Query psy2262
Match_columns 137
No_of_seqs 109 out of 537
Neff 3.4
Searched_HMMs 46136
Date Fri Aug 16 20:14:34 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy2262.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/2262hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 CHL00051 rps12 ribosomal prote 100.0 1E-60 2.2E-65 362.0 11.8 113 22-134 1-114 (123)
2 PRK05163 rpsL 30S ribosomal pr 100.0 2.7E-60 5.8E-65 360.1 12.1 113 22-134 1-114 (124)
3 TIGR00981 rpsL_bact ribosomal 100.0 6.5E-60 1.4E-64 358.0 12.0 113 22-134 1-114 (124)
4 cd03368 Ribosomal_S12 S12-like 100.0 1.4E-58 3E-63 344.1 10.5 107 24-130 1-108 (108)
5 PF00164 Ribosom_S12_S23: Ribo 100.0 1.6E-57 3.5E-62 343.8 8.6 111 23-133 1-112 (122)
6 COG0048 RpsL Ribosomal protein 100.0 9.5E-56 2.1E-60 336.7 11.0 118 16-133 1-119 (129)
7 cd00319 Ribosomal_S12_like Rib 100.0 6.6E-53 1.4E-57 307.8 10.0 92 39-130 4-95 (95)
8 KOG1750|consensus 100.0 3.1E-51 6.7E-56 314.8 7.9 116 16-131 22-139 (139)
9 PTZ00115 40S ribosomal protein 100.0 7.7E-50 1.7E-54 334.1 11.7 96 39-134 115-210 (290)
10 cd03367 Ribosomal_S23 S12-like 100.0 1.9E-43 4.2E-48 265.3 10.1 82 39-120 11-100 (115)
11 TIGR00982 S23_S12_E_A ribosoma 100.0 8.1E-43 1.8E-47 268.8 9.6 98 39-136 31-138 (139)
12 PRK04211 rps12P 30S ribosomal 100.0 1.3E-42 2.9E-47 269.1 9.4 98 39-136 37-144 (145)
13 PTZ00067 40S ribosomal S23; Pr 100.0 2.3E-42 5.1E-47 267.2 9.7 98 39-136 36-142 (143)
14 KOG1749|consensus 100.0 2.1E-31 4.6E-36 204.6 8.3 97 40-136 37-142 (143)
15 COG0361 InfA Translation initi 94.0 0.097 2.1E-06 37.2 4.1 46 49-104 8-57 (75)
16 TIGR00008 infA translation ini 93.9 0.13 2.7E-06 35.9 4.4 45 50-104 7-55 (68)
17 PF01176 eIF-1a: Translation i 87.3 0.38 8.3E-06 32.1 1.6 33 72-104 17-52 (65)
18 cd05793 S1_IF1A S1_IF1A: Trans 86.9 1.1 2.3E-05 31.4 3.8 33 72-104 14-49 (77)
19 smart00652 eIF1a eukaryotic tr 86.0 1.3 2.9E-05 31.3 3.9 33 72-104 19-54 (83)
20 PRK12442 translation initiatio 85.4 2.2 4.7E-05 31.3 4.8 45 50-104 9-57 (87)
21 PRK04012 translation initiatio 82.2 2.3 5.1E-05 31.3 3.9 51 43-103 16-69 (100)
22 cd04456 S1_IF1A_like S1_IF1A_l 81.6 2.7 5.8E-05 29.5 3.9 33 72-104 14-49 (78)
23 TIGR00523 eIF-1A eukaryotic/ar 77.1 3.9 8.4E-05 30.1 3.7 47 46-102 17-66 (99)
24 PLN00208 translation initiatio 74.6 5.1 0.00011 31.7 4.0 48 47-104 31-81 (145)
25 PTZ00329 eukaryotic translatio 74.5 5.3 0.00011 31.9 4.1 51 44-104 28-81 (155)
26 COG1768 Predicted phosphohydro 68.8 4.1 8.9E-05 34.4 2.4 32 93-125 40-86 (230)
27 cd01724 Sm_D1 The eukaryotic S 65.3 28 0.00062 24.8 5.9 64 66-135 7-86 (90)
28 TIGR00230 sfsA sugar fermentat 60.3 45 0.00097 27.8 7.0 48 70-121 20-72 (232)
29 PF03749 SfsA: Sugar fermentat 59.9 22 0.00048 29.2 5.0 52 69-123 5-61 (215)
30 PRK00347 putative DNA-binding 59.5 23 0.00049 29.4 5.1 34 70-103 18-54 (234)
31 cd04474 RPA1_DBD_A RPA1_DBD_A: 46.6 88 0.0019 22.1 5.8 43 68-110 32-81 (104)
32 PF02814 UreE_N: UreE urease a 43.8 76 0.0016 20.8 4.8 38 68-106 26-63 (65)
33 COG1489 SfsA DNA-binding prote 42.4 51 0.0011 28.0 4.7 34 69-103 17-53 (235)
34 PRK00276 infA translation init 41.0 81 0.0018 21.3 4.7 32 72-103 21-56 (72)
35 cd05792 S1_eIF1AD_like S1_eIF1 40.2 42 0.00092 23.8 3.3 31 73-103 15-48 (78)
36 KOG3068|consensus 38.8 9.5 0.00021 33.0 -0.2 13 102-114 118-134 (268)
37 cd01732 LSm5 The eukaryotic Sm 35.6 50 0.0011 22.9 3.0 30 66-95 9-40 (76)
38 cd01726 LSm6 The eukaryotic Sm 33.3 86 0.0019 20.7 3.8 34 66-99 6-41 (67)
39 cd01730 LSm3 The eukaryotic Sm 32.3 61 0.0013 22.4 3.1 33 69-101 10-44 (82)
40 CHL00010 infA translation init 31.9 1.4E+02 0.003 20.6 4.8 44 50-103 9-56 (78)
41 cd01723 LSm4 The eukaryotic Sm 31.3 1.1E+02 0.0025 20.7 4.3 24 66-89 7-30 (76)
42 PF06246 Isy1: Isy1-like splic 30.4 17 0.00037 30.8 0.0 13 105-117 127-139 (255)
43 PF02470 MCE: mce related prot 30.4 49 0.0011 21.9 2.3 30 80-110 2-34 (81)
44 COG3976 Uncharacterized protei 28.8 45 0.00097 26.4 2.1 44 61-107 32-75 (135)
45 cd04480 RPA1_DBD_A_like RPA1_D 27.2 2E+02 0.0043 19.3 5.6 57 53-110 2-65 (86)
46 COG1761 RPB11 DNA-directed RNA 27.1 1.6E+02 0.0034 21.8 4.6 45 78-123 12-68 (99)
47 PF14020 DUF4236: Protein of u 26.6 71 0.0015 21.4 2.5 24 68-91 26-50 (55)
48 COG5092 NMT1 N-myristoyl trans 25.9 1.5E+02 0.0032 27.3 5.0 50 65-121 127-176 (451)
49 PF14890 Intein_splicing: Inte 23.6 1.5E+02 0.0033 24.5 4.5 19 67-85 47-65 (323)
50 cd04451 S1_IF1 S1_IF1: Transla 20.3 2.5E+02 0.0054 18.0 4.3 31 73-103 16-50 (64)
51 cd00571 UreE UreE urease acces 20.1 2.6E+02 0.0056 21.0 4.7 38 68-106 30-67 (136)
No 1
>CHL00051 rps12 ribosomal protein S12
Probab=100.00 E-value=1e-60 Score=362.00 Aligned_cols=113 Identities=43% Similarity=0.616 Sum_probs=107.3
Q ss_pred chhhHHHHhcCCCCCCCC-CCCCCCCCCccceEEEEeeecCCCCCCccccceEEEEeCCCCEEEEEecCCCCCCCccceE
Q psy2262 22 TKTLWDMHMKGPHYKKRP-PRQPLLGKPFAKGVVLKVLIKKPKKPNSANRKCVLVRLSTGKEMVAYIPGEGHNLQEHNIV 100 (137)
Q Consensus 22 M~TinQl~~~~~~~k~~~-k~~~L~~~Pq~KGi~lkv~~~~PKKPNSA~RKvakVrLsngk~v~AyIPGeGhnlqehs~V 100 (137)
|+|||||+++.|+++.++ +.++|++|||++|||+++++++|||||||+||||+|||+||++|+||||||||||||||+|
T Consensus 1 M~T~nQl~~~~r~~k~~~~k~~~L~g~Pq~kGv~lkv~~~~pKKPNSA~RKvarVrLsngk~v~AyIPGeGhnlqehs~V 80 (123)
T CHL00051 1 MPTIKQLIRNTRQPIRNKTKSPALRGCPQRRGTCTRVYTITPKKPNSALRKVARVRLTSGFEITAYIPGIGHNLQEHSVV 80 (123)
T ss_pred CCcHHhhhhcCCCCccccccCcccccCcccCeEEEEEEeccccCCChhheeEEEEEccCCCEEEEEcCCCCccccccCEE
Confidence 999999999887765554 5789999999999999999999999999999999999999999999999999999999999
Q ss_pred EEecCccCCCCCceEEEeeeecCCcccccccccC
Q psy2262 101 LCKVGRVKDLPGVKIKCVRGVYDLPHVVKKTQLT 134 (137)
Q Consensus 101 LVrGGrv~DLPGVkykvVRG~~D~~gv~~Rk~~~ 134 (137)
||||||++|||||+|++|||+|||+||.+|+++.
T Consensus 81 LvrGGrv~DlPGVrykvVRG~~D~~gv~~R~~~R 114 (123)
T CHL00051 81 LVRGGRVKDLPGVRYHIVRGTLDAVGVKDRQQGR 114 (123)
T ss_pred EEeCCccCCCCCeeEEEEeeeecccccccccccc
Confidence 9999999999999999999999999999998763
No 2
>PRK05163 rpsL 30S ribosomal protein S12; Validated
Probab=100.00 E-value=2.7e-60 Score=360.11 Aligned_cols=113 Identities=47% Similarity=0.670 Sum_probs=107.5
Q ss_pred chhhHHHHhcCCCCCCCC-CCCCCCCCCccceEEEEeeecCCCCCCccccceEEEEeCCCCEEEEEecCCCCCCCccceE
Q psy2262 22 TKTLWDMHMKGPHYKKRP-PRQPLLGKPFAKGVVLKVLIKKPKKPNSANRKCVLVRLSTGKEMVAYIPGEGHNLQEHNIV 100 (137)
Q Consensus 22 M~TinQl~~~~~~~k~~~-k~~~L~~~Pq~KGi~lkv~~~~PKKPNSA~RKvakVrLsngk~v~AyIPGeGhnlqehs~V 100 (137)
|+|||||+++.|.++.++ +.++|++|||++|||+++++++|||||||+||||+|||+||++|+||||||||||||||+|
T Consensus 1 M~T~nQl~~~~r~~k~~~~k~~~l~~~Pq~kGv~l~v~~~~pKKPNSA~RKvarVrL~ngk~v~AyIPGeGhnlqehs~V 80 (124)
T PRK05163 1 MPTINQLVRKGRKSKVKKSKSPALNACPQKRGVCTRVYTTTPKKPNSALRKVARVRLTNGFEVTAYIPGEGHNLQEHSVV 80 (124)
T ss_pred CCcHHHHhhcCCCCCcccccCcccccCcccCcEEEEEEecCccCCCchhheEEEEEeCCCCEEEEEcCCCCCCccccCEE
Confidence 999999999887766655 5689999999999999999999999999999999999999999999999999999999999
Q ss_pred EEecCccCCCCCceEEEeeeecCCcccccccccC
Q psy2262 101 LCKVGRVKDLPGVKIKCVRGVYDLPHVVKKTQLT 134 (137)
Q Consensus 101 LVrGGrv~DLPGVkykvVRG~~D~~gv~~Rk~~~ 134 (137)
|||||+++|||||+|++|||+|||+||.+|+++.
T Consensus 81 LvrGGrv~DlPGVrykvVrG~~D~~gv~~R~~~R 114 (124)
T PRK05163 81 LIRGGRVKDLPGVRYHIVRGALDTAGVKDRKQGR 114 (124)
T ss_pred EEeCCccCCCCCcEEEEeeeeecccccccccccc
Confidence 9999999999999999999999999999998764
No 3
>TIGR00981 rpsL_bact ribosomal protein S12, bacterial/organelle. This model recognizes ribosomal protein S12 of Bacteria, mitochondria, and chloroplasts. The homologous ribosomal proteins of Archaea and Eukarya, termed S23 in Eukarya and S12 or S23 in Archaea, score below the trusted cutoff.
Probab=100.00 E-value=6.5e-60 Score=358.00 Aligned_cols=113 Identities=48% Similarity=0.685 Sum_probs=107.2
Q ss_pred chhhHHHHhcCCCCCCCC-CCCCCCCCCccceEEEEeeecCCCCCCccccceEEEEeCCCCEEEEEecCCCCCCCccceE
Q psy2262 22 TKTLWDMHMKGPHYKKRP-PRQPLLGKPFAKGVVLKVLIKKPKKPNSANRKCVLVRLSTGKEMVAYIPGEGHNLQEHNIV 100 (137)
Q Consensus 22 M~TinQl~~~~~~~k~~~-k~~~L~~~Pq~KGi~lkv~~~~PKKPNSA~RKvakVrLsngk~v~AyIPGeGhnlqehs~V 100 (137)
|+|||||+++.|.++.++ +.++|++|||++|||+++++++|||||||+||||+|||+||++|+||||||||||||||+|
T Consensus 1 M~T~nQl~~~~r~kk~~~~k~~~l~g~Pq~kGi~l~~~~~~pKKPNSA~RKvarVrL~ngk~v~AyIPG~Ghnlqehs~V 80 (124)
T TIGR00981 1 MPTINQLIRKGRKKKKKKSKSPALEACPQKRGVCTRVYTTTPKKPNSALRKVARVRLTNGFEVTAYIPGEGHNLQEHSVV 80 (124)
T ss_pred CCchHHhhhcCCCCccccccCcccccCCccCcEEEEEEeccccCCCchhheeEEEEeCCCCEEEEEcCCCCCCccccCEE
Confidence 999999999877666554 5689999999999999999999999999999999999999999999999999999999999
Q ss_pred EEecCccCCCCCceEEEeeeecCCcccccccccC
Q psy2262 101 LCKVGRVKDLPGVKIKCVRGVYDLPHVVKKTQLT 134 (137)
Q Consensus 101 LVrGGrv~DLPGVkykvVRG~~D~~gv~~Rk~~~ 134 (137)
|||||+++|||||+|++|||+|||+||.+|+++.
T Consensus 81 LvrGGrv~DlPGVkykvVrG~~D~~gv~~R~~~R 114 (124)
T TIGR00981 81 LIRGGRVKDLPGVRYHIVRGALDTAGVKNRKQGR 114 (124)
T ss_pred EEeCCccCCCCCeEEEEEeEeecccccccccccc
Confidence 9999999999999999999999999999998764
No 4
>cd03368 Ribosomal_S12 S12-like family, 30S ribosomal protein S12 subfamily; S12 is located at the interface of the large and small ribosomal subunits of prokaryotes, chloroplasts and mitochondria, where it plays an important role in both tRNA and ribosomal subunit interactions. S12 is essential for maintenance of a pretranslocation state and, together with S13, functions as a control element for the rRNA- and tRNA-driven movements of translocation. Antibiotics such as streptomycin bind S12 and cause the ribosome to misread the genetic code.
Probab=100.00 E-value=1.4e-58 Score=344.05 Aligned_cols=107 Identities=57% Similarity=0.823 Sum_probs=101.0
Q ss_pred hhHHHHhcCCCCCCCC-CCCCCCCCCccceEEEEeeecCCCCCCccccceEEEEeCCCCEEEEEecCCCCCCCccceEEE
Q psy2262 24 TLWDMHMKGPHYKKRP-PRQPLLGKPFAKGVVLKVLIKKPKKPNSANRKCVLVRLSTGKEMVAYIPGEGHNLQEHNIVLC 102 (137)
Q Consensus 24 TinQl~~~~~~~k~~~-k~~~L~~~Pq~KGi~lkv~~~~PKKPNSA~RKvakVrLsngk~v~AyIPGeGhnlqehs~VLV 102 (137)
|||||++..+.+++++ +.++|++|||++|||+++++++|||||||+||||+|||+||++|+||||||||||||||+|||
T Consensus 1 T~nQl~~~~r~~k~~~~k~~~l~g~Pq~kGi~l~v~~~~pKKPNSA~RKvarV~L~ngk~v~AyIPG~Ghnlqehs~VLv 80 (108)
T cd03368 1 TINQLIRKGRKKKKKKSKSPALEGCPQKKGVCLKVYTTTPKKPNSALRKVARVRLSNGKEVTAYIPGEGHNLQEHSVVLV 80 (108)
T ss_pred CccceeecCCCCccccccCCcccCCcccCcEEEEEEeccccCCChhheeeEEEEecCCCEEEEEcCCCCCCccccCEEEE
Confidence 7999998766655554 568999999999999999999999999999999999999999999999999999999999999
Q ss_pred ecCccCCCCCceEEEeeeecCCcccccc
Q psy2262 103 KVGRVKDLPGVKIKCVRGVYDLPHVVKK 130 (137)
Q Consensus 103 rGGrv~DLPGVkykvVRG~~D~~gv~~R 130 (137)
||||++|||||+|++|||+|||+||.+|
T Consensus 81 rGGrv~DlPGVkykvvRG~~D~~gv~~R 108 (108)
T cd03368 81 RGGRVKDLPGVRYHIVRGVLDLAGVKNR 108 (108)
T ss_pred eCCccCCCCCeEEEEEeeecccccccCC
Confidence 9999999999999999999999999876
No 5
>PF00164 Ribosom_S12_S23: Ribosomal protein S12/S23; InterPro: IPR006032 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 S12 is one of the proteins from the small ribosomal subunit. In Escherichia coli, S12 is known to be involved in the translation initiation step. It is a very basic protein of 120 to 150 amino-acid residues. S12 belongs to a family of ribosomal proteins which are grouped on the basis of sequence similarities. This protein is known typically as S12 in bacteria, S23 in eukaryotes and as either S12 or S23 in the Archaea []. Bacterial S12 molecules contain a conserved aspartic acid residue which undergoes a novel post-translational modification, beta-methylthiolation, to form the corresponding 3-methylthioaspartic acid.; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 2ZKQ_l 3BBN_L 3PYU_L 3D5A_L 3MS0_L 3MR8_L 3F1G_L 2OW8_m 3PYS_L 2QNH_m ....
Probab=100.00 E-value=1.6e-57 Score=343.81 Aligned_cols=111 Identities=55% Similarity=0.792 Sum_probs=102.2
Q ss_pred hhhHHHHhcCCCCCCCC-CCCCCCCCCccceEEEEeeecCCCCCCccccceEEEEeCCCCEEEEEecCCCCCCCccceEE
Q psy2262 23 KTLWDMHMKGPHYKKRP-PRQPLLGKPFAKGVVLKVLIKKPKKPNSANRKCVLVRLSTGKEMVAYIPGEGHNLQEHNIVL 101 (137)
Q Consensus 23 ~TinQl~~~~~~~k~~~-k~~~L~~~Pq~KGi~lkv~~~~PKKPNSA~RKvakVrLsngk~v~AyIPGeGhnlqehs~VL 101 (137)
||+|||++..+..+.++ +.++|+++||++|||+++++++|||||||+||||+|||+||++|+||||||||||||||+||
T Consensus 1 pT~nQl~r~~r~~~~~~~k~~~l~~~Pq~kGi~l~~~~~~pKKPNSA~RK~arVrL~n~k~v~AyIPg~Ghnlqehs~VL 80 (122)
T PF00164_consen 1 PTINQLIRKRRKKKKRKSKSPALGGCPQKKGICLKVVTVKPKKPNSAIRKVARVRLSNGKKVTAYIPGEGHNLQEHSVVL 80 (122)
T ss_dssp -THHHHHHHHCHSSTCSHSSSSSTTSSEEEEEEEEEEEEEESTTTCSEEEEEEEEETTSEEEEEEC-SSSCCSTTTSEEE
T ss_pred ChhHHHhhcCCCCCCccccCCccCCCCccCcEEeecccccccCccchhhhcceeeeccCceEEEEecCCcccccccceEE
Confidence 69999998876655444 67899999999999999999999999999999999999999999999999999999999999
Q ss_pred EecCccCCCCCceEEEeeeecCCccccccccc
Q psy2262 102 CKVGRVKDLPGVKIKCVRGVYDLPHVVKKTQL 133 (137)
Q Consensus 102 VrGGrv~DLPGVkykvVRG~~D~~gv~~Rk~~ 133 (137)
||||+++|||||+|++|||+|||++|.+|+++
T Consensus 81 VrGgrv~DlPGVkykvVRG~~D~~gV~~r~~~ 112 (122)
T PF00164_consen 81 VRGGRVGDLPGVKYKVVRGVYDVAGVSNRKKA 112 (122)
T ss_dssp EEEESBTTSTTECEEBETTSTTCSSSTT-SSS
T ss_pred EeccccCCCCceEEEEEeeccccccccHHHHh
Confidence 99999999999999999999999999988765
No 6
>COG0048 RpsL Ribosomal protein S12 [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=9.5e-56 Score=336.71 Aligned_cols=118 Identities=47% Similarity=0.651 Sum_probs=110.2
Q ss_pred ccccCCchhhHHHHhcCCCCCCCC-CCCCCCCCCccceEEEEeeecCCCCCCccccceEEEEeCCCCEEEEEecCCCCCC
Q psy2262 16 VWVREKTKTLWDMHMKGPHYKKRP-PRQPLLGKPFAKGVVLKVLIKKPKKPNSANRKCVLVRLSTGKEMVAYIPGEGHNL 94 (137)
Q Consensus 16 ~~~~~~M~TinQl~~~~~~~k~~~-k~~~L~~~Pq~KGi~lkv~~~~PKKPNSA~RKvakVrLsngk~v~AyIPGeGhnl 94 (137)
+|+...|+|+||++|.+|+....+ |.++|++|||++|||+++++++|||||||+||||||||+||++|+||||||||||
T Consensus 1 ~~a~~km~t~~q~~R~~rr~~~~k~Ks~~L~g~Pq~RGv~~~v~~~~pKkPNSAlRK~~RVrL~NG~~VtAyiPg~Gh~l 80 (129)
T COG0048 1 LFAARKMPTINQLVRKKRRSLGLKSKSPALEGAPQARGVCTRVYTVTPKKPNSALRKVARVRLINGKEVTAYIPGEGHNL 80 (129)
T ss_pred CcccchhhhHHHHhhcccccccccccCCcccCCCccceEEEEEEecccCCCChhhheeEEEEeeCCcEEEEEcCCCCccc
Confidence 367889999999999876655444 6789999999999999999999999999999999999999999999999999999
Q ss_pred CccceEEEecCccCCCCCceEEEeeeecCCccccccccc
Q psy2262 95 QEHNIVLCKVGRVKDLPGVKIKCVRGVYDLPHVVKKTQL 133 (137)
Q Consensus 95 qehs~VLVrGGrv~DLPGVkykvVRG~~D~~gv~~Rk~~ 133 (137)
||||+||||||+++|||||+||||||.+|.+++..|.+.
T Consensus 81 qEH~~Vli~G~~v~DlPGVRy~vvrg~~ds~~v~~r~~~ 119 (129)
T COG0048 81 QEHSEVLIRGGRVKDLPGVRYKVVRGALDSLGVLDRGQK 119 (129)
T ss_pred cccCEEEEecCccCCCCCceEEEEEEcchhhhhhhhccc
Confidence 999999999999999999999999999999999988765
No 7
>cd00319 Ribosomal_S12_like Ribosomal protein S12-like family; composed of prokaryotic 30S ribosomal protein S12, eukaryotic 40S ribosomal protein S23 and similar proteins. S12 and S23 are located at the interface of the large and small ribosomal subunits, adjacent to the decoding center. They play an important role in translocation during the peptide elongation step of protein synthesis. They are also involved in important RNA and protein interactions. Ribosomal protein S12 is essential for maintenance of a pretranslocation state and, together with S13, functions as a control element for the rRNA- and tRNA-driven movements of translocation. S23 interacts with domain III of the eukaryotic elongation factor 2 (eEF2), which catalyzes translocation. Mutations in S12 and S23 have been found to affect translational accuracy. Antibiotics such as streptomycin may also bind S12/S23 and cause the ribosome to misread the genetic code.
Probab=100.00 E-value=6.6e-53 Score=307.78 Aligned_cols=92 Identities=57% Similarity=0.868 Sum_probs=89.6
Q ss_pred CCCCCCCCCCccceEEEEeeecCCCCCCccccceEEEEeCCCCEEEEEecCCCCCCCccceEEEecCccCCCCCceEEEe
Q psy2262 39 PPRQPLLGKPFAKGVVLKVLIKKPKKPNSANRKCVLVRLSTGKEMVAYIPGEGHNLQEHNIVLCKVGRVKDLPGVKIKCV 118 (137)
Q Consensus 39 ~k~~~L~~~Pq~KGi~lkv~~~~PKKPNSA~RKvakVrLsngk~v~AyIPGeGhnlqehs~VLVrGGrv~DLPGVkykvV 118 (137)
.|+++|+++||+||||+++++++|||||||+||||||||+||++|+||||||||||||||+|||||||++|||||+|++|
T Consensus 4 ~k~~~l~~~Pq~kGi~l~~~~~~pKkPNSA~RK~arV~L~ngk~v~ayIPg~Gh~lqeh~~VLvrGGr~~DlPGVrykvV 83 (95)
T cd00319 4 SKVPALKGAPFRRGVCTVVRTVTPKKPNSALRKVAKVRLTSGYEVTAYIPGEGHNLQEHSVVLIRGGRVKDLPGVRYHIV 83 (95)
T ss_pred cccCcccCCcccCeEEEEEEeccccCCChhhceEEEEEccCCCEEEEECCCCCcccccccEEEEeCCCcCCCCCcEEEEE
Confidence 36789999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred eeecCCcccccc
Q psy2262 119 RGVYDLPHVVKK 130 (137)
Q Consensus 119 RG~~D~~gv~~R 130 (137)
||+|||+++.+|
T Consensus 84 rG~~d~~~v~~R 95 (95)
T cd00319 84 RGVYDAAGVKDR 95 (95)
T ss_pred cccchhhhccCC
Confidence 999999999876
No 8
>KOG1750|consensus
Probab=100.00 E-value=3.1e-51 Score=314.83 Aligned_cols=116 Identities=58% Similarity=0.854 Sum_probs=108.5
Q ss_pred ccccCCchhhHHHHhc-CCCCCCCC-CCCCCCCCCccceEEEEeeecCCCCCCccccceEEEEeCCCCEEEEEecCCCCC
Q psy2262 16 VWVREKTKTLWDMHMK-GPHYKKRP-PRQPLLGKPFAKGVVLKVLIKKPKKPNSANRKCVLVRLSTGKEMVAYIPGEGHN 93 (137)
Q Consensus 16 ~~~~~~M~TinQl~~~-~~~~k~~~-k~~~L~~~Pq~KGi~lkv~~~~PKKPNSA~RKvakVrLsngk~v~AyIPGeGhn 93 (137)
.|++..|+|+||++++ ++.+|++. ++.+|+++||.+|||+++++++|||||||+||||+|+|+||.+|+|||||+|||
T Consensus 22 ~~~~~~m~T~nQliR~~~r~~kRr~~~~~~L~g~p~~kgvvl~v~t~~pkkPnsa~rK~~~vrlstg~~i~ayipg~ghn 101 (139)
T KOG1750|consen 22 SSASTMMATLNQLIRNGGRPPKRRPRKSPALDGCPQRKGVVLRVFTRKPKKPNSANRKCARVRLSTGREVTAYIPGIGHN 101 (139)
T ss_pred hhhhhhhHhHHHHHhcCCCCCccCCcccccccCCcccccEEEEEEEecCCCCCccceeeEEEEecCchheeeeCCCcccc
Confidence 4788899999999999 55555554 568999999999999999999999999999999999999999999999999999
Q ss_pred CCccceEEEecCccCCCCCceEEEeeeecCCccccccc
Q psy2262 94 LQEHNIVLCKVGRVKDLPGVKIKCVRGVYDLPHVVKKT 131 (137)
Q Consensus 94 lqehs~VLVrGGrv~DLPGVkykvVRG~~D~~gv~~Rk 131 (137)
+|||+.|||||||++|+|||+|++|||+|||+||.+|.
T Consensus 102 lqehs~Vlvrggr~qdlpgvk~~~vRg~~d~~~V~~r~ 139 (139)
T KOG1750|consen 102 LQEHSIVLVRGGRVQDLPGVKYHVVRGVYDLAGVVGRI 139 (139)
T ss_pred ceeEEEEEEecceeccCcchhhhhhhhhhhhccccCCC
Confidence 99999999999999999999999999999999999873
No 9
>PTZ00115 40S ribosomal protein S12; Provisional
Probab=100.00 E-value=7.7e-50 Score=334.11 Aligned_cols=96 Identities=48% Similarity=0.780 Sum_probs=92.8
Q ss_pred CCCCCCCCCCccceEEEEeeecCCCCCCccccceEEEEeCCCCEEEEEecCCCCCCCccceEEEecCccCCCCCceEEEe
Q psy2262 39 PPRQPLLGKPFAKGVVLKVLIKKPKKPNSANRKCVLVRLSTGKEMVAYIPGEGHNLQEHNIVLCKVGRVKDLPGVKIKCV 118 (137)
Q Consensus 39 ~k~~~L~~~Pq~KGi~lkv~~~~PKKPNSA~RKvakVrLsngk~v~AyIPGeGhnlqehs~VLVrGGrv~DLPGVkykvV 118 (137)
++.++|++|||+||||+++++++|||||||+||||+|||+||++|+||||||||||||||+||||||+++|||||+||+|
T Consensus 115 ~k~paL~g~PQkKGIclkv~~~tPKKPNSA~RKvarVrLsNGk~VtAyIPGeGHnLQEHs~VLVRGGrvkDLPGVrYkvV 194 (290)
T PTZ00115 115 RRSKWLEGAPQKKGICVKVRVQTPRKPNSGLRKVARVRLSTGRTVTVYIPGIGHNLNTHSVVLVRGGRCKDVPGCNYKAV 194 (290)
T ss_pred CcCccccCCcccCeEEEEeeecCCCCCCccccceEEEEecCCCEEEEEcCCCCcccccCCEEEEeCCCcCCCCCceEEEe
Confidence 35689999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred eeecCCcccccccccC
Q psy2262 119 RGVYDLPHVVKKTQLT 134 (137)
Q Consensus 119 RG~~D~~gv~~Rk~~~ 134 (137)
||+|||+||.+|+++.
T Consensus 195 RG~~D~~gV~~Rk~~R 210 (290)
T PTZ00115 195 RGVYDLLPVKNRARSR 210 (290)
T ss_pred eeeccccccccccccc
Confidence 9999999999998753
No 10
>cd03367 Ribosomal_S23 S12-like family, 40S ribosomal protein S23 subfamily; S23 is located at the interface of the large and small ribosomal subunits of eukaryotes, adjacent to the decoding center. It interacts with domain III of the eukaryotic elongation factor 2 (eEF2), which catalyzes the translocation of the growing peptidyl-tRNA to the P site to make room for the next aminoacyl-tRNA at the A (acceptor) site. Through its interaction with eEF2, S23 may play an important role in translocation. Also members of this subfamily are the archaeal 30S ribosomal S12 proteins. Prokaryotic S12 is essential for maintenance of a pretranslocation state and, together with S13, functions as control element for the rRNA- and tRNA-driven movements of translocation. S12 and S23 are also implicated in translation accuracy. Antibiotics such as streptomycin bind S12/S23 and cause the ribosome to misread the genetic code.
Probab=100.00 E-value=1.9e-43 Score=265.31 Aligned_cols=82 Identities=44% Similarity=0.722 Sum_probs=78.9
Q ss_pred CCCCCCCCCCccceEEEEeeecCCCCCCccccceEEEEe-CCCCEEEEEecCCC--CCCCccceEEEec-----CccCCC
Q psy2262 39 PPRQPLLGKPFAKGVVLKVLIKKPKKPNSANRKCVLVRL-STGKEMVAYIPGEG--HNLQEHNIVLCKV-----GRVKDL 110 (137)
Q Consensus 39 ~k~~~L~~~Pq~KGi~lkv~~~~PKKPNSA~RKvakVrL-sngk~v~AyIPGeG--hnlqehs~VLVrG-----Grv~DL 110 (137)
.+.++|+++||++|||+++++++|||||||+|||||||| +||++|+||||||| |||||||+||||| |+++||
T Consensus 11 ~k~~~l~g~Pq~kGivl~~~~~~pKkPNSA~RK~~rV~L~~ngk~itAyIPG~G~~~~lqeh~~VLV~G~G~~Gg~v~Dl 90 (115)
T cd03367 11 YKADPLGGAPHAKGIVLEKVGVEAKQPNSAIRKCVRVQLIKNGKKITAFVPGDGCLNFIDENDEVLVAGFGRKGRAVGDI 90 (115)
T ss_pred ccCCcccCCCccCeEEEEEeecCCCCCChhhceEEEEEEccCCeEEEEEeCCCCcccccccCCEEEEEecccCCCccCCC
Confidence 467899999999999999999999999999999999999 79999999999999 4999999999999 899999
Q ss_pred CCceEEEeee
Q psy2262 111 PGVKIKCVRG 120 (137)
Q Consensus 111 PGVkykvVRG 120 (137)
|||+|++|+-
T Consensus 91 PGVrykvVkV 100 (115)
T cd03367 91 PGVRFKVVKV 100 (115)
T ss_pred CceEEEEEEE
Confidence 9999999986
No 11
>TIGR00982 S23_S12_E_A ribosomal protein S23 (S12). This model represents the eukaryotic and archaeal homologs of bacterial ribosomal protein S12. This protein is known typically as S23 in eukaryotes and as either S12 or S23 in the Archaea.
Probab=100.00 E-value=8.1e-43 Score=268.78 Aligned_cols=98 Identities=38% Similarity=0.636 Sum_probs=89.4
Q ss_pred CCCCCCCCCCccceEEEEeeecCCCCCCccccceEEEEe-CCCCEEEEEecCCCC--CCCccceEEEec------CccCC
Q psy2262 39 PPRQPLLGKPFAKGVVLKVLIKKPKKPNSANRKCVLVRL-STGKEMVAYIPGEGH--NLQEHNIVLCKV------GRVKD 109 (137)
Q Consensus 39 ~k~~~L~~~Pq~KGi~lkv~~~~PKKPNSA~RKvakVrL-sngk~v~AyIPGeGh--nlqehs~VLVrG------Grv~D 109 (137)
.|.++|+++||++|||+++++++|||||||+||||+||| +||++|+|||||||| ||||||+|||+| |+++|
T Consensus 31 ~K~~~l~g~Pq~kGivl~~~~~~pKkPNSA~RK~~rV~L~~ngk~vtAyiPg~G~~~~lqeh~~VLV~G~gg~~gg~v~D 110 (139)
T TIGR00982 31 RKADPLEGAPMARGIVLEKVGVEARQPNSAIRKCVRVQLIKNGKVVTAFCPGDGAINFIDEHDEVIIEGIGGPRGRSMGD 110 (139)
T ss_pred cccCcccCCCccCeEEEEEEeecCCCCCcccceEEEEEEccCCeEEEEEeCCCccccccccCCEEEEEecCccCCCCcCC
Confidence 356899999999999999999999999999999999999 899999999999998 799999999998 89999
Q ss_pred CCCceEEEeee-ecCCcccccccccCCC
Q psy2262 110 LPGVKIKCVRG-VYDLPHVVKKTQLTPG 136 (137)
Q Consensus 110 LPGVkykvVRG-~~D~~gv~~Rk~~~~~ 136 (137)
||||+|++|+- -..|..+..-++++|-
T Consensus 111 lPGVrykvVkV~~vsL~~l~~gkkekp~ 138 (139)
T TIGR00982 111 IPGVRYKVVKVNNVSLKELVKGKKEKPR 138 (139)
T ss_pred CCceEEEEEEECCEeHHHHHhcccccCC
Confidence 99999999997 4556666666777773
No 12
>PRK04211 rps12P 30S ribosomal protein S12P; Reviewed
Probab=100.00 E-value=1.3e-42 Score=269.08 Aligned_cols=98 Identities=38% Similarity=0.635 Sum_probs=89.2
Q ss_pred CCCCCCCCCCccceEEEEeeecCCCCCCccccceEEEEe-CCCCEEEEEecCCCC--CCCccceEEEec------CccCC
Q psy2262 39 PPRQPLLGKPFAKGVVLKVLIKKPKKPNSANRKCVLVRL-STGKEMVAYIPGEGH--NLQEHNIVLCKV------GRVKD 109 (137)
Q Consensus 39 ~k~~~L~~~Pq~KGi~lkv~~~~PKKPNSA~RKvakVrL-sngk~v~AyIPGeGh--nlqehs~VLVrG------Grv~D 109 (137)
.+.++|+++||++|||+++++++|||||||+||||+||| +||++|+|||||||| ||||||+|||+| |+++|
T Consensus 37 ~K~~~l~g~Pq~kGivl~~~~v~pKKPNSA~RK~arV~L~~Ngk~vtAyIPg~G~~~~lqEh~~VLV~G~gg~~gg~v~D 116 (145)
T PRK04211 37 EKADPLEGAPMARGIVLEKVGVEAKQPNSAIRKCVRVQLIKNGKQVTAFCPGDGAINFIDEHDEVVIEGIGGPKGRSMGD 116 (145)
T ss_pred cccCcccCCCccCeEEEEEeeecCCCCchhhceeEEEEEccCCeEEEEEeCCCccccccccCCEEEEeecCccCCCCcCC
Confidence 366899999999999999999999999999999999999 899999999999998 899999999998 79999
Q ss_pred CCCceEEEeee-ecCCcccccccccCCC
Q psy2262 110 LPGVKIKCVRG-VYDLPHVVKKTQLTPG 136 (137)
Q Consensus 110 LPGVkykvVRG-~~D~~gv~~Rk~~~~~ 136 (137)
||||+|+||+- -.-|..+..-++++|-
T Consensus 117 lPGVrykvVkV~~vsL~~l~~gkkekp~ 144 (145)
T PRK04211 117 IPGVRYKVIKVNGVSLKELVKGKKEKPV 144 (145)
T ss_pred CCceEEEEEEECCEeHHHHHhcccccCC
Confidence 99999999986 4555566666777773
No 13
>PTZ00067 40S ribosomal S23; Provisional
Probab=100.00 E-value=2.3e-42 Score=267.22 Aligned_cols=98 Identities=37% Similarity=0.585 Sum_probs=89.7
Q ss_pred CCCCCCCCCCccceEEEEeeecCCCCCCccccceEEEEeC-CCCEEEEEecCCC--CCCCccceEEEec-C----ccCCC
Q psy2262 39 PPRQPLLGKPFAKGVVLKVLIKKPKKPNSANRKCVLVRLS-TGKEMVAYIPGEG--HNLQEHNIVLCKV-G----RVKDL 110 (137)
Q Consensus 39 ~k~~~L~~~Pq~KGi~lkv~~~~PKKPNSA~RKvakVrLs-ngk~v~AyIPGeG--hnlqehs~VLVrG-G----rv~DL 110 (137)
.|.++|+++||++|||+++++++|||||||+||||+|||+ ||++|+||||||| |||||||+|||+| | +++||
T Consensus 36 ~k~~pl~g~pq~kGivl~~~~~~pKkPNSA~RK~~rV~L~kngk~vtAyiPg~G~lh~lqEh~~VLV~G~Gr~g~~v~Dl 115 (143)
T PTZ00067 36 YKANPFGGASHAKGIVVEKIGIEAKQPNSAIRKCVRVQLIKNGKKITAFVPNDGCLNFINENDEVLVSGFGRSGHAVGDI 115 (143)
T ss_pred cccCcccCCCccceEEEEEEeecCCCCChhhceEEEEEEccCCcEEEEEeCCCCcccccccCCEEEEEecCcCCCccCCC
Confidence 3668999999999999999999999999999999999996 9999999999999 9999999999999 6 79999
Q ss_pred CCceEEEeee-ecCCcccccccccCCC
Q psy2262 111 PGVKIKCVRG-VYDLPHVVKKTQLTPG 136 (137)
Q Consensus 111 PGVkykvVRG-~~D~~gv~~Rk~~~~~ 136 (137)
|||+|++||- -..|..+..-++++|-
T Consensus 116 PGVrykvVrV~~vsL~~l~kgkkekp~ 142 (143)
T PTZ00067 116 PGVRFKVVKVAGVSLLALYKGKKEKPR 142 (143)
T ss_pred CceEEEEEEECCEeHHHHHhcccccCC
Confidence 9999999997 4566677777777774
No 14
>KOG1749|consensus
Probab=99.97 E-value=2.1e-31 Score=204.63 Aligned_cols=97 Identities=37% Similarity=0.594 Sum_probs=90.1
Q ss_pred CCCCCCCCCccceEEEEeeecCCCCCCccccceEEEEe-CCCCEEEEEecCCCC--CCCccceEEEec-----CccCCCC
Q psy2262 40 PRQPLLGKPFAKGVVLKVLIKKPKKPNSANRKCVLVRL-STGKEMVAYIPGEGH--NLQEHNIVLCKV-----GRVKDLP 111 (137)
Q Consensus 40 k~~~L~~~Pq~KGi~lkv~~~~PKKPNSA~RKvakVrL-sngk~v~AyIPGeGh--nlqehs~VLVrG-----Grv~DLP 111 (137)
|.++|+|.||+|||||+.+++++||||||+|||+|||| +||++|+||+|.+|| +++|+|+|||.| ..++|+|
T Consensus 37 K~~pfggashAKgIvLEKigVEAKQPNSAiRKcvRvQLIkngKKITafVp~dgcln~ieendevlv~gfgrkg~avgdip 116 (143)
T KOG1749|consen 37 KSSPFGGASHAKGIVLEKIGVEAKQPNSAIRKCVRVQLIKNGKKITAFVPNDGCLNFIEENDEVLVAGFGRKGHAVGDIP 116 (143)
T ss_pred hcCCCCCccccceeEEEeeeeeccCCcHHHhhheeeeeeeCCceEEEEecCCCceeeeccCCeeeeeccCccCccccCCC
Confidence 66899999999999999999999999999999999999 999999999999998 999999999997 6799999
Q ss_pred CceEEEeee-ecCCcccccccccCCC
Q psy2262 112 GVKIKCVRG-VYDLPHVVKKTQLTPG 136 (137)
Q Consensus 112 GVkykvVRG-~~D~~gv~~Rk~~~~~ 136 (137)
||+|+|++- -..|..+..-++++|.
T Consensus 117 gvrfkvvkv~~vsl~alf~~kkekpr 142 (143)
T KOG1749|consen 117 GVRFKVVKVSGVSLLALFKEKKEKPR 142 (143)
T ss_pred ceEEEEEEEcCcChhhhhhccccCCC
Confidence 999999987 4667778888888884
No 15
>COG0361 InfA Translation initiation factor 1 (IF-1) [Translation, ribosomal structure and biogenesis]
Probab=94.03 E-value=0.097 Score=37.25 Aligned_cols=46 Identities=28% Similarity=0.424 Sum_probs=35.9
Q ss_pred ccceEEEEeeecCCCCCCccccceEEEEeCCCCEEEEEecCCC--C--CCCccceEEEec
Q psy2262 49 FAKGVVLKVLIKKPKKPNSANRKCVLVRLSTGKEMVAYIPGEG--H--NLQEHNIVLCKV 104 (137)
Q Consensus 49 q~KGi~lkv~~~~PKKPNSA~RKvakVrLsngk~v~AyIPGeG--h--nlqehs~VLVrG 104 (137)
+.-|+|++.+. |. -.+|+|.||.++.|+|||-. | -+-+-|.|+|+=
T Consensus 8 e~~g~V~e~L~------~~----~f~v~~edg~~~~ahI~GKmr~~~i~I~~GD~V~Ve~ 57 (75)
T COG0361 8 EMEGTVIEMLP------NG----RFRVELENGHERLAHISGKMRKNRIRILPGDVVLVEL 57 (75)
T ss_pred EEEEEEEEecC------CC----EEEEEecCCcEEEEEccCcchheeEEeCCCCEEEEEe
Confidence 45566666653 32 36799999999999999998 4 588999999974
No 16
>TIGR00008 infA translation initiation factor IF-1. This family consists of translation initiation factor IF-1 as found in bacteria and chloroplasts. This protein, about 70 residues in length, consists largely of an S1 RNA binding domain (pfam00575).
Probab=93.87 E-value=0.13 Score=35.90 Aligned_cols=45 Identities=29% Similarity=0.419 Sum_probs=33.9
Q ss_pred cceEEEEeeecCCCCCCccccceEEEEeCCCCEEEEEecCCCC----CCCccceEEEec
Q psy2262 50 AKGVVLKVLIKKPKKPNSANRKCVLVRLSTGKEMVAYIPGEGH----NLQEHNIVLCKV 104 (137)
Q Consensus 50 ~KGi~lkv~~~~PKKPNSA~RKvakVrLsngk~v~AyIPGeGh----nlqehs~VLVrG 104 (137)
..|+|++.+ ||. -.+|+|.||.++.|||||-=- -+.+.|.|+|+=
T Consensus 7 ~~G~V~e~L------~~~----~f~V~l~ng~~vla~i~GKmr~~rI~I~~GD~V~Ve~ 55 (68)
T TIGR00008 7 MEGKVTESL------PNA----MFRVELENGHEVLAHISGKIRMHYIRILPGDKVKVEL 55 (68)
T ss_pred EEEEEEEEC------CCC----EEEEEECCCCEEEEEecCcchhccEEECCCCEEEEEE
Confidence 346666654 343 478999999999999999642 578888888873
No 17
>PF01176 eIF-1a: Translation initiation factor 1A / IF-1; InterPro: IPR006196 The S1 domain of around 70 amino acids, originally identified in ribosomal protein S1, is found in a large number of RNA-associated proteins. It has been shown that S1 proteins bind RNA through their S1 domains with some degree of sequence specificity. This type of S1 domain is found in translation initiation factor 1. The solution structure of one S1 RNA-binding domain from Escherichia coli polynucleotide phosphorylase has been determined []. It displays some similarity with the cold shock domain (CSD) (IPR002059 from INTERPRO). Both the S1 and the CSD domain consist of an antiparallel beta barrel of the same topology with 5 beta strands. This fold is also shared by many other proteins of unrelated function and is known as the OB fold. However, the S1 and CSD fold can be distinguished from the other OB folds by the presence of a short 3(10) helix at the end of strand 3. This unique feature is likely to form a part of the DNA/RNA-binding site. This entry is specific for bacterial, chloroplastic and eukaryotic IF-1 type S1 domains.; GO: 0003723 RNA binding, 0003743 translation initiation factor activity, 0006413 translational initiation; PDB: 1JT8_A 3I4O_A 1AH9_A 1ZO1_W 1D7Q_A 2OQK_A 2DGY_A 1HR0_W.
Probab=87.30 E-value=0.38 Score=32.13 Aligned_cols=33 Identities=27% Similarity=0.354 Sum_probs=25.1
Q ss_pred eEEEEeCCCCEEEEEecCCCC---CCCccceEEEec
Q psy2262 72 CVLVRLSTGKEMVAYIPGEGH---NLQEHNIVLCKV 104 (137)
Q Consensus 72 vakVrLsngk~v~AyIPGeGh---nlqehs~VLVrG 104 (137)
-.+|+|.||.+++|+|||-=+ .+.+.|.|+|.=
T Consensus 17 ~~~V~~~dg~~~l~~i~gK~r~~iwI~~GD~V~V~~ 52 (65)
T PF01176_consen 17 LFEVECEDGEERLARIPGKFRKRIWIKRGDFVLVEP 52 (65)
T ss_dssp EEEEEETTSEEEEEEE-HHHHTCC---TTEEEEEEE
T ss_pred EEEEEeCCCCEEEEEeccceeeeEecCCCCEEEEEe
Confidence 378999999999999999743 789999999974
No 18
>cd05793 S1_IF1A S1_IF1A: Translation initiation factor IF1A, also referred to as eIF1A in eukaryotes and aIF1A in archaea, S1-like RNA-binding domain. S1-like RNA-binding domains are found in a wide variety of RNA-associated proteins. IF1A is essential for translation initiation. eIF1A acts synergistically with eIF1 to mediate assembly of ribosomal initiation complexes at the initiation codon and maintain the accuracy of this process by recognizing and destabilizing aberrant preinitiation complexes from the mRNA. Without eIF1A and eIF1, 43S ribosomal preinitiation complexes can bind to the cap-proximal region, but are unable to reach the initiation codon. eIF1a also enhances the formation of 5'-terminal complexes in the presence of other translation initiation factors. This protein family is only found in eukaryotes and archaea.
Probab=86.91 E-value=1.1 Score=31.38 Aligned_cols=33 Identities=30% Similarity=0.324 Sum_probs=28.1
Q ss_pred eEEEEeCCCCEEEEEecCCCC---CCCccceEEEec
Q psy2262 72 CVLVRLSTGKEMVAYIPGEGH---NLQEHNIVLCKV 104 (137)
Q Consensus 72 vakVrLsngk~v~AyIPGeGh---nlqehs~VLVrG 104 (137)
..+|.|.||.+++|+|||-=. .+.+.|.|+|+-
T Consensus 14 ~~~V~~~~g~~~la~i~gK~rk~iwI~~GD~V~Ve~ 49 (77)
T cd05793 14 RLEVRCFDGKKRLCRIRGKMRKRVWINEGDIVLVAP 49 (77)
T ss_pred EEEEEECCCCEEEEEEchhhcccEEEcCCCEEEEEe
Confidence 468899999999999999753 788889999873
No 19
>smart00652 eIF1a eukaryotic translation initiation factor 1A.
Probab=85.95 E-value=1.3 Score=31.30 Aligned_cols=33 Identities=33% Similarity=0.412 Sum_probs=28.2
Q ss_pred eEEEEeCCCCEEEEEecCCCC---CCCccceEEEec
Q psy2262 72 CVLVRLSTGKEMVAYIPGEGH---NLQEHNIVLCKV 104 (137)
Q Consensus 72 vakVrLsngk~v~AyIPGeGh---nlqehs~VLVrG 104 (137)
-.+|+|.||.+++|+|||-=. .+.+.|.|+|+-
T Consensus 19 ~~~V~~~dG~~~la~ipgK~Rk~iwI~~GD~VlVe~ 54 (83)
T smart00652 19 RLEVMCADGKERLARIPGKMRKKVWIRRGDIVLVDP 54 (83)
T ss_pred EEEEEECCCCEEEEEEchhhcccEEEcCCCEEEEEe
Confidence 467899999999999999653 788999999974
No 20
>PRK12442 translation initiation factor IF-1; Reviewed
Probab=85.36 E-value=2.2 Score=31.28 Aligned_cols=45 Identities=33% Similarity=0.462 Sum_probs=32.8
Q ss_pred cceEEEEeeecCCCCCCccccceEEEEeCCCCEEEEEecCCC--C--CCCccceEEEec
Q psy2262 50 AKGVVLKVLIKKPKKPNSANRKCVLVRLSTGKEMVAYIPGEG--H--NLQEHNIVLCKV 104 (137)
Q Consensus 50 ~KGi~lkv~~~~PKKPNSA~RKvakVrLsngk~v~AyIPGeG--h--nlqehs~VLVrG 104 (137)
..|+|++.+ ||. -.+|+|.||.+|+|||+|-= | -+-+.|.|+|+=
T Consensus 9 ~~G~V~e~L------p~~----~frV~LenG~~vla~isGKmR~~rIrIl~GD~V~VE~ 57 (87)
T PRK12442 9 LDGIVDEVL------PDS----RFRVTLENGVEVGAYASGRMRKHRIRILAGDRVTLEL 57 (87)
T ss_pred EEEEEEEEC------CCC----EEEEEeCCCCEEEEEeccceeeeeEEecCCCEEEEEE
Confidence 456666665 444 57899999999999999974 2 466677777763
No 21
>PRK04012 translation initiation factor IF-1A; Provisional
Probab=82.20 E-value=2.3 Score=31.31 Aligned_cols=51 Identities=29% Similarity=0.362 Sum_probs=38.9
Q ss_pred CCCCCCccceEEEEeeecCCCCCCccccceEEEEeCCCCEEEEEecCCCC---CCCccceEEEe
Q psy2262 43 PLLGKPFAKGVVLKVLIKKPKKPNSANRKCVLVRLSTGKEMVAYIPGEGH---NLQEHNIVLCK 103 (137)
Q Consensus 43 ~L~~~Pq~KGi~lkv~~~~PKKPNSA~RKvakVrLsngk~v~AyIPGeGh---nlqehs~VLVr 103 (137)
++-..-|.-|.|++..+- -..+|.|.||.+++|+|||-=. .+.+.|.|+|+
T Consensus 16 ~~p~e~e~~g~V~~~lG~----------~~~~V~~~dG~~~la~i~GK~Rk~IwI~~GD~VlVe 69 (100)
T PRK04012 16 PMPEEGEVFGVVEQMLGA----------NRVRVRCMDGVERMGRIPGKMKKRMWIREGDVVIVA 69 (100)
T ss_pred cCCCCCEEEEEEEEEcCC----------CEEEEEeCCCCEEEEEEchhhcccEEecCCCEEEEE
Confidence 344556677777776542 1578999999999999999753 77888888886
No 22
>cd04456 S1_IF1A_like S1_IF1A_like: Translation initiation factor IF1A-like, S1-like RNA-binding domain. IF1A is also referred to as eIF1A in eukaryotes and aIF1A in archaea. S1-like RNA-binding domains are found in a wide variety of RNA-associated proteins. IF1A is essential for translation initiation. eIF1A acts synergistically with eIF1 to mediate assembly of ribosomal initiation complexes at the initiation codon and maintain the accuracy of this process by recognizing and destabilizing aberrant preinitiation complexes from the mRNA. Without eIF1A and eIF1, 43S ribosomal preinitiation complexes can bind to the cap-proximal region, but are unable to reach the initiation codon. eIF1a also enhances the formation of 5'-terminal complexes in the presence of other translation initiation factors. This protein family is only found in eukaryotes and archaea.
Probab=81.58 E-value=2.7 Score=29.51 Aligned_cols=33 Identities=15% Similarity=0.226 Sum_probs=27.9
Q ss_pred eEEEEeCCCCEEEEEecCCC---CCCCccceEEEec
Q psy2262 72 CVLVRLSTGKEMVAYIPGEG---HNLQEHNIVLCKV 104 (137)
Q Consensus 72 vakVrLsngk~v~AyIPGeG---hnlqehs~VLVrG 104 (137)
..+|++.||.+++|+|||-= --+.+.|.|+|+=
T Consensus 14 ~~~V~~~dg~~~l~~i~gK~Rk~iwI~~GD~VlV~~ 49 (78)
T cd04456 14 RHEVECADGQRRLVSIPGKLRKNIWIKRGDFLIVDP 49 (78)
T ss_pred EEEEEECCCCEEEEEEchhhccCEEEcCCCEEEEEe
Confidence 46899999999999999954 2788899999963
No 23
>TIGR00523 eIF-1A eukaryotic/archaeal initiation factor 1A. Recommended nomenclature: eIF-1A for eukaryotes, aIF-1A for Archaea. Also called eIF-4C
Probab=77.14 E-value=3.9 Score=30.05 Aligned_cols=47 Identities=28% Similarity=0.324 Sum_probs=36.6
Q ss_pred CCCccceEEEEeeecCCCCCCccccceEEEEeCCCCEEEEEecCCCC---CCCccceEEE
Q psy2262 46 GKPFAKGVVLKVLIKKPKKPNSANRKCVLVRLSTGKEMVAYIPGEGH---NLQEHNIVLC 102 (137)
Q Consensus 46 ~~Pq~KGi~lkv~~~~PKKPNSA~RKvakVrLsngk~v~AyIPGeGh---nlqehs~VLV 102 (137)
..-|.-|.|++..+- -..+|.|.||.+++|+|||-=. .+.+.|.|+|
T Consensus 17 ~e~e~~g~V~~~lG~----------~~~~V~~~dG~~~la~i~GK~Rk~iwI~~GD~VlV 66 (99)
T TIGR00523 17 EEGEILGVIEQMLGA----------GRVKVRCLDGKTRLGRIPGKLKKRIWIREGDVVIV 66 (99)
T ss_pred CCCEEEEEEEEEcCC----------CEEEEEeCCCCEEEEEEchhhcccEEecCCCEEEE
Confidence 455677777777642 1578999999999999999542 7888888888
No 24
>PLN00208 translation initiation factor (eIF); Provisional
Probab=74.61 E-value=5.1 Score=31.65 Aligned_cols=48 Identities=17% Similarity=0.149 Sum_probs=37.6
Q ss_pred CCccceEEEEeeecCCCCCCccccceEEEEeCCCCEEEEEecCCCC---CCCccceEEEec
Q psy2262 47 KPFAKGVVLKVLIKKPKKPNSANRKCVLVRLSTGKEMVAYIPGEGH---NLQEHNIVLCKV 104 (137)
Q Consensus 47 ~Pq~KGi~lkv~~~~PKKPNSA~RKvakVrLsngk~v~AyIPGeGh---nlqehs~VLVrG 104 (137)
--|.-|.|++..+- . -.+|++.||.+++|+|||-=. -+.+.|.|||+-
T Consensus 31 egq~~g~V~~~lGn------~----~~~V~c~dG~~rLa~IpGKmRKrIWI~~GD~VlVel 81 (145)
T PLN00208 31 DGQEYAQVLRMLGN------G----RCEALCIDGTKRLCHIRGKMRKKVWIAAGDIILVGL 81 (145)
T ss_pred CCcEEEEEEEEcCC------C----EEEEEECCCCEEEEEEeccceeeEEecCCCEEEEEc
Confidence 34667777776542 2 578999999999999999653 789999999984
No 25
>PTZ00329 eukaryotic translation initiation factor 1A; Provisional
Probab=74.49 E-value=5.3 Score=31.92 Aligned_cols=51 Identities=18% Similarity=0.150 Sum_probs=38.4
Q ss_pred CCCCCccceEEEEeeecCCCCCCccccceEEEEeCCCCEEEEEecCCCC---CCCccceEEEec
Q psy2262 44 LLGKPFAKGVVLKVLIKKPKKPNSANRKCVLVRLSTGKEMVAYIPGEGH---NLQEHNIVLCKV 104 (137)
Q Consensus 44 L~~~Pq~KGi~lkv~~~~PKKPNSA~RKvakVrLsngk~v~AyIPGeGh---nlqehs~VLVrG 104 (137)
+..--|.-|.|++.+. |. -.+|+|.||.+++|+|||-=. .+.+.|.|||+-
T Consensus 28 ~~eegq~~g~V~~~LG------n~----~f~V~c~dG~~rLa~I~GKmRK~IWI~~GD~VlVel 81 (155)
T PTZ00329 28 FKEEGQEYAQVLRMLG------NG----RLEAYCFDGVKRLCHIRGKMRKRVWINIGDIILVSL 81 (155)
T ss_pred cCCCCcEEEEEEEEcC------CC----EEEEEECCCCEEEEEeeccceeeEEecCCCEEEEec
Confidence 3344566677776653 32 578899999999999999653 788999999975
No 26
>COG1768 Predicted phosphohydrolase [General function prediction only]
Probab=68.79 E-value=4.1 Score=34.36 Aligned_cols=32 Identities=34% Similarity=0.448 Sum_probs=26.2
Q ss_pred CCCccceEEEec---------------CccCCCCCceEEEeeeecCCc
Q psy2262 93 NLQEHNIVLCKV---------------GRVKDLPGVKIKCVRGVYDLP 125 (137)
Q Consensus 93 nlqehs~VLVrG---------------Grv~DLPGVkykvVRG~~D~~ 125 (137)
-+.+.|+||+-| --.+||||.|| ++||-.|.=
T Consensus 40 ~v~~eDiVllpGDiSWaM~l~ea~~Dl~~i~~LPG~K~-m~rGNHDYW 86 (230)
T COG1768 40 KVSPEDIVLLPGDISWAMRLEEAEEDLRFIGDLPGTKY-MIRGNHDYW 86 (230)
T ss_pred cCChhhEEEecccchhheechhhhhhhhhhhcCCCcEE-EEecCCccc
Confidence 577889999998 24689999999 689998863
No 27
>cd01724 Sm_D1 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of this family share a highly conserved Sm fold containing an N-terminal helix followed by a strongly bent five-stranded antiparallel beta-sheet. Sm subunit D1 heterodimerizes with subunit D2 and three such heterodimers form a hexameric ring structure with alternating D1 and D2 subunits. The D1 - D2 heterodimer also assembles into a heptameric ring containing DB, D3, E, F, and G subunits. Sm-like proteins exist in archaea as well as prokaryotes which form heptameric and hexameric ring structures similar to those found in eukaryotes.
Probab=65.33 E-value=28 Score=24.80 Aligned_cols=64 Identities=13% Similarity=0.186 Sum_probs=40.1
Q ss_pred CccccceEEEEeCCCCEEEEEecC-CCC-C--------------CCccceEEEecCccCCCCCceEEEeeeecCCccccc
Q psy2262 66 NSANRKCVLVRLSTGKEMVAYIPG-EGH-N--------------LQEHNIVLCKVGRVKDLPGVKIKCVRGVYDLPHVVK 129 (137)
Q Consensus 66 NSA~RKvakVrLsngk~v~AyIPG-eGh-n--------------lqehs~VLVrGGrv~DLPGVkykvVRG~~D~~gv~~ 129 (137)
++..-+.+.|.|+||..+...+-+ |+| | ....+.|+|||-. |+|-.+-..+|...+.-
T Consensus 7 ~~l~g~~V~VeLKng~~~~G~L~~vD~~MNl~L~~a~~~~~~~~~~~~~~v~IRG~n------I~yi~lPd~l~~~~~l~ 80 (90)
T cd01724 7 MKLTNETVTIELKNGTIVHGTITGVDPSMNTHLKNVKLTLKGRNPVPLDTLSIRGNN------IRYFILPDSLNLDTLLV 80 (90)
T ss_pred HhCCCCEEEEEECCCCEEEEEEEEEcCceeEEEEEEEEEcCCCceeEcceEEEeCCE------EEEEEcCCcCCcchhhh
Confidence 355778899999999876643322 222 2 3345666777754 57777777777776654
Q ss_pred ccccCC
Q psy2262 130 KTQLTP 135 (137)
Q Consensus 130 Rk~~~~ 135 (137)
..+.+|
T Consensus 81 ~~~~~~ 86 (90)
T cd01724 81 DSTPKP 86 (90)
T ss_pred hcCCcc
Confidence 444444
No 28
>TIGR00230 sfsA sugar fermentation stimulation protein. probable regulatory factor involved in maltose metabolism contains a putative DNA binding domain. Isolated as a gene which enabled E.coli strain MK2001 to use maltose.
Probab=60.25 E-value=45 Score=27.79 Aligned_cols=48 Identities=25% Similarity=0.121 Sum_probs=37.5
Q ss_pred cceEEEEeCCCCEEEEEecCCCC---CCCccceEEEecCccCCCCCce--EEEeeee
Q psy2262 70 RKCVLVRLSTGKEMVAYIPGEGH---NLQEHNIVLCKVGRVKDLPGVK--IKCVRGV 121 (137)
Q Consensus 70 RKvakVrLsngk~v~AyIPGeGh---nlqehs~VLVrGGrv~DLPGVk--ykvVRG~ 121 (137)
|=.|.|.+ +|++++||+|.-|. -+.+...|+++ ..|=|+=| |.++-..
T Consensus 20 RF~~~V~~-~G~~~~aH~pNtGrl~ell~pG~~vll~---~~~~p~rK~~y~l~~v~ 72 (232)
T TIGR00230 20 RFLVDVEV-DGRRETAHCPNTGRLTELIFPGNDVGLS---KSDNGGRKLSYTWEAVQ 72 (232)
T ss_pred CEEEEEEE-CCeEEEEEcCCCCCChhhcCCCCEEEEE---ECCCCCCCCCEEEEEEE
Confidence 88999999 89999999999996 68899999997 33555544 5555443
No 29
>PF03749 SfsA: Sugar fermentation stimulation protein; InterPro: IPR005224 The sugar fermentation stimulation protein is a probable regulatory factor involved in maltose metabolism. It contains a putative DNA-binding domain, and was isolated as a gene which enabled Escherichia coli W3110 (strain MK2001) to use maltose [].
Probab=59.86 E-value=22 Score=29.16 Aligned_cols=52 Identities=31% Similarity=0.250 Sum_probs=38.9
Q ss_pred ccceEEEEeCCCCEEEEEecCCCC---CCCccceEEEecCccCCCC--CceEEEeeeecC
Q psy2262 69 NRKCVLVRLSTGKEMVAYIPGEGH---NLQEHNIVLCKVGRVKDLP--GVKIKCVRGVYD 123 (137)
Q Consensus 69 ~RKvakVrLsngk~v~AyIPGeGh---nlqehs~VLVrGGrv~DLP--GVkykvVRG~~D 123 (137)
+|=.|.|.|.+|+.++||+|.-|. -|.+...|+++= .|=| --+|.++-...+
T Consensus 5 nRF~~~v~l~~g~~~~~H~pntGRl~ell~pG~~v~l~~---~~~~~RKt~y~l~av~~~ 61 (215)
T PF03749_consen 5 NRFLADVELDDGEEVTAHCPNTGRLKELLVPGARVLLSK---SDNPKRKTKYTLEAVEKD 61 (215)
T ss_pred CcEEEEEEECCCCEEEEEcCCCCcchhhccCCCEEEEEE---CCCCCCCCcEEEEEEEcC
Confidence 466889999889999999999996 777999999983 2334 345666555444
No 30
>PRK00347 putative DNA-binding transcriptional regulator; Reviewed
Probab=59.53 E-value=23 Score=29.39 Aligned_cols=34 Identities=32% Similarity=0.357 Sum_probs=31.1
Q ss_pred cceEEEEeCCCCEEEEEecCCCC---CCCccceEEEe
Q psy2262 70 RKCVLVRLSTGKEMVAYIPGEGH---NLQEHNIVLCK 103 (137)
Q Consensus 70 RKvakVrLsngk~v~AyIPGeGh---nlqehs~VLVr 103 (137)
|=+|.|++.+|+.++||+|.-|. -|-+...|+++
T Consensus 18 RF~~~V~~~~g~~~~aH~pntGRl~ell~pG~~v~l~ 54 (234)
T PRK00347 18 RFLADVELDDGEELTAHCPNTGRMTGLLTPGNTVWLS 54 (234)
T ss_pred CEEEEEEECCCCEEEEEcCCCCCChhhccCCCEEEEE
Confidence 88999999779999999999996 68899999988
No 31
>cd04474 RPA1_DBD_A RPA1_DBD_A: A subfamily of OB folds corresponding to the second OB fold, the ssDNA-binding domain (DBD)-A, of human RPA1 (also called RPA70). RPA1 is the large 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). In addition to DBD-A, RPA1 contains three other OB folds: DBD-B, DBD-C, and RPA1N. The major DNA binding activity of human RPA (hRPA) and Saccharomyces cerevisiae RPA (ScRPA) is associated with DBD-A and DBD-B of RPA1. RPA1 DBD-C is involved in trimerization. The ssDNA-binding mechanism is believed to be multistep and to involve conformational change. Although ScRPA and the hRPA have similar ssDNA-binding properties, they differ funct
Probab=46.61 E-value=88 Score=22.09 Aligned_cols=43 Identities=21% Similarity=0.168 Sum_probs=35.1
Q ss_pred cccceEEEEe--CCCCEEEEEecCCCC-----CCCccceEEEecCccCCC
Q psy2262 68 ANRKCVLVRL--STGKEMVAYIPGEGH-----NLQEHNIVLCKVGRVKDL 110 (137)
Q Consensus 68 A~RKvakVrL--sngk~v~AyIPGeGh-----nlqehs~VLVrGGrv~DL 110 (137)
..+++..+.| .+|.+|-|-+.++-. .|+|.+++.|.+|+|+--
T Consensus 32 ~~g~~~~~~l~De~~~~I~~t~~~~~~~~f~~~l~eG~vy~i~~~~V~~a 81 (104)
T cd04474 32 GEGKLFSFDLLDEDGGEIRATFFNDAVDKFYDLLEVGKVYYISKGSVKVA 81 (104)
T ss_pred CCcEEEEEEEEECCCCEEEEEEehHHHHHhhcccccccEEEEeccEEeec
Confidence 4688999998 558899998888742 899999999999987644
No 32
>PF02814 UreE_N: UreE urease accessory protein, N-terminal domain; InterPro: IPR004029 Urease and other nickel metalloenzymes are synthesised as precursors devoid of the metalloenzyme active site. These precursors then undergo a complex post-translational maturation process that requires a number of accessory proteins. Members of this group are nickel-binding proteins required for urease metallocentre assembly []. They are believed to function as metallochaperones to deliver nickel to urease apoprotein [, ]. It has been shown by yeast two-hybrid analysis that UreE forms a dimeric complex with UreG in Helicobacter pylori []. The UreDFG-apoenzyme complex has also been shown to exist [, ] and is believed to be, with the addition of UreE, the assembly system for active urease []. The complexes, rather than the individual proteins, presumably bind to UreB via UreE/H recognition sites. The structure of Klebsiella aerogenes UreE reveals a unique two-domain architecture.The N-terminal domain is structurally related to a heat shock protein, while the C-terminal domain shows homology to the Atx1 copper metallochaperone [, ]. Significantly, the metal-binding sites in UreE and Atx1 are distinct in location and types of residues despite the relationship between these proteins and the mechanism for UreE activation of urease is proposed to be different from the thiol ligand exchange mechanism used by the copper metallochaperones. The N-terminal domain is termed the peptide-binding domain. Deletion of this domain does not eliminate enzymatic activity, and the truncated protein can still activate urease [].; GO: 0016151 nickel ion binding, 0006461 protein complex assembly, 0019627 urea metabolic process; PDB: 3NXZ_B 3TJA_B 3LA0_B 3TJ9_B 3NY0_A 3L9Z_A 3TJ8_A 1EAR_A 1EB0_A 1GMU_B ....
Probab=43.78 E-value=76 Score=20.82 Aligned_cols=38 Identities=16% Similarity=0.349 Sum_probs=27.0
Q ss_pred cccceEEEEeCCCCEEEEEecCCCCCCCccceEEEecCc
Q psy2262 68 ANRKCVLVRLSTGKEMVAYIPGEGHNLQEHNIVLCKVGR 106 (137)
Q Consensus 68 A~RKvakVrLsngk~v~AyIPGeGhnlqehs~VLVrGGr 106 (137)
..|+..|+...+|.++.-+.|.. ..|+..|+.....|+
T Consensus 26 r~k~r~r~~t~~G~ei~i~L~r~-~~L~~GDvL~~d~g~ 63 (65)
T PF02814_consen 26 RQKRRLRLTTDDGREIGIDLPRG-TVLRDGDVLYLDDGR 63 (65)
T ss_dssp CTSSEEEEE-TTS-EEEEE-SST-TT--TTEEEEECTSE
T ss_pred hcceEEEEECCCCCEEEEECCCC-cccCCCCEEEeCCCC
Confidence 45778888889999999999988 569999988877765
No 33
>COG1489 SfsA DNA-binding protein, stimulates sugar fermentation [General function prediction only]
Probab=42.35 E-value=51 Score=27.98 Aligned_cols=34 Identities=35% Similarity=0.383 Sum_probs=30.0
Q ss_pred ccceEEEEeCCCCEEEEEecCCCC---CCCccceEEEe
Q psy2262 69 NRKCVLVRLSTGKEMVAYIPGEGH---NLQEHNIVLCK 103 (137)
Q Consensus 69 ~RKvakVrLsngk~v~AyIPGeGh---nlqehs~VLVr 103 (137)
+|=.|.|.|. |++++|++|.-|- -+.+.+.|+++
T Consensus 17 nRFl~dv~l~-G~~~~~H~~ntGrm~~l~~pG~~v~l~ 53 (235)
T COG1489 17 NRFLADVELD-GEEVTAHCPNTGRMTELLTPGNTVWLS 53 (235)
T ss_pred cceEEEEEEC-CeEEEEEcCCCCccccccCCCCEEEEE
Confidence 4778889998 9999999999994 78889999887
No 34
>PRK00276 infA translation initiation factor IF-1; Validated
Probab=40.98 E-value=81 Score=21.26 Aligned_cols=32 Identities=25% Similarity=0.308 Sum_probs=25.0
Q ss_pred eEEEEeCCCCEEEEEecCCC----CCCCccceEEEe
Q psy2262 72 CVLVRLSTGKEMVAYIPGEG----HNLQEHNIVLCK 103 (137)
Q Consensus 72 vakVrLsngk~v~AyIPGeG----hnlqehs~VLVr 103 (137)
...|++.||..+.|+++|-= =.+-..|.|+|+
T Consensus 21 ~y~V~~~~g~~~~c~~~Gklr~~~i~i~vGD~V~ve 56 (72)
T PRK00276 21 MFRVELENGHEVLAHISGKMRKNYIRILPGDKVTVE 56 (72)
T ss_pred EEEEEeCCCCEEEEEEccceeeCCcccCCCCEEEEE
Confidence 45677889999999999952 236778888887
No 35
>cd05792 S1_eIF1AD_like S1_eIF1AD_like: eukaryotic translation initiation factor 1A domain containing protein (eIF1AD)-like, S1-like RNA-binding domain. eIF1AD is also known as MGC11102 protein. Little is known about the function of eIF1AD. S1-like RNA-binding domains are found in a wide variety of RNA-associated proteins, including translation initiation factor IF1A (also referred to as eIF1A in eukaryotes). eIF1A is essential for translation initiation. eIF1A acts synergistically with eIF1 to mediate assembly of ribosomal initiation complexes at the initiation codon and maintain the accuracy of this process by recognizing and destabilizing aberrant preinitiation complexes from the mRNA. Without eIF1A and eIF1, 43S ribosomal preinitiation complexes can bind to the cap-proximal region, but are unable to reach the initiation codon. eIF1a also enhances the formation of 5'-terminal complexes in the presence of other translation initiation factors.
Probab=40.20 E-value=42 Score=23.77 Aligned_cols=31 Identities=16% Similarity=0.215 Sum_probs=26.4
Q ss_pred EEEEeCCCCEEEEEecCCC---CCCCccceEEEe
Q psy2262 73 VLVRLSTGKEMVAYIPGEG---HNLQEHNIVLCK 103 (137)
Q Consensus 73 akVrLsngk~v~AyIPGeG---hnlqehs~VLVr 103 (137)
..|++.+|++..|.|||-= --+.+.|.|||.
T Consensus 15 ~~V~~~dG~~~l~~iP~KfRk~iWIkrGd~VlV~ 48 (78)
T cd05792 15 HEVETPNGSRYLVSMPTKFRKNIWIKRGDFVLVE 48 (78)
T ss_pred EEEEcCCCCEEEEEechhhcccEEEEeCCEEEEE
Confidence 5678889999999999954 378999999996
No 36
>KOG3068|consensus
Probab=38.81 E-value=9.5 Score=32.98 Aligned_cols=13 Identities=54% Similarity=0.938 Sum_probs=11.2
Q ss_pred Eec----CccCCCCCce
Q psy2262 102 CKV----GRVKDLPGVK 114 (137)
Q Consensus 102 VrG----Grv~DLPGVk 114 (137)
+|| |+++|||||+
T Consensus 118 ~rGyrYFGaAkdLPgVr 134 (268)
T KOG3068|consen 118 IRGYRYFGAAKDLPGVR 134 (268)
T ss_pred CCcchhhhhhccCccHH
Confidence 566 9999999997
No 37
>cd01732 LSm5 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of this family share a highly conserved Sm fold containing an N-terminal helix followed by a strongly bent five-stranded antiparallel beta-sheet. LSm4 is one of at least seven subunits that assemble onto U6 snRNA to form a seven-membered ring structure. Sm-like proteins exist in archaea as well as prokaryotes that form heptameric and hexameric ring structures similar to those found in eukaryotes.
Probab=35.63 E-value=50 Score=22.86 Aligned_cols=30 Identities=17% Similarity=0.241 Sum_probs=21.2
Q ss_pred CccccceEEEEeCCCCEEEEEecCCC-C-CCC
Q psy2262 66 NSANRKCVLVRLSTGKEMVAYIPGEG-H-NLQ 95 (137)
Q Consensus 66 NSA~RKvakVrLsngk~v~AyIPGeG-h-nlq 95 (137)
+.+..|-+.|+|++|+++.+.+=|.. | |+.
T Consensus 9 ~~~~~~~V~V~l~~gr~~~G~L~g~D~~mNlv 40 (76)
T cd01732 9 DKCIGSRIWIVMKSDKEFVGTLLGFDDYVNMV 40 (76)
T ss_pred HHhCCCEEEEEECCCeEEEEEEEEeccceEEE
Confidence 45567888999999998877665543 4 443
No 38
>cd01726 LSm6 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of this family share a highly conserved Sm fold containing an N-terminal helix followed by a strongly bent five-stranded antiparallel beta-sheet. LSm6 is one of at least seven subunits that assemble onto U6 snRNA to form a seven-membered ring structure. Sm-like proteins exist in archaea as well as prokaryotes that form heptameric and hexameric ring structures similar to those found in eukaryotes.
Probab=33.26 E-value=86 Score=20.67 Aligned_cols=34 Identities=15% Similarity=0.199 Sum_probs=23.2
Q ss_pred CccccceEEEEeCCCCEEEEEecCCC-C-CCCccce
Q psy2262 66 NSANRKCVLVRLSTGKEMVAYIPGEG-H-NLQEHNI 99 (137)
Q Consensus 66 NSA~RKvakVrLsngk~v~AyIPGeG-h-nlqehs~ 99 (137)
++++-|-+.|+|+||+++...+-|-. | ||.=-+.
T Consensus 6 ~~~~~~~V~V~Lk~g~~~~G~L~~~D~~mNlvL~~~ 41 (67)
T cd01726 6 KAIIGRPVVVKLNSGVDYRGILACLDGYMNIALEQT 41 (67)
T ss_pred HhhCCCeEEEEECCCCEEEEEEEEEccceeeEEeeE
Confidence 35677889999999998877665544 3 4443333
No 39
>cd01730 LSm3 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of this family share a highly conserved Sm fold containing an N-terminal helix followed by a strongly bent five-stranded antiparallel beta-sheet. LSm3 is one of at least seven subunits that assemble onto U6 snRNA to form a seven-membered ring structure. Sm-like proteins exist in archaea as well as prokaryotes that form heptameric and hexameric ring structures similar to those found in eukaryotes.
Probab=32.32 E-value=61 Score=22.36 Aligned_cols=33 Identities=18% Similarity=0.209 Sum_probs=22.4
Q ss_pred ccceEEEEeCCCCEEEEEecCCC-C-CCCccceEE
Q psy2262 69 NRKCVLVRLSTGKEMVAYIPGEG-H-NLQEHNIVL 101 (137)
Q Consensus 69 ~RKvakVrLsngk~v~AyIPGeG-h-nlqehs~VL 101 (137)
.-|-+.|+|++|+++...+-|-. | ||.=.|.+-
T Consensus 10 ~~k~V~V~l~~gr~~~G~L~~fD~~mNlvL~d~~E 44 (82)
T cd01730 10 LDERVYVKLRGDRELRGRLHAYDQHLNMILGDVEE 44 (82)
T ss_pred CCCEEEEEECCCCEEEEEEEEEccceEEeccceEE
Confidence 45678899999999887766544 5 555444443
No 40
>CHL00010 infA translation initiation factor 1
Probab=31.91 E-value=1.4e+02 Score=20.63 Aligned_cols=44 Identities=25% Similarity=0.375 Sum_probs=32.1
Q ss_pred cceEEEEeeecCCCCCCccccceEEEEeCCCCEEEEEecCCCC----CCCccceEEEe
Q psy2262 50 AKGVVLKVLIKKPKKPNSANRKCVLVRLSTGKEMVAYIPGEGH----NLQEHNIVLCK 103 (137)
Q Consensus 50 ~KGi~lkv~~~~PKKPNSA~RKvakVrLsngk~v~AyIPGeGh----nlqehs~VLVr 103 (137)
..|+|++.+. --...|++.+|..+.|+++|-=- .+...|.|+|+
T Consensus 9 ~~G~Vik~lg----------~~~y~V~~~~g~~~~c~~rGklr~~~i~~~vGD~V~ve 56 (78)
T CHL00010 9 MEGLVTESLP----------NGMFRVRLDNGCQVLGYISGKIRRNSIRILPGDRVKVE 56 (78)
T ss_pred EEEEEEEEcC----------CCEEEEEeCCCCEEEEEeccceecCCcccCCCCEEEEE
Confidence 5677777552 23456788899999999999531 35778888887
No 41
>cd01723 LSm4 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of this family share a highly conserved Sm fold containing an N-terminal helix followed by a strongly bent five-stranded antiparallel beta-sheet. LSm4 is one of at least seven subunits that assemble onto U6 snRNA to form a seven-membered ring structure. Sm-like proteins exist in archaea as well as prokaryotes that form heptameric and hexameric ring structures similar to those found in eukaryotes.
Probab=31.32 E-value=1.1e+02 Score=20.68 Aligned_cols=24 Identities=21% Similarity=0.310 Sum_probs=18.4
Q ss_pred CccccceEEEEeCCCCEEEEEecC
Q psy2262 66 NSANRKCVLVRLSTGKEMVAYIPG 89 (137)
Q Consensus 66 NSA~RKvakVrLsngk~v~AyIPG 89 (137)
+++.-|-+.|.|+||.++...+-+
T Consensus 7 ~~~~g~~V~VeLkng~~~~G~L~~ 30 (76)
T cd01723 7 KTAQNHPMLVELKNGETYNGHLVN 30 (76)
T ss_pred HhcCCCEEEEEECCCCEEEEEEEE
Confidence 355678889999999988766554
No 42
>PF06246 Isy1: Isy1-like splicing family; InterPro: IPR009360 Isy1 protein is important in the optimisation of splicing [].; PDB: 1X4T_A.
Probab=30.41 E-value=17 Score=30.83 Aligned_cols=13 Identities=62% Similarity=0.935 Sum_probs=0.0
Q ss_pred CccCCCCCceEEE
Q psy2262 105 GRVKDLPGVKIKC 117 (137)
Q Consensus 105 Grv~DLPGVkykv 117 (137)
||++|||||+--+
T Consensus 127 GrAkeLPgVkeL~ 139 (255)
T PF06246_consen 127 GRAKELPGVKELF 139 (255)
T ss_dssp -------------
T ss_pred ehhccCccHHHHH
Confidence 9999999998543
No 43
>PF02470 MCE: mce related protein; InterPro: IPR003399 This domain is found in all 24 mce genes associated with the four mammalian cell entry (mce) operons of Mycobacterium tuberculosis and their homologs in other Actinomycetales [, ]. The archetype (mce1A, Rv0169), was isolated as being necessary for colonisation of, and survival within, the macrophage []. The domain is also found in: Chloroplast Ycf22 and related cyanobacterial homologs, the majority of which have an N-terminal transmembrane domain and are putative ABC transporters. Proteobacterial homologs, which include YrbD, YebT, VpsC and Ttg2C, the latter being annotated as a toluene tolerance proteins, belong to the periplasmic substrate-binding ABC transporter superfamily.
Probab=30.38 E-value=49 Score=21.89 Aligned_cols=30 Identities=20% Similarity=0.320 Sum_probs=23.9
Q ss_pred CCEEEEEecCCCCCCCccceEEEec---CccCCC
Q psy2262 80 GKEMVAYIPGEGHNLQEHNIVLCKV---GRVKDL 110 (137)
Q Consensus 80 gk~v~AyIPGeGhnlqehs~VLVrG---Grv~DL 110 (137)
+.+++++.+.- ..|.+.+.|.++| |+|.++
T Consensus 2 ~~~v~~~~~~~-~GL~~gs~V~~~Gv~VG~V~~i 34 (81)
T PF02470_consen 2 GYTVTVYFDDA-GGLSVGSPVRYRGVEVGKVTSI 34 (81)
T ss_pred CEEEEEEECCc-CCCCCcCEEEECCEEEEEEEEE
Confidence 45677777766 7899999999999 777766
No 44
>COG3976 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=28.81 E-value=45 Score=26.38 Aligned_cols=44 Identities=16% Similarity=0.038 Sum_probs=35.1
Q ss_pred CCCCCCccccceEEEEeCCCCEEEEEecCCCCCCCccceEEEecCcc
Q psy2262 61 KPKKPNSANRKCVLVRLSTGKEMVAYIPGEGHNLQEHNIVLCKVGRV 107 (137)
Q Consensus 61 ~PKKPNSA~RKvakVrLsngk~v~AyIPGeGhnlqehs~VLVrGGrv 107 (137)
.|+-|-+-.|||+-...++|--.- .++|||-+-.=.|+|.|||.
T Consensus 32 ~~~~~~~~~~k~a~~k~kDGvYtg---Sada~~g~lqv~vtIk~grI 75 (135)
T COG3976 32 APVRVVRVGMKPAAHKYKDGVYTG---SADAYYGILQVQVTIKGGRI 75 (135)
T ss_pred CCccceeeeecCchhhcccceeEe---ecccccceEEEEEEEecCcE
Confidence 345556777889888889997664 67999988889999999864
No 45
>cd04480 RPA1_DBD_A_like RPA1_DBD_A_like: A subgroup of uncharacterized plant OB folds with similarity to the second OB fold, the ssDNA-binding domain (DBD)-A, of human RPA1 (also called RPA70). RPA1 is the large 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). In addition to DBD-A, RPA1 contains three other OB folds: DBD-B, DBD-C, and RPA1N. The major DNA binding activity of RPA is associated with DBD-A and DBD-B of RPA1. RPA1 DBD-C is involved in trimerization. The ssDNA-binding mechanism is believed to be multistep and to involve conformational change.
Probab=27.20 E-value=2e+02 Score=19.27 Aligned_cols=57 Identities=19% Similarity=0.124 Sum_probs=39.1
Q ss_pred EEEEeeecCCCCCCccccceEEEEe--CCCCEEEEEecCC-----CCCCCccceEEEecCccCCC
Q psy2262 53 VVLKVLIKKPKKPNSANRKCVLVRL--STGKEMVAYIPGE-----GHNLQEHNIVLCKVGRVKDL 110 (137)
Q Consensus 53 i~lkv~~~~PKKPNSA~RKvakVrL--sngk~v~AyIPGe-----Ghnlqehs~VLVrGGrv~DL 110 (137)
||.++.-.=-..+|. ..+..-.-| ..|..|-|.||.+ ...|+|.+...+.++++..-
T Consensus 2 I~Vrv~r~W~~~~~~-~~~~~~miL~De~G~~I~a~i~~~~~~~f~~~L~eg~vy~is~f~v~~~ 65 (86)
T cd04480 2 ICVRVLRLWDVYNNA-SGESLEMVLVDEKGNRIHATIPKRLAAKFRPLLKEGKWYTISNFEVAPN 65 (86)
T ss_pred EEEEEEEEEcCcCCC-CCcEEEEEEEcCCCCEEEEEECHHHHHhhhhhceeCCEEEEeeEEEEcC
Confidence 444444333333333 666667666 6688999999996 35899999999998776544
No 46
>COG1761 RPB11 DNA-directed RNA polymerase, subunit L [Transcription]
Probab=27.09 E-value=1.6e+02 Score=21.82 Aligned_cols=45 Identities=27% Similarity=0.336 Sum_probs=37.9
Q ss_pred CCCCEEEEEecCCCC--------CCCccceEEEec----CccCCCCCceEEEeeeecC
Q psy2262 78 STGKEMVAYIPGEGH--------NLQEHNIVLCKV----GRVKDLPGVKIKCVRGVYD 123 (137)
Q Consensus 78 sngk~v~AyIPGeGh--------nlqehs~VLVrG----Grv~DLPGVkykvVRG~~D 123 (137)
+....+.-.|.||.| .|-+.+.|...+ +-.-|.|=++.++..| +|
T Consensus 12 ~~~n~~~i~i~gEdHTL~NlL~~~L~~d~~V~~a~Y~i~HP~~~~~~i~Ikt~~~-~d 68 (99)
T COG1761 12 KDDNSLELEIEGEDHTLGNLLREELLKDEDVEFAAYSIPHPLIDNPKIRIKTKGG-VD 68 (99)
T ss_pred cCCCEEEEEEecCCchHHHHHHHHHhCCCCeeEEEEeCCCCCCCCceEEEEECCC-CC
Confidence 457788999999999 457889999998 8888999999999888 44
No 47
>PF14020 DUF4236: Protein of unknown function (DUF4236)
Probab=26.62 E-value=71 Score=21.35 Aligned_cols=24 Identities=25% Similarity=0.462 Sum_probs=19.4
Q ss_pred cccceEEEEe-CCCCEEEEEecCCC
Q psy2262 68 ANRKCVLVRL-STGKEMVAYIPGEG 91 (137)
Q Consensus 68 A~RKvakVrL-sngk~v~AyIPGeG 91 (137)
.=.+.+++.. ++|..+++.|||-|
T Consensus 26 ~G~~g~~~t~~~~G~~~t~~iPGtG 50 (55)
T PF14020_consen 26 VGPKGARITVGKRGRRTTVGIPGTG 50 (55)
T ss_pred eCCCCcceEeCCCCcEEEEEcCCCc
Confidence 4456778888 78889999999987
No 48
>COG5092 NMT1 N-myristoyl transferase [Lipid metabolism]
Probab=25.86 E-value=1.5e+02 Score=27.26 Aligned_cols=50 Identities=24% Similarity=0.378 Sum_probs=39.9
Q ss_pred CCccccceEEEEeCCCCEEEEEecCCCCCCCccceEEEecCccCCCCCceEEEeeee
Q psy2262 65 PNSANRKCVLVRLSTGKEMVAYIPGEGHNLQEHNIVLCKVGRVKDLPGVKIKCVRGV 121 (137)
Q Consensus 65 PNSA~RKvakVrLsngk~v~AyIPGeGhnlqehs~VLVrGGrv~DLPGVkykvVRG~ 121 (137)
|---.|=++-||++..++.+|||.+.-|. |-|||-++. .-+|.|-+|.-.
T Consensus 127 pg~kK~whigvRvk~t~klVaFIsa~p~~------v~vRgK~~~-~~evNFLCihk~ 176 (451)
T COG5092 127 PGGKKRWHIGVRVKGTQKLVAFISAKPHL------VSVRGKRSS-VLEVNFLCIHKE 176 (451)
T ss_pred CCCceeeEEEEEEcccceeEEEEecceeE------EEEcccccc-cceEEEEEEehh
Confidence 44455667889998888999999987663 569999998 889999988643
No 49
>PF14890 Intein_splicing: Intein splicing domain; PDB: 1MI8_A 2CW7_A 2CW8_A.
Probab=23.65 E-value=1.5e+02 Score=24.48 Aligned_cols=19 Identities=21% Similarity=0.440 Sum_probs=16.0
Q ss_pred ccccceEEEEeCCCCEEEE
Q psy2262 67 SANRKCVLVRLSTGKEMVA 85 (137)
Q Consensus 67 SA~RKvakVrLsngk~v~A 85 (137)
++..++.+|++++|++|.|
T Consensus 47 ~g~k~v~ri~t~~GreI~~ 65 (323)
T PF14890_consen 47 NGEKPVYRIRTRSGREIKA 65 (323)
T ss_dssp EEEEEEEEEEETTS-EEEE
T ss_pred cCCceEEEEEeCCCCEEEE
Confidence 5677899999999999986
No 50
>cd04451 S1_IF1 S1_IF1: Translation Initiation Factor IF1, S1-like RNA-binding domain. IF1 contains an S1-like RNA-binding domain, which is found in a wide variety of RNA-associated proteins. Translation initiation includes a number of interrelated steps preceding the formation of the first peptide bond. In Escherichia coli, the initiation mechanism requires, in addition to mRNA, fMet-tRNA, and ribosomal subunits, the presence of three additional proteins (initiation factors IF1, IF2, and IF3) and at least one GTP molecule. The three initiation factors influence both the kinetics and the stability of ternary complex formation. IF1 is the smallest of the three factors. IF1 enhances the rate of 70S ribosome subunit association and dissociation and the interaction of 30S ribosomal subunit with IF2 and IF3. It stimulates 30S complex formation. In addition, by binding to the A-site of the 30S ribosomal subunit, IF1 may contribute to the fidelity of the selection of the initiation site of th
Probab=20.34 E-value=2.5e+02 Score=18.02 Aligned_cols=31 Identities=26% Similarity=0.307 Sum_probs=23.6
Q ss_pred EEEEeCCCCEEEEEecC----CCCCCCccceEEEe
Q psy2262 73 VLVRLSTGKEMVAYIPG----EGHNLQEHNIVLCK 103 (137)
Q Consensus 73 akVrLsngk~v~AyIPG----eGhnlqehs~VLVr 103 (137)
.-|++.+|....|.+.| ....+---|.|+++
T Consensus 16 ~~V~~~~g~~~~c~~rGklr~~~~~~~vGD~V~~~ 50 (64)
T cd04451 16 FRVELENGHEVLAHISGKMRMNYIRILPGDRVKVE 50 (64)
T ss_pred EEEEeCCCCEEEEEECceeecCCcccCCCCEEEEE
Confidence 44667788899999998 44557778888887
No 51
>cd00571 UreE UreE urease accessory protein. UreE is a metallochaperone assisting the insertion of a Ni2+ ion in the active site of urease, an important step in the in vivo assembly of urease, an enzyme that hydrolyses urea into ammonia and carbamic acid. The C-terminal region of UreE contains a histidine rich nickel binding site.
Probab=20.11 E-value=2.6e+02 Score=21.00 Aligned_cols=38 Identities=18% Similarity=0.458 Sum_probs=30.0
Q ss_pred cccceEEEEeCCCCEEEEEecCCCCCCCccceEEEecCc
Q psy2262 68 ANRKCVLVRLSTGKEMVAYIPGEGHNLQEHNIVLCKVGR 106 (137)
Q Consensus 68 A~RKvakVrLsngk~v~AyIPGeGhnlqehs~VLVrGGr 106 (137)
..|+..|....+|.++--..|. |..|.+.|++...+|+
T Consensus 30 r~k~r~r~~t~~G~ei~i~L~r-~~~L~dGdvL~~d~~~ 67 (136)
T cd00571 30 RQKRRLRLKSDHGEELGIRLPR-GQVLRDGDVLFLDDGR 67 (136)
T ss_pred hhceEEEEECCCCCEEEEECCC-CCcCCCCCEEEeCCCC
Confidence 4567777777899999999997 5678888888777764
Done!