Query psy13718
Match_columns 165
No_of_seqs 131 out of 1032
Neff 6.5
Searched_HMMs 46136
Date Fri Aug 16 18:41:49 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy13718.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/13718hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 COG0030 KsgA Dimethyladenosine 100.0 1.8E-34 4E-39 239.5 11.3 120 1-126 137-257 (259)
2 PTZ00338 dimethyladenosine tra 100.0 3.5E-31 7.5E-36 223.7 13.5 123 1-125 143-288 (294)
3 PRK00274 ksgA 16S ribosomal RN 100.0 3.6E-31 7.9E-36 220.5 13.3 123 1-125 147-270 (272)
4 TIGR00755 ksgA dimethyladenosi 100.0 2E-30 4.4E-35 213.4 12.6 118 1-122 135-252 (253)
5 PF00398 RrnaAD: Ribosomal RNA 100.0 2.7E-29 5.8E-34 208.2 9.8 122 1-125 140-262 (262)
6 PRK14896 ksgA 16S ribosomal RN 100.0 6.1E-28 1.3E-32 199.6 13.5 124 1-124 131-255 (258)
7 KOG0821|consensus 99.9 8.3E-25 1.8E-29 178.5 11.6 143 1-143 179-322 (326)
8 KOG0820|consensus 99.7 5.2E-18 1.1E-22 141.6 7.9 123 1-125 165-309 (315)
9 PF06831 H2TH: Formamidopyrimi 95.7 0.048 1E-06 38.6 6.3 66 65-130 14-81 (92)
10 PRK01103 formamidopyrimidine/5 93.7 0.24 5.3E-06 41.5 6.7 66 67-135 148-218 (274)
11 PF00416 Ribosomal_S13: Riboso 93.1 0.32 6.9E-06 35.3 5.8 52 73-125 9-60 (107)
12 PRK13945 formamidopyrimidine-D 93.0 0.4 8.7E-06 40.4 7.0 66 66-134 156-226 (282)
13 PRK14810 formamidopyrimidine-D 92.7 0.52 1.1E-05 39.6 7.3 66 67-135 147-217 (272)
14 TIGR00577 fpg formamidopyrimid 92.6 0.46 1E-05 39.9 6.8 68 67-137 148-220 (272)
15 TIGR00275 flavoprotein, HI0933 92.2 0.47 1E-05 41.6 6.7 66 58-126 266-332 (400)
16 PRK10445 endonuclease VIII; Pr 92.2 0.64 1.4E-05 38.9 7.1 62 66-130 140-209 (263)
17 PRK04053 rps13p 30S ribosomal 92.1 0.35 7.6E-06 37.5 5.0 64 61-125 5-70 (149)
18 CHL00137 rps13 ribosomal prote 91.8 0.26 5.7E-06 36.9 4.0 51 74-125 12-62 (122)
19 PRK04184 DNA topoisomerase VI 91.6 0.64 1.4E-05 42.9 7.0 70 62-131 243-312 (535)
20 TIGR03631 bact_S13 30S ribosom 91.5 0.23 5.1E-06 36.6 3.4 50 74-124 10-59 (113)
21 PRK05179 rpsM 30S ribosomal pr 91.4 0.26 5.7E-06 36.9 3.6 51 74-125 12-62 (122)
22 PRK14811 formamidopyrimidine-D 91.4 0.86 1.9E-05 38.2 7.1 65 69-137 139-208 (269)
23 PF05833 FbpA: Fibronectin-bin 90.5 0.57 1.2E-05 41.5 5.5 57 73-129 185-241 (455)
24 PF03486 HI0933_like: HI0933-l 90.1 1.3 2.9E-05 39.3 7.4 66 58-126 273-340 (409)
25 PTZ00134 40S ribosomal protein 89.9 0.39 8.4E-06 37.4 3.4 64 61-125 10-75 (154)
26 COG0099 RpsM Ribosomal protein 89.4 0.51 1.1E-05 35.4 3.5 50 75-125 13-62 (121)
27 TIGR03629 arch_S13P archaeal r 89.3 0.44 9.5E-06 36.7 3.3 51 74-125 16-66 (144)
28 COG2081 Predicted flavoprotein 88.3 1.5 3.2E-05 39.2 6.3 54 69-126 280-333 (408)
29 TIGR01052 top6b DNA topoisomer 85.3 3.1 6.8E-05 38.0 6.9 90 62-151 234-333 (488)
30 COG1389 DNA topoisomerase VI, 81.9 3.7 8E-05 37.5 5.8 105 9-126 194-311 (538)
31 COG0266 Nei Formamidopyrimidin 77.7 8.5 0.00018 32.7 6.4 75 64-141 145-224 (273)
32 PF04339 DUF482: Protein of un 58.3 12 0.00026 33.1 3.5 59 58-129 169-228 (370)
33 KOG3311|consensus 58.1 7.4 0.00016 30.3 1.9 33 92-124 40-72 (152)
34 PHA02564 V virion protein; Pro 57.4 76 0.0017 24.3 7.4 64 60-124 48-118 (141)
35 PF14492 EFG_II: Elongation Fa 52.3 27 0.00059 23.3 3.8 34 108-141 10-43 (75)
36 PF14164 YqzH: YqzH-like prote 48.0 40 0.00086 22.5 3.9 27 108-134 23-49 (64)
37 PF08248 Tryp_FSAP: Tryptophyl 37.3 16 0.00035 16.4 0.5 6 33-38 3-8 (12)
38 COG1908 FrhD Coenzyme F420-red 35.3 63 0.0014 24.5 3.7 38 92-129 82-120 (132)
39 TIGR02019 BchJ bacteriochlorop 32.5 1.5E+02 0.0031 23.8 5.7 48 77-127 10-60 (188)
40 KOG0487|consensus 30.8 13 0.00028 32.1 -0.6 17 66-82 279-295 (308)
41 KOG1358|consensus 30.4 1.8E+02 0.0038 26.5 6.3 79 38-128 382-464 (467)
42 KOG0850|consensus 28.7 26 0.00056 29.3 0.8 19 66-84 166-184 (245)
43 PF09645 F-112: F-112 protein; 27.9 52 0.0011 23.9 2.2 51 110-160 32-87 (110)
44 TIGR02610 PHA_gran_rgn putativ 27.2 88 0.0019 22.0 3.2 32 106-138 7-38 (91)
45 COG0779 Uncharacterized protei 26.7 99 0.0021 24.0 3.7 41 107-147 45-86 (153)
46 COG4421 Capsular polysaccharid 24.7 47 0.001 29.3 1.7 31 91-122 244-274 (368)
47 PF09373 PMBR: Pseudomurein-bi 24.5 1.3E+02 0.0028 16.9 3.0 23 108-130 2-24 (33)
48 PF02662 FlpD: Methyl-viologen 23.7 98 0.0021 22.8 3.1 38 92-129 81-119 (124)
49 cd05030 calgranulins Calgranul 23.5 2.4E+02 0.0053 19.0 5.8 36 91-129 51-86 (88)
50 KOG0489|consensus 21.2 20 0.00044 29.9 -1.2 19 62-80 199-217 (261)
51 PF09863 DUF2090: Uncharacteri 20.5 2E+02 0.0043 25.0 4.7 89 35-124 137-231 (311)
No 1
>COG0030 KsgA Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=1.8e-34 Score=239.46 Aligned_cols=120 Identities=28% Similarity=0.423 Sum_probs=110.6
Q ss_pred CcccCCCCCCcHHHHHHHhhhcceEeceecCCCCcCCCCccEEEEEEEecCCCCC-CCCHHHHHHHHHHHhhCcCcchHH
Q psy13718 1 MIATEGMEQRCRLSIMCQNWCNVDHRFTIPGKAFIPKPQVDVGVVHFTPRVHPII-DLPFKLIERVVSCIFRYRQKQVYK 79 (165)
Q Consensus 1 l~A~pgtk~Yg~LSV~~q~~~dv~~l~~V~~~~F~P~PkVdSavv~l~pr~~~~~-~~~~~~f~~~vr~~F~~RRKtL~n 79 (165)
|+|+|||++||+|||++|+||+++++++|||++|+|+||||||||+|+|++.... ..+.+.|..|++++|+||||||+|
T Consensus 137 l~A~pgsk~Yg~LsV~~q~~~~v~~~~~Vpp~~F~P~PkVdSavv~L~~~~~~~~~~~d~~~~~~~~~~~F~~RRKtl~n 216 (259)
T COG0030 137 LVAKPGSKDYGRLSVLVQYYADVEIVFDVPPSAFYPPPKVDSAVVRLVPKKEKPSPVKDEEKFFKFVKAAFSQRRKTLRN 216 (259)
T ss_pred HhCCCCCcccchhhhhhhheEEEEEEEEEChhhCCCCCCccEEEEEEEeCCCCCCcccCHHHHHHHHHHHHhhhhHHHHH
Confidence 6899999999999999999999999999999999999999999999999765433 347899999999999999999999
Q ss_pred HHhhhCChhHHHHHHHHHHHcCCCCCCCccccCHHHHHHHHHHHHHH
Q psy13718 80 PASLLFPKRKRQLVVSLLERACVKPILRPYQLSVQEFGQICLAYRDM 126 (165)
Q Consensus 80 ~L~~~~~~~~~~~~~~~L~~~gi~~~~R~e~Ls~eqf~~L~~~l~~~ 126 (165)
+|+.+++ +.++|+++|++++.|+|+|+++||++|++.+...
T Consensus 217 ~l~~~~~------~~~~l~~~~i~~~~R~e~ls~~~f~~L~~~l~~~ 257 (259)
T COG0030 217 NLKNLFG------LEEVLEAAGIDPNARAENLSPEDFLKLANALKGF 257 (259)
T ss_pred HHHhhhh------HHHHHHhcCCCcccChhhCCHHHHHHHHHHHhhh
Confidence 9999875 5678999999999999999999999999988653
No 2
>PTZ00338 dimethyladenosine transferase-like protein; Provisional
Probab=99.97 E-value=3.5e-31 Score=223.70 Aligned_cols=123 Identities=24% Similarity=0.437 Sum_probs=108.0
Q ss_pred CcccCCCCCCcHHHHHHHhhhcceEeceecCCCCcCCCCccEEEEEEEecCCCCCCCCHHHHHHHHHHHhhCcCcchHHH
Q psy13718 1 MIATEGMEQRCRLSIMCQNWCNVDHRFTIPGKAFIPKPQVDVGVVHFTPRVHPIIDLPFKLIERVVSCIFRYRQKQVYKP 80 (165)
Q Consensus 1 l~A~pgtk~Yg~LSV~~q~~~dv~~l~~V~~~~F~P~PkVdSavv~l~pr~~~~~~~~~~~f~~~vr~~F~~RRKtL~n~ 80 (165)
|+|+||+++||+|||++|+||+++++++|||++|+|+|||||+||+|+|++.+. ..+.+.|..|++.+|+||||||+|+
T Consensus 143 l~A~pg~k~y~~LSv~~q~~~~~~~~~~V~~~~F~P~PkVdSavv~l~~~~~~~-~~~~~~~~~~v~~~F~~rrK~l~~~ 221 (294)
T PTZ00338 143 LLAQPGDELYCRLSVNTQLLCRVTHLMKVSKNSFNPPPKVESSVVRIEPKNPPP-DVDFEEWDGLLRICFSRKNKTLSAI 221 (294)
T ss_pred HhcCCCCcccCHHHHHHHHHhceEEEEEeCchhCCCCCCcEEEEEEEEECCCCC-CcCHHHHHHHHHHHHhhccHHHHHH
Confidence 589999999999999999999999999999999999999999999999987642 3467889999999999999999999
Q ss_pred Hhh-------------hCC-h---------hHHHHHHHHHHHcCCCCCCCccccCHHHHHHHHHHHHH
Q psy13718 81 ASL-------------LFP-K---------RKRQLVVSLLERACVKPILRPYQLSVQEFGQICLAYRD 125 (165)
Q Consensus 81 L~~-------------~~~-~---------~~~~~~~~~L~~~gi~~~~R~e~Ls~eqf~~L~~~l~~ 125 (165)
|+. +++ . ..++.+..+|+.+|++ +.|||+|+++||++|++.+.+
T Consensus 222 l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~~R~e~l~~~~f~~L~~~~~~ 288 (294)
T PTZ00338 222 FKTKSVLQTLEHNYKSWCTMINKKVPVSLEPFKEFIAEILEDSGMF-EKRSVKLDIDDFLKLLLAFNK 288 (294)
T ss_pred hCcchhHHHHHhhhhhhhccccccccchhhhHHHHHHHHHHHcCCc-ccChhhCCHHHHHHHHHHHHH
Confidence 866 222 0 1134667889999997 899999999999999998865
No 3
>PRK00274 ksgA 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed
Probab=99.97 E-value=3.6e-31 Score=220.53 Aligned_cols=123 Identities=33% Similarity=0.511 Sum_probs=111.5
Q ss_pred CcccCCCCCCcHHHHHHHhhhcceEeceecCCCCcCCCCccEEEEEEEecCCCC-CCCCHHHHHHHHHHHhhCcCcchHH
Q psy13718 1 MIATEGMEQRCRLSIMCQNWCNVDHRFTIPGKAFIPKPQVDVGVVHFTPRVHPI-IDLPFKLIERVVSCIFRYRQKQVYK 79 (165)
Q Consensus 1 l~A~pgtk~Yg~LSV~~q~~~dv~~l~~V~~~~F~P~PkVdSavv~l~pr~~~~-~~~~~~~f~~~vr~~F~~RRKtL~n 79 (165)
|+|+||+++||+|||++|++|+++++++|++++|+|+|||||+||+|+|++.+. ...+.+.|..|++++|++|||+|+|
T Consensus 147 l~a~pg~~~y~~lSv~~~~~~~~~~~~~v~~~~F~P~PkV~s~vv~l~~~~~~~~~~~~~~~~~~~~~~~F~~rrk~l~~ 226 (272)
T PRK00274 147 IVAKPGSKAYGRLSVLVQYYCDVEKVFDVPPSAFVPPPKVDSAVVRLVPRKEPPVPVKDEELFFRVVKAAFAQRRKTLRN 226 (272)
T ss_pred HcCCCCCccccHHHHHHHHHcceEEEEEeChhhCCCCCCceEEEEEEEECCCCCCCcccHHHHHHHHHHHHhchHHHHHH
Confidence 589999999999999999999999999999999999999999999999987653 3346788999999999999999999
Q ss_pred HHhhhCChhHHHHHHHHHHHcCCCCCCCccccCHHHHHHHHHHHHH
Q psy13718 80 PASLLFPKRKRQLVVSLLERACVKPILRPYQLSVQEFGQICLAYRD 125 (165)
Q Consensus 80 ~L~~~~~~~~~~~~~~~L~~~gi~~~~R~e~Ls~eqf~~L~~~l~~ 125 (165)
+|+.+++. ++.+.++++.+|++++.|+++|+++||++|++.+..
T Consensus 227 ~l~~~~~~--~~~~~~~l~~~~~~~~~r~~~l~~~~~~~L~~~~~~ 270 (272)
T PRK00274 227 NLKNLFGS--KEKLEEALEAAGIDPNRRAETLSVEEFVRLANALAA 270 (272)
T ss_pred HHHhhccc--hHHHHHHHHHCCCCcCCCceeCCHHHHHHHHHHHHh
Confidence 99998751 135678899999999999999999999999998764
No 4
>TIGR00755 ksgA dimethyladenosine transferase. Alternate name: S-adenosylmethionine--6-N',N'-adenosyl (rRNA) dimethyltransferase
Probab=99.97 E-value=2e-30 Score=213.43 Aligned_cols=118 Identities=29% Similarity=0.441 Sum_probs=108.4
Q ss_pred CcccCCCCCCcHHHHHHHhhhcceEeceecCCCCcCCCCccEEEEEEEecCCCCCCCCHHHHHHHHHHHhhCcCcchHHH
Q psy13718 1 MIATEGMEQRCRLSIMCQNWCNVDHRFTIPGKAFIPKPQVDVGVVHFTPRVHPIIDLPFKLIERVVSCIFRYRQKQVYKP 80 (165)
Q Consensus 1 l~A~pgtk~Yg~LSV~~q~~~dv~~l~~V~~~~F~P~PkVdSavv~l~pr~~~~~~~~~~~f~~~vr~~F~~RRKtL~n~ 80 (165)
|+|+||++.||++||++|++|+++++++|++++|+|+|||||+||+|+|++.+ ...+.+.|..|++.+|++|||+|+|+
T Consensus 135 l~a~pg~~~y~~lsv~~~~~~~~~~~~~v~~~~F~P~PkVds~vv~l~~~~~~-~~~~~~~~~~~~~~~F~~rrk~l~~~ 213 (253)
T TIGR00755 135 LTAKPGSKDYGRLSVLVQYFANVEIVFKVPPSAFYPPPKVDSAVVRLIPREQF-PVKDIALFEKLLKAAFSQRRKTLRNN 213 (253)
T ss_pred HccCCCCCcccHHHHHHHHHcceEEEEEEchhhCcCCCCeeEEEEEEEECCCC-CcccHHHHHHHHHHHHccchHHHHHH
Confidence 57999999999999999999999999999999999999999999999999875 34467889999999999999999999
Q ss_pred HhhhCChhHHHHHHHHHHHcCCCCCCCccccCHHHHHHHHHH
Q psy13718 81 ASLLFPKRKRQLVVSLLERACVKPILRPYQLSVQEFGQICLA 122 (165)
Q Consensus 81 L~~~~~~~~~~~~~~~L~~~gi~~~~R~e~Ls~eqf~~L~~~ 122 (165)
|+.+++. +....++..+|+++++|+++|+++||++|++.
T Consensus 214 l~~~~~~---~~~~~~l~~~~i~~~~r~~~l~~~~~~~l~~~ 252 (253)
T TIGR00755 214 LKQLLKA---SKLEEVLEQLGLDPTARAEQLSPEDFLRLANL 252 (253)
T ss_pred Hhhhcch---hHHHHHHHHCCcCCCCCcccCCHHHHHHHHHh
Confidence 9998764 24667889999999999999999999999875
No 5
>PF00398 RrnaAD: Ribosomal RNA adenine dimethylase; InterPro: IPR001737 This family of proteins include rRNA adenine dimethylases (e.g. KsgA) and the Erythromycin resistance methylases (Erm). The bacterial enzyme KsgA catalyses the transfer of a total of four methyl groups from S-adenosyl-l-methionine (S-AdoMet) to two adjacent adenosine bases in 16S rRNA. This enzyme and the resulting modified adenosine bases appear to be conserved in all species of eubacteria, eukaryotes, and archaea, and in eukaryotic organelles. Bacterial resistance to the aminoglycoside antibiotic kasugamycin involves inactivation of KsgA and resulting loss of the dimethylations, with modest consequences to the overall fitness of the organism. In contrast, the yeast ortholog, Dim1, is essential. In Saccharomyces cerevisiae (Baker's yeast), and presumably in other eukaryotes, the enzyme performs a vital role in pre-rRNA processing in addition to its methylating activity. The best conserved region in these enzymes is located in the N-terminal section and corresponds to a region that is probably involved in S-adenosyl methionine (SAM) binding domain. The crystal structure of KsgA from Escherichia coli has been solved to a resolution of 2.1A. It bears a strong similarity to the crystal structure of ErmC' from Bacillus stearothermophilus and a lesser similarity to the yeast mitochondrial transcription factor, sc-mtTFB []. The Erm family of RNA methyltransferases, which methylate a single adenosine base in 23S rRNA confer resistance to the MLS-B group of antibiotics. Despite their sequence similarity, the two enzyme families have strikingly different levels of regulation that remain to be elucidated. Other orthologs, of this family include the yeast and Homo sapiens (Human) mitochondrial transcription factors (MTF1 and h-mtTFB respectively), which are nuclear encoded []. Human-mtTFB is able to stimulate transcription in vitro independently of its S-adenosylmethionine binding and rRNA methyltransferase activity [].; GO: 0000179 rRNA (adenine-N6,N6-)-dimethyltransferase activity, 0008649 rRNA methyltransferase activity, 0000154 rRNA modification; PDB: 3FTF_A 3R9X_B 3FTE_A 3FTC_A 3FTD_A 3GRY_A 3FYC_A 3GRU_A 3FYD_A 3GRV_A ....
Probab=99.96 E-value=2.7e-29 Score=208.15 Aligned_cols=122 Identities=29% Similarity=0.503 Sum_probs=107.9
Q ss_pred CcccCCCCCCcHHHHHHHhhhcceEeceecCCCCcCCCCccEEEEEEEecCCCC-CCCCHHHHHHHHHHHhhCcCcchHH
Q psy13718 1 MIATEGMEQRCRLSIMCQNWCNVDHRFTIPGKAFIPKPQVDVGVVHFTPRVHPI-IDLPFKLIERVVSCIFRYRQKQVYK 79 (165)
Q Consensus 1 l~A~pgtk~Yg~LSV~~q~~~dv~~l~~V~~~~F~P~PkVdSavv~l~pr~~~~-~~~~~~~f~~~vr~~F~~RRKtL~n 79 (165)
|+|+||++.||++||++|++|+++++++|++++|+|+|+|||+||+|+|++.+. ...+.+.|..|++.+|.+|||+|+|
T Consensus 140 l~a~pg~~~~~~lsv~~q~~~~i~~l~~v~~~~F~P~PkVds~vv~l~p~~~~~~~~~~~~~~~~~~~~~F~~rrk~l~~ 219 (262)
T PF00398_consen 140 LLAKPGSKRYSRLSVLAQAFFDIKLLFKVPPSCFYPPPKVDSAVVRLTPKENPLIPPEDMDAFEYFVRQLFSQRRKTLRN 219 (262)
T ss_dssp HHTSTTSTTCSHHHHHHHHHEEEEEEEEE-GGGEESSSSS-EEEEEEEE-SSCSS-CSHHHHHHHHHHHHHTTTTSBHHH
T ss_pred ccCCCCCCccchhhhhhhhhhceeEecccCCccccCCCCCceEEEEEEECCCCCCcccCHHHHHHHHHHHHhCcchHHHH
Confidence 479999999999999999999999999999999999999999999999998864 3457889999999999999999999
Q ss_pred HHhhhCChhHHHHHHHHHHHcCCCCCCCccccCHHHHHHHHHHHHH
Q psy13718 80 PASLLFPKRKRQLVVSLLERACVKPILRPYQLSVQEFGQICLAYRD 125 (165)
Q Consensus 80 ~L~~~~~~~~~~~~~~~L~~~gi~~~~R~e~Ls~eqf~~L~~~l~~ 125 (165)
+|+.+++. +.+..+++++||+++.|+++|+++||++|++.+.+
T Consensus 220 ~L~~~~~~---~~~~~~~~~~~i~~~~r~~~ls~~~~~~l~~~l~k 262 (262)
T PF00398_consen 220 SLKSLFPG---EQLEELLEKAGIDPNARAEELSPEQFLKLFKYLNK 262 (262)
T ss_dssp HTTCTHHH---HHHHHHHHHCTHTTTTCGGCHHHHHHHHHHHHHHH
T ss_pred HHhhhcCH---HHHHHhhhhcCCCCCCCcccCCHHHHHHHHHHhhC
Confidence 99988764 35667777899999999999999999999998753
No 6
>PRK14896 ksgA 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Provisional
Probab=99.95 E-value=6.1e-28 Score=199.63 Aligned_cols=124 Identities=26% Similarity=0.333 Sum_probs=103.9
Q ss_pred CcccCCCCCCcHHHHHHHhhhcceEeceecCCCCcCCCCccEEEEEEEecCCCCCCCCHHHHHHHHHHHhhCcCcchHHH
Q psy13718 1 MIATEGMEQRCRLSIMCQNWCNVDHRFTIPGKAFIPKPQVDVGVVHFTPRVHPIIDLPFKLIERVVSCIFRYRQKQVYKP 80 (165)
Q Consensus 1 l~A~pgtk~Yg~LSV~~q~~~dv~~l~~V~~~~F~P~PkVdSavv~l~pr~~~~~~~~~~~f~~~vr~~F~~RRKtL~n~ 80 (165)
|+|+||+++||+|||++|+++++++++.|++.+|+|+|+|||+||+|+|++.+....+.+.|..|++.+|++|||+|+|+
T Consensus 131 l~a~~g~~~yg~lsv~~~~~~~~~~~~~v~~~~F~P~PkV~s~vi~l~~~~~~~~~~~~~~~~~~~~~~F~~rrk~l~~~ 210 (258)
T PRK14896 131 MVAKPGTKEYGRLSVMVQYYADVEIVEKVPPGAFSPKPKVDSAVVRLTPREPKYEVYDEDFFDDFVKALFQHRRKTLRNA 210 (258)
T ss_pred hcCCCCCccccHHHHHHHHHeeeEEEEEeChHhCCCCCCceEEEEEEEECCCCCCCchHHHHHHHHHHHHccccHHHHHH
Confidence 57999999999999999999999999999999999999999999999999743223356789999999999999999999
Q ss_pred HhhhCChhHHHHHHHHHHHc-CCCCCCCccccCHHHHHHHHHHHH
Q psy13718 81 ASLLFPKRKRQLVVSLLERA-CVKPILRPYQLSVQEFGQICLAYR 124 (165)
Q Consensus 81 L~~~~~~~~~~~~~~~L~~~-gi~~~~R~e~Ls~eqf~~L~~~l~ 124 (165)
|+.++..........++..+ ++++++||++||++||++|++.+.
T Consensus 211 l~~~~~~~~~~~~~~~~~~~~~~~~~~R~e~L~~~~~~~l~~~~~ 255 (258)
T PRK14896 211 LKNSAHISGKEDIKAVVEALPEELLNKRVFQLSPEEIAELANLLY 255 (258)
T ss_pred HhhhccccchhHHHHHHHHcCCCCcCCCCccCCHHHHHHHHHHHH
Confidence 99874211011223456666 456799999999999999998774
No 7
>KOG0821|consensus
Probab=99.92 E-value=8.3e-25 Score=178.49 Aligned_cols=143 Identities=48% Similarity=0.833 Sum_probs=134.3
Q ss_pred CcccCCCCCCcHHHHHHHhhhcceEeceecCCCCcCCCCccEEEEEEEecCCCCCCCCHHHHHHHHHHHhhCcCcchHHH
Q psy13718 1 MIATEGMEQRCRLSIMCQNWCNVDHRFTIPGKAFIPKPQVDVGVVHFTPRVHPIIDLPFKLIERVVSCIFRYRQKQVYKP 80 (165)
Q Consensus 1 l~A~pgtk~Yg~LSV~~q~~~dv~~l~~V~~~~F~P~PkVdSavv~l~pr~~~~~~~~~~~f~~~vr~~F~~RRKtL~n~ 80 (165)
|||+.|++..++||||.|++|+.+++|+||.++|.|+|+||-+||++.|++.|.....++..+.++|..|+.|.|-....
T Consensus 179 lCaP~~~~qRsRlSvMSQy~~EP~M~FtI~G~~FVPkPQVDVGVV~f~P~K~P~~~~~F~lvEkV~R~vF~~RQKY~~rG 258 (326)
T KOG0821|consen 179 LCAPTGSKQRSRLSVMSQYLCEPRMIFTIPGQAFVPKPQVDVGVVHFTPLKQPKIEQPFKLVEKVVRNVFQFRQKYCHRG 258 (326)
T ss_pred hcccccccchhhHHHHHHHhcCceEEEEecCccccCCCcceeeeEEeeecCCccccCCHHHHHHHHHHHHHHHHHHHHcc
Confidence 68999999999999999999999999999999999999999999999999999877789999999999999999999999
Q ss_pred HhhhCChhHHH-HHHHHHHHcCCCCCCCccccCHHHHHHHHHHHHHHHhhCCCccceeccCCCC
Q psy13718 81 ASLLFPKRKRQ-LVVSLLERACVKPILRPYQLSVQEFGQICLAYRDMCEEMPGLYEYTLEDTPG 143 (165)
Q Consensus 81 L~~~~~~~~~~-~~~~~L~~~gi~~~~R~e~Ls~eqf~~L~~~l~~~~~~~p~~~~~~~~~~~~ 143 (165)
|+.+++.+.++ ...++|+.+.|+++.|+.+|+.|||..|++.++++|.++|++-.|..|+.|.
T Consensus 259 l~TL~PeE~r~E~~~~Ll~~~~idpT~r~~~L~iEQf~~LAE~Y~E~c~~~p~~~ay~~r~~kn 322 (326)
T KOG0821|consen 259 LRTLFPEEQRLESTGRLLELADIDPTLRPRQLSIEQFKSLAEVYREMCDEDPQLFAYNFRKSKN 322 (326)
T ss_pred ccccCCHHHHHHHHHHHHHHhcCCCccCceeeeHHHHHHHHHHHHHHhccChhhhhhccccccc
Confidence 99999987544 5567899999999999999999999999999999999999999999997653
No 8
>KOG0820|consensus
Probab=99.74 E-value=5.2e-18 Score=141.59 Aligned_cols=123 Identities=22% Similarity=0.340 Sum_probs=102.8
Q ss_pred CcccCCCCCCcHHHHHHHhhhcceEeceecCCCCcCCCCccEEEEEEEecCCCCCCCCHHHHHHHHHHHhhCcCcchHHH
Q psy13718 1 MIATEGMEQRCRLSIMCQNWCNVDHRFTIPGKAFIPKPQVDVGVVHFTPRVHPIIDLPFKLIERVVSCIFRYRQKQVYKP 80 (165)
Q Consensus 1 l~A~pgtk~Yg~LSV~~q~~~dv~~l~~V~~~~F~P~PkVdSavv~l~pr~~~~~~~~~~~f~~~vr~~F~~RRKtL~n~ 80 (165)
++|+||++.|.+||+.+|+|+.++.+++|++++|+|+|+|||+||++.|+.. ..+.+...|..++++||..++||+...
T Consensus 165 Lva~pgd~~Ycrlsin~q~~a~v~~i~KVgknnFrPpPkVessvVriepk~P-~pp~~~~ewdg~lri~F~rkNktl~a~ 243 (315)
T KOG0820|consen 165 LVARPGDSLYCRLSINVQLLARVTHIMKVGKNNFRPPPKVESSVVRIEPKNP-RPPVDFHEWDGLLRICFLRKNKTLMAP 243 (315)
T ss_pred hccCCCCchhceeehhhHHhhcchhheeecccccCCCCccccceeEeecCCC-CCccchHHHHHHHHHHHHHHhHHhhcc
Confidence 4799999999999999999999999999999999999999999999999854 345678889999999999999999877
Q ss_pred HhhhC-----C----------h-------hHHHHHHHHHHHcCCCCCCCccccCHHHHHHHHHHHHH
Q psy13718 81 ASLLF-----P----------K-------RKRQLVVSLLERACVKPILRPYQLSVQEFGQICLAYRD 125 (165)
Q Consensus 81 L~~~~-----~----------~-------~~~~~~~~~L~~~gi~~~~R~e~Ls~eqf~~L~~~l~~ 125 (165)
++..- . + ..++.+..+|.+.+.. ++|+..++.+||++|...+.+
T Consensus 244 fk~~~v~~~ie~n~~~~~s~~n~~~~~~~~~~~~~~~il~~~~~~-~~Ra~k~~~~DFlrLL~~f~~ 309 (315)
T KOG0820|consen 244 FKSSSVLQKIEKNYKKRESLDNIMIDLDFNLKPKIYNILFAGLLA-DKRARKMTVDDFLRLLLAFNA 309 (315)
T ss_pred hhhhHHHHHhhhcccccccccccccccccchhHHHHHHHHhcchh-hcccccCCHHHHHHHhhhhhh
Confidence 76531 1 0 0123455667666554 899999999999999887754
No 9
>PF06831 H2TH: Formamidopyrimidine-DNA glycosylase H2TH domain; InterPro: IPR015886 This entry represents a helix-2turn-helix DNA-binding domain found in DNA glycosylase/AP lyase enzymes, which are involved in base excision repair of DNA damaged by oxidation or by mutagenic agents. Most damage to bases in DNA is repaired by the base excision repair pathway []. These enzymes are primarily from bacteria, and have both DNA glycosylase activity (3.2.2 from EC) and AP lyase activity (4.2.99.18 from EC). Examples include formamidopyrimidine-DNA glycosylases (Fpg; MutM) and endonuclease VIII (Nei). Formamidopyrimidine-DNA glycosylases (Fpg, MutM) is a trifunctional DNA base excision repair enzyme that removes a wide range of oxidation-damaged bases (N-glycosylase activity; 3.2.2.23 from EC) and cleaves both the 3'- and 5'-phosphodiester bonds of the resulting apurinic/apyrimidinic site (AP lyase activity; 4.2.99.18 from EC). Fpg has a preference for oxidised purines, excising oxidized purine bases such as 7,8-dihydro-8-oxoguanine (8-oxoG). ITs AP (apurinic/apyrimidinic) lyase activity introduces nicks in the DNA strand, cleaving the DNA backbone by beta-delta elimination to generate a single-strand break at the site of the removed base with both 3'- and 5'-phosphates. Fpg is a monomer composed of 2 domains connected by a flexible hinge []. The two DNA-binding motifs (a zinc finger and the helix-two-turns-helix motifs) suggest that the oxidized base is flipped out from double-stranded DNA in the binding mode and excised by a catalytic mechanism similar to that of bifunctional base excision repair enzymes []. Fpg binds one ion of zinc at the C terminus, which contains four conserved and essential cysteines [, ]. Endonuclease VIII (Nei) has the same enzyme activities as Fpg above (3.2.2 from EC, 4.2.99.18 from EC), but with a preference for oxidized pyrimidines, such as thymine glycol, 5,6-dihydrouracil and 5,6-dihydrothymine []. These protein contains three structural domains: an N-terminal catalytic core domain, a central helix-two turn-helix (H2TH) module and a C-terminal zinc finger []. The N-terminal catalytic domain and the C-terminal zinc finger straddle the DNA with the long axis of the protein oriented roughly orthogonal to the helical axis of the DNA. Residues that contact DNA are located in the catalytic domain and in a beta-hairpin loop formed by the zinc finger []. This entry represents the central domain containing the DNA-binding helix-two turn-helix domain [].; GO: 0003684 damaged DNA binding, 0003906 DNA-(apurinic or apyrimidinic site) lyase activity, 0008270 zinc ion binding, 0016799 hydrolase activity, hydrolyzing N-glycosyl compounds, 0006289 nucleotide-excision repair; PDB: 3GQ3_A 3JR5_A 3SAT_A 3GPX_A 2F5Q_A 3SBJ_A 3U6S_A 3SAU_A 3SAR_A 2F5P_A ....
Probab=95.68 E-value=0.048 Score=38.63 Aligned_cols=66 Identities=17% Similarity=0.118 Sum_probs=49.5
Q ss_pred HHHHHhhCcCcchHHHHhhh--CChhHHHHHHHHHHHcCCCCCCCccccCHHHHHHHHHHHHHHHhhC
Q psy13718 65 VVSCIFRYRQKQVYKPASLL--FPKRKRQLVVSLLERACVKPILRPYQLSVQEFGQICLAYRDMCEEM 130 (165)
Q Consensus 65 ~vr~~F~~RRKtL~n~L~~~--~~~~~~~~~~~~L~~~gi~~~~R~e~Ls~eqf~~L~~~l~~~~~~~ 130 (165)
.+...+.+|+++++..|..= ++.-.--...++|-.+||.|..++.+|+.+++.+|++.+...+..+
T Consensus 14 ~~~~~l~~~~~~ik~~LlDQ~~iaGiGNiy~~EiLf~a~i~P~~~~~~L~~~~~~~l~~~~~~vl~~a 81 (92)
T PF06831_consen 14 YFAERLRKRRRPIKAALLDQSVIAGIGNIYADEILFRAGIHPERPASSLSEEELRRLHEAIKRVLREA 81 (92)
T ss_dssp HHHHHHHTCCSBHHHHHHCTTTSTT--HHHHHHHHHHTTB-TTSBGGGSHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHhcCcchHHHHHhCCCccccCcHHHHHHHHHHcCCCccCccccCCHHHHHHHHHHHHHHHHHH
Confidence 34556667899999998752 2211001456888899999999999999999999999999887764
No 10
>PRK01103 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated
Probab=93.69 E-value=0.24 Score=41.51 Aligned_cols=66 Identities=15% Similarity=0.061 Sum_probs=50.6
Q ss_pred HHHhhCcCcchHHHHh---hh--CChhHHHHHHHHHHHcCCCCCCCccccCHHHHHHHHHHHHHHHhhCCCccc
Q psy13718 67 SCIFRYRQKQVYKPAS---LL--FPKRKRQLVVSLLERACVKPILRPYQLSVQEFGQICLAYRDMCEEMPGLYE 135 (165)
Q Consensus 67 r~~F~~RRKtL~n~L~---~~--~~~~~~~~~~~~L~~~gi~~~~R~e~Ls~eqf~~L~~~l~~~~~~~p~~~~ 135 (165)
...++.+++.|++.|. -. .++. .+.++|-.+||+|..++.+||.+|+..|++.+.+.++.+=..++
T Consensus 148 ~~~l~~~~~~Ik~~LLDQ~~iaGiGNi---ya~EiLf~a~I~P~~~~~~Ls~~~~~~L~~~~~~vl~~ai~~gg 218 (274)
T PRK01103 148 AAKLRKKKTAIKPALLDQTVVVGVGNI---YADEALFRAGIHPERPAGSLSRAEAERLVDAIKAVLAEAIEQGG 218 (274)
T ss_pred HHHHhcCCccHHHHhhcCCeEecccHh---HHHHHHHHcCCCccCccccCCHHHHHHHHHHHHHHHHHHHHcCC
Confidence 3444578889999983 22 2322 56788999999999999999999999999999988776544333
No 11
>PF00416 Ribosomal_S13: Ribosomal protein S13/S18; InterPro: IPR001892 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 S13 is one of the proteins from the small ribosomal subunit. In Escherichia coli, S13 is known to be involved in binding fMet-tRNA and, hence, in the initiation of translation. It is a basic protein of 115 to 177 amino-acid residues that contains thee helices and a beta-hairpin in the core of the protein, forming a helix-two turns-helix (H2TH) motif, and a non-globular C-terminal extension. This family of ribosomal proteins is present in prokaryotes, eukaryotes and archaea [, ].; GO: 0003723 RNA binding, 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 3BBN_M 2QBB_M 3I1M_M 3OFP_M 3OFX_M 3OFO_M 1VS5_M 3OAQ_M 2QAL_M 3J18_M ....
Probab=93.14 E-value=0.32 Score=35.33 Aligned_cols=52 Identities=12% Similarity=0.191 Sum_probs=42.9
Q ss_pred cCcchHHHHhhhCChhHHHHHHHHHHHcCCCCCCCccccCHHHHHHHHHHHHH
Q psy13718 73 RQKQVYKPASLLFPKRKRQLVVSLLERACVKPILRPYQLSVQEFGQICLAYRD 125 (165)
Q Consensus 73 RRKtL~n~L~~~~~~~~~~~~~~~L~~~gi~~~~R~e~Ls~eqf~~L~~~l~~ 125 (165)
..|.+.-+|..+++-. ...+..++..+||+++.+..+|+.+|+..|-+.+..
T Consensus 9 ~~k~i~~aLt~IyGIG-~~~A~~Ic~~lgi~~~~~~~~Ls~~~i~~l~~~i~~ 60 (107)
T PF00416_consen 9 GNKPIYIALTKIYGIG-RRKAKQICKKLGINPNKKVGDLSDEQIDKLRKIIEK 60 (107)
T ss_dssp TSSBHHHHHTTSTTBC-HHHHHHHHHHTTS-SSSBTTTSTHHHHHHHHHHHHT
T ss_pred CCcchHhHHhhhhccC-HHHHHHHHHHcCCChhhhcccCCHHHHHHHHHHHHH
Confidence 4678899999887643 236778899999999999999999999999988876
No 12
>PRK13945 formamidopyrimidine-DNA glycosylase; Provisional
Probab=92.98 E-value=0.4 Score=40.44 Aligned_cols=66 Identities=12% Similarity=0.054 Sum_probs=51.3
Q ss_pred HHHHhhCcCcchHHHHhhh-----CChhHHHHHHHHHHHcCCCCCCCccccCHHHHHHHHHHHHHHHhhCCCcc
Q psy13718 66 VSCIFRYRQKQVYKPASLL-----FPKRKRQLVVSLLERACVKPILRPYQLSVQEFGQICLAYRDMCEEMPGLY 134 (165)
Q Consensus 66 vr~~F~~RRKtL~n~L~~~-----~~~~~~~~~~~~L~~~gi~~~~R~e~Ls~eqf~~L~~~l~~~~~~~p~~~ 134 (165)
+...++++++.+++.|..- .++. ...++|=.+||+|..++.+||.+++.+|++.+.+.+..+=..+
T Consensus 156 ~~~~l~~~~~~IK~~LLDQ~~vaGIGNi---ya~EiLf~A~IhP~~~~~~Ls~~~~~~L~~~i~~vl~~ai~~g 226 (282)
T PRK13945 156 LKKKLKKRTRSIKTALLDQSIVAGIGNI---YADESLFKAGIHPTTPAGQLKKKQLERLREAIIEVLKTSIGAG 226 (282)
T ss_pred HHHHHhcCCccHHHHhhcCCeEeccchh---HHHHHHHHcCCCccCccccCCHHHHHHHHHHHHHHHHHHHHcC
Confidence 3455568899999998752 2322 4668888999999999999999999999999998877644333
No 13
>PRK14810 formamidopyrimidine-DNA glycosylase; Provisional
Probab=92.71 E-value=0.52 Score=39.57 Aligned_cols=66 Identities=18% Similarity=0.135 Sum_probs=50.5
Q ss_pred HHHhhCcCcchHHHHhhh-----CChhHHHHHHHHHHHcCCCCCCCccccCHHHHHHHHHHHHHHHhhCCCccc
Q psy13718 67 SCIFRYRQKQVYKPASLL-----FPKRKRQLVVSLLERACVKPILRPYQLSVQEFGQICLAYRDMCEEMPGLYE 135 (165)
Q Consensus 67 r~~F~~RRKtL~n~L~~~-----~~~~~~~~~~~~L~~~gi~~~~R~e~Ls~eqf~~L~~~l~~~~~~~p~~~~ 135 (165)
...+..++..++..|..- .++. ...++|-.+||+|..++.+||.+++.+|+.++.+.++..=..++
T Consensus 147 ~~~~~~~~~~ik~~Lldq~viaGiGNi---ya~EiLf~a~i~P~~~~~~l~~~~~~~l~~a~~~vl~~ai~~gg 217 (272)
T PRK14810 147 AALFRGRKTRIKSALLNQTLLRGVGNI---YADEALFRAGIRPQRLASSLSRERLRKLHDAIGEVLREAIELGG 217 (272)
T ss_pred HHHHhcCCccHHHHhhcCceeccccHh---HHHHHHHHcCCCCCCCcccCCHHHHHHHHHHHHHHHHHHHHcCC
Confidence 444567788899888753 2322 56788999999999999999999999999988887666444333
No 14
>TIGR00577 fpg formamidopyrimidine-DNA glycosylase (fpg). All proteins in the FPG family with known functions are FAPY-DNA glycosylases that function in base excision repair. Homologous to endonuclease VIII (nei). This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=92.58 E-value=0.46 Score=39.87 Aligned_cols=68 Identities=13% Similarity=0.023 Sum_probs=52.4
Q ss_pred HHHhhCcCcchHHHHhhh-----CChhHHHHHHHHHHHcCCCCCCCccccCHHHHHHHHHHHHHHHhhCCCcccee
Q psy13718 67 SCIFRYRQKQVYKPASLL-----FPKRKRQLVVSLLERACVKPILRPYQLSVQEFGQICLAYRDMCEEMPGLYEYT 137 (165)
Q Consensus 67 r~~F~~RRKtL~n~L~~~-----~~~~~~~~~~~~L~~~gi~~~~R~e~Ls~eqf~~L~~~l~~~~~~~p~~~~~~ 137 (165)
...+.++++.|+..|..= .++. ...++|=.++|.|..++.+||.+++.+|+..+.+.+..+=..++.+
T Consensus 148 ~~~l~~~~~~Ik~~LlDQ~vvaGIGNi---yadEiLf~a~I~P~~~~~~Ls~~~~~~L~~~i~~vL~~ai~~gg~~ 220 (272)
T TIGR00577 148 FEKLAKSKRKIKTALLDQRLVAGIGNI---YADEVLFRAGIHPERLANSLSKEECELLHRAIKEVLRKAIEMGGTT 220 (272)
T ss_pred HHHHhcCCCcHHHHHhcCCeEecccHH---HHHHHHHHcCCCcchhhccCCHHHHHHHHHHHHHHHHHHHHcCCCc
Confidence 344567889999998752 2322 5668889999999999999999999999999998877755544433
No 15
>TIGR00275 flavoprotein, HI0933 family. The model when searched with a partial length search brings in proteins with a dinucleotide-binding motif (Rossman fold) over the initial 40 residues of the model, including oxidoreductases and dehydrogenases. Partially characterized members include an FAD-binding protein from Bacillus cereus and flavoprotein HI0933 from Haemophilus influenzae.
Probab=92.23 E-value=0.47 Score=41.57 Aligned_cols=66 Identities=24% Similarity=0.232 Sum_probs=51.6
Q ss_pred CHHHHHHHHHH-HhhCcCcchHHHHhhhCChhHHHHHHHHHHHcCCCCCCCccccCHHHHHHHHHHHHHH
Q psy13718 58 PFKLIERVVSC-IFRYRQKQVYKPASLLFPKRKRQLVVSLLERACVKPILRPYQLSVQEFGQICLAYRDM 126 (165)
Q Consensus 58 ~~~~f~~~vr~-~F~~RRKtL~n~L~~~~~~~~~~~~~~~L~~~gi~~~~R~e~Ls~eqf~~L~~~l~~~ 126 (165)
+.+.+..++.. .-.+++|++++.|..++++ ..+..+++.+||+++++..+|+-++...|.+.+.++
T Consensus 266 ~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~lk~~ 332 (400)
T TIGR00275 266 SEEELEQRLKRLRKSNPKKTVKNILKGLLPK---RLAELLLEQLGIDPDLPAAQLSKKEIKKLVQLLKNW 332 (400)
T ss_pred CHHHHHHHHHHHHHHChhhhHHHHhhhhhhH---HHHHHHHHHcCCCCCCChHHCCHHHHHHHHHHHhCC
Confidence 34445554443 3456688999999988875 367788899999999999999999999999888765
No 16
>PRK10445 endonuclease VIII; Provisional
Probab=92.17 E-value=0.64 Score=38.86 Aligned_cols=62 Identities=16% Similarity=0.068 Sum_probs=48.3
Q ss_pred HHHHhhCc---CcchHHHHhhh-----CChhHHHHHHHHHHHcCCCCCCCccccCHHHHHHHHHHHHHHHhhC
Q psy13718 66 VSCIFRYR---QKQVYKPASLL-----FPKRKRQLVVSLLERACVKPILRPYQLSVQEFGQICLAYRDMCEEM 130 (165)
Q Consensus 66 vr~~F~~R---RKtL~n~L~~~-----~~~~~~~~~~~~L~~~gi~~~~R~e~Ls~eqf~~L~~~l~~~~~~~ 130 (165)
+...++.+ ++.|+..|..- .++. ...++|=.+||+|..++.+||.+|+.+|++.+.+.+..+
T Consensus 140 ~~~~l~~~~~~~~~IK~~LLDQ~~vaGIGNi---yadEiLf~A~I~P~~~~~~Ls~~~~~~L~~~i~~vl~~a 209 (263)
T PRK10445 140 VKERLLSPRFRNRQFSGLLLDQAFLAGLGNY---LRVEILWQAGLTPQHKAKDLNEAQLDALAHALLDIPRLS 209 (263)
T ss_pred HHHHHhcCccccccHHHHHhcCCccccccHH---HHHHHHHHcCCCcCCCcccCCHHHHHHHHHHHHHHHHHH
Confidence 34455555 88899987642 2222 566889999999999999999999999999999877663
No 17
>PRK04053 rps13p 30S ribosomal protein S13P; Reviewed
Probab=92.08 E-value=0.35 Score=37.47 Aligned_cols=64 Identities=17% Similarity=0.035 Sum_probs=48.8
Q ss_pred HHHHHHHHH--hhCcCcchHHHHhhhCChhHHHHHHHHHHHcCCCCCCCccccCHHHHHHHHHHHHH
Q psy13718 61 LIERVVSCI--FRYRQKQVYKPASLLFPKRKRQLVVSLLERACVKPILRPYQLSVQEFGQICLAYRD 125 (165)
Q Consensus 61 ~f~~~vr~~--F~~RRKtL~n~L~~~~~~~~~~~~~~~L~~~gi~~~~R~e~Ls~eqf~~L~~~l~~ 125 (165)
.|..+++.+ --...|.+.-+|..+++-. ...+..+++.+||+++.|+.+|+.+|...|-..+.+
T Consensus 5 ~~~~m~rI~~~~i~~~k~i~~aLt~IyGIG-~~~a~~Ic~~lgi~~~~~~~~Lt~~qi~~l~~~i~~ 70 (149)
T PRK04053 5 EFKYIVRIAGTDLDGTKPVEYALTGIKGIG-RRTARAIARKLGLDPNAKLGYLSDEEIEKIEEALED 70 (149)
T ss_pred hhhhhHhhcCccCCCCCEEeeecccccccc-HHHHHHHHHHcCcCCCCccCcCCHHHHHHHHHHHHh
Confidence 466666644 2235777888888876532 236778899999999999999999999998887743
No 18
>CHL00137 rps13 ribosomal protein S13; Validated
Probab=91.84 E-value=0.26 Score=36.86 Aligned_cols=51 Identities=14% Similarity=0.236 Sum_probs=40.7
Q ss_pred CcchHHHHhhhCChhHHHHHHHHHHHcCCCCCCCccccCHHHHHHHHHHHHH
Q psy13718 74 QKQVYKPASLLFPKRKRQLVVSLLERACVKPILRPYQLSVQEFGQICLAYRD 125 (165)
Q Consensus 74 RKtL~n~L~~~~~~~~~~~~~~~L~~~gi~~~~R~e~Ls~eqf~~L~~~l~~ 125 (165)
.|.+.-+|..+++-. ...+..++..+||+++.++.+|+.+|+..|...+.+
T Consensus 12 ~k~v~~aLt~i~GIG-~~~A~~ic~~lgi~~~~~~~~Lt~~qi~~l~~~i~~ 62 (122)
T CHL00137 12 NKRIEYALTYIYGIG-LTSAKEILEKANIDPDIRTKDLTDEQISALREIIEE 62 (122)
T ss_pred CCEeeeeeccccccc-HHHHHHHHHHcCcCcCcCcccCCHHHHHHHHHHHHH
Confidence 456677777776532 236678899999999999999999999999888864
No 19
>PRK04184 DNA topoisomerase VI subunit B; Validated
Probab=91.62 E-value=0.64 Score=42.89 Aligned_cols=70 Identities=16% Similarity=0.238 Sum_probs=53.6
Q ss_pred HHHHHHHHhhCcCcchHHHHhhhCChhHHHHHHHHHHHcCCCCCCCccccCHHHHHHHHHHHHHHHhhCC
Q psy13718 62 IERVVSCIFRYRQKQVYKPASLLFPKRKRQLVVSLLERACVKPILRPYQLSVQEFGQICLAYRDMCEEMP 131 (165)
Q Consensus 62 f~~~vr~~F~~RRKtL~n~L~~~~~~~~~~~~~~~L~~~gi~~~~R~e~Ls~eqf~~L~~~l~~~~~~~p 131 (165)
+..+.+.+=..++++|..=|...|+.-....+.+++..+|++++++|.+|+.+|..+|.+++.++---+|
T Consensus 243 ~~~l~~m~~~t~~~~l~~fL~~~f~~v~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~l~~~~~~~~~~~p 312 (535)
T PRK04184 243 LGTLKRMAARTKRRTLKEFLVEEFSRVGDKTADEILEKAGLDPNKKPKELTREELERLVEAFKKYKFMAP 312 (535)
T ss_pred HHHHHHHHHhcccCCHHHHHHHhhcccCHHHHHHHHHHcCCCCCCChhhCCHHHHHHHHHHHHhccCcCC
Confidence 3444444445677889988888775432346788999999999999999999999999999988744444
No 20
>TIGR03631 bact_S13 30S ribosomal protein S13. This model describes bacterial ribosomal protein S13, to the exclusion of the homologous archaeal S13P and eukaryotic ribosomal protein S18. This model identifies some (but not all) instances of chloroplast and mitochondrial S13, which is of bacterial type.
Probab=91.55 E-value=0.23 Score=36.63 Aligned_cols=50 Identities=22% Similarity=0.260 Sum_probs=40.0
Q ss_pred CcchHHHHhhhCChhHHHHHHHHHHHcCCCCCCCccccCHHHHHHHHHHHH
Q psy13718 74 QKQVYKPASLLFPKRKRQLVVSLLERACVKPILRPYQLSVQEFGQICLAYR 124 (165)
Q Consensus 74 RKtL~n~L~~~~~~~~~~~~~~~L~~~gi~~~~R~e~Ls~eqf~~L~~~l~ 124 (165)
.|.+.-+|..+++-. ...+..++..+||+++.++.+|+.+|+..|...+.
T Consensus 10 ~k~v~~aL~~i~GIG-~~~a~~i~~~lgi~~~~~~~~L~~~qi~~l~~~l~ 59 (113)
T TIGR03631 10 NKRVEIALTYIYGIG-RTRARKILEKAGIDPDKRVKDLTEEELNAIREEIE 59 (113)
T ss_pred CCEEeeeeeeeeccc-HHHHHHHHHHhCcCcccccccCCHHHHHHHHHHHH
Confidence 456677777766532 23667889999999999999999999999988875
No 21
>PRK05179 rpsM 30S ribosomal protein S13; Validated
Probab=91.42 E-value=0.26 Score=36.87 Aligned_cols=51 Identities=20% Similarity=0.230 Sum_probs=40.8
Q ss_pred CcchHHHHhhhCChhHHHHHHHHHHHcCCCCCCCccccCHHHHHHHHHHHHH
Q psy13718 74 QKQVYKPASLLFPKRKRQLVVSLLERACVKPILRPYQLSVQEFGQICLAYRD 125 (165)
Q Consensus 74 RKtL~n~L~~~~~~~~~~~~~~~L~~~gi~~~~R~e~Ls~eqf~~L~~~l~~ 125 (165)
.|.+.-+|..+++-. ...+..++..+||+++.+..+|+.+|+..|-..+.+
T Consensus 12 ~k~v~~aL~~I~GIG-~~~a~~i~~~lgi~~~~~~~~L~~~qi~~l~~~i~~ 62 (122)
T PRK05179 12 NKRVVIALTYIYGIG-RTRAKEILAAAGIDPDTRVKDLTDEELDKIREEIDK 62 (122)
T ss_pred CcEEEeeeccccccc-HHHHHHHHHHhCcCcccccccCCHHHHHHHHHHHHh
Confidence 456677777776532 236778899999999999999999999999888864
No 22
>PRK14811 formamidopyrimidine-DNA glycosylase; Provisional
Probab=91.37 E-value=0.86 Score=38.23 Aligned_cols=65 Identities=17% Similarity=0.027 Sum_probs=50.1
Q ss_pred HhhCcCcchHHHHhhh-----CChhHHHHHHHHHHHcCCCCCCCccccCHHHHHHHHHHHHHHHhhCCCcccee
Q psy13718 69 IFRYRQKQVYKPASLL-----FPKRKRQLVVSLLERACVKPILRPYQLSVQEFGQICLAYRDMCEEMPGLYEYT 137 (165)
Q Consensus 69 ~F~~RRKtL~n~L~~~-----~~~~~~~~~~~~L~~~gi~~~~R~e~Ls~eqf~~L~~~l~~~~~~~p~~~~~~ 137 (165)
.+. +++.+++.|..= .++. .+.++|=.+||+|..++.+||.+|+.+|++.+.+.+..+=..++.+
T Consensus 139 ~l~-~~~~Ik~~LlDQ~~iaGIGNi---yadEiLf~A~I~P~~~~~~Ls~~~~~~L~~~i~~vl~~ai~~gg~~ 208 (269)
T PRK14811 139 ALA-TARPVKPWLLSQKPVAGVGNI---YADESLWRARIHPARPATSLKAPEARRLYRAIREVMAEAVEAGGST 208 (269)
T ss_pred HHh-cCCcHHHHHhcCceeecccHH---HHHHHHHHcCCCccCCcccCCHHHHHHHHHHHHHHHHHHHHcCCcc
Confidence 345 788999998752 2322 5668889999999999999999999999999988777654444433
No 23
>PF05833 FbpA: Fibronectin-binding protein A N-terminus (FbpA); InterPro: IPR008616 This family consists of the N-terminal region of the prokaryotic fibronectin-binding protein, the C-terminal region is IPR008532 from INTERPRO. Fibronectin binding is considered to be an important virulence factor in streptococcal infections. Fibronectin is a dimeric glycoprotein that is present in a soluble form in plasma and extracellular fluids; it is also present in a fibrillar form on cell surfaces. Both the soluble and cellular forms of fibronectin may be incorporated into the extracellular tissue matrix. While fibronectin has critical roles in eukaryotic cellular processes, such as adhesion, migration and differentiation, it is also a substrate for the attachment of bacteria. The binding of pathogenic Streptococcus pyogenes and Staphylococcus aureus to epithelial cells via fibronectin facilitates their internalisation and systemic spread within the host [].; PDB: 3DOA_A 2ZBK_F 2HKJ_A 1Z5B_A 1Z5C_B 1MX0_F 1Z5A_A 1MU5_A 1Z59_A.
Probab=90.53 E-value=0.57 Score=41.52 Aligned_cols=57 Identities=25% Similarity=0.258 Sum_probs=42.1
Q ss_pred cCcchHHHHhhhCChhHHHHHHHHHHHcCCCCCCCccccCHHHHHHHHHHHHHHHhh
Q psy13718 73 RQKQVYKPASLLFPKRKRQLVVSLLERACVKPILRPYQLSVQEFGQICLAYRDMCEE 129 (165)
Q Consensus 73 RRKtL~n~L~~~~~~~~~~~~~~~L~~~gi~~~~R~e~Ls~eqf~~L~~~l~~~~~~ 129 (165)
...++...|...+..-....+.+++..+|++++..+.+++.++|..|+..+..++..
T Consensus 185 ~~~~l~~~L~~~~~G~~~~la~ei~~ra~i~~~~~~~~~~~~~~~~l~~~~~~l~~~ 241 (455)
T PF05833_consen 185 KEKTLVKALSKNFQGFGPELAEEILYRAGIDKNKKVEELSDEEIEKLFEAIRELLNE 241 (455)
T ss_dssp CG-BHHHHHHHHCTT--HHHHHHHHCCCTS-TTSBGGG--HHHHCHHHHHHHHHHHH
T ss_pred CcccHHHHHHHHHHHhHHHHHHHHHHHhCCCCccccccchhhhHHHHHHHHHHhhhh
Confidence 667788888776632223467888889999999999999999999999999988765
No 24
>PF03486 HI0933_like: HI0933-like protein; InterPro: IPR004792 This is a family of conserved hypothetical proteins that may include proteins with a dinucleotide-binding motif (Rossman fold), including oxidoreductases and dehydrogenases.; PDB: 2I0Z_A 3V76_A 2GQF_A.
Probab=90.14 E-value=1.3 Score=39.33 Aligned_cols=66 Identities=20% Similarity=0.252 Sum_probs=52.0
Q ss_pred CHHHHHHHHHHHh-hCcCcchHHHHhhhCChhHHHHHHHHHHHcCC-CCCCCccccCHHHHHHHHHHHHHH
Q psy13718 58 PFKLIERVVSCIF-RYRQKQVYKPASLLFPKRKRQLVVSLLERACV-KPILRPYQLSVQEFGQICLAYRDM 126 (165)
Q Consensus 58 ~~~~f~~~vr~~F-~~RRKtL~n~L~~~~~~~~~~~~~~~L~~~gi-~~~~R~e~Ls~eqf~~L~~~l~~~ 126 (165)
+.+.+..++...+ .+.++++.+.|..++++ ..+..++..++| +++.+..+|+-++..+|++.+.++
T Consensus 273 ~~e~l~~~l~~~~~~~~~~~~~~~l~~~lp~---rl~~~ll~~~~i~~~~~~~~~l~~~~~~~L~~~lk~~ 340 (409)
T PF03486_consen 273 SEEELEELLQERKEKNPKRTLKNFLKGLLPK---RLALALLKRAGIKDPDKKVSELSKKERNRLANLLKRF 340 (409)
T ss_dssp -HHHHHHHHHHHHHHTTTSBHHHHHTTTS-H---HHHHHHHHHTTS-STTSBGGGS-HHHHHHHHHHHHCE
T ss_pred CHHHHHHHHHHHHHHHHhhHHHHHHHHHhHH---HHHHHHHHHcCCCccccchhhcCHHHHHHHHHHHHhC
Confidence 4556666666655 46788999999999885 367788899999 999999999999999999988764
No 25
>PTZ00134 40S ribosomal protein S18; Provisional
Probab=89.90 E-value=0.39 Score=37.42 Aligned_cols=64 Identities=11% Similarity=0.108 Sum_probs=48.9
Q ss_pred HHHHHHHHHh--hCcCcchHHHHhhhCChhHHHHHHHHHHHcCCCCCCCccccCHHHHHHHHHHHHH
Q psy13718 61 LIERVVSCIF--RYRQKQVYKPASLLFPKRKRQLVVSLLERACVKPILRPYQLSVQEFGQICLAYRD 125 (165)
Q Consensus 61 ~f~~~vr~~F--~~RRKtL~n~L~~~~~~~~~~~~~~~L~~~gi~~~~R~e~Ls~eqf~~L~~~l~~ 125 (165)
.|..+++.+= -.-.|.+.-+|..+++-. ...+..++..+||++++|+.+|+.+|...|-+.+.+
T Consensus 10 ~~~~mvrI~~~~l~~~K~v~~aLt~I~GIG-~~~A~~I~~~lgi~~~~~~~~Lt~~qi~~l~~~i~~ 75 (154)
T PTZ00134 10 DFQHILRILNTNVDGKRKVPYALTAIKGIG-RRFAYLVCKKAGIDVTKRAGELTAEEIEKIVEIIAN 75 (154)
T ss_pred hhhhhhhccCccCCCCCEEEEeeccccccc-HHHHHHHHHHcCcCcCCCcccCCHHHHHHHHHHHhc
Confidence 5777777552 234677888887776532 236778999999999999999999999998777653
No 26
>COG0099 RpsM Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]
Probab=89.37 E-value=0.51 Score=35.36 Aligned_cols=50 Identities=18% Similarity=0.238 Sum_probs=38.6
Q ss_pred cchHHHHhhhCChhHHHHHHHHHHHcCCCCCCCccccCHHHHHHHHHHHHH
Q psy13718 75 KQVYKPASLLFPKRKRQLVVSLLERACVKPILRPYQLSVQEFGQICLAYRD 125 (165)
Q Consensus 75 KtL~n~L~~~~~~~~~~~~~~~L~~~gi~~~~R~e~Ls~eqf~~L~~~l~~ 125 (165)
|.+.-+|..+++-. ......++..+||++++|+.+||-||...|-+.+.+
T Consensus 13 K~v~iALt~IyGIG-~~~a~~I~~~~gi~~~~r~~eLteeei~~ir~~i~~ 62 (121)
T COG0099 13 KRVVIALTYIYGIG-RRRAKEICKKAGIDPDKRVGELTEEEIERLRDAIQN 62 (121)
T ss_pred ceEeehhhhhcccc-HHHHHHHHHHcCCCHhHhhccCCHHHHHHHHHHHHh
Confidence 44555666655422 235678899999999999999999999999888873
No 27
>TIGR03629 arch_S13P archaeal ribosomal protein S13P. This model describes exclusively the archaeal ribosomal protein S13P. It excludes the homologous eukaryotic 40S ribosomal protein S18 and bacterial 30S ribosomal protein S13.
Probab=89.34 E-value=0.44 Score=36.70 Aligned_cols=51 Identities=16% Similarity=0.093 Sum_probs=41.0
Q ss_pred CcchHHHHhhhCChhHHHHHHHHHHHcCCCCCCCccccCHHHHHHHHHHHHH
Q psy13718 74 QKQVYKPASLLFPKRKRQLVVSLLERACVKPILRPYQLSVQEFGQICLAYRD 125 (165)
Q Consensus 74 RKtL~n~L~~~~~~~~~~~~~~~L~~~gi~~~~R~e~Ls~eqf~~L~~~l~~ 125 (165)
.|.+.-+|..+++-. ...+..++..+||+++.|+.+||.+|...|-..+.+
T Consensus 16 ~k~v~~aLt~I~GIG-~~~a~~I~~~lgi~~~~~~~~Lt~~qi~~l~~~i~~ 66 (144)
T TIGR03629 16 NKPVEYALTGIKGIG-RRFARAIARKLGVDPNAKLGYLDDEEIEKLEEAVEN 66 (144)
T ss_pred CCEEEEeecceeccC-HHHHHHHHHHcCcCCCCCcccCCHHHHHHHHHHHHh
Confidence 566677777765532 236678899999999999999999999999888876
No 28
>COG2081 Predicted flavoproteins [General function prediction only]
Probab=88.32 E-value=1.5 Score=39.24 Aligned_cols=54 Identities=33% Similarity=0.339 Sum_probs=45.6
Q ss_pred HhhCcCcchHHHHhhhCChhHHHHHHHHHHHcCCCCCCCccccCHHHHHHHHHHHHHH
Q psy13718 69 IFRYRQKQVYKPASLLFPKRKRQLVVSLLERACVKPILRPYQLSVQEFGQICLAYRDM 126 (165)
Q Consensus 69 ~F~~RRKtL~n~L~~~~~~~~~~~~~~~L~~~gi~~~~R~e~Ls~eqf~~L~~~l~~~ 126 (165)
.=.+++|.|+|.|+..++. ..+.-++++.|| ++....++|..+...|++.+..|
T Consensus 280 ~~~~~~kslkn~L~~~lp~---rlv~~~l~~~~i-~~~~~~~ls~~~~~~l~~~ik~~ 333 (408)
T COG2081 280 RRANPKKSLKNALAKLLPK---RLVEFLLERAGI-PDEPLAQLSPKELAQLAAALKAW 333 (408)
T ss_pred HhhChhhHHHHHHHHHhhh---HHHHHHHHhccC-CCcchhhcCHHHHHHHHHHHhcC
Confidence 3357899999999999885 367778899999 79999999999999998887654
No 29
>TIGR01052 top6b DNA topoisomerase VI, B subunit. This model describes DNA topoisomerase VI, an archaeal type II DNA topoisomerase (DNA gyrase).
Probab=85.26 E-value=3.1 Score=38.03 Aligned_cols=90 Identities=21% Similarity=0.215 Sum_probs=61.4
Q ss_pred HHHHHHHHhhCcCcchHHHHhhhCChhHHHHHHHHHHHcCCC---CCCCccccCHHHHHHHHHHHHHHHhhCCC------
Q psy13718 62 IERVVSCIFRYRQKQVYKPASLLFPKRKRQLVVSLLERACVK---PILRPYQLSVQEFGQICLAYRDMCEEMPG------ 132 (165)
Q Consensus 62 f~~~vr~~F~~RRKtL~n~L~~~~~~~~~~~~~~~L~~~gi~---~~~R~e~Ls~eqf~~L~~~l~~~~~~~p~------ 132 (165)
+..+.+.+=..+.++|..=|..-|+.-....+++++..+|++ ++++|.+|+.+|..+|.+++.+.--.+|.
T Consensus 234 ~~~l~~m~~~t~~~~l~~fL~~~f~~v~~~~a~~~~~~~g~~~~~~~~~~~~l~~~~~~~l~~~~~~~~~~~P~~~~lsp 313 (488)
T TIGR01052 234 IDDLKSMARSTRASTLRSFLVSEFSRIGEKKIKELLEKYGIDVDPLDKKPKELTWDEAEKIVNAFKEMKFMAPPTDGLSP 313 (488)
T ss_pred HHHHHHHHHhcCcccHHHHHHHhhcccCHHHHHHHHHHhCCCccccCCChhhCCHHHHHHHHHHHHhcCCCCCCccccCC
Confidence 344444444567788998888877643234677888999998 89999999999999999999876444554
Q ss_pred ccceeccCC-CCCCCccccc
Q psy13718 133 LYEYTLEDT-PGDIEPEAVA 151 (165)
Q Consensus 133 ~~~~~~~~~-~~~~~~~~~~ 151 (165)
|+++-.++- ++-..||-|+
T Consensus 314 ige~~i~~gl~~~~~p~f~~ 333 (488)
T TIGR01052 314 IGEENIEKGLKEILQPEFVG 333 (488)
T ss_pred CCHHHHHHHHHHhcCccEEE
Confidence 333333333 3344555444
No 30
>COG1389 DNA topoisomerase VI, subunit B [DNA replication, recombination, and repair]
Probab=81.87 E-value=3.7 Score=37.54 Aligned_cols=105 Identities=20% Similarity=0.338 Sum_probs=67.6
Q ss_pred CCcHHHHHHHhhhcceEeceecCC---CC------cCCCCccEEEEEEEecCCCCCCCCHHHHHHHHHHHhhCcCcchHH
Q psy13718 9 QRCRLSIMCQNWCNVDHRFTIPGK---AF------IPKPQVDVGVVHFTPRVHPIIDLPFKLIERVVSCIFRYRQKQVYK 79 (165)
Q Consensus 9 ~Yg~LSV~~q~~~dv~~l~~V~~~---~F------~P~PkVdSavv~l~pr~~~~~~~~~~~f~~~vr~~F~~RRKtL~n 79 (165)
+|=+.+..++.++.|.+. -|-+ .| -|+|-. .+.|++. ..+...+..+++ ..|+.+++.
T Consensus 194 eYlkrtaiinPhA~I~l~--dPdG~~~vf~r~t~~lP~pP~-----E~kPHP~---gvd~~~L~~M~~---~T~~~tv~~ 260 (538)
T COG1389 194 EYLKRTAIINPHARIVLK--DPDGNLVVFPRSTDKLPKPPK-----EIKPHPH---GVDLDTLKKMAH---RTRRSTVRE 260 (538)
T ss_pred HHHHHHhhcCCceEEEEE--CCCCcEEEeccchhhCCCCcc-----ccCCCCc---cccHHHHHHHHH---HhhhhhHHH
Confidence 455566777777766654 2222 11 222221 2344432 235555666665 678888988
Q ss_pred HHhhhCChhHHHHHHHHHHHcCCCCCCCccccC----HHHHHHHHHHHHHH
Q psy13718 80 PASLLFPKRKRQLVVSLLERACVKPILRPYQLS----VQEFGQICLAYRDM 126 (165)
Q Consensus 80 ~L~~~~~~~~~~~~~~~L~~~gi~~~~R~e~Ls----~eqf~~L~~~l~~~ 126 (165)
-|..-|..-....+.++++.+|+++++-|.+|+ .++-..|.+++.++
T Consensus 261 fL~sef~rig~~ta~e~~e~~g~~~~~~p~~L~~~~~~eea~~lv~a~~~~ 311 (538)
T COG1389 261 FLVSEFSRIGEKTADELLEYAGFDPDKKPRELTKKKTREEAEKLVEAFKKM 311 (538)
T ss_pred HHHHHHHHhhhhhHHHHHHHhcCCcccCHHHhhcccCHHHHHHHHHHHHhC
Confidence 888766432122677899999999999999999 88888888887653
No 31
>COG0266 Nei Formamidopyrimidine-DNA glycosylase [DNA replication, recombination, and repair]
Probab=77.69 E-value=8.5 Score=32.68 Aligned_cols=75 Identities=15% Similarity=0.098 Sum_probs=58.3
Q ss_pred HHHHHHhhCcCcchHHHHhhh-----CChhHHHHHHHHHHHcCCCCCCCccccCHHHHHHHHHHHHHHHhhCCCccceec
Q psy13718 64 RVVSCIFRYRQKQVYKPASLL-----FPKRKRQLVVSLLERACVKPILRPYQLSVQEFGQICLAYRDMCEEMPGLYEYTL 138 (165)
Q Consensus 64 ~~vr~~F~~RRKtL~n~L~~~-----~~~~~~~~~~~~L~~~gi~~~~R~e~Ls~eqf~~L~~~l~~~~~~~p~~~~~~~ 138 (165)
..+...+.++++.++..|-.- .++. .+.++|=.+||.|...+.+|+.+++..|++.+...+..+=..++.+.
T Consensus 145 ~~l~~~l~~~~~~IK~~LLDQ~vvaGvGNI---Ya~E~Lf~agI~P~~~a~~l~~~~~~~l~~~i~~vl~~ai~~gGtt~ 221 (273)
T COG0266 145 EYLAEKLAKKKRRIKTALLDQKVVAGVGNI---YADEILFRAGIHPARPAGDLSLAQLALLHEAIKDVLADAIERGGTTL 221 (273)
T ss_pred HHHHHHHhcCccchHHHhhcCCceecccHH---HHHHHHHHcCCCcccCccccCHHHHHHHHHHHHHHHHHHHHhCCCcc
Confidence 445667778888898888652 2322 46678889999999999999999999999999988877666666666
Q ss_pred cCC
Q psy13718 139 EDT 141 (165)
Q Consensus 139 ~~~ 141 (165)
|+-
T Consensus 222 r~~ 224 (273)
T COG0266 222 RDF 224 (273)
T ss_pred cce
Confidence 654
No 32
>PF04339 DUF482: Protein of unknown function, DUF482; InterPro: IPR007434 This family contains several proteins of uncharacterised function.
Probab=58.33 E-value=12 Score=33.08 Aligned_cols=59 Identities=5% Similarity=0.234 Sum_probs=41.7
Q ss_pred CHHHHHHHHHHHhhCcCcchHHHHhhhCChhHHHHHHHHHHHcCCCC-CCCccccCHHHHHHHHHHHHHHHhh
Q psy13718 58 PFKLIERVVSCIFRYRQKQVYKPASLLFPKRKRQLVVSLLERACVKP-ILRPYQLSVQEFGQICLAYRDMCEE 129 (165)
Q Consensus 58 ~~~~f~~~vr~~F~~RRKtL~n~L~~~~~~~~~~~~~~~L~~~gi~~-~~R~e~Ls~eqf~~L~~~l~~~~~~ 129 (165)
+...|++|+..+=+.|||++++..++. .+.||.- ..+..+++.++|..+++.+.+-...
T Consensus 169 gy~~FDdfLa~Lss~kRk~IRrERr~v-------------~~~Gi~~~~l~G~~i~~~~~~~f~~~Y~~Ty~k 228 (370)
T PF04339_consen 169 GYRSFDDFLAALSSRKRKNIRRERRKV-------------AEQGIRIRTLTGDEITDEDWDRFYRLYQNTYAK 228 (370)
T ss_pred CCCCHHHHHHHhchhhHHHHHHHHHHH-------------HHcCCEEEEEeCCCCCHHHHHHHHHHHHHHHHh
Confidence 466799999988889999998877654 2344442 3445778888888887777654444
No 33
>KOG3311|consensus
Probab=58.07 E-value=7.4 Score=30.29 Aligned_cols=33 Identities=12% Similarity=0.056 Sum_probs=29.4
Q ss_pred HHHHHHHHcCCCCCCCccccCHHHHHHHHHHHH
Q psy13718 92 LVVSLLERACVKPILRPYQLSVQEFGQICLAYR 124 (165)
Q Consensus 92 ~~~~~L~~~gi~~~~R~e~Ls~eqf~~L~~~l~ 124 (165)
.++..+..+++++..|+.+|+.+|+..+...+.
T Consensus 40 ~A~~ic~K~~~~~~~r~gelt~~qi~~i~~i~~ 72 (152)
T KOG3311|consen 40 YAEIVCKKADLDLTKRAGELTEEQILRILQILN 72 (152)
T ss_pred hhhhhhhhcCcchhhhhccccHHHHHHHHHHhc
Confidence 456678889999999999999999999988887
No 34
>PHA02564 V virion protein; Provisional
Probab=57.38 E-value=76 Score=24.31 Aligned_cols=64 Identities=14% Similarity=0.114 Sum_probs=42.9
Q ss_pred HHHHHHHHHHhhCc----CcchHHHHhhhCChh---HHHHHHHHHHHcCCCCCCCccccCHHHHHHHHHHHH
Q psy13718 60 KLIERVVSCIFRYR----QKQVYKPASLLFPKR---KRQLVVSLLERACVKPILRPYQLSVQEFGQICLAYR 124 (165)
Q Consensus 60 ~~f~~~vr~~F~~R----RKtL~n~L~~~~~~~---~~~~~~~~L~~~gi~~~~R~e~Ls~eqf~~L~~~l~ 124 (165)
.-+..+.+.+-.++ .+|+...+.+|.|.. +..-+..+.+.+|++++.+..-.++ .+..|..++.
T Consensus 48 ~GiRAl~~~L~~Y~~~~g~~Ti~~iI~rwAP~~ENnT~aYi~~Vs~~~GV~~~~~idl~d~-~l~~l~~Aii 118 (141)
T PHA02564 48 NGIRALAKLLLNYRKVYGLRTVESLIARWAPSNENDTRAYATAVANAMGVPPQAGLHLDQD-TLAALVTAII 118 (141)
T ss_pred HHHHHHHHHHHHHccccCcccHHHHHHhcCCCCCCCHHHHHHHHHHHHCCCCCCcCcCCcH-HHHHHHHHHH
Confidence 34566666665443 368888888887642 3346778889999999988765555 6666655554
No 35
>PF14492 EFG_II: Elongation Factor G, domain II; PDB: 1WDT_A 2DY1_A 2XEX_A 1ELO_A 2XSY_Y 2WRK_Y 1DAR_A 2WRI_Y 2XUY_Y 3J0E_H ....
Probab=52.27 E-value=27 Score=23.32 Aligned_cols=34 Identities=21% Similarity=0.137 Sum_probs=27.2
Q ss_pred ccccCHHHHHHHHHHHHHHHhhCCCccceeccCC
Q psy13718 108 PYQLSVQEFGQICLAYRDMCEEMPGLYEYTLEDT 141 (165)
Q Consensus 108 ~e~Ls~eqf~~L~~~l~~~~~~~p~~~~~~~~~~ 141 (165)
.+--+..+..+|..+|.++.++||.+.-.+-.++
T Consensus 10 i~p~~~~d~~kl~~aL~~l~~eDP~l~~~~d~et 43 (75)
T PF14492_consen 10 IEPKNKEDEPKLSEALQKLSEEDPSLRVERDEET 43 (75)
T ss_dssp EEESSHHHHHHHHHHHHHHHHH-TTSEEEEETTT
T ss_pred EEECCHhHHHHHHHHHHHHHhcCCeEEEEEcchh
Confidence 4455788999999999999999999988765554
No 36
>PF14164 YqzH: YqzH-like protein
Probab=47.99 E-value=40 Score=22.53 Aligned_cols=27 Identities=22% Similarity=0.305 Sum_probs=21.5
Q ss_pred ccccCHHHHHHHHHHHHHHHhhCCCcc
Q psy13718 108 PYQLSVQEFGQICLAYRDMCEEMPGLY 134 (165)
Q Consensus 108 ~e~Ls~eqf~~L~~~l~~~~~~~p~~~ 134 (165)
.--||.++|..|.+.+.....++|..-
T Consensus 23 ~~pls~~E~~~L~~~i~~~~~~~~~~D 49 (64)
T PF14164_consen 23 CMPLSDEEWEELCKHIQERKNEEPDED 49 (64)
T ss_pred CCCCCHHHHHHHHHHHHHHHhcCCCch
Confidence 346899999999999988888777643
No 37
>PF08248 Tryp_FSAP: Tryptophyllin-3 skin active peptide; InterPro: IPR013266 PdT-3 or Tryptophyllin-3 peptide is a subfamily of the family Tryptophyllin and of the superfamily FSAP (Frog Skin Active Peptide). Originally identified in skin extracts of Neotropical leaf frogs, Phyllomedusa sp. This subfamily has an average length of 13 amino acids. The pharmacological activity of the tryptophyllins remains to be established [] but it seems that these peptides possess an action on liver protein synthesis and body weight []. It is thought to possesses insulin-releasing activity [].
Probab=37.31 E-value=16 Score=16.39 Aligned_cols=6 Identities=50% Similarity=1.115 Sum_probs=4.5
Q ss_pred CCcCCC
Q psy13718 33 AFIPKP 38 (165)
Q Consensus 33 ~F~P~P 38 (165)
-|||+|
T Consensus 3 pfw~pp 8 (12)
T PF08248_consen 3 PFWPPP 8 (12)
T ss_pred ccCCCC
Confidence 488887
No 38
>COG1908 FrhD Coenzyme F420-reducing hydrogenase, delta subunit [Energy production and conversion]
Probab=35.29 E-value=63 Score=24.46 Aligned_cols=38 Identities=21% Similarity=0.295 Sum_probs=31.5
Q ss_pred HHHHHHHHcCCCC-CCCccccCHHHHHHHHHHHHHHHhh
Q psy13718 92 LVVSLLERACVKP-ILRPYQLSVQEFGQICLAYRDMCEE 129 (165)
Q Consensus 92 ~~~~~L~~~gi~~-~~R~e~Ls~eqf~~L~~~l~~~~~~ 129 (165)
.+.++|.++||.+ ..|...+|..++-++++.+.++.++
T Consensus 82 ~lke~l~elgie~eRv~~~wiSa~E~ekf~e~~~efv~~ 120 (132)
T COG1908 82 LLKELLKELGIEPERVRVLWISAAEGEKFAETINEFVER 120 (132)
T ss_pred HHHHHHHHhCCCcceEEEEEEehhhHHHHHHHHHHHHHH
Confidence 5678899999985 3677899999999999988877655
No 39
>TIGR02019 BchJ bacteriochlorophyll 4-vinyl reductase. This model represents the component of bacteriochlorophyll synthetase responsible for reduction of the B-ring pendant ethylene (4-vinyl) group. It appears that this step must precede the reduction of ring D, at least by the "dark" protochlorophyllide reductase enzymes BchN, BchB and BchL. This family appears to be present in photosynthetic bacteria except for the cyanobacterial clade. Cyanobacteria must use a non-orthologous gene to carry out this required step for the biosynthesis of both bacteriochlorophyll and chlorophyll.
Probab=32.51 E-value=1.5e+02 Score=23.84 Aligned_cols=48 Identities=13% Similarity=-0.029 Sum_probs=33.6
Q ss_pred hHHHHhhhCChhHHHHHHHHHHHcCCCC--C-CCccccCHHHHHHHHHHHHHHH
Q psy13718 77 VYKPASLLFPKRKRQLVVSLLERACVKP--I-LRPYQLSVQEFGQICLAYRDMC 127 (165)
Q Consensus 77 L~n~L~~~~~~~~~~~~~~~L~~~gi~~--~-~R~e~Ls~eqf~~L~~~l~~~~ 127 (165)
+-++|...+++ +..+.+|..+|+.. . ...+.++.+.+..|.+.|.+.+
T Consensus 10 ~~~al~~~~g~---~~~~~~~~~~g~~~~~~~~p~~mv~E~~~~aL~~aL~~el 60 (188)
T TIGR02019 10 TVPALEAAYGP---GAADRALAAAGQGVLRPGPPSGMLPESQFSTLHRWLRDTL 60 (188)
T ss_pred HHHHHHHhcCH---HHHHHHHHHcCcccccCCCchhcCCHHHHHHHHHHHHHHh
Confidence 34567777775 36788999999874 4 4446666677888988887654
No 40
>KOG0487|consensus
Probab=30.84 E-value=13 Score=32.15 Aligned_cols=17 Identities=24% Similarity=0.216 Sum_probs=10.9
Q ss_pred HHHHhhCcCcchHHHHh
Q psy13718 66 VSCIFRYRQKQVYKPAS 82 (165)
Q Consensus 66 vr~~F~~RRKtL~n~L~ 82 (165)
|+++|++||.+++...+
T Consensus 279 VKIWFQNRRMK~KK~~r 295 (308)
T KOG0487|consen 279 VKIWFQNRRMKEKKVNR 295 (308)
T ss_pred eeeeehhhhhHHhhhhh
Confidence 45667777766666554
No 41
>KOG1358|consensus
Probab=30.36 E-value=1.8e+02 Score=26.50 Aligned_cols=79 Identities=15% Similarity=0.121 Sum_probs=52.4
Q ss_pred CCccEEEEEEEecCCCCCCC-CHHHHHHHHHHHhhCcCcchHHHHhhhCChhHHHHHHHHHHHcCCCCCCCc---cccCH
Q psy13718 38 PQVDVGVVHFTPRVHPIIDL-PFKLIERVVSCIFRYRQKQVYKPASLLFPKRKRQLVVSLLERACVKPILRP---YQLSV 113 (165)
Q Consensus 38 PkVdSavv~l~pr~~~~~~~-~~~~f~~~vr~~F~~RRKtL~n~L~~~~~~~~~~~~~~~L~~~gi~~~~R~---e~Ls~ 113 (165)
-.+.|.++++..++...... +.+.++.++..|+...--..++. .-.-++.+.++|+.|. ..++.
T Consensus 382 ~~~~SPi~hl~l~~~~~s~e~e~~lL~eivd~~i~~~~ll~~a~------------~~~~~e~~~~~pSiri~~~a~~se 449 (467)
T KOG1358|consen 382 GSPESPIIHLQLERSYGSREKEEKLLEEIVDKCIAEGVLLTRAK------------YLEKLERCPIPPSIRICVSAGMSE 449 (467)
T ss_pred cCcCCceeeeeecccccchHHHHHHHHHHHHHHHhhcceehhhh------------hhhhcccCCCCCcEEEEEeCCCCH
Confidence 45678899988775432222 46678999999977622111111 1122455677777775 68999
Q ss_pred HHHHHHHHHHHHHHh
Q psy13718 114 QEFGQICLAYRDMCE 128 (165)
Q Consensus 114 eqf~~L~~~l~~~~~ 128 (165)
+|..+++..+.++..
T Consensus 450 eel~ra~~~ik~~~~ 464 (467)
T KOG1358|consen 450 EELERAAELIKEVAS 464 (467)
T ss_pred HHHHHHHHHHHHHHH
Confidence 999999999988754
No 42
>KOG0850|consensus
Probab=28.67 E-value=26 Score=29.25 Aligned_cols=19 Identities=21% Similarity=0.144 Sum_probs=16.4
Q ss_pred HHHHhhCcCcchHHHHhhh
Q psy13718 66 VSCIFRYRQKQVYKPASLL 84 (165)
Q Consensus 66 vr~~F~~RRKtL~n~L~~~ 84 (165)
|+++|++||-++++.++..
T Consensus 166 VKIWFQNrRSK~KKl~k~g 184 (245)
T KOG0850|consen 166 VKIWFQNRRSKFKKLKKQG 184 (245)
T ss_pred hhhhhhhhHHHHHHHHhcC
Confidence 7999999999999988843
No 43
>PF09645 F-112: F-112 protein; InterPro: IPR018601 This entry is represented by Sulfolobus virus-like particle SSV1, p11. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches.; PDB: 2VQC_A.
Probab=27.91 E-value=52 Score=23.86 Aligned_cols=51 Identities=27% Similarity=0.323 Sum_probs=23.0
Q ss_pred ccCHHHHHHHHHHHHHHHhhCCCccceeccCCC---CCCCccccccccCCC--ccc
Q psy13718 110 QLSVQEFGQICLAYRDMCEEMPGLYEYTLEDTP---GDIEPEAVAEQEGEG--DEI 160 (165)
Q Consensus 110 ~Ls~eqf~~L~~~l~~~~~~~p~~~~~~~~~~~---~~~~~~~~~~~~~~~--~~~ 160 (165)
++|+.--..+.+.+..+|+..|..-++-.+.+| .-|.-|.+.+++.|. ++|
T Consensus 32 eIS~s~Ay~I~~~lr~iCe~hq~eC~~~~k~rKtv~~~~K~E~~ee~~qE~~~~eI 87 (110)
T PF09645_consen 32 EISYSRAYNIQRVLRKICEQHQDECEVQKKNRKTVFKWIKKEKVEEDEQENEQEEI 87 (110)
T ss_dssp ---HHHHHHHHHHHHHHHHH-TTTEEEEE-SS-EEEEE------------------
T ss_pred ccchhhhhHHHHHHHHHHHhCcchhhhhhccchHHHHHHHHHHHHHHHHHhHHHHH
Confidence 455666667778888999999999888877764 345556665554444 665
No 44
>TIGR02610 PHA_gran_rgn putative polyhydroxyalkanoic acid system protein. All members of this family are encoded by genes polyhydroxyalkanoic acid (PHA) biosynthesis and utilization genes, including proteins at found at the surface of PHA granules. Examples so far are found in the Pseudomonales, Xanthomonadales, and Vibrionales, all of which belong to the Gammaproteobacteria.
Probab=27.22 E-value=88 Score=22.03 Aligned_cols=32 Identities=13% Similarity=-0.048 Sum_probs=25.9
Q ss_pred CCccccCHHHHHHHHHHHHHHHhhCCCccceec
Q psy13718 106 LRPYQLSVQEFGQICLAYRDMCEEMPGLYEYTL 138 (165)
Q Consensus 106 ~R~e~Ls~eqf~~L~~~l~~~~~~~p~~~~~~~ 138 (165)
.||..|..++-.+.++.+..-+...+++ +.+|
T Consensus 7 ~r~H~Lg~~eAr~~~e~~a~~l~~~~~~-e~~W 38 (91)
T TIGR02610 7 ERDHSLGPAAARAKAEDLARKLTDRYGL-ASHW 38 (91)
T ss_pred EecCCCCHHHHHHHHHHHHHHHHHHhCC-EeEE
Confidence 5789999999999888888878777776 5566
No 45
>COG0779 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=26.65 E-value=99 Score=23.98 Aligned_cols=41 Identities=15% Similarity=0.204 Sum_probs=35.5
Q ss_pred CccccCHHHHHHHHHHHHHHHh-hCCCccceeccCCCCCCCc
Q psy13718 107 RPYQLSVQEFGQICLAYRDMCE-EMPGLYEYTLEDTPGDIEP 147 (165)
Q Consensus 107 R~e~Ls~eqf~~L~~~l~~~~~-~~p~~~~~~~~~~~~~~~~ 147 (165)
++..++.++-..+.+.++..++ ++|..+.|.++-.--|++.
T Consensus 45 ~~g~v~lddC~~vSr~is~~LD~edpi~~~Y~LEVSSPGldR 86 (153)
T COG0779 45 KEGGVTLDDCADVSRAISALLDVEDPIEGAYFLEVSSPGLDR 86 (153)
T ss_pred CCCCCCHHHHHHHHHHHHHHhccCCcccccEEEEeeCCCCCC
Confidence 3489999999999999999999 9999999998887666654
No 46
>COG4421 Capsular polysaccharide biosynthesis protein [Carbohydrate transport and metabolism]
Probab=24.73 E-value=47 Score=29.28 Aligned_cols=31 Identities=29% Similarity=0.404 Sum_probs=27.7
Q ss_pred HHHHHHHHHcCCCCCCCccccCHHHHHHHHHH
Q psy13718 91 QLVVSLLERACVKPILRPYQLSVQEFGQICLA 122 (165)
Q Consensus 91 ~~~~~~L~~~gi~~~~R~e~Ls~eqf~~L~~~ 122 (165)
+++++++.+.|+. -.|||+|++.|-++||+.
T Consensus 244 ~evE~~~q~~G~~-IVrPEtl~~~eQ~~LFr~ 274 (368)
T COG4421 244 EEVERLLQRSGLT-IVRPETLGPREQARLFRK 274 (368)
T ss_pred HHHHHHHHhcCcE-EEechhcCHHHHHHHhhc
Confidence 4788999999998 799999999999999974
No 47
>PF09373 PMBR: Pseudomurein-binding repeat; InterPro: IPR018975 Methanothermobacter thermautotrophicus (Methanobacterium thermoformicicum) is a methanogenic Gram-positive microorganism with a cell wall consisting of pseudomurein. This repeat specifically binds to pseudomurein. This repeat is found at the N terminus of PeiW and PeiP which are pseudomurein binding phage proteins.
Probab=24.45 E-value=1.3e+02 Score=16.94 Aligned_cols=23 Identities=13% Similarity=0.161 Sum_probs=19.1
Q ss_pred ccccCHHHHHHHHHHHHHHHhhC
Q psy13718 108 PYQLSVQEFGQICLAYRDMCEEM 130 (165)
Q Consensus 108 ~e~Ls~eqf~~L~~~l~~~~~~~ 130 (165)
...|+.+|+..++..+.++.+.+
T Consensus 2 ~~~i~~~~~~d~a~rv~~f~~~n 24 (33)
T PF09373_consen 2 SGTISKEEYLDMASRVNNFYESN 24 (33)
T ss_pred CceecHHHHHHHHHHHHHHHHHc
Confidence 45789999999999988887764
No 48
>PF02662 FlpD: Methyl-viologen-reducing hydrogenase, delta subunit; InterPro: IPR003813 Methyl-viologen-reducing hydrogenase (MVH) is one of the enzymes involved in methanogenesis and coded in the mth-flp-mvh-mrt cluster of methane genes in Methanothermobacter thermautotrophicus (Methanobacterium thermoformicicum) []. No specific functions have been assigned to the delta subunit.; GO: 0015948 methanogenesis, 0055114 oxidation-reduction process
Probab=23.74 E-value=98 Score=22.80 Aligned_cols=38 Identities=24% Similarity=0.302 Sum_probs=30.1
Q ss_pred HHHHHHHHcCCCC-CCCccccCHHHHHHHHHHHHHHHhh
Q psy13718 92 LVVSLLERACVKP-ILRPYQLSVQEFGQICLAYRDMCEE 129 (165)
Q Consensus 92 ~~~~~L~~~gi~~-~~R~e~Ls~eqf~~L~~~l~~~~~~ 129 (165)
.+.++|+++||++ ..+-..++..++..+++.+.++.+.
T Consensus 81 ~~k~~L~~~Gi~~eRv~~~~~~~~~~~~fa~~~~~f~~~ 119 (124)
T PF02662_consen 81 RLKKLLEELGIEPERVRLYWISAPEGKRFAEIVNEFTER 119 (124)
T ss_pred HHHHHHHHcCCChhHeEEEEeCcccHHHHHHHHHHHHHH
Confidence 5668899999994 3566779999999998888877654
No 49
>cd05030 calgranulins Calgranulins: S-100 domain found in proteins belonging to the Calgranulin subgroup of the S100 family of EF-hand calcium-modulated proteins, including S100A8, S100A9, and S100A12 . Note that the S-100 hierarchy, to which this Calgranulin group belongs, contains only S-100 EF-hand domains, other EF-hands have been modeled separately. These proteins are expressed mainly in granulocytes, and are involved in inflammation, allergy, and neuritogenesis, as well as in host-parasite response. Calgranulins are modulated not only by calcium, but also by other metals such as zinc and copper. Structural data suggested that calgranulins may exist in multiple structural forms, homodimers, as well as hetero-oligomers. For example, the S100A8/S100A9 complex called calprotectin plays important roles in the regulation of inflammatory processes, wound repair, and regulating zinc-dependent enzymes as well as microbial growth.
Probab=23.48 E-value=2.4e+02 Score=19.04 Aligned_cols=36 Identities=19% Similarity=0.199 Sum_probs=27.9
Q ss_pred HHHHHHHHHcCCCCCCCccccCHHHHHHHHHHHHHHHhh
Q psy13718 91 QLVVSLLERACVKPILRPYQLSVQEFGQICLAYRDMCEE 129 (165)
Q Consensus 91 ~~~~~~L~~~gi~~~~R~e~Ls~eqf~~L~~~l~~~~~~ 129 (165)
+.+..++...+.+ .-..++.++|+.+...+...|++
T Consensus 51 ~~v~~i~~~~D~d---~dG~I~f~eF~~~~~~~~~~~~~ 86 (88)
T cd05030 51 KAIDKIFEDLDTN---QDGQLSFEEFLVLVIKVGVAAHE 86 (88)
T ss_pred HHHHHHHHHcCCC---CCCcCcHHHHHHHHHHHHHHhcc
Confidence 3677888877554 35689999999999888777765
No 50
>KOG0489|consensus
Probab=21.16 E-value=20 Score=29.87 Aligned_cols=19 Identities=26% Similarity=0.316 Sum_probs=13.4
Q ss_pred HHHHHHHHhhCcCcchHHH
Q psy13718 62 IERVVSCIFRYRQKQVYKP 80 (165)
Q Consensus 62 f~~~vr~~F~~RRKtL~n~ 80 (165)
=+.-|+++|++||.+-+..
T Consensus 199 tErQIKIWFQNRRMK~Kk~ 217 (261)
T KOG0489|consen 199 TERQIKIWFQNRRMKWKKE 217 (261)
T ss_pred hHHHHHHHHHHHHHHHHHh
Confidence 3566788888888766643
No 51
>PF09863 DUF2090: Uncharacterized protein conserved in bacteria (DUF2090); InterPro: IPR018659 This domain, found in various prokaryotic carbohydrate kinases, has no known function.
Probab=20.53 E-value=2e+02 Score=25.02 Aligned_cols=89 Identities=13% Similarity=0.066 Sum_probs=52.5
Q ss_pred cCCCCccEEEEEEEecCCCCCC-CCHHHHHHHHHHHhhCcCcchHHHHhhhCChhHHHHHHHHH---HHcCCCCC--CCc
Q psy13718 35 IPKPQVDVGVVHFTPRVHPIID-LPFKLIERVVSCIFRYRQKQVYKPASLLFPKRKRQLVVSLL---ERACVKPI--LRP 108 (165)
Q Consensus 35 ~P~PkVdSavv~l~pr~~~~~~-~~~~~f~~~vr~~F~~RRKtL~n~L~~~~~~~~~~~~~~~L---~~~gi~~~--~R~ 108 (165)
+|.+.|=-++|...|...+... ...+.+..+-.+|=...+..|...+-.--.+...+...+++ -.+||.|+ +-
T Consensus 137 WP~ehvVKcLvfyHPdD~~~lr~~Qe~~l~~l~~ac~~sg~ElLLEvI~p~~~~~~~~~~~~ai~r~Y~lGI~PDWWKL- 215 (311)
T PF09863_consen 137 WPQEHVVKCLVFYHPDDDPELRLEQEAQLRRLYDACRRSGHELLLEVIPPKDMPVDDDTYARAIERFYNLGIKPDWWKL- 215 (311)
T ss_pred CCcccEEEEEeecCCCCCHHHHHHHHHHHHHHHHHHHhcCcceeEEEecCCCCCCChHHHHHHHHHHHHcCCCCCeecc-
Confidence 6888998888888887654321 13455666667775666665554443211111111223333 35799887 33
Q ss_pred cccCHHHHHHHHHHHH
Q psy13718 109 YQLSVQEFGQICLAYR 124 (165)
Q Consensus 109 e~Ls~eqf~~L~~~l~ 124 (165)
+-+|.+.|..+...+.
T Consensus 216 ep~s~~~W~~i~~~I~ 231 (311)
T PF09863_consen 216 EPLSAAAWQAIEALIE 231 (311)
T ss_pred CCCCHHHHHHHHHHHH
Confidence 3349999999877664
Done!