Query 022576
Match_columns 295
No_of_seqs 172 out of 1234
Neff 4.6
Searched_HMMs 46136
Date Fri Mar 29 04:36:00 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/022576.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/022576hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PRK14640 hypothetical protein; 100.0 1.3E-38 2.8E-43 274.8 19.4 146 122-295 3-151 (152)
2 PRK14633 hypothetical protein; 100.0 2.2E-38 4.7E-43 273.0 20.0 146 123-295 2-149 (150)
3 COG0779 Uncharacterized protei 100.0 2.2E-38 4.7E-43 274.4 18.5 148 120-295 3-153 (153)
4 PRK14647 hypothetical protein; 100.0 4E-38 8.8E-43 273.4 19.9 148 121-295 4-159 (159)
5 PRK14632 hypothetical protein; 100.0 1.4E-37 3E-42 273.5 21.2 156 120-295 3-163 (172)
6 PRK14646 hypothetical protein; 100.0 1.3E-37 2.8E-42 269.6 19.1 145 120-292 2-151 (155)
7 PRK14643 hypothetical protein; 100.0 1.1E-37 2.4E-42 272.5 18.6 152 122-295 6-164 (164)
8 PRK14634 hypothetical protein; 100.0 1.3E-37 2.9E-42 269.5 18.5 145 122-294 4-153 (155)
9 PRK14638 hypothetical protein; 100.0 4.4E-37 9.5E-42 265.1 19.5 143 122-295 5-150 (150)
10 PRK00092 ribosome maturation p 100.0 9.7E-37 2.1E-41 262.6 19.9 148 122-295 4-154 (154)
11 PRK14639 hypothetical protein; 100.0 2E-36 4.4E-41 258.3 18.5 137 130-295 2-140 (140)
12 PRK14636 hypothetical protein; 100.0 3.8E-36 8.3E-41 265.4 19.6 145 123-294 3-152 (176)
13 PRK14631 hypothetical protein; 100.0 6.6E-36 1.4E-40 263.6 19.4 146 122-294 5-173 (174)
14 PRK14635 hypothetical protein; 100.0 3.3E-35 7.2E-40 255.9 20.3 155 121-295 2-162 (162)
15 PRK14630 hypothetical protein; 100.0 4.1E-35 8.9E-40 251.1 17.9 135 124-292 7-143 (143)
16 PRK14641 hypothetical protein; 100.0 2.4E-34 5.3E-39 253.5 19.9 155 123-295 5-173 (173)
17 PF02576 DUF150: Uncharacteris 100.0 8.9E-35 1.9E-39 246.3 15.5 138 130-291 1-141 (141)
18 PRK14637 hypothetical protein; 100.0 2.8E-34 6.2E-39 248.0 18.4 137 127-294 10-148 (151)
19 PRK14645 hypothetical protein; 100.0 9.8E-34 2.1E-38 245.4 17.2 137 121-289 5-145 (154)
20 PRK02001 hypothetical protein; 100.0 8.4E-33 1.8E-37 239.3 19.8 148 124-293 3-152 (152)
21 PRK14642 hypothetical protein; 100.0 4.6E-32 1E-36 243.2 19.6 155 127-294 3-181 (197)
22 PRK14644 hypothetical protein; 100.0 3E-32 6.5E-37 231.9 15.5 132 130-288 3-136 (136)
23 cd01734 YlxS_C YxlS is a Bacil 99.8 5.9E-21 1.3E-25 149.3 10.7 82 193-295 1-83 (83)
24 cd06168 LSm9 The eukaryotic Sm 84.7 5.4 0.00012 31.0 7.1 72 210-291 3-74 (75)
25 PF01423 LSM: LSM domain ; In 65.8 19 0.0004 26.3 5.2 41 211-260 2-42 (67)
26 PF14438 SM-ATX: Ataxin 2 SM d 62.5 13 0.00028 28.2 4.0 38 212-255 7-46 (77)
27 cd01726 LSm6 The eukaryotic Sm 62.0 15 0.00032 27.4 4.1 40 211-259 4-43 (67)
28 cd01721 Sm_D3 The eukaryotic S 61.4 55 0.0012 24.7 7.2 64 212-291 5-68 (70)
29 cd01729 LSm7 The eukaryotic Sm 60.2 17 0.00037 28.4 4.4 42 209-259 4-45 (81)
30 PRK00737 small nuclear ribonuc 56.3 25 0.00054 26.7 4.6 41 210-259 7-47 (72)
31 cd01731 archaeal_Sm1 The archa 56.3 21 0.00046 26.6 4.1 40 211-259 4-43 (68)
32 cd01722 Sm_F The eukaryotic Sm 56.3 21 0.00047 26.7 4.2 40 211-259 5-44 (68)
33 cd01719 Sm_G The eukaryotic Sm 53.3 23 0.00051 27.0 4.0 41 210-259 3-43 (72)
34 cd01717 Sm_B The eukaryotic Sm 52.2 28 0.00062 26.8 4.4 41 211-260 4-44 (79)
35 PF10842 DUF2642: Protein of u 51.7 69 0.0015 24.6 6.3 32 210-248 14-45 (66)
36 cd00600 Sm_like The eukaryotic 49.9 27 0.00058 24.9 3.7 38 213-259 2-39 (63)
37 COG1958 LSM1 Small nuclear rib 47.0 33 0.00072 26.3 4.0 42 210-260 10-51 (79)
38 cd01728 LSm1 The eukaryotic Sm 46.8 48 0.001 25.6 4.8 41 210-259 5-45 (74)
39 COG1481 Uncharacterized protei 46.3 1.1E+02 0.0025 30.0 8.4 104 116-224 45-173 (308)
40 smart00651 Sm snRNP Sm protein 46.2 38 0.00082 24.6 4.1 41 211-260 2-42 (67)
41 PF08863 YolD: YolD-like prote 46.1 1E+02 0.0022 23.5 6.7 51 216-289 41-92 (92)
42 cd02978 KaiB_like KaiB-like fa 46.1 47 0.001 25.9 4.7 38 153-199 2-40 (72)
43 PF08608 Wyosine_form: Wyosine 43.4 25 0.00055 26.5 2.8 37 106-144 14-50 (62)
44 PF06257 DUF1021: Protein of u 41.3 66 0.0014 25.4 4.9 66 209-295 9-76 (76)
45 COG0189 RimK Glutathione synth 39.6 79 0.0017 30.7 6.2 51 121-171 247-300 (318)
46 KOG1783 Small nuclear ribonucl 38.3 21 0.00046 28.2 1.7 30 210-245 9-38 (77)
47 cd01733 LSm10 The eukaryotic S 38.3 1.9E+02 0.0041 22.5 7.3 39 213-260 15-53 (78)
48 cd01725 LSm2 The eukaryotic Sm 37.6 60 0.0013 25.3 4.2 38 213-259 7-44 (81)
49 cd01723 LSm4 The eukaryotic Sm 37.3 64 0.0014 24.7 4.2 39 212-259 6-44 (76)
50 PF12701 LSM14: Scd6-like Sm d 37.3 2E+02 0.0044 23.4 7.3 67 214-292 5-77 (96)
51 PF13222 DUF4030: Protein of u 36.8 1.4E+02 0.003 26.3 6.6 83 119-201 50-139 (142)
52 cd01724 Sm_D1 The eukaryotic S 35.6 2.3E+02 0.005 22.6 7.3 39 212-259 6-44 (90)
53 cd04873 ACT_UUR-ACR-like ACT d 35.4 1.5E+02 0.0033 20.5 7.7 52 127-178 13-68 (70)
54 cd01732 LSm5 The eukaryotic Sm 34.5 81 0.0018 24.4 4.4 38 213-259 9-46 (76)
55 cd01727 LSm8 The eukaryotic Sm 34.3 73 0.0016 24.2 4.1 30 211-246 3-32 (74)
56 TIGR03341 YhgI_GntY IscR-regul 33.6 1.6E+02 0.0035 26.6 6.8 68 108-180 80-162 (190)
57 cd01730 LSm3 The eukaryotic Sm 32.8 84 0.0018 24.4 4.3 39 213-260 7-45 (82)
58 TIGR02654 circ_KaiB circadian 31.8 1.2E+02 0.0025 24.6 5.0 40 152-200 3-43 (87)
59 PF13083 KH_4: KH domain; PDB: 31.4 2.2E+02 0.0047 21.1 8.2 62 125-197 2-73 (73)
60 PRK09301 circadian clock prote 31.0 1.1E+02 0.0024 25.5 4.9 40 152-200 6-46 (103)
61 PLN02677 mevalonate kinase 29.8 97 0.0021 31.0 5.2 39 110-148 335-375 (387)
62 cd04897 ACT_ACR_3 ACT domain-c 29.1 2.7E+02 0.006 21.6 8.2 55 127-181 14-73 (75)
63 PF11211 DUF2997: Protein of u 28.4 1.3E+02 0.0029 21.5 4.4 35 146-182 2-36 (48)
64 PF02700 PurS: Phosphoribosylf 26.3 3.2E+02 0.0069 21.4 8.1 61 128-198 18-79 (80)
65 PRK08559 nusG transcription an 26.2 1.8E+02 0.0039 25.1 5.6 41 121-161 15-55 (153)
66 cd04861 LigD_Pol_like LigD_Pol 26.0 2.2E+02 0.0048 26.8 6.5 83 121-225 111-197 (227)
67 PF05219 DREV: DREV methyltran 25.9 99 0.0022 29.8 4.3 41 104-146 193-239 (265)
68 cd04479 RPA3 RPA3: A subfamily 24.8 2E+02 0.0042 23.2 5.3 42 204-251 2-45 (101)
69 PF13670 PepSY_2: Peptidase pr 24.1 2.7E+02 0.0057 21.2 5.7 18 130-147 33-50 (83)
70 PRK11190 Fe/S biogenesis prote 24.0 2.5E+02 0.0055 25.5 6.4 53 108-162 81-148 (192)
71 KOG1781 Small Nuclear ribonucl 23.8 53 0.0012 27.4 1.8 43 196-244 5-48 (108)
72 PF01106 NifU: NifU-like domai 23.0 2.2E+02 0.0048 21.4 4.9 34 125-162 3-36 (68)
73 TIGR02778 ligD_pol DNA polymer 22.7 2E+02 0.0043 27.4 5.6 82 122-225 128-213 (245)
74 cd04869 ACT_GcvR_2 ACT domains 22.6 3.1E+02 0.0068 20.0 7.7 54 127-180 12-73 (81)
75 cd04865 LigD_Pol_like_2 LigD_P 22.6 2.1E+02 0.0045 27.0 5.6 83 121-225 112-198 (228)
76 COG5406 Nucleosome binding fac 22.3 62 0.0013 35.3 2.3 49 65-113 922-980 (1001)
77 cd04870 ACT_PSP_1 CT domains f 21.1 3.4E+02 0.0075 19.9 7.2 54 127-180 12-67 (75)
78 PF06372 Gemin6: Gemin6 protei 21.0 1.7E+02 0.0036 26.3 4.5 39 206-251 6-44 (166)
79 PF14812 PBP1_TM: Transmembran 20.8 33 0.00071 27.5 0.0 13 94-106 41-53 (81)
80 PF14472 DUF4429: Domain of un 20.6 1.2E+02 0.0025 24.2 3.2 14 279-292 27-40 (94)
81 cd06409 PB1_MUG70 The MUG70 pr 20.5 3.1E+02 0.0068 22.0 5.5 49 126-177 22-75 (86)
82 PF08442 ATP-grasp_2: ATP-gras 20.5 3.4E+02 0.0073 24.7 6.5 55 107-163 50-117 (202)
83 cd04862 PaeLigD_Pol_like PaeLi 20.2 3.2E+02 0.007 25.7 6.4 82 121-224 111-195 (227)
84 PRK09509 fieF ferrous iron eff 20.1 3.5E+02 0.0077 25.4 6.8 42 141-182 230-273 (299)
85 PLN00180 NDF6 (NDH-dependent f 20.1 41 0.0009 30.3 0.5 18 101-118 123-140 (180)
No 1
>PRK14640 hypothetical protein; Provisional
Probab=100.00 E-value=1.3e-38 Score=274.84 Aligned_cols=146 Identities=18% Similarity=0.254 Sum_probs=130.7
Q ss_pred CHHHHHHHHHHHHHhhcCCeEEEEEE-eeCCCcEEEEEEeCCCC-ChhhHHHHHHHHHHhhhccccCCCCCCCeEEEEec
Q 022576 122 PWGERALSIAHEVLLQLGDDIKLYAF-KATPRGYVYVRLDKLSN-NMEELESYSQEYKKKLDEVGALGEIPDDLALEVST 199 (295)
Q Consensus 122 ~~~ekI~el~epvle~~G~eLvdVe~-k~~~~~~LrV~IDk~~G-sIDDCe~vSR~Is~~LD~~e~~d~I~~~Y~LEVSS 199 (295)
...++++++++|+++++||+||+|+| +.++.++|||+||+++| |+|||+.+||+|+++|| +.|+|+++|+|||||
T Consensus 3 ~~~~~i~~li~p~~~~~G~el~dve~~~~~~~~~lrV~ID~~~gv~lddC~~vSr~is~~LD---~~d~i~~~Y~LEVSS 79 (152)
T PRK14640 3 TLEQRLTDLLEAPVVALGFELWGIEFIRAGKHSTLRVYIDGENGVSVENCAEVSHQVGAIMD---VEDPITEEYYLEVSS 79 (152)
T ss_pred hHHHHHHHHHHHHHHhcCCEEEEEEEEecCCCcEEEEEEECCCCCCHHHHHHHHHHHHHHhc---ccccCCCCeEEEEeC
Confidence 36788999999999999999999999 66778999999999999 99999999999999999 578999999999999
Q ss_pred CCCCCCCCChHHHhhcCCCeeEEEE-eecCCCeeEEeEEEEEeeeeCCeeEEEEEeecccccCCCCCCCcccccccccee
Q 022576 200 PGAERMLKVPDDLGRFKEMPITVCY-EDQDSDSREKTGVFLLDSIEMDSEICVWKLADVKENRDPQEKGRPLSRKRRDWR 278 (295)
Q Consensus 200 PGiERpLk~~~df~RfiGr~V~V~l-~~~eG~k~~~~GvL~L~svded~itv~~~LaDVk~nr~~~~KGr~l~kKq~e~~ 278 (295)
||++|||++++||+||+|++|+|++ .+.+|++ .++|+| .+++++++++. .+|++
T Consensus 80 PGl~RpL~~~~~f~r~~G~~v~V~l~~~~~~~k-~~~G~L--~~v~~~~v~l~-------------~~~~~--------- 134 (152)
T PRK14640 80 PGLDRPLFKVAQFEKYVGQEAAVTLRMATNNRR-KFKGVI--KAVQGDMITLT-------------VDGKD--------- 134 (152)
T ss_pred CCCCCcCCCHHHHHHhCCCeEEEEEecccCCce-EEEEEE--EEEeCCEEEEE-------------ECCeE---------
Confidence 9999999999999999999999999 7777775 578988 89999877433 12332
Q ss_pred EEeeccCcceeEEEEeC
Q 022576 279 LNLPFVMHKRVTLYLEY 295 (295)
Q Consensus 279 v~Ipf~~IkkArL~iEF 295 (295)
..|||++|+||||.++|
T Consensus 135 ~~i~~~~I~ka~l~~~~ 151 (152)
T PRK14640 135 EVLAFTNIQKANIVPNF 151 (152)
T ss_pred EEEEhHHeeeEEEeccc
Confidence 78999999999999987
No 2
>PRK14633 hypothetical protein; Provisional
Probab=100.00 E-value=2.2e-38 Score=273.01 Aligned_cols=146 Identities=15% Similarity=0.211 Sum_probs=128.8
Q ss_pred HHHHHHHHHHHHHhhcCCeEEEEEEeeCCCcEEEEEEeCCCC-ChhhHHHHHHHHHHhhhccccCCCCCCCeEEEEecCC
Q 022576 123 WGERALSIAHEVLLQLGDDIKLYAFKATPRGYVYVRLDKLSN-NMEELESYSQEYKKKLDEVGALGEIPDDLALEVSTPG 201 (295)
Q Consensus 123 ~~ekI~el~epvle~~G~eLvdVe~k~~~~~~LrV~IDk~~G-sIDDCe~vSR~Is~~LD~~e~~d~I~~~Y~LEVSSPG 201 (295)
+.++++++++|+++++||+||+|+|...++++|||+||+++| |+|||+++||+|+++|| +.|+|+++|+|||||||
T Consensus 2 ~~~~i~~lv~p~~~~~G~eL~dve~~~~~~~~lrV~ID~~~Gv~lddC~~vSr~i~~~LD---~~d~i~~~Y~LEVSSPG 78 (150)
T PRK14633 2 LLDDLYEIVEPITADLGYILWGIEVVGSGKLTIRIFIDHENGVSVDDCQIVSKEISAVFD---VEDPVSGKYILEVSSPG 78 (150)
T ss_pred hHHHHHHHHHHHHHHCCCEEEEEEEEeCCCcEEEEEEeCCCCCCHHHHHHHHHHHHHHhc---cCcCCCCCeEEEEeCCC
Confidence 457899999999999999999999954445799999999999 99999999999999999 68999999999999999
Q ss_pred CCCCCCChHHHhhcCCCeeEEEE-eecCCCeeEEeEEEEEeeeeCCeeEEEEEeecccccCCCCCCCccccccccceeEE
Q 022576 202 AERMLKVPDDLGRFKEMPITVCY-EDQDSDSREKTGVFLLDSIEMDSEICVWKLADVKENRDPQEKGRPLSRKRRDWRLN 280 (295)
Q Consensus 202 iERpLk~~~df~RfiGr~V~V~l-~~~eG~k~~~~GvL~L~svded~itv~~~LaDVk~nr~~~~KGr~l~kKq~e~~v~ 280 (295)
++|||++++||+||+|++|+|++ .+.+|++ .++|+| .+++++.+++.+. .|+ .+.
T Consensus 79 ldRpL~~~~~f~r~~G~~v~V~~~~~~~~~~-~~~G~L--~~v~~~~i~l~~~------------~~~---------~~~ 134 (150)
T PRK14633 79 MNRQIFNIIQAQALVGFNVKAVTLAPVGSQT-KFKGVL--ERVEGNNVILNLE------------DGK---------EIS 134 (150)
T ss_pred CCCCCCCHHHHHHhCCCeEEEEEecccCCcE-EEEEEE--EEEeCCEEEEEEc------------CCc---------EEE
Confidence 99999999999999999999999 7777775 568988 8999987744321 123 278
Q ss_pred eeccCcceeEEEEeC
Q 022576 281 LPFVMHKRVTLYLEY 295 (295)
Q Consensus 281 Ipf~~IkkArL~iEF 295 (295)
|||++|+||||.++|
T Consensus 135 i~~~~I~ka~l~~~f 149 (150)
T PRK14633 135 FDFDELKKLRVSPDF 149 (150)
T ss_pred EEhHHeeeEEEeccc
Confidence 999999999999987
No 3
>COG0779 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=100.00 E-value=2.2e-38 Score=274.42 Aligned_cols=148 Identities=21% Similarity=0.314 Sum_probs=133.6
Q ss_pred CCCHHHHHHHHHHHHHhhcCCeEEEEEE-eeCCCcEEEEEEeCCCC-ChhhHHHHHHHHHHhhhccccCCCCCCCeEEEE
Q 022576 120 GVPWGERALSIAHEVLLQLGDDIKLYAF-KATPRGYVYVRLDKLSN-NMEELESYSQEYKKKLDEVGALGEIPDDLALEV 197 (295)
Q Consensus 120 ~~~~~ekI~el~epvle~~G~eLvdVe~-k~~~~~~LrV~IDk~~G-sIDDCe~vSR~Is~~LD~~e~~d~I~~~Y~LEV 197 (295)
.++..+++.++++|+++++||+|++|+| +.+++++|||+||+++| |+|||+++||+||+.|| +.|||++.|+|||
T Consensus 3 ~~~~~~~v~~liep~~~~lG~ELv~ve~~~~~~~~~lrI~id~~g~v~lddC~~vSr~is~~LD---~edpi~~~Y~LEV 79 (153)
T COG0779 3 ESPITEKVTELIEPVVESLGFELVDVEFVKEGRDSVLRIYIDKEGGVTLDDCADVSRAISALLD---VEDPIEGAYFLEV 79 (153)
T ss_pred ccchHHHHHHHHHHhHhhcCcEEEEEEEEEcCCCcEEEEEeCCCCCCCHHHHHHHHHHHHHHhc---cCCcccccEEEEe
Confidence 4678899999999999999999999999 77778999999999977 99999999999999999 6899999999999
Q ss_pred ecCCCCCCCCChHHHhhcCCCeeEEEE-eecCCCeeEEeEEEEEeeeeCCeeEEEEEeecccccCCCCCCCccccccccc
Q 022576 198 STPGAERMLKVPDDLGRFKEMPITVCY-EDQDSDSREKTGVFLLDSIEMDSEICVWKLADVKENRDPQEKGRPLSRKRRD 276 (295)
Q Consensus 198 SSPGiERpLk~~~df~RfiGr~V~V~l-~~~eG~k~~~~GvL~L~svded~itv~~~LaDVk~nr~~~~KGr~l~kKq~e 276 (295)
||||+||||++++||.||+|++|+|++ .+.+|+++ +.|.+ .+++++.+++. ..|++
T Consensus 80 SSPGldRpL~~~~~f~r~~G~~Vkv~l~~~~~~~k~-~~G~i--~~~d~~~v~~~-------------~~~k~------- 136 (153)
T COG0779 80 SSPGLDRPLKTAEHFARFIGEKVKVKLRLPIEGRKK-FEGKI--VAVDGETVTLE-------------VDGKE------- 136 (153)
T ss_pred eCCCCCCCcCCHHHHHHhcCcEEEEEEecccCCceE-EEEEE--EEEcCCeEEEE-------------ECCEE-------
Confidence 999999999999999999999999999 88888865 57987 89999976433 12342
Q ss_pred eeEEeeccCcceeEEEEeC
Q 022576 277 WRLNLPFVMHKRVTLYLEY 295 (295)
Q Consensus 277 ~~v~Ipf~~IkkArL~iEF 295 (295)
+.|||++|+||||.+.|
T Consensus 137 --v~Ip~~~i~kArl~~~~ 153 (153)
T COG0779 137 --VEIPFSDIAKARLVPEF 153 (153)
T ss_pred --EEEEcccchhheecccC
Confidence 89999999999999876
No 4
>PRK14647 hypothetical protein; Provisional
Probab=100.00 E-value=4e-38 Score=273.36 Aligned_cols=148 Identities=23% Similarity=0.330 Sum_probs=130.0
Q ss_pred CCHHHHHHHHHHHHHhhcCCeEEEEEE-eeCCCcEEEEEEeCCCC-ChhhHHHHHHHHHHhhhccccCCCCCCCeEEEEe
Q 022576 121 VPWGERALSIAHEVLLQLGDDIKLYAF-KATPRGYVYVRLDKLSN-NMEELESYSQEYKKKLDEVGALGEIPDDLALEVS 198 (295)
Q Consensus 121 ~~~~ekI~el~epvle~~G~eLvdVe~-k~~~~~~LrV~IDk~~G-sIDDCe~vSR~Is~~LD~~e~~d~I~~~Y~LEVS 198 (295)
.+..++|+++++|+++++||+||+|+| +.++.++|||+||+++| |+|||+++||+|+++|| +.|+|+++|+||||
T Consensus 4 ~~~~~~i~~~i~~~~~~~G~~L~dv~~~~~~~~~~lrV~ID~~~gvslddC~~vSr~is~~LD---~~d~i~~~Y~LEVS 80 (159)
T PRK14647 4 VDVVDRVTELAEQVLSSLGLELVELEYKREGREMVLRLFIDKEGGVNLDDCAEVSRELSEILD---VEDFIPERYTLEVS 80 (159)
T ss_pred chHHHHHHHHHHHHHHHCCCEEEEEEEEecCCCeEEEEEEeCCCCCCHHHHHHHHHHHHHHHc---ccccCCCCeEEEEc
Confidence 457889999999999999999999999 55667899999999999 99999999999999999 57899999999999
Q ss_pred cCCCCCCCCChHHHhhcCCCeeEEEE-eecC-----CCeeEEeEEEEEeeeeCCeeEEEEEeecccccCCCCCCCccccc
Q 022576 199 TPGAERMLKVPDDLGRFKEMPITVCY-EDQD-----SDSREKTGVFLLDSIEMDSEICVWKLADVKENRDPQEKGRPLSR 272 (295)
Q Consensus 199 SPGiERpLk~~~df~RfiGr~V~V~l-~~~e-----G~k~~~~GvL~L~svded~itv~~~LaDVk~nr~~~~KGr~l~k 272 (295)
|||++|||++++||+||+|++|+|++ .+.+ |+ +.+.|+| .+++++.+++.+ .+|+
T Consensus 81 SPG~~RpL~~~~~f~r~~G~~v~V~l~~~~~~~~~~~~-~~~~G~L--~~~~~~~v~l~~------------~~~~---- 141 (159)
T PRK14647 81 SPGLDRPLKKEADYERYAGRLVKVRTFELLADEAGNKR-KTFLGEL--EGLADGVVTIAL------------KEGQ---- 141 (159)
T ss_pred CCCCCCcCCCHHHHHHhCCcEEEEEEeccccccccCCc-eEEEEEE--EeecCCEEEEEE------------cCCc----
Confidence 99999999999999999999999999 6554 44 5678987 899988764331 1233
Q ss_pred cccceeEEeeccCcceeEEEEeC
Q 022576 273 KRRDWRLNLPFVMHKRVTLYLEY 295 (295)
Q Consensus 273 Kq~e~~v~Ipf~~IkkArL~iEF 295 (295)
.++|||++|++|+|.++|
T Consensus 142 -----~~~i~~~~I~ka~l~~ef 159 (159)
T PRK14647 142 -----QARIPLDKIAKANLEFEF 159 (159)
T ss_pred -----EEEEEHHHCCEEEEeeeC
Confidence 278999999999999998
No 5
>PRK14632 hypothetical protein; Provisional
Probab=100.00 E-value=1.4e-37 Score=273.53 Aligned_cols=156 Identities=16% Similarity=0.168 Sum_probs=131.6
Q ss_pred CCCHHHHHHHHHHHHHhhcCCeEEEEEEeeCCCcEEEEEEeCCCC-ChhhHHHHHHHHHHhhhccccCCCCCCCeEEEEe
Q 022576 120 GVPWGERALSIAHEVLLQLGDDIKLYAFKATPRGYVYVRLDKLSN-NMEELESYSQEYKKKLDEVGALGEIPDDLALEVS 198 (295)
Q Consensus 120 ~~~~~ekI~el~epvle~~G~eLvdVe~k~~~~~~LrV~IDk~~G-sIDDCe~vSR~Is~~LD~~e~~d~I~~~Y~LEVS 198 (295)
+.+..++|+++++|+++++||+||+|++..++.++|||+||+++| |||||+.+||+|+++|| +.++|+++|+||||
T Consensus 3 ~~~~~~~i~~li~pv~~~~G~eLvdve~~~~~~~~lrV~ID~~~GV~ldDC~~vSr~is~~LD---~~d~i~~~Y~LEVS 79 (172)
T PRK14632 3 KQALDATIADMAGPFLASLGLELWGIELSYGGRTVVRLFVDGPEGVTIDQCAEVSRHVGLALE---VEDVISSAYVLEVS 79 (172)
T ss_pred cchHHHHHHHHHHHHHHHCCCEEEEEEEEeCCCcEEEEEEECCCCCCHHHHHHHHHHHHHHhc---ccccCCCCeEEEEe
Confidence 356788999999999999999999999965677899999999999 99999999999999999 57899999999999
Q ss_pred cCCCCCCCCChHHHhhcCCCeeEEEE-eecC---CCeeEEeEEEEEeeeeCCeeEEEEEeecccccCCCCCCCccccccc
Q 022576 199 TPGAERMLKVPDDLGRFKEMPITVCY-EDQD---SDSREKTGVFLLDSIEMDSEICVWKLADVKENRDPQEKGRPLSRKR 274 (295)
Q Consensus 199 SPGiERpLk~~~df~RfiGr~V~V~l-~~~e---G~k~~~~GvL~L~svded~itv~~~LaDVk~nr~~~~KGr~l~kKq 274 (295)
|||++|||++++||+||+|++|+|++ .+.+ |+ +.+.|+| .+++++.+++... .+.+ ++.
T Consensus 80 SPGldRpL~~~~~f~r~iG~~V~V~l~~~~~~~~g~-k~~~G~L--~~v~~~~i~l~~~-----------~~~~---~~~ 142 (172)
T PRK14632 80 SPGLERPFFRAEQMSPYVGRQIELTLIDPTPEWPGR-RKFRGEL--LAVEGDTVVLRPE-----------GAPA---PEA 142 (172)
T ss_pred CCCCCCcCCCHHHHHHhCCCEEEEEEeccccccCCc-eEEEEEE--EEEeCCEEEEEEc-----------Cccc---ccC
Confidence 99999999999999999999999999 6553 55 4678987 8999987744321 1101 010
Q ss_pred cceeEEeeccCcceeEEEEeC
Q 022576 275 RDWRLNLPFVMHKRVTLYLEY 295 (295)
Q Consensus 275 ~e~~v~Ipf~~IkkArL~iEF 295 (295)
....++|||++|++|+|.++|
T Consensus 143 ~~~~~~i~~~~I~ka~l~~~f 163 (172)
T PRK14632 143 EEAVLRTSWQGVRKANLIHVF 163 (172)
T ss_pred CceeEEEEhHHccEEEEEEEc
Confidence 112489999999999999987
No 6
>PRK14646 hypothetical protein; Provisional
Probab=100.00 E-value=1.3e-37 Score=269.64 Aligned_cols=145 Identities=14% Similarity=0.184 Sum_probs=128.0
Q ss_pred CCCHHHHHHHHHHHHHhhcCCeEEEEEE-eeCCCcEEEEEEeCCC--C-ChhhHHHHHHHHHHhhhccccCCCCCCCeEE
Q 022576 120 GVPWGERALSIAHEVLLQLGDDIKLYAF-KATPRGYVYVRLDKLS--N-NMEELESYSQEYKKKLDEVGALGEIPDDLAL 195 (295)
Q Consensus 120 ~~~~~ekI~el~epvle~~G~eLvdVe~-k~~~~~~LrV~IDk~~--G-sIDDCe~vSR~Is~~LD~~e~~d~I~~~Y~L 195 (295)
.....++|+++++|+++++||+||+|+| +.++.++|||+||+++ | |+|||+.+||+|+++|| ++|+|+++|+|
T Consensus 2 ~~~~~~~i~~li~p~~~~~G~eLvdve~~~~~~~~~LrV~IDk~~g~gVtldDC~~vSr~is~~LD---~~D~i~~~Y~L 78 (155)
T PRK14646 2 NKENKSKLEILLEKVANEFDLKICSLNIQTNQNPIVIKIIIKKTNGDDISLDDCALFNTPASEEIE---NSNLLNCSYVL 78 (155)
T ss_pred CchHHHHHHHHHHHHHHHcCCEEEEEEEEeCCCCeEEEEEEECCCCCCccHHHHHHHHHHHHHHhC---cCCCCCCCeEE
Confidence 3567889999999999999999999999 6677889999999985 4 99999999999999999 68999999999
Q ss_pred EEecCCCCCCCCChHHHhhcCCCeeEEEE-eecCCCeeEEeEEEEEeeeeCCeeEEEEEeecccccCCCCCCCccccccc
Q 022576 196 EVSTPGAERMLKVPDDLGRFKEMPITVCY-EDQDSDSREKTGVFLLDSIEMDSEICVWKLADVKENRDPQEKGRPLSRKR 274 (295)
Q Consensus 196 EVSSPGiERpLk~~~df~RfiGr~V~V~l-~~~eG~k~~~~GvL~L~svded~itv~~~LaDVk~nr~~~~KGr~l~kKq 274 (295)
||||||++|||++++||+||+|++|+|++ .+.+|+ +.+.|+| .+++++.+++. .+|+.
T Consensus 79 EVSSPGldRpL~~~~df~r~~G~~v~V~l~~~~~~~-~~~~G~L--~~~~~~~v~l~-------------~~g~~----- 137 (155)
T PRK14646 79 EISSQGVSDELTSERDFKTFKGFPVNVELNQKNSKI-KFLNGLL--YEKSKDYLAIN-------------IKGKI----- 137 (155)
T ss_pred EEcCCCCCCcCCCHHHHHHhCCCEEEEEEecCcCCe-EEEEEEE--EEEeCCEEEEE-------------ECCEE-----
Confidence 99999999999999999999999999999 666665 5678987 89999876432 13442
Q ss_pred cceeEEeeccCcceeEEE
Q 022576 275 RDWRLNLPFVMHKRVTLY 292 (295)
Q Consensus 275 ~e~~v~Ipf~~IkkArL~ 292 (295)
+.|||++|+||||.
T Consensus 138 ----~~i~~~~I~ka~L~ 151 (155)
T PRK14646 138 ----KKIPFNEVLKISLC 151 (155)
T ss_pred ----EEEEHHHeeeEEeC
Confidence 78999999999985
No 7
>PRK14643 hypothetical protein; Provisional
Probab=100.00 E-value=1.1e-37 Score=272.52 Aligned_cols=152 Identities=12% Similarity=0.167 Sum_probs=130.9
Q ss_pred CHHHHHHHHHHHHHhhcCCeEEEEEE-eeCCCcEEEEEEeC---C-CC-ChhhHHHHHHHHHHhhhccccCCCCCCCeEE
Q 022576 122 PWGERALSIAHEVLLQLGDDIKLYAF-KATPRGYVYVRLDK---L-SN-NMEELESYSQEYKKKLDEVGALGEIPDDLAL 195 (295)
Q Consensus 122 ~~~ekI~el~epvle~~G~eLvdVe~-k~~~~~~LrV~IDk---~-~G-sIDDCe~vSR~Is~~LD~~e~~d~I~~~Y~L 195 (295)
.+.++++++++|+++++||+||+++| +.++.++|||+||+ + +| |+|||+.+||+|+++|| +.|+|+++|+|
T Consensus 6 ~~~~~l~~l~~p~~~~~G~eL~die~~~~~~~~~lrV~Id~~~~~~ggvtldDC~~vSr~is~~LD---~~d~i~~~Y~L 82 (164)
T PRK14643 6 SIKFQINELVNKELEVLNLKVYEINNLKEFENDMIQILVEDILQANKPLDFDILIKANDLVSNKID---QFIKTSEKYLL 82 (164)
T ss_pred HHHHHHHHHHHHHHHhcCCEEEEEEEEecCCCcEEEEEEecCCCcCCCcCHHHHHHHHHHHHHHhC---ccCCCCCCeEE
Confidence 35678999999999999999999999 66778999999986 4 45 99999999999999999 68999999999
Q ss_pred EEecCCCCCCCCChHHHhhcCCCeeEEEE-eecCCCeeEEeEEEEEeeeeCCeeEEEEEeecccccCCCCCCCccccccc
Q 022576 196 EVSTPGAERMLKVPDDLGRFKEMPITVCY-EDQDSDSREKTGVFLLDSIEMDSEICVWKLADVKENRDPQEKGRPLSRKR 274 (295)
Q Consensus 196 EVSSPGiERpLk~~~df~RfiGr~V~V~l-~~~eG~k~~~~GvL~L~svded~itv~~~LaDVk~nr~~~~KGr~l~kKq 274 (295)
||||||++|||++++||.||+|++|+|++ .+.+|++ .+.|+| .+++++.+++.+.+. ++ ..|++
T Consensus 83 EVSSPGleRpL~~~~df~r~~G~~V~V~l~~~~~g~k-~~~G~L--~~~~~~~~~l~l~~~-~~------~~~~~----- 147 (164)
T PRK14643 83 EISSSGIEKQIRSQEELVKALNQWVYVQLNNEIKKVK-EFEGYV--TKYNVNTNTFRFTFF-IK------GQKKK----- 147 (164)
T ss_pred EecCCCCCCCCCCHHHHHHhcCCeEEEEEecccCCce-EEEEEE--EEEeCCcEEEEEEee-cc------CcCcE-----
Confidence 99999999999999999999999999999 7788875 568998 899988775553311 00 11232
Q ss_pred cceeEEeeccCcceeEEEEeC
Q 022576 275 RDWRLNLPFVMHKRVTLYLEY 295 (295)
Q Consensus 275 ~e~~v~Ipf~~IkkArL~iEF 295 (295)
++|||++|++|||.++|
T Consensus 148 ----~~ip~~~I~karl~~~f 164 (164)
T PRK14643 148 ----LDVKYEQIKFIRYAVRF 164 (164)
T ss_pred ----EEEeHHHhhheEecccC
Confidence 78999999999999987
No 8
>PRK14634 hypothetical protein; Provisional
Probab=100.00 E-value=1.3e-37 Score=269.50 Aligned_cols=145 Identities=19% Similarity=0.231 Sum_probs=128.7
Q ss_pred CHHHHHHHHHHHHHhhcCCeEEEEEE-eeCCCcEEEEEEeCCCC---ChhhHHHHHHHHHHhhhccccCCCCCCCeEEEE
Q 022576 122 PWGERALSIAHEVLLQLGDDIKLYAF-KATPRGYVYVRLDKLSN---NMEELESYSQEYKKKLDEVGALGEIPDDLALEV 197 (295)
Q Consensus 122 ~~~ekI~el~epvle~~G~eLvdVe~-k~~~~~~LrV~IDk~~G---sIDDCe~vSR~Is~~LD~~e~~d~I~~~Y~LEV 197 (295)
+..++|+++++|+++++||+||+|+| +.++.++|||+||+++| |+|||+++||+|+++|| +.|+|+++|+|||
T Consensus 4 ~~~~~i~~l~~~~~~~~G~elvdve~~~~~~~~~lrV~ID~~~g~~v~lddC~~vSr~is~~LD---~~d~i~~~Y~LEV 80 (155)
T PRK14634 4 PLLPDLETLASATAADKGFELCGIQVLTHLQPMTLQVQIRRSSGSDVSLDDCAGFSGPMGEALE---ASQLLTEAYVLEI 80 (155)
T ss_pred hhHHHHHHHHHHHHHHcCCEEEEEEEEeCCCCcEEEEEEECCCCCcccHHHHHHHHHHHHHHhc---ccccCCCCeEEEE
Confidence 57789999999999999999999999 66778999999999877 99999999999999999 5789999999999
Q ss_pred ecCCCCCCCCChHHHhhcCCCeeEEEE-eecCCCeeEEeEEEEEeeeeCCeeEEEEEeecccccCCCCCCCccccccccc
Q 022576 198 STPGAERMLKVPDDLGRFKEMPITVCY-EDQDSDSREKTGVFLLDSIEMDSEICVWKLADVKENRDPQEKGRPLSRKRRD 276 (295)
Q Consensus 198 SSPGiERpLk~~~df~RfiGr~V~V~l-~~~eG~k~~~~GvL~L~svded~itv~~~LaDVk~nr~~~~KGr~l~kKq~e 276 (295)
||||++|||++++||+||+|++|+|++ .+.+|++ .++|+| .+++++.+++.+ +|+
T Consensus 81 SSPGldRpL~~~~~f~r~~G~~V~V~l~~~~~~~k-~~~G~L--~~~~~~~v~l~~-------------~~~-------- 136 (155)
T PRK14634 81 SSPGIGDQLSSDRDFQTFRGFPVEVSHRDDDGSEQ-RLEGLL--LERNEDHLQINI-------------RGR-------- 136 (155)
T ss_pred eCCCCCCcCCCHHHHHHhCCCeEEEEEecCCCCeE-EEEEEE--EEEeCCEEEEEE-------------CCE--------
Confidence 999999999999999999999999999 6677764 578987 899998774431 233
Q ss_pred eeEEeeccCcceeEEEEe
Q 022576 277 WRLNLPFVMHKRVTLYLE 294 (295)
Q Consensus 277 ~~v~Ipf~~IkkArL~iE 294 (295)
.++|||++|+||||.++
T Consensus 137 -~~~i~~~~I~ka~l~~~ 153 (155)
T PRK14634 137 -IKRIPRDSVISVRLTNP 153 (155)
T ss_pred -EEEEEHHHeeeEEeCCC
Confidence 27899999999999764
No 9
>PRK14638 hypothetical protein; Provisional
Probab=100.00 E-value=4.4e-37 Score=265.06 Aligned_cols=143 Identities=20% Similarity=0.258 Sum_probs=126.1
Q ss_pred CHHHHHHHHHHHHHhhcCCeEEEEEE-eeCCCcEEEEEEeCCCC--ChhhHHHHHHHHHHhhhccccCCCCCCCeEEEEe
Q 022576 122 PWGERALSIAHEVLLQLGDDIKLYAF-KATPRGYVYVRLDKLSN--NMEELESYSQEYKKKLDEVGALGEIPDDLALEVS 198 (295)
Q Consensus 122 ~~~ekI~el~epvle~~G~eLvdVe~-k~~~~~~LrV~IDk~~G--sIDDCe~vSR~Is~~LD~~e~~d~I~~~Y~LEVS 198 (295)
+..++++++++|+++++||+||+|+| +.+++++|||+||+++| ++|||+.+||.|+++|| +.++|+++|+||||
T Consensus 5 ~~~~~i~~~~~~i~~~~G~elvdve~~~~~~~~~lrV~ID~~~G~v~lddC~~vSr~is~~LD---~~d~i~~~Y~LEVS 81 (150)
T PRK14638 5 MILEKVRKEAERIAEEQGLEIFDVQYRRESRGWVLRIIIDNPVGYVSVRDCELFSREIERFLD---REDLIEHSYTLEVS 81 (150)
T ss_pred hHHHHHHHHHHHHHHHcCCEEEEEEEEecCCCcEEEEEEECCCCCcCHHHHHHHHHHHHHHhc---cccccCCceEEEEe
Confidence 46788999999999999999999999 66678999999999977 99999999999999999 57899999999999
Q ss_pred cCCCCCCCCChHHHhhcCCCeeEEEEeecCCCeeEEeEEEEEeeeeCCeeEEEEEeecccccCCCCCCCcccccccccee
Q 022576 199 TPGAERMLKVPDDLGRFKEMPITVCYEDQDSDSREKTGVFLLDSIEMDSEICVWKLADVKENRDPQEKGRPLSRKRRDWR 278 (295)
Q Consensus 199 SPGiERpLk~~~df~RfiGr~V~V~l~~~eG~k~~~~GvL~L~svded~itv~~~LaDVk~nr~~~~KGr~l~kKq~e~~ 278 (295)
|||++|||++++||+||+|++|+|++. |+ +.++|+| .+++++.+++ . .+|+ .
T Consensus 82 SPGldRpL~~~~~f~r~~G~~v~V~~~---~~-k~~~G~L--~~~~~~~i~l--~-----------~~~~---------~ 133 (150)
T PRK14638 82 SPGLDRPLRGPKDYVRFTGKLAKIVTK---DG-KTFIGRI--ESFVDGTITI--S-----------DEKE---------K 133 (150)
T ss_pred CCCCCCCCCCHHHHHHhCCCEEEEEEC---CC-cEEEEEE--EEEeCCEEEE--E-----------ECCc---------E
Confidence 999999999999999999999999994 33 3568987 8999887633 2 1223 2
Q ss_pred EEeeccCcceeEEEEeC
Q 022576 279 LNLPFVMHKRVTLYLEY 295 (295)
Q Consensus 279 v~Ipf~~IkkArL~iEF 295 (295)
++|||++|++|+|.++|
T Consensus 134 ~~i~~~~I~~a~l~~ef 150 (150)
T PRK14638 134 YEINIDDVKRANLEVEF 150 (150)
T ss_pred EEEEhHHcceEEEeeeC
Confidence 78999999999999987
No 10
>PRK00092 ribosome maturation protein RimP; Reviewed
Probab=100.00 E-value=9.7e-37 Score=262.62 Aligned_cols=148 Identities=24% Similarity=0.379 Sum_probs=129.9
Q ss_pred CHHHHHHHHHHHHHhhcCCeEEEEEE-eeCCCcEEEEEEeCCCC-ChhhHHHHHHHHHHhhhccccCCCCCCCeEEEEec
Q 022576 122 PWGERALSIAHEVLLQLGDDIKLYAF-KATPRGYVYVRLDKLSN-NMEELESYSQEYKKKLDEVGALGEIPDDLALEVST 199 (295)
Q Consensus 122 ~~~ekI~el~epvle~~G~eLvdVe~-k~~~~~~LrV~IDk~~G-sIDDCe~vSR~Is~~LD~~e~~d~I~~~Y~LEVSS 199 (295)
+..++|.++++|+++.+||+|++|++ +.+++++|+|+||+++| ++|||+++||+|+++|| +.++|+++|+|||||
T Consensus 4 ~~~~~i~~~~~~~~~~~g~~l~dv~~~~~~~~~~l~V~Id~~~gv~iddc~~~Sr~is~~LD---~~d~i~~~Y~LEVSS 80 (154)
T PRK00092 4 PLEEQLTELIEPVVEALGYELVDVEYVKEGRDSTLRIYIDKEGGIDLDDCEEVSRQISAVLD---VEDPIPGAYTLEVSS 80 (154)
T ss_pred hHHHHHHHHHHHHHHHCCCEEEEEEEEecCCCcEEEEEEECCCCCCHHHHHHHHHHHHHHhc---cccCCCCCeEEEEeC
Confidence 56789999999999999999999999 66678899999999999 99999999999999999 578999999999999
Q ss_pred CCCCCCCCChHHHhhcCCCeeEEEE-eecCCCeeEEeEEEEEeeeeCCeeEEEEEeecccccCCCCCCCcccccccccee
Q 022576 200 PGAERMLKVPDDLGRFKEMPITVCY-EDQDSDSREKTGVFLLDSIEMDSEICVWKLADVKENRDPQEKGRPLSRKRRDWR 278 (295)
Q Consensus 200 PGiERpLk~~~df~RfiGr~V~V~l-~~~eG~k~~~~GvL~L~svded~itv~~~LaDVk~nr~~~~KGr~l~kKq~e~~ 278 (295)
||++|||++++||+||+|++|+|++ .+.+|++ .++|.| .+++++++++.+ +|++ | .
T Consensus 81 PGi~RpL~~~~~f~r~~G~~v~V~~~~~~~~~~-~~~G~L--~~~~~~~i~l~~-------------~~~~---~----~ 137 (154)
T PRK00092 81 PGLDRPLKKARDFRRFIGREVKVKLYEPIDGRK-KFQGIL--LAVDGETVTLEV-------------EGKE---K----E 137 (154)
T ss_pred CCCCCcCCCHHHHHHhCCCeEEEEEEcccCCce-EEEEEE--EEeeCCEEEEEE-------------CCCe---E----E
Confidence 9999999999999999999999999 6566664 568987 899998774331 1221 1 2
Q ss_pred EEeeccCcceeEEEEeC
Q 022576 279 LNLPFVMHKRVTLYLEY 295 (295)
Q Consensus 279 v~Ipf~~IkkArL~iEF 295 (295)
++|||++|++|+|.++|
T Consensus 138 ~~i~~~~I~~a~l~~ef 154 (154)
T PRK00092 138 VEIPLDNIAKARLVVEF 154 (154)
T ss_pred EEEEHHHcceEEEeeeC
Confidence 88999999999999998
No 11
>PRK14639 hypothetical protein; Provisional
Probab=100.00 E-value=2e-36 Score=258.31 Aligned_cols=137 Identities=18% Similarity=0.198 Sum_probs=119.6
Q ss_pred HHHHHHhhcCCeEEEEEE-eeCCCcEEEEEEeCCCC-ChhhHHHHHHHHHHhhhccccCCCCCCCeEEEEecCCCCCCCC
Q 022576 130 IAHEVLLQLGDDIKLYAF-KATPRGYVYVRLDKLSN-NMEELESYSQEYKKKLDEVGALGEIPDDLALEVSTPGAERMLK 207 (295)
Q Consensus 130 l~epvle~~G~eLvdVe~-k~~~~~~LrV~IDk~~G-sIDDCe~vSR~Is~~LD~~e~~d~I~~~Y~LEVSSPGiERpLk 207 (295)
.++|+++++||+||+|+| +.+++++|||+||+++| |+|||+++||+|++.|| +.|+|+++|+|||||||++|||+
T Consensus 2 ~~ep~~~~~G~eLvdve~~~~~~~~~lrV~Id~~~gv~iddC~~vSr~is~~LD---~~d~i~~~Y~LEVSSPGl~RpL~ 78 (140)
T PRK14639 2 NLEALCKECGVSFYDDELVSENGRKIYRVYITKEGGVNLDDCERLSELLSPIFD---VEPPVSGEYFLEVSSPGLERKLS 78 (140)
T ss_pred chhHhHHhCCCEEEEEEEEecCCCcEEEEEEeCCCCCCHHHHHHHHHHHHHHhc---cccccCCCeEEEEeCCCCCCcCC
Confidence 368999999999999999 66778899999999999 99999999999999999 57899999999999999999999
Q ss_pred ChHHHhhcCCCeeEEEEeecCCCeeEEeEEEEEeeeeCCeeEEEEEeecccccCCCCCCCccccccccceeEEeeccCcc
Q 022576 208 VPDDLGRFKEMPITVCYEDQDSDSREKTGVFLLDSIEMDSEICVWKLADVKENRDPQEKGRPLSRKRRDWRLNLPFVMHK 287 (295)
Q Consensus 208 ~~~df~RfiGr~V~V~l~~~eG~k~~~~GvL~L~svded~itv~~~LaDVk~nr~~~~KGr~l~kKq~e~~v~Ipf~~Ik 287 (295)
+++||+||+|++|+|++. ++ +.+.|+| .+++++++++... .+++ .++|||++|+
T Consensus 79 ~~~~f~r~~G~~v~v~l~---~~-~~~~G~L--~~~~~~~i~l~~~-----------~~~~---------~~~i~~~~I~ 132 (140)
T PRK14639 79 KIEHFAKSIGELVKITTN---EK-EKFEGKI--VSVDDENITLENL-----------ENKE---------KTTINFNDIK 132 (140)
T ss_pred CHHHHHHhCCCEEEEEEC---CC-cEEEEEE--EEEeCCEEEEEEc-----------cCCc---------EEEEEhHHee
Confidence 999999999999999984 23 3578987 8999987743210 1122 2789999999
Q ss_pred eeEEEEeC
Q 022576 288 RVTLYLEY 295 (295)
Q Consensus 288 kArL~iEF 295 (295)
||+|+++|
T Consensus 133 ka~l~~~~ 140 (140)
T PRK14639 133 KAKTYVEW 140 (140)
T ss_pred eEEEEEeC
Confidence 99999997
No 12
>PRK14636 hypothetical protein; Provisional
Probab=100.00 E-value=3.8e-36 Score=265.41 Aligned_cols=145 Identities=21% Similarity=0.274 Sum_probs=126.8
Q ss_pred HHHHHHHHHHHHHhhcCCeEEEEEE-eeCCCcEEEEEEeCCC--C-ChhhHHHHHHHHHHhhhccccCCCCCCCeEEEEe
Q 022576 123 WGERALSIAHEVLLQLGDDIKLYAF-KATPRGYVYVRLDKLS--N-NMEELESYSQEYKKKLDEVGALGEIPDDLALEVS 198 (295)
Q Consensus 123 ~~ekI~el~epvle~~G~eLvdVe~-k~~~~~~LrV~IDk~~--G-sIDDCe~vSR~Is~~LD~~e~~d~I~~~Y~LEVS 198 (295)
..++|.++++|+++.+||+||+|+| +.+++++|||+||+++ | ++|||+.+||+|++.|| +.++|+++|+||||
T Consensus 3 ~~~~i~~lvep~~~~~GleLvdve~~~~~~~~~lrV~ID~~~~ggV~lDDC~~vSr~Is~~LD---~~d~i~~~Y~LEVS 79 (176)
T PRK14636 3 DIAALTALIEPEAKALGLDLVRVAMFGGKSDPTLQIMAERPDTRQLVIEDCAALSRRLSDVFD---ELDPIEDAYRLEVS 79 (176)
T ss_pred hHHHHHHHHHHHHHHcCCEEEEEEEEcCCCCeEEEEEEECCCCCCcCHHHHHHHHHHHHHHhc---cCcCCCCCeEEEEe
Confidence 4688999999999999999999999 5567889999999984 4 99999999999999999 57899999999999
Q ss_pred cCCCCCCCCChHHHhhcCCCeeEEEE-eecCCCeeEEeEEEEEeeeeCCeeEEEEEeecccccCCCCCCCccccccccce
Q 022576 199 TPGAERMLKVPDDLGRFKEMPITVCY-EDQDSDSREKTGVFLLDSIEMDSEICVWKLADVKENRDPQEKGRPLSRKRRDW 277 (295)
Q Consensus 199 SPGiERpLk~~~df~RfiGr~V~V~l-~~~eG~k~~~~GvL~L~svded~itv~~~LaDVk~nr~~~~KGr~l~kKq~e~ 277 (295)
|||++|||++++||+||+|++|+|++ .+.+|++ .+.|+| .+++++.+++.+. +|+
T Consensus 80 SPGldRpL~~~~df~r~~G~~V~V~l~~~~~g~k-~~~G~L--~~v~~~~v~l~~~------------~~~--------- 135 (176)
T PRK14636 80 SPGIDRPLTRPKDFADWAGHEARIALSEPLDGRK-QFRGEL--KGIDGDTVTIADN------------KAG--------- 135 (176)
T ss_pred CCCCCCCCCCHHHHHHhCCCeEEEEEecccCCeE-EEEEEE--EEEeCCEEEEEEc------------CCc---------
Confidence 99999999999999999999999999 7777764 568987 8999987643321 122
Q ss_pred eEEeeccCcceeEEEEe
Q 022576 278 RLNLPFVMHKRVTLYLE 294 (295)
Q Consensus 278 ~v~Ipf~~IkkArL~iE 294 (295)
.++|||++|++|||.++
T Consensus 136 ~~~i~~~~I~kA~l~~~ 152 (176)
T PRK14636 136 EVILPFAAIESAKLILT 152 (176)
T ss_pred EEEEEhHHcceEEEecc
Confidence 27899999999999864
No 13
>PRK14631 hypothetical protein; Provisional
Probab=100.00 E-value=6.6e-36 Score=263.56 Aligned_cols=146 Identities=16% Similarity=0.195 Sum_probs=126.3
Q ss_pred CHHHHHHHHHHHHHhhcCCeEEEEEE-eeCCCcEEEEEEeCC------------------CC-ChhhHHHHHHHHHHhhh
Q 022576 122 PWGERALSIAHEVLLQLGDDIKLYAF-KATPRGYVYVRLDKL------------------SN-NMEELESYSQEYKKKLD 181 (295)
Q Consensus 122 ~~~ekI~el~epvle~~G~eLvdVe~-k~~~~~~LrV~IDk~------------------~G-sIDDCe~vSR~Is~~LD 181 (295)
...++|+++++|+++++||+||+|+| +.++.++|||+||++ +| +||||+++||+|+++||
T Consensus 5 ~~~~~i~~li~p~~~~~G~eLvdve~~~~~~~~~LrV~ID~~~~~~~~~~~~~~~~~~~~~gvtiddC~~vSr~is~~LD 84 (174)
T PRK14631 5 NKSQALTDIIAPAVAACGVDLWGIEFLPQGKRSLLRIYIDRLVEENAEPVINEDGEVEQGRGIGVEDCVRVTQQVGAMLD 84 (174)
T ss_pred hHHHHHHHHHHHHHHHcCCEEEEEEEEeCCCceEEEEEEecCcccccccccccccccccCCCcCHHHHHHHHHHHHHHhc
Confidence 46788999999999999999999999 556788999999985 45 99999999999999999
Q ss_pred ccccCCCCCCCeEEEEecCCCCCCCCChHHHhhcCCCeeEEEE-eecCCCeeEEeEEEEEeeee--CCeeEEEEEeeccc
Q 022576 182 EVGALGEIPDDLALEVSTPGAERMLKVPDDLGRFKEMPITVCY-EDQDSDSREKTGVFLLDSIE--MDSEICVWKLADVK 258 (295)
Q Consensus 182 ~~e~~d~I~~~Y~LEVSSPGiERpLk~~~df~RfiGr~V~V~l-~~~eG~k~~~~GvL~L~svd--ed~itv~~~LaDVk 258 (295)
+.|+|+++|+|||||||++|||++++||+||+|+.|+|++ .+.+|++ .++|+| .+++ ++.+ ++.+.
T Consensus 85 ---~~d~i~~~Y~LEVSSPGldRpL~~~~df~r~~G~~V~V~l~~~~~~~k-~~~G~L--~~v~~~~~~v--~l~~~--- 153 (174)
T PRK14631 85 ---VHDPISGEYALEVSSPGWDRPFFQLEQLQGYIGQQVALRLIAAVENRR-KFQAKL--LAVDLENEEI--QVEVE--- 153 (174)
T ss_pred ---ccccCCCCeEEEEeCCCCCCcCCCHHHHHHhCCCeEEEEEecccCCce-EEEEEE--EEeecCCCEE--EEEEc---
Confidence 5789999999999999999999999999999999999999 7777775 568987 8888 7766 33310
Q ss_pred ccCCCCCCCccccccccceeEEeeccCcceeEEEEe
Q 022576 259 ENRDPQEKGRPLSRKRRDWRLNLPFVMHKRVTLYLE 294 (295)
Q Consensus 259 ~nr~~~~KGr~l~kKq~e~~v~Ipf~~IkkArL~iE 294 (295)
.++ .+.|||++|+||+|.++
T Consensus 154 -------~~~---------~~~i~~~~I~ka~L~~~ 173 (174)
T PRK14631 154 -------GKH---------VLDIDSNNIDKANLIYQ 173 (174)
T ss_pred -------CCc---------EEEEEhHHcceEEEeec
Confidence 112 27899999999999864
No 14
>PRK14635 hypothetical protein; Provisional
Probab=100.00 E-value=3.3e-35 Score=255.94 Aligned_cols=155 Identities=25% Similarity=0.354 Sum_probs=124.0
Q ss_pred CCHHHHHHHHHHHHHhhcCCeEEEEEE-eeCCCcEEEEEEeC----CCC-ChhhHHHHHHHHHHhhhccccCCCCCCCeE
Q 022576 121 VPWGERALSIAHEVLLQLGDDIKLYAF-KATPRGYVYVRLDK----LSN-NMEELESYSQEYKKKLDEVGALGEIPDDLA 194 (295)
Q Consensus 121 ~~~~ekI~el~epvle~~G~eLvdVe~-k~~~~~~LrV~IDk----~~G-sIDDCe~vSR~Is~~LD~~e~~d~I~~~Y~ 194 (295)
|+..++|+++++|+++ .|++||+|+| +.+++++|+|+||+ ++| +||||+++||+|+++|| +.+++ ++|+
T Consensus 2 ~~~~~~i~~l~~~~~~-~g~el~dve~~~~~~~~~lrV~ID~~~~~~~gv~lddC~~vSr~is~~LD---~~d~~-~~Y~ 76 (162)
T PRK14635 2 TVSEEEISEILDRVLA-LPVKLYSLKVNQRPNHSLIEVVLDNLEHPYGSVSLLECEQVSRKLKEELE---RISPD-LDFT 76 (162)
T ss_pred CCcHHHHHHHHHHHHC-CCCEEEEEEEEecCCCcEEEEEEecCCCCCCCcCHHHHHHHHHHHHHHhC---CCCCC-CCeE
Confidence 5678899999999996 6999999999 66677899999997 356 99999999999999999 45665 7999
Q ss_pred EEEecCCCCCCCCChHHHhhcCCCeeEEEEeecCCCeeEEeEEEEEeeeeCCeeEEEEEeecccccCCCCCCCccccccc
Q 022576 195 LEVSTPGAERMLKVPDDLGRFKEMPITVCYEDQDSDSREKTGVFLLDSIEMDSEICVWKLADVKENRDPQEKGRPLSRKR 274 (295)
Q Consensus 195 LEVSSPGiERpLk~~~df~RfiGr~V~V~l~~~eG~k~~~~GvL~L~svded~itv~~~LaDVk~nr~~~~KGr~l~kKq 274 (295)
|||||||++|||++++||+||+|++|+|++.. +|.+++..|+.+|.+++++++++.+. .|+++ ++.
T Consensus 77 LEVSSPGldRpL~~~~~~~r~~G~~v~v~~~~-~~~~~~~g~~g~L~~~~~~~v~l~~~-----------~k~~~--~~~ 142 (162)
T PRK14635 77 LKVSSAGAERKLRLPEDLDRFRGIPVRLVFRS-EESEKWQEGIFRLVNRDGDQVELEKF-----------QKGKK--SKV 142 (162)
T ss_pred EEEcCCCCCCcCCCHHHHHHhCCCEEEEEEec-CCCcEEEecceEEEEEcCCEEEEEEe-----------ccccc--ccC
Confidence 99999999999999999999999999999842 34444444434458999998754432 12221 111
Q ss_pred cceeEEeeccCcceeEEEEeC
Q 022576 275 RDWRLNLPFVMHKRVTLYLEY 295 (295)
Q Consensus 275 ~e~~v~Ipf~~IkkArL~iEF 295 (295)
...++|||++|++|+|+++.
T Consensus 143 -~~~~~ip~~~I~ka~l~~e~ 162 (162)
T PRK14635 143 -KKQTTLNLKDILKGNLYVEI 162 (162)
T ss_pred -CeEEEEEhHHeeeeEEEEeC
Confidence 12489999999999999874
No 15
>PRK14630 hypothetical protein; Provisional
Probab=100.00 E-value=4.1e-35 Score=251.13 Aligned_cols=135 Identities=21% Similarity=0.285 Sum_probs=117.5
Q ss_pred HHHHHHHHHHHHhhcCCeEEEEEE-eeCCCcEEEEEEeCCCC-ChhhHHHHHHHHHHhhhccccCCCCCCCeEEEEecCC
Q 022576 124 GERALSIAHEVLLQLGDDIKLYAF-KATPRGYVYVRLDKLSN-NMEELESYSQEYKKKLDEVGALGEIPDDLALEVSTPG 201 (295)
Q Consensus 124 ~ekI~el~epvle~~G~eLvdVe~-k~~~~~~LrV~IDk~~G-sIDDCe~vSR~Is~~LD~~e~~d~I~~~Y~LEVSSPG 201 (295)
..+|+++++|+++++||+||+++| +.+++++|||+||+++| ++|||+++||+|++.|| ++|+++|+|||||||
T Consensus 7 ~~~i~~li~~~~~~~G~eLvdve~~~~~~~~~lrV~Id~~~gV~idDC~~vSr~i~~~ld-----~~i~~~Y~LEVSSPG 81 (143)
T PRK14630 7 NSEVYNLIKNVTDRLGIEIIEINTFRNRNEGKIQIVLYKKDSFGVDTLCDLHKMILLILE-----AVLKYNFSLEISTPG 81 (143)
T ss_pred HHHHHHHHHHHHHHcCCEEEEEEEEecCCCcEEEEEEECCCCCCHHHHHHHHHHHHHHhc-----ccCCCCeEEEEeCCC
Confidence 468999999999999999999999 66778899999999999 99999999999999998 388999999999999
Q ss_pred CCCCCCChHHHhhcCCCeeEEEEeecCCCeeEEeEEEEEeeeeCCeeEEEEEeecccccCCCCCCCccccccccceeEEe
Q 022576 202 AERMLKVPDDLGRFKEMPITVCYEDQDSDSREKTGVFLLDSIEMDSEICVWKLADVKENRDPQEKGRPLSRKRRDWRLNL 281 (295)
Q Consensus 202 iERpLk~~~df~RfiGr~V~V~l~~~eG~k~~~~GvL~L~svded~itv~~~LaDVk~nr~~~~KGr~l~kKq~e~~v~I 281 (295)
++|||++++||+||+|++|+|++. +. ...|+| .+++++++++ . .+|+ .+.|
T Consensus 82 ldRpL~~~~df~r~~G~~v~V~l~---~~--~~~G~L--~~~~d~~i~l--~-----------~~~~---------~~~i 132 (143)
T PRK14630 82 INRKIKSDREFKIFEGKKIKLMLD---ND--FEEGFI--LEAKADSFIF--K-----------TDSK---------EVNV 132 (143)
T ss_pred CCCcCCCHHHHHHhCCCEEEEEEc---Cc--ceEEEE--EEEeCCEEEE--E-----------ECCE---------EEEE
Confidence 999999999999999999999993 11 126887 8999987733 2 1223 2889
Q ss_pred eccCcceeEEE
Q 022576 282 PFVMHKRVTLY 292 (295)
Q Consensus 282 pf~~IkkArL~ 292 (295)
||++|+||||.
T Consensus 133 ~~~~I~ka~lv 143 (143)
T PRK14630 133 LYSDVKKAKLS 143 (143)
T ss_pred EhHhcceEEEC
Confidence 99999999983
No 16
>PRK14641 hypothetical protein; Provisional
Probab=100.00 E-value=2.4e-34 Score=253.48 Aligned_cols=155 Identities=21% Similarity=0.274 Sum_probs=125.3
Q ss_pred HHHHHHHHHHHHH--hhcCCeEEEEEE-eeCCCcEEEEEEeCCCC-ChhhHHHHHHHHHHhhhccccCCCCC----CCeE
Q 022576 123 WGERALSIAHEVL--LQLGDDIKLYAF-KATPRGYVYVRLDKLSN-NMEELESYSQEYKKKLDEVGALGEIP----DDLA 194 (295)
Q Consensus 123 ~~ekI~el~epvl--e~~G~eLvdVe~-k~~~~~~LrV~IDk~~G-sIDDCe~vSR~Is~~LD~~e~~d~I~----~~Y~ 194 (295)
..+.+.++++|++ +++||+|++|++ +.+++++|||+||+++| +||||+++||+|++.||+ .++++ ++|+
T Consensus 5 i~~~~~~~~~~~~~~~~~G~eLvdve~~~~~~~~~lrV~ID~~~gv~lDdC~~vSr~Is~~LD~---~d~i~~~~~~~Y~ 81 (173)
T PRK14641 5 INNCVLQVLEASAGTKGEGVYLVSMTVKGSGKGRKIEVLLDADTGIRIDQCAFFSRRIRERLEE---DEELLGLVGEDFD 81 (173)
T ss_pred HHHHHHHHHHhhhccccCCeEEEEEEEEeCCCCcEEEEEEeCCCCCCHHHHHHHHHHHHHHhCc---ccccccCCCCCeE
Confidence 5678889999988 899999999999 55678899999999989 999999999999999994 45554 7999
Q ss_pred EEEecCCCCCCCCChHHHhhcCCCeeEEEE-eecCCCeeEEeEEEEEeeee-----CCeeEEEEEeecccccCCCCCCCc
Q 022576 195 LEVSTPGAERMLKVPDDLGRFKEMPITVCY-EDQDSDSREKTGVFLLDSIE-----MDSEICVWKLADVKENRDPQEKGR 268 (295)
Q Consensus 195 LEVSSPGiERpLk~~~df~RfiGr~V~V~l-~~~eG~k~~~~GvL~L~svd-----ed~itv~~~LaDVk~nr~~~~KGr 268 (295)
|||||||++|||++++||+||+|++|+|++ .+.+|++ .++|+| .+++ ++.+ ++... .+.+|+
T Consensus 82 LEVSSPGldRpL~~~~~f~r~~G~~V~V~l~~~~~~~~-~~~G~L--~~~~~~~~~~~~v--~~~~~------~~~~~~- 149 (173)
T PRK14641 82 LMVSSPGLGEPIILPRQYGRHVGRLLRVTYRDEEGSEH-EVTGHL--QEVSLTEGEGASI--VLKPE------QKKKKG- 149 (173)
T ss_pred EEEeCCCCCCcCCCHHHHHHhCCCEEEEEEecccCCeE-EEEEEE--EeeecccCCCCcE--EEEec------cccccc-
Confidence 999999999999999999999999999999 6666664 578987 7775 3333 43311 111122
Q ss_pred cccccccceeEEeeccCcceeEEEEeC
Q 022576 269 PLSRKRRDWRLNLPFVMHKRVTLYLEY 295 (295)
Q Consensus 269 ~l~kKq~e~~v~Ipf~~IkkArL~iEF 295 (295)
++.+...+++||++|++|++++||
T Consensus 150 ---~~~~~~~~~v~~~~v~~A~vevE~ 173 (173)
T PRK14641 150 ---KQEETENITLELDAVIRAVPEAEL 173 (173)
T ss_pred ---cCCCCceEEEEhHHccceeeeeeC
Confidence 122234689999999999999998
No 17
>PF02576 DUF150: Uncharacterised BCR, YhbC family COG0779; InterPro: IPR003728 The RimP protein facilitates maturation of the 30S ribsomal subunit, and is required for the efficient production of translationally competent ribosmomes [].; PDB: 1IB8_A.
Probab=100.00 E-value=8.9e-35 Score=246.29 Aligned_cols=138 Identities=28% Similarity=0.388 Sum_probs=98.6
Q ss_pred HHHHHHhhcCCeEEEEEE-eeCCCcEEEEEEeCCCC-ChhhHHHHHHHHHHhhhccccCCCCCCCeEEEEecCCCCCCCC
Q 022576 130 IAHEVLLQLGDDIKLYAF-KATPRGYVYVRLDKLSN-NMEELESYSQEYKKKLDEVGALGEIPDDLALEVSTPGAERMLK 207 (295)
Q Consensus 130 l~epvle~~G~eLvdVe~-k~~~~~~LrV~IDk~~G-sIDDCe~vSR~Is~~LD~~e~~d~I~~~Y~LEVSSPGiERpLk 207 (295)
+++|+++++|++||+|++ +.+++++|+|+||+++| |+|||+++||+|++.|| +.++|+++|+|||||||++|||+
T Consensus 1 li~~~~~~~g~~l~~v~~~~~~~~~~l~V~id~~~gv~lddc~~~sr~i~~~LD---~~d~i~~~y~LEVSSPG~~r~L~ 77 (141)
T PF02576_consen 1 LIEPLLEELGLELVDVEVVKEGGNRILRVFIDKDGGVSLDDCEKVSRAISALLD---AEDPIPEDYTLEVSSPGIDRPLK 77 (141)
T ss_dssp -HHHHH-S-SSEEEEEEEEEETTEEEEEEEEE-SS---HHHHHHHHHHHGGGTT---TS----S-EEEEEE--SSSS--S
T ss_pred CcccchhhcCCEEEEEEEEECCCCEEEEEEEEeCCCCCHHHHHHHHHHHHHHHc---cccccCcceEEEEeCCCCCCcCC
Confidence 689999999999999999 65667799999999878 99999999999999999 57899999999999999999999
Q ss_pred ChHHHhhcCCCeeEEEE-eecCCCeeEEeEEEEEeeeeCCeeEEEEEeecccccCCCCCCCccccccccceeEEeeccCc
Q 022576 208 VPDDLGRFKEMPITVCY-EDQDSDSREKTGVFLLDSIEMDSEICVWKLADVKENRDPQEKGRPLSRKRRDWRLNLPFVMH 286 (295)
Q Consensus 208 ~~~df~RfiGr~V~V~l-~~~eG~k~~~~GvL~L~svded~itv~~~LaDVk~nr~~~~KGr~l~kKq~e~~v~Ipf~~I 286 (295)
+++||.||+|++|+|++ .+.+|+ +++.|.| .+++++++++.+. .|+++ ..++|||++|
T Consensus 78 ~~~~~~~~iG~~v~v~~~~~~~~~-~~~~G~L--~~~~~~~i~l~~~-----------~~~~~-------~~~~I~~~~I 136 (141)
T PF02576_consen 78 SPRDFERFIGRKVKVKLKQPVNGR-KEFEGKL--LEVDEDEITLEVE-----------GKGKK-------KEVEIPFSDI 136 (141)
T ss_dssp SHHHHHHH-SEEEEEE-SS-SSS--SEEEEEE--EEEETTEEEEEEE------------SS-E-------EEEEE-SS--
T ss_pred CHHHHHHhcCCeEEEEEeccCCCc-EEEEEEE--EEEeCCEEEEEEC-----------Cccce-------EEEEEEHHHC
Confidence 99999999999999999 666676 4678987 8999998755433 23321 1389999999
Q ss_pred ceeEE
Q 022576 287 KRVTL 291 (295)
Q Consensus 287 kkArL 291 (295)
+||||
T Consensus 137 ~ka~L 141 (141)
T PF02576_consen 137 KKARL 141 (141)
T ss_dssp SS-EE
T ss_pred ceEeC
Confidence 99997
No 18
>PRK14637 hypothetical protein; Provisional
Probab=100.00 E-value=2.8e-34 Score=248.01 Aligned_cols=137 Identities=19% Similarity=0.299 Sum_probs=117.3
Q ss_pred HHHHHHHHHhhcCCeEEEEEE-eeCCCcEEEEEEeCCCC-ChhhHHHHHHHHHHhhhccccCCCCCCCeEEEEecCCCCC
Q 022576 127 ALSIAHEVLLQLGDDIKLYAF-KATPRGYVYVRLDKLSN-NMEELESYSQEYKKKLDEVGALGEIPDDLALEVSTPGAER 204 (295)
Q Consensus 127 I~el~epvle~~G~eLvdVe~-k~~~~~~LrV~IDk~~G-sIDDCe~vSR~Is~~LD~~e~~d~I~~~Y~LEVSSPGiER 204 (295)
-.++++|+++++||+||+|+| +.+++++|||+||+++| ++|||+++||+|++.||. .++ +.+|+|||||||++|
T Consensus 10 ~~~~v~p~~~~~g~eLvdve~~~~~~~~~lrV~ID~~~gV~iddC~~vSr~Is~~LD~---~~~-~~~y~LEVSSPGldR 85 (151)
T PRK14637 10 YFSECEPVVEGLGCKLVDLSRRVQQAQGRVRAVIYSAGGVGLDDCARVHRILVPRLEA---LGG-VRDVFLEVSSPGIER 85 (151)
T ss_pred HHHHHHHHHHhcCCEEEEEEEEecCCCcEEEEEEECCCCCCHHHHHHHHHHHHHHhcc---ccc-ccCcEEEEeCCCCCC
Confidence 367999999999999999999 66778899999999999 999999999999999993 222 478999999999999
Q ss_pred CCCChHHHhhcCCCeeEEEEeecCCCeeEEeEEEEEeeeeCCeeEEEEEeecccccCCCCCCCccccccccceeEEeecc
Q 022576 205 MLKVPDDLGRFKEMPITVCYEDQDSDSREKTGVFLLDSIEMDSEICVWKLADVKENRDPQEKGRPLSRKRRDWRLNLPFV 284 (295)
Q Consensus 205 pLk~~~df~RfiGr~V~V~l~~~eG~k~~~~GvL~L~svded~itv~~~LaDVk~nr~~~~KGr~l~kKq~e~~v~Ipf~ 284 (295)
||++++||+||+|++|+|++ +|++++.+|+| .+++++.+++ . .+|+ .+.|||+
T Consensus 86 pL~~~~~f~r~~G~~V~V~l---~~~~~~~~G~L--~~~~d~~v~l--~-----------~~~~---------~~~i~~~ 138 (151)
T PRK14637 86 VIKNAAEFSIFVGETVKVWF---ECTGQWQVGTI--AEADETCLVL--T-----------SDGV---------PVTIPYV 138 (151)
T ss_pred CCCCHHHHHHhCCCEEEEEE---CCCCcEEEEEE--EEEeCCEEEE--E-----------ECCE---------EEEEEHH
Confidence 99999999999999999998 45545557987 8999987633 2 1233 2789999
Q ss_pred CcceeEEEEe
Q 022576 285 MHKRVTLYLE 294 (295)
Q Consensus 285 ~IkkArL~iE 294 (295)
+|++|+|.+.
T Consensus 139 ~I~ka~L~~~ 148 (151)
T PRK14637 139 QITKAQLHPA 148 (151)
T ss_pred HeeeEEEEEE
Confidence 9999999875
No 19
>PRK14645 hypothetical protein; Provisional
Probab=100.00 E-value=9.8e-34 Score=245.43 Aligned_cols=137 Identities=23% Similarity=0.285 Sum_probs=117.9
Q ss_pred CCHHHHHHHHHHHHHhhcCCeEEEEEE-eeCCCcEEEEEEeCC-C-C-ChhhHHHHHHHHHHhhhccccCCCCCCCeEEE
Q 022576 121 VPWGERALSIAHEVLLQLGDDIKLYAF-KATPRGYVYVRLDKL-S-N-NMEELESYSQEYKKKLDEVGALGEIPDDLALE 196 (295)
Q Consensus 121 ~~~~ekI~el~epvle~~G~eLvdVe~-k~~~~~~LrV~IDk~-~-G-sIDDCe~vSR~Is~~LD~~e~~d~I~~~Y~LE 196 (295)
+.-.++|+++++|+++++||+||+|++ +.+++++|||+||++ + | +||||+++||+|+++|| +.++|+++|+||
T Consensus 5 ~~~~~~i~~li~~~~~~~G~elvdve~~~~~~~~ilrV~ID~~~~~~v~lddC~~vSr~is~~LD---~~d~i~~~Y~LE 81 (154)
T PRK14645 5 TENNPDLQQLAEGALEPLGYEVLEVQVQRSGGKRIVLVRIDRKDEQPVTVEDLERASRALEAELD---RLDPIEGEYRLE 81 (154)
T ss_pred cccHHHHHHHHHHHHHHcCCEEEEEEEEeCCCCeEEEEEEECCCCCCcCHHHHHHHHHHHHHHhc---ccccCCCceEEE
Confidence 456788999999999999999999999 566788999999985 3 3 99999999999999999 578999999999
Q ss_pred EecCCCCCCCCChHHHhhcCCCeeEEEEeecCCCeeEEeEEEEEeeeeCCeeEEEEEeecccccCCCCCCCccccccccc
Q 022576 197 VSTPGAERMLKVPDDLGRFKEMPITVCYEDQDSDSREKTGVFLLDSIEMDSEICVWKLADVKENRDPQEKGRPLSRKRRD 276 (295)
Q Consensus 197 VSSPGiERpLk~~~df~RfiGr~V~V~l~~~eG~k~~~~GvL~L~svded~itv~~~LaDVk~nr~~~~KGr~l~kKq~e 276 (295)
|||||++|||++++||+||+|++|+|++ |++ .+.|+| .+++++.+++ . .+|+.
T Consensus 82 VSSPGldRpL~~~~df~r~~G~~v~v~~----~~k-~~~G~L--~~~~d~~i~l--~-----------~~~~~------- 134 (154)
T PRK14645 82 VESPGPKRPLFTARHFERFAGLKAKVRG----PGE-NFTGRI--KAVSGDQVTF--D-----------VGGED------- 134 (154)
T ss_pred EeCCCCCCCCCCHHHHHHhCCCEEEEEc----CCe-EEEEEE--EEEeCCEEEE--E-----------ECCeE-------
Confidence 9999999999999999999999999975 333 468987 8999987633 2 12342
Q ss_pred eeEEeeccCccee
Q 022576 277 WRLNLPFVMHKRV 289 (295)
Q Consensus 277 ~~v~Ipf~~IkkA 289 (295)
+.|||++|+++
T Consensus 135 --~~i~~~~I~~~ 145 (154)
T PRK14645 135 --RTLRIGTFQAN 145 (154)
T ss_pred --EEEEHHHhhhh
Confidence 78999999765
No 20
>PRK02001 hypothetical protein; Validated
Probab=100.00 E-value=8.4e-33 Score=239.30 Aligned_cols=148 Identities=17% Similarity=0.200 Sum_probs=117.1
Q ss_pred HHHHHHH-HHHHHhhcCCeEEEEEEeeCCCcEEEEEEeCCCC-ChhhHHHHHHHHHHhhhccccCCCCCCCeEEEEecCC
Q 022576 124 GERALSI-AHEVLLQLGDDIKLYAFKATPRGYVYVRLDKLSN-NMEELESYSQEYKKKLDEVGALGEIPDDLALEVSTPG 201 (295)
Q Consensus 124 ~ekI~el-~epvle~~G~eLvdVe~k~~~~~~LrV~IDk~~G-sIDDCe~vSR~Is~~LD~~e~~d~I~~~Y~LEVSSPG 201 (295)
..+|.++ ++|+++++||+||+|++.. ++.|+|+||+++| ++|||+++||+|+++||+ .+ ++|+|||||||
T Consensus 3 ~~~~~~~~~e~~~~~~g~eLvdv~~~~--~~~lrV~ID~~~Gv~lddC~~vSr~is~~LD~---~d---~~Y~LEVSSPG 74 (152)
T PRK02001 3 KKKVVELLVEELLEGPELFLVDLTISP--DNKIVVEIDGDEGVWIEDCVELSRAIEHNLDR---EE---EDFELEVGSAG 74 (152)
T ss_pred HHHHHHHHHHhhhhhcCcEEEEEEEEc--CCEEEEEEECCCCCCHHHHHHHHHHHHHHhcC---CC---CCeEEEEeCCC
Confidence 4556666 9999999999999999863 3569999999999 999999999999999994 32 79999999999
Q ss_pred CCCCCCChHHHhhcCCCeeEEEEeecCCCeeEEeEEEEEeeeeCCeeEEEEEeecccccCCCCCCCccccccccceeEEe
Q 022576 202 AERMLKVPDDLGRFKEMPITVCYEDQDSDSREKTGVFLLDSIEMDSEICVWKLADVKENRDPQEKGRPLSRKRRDWRLNL 281 (295)
Q Consensus 202 iERpLk~~~df~RfiGr~V~V~l~~~eG~k~~~~GvL~L~svded~itv~~~LaDVk~nr~~~~KGr~l~kKq~e~~v~I 281 (295)
++|||++++||+||+|++|+|++. |+ +.+.|+| .+++++++++... + +. ..+..||++ ++...++|
T Consensus 75 ldRpL~~~~~f~r~~G~~v~V~l~---~~-~~~~G~L--~~~~~~~i~l~~~--~-~~-~~~~~k~~~----~~~~~~~i 140 (152)
T PRK02001 75 LTSPLKVPRQYKKNIGRELEVLTK---NG-KKIEGEL--KSADENDITLEVK--A-RE-PKEGGKGKV----TVEKEETI 140 (152)
T ss_pred CCCcCCCHHHHHHhCCCEEEEEEC---CC-CEEEEEE--EEEeCCEEEEEEc--c-cc-ccccccccc----ccceeEEE
Confidence 999999999999999999999994 33 3578987 8999998744322 1 00 001122221 22235899
Q ss_pred eccCcceeEEEE
Q 022576 282 PFVMHKRVTLYL 293 (295)
Q Consensus 282 pf~~IkkArL~i 293 (295)
||++|++|+|.+
T Consensus 141 ~~~~I~ka~l~~ 152 (152)
T PRK02001 141 TYDDIKEAKVII 152 (152)
T ss_pred EhHheeeEEEeC
Confidence 999999999974
No 21
>PRK14642 hypothetical protein; Provisional
Probab=100.00 E-value=4.6e-32 Score=243.22 Aligned_cols=155 Identities=21% Similarity=0.223 Sum_probs=120.6
Q ss_pred HHHHHHHHHhhcCCeEEEEEEeeCCCcEEEEEEeCC-------------CC-ChhhHHHHHHHHHHhhhccccCCCCCCC
Q 022576 127 ALSIAHEVLLQLGDDIKLYAFKATPRGYVYVRLDKL-------------SN-NMEELESYSQEYKKKLDEVGALGEIPDD 192 (295)
Q Consensus 127 I~el~epvle~~G~eLvdVe~k~~~~~~LrV~IDk~-------------~G-sIDDCe~vSR~Is~~LD~~e~~d~I~~~ 192 (295)
|+++++|+++++||+||+|++.. ++.|||+||++ +| ++|||+++||+|++.||. ++. +.
T Consensus 3 l~~liepvv~~lG~eLvdve~~~--~~~LrV~ID~~~~~~~~~~~~~~~~gVtidDC~~vSR~Is~~LDv---e~~--~y 75 (197)
T PRK14642 3 LQQIVEQTVTGLGYDLVEIERSA--GGLLRVTIDLPWVPPTEGAPVGPEQFVTVEDCEKVTRQLQFALEV---DGV--DY 75 (197)
T ss_pred HHHHHHHHHHHcCCEEEEEEEec--CCEEEEEEecCccccccccccccCCCccHHHHHHHHHHHHHHhcc---cCc--cc
Confidence 78999999999999999999853 45899999984 45 999999999999999993 332 34
Q ss_pred eEEEEecCCCCCCCCChHHHhhcCCCeeEEEE-eecC---------CCeeEEeEEEEEeeeeCCeeEEEEEeecccccCC
Q 022576 193 LALEVSTPGAERMLKVPDDLGRFKEMPITVCY-EDQD---------SDSREKTGVFLLDSIEMDSEICVWKLADVKENRD 262 (295)
Q Consensus 193 Y~LEVSSPGiERpLk~~~df~RfiGr~V~V~l-~~~e---------G~k~~~~GvL~L~svded~itv~~~LaDVk~nr~ 262 (295)
|+|||||||++|||++++||.||+|+.|+|++ .+++ |+ +.+.|+| .++++++++++|.-++...+-+
T Consensus 76 ~~LEVSSPGldRPLk~~~df~rfiG~~V~V~l~~pi~~~~~~~~~~~r-k~f~G~L--~~~~~~~i~l~~~~~~~~k~g~ 152 (197)
T PRK14642 76 KRLEVSSPGIDRPLRHEQDFERFAGEVIDITLKAPIGAAAGGQVSANR-KKFRGTL--ERAESGGWQIVWSDEPPVKPGQ 152 (197)
T ss_pred cEEEEeCCCCCCCCCCHHHHHHhCCCeEEEEEeccccccccccccCCc-eEEEEEE--EEEcCCEEEEEEeecccCCCcc
Confidence 48999999999999999999999999999999 7777 44 4678998 8999999888876211100000
Q ss_pred CCCCCccccccccceeEEeeccCcceeEEEEe
Q 022576 263 PQEKGRPLSRKRRDWRLNLPFVMHKRVTLYLE 294 (295)
Q Consensus 263 ~~~KGr~l~kKq~e~~v~Ipf~~IkkArL~iE 294 (295)
...||+.. .....+.|+|++|++|+|.+.
T Consensus 153 ~~~k~~~~---~~~~~~~~~~~eik~a~l~p~ 181 (197)
T PRK14642 153 RVSKKRVP---APLQALGFTLDELREARLAPI 181 (197)
T ss_pred cccccccc---ccceeEEeehhheeeEEEEEE
Confidence 00122210 111248999999999999974
No 22
>PRK14644 hypothetical protein; Provisional
Probab=100.00 E-value=3e-32 Score=231.92 Aligned_cols=132 Identities=19% Similarity=0.258 Sum_probs=114.4
Q ss_pred HHHHHHhhcCCeEEEEEE-eeCCCcEEEEEEeCCCCChhhHHHHHHHHHHhhhccccCCCCCCCeEEEEecCCCCCCCCC
Q 022576 130 IAHEVLLQLGDDIKLYAF-KATPRGYVYVRLDKLSNNMEELESYSQEYKKKLDEVGALGEIPDDLALEVSTPGAERMLKV 208 (295)
Q Consensus 130 l~epvle~~G~eLvdVe~-k~~~~~~LrV~IDk~~GsIDDCe~vSR~Is~~LD~~e~~d~I~~~Y~LEVSSPGiERpLk~ 208 (295)
+.+|+++++|++||+|+| +.++.++|||+||++ +||||+.+||+|+++|| +.++|+++|+|||||||++|||+.
T Consensus 3 ~~e~~~~~~g~el~dve~~~~~~~~~LrV~Idk~--~iddC~~vSr~is~~LD---~~d~i~~~Y~LEVSSPGldRpL~~ 77 (136)
T PRK14644 3 WKEKLLEKFGNKINEIKIVKEDGDLFLEVILNSR--DLKDIEELTKEISDFID---NLSVEFDFDSLDISSPGFDMDYET 77 (136)
T ss_pred chhhhHHhcCCEEEEEEEEeCCCCEEEEEEECCC--CHHHHHHHHHHHHHHhc---cccCCCCCeEEEEECCCCCCCCCH
Confidence 468999999999999999 777889999999986 69999999999999999 589999999999999999999998
Q ss_pred hHHHhhcCCCeeEEEE-eecCCCeeEEeEEEEEeeeeCCeeEEEEEeecccccCCCCCCCccccccccceeEEeeccCcc
Q 022576 209 PDDLGRFKEMPITVCY-EDQDSDSREKTGVFLLDSIEMDSEICVWKLADVKENRDPQEKGRPLSRKRRDWRLNLPFVMHK 287 (295)
Q Consensus 209 ~~df~RfiGr~V~V~l-~~~eG~k~~~~GvL~L~svded~itv~~~LaDVk~nr~~~~KGr~l~kKq~e~~v~Ipf~~Ik 287 (295)
+||.||+|++|+|++ .+.+|++ .++|+| .+++++++++.+. .||+. | .++|++++|+
T Consensus 78 -~~f~r~~G~~v~V~l~~~~~~~~-~~~G~L--~~v~~~~i~l~~~-----------~k~~~---~----~i~~~~~~i~ 135 (136)
T PRK14644 78 -DELENHIGEIIDVSLNKEVNKTD-FITGEL--LENNPETITLKWN-----------CKGQF---R----KVEINKENIK 135 (136)
T ss_pred -HHHHHhCCCeEEEEEccCcCCeE-EEEEEE--EEEeCCEEEEEEe-----------cCCcE---E----EEEECHHHhc
Confidence 599999999999999 7777774 678998 8999998755543 34542 1 2889999987
Q ss_pred e
Q 022576 288 R 288 (295)
Q Consensus 288 k 288 (295)
+
T Consensus 136 ~ 136 (136)
T PRK14644 136 K 136 (136)
T ss_pred C
Confidence 4
No 23
>cd01734 YlxS_C YxlS is a Bacillus subtilis gene of unknown function with two domains that each have an alpha/beta fold. The N-terminal domain is composed of two alpha-helices and a three-stranded beta-sheet, while the C-terminal domain is composed of one alpha-helix and a five-stranded beta-sheet. This CD represents the C-terminal domain which has a fold similar to the Sm fold of proteins like Sm-D3.
Probab=99.85 E-value=5.9e-21 Score=149.26 Aligned_cols=82 Identities=28% Similarity=0.300 Sum_probs=67.5
Q ss_pred eEEEEecCCCCCCCCChHHHhhcCCCeeEEEE-eecCCCeeEEeEEEEEeeeeCCeeEEEEEeecccccCCCCCCCcccc
Q 022576 193 LALEVSTPGAERMLKVPDDLGRFKEMPITVCY-EDQDSDSREKTGVFLLDSIEMDSEICVWKLADVKENRDPQEKGRPLS 271 (295)
Q Consensus 193 Y~LEVSSPGiERpLk~~~df~RfiGr~V~V~l-~~~eG~k~~~~GvL~L~svded~itv~~~LaDVk~nr~~~~KGr~l~ 271 (295)
|+|||||||++|||++++||+||+|+.|+|++ .+.+|++ .+.|+| .+++++++++... .|++.
T Consensus 1 Y~LEVSSPGl~RpL~~~~~~~r~~G~~v~v~~~~~~~~~~-~~~G~L--~~~~~~~v~l~~~-----------~~~~~-- 64 (83)
T cd01734 1 YFLEVSSPGAERPLKKEADFERAVGKYVHVKLYQPIDGQK-EFEGTL--LGVDDDTVTLEVD-----------IKTRG-- 64 (83)
T ss_pred CEEEEcCCCCCCcCCCHHHHHHhCCCEEEEEEEcccCCeE-EEEEEE--EeEeCCEEEEEEe-----------cCCCC--
Confidence 89999999999999999999999999999999 6667764 568987 8999998744321 12221
Q ss_pred ccccceeEEeeccCcceeEEEEeC
Q 022576 272 RKRRDWRLNLPFVMHKRVTLYLEY 295 (295)
Q Consensus 272 kKq~e~~v~Ipf~~IkkArL~iEF 295 (295)
..++|||++|++|+|.++|
T Consensus 65 -----~~~~i~~~~I~ka~l~~~f 83 (83)
T cd01734 65 -----KTVEIPLDKIAKARLAPEF 83 (83)
T ss_pred -----eEEEEEhHHeeEEEEEEEC
Confidence 1389999999999999998
No 24
>cd06168 LSm9 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of this family share a highly conserved Sm fold containing an N-terminal helix followed by a strongly bent five-stranded antiparallel beta-sheet. LSm9 proteins have a single Sm-like domain structure. Sm-like proteins exist in archaea as well as prokaryotes that form heptameric and hexameric ring structures similar to those found in eukaryotes.
Probab=84.68 E-value=5.4 Score=30.97 Aligned_cols=72 Identities=17% Similarity=0.178 Sum_probs=43.9
Q ss_pred HHHhhcCCCeeEEEEeecCCCeeEEeEEEEEeeeeCCeeEEEEEeecccccCCCCCCCccccccccceeEEeeccCccee
Q 022576 210 DDLGRFKEMPITVCYEDQDSDSREKTGVFLLDSIEMDSEICVWKLADVKENRDPQEKGRPLSRKRRDWRLNLPFVMHKRV 289 (295)
Q Consensus 210 ~df~RfiGr~V~V~l~~~eG~k~~~~GvL~L~svded~itv~~~LaDVk~nr~~~~KGr~l~kKq~e~~v~Ipf~~IkkA 289 (295)
..+..++|++|+|++. +|+ .+.|+| ..+|... -+-|.|+.+-+....+..+..++.- -.+-+|-+.|.++
T Consensus 3 ~~L~~~l~~~v~V~l~--dgR--~~~G~l--~~~D~~~---NivL~~~~E~~~~~~~~~~~~~r~l-Glv~IrG~~Iv~i 72 (75)
T cd06168 3 QKLRSLLGRTMRIHMT--DGR--TLVGVF--LCTDRDC---NIILGSAQEYRPPPDSFSPTEPRVL-GLVMIPGHHIVSI 72 (75)
T ss_pred hHHHHhcCCeEEEEEc--CCe--EEEEEE--EEEcCCC---cEEecCcEEEEcccCccCCccEEEe-eeEEEeCCeEEEE
Confidence 4577889999999996 676 578998 7888764 2335676665422111010001111 1367888888776
Q ss_pred EE
Q 022576 290 TL 291 (295)
Q Consensus 290 rL 291 (295)
.+
T Consensus 73 ~v 74 (75)
T cd06168 73 EV 74 (75)
T ss_pred EE
Confidence 54
No 25
>PF01423 LSM: LSM domain ; InterPro: IPR001163 This family is found in Lsm (like-Sm) proteins and in bacterial Lsm-related Hfq proteins. In each case, the domain adopts a core structure consisting of an open beta-barrel with an SH3-like topology. Lsm (like-Sm) proteins have diverse functions, and are thought to be important modulators of RNA biogenesis and function [, ]. The Sm proteins form part of specific small nuclear ribonucleoproteins (snRNPs) that are involved in the processing of pre-mRNAs to mature mRNAs, and are a major component of the eukaryotic spliceosome. Most snRNPs consist of seven Sm proteins (B/B', D1, D2, D3, E, F and G) arranged in a ring on a uridine-rich sequence (Sm site), plus a small nuclear RNA (snRNA) (either U1, U2, U5 or U4/6) []. All Sm proteins contain a common sequence motif in two segments, Sm1 and Sm2, separated by a short variable linker []. In other snRNPs, certain Sm proteins are replaced with different Lsm proteins, such as with U7 snRNPs, in which the D1 and D2 Sm proteins are replaced with U7-specific Lsm10 and Lsm11 proteins, where Lsm11 plays a role in histone U7-specific RNA processing []. Lsm proteins are also found in archaebacteria, which do not have any splicing apparatus suggesting a more general role for Lsm proteins. The pleiotropic translational regulator Hfq (host factor Q) is a bacterial Lsm-like protein, which modulates the structure of numerous RNA molecules by binding preferentially to A/U-rich sequences in RNA []. Hfq forms an Lsm-like fold, however, unlike the heptameric Sm proteins, Hfq forms a homo-hexameric ring.; PDB: 1D3B_K 2Y9D_D 2Y9A_D 2Y9C_R 3VRI_C 2Y9B_K 3QUI_D 3M4G_H 3INZ_E 1U1S_C ....
Probab=65.85 E-value=19 Score=26.29 Aligned_cols=41 Identities=20% Similarity=0.164 Sum_probs=30.2
Q ss_pred HHhhcCCCeeEEEEeecCCCeeEEeEEEEEeeeeCCeeEEEEEeeccccc
Q 022576 211 DLGRFKEMPITVCYEDQDSDSREKTGVFLLDSIEMDSEICVWKLADVKEN 260 (295)
Q Consensus 211 df~RfiGr~V~V~l~~~eG~k~~~~GvL~L~svded~itv~~~LaDVk~n 260 (295)
.++.++|++|+|.+. +|+ .+.|+| .++|..- -+.|.|+.+.
T Consensus 2 ~L~~~~g~~V~V~l~--~g~--~~~G~L--~~~D~~~---Nl~L~~~~~~ 42 (67)
T PF01423_consen 2 FLQKLIGKRVRVELK--NGR--TYRGTL--VSFDQFM---NLVLSDVTET 42 (67)
T ss_dssp HHHHTTTSEEEEEET--TSE--EEEEEE--EEEETTE---EEEEEEEEEE
T ss_pred hhHHhCCcEEEEEEe--CCE--EEEEEE--EEeechh---eEEeeeEEEE
Confidence 467899999999995 665 568998 8999753 3345676654
No 26
>PF14438 SM-ATX: Ataxin 2 SM domain; PDB: 1M5Q_1.
Probab=62.46 E-value=13 Score=28.24 Aligned_cols=38 Identities=21% Similarity=0.260 Sum_probs=24.4
Q ss_pred HhhcCCCeeEEEEeecCCCeeEEeEEEEEeeeeCC--eeEEEEEee
Q 022576 212 LGRFKEMPITVCYEDQDSDSREKTGVFLLDSIEMD--SEICVWKLA 255 (295)
Q Consensus 212 f~RfiGr~V~V~l~~~eG~k~~~~GvL~L~svded--~itv~~~La 255 (295)
+...+|..|.|++. +|.+ ++|+| .+.+.+ +..++++.+
T Consensus 7 ~~~lvG~~V~V~~~--~G~~--yeGif--~s~s~~~~~~~vvLk~a 46 (77)
T PF14438_consen 7 LTNLVGQTVEVTTK--NGSV--YEGIF--HSASPESNEFDVVLKMA 46 (77)
T ss_dssp HHTTTTSEEEEEET--TS-E--EEEEE--EEE-T---T--EEEEEE
T ss_pred HHhCcCCEEEEEEC--CCCE--EEEEE--EeCCCcccceeEEEEee
Confidence 45689999999996 7873 68999 666654 445566543
No 27
>cd01726 LSm6 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of this family share a highly conserved Sm fold containing an N-terminal helix followed by a strongly bent five-stranded antiparallel beta-sheet. LSm6 is one of at least seven subunits that assemble onto U6 snRNA to form a seven-membered ring structure. Sm-like proteins exist in archaea as well as prokaryotes that form heptameric and hexameric ring structures similar to those found in eukaryotes.
Probab=62.03 E-value=15 Score=27.45 Aligned_cols=40 Identities=15% Similarity=0.164 Sum_probs=28.6
Q ss_pred HHhhcCCCeeEEEEeecCCCeeEEeEEEEEeeeeCCeeEEEEEeecccc
Q 022576 211 DLGRFKEMPITVCYEDQDSDSREKTGVFLLDSIEMDSEICVWKLADVKE 259 (295)
Q Consensus 211 df~RfiGr~V~V~l~~~eG~k~~~~GvL~L~svded~itv~~~LaDVk~ 259 (295)
-++.++|++|.|+++ +|+ .+.|+| .++|.- ..++ |.|+.+
T Consensus 4 ~L~~~~~~~V~V~Lk--~g~--~~~G~L--~~~D~~-mNlv--L~~~~~ 43 (67)
T cd01726 4 FLKAIIGRPVVVKLN--SGV--DYRGIL--ACLDGY-MNIA--LEQTEE 43 (67)
T ss_pred HHHhhCCCeEEEEEC--CCC--EEEEEE--EEEccc-eeeE--EeeEEE
Confidence 357889999999996 666 578988 788853 3334 556544
No 28
>cd01721 Sm_D3 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of this family share a highly conserved Sm fold containing an N-terminal helix followed by a strongly bent five-stranded antiparallel beta-sheet. Sm subunit D3 heterodimerizes with subunit B and three such heterodimers form a hexameric ring structure with alternating B and D3 subunits. The D3 - B heterodimer also assembles into a heptameric ring containing D1, D2, E, F, and G subunits. Sm-like proteins exist in archaea as well as prokaryotes which form heptameric and hexameric ring structures similar to those found in eukaryotes.
Probab=61.43 E-value=55 Score=24.71 Aligned_cols=64 Identities=19% Similarity=0.136 Sum_probs=39.5
Q ss_pred HhhcCCCeeEEEEeecCCCeeEEeEEEEEeeeeCCeeEEEEEeecccccCCCCCCCccccccccceeEEeeccCcceeEE
Q 022576 212 LGRFKEMPITVCYEDQDSDSREKTGVFLLDSIEMDSEICVWKLADVKENRDPQEKGRPLSRKRRDWRLNLPFVMHKRVTL 291 (295)
Q Consensus 212 f~RfiGr~V~V~l~~~eG~k~~~~GvL~L~svded~itv~~~LaDVk~nr~~~~KGr~l~kKq~e~~v~Ipf~~IkkArL 291 (295)
+...+|+.|.|+++ +|. ...|+| .++|+- ..+. |.|+++.. ..|+. .+- .++-|-=++|+.+.|
T Consensus 5 L~~~~g~~V~VeLk--~g~--~~~G~L--~~~D~~-MNl~--L~~~~~~~---~~g~~--~~~--~~v~IRG~nI~~v~l 68 (70)
T cd01721 5 LHEAEGHIVTVELK--TGE--VYRGKL--IEAEDN-MNCQ--LKDVTVTA---RDGRV--SQL--EQVYIRGSKIRFFIL 68 (70)
T ss_pred HhhCCCCEEEEEEC--CCc--EEEEEE--EEEcCC-ceeE--EEEEEEEC---CCCcE--eEc--CcEEEeCCEEEEEEe
Confidence 46789999999996 676 568987 788874 3334 55665432 22332 111 136666666666554
No 29
>cd01729 LSm7 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of this family share a highly conserved Sm fold containing an N-terminal helix followed by a strongly bent five-stranded antiparallel beta-sheet. LSm7 is one of at least seven subunits that assemble onto U6 snRNA to form a seven-membered ring structure. Sm-like proteins exist in archaea as well as prokaryotes that form heptameric and hexameric ring structures similar to those found in eukaryotes.
Probab=60.22 E-value=17 Score=28.42 Aligned_cols=42 Identities=24% Similarity=0.306 Sum_probs=30.1
Q ss_pred hHHHhhcCCCeeEEEEeecCCCeeEEeEEEEEeeeeCCeeEEEEEeecccc
Q 022576 209 PDDLGRFKEMPITVCYEDQDSDSREKTGVFLLDSIEMDSEICVWKLADVKE 259 (295)
Q Consensus 209 ~~df~RfiGr~V~V~l~~~eG~k~~~~GvL~L~svded~itv~~~LaDVk~ 259 (295)
.-++.+++|++|.|+++ +|+ .+.|+| .++|.-- -+.|.++.+
T Consensus 4 ~~~L~~~i~k~V~V~l~--~gr--~~~G~L--~~~D~~m---NlvL~~~~E 45 (81)
T cd01729 4 ILDLSKYVDKKIRVKFQ--GGR--EVTGIL--KGYDQLL---NLVLDDTVE 45 (81)
T ss_pred hhhHHHhcCCeEEEEEC--CCc--EEEEEE--EEEcCcc---cEEecCEEE
Confidence 45688999999999996 565 578998 7888742 233555544
No 30
>PRK00737 small nuclear ribonucleoprotein; Provisional
Probab=56.33 E-value=25 Score=26.71 Aligned_cols=41 Identities=22% Similarity=0.282 Sum_probs=29.5
Q ss_pred HHHhhcCCCeeEEEEeecCCCeeEEeEEEEEeeeeCCeeEEEEEeecccc
Q 022576 210 DDLGRFKEMPITVCYEDQDSDSREKTGVFLLDSIEMDSEICVWKLADVKE 259 (295)
Q Consensus 210 ~df~RfiGr~V~V~l~~~eG~k~~~~GvL~L~svded~itv~~~LaDVk~ 259 (295)
+-+.+++|++|.|+++ +|+ .+.|+| .++|.- ..++ |.|+++
T Consensus 7 ~~L~~~~~k~V~V~lk--~g~--~~~G~L--~~~D~~-mNlv--L~d~~e 47 (72)
T PRK00737 7 DVLNNALNSPVLVRLK--GGR--EFRGEL--QGYDIH-MNLV--LDNAEE 47 (72)
T ss_pred HHHHHhCCCEEEEEEC--CCC--EEEEEE--EEEccc-ceeE--EeeEEE
Confidence 3457889999999996 676 468988 788874 3333 567654
No 31
>cd01731 archaeal_Sm1 The archaeal sm1 proteins: The Sm proteins are conserved in all three domains of life and are always associated with U-rich RNA sequences. They function to mediate RNA-RNA interactions and RNA biogenesis. All Sm proteins contain a common sequence motif in two segments, Sm1 and Sm2, separated by a short variable linker. Eukaryotic Sm proteins form part of specific small nuclear ribonucleoproteins (snRNPs) that are involved in the processing of pre-mRNAs to mature mRNAs, and are a major component of the eukaryotic spliceosome. Most snRNPs consist of seven Sm proteins (B/B', D1, D2, D3, E, F and G) arranged in a ring on a uridine-rich sequence (Sm site), plus a small nuclear RNA (snRNA) (either U1, U2, U5 or U4/6). Since archaebacteria do not have any splicing apparatus, Sm proteins of archaebacteria may play a more general role. Archaeal Lsm proteins are likely to represent the ancestral Sm domain.
Probab=56.33 E-value=21 Score=26.58 Aligned_cols=40 Identities=23% Similarity=0.218 Sum_probs=28.5
Q ss_pred HHhhcCCCeeEEEEeecCCCeeEEeEEEEEeeeeCCeeEEEEEeecccc
Q 022576 211 DLGRFKEMPITVCYEDQDSDSREKTGVFLLDSIEMDSEICVWKLADVKE 259 (295)
Q Consensus 211 df~RfiGr~V~V~l~~~eG~k~~~~GvL~L~svded~itv~~~LaDVk~ 259 (295)
-++.++|++|.|+++ +|+ .+.|+| .++|.- . -+.|.|+.+
T Consensus 4 ~L~~~~~~~V~V~l~--~g~--~~~G~L--~~~D~~-m--NlvL~~~~e 43 (68)
T cd01731 4 VLKDSLNKPVLVKLK--GGK--EVRGRL--KSYDQH-M--NLVLEDAEE 43 (68)
T ss_pred HHHHhcCCEEEEEEC--CCC--EEEEEE--EEECCc-c--eEEEeeEEE
Confidence 356789999999996 676 568988 788874 2 333556544
No 32
>cd01722 Sm_F The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of this family share a highly conserved Sm fold containing an N-terminal helix followed by a strongly bent five-stranded antiparallel beta-sheet. Sm subunit F is capable of forming both homo- and hetero-heptamer ring structures. To form the hetero-heptamer, Sm subunit F initially binds subunits E and G to form a trimer which then assembles onto snRNA along with the D3/B and D1/D2 heterodimers.
Probab=56.25 E-value=21 Score=26.71 Aligned_cols=40 Identities=23% Similarity=0.208 Sum_probs=28.9
Q ss_pred HHhhcCCCeeEEEEeecCCCeeEEeEEEEEeeeeCCeeEEEEEeecccc
Q 022576 211 DLGRFKEMPITVCYEDQDSDSREKTGVFLLDSIEMDSEICVWKLADVKE 259 (295)
Q Consensus 211 df~RfiGr~V~V~l~~~eG~k~~~~GvL~L~svded~itv~~~LaDVk~ 259 (295)
.+..++|+.|.|++. +|+ .+.|+| .++|.- . -+.|.|+.+
T Consensus 5 ~L~~~~g~~V~V~Lk--~g~--~~~G~L--~~~D~~-m--Ni~L~~~~e 44 (68)
T cd01722 5 FLNDLTGKPVIVKLK--WGM--EYKGTL--VSVDSY-M--NLQLANTEE 44 (68)
T ss_pred HHHHcCCCEEEEEEC--CCc--EEEEEE--EEECCC-E--EEEEeeEEE
Confidence 357789999999996 676 578987 888854 3 334566654
No 33
>cd01719 Sm_G The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of this family share a highly conserved Sm fold containing an N-terminal helix followed by a strongly bent five-stranded antiparallel beta-sheet. Sm subunit G binds subunits E and F to form a trimer which then assembles onto snRNA along with the D1/D2 and D3/B heterodimers forming a seven-membered ring structure. Sm-like proteins exist in archaea as well as prokaryotes that form heptameric and hexameric ring structures similar to those found in eukaryotes.
Probab=53.29 E-value=23 Score=27.03 Aligned_cols=41 Identities=15% Similarity=0.278 Sum_probs=29.5
Q ss_pred HHHhhcCCCeeEEEEeecCCCeeEEeEEEEEeeeeCCeeEEEEEeecccc
Q 022576 210 DDLGRFKEMPITVCYEDQDSDSREKTGVFLLDSIEMDSEICVWKLADVKE 259 (295)
Q Consensus 210 ~df~RfiGr~V~V~l~~~eG~k~~~~GvL~L~svded~itv~~~LaDVk~ 259 (295)
.++..+++++|.|+++ +|+ ...|+| .++|+- ..++ |.|+.+
T Consensus 3 ~~L~~~i~k~V~V~L~--~g~--~~~G~L--~~~D~~-mNlv--L~~~~E 43 (72)
T cd01719 3 PELKKYMDKKLSLKLN--GNR--KVSGIL--RGFDPF-MNLV--LDDAVE 43 (72)
T ss_pred hhhHHhCCCeEEEEEC--CCe--EEEEEE--EEEccc-ccEE--eccEEE
Confidence 4678899999999996 665 578988 788853 3233 556544
No 34
>cd01717 Sm_B The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of this family share a highly conserved Sm fold containing an N-terminal helix followed by a strongly bent five-stranded antiparallel beta-sheet. Sm subunit B heterodimerizes with subunit D3 and three such heterodimers form a hexameric ring structure with alternating B and D3 subunits. The D3 - B heterodimer also assembles into a heptameric ring containing D1, D2, E, F, and G subunits. Sm-like proteins exist in archaea as well as prokaryotes which form heptameric and hexameric ring structures similar to those found in eukaryotes.
Probab=52.17 E-value=28 Score=26.76 Aligned_cols=41 Identities=17% Similarity=0.229 Sum_probs=29.8
Q ss_pred HHhhcCCCeeEEEEeecCCCeeEEeEEEEEeeeeCCeeEEEEEeeccccc
Q 022576 211 DLGRFKEMPITVCYEDQDSDSREKTGVFLLDSIEMDSEICVWKLADVKEN 260 (295)
Q Consensus 211 df~RfiGr~V~V~l~~~eG~k~~~~GvL~L~svded~itv~~~LaDVk~n 260 (295)
.+..++|++|.|+++ +|+ .+.|+| .++|... -+.|.|+.+-
T Consensus 4 ~l~~~l~~~V~V~l~--dgR--~~~G~L--~~~D~~~---NlVL~~~~E~ 44 (79)
T cd01717 4 KMLQLINYRLRVTLQ--DGR--QFVGQF--LAFDKHM---NLVLSDCEEF 44 (79)
T ss_pred hhHHHcCCEEEEEEC--CCc--EEEEEE--EEEcCcc---CEEcCCEEEE
Confidence 467899999999996 676 468988 7888754 3335666553
No 35
>PF10842 DUF2642: Protein of unknown function (DUF2642); InterPro: IPR020139 This entry contains proteins with no known function.
Probab=51.66 E-value=69 Score=24.64 Aligned_cols=32 Identities=13% Similarity=0.155 Sum_probs=26.1
Q ss_pred HHHhhcCCCeeEEEEeecCCCeeEEeEEEEEeeeeCCee
Q 022576 210 DDLGRFKEMPITVCYEDQDSDSREKTGVFLLDSIEMDSE 248 (295)
Q Consensus 210 ~df~RfiGr~V~V~l~~~eG~k~~~~GvL~L~svded~i 248 (295)
+.++..+|+.+.|.+. .|. ..|+| .++..|.+
T Consensus 14 q~lq~liG~~vvV~T~--~g~---v~G~L--~~V~pDhI 45 (66)
T PF10842_consen 14 QTLQSLIGQRVVVQTT--RGS---VRGIL--VDVKPDHI 45 (66)
T ss_pred HHHHHhcCCEEEEEEc--CCc---EEEEE--EeecCCEE
Confidence 6788999999999884 454 47887 89999977
No 36
>cd00600 Sm_like The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of this family share a highly conserved Sm fold containing an N-terminal helix followed by a strongly bent five-stranded antiparallel beta-sheet. Sm-like proteins exist in archaea as well as prokaryotes that form heptameric and hexameric ring structures similar to those found in eukaryotes.
Probab=49.88 E-value=27 Score=24.92 Aligned_cols=38 Identities=24% Similarity=0.230 Sum_probs=27.0
Q ss_pred hhcCCCeeEEEEeecCCCeeEEeEEEEEeeeeCCeeEEEEEeecccc
Q 022576 213 GRFKEMPITVCYEDQDSDSREKTGVFLLDSIEMDSEICVWKLADVKE 259 (295)
Q Consensus 213 ~RfiGr~V~V~l~~~eG~k~~~~GvL~L~svded~itv~~~LaDVk~ 259 (295)
..++|++|.|.+. +|+ .+.|+| .++|+.. .+. |.++++
T Consensus 2 ~~~~g~~V~V~l~--~g~--~~~G~L--~~~D~~~-Ni~--L~~~~~ 39 (63)
T cd00600 2 KDLVGKTVRVELK--DGR--VLEGVL--VAFDKYM-NLV--LDDVEE 39 (63)
T ss_pred hHHCCCEEEEEEC--CCc--EEEEEE--EEECCCC-CEE--ECCEEE
Confidence 4678999999996 665 568988 8888763 233 555544
No 37
>COG1958 LSM1 Small nuclear ribonucleoprotein (snRNP) homolog [Transcription]
Probab=47.03 E-value=33 Score=26.27 Aligned_cols=42 Identities=19% Similarity=0.169 Sum_probs=29.9
Q ss_pred HHHhhcCCCeeEEEEeecCCCeeEEeEEEEEeeeeCCeeEEEEEeeccccc
Q 022576 210 DDLGRFKEMPITVCYEDQDSDSREKTGVFLLDSIEMDSEICVWKLADVKEN 260 (295)
Q Consensus 210 ~df~RfiGr~V~V~l~~~eG~k~~~~GvL~L~svded~itv~~~LaDVk~n 260 (295)
.-+.+++|++|.|++. +|+ .+.|+| .++|.-- -+.|.|+.+-
T Consensus 10 ~~l~~~~~~~V~V~lk--~g~--~~~G~L--~~~D~~m---NlvL~d~~e~ 51 (79)
T COG1958 10 SFLKKLLNKRVLVKLK--NGR--EYRGTL--VGFDQYM---NLVLDDVEEI 51 (79)
T ss_pred HHHHHhhCCEEEEEEC--CCC--EEEEEE--EEEccce---eEEEeceEEE
Confidence 3456788899999996 675 578988 8988742 3446676653
No 38
>cd01728 LSm1 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of this family share a highly conserved Sm fold containing an N-terminal helix followed by a strongly bent five-stranded antiparallel beta-sheet. LSm1 is one of at least seven subunits that assemble onto U6 snRNA to form a seven-membered ring structure. Sm-like proteins exist in archaea as well as prokaryotes that form heptameric and hexameric ring structures similar to those found in eukaryotes.
Probab=46.84 E-value=48 Score=25.63 Aligned_cols=41 Identities=20% Similarity=0.182 Sum_probs=29.9
Q ss_pred HHHhhcCCCeeEEEEeecCCCeeEEeEEEEEeeeeCCeeEEEEEeecccc
Q 022576 210 DDLGRFKEMPITVCYEDQDSDSREKTGVFLLDSIEMDSEICVWKLADVKE 259 (295)
Q Consensus 210 ~df~RfiGr~V~V~l~~~eG~k~~~~GvL~L~svded~itv~~~LaDVk~ 259 (295)
..+..+++++|.|+++ +|+ .+.|+| .++|.-. -+-|.|+.+
T Consensus 5 ~~L~~~l~k~v~V~l~--~gr--~~~G~L--~~fD~~~---NlvL~d~~E 45 (74)
T cd01728 5 ASLVDDLDKKVVVLLR--DGR--KLIGIL--RSFDQFA---NLVLQDTVE 45 (74)
T ss_pred HHHHHhcCCEEEEEEc--CCe--EEEEEE--EEECCcc---cEEecceEE
Confidence 4678899999999996 565 578998 7888653 333556543
No 39
>COG1481 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=46.28 E-value=1.1e+02 Score=30.03 Aligned_cols=104 Identities=13% Similarity=0.014 Sum_probs=64.6
Q ss_pred eeecCCCHHHHHHHHHHHHHhhcCCeEEEEEE-eeC---CCcEEEEEEeCCC-------C----C----------hhhHH
Q 022576 116 VVFQGVPWGERALSIAHEVLLQLGDDIKLYAF-KAT---PRGYVYVRLDKLS-------N----N----------MEELE 170 (295)
Q Consensus 116 i~~~~~~~~ekI~el~epvle~~G~eLvdVe~-k~~---~~~~LrV~IDk~~-------G----s----------IDDCe 170 (295)
|.+.+.....++.+++...-. +. ++|.+ +.. .+.+-.|++.... + + =|+|.
T Consensus 45 i~ten~~iarri~~~l~~~~~---i~-~ei~~~~~~~lkkn~vY~v~~~~~~~~il~~l~l~d~~~~~~i~~~~v~~~~~ 120 (308)
T COG1481 45 ITTENAAIARRLYNLLKKLYN---IK-VEIKVEKKSNLKKNNVYTVRLYEGAEELLEQLKLLDSFFGPVIPEQVVSDDED 120 (308)
T ss_pred EEechHHHHHHHHHHHHHHhc---CC-eeEEEeecccccccceEEEEEecCHHHHHHHhcccccccccccchhhhccHHH
Confidence 445556677777777776654 33 45555 222 2344445555421 1 3 15777
Q ss_pred HHHHHHHHhhhccccCCCCCCCeEEEEecCCCCCCCCChHHHhhcCCCeeEEEE
Q 022576 171 SYSQEYKKKLDEVGALGEIPDDLALEVSTPGAERMLKVPDDLGRFKEMPITVCY 224 (295)
Q Consensus 171 ~vSR~Is~~LD~~e~~d~I~~~Y~LEVSSPGiERpLk~~~df~RfiGr~V~V~l 224 (295)
.-+-...+.|-.--..+|....|.||+|||+-+.-+... ...+..|...++..
T Consensus 121 ~~~ylrGAFLagGSis~Pe~~~YhLEi~s~~ee~a~~L~-~l~~~f~l~ak~~e 173 (308)
T COG1481 121 FRAYLRGAFLAGGSISDPETSSYHLEISSNYEEHALALV-KLLRRFGLNAKIIE 173 (308)
T ss_pred HHHHHHHHHHcCCccCCCCCCceeEEEecCcHHHHHHHH-HHHHHhccchheee
Confidence 778888888875334677778899999999999554443 44446667676644
No 40
>smart00651 Sm snRNP Sm proteins. small nuclear ribonucleoprotein particles (snRNPs) involved in pre-mRNA splicing
Probab=46.24 E-value=38 Score=24.57 Aligned_cols=41 Identities=20% Similarity=0.197 Sum_probs=29.2
Q ss_pred HHhhcCCCeeEEEEeecCCCeeEEeEEEEEeeeeCCeeEEEEEeeccccc
Q 022576 211 DLGRFKEMPITVCYEDQDSDSREKTGVFLLDSIEMDSEICVWKLADVKEN 260 (295)
Q Consensus 211 df~RfiGr~V~V~l~~~eG~k~~~~GvL~L~svded~itv~~~LaDVk~n 260 (295)
.+..++|+.|.|.+. +|+ ...|+| .++|+.- -+.|.|+.+-
T Consensus 2 ~L~~~~~~~V~V~l~--~g~--~~~G~L--~~~D~~~---NlvL~~~~e~ 42 (67)
T smart00651 2 FLKKLIGKRVLVELK--NGR--EYRGTL--KGFDQFM---NLVLEDVEET 42 (67)
T ss_pred hhHHhCCcEEEEEEC--CCc--EEEEEE--EEECccc---cEEEccEEEE
Confidence 357889999999996 676 568988 8888753 3335566553
No 41
>PF08863 YolD: YolD-like protein; InterPro: IPR014962 These proteins are functionally uncharacterised. However it has been predicted that these proteins are functionally equivalent to the UmuD subunit of polymerase V from Gram-negative bacteria [].
Probab=46.14 E-value=1e+02 Score=23.48 Aligned_cols=51 Identities=27% Similarity=0.418 Sum_probs=34.5
Q ss_pred CCCeeEEEE-eecCCCeeEEeEEEEEeeeeCCeeEEEEEeecccccCCCCCCCccccccccceeEEeeccCccee
Q 022576 216 KEMPITVCY-EDQDSDSREKTGVFLLDSIEMDSEICVWKLADVKENRDPQEKGRPLSRKRRDWRLNLPFVMHKRV 289 (295)
Q Consensus 216 iGr~V~V~l-~~~eG~k~~~~GvL~L~svded~itv~~~LaDVk~nr~~~~KGr~l~kKq~e~~v~Ipf~~IkkA 289 (295)
.+.+|.|+| . +|.-....|.. ..+|....++.+. + ..+. ...|||++|..+
T Consensus 41 ~~~~v~ity~~--~g~~~~~~G~I--~~id~~~~~l~~~--~--------~~~~---------~~~I~~~~I~~I 92 (92)
T PF08863_consen 41 ENQPVTITYYE--DGYYQSVTGTI--HKIDEINRTLKLK--D--------EDGE---------TEKIPFDDIIDI 92 (92)
T ss_pred CCCEEEEEEEE--CCeeEEEEEEE--EEEcCCCCEEEEE--e--------CCCC---------EEEEEhhhEEEC
Confidence 467899999 5 67766778886 7888877644433 2 1122 378999998653
No 42
>cd02978 KaiB_like KaiB-like family; composed of the circadian clock proteins, KaiB and the N-terminal KaiB-like sensory domain of SasA. KaiB is an essential protein in maintaining circadian rhythm. It was originally discovered from the cyanobacterium Synechococcus as part of the circadian clock gene cluster, kaiABC. KaiB attenuates KaiA-enhanced KaiC autokinase activity by interacting with KaiA-KaiC complexes in a circadian fashion. KaiB is membrane-associated as well as cytosolic. The amount of membrane-associated protein peaks in the evening (at circadian time (CT) 12-16) while the cytosolic form peaks later (at CT 20). The rhythmic localization of KaiB may function in regulating the formation of Kai complexes. SasA is a sensory histidine kinase which associates with KaiC. Although it is not an essential oscillator component, it is important in enhancing kaiABC expression and is important in metabolic growth control under day/night cycle conditions. SasA contains an N-terminal sensor
Probab=46.13 E-value=47 Score=25.91 Aligned_cols=38 Identities=13% Similarity=0.088 Sum_probs=28.3
Q ss_pred cEEEEEEeCCCC-ChhhHHHHHHHHHHhhhccccCCCCCCCeEEEEec
Q 022576 153 GYVYVRLDKLSN-NMEELESYSQEYKKKLDEVGALGEIPDDLALEVST 199 (295)
Q Consensus 153 ~~LrV~IDk~~G-sIDDCe~vSR~Is~~LD~~e~~d~I~~~Y~LEVSS 199 (295)
..++.||++.+- |...++.+.+.+.+.+ ++.|.|||-=
T Consensus 2 ~~L~Lyv~g~tp~S~~ai~nl~~i~e~~l---------~~~~~LeVID 40 (72)
T cd02978 2 YVLRLYVAGRTPKSERALQNLKRILEELL---------GGPYELEVID 40 (72)
T ss_pred eEEEEEECCCCchHHHHHHHHHHHHHHhc---------CCcEEEEEEE
Confidence 358899998765 8888877777766555 3789999963
No 43
>PF08608 Wyosine_form: Wyosine base formation; InterPro: IPR013917 The proteins in this entry appear to be important in wyosine base formation in a subset of phenylalanine specific tRNAs. It has been proposed that it participates in converting tRNA(Phe)-m(1)G(37) to tRNA(Phe)-yW []. ; PDB: 2YX0_A 2Z2U_A.
Probab=43.38 E-value=25 Score=26.48 Aligned_cols=37 Identities=30% Similarity=0.495 Sum_probs=22.6
Q ss_pred ccccCCCCCceeecCCCHHHHHHHHHHHHHhhcCCeEEE
Q 022576 106 QVGDGGDGGGVVFQGVPWGERALSIAHEVLLQLGDDIKL 144 (295)
Q Consensus 106 ~~~d~~~g~~i~~~~~~~~ekI~el~epvle~~G~eLvd 144 (295)
++|.+. ......++||.++|.+.++.+++..||.+..
T Consensus 14 ~~G~s~--~rLt~~nmp~h~eV~~F~~~l~~~~~y~i~~ 50 (62)
T PF08608_consen 14 HVGYSR--NRLTMGNMPWHEEVLDFAEELAELLGYEITD 50 (62)
T ss_dssp ------------GGGS--HHHHHHHHHHHHTTSTEEEEE
T ss_pred cccccc--CccccCCCCcHHHHHHHHHHHHhhcCCEEEe
Confidence 345544 6788899999999999999999999966655
No 44
>PF06257 DUF1021: Protein of unknown function (DUF1021); InterPro: IPR009366 This entry consists of several hypothetical bacterial proteins of unknown function.; PDB: 3FB9_A.
Probab=41.29 E-value=66 Score=25.40 Aligned_cols=66 Identities=15% Similarity=0.173 Sum_probs=37.4
Q ss_pred hHHHhhcCCCeeEEEEeecCCCee--EEeEEEEEeeeeCCeeEEEEEeecccccCCCCCCCccccccccceeEEeeccCc
Q 022576 209 PDDLGRFKEMPITVCYEDQDSDSR--EKTGVFLLDSIEMDSEICVWKLADVKENRDPQEKGRPLSRKRRDWRLNLPFVMH 286 (295)
Q Consensus 209 ~~df~RfiGr~V~V~l~~~eG~k~--~~~GvL~L~svded~itv~~~LaDVk~nr~~~~KGr~l~kKq~e~~v~Ipf~~I 286 (295)
.+++..++|+.|.++.+ .|+++ +..|+| .+.=..=. ++.+.+ ..+. ..++++.|+||
T Consensus 9 k~~l~~~vG~~V~l~a~--~GRkK~~~r~GvL--~~tYPsvF--vV~l~~--------~~~~-------~~rvSySYsDv 67 (76)
T PF06257_consen 9 KKELESHVGKRVKLKAN--KGRKKIIEREGVL--EETYPSVF--VVELDQ--------EENQ-------FERVSYSYSDV 67 (76)
T ss_dssp HHHHHHTTTSEEEEEE----SSS--S-EEEEE--EEE-SSEE--EEEES---------S-SS--------EEEEEEHHHH
T ss_pred HHHHHHcCCCEEEEEEc--CCceEEEEEEEEE--EeecCcEE--EEEEcc--------CCCc-------eEEEEEEeehh
Confidence 35678999999999885 46644 457887 55544433 333321 1111 12589999988
Q ss_pred ceeEEEEeC
Q 022576 287 KRVTLYLEY 295 (295)
Q Consensus 287 kkArL~iEF 295 (295)
---.+.+.|
T Consensus 68 LT~~Vel~f 76 (76)
T PF06257_consen 68 LTETVELTF 76 (76)
T ss_dssp HTTSCEEEE
T ss_pred ccccEEEeC
Confidence 665555544
No 45
>COG0189 RimK Glutathione synthase/Ribosomal protein S6 modification enzyme (glutaminyl transferase) [Coenzyme metabolism / Translation, ribosomal structure and biogenesis]
Probab=39.59 E-value=79 Score=30.66 Aligned_cols=51 Identities=12% Similarity=0.086 Sum_probs=37.8
Q ss_pred CCHHHHHHHHHHHHHhhcCCeEEEEEEeeCCCcEEEEEE-eCCCC--ChhhHHH
Q 022576 121 VPWGERALSIAHEVLLQLGDDIKLYAFKATPRGYVYVRL-DKLSN--NMEELES 171 (295)
Q Consensus 121 ~~~~ekI~el~epvle~~G~eLvdVe~k~~~~~~LrV~I-Dk~~G--sIDDCe~ 171 (295)
..+.+++++++..+...+|+.++.|.+....++.+-+.| +.+++ .|+.|..
T Consensus 247 ~~l~~e~~elA~kaa~~lGl~~~GVDiie~~~g~~V~EVN~sP~~~~~i~~~~g 300 (318)
T COG0189 247 CELTEEEEELAVKAAPALGLGLVGVDIIEDKDGLYVTEVNVSPTGKGEIERVTG 300 (318)
T ss_pred cCCCHHHHHHHHHHHHHhCCeEEEEEEEecCCCcEEEEEeCCCccccchhhhcC
Confidence 456778999999999999999999999666665444444 26666 5665554
No 46
>KOG1783 consensus Small nuclear ribonucleoprotein F [RNA processing and modification]
Probab=38.35 E-value=21 Score=28.24 Aligned_cols=30 Identities=10% Similarity=0.089 Sum_probs=21.9
Q ss_pred HHHhhcCCCeeEEEEeecCCCeeEEeEEEEEeeeeC
Q 022576 210 DDLGRFKEMPITVCYEDQDSDSREKTGVFLLDSIEM 245 (295)
Q Consensus 210 ~df~RfiGr~V~V~l~~~eG~k~~~~GvL~L~svde 245 (295)
+=+..++||+|.|++. +|. .+.|+| ..+|.
T Consensus 9 ~fl~~iiGr~V~VKl~--sgv--dyrG~l--~~lDg 38 (77)
T KOG1783|consen 9 EFLKAIIGRTVVVKLN--SGV--DYRGTL--VCLDG 38 (77)
T ss_pred HHHHHHhCCeEEEEec--CCc--ccccee--hhhhh
Confidence 3456899999999995 454 568887 55554
No 47
>cd01733 LSm10 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of this family share a highly conserved Sm fold containing an N-terminal helix followed by a strongly bent five-stranded antiparallel beta-sheet. LSm10 is an SmD1-like protein which is thought to bind U7 snRNA along with LSm11 and five other Sm subunits to form a 7-member ring structure. LSm10 and the U7 snRNP of which it is a part are thought to play an important role in histone mRNA 3' processing.
Probab=38.29 E-value=1.9e+02 Score=22.45 Aligned_cols=39 Identities=21% Similarity=0.145 Sum_probs=28.3
Q ss_pred hhcCCCeeEEEEeecCCCeeEEeEEEEEeeeeCCeeEEEEEeeccccc
Q 022576 213 GRFKEMPITVCYEDQDSDSREKTGVFLLDSIEMDSEICVWKLADVKEN 260 (295)
Q Consensus 213 ~RfiGr~V~V~l~~~eG~k~~~~GvL~L~svded~itv~~~LaDVk~n 260 (295)
+...|+.|.|+++ +|. .+.|+| .++|+. . -+.|.|+++-
T Consensus 15 ~~l~g~~V~VeLK--ng~--~~~G~L--~~vD~~-M--Nl~L~~~~~~ 53 (78)
T cd01733 15 QGLQGKVVTVELR--NET--TVTGRI--ASVDAF-M--NIRLAKVTII 53 (78)
T ss_pred HHCCCCEEEEEEC--CCC--EEEEEE--EEEcCC-c--eeEEEEEEEE
Confidence 6789999999996 675 578987 788865 2 3345676553
No 48
>cd01725 LSm2 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of this family share a highly conserved Sm fold containing an N-terminal helix followed by a strongly bent five-stranded antiparallel beta-sheet. LSm2 is one of at least seven subunits that assemble onto U6 snRNA to form a seven-membered ring structure. Sm-like proteins exist in archaea as well as prokaryotes that form heptameric and hexameric ring structures similar to those found in eukaryotes.
Probab=37.59 E-value=60 Score=25.28 Aligned_cols=38 Identities=16% Similarity=0.158 Sum_probs=27.4
Q ss_pred hhcCCCeeEEEEeecCCCeeEEeEEEEEeeeeCCeeEEEEEeecccc
Q 022576 213 GRFKEMPITVCYEDQDSDSREKTGVFLLDSIEMDSEICVWKLADVKE 259 (295)
Q Consensus 213 ~RfiGr~V~V~l~~~eG~k~~~~GvL~L~svded~itv~~~LaDVk~ 259 (295)
+...|++|.|+++ +|. .+.|+| .++|+- . -+.|.|+++
T Consensus 7 ~~l~g~~V~VeLK--ng~--~~~G~L--~~vD~~-M--Ni~L~n~~~ 44 (81)
T cd01725 7 KTLVGKEVTVELK--NDL--SIRGTL--HSVDQY-L--NIKLTNISV 44 (81)
T ss_pred HhCCCCEEEEEEC--CCc--EEEEEE--EEECCC-c--ccEEEEEEE
Confidence 7789999999996 676 468988 788764 2 333556643
No 49
>cd01723 LSm4 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of this family share a highly conserved Sm fold containing an N-terminal helix followed by a strongly bent five-stranded antiparallel beta-sheet. LSm4 is one of at least seven subunits that assemble onto U6 snRNA to form a seven-membered ring structure. Sm-like proteins exist in archaea as well as prokaryotes that form heptameric and hexameric ring structures similar to those found in eukaryotes.
Probab=37.32 E-value=64 Score=24.71 Aligned_cols=39 Identities=15% Similarity=0.095 Sum_probs=27.8
Q ss_pred HhhcCCCeeEEEEeecCCCeeEEeEEEEEeeeeCCeeEEEEEeecccc
Q 022576 212 LGRFKEMPITVCYEDQDSDSREKTGVFLLDSIEMDSEICVWKLADVKE 259 (295)
Q Consensus 212 f~RfiGr~V~V~l~~~eG~k~~~~GvL~L~svded~itv~~~LaDVk~ 259 (295)
++...|+.|.|.++ +|. ...|+| .++|+- ..++ |.++++
T Consensus 6 L~~~~g~~V~VeLk--ng~--~~~G~L--~~~D~~-mNi~--L~~~~~ 44 (76)
T cd01723 6 LKTAQNHPMLVELK--NGE--TYNGHL--VNCDNW-MNIH--LREVIC 44 (76)
T ss_pred HHhcCCCEEEEEEC--CCC--EEEEEE--EEEcCC-CceE--EEeEEE
Confidence 46789999999996 565 568987 788875 3333 556654
No 50
>PF12701 LSM14: Scd6-like Sm domain; PDB: 2RM4_A 2FB7_A 2VC8_A 2VXF_A 2VXE_A.
Probab=37.26 E-value=2e+02 Score=23.44 Aligned_cols=67 Identities=18% Similarity=0.232 Sum_probs=42.1
Q ss_pred hcCCCeeEEEEeecCCCeeEEeEEEEEeeeeCCeeEEEEEeecccccCCCCCCCccc------cccccceeEEeeccCcc
Q 022576 214 RFKEMPITVCYEDQDSDSREKTGVFLLDSIEMDSEICVWKLADVKENRDPQEKGRPL------SRKRRDWRLNLPFVMHK 287 (295)
Q Consensus 214 RfiGr~V~V~l~~~eG~k~~~~GvL~L~svded~itv~~~LaDVk~nr~~~~KGr~l------~kKq~e~~v~Ipf~~Ik 287 (295)
.|+|..|.+... .+ . .++|+| ..+|.+.-|+ .|.+|+-. +..||+. +++.-+ -+.+.-+||+
T Consensus 5 ~~IGs~ISlisk--~~-i-RYeG~L--~~Id~~~sTI--tL~nVr~~---GtE~R~~~~~ipp~~~v~~-~I~Fr~sDIk 72 (96)
T PF12701_consen 5 PYIGSKISLISK--SD-I-RYEGIL--YSIDTEDSTI--TLKNVRSF---GTEGRPTDREIPPSDEVYD-YIVFRGSDIK 72 (96)
T ss_dssp CCTTCEEEEEET--TT-E-EEEEEE--EEEETTTTEE--EEEEEEET---TETTSS-SS---C-CSSSS-EEEEETTTEE
T ss_pred cccCCEEEEEEC--CC-c-EEEEEE--EEEcCCCCEE--Eeeeeeec---CcCCCCcCcccCCCCceee-EEEEEccccc
Confidence 689999999774 23 2 358998 7888766544 46677654 2334421 122222 3788889999
Q ss_pred eeEEE
Q 022576 288 RVTLY 292 (295)
Q Consensus 288 kArL~ 292 (295)
..++.
T Consensus 73 dL~v~ 77 (96)
T PF12701_consen 73 DLKVI 77 (96)
T ss_dssp EEEEC
T ss_pred eEEEE
Confidence 88764
No 51
>PF13222 DUF4030: Protein of unknown function (DUF4030)
Probab=36.81 E-value=1.4e+02 Score=26.31 Aligned_cols=83 Identities=17% Similarity=0.074 Sum_probs=53.4
Q ss_pred cCCCHHHHHHHHHHHHHhhcCCeEEEEE-EeeCCCcEEEEEEeCC-----CCChhhHHHHHHHHHHhhhccccCCCCC-C
Q 022576 119 QGVPWGERALSIAHEVLLQLGDDIKLYA-FKATPRGYVYVRLDKL-----SNNMEELESYSQEYKKKLDEVGALGEIP-D 191 (295)
Q Consensus 119 ~~~~~~ekI~el~epvle~~G~eLvdVe-~k~~~~~~LrV~IDk~-----~GsIDDCe~vSR~Is~~LD~~e~~d~I~-~ 191 (295)
+..-|..-+..+...+....||....+. ++..++..+.|.|+.. .|.=+--+++-..|...|-..++-.+|. +
T Consensus 50 ~e~RW~~V~~~I~d~lf~Kn~Y~~~gI~~~n~k~~qp~~v~I~t~in~~d~~AKE~g~kiEkei~~~lkt~evkkwI~~D 129 (142)
T PF13222_consen 50 QENRWNYVFSSIFDELFGKNGYKGFGIQQINVKSSQPVTVTIKTKINSSDPGAKEFGKKIEKEINEVLKTEEVKKWIEND 129 (142)
T ss_pred HhhhHHHHHHHHHHHHhhccCccccceeEeeecCCCcEEEEEeccccccccchHHHHHHHHHHHHHHHccHHHHHHHhCC
Confidence 3456888888999999999999999998 5555566678888741 1222333444444555554322233443 5
Q ss_pred CeEEEEecCC
Q 022576 192 DLALEVSTPG 201 (295)
Q Consensus 192 ~Y~LEVSSPG 201 (295)
.|++|+-|-+
T Consensus 130 sYtI~iy~~d 139 (142)
T PF13222_consen 130 SYTIEIYSQD 139 (142)
T ss_pred ceEEEEeccc
Confidence 6999997754
No 52
>cd01724 Sm_D1 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of this family share a highly conserved Sm fold containing an N-terminal helix followed by a strongly bent five-stranded antiparallel beta-sheet. Sm subunit D1 heterodimerizes with subunit D2 and three such heterodimers form a hexameric ring structure with alternating D1 and D2 subunits. The D1 - D2 heterodimer also assembles into a heptameric ring containing DB, D3, E, F, and G subunits. Sm-like proteins exist in archaea as well as prokaryotes which form heptameric and hexameric ring structures similar to those found in eukaryotes.
Probab=35.63 E-value=2.3e+02 Score=22.63 Aligned_cols=39 Identities=15% Similarity=0.203 Sum_probs=28.1
Q ss_pred HhhcCCCeeEEEEeecCCCeeEEeEEEEEeeeeCCeeEEEEEeecccc
Q 022576 212 LGRFKEMPITVCYEDQDSDSREKTGVFLLDSIEMDSEICVWKLADVKE 259 (295)
Q Consensus 212 f~RfiGr~V~V~l~~~eG~k~~~~GvL~L~svded~itv~~~LaDVk~ 259 (295)
++...|+.|.|++. +|. .+.|+| .++|+- . -+.|.|+++
T Consensus 6 L~~l~g~~V~VeLK--ng~--~~~G~L--~~vD~~-M--Nl~L~~a~~ 44 (90)
T cd01724 6 LMKLTNETVTIELK--NGT--IVHGTI--TGVDPS-M--NTHLKNVKL 44 (90)
T ss_pred HHhCCCCEEEEEEC--CCC--EEEEEE--EEEcCc-e--eEEEEEEEE
Confidence 47789999999996 576 568988 788764 2 334556654
No 53
>cd04873 ACT_UUR-ACR-like ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD. This ACT domain family, ACT_UUR_ACR-like, includes the two C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD; including those enzymes similar to the GlnD found in enteric Escherichia coli and those found in photosynthetic, nitrogen-fixing bacterium Rhodospirillum rubrum. Also included in this CD are the four ACT domains of a novel protein composed almost entirely of ACT domain repeats (the ACR protein) and like proteins. These ACR proteins, found in Arabidopsis and Oryza, are proposed to function as novel regulatory or sensor proteins in plants. This CD also includes the first of the two ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein and related domains, as well as, the N-terminal ACT domain of a yet characterized Arabidopsis/Oryza predicted t
Probab=35.44 E-value=1.5e+02 Score=20.55 Aligned_cols=52 Identities=17% Similarity=0.178 Sum_probs=33.4
Q ss_pred HHHHHHHHHhhcCCeEEEEEEeeC-CCcEEEEEEeCCCC---ChhhHHHHHHHHHH
Q 022576 127 ALSIAHEVLLQLGDDIKLYAFKAT-PRGYVYVRLDKLSN---NMEELESYSQEYKK 178 (295)
Q Consensus 127 I~el~epvle~~G~eLvdVe~k~~-~~~~LrV~IDk~~G---sIDDCe~vSR~Is~ 178 (295)
+..-+..++..+|+.+..+..... ....+.++++.+++ +.+.++.+.+.+..
T Consensus 13 ~l~~i~~~l~~~~~~I~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~l~~~l~~ 68 (70)
T cd04873 13 LLADITRVLADLGLNIHDARISTTGERALDVFYVTDSDGRPLDPERIARLEEALED 68 (70)
T ss_pred HHHHHHHHHHHCCCeEEEEEEeecCCEEEEEEEEECCCCCcCCHHHHHHHHHHHHh
Confidence 445566677889999999887433 33455666777665 44566665555543
No 54
>cd01732 LSm5 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of this family share a highly conserved Sm fold containing an N-terminal helix followed by a strongly bent five-stranded antiparallel beta-sheet. LSm4 is one of at least seven subunits that assemble onto U6 snRNA to form a seven-membered ring structure. Sm-like proteins exist in archaea as well as prokaryotes that form heptameric and hexameric ring structures similar to those found in eukaryotes.
Probab=34.48 E-value=81 Score=24.43 Aligned_cols=38 Identities=18% Similarity=0.135 Sum_probs=27.9
Q ss_pred hhcCCCeeEEEEeecCCCeeEEeEEEEEeeeeCCeeEEEEEeecccc
Q 022576 213 GRFKEMPITVCYEDQDSDSREKTGVFLLDSIEMDSEICVWKLADVKE 259 (295)
Q Consensus 213 ~RfiGr~V~V~l~~~eG~k~~~~GvL~L~svded~itv~~~LaDVk~ 259 (295)
.++++++|.|+++ +|+ ...|+| .++|.- . -+.|.|+++
T Consensus 9 ~~~~~~~V~V~l~--~gr--~~~G~L--~g~D~~-m--NlvL~da~E 46 (76)
T cd01732 9 DKCIGSRIWIVMK--SDK--EFVGTL--LGFDDY-V--NMVLEDVTE 46 (76)
T ss_pred HHhCCCEEEEEEC--CCe--EEEEEE--EEeccc-e--EEEEccEEE
Confidence 7889999999996 565 578988 788864 2 444666644
No 55
>cd01727 LSm8 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of this family share a highly conserved Sm fold containing an N-terminal helix followed by a strongly bent five-stranded antiparallel beta-sheet. LSm8 is one of at least seven subunits that assemble onto U6 snRNA to form a seven-membered ring structure. Sm-like proteins exist in archaea as well as prokaryotes that form heptameric and hexameric ring structures similar to those found in eukaryotes.
Probab=34.32 E-value=73 Score=24.20 Aligned_cols=30 Identities=13% Similarity=0.238 Sum_probs=24.1
Q ss_pred HHhhcCCCeeEEEEeecCCCeeEEeEEEEEeeeeCC
Q 022576 211 DLGRFKEMPITVCYEDQDSDSREKTGVFLLDSIEMD 246 (295)
Q Consensus 211 df~RfiGr~V~V~l~~~eG~k~~~~GvL~L~svded 246 (295)
.+..+++++|.|+++ +|+ .+.|+| ..+|..
T Consensus 3 ~L~~~l~~~V~V~l~--dgr--~~~G~L--~~~D~~ 32 (74)
T cd01727 3 TLEDYLNKTVSVITV--DGR--VIVGTL--KGFDQA 32 (74)
T ss_pred hHHHhcCCEEEEEEC--CCc--EEEEEE--EEEccc
Confidence 467889999999995 666 468988 788875
No 56
>TIGR03341 YhgI_GntY IscR-regulated protein YhgI. IscR (TIGR02010) is an iron-sulfur cluster-binding transcriptional regulator (see Genome Property GenProp0138). Members of this protein family include YhgI, whose expression is under control of IscR, and show sequence similarity to IscA, a known protein of iron-sulfur cluster biosynthesis. These two lines of evidence strongly suggest a role as an iron-sulfur cluster biosynthesis protein. An older study designated this protein GntY and suggested a role for it and for the product of an adjacent gene, based on complementation studies, in gluconate utilization.
Probab=33.61 E-value=1.6e+02 Score=26.64 Aligned_cols=68 Identities=13% Similarity=0.142 Sum_probs=44.1
Q ss_pred ccCCCCCceeecCCC-----------HHHHHHHHHH----HHHhhcCCeEEEEEEeeCCCcEEEEEEeCCCCChhhHHHH
Q 022576 108 GDGGDGGGVVFQGVP-----------WGERALSIAH----EVLLQLGDDIKLYAFKATPRGYVYVRLDKLSNNMEELESY 172 (295)
Q Consensus 108 ~d~~~g~~i~~~~~~-----------~~ekI~el~e----pvle~~G~eLvdVe~k~~~~~~LrV~IDk~~GsIDDCe~v 172 (295)
.+.+-|+|.++.+.. ..++|.++++ |.+...|-++..+.+... ++|.|.+-+. =..|...
T Consensus 80 ve~~~g~gF~f~NPna~~~~~~~~~~~~~~i~~~l~~~irP~l~~dGGdielv~v~~~--~~v~v~l~Ga---C~gC~~s 154 (190)
T TIGR03341 80 VTDRMGGQLTLKAPNAKMPKVADDAPLEERINYVLQSEINPQLASHGGKVTLVEITDD--GVAVLQFGGG---CNGCSMV 154 (190)
T ss_pred eecCCCceeEEeCCccCCCcCccchHHHHHHHHHHHhccCHHHHhcCCceEEEEEcCC--CEEEEEEeec---CCCCcch
Confidence 445667788887644 5667777776 889999999999887533 4677777643 2224444
Q ss_pred HHHHHHhh
Q 022576 173 SQEYKKKL 180 (295)
Q Consensus 173 SR~Is~~L 180 (295)
+-.+...+
T Consensus 155 ~~Tl~~~i 162 (190)
T TIGR03341 155 DVTLKDGV 162 (190)
T ss_pred HHHHHHHH
Confidence 44444333
No 57
>cd01730 LSm3 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of this family share a highly conserved Sm fold containing an N-terminal helix followed by a strongly bent five-stranded antiparallel beta-sheet. LSm3 is one of at least seven subunits that assemble onto U6 snRNA to form a seven-membered ring structure. Sm-like proteins exist in archaea as well as prokaryotes that form heptameric and hexameric ring structures similar to those found in eukaryotes.
Probab=32.82 E-value=84 Score=24.39 Aligned_cols=39 Identities=18% Similarity=0.140 Sum_probs=28.4
Q ss_pred hhcCCCeeEEEEeecCCCeeEEeEEEEEeeeeCCeeEEEEEeeccccc
Q 022576 213 GRFKEMPITVCYEDQDSDSREKTGVFLLDSIEMDSEICVWKLADVKEN 260 (295)
Q Consensus 213 ~RfiGr~V~V~l~~~eG~k~~~~GvL~L~svded~itv~~~LaDVk~n 260 (295)
+.+.+++|.|+++ +|+ .+.|+| .++|.- +-+.|.|+++.
T Consensus 7 ~~~~~k~V~V~l~--~gr--~~~G~L--~~fD~~---mNlvL~d~~E~ 45 (82)
T cd01730 7 RLSLDERVYVKLR--GDR--ELRGRL--HAYDQH---LNMILGDVEET 45 (82)
T ss_pred HHhCCCEEEEEEC--CCC--EEEEEE--EEEccc---eEEeccceEEE
Confidence 6779999999996 675 568988 788864 24446676554
No 58
>TIGR02654 circ_KaiB circadian clock protein KaiB. Members of this protein family are the circadian clock protein KaiB of Cyanobacteria, encoded in the circadian clock gene cluster kaiABC. KaiB has homologs of unknown function in some Archaea and Proteobacteria, and has paralogs of unknown function in some Cyanobacteria. KaiB forms homodimers, homotetramers, and multimeric complexes with KaiA and/or KaiC.
Probab=31.78 E-value=1.2e+02 Score=24.63 Aligned_cols=40 Identities=10% Similarity=0.086 Sum_probs=30.4
Q ss_pred CcEEEEEEeCCCC-ChhhHHHHHHHHHHhhhccccCCCCCCCeEEEEecC
Q 022576 152 RGYVYVRLDKLSN-NMEELESYSQEYKKKLDEVGALGEIPDDLALEVSTP 200 (295)
Q Consensus 152 ~~~LrV~IDk~~G-sIDDCe~vSR~Is~~LD~~e~~d~I~~~Y~LEVSSP 200 (295)
...++.+|-+.+- |...++.+.+.+...|. +.|.|||-=+
T Consensus 3 ~~~LrLyvag~~p~S~~ai~nl~~i~e~~l~---------g~y~LeVIDv 43 (87)
T TIGR02654 3 TYVLKLYVAGNTPNSVRALKTLKNILETEFQ---------GVYALKVIDV 43 (87)
T ss_pred eEEEEEEEeCCCchHHHHHHHHHHHHHHhcC---------CceEEEEEEc
Confidence 3578999987766 88888888877776654 5699999744
No 59
>PF13083 KH_4: KH domain; PDB: 3GKU_B.
Probab=31.38 E-value=2.2e+02 Score=21.11 Aligned_cols=62 Identities=10% Similarity=0.038 Sum_probs=37.8
Q ss_pred HHHHHHHHHHHhhcCCeEEEEEE-eeCCCcEEEEEEeCCCC---------ChhhHHHHHHHHHHhhhccccCCCCCCCeE
Q 022576 125 ERALSIAHEVLLQLGDDIKLYAF-KATPRGYVYVRLDKLSN---------NMEELESYSQEYKKKLDEVGALGEIPDDLA 194 (295)
Q Consensus 125 ekI~el~epvle~~G~eLvdVe~-k~~~~~~LrV~IDk~~G---------sIDDCe~vSR~Is~~LD~~e~~d~I~~~Y~ 194 (295)
+.+..++++++...+ =+.+++ .......+.|.++.++- +++-+..+.+.+...-. ..|.
T Consensus 2 e~l~~~l~~l~~~~~--~v~v~~~~~~~~~~i~v~i~~ed~g~lIGk~G~tl~ALq~l~~~~~~~~~---------~~~~ 70 (73)
T PF13083_consen 2 EFLEDFLKNLVDKPM--DVEVTIEIEEDGDTIVVNIDGEDAGRLIGKHGKTLNALQYLVNAAANKHG---------KRVR 70 (73)
T ss_dssp ---HHHHHHHHHHTT----EEEEEEETTTTEEEEEEESCCCHHHCTTHHHHHHHHHHHHHHHHHHT----------SS-E
T ss_pred chHHHHHHHHhCCcC--eEEEEEEEcCCceEEEEEECCCccceEECCCCeeHHHHHHHHHHHHHhCC---------CEEE
Confidence 457888889986543 233333 34557789999998762 88888888777765533 3567
Q ss_pred EEE
Q 022576 195 LEV 197 (295)
Q Consensus 195 LEV 197 (295)
++|
T Consensus 71 v~I 73 (73)
T PF13083_consen 71 VEI 73 (73)
T ss_dssp EE-
T ss_pred EeC
Confidence 665
No 60
>PRK09301 circadian clock protein KaiB; Provisional
Probab=31.00 E-value=1.1e+02 Score=25.49 Aligned_cols=40 Identities=10% Similarity=0.086 Sum_probs=30.7
Q ss_pred CcEEEEEEeCCCC-ChhhHHHHHHHHHHhhhccccCCCCCCCeEEEEecC
Q 022576 152 RGYVYVRLDKLSN-NMEELESYSQEYKKKLDEVGALGEIPDDLALEVSTP 200 (295)
Q Consensus 152 ~~~LrV~IDk~~G-sIDDCe~vSR~Is~~LD~~e~~d~I~~~Y~LEVSSP 200 (295)
...++.||-+.+- |...++.+.+.+...|. +.|.|||-=.
T Consensus 6 ~~~LrLyVag~tp~S~~ai~nL~~icE~~l~---------g~y~LeVIDv 46 (103)
T PRK09301 6 TYILKLYVAGNTPNSVRALKTLKNILETEFK---------GVYALKVIDV 46 (103)
T ss_pred eEEEEEEEeCCCchHHHHHHHHHHHHHHhcC---------CceEEEEEEc
Confidence 4678999987766 88888888887776655 5699999743
No 61
>PLN02677 mevalonate kinase
Probab=29.75 E-value=97 Score=31.00 Aligned_cols=39 Identities=15% Similarity=0.131 Sum_probs=24.6
Q ss_pred CCCCCc--eeecCCCHHHHHHHHHHHHHhhcCCeEEEEEEe
Q 022576 110 GGDGGG--VVFQGVPWGERALSIAHEVLLQLGDDIKLYAFK 148 (295)
Q Consensus 110 ~~~g~~--i~~~~~~~~ekI~el~epvle~~G~eLvdVe~k 148 (295)
|++||| |.|......+...+-+...++..|++.+...+.
T Consensus 335 GAGgGGC~IaL~~~~~~~~~~~~l~~~l~~~G~~~~~~~~g 375 (387)
T PLN02677 335 GAGGGGCVLTLLPTLLSGTVVDKVIAELESSGFQCFTAGIG 375 (387)
T ss_pred cCCCCCEEEEEcccccchhHHHHHHHHHHHCCCeEEEEEeC
Confidence 344455 777654444444455566666779999988863
No 62
>cd04897 ACT_ACR_3 ACT domain-containing protein which is composed almost entirely of four ACT domain repeats (the "ACR" protein). This CD includes the third ACT domain, of a novel type of ACT domain-containing protein which is composed almost entirely of four ACT domain repeats (the "ACR" protein). ACR proteins, found only in Arabidopsis and Oryza, as yet, are proposed to function as novel regulatory or sensor proteins in plants. Nine ACR gene products have been described (ACR1-8 in Arabidopsis and OsARC1-9 in Oryza) and are represented in this CD. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=29.14 E-value=2.7e+02 Score=21.57 Aligned_cols=55 Identities=5% Similarity=-0.100 Sum_probs=41.5
Q ss_pred HHHHHHHHHhhcCCeEEEEEEeeCCCcEEEEE-EeCCCC----ChhhHHHHHHHHHHhhh
Q 022576 127 ALSIAHEVLLQLGDDIKLYAFKATPRGYVYVR-LDKLSN----NMEELESYSQEYKKKLD 181 (295)
Q Consensus 127 I~el~epvle~~G~eLvdVe~k~~~~~~LrV~-IDk~~G----sIDDCe~vSR~Is~~LD 181 (295)
+..-+..++..+|+.+.--.+.+.+...+.+| |...+| +-+.|+++-+.+.+.|.
T Consensus 14 LL~~i~~~l~~~~l~I~~A~I~T~gera~D~FyV~d~~g~kl~~~~~~~~l~~~L~~al~ 73 (75)
T cd04897 14 LLFDVVCTLTDMDYVVFHATIDTDGDDAHQEYYIRHKDGRTLSTEGERQRVIKCLEAAIE 73 (75)
T ss_pred HHHHHHHHHHhCCeEEEEEEEeecCceEEEEEEEEcCCCCccCCHHHHHHHHHHHHHHHh
Confidence 45556678888999999988866666666655 655555 67789999999988876
No 63
>PF11211 DUF2997: Protein of unknown function (DUF2997); InterPro: IPR021375 This family of proteins has no known function.
Probab=28.41 E-value=1.3e+02 Score=21.52 Aligned_cols=35 Identities=14% Similarity=0.221 Sum_probs=27.6
Q ss_pred EEeeCCCcEEEEEEeCCCCChhhHHHHHHHHHHhhhc
Q 022576 146 AFKATPRGYVYVRLDKLSNNMEELESYSQEYKKKLDE 182 (295)
Q Consensus 146 e~k~~~~~~LrV~IDk~~GsIDDCe~vSR~Is~~LD~ 182 (295)
+|...+.+.|++.+.+-.| ..|..+++.|.+.|..
T Consensus 2 ~~~I~~dG~V~~~v~G~~G--~~C~~~t~~lE~~LG~ 36 (48)
T PF11211_consen 2 EFTIYPDGRVEEEVEGFKG--SSCLEATAALEEALGT 36 (48)
T ss_pred EEEECCCcEEEEEEEeccC--hhHHHHHHHHHHHhCc
Confidence 4556677888888876655 5699999999999974
No 64
>PF02700 PurS: Phosphoribosylformylglycinamidine (FGAM) synthase; InterPro: IPR003850 Phosphoribosylformylglycinamidine(FGAM) synthetase, 6.3.5.3 from EC, catalyses the fourth step in the de novo purine biosynthetic pathway []. 5-phosphoribosylformylglycinamide (FGAR) + glutamine + ATP = FGAM + glutamate + ADP + Pi In eukaryotes and many bacterial systems (including Escherichia coli and Salmonella typhimurium), the FGAM synthetase is encoded by the large form of PurL (lgPurL), which contains an N-terminal ATPase domain and a C-terminal glutamine-binding domain. In archaeal and other bacterial systems, however, FGAM synthetase is encoded by separate genes, making it a multisubunit (rather than multidomain) enzyme. The protein is composed of the small form of PurL (smPurL), which is homologus to the ATPase domain of lgPurL, PurQ which is homologous to the glutamine-binding domain of of lgPurL, and PurS, whose function is not known. This entry represents the PurS subunit of the multisubunit FGAM synthetase. Recent studies showed that disruption of the purS gene in Bacillus subtilis resulted in a purine auxotrophic phenotype, due to defective FGAM synthetase activity. Therefore, the PurS protein appears to be required for the function of the PurL and PurQ subunits of the FGAM synthetase, but the molecular mechanism for the functional role of PurS is currently not known. For additional information please see [, ].; GO: 0016879 ligase activity, forming carbon-nitrogen bonds; PDB: 2ZW2_B 3D54_B 1VQ3_B 1GTD_A 2YX5_A 2CUW_A 1TWJ_B 1T4A_B 2DGB_B.
Probab=26.34 E-value=3.2e+02 Score=21.39 Aligned_cols=61 Identities=26% Similarity=0.280 Sum_probs=37.7
Q ss_pred HHHHHHHHhhcCCe-EEEEEEeeCCCcEEEEEEeCCCCChhhHHHHHHHHHHhhhccccCCCCCCCeEEEEe
Q 022576 128 LSIAHEVLLQLGDD-IKLYAFKATPRGYVYVRLDKLSNNMEELESYSQEYKKKLDEVGALGEIPDDLALEVS 198 (295)
Q Consensus 128 ~el~epvle~~G~e-LvdVe~k~~~~~~LrV~IDk~~GsIDDCe~vSR~Is~~LD~~e~~d~I~~~Y~LEVS 198 (295)
=+.+...+..+||. +.+|... .++++.++..+ -++.++--+.+...|= .+|+-++|.++|.
T Consensus 18 G~ai~~al~~lG~~~v~~Vr~G----K~~~l~~~~~~--~e~a~~~v~~i~~~LL----aNpvie~y~i~~~ 79 (80)
T PF02700_consen 18 GEAIKRALHRLGYDGVKDVRVG----KYIELELEADD--EEEAEEQVEEICEKLL----ANPVIEDYEIEVE 79 (80)
T ss_dssp HHHHHHHHHHTT-TTEEEEEEE----EEEEEEEE-SS--HHHHHHHHHHHHHHTT----S-TTTEEEEEEEE
T ss_pred HHHHHHHHHHcCCcccCcEEEE----EEEEEEEeCCC--HHHHHHHHHHHHHHhc----CCCceEEEEEEEE
Confidence 34556667789998 8888742 36888888653 4444444455554453 4677789999873
No 65
>PRK08559 nusG transcription antitermination protein NusG; Validated
Probab=26.16 E-value=1.8e+02 Score=25.09 Aligned_cols=41 Identities=12% Similarity=0.001 Sum_probs=31.3
Q ss_pred CCHHHHHHHHHHHHHhhcCCeEEEEEEeeCCCcEEEEEEeC
Q 022576 121 VPWGERALSIAHEVLLQLGDDIKLYAFKATPRGYVYVRLDK 161 (295)
Q Consensus 121 ~~~~ekI~el~epvle~~G~eLvdVe~k~~~~~~LrV~IDk 161 (295)
..+++++.+.++.-++..|+.+..+-+...-.+||-|..+.
T Consensus 15 sG~E~~V~~~L~~~~~~~~~~i~~i~vp~~fpGYVfVe~~~ 55 (153)
T PRK08559 15 AGQERNVALMLAMRAKKENLPIYAILAPPELKGYVLVEAES 55 (153)
T ss_pred CChHHHHHHHHHHHHHhCCCcEEEEEccCCCCcEEEEEEEC
Confidence 34688999999999988888877776644446788887764
No 66
>cd04861 LigD_Pol_like LigD_Pol_like: Polymerase (Pol) domain of bacterial LigD proteins similar to Pseudomonas aeruginosa (Pae) LigD. The LigD Pol domain belongs to the archaeal/eukaryal primase (AEP) superfamily. In prokaryotes, LigD along with Ku is required for non-homologous end joining (NHEJ)-mediated repair of DNA double-strand breaks (DSB). NHEJ-mediated DNA DSB repair is error-prone. PaeLigD is monomeric, containing an N-terminal phosphoesterase module, a central polymerase (Pol) domain, and a C-terminal ATP-dependent ligase domain. Mycobacterium tuberculosis (Mt)LigD, also found in this group, is monomeric and contains the same modules but these are arranged differently: an N-terminal Pol domain, a central phosphoesterase module, and a C-terminal ligase domain. It has been suggested that LigD Pol contributes to NHEJ-mediated DNA DSB repair in vivo, by filling in short 5'-overhangs with ribonucleotides; the filled in termini would then be sealed by the associated LigD ligase do
Probab=26.04 E-value=2.2e+02 Score=26.81 Aligned_cols=83 Identities=19% Similarity=0.251 Sum_probs=59.8
Q ss_pred CCHHHH--HHHHHHHHHhhcCCeEEEEEEeeCCCcEEEEEEeCCCC-ChhhHHHHHHHHHHhhhccccCCCCCCCeEEEE
Q 022576 121 VPWGER--ALSIAHEVLLQLGDDIKLYAFKATPRGYVYVRLDKLSN-NMEELESYSQEYKKKLDEVGALGEIPDDLALEV 197 (295)
Q Consensus 121 ~~~~ek--I~el~epvle~~G~eLvdVe~k~~~~~~LrV~IDk~~G-sIDDCe~vSR~Is~~LD~~e~~d~I~~~Y~LEV 197 (295)
..|.+- +..++.++++++|+.-+- |++++.=|.|+|--... +-+++-.+++.|...|.+ ..|+-|+.
T Consensus 111 ~~f~~v~~~A~~vr~~L~~lgL~~f~---KTSG~kGlHV~vPl~~~~~~~~~r~fa~~iA~~l~~-----~~P~~~t~-- 180 (227)
T cd04861 111 VPFEDVVEAALLLRELLDELGLESFP---KTSGGKGLHVYVPLAPRYTWDEVRAFAKALARELAR-----RLPDLFTA-- 180 (227)
T ss_pred CCHHHHHHHHHHHHHHHHHcCCccce---EccCCCeEEEEEEcCCCCCHHHHHHHHHHHHHHHHH-----HCchhhhh--
Confidence 345554 467889999999986432 66666667777765556 899999999999999984 22454444
Q ss_pred ecCCCCCCCCChHHHhhcCCCeeEEEE-e
Q 022576 198 STPGAERMLKVPDDLGRFKEMPITVCY-E 225 (295)
Q Consensus 198 SSPGiERpLk~~~df~RfiGr~V~V~l-~ 225 (295)
+-.+...|-+|.|-| +
T Consensus 181 ------------~~~k~~R~grvfiDy~q 197 (227)
T cd04861 181 ------------EMAKAKRGGKIFVDYLQ 197 (227)
T ss_pred ------------HhhHHhCCCCEEEECcc
Confidence 445677888899988 5
No 67
>PF05219 DREV: DREV methyltransferase; InterPro: IPR007884 This family contains DREV protein homologues from several eukaryotes. The function of this protein is unknown []. However, these proteins appear to be related to other methyltransferases.
Probab=25.94 E-value=99 Score=29.80 Aligned_cols=41 Identities=24% Similarity=0.425 Sum_probs=33.2
Q ss_pred CcccccCCCC------CceeecCCCHHHHHHHHHHHHHhhcCCeEEEEE
Q 022576 104 EPQVGDGGDG------GGVVFQGVPWGERALSIAHEVLLQLGDDIKLYA 146 (295)
Q Consensus 104 ~~~~~d~~~g------~~i~~~~~~~~ekI~el~epvle~~G~eLvdVe 146 (295)
-|||..|+ | --+.+.|..|++.+..++ .+++..|+++....
T Consensus 193 ~pyVE~~~-g~~~~P~e~l~~~g~~~E~~v~~l~-~v~~p~GF~v~~~t 239 (265)
T PF05219_consen 193 RPYVEFGG-GKSNRPSELLPVKGATFEEQVSSLV-NVFEPAGFEVERWT 239 (265)
T ss_pred cccEEcCC-CCCCCchhhcCCCCCcHHHHHHHHH-HHHHhcCCEEEEEe
Confidence 47777776 2 236677789999999999 99999999998765
No 68
>cd04479 RPA3 RPA3: A subfamily of OB folds similar to human RPA3 (also called RPA14). RPA3 is the smallest subunit of Replication protein A (RPA). RPA is a nuclear ssDNA binding protein (SSB) which appears to be involved in all aspects of DNA metabolism including replication, recombination, and repair. RPA also mediates specific interactions of various nuclear proteins. In animals, plants, and fungi, RPA is a heterotrimer with subunits of 70KDa (RPA1), 32kDa (RPA2), and 14 KDa (RPA3). RPA3 is believed to have a structural role in assembly of the RPA heterotrimer.
Probab=24.82 E-value=2e+02 Score=23.17 Aligned_cols=42 Identities=17% Similarity=0.023 Sum_probs=27.5
Q ss_pred CCCCChHHHhhcCCCeeEEEE--eecCCCeeEEeEEEEEeeeeCCeeEEE
Q 022576 204 RMLKVPDDLGRFKEMPITVCY--EDQDSDSREKTGVFLLDSIEMDSEICV 251 (295)
Q Consensus 204 RpLk~~~df~RfiGr~V~V~l--~~~eG~k~~~~GvL~L~svded~itv~ 251 (295)
+|..+.+.+.+|+|+.|++-- ...+|. .+.+.+.|+..++|.
T Consensus 2 ~prVn~~~L~~f~gk~V~ivGkV~~~~~~------~~~~~~~Dg~~v~v~ 45 (101)
T cd04479 2 TPRINGAMLSQFVGKTVRIVGKVEKVDGD------SLTLISSDGVNVTVE 45 (101)
T ss_pred CceeCHHHHHhhCCCEEEEEEEEEEecCC------eEEEEcCCCCEEEEE
Confidence 577788999999999999865 333333 122355565555444
No 69
>PF13670 PepSY_2: Peptidase propeptide and YPEB domain This Prosite motif covers only the active site. This is family M4 in the peptidase classification.
Probab=24.12 E-value=2.7e+02 Score=21.19 Aligned_cols=18 Identities=22% Similarity=0.183 Sum_probs=12.6
Q ss_pred HHHHHHhhcCCeEEEEEE
Q 022576 130 IAHEVLLQLGDDIKLYAF 147 (295)
Q Consensus 130 l~epvle~~G~eLvdVe~ 147 (295)
-+...+++.||++.++++
T Consensus 33 ~~~~~l~~~G~~v~~ve~ 50 (83)
T PF13670_consen 33 QAVAKLEAQGYQVREVEF 50 (83)
T ss_pred HHHHHHHhcCCceEEEEE
Confidence 344456668888888887
No 70
>PRK11190 Fe/S biogenesis protein NfuA; Provisional
Probab=24.00 E-value=2.5e+02 Score=25.47 Aligned_cols=53 Identities=17% Similarity=0.239 Sum_probs=38.1
Q ss_pred ccCCCCCceeecCC-----------CHHHHHHHHHH----HHHhhcCCeEEEEEEeeCCCcEEEEEEeCC
Q 022576 108 GDGGDGGGVVFQGV-----------PWGERALSIAH----EVLLQLGDDIKLYAFKATPRGYVYVRLDKL 162 (295)
Q Consensus 108 ~d~~~g~~i~~~~~-----------~~~ekI~el~e----pvle~~G~eLvdVe~k~~~~~~LrV~IDk~ 162 (295)
-+.+-|+|.++.+. ...++|+++++ |.|...|-++..+.+.. ++++.|.+-+.
T Consensus 81 ve~~~g~gF~f~NPNa~~~~~~~~~~~~~~i~~~l~~~irP~l~~dGGdielv~v~~--~~~v~v~l~Ga 148 (192)
T PRK11190 81 VTDQLGSQLTLKAPNAKMRKVADDAPLMERVEYVLQSQINPQLAGHGGRVSLMEITE--DGYAILQFGGG 148 (192)
T ss_pred eecCCCCceEEECCCCCCCCCcccHHHHHHHHHHHHhccChhHHhcCCcEEEEEEcC--CCEEEEEEeec
Confidence 45566778888754 24666777776 88999999999988763 35778877653
No 71
>KOG1781 consensus Small Nuclear ribonucleoprotein splicing factor [RNA processing and modification]
Probab=23.79 E-value=53 Score=27.41 Aligned_cols=43 Identities=19% Similarity=0.290 Sum_probs=31.1
Q ss_pred EEecCCCCCCCC-ChHHHhhcCCCeeEEEEeecCCCeeEEeEEEEEeeee
Q 022576 196 EVSTPGAERMLK-VPDDLGRFKEMPITVCYEDQDSDSREKTGVFLLDSIE 244 (295)
Q Consensus 196 EVSSPGiERpLk-~~~df~RfiGr~V~V~l~~~eG~k~~~~GvL~L~svd 244 (295)
++++-+.++|=| ..=|+.||+.+.|+|++. .|+ +..|+| ..+|
T Consensus 5 ~~~~~~~e~~kkEsilDLsky~Dk~Irvkf~--GGr--~~sGiL--kGyD 48 (108)
T KOG1781|consen 5 HSQRKKFEKPKKESILDLSKYLDKKIRVKFT--GGR--EASGIL--KGYD 48 (108)
T ss_pred hhccccccccchhHHhhHHHhhccceEEEee--cCc--eeeeeh--hhHH
Confidence 345666666654 345899999999999996 565 568998 5654
No 72
>PF01106 NifU: NifU-like domain; InterPro: IPR001075 Iron-sulphur (FeS) clusters are important cofactors for numerous proteins involved in electron transfer, in redox and non-redox catalysis, in gene regulation, and as sensors of oxygen and iron. These functions depend on the various FeS cluster prosthetic groups, the most common being [2Fe-2S] and [4Fe-4S] []. FeS cluster assembly is a complex process involving the mobilisation of Fe and S atoms from storage sources, their assembly into [Fe-S] form, their transport to specific cellular locations, and their transfer to recipient apoproteins. So far, three FeS assembly machineries have been identified, which are capable of synthesising all types of [Fe-S] clusters: ISC (iron-sulphur cluster), SUF (sulphur assimilation), and NIF (nitrogen fixation) systems. The ISC system is conserved in eubacteria and eukaryotes (mitochondria), and has broad specificity, targeting general FeS proteins [, ]. It is encoded by the isc operon (iscRSUA-hscBA-fdx-iscX). IscS is a cysteine desulphurase, which obtains S from cysteine (converting it to alanine) and serves as a S donor for FeS cluster assembly. IscU and IscA act as scaffolds to accept S and Fe atoms, assembling clusters and transfering them to recipient apoproteins. HscA is a molecular chaperone and HscB is a co-chaperone. Fdx is a [2Fe-2S]-type ferredoxin. IscR is a transcription factor that regulates expression of the isc operon. IscX (also known as YfhJ) appears to interact with IscS and may function as an Fe donor during cluster assembly []. The SUF system is an alternative pathway to the ISC system that operates under iron starvation and oxidative stress. It is found in eubacteria, archaea and eukaryotes (plastids). The SUF system is encoded by the suf operon (sufABCDSE), and the six encoded proteins are arranged into two complexes (SufSE and SufBCD) and one protein (SufA). SufS is a pyridoxal-phosphate (PLP) protein displaying cysteine desulphurase activity. SufE acts as a scaffold protein that accepts S from SufS and donates it to SufA []. SufC is an ATPase with an unorthodox ATP-binding cassette (ABC)-like component. No specific functions have been assigned to SufB and SufD. SufA is homologous to IscA [], acting as a scaffold protein in which Fe and S atoms are assembled into [FeS] cluster forms, which can then easily be transferred to apoproteins targets. In the NIF system, NifS and NifU are required for the formation of metalloclusters of nitrogenase in Azotobacter vinelandii, and other organisms, as well as in the maturation of other FeS proteins. Nitrogenase catalyses the fixation of nitrogen. It contains a complex cluster, the FeMo cofactor, which contains molybdenum, Fe and S. NifS is a cysteine desulphurase. NifU binds one Fe atom at its N-terminal, assembling an FeS cluster that is transferred to nitrogenase apoproteins []. Nif proteins involved in the formation of FeS clusters can also be found in organisms that do not fix nitrogen []. This entry represents the C-terminal of NifU and homologous proteins. NifU contains two domains: an N-terminal (IPR002871 from INTERPRO) and a C-terminal domain []. These domains exist either together or on different polypeptides, both domains being found in organisms that do not fix nitrogen (e.g. yeast), so they have a broader significance in the cell than nitrogen fixation. ; GO: 0005506 iron ion binding, 0051536 iron-sulfur cluster binding, 0016226 iron-sulfur cluster assembly; PDB: 2JNV_A 2Z51_A 1TH5_A 1VEH_A 1XHJ_A.
Probab=22.97 E-value=2.2e+02 Score=21.40 Aligned_cols=34 Identities=29% Similarity=0.315 Sum_probs=26.0
Q ss_pred HHHHHHHHHHHhhcCCeEEEEEEeeCCCcEEEEEEeCC
Q 022576 125 ERALSIAHEVLLQLGDDIKLYAFKATPRGYVYVRLDKL 162 (295)
Q Consensus 125 ekI~el~epvle~~G~eLvdVe~k~~~~~~LrV~IDk~ 162 (295)
+-|.+ +.|.+...|-++..+.+... .++|.+-+.
T Consensus 3 ~~l~~-IrP~L~~dGGdv~lv~v~~~---~V~V~l~Ga 36 (68)
T PF01106_consen 3 EVLEE-IRPYLQSDGGDVELVDVDDG---VVYVRLTGA 36 (68)
T ss_dssp HHHHH-CHHHHHHTTEEEEEEEEETT---EEEEEEESS
T ss_pred HHHHH-hChHHHhcCCcEEEEEecCC---EEEEEEEeC
Confidence 33445 99999999999999887644 777777654
No 73
>TIGR02778 ligD_pol DNA polymerase LigD, polymerase domain. DNA repair of double-stranded breaks by non-homologous end joining (NHEJ) is accomplished by a two-protein system that is present in a minority of prokaryotes. One component is the Ku protein (see TIGR02772), which binds DNA ends. The other is a DNA ligase, a protein that is a multidomain polypeptide in most of those bacteria that have NHEJ, a permuted polypeptide in Mycobacterium tuberculosis and a few other species, and the product of tandem genes in some other bacteria. This model represents the polymerase domain.
Probab=22.68 E-value=2e+02 Score=27.39 Aligned_cols=82 Identities=18% Similarity=0.281 Sum_probs=59.4
Q ss_pred CHHH--HHHHHHHHHHhhcCCeEEEEEEeeCCCcEEEEEEeCCCC-ChhhHHHHHHHHHHhhhccccCCCCCCCeEEEEe
Q 022576 122 PWGE--RALSIAHEVLLQLGDDIKLYAFKATPRGYVYVRLDKLSN-NMEELESYSQEYKKKLDEVGALGEIPDDLALEVS 198 (295)
Q Consensus 122 ~~~e--kI~el~epvle~~G~eLvdVe~k~~~~~~LrV~IDk~~G-sIDDCe~vSR~Is~~LD~~e~~d~I~~~Y~LEVS 198 (295)
.|.+ ++..++.++++++|+.-+- |++++.=|.|+|--... +-+++-.+++.|-..|.+ ..|+-|+.
T Consensus 128 ~f~~v~~~A~~~r~~L~~lgL~~f~---KTSG~kGlHV~vPl~~~~~~~~~r~fa~~iA~~l~~-----~~Pd~~t~--- 196 (245)
T TIGR02778 128 AWKLVVEAAQLIRELLDELGLESFV---KTSGGKGLHVYVPLRPTLSWDEVKDFAKALAQALAQ-----QMPDRFTA--- 196 (245)
T ss_pred CHHHHHHHHHHHHHHHHHcCCccce---EccCCCeEEEEEECCCCCCHHHHHHHHHHHHHHHHH-----HCchhhhh---
Confidence 4444 4667889999999986432 66666667777765555 899999999999999984 23454443
Q ss_pred cCCCCCCCCChHHHhhcCCCeeEEEE-e
Q 022576 199 TPGAERMLKVPDDLGRFKEMPITVCY-E 225 (295)
Q Consensus 199 SPGiERpLk~~~df~RfiGr~V~V~l-~ 225 (295)
+-.++.+|-+|.|-| +
T Consensus 197 -----------~~~k~~R~gkvfiDylq 213 (245)
T TIGR02778 197 -----------EMSKKNRVGKIFVDYLR 213 (245)
T ss_pred -----------HhhHHhCCCCEEEECcc
Confidence 455677888899988 5
No 74
>cd04869 ACT_GcvR_2 ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains. This CD includes the second of the two ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains. The glycine cleavage enzyme system in Escherichia coli provides one-carbon units for cellular methylation reactions. This enzyme system, encoded by the gcvTHP operon and lpd gene, catalyzes the cleavage of glycine into CO2 + NH3 and transfers a one-carbon unit to tetrahydrofolate, producing 5,10-methylenetetrahydrofolate. The gcvTHP operon is activated by the GcvA protein in response to glycine and repressed by a GcvA/GcvR interaction in the absence of glycine. It has been proposed that the co-activator glycine acts through a mechanism of de-repression by binding to GcvR and preventing GcvR from interacting with GcvA to block GcvA's activator function. Evidence also suggests that GcvR in
Probab=22.59 E-value=3.1e+02 Score=19.96 Aligned_cols=54 Identities=15% Similarity=0.110 Sum_probs=33.7
Q ss_pred HHHHHHHHHhhcCCeEEEEEEee-C------CCcEEEEEEeCCCC-ChhhHHHHHHHHHHhh
Q 022576 127 ALSIAHEVLLQLGDDIKLYAFKA-T------PRGYVYVRLDKLSN-NMEELESYSQEYKKKL 180 (295)
Q Consensus 127 I~el~epvle~~G~eLvdVe~k~-~------~~~~LrV~IDk~~G-sIDDCe~vSR~Is~~L 180 (295)
+.+-+..++.++|+.+.+++... . +.-.+++.++-+.+ +++++++-=+.+.+.+
T Consensus 12 iv~~it~~l~~~~~nI~~~~~~~~~~~~~~~~~~~~~~~v~~p~~~~~~~l~~~l~~l~~~~ 73 (81)
T cd04869 12 IVHEVTQFLAQRNINIEDLSTETYSAPMSGTPLFKAQATLALPAGTDLDALREELEELCDDL 73 (81)
T ss_pred HHHHHHHHHHHcCCCeEEeEeeeecCCCCCcceEEEEEEEecCCCCCHHHHHHHHHHHHHHh
Confidence 34456777888999999999833 2 12246777777765 6655554444444333
No 75
>cd04865 LigD_Pol_like_2 LigD_Pol_like_2: Polymerase (Pol) domain of bacterial LigD proteins similar to Pseudomonas aeruginosa (Pae) LigD, subgroup 2. The LigD Pol domain belongs to the archaeal/eukaryal primase (AEP) superfamily. In prokaryotes, LigD along with Ku is required for non-homologous end joining (NHEJ)-mediated repair of DNA double-strand breaks (DSB). NHEJ-mediated DNA DSB repair is error-prone. It has been suggested that LigD Pol contributes to NHEJ-mediated DNA DSB repair in vivo, by filling in short 5'-overhangs with ribonucleotides; the filled in termini would then be sealed by the associated LigD ligase domain, resulting in short stretches of RNA incorporated into the genomic DNA. The Pol domains of PaeLigD and Mycobacterium tuberculosis (Mt)LigD are stimulated by manganese, are error-prone, and prefer adding rNTPs to dNTPs in vitro; however PaeLigD and MtLigD belong to other subgroups, proteins in this subgroup await functional characterization.
Probab=22.59 E-value=2.1e+02 Score=27.00 Aligned_cols=83 Identities=13% Similarity=0.196 Sum_probs=59.6
Q ss_pred CCHHHH--HHHHHHHHHhhcCCeEEEEEEeeCCCcEEEEEEeCCCC-ChhhHHHHHHHHHHhhhccccCCCCCCCeEEEE
Q 022576 121 VPWGER--ALSIAHEVLLQLGDDIKLYAFKATPRGYVYVRLDKLSN-NMEELESYSQEYKKKLDEVGALGEIPDDLALEV 197 (295)
Q Consensus 121 ~~~~ek--I~el~epvle~~G~eLvdVe~k~~~~~~LrV~IDk~~G-sIDDCe~vSR~Is~~LD~~e~~d~I~~~Y~LEV 197 (295)
..|.+- +..++.++++++|+.-+- |++++.=|.|+|--... +-+++-.+++.|...|.. ..|+-|+.
T Consensus 112 ~~f~~v~~~A~~vr~~L~~lgL~sf~---KTSG~kGlHv~vPl~~~~~~~~~r~fa~~iA~~l~~-----~~P~~~t~-- 181 (228)
T cd04865 112 TSFEDVVEVALLVREVLDELGLRGYP---KTSGARGLHIYVPIAPRYTFEEVRRFAELLAREVER-----RLPDLATT-- 181 (228)
T ss_pred CCHHHHHHHHHHHHHHHHHcCCccce---EccCCCeEEEEEEcCCCCCHHHHHHHHHHHHHHHHH-----HCchhhhh--
Confidence 345443 667889999999986432 66666557777765555 899999999999999984 23455554
Q ss_pred ecCCCCCCCCChHHHhhcCCCeeEEEE-e
Q 022576 198 STPGAERMLKVPDDLGRFKEMPITVCY-E 225 (295)
Q Consensus 198 SSPGiERpLk~~~df~RfiGr~V~V~l-~ 225 (295)
+-..+..|-+|.|-| +
T Consensus 182 ------------~~~k~~R~grvfiDylq 198 (228)
T cd04865 182 ------------ERWKKERGGRVYLDYLQ 198 (228)
T ss_pred ------------HhhHHhCCCCEEEECcc
Confidence 445677888899988 5
No 76
>COG5406 Nucleosome binding factor SPN, SPT16 subunit [Transcription / DNA replication, recombination, and repair / Chromatin structure and dynamics]
Probab=22.31 E-value=62 Score=35.26 Aligned_cols=49 Identities=35% Similarity=0.453 Sum_probs=28.2
Q ss_pred eecccccccCCCCCCCCCCccccccCCc--cCCCCC--------cccccCcccccCCCC
Q 022576 65 FLSSSVTQNKDHYEEHPLQHEETEAGET--TDDGWE--------EEDEAEPQVGDGGDG 113 (295)
Q Consensus 65 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~--------~~~~~~~~~~d~~~g 113 (295)
|+.++...-++..++..-+||+++|+++ +|++.| +|||.|.+.||--+|
T Consensus 922 fL~~gsddE~deseeEvSEyeaS~dd~sdet~edees~e~seD~sedeSe~~~~DeE~g 980 (1001)
T COG5406 922 FLMVGSDDESDESEEEVSEYEASSDDESDETDEDEESDESSEDLSEDESENDSSDEEDG 980 (1001)
T ss_pred eeecCCcccccccchhhhhhhccCCCccccccccccccccccccccccccccccccccc
Confidence 3444444444555556677887777665 222222 126788888887654
No 77
>cd04870 ACT_PSP_1 CT domains found N-terminal of phosphoserine phosphatase (PSP, SerB). The ACT_PSP_1 CD includes the first of the two ACT domains found N-terminal of phosphoserine phosphatase (PSP, SerB). PSPs belong to the L-2-haloacid dehalogenase-like protein superfamily. PSP is involved in serine metabolism; serine is synthesized from phosphoglycerate through sequential reactions catalyzed by 3-phosphoglycerate dehydrogenase (SerA), 3-phosphoserine aminotransferase (SerC), and SerB. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=21.13 E-value=3.4e+02 Score=19.92 Aligned_cols=54 Identities=19% Similarity=-0.033 Sum_probs=34.6
Q ss_pred HHHHHHHHHhhcCCeEEEEEE-eeCCCcEEEEEEeCCCC-ChhhHHHHHHHHHHhh
Q 022576 127 ALSIAHEVLLQLGDDIKLYAF-KATPRGYVYVRLDKLSN-NMEELESYSQEYKKKL 180 (295)
Q Consensus 127 I~el~epvle~~G~eLvdVe~-k~~~~~~LrV~IDk~~G-sIDDCe~vSR~Is~~L 180 (295)
|.+-+..++.++|+.+.+++. ...+.-...+.++-+.+ ++++.++.=+.+.+.+
T Consensus 12 iv~~vt~~la~~~~nI~dl~~~~~~~~f~~~~~v~~p~~~~~~~l~~~l~~l~~~l 67 (75)
T cd04870 12 LTSALTEVLAAHGVRILDVGQAVIHGRLSLGILVQIPDSADSEALLKDLLFKAHEL 67 (75)
T ss_pred HHHHHHHHHHHCCCCEEecccEEEcCeeEEEEEEEcCCCCCHHHHHHHHHHHHHHc
Confidence 345577788899999999976 33334456667776665 6665555444444333
No 78
>PF06372 Gemin6: Gemin6 protein; InterPro: IPR009422 This family consists of several mammalian Gemin6 proteins. The exact function of Gemin6 is unknown but it has been found to form part of the Survival of motor neuron complex. The SMN complex plays a key role in the biogenesis of spliceosomal small nuclear ribonucleoproteins (snRNPs) and other ribonucleoprotein particles [].; GO: 0000245 spliceosome assembly, 0005634 nucleus; PDB: 1Y96_A.
Probab=20.99 E-value=1.7e+02 Score=26.34 Aligned_cols=39 Identities=23% Similarity=0.235 Sum_probs=26.8
Q ss_pred CCChHHHhhcCCCeeEEEEeecCCCeeEEeEEEEEeeeeCCeeEEE
Q 022576 206 LKVPDDLGRFKEMPITVCYEDQDSDSREKTGVFLLDSIEMDSEICV 251 (295)
Q Consensus 206 Lk~~~df~RfiGr~V~V~l~~~eG~k~~~~GvL~L~svded~itv~ 251 (295)
.+.|-+|..|+|+.|+|++. + +...|.+ -.+|.-+-+++
T Consensus 6 ~~~p~~~~~yv~K~VkV~~~--d---~~~~G~v--~TiDPVS~siV 44 (166)
T PF06372_consen 6 KKSPLEWQDYVGKEVKVTLS--D---KEYKGWV--YTIDPVSASIV 44 (166)
T ss_dssp HS-HHHHHCTTT-EEEEEET--T---EEEEEEE--EEE-TTT--EE
T ss_pred hCCHHHHHHhhCcEEEEEEe--c---cEEEEEE--EEeCCCCCeEE
Confidence 46789999999999999884 4 3568987 67788776555
No 79
>PF14812 PBP1_TM: Transmembrane domain of transglycosylase PBP1 at N-terminal; PDB: 3FWL_A 3VMA_A.
Probab=20.81 E-value=33 Score=27.51 Aligned_cols=13 Identities=38% Similarity=0.741 Sum_probs=0.0
Q ss_pred CCCCCcccccCcc
Q 022576 94 DDGWEEEDEAEPQ 106 (295)
Q Consensus 94 ~~~~~~~~~~~~~ 106 (295)
||+.+++||.++.
T Consensus 41 DDD~dDdeeee~m 53 (81)
T PF14812_consen 41 DDDDDDDEEEEPM 53 (81)
T ss_dssp -------------
T ss_pred cccccchhhcccc
Confidence 3343333444443
No 80
>PF14472 DUF4429: Domain of unknown function (DUF4429)
Probab=20.60 E-value=1.2e+02 Score=24.20 Aligned_cols=14 Identities=14% Similarity=0.157 Sum_probs=11.9
Q ss_pred EEeeccCcceeEEE
Q 022576 279 LNLPFVMHKRVTLY 292 (295)
Q Consensus 279 v~Ipf~~IkkArL~ 292 (295)
.+||+++|.-+.+.
T Consensus 27 ~~ipl~~i~gV~~~ 40 (94)
T PF14472_consen 27 KTIPLSAISGVEWK 40 (94)
T ss_pred EEEEHHHcceEEEE
Confidence 78999999888775
No 81
>cd06409 PB1_MUG70 The MUG70 protein is a product of the meiotically up-regulated gene 70 which has a role in meiosis and harbors a PB1 domain. The PB1 domain is a modular domain mediating specific protein-protein interactions which play a role in many critical cell processes such as osteoclastogenesis, angiogenesis, early cardiovascular development, and cell polarity. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domains, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domains depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic amino acid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as noncanonical PB1-interactions. The PB1 domain module is
Probab=20.48 E-value=3.1e+02 Score=22.01 Aligned_cols=49 Identities=12% Similarity=0.113 Sum_probs=31.8
Q ss_pred HHHHHHHHHHhhcCCeE-----EEEEEeeCCCcEEEEEEeCCCCChhhHHHHHHHHH
Q 022576 126 RALSIAHEVLLQLGDDI-----KLYAFKATPRGYVYVRLDKLSNNMEELESYSQEYK 177 (295)
Q Consensus 126 kI~el~epvle~~G~eL-----vdVe~k~~~~~~LrV~IDk~~GsIDDCe~vSR~Is 177 (295)
-+.++.+.|++.+|.+. +.+.|...-+-.|.+.=|. ++.+|..++|...
T Consensus 22 ~~~~L~~~I~~Rl~~d~~~~~~~~L~YlDDEgD~VllT~D~---DL~e~v~iar~~g 75 (86)
T cd06409 22 SLEELRTLISQRLGDDDFETHLYALSYVDDEGDIVLITSDS---DLVAAVLVARSAG 75 (86)
T ss_pred CHHHHHHHHHHHhCCccccCCcccEEEEcCCCCEEEEeccc---hHHHHHHHHHHcC
Confidence 47788888888888875 3444433333334443332 8999999998743
No 82
>PF08442 ATP-grasp_2: ATP-grasp domain; InterPro: IPR013650 The ATP-grasp superfamily currently includes 17 groups of enzymes, catalyzing ATP-dependent ligation of a carboxylate containing molecule to an amino or thiol group-containing molecule []. They contribute predominantly to macromolecular synthesis. ATP-hydrolysis is used to activate a substrate. For example, DD-ligase transfers phosphate from ATP to D-alanine on the first step of catalysis. On the second step the resulting acylphosphate is attacked by a second D-alanine to produce a DD dipeptide following phosphate elimination []. The ATP-grasp domain contains three conserved motifs, corresponding to the phosphate binding loop and the Mg(2+) binding site []. The fold is characterised by two alpha-beta subdomains that grasp the ATP molecule between them. Each subdomain provides a variable loop that forms a part of the active site, completed by region of other domains not conserved between the various ATP-grasp enzymes []. The ATP-grasp domain represented by this entry is found primarily in succinyl-CoA synthetases (6.2.1.5 from EC).; PDB: 3PFF_A 3MWD_A 3MWE_A 1CQI_E 1SCU_B 2NU9_G 2NU6_E 1CQJ_E 2NU7_B 1JLL_E ....
Probab=20.46 E-value=3.4e+02 Score=24.72 Aligned_cols=55 Identities=31% Similarity=0.442 Sum_probs=30.9
Q ss_pred cccCCCCCceeecCCCHHHHHHHHHHHHHhhc---------CCeEE--EEEEee--CCCcEEEEEEeCCC
Q 022576 107 VGDGGDGGGVVFQGVPWGERALSIAHEVLLQL---------GDDIK--LYAFKA--TPRGYVYVRLDKLS 163 (295)
Q Consensus 107 ~~d~~~g~~i~~~~~~~~ekI~el~epvle~~---------G~eLv--dVe~k~--~~~~~LrV~IDk~~ 163 (295)
.|-=|-+|||.++.++ +.+.+.++..+... |..+- .|+=.. ..-.|+-|.+|+..
T Consensus 50 ~GgRGK~GgVk~~~s~--~ea~~~a~~mlg~~l~T~Qtg~~G~~v~~vlvee~v~~~~E~Ylsi~~DR~~ 117 (202)
T PF08442_consen 50 AGGRGKAGGVKIAKSP--EEAKEAAKEMLGKTLKTKQTGPKGEKVNKVLVEEFVDIKREYYLSITLDRES 117 (202)
T ss_dssp SSTTTTTTCEEEESSH--HHHHHHHHTTTTSEEE-TTSTTTEEEE--EEEEE---CCEEEEEEEEEETTT
T ss_pred ecCcccCCceeecCCH--HHHHHHHHHHhCCceEeeecCCCCCEeeEEEEEecCccCceEEEEEEeccCC
Confidence 3445556999999775 66777777765321 22222 222111 12357888888754
No 83
>cd04862 PaeLigD_Pol_like PaeLigD_Pol_like: Polymerase (Pol) domain of bacterial LigD proteins similar to Pseudomonas aeruginosa (Pae) LigD. The LigD Pol domain belongs to the archaeal/eukaryal primase (AEP) superfamily. In prokaryotes, LigD along with Ku is required for non-homologous end joining (NHEJ)-mediated repair of DNA double-strand breaks (DSB). NHEJ-mediated DNA DSB repair is error-prone. PaeLigD is monomeric, containing an N-terminal phosphoesterase module, a central polymerase (Pol) domain, and a C-terminal ATP-dependent ligase domain. It has been suggested that LigD Pol contributes to NHEJ-mediated DNA DSB repair in vivo, by filling in short 5'-overhangs with ribonucleotides; the filled in termini would then be sealed by the associated LigD ligase domain, resulting in short stretches of RNA incorporated into the genomic DNA. The PaeLigD Pol domain in vitro, in a manganese-dependent fashion, catalyzes templated extensions of 5'-overhang duplex DNA, and nontemplated single-nu
Probab=20.21 E-value=3.2e+02 Score=25.72 Aligned_cols=82 Identities=20% Similarity=0.254 Sum_probs=58.2
Q ss_pred CCHHHH--HHHHHHHHHhhcCCeEEEEEEeeCCCcEEEEEEeCCCC-ChhhHHHHHHHHHHhhhccccCCCCCCCeEEEE
Q 022576 121 VPWGER--ALSIAHEVLLQLGDDIKLYAFKATPRGYVYVRLDKLSN-NMEELESYSQEYKKKLDEVGALGEIPDDLALEV 197 (295)
Q Consensus 121 ~~~~ek--I~el~epvle~~G~eLvdVe~k~~~~~~LrV~IDk~~G-sIDDCe~vSR~Is~~LD~~e~~d~I~~~Y~LEV 197 (295)
..|.+- +..++.++++++|+.-+- |++++.=|.|+|--... +-+++-.+++.|-..|.+. .|+-|+.
T Consensus 111 ~~f~~v~~~A~~~r~~L~~lgL~~~~---KTSG~kGlHV~vPl~~~~~~~~~r~fa~~lA~~l~~~-----~P~~~t~-- 180 (227)
T cd04862 111 VPWKAVVEAALLVRELLDELGLESFV---KTSGGKGLHVVVPLAPRAGWDEVKAFAKALAQHLART-----NPDRFVA-- 180 (227)
T ss_pred CCHHHHHHHHHHHHHHHHHcCCccce---EccCCCeEEEEEEcCCCCCHHHHHHHHHHHHHHHHHH-----CchhhhH--
Confidence 345554 557889999999986432 66665557777755445 8999999999999999842 2444443
Q ss_pred ecCCCCCCCCChHHHhhcCCCeeEEEE
Q 022576 198 STPGAERMLKVPDDLGRFKEMPITVCY 224 (295)
Q Consensus 198 SSPGiERpLk~~~df~RfiGr~V~V~l 224 (295)
+-.++..+-+|.|-|
T Consensus 181 ------------~~~k~~R~gkvfiDy 195 (227)
T cd04862 181 ------------TMGKAKRVGKIFIDY 195 (227)
T ss_pred ------------HhhHHhCCCcEEEEC
Confidence 445677788899988
No 84
>PRK09509 fieF ferrous iron efflux protein F; Reviewed
Probab=20.14 E-value=3.5e+02 Score=25.42 Aligned_cols=42 Identities=10% Similarity=0.167 Sum_probs=31.1
Q ss_pred eEEEEEE-eeCCCcEEEEEEeCCCC-ChhhHHHHHHHHHHhhhc
Q 022576 141 DIKLYAF-KATPRGYVYVRLDKLSN-NMEELESYSQEYKKKLDE 182 (295)
Q Consensus 141 eLvdVe~-k~~~~~~LrV~IDk~~G-sIDDCe~vSR~Is~~LD~ 182 (295)
.+.++.. +.++...+.+.|.-+.+ +++++.++.+.+.+.|.+
T Consensus 230 ~v~~l~~~~~G~~~~v~v~i~v~~~~~~~e~h~i~~~ie~~l~~ 273 (299)
T PRK09509 230 GAHDLRTRQSGPTRFIQLHLEMEDNLPLVQAHMIADQVEQALLR 273 (299)
T ss_pred CceeeeeEeeCCeEEEEEEEEECCCCCHHHHHHHHHHHHHHHHH
Confidence 4556666 55555667777665556 999999999999999873
No 85
>PLN00180 NDF6 (NDH-dependent flow 6); Provisional
Probab=20.10 E-value=41 Score=30.28 Aligned_cols=18 Identities=44% Similarity=0.689 Sum_probs=14.2
Q ss_pred cccCcccccCCCCCceee
Q 022576 101 DEAEPQVGDGGDGGGVVF 118 (295)
Q Consensus 101 ~~~~~~~~d~~~g~~i~~ 118 (295)
.+.|.|=||||||-|=-.
T Consensus 123 YDSe~YRgdGGDGT~hW~ 140 (180)
T PLN00180 123 YDSEEYRGDGGDGTGHWV 140 (180)
T ss_pred cchHHhcccCCCCceeeE
Confidence 466789999999977544
Done!