (3.2.1.52 from EC); lacto-N-biosidase (3.2.1.140 from EC). Carbonyl oxygen of the C-2 acetamido group of the substrate acts as the catalytic nucleophile/base in this family of enzymes. In the brain and other tissues, beta-hexosaminidase A degrades GM2 gangliosides; specifically, the enzyme hydrolyses terminal non-reducing N-acetyl-D-hexosamine residues in N-acetyl-beta-D-hexosaminides. There are 3 forms of beta-hexosaminidase: hexosaminidase A is a trimer, with one alpha, one beta-A and one beta-B chain; hexosaminidase B is a tetramer of two beta-A and two beta-B chains; and hexosaminidase S is a homodimer of alpha chains. The two beta chains are derived from the cleavage of a precursor. Mutations in the beta-chain lead to Sandhoff disease, a lysosomal storage disorder characterised by accumulation of GM2 ganglioside []. This entry represents the alpha and beta subunit of beta-N-acetylhexosaminidase. It contains a similar fold but lacks the catalytic centre.; GO: 0004563 beta-N-acetylhexosaminidase activity, 0005975 carbohydrate metabolic process; PDB: 3SUT_A 3SUS_A 3GH7_A 3SUR_A 3SUW_A 3SUV_A 3SUU_A 3GH5_A 3GH4_A 2J4G_B ....
Probab=34.34 E-value=1.9e+02 Score=21.29 Aligned_cols=73 Identities=14% Similarity=0.097 Sum_probs=42.2
Q ss_pred cEEEEEEEecChhhHHHHHHHHHHHHH-HhCCeeeccccCCCcceEEEEeecCCcCCCceeeEEEEEEEEEEEEECCCHH
Q 041275 89 QKIRIKLRSYWVPLIEDSCKQIMDAAR-TTNAKTMGPVPLPTKKRIYCVLKSPHVHKDARFHFEIRTHQRLIDILYPTAQ 167 (187)
Q Consensus 89 ~kIrIkLkS~d~~~Le~~~~~I~~~ak-~~~i~v~GPipLPTKk~r~TVLRSPHV~KKSrEqFEiRtHKR~I~I~~~t~~ 167 (187)
...+|.+.. ......+..+.+..+ ..|+... .-..+.+ ..+ .++.-.-.....|-|.+.+=...|.|...++.
T Consensus 22 ~~~~i~~~~---~~~~~~~~~l~~~l~~~~g~~~~-~~~~~~~-~~i-~~~~~~~~~~~~E~Y~L~i~~~~I~I~a~~~~ 95 (124)
T PF02838_consen 22 QSTKIVVDD---PELKAAAERLQDILKRLTGISLS-SSGSPNK-IDI-RLLLDDDAGLGEEGYRLSISPKGITIEASDPA 95 (124)
T ss_dssp TTEEEEETT---CSHHHHHHHHHHHHHHHHTECCC-ECSETTS-EEE-EEECTTCCTSTTT-EEEEEESSEEEEEESSHH
T ss_pred CCcEEEECC---cccHHHHHHHHHHHHHHhCCccc-ccCCCCC-ceE-EEeecCCCCCCCcceEEEEECCEEEEEEcCch
Confidence 446666655 344555666666555 6676554 1111111 122 22333335566789999999999999988754
No 15
>PTZ00181 60S ribosomal protein L38; Provisional
Probab=30.49 E-value=2.3e+02 Score=21.14 Aligned_cols=36 Identities=14% Similarity=0.249 Sum_probs=29.9
Q ss_pred eeEEEEEEEEEEEEECCCHHHHHHHHccCCCCCceEE
Q 041275 148 FHFEIRTHQRLIDILYPTAQTIDSLMQLDLPAGVDVE 184 (187)
Q Consensus 148 EqFEiRtHKR~I~I~~~t~~~i~~liq~~lP~GV~Ie 184 (187)
-.|..|--+-+..+...|.+-.+.|. ..||+|+.+.
T Consensus 32 tKFKvRcsrYLYTLvv~D~~KA~Klk-qSLPp~l~v~ 67 (82)
T PTZ00181 32 TKFKVRCSRYLYTLVVADKKKADKIE-RSIHPSVKKI 67 (82)
T ss_pred eEEEEEecceEEEEEeCCHHHHHHHH-hcCCCCceEE
Confidence 37999999999999888877777766 6689999864
No 16
>cd01251 PH_centaurin_alpha Centaurin alpha Pleckstrin homology (PH) domain. Centaurin alpha Pleckstrin homology (PH) domain. Centaurin alpha is a phophatidlyinositide binding protein consisting of an N-terminal ArfGAP domain and two PH domains. In response to growth factor activation, PI3K phosphorylates phosphatidylinositol 4,5-bisphosphate to phosphatidylinositol 3,4,5-trisphosphate. Centaurin alpha 1 is recruited to the plasma membrane following growth factor stimulation by specific binding of its PH domain to phosphatidylinositol 3,4,5-trisphosphate. Centaurin alpha 2 is constitutively bound to the plasma membrane since it binds phosphatidylinositol 4,5-bisphosphate and phosphatidylinositol 3,4,5-trisphosphate with equal affinity. PH domains share little sequence conservation, but all have a common fold, which is electrostatically polarized. PH domains also have diverse functions. They are often involved in targeting proteins to the plasma membrane, but few display strong specifici
Probab=30.47 E-value=1.3e+02 Score=22.20 Aligned_cols=53 Identities=19% Similarity=0.191 Sum_probs=34.2
Q ss_pred eccccCCCcceEEEEee--cCCcCCCceeeEEEEEEEEEEEEECCCHHHHHHHHc
Q 041275 122 MGPVPLPTKKRIYCVLK--SPHVHKDARFHFEIRTHQRLIDILYPTAQTIDSLMQ 174 (187)
Q Consensus 122 ~GPipLPTKk~r~TVLR--SPHV~KKSrEqFEiRtHKR~I~I~~~t~~~i~~liq 174 (187)
.|.|+|=.....++|.. .+...+++..-|++.+..|.+.|...+++..+++|+
T Consensus 40 ~G~I~L~~~~~~~~v~~~~~~~~~~~~~~~F~i~t~~Rty~l~a~s~~e~~~Wi~ 94 (103)
T cd01251 40 KGEVFLGSQEDGYEVREGLPPGTQGNHWYGVTLVTPERKFLFACETEQDRREWIA 94 (103)
T ss_pred CcEEEeeccccceeEeccCCccccccccceEEEEeCCeEEEEECCCHHHHHHHHH
Confidence 34555543333344432 122344444589999999999999988888887765
No 17
>KOG3499 consensus 60S ribosomal protein L38 [Translation, ribosomal structure and biogenesis]
Probab=29.83 E-value=1.3e+02 Score=21.53 Aligned_cols=36 Identities=25% Similarity=0.514 Sum_probs=29.6
Q ss_pred eeEEEEEEEEEEEEECCCHHHHHHHHccCCCCCceEE
Q 041275 148 FHFEIRTHQRLIDILYPTAQTIDSLMQLDLPAGVDVE 184 (187)
Q Consensus 148 EqFEiRtHKR~I~I~~~t~~~i~~liq~~lP~GV~Ie 184 (187)
..|..|--+-+..+...|++-.+.|. ..+|+|..++
T Consensus 32 ~KFKvRcsryLYTLvv~D~~KAeKlk-QSLPP~l~V~ 67 (69)
T KOG3499|consen 32 VKFKVRCSRYLYTLVVADAEKAEKLK-QSLPPGLTVK 67 (69)
T ss_pred eeEEEEeeeeeeeeeeccHHHHHHHH-hcCCCCceee
Confidence 47999988888888888888888887 4689998874
No 18
>PF00408 PGM_PMM_IV: Phosphoglucomutase/phosphomannomutase, C-terminal domain; InterPro: IPR005843 The alpha-D-phosphohexomutase superfamily is composed of four related enzymes, each of which catalyses a phosphoryl transfer on their sugar substrates: phosphoglucomutase (PGM), phosphoglucomutase/phosphomannomutase (PGM/PMM), phosphoglucosamine mutase (PNGM), and phosphoacetylglucosamine mutase (PAGM) []. PGM (5.4.2.2 from EC) converts D-glucose 1-phosphate into D-glucose 6-phosphate, and participates in both the breakdown and synthesis of glucose []. PGM/PMM (5.4.2.2 from EC; 5.4.2.8 from EC) are primarily bacterial enzymes that use either glucose or mannose as substrate, participating in the biosynthesis of a variety of carbohydrates such as lipopolysaccharides and alginate [, ]. Both PNGM (5.4.2.3 from EC) and PAGM (5.4.2.10 from EC) are involved in the biosynthesis of UDP-N-acetylglucosamine [, ]. Despite differences in substrate specificity, these enzymes share a similar catalytic mechanism, converting 1-phospho-sugars to 6-phospho-sugars via a biphosphorylated 1,6-phospho-sugar. The active enzyme is phosphorylated at a conserved serine residue and binds one magnesium ion; residues around the active site serine are well conserved among family members. The reaction mechanism involves phosphoryl transfer from the phosphoserine to the substrate to create a biophosphorylated sugar, followed by a phosphoryl transfer from the substrate back to the enzyme []. The structures of PGM and PGM/PMM have been determined, and were found to be very similar in topology. These enzymes are both composed of four domains and a large central active site cleft, where each domain contains residues essential for catalysis and/or substrate recognition. Domain I contains the catalytic phosphoserine, domain II contains a metal-binding loop to coordinate the magnesium ion, domain III contains the sugar-binding loop that recognises the two different binding orientations of the 1- and 6-phospho-sugars, and domain IV contains a phosphate-binding site required for orienting the incoming phospho-sugar substrate. This entry represents the C-terminal domain alpha-D-phosphohexomutase enzymes.; GO: 0016868 intramolecular transferase activity, phosphotransferases, 0005975 carbohydrate metabolic process; PDB: 1KFQ_B 1KFI_A 3PDK_B 2F7L_A 1TUO_A 2FKM_X 3C04_A 1K2Y_X 1P5G_X 2H4L_X ....
Probab=27.79 E-value=1.6e+02 Score=20.09 Aligned_cols=27 Identities=22% Similarity=0.292 Sum_probs=23.5
Q ss_pred cEEEEEEEecChhhHHHHHHHHHHHHH
Q 041275 89 QKIRIKLRSYWVPLIEDSCKQIMDAAR 115 (187)
Q Consensus 89 ~kIrIkLkS~d~~~Le~~~~~I~~~ak 115 (187)
..+||.+.+.+...++..+..+.+..|
T Consensus 47 P~iRv~~Ea~~~~~~~~~~~~i~~~ik 73 (73)
T PF00408_consen 47 PKIRVYVEAPDEEELEEIAEEIAEAIK 73 (73)
T ss_dssp SEEEEEEEESSHHHHHHHHHHHHHHHH
T ss_pred ceEEEEEEeCCHHHHHHHHHHHHHhhC
Confidence 468999999999999999999987654
No 19
>PF01781 Ribosomal_L38e: Ribosomal L38e protein family; InterPro: IPR002675 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 L38e forms part of the 60S ribosomal subunit []. This family is found in eukaryotes.; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 3IZS_n 3IZR_n 4A1D_P 4A19_P 4A18_P 4A1B_P.
Probab=20.78 E-value=1.4e+02 Score=21.56 Aligned_cols=36 Identities=22% Similarity=0.463 Sum_probs=29.2
Q ss_pred eeEEEEEEEEEEEEECCCHHHHHHHHccCCCCCceEE
Q 041275 148 FHFEIRTHQRLIDILYPTAQTIDSLMQLDLPAGVDVE 184 (187)
Q Consensus 148 EqFEiRtHKR~I~I~~~t~~~i~~liq~~lP~GV~Ie 184 (187)
-.|..|.-+-+..+...|.+-++.|. ..||+|+.+.
T Consensus 32 tKFKvRcsryLYTLvv~d~~KAeklk-qSLPp~l~v~ 67 (69)
T PF01781_consen 32 TKFKVRCSRYLYTLVVKDKEKAEKLK-QSLPPGLKVK 67 (69)
T ss_dssp EEEEEECSS-EEEESS-SHHHHHHHH-HSSSSSSEEE
T ss_pred eEEEEEecceEEEEEEcCHHHHHHHH-hhCCCCCeEe
Confidence 68999999999999888888888876 5689999875
No 20
>TIGR03653 arch_L6P archaeal ribosomal protein L6P. Members of this protein family are the archaeal ribosomal protein L6P. The top-scoring proteins not selected by this model are eukaryotic cytosolic ribosomal protein L9. Bacterial ribosomal protein L6 scores lower and is described by a distinct model.
Probab=20.45 E-value=1.3e+02 Score=24.77 Aligned_cols=29 Identities=10% Similarity=0.085 Sum_probs=25.5
Q ss_pred EEEEEecChhhHHHHHHHHHHHHHHhCCe
Q 041275 92 RIKLRSYWVPLIEDSCKQIMDAARTTNAK 120 (187)
Q Consensus 92 rIkLkS~d~~~Le~~~~~I~~~ak~~~i~ 120 (187)
+|.++|.|+..+-.+|..|...|+..|-+
T Consensus 129 ~I~i~G~DKq~Vgq~AA~Ir~~~~~~~~d 157 (170)
T TIGR03653 129 EVIVTGIDKEDVGQTAANIEQATRIKGRD 157 (170)
T ss_pred EEEEEeCCHHHHHHHHHHHHHhhcccCCC
Confidence 79999999999999999999998765533
Done!