Query 019373
Match_columns 342
No_of_seqs 146 out of 957
Neff 2.8
Searched_HMMs 46136
Date Fri Mar 29 08:56:10 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/019373.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/019373hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 CHL00084 rpl19 ribosomal prote 100.0 1.5E-39 3.2E-44 273.7 13.5 106 230-340 5-111 (117)
2 PRK05338 rplS 50S ribosomal pr 100.0 2.2E-39 4.8E-44 272.3 12.1 105 231-340 2-107 (116)
3 COG0335 RplS Ribosomal protein 100.0 3.3E-39 7.1E-44 271.5 12.5 105 231-340 4-109 (115)
4 TIGR01024 rplS_bact ribosomal 100.0 4.1E-39 9E-44 269.6 12.7 105 231-340 2-107 (113)
5 PF01245 Ribosomal_L19: Riboso 100.0 6.8E-39 1.5E-43 267.2 12.3 104 231-339 2-106 (113)
6 KOG1698 Mitochondrial/chloropl 100.0 1.3E-35 2.9E-40 268.4 12.9 125 218-342 62-186 (201)
7 PF05641 Agenet: Agenet domain 72.1 12 0.00027 28.3 5.5 38 253-295 1-38 (68)
8 smart00743 Agenet Tudor-like d 69.2 28 0.0006 25.3 6.6 49 251-307 1-49 (61)
9 PRK01191 rpl24p 50S ribosomal 64.7 18 0.00039 31.7 5.6 70 252-329 45-116 (120)
10 TIGR01080 rplX_A_E ribosomal p 59.8 27 0.00058 30.2 5.7 70 252-329 41-112 (114)
11 TIGR03170 flgA_cterm flagella 50.2 50 0.0011 26.9 5.7 47 249-300 62-108 (122)
12 COG0250 NusG Transcription ant 40.6 1.4E+02 0.003 27.3 7.4 49 227-285 102-150 (178)
13 PF13144 SAF_2: SAF-like 40.3 92 0.002 27.4 6.2 46 249-299 136-181 (196)
14 TIGR00405 L26e_arch ribosomal 40.1 1.3E+02 0.0028 25.5 6.9 43 251-301 85-127 (145)
15 COG2139 RPL21A Ribosomal prote 39.1 29 0.00063 29.8 2.7 39 249-287 29-71 (98)
16 cd04497 hPOT1_OB1_like hPOT1_O 37.4 49 0.0011 28.2 3.9 47 249-302 65-111 (138)
17 PF08207 EFP_N: Elongation fac 37.1 1.1E+02 0.0024 22.8 5.3 49 252-307 4-53 (58)
18 KOG1403 Predicted alanine-glyo 35.2 9.7 0.00021 39.0 -0.8 15 11-25 217-231 (452)
19 PRK04183 glutamyl-tRNA(Gln) am 34.9 61 0.0013 33.2 4.7 54 252-322 2-57 (419)
20 smart00739 KOW KOW (Kyprides, 34.7 76 0.0017 19.3 3.5 27 252-284 1-27 (28)
21 cd08544 Reeler Reeler, the N-t 33.7 86 0.0019 26.1 4.7 31 252-286 29-59 (135)
22 PF12969 DUF3857: Domain of Un 31.9 36 0.00078 28.4 2.2 20 248-267 85-104 (177)
23 cd00493 FabA_FabZ FabA/Z, beta 31.9 74 0.0016 25.1 3.9 29 252-280 88-116 (131)
24 cd01288 FabZ FabZ is a 17kD be 30.6 75 0.0016 25.2 3.7 28 252-279 87-114 (131)
25 PRK07018 flgA flagellar basal 30.4 1.3E+02 0.0029 27.9 5.8 47 249-300 173-219 (235)
26 PF12148 DUF3590: Protein of u 30.2 32 0.00069 28.7 1.5 23 249-271 62-84 (85)
27 PF02765 POT1: Telomeric singl 29.7 73 0.0016 27.3 3.7 55 250-312 70-126 (146)
28 PF02211 NHase_beta: Nitrile h 28.7 56 0.0012 30.9 3.1 36 249-284 131-170 (222)
29 TIGR01750 fabZ beta-hydroxyacy 28.6 89 0.0019 25.7 4.0 28 252-279 97-124 (140)
30 PF03888 MucB_RseB: MucB/RseB 28.5 1.8E+02 0.0039 27.9 6.5 48 271-322 9-57 (285)
31 PRK05609 nusG transcription an 28.2 3.3E+02 0.0071 23.6 7.5 28 251-284 125-152 (181)
32 cd06462 Peptidase_S24_S26 The 28.1 2.1E+02 0.0046 20.7 5.5 43 250-300 11-53 (84)
33 TIGR00922 nusG transcription t 27.6 3.7E+02 0.0081 23.2 7.8 29 251-285 118-146 (172)
34 PRK08559 nusG transcription an 24.6 1.9E+02 0.0042 25.2 5.5 29 251-285 93-121 (153)
35 TIGR01955 RfaH transcriptional 24.1 2.4E+02 0.0053 23.8 5.9 28 251-284 107-134 (159)
36 PRK06005 flgA flagellar basal 24.0 2.6E+02 0.0056 25.0 6.2 49 249-302 97-145 (160)
37 PRK00006 fabZ (3R)-hydroxymyri 23.9 1.1E+02 0.0024 25.5 3.7 27 253-279 102-128 (147)
38 PRK08571 rpl14p 50S ribosomal 23.0 1.7E+02 0.0037 26.0 4.9 35 250-284 44-78 (132)
39 PF02014 Reeler: Reeler domain 22.9 81 0.0017 26.3 2.7 32 251-286 28-59 (132)
40 PF09926 DUF2158: Uncharacteri 22.7 55 0.0012 24.8 1.5 11 253-263 1-11 (53)
41 TIGR02266 gmx_TIGR02266 Myxoco 21.9 3.4E+02 0.0073 20.7 5.8 35 251-286 35-69 (96)
42 COG1566 EmrA Multidrug resista 21.5 2.4E+02 0.0053 28.5 6.2 60 245-307 251-319 (352)
43 cd01737 LSm16_N LSm16 belongs 21.4 1.9E+02 0.0041 23.2 4.3 34 255-295 5-38 (62)
44 PTZ00194 60S ribosomal protein 20.9 2.1E+02 0.0046 25.9 5.1 69 241-318 36-106 (143)
45 PRK03999 translation initiatio 20.9 3.6E+02 0.0078 23.4 6.4 50 249-309 7-62 (129)
46 PF07977 FabA: FabA-like domai 20.3 1E+02 0.0022 25.6 2.8 29 252-280 96-128 (138)
47 TIGR02754 sod_Ni_protease nick 20.2 2.7E+02 0.0059 21.4 5.0 45 250-297 9-53 (90)
48 TIGR03673 rpl14p_arch 50S ribo 20.2 2.1E+02 0.0046 25.4 4.8 35 250-284 43-77 (131)
49 PF09269 DUF1967: Domain of un 20.2 1.3E+02 0.0028 23.3 3.2 31 229-262 33-63 (69)
No 1
>CHL00084 rpl19 ribosomal protein L19
Probab=100.00 E-value=1.5e-39 Score=273.75 Aligned_cols=106 Identities=41% Similarity=0.737 Sum_probs=97.0
Q ss_pred HHHHHHHHHHHHHHhhcCCCCCCCCCCCEEEEEEEeec-CCcccceEEEEEEEEecCCCceeEEEEEeecCceEEEEEee
Q 019373 230 RHIMQILDKEAVENVKSQREIPDIKPGYIVQLKVVIPE-NKRRVSTLKGIVIARRNAGISTTFRLRRLVAGVGVESLFPL 308 (342)
Q Consensus 230 ~~LM~~LekEevee~~~kkdiPeFrpGDIV~V~~~I~E-nKeRvQ~FeGVVIarRnrGl~STFTLRnIi~GVGVEr~FpL 308 (342)
.++++.+++++ .++++|+|+|||||+|++++.| +|+|+|.|+|+||+++|+|+++||||||+++|+|||++||+
T Consensus 5 ~~~i~~~~~~~-----~~~~~p~f~~GDtV~V~~~i~eg~k~R~q~F~GvvI~~r~~G~~~tftvRki~~gvGVEr~fpl 79 (117)
T CHL00084 5 QQLVKEIESEF-----LKKNLPKIRVGDTVKVGVLIQEGNKERVQFYEGTVIAKKNSGLNTTITVRKVFQGIGVERVFLL 79 (117)
T ss_pred HHHHHHHHHHH-----hhcCCCccCCCCEEEEEEEEecCCeeEeceEEEEEEEEeCCCCCeeEEEEEeccCccEEEEEec
Confidence 35555555444 4579999999999999999999 89999999999999999999999999999999999999999
Q ss_pred cCCccceEEEeeeCcccccceeeeccCCCccc
Q 019373 309 YSPNILEIKVLDKKKVRRAKLYYLRDKLNPLR 340 (342)
Q Consensus 309 ySP~IksIEVLRrgKVRRAKLYYLRdr~~~l~ 340 (342)
|||.|++|||++++|||||||||||++.++-.
T Consensus 80 ~SP~I~~IeV~r~gkvRRAKLyYLR~~~gKaa 111 (117)
T CHL00084 80 HSPKLASIEVLRRSKVRRAKLYYLRNRVGKAA 111 (117)
T ss_pred CCCccceEEEEEeCccchheeEEeccCcChhh
Confidence 99999999999999999999999999988654
No 2
>PRK05338 rplS 50S ribosomal protein L19; Provisional
Probab=100.00 E-value=2.2e-39 Score=272.27 Aligned_cols=105 Identities=43% Similarity=0.788 Sum_probs=97.0
Q ss_pred HHHHHHHHHHHHHhhcCCCCCCCCCCCEEEEEEEeec-CCcccceEEEEEEEEecCCCceeEEEEEeecCceEEEEEeec
Q 019373 231 HIMQILDKEAVENVKSQREIPDIKPGYIVQLKVVIPE-NKRRVSTLKGIVIARRNAGISTTFRLRRLVAGVGVESLFPLY 309 (342)
Q Consensus 231 ~LM~~LekEevee~~~kkdiPeFrpGDIV~V~~~I~E-nKeRvQ~FeGVVIarRnrGl~STFTLRnIi~GVGVEr~FpLy 309 (342)
++|+.++.+++ ++++|+|++||+|+|+++|.| +|+|+|.|+|+||+++|+|+++||||||+++|+|||++||+|
T Consensus 2 ~~i~~~~~~~~-----~~~~p~f~~GD~V~V~~~i~eg~k~R~q~f~GvvI~~~~~G~~~tftvRki~~gvGVEr~fpl~ 76 (116)
T PRK05338 2 NLIKEIEAEQL-----RKDIPEFRPGDTVRVHVKVVEGNKERIQAFEGVVIARRGRGLNETFTVRKISYGVGVERTFPLH 76 (116)
T ss_pred cHHHHHHHHHh-----hcCCCCcCCCCEEEEEEEEccCCceEeccEEEEEEEEeCCCCCceEEEEEcccCccEEEEecCC
Confidence 45666665544 478999999999999999999 899999999999999999999999999999999999999999
Q ss_pred CCccceEEEeeeCcccccceeeeccCCCccc
Q 019373 310 SPNILEIKVLDKKKVRRAKLYYLRDKLNPLR 340 (342)
Q Consensus 310 SP~IksIEVLRrgKVRRAKLYYLRdr~~~l~ 340 (342)
||.|++|||++++|||||||||||++.++-.
T Consensus 77 SP~I~~IeV~r~gkvRRAKLyYLR~~~gK~a 107 (116)
T PRK05338 77 SPRIDSIEVVRRGKVRRAKLYYLRELRGKAA 107 (116)
T ss_pred CCcccEEEEEEecccchhheeeeccCcchhh
Confidence 9999999999999999999999999987643
No 3
>COG0335 RplS Ribosomal protein L19 [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=3.3e-39 Score=271.47 Aligned_cols=105 Identities=49% Similarity=0.818 Sum_probs=98.7
Q ss_pred HHHHHHHHHHHHHhhcCCCCCCCCCCCEEEEEEEeec-CCcccceEEEEEEEEecCCCceeEEEEEeecCceEEEEEeec
Q 019373 231 HIMQILDKEAVENVKSQREIPDIKPGYIVQLKVVIPE-NKRRVSTLKGIVIARRNAGISTTFRLRRLVAGVGVESLFPLY 309 (342)
Q Consensus 231 ~LM~~LekEevee~~~kkdiPeFrpGDIV~V~~~I~E-nKeRvQ~FeGVVIarRnrGl~STFTLRnIi~GVGVEr~FpLy 309 (342)
.+++.|+++++. +++|+|+|||+|+|++++.| +|+|+|.|+|+||+++|+|+++|||||++++|+|||++||+|
T Consensus 4 ~~i~~le~~q~~-----~~iP~f~~GDtvrv~vki~Eg~keR~Q~FeGvVia~r~~G~~~tftvRkis~G~GVEr~Fp~~ 78 (115)
T COG0335 4 PIIQQLEQEQIK-----KDIPSFRPGDTVRVHVKIVEGSKERVQAFEGVVIARRGRGISETFTVRKISYGVGVERVFPLH 78 (115)
T ss_pred HHHHHHHHHHHH-----hhCCCCCCCCEEEEEEEEEeCCeEEEeeeeEEEEEECCCCccceEEEEEeecCceEEEEeecC
Confidence 478888877766 56999999999999999999 899999999999999999999999999999999999999999
Q ss_pred CCccceEEEeeeCcccccceeeeccCCCccc
Q 019373 310 SPNILEIKVLDKKKVRRAKLYYLRDKLNPLR 340 (342)
Q Consensus 310 SP~IksIEVLRrgKVRRAKLYYLRdr~~~l~ 340 (342)
||.|++|||+++||||||||||||++.++..
T Consensus 79 SP~Ie~IeV~rrGkVRRAKLYYLR~~~GKaA 109 (115)
T COG0335 79 SPLIESIEVVRRGKVRRAKLYYLRERRGKAA 109 (115)
T ss_pred CCceeEEEEEecCceeeeeeEeeecccccce
Confidence 9999999999999999999999999887643
No 4
>TIGR01024 rplS_bact ribosomal protein L19, bacterial type. This model describes bacterial ribosomoal protein L19 and its chloroplast equivalent. Putative mitochondrial L19 are found in several species (but not Saccharomyces cerevisiae) and score between trusted and noise cutoffs.
Probab=100.00 E-value=4.1e-39 Score=269.59 Aligned_cols=105 Identities=44% Similarity=0.793 Sum_probs=96.9
Q ss_pred HHHHHHHHHHHHHhhcCCCCCCCCCCCEEEEEEEeec-CCcccceEEEEEEEEecCCCceeEEEEEeecCceEEEEEeec
Q 019373 231 HIMQILDKEAVENVKSQREIPDIKPGYIVQLKVVIPE-NKRRVSTLKGIVIARRNAGISTTFRLRRLVAGVGVESLFPLY 309 (342)
Q Consensus 231 ~LM~~LekEevee~~~kkdiPeFrpGDIV~V~~~I~E-nKeRvQ~FeGVVIarRnrGl~STFTLRnIi~GVGVEr~FpLy 309 (342)
++|+.+++++ .++++|+|+|||+|+|++++.| +|+|+|.|+|+||+++|+|+++||||||+++|+|||++||+|
T Consensus 2 ~~i~~~e~~~-----~~~~ip~f~~GD~v~V~~~i~eg~k~R~q~f~GvvI~~~~~G~~~tftvR~i~~gvGVEr~fpl~ 76 (113)
T TIGR01024 2 NLIKQIEQEQ-----LKKDLPDFRVGDTVRVHVKIVEGKKERIQVFEGVVIARRGGGIGETFTVRKISYGVGVERIFPLH 76 (113)
T ss_pred cHHHHHHHHH-----hhcCCCccCCCCEEEEEEEEccCCceEcccEEEEEEEEeCCCCceEEEEEEeccCccEEEEEEcC
Confidence 3566665543 3589999999999999999999 899999999999999999999999999999999999999999
Q ss_pred CCccceEEEeeeCcccccceeeeccCCCccc
Q 019373 310 SPNILEIKVLDKKKVRRAKLYYLRDKLNPLR 340 (342)
Q Consensus 310 SP~IksIEVLRrgKVRRAKLYYLRdr~~~l~ 340 (342)
||.|++|+|++++|+|||||||||++.++-.
T Consensus 77 SP~I~~IeVl~~~kvrRaKLyYLR~~~gK~a 107 (113)
T TIGR01024 77 SPNIDSIEVVRRGKVRRAKLYYLRERRGKAA 107 (113)
T ss_pred CCccceEEEEEeCccchhheeeeccCcchhh
Confidence 9999999999999999999999999988644
No 5
>PF01245 Ribosomal_L19: Ribosomal protein L19; InterPro: IPR001857 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 L19 is one of the proteins from the large ribosomal subunit [, ]. In Escherichia coli, L19 is known to be located at the 30S-50S ribosomal subunit interface [] and may play a role in the structure and function of the aminoacyl-tRNA binding site. It belongs to a family of ribosomal proteins, including L19 from bacteria and the chloroplasts of red algae. L19 is a protein of 120 to 130 amino-acid residues.; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 3HUZ_T 3V2D_T 3I8I_R 2XG2_T 2V49_T 2XUX_T 3HUX_T 3I9C_R 3V25_T 3UZ2_R ....
Probab=100.00 E-value=6.8e-39 Score=267.23 Aligned_cols=104 Identities=44% Similarity=0.809 Sum_probs=95.7
Q ss_pred HHHHHHHHHHHHHhhcCCCCCCCCCCCEEEEEEEeec-CCcccceEEEEEEEEecCCCceeEEEEEeecCceEEEEEeec
Q 019373 231 HIMQILDKEAVENVKSQREIPDIKPGYIVQLKVVIPE-NKRRVSTLKGIVIARRNAGISTTFRLRRLVAGVGVESLFPLY 309 (342)
Q Consensus 231 ~LM~~LekEevee~~~kkdiPeFrpGDIV~V~~~I~E-nKeRvQ~FeGVVIarRnrGl~STFTLRnIi~GVGVEr~FpLy 309 (342)
+||+.++ +.+.+.++|+|+|||+|+|++.+.| +|+|+|.|+|+||+++++|+++||||||+++|+|||++||||
T Consensus 2 ~~i~~~e-----~~~~~~~~p~f~~GD~v~V~~~i~e~~k~r~q~f~GvvIa~~~~g~~ssftlR~~~~g~gVE~~f~l~ 76 (113)
T PF01245_consen 2 NLIEEVE-----REQIKKDIPEFRVGDTVRVTYKISEGNKERIQVFEGVVIARRRRGLNSSFTLRNISQGVGVERVFPLY 76 (113)
T ss_dssp HHHHHHH-----HTTCSSSSSSSSSSSEEEEEEEEESSSSEEEEEEEEEEEEEEBSSTSSEEEEEEEETTEEEEEEEETT
T ss_pred hHHHHHH-----HHHhhcCCCCcCCCCEEEEEEEEecCCCceeEEEEEEEEEEECCCCCeeEEEEEEecCccEEEEEEcC
Confidence 4555544 3345689999999999999999998 899999999999999999999999999999999999999999
Q ss_pred CCccceEEEeeeCcccccceeeeccCCCcc
Q 019373 310 SPNILEIKVLDKKKVRRAKLYYLRDKLNPL 339 (342)
Q Consensus 310 SP~IksIEVLRrgKVRRAKLYYLRdr~~~l 339 (342)
||.|++|||++++|+||||||||||+.++-
T Consensus 77 SP~I~~IeV~~~~kvrRaKLyYLR~~~gK~ 106 (113)
T PF01245_consen 77 SPLIKSIEVLRRGKVRRAKLYYLRDRKGKA 106 (113)
T ss_dssp STTEEEEEEEEEBECSSSSTGGGGCTTSHH
T ss_pred CCCeEEEEEEEecccchhhhhhhhcCccch
Confidence 999999999999999999999999998764
No 6
>KOG1698 consensus Mitochondrial/chloroplast ribosomal protein L19 [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=1.3e-35 Score=268.39 Aligned_cols=125 Identities=56% Similarity=0.833 Sum_probs=120.5
Q ss_pred cccccccchHHHHHHHHHHHHHHHHHhhcCCCCCCCCCCCEEEEEEEeecCCcccceEEEEEEEEecCCCceeEEEEEee
Q 019373 218 PRIKFKRLDKTARHIMQILDKEAVENVKSQREIPDIKPGYIVQLKVVIPENKRRVSTLKGIVIARRNAGISTTFRLRRLV 297 (342)
Q Consensus 218 pr~K~K~l~K~a~~LM~~LekEevee~~~kkdiPeFrpGDIV~V~~~I~EnKeRvQ~FeGVVIarRnrGl~STFTLRnIi 297 (342)
..+++..+++.+.++|+.||++++++....+++|+|++||||+|++.++++|.++..|.||||+++++|+++||+|||++
T Consensus 62 ~~~~f~~~~~~~~~~~e~Ldr~a~~~rr~~r~iPe~~~G~Iv~V~s~~p~~k~k~s~f~Gi~I~R~~~Gl~atf~LRnvI 141 (201)
T KOG1698|consen 62 QYPEFLPLRKVAKRIMEILDRQAVLERRKVRDIPEFKVGSIVRVTSEDPENKRKVSRFKGICIRRRNAGLNATFLLRNVI 141 (201)
T ss_pred cCcccccchhHHHHHHHhhCHHHHHHHHhcccCCccccccEEEEEecCCccCCceeEEEEEEEEecccCCcceEEeeehh
Confidence 45678888999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cCceEEEEEeecCCccceEEEeeeCcccccceeeeccCCCcccCC
Q 019373 298 AGVGVESLFPLYSPNILEIKVLDKKKVRRAKLYYLRDKLNPLRNK 342 (342)
Q Consensus 298 ~GVGVEr~FpLySP~IksIEVLRrgKVRRAKLYYLRdr~~~l~k~ 342 (342)
+|+|||..||||||+|++|+|++..|+|||+||||||..++|+.+
T Consensus 142 agvGVEi~~pLYsP~IkeI~Vlk~~k~rra~LyYLRd~lp~lstf 186 (201)
T KOG1698|consen 142 AGVGVEIVFPLYSPNIKEIKVLKLEKRRRAKLYYLRDALPELSTF 186 (201)
T ss_pred hCceeEEEEeccCCCeeEEEEechhhcccchhhhhhccccccCch
Confidence 999999999999999999999999999999999999999999863
No 7
>PF05641 Agenet: Agenet domain; InterPro: IPR008395 This domain is related to the TUDOR domain IPR008191 from INTERPRO []. The function of the agenet domain is unknown. This signature matches one of the two Agenet domains in the FMR proteins [].; GO: 0003723 RNA binding; PDB: 2BKD_N 3O8V_A 3KUF_A 3H8Z_A.
Probab=72.14 E-value=12 Score=28.35 Aligned_cols=38 Identities=16% Similarity=0.175 Sum_probs=25.0
Q ss_pred CCCCCEEEEEEEeecCCcccceEEEEEEEEecCCCceeEEEEE
Q 019373 253 IKPGYIVQLKVVIPENKRRVSTLKGIVIARRNAGISTTFRLRR 295 (342)
Q Consensus 253 FrpGDIV~V~~~I~EnKeRvQ~FeGVVIarRnrGl~STFTLRn 295 (342)
|++||.|+|... |+.-|-.=|.|.|+...+.+ ++.|+-
T Consensus 1 F~~G~~VEV~s~--e~g~~gaWf~a~V~~~~~~~---~~~V~Y 38 (68)
T PF05641_consen 1 FKKGDEVEVSSD--EDGFRGAWFPATVLKENGDD---KYLVEY 38 (68)
T ss_dssp --TT-EEEEEE---SBTT--EEEEEEEEEEETT----EEEEEE
T ss_pred CCCCCEEEEEEc--CCCCCcEEEEEEEEEeCCCc---EEEEEE
Confidence 789999999764 33447789999999999766 777765
No 8
>smart00743 Agenet Tudor-like domain present in plant sequences. Domain in plant sequences with possible chromatin-associated functions.
Probab=69.21 E-value=28 Score=25.26 Aligned_cols=49 Identities=16% Similarity=0.114 Sum_probs=34.6
Q ss_pred CCCCCCCEEEEEEEeecCCcccceEEEEEEEEecCCCceeEEEEEeecCceEEEEEe
Q 019373 251 PDIKPGYIVQLKVVIPENKRRVSTLKGIVIARRNAGISTTFRLRRLVAGVGVESLFP 307 (342)
Q Consensus 251 PeFrpGDIV~V~~~I~EnKeRvQ~FeGVVIarRnrGl~STFTLRnIi~GVGVEr~Fp 307 (342)
..|++||.|.|.... .-.=|+|+|+++.+ +..+.|+=.-.+.|-+..++
T Consensus 1 ~~~~~G~~Ve~~~~~-----~~~W~~a~V~~~~~---~~~~~V~~~~~~~~~~e~v~ 49 (61)
T smart00743 1 SDFKKGDRVEVFSKE-----EDSWWEAVVTKVLG---DGKYLVRYLTESEPLKETVD 49 (61)
T ss_pred CCcCCCCEEEEEECC-----CCEEEEEEEEEECC---CCEEEEEECCCCcccEEEEe
Confidence 368999999998743 23589999999876 34577765443466666555
No 9
>PRK01191 rpl24p 50S ribosomal protein L24P; Validated
Probab=64.71 E-value=18 Score=31.69 Aligned_cols=70 Identities=17% Similarity=0.134 Sum_probs=42.0
Q ss_pred CCCCCCEEEEEEEeecCCcccceEEEEEEEEecCCCceeEEEEE--eecCceEEEEEeecCCccceEEEeeeCcccccce
Q 019373 252 DIKPGYIVQLKVVIPENKRRVSTLKGIVIARRNAGISTTFRLRR--LVAGVGVESLFPLYSPNILEIKVLDKKKVRRAKL 329 (342)
Q Consensus 252 eFrpGDIV~V~~~I~EnKeRvQ~FeGVVIarRnrGl~STFTLRn--Ii~GVGVEr~FpLySP~IksIEVLRrgKVRRAKL 329 (342)
.++.||.|.|.-= ..|. =+|.|+.+-...- .++|-. +....|+|+-.|||.-+|.=++..--.+.|.++|
T Consensus 45 ~IkkGD~V~VisG--~~KG----k~GkV~~V~~~~~--~V~VeGvn~~k~~G~~~e~pIh~SNV~l~~l~l~~~~R~~~l 116 (120)
T PRK01191 45 PVRKGDTVKVMRG--DFKG----EEGKVVEVDLKRG--RIYVEGVTVKKADGTEVPRPIHPSNVMITKLDLSDERREKIL 116 (120)
T ss_pred eEeCCCEEEEeec--CCCC----ceEEEEEEEcCCC--EEEEeCcEEECCCCeEEEcccchhHeEEEeCccCCHHHHHHh
Confidence 6999999998541 1222 2488888854321 233332 2224578999999988876555533344454443
No 10
>TIGR01080 rplX_A_E ribosomal protein L24p/L26e, archaeal/eukaryotic. This model represents the archaeal and eukaryotic branch of the ribosomal protein L24p/L26e family. Bacterial and organellar forms are represented by the related TIGR01079.
Probab=59.79 E-value=27 Score=30.22 Aligned_cols=70 Identities=14% Similarity=0.143 Sum_probs=41.3
Q ss_pred CCCCCCEEEEEEEeecCCcccceEEEEEEEEecCCCceeEEEEEee--cCceEEEEEeecCCccceEEEeeeCcccccce
Q 019373 252 DIKPGYIVQLKVVIPENKRRVSTLKGIVIARRNAGISTTFRLRRLV--AGVGVESLFPLYSPNILEIKVLDKKKVRRAKL 329 (342)
Q Consensus 252 eFrpGDIV~V~~~I~EnKeRvQ~FeGVVIarRnrGl~STFTLRnIi--~GVGVEr~FpLySP~IksIEVLRrgKVRRAKL 329 (342)
.++-||.|.|.- ++. .--+|.|+.+.++.. .+.|-.+- ...|+|.-.|||--+|.=|+..--...|+++|
T Consensus 41 ~IkkGD~V~Vi~----Gk~--KGk~GkV~~V~~~~~--~V~Vegvn~~k~~G~~~e~pIh~SnV~l~~l~l~~~~R~~~l 112 (114)
T TIGR01080 41 PVRKGDKVRIMR----GDF--KGHEGKVSKVDLKRY--RIYVEGVTKEKVNGTEVPVPIHPSNVMITKLNLDDEKRKKII 112 (114)
T ss_pred eeecCCEEEEec----CCC--CCCEEEEEEEEcCCC--EEEEcCeEEECCCCeEEEeeechHHeEEEeccCChHHHHHHh
Confidence 799999999863 221 134588988875432 23322211 12367888889887776665533334454443
No 11
>TIGR03170 flgA_cterm flagella basal body P-ring formation protein FlgA. This model describes a conserved C-terminal region of the flagellar basal body P-ring formation protein FlgA. This sequence region contains a SAF domain, now described by Pfam model pfam08666.
Probab=50.17 E-value=50 Score=26.92 Aligned_cols=47 Identities=17% Similarity=0.113 Sum_probs=34.1
Q ss_pred CCCCCCCCCEEEEEEEeecCCcccceEEEEEEEEecCCCceeEEEEEeecCc
Q 019373 249 EIPDIKPGYIVQLKVVIPENKRRVSTLKGIVIARRNAGISTTFRLRRLVAGV 300 (342)
Q Consensus 249 diPeFrpGDIV~V~~~I~EnKeRvQ~FeGVVIarRnrGl~STFTLRnIi~GV 300 (342)
..|-++-||.|.|.+.... + ..+-...|..+..++.++.|||...|-
T Consensus 62 ~~~~V~~G~~V~i~~~~~~----~-~i~~~g~Al~~g~~G~~I~V~N~~s~k 108 (122)
T TIGR03170 62 PPWLVKRGDTVTVIARGGG----L-SVTTEGKALEDGAVGDQIRVRNLSSGK 108 (122)
T ss_pred CccEEcCCCEEEEEEecCC----E-EEEEEEEEccccCCCCEEEEEECCCCC
Confidence 4578999999999886432 1 233344677788999999999965543
No 12
>COG0250 NusG Transcription antiterminator [Transcription]
Probab=40.56 E-value=1.4e+02 Score=27.31 Aligned_cols=49 Identities=22% Similarity=0.365 Sum_probs=32.5
Q ss_pred HHHHHHHHHHHHHHHHHhhcCCCCCCCCCCCEEEEEEEeecCCcccceEEEEEEEEecC
Q 019373 227 KTARHIMQILDKEAVENVKSQREIPDIKPGYIVQLKVVIPENKRRVSTLKGIVIARRNA 285 (342)
Q Consensus 227 K~a~~LM~~LekEevee~~~kkdiPeFrpGDIV~V~~~I~EnKeRvQ~FeGVVIarRnr 285 (342)
+.+.++|..++.. ....+....|.+||.|+|.- .-...|.|.|+.+...
T Consensus 102 ~ei~~~l~~~~~~----~~~~~~~~~~e~Gd~VrI~~------GpFa~f~g~V~evd~e 150 (178)
T COG0250 102 EEIEHILGFLEEE----VAPKKPKVDFEPGDVVRIID------GPFAGFKAKVEEVDEE 150 (178)
T ss_pred HHHHHHHhhcccc----ccCCcccccCCCCCEEEEec------cCCCCccEEEEEEcCc
Confidence 4566677776643 12234557899999999852 2234688899988864
No 13
>PF13144 SAF_2: SAF-like
Probab=40.26 E-value=92 Score=27.38 Aligned_cols=46 Identities=22% Similarity=0.254 Sum_probs=34.0
Q ss_pred CCCCCCCCCEEEEEEEeecCCcccceEEEEEEEEecCCCceeEEEEEeecC
Q 019373 249 EIPDIKPGYIVQLKVVIPENKRRVSTLKGIVIARRNAGISTTFRLRRLVAG 299 (342)
Q Consensus 249 diPeFrpGDIV~V~~~I~EnKeRvQ~FeGVVIarRnrGl~STFTLRnIi~G 299 (342)
..|-++-||.|.|.+.... -..+--.+|..+..++..+.|||...|
T Consensus 136 ~~~~V~~G~~V~v~~~~g~-----i~i~~~g~Al~~G~~G~~I~V~N~~S~ 181 (196)
T PF13144_consen 136 PPPLVKRGDIVTVIARSGG-----ISISTEGKALEDGALGDTIRVKNLSSG 181 (196)
T ss_pred cceecCCCCEEEEEEEeCC-----EEEEEEEEEccCCCCCCEEEEEECCCC
Confidence 4578999999999886442 123344467888899999999997644
No 14
>TIGR00405 L26e_arch ribosomal protein L24p/L26e, archaeal. This protein contains a KOW domain, shared by bacterial NusG and the L24p/L26e family of ribosomal proteins. Although called archaeal NusG in several publications, it is the only close homolog of eukaryotic L26e in archaeal genomes, shares an operon with L11 in many genomes, and has been sequenced from purified ribosomes. It is here designated as a ribosomal protein for these reasons.
Probab=40.13 E-value=1.3e+02 Score=25.53 Aligned_cols=43 Identities=23% Similarity=0.196 Sum_probs=27.5
Q ss_pred CCCCCCCEEEEEEEeecCCcccceEEEEEEEEecCCCceeEEEEEeecCce
Q 019373 251 PDIKPGYIVQLKVVIPENKRRVSTLKGIVIARRNAGISTTFRLRRLVAGVG 301 (342)
Q Consensus 251 PeFrpGDIV~V~~~I~EnKeRvQ~FeGVVIarRnrGl~STFTLRnIi~GVG 301 (342)
..+.+||.|+|.- .-.+-|+|+|+.+.+... -.+|.=...++-
T Consensus 85 ~~~~~Gd~V~I~~------GPf~G~~g~v~~~d~~k~--~v~v~l~~~~~~ 127 (145)
T TIGR00405 85 ESIKKGDIVEIIS------GPFKGERAKVIRVDESKE--EVTLELIEAAVP 127 (145)
T ss_pred cccCCCCEEEEee------cCCCCCeEEEEEEcCCCC--EEEEEEEEcCcc
Confidence 4599999999852 224678899999876443 344433333433
No 15
>COG2139 RPL21A Ribosomal protein L21E [Translation, ribosomal structure and biogenesis]
Probab=39.15 E-value=29 Score=29.79 Aligned_cols=39 Identities=18% Similarity=0.216 Sum_probs=29.3
Q ss_pred CCCCCCCCCEEEEEEEeec----CCcccceEEEEEEEEecCCC
Q 019373 249 EIPDIKPGYIVQLKVVIPE----NKRRVSTLKGIVIARRNAGI 287 (342)
Q Consensus 249 diPeFrpGDIV~V~~~I~E----nKeRvQ~FeGVVIarRnrGl 287 (342)
-+-+|++||.|.+.+.=.- --.|.|-.+|+|+.++++-.
T Consensus 29 ~l~ey~~Gd~V~I~IdpSv~kGmPh~rf~G~TG~Vvg~~g~ay 71 (98)
T COG2139 29 YLQEYKVGDKVHIDIDPSVHKGMPHPRFQGKTGTVVGVRGRAY 71 (98)
T ss_pred HHhhccCCCEEEEEeCcccccCCCCccccCcceEEEeccCCEE
Confidence 3568999999888764222 25688999999999997543
No 16
>cd04497 hPOT1_OB1_like hPOT1_OB1_like: A subfamily of OB folds similar to the first OB fold (OB1) of human protection of telomeres 1 protein (hPOT1), the single OB fold of the N-terminal domain of Schizosaccharomyces pombe POT1 (SpPOT1), and the first OB fold of the N-terminal domain of the alpha subunit (OB1Nalpha) of Oxytricha nova telomere end binding protein (OnTEBP). POT1 proteins recognize single-stranded (ss) 3-prime ends of the telomere. A 3-prime ss overhang is conserved in ciliated protozoa, yeast, and mammals. SpPOT1 is essential for telomere maintenance. It binds specifically to the ss G-rich telomeric sequence (GGTTAC) of S. pombe. hPOT1 binds specifically to ss telomeric DNA repeats ending with the sequence GGTTAG. Deletion of the S. pombe pot1+ gene results in a rapid loss of telomere sequences, chromosome mis-segregation and chromosome circularization. hPOT1 is implicated in telomere length regulation. The hPOT1 monomer consists of two closely connected OB folds (OB1-OB
Probab=37.36 E-value=49 Score=28.20 Aligned_cols=47 Identities=21% Similarity=0.274 Sum_probs=32.4
Q ss_pred CCCCCCCCCEEEEEEEeecCCcccceEEEEEEEEecCCCceeEEEEEeecCceE
Q 019373 249 EIPDIKPGYIVQLKVVIPENKRRVSTLKGIVIARRNAGISTTFRLRRLVAGVGV 302 (342)
Q Consensus 249 diPeFrpGDIV~V~~~I~EnKeRvQ~FeGVVIarRnrGl~STFTLRnIi~GVGV 302 (342)
.+|.+.+||+|.++= =++|.|.|-..++.+. -.+++-|=+-..+..+
T Consensus 65 ~LP~v~~GDVIll~~------~kv~~~~g~~~~~~~~-~~ss~avf~~~~~~~~ 111 (138)
T cd04497 65 SLPIVKVGDIILLRR------VKIQSYNGKPQGISND-RGSSWAVFRGDDGVVP 111 (138)
T ss_pred hCCCCCCCCEEEEEE------EEEEEECCceEEEECC-CceeEEEEcCCCCCCc
Confidence 589889999999973 2467888888888766 4566776443333333
No 17
>PF08207 EFP_N: Elongation factor P (EF-P) KOW-like domain; InterPro: IPR013185 This entry represents the N-terminal domain of homologues of elongation factor P, which probably are translation initiation factors. ; PDB: 3TRE_A 1YBY_A 1IZ6_B 1UEB_B 3HUW_V 3HUY_V 3A5Z_H 3OYY_B.
Probab=37.11 E-value=1.1e+02 Score=22.85 Aligned_cols=49 Identities=20% Similarity=0.372 Sum_probs=27.2
Q ss_pred CCCCCCEEEEEEEeecCCcccceEEEEEEEEecC-CCceeEEEEEeecCceEEEEEe
Q 019373 252 DIKPGYIVQLKVVIPENKRRVSTLKGIVIARRNA-GISTTFRLRRLVAGVGVESLFP 307 (342)
Q Consensus 252 eFrpGDIV~V~~~I~EnKeRvQ~FeGVVIarRnr-Gl~STFTLRnIi~GVGVEr~Fp 307 (342)
+|++|.+|.+.=. --++..++- ..-++ +---.+.+||+..|.-+|.+|.
T Consensus 4 dlr~G~~i~~~g~----~~~V~~~~~---~k~gkg~a~v~~klknl~tG~~~e~tf~ 53 (58)
T PF08207_consen 4 DLRKGMVIEIDGE----PYVVLDFQH---VKPGKGGAFVRVKLKNLRTGSKVEKTFR 53 (58)
T ss_dssp G--TTSEEEETTE----EEEEEEEEE---ECCTTSSSEEEEEEEETTTTEEEEEEEE
T ss_pred HccCCCEEEECCE----EEEEEEEEE---ECCCCCCeEEEEEEEECCCCCEEEEEEC
Confidence 6889999876310 001111111 11122 2345578999999999999996
No 18
>KOG1403 consensus Predicted alanine-glyoxylate aminotransferase [General function prediction only]
Probab=35.15 E-value=9.7 Score=39.01 Aligned_cols=15 Identities=67% Similarity=1.032 Sum_probs=12.5
Q ss_pred eeeccCceeeeeEEe
Q 019373 11 NLQSCGGQLIDVAFY 25 (342)
Q Consensus 11 ~~~~~~~~~~~~~~~ 25 (342)
.|||||||+|--|=|
T Consensus 217 slQSCGGQiiPPagY 231 (452)
T KOG1403|consen 217 SLQSCGGQIIPPAGY 231 (452)
T ss_pred HHHhcCCcccCchhH
Confidence 489999999987655
No 19
>PRK04183 glutamyl-tRNA(Gln) amidotransferase subunit D; Validated
Probab=34.92 E-value=61 Score=33.25 Aligned_cols=54 Identities=20% Similarity=0.372 Sum_probs=34.3
Q ss_pred CCCCCCEEEEEEEeecCCcccceEEEEEEEEecCCCceeEEEEEeec--CceEEEEEeecCCccceEEEeeeC
Q 019373 252 DIKPGYIVQLKVVIPENKRRVSTLKGIVIARRNAGISTTFRLRRLVA--GVGVESLFPLYSPNILEIKVLDKK 322 (342)
Q Consensus 252 eFrpGDIV~V~~~I~EnKeRvQ~FeGVVIarRnrGl~STFTLRnIi~--GVGVEr~FpLySP~IksIEVLRrg 322 (342)
.+.+||.|+|... . ..|+|++|-... +-.++| |.-+ .+||+.- .|++||++.++
T Consensus 2 ~~~~gd~v~~~~~----~---~~~~g~~~p~~~---~~~~~~-kl~~gyn~g~~~~------~~~~~~~~~~~ 57 (419)
T PRK04183 2 GMEVGDRVRVEKD----D---VVYEGILMPSYE---DDHIVI-KLDNGYNIGIDID------KIAEIELLEKG 57 (419)
T ss_pred CCCCCCEEEEEEC----C---eEEEEEEecCCC---CCEEEE-EcCCCceeeeccc------cccceEEcccc
Confidence 3678999999652 1 699999997665 223333 3333 3666542 46777877664
No 20
>smart00739 KOW KOW (Kyprides, Ouzounis, Woese) motif. Motif in ribosomal proteins, NusG, Spt5p, KIN17 and T54.
Probab=34.67 E-value=76 Score=19.33 Aligned_cols=27 Identities=15% Similarity=0.110 Sum_probs=18.1
Q ss_pred CCCCCCEEEEEEEeecCCcccceEEEEEEEEec
Q 019373 252 DIKPGYIVQLKVVIPENKRRVSTLKGIVIARRN 284 (342)
Q Consensus 252 eFrpGDIV~V~~~I~EnKeRvQ~FeGVVIarRn 284 (342)
.|.+||.|+|.-= ...-+.|+|+.+.+
T Consensus 1 ~~~~G~~V~I~~G------~~~g~~g~i~~i~~ 27 (28)
T smart00739 1 KFEVGDTVRVIAG------PFKGKVGKVLEVDG 27 (28)
T ss_pred CCCCCCEEEEeEC------CCCCcEEEEEEEcC
Confidence 3789999998641 12345788877654
No 21
>cd08544 Reeler Reeler, the N-terminal domain of reelin, F-spondin, and a variety of other proteins. This domain is found at the N-terminus of F-spondin, a protein attached to the extracellular matrix, which plays roles in neuronal development and vascular remodelling. The F-spondin reeler domain has been reported to bind heparin. The reeler domain is also found at the N-terminus of reelin, an extracellular glycoprotein involved in the development of the brain cortex, and in a variety of other eukaryotic proteins with different domain architectures, including the animal ferric-chelate reductase 1 or stromal cell-derived receptor 2, a member of the cytochrome B561 family, which reduces ferric iron before its transport from the endosome to the cytoplasm. Also included is the insect putative defense protein 1, which is expressed upon bacterial infection and appears to contain a single reeler domain.
Probab=33.65 E-value=86 Score=26.07 Aligned_cols=31 Identities=19% Similarity=0.366 Sum_probs=26.2
Q ss_pred CCCCCCEEEEEEEeecCCcccceEEEEEEEEecCC
Q 019373 252 DIKPGYIVQLKVVIPENKRRVSTLKGIVIARRNAG 286 (342)
Q Consensus 252 eFrpGDIV~V~~~I~EnKeRvQ~FeGVVIarRnrG 286 (342)
.+.||+.+.|++...+. ..|+|..|.-|+.+
T Consensus 29 ~y~pG~~~~Vtl~~~~~----~~F~GF~lqAr~~~ 59 (135)
T cd08544 29 SYVPGETYTVTLSGSSP----SPFRGFLLQARDAS 59 (135)
T ss_pred EECCCCEEEEEEECCCC----CceeEEEEEEEcCC
Confidence 78999999999875543 69999999999865
No 22
>PF12969 DUF3857: Domain of Unknown Function with PDB structure (DUF3857); InterPro: IPR024618 This domain is based on the first domain of the PDB structure 3KD4 (residues 1-228). It is structurally similar to domains in other hydrolases, eg. M1 family aminopeptidase, despite lack of any significant sequence similarity. The domain is N-terminal to a transglutaminase domain, which is found in many proteins known to have transglutaminase activity. The function of this domain is unknown. ; PDB: 3KD4_A.
Probab=31.94 E-value=36 Score=28.43 Aligned_cols=20 Identities=25% Similarity=0.489 Sum_probs=13.1
Q ss_pred CCCCCCCCCCEEEEEEEeec
Q 019373 248 REIPDIKPGYIVQLKVVIPE 267 (342)
Q Consensus 248 kdiPeFrpGDIV~V~~~I~E 267 (342)
-.+|.+++||+|...|.+..
T Consensus 85 ~~~p~v~~GdiIe~~y~~~~ 104 (177)
T PF12969_consen 85 FAFPDVRVGDIIEYSYTIKS 104 (177)
T ss_dssp EE--S--TT-EEEEEEEEEE
T ss_pred EEcCCCCCCcEEEEEEEEEe
Confidence 47899999999999998876
No 23
>cd00493 FabA_FabZ FabA/Z, beta-hydroxyacyl-acyl carrier protein (ACP)-dehydratases: One of several distinct enzyme types of the dissociative, type II, fatty acid synthase system (found in bacteria and plants) required to complete successive cycles of fatty acid elongation. The third step of the elongation cycle, the dehydration of beta-hydroxyacyl-ACP to trans-2-acyl-ACP, is catalyzed by FabA or FabZ. FabA is bifunctional and catalyzes an additional isomerization reaction of trans-2-acyl-ACP to cis-3-acyl-ACP, an essential reaction to unsaturated fatty acid synthesis. FabZ is the primary dehydratase that participates in the elongation cycles of saturated as well as unsaturated fatty acid biosynthesis, whereas FabA is more active in the dehydration of beta-hydroxydecanoyl-ACP. The FabA structure is homodimeric with two independent active sites located at the dimer interface.
Probab=31.88 E-value=74 Score=25.06 Aligned_cols=29 Identities=21% Similarity=0.391 Sum_probs=21.9
Q ss_pred CCCCCCEEEEEEEeecCCcccceEEEEEE
Q 019373 252 DIKPGYIVQLKVVIPENKRRVSTLKGIVI 280 (342)
Q Consensus 252 eFrpGDIV~V~~~I~EnKeRvQ~FeGVVI 280 (342)
.+.|||+|.+.+++.+.+++...|.+.+.
T Consensus 88 ~v~pgd~l~i~~~i~~~~~~~~~~~~~~~ 116 (131)
T cd00493 88 PVLPGDTLTLEVELLKVRRGLGKFDGRAY 116 (131)
T ss_pred CcCCCCEEEEEEEEEEeeCCEEEEEEEEE
Confidence 46799999999998875556666666654
No 24
>cd01288 FabZ FabZ is a 17kD beta-hydroxyacyl-acyl carrier protein (ACP) dehydratase that primarily catalyzes the dehydration of beta-hydroxyacyl-ACP to trans-2-acyl-ACP, the third step in the elongation phase of the bacterial/ plastid, type II, fatty-acid biosynthesis pathway.
Probab=30.65 E-value=75 Score=25.18 Aligned_cols=28 Identities=25% Similarity=0.421 Sum_probs=21.0
Q ss_pred CCCCCCEEEEEEEeecCCcccceEEEEE
Q 019373 252 DIKPGYIVQLKVVIPENKRRVSTLKGIV 279 (342)
Q Consensus 252 eFrpGDIV~V~~~I~EnKeRvQ~FeGVV 279 (342)
.+.|||+|++..++.+...+.-.|++.+
T Consensus 87 pv~pgd~l~i~~~v~~~~~~~~~~~~~~ 114 (131)
T cd01288 87 PVVPGDQLILEVELLKLRRGIGKFKGKA 114 (131)
T ss_pred ccCCCCEEEEEEEEEEeeCCEEEEEEEE
Confidence 3668999999999888555566666654
No 25
>PRK07018 flgA flagellar basal body P-ring biosynthesis protein FlgA; Reviewed
Probab=30.36 E-value=1.3e+02 Score=27.88 Aligned_cols=47 Identities=15% Similarity=0.137 Sum_probs=33.3
Q ss_pred CCCCCCCCCEEEEEEEeecCCcccceEEEEEEEEecCCCceeEEEEEeecCc
Q 019373 249 EIPDIKPGYIVQLKVVIPENKRRVSTLKGIVIARRNAGISTTFRLRRLVAGV 300 (342)
Q Consensus 249 diPeFrpGDIV~V~~~I~EnKeRvQ~FeGVVIarRnrGl~STFTLRnIi~GV 300 (342)
..+-++.||.|.|.+.... + ..+--..|..+.+++..++|||...|-
T Consensus 173 ~~~~V~~G~~V~i~~~~g~----~-~i~~~G~Al~~G~~Gd~IrVrN~~Sgk 219 (235)
T PRK07018 173 QAWVVCKGQTVSIIARGDG----F-SVKTEGEALNDGAVGQQIRVRNMASGQ 219 (235)
T ss_pred CccEeCCCCEEEEEEecCC----E-EEEEEEEEcCCCCCCCeEEEEECCCCC
Confidence 4578999999999886432 1 222333577788999999999875553
No 26
>PF12148 DUF3590: Protein of unknown function (DUF3590); InterPro: IPR021991 This domain is found in eukaryotes, and is typically between 83 and 97 amino acids in length. It is found in association with PF00097 from PFAM, PF02182 from PFAM, PF00628 from PFAM, PF00240 from PFAM. There are two conserved sequence motifs: RAR and NYN. The domain is part of the protein NIRF which has zinc finger and ubiquitinating domains. The function of this domain is likely to be mainly structural, however this has not been confirmed. ; PDB: 3DB4_A 3ASK_A 3DB3_A 2L3R_A.
Probab=30.17 E-value=32 Score=28.68 Aligned_cols=23 Identities=26% Similarity=0.417 Sum_probs=14.5
Q ss_pred CCCCCCCCCEEEEEEEeecCCcc
Q 019373 249 EIPDIKPGYIVQLKVVIPENKRR 271 (342)
Q Consensus 249 diPeFrpGDIV~V~~~I~EnKeR 271 (342)
...++.+|++|.|.|.+.+.|+|
T Consensus 62 ~w~~L~VG~~VMvNYN~d~P~er 84 (85)
T PF12148_consen 62 KWDELKVGQVVMVNYNVDEPKER 84 (85)
T ss_dssp -GGG--TT-EEEEEE-TTSTTS-
T ss_pred cHHhCCcccEEEEecCCCCcccC
Confidence 34579999999999998887776
No 27
>PF02765 POT1: Telomeric single stranded DNA binding POT1/CDC13; InterPro: IPR011564 This entry represents a domain that binds single stranded telomeric DNA and adopts an OB fold []. It includes the proteins POT1 and CDC13 which have been shown to regulate telomere length, replication and capping [, , ]. ; GO: 0003677 DNA binding, 0000723 telomere maintenance, 0000784 nuclear chromosome, telomeric region; PDB: 1S40_A 1KXL_A 1PH7_A 1PH9_A 1PH2_A 1OTC_A 1PHJ_A 1JB7_A 1PA6_A 1PH1_A ....
Probab=29.71 E-value=73 Score=27.28 Aligned_cols=55 Identities=24% Similarity=0.315 Sum_probs=33.2
Q ss_pred CCCCCC-CCEEEEE-EEeecCCcccceEEEEEEEEecCCCceeEEEEEeecCceEEEEEeecCCc
Q 019373 250 IPDIKP-GYIVQLK-VVIPENKRRVSTLKGIVIARRNAGISTTFRLRRLVAGVGVESLFPLYSPN 312 (342)
Q Consensus 250 iPeFrp-GDIV~V~-~~I~EnKeRvQ~FeGVVIarRnrGl~STFTLRnIi~GVGVEr~FpLySP~ 312 (342)
+|.+.. ||+|.++ ++ +|.|.|-..++.+.+-++++.|= .-++.|..-.-+..||.
T Consensus 70 LP~v~~~GDii~l~r~k-------v~~~~~~~~~~~~~~~~ss~~vf-~~~~~~~~~~p~~~s~~ 126 (146)
T PF02765_consen 70 LPNVKSVGDIIRLRRVK-------VQSYNGKPQGLSNSTSNSSWAVF-SSGGSGAPFEPYQKSSN 126 (146)
T ss_dssp SCTTCSTTHEEEEEEEE-------EEEETTEEEEEEECECTEEEEEE-CTSSTTTCCCSSCESTS
T ss_pred CCCCCCCCCEEEEEEEE-------EEEECCEEEEEecCCCcEEEEEE-ecCCCCCCccccccCCC
Confidence 498888 9999988 44 44566666666665556777764 23444443222344543
No 28
>PF02211 NHase_beta: Nitrile hydratase beta subunit; InterPro: IPR024690 Nitrile hydratases (EC:4.2.1.84) are unusual metalloenzymes that catalyse the hydration of nitriles to their corresponding amides. They are used as biocatalysts in acrylamide production, one of the few commercial scale bioprocesses, as well as in environmental remediation for the removal of nitriles from waste streams. Nitrile hydratases are composed of two subunits, alpha and beta, and they contain one iron atom per alpha beta unit []. This entry represents the structural domain of nitrile hydratase beta subunit which contains irregular array of helices in the N-terminal extension.; GO: 0018822 nitrile hydratase activity; PDB: 2DXB_H 2DD5_K 2DD4_H 2ZZD_B 2DXC_H 1AHJ_F 2ZPE_B 2ZCF_B 2D0Q_B 2CZ7_B ....
Probab=28.68 E-value=56 Score=30.95 Aligned_cols=36 Identities=17% Similarity=0.287 Sum_probs=19.1
Q ss_pred CCCCCCCCCEEEEEEEeecCCcccceE----EEEEEEEec
Q 019373 249 EIPDIKPGYIVQLKVVIPENKRRVSTL----KGIVIARRN 284 (342)
Q Consensus 249 diPeFrpGDIV~V~~~I~EnKeRvQ~F----eGVVIarRn 284 (342)
..|.|.+||.|+|.-..+..-.|+..| +|+|....+
T Consensus 131 ~~~~F~vGd~Vrv~~~~~~~HtR~P~Y~rg~~G~I~~~~g 170 (222)
T PF02211_consen 131 APPRFAVGDRVRVRNLPPPGHTRLPRYVRGKTGTIERVHG 170 (222)
T ss_dssp SS-SS-TT-EEEE-----SS--SS-GGGTT-EEEEEEEEE
T ss_pred CCCCCCCCCEEEECCCCCCCcccccHhhCCCeeEEEEEec
Confidence 568999999999986665566676554 688887664
No 29
>TIGR01750 fabZ beta-hydroxyacyl-[acyl carrier protein] dehydratase FabZ. This enzyme, FabZ, shows overlapping substrate specificity with FabA with regard to chain length in fatty acid biosynthesis. FabZ works preferentially on shorter chains and is often designated (3R)-hydroxymyristoyl-[acyl carrier protein] dehydratase, although its actual specificity is broader. Unlike FabA, FabZ does not function as an isomerase and cannot initiate unsaturated fatty acid biosynthesis. However, only FabZ can act during the elongation of unsaturated fatty acid chains.
Probab=28.61 E-value=89 Score=25.69 Aligned_cols=28 Identities=21% Similarity=0.436 Sum_probs=20.4
Q ss_pred CCCCCCEEEEEEEeecCCcccceEEEEE
Q 019373 252 DIKPGYIVQLKVVIPENKRRVSTLKGIV 279 (342)
Q Consensus 252 eFrpGDIV~V~~~I~EnKeRvQ~FeGVV 279 (342)
.++|||+|.+++++.+...+.-.|.|.+
T Consensus 97 ~v~pGd~l~i~~~i~~~~~~~~~~~~~~ 124 (140)
T TIGR01750 97 PVVPGDQLILHAEFLKKRRKIGKFKGEA 124 (140)
T ss_pred ccCCCCEEEEEEEEEEccCCEEEEEEEE
Confidence 4678999999999887445555666654
No 30
>PF03888 MucB_RseB: MucB/RseB family; InterPro: IPR005588 The members of this family are regulators of the anti-sigma E protein RseD.; PDB: 2P4B_B 2V42_B 2V43_A 3M4W_A.
Probab=28.52 E-value=1.8e+02 Score=27.89 Aligned_cols=48 Identities=23% Similarity=0.349 Sum_probs=35.2
Q ss_pred ccceEEEEEEEEecCCCceeEEEEEe-ecCceEEEEEeecCCccceEEEeeeC
Q 019373 271 RVSTLKGIVIARRNAGISTTFRLRRL-VAGVGVESLFPLYSPNILEIKVLDKK 322 (342)
Q Consensus 271 RvQ~FeGVVIarRnrGl~STFTLRnI-i~GVGVEr~FpLySP~IksIEVLRrg 322 (342)
|.+.|+|+.+-.++..+. ++.++-. .+|.-.|+.-.|..|.. ||+|++
T Consensus 9 ~~lnY~g~fv~~~~~~~~-s~ri~H~~~~~~e~ErL~~LdG~~r---eviR~~ 57 (285)
T PF03888_consen 9 RQLNYEGTFVYQRGGQME-SMRIRHAVDDGGEYERLESLDGPPR---EVIRRG 57 (285)
T ss_dssp HHSEEEEEEEEEETTEEE-EEEEEEEEETTEEEEEEEE-SSS-----EEEEET
T ss_pred HhCCeEEEEEEEeCCeEE-EEEEEEEeeCCEEEEEEEecCCCcE---EEEEEC
Confidence 457999999999887664 4555554 56777999999999985 788875
No 31
>PRK05609 nusG transcription antitermination protein NusG; Validated
Probab=28.20 E-value=3.3e+02 Score=23.58 Aligned_cols=28 Identities=18% Similarity=0.198 Sum_probs=21.6
Q ss_pred CCCCCCCEEEEEEEeecCCcccceEEEEEEEEec
Q 019373 251 PDIKPGYIVQLKVVIPENKRRVSTLKGIVIARRN 284 (342)
Q Consensus 251 PeFrpGDIV~V~~~I~EnKeRvQ~FeGVVIarRn 284 (342)
..|.+||.|+|.- .-.+-++|+|+.+.+
T Consensus 125 ~~~~~Gd~VrI~~------GPf~G~~g~v~~i~~ 152 (181)
T PRK05609 125 VDFEVGEMVRVID------GPFADFNGTVEEVDY 152 (181)
T ss_pred cCCCCCCEEEEec------cCCCCCEEEEEEEeC
Confidence 5699999999852 235688999999864
No 32
>cd06462 Peptidase_S24_S26 The S24, S26 LexA/signal peptidase superfamily contains LexA-related and type I signal peptidase families. The S24 LexA protein domains include: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC 3.4.21.88), the repressor of genes in the cellular SOS response to DNA damage; MucA and the related UmuD proteins, which are lesion-bypass DNA polymerases, induced in response to mitogenic DNA damage; RulA, a component of the rulAB locus that confers resistance to UV, and RuvA, which is a component of the RuvABC resolvasome that catalyzes the resolution of Holliday junctions that arise during genetic recombination and DNA repair. The S26 type I signal peptidase (SPase) family also includes mitochondrial inner membrane protease (IMP)-like members. SPases are essential membrane-bound proteases which function to cleave away the amino-terminal signal peptide from the translocated pre-protein, thus playing a crucial role in the tr
Probab=28.07 E-value=2.1e+02 Score=20.68 Aligned_cols=43 Identities=19% Similarity=0.274 Sum_probs=29.0
Q ss_pred CCCCCCCCEEEEEEEeecCCcccceEEEEEEEEecCCCceeEEEEEeecCc
Q 019373 250 IPDIKPGYIVQLKVVIPENKRRVSTLKGIVIARRNAGISTTFRLRRLVAGV 300 (342)
Q Consensus 250 iPeFrpGDIV~V~~~I~EnKeRvQ~FeGVVIarRnrGl~STFTLRnIi~GV 300 (342)
.|.|..||+|-|.-... ..-.|-++..+..| ....+|++....
T Consensus 11 ~P~i~~gd~v~i~~~~~------~~~~G~iv~~~~~~--~~~~ikrl~~~~ 53 (84)
T cd06462 11 EPTIPDGDLVLVDKSSY------EPKRGDIVVFRLPG--GELTVKRVIGLP 53 (84)
T ss_pred cCcccCCCEEEEEecCC------CCcCCEEEEEEcCC--CcEEEEEEEEEC
Confidence 37899999998874322 23446555555544 568899988765
No 33
>TIGR00922 nusG transcription termination/antitermination factor NusG. Archaeal proteins once termed NusG share the KOW domain but are actually a ribosomal protein corresponding to L24p in bacterial and L26e in eukaryotes (TIGR00405).
Probab=27.61 E-value=3.7e+02 Score=23.17 Aligned_cols=29 Identities=17% Similarity=0.163 Sum_probs=21.8
Q ss_pred CCCCCCCEEEEEEEeecCCcccceEEEEEEEEecC
Q 019373 251 PDIKPGYIVQLKVVIPENKRRVSTLKGIVIARRNA 285 (342)
Q Consensus 251 PeFrpGDIV~V~~~I~EnKeRvQ~FeGVVIarRnr 285 (342)
..|++||.|+|.- .-.+-|+|+|+.+.++
T Consensus 118 ~~~~~G~~V~I~~------Gpf~G~~g~v~~~~~~ 146 (172)
T TIGR00922 118 IDFEVGEQVRVND------GPFANFTGTVEEVDYE 146 (172)
T ss_pred cCCCCCCEEEEee------cCCCCcEEEEEEEcCC
Confidence 4589999999852 2356889999998643
No 34
>PRK08559 nusG transcription antitermination protein NusG; Validated
Probab=24.59 E-value=1.9e+02 Score=25.22 Aligned_cols=29 Identities=28% Similarity=0.260 Sum_probs=22.3
Q ss_pred CCCCCCCEEEEEEEeecCCcccceEEEEEEEEecC
Q 019373 251 PDIKPGYIVQLKVVIPENKRRVSTLKGIVIARRNA 285 (342)
Q Consensus 251 PeFrpGDIV~V~~~I~EnKeRvQ~FeGVVIarRnr 285 (342)
-.|.+||.|+|.- .-.+-|+|.|+.+.+.
T Consensus 93 ~~~~~G~~V~I~~------Gpf~g~~g~V~~vd~~ 121 (153)
T PRK08559 93 EGIKEGDIVELIA------GPFKGEKARVVRVDES 121 (153)
T ss_pred cCCCCCCEEEEec------cCCCCceEEEEEEcCC
Confidence 3599999999852 2346789999998764
No 35
>TIGR01955 RfaH transcriptional activator RfaH. This model represents the transcriptional activator protein, RfaH. This protein is most closely related to the transcriptional termination/antitermination protein NusG (TIGR00922) and contains the KOW motif (pfam00467). This protein appears to be limited to the gamma proteobacteria. In E. coli, this gene appears to control the expression of haemolysin, sex factor and lipopolysaccharide genes.
Probab=24.15 E-value=2.4e+02 Score=23.85 Aligned_cols=28 Identities=11% Similarity=0.070 Sum_probs=21.5
Q ss_pred CCCCCCCEEEEEEEeecCCcccceEEEEEEEEec
Q 019373 251 PDIKPGYIVQLKVVIPENKRRVSTLKGIVIARRN 284 (342)
Q Consensus 251 PeFrpGDIV~V~~~I~EnKeRvQ~FeGVVIarRn 284 (342)
..|.+||.|+|.- .=.+-|+|+|..+.+
T Consensus 107 ~~~~~G~~V~V~~------GPf~g~~g~v~~~~~ 134 (159)
T TIGR01955 107 TLPYKGDKVRITD------GAFAGFEAIFLEPDG 134 (159)
T ss_pred cCCCCCCEEEEec------cCCCCcEEEEEEECC
Confidence 4699999998852 225689999999874
No 36
>PRK06005 flgA flagellar basal body P-ring biosynthesis protein FlgA; Reviewed
Probab=24.04 E-value=2.6e+02 Score=25.01 Aligned_cols=49 Identities=20% Similarity=0.200 Sum_probs=34.1
Q ss_pred CCCCCCCCCEEEEEEEeecCCcccceEEEEEEEEecCCCceeEEEEEeecCceE
Q 019373 249 EIPDIKPGYIVQLKVVIPENKRRVSTLKGIVIARRNAGISTTFRLRRLVAGVGV 302 (342)
Q Consensus 249 diPeFrpGDIV~V~~~I~EnKeRvQ~FeGVVIarRnrGl~STFTLRnIi~GVGV 302 (342)
..+-++-||.|.|.+...- + ..+-.-++..+.+.+..+.|||...|-=|
T Consensus 97 ~p~~V~rG~~V~i~~~~~g----~-~i~~~G~Al~~G~~Gd~IrVrN~~Sgkiv 145 (160)
T PRK06005 97 EPSLVTRGSPVKLVFSAGG----L-TITAAGTPLQSGAAGDLIRVRNVDSGVIV 145 (160)
T ss_pred CCcEEeCCCEEEEEEecCC----E-EEEEEEEEcccCCCCCEEEEEECCCCCEE
Confidence 4567999999999886442 1 12222357778889999999997665433
No 37
>PRK00006 fabZ (3R)-hydroxymyristoyl-ACP dehydratase; Reviewed
Probab=23.93 E-value=1.1e+02 Score=25.46 Aligned_cols=27 Identities=26% Similarity=0.509 Sum_probs=19.3
Q ss_pred CCCCCEEEEEEEeecCCcccceEEEEE
Q 019373 253 IKPGYIVQLKVVIPENKRRVSTLKGIV 279 (342)
Q Consensus 253 FrpGDIV~V~~~I~EnKeRvQ~FeGVV 279 (342)
.+|||+|.+..++.+.+++.-.+.+-+
T Consensus 102 v~pGd~l~i~~~i~~~~~~~v~~~~~~ 128 (147)
T PRK00006 102 VVPGDQLILEVELLKQRRGIWKFKGVA 128 (147)
T ss_pred cCCCCEEEEEEEEEEeeCCEEEEEEEE
Confidence 468999999998877544455555554
No 38
>PRK08571 rpl14p 50S ribosomal protein L14P; Reviewed
Probab=22.96 E-value=1.7e+02 Score=26.01 Aligned_cols=35 Identities=23% Similarity=0.384 Sum_probs=27.4
Q ss_pred CCCCCCCCEEEEEEEeecCCcccceEEEEEEEEec
Q 019373 250 IPDIKPGYIVQLKVVIPENKRRVSTLKGIVIARRN 284 (342)
Q Consensus 250 iPeFrpGDIV~V~~~I~EnKeRvQ~FeGVVIarRn 284 (342)
+|.-.+||+|.|.++-.....|-+.+.+||+..+.
T Consensus 44 ~~~a~iGD~IvvsVK~~~p~~kg~v~kAVIVRtkk 78 (132)
T PRK08571 44 LPKAGVGDMVVVSVKKGTPEMRKQVLRAVVVRQRK 78 (132)
T ss_pred CCccccCCEEEEEEEECCCcccCCEeEEEEEEecc
Confidence 47789999999998765433455899999999764
No 39
>PF02014 Reeler: Reeler domain Schematic picture including Reeler domain; InterPro: IPR002861 Extracellular matrix (ECM) proteins play an important role in early cortical development, specifically in the formation of neural connections and in controlling the cyto-architecture of the central nervous system. The product of the reeler gene in mouse is reelin,a large extracellular protein secreted by pioneer neurons that coordinates cell positioning during neurodevelopment []. F-spondin and mindin are a family of matrix-attached adhesion molecules that share structural similarities and overlapping domains of expression. Both F-spondin and mindin promote adhesion and outgrowth of hippocampal embryonic neurons and bind to a putative receptor(s) expressed on both hippocampal and sensory neurons []. This domain of unknown function is found at the N terminus of reelin and F-spondin.; PDB: 2ZOT_B 2ZOU_B 3COO_A.
Probab=22.94 E-value=81 Score=26.29 Aligned_cols=32 Identities=19% Similarity=0.461 Sum_probs=24.2
Q ss_pred CCCCCCCEEEEEEEeecCCcccceEEEEEEEEecCC
Q 019373 251 PDIKPGYIVQLKVVIPENKRRVSTLKGIVIARRNAG 286 (342)
Q Consensus 251 PeFrpGDIV~V~~~I~EnKeRvQ~FeGVVIarRnrG 286 (342)
..+.||+.++|++ +......|+|..|.-|...
T Consensus 28 ~~y~pg~~~~Vtl----~~~~~~~F~GFllqAr~~~ 59 (132)
T PF02014_consen 28 SSYEPGQTYTVTL----SSSGSSSFRGFLLQARDAN 59 (132)
T ss_dssp SSB-TTBEEEEEE----EETTTEEBSEEEEEEEETT
T ss_pred CeEcCCCEEEEEE----ECCCCCceeEEEEEEEeCC
Confidence 4689999999999 2334468999999988643
No 40
>PF09926 DUF2158: Uncharacterized small protein (DUF2158); InterPro: IPR019226 This entry represents a family of predominantly prokaryotic proteins with no known function.
Probab=22.70 E-value=55 Score=24.83 Aligned_cols=11 Identities=55% Similarity=0.631 Sum_probs=9.1
Q ss_pred CCCCCEEEEEE
Q 019373 253 IKPGYIVQLKV 263 (342)
Q Consensus 253 FrpGDIV~V~~ 263 (342)
|++||+|+++.
T Consensus 1 f~~GDvV~LKS 11 (53)
T PF09926_consen 1 FKIGDVVQLKS 11 (53)
T ss_pred CCCCCEEEEcc
Confidence 78999998863
No 41
>TIGR02266 gmx_TIGR02266 Myxococcus xanthus paralogous domain TIGR02266. This domain is related to Type IV pilus assembly protein PilZ (Pfam model pfam07238). It is found in at least 12 copies in Myxococcus xanthus DK 1622.
Probab=21.94 E-value=3.4e+02 Score=20.68 Aligned_cols=35 Identities=34% Similarity=0.479 Sum_probs=25.8
Q ss_pred CCCCCCCEEEEEEEeecCCcccceEEEEEEEEecCC
Q 019373 251 PDIKPGYIVQLKVVIPENKRRVSTLKGIVIARRNAG 286 (342)
Q Consensus 251 PeFrpGDIV~V~~~I~EnKeRvQ~FeGVVIarRnrG 286 (342)
..+.+|+.|.|.+..+.+... -...|.|+..+..+
T Consensus 35 ~~~~~g~~v~l~l~l~~~~~~-i~~~g~Vv~~~~~~ 69 (96)
T TIGR02266 35 KPLAVGTRVELKLTLPGGERP-VELKGVVAWVRPAA 69 (96)
T ss_pred CCcCCCCEEEEEEEcCCCCeE-EEEEEEEEEeCCCC
Confidence 457999999999988764332 35679988887544
No 42
>COG1566 EmrA Multidrug resistance efflux pump [Defense mechanisms]
Probab=21.48 E-value=2.4e+02 Score=28.48 Aligned_cols=60 Identities=18% Similarity=0.249 Sum_probs=42.2
Q ss_pred hcCCCCCCCCCCCEEEEEEEeecCCcccceEEEEEEEEecC-C--------CceeEEEEEeecCceEEEEEe
Q 019373 245 KSQREIPDIKPGYIVQLKVVIPENKRRVSTLKGIVIARRNA-G--------ISTTFRLRRLVAGVGVESLFP 307 (342)
Q Consensus 245 ~~kkdiPeFrpGDIV~V~~~I~EnKeRvQ~FeGVVIarRnr-G--------l~STFTLRnIi~GVGVEr~Fp 307 (342)
++..++..+++|+-++|++...... ..|+|+|-++-.. | .+.|...=++.+++.|...|.
T Consensus 251 FkETqL~~~r~Gq~a~I~~da~~~~---~~~~G~v~~i~~~tg~~fsllp~~natgN~tkvvQRvPVrI~ld 319 (352)
T COG1566 251 FKETQLARVRPGQPAEITLDAYPGN---GVVEGIVEGIAPATGSAFSLLPAQNATGNWTKVVQRVPVRIELD 319 (352)
T ss_pred eeeeecCcccCCCeEEEEEEcCCCc---eEEEEEEEEecCCcccccccCCCccCCCCEEEEEEeeeEEEEec
Confidence 3456889999999999998765532 6899999998752 1 244444456777777765553
No 43
>cd01737 LSm16_N LSm16 belongs to a family of Sm-like proteins that 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, that associates with other Sm proteins to form hexameric and heptameric ring structures. LSm16 has, in addition to its N-terminal Sm-like domain, a C-terminal Yjef_N-type rossman fold domain of unknown function.
Probab=21.37 E-value=1.9e+02 Score=23.24 Aligned_cols=34 Identities=24% Similarity=0.316 Sum_probs=22.6
Q ss_pred CCCEEEEEEEeecCCcccceEEEEEEEEecCCCceeEEEEE
Q 019373 255 PGYIVQLKVVIPENKRRVSTLKGIVIARRNAGISTTFRLRR 295 (342)
Q Consensus 255 pGDIV~V~~~I~EnKeRvQ~FeGVVIarRnrGl~STFTLRn 295 (342)
.|..|.++- .+-+-.|+|+|.++...- -|+.+|+
T Consensus 5 iGs~VSI~C-----~~~lGVyQG~i~~V~~~~--qTI~l~~ 38 (62)
T cd01737 5 LGSIVSINC-----GETLGVYQGLVSAVDQES--QTISLAF 38 (62)
T ss_pred cceEEEEec-----CCceEEEEEEEEEeCccc--eEEEEee
Confidence 577777653 345679999999987543 3455544
No 44
>PTZ00194 60S ribosomal protein L26; Provisional
Probab=20.89 E-value=2.1e+02 Score=25.92 Aligned_cols=69 Identities=13% Similarity=0.108 Sum_probs=38.8
Q ss_pred HHHhhcCCCCCCCCCCCEEEEEEEeecCCcccceEEEEEEEEecCCCceeEEEEE--eecCceEEEEEeecCCccceEEE
Q 019373 241 VENVKSQREIPDIKPGYIVQLKVVIPENKRRVSTLKGIVIARRNAGISTTFRLRR--LVAGVGVESLFPLYSPNILEIKV 318 (342)
Q Consensus 241 vee~~~kkdiPeFrpGDIV~V~~~I~EnKeRvQ~FeGVVIarRnrGl~STFTLRn--Ii~GVGVEr~FpLySP~IksIEV 318 (342)
+.+....+.+ .++.||+|.|.-= ..|. -+|.|+++-...- .+.|-. +....|-+.-+|||..+|.=++.
T Consensus 36 Lr~k~~~Rs~-~IkkGD~V~Vi~G--k~KG----k~GkV~~V~~k~~--~ViVEgvn~~Kk~gk~~e~PIh~SNV~iv~l 106 (143)
T PTZ00194 36 LRAKYNVRSM-PVRKDDEVMVVRG--HHKG----REGKVTAVYRKKW--VIHIEKITREKANGEPVQIGIHPSNVIITKL 106 (143)
T ss_pred HHHHhCCccc-eeecCCEEEEecC--CCCC----CceEEEEEEcCCC--EEEEeCeEEEecCCCEeecCcCchheEEEcc
Confidence 3333444555 6999999998531 1222 2389998865331 333322 12233444567888888754443
No 45
>PRK03999 translation initiation factor IF-5A; Provisional
Probab=20.89 E-value=3.6e+02 Score=23.36 Aligned_cols=50 Identities=12% Similarity=0.165 Sum_probs=32.9
Q ss_pred CCCCCCCCCEEEEEEEeecCCcccceEEEEEEEEe----c--CCCceeEEEEEeecCceEEEEEeec
Q 019373 249 EIPDIKPGYIVQLKVVIPENKRRVSTLKGIVIARR----N--AGISTTFRLRRLVAGVGVESLFPLY 309 (342)
Q Consensus 249 diPeFrpGDIV~V~~~I~EnKeRvQ~FeGVVIarR----n--rGl~STFTLRnIi~GVGVEr~FpLy 309 (342)
..++|+.|++|.+.= . .| .|+... + ++---.+.+||+..|.=+|.+|+-.
T Consensus 7 ~~~~lrkG~~i~~~g-----~----p~--~V~~~~~~kpGkhg~a~vr~k~knL~tG~~~e~~~~s~ 62 (129)
T PRK03999 7 EVGELKEGSYVVIDG-----E----PC--KIVEISKSKPGKHGSAKARIVAIGIFDGQKRSLVQPVD 62 (129)
T ss_pred cHHHccCCCEEEECC-----E----EE--EEEEEEeecCCCCCcEEEEEEEEECCCCCEEEEEecCC
Confidence 457999999996531 0 11 222221 1 1224678999999999999999843
No 46
>PF07977 FabA: FabA-like domain; InterPro: IPR013114 Fatty acids biosynthesis occurs by two distinct pathways: in fungi, mammals and mycobacteria, type I or associative fatty-acid biosynthesis (type I FAS) is accomplished by multifunctional proteins in which distinct domains catalyse specific reactions; in plants and most bacteria, type II or dissociative fatty-acid biosynthesis (type II FAS) is accomplished by distinct enzymes []. Both FabZ and FabA catalyse the dehydration of beta-hydroxyacyl acyl carrier protein (ACP) to trans 2-enoyl ACP. However, FabZ and FabA display subtle differences in substrate specificities, whereby FabA is most effective on acyl ACPs of 9-11 carbon atoms in length, while FabZ is less specific. Unlike FabA, FabZ does not function as an isomerase and cannot initiate unsaturated fatty acid biosynthesis. However, only FabZ can act during the elongation of unsaturated fatty acid chains. This enzyme domain has a HotDog fold.; PDB: 3D6X_F 2GLV_J 2GLM_E 2GLP_E 2GLL_C 1U1Z_F 3ESI_A 3AZB_T 3AZA_M 3AZ9_U ....
Probab=20.30 E-value=1e+02 Score=25.57 Aligned_cols=29 Identities=17% Similarity=0.392 Sum_probs=20.4
Q ss_pred CCCCCC-EEEEEEEeec---CCcccceEEEEEE
Q 019373 252 DIKPGY-IVQLKVVIPE---NKRRVSTLKGIVI 280 (342)
Q Consensus 252 eFrpGD-IV~V~~~I~E---nKeRvQ~FeGVVI 280 (342)
.+.||| ++++++.+.+ .......|+|.+.
T Consensus 96 ~v~Pg~~~l~~~v~i~~~~~~~~~~~~~~~~~~ 128 (138)
T PF07977_consen 96 PVYPGDKTLRIEVEIKKIRRREGGMAIFDGTAY 128 (138)
T ss_dssp -B-TTE-EEEEEEEEEEEEEEETTEEEEEEEEE
T ss_pred cEeCCCcEEEEEEEEEEeecccCCEEEEEEEEE
Confidence 478999 9999988887 5566666776543
No 47
>TIGR02754 sod_Ni_protease nickel-type superoxide dismutase maturation protease. Members of this protein family are apparent proteases encoded adjacent to the genes for a nickel-type superoxide dismutase. This family belongs to the same larger family (see Pfam model pfam00717) as signal peptidase I, an unusual serine protease suggested to have a Ser/Lys catalytic dyad.
Probab=20.24 E-value=2.7e+02 Score=21.35 Aligned_cols=45 Identities=20% Similarity=0.237 Sum_probs=25.0
Q ss_pred CCCCCCCCEEEEEEEeecCCcccceEEEEEEEEecCCCceeEEEEEee
Q 019373 250 IPDIKPGYIVQLKVVIPENKRRVSTLKGIVIARRNAGISTTFRLRRLV 297 (342)
Q Consensus 250 iPeFrpGDIV~V~~~I~EnKeRvQ~FeGVVIarRnrGl~STFTLRnIi 297 (342)
.|.|++||+|-|.-...... . .-.|-++..+..+-...+.+++++
T Consensus 9 ~P~l~~GD~vlv~~~~~~~~--~-~~~Gdivv~~~~~~~~~~~vkRv~ 53 (90)
T TIGR02754 9 SPTLPPGDRIIVVPWLKIFR--V-PPIGNVVVVRHPLQPYGLIIKRLA 53 (90)
T ss_pred cCccCCCCEEEEEEccccCC--C-CCCCeEEEEecCCCCcceEEEEee
Confidence 38999999998873211111 0 112655555543323457788875
No 48
>TIGR03673 rpl14p_arch 50S ribosomal protein L14P. Part of the 50S ribosomal subunit. Forms a cluster with proteins L3 and L24e, part of which may contact the 16S rRNA in 2 intersubunit bridges.
Probab=20.21 E-value=2.1e+02 Score=25.43 Aligned_cols=35 Identities=23% Similarity=0.335 Sum_probs=26.9
Q ss_pred CCCCCCCCEEEEEEEeecCCcccceEEEEEEEEec
Q 019373 250 IPDIKPGYIVQLKVVIPENKRRVSTLKGIVIARRN 284 (342)
Q Consensus 250 iPeFrpGDIV~V~~~I~EnKeRvQ~FeGVVIarRn 284 (342)
.|.-.+||+|.|.++-.....+-+.+.+||+..+.
T Consensus 43 ~~~a~iGD~IvvsVK~~~p~~kg~v~kAVIVRtkk 77 (131)
T TIGR03673 43 LPCAGVGDMVVVSVKKGTPEMRKQVFKAVVVRQRK 77 (131)
T ss_pred CCccccCCEEEEEEEECCccccCCEeEEEEEEeCc
Confidence 36678999999998754433455899999998774
No 49
>PF09269 DUF1967: Domain of unknown function (DUF1967); InterPro: IPR015349 The Obg family comprises a group of ancient P-loop small G proteins (GTPases) belonging to the TRAFAC (for translation factors) class and can be subdivided into several distinct protein subfamilies []. OBG GTPases have been found in both prokaryotes and eukaryotes []. The structure of the OBG GTPase from Thermus thermophilus has been determined []. This entry represents a C-terminal domain found in certain OBG GTPases. This domain contains a four-stranded beta sheet and three alpha helices flanked by an additional beta strand. It is predominantly found in the bacterial GTP-binding protein Obg, and is functionally uncharacterised. ; GO: 0000166 nucleotide binding; PDB: 1UDX_A.
Probab=20.16 E-value=1.3e+02 Score=23.33 Aligned_cols=31 Identities=26% Similarity=0.312 Sum_probs=19.8
Q ss_pred HHHHHHHHHHHHHHHhhcCCCCCCCCCCCEEEEE
Q 019373 229 ARHIMQILDKEAVENVKSQREIPDIKPGYIVQLK 262 (342)
Q Consensus 229 a~~LM~~LekEevee~~~kkdiPeFrpGDIV~V~ 262 (342)
.+.+.+.|++..+.+...+ -.++.||+|.|.
T Consensus 33 ~~rf~~~L~~~Gv~~~L~~---~G~~~GD~V~Ig 63 (69)
T PF09269_consen 33 LRRFQRKLKKMGVEKALRK---AGAKEGDTVRIG 63 (69)
T ss_dssp HHHHHHHHHHTTHHHHHHT---TT--TT-EEEET
T ss_pred HHHHHHHHHHCCHHHHHHH---cCCCCCCEEEEc
Confidence 3466777777777777654 467899999873
Done!