Query 042762
Match_columns 96
No_of_seqs 108 out of 234
Neff 4.3
Searched_HMMs 46136
Date Fri Mar 29 09:12:02 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/042762.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/042762hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PTZ00041 60S ribosomal protein 100.0 2.5E-60 5.4E-65 336.6 10.4 96 1-96 25-120 (120)
2 KOG0887 60S ribosomal protein 100.0 3.6E-57 7.8E-62 315.9 9.9 96 1-96 16-111 (111)
3 PF01247 Ribosomal_L35Ae: Ribo 100.0 7.8E-55 1.7E-59 298.2 9.5 90 1-90 6-95 (95)
4 PRK04337 50S ribosomal protein 100.0 2.9E-50 6.3E-55 272.2 9.1 82 1-90 6-87 (87)
5 COG2451 Ribosomal protein L35A 100.0 6.8E-47 1.5E-51 260.2 10.2 89 1-96 12-100 (100)
6 PF09853 DUF2080: Putative tra 95.9 0.015 3.3E-07 36.5 4.0 33 55-92 17-49 (53)
7 PF01782 RimM: RimM N-terminal 94.4 0.044 9.4E-07 35.0 2.8 28 12-39 52-79 (84)
8 TIGR02273 16S_RimM 16S rRNA pr 92.8 0.1 2.2E-06 37.6 2.7 28 13-40 55-82 (165)
9 PRK14592 rimM 16S rRNA-process 92.2 0.15 3.4E-06 36.9 3.0 32 12-44 51-82 (165)
10 PRK13829 rimM 16S rRNA-process 92.0 0.12 2.5E-06 37.6 2.2 32 12-44 48-79 (162)
11 PRK14591 rimM 16S rRNA-process 91.9 0.13 2.8E-06 37.5 2.3 32 12-44 59-90 (169)
12 PRK13828 rimM 16S rRNA-process 91.2 0.21 4.5E-06 36.2 2.7 32 12-44 39-70 (161)
13 PF01782 RimM: RimM N-terminal 90.7 0.34 7.4E-06 30.8 3.1 28 57-84 2-29 (84)
14 PRK00122 rimM 16S rRNA-process 90.7 0.24 5.1E-06 35.9 2.7 31 13-44 60-90 (172)
15 PRK14594 rimM 16S rRNA-process 90.5 0.22 4.8E-06 36.2 2.4 31 13-44 57-87 (166)
16 PRK14590 rimM 16S rRNA-process 90.3 0.27 5.8E-06 36.1 2.7 32 12-44 55-86 (171)
17 PRK00122 rimM 16S rRNA-process 89.7 0.39 8.5E-06 34.8 3.2 30 54-83 7-36 (172)
18 PRK14594 rimM 16S rRNA-process 89.4 0.38 8.2E-06 35.0 2.9 27 55-81 2-28 (166)
19 TIGR02273 16S_RimM 16S rRNA pr 87.0 1 2.2E-05 32.4 3.8 29 55-83 2-30 (165)
20 PRK14593 rimM 16S rRNA-process 85.2 0.97 2.1E-05 33.3 3.0 28 55-82 5-32 (184)
21 PRK14592 rimM 16S rRNA-process 85.0 1.1 2.3E-05 32.5 3.1 29 55-83 3-31 (165)
22 PRK14591 rimM 16S rRNA-process 84.1 1.4 3E-05 32.1 3.4 29 54-82 5-33 (169)
23 PRK14593 rimM 16S rRNA-process 83.1 0.87 1.9E-05 33.6 2.0 26 18-44 66-91 (184)
24 PF04950 DUF663: Protein of un 82.4 1.7 3.6E-05 34.8 3.5 62 15-92 233-294 (297)
25 cd04479 RPA3 RPA3: A subfamily 82.2 7.2 0.00016 26.1 6.1 35 55-90 19-61 (101)
26 PRK14590 rimM 16S rRNA-process 80.4 1.7 3.7E-05 31.8 2.7 27 56-82 2-28 (171)
27 PRK13829 rimM 16S rRNA-process 75.9 5 0.00011 29.0 4.0 24 54-80 3-26 (162)
28 PF01123 Stap_Strp_toxin: Stap 71.5 11 0.00025 25.1 4.6 47 14-61 35-85 (87)
29 COG0806 RimM RimM protein, req 70.9 5 0.00011 30.0 3.0 30 10-39 58-87 (174)
30 PF14444 S1-like: S1-like 62.1 28 0.00061 22.1 4.7 35 54-90 2-43 (58)
31 KOG0461 Selenocysteine-specifi 59.9 16 0.00034 31.6 4.3 49 31-91 455-505 (522)
32 PF08661 Rep_fac-A_3: Replicat 58.5 53 0.0011 21.9 6.6 34 55-89 22-65 (109)
33 PRK09790 hypothetical protein; 53.6 41 0.00089 22.8 4.7 43 32-81 20-73 (91)
34 COG0806 RimM RimM protein, req 52.8 24 0.00052 26.3 3.9 40 53-92 6-45 (174)
35 PF12150 MFP2b: Cytosolic moti 50.9 39 0.00084 28.4 5.1 45 38-93 33-81 (362)
36 TIGR01129 secD protein-export 50.6 10 0.00022 31.3 1.7 34 11-44 61-94 (397)
37 PRK05812 secD preprotein trans 43.7 15 0.00033 31.4 1.8 34 11-44 147-180 (498)
38 COG3466 ISA1214 Putative trans 43.6 81 0.0018 19.7 5.1 27 59-91 23-49 (52)
39 PRK14726 bifunctional preprote 39.9 18 0.00039 33.2 1.7 34 11-44 186-219 (855)
40 PRK13023 bifunctional preprote 37.0 24 0.00053 31.9 2.1 34 11-44 92-125 (758)
41 PRK12933 secD preprotein trans 36.8 25 0.00055 31.1 2.1 33 11-43 255-287 (604)
42 cd04713 BAH_plant_3 BAH, or Br 35.5 1.6E+02 0.0035 20.9 5.9 73 15-95 25-108 (146)
43 PF05798 Phage_FRD3: Bacteriop 33.1 17 0.00037 24.2 0.4 10 26-35 62-71 (75)
44 COG5192 BMS1 GTP-binding prote 31.7 18 0.0004 33.2 0.4 23 56-78 889-911 (1077)
45 cd09232 Snurportin-1_C C-termi 29.7 1E+02 0.0022 23.0 4.1 35 34-82 30-64 (186)
46 PRK13024 bifunctional preprote 28.5 35 0.00076 30.6 1.6 33 12-44 85-117 (755)
47 PF14149 YhfH: YhfH-like prote 25.1 21 0.00046 20.8 -0.2 11 72-82 5-15 (37)
48 PF06312 Neurexophilin: Neurex 22.7 1.5E+02 0.0033 23.0 4.1 34 56-94 85-118 (219)
49 COG4680 Uncharacterized protei 21.2 80 0.0017 22.1 2.0 23 29-57 48-70 (98)
50 PRK08343 secD preprotein trans 21.2 61 0.0013 27.1 1.7 32 12-44 89-120 (417)
51 PTZ00241 40S ribosomal protein 21.0 1.3E+02 0.0028 22.6 3.2 63 23-90 41-126 (158)
No 1
>PTZ00041 60S ribosomal protein L35a; Provisional
Probab=100.00 E-value=2.5e-60 Score=336.65 Aligned_cols=96 Identities=64% Similarity=1.113 Sum_probs=94.7
Q ss_pred CeeeccccCCCCCCCeeEEEecCcCChhhhhhhccceEEEEEecccCCCCceeEEEEEEEEceeCCCceEEEEeCCCCCc
Q 042762 1 TILGYKRSKSNQYPNTSLIQIEGVNTKEKVVWYCCKHLAYIYKAKTKKSWTHYRCIWGKVARSHGNSGVVRAEFKSNLPP 80 (96)
Q Consensus 1 ~~~gykRg~~~Q~~~~aLlKiegV~~~~~a~fylGKrvayvyk~k~~~~g~k~R~iwGkV~r~HGnsGvVrAkF~~nLP~ 80 (96)
+|+|||||++||+|||||||||||+++|||+|||||||||||+++++++|+|+|+|||||+|+|||||+|||+|++||||
T Consensus 25 v~lgYkRg~~nQ~~~~aLlKieGV~~~~~a~fYlGKrvayvyka~~~~~~~k~RviwGKVtR~HGnsGvVrAkF~~nLPp 104 (120)
T PTZ00041 25 VFLGYKRSKVNQYPNVALLKIEGVNTREDARFYLGKRVAYVYKAKKLKNGTKFRAIWGKITRPHGNSGVVRARFNKNLPP 104 (120)
T ss_pred EEEEeccccccCCCceEEEEecCcCChhhhHhhccceEEEEEcCccccCCcceeEEEEEEEcccCCCcEEEEEeCCCCCh
Confidence 58999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cCCCCeEEEEEeecCC
Q 042762 81 KSMGDKVRVFMYPSNI 96 (96)
Q Consensus 81 ~aiG~~vrVmLyps~i 96 (96)
||||++||||||||+|
T Consensus 105 ~A~G~~VrVmlyPs~i 120 (120)
T PTZ00041 105 KAIGSRVRVFLYPSNI 120 (120)
T ss_pred HHcCCeEEEEEccCCC
Confidence 9999999999999997
No 2
>KOG0887 consensus 60S ribosomal protein L35A/L37 [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=3.6e-57 Score=315.93 Aligned_cols=96 Identities=63% Similarity=1.020 Sum_probs=94.4
Q ss_pred CeeeccccCCCCCCCeeEEEecCcCChhhhhhhccceEEEEEecccCCCCceeEEEEEEEEceeCCCceEEEEeCCCCCc
Q 042762 1 TILGYKRSKSNQYPNTSLIQIEGVNTKEKVVWYCCKHLAYIYKAKTKKSWTHYRCIWGKVARSHGNSGVVRAEFKSNLPP 80 (96)
Q Consensus 1 ~~~gykRg~~~Q~~~~aLlKiegV~~~~~a~fylGKrvayvyk~k~~~~g~k~R~iwGkV~r~HGnsGvVrAkF~~nLP~ 80 (96)
+|+||+||+++|+|||+|||||||+++|||+||+||||+||||+++..+++|+|+|||||||+|||||+|||+|.+||||
T Consensus 16 ~~~~~kr~~r~~~~~t~llkIEGv~skeEa~fYlGkR~~yvYKa~~~~~~~k~RvIWGkVTr~HGNsG~VrAkF~~Nlp~ 95 (111)
T KOG0887|consen 16 TFLGYKRGKRNQHPNTSLLKIEGVYSKEEASFYLGKRCVYVYKAKPEVRGSKTRVIWGKVTRPHGNSGVVRAKFTSNLPP 95 (111)
T ss_pred EEeeeeecccccCCCcEEEEEecccchhhhheeecCcEEEEEecCCCCCCceEEEEEEEEecccCCcceEEEEeccCCCh
Confidence 48999999999999999999999999999999999999999999998899999999999999999999999999999999
Q ss_pred cCCCCeEEEEEeecCC
Q 042762 81 KSMGDKVRVFMYPSNI 96 (96)
Q Consensus 81 ~aiG~~vrVmLyps~i 96 (96)
+|||++||||||||+|
T Consensus 96 Ka~G~rvrVmLYps~i 111 (111)
T KOG0887|consen 96 KAMGHRVRVMLYPSNI 111 (111)
T ss_pred hHcCcEEEEEEecccC
Confidence 9999999999999998
No 3
>PF01247 Ribosomal_L35Ae: Ribosomal protein L35Ae; InterPro: IPR001780 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 [, ]. The ribosomal L35A eukaryotic and archaebacterial ribosomal proteins can be grouped on the basis of sequence similarities. One of these families consists of: Vertebrate L35A. Caenorhabditis elegans L35A (F10E7.7). Saccharomyces cerevisiae L37A/L37B (Rp47). Plant L35A. Pyrococcus woesei L35A homologue []. These proteins have 87 to 110 amino-acid residues.; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 3IZR_j 2LP6_A 1SQR_A 4A18_H 4A1D_H 4A19_H 4A1B_H 3IZS_j.
Probab=100.00 E-value=7.8e-55 Score=298.21 Aligned_cols=90 Identities=62% Similarity=1.024 Sum_probs=84.0
Q ss_pred CeeeccccCCCCCCCeeEEEecCcCChhhhhhhccceEEEEEecccCCCCceeEEEEEEEEceeCCCceEEEEeCCCCCc
Q 042762 1 TILGYKRSKSNQYPNTSLIQIEGVNTKEKVVWYCCKHLAYIYKAKTKKSWTHYRCIWGKVARSHGNSGVVRAEFKSNLPP 80 (96)
Q Consensus 1 ~~~gykRg~~~Q~~~~aLlKiegV~~~~~a~fylGKrvayvyk~k~~~~g~k~R~iwGkV~r~HGnsGvVrAkF~~nLP~ 80 (96)
+|+|||||++||+|||||||||||+|+|||+|||||||+|||++++++++++.|+|||||+|+|||||+|||+|++||||
T Consensus 6 v~~gykRg~~~Q~~~~aLlKiegV~~~~~a~fylGKrv~yvyk~~~~~~~~k~r~iwGkV~r~HGnsGvVrAkF~~nLP~ 85 (95)
T PF01247_consen 6 VFLGYKRGKRNQHPNTALLKIEGVNTKEDAQFYLGKRVAYVYKAKNKKNGSKGRVIWGKVTRPHGNSGVVRAKFKKNLPP 85 (95)
T ss_dssp EEEEEEEETSTTCEEEEEEEESS-STCHHHHTTTT-EEEEEECE-SSSTTECSEEEEEEEEEESTTTTEEEEEESS--ST
T ss_pred EEEeecccccccCCCeeEEeecCccCHHHHHhhcCcEEEEEEecccccCCCcEeEEEEEEEeEEcCCCEEEEEeCCCCCh
Confidence 58999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cCCCCeEEEE
Q 042762 81 KSMGDKVRVF 90 (96)
Q Consensus 81 ~aiG~~vrVm 90 (96)
||||++||||
T Consensus 86 ~a~G~~VrVm 95 (95)
T PF01247_consen 86 QAIGSRVRVM 95 (95)
T ss_dssp TGCSSEEEEE
T ss_pred HHcCCEEEeC
Confidence 9999999999
No 4
>PRK04337 50S ribosomal protein L35Ae; Validated
Probab=100.00 E-value=2.9e-50 Score=272.24 Aligned_cols=82 Identities=34% Similarity=0.567 Sum_probs=79.0
Q ss_pred CeeeccccCCCCCCCeeEEEecCcCChhhhhhhccceEEEEEecccCCCCceeEEEEEEEEceeCCCceEEEEeCCCCCc
Q 042762 1 TILGYKRSKSNQYPNTSLIQIEGVNTKEKVVWYCCKHLAYIYKAKTKKSWTHYRCIWGKVARSHGNSGVVRAEFKSNLPP 80 (96)
Q Consensus 1 ~~~gykRg~~~Q~~~~aLlKiegV~~~~~a~fylGKrvayvyk~k~~~~g~k~R~iwGkV~r~HGnsGvVrAkF~~nLP~ 80 (96)
+|+|||||++||+|||||||||||+++|||+|||||||+|||++ | |+|||||+|+|||||+|||+|++||||
T Consensus 6 v~~gykRg~~nQ~~~~aLlkiegv~~~~~a~fylGKrv~yvyk~-----g---rviwGKItR~HGnsGvVrAkF~~nLP~ 77 (87)
T PRK04337 6 VILSYRRGKNTQYNRQVIIKPLGVDDREEAAKLIGRKVIWKDPT-----G---NKYVGKIVRVHGNRGEVRARFKPGLPG 77 (87)
T ss_pred EEEEeccccCccCCceEEEEEcCcCCHHHHHhhcCceEEEEeCC-----C---CEEEEEEEeeeCCCceEEEEECCCCCh
Confidence 58999999999999999999999999999999999999999986 3 699999999999999999999999999
Q ss_pred cCCCCeEEEE
Q 042762 81 KSMGDKVRVF 90 (96)
Q Consensus 81 ~aiG~~vrVm 90 (96)
||||++|+|.
T Consensus 78 ~a~G~~vrv~ 87 (87)
T PRK04337 78 QALGDYVEII 87 (87)
T ss_pred HHcCCEEEeC
Confidence 9999999983
No 5
>COG2451 Ribosomal protein L35AE/L33A [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=6.8e-47 Score=260.21 Aligned_cols=89 Identities=53% Similarity=0.870 Sum_probs=85.5
Q ss_pred CeeeccccCCCCCCCeeEEEecCcCChhhhhhhccceEEEEEecccCCCCceeEEEEEEEEceeCCCceEEEEeCCCCCc
Q 042762 1 TILGYKRSKSNQYPNTSLIQIEGVNTKEKVVWYCCKHLAYIYKAKTKKSWTHYRCIWGKVARSHGNSGVVRAEFKSNLPP 80 (96)
Q Consensus 1 ~~~gykRg~~~Q~~~~aLlKiegV~~~~~a~fylGKrvayvyk~k~~~~g~k~R~iwGkV~r~HGnsGvVrAkF~~nLP~ 80 (96)
++||||||+++|+|+++|||||||+|+|||+|||||+|+|+|+. +| |+|||+|+|+|||||+|||+|.+||||
T Consensus 12 v~lsyrR~k~~q~P~~~liKi~gv~s~~eA~~y~gk~v~yk~~~----~G---~Vi~G~V~R~HGnsGaVrarF~~~LP~ 84 (100)
T COG2451 12 VVLSYRRSKRTQHPNVSLIKIEGVDSPEEAQFYLGKRVCYKYRS----SG---RVIKGKVVRTHGNSGAVRARFERNLPG 84 (100)
T ss_pred EEEEEEecccccCCceEEEEEecCCCHHHHHhhhccEEEEEeCC----CC---cEEEEEEEEecCCcceEEEEecCCCCc
Confidence 58999999999999999999999999999999999999998876 25 899999999999999999999999999
Q ss_pred cCCCCeEEEEEeecCC
Q 042762 81 KSMGDKVRVFMYPSNI 96 (96)
Q Consensus 81 ~aiG~~vrVmLyps~i 96 (96)
||+|+.|+||||||+|
T Consensus 85 qa~G~~v~v~ly~~~~ 100 (100)
T COG2451 85 QALGTSVEVKLYPSNI 100 (100)
T ss_pred hhcCcEEEEEEccCCC
Confidence 9999999999999986
No 6
>PF09853 DUF2080: Putative transposon-encoded protein (DUF2080); InterPro: IPR019205 This entry, found in various hypothetical archaeal proteins, has no known function.
Probab=95.94 E-value=0.015 Score=36.46 Aligned_cols=33 Identities=33% Similarity=0.529 Sum_probs=27.1
Q ss_pred EEEEEEEceeCCCceEEEEeCCCCCccCCCCeEEEEEe
Q 042762 55 CIWGKVARSHGNSGVVRAEFKSNLPPKSMGDKVRVFMY 92 (96)
Q Consensus 55 ~iwGkV~r~HGnsGvVrAkF~~nLP~~aiG~~vrVmLy 92 (96)
+++++|+ +|||| |++.++||+.-+|.++.|.+-
T Consensus 17 ~~~~~vk-~~Gns----a~v~p~lPkeyiGK~v~iiil 49 (53)
T PF09853_consen 17 TFIGVVK-PFGNS----ARVYPSLPKEYIGKKVIIIIL 49 (53)
T ss_pred EEEEEEE-ecCcc----eeEcCCCChHHcCcEEEEEEe
Confidence 5566665 99999 567899999999999988754
No 7
>PF01782 RimM: RimM N-terminal domain; InterPro: IPR002676 The RimM protein is essential for efficient processing of 16S rRNA []. The RimM protein was shown to have affinity for free ribosomal 30S subunits but not for 30S subunits in the 70S ribosomes [].; GO: 0006364 rRNA processing; PDB: 2QGG_A 3A1P_C 2DOG_A 2DYI_A 3H9N_A 2F1L_A.
Probab=94.43 E-value=0.044 Score=34.98 Aligned_cols=28 Identities=14% Similarity=0.190 Sum_probs=22.2
Q ss_pred CCCCeeEEEecCcCChhhhhhhccceEE
Q 042762 12 QYPNTSLIQIEGVNTKEKVVWYCCKHLA 39 (96)
Q Consensus 12 Q~~~~aLlKiegV~~~~~a~fylGKrva 39 (96)
.+.+..|++++|++|+++|+.+.|..+.
T Consensus 52 ~~~~~~i~~~~gi~~r~~Ae~l~g~~l~ 79 (84)
T PF01782_consen 52 PHGKSLIVKFEGIDDREAAEALRGCELY 79 (84)
T ss_dssp EETTEEEEEETT--SHHHHHTTTT-EEE
T ss_pred EeCCEEEEEEcCCCCHHHHHhhCCCEEE
Confidence 3478999999999999999999999874
No 8
>TIGR02273 16S_RimM 16S rRNA processing protein RimM. This family consists of the bacterial protein RimM (YfjA, 21K), a 30S ribosomal subunit-binding protein implicated in 16S ribsomal RNA processing. It has been partially characterized in Escherichia coli, is found with other translation-associated genes such as trmD. It is broadly distributed among bacteria, including some minimal genomes such the aphid endosymbiont Buchnera aphidicola. The protein contains a PRC-barrel domain that it shares with other protein families (pfam05239) and a unique domain (pfam01782). This model describes the full-length protein. A member from Arabidopsis (plant) has additional N-terminal sequence likely to represent a chloroplast transit peptide.
Probab=92.79 E-value=0.1 Score=37.56 Aligned_cols=28 Identities=18% Similarity=0.213 Sum_probs=24.6
Q ss_pred CCCeeEEEecCcCChhhhhhhccceEEE
Q 042762 13 YPNTSLIQIEGVNTKEKVVWYCCKHLAY 40 (96)
Q Consensus 13 ~~~~aLlKiegV~~~~~a~fylGKrvay 40 (96)
+.+..|||++|++|+++|+.+.|..+..
T Consensus 55 ~~~~~lv~f~gi~~~~~Ae~L~g~~l~i 82 (165)
T TIGR02273 55 QNNKLIVKFEGIDDREAAEALKGLELFV 82 (165)
T ss_pred ECCEEEEEECCCCCHHHHHHhcCCEEEE
Confidence 4567899999999999999999998744
No 9
>PRK14592 rimM 16S rRNA-processing protein RimM; Provisional
Probab=92.21 E-value=0.15 Score=36.90 Aligned_cols=32 Identities=19% Similarity=0.269 Sum_probs=26.4
Q ss_pred CCCCeeEEEecCcCChhhhhhhccceEEEEEec
Q 042762 12 QYPNTSLIQIEGVNTKEKVVWYCCKHLAYIYKA 44 (96)
Q Consensus 12 Q~~~~aLlKiegV~~~~~a~fylGKrvayvyk~ 44 (96)
+..+..|++++|++|+++|+.+.|..+. +.++
T Consensus 51 ~~~~~~lv~f~gi~~~~~Ae~l~g~~l~-v~~~ 82 (165)
T PRK14592 51 IGANLVIAKISGINSRTEAELLRNKKLY-VERS 82 (165)
T ss_pred ecCCEEEEEEcCCCCHHHHHHhcCCEEE-EEHH
Confidence 3456789999999999999999999884 4444
No 10
>PRK13829 rimM 16S rRNA-processing protein RimM; Provisional
Probab=92.02 E-value=0.12 Score=37.56 Aligned_cols=32 Identities=16% Similarity=0.226 Sum_probs=26.6
Q ss_pred CCCCeeEEEecCcCChhhhhhhccceEEEEEec
Q 042762 12 QYPNTSLIQIEGVNTKEKVVWYCCKHLAYIYKA 44 (96)
Q Consensus 12 Q~~~~aLlKiegV~~~~~a~fylGKrvayvyk~ 44 (96)
.+.+..|++++|++|+++|+.+.|..+ |+.++
T Consensus 48 ~~~~~~l~~f~gi~~r~~Ae~l~g~~l-~v~~~ 79 (162)
T PRK13829 48 RVGPELVLHLAGVTSREGAEALVGLRV-YADDA 79 (162)
T ss_pred EECCEEEEEECCCCCHHHHHHhcCCEE-EEEHH
Confidence 446678999999999999999999988 44543
No 11
>PRK14591 rimM 16S rRNA-processing protein RimM; Provisional
Probab=91.94 E-value=0.13 Score=37.53 Aligned_cols=32 Identities=13% Similarity=0.208 Sum_probs=26.4
Q ss_pred CCCCeeEEEecCcCChhhhhhhccceEEEEEec
Q 042762 12 QYPNTSLIQIEGVNTKEKVVWYCCKHLAYIYKA 44 (96)
Q Consensus 12 Q~~~~aLlKiegV~~~~~a~fylGKrvayvyk~ 44 (96)
++.+..|++++|++|+++|+.|.|..+ ||.+.
T Consensus 59 ~~~~~~lv~f~gi~dr~~Ae~l~g~~l-~v~~~ 90 (169)
T PRK14591 59 KRADKVYIKLANINNADTAKKYVNALI-GVPKR 90 (169)
T ss_pred EECCEEEEEEcCCCCHHHHHHhcCCEE-EEEHH
Confidence 345678999999999999999999988 44443
No 12
>PRK13828 rimM 16S rRNA-processing protein RimM; Provisional
Probab=91.15 E-value=0.21 Score=36.16 Aligned_cols=32 Identities=16% Similarity=0.143 Sum_probs=26.4
Q ss_pred CCCCeeEEEecCcCChhhhhhhccceEEEEEec
Q 042762 12 QYPNTSLIQIEGVNTKEKVVWYCCKHLAYIYKA 44 (96)
Q Consensus 12 Q~~~~aLlKiegV~~~~~a~fylGKrvayvyk~ 44 (96)
++.+..|++++|++|+++|+.|.|..+. +.+.
T Consensus 39 ~~~~~~lv~f~gi~dr~~Ae~L~g~~l~-i~~~ 70 (161)
T PRK13828 39 PAKDGLVARLKGVATREAAEALRGLELY-VPRD 70 (161)
T ss_pred EECCEEEEEECCCCCHHHHHHhcCCEEE-EEHH
Confidence 3456689999999999999999999884 4454
No 13
>PF01782 RimM: RimM N-terminal domain; InterPro: IPR002676 The RimM protein is essential for efficient processing of 16S rRNA []. The RimM protein was shown to have affinity for free ribosomal 30S subunits but not for 30S subunits in the 70S ribosomes [].; GO: 0006364 rRNA processing; PDB: 2QGG_A 3A1P_C 2DOG_A 2DYI_A 3H9N_A 2F1L_A.
Probab=90.70 E-value=0.34 Score=30.80 Aligned_cols=28 Identities=21% Similarity=0.509 Sum_probs=23.0
Q ss_pred EEEEEceeCCCceEEEEeCCCCCccCCC
Q 042762 57 WGKVARSHGNSGVVRAEFKSNLPPKSMG 84 (96)
Q Consensus 57 wGkV~r~HGnsGvVrAkF~~nLP~~aiG 84 (96)
-|+|.+|||-.|.|++..-.+.|.....
T Consensus 2 vG~I~~~hGlkG~vkv~~~td~~~~~~~ 29 (84)
T PF01782_consen 2 VGRIGKPHGLKGEVKVRPFTDFPERLFN 29 (84)
T ss_dssp EEEEEEEETTTTEEEEEE-SSSGGGGGG
T ss_pred EEEECCCEecCEEEEEEEecCCHHHHcC
Confidence 4999999999999999999887765444
No 14
>PRK00122 rimM 16S rRNA-processing protein RimM; Provisional
Probab=90.69 E-value=0.24 Score=35.95 Aligned_cols=31 Identities=13% Similarity=0.148 Sum_probs=25.7
Q ss_pred CCCeeEEEecCcCChhhhhhhccceEEEEEec
Q 042762 13 YPNTSLIQIEGVNTKEKVVWYCCKHLAYIYKA 44 (96)
Q Consensus 13 ~~~~aLlKiegV~~~~~a~fylGKrvayvyk~ 44 (96)
+.+..|+|++|++|+++|+.|.|..+. +.++
T Consensus 60 ~~~~~lvkf~gi~~~~~Ae~l~g~~l~-i~~~ 90 (172)
T PRK00122 60 HKGFLIVKFEGVDDRNAAEALKGCELF-VPRS 90 (172)
T ss_pred ECCEEEEEECCCCCHHHHHHhCCCEEE-EEHH
Confidence 456689999999999999999999874 4444
No 15
>PRK14594 rimM 16S rRNA-processing protein RimM; Provisional
Probab=90.48 E-value=0.22 Score=36.24 Aligned_cols=31 Identities=19% Similarity=0.201 Sum_probs=26.2
Q ss_pred CCCeeEEEecCcCChhhhhhhccceEEEEEec
Q 042762 13 YPNTSLIQIEGVNTKEKVVWYCCKHLAYIYKA 44 (96)
Q Consensus 13 ~~~~aLlKiegV~~~~~a~fylGKrvayvyk~ 44 (96)
+.+..|+|++|++|+++|+.|.|..+ |+.++
T Consensus 57 ~~~~~lvkf~gi~dr~~Ae~L~g~~l-~v~~~ 87 (166)
T PRK14594 57 KNNSLLLKFEEFNAPEPIKPLIGFEL-WVDDE 87 (166)
T ss_pred ECCEEEEEEcCCCCHHHHHHhcCCEE-EEEHH
Confidence 45668999999999999999999987 55554
No 16
>PRK14590 rimM 16S rRNA-processing protein RimM; Provisional
Probab=90.31 E-value=0.27 Score=36.09 Aligned_cols=32 Identities=22% Similarity=0.316 Sum_probs=26.5
Q ss_pred CCCCeeEEEecCcCChhhhhhhccceEEEEEec
Q 042762 12 QYPNTSLIQIEGVNTKEKVVWYCCKHLAYIYKA 44 (96)
Q Consensus 12 Q~~~~aLlKiegV~~~~~a~fylGKrvayvyk~ 44 (96)
++.+..|++++|++|+++|+.+.|..+ |+.++
T Consensus 55 ~~~~~~lv~f~gi~~~e~Ae~L~g~~l-~i~~~ 86 (171)
T PRK14590 55 PHGGKFLVRFEGYDTPEEAVKWRGGSL-FLPQE 86 (171)
T ss_pred EECCEEEEEECCCCCHHHHHHhcCCEE-EEEHH
Confidence 345668999999999999999999988 44554
No 17
>PRK00122 rimM 16S rRNA-processing protein RimM; Provisional
Probab=89.73 E-value=0.39 Score=34.79 Aligned_cols=30 Identities=23% Similarity=0.466 Sum_probs=26.3
Q ss_pred EEEEEEEEceeCCCceEEEEeCCCCCccCC
Q 042762 54 RCIWGKVARSHGNSGVVRAEFKSNLPPKSM 83 (96)
Q Consensus 54 R~iwGkV~r~HGnsGvVrAkF~~nLP~~ai 83 (96)
.+..|+|++|||-.|-|+++.....|...+
T Consensus 7 ~v~iG~i~~~hGlkGevkv~~~td~p~~~~ 36 (172)
T PRK00122 7 LLVVGKIVSAHGIKGEVKVKSFTDFPERIF 36 (172)
T ss_pred eEEEEEEECCCcccEEEEEEEecCCHHHHc
Confidence 578999999999999999999998886544
No 18
>PRK14594 rimM 16S rRNA-processing protein RimM; Provisional
Probab=89.45 E-value=0.38 Score=35.03 Aligned_cols=27 Identities=22% Similarity=0.138 Sum_probs=23.6
Q ss_pred EEEEEEEceeCCCceEEEEeCCCCCcc
Q 042762 55 CIWGKVARSHGNSGVVRAEFKSNLPPK 81 (96)
Q Consensus 55 ~iwGkV~r~HGnsGvVrAkF~~nLP~~ 81 (96)
++.|+|++|||=.|.|+.+.-..-|+.
T Consensus 2 ~~iG~I~~~hGlkGevkV~~~td~~~~ 28 (166)
T PRK14594 2 FVKGIILSSYGINGYAKVKSISNNFCD 28 (166)
T ss_pred EEEEEEECceeeeEEEEEEEccCCHHH
Confidence 578999999999999999988775555
No 19
>TIGR02273 16S_RimM 16S rRNA processing protein RimM. This family consists of the bacterial protein RimM (YfjA, 21K), a 30S ribosomal subunit-binding protein implicated in 16S ribsomal RNA processing. It has been partially characterized in Escherichia coli, is found with other translation-associated genes such as trmD. It is broadly distributed among bacteria, including some minimal genomes such the aphid endosymbiont Buchnera aphidicola. The protein contains a PRC-barrel domain that it shares with other protein families (pfam05239) and a unique domain (pfam01782). This model describes the full-length protein. A member from Arabidopsis (plant) has additional N-terminal sequence likely to represent a chloroplast transit peptide.
Probab=86.96 E-value=1 Score=32.38 Aligned_cols=29 Identities=24% Similarity=0.462 Sum_probs=25.1
Q ss_pred EEEEEEEceeCCCceEEEEeCCCCCccCC
Q 042762 55 CIWGKVARSHGNSGVVRAEFKSNLPPKSM 83 (96)
Q Consensus 55 ~iwGkV~r~HGnsGvVrAkF~~nLP~~ai 83 (96)
+..|+|++|||=.|-|+++.....|...+
T Consensus 2 v~iG~I~~~hGlkGevkv~~~td~p~~~~ 30 (165)
T TIGR02273 2 LVVGKIGGPHGIKGEVKVKSFTDFPESLF 30 (165)
T ss_pred EEEEEEECCcccCEEEEEEEcCCCHHHHc
Confidence 46799999999999999999888886554
No 20
>PRK14593 rimM 16S rRNA-processing protein RimM; Provisional
Probab=85.24 E-value=0.97 Score=33.34 Aligned_cols=28 Identities=21% Similarity=0.451 Sum_probs=24.9
Q ss_pred EEEEEEEceeCCCceEEEEeCCCCCccC
Q 042762 55 CIWGKVARSHGNSGVVRAEFKSNLPPKS 82 (96)
Q Consensus 55 ~iwGkV~r~HGnsGvVrAkF~~nLP~~a 82 (96)
+..|+|+++||-.|-|+......-|...
T Consensus 5 i~iG~I~~~hGikGevkv~~~td~pe~~ 32 (184)
T PRK14593 5 LLVGRIGKSVGLNGGLKLHLESDFPECL 32 (184)
T ss_pred EEEEEEECCEeeeEEEEEEECCCCHHHh
Confidence 6789999999999999999998877754
No 21
>PRK14592 rimM 16S rRNA-processing protein RimM; Provisional
Probab=84.99 E-value=1.1 Score=32.48 Aligned_cols=29 Identities=21% Similarity=0.283 Sum_probs=25.3
Q ss_pred EEEEEEEceeCCCceEEEEeCCCCCccCC
Q 042762 55 CIWGKVARSHGNSGVVRAEFKSNLPPKSM 83 (96)
Q Consensus 55 ~iwGkV~r~HGnsGvVrAkF~~nLP~~ai 83 (96)
+..|+|++|||=.|-|+++.-..-|....
T Consensus 3 v~iG~I~~~hGlkGevkv~~~td~p~~~~ 31 (165)
T PRK14592 3 ICLGVITSPHGIKGHVKIKTFTEDPENIS 31 (165)
T ss_pred EEEEEEECCCccCEEEEEEECCCCHHHhc
Confidence 56899999999999999999988777543
No 22
>PRK14591 rimM 16S rRNA-processing protein RimM; Provisional
Probab=84.15 E-value=1.4 Score=32.09 Aligned_cols=29 Identities=10% Similarity=-0.114 Sum_probs=25.5
Q ss_pred EEEEEEEEceeCCCceEEEEeCCCCCccC
Q 042762 54 RCIWGKVARSHGNSGVVRAEFKSNLPPKS 82 (96)
Q Consensus 54 R~iwGkV~r~HGnsGvVrAkF~~nLP~~a 82 (96)
-+..|+|++|||=.|-|+++.....|...
T Consensus 5 ~v~vG~I~~~hGlkGevkv~~~td~p~~~ 33 (169)
T PRK14591 5 FVEIAKIGATYKLNGELNLYPLANSIETL 33 (169)
T ss_pred EEEEEEEeCCccccEEEEEEECCCCHHHh
Confidence 47889999999999999999988877744
No 23
>PRK14593 rimM 16S rRNA-processing protein RimM; Provisional
Probab=83.08 E-value=0.87 Score=33.58 Aligned_cols=26 Identities=27% Similarity=0.311 Sum_probs=22.8
Q ss_pred EEEecCcCChhhhhhhccceEEEEEec
Q 042762 18 LIQIEGVNTKEKVVWYCCKHLAYIYKA 44 (96)
Q Consensus 18 LlKiegV~~~~~a~fylGKrvayvyk~ 44 (96)
+++++|++|+++|+.+.|..+ |+.++
T Consensus 66 ~v~f~gi~dr~~Ae~l~g~~l-~i~~~ 91 (184)
T PRK14593 66 LLFLETIHTPEKAKELTNLGL-FMSEA 91 (184)
T ss_pred EEEEcCCCCHHHHHHhcCCEE-EEEHH
Confidence 799999999999999999987 45554
No 24
>PF04950 DUF663: Protein of unknown function (DUF663); InterPro: IPR007034 This domain is found at the C terminus of the ribosome biogenesis protein BMS1 and TSR1 families, which may act as a molecular switch during maturation of the 40S ribosomal subunit in the nucleolus.; PDB: 1WB1_D 1WB3_B 1WB2_A.
Probab=82.38 E-value=1.7 Score=34.76 Aligned_cols=62 Identities=27% Similarity=0.470 Sum_probs=36.1
Q ss_pred CeeEEEecCcCChhhhhhhccceEEEEEecccCCCCceeEEEEEEEEceeCCCceEEEEeCCCCCccCCCCeEEEEEe
Q 042762 15 NTSLIQIEGVNTKEKVVWYCCKHLAYIYKAKTKKSWTHYRCIWGKVARSHGNSGVVRAEFKSNLPPKSMGDKVRVFMY 92 (96)
Q Consensus 15 ~~aLlKiegV~~~~~a~fylGKrvayvyk~k~~~~g~k~R~iwGkV~r~HGnsGvVrAkF~~nLP~~aiG~~vrVmLy 92 (96)
++|.||-= -++.+|..++.|-.+ +++ .| .| |.|..+-|..|.++|-|...|=. .+.|..-||
T Consensus 233 ~~a~vr~M-F~~~~dv~~F~~~~l----~T~---~G--~r---G~Ik~~lgt~G~fka~F~~~i~~---~D~V~~~ly 294 (297)
T PF04950_consen 233 RTAVVRGM-FFNPEDVAWFKGAEL----RTK---SG--IR---GHIKESLGTHGYFKATFEDKIKQ---SDIVFMRLY 294 (297)
T ss_dssp SSCEECSS-SSTCCHHHHS-S--B----EET---TS---B---EEEEE-BTTTTBBEEEESS---S---S-EEEEE--
T ss_pred ceEEhhhh-cCCHHHHHhhcCCEE----Eee---cc--CC---CEECeeECCCCcEEEEECCcCCC---CCEEEEecC
Confidence 45555543 466777777777766 332 23 34 99999999999999999988754 455655555
No 25
>cd04479 RPA3 RPA3: A subfamily of OB folds similar to human RPA3 (also called RPA14). RPA3 is the smallest subunit of Replication protein A (RPA). RPA is a nuclear ssDNA binding protein (SSB) which appears to be involved in all aspects of DNA metabolism including replication, recombination, and repair. RPA also mediates specific interactions of various nuclear proteins. In animals, plants, and fungi, RPA is a heterotrimer with subunits of 70KDa (RPA1), 32kDa (RPA2), and 14 KDa (RPA3). RPA3 is believed to have a structural role in assembly of the RPA heterotrimer.
Probab=82.19 E-value=7.2 Score=26.14 Aligned_cols=35 Identities=31% Similarity=0.453 Sum_probs=23.9
Q ss_pred EEEEEEEceeCC-------Cc-eEEEEeCCCCCccCCCCeEEEE
Q 042762 55 CIWGKVARSHGN-------SG-VVRAEFKSNLPPKSMGDKVRVF 90 (96)
Q Consensus 55 ~iwGkV~r~HGn-------sG-vVrAkF~~nLP~~aiG~~vrVm 90 (96)
.++|||++.||+ .| .|.+.....+ ...+++-|.|.
T Consensus 19 ~ivGkV~~~~~~~~~~~~~Dg~~v~v~l~~~~-~~~~~~~vEVi 61 (101)
T cd04479 19 RIVGKVEKVDGDSLTLISSDGVNVTVELNRPL-DLPISGYVEVI 61 (101)
T ss_pred EEEEEEEEecCCeEEEEcCCCCEEEEEeCCCC-CcccCCEEEEE
Confidence 467999999998 44 6777777654 34556666654
No 26
>PRK14590 rimM 16S rRNA-processing protein RimM; Provisional
Probab=80.38 E-value=1.7 Score=31.84 Aligned_cols=27 Identities=15% Similarity=0.294 Sum_probs=23.5
Q ss_pred EEEEEEceeCCCceEEEEeCCCCCccC
Q 042762 56 IWGKVARSHGNSGVVRAEFKSNLPPKS 82 (96)
Q Consensus 56 iwGkV~r~HGnsGvVrAkF~~nLP~~a 82 (96)
..|+|++|||-.|.|+......-|...
T Consensus 2 ~vG~I~~~hGlkGevkv~~~td~pe~~ 28 (171)
T PRK14590 2 SLGQLGKPFGIKGWLRVNVRGETLHTL 28 (171)
T ss_pred eEEEEeCCEeeCeEEEEEEccCCHHHh
Confidence 479999999999999999888877643
No 27
>PRK13829 rimM 16S rRNA-processing protein RimM; Provisional
Probab=75.93 E-value=5 Score=29.05 Aligned_cols=24 Identities=21% Similarity=0.289 Sum_probs=20.4
Q ss_pred EEEEEEEEceeCCCceEEEEeCCCCCc
Q 042762 54 RCIWGKVARSHGNSGVVRAEFKSNLPP 80 (96)
Q Consensus 54 R~iwGkV~r~HGnsGvVrAkF~~nLP~ 80 (96)
.+..|+|++|||=.|-|+.+ .-|.
T Consensus 3 ~i~iG~I~~~hGikGevkv~---d~p~ 26 (162)
T PRK13829 3 RTEIGRFGGPYGVQGGLKFR---GEPV 26 (162)
T ss_pred EEEEEEEeCCeeecEEEEEe---cchH
Confidence 46789999999999999998 4454
No 28
>PF01123 Stap_Strp_toxin: Staphylococcal/Streptococcal toxin, OB-fold domain; InterPro: IPR006173 Staphylococcus aureus is a Gram-positive coccus that grows in clusters or pairs, and is the major cause of nosocomial infections due to its multiple antibiotic resistant nature []. Patients who are immunocompromised (e.g., those suffering from third degree burns or chronic illness) are at risk from deep staphylococcal infections, such as osteomyelitis and pneumonia. Most skin infections are also caused by this bacterium. Many virulence mechanisms are employed by Staphylococci to induce pathogenesis: these can include polysaccharide capsules and exotoxins []. One of the major virulence exotoxins is toxic shock syndrome toxin (TSST), which is secreted by the organism upon successful invasion. It causes a major inflammatory response in the host via superantigenic properties, and is the causative agent of toxic shock syndrome. The structure of the TSST protein was originally determined to 2.5A by means of X-ray crystallography []. The N- and C-terminal domains both contain regions involved in MHC class II association; the C-terminal domain is also implicated in binding the T-cell receptor. Overall, the structure resembles that of Staphylococcal enterotoxin B (SEB), but differs in its N terminus and in the degree to which a long central helix is covered by surface loops []. The region around the carboxyl end of this helix is proposed to govern the superantigenic properties of TSST. An adjacent region along this helix is thought to be critical in the ability of TSST to induce toxic shock syndrome. Most recently, the structures of five mutants of TSST have been determined to 1.95A []. The mutations are in the central alpha-helix, and allow mapping of portions of TSST involved in superantigenicity and lethality.; GO: 0009405 pathogenesis; PDB: 1XXG_A 1KTK_D 1HQR_D 2NTS_A 1FNW_E 1FNU_C 1L0X_B 1FNV_D 1UUP_B 1HA5_C ....
Probab=71.49 E-value=11 Score=25.09 Aligned_cols=47 Identities=15% Similarity=0.259 Sum_probs=32.3
Q ss_pred CCeeEEEecCcCChhhhhhhccceEEE---EEecc-cCCCCceeEEEEEEEE
Q 042762 14 PNTSLIQIEGVNTKEKVVWYCCKHLAY---IYKAK-TKKSWTHYRCIWGKVA 61 (96)
Q Consensus 14 ~~~aLlKiegV~~~~~a~fylGKrvay---vyk~k-~~~~g~k~R~iwGkV~ 61 (96)
.+.--|++| .++.+.|++|-||+|-- =|... ....+++..+|.|=||
T Consensus 35 ~~~~~l~~e-f~~~~~a~~fKgKkVDIfG~~Y~~~C~~~~~~~~~c~YGGVT 85 (87)
T PF01123_consen 35 SSYNDLKVE-FNSEDLAKKFKGKKVDIFGLSYYYNCYGSEGNKTACMYGGVT 85 (87)
T ss_dssp TTESEEEEE--SSHHHHHHHTTSEEEEEEEEBETTSSSSSSSEEEEEESEEE
T ss_pred CcceeEEEE-eCCHHHHHhhcCCEEEEEecccccccccCCCCceEEEecCEe
Confidence 455667888 89999999999999962 11211 1123567889999887
No 29
>COG0806 RimM RimM protein, required for 16S rRNA processing [Translation, ribosomal structure and biogenesis]
Probab=70.86 E-value=5 Score=29.98 Aligned_cols=30 Identities=7% Similarity=0.129 Sum_probs=26.4
Q ss_pred CCCCCCeeEEEecCcCChhhhhhhccceEE
Q 042762 10 SNQYPNTSLIQIEGVNTKEKVVWYCCKHLA 39 (96)
Q Consensus 10 ~~Q~~~~aLlKiegV~~~~~a~fylGKrva 39 (96)
...+.|-.+++++|++++++|+.+.|-.+.
T Consensus 58 ~r~~~~~~i~kf~gi~dr~~ae~l~G~~i~ 87 (174)
T COG0806 58 VRKHKNLLILKFKGIDDRNAAEALKGYEIF 87 (174)
T ss_pred eeecCCEEEEEeCCCCCHHHHHHhcCcEEE
Confidence 345788999999999999999999998764
No 30
>PF14444 S1-like: S1-like
Probab=62.11 E-value=28 Score=22.13 Aligned_cols=35 Identities=31% Similarity=0.525 Sum_probs=27.3
Q ss_pred EEEEEEEEceeCCCceE--EEEeC-----CCCCccCCCCeEEEE
Q 042762 54 RCIWGKVARSHGNSGVV--RAEFK-----SNLPPKSMGDKVRVF 90 (96)
Q Consensus 54 R~iwGkV~r~HGnsGvV--rAkF~-----~nLP~~aiG~~vrVm 90 (96)
|++-|-||..|++-|.+ -.-|. -++| ..|++|.+-
T Consensus 2 r~~~GvVTkl~~~yG~IDe~vFF~~~vv~G~~P--~vGdrV~v~ 43 (58)
T PF14444_consen 2 RVFTGVVTKLCDDYGFIDEDVFFQTDVVKGNVP--KVGDRVLVE 43 (58)
T ss_pred ceEEEEEEEEeCCcceEcccEEEEcccEecCCC--ccCCEEEEE
Confidence 78899999999999987 33343 4566 599999875
No 31
>KOG0461 consensus Selenocysteine-specific elongation factor [Translation, ribosomal structure and biogenesis]
Probab=59.87 E-value=16 Score=31.61 Aligned_cols=49 Identities=24% Similarity=0.457 Sum_probs=37.2
Q ss_pred hhhccceEEEEEecccCCCCceeEEEEEEEEceeCCCceEEEEeCCCCCccCCCC--eEEEEE
Q 042762 31 VWYCCKHLAYIYKAKTKKSWTHYRCIWGKVARSHGNSGVVRAEFKSNLPPKSMGD--KVRVFM 91 (96)
Q Consensus 31 ~fylGKrvayvyk~k~~~~g~k~R~iwGkV~r~HGnsGvVrAkF~~nLP~~aiG~--~vrVmL 91 (96)
+-|+|+.|+- . .|. | |+|-++-|.||.++.-|.-.|.|..+.. .|.|.|
T Consensus 455 dlfvG~~v~l--S-----tGe--~---G~Ie~aFGqsgKf~itf~~~lspe~~~~~~~v~~sL 505 (522)
T KOG0461|consen 455 DLFVGFQVCL--S-----TGE--R---GKIEGAFGQSGKFRITFAEKLSPELISNTEKVEISL 505 (522)
T ss_pred ceeeeeEEEe--c-----cCC--c---cceeccccCcceEEEEecccCChhhhccccceEEEE
Confidence 3478888876 2 232 3 8999999999999999999999988643 344444
No 32
>PF08661 Rep_fac-A_3: Replication factor A protein 3; InterPro: IPR013970 Replication factor A is involved in eukaryotic DNA replication, recombination and repair. ; PDB: 2PI2_H 1L1O_D 3KDF_A 2Z6K_D 1QUQ_D 2PQA_D.
Probab=58.47 E-value=53 Score=21.95 Aligned_cols=34 Identities=26% Similarity=0.360 Sum_probs=19.3
Q ss_pred EEEEEEEcee--CC--------CceEEEEeCCCCCccCCCCeEEE
Q 042762 55 CIWGKVARSH--GN--------SGVVRAEFKSNLPPKSMGDKVRV 89 (96)
Q Consensus 55 ~iwGkV~r~H--Gn--------sGvVrAkF~~nLP~~aiG~~vrV 89 (96)
.|+|||.+.| |. .|.|...+...++.+ .+.-|.|
T Consensus 22 rivGkv~~~~~~g~~~~l~~~d~~~V~v~l~~~~~~~-~~~~vEv 65 (109)
T PF08661_consen 22 RIVGKVESVDPDGGSATLSTSDGGQVTVSLNPPSDEE-LSKYVEV 65 (109)
T ss_dssp EEEEEEEEE-TTSSEEEEE-TTS-EEEEEESS--SS----SEEEE
T ss_pred EEEEEEeeEcCCCCEEEEEcCCCCEEEEEeCCCCCCC-CCCEEEE
Confidence 5678999988 54 467888888777653 3555554
No 33
>PRK09790 hypothetical protein; Reviewed
Probab=53.60 E-value=41 Score=22.81 Aligned_cols=43 Identities=28% Similarity=0.356 Sum_probs=28.6
Q ss_pred hhccceEEEEEecccCCCCceeEEEEEEEEceeCCCceE-----------EEEeCCCCCcc
Q 042762 32 WYCCKHLAYIYKAKTKKSWTHYRCIWGKVARSHGNSGVV-----------RAEFKSNLPPK 81 (96)
Q Consensus 32 fylGKrvayvyk~k~~~~g~k~R~iwGkV~r~HGnsGvV-----------rAkF~~nLP~~ 81 (96)
.+-||++.||-|..++...- .|....|-||-| ....-.|||+.
T Consensus 20 nlegk~igyviktenketpf-------tvvdidg~sgn~ktl~eg~~kmclv~ig~nlpae 73 (91)
T PRK09790 20 NLEGKRIGYVIKTENKETPF-------TVVDIDGPSGNVKTLDEGVKKMCLVHIGKNLPAE 73 (91)
T ss_pred cccCcEEEEEEEecCCCCCe-------EEEeccCCCCceeEhhhccceEEEEEecCCCCcc
Confidence 46799999999987765442 344455555543 44566888875
No 34
>COG0806 RimM RimM protein, required for 16S rRNA processing [Translation, ribosomal structure and biogenesis]
Probab=52.78 E-value=24 Score=26.34 Aligned_cols=40 Identities=20% Similarity=0.307 Sum_probs=31.5
Q ss_pred eEEEEEEEEceeCCCceEEEEeCCCCCccCCCCeEEEEEe
Q 042762 53 YRCIWGKVARSHGNSGVVRAEFKSNLPPKSMGDKVRVFMY 92 (96)
Q Consensus 53 ~R~iwGkV~r~HGnsGvVrAkF~~nLP~~aiG~~vrVmLy 92 (96)
-.+.-|||..+||=.|-||.+=.+.-|...+.....+.+-
T Consensus 6 ~~~~vGkI~~t~Gi~GevrV~s~Td~~~~~~~~~~~~~~~ 45 (174)
T COG0806 6 NLLLVGKIVSTHGIRGEVRVKSFTDFPESLFDYGPWLLLK 45 (174)
T ss_pred ceEEEEEEEecccccEEEEEEECCCCHHHhcCcCcEEEec
Confidence 4688999999999999999998888777666555544443
No 35
>PF12150 MFP2b: Cytosolic motility protein; InterPro: IPR021010 This entry represents proteins found in nematodes. They complex with MSP (major sperm protein) to allow motility []. Their action is quite similar to the action of bacterial actin molecules.; PDB: 2BJQ_A 2BJR_A.
Probab=50.91 E-value=39 Score=28.44 Aligned_cols=45 Identities=31% Similarity=0.591 Sum_probs=33.3
Q ss_pred EEEEEecccCCCCceeEEEEEEEEceeCCCceEEEEeC---CCCCc-cCCCCeEEEEEee
Q 042762 38 LAYIYKAKTKKSWTHYRCIWGKVARSHGNSGVVRAEFK---SNLPP-KSMGDKVRVFMYP 93 (96)
Q Consensus 38 vayvyk~k~~~~g~k~R~iwGkV~r~HGnsGvVrAkF~---~nLP~-~aiG~~vrVmLyp 93 (96)
||--||. | +.|+|+- .-|+|+|-+-|- .+|-+ +.+|..|+|..|-
T Consensus 33 VALWykh-----G---kPihGrA---WNn~GvveCSF~~~~~elt~~~dlgg~IQiLqy~ 81 (362)
T PF12150_consen 33 VALWYKH-----G---KPIHGRA---WNNSGVVECSFPYDKAELTGKDDLGGQIQILQYK 81 (362)
T ss_dssp EEEEEET-----T---EEEEEEE---EEETTEEEEEEEETTEEE-SCCCCTSEEEEEE-S
T ss_pred EEEEccC-----C---CCcccce---ecCCceEEEEEEcccceeccccccCCEEEEEEEc
Confidence 5655665 4 4888976 588999999994 45666 8899999998873
No 36
>TIGR01129 secD protein-export membrane protein SecD. SecD from Mycobacterium tuberculosis has a long Pro-rich insert.
Probab=50.65 E-value=10 Score=31.32 Aligned_cols=34 Identities=9% Similarity=0.119 Sum_probs=28.8
Q ss_pred CCCCCeeEEEecCcCChhhhhhhccceEEEEEec
Q 042762 11 NQYPNTSLIQIEGVNTKEKVVWYCCKHLAYIYKA 44 (96)
Q Consensus 11 ~Q~~~~aLlKiegV~~~~~a~fylGKrvayvyk~ 44 (96)
.|-++.-+|+++|+.|.++|...||+.--.-++.
T Consensus 61 ~~G~~~I~V~lPg~~d~~~~~~~lg~~a~l~f~~ 94 (397)
T TIGR01129 61 RQGKDRIVVELPGVTDTSRAKDILGGTATLEFRL 94 (397)
T ss_pred EeCCceEEEECCCCCCHHHHHHHhCCceEEEEEE
Confidence 3557889999999999999999999988765544
No 37
>PRK05812 secD preprotein translocase subunit SecD; Reviewed
Probab=43.73 E-value=15 Score=31.44 Aligned_cols=34 Identities=12% Similarity=0.178 Sum_probs=28.5
Q ss_pred CCCCCeeEEEecCcCChhhhhhhccceEEEEEec
Q 042762 11 NQYPNTSLIQIEGVNTKEKVVWYCCKHLAYIYKA 44 (96)
Q Consensus 11 ~Q~~~~aLlKiegV~~~~~a~fylGKrvayvyk~ 44 (96)
.|-++.-+|+++|+.|.+++...||+.--.-++.
T Consensus 147 ~~G~~rI~V~lPG~~d~~~~~~~ig~ta~L~f~~ 180 (498)
T PRK05812 147 RQGADRIVVELPGVQDTARAKEILGKTATLEFRL 180 (498)
T ss_pred EeCCCeEEEECCCCCCHHHHHHHhcCceEEEEEE
Confidence 4557889999999999999999999987655553
No 38
>COG3466 ISA1214 Putative transposon-encoded protein [Function unknown]
Probab=43.61 E-value=81 Score=19.74 Aligned_cols=27 Identities=33% Similarity=0.572 Sum_probs=21.9
Q ss_pred EEEceeCCCceEEEEeCCCCCccCCCCeEEEEE
Q 042762 59 KVARSHGNSGVVRAEFKSNLPPKSMGDKVRVFM 91 (96)
Q Consensus 59 kV~r~HGnsGvVrAkF~~nLP~~aiG~~vrVmL 91 (96)
+...|-||||.|- .|-.-+|.+|.|..
T Consensus 23 k~VtpfGnsakVd------vPK~yiG~rv~viI 49 (52)
T COG3466 23 KRVTPFGNSAKVD------VPKRYIGKRVYVII 49 (52)
T ss_pred EEEEecCCcceee------CchHHcCcEEEEEE
Confidence 4445999999984 69999999998764
No 39
>PRK14726 bifunctional preprotein translocase subunit SecD/SecF; Provisional
Probab=39.94 E-value=18 Score=33.15 Aligned_cols=34 Identities=9% Similarity=0.154 Sum_probs=28.9
Q ss_pred CCCCCeeEEEecCcCChhhhhhhccceEEEEEec
Q 042762 11 NQYPNTSLIQIEGVNTKEKVVWYCCKHLAYIYKA 44 (96)
Q Consensus 11 ~Q~~~~aLlKiegV~~~~~a~fylGKrvayvyk~ 44 (96)
.|-++.-+++++|+.|.++|...||+.--.-++.
T Consensus 186 ~~G~~rI~VelPG~~D~~~a~~~ig~ta~L~f~~ 219 (855)
T PRK14726 186 RQGDDRIVVQVPGLVDPQRLKNLLNQPAKLSFRL 219 (855)
T ss_pred EeCCceEEEECCCCCCHHHHHHHhCCceEEEEEE
Confidence 4668899999999999999999999987655554
No 40
>PRK13023 bifunctional preprotein translocase subunit SecD/SecF; Reviewed
Probab=36.97 E-value=24 Score=31.92 Aligned_cols=34 Identities=9% Similarity=0.051 Sum_probs=28.7
Q ss_pred CCCCCeeEEEecCcCChhhhhhhccceEEEEEec
Q 042762 11 NQYPNTSLIQIEGVNTKEKVVWYCCKHLAYIYKA 44 (96)
Q Consensus 11 ~Q~~~~aLlKiegV~~~~~a~fylGKrvayvyk~ 44 (96)
.|-.+.-++++||+.|.|+|...||+.----++.
T Consensus 92 ~~G~~rI~VelPG~~d~~~a~~~ig~ta~L~F~~ 125 (758)
T PRK13023 92 GEGRNQIRVEVPGLYDAQLLKDILTIRGNLSFRA 125 (758)
T ss_pred EECCceEEEECCCCCCHHHHHHHhCCceEEEEEE
Confidence 3567889999999999999999999987665554
No 41
>PRK12933 secD preprotein translocase subunit SecD; Reviewed
Probab=36.81 E-value=25 Score=31.14 Aligned_cols=33 Identities=12% Similarity=0.055 Sum_probs=26.8
Q ss_pred CCCCCeeEEEecCcCChhhhhhhccceEEEEEe
Q 042762 11 NQYPNTSLIQIEGVNTKEKVVWYCCKHLAYIYK 43 (96)
Q Consensus 11 ~Q~~~~aLlKiegV~~~~~a~fylGKrvayvyk 43 (96)
.|-.+.-+++++|+.|.++|...||+.----++
T Consensus 255 ~qG~~rI~VelPGv~D~~~ak~iig~tA~L~F~ 287 (604)
T PRK12933 255 RQGEHRIRIELPGVQDPAAAKNVIGATASLAFY 287 (604)
T ss_pred EecCceEEEECCCCCCHHHHHHHhCCceEEEEE
Confidence 356788999999999999999999976543333
No 42
>cd04713 BAH_plant_3 BAH, or Bromo Adjacent Homology domain, plant-specific sub-family with unknown function. BAH domains are found in a variety of proteins playing roles in transcriptional silencing and the remodeling of chromatin. It is assumed that in most or all of these instances the BAH domain mediates protein-protein interactions.
Probab=35.46 E-value=1.6e+02 Score=20.86 Aligned_cols=73 Identities=16% Similarity=0.252 Sum_probs=42.6
Q ss_pred CeeEEEecCcCChhhhhhhccceEEEEEecccCCCCceeEEEE-----------EEEEceeCCCceEEEEeCCCCCccCC
Q 042762 15 NTSLIQIEGVNTKEKVVWYCCKHLAYIYKAKTKKSWTHYRCIW-----------GKVARSHGNSGVVRAEFKSNLPPKSM 83 (96)
Q Consensus 15 ~~aLlKiegV~~~~~a~fylGKrvayvyk~k~~~~g~k~R~iw-----------GkV~r~HGnsGvVrAkF~~nLP~~ai 83 (96)
..+||+-++ +-.-|+| ++.=++...+ .-..++|.| +.-...|..+=++..-....+|..+|
T Consensus 25 D~Vlv~~~~-----~~~pyI~-~I~~i~~~~~--~~~~v~V~WFyRpeEi~~~~~~~~~~~~~~ElF~S~~~d~~~~~~I 96 (146)
T cd04713 25 DCVLLVPED-----DQKPYIA-IIKDIYKQEE--GSLKLEVQWLYRPEEIEKKKGGNWKAEDPRELFYSFHRDEVPAESV 96 (146)
T ss_pred CEEEEeCCC-----CCCCEEE-EEEEEEEcCC--CCEEEEEEeeECHHHhccccccccccCCCCeEEEeCCCCcCCHHHC
Confidence 455666332 2456777 5555555432 223445555 21112333455556666677899999
Q ss_pred CCeEEEEEeecC
Q 042762 84 GDKVRVFMYPSN 95 (96)
Q Consensus 84 G~~vrVmLyps~ 95 (96)
-+.+.|+..|..
T Consensus 97 ~gkc~V~~~~~~ 108 (146)
T cd04713 97 LHPCKVAFVPKG 108 (146)
T ss_pred cceeEEEECCcc
Confidence 999999988754
No 43
>PF05798 Phage_FRD3: Bacteriophage FRD3 protein; InterPro: IPR008765 This is a group of proteins of unknown function from bacteriophage T2 and related phage.
Probab=33.05 E-value=17 Score=24.15 Aligned_cols=10 Identities=20% Similarity=0.348 Sum_probs=8.1
Q ss_pred Chhhhhhhcc
Q 042762 26 TKEKVVWYCC 35 (96)
Q Consensus 26 ~~~~a~fylG 35 (96)
+.|||+||.|
T Consensus 62 ~~EDa~FY~g 71 (75)
T PF05798_consen 62 DPEDAKFYMG 71 (75)
T ss_pred CHHHHHHHHH
Confidence 3589999987
No 44
>COG5192 BMS1 GTP-binding protein required for 40S ribosome biogenesis [Translation, ribosomal structure and biogenesis]
Probab=31.71 E-value=18 Score=33.20 Aligned_cols=23 Identities=35% Similarity=0.681 Sum_probs=20.0
Q ss_pred EEEEEEceeCCCceEEEEeCCCC
Q 042762 56 IWGKVARSHGNSGVVRAEFKSNL 78 (96)
Q Consensus 56 iwGkV~r~HGnsGvVrAkF~~nL 78 (96)
+.|.|.+|||.+|..||-|.--+
T Consensus 889 lrgqvk~~~~k~g~yra~fe~km 911 (1077)
T COG5192 889 LRGQVKGPHGKNGEYRAVFEGKM 911 (1077)
T ss_pred ccccccCccCCCccchheeccch
Confidence 44999999999999999998543
No 45
>cd09232 Snurportin-1_C C-terminal m3G cap-binding domain of nuclear import adaptor snurportin-1. Snurportin-1 (SPN1 or SNUPN) is a nuclear import adaptor for m3G-capped spliceosomal U small nucleoproteins (snRNPs), which are assembled in the cytoplasm. After capping and assembly, the U snRNPs are transported into the nucleus by SPN1 and importin beta; SPN1 is then returned to the cytoplasm by exportin 1 (CRM1), which also transports the non-capped U snRNPs. The U snRNPs are essential elements of the spliceosome, which catalyzes the excision of introns and the ligation of exons to form a mature mRNA. SPN1 contains two domains, an N-terminal importin beta-binding (IBB) domain and a C-terminal m3G cap-binding domain.
Probab=29.67 E-value=1e+02 Score=23.02 Aligned_cols=35 Identities=29% Similarity=0.349 Sum_probs=26.0
Q ss_pred ccceEEEEEecccCCCCceeEEEEEEEEceeCCCceEEEEeCCCCCccC
Q 042762 34 CCKHLAYIYKAKTKKSWTHYRCIWGKVARSHGNSGVVRAEFKSNLPPKS 82 (96)
Q Consensus 34 lGKrvayvyk~k~~~~g~k~R~iwGkV~r~HGnsGvVrAkF~~nLP~~a 82 (96)
.||||.=|-. + |+ |.+...+|-+...|.+.||+-.
T Consensus 30 ~G~R~lvv~~-~------------g~-t~~~~r~g~~~~~f~s~lP~g~ 64 (186)
T cd09232 30 VGKRCLVVAS-K------------GK-TVARSKNGRTLHRFSSALPGGS 64 (186)
T ss_pred CceEEEEEEe-C------------CE-EEEEeCCCCEEEecccCCCCCC
Confidence 4888876542 1 33 3477889999999999999954
No 46
>PRK13024 bifunctional preprotein translocase subunit SecD/SecF; Reviewed
Probab=28.48 E-value=35 Score=30.57 Aligned_cols=33 Identities=12% Similarity=0.157 Sum_probs=27.2
Q ss_pred CCCCeeEEEecCcCChhhhhhhccceEEEEEec
Q 042762 12 QYPNTSLIQIEGVNTKEKVVWYCCKHLAYIYKA 44 (96)
Q Consensus 12 Q~~~~aLlKiegV~~~~~a~fylGKrvayvyk~ 44 (96)
|-++.-+|+++|++|.|+|...+|+.----++.
T Consensus 85 ~g~~~I~V~~pg~~d~~~~~~~l~~~a~l~f~~ 117 (755)
T PRK13024 85 EGNNRIRVELPGVQDPERARELLGSTAKLTFRD 117 (755)
T ss_pred ECCCeEEEECCCCCCHHHHHHHhCCceEEEEEE
Confidence 456789999999999999999999877654443
No 47
>PF14149 YhfH: YhfH-like protein
Probab=25.09 E-value=21 Score=20.84 Aligned_cols=11 Identities=64% Similarity=1.014 Sum_probs=8.3
Q ss_pred EEeCCCCCccC
Q 042762 72 AEFKSNLPPKS 82 (96)
Q Consensus 72 AkF~~nLP~~a 82 (96)
+.|-+|||++-
T Consensus 5 ~eFfrnLp~K~ 15 (37)
T PF14149_consen 5 VEFFRNLPPKK 15 (37)
T ss_pred HHHHHhCCCcc
Confidence 35889999873
No 48
>PF06312 Neurexophilin: Neurexophilin
Probab=22.74 E-value=1.5e+02 Score=23.03 Aligned_cols=34 Identities=32% Similarity=0.431 Sum_probs=27.2
Q ss_pred EEEEEEceeCCCceEEEEeCCCCCccCCCCeEEEEEeec
Q 042762 56 IWGKVARSHGNSGVVRAEFKSNLPPKSMGDKVRVFMYPS 94 (96)
Q Consensus 56 iwGkV~r~HGnsGvVrAkF~~nLP~~aiG~~vrVmLyps 94 (96)
+-|+|+ =||| |..-|.|.-+-|+++ .|.|.|-++
T Consensus 85 ~~G~V~-Dh~N-GTYtv~F~L~W~G~v---~vsV~LVHP 118 (219)
T PF06312_consen 85 AAGKVT-DHGN-GTYTVSFPLLWPGQV---SVSVSLVHP 118 (219)
T ss_pred ceEEEE-ECCC-CeEEEEEEeecCceE---EEEEEEEcc
Confidence 458998 6875 999999999999986 677776543
No 49
>COG4680 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=21.25 E-value=80 Score=22.08 Aligned_cols=23 Identities=17% Similarity=0.215 Sum_probs=15.5
Q ss_pred hhhhhccceEEEEEecccCCCCceeEEEE
Q 042762 29 KVVWYCCKHLAYIYKAKTKKSWTHYRCIW 57 (96)
Q Consensus 29 ~a~fylGKrvayvyk~k~~~~g~k~R~iw 57 (96)
|+.+|..+|+.+ ...|+++|.|.
T Consensus 48 d~~~~~Dnr~Vf------di~GN~yRLIv 70 (98)
T COG4680 48 DNFKYLDNRVVF------DIGGNKYRLIV 70 (98)
T ss_pred ccceeccceEEE------EcCCCEEEEEE
Confidence 455666777765 23689999774
No 50
>PRK08343 secD preprotein translocase subunit SecD; Reviewed
Probab=21.19 E-value=61 Score=27.15 Aligned_cols=32 Identities=6% Similarity=-0.015 Sum_probs=27.1
Q ss_pred CCCCeeEEEecCcCChhhhhhhccceEEEEEec
Q 042762 12 QYPNTSLIQIEGVNTKEKVVWYCCKHLAYIYKA 44 (96)
Q Consensus 12 Q~~~~aLlKiegV~~~~~a~fylGKrvayvyk~ 44 (96)
|-++.-+++++| .|.++|...||+.--.-++.
T Consensus 89 ~g~~~I~Ve~Pg-~d~~~~~~~i~~~~~l~f~~ 120 (417)
T PRK08343 89 VGDQYIVVEVPG-VDADTAKEIIEKQGVFEARI 120 (417)
T ss_pred EcCceEEEEcCC-CCHHHHHHHhcCceEEEEEE
Confidence 456789999999 89999999999998765555
No 51
>PTZ00241 40S ribosomal protein S11; Provisional
Probab=21.01 E-value=1.3e+02 Score=22.61 Aligned_cols=63 Identities=21% Similarity=0.250 Sum_probs=42.9
Q ss_pred CcCChhhh--hhhccceEEEEEecccCCCCceeEEEEEEEEceeCCCceE-EEE-----------------eCCCCCc--
Q 042762 23 GVNTKEKV--VWYCCKHLAYIYKAKTKKSWTHYRCIWGKVARSHGNSGVV-RAE-----------------FKSNLPP-- 80 (96)
Q Consensus 23 gV~~~~~a--~fylGKrvayvyk~k~~~~g~k~R~iwGkV~r~HGnsGvV-rAk-----------------F~~nLP~-- 80 (96)
|+.++++| ..|+.++|=| ...-...| |++-|.|+..-.+.=+| +.. |.-.+||
T Consensus 41 ~~~~P~~~~~~~yiD~kCPf--~G~~~iRg---ril~G~VvS~KM~KTIVV~ve~~~~h~kY~K~~kr~kk~~aHd~~~~ 115 (158)
T PTZ00241 41 GFKTPKEAIEGKYIDKKCPF--TGNVSIRG---RILRGVVISTKMKRTIIIRRDYLHYVKKYNRYEKRHKNIPVHCSPCF 115 (158)
T ss_pred CCcCChhhhcccccCCCCCc--cceeeEcc---eEEEEEEEEccCCccEEEEEEEEEecCccceEEEeeecEEEeCCccC
Confidence 68888888 4599999988 44333445 78999999887776554 332 2223344
Q ss_pred -cCCCCeEEEE
Q 042762 81 -KSMGDKVRVF 90 (96)
Q Consensus 81 -~aiG~~vrVm 90 (96)
--+|+.|.|+
T Consensus 116 ~~kvGD~V~I~ 126 (158)
T PTZ00241 116 DVKEGDIVVVG 126 (158)
T ss_pred CCCCCCEEEEE
Confidence 3688888876
Done!