Query 028328
Match_columns 210
No_of_seqs 125 out of 1246
Neff 5.0
Searched_HMMs 46136
Date Fri Mar 29 09:47:49 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/028328.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/028328hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PRK11568 hypothetical protein; 100.0 5.8E-69 1.3E-73 460.1 24.6 192 14-209 3-201 (204)
2 TIGR00257 IMPACT_YIGZ uncharac 100.0 9.6E-69 2.1E-73 458.7 24.7 191 14-208 3-200 (204)
3 COG1739 Uncharacterized conser 100.0 1.1E-57 2.4E-62 390.1 17.9 195 12-209 1-201 (203)
4 PF01205 UPF0029: Uncharacteri 100.0 9.7E-49 2.1E-53 307.0 11.0 103 28-130 1-110 (110)
5 KOG3299 Uncharacterized conser 99.8 1.8E-21 3.8E-26 166.3 4.6 107 24-133 87-203 (206)
6 PF09186 DUF1949: Domain of un 99.2 1.1E-10 2.4E-15 79.0 8.5 56 145-204 1-56 (56)
7 KOG3299 Uncharacterized conser 99.0 2.3E-12 5.1E-17 110.5 -10.2 123 14-136 6-129 (206)
8 PF00679 EFG_C: Elongation fac 97.3 0.0038 8.2E-08 46.4 9.9 69 137-208 3-72 (89)
9 cd03711 Tet_C Tet_C: C-terminu 97.0 0.0023 4.9E-08 46.4 6.4 67 139-208 2-68 (78)
10 cd04097 mtEFG1_C mtEFG1_C: C-t 97.0 0.0033 7.1E-08 45.5 6.6 67 139-208 2-68 (78)
11 cd03710 BipA_TypA_C BipA_TypA_ 96.9 0.0041 8.8E-08 45.3 7.0 68 139-208 2-69 (79)
12 PRK12740 elongation factor G; 96.9 0.0069 1.5E-07 59.7 10.1 115 91-208 534-649 (668)
13 cd03713 EFG_mtEFG_C EFG_mtEFG_ 96.9 0.0028 6.1E-08 45.6 5.4 67 139-208 2-68 (78)
14 smart00838 EFG_C Elongation fa 96.8 0.0036 7.9E-08 45.9 6.0 69 137-208 2-70 (85)
15 cd01514 Elongation_Factor_C El 96.7 0.0049 1.1E-07 44.4 5.4 68 139-208 2-69 (79)
16 PRK13351 elongation factor G; 96.5 0.022 4.8E-07 56.5 10.5 116 91-208 551-667 (687)
17 TIGR00490 aEF-2 translation el 96.4 0.015 3.3E-07 58.2 9.2 113 93-208 575-690 (720)
18 PRK07560 elongation factor EF- 96.4 0.023 5E-07 57.0 10.2 115 91-208 575-692 (731)
19 PLN00116 translation elongatio 96.4 0.015 3.2E-07 59.4 8.8 116 92-208 678-796 (843)
20 cd04096 eEF2_snRNP_like_C eEF2 96.3 0.011 2.3E-07 42.8 5.5 69 139-208 2-70 (80)
21 PRK00007 elongation factor G; 96.2 0.031 6.7E-07 55.8 9.9 113 91-208 555-670 (693)
22 PRK12739 elongation factor G; 96.1 0.024 5.2E-07 56.5 8.7 113 92-208 553-667 (691)
23 cd03709 lepA_C lepA_C: This fa 96.1 0.025 5.4E-07 41.4 6.6 68 139-208 2-70 (80)
24 cd04098 eEF2_C_snRNP eEF2_C_sn 96.0 0.019 4E-07 42.1 5.5 68 139-208 2-70 (80)
25 TIGR00484 EF-G translation elo 95.8 0.038 8.2E-07 55.0 8.4 114 92-208 553-667 (689)
26 PTZ00416 elongation factor 2; 95.8 0.041 8.9E-07 56.2 8.8 116 92-208 671-789 (836)
27 TIGR00291 RNA_SBDS rRNA metabo 93.0 0.57 1.2E-05 41.5 8.1 83 122-207 143-227 (231)
28 PRK13760 putative RNA-associat 92.6 0.54 1.2E-05 41.7 7.5 83 122-207 143-227 (231)
29 KOG0465 Mitochondrial elongati 92.4 0.52 1.1E-05 47.4 7.8 89 117-208 612-700 (721)
30 PRK05433 GTP-binding protein L 92.0 0.53 1.1E-05 46.6 7.5 71 135-208 401-472 (600)
31 TIGR01393 lepA GTP-binding pro 90.9 0.83 1.8E-05 45.2 7.6 71 136-208 398-469 (595)
32 COG0480 FusA Translation elong 88.5 1.7 3.7E-05 44.1 7.8 94 115-209 578-671 (697)
33 TIGR01394 TypA_BipA GTP-bindin 87.9 2.2 4.9E-05 42.3 8.0 120 85-208 325-462 (594)
34 PF09377 SBDS_C: SBDS protein 86.2 11 0.00025 29.9 9.9 59 138-199 66-124 (125)
35 PRK10218 GTP-binding protein; 84.2 3.9 8.5E-05 40.8 7.6 129 74-208 320-466 (607)
36 COG1500 Predicted exosome subu 81.9 4.6 0.0001 36.0 6.3 103 85-207 123-227 (234)
37 KOG0467 Translation elongation 79.9 2.2 4.8E-05 44.0 4.1 90 115-205 727-816 (887)
38 PF10369 ALS_ss_C: Small subun 79.3 6.1 0.00013 28.7 5.3 55 140-199 4-58 (75)
39 PRK06382 threonine dehydratase 72.4 26 0.00056 32.8 8.9 76 119-199 314-398 (406)
40 PRK08639 threonine dehydratase 64.8 73 0.0016 30.0 10.3 107 78-200 286-402 (420)
41 KOG0464 Elongation factor G [T 62.2 19 0.00041 35.5 5.9 97 109-207 629-727 (753)
42 TIGR01127 ilvA_1Cterm threonin 59.4 86 0.0019 28.8 9.5 108 77-199 254-373 (380)
43 PRK11895 ilvH acetolactate syn 58.9 31 0.00068 28.8 6.0 56 140-200 86-141 (161)
44 KOG0462 Elongation factor-type 57.7 22 0.00049 35.8 5.6 69 137-207 455-524 (650)
45 PF14257 DUF4349: Domain of un 56.3 75 0.0016 27.7 8.2 59 142-200 51-117 (262)
46 TIGR00119 acolac_sm acetolacta 55.6 40 0.00086 28.1 6.0 56 140-200 85-140 (157)
47 CHL00100 ilvH acetohydroxyacid 53.4 47 0.001 28.2 6.2 57 139-200 85-141 (174)
48 TIGR02079 THD1 threonine dehyd 49.6 2.3E+02 0.005 26.7 10.9 77 118-200 308-391 (409)
49 PRK08198 threonine dehydratase 47.1 2.2E+02 0.0048 26.4 10.2 110 77-199 276-395 (404)
50 cd01269 PLX Pollux (PLX) Phosp 43.2 47 0.001 27.2 4.4 26 29-54 97-122 (129)
51 TIGR01124 ilvA_2Cterm threonin 37.8 3.8E+02 0.0082 26.1 10.5 75 120-199 310-387 (499)
52 PF04459 DUF512: Protein of un 37.1 1.6E+02 0.0034 25.6 7.0 82 116-208 77-167 (204)
53 TIGR02877 spore_yhbH sporulati 37.0 38 0.00083 32.2 3.5 56 55-123 286-345 (371)
54 cd01804 midnolin_N Ubiquitin-l 35.5 1.6E+02 0.0036 20.9 6.8 66 30-111 11-78 (78)
55 cd04870 ACT_PSP_1 CT domains f 35.2 1.4E+02 0.003 20.8 5.4 50 152-202 13-65 (75)
56 cd04910 ACT_AK-Ectoine_1 ACT d 35.0 1.4E+02 0.0031 21.7 5.5 47 153-202 19-65 (71)
57 PF00708 Acylphosphatase: Acyl 33.5 1.9E+02 0.0041 21.1 6.3 46 155-203 23-68 (91)
58 COG0217 Uncharacterized conser 33.4 77 0.0017 28.5 4.6 73 123-199 150-223 (241)
59 PRK09977 putative Mg(2+) trans 33.3 1.6E+02 0.0036 25.7 6.6 60 141-200 145-206 (215)
60 COG0481 LepA Membrane GTPase L 31.0 1.1E+02 0.0024 30.7 5.6 69 137-207 405-474 (603)
61 PRK14420 acylphosphatase; Prov 29.1 1.5E+02 0.0032 21.9 5.0 24 177-200 40-63 (91)
62 PRK14429 acylphosphatase; Prov 28.9 1.5E+02 0.0033 22.0 5.0 43 155-200 21-63 (90)
63 cd04918 ACT_AK1-AT_2 ACT domai 28.6 1.8E+02 0.004 19.7 5.1 46 152-200 17-62 (65)
64 KOG1817 Ribonuclease [RNA proc 28.3 49 0.0011 32.5 2.7 59 71-133 440-502 (533)
65 PRK06418 transcription elongat 28.2 3.7E+02 0.008 22.7 9.2 93 98-207 61-163 (166)
66 PRK05325 hypothetical protein; 28.2 73 0.0016 30.6 3.8 56 55-123 306-367 (401)
67 PRK14449 acylphosphatase; Prov 27.7 1.7E+02 0.0036 21.8 5.0 43 155-200 22-64 (90)
68 TIGR01033 DNA-binding regulato 27.6 73 0.0016 28.2 3.5 55 142-200 170-224 (238)
69 PRK14438 acylphosphatase; Prov 25.7 2E+02 0.0043 21.5 5.1 42 155-199 22-63 (91)
70 cd04888 ACT_PheB-BS C-terminal 25.5 2.2E+02 0.0047 19.2 7.9 51 150-200 12-63 (76)
71 cd04915 ACT_AK-Ectoine_2 ACT d 25.2 2.3E+02 0.005 19.4 5.5 46 152-200 18-63 (66)
72 PF01709 Transcrip_reg: Transc 25.2 1.3E+02 0.0029 26.4 4.7 56 141-200 165-220 (234)
73 PF01797 Y1_Tnp: Transposase I 25.1 2.6E+02 0.0057 20.7 5.8 47 154-203 30-77 (121)
74 KOG0469 Elongation factor 2 [T 24.9 1.4E+02 0.003 30.5 5.1 99 106-205 694-792 (842)
75 PRK00110 hypothetical protein; 24.8 1.5E+02 0.0033 26.4 5.0 30 142-171 168-197 (245)
76 PRK14444 acylphosphatase; Prov 24.6 62 0.0014 24.3 2.2 43 155-200 23-65 (92)
77 cd04869 ACT_GcvR_2 ACT domains 24.5 2.4E+02 0.0052 19.4 5.7 53 151-203 12-72 (81)
78 PRK03187 tgl transglutaminase; 23.4 1.5E+02 0.0032 27.2 4.6 47 21-69 187-233 (272)
79 PRK14427 acylphosphatase; Prov 23.3 2.3E+02 0.0049 21.3 5.1 43 155-200 25-67 (94)
80 cd04887 ACT_MalLac-Enz ACT_Mal 23.2 2.4E+02 0.0052 18.9 6.0 49 152-200 13-61 (74)
81 PRK14435 acylphosphatase; Prov 23.2 2.1E+02 0.0046 21.3 4.8 42 155-199 21-62 (90)
82 PRK14426 acylphosphatase; Prov 23.1 3.2E+02 0.007 20.3 5.9 43 155-200 23-65 (92)
83 PRK14448 acylphosphatase; Prov 23.0 2E+02 0.0044 21.4 4.7 23 177-199 40-62 (90)
84 PRK14445 acylphosphatase; Prov 22.9 3.2E+02 0.007 20.3 6.1 43 155-200 23-65 (91)
85 PRK12378 hypothetical protein; 22.3 96 0.0021 27.5 3.2 56 141-200 166-221 (235)
86 PRK14441 acylphosphatase; Prov 22.2 87 0.0019 23.5 2.6 43 155-200 24-66 (93)
87 PRK14451 acylphosphatase; Prov 22.1 1.3E+02 0.0029 22.4 3.5 42 155-199 22-63 (89)
88 PRK07334 threonine dehydratase 21.9 6.5E+02 0.014 23.4 11.3 112 76-200 274-392 (403)
89 PRK14447 acylphosphatase; Prov 21.9 1.5E+02 0.0032 22.3 3.8 42 155-199 23-65 (95)
90 cd04907 ACT_ThrD-I_2 Second of 21.7 3.2E+02 0.007 19.8 5.6 55 146-200 5-64 (81)
91 TIGR02884 spore_pdaA delta-lac 21.6 86 0.0019 26.8 2.8 82 85-171 53-160 (224)
92 cd04879 ACT_3PGDH-like ACT_3PG 21.3 2.3E+02 0.005 18.0 5.5 49 152-200 13-62 (71)
93 cd04922 ACT_AKi-HSDH-ThrA_2 AC 21.2 2.5E+02 0.0053 18.2 5.1 47 151-200 17-63 (66)
94 PRK14446 acylphosphatase; Prov 20.9 1.5E+02 0.0032 22.3 3.6 43 155-200 21-63 (88)
95 PRK14425 acylphosphatase; Prov 20.8 3.7E+02 0.008 20.2 6.3 43 155-200 25-67 (94)
96 PRK14440 acylphosphatase; Prov 20.8 2.3E+02 0.005 21.1 4.6 42 155-199 22-63 (90)
97 PF06718 DUF1203: Protein of u 20.8 82 0.0018 25.1 2.3 13 56-68 104-116 (117)
No 1
>PRK11568 hypothetical protein; Provisional
Probab=100.00 E-value=5.8e-69 Score=460.07 Aligned_cols=192 Identities=32% Similarity=0.566 Sum_probs=185.3
Q ss_pred ceeecccCeeeEEEEecceEEEEEeeCCCHHHHHHHHHHhc--CCCCCceeeEEEEcc-----ccCCCCCCCCCCCCChH
Q 028328 14 AFTTIKETVTFEKEIKKSKFIAIAGPISNEQSAQSFLSQVS--DPRATHNCWAYKVGN-----QYRSNDDGEPSGTAGKP 86 (210)
Q Consensus 14 ~y~ti~~~~~~e~~ikkS~Fi~~~~~~~~~~ea~~~l~~~~--~~~A~H~~~Ayr~~~-----~~~~sDDGEPsGtAG~p 86 (210)
+|.|+..+.+.|++||||||||+++|++|++||++||+++| ||+|+|||||||+|. .+++||||||+||||+|
T Consensus 3 ~y~~~~~~~~~e~~iKkSrFIa~~~~v~s~eea~~~i~~ik~~~~~A~H~c~Ay~ig~~~~~~~~~~sDDGEPsGTAG~P 82 (204)
T PRK11568 3 SYLIPAAPVTVVEEIKKSRFITLLAHTDGVEAAKAFVQSVRAEHPDARHHCWAWVAGAPDDSQQLGFSDDGEPAGTAGKP 82 (204)
T ss_pred cceeccCCcEEEEEEeCCEEEEEEEecCCHHHHHHHHHHHHhhCCCCceEEEEEEEcCCCCccEecCCCCCCCCCCchHH
Confidence 58999999999999999999999999999999999999998 799999999999985 35899999999999999
Q ss_pred HHHHHHhCCCceEEEEEEEEecCeeecCcchhhhHHHHHHHHHHhCCeeEEEEEEEEEEEEecCchHHHHHHHhhcCCeE
Q 028328 87 IHSAIVSSGLDRIMVVVTRYFGGIKLGTGGLVRAYGGVASECLRNAPTILVKSRVPMGVEVPFELLGILYHQLQLFQVED 166 (210)
Q Consensus 87 iL~vL~~~~l~nv~vVV~RyfGGikLG~ggL~rAY~~aa~~al~~a~~~~~~~~~~~~l~~~Y~~~~~v~~~l~~~~~~i 166 (210)
||++|++++|+|++|||||||||||||+|||+|||++||++||+.|+++++++...++++++|++.+.++++|+++++++
T Consensus 83 iL~vL~~~~l~nv~vVVtRYFGGikLG~GGLvRAY~~aa~~al~~a~~~~~~~~~~~~i~~~y~~~~~v~~~l~~~~~~i 162 (204)
T PRK11568 83 MLAQLMGSGVGEITAVVVRYYGGILLGTGGLVKAYGGGVQQALRQLTTQRKVPLTEYTLQCEYAQLAGIEALLGQFDGKI 162 (204)
T ss_pred HHHHHHHCCCccEEEEEEEEcCCcccccchhHHHHHHHHHHHHHhCCeEEEEEeEEEEEEECcchHHHHHHHHHHCCCEE
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred EeeeeCCCCCeeEEEEEEEecCCHHHHHHHHHHhcCCceEEee
Q 028328 167 TNQDYDTGKDGIAMVTFKVDFDRAENLEDAIKNNCRRDLVFYK 209 (210)
Q Consensus 167 ~~~~y~~~~~~~v~~~~~v~~~~~~~~~~~L~~~t~G~~~~~~ 209 (210)
++++|++ .|++++.+|.++.+.|.++|.++|+|++.+.+
T Consensus 163 ~~~~y~~----~V~~~~~v~~~~~~~~~~~l~~~t~g~~~~~~ 201 (204)
T PRK11568 163 VNSEYQA----FVTLRVALPAAKVAEFSAKLADFSRGSLQLLA 201 (204)
T ss_pred EcceecC----CEEEEEEECHHHHHHHHHHHHHHhCCeEEEEe
Confidence 9999998 49999999999999999999999999988753
No 2
>TIGR00257 IMPACT_YIGZ uncharacterized protein, YigZ family. This uncharacterized protein family includes YigZ, which has been crystallized, from E. coli. YigZ is homologous to the protein product of the mouse IMPACT gene. Crystallography shows a two-domain stucture, and the C-terminal domain is suggested to bind nucleic acids. The function is unknown. Note that the ortholog from E. coli was shown fused to the pepQ gene in GenBank entry X54687. This caused occasional misidentification of this protein as pepQ; this family is found in a number of species that lack pepQ.
Probab=100.00 E-value=9.6e-69 Score=458.73 Aligned_cols=191 Identities=32% Similarity=0.494 Sum_probs=184.4
Q ss_pred ceeecccCeeeEEEEecceEEEEEeeCCCHHHHHHHHHHhc--CCCCCceeeEEEEccc-----cCCCCCCCCCCCCChH
Q 028328 14 AFTTIKETVTFEKEIKKSKFIAIAGPISNEQSAQSFLSQVS--DPRATHNCWAYKVGNQ-----YRSNDDGEPSGTAGKP 86 (210)
Q Consensus 14 ~y~ti~~~~~~e~~ikkS~Fi~~~~~~~~~~ea~~~l~~~~--~~~A~H~~~Ayr~~~~-----~~~sDDGEPsGtAG~p 86 (210)
.|.|+..+.+.|++||||||||+++|++|++||++||+++| ||+|+|||||||+|.. .++||||||+||||+|
T Consensus 3 ~y~t~~~~~~~e~~iKkSrFIa~~~~v~~~eea~~~i~~~k~~h~~A~H~c~Ay~~g~~~~~~~~~~sDDGEPsGTAG~P 82 (204)
T TIGR00257 3 SYFVPKNAVTSKIEIKKSRFITYLMHTEGKDDAEKFILKIKKEHPNATHHCTAFVIGLPDDIQQLGFSDDGEPAGTAGKP 82 (204)
T ss_pred CceeccCCceEEEEEeCCEEEEEEEecCCHHHHHHHHHHHHhhccCCcceEEEEEEcCCCcceecCCCCCCCCCCCchHH
Confidence 48999999999999999999999999999999999999998 7999999999999852 3899999999999999
Q ss_pred HHHHHHhCCCceEEEEEEEEecCeeecCcchhhhHHHHHHHHHHhCCeeEEEEEEEEEEEEecCchHHHHHHHhhcCCeE
Q 028328 87 IHSAIVSSGLDRIMVVVTRYFGGIKLGTGGLVRAYGGVASECLRNAPTILVKSRVPMGVEVPFELLGILYHQLQLFQVED 166 (210)
Q Consensus 87 iL~vL~~~~l~nv~vVV~RyfGGikLG~ggL~rAY~~aa~~al~~a~~~~~~~~~~~~l~~~Y~~~~~v~~~l~~~~~~i 166 (210)
||++|++++|+|++|||||||||||||+|||+|||++||++||+.|+++++.+...+.++++|++.+.++++|+++++++
T Consensus 83 iL~vL~~~~l~nv~vVVtRYFGGikLG~GGLvRAY~~aa~~al~~a~~~~~~~~~~~~~~~~y~~~~~v~~~l~~~~~~i 162 (204)
T TIGR00257 83 MLSVLRGSDLGDIGAVVVRYFGGILLGTGGLIKAYGKSVLEALNNIQKEEKLELEILSLHCDYKQLDALERELKKFQLEI 162 (204)
T ss_pred HHHHHHHCCCCcEEEEEEEecCCcccCCchhHHHHHHHHHHHHHhCCeEEEEEEEEEEEEechhHHHHHHHHHHHCCCEE
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred EeeeeCCCCCeeEEEEEEEecCCHHHHHHHHHHhcCCceEEe
Q 028328 167 TNQDYDTGKDGIAMVTFKVDFDRAENLEDAIKNNCRRDLVFY 208 (210)
Q Consensus 167 ~~~~y~~~~~~~v~~~~~v~~~~~~~~~~~L~~~t~G~~~~~ 208 (210)
++++|++ .|++++.+|.++.+.|.++|+++|+|++.+.
T Consensus 163 ~~~~y~~----~V~~~~~v~~~~~~~~~~~l~~~t~g~~~~~ 200 (204)
T TIGR00257 163 IKSNFSN----NVVLVEISGTKENLAFSEQLTEISLGQLILK 200 (204)
T ss_pred EeeEecC----CEEEEEEECHHHHHHHHHHHHHHhCCeEEEE
Confidence 9999998 4999999999999999999999999998775
No 3
>COG1739 Uncharacterized conserved protein [Function unknown]
Probab=100.00 E-value=1.1e-57 Score=390.08 Aligned_cols=195 Identities=38% Similarity=0.572 Sum_probs=187.9
Q ss_pred CcceeecccCeeeEEEEecceEEEEEeeCCCHHHHHHHHHHhc--CCCCCceeeEEEEc----cccCCCCCCCCCCCCCh
Q 028328 12 AGAFTTIKETVTFEKEIKKSKFIAIAGPISNEQSAQSFLSQVS--DPRATHNCWAYKVG----NQYRSNDDGEPSGTAGK 85 (210)
Q Consensus 12 ~~~y~ti~~~~~~e~~ikkS~Fi~~~~~~~~~~ea~~~l~~~~--~~~A~H~~~Ayr~~----~~~~~sDDGEPsGtAG~ 85 (210)
.++|+||......+++||||+||+++.|++++++|++||+++| |++|+|||||||+| ..+++||||||+||||+
T Consensus 1 ~~~~~t~~~~~~~~~eikkS~Fi~~~~~v~~~~ea~~fi~~~k~eh~~A~H~C~A~~~g~~~~~~~~~sDDgEP~GTAG~ 80 (203)
T COG1739 1 MEEYLTLKASFTSEEEIKKSRFINYAKPVEYENEAKAFIDAYKKEHPDATHNCSALRIGKDDSLLQGLSDDGEPSGTAGK 80 (203)
T ss_pred CcccchhhhcceeEEeecCcEEEEEecccCCHHHHHHHHHHhhhhcccccceeeeeeecCcchhhhhcccCCCCCccCCC
Confidence 3679999999999999999999999999999999999999998 89999999999999 36799999999999999
Q ss_pred HHHHHHHhCCCceEEEEEEEEecCeeecCcchhhhHHHHHHHHHHhCCeeEEEEEEEEEEEEecCchHHHHHHHhhcCCe
Q 028328 86 PIHSAIVSSGLDRIMVVVTRYFGGIKLGTGGLVRAYGGVASECLRNAPTILVKSRVPMGVEVPFELLGILYHQLQLFQVE 165 (210)
Q Consensus 86 piL~vL~~~~l~nv~vVV~RyfGGikLG~ggL~rAY~~aa~~al~~a~~~~~~~~~~~~l~~~Y~~~~~v~~~l~~~~~~ 165 (210)
|||++|+++++.|+++||||||||+|||+|||+|||+++|++|++.+++++++....+.+.++|++.+.+++++.+++..
T Consensus 81 P~l~~l~~~~l~n~~~vvtRyFGGikLG~GGLvrAY~~~v~~~l~~~~~~e~~~~~~~~~~~~y~~l~~l~~~l~~~~~~ 160 (203)
T COG1739 81 PMLAVLEKSDLVNVLVVVVRYFGGIKLGTGGLVRAYANAVKSALEAAEAIEKKEAKANHVGCAYRILGLLERLLKQNDDD 160 (203)
T ss_pred cHHHHHhhcCccceEEEEEeccCCEEcCCcccHHHHHHHHHHHHHHhhcchhhhhhheeeccchhhhHHHHHHHHhccce
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred EEeeeeCCCCCeeEEEEEEEecCCHHHHHHHHHHhcCCceEEee
Q 028328 166 DTNQDYDTGKDGIAMVTFKVDFDRAENLEDAIKNNCRRDLVFYK 209 (210)
Q Consensus 166 i~~~~y~~~~~~~v~~~~~v~~~~~~~~~~~L~~~t~G~~~~~~ 209 (210)
+++.+|+++ .|.+++.++....+.|.++|.+.+.|++.+..
T Consensus 161 i~~~~~~~~---~v~~~v~~~~~~~~~~~~~~~~~~~g~~~~~~ 201 (203)
T COG1739 161 VEEARYSGG---SVLLTVRFRHIVIEAVSRLLKGNHIGPDRFKH 201 (203)
T ss_pred EEEeeecCC---eEEEEEEechhhHHHHHHHHhhccCCceEEec
Confidence 999999974 59999999999999999999999999998764
No 4
>PF01205 UPF0029: Uncharacterized protein family UPF0029; InterPro: IPR001498 The Impact protein is a translational regulator that ensures constant high levels of translation under amino acid starvation. It acts by interacting with Gcn1/Gcn1L1, thereby preventing activation of Gcn2 protein kinases (EIF2AK1 to 4) and subsequent down-regulation of protein synthesis. It is evolutionary conserved from eukaryotes to archaea []. This entry represents the N-terminal domain of the Impact proteins.; PDB: 1VI7_A 2CVE_A.
Probab=100.00 E-value=9.7e-49 Score=306.99 Aligned_cols=103 Identities=56% Similarity=0.978 Sum_probs=90.6
Q ss_pred EecceEEEEEeeCCCHHHHHHHHHHhc--CCCCCceeeEEEEcc-----ccCCCCCCCCCCCCChHHHHHHHhCCCceEE
Q 028328 28 IKKSKFIAIAGPISNEQSAQSFLSQVS--DPRATHNCWAYKVGN-----QYRSNDDGEPSGTAGKPIHSAIVSSGLDRIM 100 (210)
Q Consensus 28 ikkS~Fi~~~~~~~~~~ea~~~l~~~~--~~~A~H~~~Ayr~~~-----~~~~sDDGEPsGtAG~piL~vL~~~~l~nv~ 100 (210)
+|||+|||+++|++|++|++.+|++++ ||+|+|+|||||++. .+++||||||+||||+|||++|++.+++|++
T Consensus 1 ~kkS~Fia~~~~v~s~~~~~~~l~~l~~~~~~AtH~~~Ayr~~~~~~~~~~~~~DDGEp~gtAG~piL~~L~~~~l~nv~ 80 (110)
T PF01205_consen 1 IKKSKFIAHAAPVESEEEAEEFLEELKKEHKKATHNCYAYRIGEPGQGIIEGFSDDGEPGGTAGKPILEVLEHNGLTNVL 80 (110)
T ss_dssp ETTEEEEEEEEE-SCHHHHHHHHHHHHHH-TTSSEEEEEEEETS-SSSTEEEEE-TTSSTTSSCHHHHHHHHHCTB-SEE
T ss_pred CCCCEEEEEEEEcCCHHHHHHHHHHHHhhCCCCcEEEEEEEeeccCccceecccCCCCCCCCccHHHHHHHHhCCcCCEE
Confidence 699999999999999999999999998 799999999999975 3479999999999999999999999999999
Q ss_pred EEEEEEecCeeecCcchhhhHHHHHHHHHH
Q 028328 101 VVVTRYFGGIKLGTGGLVRAYGGVASECLR 130 (210)
Q Consensus 101 vVV~RyfGGikLG~ggL~rAY~~aa~~al~ 130 (210)
|||+|||||||||+|||+|||+++|++||+
T Consensus 81 VVV~RyfGGi~LG~ggl~ray~~~a~~aL~ 110 (110)
T PF01205_consen 81 VVVTRYFGGIKLGPGGLIRAYSNAAREALE 110 (110)
T ss_dssp EEEEEE--SS--HHHHHHHHHHHHHHHHH-
T ss_pred EEEEEEeCCeeecccHHHHHHHHHHHHHhC
Confidence 999999999999999999999999999985
No 5
>KOG3299 consensus Uncharacterized conserved protein [Function unknown]
Probab=99.83 E-value=1.8e-21 Score=166.28 Aligned_cols=107 Identities=25% Similarity=0.372 Sum_probs=98.0
Q ss_pred eEEEEecceEEEEEeeCCCHHHHHHHHHHhc----CCCCCceeeEEEEcc------ccCCCCCCCCCCCCChHHHHHHHh
Q 028328 24 FEKEIKKSKFIAIAGPISNEQSAQSFLSQVS----DPRATHNCWAYKVGN------QYRSNDDGEPSGTAGKPIHSAIVS 93 (210)
Q Consensus 24 ~e~~ikkS~Fi~~~~~~~~~~ea~~~l~~~~----~~~A~H~~~Ayr~~~------~~~~sDDGEPsGtAG~piL~vL~~ 93 (210)
..+..++|.|++|+.|+.+.+++...+..++ -.+|+|++.|||+.. .+.|.||||- .||..||++|..
T Consensus 87 ~~itdr~stf~a~~a~V~~~~~~~~~~~~l~~~~kl~~a~H~m~a~ri~~~~~~~~~qd~~DdGEs--~ag~rll~ll~~ 164 (206)
T KOG3299|consen 87 EPITDRMSTFQAYFAEVKSPEQVLVVLYKLKTSAKLKKANHNMVAYRIQMEVKFNLLQDCDDDGES--AAGSRLLELLDR 164 (206)
T ss_pred CcchhHHHHHHHHhccccChhHHHHHHHhhccchhhhcCccceeEEEeecCCChhhhhhhhcchhh--hhHHHHHHHHHh
Confidence 3478899999999999999999998888776 279999999999954 3589999998 999999999999
Q ss_pred CCCceEEEEEEEEecCeeecCcchhhhHHHHHHHHHHhCC
Q 028328 94 SGLDRIMVVVTRYFGGIKLGTGGLVRAYGGVASECLRNAP 133 (210)
Q Consensus 94 ~~l~nv~vVV~RyfGGikLG~ggL~rAY~~aa~~al~~a~ 133 (210)
.+..||+|||+|||||+.||+.+ ||++..+|+++|-..+
T Consensus 165 ~~v~NvmVvvsRWyGGv~lGpdR-FkHIn~care~l~~~~ 203 (206)
T KOG3299|consen 165 MKVGNVMVVVSRWYGGVHLGPDR-FKHINNCAREILVYKN 203 (206)
T ss_pred cccCcEEEEEEEEECCeecChHH-hhhhhhhHHHHHHhcc
Confidence 99999999999999999999998 9999999999997665
No 6
>PF09186 DUF1949: Domain of unknown function (DUF1949); InterPro: IPR015269 Members of this entry are a set of functionally uncharacterised hypothetical bacterial proteins. They adopt a ferredoxin-like fold, with a beta-alpha-beta-beta-alpha-beta arrangement []. This entry contains the protein Impact, which is a translational regulator that ensures constant high levels of translation under amino acid starvation. It acts by interacting with Gcn1/Gcn1L1, thereby preventing activation of Gcn2 protein kinases (EIF2AK1 to 4) and subsequent down-regulation of protein synthesis. It is evolutionary conserved from eukaryotes to archaea []. ; PDB: 2CVE_A 1VI7_A.
Probab=99.21 E-value=1.1e-10 Score=78.95 Aligned_cols=56 Identities=14% Similarity=0.223 Sum_probs=52.4
Q ss_pred EEEecCchHHHHHHHhhcCCeEEeeeeCCCCCeeEEEEEEEecCCHHHHHHHHHHhcCCc
Q 028328 145 VEVPFELLGILYHQLQLFQVEDTNQDYDTGKDGIAMVTFKVDFDRAENLEDAIKNNCRRD 204 (210)
Q Consensus 145 l~~~Y~~~~~v~~~l~~~~~~i~~~~y~~~~~~~v~~~~~v~~~~~~~~~~~L~~~t~G~ 204 (210)
|+|+|++.+.++++|+++++.|.+++|++ .|++++.||+++.+.|.++|+|+|+|+
T Consensus 1 i~~~Y~~~~~v~~~l~~~~~~i~~~~y~~----~V~~~v~v~~~~~~~f~~~l~~~t~G~ 56 (56)
T PF09186_consen 1 ISCDYSQYGKVERLLEQNGIEIVDEDYTD----DVTLTVAVPEEEVEEFKAQLTDLTSGR 56 (56)
T ss_dssp EEE-CCCHHHHHHHHHHTTTEEEEEEECT----TEEEEEEEECCCHHHHHHHHHHHTTT-
T ss_pred CEechhhHHHHHHHHHHCCCEEEcceecc----eEEEEEEECHHHHHHHHHHHHHHcCCC
Confidence 68999999999999999999999999998 499999999999999999999999996
No 7
>KOG3299 consensus Uncharacterized conserved protein [Function unknown]
Probab=98.96 E-value=2.3e-12 Score=110.52 Aligned_cols=123 Identities=33% Similarity=0.344 Sum_probs=109.2
Q ss_pred ceeecccCeeeEEEEecceEEEEEeeCCCHHHHHHHHHHhcCCCCCceeeEEEEcc-ccCCCCCCCCCCCCChHHHHHHH
Q 028328 14 AFTTIKETVTFEKEIKKSKFIAIAGPISNEQSAQSFLSQVSDPRATHNCWAYKVGN-QYRSNDDGEPSGTAGKPIHSAIV 92 (210)
Q Consensus 14 ~y~ti~~~~~~e~~ikkS~Fi~~~~~~~~~~ea~~~l~~~~~~~A~H~~~Ayr~~~-~~~~sDDGEPsGtAG~piL~vL~ 92 (210)
++.||.+-...+.++++++|++.+.|+-++.-.+-|+..+..+-+.|+||+|.++. ..+.+|+++|++++|+|+-....
T Consensus 6 ~ap~i~e~~~v~~~~~~~~~l~~a~~~~s~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~sd~~~p~~~~~~~~~~~~~ 85 (206)
T KOG3299|consen 6 SAPTIKELVGVEKELAKRKLLSNALVYISEIGDSLFLLWVEDPRDVLNKRASKLGEGPHVESDVDIPSDEEGKPLESIIH 85 (206)
T ss_pred CCCcHhHhhhHHHHHHHHHhhhhhhHHHHhhhhhhhhhhhccHHHHHHHhHhhccCCcccccccCCCcccccCcchhhhc
Confidence 56677777777889999999999998777766666666667789999999999976 45788999999999999999999
Q ss_pred hCCCceEEEEEEEEecCeeecCcchhhhHHHHHHHHHHhCCeeE
Q 028328 93 SSGLDRIMVVVTRYFGGIKLGTGGLVRAYGGVASECLRNAPTIL 136 (210)
Q Consensus 93 ~~~l~nv~vVV~RyfGGikLG~ggL~rAY~~aa~~al~~a~~~~ 136 (210)
...+++...++.|||++++++.+++.++|..--...|..|.=.-
T Consensus 86 S~~itdr~stf~a~~a~V~~~~~~~~~~~~l~~~~kl~~a~H~m 129 (206)
T KOG3299|consen 86 SEPITDRMSTFQAYFAEVKSPEQVLVVLYKLKTSAKLKKANHNM 129 (206)
T ss_pred cCcchhHHHHHHHHhccccChhHHHHHHHhhccchhhhcCccce
Confidence 99999999999999999999999999999999999999988543
No 8
>PF00679 EFG_C: Elongation factor G C-terminus; InterPro: IPR000640 Translation elongation factors are responsible for two main processes during protein synthesis on the ribosome [, , ]. EF1A (or EF-Tu) is responsible for the selection and binding of the cognate aminoacyl-tRNA to the A-site (acceptor site) of the ribosome. EF2 (or EF-G) is responsible for the translocation of the peptidyl-tRNA from the A-site to the P-site (peptidyl-tRNA site) of the ribosome, thereby freeing the A-site for the next aminoacyl-tRNA to bind. Elongation factors are responsible for achieving accuracy of translation and both EF1A and EF2 are remarkably conserved throughout evolution. Elongation factor EF2 (EF-G) is a G-protein. It brings about the translocation of peptidyl-tRNA and mRNA through a ratchet-like mechanism: the binding of GTP-EF2 to the ribosome causes a counter-clockwise rotation in the small ribosomal subunit; the hydrolysis of GTP to GDP by EF2 and the subsequent release of EF2 causes a clockwise rotation of the small subunit back to the starting position [, ]. This twisting action destabilises tRNA-ribosome interactions, freeing the tRNA to translocate along the ribosome upon GTP-hydrolysis by EF2. EF2 binding also affects the entry and exit channel openings for the mRNA, widening it when bound to enable the mRNA to translocate along the ribosome. This entry represents the C-terminal domain found in EF2 (or EF-G) of both prokaryotes and eukaryotes (also known as eEF2), as well as in some tetracycline-resistance proteins. This domain adopts a ferredoxin-like fold consisting of an alpha/beta sandwich with anti-parallel beta-sheets. It resembles the topology of domain III found in these elongation factors, with which it forms the C-terminal block, but these two domains cannot be superimposed []. This domain is often found associated with (IPR000795 from INTERPRO), which contains the signatures for the N terminus of the proteins. More information about these proteins can be found at Protein of the Month: Elongation Factors [].; GO: 0005525 GTP binding; PDB: 1WDT_A 2DY1_A 3CB4_F 3DEG_C 2EFG_A 1ELO_A 2XSY_Y 2WRK_Y 1DAR_A 2WRI_Y ....
Probab=97.29 E-value=0.0038 Score=46.36 Aligned_cols=69 Identities=13% Similarity=0.131 Sum_probs=61.4
Q ss_pred EEEEEEEEEEEecCchHHHHHHHhhcCCeEEeeeeC-CCCCeeEEEEEEEecCCHHHHHHHHHHhcCCceEEe
Q 028328 137 VKSRVPMGVEVPFELLGILYHQLQLFQVEDTNQDYD-TGKDGIAMVTFKVDFDRAENLEDAIKNNCRRDLVFY 208 (210)
Q Consensus 137 ~~~~~~~~l~~~Y~~~~~v~~~l~~~~~~i~~~~y~-~~~~~~v~~~~~v~~~~~~~~~~~L~~~t~G~~~~~ 208 (210)
++|...+.|.++-+..+.+...|.+.++++.+.+.. + +.+.++..+|......|...|..+|+|++.+.
T Consensus 3 lEP~~~~~I~~p~~~~g~v~~~l~~r~g~i~~~~~~~~---~~~~i~~~iP~~~~~gf~~~Lr~~T~G~a~~~ 72 (89)
T PF00679_consen 3 LEPIMSVEISVPEEYLGKVISDLSKRRGEILSMDPIGG---DRVVIEAEIPVRELFGFRSELRSLTSGRASFS 72 (89)
T ss_dssp EEEEEEEEEEEEGGGHHHHHHHHHHTT-EEEEEEEEST---TEEEEEEEEEGGGHTTHHHHHHHHTTTS-EEE
T ss_pred ECCEEEEEEEECHHHHHHHHHHhcccccEEEechhhhh---hheeEEEEEChhhhhhHHHHhhccCCCEEEEE
Confidence 578889999999999999999999999999999887 4 37899999999999999999999999998875
No 9
>cd03711 Tet_C Tet_C: C-terminus of ribosomal protection proteins Tet(M) and Tet(O). This domain has homology to the C terminal domains of the elongation factors EF-G and EF-2. Tet(M) and Tet(O) catalyze the release of tetracycline (Tc) from the ribosome in a GTP-dependent manner thereby mediating Tc resistance. Tcs are broad-spectrum antibiotics. Typical Tcs bind to the ribosome and inhibit the elongation phase of protein synthesis, by inhibiting the occupation of site A by aminoacyl-tRNA.
Probab=97.05 E-value=0.0023 Score=46.36 Aligned_cols=67 Identities=10% Similarity=0.136 Sum_probs=59.7
Q ss_pred EEEEEEEEEecCchHHHHHHHhhcCCeEEeeeeCCCCCeeEEEEEEEecCCHHHHHHHHHHhcCCceEEe
Q 028328 139 SRVPMGVEVPFELLGILYHQLQLFQVEDTNQDYDTGKDGIAMVTFKVDFDRAENLEDAIKNNCRRDLVFY 208 (210)
Q Consensus 139 ~~~~~~l~~~Y~~~~~v~~~l~~~~~~i~~~~y~~~~~~~v~~~~~v~~~~~~~~~~~L~~~t~G~~~~~ 208 (210)
+...+.|.++.+..+.+...|.+..+++.+.+..++ .+.++..+|..+.-.|...|+.+|+|++.+.
T Consensus 2 Pi~~~~i~~p~~~~g~v~~~l~~rrg~i~~~~~~~~---~~~i~~~~P~~~~~g~~~~Lr~~T~G~~~~~ 68 (78)
T cd03711 2 PYLRFELEVPQDALGRAMSDLAKMGATFEDPQIKGD---EVTLEGTIPVATSQDYQSELPSYTHGEGVLE 68 (78)
T ss_pred CeEEEEEEcCHHHHHHHHHHHHHcCCEeeCcEecCC---EEEEEEEECHHHHhhHHHHhHhhcCCeEEEE
Confidence 556788999999999999999999999998887543 6899999999999999999999999998874
No 10
>cd04097 mtEFG1_C mtEFG1_C: C-terminus of mitochondrial Elongation factor G1 (mtEFG1)-like proteins found in eukaryotes. Eukaryotic cells harbor 2 protein synthesis systems: one localized in the cytoplasm, the other in the mitochondria. Most factors regulating mitochondrial protein synthesis are encoded by nuclear genes, translated in the cytoplasm, and then transported to the mitochondria. The eukaryotic system of elongation factor (EF) components is more complex than that in prokaryotes, with both cytoplasmic and mitochondrial elongation factors and multiple isoforms being expressed in certain species. Eukaryotic EF-2 operates in the cytosolic protein synthesis machinery of eukaryotes, EF-Gs in protein synthesis in bacteria. Eukaryotic mtEFG1 proteins show significant homology to bacterial EF-Gs. Mutants in yeast mtEFG1 have impaired mitochondrial protein synthesis, respiratory defects and a tendency to lose mitochondrial DNA. There are two forms of mtEFG present in mammals (desig
Probab=96.97 E-value=0.0033 Score=45.52 Aligned_cols=67 Identities=12% Similarity=0.074 Sum_probs=59.5
Q ss_pred EEEEEEEEEecCchHHHHHHHhhcCCeEEeeeeCCCCCeeEEEEEEEecCCHHHHHHHHHHhcCCceEEe
Q 028328 139 SRVPMGVEVPFELLGILYHQLQLFQVEDTNQDYDTGKDGIAMVTFKVDFDRAENLEDAIKNNCRRDLVFY 208 (210)
Q Consensus 139 ~~~~~~l~~~Y~~~~~v~~~l~~~~~~i~~~~y~~~~~~~v~~~~~v~~~~~~~~~~~L~~~t~G~~~~~ 208 (210)
+...+.|.++-+..+.+...|.+.++++.+.+..++ .+.++..+|..+.-.|...|..+|+|++.+.
T Consensus 2 Pi~~~~I~~p~~~~g~v~~~l~~rrg~i~~~~~~~~---~~~i~~~~P~~e~~g~~~~Lr~~T~G~~~~~ 68 (78)
T cd04097 2 PIMKVEVTAPTEFQGNVIGLLNKRKGTIVDTDTGED---EFTLEAEVPLNDMFGYSTELRSMTQGKGEFS 68 (78)
T ss_pred CEEEEEEEecHHHHHHHHHHHHHCCCEEeceEecCC---eEEEEEEECHHHhhChHHHHHhhCCCcEEEE
Confidence 456788999999999999999999999998886442 5889999999999999999999999998874
No 11
>cd03710 BipA_TypA_C BipA_TypA_C: a C-terminal portion of BipA or TypA having homology to the C terminal domains of the elongation factors EF-G and EF-2. A member of the ribosome binding GTPase superfamily, BipA is widely distributed in bacteria and plants. BipA is a highly conserved protein with global regulatory properties in Escherichia coli. BipA is phosphorylated on a tyrosine residue under some cellular conditions. Mutants show altered regulation of some pathways. BipA functions as a translation factor that is required specifically for the expression of the transcriptional modulator Fis. BipA binds to ribosomes at a site that coincides with that of EF-G and has a GTPase activity that is sensitive to high GDP:GTP ratios and, is stimulated by 70S ribosomes programmed with mRNA and aminoacylated tRNAs. The growth rate-dependent induction of BipA allows the efficient expression of Fis, thereby modulating a range of downstream processes, including DNA metabolism and type III secreti
Probab=96.95 E-value=0.0041 Score=45.27 Aligned_cols=68 Identities=16% Similarity=0.189 Sum_probs=60.2
Q ss_pred EEEEEEEEEecCchHHHHHHHhhcCCeEEeeeeCCCCCeeEEEEEEEecCCHHHHHHHHHHhcCCceEEe
Q 028328 139 SRVPMGVEVPFELLGILYHQLQLFQVEDTNQDYDTGKDGIAMVTFKVDFDRAENLEDAIKNNCRRDLVFY 208 (210)
Q Consensus 139 ~~~~~~l~~~Y~~~~~v~~~l~~~~~~i~~~~y~~~~~~~v~~~~~v~~~~~~~~~~~L~~~t~G~~~~~ 208 (210)
|...+.|.+|-+..+.|...|.+.++++.+.+..++ +.+.++..+|..+...|...|+.+|+|++.+.
T Consensus 2 Pi~~v~I~~P~~~~g~V~~~l~~rrg~i~~~~~~~~--~~~~i~~~~P~~~~~~~~~~Lrs~T~G~a~~~ 69 (79)
T cd03710 2 PIEELTIDVPEEYSGAVIEKLGKRKGEMVDMEPDGN--GRTRLEFKIPSRGLIGFRSEFLTDTRGTGIMN 69 (79)
T ss_pred CEEEEEEEeCchhhHHHHHHHHhCCCEEEccEECCC--CEEEEEEEECHHHHcCcHHHHHhhCCCeEEEE
Confidence 556788999999999999999999999999888541 25889999999999999999999999998875
No 12
>PRK12740 elongation factor G; Reviewed
Probab=96.88 E-value=0.0069 Score=59.65 Aligned_cols=115 Identities=15% Similarity=0.089 Sum_probs=92.9
Q ss_pred HHhCCCceEEEEEEEEe-cCeeecCcchhhhHHHHHHHHHHhCCeeEEEEEEEEEEEEecCchHHHHHHHhhcCCeEEee
Q 028328 91 IVSSGLDRIMVVVTRYF-GGIKLGTGGLVRAYGGVASECLRNAPTILVKSRVPMGVEVPFELLGILYHQLQLFQVEDTNQ 169 (210)
Q Consensus 91 L~~~~l~nv~vVV~Ryf-GGikLG~ggL~rAY~~aa~~al~~a~~~~~~~~~~~~l~~~Y~~~~~v~~~l~~~~~~i~~~ 169 (210)
|-+.-+.|+.|.++..- -...-+.+-+.-|-..|.++|+.+|+..-+++...+.|.++.+..+.+...|.+..+.+++.
T Consensus 534 l~g~p~~~v~v~l~~~~~~~~~s~~~~~~~a~~~a~~~a~~~a~~~LlEPi~~~eI~~p~~~~g~v~~~l~~rrg~i~~~ 613 (668)
T PRK12740 534 LAGYPVVDVKVTLTDGSYHSVDSSEMAFKIAARLAFREALPKAKPVLLEPIMKVEVSVPEEFVGDVIGDLSSRRGRILGM 613 (668)
T ss_pred cCCCceeeEEEEEEecccccCCCCHHHHHHHHHHHHHHHHHhcCCeeecceEEEEEEechhhhhhHHHHHHhCCCeEecc
Confidence 45567889888887631 12222334344566777888888999888999999999999999999999999999999988
Q ss_pred eeCCCCCeeEEEEEEEecCCHHHHHHHHHHhcCCceEEe
Q 028328 170 DYDTGKDGIAMVTFKVDFDRAENLEDAIKNNCRRDLVFY 208 (210)
Q Consensus 170 ~y~~~~~~~v~~~~~v~~~~~~~~~~~L~~~t~G~~~~~ 208 (210)
+..+. ...++..+|..+.-.|...|+.+|+|++.+.
T Consensus 614 ~~~~~---~~~i~a~~P~~e~~g~~~~Lr~~T~G~a~~~ 649 (668)
T PRK12740 614 ESRGG---GDVVRAEVPLAEMFGYATDLRSLTQGRGSFS 649 (668)
T ss_pred ccCCC---CEEEEEEcCHHHhhchHHHHHHhcCCeEEEE
Confidence 87542 3789999999999999999999999998874
No 13
>cd03713 EFG_mtEFG_C EFG_mtEFG_C: domains similar to the C-terminal domain of the bacterial translational elongation factor (EF) EF-G. Included in this group is the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2) proteins. Eukaryotic cells harbor 2 protein synthesis systems: one localized in the cytoplasm, the other in the mitochondria. Most factors regulating mitochondrial protein synthesis are encoded by nuclear genes, translated in the cytoplasm, and then transported to the mitochondria. The eukaryotic system of elongation factor (EF) components is more complex than that in prokaryotes, with both cytoplasmic and mitochondrial elongation factors and multiple isoforms being expressed in certain species. During the process of peptide synthesis and tRNA site changes, the ribosome is moved along the mRNA a distance equal to one codon with the addition of each amino acid. In bacteria this translocation step is catalyzed by EF-G_GTP, which is hydrolyzed to provide
Probab=96.85 E-value=0.0028 Score=45.61 Aligned_cols=67 Identities=13% Similarity=0.126 Sum_probs=59.2
Q ss_pred EEEEEEEEEecCchHHHHHHHhhcCCeEEeeeeCCCCCeeEEEEEEEecCCHHHHHHHHHHhcCCceEEe
Q 028328 139 SRVPMGVEVPFELLGILYHQLQLFQVEDTNQDYDTGKDGIAMVTFKVDFDRAENLEDAIKNNCRRDLVFY 208 (210)
Q Consensus 139 ~~~~~~l~~~Y~~~~~v~~~l~~~~~~i~~~~y~~~~~~~v~~~~~v~~~~~~~~~~~L~~~t~G~~~~~ 208 (210)
+...+.|.++-+..+.+...|.+..+++++.+..++ .+.++..+|..+...|...|+.+|+|++.+.
T Consensus 2 Pi~~~~I~~p~~~~g~v~~~l~~rrg~i~~~~~~~~---~~~i~~~iP~~e~~~~~~~Lr~~T~G~a~~~ 68 (78)
T cd03713 2 PIMKVEVTVPEEYMGDVIGDLSSRRGQILGTESRGG---WKVIKAEVPLAEMFGYSTDLRSLTQGRGSFT 68 (78)
T ss_pred CEEEEEEEcCHHHHHHHHHHHHHcCCceEceeccCC---cEEEEEEcCHHHHhChHHHHHhhcCCeEEEE
Confidence 556788999999999999999999999998887542 5889999999999999999999999998874
No 14
>smart00838 EFG_C Elongation factor G C-terminus. This domain includes the carboxyl terminal regions of Elongation factor G, elongation factor 2 and some tetracycline resistance proteins and adopt a ferredoxin-like fold.
Probab=96.84 E-value=0.0036 Score=45.91 Aligned_cols=69 Identities=13% Similarity=0.174 Sum_probs=60.8
Q ss_pred EEEEEEEEEEEecCchHHHHHHHhhcCCeEEeeeeCCCCCeeEEEEEEEecCCHHHHHHHHHHhcCCceEEe
Q 028328 137 VKSRVPMGVEVPFELLGILYHQLQLFQVEDTNQDYDTGKDGIAMVTFKVDFDRAENLEDAIKNNCRRDLVFY 208 (210)
Q Consensus 137 ~~~~~~~~l~~~Y~~~~~v~~~l~~~~~~i~~~~y~~~~~~~v~~~~~v~~~~~~~~~~~L~~~t~G~~~~~ 208 (210)
+++...+.|.++-+..+.+...|.+..+++.+.+..++ .+.+...+|....-.|...|+.+|+|++.+.
T Consensus 2 lEPi~~~~I~~p~~~~g~v~~~l~~rrG~i~~~~~~~~---~~~i~~~iP~~~~~~~~~~Lrs~T~G~~~~~ 70 (85)
T smart00838 2 LEPIMKVEVTVPEEYMGDVIGDLNSRRGKIEGMEQRGG---AQVIKAKVPLSEMFGYATDLRSATQGRATWS 70 (85)
T ss_pred cCCEEEEEEEeCHHHHHHHHHHHHHcCCEEECeeccCC---cEEEEEECCHHHHhchHHHHHHhcCCeEEEE
Confidence 35777889999999999999999999999998886432 5889999999999999999999999999874
No 15
>cd01514 Elongation_Factor_C Elongation factor G C-terminus. This domain includes the carboxyl terminal regions of elongation factors (EFs) bacterial EF-G, eukaryotic and archeal EF-2 and eukaryotic mitochondrial mtEFG1s and mtEFG2s. This group also includes proteins similar to the ribosomal protection proteins Tet(M) and Tet(O), BipA, LepA and, spliceosomal proteins: human 116kD U5 small nuclear ribonucleoprotein (snRNP) protein (U5-116 kD) and yeast counterpart Snu114p. This domain adopts a ferredoxin-like fold consisting of an alpha-beta sandwich with anti-parallel beta-sheets, resembling the topology of domain III found in the elongation factors EF-G and eukaryotic EF-2, with which it forms the C-terminal block. The two domains however are not superimposable and domain III lacks some of the characteristics of this domain. EF-2/EF-G in complex with GTP, promotes the translocation step of translation. During translocation the peptidyl-tRNA is moved from the A site to the P site, the
Probab=96.65 E-value=0.0049 Score=44.36 Aligned_cols=68 Identities=13% Similarity=0.152 Sum_probs=59.8
Q ss_pred EEEEEEEEEecCchHHHHHHHhhcCCeEEeeeeCCCCCeeEEEEEEEecCCHHHHHHHHHHhcCCceEEe
Q 028328 139 SRVPMGVEVPFELLGILYHQLQLFQVEDTNQDYDTGKDGIAMVTFKVDFDRAENLEDAIKNNCRRDLVFY 208 (210)
Q Consensus 139 ~~~~~~l~~~Y~~~~~v~~~l~~~~~~i~~~~y~~~~~~~v~~~~~v~~~~~~~~~~~L~~~t~G~~~~~ 208 (210)
+...+.|.++.+..+.+...|.+.++++.+.+..+. ..+.+...+|..+.-.|...|+.+|+|++.+.
T Consensus 2 Pi~~~~I~~p~~~~g~v~~~l~~rrg~v~~~~~~~~--~~~~i~~~iP~~e~~g~~~~lr~~T~G~~~~~ 69 (79)
T cd01514 2 PIMKVEITVPEEYLGAVIGDLSKRRGEILGMEPRGT--GRVVIKAELPLAEMFGFATDLRSLTQGRASFS 69 (79)
T ss_pred CEEEEEEEcCHHHHHHHHHHHHhcCCeeEeeEecCC--CeEEEEEECCHHHHcCcHHHhhhhcCCeEEEE
Confidence 556788999999999999999999999998887551 26889999999999999999999999998875
No 16
>PRK13351 elongation factor G; Reviewed
Probab=96.49 E-value=0.022 Score=56.48 Aligned_cols=116 Identities=13% Similarity=0.118 Sum_probs=91.8
Q ss_pred HHhCCCceEEEEEEEEe-cCeeecCcchhhhHHHHHHHHHHhCCeeEEEEEEEEEEEEecCchHHHHHHHhhcCCeEEee
Q 028328 91 IVSSGLDRIMVVVTRYF-GGIKLGTGGLVRAYGGVASECLRNAPTILVKSRVPMGVEVPFELLGILYHQLQLFQVEDTNQ 169 (210)
Q Consensus 91 L~~~~l~nv~vVV~Ryf-GGikLG~ggL~rAY~~aa~~al~~a~~~~~~~~~~~~l~~~Y~~~~~v~~~l~~~~~~i~~~ 169 (210)
|.+.-+.||-|.+..+- -..-.+.+=+.-|=..|.++|+.+|+..-+++...+.|.++.+..+.+...|.+..+.|++.
T Consensus 551 L~~~pv~~v~v~l~~~~~~~~~s~~~~~~~a~~~a~~~a~~~a~~~LlEPi~~~eI~~p~~~~g~v~~~l~~rrg~i~~~ 630 (687)
T PRK13351 551 LAGYPVTDLRVTVLDGKYHPVDSSESAFKAAARKAFLEAFRKANPVLLEPIMELEITVPTEHVGDVLGDLSQRRGRIEGT 630 (687)
T ss_pred CCCCceeeEEEEEEEecCCCCCCCHHHHHHHHHHHHHHHHHhCCCeeecceEEEEEEechHhhhhHHHHHHhCCcEEece
Confidence 34556778887777632 11112344455577778888999999888999999999999999999999999999999988
Q ss_pred eeCCCCCeeEEEEEEEecCCHHHHHHHHHHhcCCceEEe
Q 028328 170 DYDTGKDGIAMVTFKVDFDRAENLEDAIKNNCRRDLVFY 208 (210)
Q Consensus 170 ~y~~~~~~~v~~~~~v~~~~~~~~~~~L~~~t~G~~~~~ 208 (210)
+..++ ..++++..+|..+.-.|...|+.+|+|++.+.
T Consensus 631 ~~~~~--~~~~i~a~vP~~e~~~~~~~Lrs~T~G~a~~~ 667 (687)
T PRK13351 631 EPRGD--GEVLVKAEAPLAELFGYATRLRSMTKGRGSFT 667 (687)
T ss_pred ecCCC--cEEEEEEEECHHHhhChHHHHHhhcCCceEEE
Confidence 87432 23448999999999999999999999998774
No 17
>TIGR00490 aEF-2 translation elongation factor aEF-2. This model represents archaeal elongation factor 2, a protein more similar to eukaryotic EF-2 than to bacterial EF-G, both in sequence similarity and in sharing with eukaryotes the property of having a diphthamide (modified His) residue at a conserved position. The diphthamide can be ADP-ribosylated by diphtheria toxin in the presence of NAD.
Probab=96.43 E-value=0.015 Score=58.19 Aligned_cols=113 Identities=11% Similarity=0.136 Sum_probs=93.7
Q ss_pred hCCCceEEEEEE--EEec-CeeecCcchhhhHHHHHHHHHHhCCeeEEEEEEEEEEEEecCchHHHHHHHhhcCCeEEee
Q 028328 93 SSGLDRIMVVVT--RYFG-GIKLGTGGLVRAYGGVASECLRNAPTILVKSRVPMGVEVPFELLGILYHQLQLFQVEDTNQ 169 (210)
Q Consensus 93 ~~~l~nv~vVV~--RyfG-GikLG~ggL~rAY~~aa~~al~~a~~~~~~~~~~~~l~~~Y~~~~~v~~~l~~~~~~i~~~ 169 (210)
+.-+.||.|.+. .|.. .+--+.+-+..|=..|.++|+.+|+..-+++.-.+.|.++.+..+.+...|.+..+.|.+.
T Consensus 575 g~pv~~v~v~l~d~~~h~~~vds~~~~f~~a~~~a~~~a~~~a~p~LlEPi~~~ei~~p~~~~g~v~~~L~~RRg~i~~~ 654 (720)
T TIGR00490 575 REKCMGVKVKLMDAKLHEDAVHRGPAQVIPAVRSGIFAAMMQAKPVLLEPYQKVFINVPQDMMGAATREIQNRRGQILEM 654 (720)
T ss_pred CCcccceEEEEEeeccccccccCccchHHHHHHHHHHHHHHhCCCeEecceEEEEEEccHHHHhHHHHHHhhCCceeeee
Confidence 446788888887 4432 2334566677888889999999999999999999999999999999999999999999876
Q ss_pred eeCCCCCeeEEEEEEEecCCHHHHHHHHHHhcCCceEEe
Q 028328 170 DYDTGKDGIAMVTFKVDFDRAENLEDAIKNNCRRDLVFY 208 (210)
Q Consensus 170 ~y~~~~~~~v~~~~~v~~~~~~~~~~~L~~~t~G~~~~~ 208 (210)
+-.. ....++..+|..+.-.|...|+.+|+|++.+.
T Consensus 655 ~~~~---~~~~I~A~vP~~e~fgy~~~Lrs~T~G~a~~~ 690 (720)
T TIGR00490 655 KQEG---DMVTIIAKAPVAEMFGFAGAIRGATSGRCLWS 690 (720)
T ss_pred ccCC---CcEEEEEEEehHHhcCCcHHHHhhCCCCceEE
Confidence 5322 24789999999999999999999999998774
No 18
>PRK07560 elongation factor EF-2; Reviewed
Probab=96.41 E-value=0.023 Score=57.01 Aligned_cols=115 Identities=10% Similarity=0.164 Sum_probs=94.4
Q ss_pred HHhCCCceEEEEEEEEe--c-CeeecCcchhhhHHHHHHHHHHhCCeeEEEEEEEEEEEEecCchHHHHHHHhhcCCeEE
Q 028328 91 IVSSGLDRIMVVVTRYF--G-GIKLGTGGLVRAYGGVASECLRNAPTILVKSRVPMGVEVPFELLGILYHQLQLFQVEDT 167 (210)
Q Consensus 91 L~~~~l~nv~vVV~Ryf--G-GikLG~ggL~rAY~~aa~~al~~a~~~~~~~~~~~~l~~~Y~~~~~v~~~l~~~~~~i~ 167 (210)
|.+.-+.||.+.+..+- . .+.-+++-+.-|-..|.++|+.+|+..-+++.-.+.|.++.+..+.+...|.+..+.|.
T Consensus 575 L~g~pv~~v~v~l~d~~~h~d~~~~~~~~~~~a~~~a~~~a~~~a~p~LlEPi~~veI~~p~~~~g~v~~~L~~rrg~i~ 654 (731)
T PRK07560 575 LAAEPVRGVKVRLHDAKLHEDAIHRGPAQVIPAVRNAIFAAMLTAKPTLLEPIQKVDINVPQDYMGAVTREIQGRRGKIL 654 (731)
T ss_pred ccCCceeeEEEEEEEeeecccccccccchHHHHHHHHHHHHHHhCCCEEeecEEEEEEEecHHHhhHHHHHHHhcCCeee
Confidence 34457889998888421 1 12234566667888899999999999999999999999999999999999999999999
Q ss_pred eeeeCCCCCeeEEEEEEEecCCHHHHHHHHHHhcCCceEEe
Q 028328 168 NQDYDTGKDGIAMVTFKVDFDRAENLEDAIKNNCRRDLVFY 208 (210)
Q Consensus 168 ~~~y~~~~~~~v~~~~~v~~~~~~~~~~~L~~~t~G~~~~~ 208 (210)
+.+-..+ ...++..+|..+.-.|...|+.+|+|++.+.
T Consensus 655 ~~~~~~~---~~~I~a~vP~~e~~gy~~~Lrs~T~G~~~~~ 692 (731)
T PRK07560 655 DMEQEGD---MAIIEAEAPVAEMFGFAGEIRSATEGRALWS 692 (731)
T ss_pred eeecCCC---cEEEEEEEehHHhcCCchHHHhhCcCCceEE
Confidence 7775332 4678999999999999999999999998874
No 19
>PLN00116 translation elongation factor EF-2 subunit; Provisional
Probab=96.38 E-value=0.015 Score=59.40 Aligned_cols=116 Identities=12% Similarity=0.100 Sum_probs=95.1
Q ss_pred HhCCCceEEEEEEEE--ec-CeeecCcchhhhHHHHHHHHHHhCCeeEEEEEEEEEEEEecCchHHHHHHHhhcCCeEEe
Q 028328 92 VSSGLDRIMVVVTRY--FG-GIKLGTGGLVRAYGGVASECLRNAPTILVKSRVPMGVEVPFELLGILYHQLQLFQVEDTN 168 (210)
Q Consensus 92 ~~~~l~nv~vVV~Ry--fG-GikLG~ggL~rAY~~aa~~al~~a~~~~~~~~~~~~l~~~Y~~~~~v~~~l~~~~~~i~~ 168 (210)
-+.-+.||.|.+..+ .. .+.-+.|-+..|=..|.++|+.+|+.+-+++.-.+.|.++.+..+.+...|.+..+.|++
T Consensus 678 ~g~Pv~~V~v~l~d~~~h~d~~~~~~~~f~~A~~~a~~~Al~~a~p~LlEPi~~veI~~p~~~~G~V~~dL~~RRG~i~~ 757 (843)
T PLN00116 678 AEENMRGICFEVCDVVLHADAIHRGGGQIIPTARRVIYASQLTAKPRLLEPVYLVEIQAPEQALGGIYSVLNQKRGHVFE 757 (843)
T ss_pred cCCeeeeEEEEEEEeeccCcccccchhhHHHHHHHHHHHHHHhCCCEEeeceeEEEEEccHHHHhHHHHHHHhcCCccce
Confidence 345678998888843 22 133455677788888999999999999999999999999999999999999999999998
Q ss_pred eeeCCCCCeeEEEEEEEecCCHHHHHHHHHHhcCCceEEe
Q 028328 169 QDYDTGKDGIAMVTFKVDFDRAENLEDAIKNNCRRDLVFY 208 (210)
Q Consensus 169 ~~y~~~~~~~v~~~~~v~~~~~~~~~~~L~~~t~G~~~~~ 208 (210)
.+-.++ .....++..+|..+.-.|...|+.+|+|++.+.
T Consensus 758 ~~~~~~-t~~~~I~A~vPl~e~~gy~~~LRs~T~G~g~~~ 796 (843)
T PLN00116 758 EMQRPG-TPLYNIKAYLPVIESFGFSGTLRAATSGQAFPQ 796 (843)
T ss_pred eeecCC-CceEEEEEEeeHHHHcCCCHHHHhhCCCCCeEE
Confidence 776432 112678999999999999999999999998874
No 20
>cd04096 eEF2_snRNP_like_C eEF2_snRNP_like_C: this family represents a C-terminal domain of eukaryotic elongation factor 2 (eEF-2) and a homologous domain of the spliceosomal human 116kD U5 small nuclear ribonucleoprotein (snRNP) protein (U5-116 kD) and, its yeast counterpart Snu114p. Yeast Snu114p is essential for cell viability and for splicing in vivo. U5-116 kD binds GTP. Experiments suggest that GTP binding and probably GTP hydrolysis is important for the function of the U5-116 kD/Snu114p. In complex with GTP, EF-2 promotes the translocation step of translation. During translocation the peptidyl-tRNA is moved from the A site to the P site, the uncharged tRNA from the P site to the E-site and, the mRNA is shifted one codon relative to the ribosome.
Probab=96.31 E-value=0.011 Score=42.82 Aligned_cols=69 Identities=10% Similarity=0.096 Sum_probs=58.8
Q ss_pred EEEEEEEEEecCchHHHHHHHhhcCCeEEeeeeCCCCCeeEEEEEEEecCCHHHHHHHHHHhcCCceEEe
Q 028328 139 SRVPMGVEVPFELLGILYHQLQLFQVEDTNQDYDTGKDGIAMVTFKVDFDRAENLEDAIKNNCRRDLVFY 208 (210)
Q Consensus 139 ~~~~~~l~~~Y~~~~~v~~~l~~~~~~i~~~~y~~~~~~~v~~~~~v~~~~~~~~~~~L~~~t~G~~~~~ 208 (210)
+...+.|.++-+..+.+...|.+..+.+++.+-.++ ...+.++..+|..+...|...|+.+|+|++.+.
T Consensus 2 Pi~~~~I~~p~~~~g~V~~~l~~rrg~i~~~~~~~~-~~~~~i~~~iP~~e~~~~~~~Lrs~T~G~~~~~ 70 (80)
T cd04096 2 PIYLVEIQCPEDALGKVYSVLSKRRGHVLSEEPKEG-TPLFEIKAYLPVIESFGFETDLRSATSGQAFPQ 70 (80)
T ss_pred CEEEEEEEEcHHHhhHHHHhhhhCeeEEeEEeecCC-CccEEEEEEEeHHHHhCcHHHHHhhCCCCcEEE
Confidence 456778899999999999999999999998776532 113789999999999999999999999999875
No 21
>PRK00007 elongation factor G; Reviewed
Probab=96.21 E-value=0.031 Score=55.76 Aligned_cols=113 Identities=12% Similarity=0.102 Sum_probs=90.1
Q ss_pred HHhCCCceEEEEEEEEecCee---ecCcchhhhHHHHHHHHHHhCCeeEEEEEEEEEEEEecCchHHHHHHHhhcCCeEE
Q 028328 91 IVSSGLDRIMVVVTRYFGGIK---LGTGGLVRAYGGVASECLRNAPTILVKSRVPMGVEVPFELLGILYHQLQLFQVEDT 167 (210)
Q Consensus 91 L~~~~l~nv~vVV~RyfGGik---LG~ggL~rAY~~aa~~al~~a~~~~~~~~~~~~l~~~Y~~~~~v~~~l~~~~~~i~ 167 (210)
|.+.-+.||.|.++ .|... -..+-+..|=..|.++|+.+|...-+++...+.|.++.+..+.+...|.+...+|.
T Consensus 555 L~g~pv~~v~v~l~--d~~~~~~ds~~~~~~~a~~~a~~~a~~~a~p~LlEPi~~~eI~~p~~~~g~v~~~L~~RRg~i~ 632 (693)
T PRK00007 555 LAGYPVVDVKVTLF--DGSYHDVDSSEMAFKIAGSMAFKEAAKKANPVLLEPIMKVEVVTPEEYMGDVIGDLNSRRGQIE 632 (693)
T ss_pred cCCCceeeEEEEEE--ecccCCCCCcHHHHHHHHHHHHHHHHHHCCCEEecCcEEEEEEechhhhhhHHHHHHhCCCeEe
Confidence 34456778776665 34422 22333345667778888889998889999999999999999999999999999999
Q ss_pred eeeeCCCCCeeEEEEEEEecCCHHHHHHHHHHhcCCceEEe
Q 028328 168 NQDYDTGKDGIAMVTFKVDFDRAENLEDAIKNNCRRDLVFY 208 (210)
Q Consensus 168 ~~~y~~~~~~~v~~~~~v~~~~~~~~~~~L~~~t~G~~~~~ 208 (210)
+.+..+ +...++..+|..+.-.|...|+.+|+|++.+.
T Consensus 633 ~~~~~~---~~~~i~a~vP~~e~~g~~~~Lrs~T~G~a~~~ 670 (693)
T PRK00007 633 GMEDRG---GAKVIRAEVPLSEMFGYATDLRSMTQGRATYS 670 (693)
T ss_pred cccccC---CcEEEEEEcCHHHhhccHHHHHhhcCCceEEE
Confidence 876533 25789999999999999999999999998874
No 22
>PRK12739 elongation factor G; Reviewed
Probab=96.14 E-value=0.024 Score=56.47 Aligned_cols=113 Identities=12% Similarity=0.118 Sum_probs=88.9
Q ss_pred HhCCCceEEEEEEE--EecCeeecCcchhhhHHHHHHHHHHhCCeeEEEEEEEEEEEEecCchHHHHHHHhhcCCeEEee
Q 028328 92 VSSGLDRIMVVVTR--YFGGIKLGTGGLVRAYGGVASECLRNAPTILVKSRVPMGVEVPFELLGILYHQLQLFQVEDTNQ 169 (210)
Q Consensus 92 ~~~~l~nv~vVV~R--yfGGikLG~ggL~rAY~~aa~~al~~a~~~~~~~~~~~~l~~~Y~~~~~v~~~l~~~~~~i~~~ 169 (210)
-+.-+.||-|.+.- |-. .--..+-+.-|=..|.++|+.+|...-+++...+.|.++.+..+.+...|.+..++|++.
T Consensus 553 ~g~pv~~v~v~l~d~~~h~-~~s~~~~~~~a~~~a~~~a~~~a~p~LlEPi~~~eI~~p~~~~g~v~~~L~~RRg~i~~~ 631 (691)
T PRK12739 553 AGYPMVDVKATLYDGSYHD-VDSSELAFKIAASMALKEAAKKAGPVILEPIMKVEVVTPEEYMGDVIGDLNRRRGQIQGM 631 (691)
T ss_pred CCCceeeEEEEEEEeccCC-CCCcHHHHHHHHHHHHHHHHHhCCCeeecceEEEEEEEchHhhhhHHHHHHhcCCeEECc
Confidence 34566777766653 211 111223334466677888888999888999999999999999999999999999999988
Q ss_pred eeCCCCCeeEEEEEEEecCCHHHHHHHHHHhcCCceEEe
Q 028328 170 DYDTGKDGIAMVTFKVDFDRAENLEDAIKNNCRRDLVFY 208 (210)
Q Consensus 170 ~y~~~~~~~v~~~~~v~~~~~~~~~~~L~~~t~G~~~~~ 208 (210)
+..++ ...++..+|..+...|...|+.+|+|++.+.
T Consensus 632 ~~~~~---~~~i~a~vP~~e~~g~~~~Lr~~T~G~a~~~ 667 (691)
T PRK12739 632 EARGG---AQIVKAFVPLSEMFGYATDLRSATQGRATFS 667 (691)
T ss_pred cccCC---cEEEEEEeCHHHhhccHHHHHhhccCceEEE
Confidence 87542 5789999999999999999999999998874
No 23
>cd03709 lepA_C lepA_C: This family represents the C-terminal region of LepA, a GTP-binding protein localized in the cytoplasmic membrane. LepA is ubiquitous in Bacteria and Eukaryota (e.g. Saccharomyces cerevisiae GUF1p), but is missing from Archaea. LepA exhibits significant homology to elongation factors (EFs) Tu and G. The function(s) of the proteins in this family are unknown. The N-terminal domain of LepA is homologous to a domain of similar size found in initiation factor 2 (IF2), and in EF-Tu and EF-G (factors required for translation in Escherichia coli). Two types of phylogenetic tree, rooted by other GTP-binding proteins, suggest that eukaryotic homologs (including S. cerevisiae GUF1) originated within the bacterial LepA family. LepA has never been observed in archaea, and eukaryl LepA is organellar. LepA is therefore a true bacterial GTPase, found only in the bacterial lineage.
Probab=96.13 E-value=0.025 Score=41.36 Aligned_cols=68 Identities=16% Similarity=0.176 Sum_probs=58.8
Q ss_pred EEEEEEEEEecCchHHHHHHHhhcCCeEEeeeeCCCCCeeEEEEEEEecCCH-HHHHHHHHHhcCCceEEe
Q 028328 139 SRVPMGVEVPFELLGILYHQLQLFQVEDTNQDYDTGKDGIAMVTFKVDFDRA-ENLEDAIKNNCRRDLVFY 208 (210)
Q Consensus 139 ~~~~~~l~~~Y~~~~~v~~~l~~~~~~i~~~~y~~~~~~~v~~~~~v~~~~~-~~~~~~L~~~t~G~~~~~ 208 (210)
|...+.|.+|=+..+.+...|.+..+++.+.+-.+ ++.+.+...+|.... ..|...|..+|+|+..+.
T Consensus 2 Pi~~v~i~vP~e~~G~V~~~l~~rrG~i~~~~~~~--~~~~~i~~~~P~~~~~~g~~~~L~s~T~G~g~~~ 70 (80)
T cd03709 2 PFVKATIITPSEYLGAIMELCQERRGVQKDMEYLD--ANRVMLTYELPLAEIVYDFFDKLKSISKGYASLD 70 (80)
T ss_pred CEEEEEEEeCHHhhHHHHHHHHHhCCEEeccEecC--CCeEEEEEECCHHHHhhhHHHHhHhhcCCEEEEE
Confidence 55678889999999999999999999999877533 235889999999999 899999999999998874
No 24
>cd04098 eEF2_C_snRNP eEF2_C_snRNP: This family includes a C-terminal portion of the spliceosomal human 116kD U5 small nuclear ribonucleoprotein (snRNP) protein (U5-116 kD) and, its yeast counterpart Snu114p. This domain is homologous to the C-terminal domain of the eukaryotic translational elongation factor EF-2. Yeast Snu114p is essential for cell viability and for splicing in vivo. U5-116 kD binds GTP. Experiments suggest that GTP binding and probably GTP hydrolysis is important for the function of the U5-116 kD/Snu114p. In complex with GTP, EF-2 promotes the translocation step of translation. During translocation the peptidyl-tRNA is moved from the A site to the P site, the uncharged tRNA from the P site to the E-site and, the mRNA is shifted one codon relative to the ribosome.
Probab=96.02 E-value=0.019 Score=42.08 Aligned_cols=68 Identities=9% Similarity=0.022 Sum_probs=57.8
Q ss_pred EEEEEEEEEecCchHHHHHHHhhcCCeEEeeeeCCCCCee-EEEEEEEecCCHHHHHHHHHHhcCCceEEe
Q 028328 139 SRVPMGVEVPFELLGILYHQLQLFQVEDTNQDYDTGKDGI-AMVTFKVDFDRAENLEDAIKNNCRRDLVFY 208 (210)
Q Consensus 139 ~~~~~~l~~~Y~~~~~v~~~l~~~~~~i~~~~y~~~~~~~-v~~~~~v~~~~~~~~~~~L~~~t~G~~~~~ 208 (210)
+.-.+.|.++-+..+.+...|.+..+.|.+.+-.++ .. ..+...+|..+.-.|...|+.+|+|++.+.
T Consensus 2 Pi~~~ei~~p~~~~g~v~~~L~~rrg~i~~~~~~~~--~~~~~i~a~vP~~e~~~~~~~Lrs~T~G~~~~~ 70 (80)
T cd04098 2 PIYEVEITCPADAVSAVYEVLSRRRGHVIYDTPIPG--TPLYEVKAFIPVIESFGFETDLRVHTQGQAFCQ 70 (80)
T ss_pred CEEEEEEEECHHHHhHHHHHHhhCCcEEeeeeccCC--CCcEEEEEECCHHHHhChHHHHHhhCCCceEEE
Confidence 455678899999999999999999999998775432 11 678999999999999999999999999874
No 25
>TIGR00484 EF-G translation elongation factor EF-G. After peptide bond formation, this elongation factor of bacteria and organelles catalyzes the translocation of the tRNA-mRNA complex, with its attached nascent polypeptide chain, from the A-site to the P-site of the ribosome. Every completed bacterial genome has at least one copy, but some species have additional EF-G-like proteins. The closest homolog to canonical (e.g. E. coli) EF-G in the spirochetes clusters as if it is derived from mitochondrial forms, while a more distant second copy is also present. Synechocystis PCC6803 has a few proteins more closely related to EF-G than to any other characterized protein. Two of these resemble E. coli EF-G more closely than does the best match from the spirochetes; it may be that both function as authentic EF-G.
Probab=95.81 E-value=0.038 Score=55.00 Aligned_cols=114 Identities=11% Similarity=0.040 Sum_probs=88.6
Q ss_pred HhCCCceEEEEEEEEec-CeeecCcchhhhHHHHHHHHHHhCCeeEEEEEEEEEEEEecCchHHHHHHHhhcCCeEEeee
Q 028328 92 VSSGLDRIMVVVTRYFG-GIKLGTGGLVRAYGGVASECLRNAPTILVKSRVPMGVEVPFELLGILYHQLQLFQVEDTNQD 170 (210)
Q Consensus 92 ~~~~l~nv~vVV~RyfG-GikLG~ggL~rAY~~aa~~al~~a~~~~~~~~~~~~l~~~Y~~~~~v~~~l~~~~~~i~~~~ 170 (210)
-+..+.||-|.+.-.-= ..--..+..--|=..|.++|+.+|...-+++...+.|.++.+..+.+...|.+..+.|.+.+
T Consensus 553 ~g~pv~~v~v~l~~~~~~~~~s~~~~~~~a~~~a~~~a~~~a~~~LlEPi~~~eI~~p~~~~g~v~~~L~~rrg~i~~~~ 632 (689)
T TIGR00484 553 AGYPVVDIKATLFDGSYHDVDSSEMAFKLAASLAFKEAGKKANPVLLEPIMKVEVEVPEEYMGDVMGDLSSRRGIIEGME 632 (689)
T ss_pred CCCceeeEEEEEEEeecCCCCCCHHHHHHHHHHHHHHHHHhCCCeeecCcEEEEEEecHHHhHhHHHHHHhcCCeEeccc
Confidence 34567777777664210 01112222334666778888889998889999999999999999999999999999999877
Q ss_pred eCCCCCeeEEEEEEEecCCHHHHHHHHHHhcCCceEEe
Q 028328 171 YDTGKDGIAMVTFKVDFDRAENLEDAIKNNCRRDLVFY 208 (210)
Q Consensus 171 y~~~~~~~v~~~~~v~~~~~~~~~~~L~~~t~G~~~~~ 208 (210)
..++ ...++..+|..+.-.|...|+.+|+|++.+.
T Consensus 633 ~~~~---~~~I~a~vP~~e~~g~~~~Lrs~T~G~~~~~ 667 (689)
T TIGR00484 633 ARGN---VQKIKAEVPLSEMFGYATDLRSFTQGRGTYS 667 (689)
T ss_pred ccCC---cEEEEEEeCHHHHhChHHHHHHhcCCceEEE
Confidence 6432 5789999999999999999999999998874
No 26
>PTZ00416 elongation factor 2; Provisional
Probab=95.79 E-value=0.041 Score=56.22 Aligned_cols=116 Identities=12% Similarity=0.165 Sum_probs=92.8
Q ss_pred HhCCCceEEEEEEE--Eec-CeeecCcchhhhHHHHHHHHHHhCCeeEEEEEEEEEEEEecCchHHHHHHHhhcCCeEEe
Q 028328 92 VSSGLDRIMVVVTR--YFG-GIKLGTGGLVRAYGGVASECLRNAPTILVKSRVPMGVEVPFELLGILYHQLQLFQVEDTN 168 (210)
Q Consensus 92 ~~~~l~nv~vVV~R--yfG-GikLG~ggL~rAY~~aa~~al~~a~~~~~~~~~~~~l~~~Y~~~~~v~~~l~~~~~~i~~ 168 (210)
-+.-+.||.|.+.. |-. -+.-+.|-+.-|=..|.++|+.+|+..-+++.-.+.|.++.+..+.+...|.+..+.|++
T Consensus 671 ~g~pv~dv~v~l~d~~~h~~~~~~~~~~f~~a~~~a~~~a~~~a~p~LlEPi~~veI~~p~~~lg~V~~dL~~RRG~i~~ 750 (836)
T PTZ00416 671 CDENMRGIRFNILDVTLHADAIHRGAGQIIPTARRVFYACELTASPRLLEPMFLVDITAPEDAMGGIYSVLNRRRGVVIG 750 (836)
T ss_pred cCCcccceEEEEEEeeccccccccchHHHHHHHHHHHHHHHhhCCCEEEeeeEEEEEEEcHHHHhHHHHHHHhcCCCccC
Confidence 34578898888873 211 022244556668888899999999999999999999999999999999999999999987
Q ss_pred eeeCCCCCeeEEEEEEEecCCHHHHHHHHHHhcCCceEEe
Q 028328 169 QDYDTGKDGIAMVTFKVDFDRAENLEDAIKNNCRRDLVFY 208 (210)
Q Consensus 169 ~~y~~~~~~~v~~~~~v~~~~~~~~~~~L~~~t~G~~~~~ 208 (210)
.+-.++ .....++..+|..+.-.|...|+.+|+|++.+.
T Consensus 751 ~~~~~~-t~~~~I~a~vP~~e~~gy~~~LRs~T~G~g~~~ 789 (836)
T PTZ00416 751 EEQRPG-TPLSNIKAYLPVAESFGFTAALRAATSGQAFPQ 789 (836)
T ss_pred cccCCC-CCcEEEEEEEehHHhcCCCHHHHhhCcCCceEE
Confidence 765432 001678999999999999999999999998874
No 27
>TIGR00291 RNA_SBDS rRNA metabolism protein, SBDS family. This protein family, possibly universal in both archaea and eukaryotes, appears to be involved in (ribosomal) RNA metabolism. Mutations in the human ortholog are associated with Shwachman-Bodian-Diamond syndrome.
Probab=92.96 E-value=0.57 Score=41.55 Aligned_cols=83 Identities=12% Similarity=0.182 Sum_probs=61.5
Q ss_pred HHHHHHHHHhCC-eeE-EEEEEEEEEEEecCchHHHHHHHhhcCCeEEeeeeCCCCCeeEEEEEEEecCCHHHHHHHHHH
Q 028328 122 GGVASECLRNAP-TIL-VKSRVPMGVEVPFELLGILYHQLQLFQVEDTNQDYDTGKDGIAMVTFKVDFDRAENLEDAIKN 199 (210)
Q Consensus 122 ~~aa~~al~~a~-~~~-~~~~~~~~l~~~Y~~~~~v~~~l~~~~~~i~~~~y~~~~~~~v~~~~~v~~~~~~~~~~~L~~ 199 (210)
..-|.+++.... +.. ....-.+.+++|.++.+.+...|.+++- +...+|.+ |+...+.+.+|+...+.|.+.|.+
T Consensus 143 k~Qa~~vik~L~~iiPI~ra~m~i~v~ip~~~~~~~~~~l~~~~~-i~~eew~~--dgs~~~v~~I~pg~~~~~~~~l~~ 219 (231)
T TIGR00291 143 EEQVLEIVKALKQIIPIKFEKMKVAIKIPPERAGEAIEAISNFGA-VTPEEWQE--DGSWICVGEIPSGNYRDLMTLLDK 219 (231)
T ss_pred HHHHHHHHHHHhhhCCeeEeeEEEEEEeCHHHHHHHHHHHHHhcc-cchhhccC--CCcEEEEEEECCccHHHHHHHHHh
Confidence 333444444433 221 2344567788888889999999999876 67788875 346777889999999999999999
Q ss_pred hcCCceEE
Q 028328 200 NCRRDLVF 207 (210)
Q Consensus 200 ~t~G~~~~ 207 (210)
.|.|.+..
T Consensus 220 ~tkG~~~~ 227 (231)
T TIGR00291 220 KTKGNVLT 227 (231)
T ss_pred hcCCeeEE
Confidence 99998764
No 28
>PRK13760 putative RNA-associated protein; Provisional
Probab=92.60 E-value=0.54 Score=41.72 Aligned_cols=83 Identities=14% Similarity=0.276 Sum_probs=61.7
Q ss_pred HHHHHHHHHhCC-ee-EEEEEEEEEEEEecCchHHHHHHHhhcCCeEEeeeeCCCCCeeEEEEEEEecCCHHHHHHHHHH
Q 028328 122 GGVASECLRNAP-TI-LVKSRVPMGVEVPFELLGILYHQLQLFQVEDTNQDYDTGKDGIAMVTFKVDFDRAENLEDAIKN 199 (210)
Q Consensus 122 ~~aa~~al~~a~-~~-~~~~~~~~~l~~~Y~~~~~v~~~l~~~~~~i~~~~y~~~~~~~v~~~~~v~~~~~~~~~~~L~~ 199 (210)
..-|.+++.+.. +. -......+.+++|....+.+...|.+++ .+..++|.+ ||...+.+.+|+...+.|.+.|.+
T Consensus 143 k~Qa~~vik~L~~~iPi~~~~~~~~v~iP~~~~~~~~~~l~~~~-~i~~eew~~--dgs~~~v~~Ip~G~~~~~~~~~~~ 219 (231)
T PRK13760 143 EEQVKDIVKALRPIIPIKFEKARIAVKIPPEYAGKAYGELRKFG-EIKKEEWQS--DGSWIAVLEIPAGLQNEFYDKLNK 219 (231)
T ss_pred HHHHHHHHHHHHHhCCcceeeEEEEEEECHHHHHHHHHHHHhhc-ccchhhccC--CCcEEEEEEECCccHHHHHHHHHH
Confidence 333444444433 22 2335566788889888999999999965 557778875 356788889999999999999999
Q ss_pred hcCCceEE
Q 028328 200 NCRRDLVF 207 (210)
Q Consensus 200 ~t~G~~~~ 207 (210)
+|.|...+
T Consensus 220 ~tkG~~~~ 227 (231)
T PRK13760 220 LTKGEAET 227 (231)
T ss_pred hcCCcEEE
Confidence 99997764
No 29
>KOG0465 consensus Mitochondrial elongation factor [Translation, ribosomal structure and biogenesis]
Probab=92.43 E-value=0.52 Score=47.41 Aligned_cols=89 Identities=15% Similarity=0.203 Sum_probs=79.6
Q ss_pred hhhhHHHHHHHHHHhCCeeEEEEEEEEEEEEecCchHHHHHHHhhcCCeEEeeeeCCCCCeeEEEEEEEecCCHHHHHHH
Q 028328 117 LVRAYGGVASECLRNAPTILVKSRVPMGVEVPFELLGILYHQLQLFQVEDTNQDYDTGKDGIAMVTFKVDFDRAENLEDA 196 (210)
Q Consensus 117 L~rAY~~aa~~al~~a~~~~~~~~~~~~l~~~Y~~~~~v~~~l~~~~~~i~~~~y~~~~~~~v~~~~~v~~~~~~~~~~~ 196 (210)
.++|=.+|.++|+..|+..-+++.-.+.++.|=+++|.|..-|.+...+|.+.+=.++ .-++...||.++.=.....
T Consensus 612 f~~at~~a~r~a~~~a~p~iLEPIM~Vevt~P~EfqG~Vi~~L~kR~a~I~~~d~~~~---~~ti~A~VPL~~mfgYss~ 688 (721)
T KOG0465|consen 612 FMKATRNAFREAFKRAPPRILEPIMNVEVTTPEEFQGTVIGDLNKRKAQITGIDSSED---YKTIKAEVPLNEMFGYSSE 688 (721)
T ss_pred HHHHHHHHHHHHHHhCCcceeecceeeEEecchhhhhhhhhhhhhcccEEecccCCCc---eEEEEecccHHHHhhhhhh
Confidence 5678888889999999998899999999999999999999999999999999877663 4688888999998899999
Q ss_pred HHHhcCCceEEe
Q 028328 197 IKNNCRRDLVFY 208 (210)
Q Consensus 197 L~~~t~G~~~~~ 208 (210)
|+.+|.|+..|+
T Consensus 689 LRslTqGkgeft 700 (721)
T KOG0465|consen 689 LRSLTQGKGEFT 700 (721)
T ss_pred hhhhhcCcceEE
Confidence 999999999886
No 30
>PRK05433 GTP-binding protein LepA; Provisional
Probab=92.03 E-value=0.53 Score=46.60 Aligned_cols=71 Identities=15% Similarity=0.143 Sum_probs=63.9
Q ss_pred eEEEEEEEEEEEEecCchHHHHHHHhhcCCeEEeeeeCCCCCeeEEEEEEEecCCH-HHHHHHHHHhcCCceEEe
Q 028328 135 ILVKSRVPMGVEVPFELLGILYHQLQLFQVEDTNQDYDTGKDGIAMVTFKVDFDRA-ENLEDAIKNNCRRDLVFY 208 (210)
Q Consensus 135 ~~~~~~~~~~l~~~Y~~~~~v~~~l~~~~~~i~~~~y~~~~~~~v~~~~~v~~~~~-~~~~~~L~~~t~G~~~~~ 208 (210)
+-++|...+++.+|=++.+.+...+.+..+++.+.++.++ .+.++..+|..++ ..|...|+.+|+|.+.|.
T Consensus 401 ~llEP~~~~~i~~P~~~~G~vm~~~~~rRG~~~~~~~~~~---~~~i~~~~Pl~e~~~~~~~~Lks~T~G~gs~~ 472 (600)
T PRK05433 401 EIEEPIVKATIIVPQEYVGAVMELCQEKRGVQKDMEYLGN---RVELTYELPLAEIVFDFFDRLKSVSRGYASLD 472 (600)
T ss_pred eEECCEEEEEEEecHHHHHHHHHHHHHcCCEEeCcEecCC---eEEEEEEechHHhhhhHHHHhHhhcCCEEEEE
Confidence 4567888899999999999999999999999999999653 5899999999998 999999999999998875
No 31
>TIGR01393 lepA GTP-binding protein LepA. LepA (GUF1 in Saccaromyces) is a GTP-binding membrane protein related to EF-G and EF-Tu. Two types of phylogenetic tree, rooted by other GTP-binding proteins, suggest that eukaryotic homologs (including GUF1 of yeast) originated within the bacterial LepA family. The function is unknown.
Probab=90.93 E-value=0.83 Score=45.19 Aligned_cols=71 Identities=18% Similarity=0.171 Sum_probs=63.0
Q ss_pred EEEEEEEEEEEEecCchHHHHHHHhhcCCeEEeeeeCCCCCeeEEEEEEEecCCH-HHHHHHHHHhcCCceEEe
Q 028328 136 LVKSRVPMGVEVPFELLGILYHQLQLFQVEDTNQDYDTGKDGIAMVTFKVDFDRA-ENLEDAIKNNCRRDLVFY 208 (210)
Q Consensus 136 ~~~~~~~~~l~~~Y~~~~~v~~~l~~~~~~i~~~~y~~~~~~~v~~~~~v~~~~~-~~~~~~L~~~t~G~~~~~ 208 (210)
-++|...+++.+|=++.+.+...+.+..+++.+.+|.++ +.+.++..+|..+. ..|...|+.+|+|.+.|.
T Consensus 398 llEP~~~~~i~~P~~~~G~vm~~~~~rRG~~~~~~~~~~--~~~~i~~~~Plae~~~~~~~~Lks~T~G~gs~~ 469 (595)
T TIGR01393 398 VEEPYVKATIITPTEYLGPIMTLCQEKRGVQTNMEYLDP--NRVELIYEMPLAEIVYDFFDKLKSISRGYASFD 469 (595)
T ss_pred eeCCeEEEEEEccHHHHHHHHHHHHHcCCEEeCcEEcCC--CeEEEEEEeccchhhhchhHHhhhhcCCEEEEE
Confidence 467888899999999999999999999999999999531 25899999999996 999999999999998874
No 32
>COG0480 FusA Translation elongation factors (GTPases) [Translation, ribosomal structure and biogenesis]
Probab=88.52 E-value=1.7 Score=44.06 Aligned_cols=94 Identities=13% Similarity=0.159 Sum_probs=78.6
Q ss_pred cchhhhHHHHHHHHHHhCCeeEEEEEEEEEEEEecCchHHHHHHHhhcCCeEEeeeeCCCCCeeEEEEEEEecCCHHHHH
Q 028328 115 GGLVRAYGGVASECLRNAPTILVKSRVPMGVEVPFELLGILYHQLQLFQVEDTNQDYDTGKDGIAMVTFKVDFDRAENLE 194 (210)
Q Consensus 115 ggL~rAY~~aa~~al~~a~~~~~~~~~~~~l~~~Y~~~~~v~~~l~~~~~~i~~~~y~~~~~~~v~~~~~v~~~~~~~~~ 194 (210)
.-+..|=..|.++|+.+|.-+-+++.-.+.|+++-+..+.+...|.+...+|.+.+=... ..-..+...+|..+.-.|.
T Consensus 578 ~af~~a~~~a~~~a~~~a~P~lLEPi~~veI~~P~d~~G~V~~~l~~rRG~I~~~~~~~~-~~~~~i~A~vPl~Emfgya 656 (697)
T COG0480 578 MAFKIAASLAFKEAMLKAKPVLLEPIMKVEITTPEEYMGDVIGDLNSRRGQILGMEQRPG-GGLDVIKAEVPLAEMFGYA 656 (697)
T ss_pred HHHHHHHHHHHHHHHhhCCceEecceEEEEEEcchhhhchhHHhhhhcceEEeceeeccC-CceEEEEEEechHHhccch
Confidence 345667777778888888888899999999999999999999999999999987665521 0125788889999999999
Q ss_pred HHHHHhcCCceEEee
Q 028328 195 DAIKNNCRRDLVFYK 209 (210)
Q Consensus 195 ~~L~~~t~G~~~~~~ 209 (210)
..|+.+|+|++.+..
T Consensus 657 ~dLRs~T~Gra~~~m 671 (697)
T COG0480 657 TDLRSATQGRASFSM 671 (697)
T ss_pred hhhHhhcCCceeEEE
Confidence 999999999998864
No 33
>TIGR01394 TypA_BipA GTP-binding protein TypA/BipA. This bacterial (and Arabidopsis) protein, termed TypA or BipA, a GTP-binding protein, is phosphorylated on a tyrosine residue under some cellular conditions. Mutants show altered regulation of some pathways, but the precise function is unknown.
Probab=87.91 E-value=2.2 Score=42.26 Aligned_cols=120 Identities=13% Similarity=0.153 Sum_probs=89.4
Q ss_pred hHHHHHHHhCCCceEEEEEEEE--ecCeeecCcchhhhHHHHHHHHHHhCCe----------------eEEEEEEEEEEE
Q 028328 85 KPIHSAIVSSGLDRIMVVVTRY--FGGIKLGTGGLVRAYGGVASECLRNAPT----------------ILVKSRVPMGVE 146 (210)
Q Consensus 85 ~piL~vL~~~~l~nv~vVV~Ry--fGGikLG~ggL~rAY~~aa~~al~~a~~----------------~~~~~~~~~~l~ 146 (210)
+-|.+.|.+.-..|+.+-|.+= -++..|+.-|-. +- ....+-|+.=++ +.++|...+++.
T Consensus 325 ~~l~~~L~k~~~~d~sl~v~~~~~~~~~~v~g~Gel-HL-~il~e~lrreg~e~~~~~P~V~yrei~g~llEPi~~~~i~ 402 (594)
T TIGR01394 325 RHIRDRLMRELETNVALRVEDTESADKFEVSGRGEL-HL-SILIETMRREGFELQVGRPQVIYKEIDGKKLEPIEELTID 402 (594)
T ss_pred HHHHHHHHHhhccCCeEEEEEecCCCeEEEEEECHH-HH-HHHHHHHhccCceEEEeCCEEEEEeCCCeEECCEEEEEEE
Confidence 4588999999999988877442 255666554422 22 222333332121 235567778999
Q ss_pred EecCchHHHHHHHhhcCCeEEeeeeCCCCCeeEEEEEEEecCCHHHHHHHHHHhcCCceEEe
Q 028328 147 VPFELLGILYHQLQLFQVEDTNQDYDTGKDGIAMVTFKVDFDRAENLEDAIKNNCRRDLVFY 208 (210)
Q Consensus 147 ~~Y~~~~~v~~~l~~~~~~i~~~~y~~~~~~~v~~~~~v~~~~~~~~~~~L~~~t~G~~~~~ 208 (210)
+|=++.+.+...|.+..+++.+.+..+ ++.+.+++.+|...+-.|...|..+|+|+..|.
T Consensus 403 vp~e~~G~v~~~l~~RrG~~~~~~~~~--~~~~~i~~~vP~~~l~~y~~~l~s~T~G~g~~~ 462 (594)
T TIGR01394 403 VPEEHVGAVIEKLGKRKGEMVDMEPSG--NGRTRLEFKIPSRGLIGFRTEFLTDTRGTGIMN 462 (594)
T ss_pred echHHHHHHHHHHHHhCCEEeccEECC--CCEEEEEEEeChHHhhhHHHHHHhhcCCeEEEE
Confidence 999999999999999999999888743 236899999999999999999999999998875
No 34
>PF09377 SBDS_C: SBDS protein C-terminal domain; InterPro: IPR018978 This entry represents the C-terminal domain of proteins that are highly conserved in species ranging from archaea to vertebrates and plants []. The family contains several Shwachman-Bodian-Diamond syndrome (SBDS, OMIM 260400) proteins from both mouse and humans. Shwachman-Diamond syndrome is an autosomal recessive disorder with clinical features that include pancreatic exocrine insufficiency, haematological dysfunction and skeletal abnormalities. It is characterised by bone marrow failure and leukemia predisposition. Members of this family play a role in RNA metabolism [, ]. In yeast Sdo1 is involved in the biogenesis of the 60S ribosomal subunit and translational activation of ribosomes. Together with the EF-2-like GTPase RIA1 (EfI1), it triggers the GTP-dependent release of TIF6 from 60S pre-ribosomes in the cytoplasm, thereby activating ribosomes for translation competence by allowing 80S ribosome assembly and facilitating TIF6 recycling to the nucleus, where it is required for 60S rRNA processing and nuclear export. This data links defective late 60S subunit maturation to an inherited bone marrow failure syndrome associated with leukemia predisposition []. A number of uncharacterised hydrophilic proteins of about 30 kDa share regions of similarity. These include, Mouse protein 22A3. Saccharomyces cerevisiae chromosome XII hypothetical protein YLR022c. Caenorhabditis elegans hypothetical protein W06E11.4. Methanocaldococcus jannaschii (Methanococcus jannaschii) hypothetical protein MJ0592. ; GO: 0042254 ribosome biogenesis; PDB: 2KDO_A 2L9N_A 2WBM_B 1P9Q_C 1T95_A.
Probab=86.21 E-value=11 Score=29.90 Aligned_cols=59 Identities=12% Similarity=0.243 Sum_probs=49.0
Q ss_pred EEEEEEEEEEecCchHHHHHHHhhcCCeEEeeeeCCCCCeeEEEEEEEecCCHHHHHHHHHH
Q 028328 138 KSRVPMGVEVPFELLGILYHQLQLFQVEDTNQDYDTGKDGIAMVTFKVDFDRAENLEDAIKN 199 (210)
Q Consensus 138 ~~~~~~~l~~~Y~~~~~v~~~l~~~~~~i~~~~y~~~~~~~v~~~~~v~~~~~~~~~~~L~~ 199 (210)
...-.++++++-...+.+...+.++...+.++++.++ ...+.+.+++.....|.+.+.+
T Consensus 66 ra~m~l~v~ip~~~~~~~~~~l~~~~~~i~~~~~~~~---~~~~~~~i~pg~~r~l~~~v~~ 124 (125)
T PF09377_consen 66 RAKMRLRVTIPSKYAKKVKDKLLKLGAKIEEEEQNDG---SWEMVFLIDPGLYRELDELVNK 124 (125)
T ss_dssp EEEEEEEEEEBCCCHHHHHHHHHHHSEEEEEEEETTS---CEEEEEEEEGGGHHHHHHHHHH
T ss_pred eeeEEEEEEeCHHHHHHHHHHHHHhhcEeeecccCCC---eEEEEEEECCcchHHHHHHHcc
Confidence 3456778899999999999888888887767777653 6899999999999999998875
No 35
>PRK10218 GTP-binding protein; Provisional
Probab=84.21 E-value=3.9 Score=40.77 Aligned_cols=129 Identities=11% Similarity=0.102 Sum_probs=93.7
Q ss_pred CCCCCCCCCCChHHHHHHHhCCCceEEEEEEEE--ecCeeecCcchhhhHHHHHHHHHHhCCee----------------
Q 028328 74 NDDGEPSGTAGKPIHSAIVSSGLDRIMVVVTRY--FGGIKLGTGGLVRAYGGVASECLRNAPTI---------------- 135 (210)
Q Consensus 74 sDDGEPsGtAG~piL~vL~~~~l~nv~vVV~Ry--fGGikLG~ggL~rAY~~aa~~al~~a~~~---------------- 135 (210)
.|+|.- ...+.+++.|.+.-..|+.+-|.+= -++..|+.-|.. +- ....+-|+.=++.
T Consensus 320 g~e~k~--~t~~~~~~rL~~~~~~D~sl~v~~~~~~~~~~v~g~Gel-HL-~il~e~lrreg~e~~~~~P~V~yret~g~ 395 (607)
T PRK10218 320 GKEGKF--VTSRQILDRLNKELVHNVALRVEETEDADAFRVSGRGEL-HL-SVLIENMRREGFELAVSRPKVIFREIDGR 395 (607)
T ss_pred cchhhh--hhHHHHHHHHHHhhCCCCeEEEEEcCCCCeEEEEEEcHH-HH-HHHHHHHHhCCceEEEeCCEEEEEEECCE
Confidence 355543 3346688999998889988888551 256666655532 22 2333333321211
Q ss_pred EEEEEEEEEEEEecCchHHHHHHHhhcCCeEEeeeeCCCCCeeEEEEEEEecCCHHHHHHHHHHhcCCceEEe
Q 028328 136 LVKSRVPMGVEVPFELLGILYHQLQLFQVEDTNQDYDTGKDGIAMVTFKVDFDRAENLEDAIKNNCRRDLVFY 208 (210)
Q Consensus 136 ~~~~~~~~~l~~~Y~~~~~v~~~l~~~~~~i~~~~y~~~~~~~v~~~~~v~~~~~~~~~~~L~~~t~G~~~~~ 208 (210)
..+|...+++.+|=+..+.+...|.+..+++.+.+..+ ++.+.+++.+|...+-.|...|...|+|+..|.
T Consensus 396 klEPi~~v~i~vP~e~~G~V~~~l~~RrG~~~~m~~~~--~~~~~l~~~vP~~~l~~y~~~l~s~T~G~g~~~ 466 (607)
T PRK10218 396 KQEPYENVTLDVEEQHQGSVMQALGERKGDLKNMNPDG--KGRVRLDYVIPSRGLIGFRSEFMTMTSGTGLLY 466 (607)
T ss_pred EeCCeEEEEEEechhhHHHHHHHHHhcCCEEeccEECC--CCEEEEEEEcCHHHHhhHHHHhhhhCCCeEEEE
Confidence 24566778999999999999999999999999888642 236899999999999999999999999998875
No 36
>COG1500 Predicted exosome subunit [Translation, ribosomal structure and biogenesis]
Probab=81.90 E-value=4.6 Score=36.00 Aligned_cols=103 Identities=16% Similarity=0.261 Sum_probs=77.8
Q ss_pred hHHHHHHHhCCCceEEEEEEEEecCeeecCcchhhhHHHHHHHHHHhCCeeE--EEEEEEEEEEEecCchHHHHHHHhhc
Q 028328 85 KPIHSAIVSSGLDRIMVVVTRYFGGIKLGTGGLVRAYGGVASECLRNAPTIL--VKSRVPMGVEVPFELLGILYHQLQLF 162 (210)
Q Consensus 85 ~piL~vL~~~~l~nv~vVV~RyfGGikLG~ggL~rAY~~aa~~al~~a~~~~--~~~~~~~~l~~~Y~~~~~v~~~l~~~ 162 (210)
..|.++|+..++... .++-=..-|+++|++..-+- +.....+.+.++-+..+....++.++
T Consensus 123 ~rIe~Ameeakv~id-----------------~~K~ae~Qv~evlK~l~~i~pIrfera~vaVkip~e~~~k~~~~l~k~ 185 (234)
T COG1500 123 ARIEKAMEEAKVHID-----------------PFKSAEEQVQEVLKALRPIIPIRFERAKVAVKIPVEYAGKAYGLLRKF 185 (234)
T ss_pred HHHHHHHHhcCcccC-----------------CCCCHHHHHHHHHHHHhhcCCceeeeeeEEEEecccccchHHHHHHHh
Confidence 567888888777653 23444556677777655332 34455688899999999999999998
Q ss_pred CCeEEeeeeCCCCCeeEEEEEEEecCCHHHHHHHHHHhcCCceEE
Q 028328 163 QVEDTNQDYDTGKDGIAMVTFKVDFDRAENLEDAIKNNCRRDLVF 207 (210)
Q Consensus 163 ~~~i~~~~y~~~~~~~v~~~~~v~~~~~~~~~~~L~~~t~G~~~~ 207 (210)
+ .+.+.++.. |+.-...+.+|....+.|.+.|.+++.|.++.
T Consensus 186 g-~i~~eew~~--dgsw~~~~~ipaG~q~e~~~~l~~~~kG~~q~ 227 (234)
T COG1500 186 G-EIKKEEWQE--DGSWICVLEIPAGNQDEFYELLNELTKGEVQT 227 (234)
T ss_pred h-hhhhhhccc--CCceEEEEeeCcchHHHHHHHHHHhcCCccee
Confidence 6 567778875 35667888899999999999999999997654
No 37
>KOG0467 consensus Translation elongation factor 2/ribosome biogenesis protein RIA1 and related proteins [Translation, ribosomal structure and biogenesis]
Probab=79.85 E-value=2.2 Score=43.99 Aligned_cols=90 Identities=16% Similarity=0.204 Sum_probs=72.5
Q ss_pred cchhhhHHHHHHHHHHhCCeeEEEEEEEEEEEEecCchHHHHHHHhhcCCeEEeeeeCCCCCeeEEEEEEEecCCHHHHH
Q 028328 115 GGLVRAYGGVASECLRNAPTILVKSRVPMGVEVPFELLGILYHQLQLFQVEDTNQDYDTGKDGIAMVTFKVDFDRAENLE 194 (210)
Q Consensus 115 ggL~rAY~~aa~~al~~a~~~~~~~~~~~~l~~~Y~~~~~v~~~l~~~~~~i~~~~y~~~~~~~v~~~~~v~~~~~~~~~ 194 (210)
|-|+-|-..+.++|......--+..+-.-.+.+.-+..|.++..|.+....|++.++.++ .+.-.++..+|.-+-=-|.
T Consensus 727 GQviTa~Kescr~Afl~~~pRl~~aMYsC~I~t~~e~LGkvYAVlskR~gkVLsEem~Eg-T~~F~V~aliPVvESFgFa 805 (887)
T KOG0467|consen 727 GQLITAVKDSCRAAFLCWSPRIMAAMYSCDIQTASEVLGKVYAVLSKRHGKVLSEEMKEG-TGFFIVTALIPVVESFGFA 805 (887)
T ss_pred ceeHHHHHHHHHHHHhcCCHHHhhhheeeeeeehHHHhhhHHhhhhhhcchhhhhhhhCC-CCcEEEEEEeeeeccccHH
Confidence 678888888888888877744344444445666777799999999999999999999884 5567788888988888899
Q ss_pred HHHHHhcCCce
Q 028328 195 DAIKNNCRRDL 205 (210)
Q Consensus 195 ~~L~~~t~G~~ 205 (210)
+.|+..|+|-+
T Consensus 806 deiRK~TSG~A 816 (887)
T KOG0467|consen 806 DEIRKGTSGAA 816 (887)
T ss_pred HHHhhcccccc
Confidence 99999999965
No 38
>PF10369 ALS_ss_C: Small subunit of acetolactate synthase; InterPro: IPR019455 This entry represents the C-terminal domain of the small subunit of acetolactate synthase (the N-terminal domain being an ACT domain). Acetolactate synthase is a tetrameric enzyme, composed of two large and two small subunits, which catalyses the first step in branched-chain amino acid biosynthesis. This reaction is sensitive to certain herbicides []. ; PDB: 2F1F_B 2FGC_A 2PC6_A.
Probab=79.30 E-value=6.1 Score=28.74 Aligned_cols=55 Identities=9% Similarity=0.102 Sum_probs=41.2
Q ss_pred EEEEEEEEecCchHHHHHHHhhcCCeEEeeeeCCCCCeeEEEEEEEecCCHHHHHHHHHH
Q 028328 140 RVPMGVEVPFELLGILYHQLQLFQVEDTNQDYDTGKDGIAMVTFKVDFDRAENLEDAIKN 199 (210)
Q Consensus 140 ~~~~~l~~~Y~~~~~v~~~l~~~~~~i~~~~y~~~~~~~v~~~~~v~~~~~~~~~~~L~~ 199 (210)
..-+.+.++-.....+.++++.|++.+++..=. .+++.+.-++++++.|.+.|..
T Consensus 4 l~LiKV~~~~~~r~ei~~l~~~f~a~ivd~~~~-----~~iie~tG~~~kid~fi~~l~~ 58 (75)
T PF10369_consen 4 LALIKVKATPENRSEILQLAEIFRARIVDVSPD-----SIIIELTGTPEKIDAFIKLLKP 58 (75)
T ss_dssp EEEEEEE-SCHHHHHHHHHHHHTT-EEEEEETT-----EEEEEEEE-HHHHHHHHHHSTG
T ss_pred EEEEEEECCccCHHHHHHHHHHhCCEEEEECCC-----EEEEEEcCCHHHHHHHHHHhhh
Confidence 344556666677888999999999999954433 5788888889999999999887
No 39
>PRK06382 threonine dehydratase; Provisional
Probab=72.35 E-value=26 Score=32.82 Aligned_cols=76 Identities=17% Similarity=0.181 Sum_probs=43.1
Q ss_pred hhHHHHHHHHHHhCCeeEEEEEEEEEEEEe--cCchHHHHHHHhhcCCeEEeeeeC----CCCCeeEEEEEEEec---CC
Q 028328 119 RAYGGVASECLRNAPTILVKSRVPMGVEVP--FELLGILYHQLQLFQVEDTNQDYD----TGKDGIAMVTFKVDF---DR 189 (210)
Q Consensus 119 rAY~~aa~~al~~a~~~~~~~~~~~~l~~~--Y~~~~~v~~~l~~~~~~i~~~~y~----~~~~~~v~~~~~v~~---~~ 189 (210)
+-++.....++...+. ...+.+.++ --.+..+..++.++++.|++..+. ...++...+.+.++. ++
T Consensus 314 ~~~~~~~~~~~~~~~~-----~~rl~v~v~D~pG~L~~l~~ii~~~~~nI~~v~~~~~~~~~~~~~~~v~i~vet~~~~~ 388 (406)
T PRK06382 314 LLMSKIIYKELENLGQ-----LVRIECNIPDRPGNLYRIANAIASNGGNIYHAEVDNLRKETPPGFQSVTFTVNVRGQDH 388 (406)
T ss_pred HHHHHHHHHHHHhcCC-----EEEEEEEcCCCCCHHHHHHHHHhcCCCcEEEEEEeeccccCCCCcEEEEEEEEeCCHHH
Confidence 3455555556666553 223444332 112455666777899998876664 323345566666665 44
Q ss_pred HHHHHHHHHH
Q 028328 190 AENLEDAIKN 199 (210)
Q Consensus 190 ~~~~~~~L~~ 199 (210)
.+.+.+.|++
T Consensus 389 ~~~v~~~L~~ 398 (406)
T PRK06382 389 LDRILNALRE 398 (406)
T ss_pred HHHHHHHHHH
Confidence 4466676665
No 40
>PRK08639 threonine dehydratase; Validated
Probab=64.83 E-value=73 Score=29.99 Aligned_cols=107 Identities=16% Similarity=0.207 Sum_probs=58.2
Q ss_pred CCCCCCChHHHHHHHhC-CC--ceEEEEEEEEecCeeecCcchhhhHHHHHHHHHHhCCeeEEEEEEEEEEEEecCchHH
Q 028328 78 EPSGTAGKPIHSAIVSS-GL--DRIMVVVTRYFGGIKLGTGGLVRAYGGVASECLRNAPTILVKSRVPMGVEVPFELLGI 154 (210)
Q Consensus 78 EPsGtAG~piL~vL~~~-~l--~nv~vVV~RyfGGikLG~ggL~rAY~~aa~~al~~a~~~~~~~~~~~~l~~~Y~~~~~ 154 (210)
||+ +|.++..+++.. .+ .++++|++ ||-. . ++.|......+|-..+. ...+++++| +.-+.
T Consensus 286 e~s--ga~~lAal~~~~~~~~~~~vv~v~s---Ggn~----d-~~~~~~~~~~~l~~~~r-----~~~~~v~ip-drPGa 349 (420)
T PRK08639 286 EPA--GALSIAALELYKDEIKGKTVVCVIS---GGNN----D-IERMPEIKERSLIYEGL-----KHYFIVNFP-QRPGA 349 (420)
T ss_pred cch--HHHHHHHHHhhhhhcCCCeEEEEeC---CCCC----C-HHHHHHHHHHHHHhcCC-----EEEEEEEeC-CCCCH
Confidence 564 444444444321 12 35666664 4332 2 46777777777776663 234444444 23444
Q ss_pred HHHHHh---hcCCeEEeeeeC---CCCCeeEEEEEEEec-CCHHHHHHHHHHh
Q 028328 155 LYHQLQ---LFQVEDTNQDYD---TGKDGIAMVTFKVDF-DRAENLEDAIKNN 200 (210)
Q Consensus 155 v~~~l~---~~~~~i~~~~y~---~~~~~~v~~~~~v~~-~~~~~~~~~L~~~ 200 (210)
+.++++ ..+..|.+-.|. ..+.+.|.+.++++. ++.+++.+.|.+.
T Consensus 350 L~~~l~~i~~~~~NI~~~~~~~~~~~~~~~v~v~iE~~~~~h~~~i~~~L~~~ 402 (420)
T PRK08639 350 LREFLDDVLGPNDDITRFEYLKKNNRETGPVLVGIELKDAEDYDGLIERMEAF 402 (420)
T ss_pred HHHHHHHHhcCCCcEEEEEEeecCCCCceEEEEEEEeCCHHHHHHHHHHHHHC
Confidence 555554 233466655553 222235777777774 5778888888774
No 41
>KOG0464 consensus Elongation factor G [Translation, ribosomal structure and biogenesis]
Probab=62.23 E-value=19 Score=35.52 Aligned_cols=97 Identities=13% Similarity=0.114 Sum_probs=67.3
Q ss_pred CeeecCcchhhhHHHHHHHHHHhCCeeEEEEEEEEEEEEecCc-hHHHHHHHhhcCCeEEeeeeCCCCCeeE-EEEEEEe
Q 028328 109 GIKLGTGGLVRAYGGVASECLRNAPTILVKSRVPMGVEVPFEL-LGILYHQLQLFQVEDTNQDYDTGKDGIA-MVTFKVD 186 (210)
Q Consensus 109 GikLG~ggL~rAY~~aa~~al~~a~~~~~~~~~~~~l~~~Y~~-~~~v~~~l~~~~~~i~~~~y~~~~~~~v-~~~~~v~ 186 (210)
|-|.-+.-+--+-..++++||.++..+-.++.-.+.+++.-++ ...+..-|.+....+.+.+-.++ .++ .+-..+|
T Consensus 629 ~gk~n~alisac~qkcvqealkkad~~l~eplm~lei~i~~dd~~qpiladl~qrr~~~e~~~ared--neirri~~~lp 706 (753)
T KOG0464|consen 629 GGKINPALISACAQKCVQEALKKADKQLLEPLMELEIEIANDDPLQPILADLAQRRAHFEEIDARED--NEIRRICAFLP 706 (753)
T ss_pred CCcCCHHHHHHHHHHHHHHHHhhhhHHHhhhhhheEEEEecCCCccHHHHHHHHhhccchhcccccc--cchheeeEeee
Confidence 4455566555667889999999999888888877777877643 44455555444444444444331 123 3556789
Q ss_pred cCCHHHHHHHHHHhcCCceEE
Q 028328 187 FDRAENLEDAIKNNCRRDLVF 207 (210)
Q Consensus 187 ~~~~~~~~~~L~~~t~G~~~~ 207 (210)
..+.+.+..-|+-+|+|-+.|
T Consensus 707 laei~~~s~~lrtltsg~a~~ 727 (753)
T KOG0464|consen 707 LAEIEGLSKTLRTLTSGFADF 727 (753)
T ss_pred HHHhhcHHHHHHHHhcccceE
Confidence 999999999999999998776
No 42
>TIGR01127 ilvA_1Cterm threonine dehydratase, medium form. A form of threonine dehydratase with two copies of the C-terminal domain Pfam:PF00585 is described by TIGR01124. This model describes a phylogenetically distinct form with a single copy of pfam00585. This form branches with the catabolic threonine dehydratase of E. coli; many members are designated as catabolic for this reason. However, the catabolic form lacks any pfam00585 domain. Many members of this model are found in species with other Ile biosynthetic enzymes.
Probab=59.39 E-value=86 Score=28.76 Aligned_cols=108 Identities=17% Similarity=0.277 Sum_probs=54.3
Q ss_pred CCCCCCCChHHHHHHHhCC-C--ceEEEEEEEEecCeeecCcchhhhHHHHHHHHHHhCCeeEEEEEEEEEEEEecCc--
Q 028328 77 GEPSGTAGKPIHSAIVSSG-L--DRIMVVVTRYFGGIKLGTGGLVRAYGGVASECLRNAPTILVKSRVPMGVEVPFEL-- 151 (210)
Q Consensus 77 GEPsGtAG~piL~vL~~~~-l--~nv~vVV~RyfGGikLG~ggL~rAY~~aa~~al~~a~~~~~~~~~~~~l~~~Y~~-- 151 (210)
.||+| +.++..+++..- . .+|++|++ ||- . . .+-++.....+|...+ ....+.+.++-.-
T Consensus 254 ~e~s~--a~~laa~~~~~~~~~~~~vv~i~s---GGn-~--d--~d~l~~vi~~gl~~~g-----r~~~l~v~l~D~pG~ 318 (380)
T TIGR01127 254 AEGAG--AAGVAALLEQKVDVKGKKIAVVLS---GGN-I--D--LNLLNKIIEKGLVKSG-----RKVRIETVLPDRPGA 318 (380)
T ss_pred echHH--HHHHHHHHhCccccCCCeEEEEeC---CCC-C--C--HHHHHHHHHHHHHhCC-----CEEEEEEEeCCCCCH
Confidence 57744 455655554221 1 35666664 332 1 1 2334444444444444 3334445544222
Q ss_pred hHHHHHHHhhcCCeEEeeeeC---CC-CCeeEEEEEEEec---CCHHHHHHHHHH
Q 028328 152 LGILYHQLQLFQVEDTNQDYD---TG-KDGIAMVTFKVDF---DRAENLEDAIKN 199 (210)
Q Consensus 152 ~~~v~~~l~~~~~~i~~~~y~---~~-~~~~v~~~~~v~~---~~~~~~~~~L~~ 199 (210)
+..+...+.+.+..|++-.|. .+ +.+.+.+.+.++. ++.+.+.+.|++
T Consensus 319 L~~v~~~i~~~~~NI~~i~~~r~~~~~~~~~~~v~v~vet~~~~~~~~i~~~L~~ 373 (380)
T TIGR01127 319 LYHLLESIAEARANIVKIDHDRLSKEIPPGFAMVEITLETRGKEHLDEILKILRD 373 (380)
T ss_pred HHHHHHHHhcCCCcEEEEEeeccccCCCCceEEEEEEEEeCCHHHHHHHHHHHHH
Confidence 444556666888888877664 11 2235566666655 444455665554
No 43
>PRK11895 ilvH acetolactate synthase 3 regulatory subunit; Reviewed
Probab=58.95 E-value=31 Score=28.83 Aligned_cols=56 Identities=11% Similarity=0.093 Sum_probs=44.5
Q ss_pred EEEEEEEEecCchHHHHHHHhhcCCeEEeeeeCCCCCeeEEEEEEEecCCHHHHHHHHHHh
Q 028328 140 RVPMGVEVPFELLGILYHQLQLFQVEDTNQDYDTGKDGIAMVTFKVDFDRAENLEDAIKNN 200 (210)
Q Consensus 140 ~~~~~l~~~Y~~~~~v~~~l~~~~~~i~~~~y~~~~~~~v~~~~~v~~~~~~~~~~~L~~~ 200 (210)
..-+.+.++-+....+..+.+.|++.+++..=. .+++.+.-.+++.++|.+.|+.+
T Consensus 86 l~LiKv~~~~~~r~~i~~i~~~f~a~ivdv~~~-----~~~iE~tG~~~ki~~~~~~l~~~ 141 (161)
T PRK11895 86 LALVKVRASGENRAEILRLADIFRAKIVDVTPE-----SLTIEVTGDSDKIDAFIDLLRPY 141 (161)
T ss_pred EEEEEEECCcccHHHHHHHHHHhCCEEEEecCC-----EEEEEEeCCHHHHHHHHHHhhhc
Confidence 444566666667789999999999999965433 47788888899999999999874
No 44
>KOG0462 consensus Elongation factor-type GTP-binding protein [Translation, ribosomal structure and biogenesis]
Probab=57.74 E-value=22 Score=35.78 Aligned_cols=69 Identities=16% Similarity=0.215 Sum_probs=58.2
Q ss_pred EEEEEEEEEEEecCchHHHHHHHhhcCCeEEeeeeCCCCCeeEEEEEEEecCCHH-HHHHHHHHhcCCceEE
Q 028328 137 VKSRVPMGVEVPFELLGILYHQLQLFQVEDTNQDYDTGKDGIAMVTFKVDFDRAE-NLEDAIKNNCRRDLVF 207 (210)
Q Consensus 137 ~~~~~~~~l~~~Y~~~~~v~~~l~~~~~~i~~~~y~~~~~~~v~~~~~v~~~~~~-~~~~~L~~~t~G~~~~ 207 (210)
+++....++.+|=++.|.+..++.+..++..+-.|-+. -.+.+...+|..++- .|...|+..|+|-+.|
T Consensus 455 lEP~v~~tii~P~Ey~G~Vi~Lc~~rRgeq~dm~~i~~--nr~~lky~lPl~elv~df~~~lks~tsGyAs~ 524 (650)
T KOG0462|consen 455 LEPYVEATIITPDEYVGAVIELCSERRGEQKDMTYIDG--NRVMLKYQLPLRELVGDFFDRLKSLTSGYASF 524 (650)
T ss_pred cCceEEEEEECcHHHHHHHHHHHHHhhhheecceeccC--CeEEEEEecChHHHHHHHHHHHhccccceeEE
Confidence 56778889999999999999999999999898888532 168899999976554 5999999999998765
No 45
>PF14257 DUF4349: Domain of unknown function (DUF4349)
Probab=56.30 E-value=75 Score=27.72 Aligned_cols=59 Identities=8% Similarity=0.110 Sum_probs=42.5
Q ss_pred EEEEEEecCch----HHHHHHHhhcCCeEEeeeeC----CCCCeeEEEEEEEecCCHHHHHHHHHHh
Q 028328 142 PMGVEVPFELL----GILYHQLQLFQVEDTNQDYD----TGKDGIAMVTFKVDFDRAENLEDAIKNN 200 (210)
Q Consensus 142 ~~~l~~~Y~~~----~~v~~~l~~~~~~i~~~~y~----~~~~~~v~~~~~v~~~~~~~~~~~L~~~ 200 (210)
...+++.-.++ ..+..++.++++.|.+.+.. ++......+++.||.+..+.|.+.|.++
T Consensus 51 ~~~l~lev~d~~~a~~~i~~~~~~~gG~i~~~~~~~~~~~~~~~~~~ltiRVP~~~~~~~l~~l~~~ 117 (262)
T PF14257_consen 51 TADLSLEVKDVEKAVKKIENLVESYGGYIESSSSSSSGGSDDERSASLTIRVPADKFDSFLDELSEL 117 (262)
T ss_pred EEEEEEEECCHHHHHHHHHHHHHHcCCEEEEEeeecccCCCCcceEEEEEEECHHHHHHHHHHHhcc
Confidence 33444444554 45777778899998888774 2222357999999999999999999854
No 46
>TIGR00119 acolac_sm acetolactate synthase, small subunit. acetohydroxyacid synthase is a synonym.
Probab=55.60 E-value=40 Score=28.07 Aligned_cols=56 Identities=13% Similarity=0.072 Sum_probs=43.9
Q ss_pred EEEEEEEEecCchHHHHHHHhhcCCeEEeeeeCCCCCeeEEEEEEEecCCHHHHHHHHHHh
Q 028328 140 RVPMGVEVPFELLGILYHQLQLFQVEDTNQDYDTGKDGIAMVTFKVDFDRAENLEDAIKNN 200 (210)
Q Consensus 140 ~~~~~l~~~Y~~~~~v~~~l~~~~~~i~~~~y~~~~~~~v~~~~~v~~~~~~~~~~~L~~~ 200 (210)
..-+.+.++-.....+..+++.|++.++|. +.+ .+++.+.-.+++.++|.+.|+.+
T Consensus 85 l~LiKv~~~~~~r~~i~~i~~~f~a~ivdv--~~~---~~~ie~tG~~~ki~~~~~~l~~~ 140 (157)
T TIGR00119 85 LCLVKVSAPGEGRDEIIRLTNIFRGRIVDV--SPD---SYTVEVTGDSDKIDAFLELLRPF 140 (157)
T ss_pred EEEEEEECCccCHHHHHHHHHHhCCEEEEe--cCC---EEEEEEcCCHHHHHHHHHHhhhc
Confidence 334566666667788999999999999965 432 46777778899999999999885
No 47
>CHL00100 ilvH acetohydroxyacid synthase small subunit
Probab=53.39 E-value=47 Score=28.18 Aligned_cols=57 Identities=9% Similarity=0.099 Sum_probs=44.4
Q ss_pred EEEEEEEEEecCchHHHHHHHhhcCCeEEeeeeCCCCCeeEEEEEEEecCCHHHHHHHHHHh
Q 028328 139 SRVPMGVEVPFELLGILYHQLQLFQVEDTNQDYDTGKDGIAMVTFKVDFDRAENLEDAIKNN 200 (210)
Q Consensus 139 ~~~~~~l~~~Y~~~~~v~~~l~~~~~~i~~~~y~~~~~~~v~~~~~v~~~~~~~~~~~L~~~ 200 (210)
+..-+.+.++-..-..+..+.+.|++.|++..=. .+++.+.-.++++++|.+.|+.+
T Consensus 85 El~LiKv~~~~~~r~ei~~~~~~f~a~ivdv~~~-----~~~ie~tG~~~ki~a~~~~l~~~ 141 (174)
T CHL00100 85 ELMLIKINVNSQTRPEILEIAQIFRAKVVDLSEE-----SLILEVTGDPGKIVAIEQLLEKF 141 (174)
T ss_pred EEEEEEEecCCcCHHHHHHHHHHhCCEEEEecCC-----EEEEEEcCCHHHHHHHHHHhhhc
Confidence 3344566666667788999999999999955443 47777888899999999999875
No 48
>TIGR02079 THD1 threonine dehydratase. This model represents threonine dehydratase, the first step in the pathway converting threonine into isoleucine. At least two other clades of biosynthetic threonine dehydratases have been characterized by models TIGR01124 and TIGR01127. Those sequences described by this model are exclusively found in species containg the rest of the isoleucine pathway and which are generally lacking in members of the those other two clades of threonine dehydratases. Members of this clade are also often gene clustered with other elements of the isoleucine pathway.
Probab=49.62 E-value=2.3e+02 Score=26.66 Aligned_cols=77 Identities=14% Similarity=0.121 Sum_probs=43.7
Q ss_pred hhhHHHHHHHHHHhCCeeEEEEEEEEEEEEecCchHHHHHHHh---hcCCeEEeeeeC-C--CCCeeEEEEEEEec-CCH
Q 028328 118 VRAYGGVASECLRNAPTILVKSRVPMGVEVPFELLGILYHQLQ---LFQVEDTNQDYD-T--GKDGIAMVTFKVDF-DRA 190 (210)
Q Consensus 118 ~rAY~~aa~~al~~a~~~~~~~~~~~~l~~~Y~~~~~v~~~l~---~~~~~i~~~~y~-~--~~~~~v~~~~~v~~-~~~ 190 (210)
++.|......+|-..+. ...+++++|- .-+.+.++++ ..+..|.+-.|. . .+...|.+.++++. ++.
T Consensus 308 ~~~~~~~~~~~l~~~~r-----~~~~~v~ipd-rPGaL~~~l~~i~~~~~NI~~~~y~~~~~~~~~~v~v~iE~~~~~h~ 381 (409)
T TIGR02079 308 IERTEEIRERSLLYEGL-----KHYFIVRFPQ-RPGALREFLNDVLGPNDDITRFEYTKKSNRETGPALIGIELNDKEDF 381 (409)
T ss_pred HHHHHHHHHHHHHhcCC-----EEEEEEEeCC-CCCHHHHHHHHHhcCCCcEEEEEeeecCCCCeEEEEEEEEeCCHHHH
Confidence 45667777777766663 2344555542 2344444444 344577776764 1 11234666666664 677
Q ss_pred HHHHHHHHHh
Q 028328 191 ENLEDAIKNN 200 (210)
Q Consensus 191 ~~~~~~L~~~ 200 (210)
+++.+.|++.
T Consensus 382 ~~i~~~L~~~ 391 (409)
T TIGR02079 382 AGLLERMAAA 391 (409)
T ss_pred HHHHHHHHHC
Confidence 7788877764
No 49
>PRK08198 threonine dehydratase; Provisional
Probab=47.07 E-value=2.2e+02 Score=26.38 Aligned_cols=110 Identities=18% Similarity=0.165 Sum_probs=55.1
Q ss_pred CCCCCCCChHHHHHHHh-CCCceEEEEEEEEecCeeecCcchhhhHHHHHHHHHHhCCeeEEEEEEEEEEEEecC--chH
Q 028328 77 GEPSGTAGKPIHSAIVS-SGLDRIMVVVTRYFGGIKLGTGGLVRAYGGVASECLRNAPTILVKSRVPMGVEVPFE--LLG 153 (210)
Q Consensus 77 GEPsGtAG~piL~vL~~-~~l~nv~vVV~RyfGGikLG~ggL~rAY~~aa~~al~~a~~~~~~~~~~~~l~~~Y~--~~~ 153 (210)
.||+|.++-.-+..+.. ..=.++++|++ ||.. + .+.+....+-+|...+ ....+.++++-. .+.
T Consensus 276 ~e~sga~~lAal~~~~~~~~~~~vv~vl~---ggn~----~-~~~l~~ii~~gl~~~g-----r~~~l~v~l~D~PG~L~ 342 (404)
T PRK08198 276 VEGAGAVSVAALLSGKLDVKGKKVVAVLS---GGNI----D-VLLLSRVIERGLVAAG-----RYLKLRVRLPDRPGQLA 342 (404)
T ss_pred EehHHHHHHHHHHhchhhcCCCeEEEEEC---CCCC----C-HHHHHHHHHhhhhhcC-----CEEEEEEEeCCCCCHHH
Confidence 67855444333322221 11246777776 3332 2 2344444444544443 333445555322 255
Q ss_pred HHHHHHhhcCCeEEeeeeCC----CCCeeEEEEEEEecCC---HHHHHHHHHH
Q 028328 154 ILYHQLQLFQVEDTNQDYDT----GKDGIAMVTFKVDFDR---AENLEDAIKN 199 (210)
Q Consensus 154 ~v~~~l~~~~~~i~~~~y~~----~~~~~v~~~~~v~~~~---~~~~~~~L~~ 199 (210)
.+...+.+.++.|++-.+.. .+.+.+.+.+.++... .+.+.+.|++
T Consensus 343 ~ll~~i~~~g~NI~~i~~~~~~~~~~~~~~~v~v~ie~~~~~~~~~l~~~L~~ 395 (404)
T PRK08198 343 KLLSIIAELGANVIDVDHDRFSPDLRLGEVEVELTLETRGPEHIEEILDALRD 395 (404)
T ss_pred HHHHHHhhCCCceEEEEEEEccCCCCCceEEEEEEEEeCCHHHHHHHHHHHHH
Confidence 66677778888887655531 1234566666666555 4455555544
No 50
>cd01269 PLX Pollux (PLX) Phosphotyrosine-binding (PTB) domain. Pollux (PLX) Phosphotyrosine-binding (PTB) domain. PLX is calmodulin-binding protein containing a TBC domain, which is conserved from yeast to man, but it only has an N-terminal PTB domain in mammals. PTB domains have a PH-like fold and are found in various eukaryotic signaling molecules. They were initially identified based upon their ability to recognize phosphorylated tyrosine residues. In contrast to SH2 domains, which recognize phosphotyrosine and adjacent carboxy-terminal residues, PTB-domain binding specificity is conferred by residues amino-terminal to the phosphotyrosine. More recent studies have found that some types of PTB domains can bind to peptides which are not tyrosine phosphorylated or lack tyrosine residues altogether.
Probab=43.16 E-value=47 Score=27.22 Aligned_cols=26 Identities=12% Similarity=0.155 Sum_probs=22.8
Q ss_pred ecceEEEEEeeCCCHHHHHHHHHHhc
Q 028328 29 KKSKFIAIAGPISNEQSAQSFLSQVS 54 (210)
Q Consensus 29 kkS~Fi~~~~~~~~~~ea~~~l~~~~ 54 (210)
..+.|++|++.+.|++.|.+++..++
T Consensus 97 ~~~~f~CyVFqc~Se~la~eI~lti~ 122 (129)
T cd01269 97 GLSQYICYVFQCADESLVDEVMLTLK 122 (129)
T ss_pred CcceEEEEEEEcCCHHHHHHHHHHHH
Confidence 44669999999999999999998775
No 51
>TIGR01124 ilvA_2Cterm threonine ammonia-lyase, biosynthetic, long form. Forms scoring between the trusted and noise cutoff tend to branch with this subgroup of threonine ammonia-lyase phylogenetically but have only a single copy of the C-terminal domain.
Probab=37.82 E-value=3.8e+02 Score=26.14 Aligned_cols=75 Identities=13% Similarity=0.178 Sum_probs=36.6
Q ss_pred hHHHHHHHHHHhCCeeEEEEEEEEEEEEecCc--hHHHHHHHhhcCCeEEeeeeCCCCCeeEEEEEEEe-cCCHHHHHHH
Q 028328 120 AYGGVASECLRNAPTILVKSRVPMGVEVPFEL--LGILYHQLQLFQVEDTNQDYDTGKDGIAMVTFKVD-FDRAENLEDA 196 (210)
Q Consensus 120 AY~~aa~~al~~a~~~~~~~~~~~~l~~~Y~~--~~~v~~~l~~~~~~i~~~~y~~~~~~~v~~~~~v~-~~~~~~~~~~ 196 (210)
-+......++-..+ ....+.+++|-.- +..+...|...++..++-.+.......|.+.++++ .++.+++.+.
T Consensus 310 ~l~~~~~r~~~~~~-----re~~l~V~iPerPGal~~f~~~i~~~nItef~yr~~~~~~a~v~vgie~~~~~~~~~l~~~ 384 (499)
T TIGR01124 310 RLRYVSERCELGEQ-----REALLAVTIPEQPGSFLKFCELLGNRNITEFNYRYADRKDAHIFVGVQLSNPQERQEILAR 384 (499)
T ss_pred HHHHHHHHHHHhcC-----CEEEEEEEeCCCCCHHHHHHHHhhhcceEEEEEEecCCCeEEEEEEEEeCCHHHHHHHHHH
Confidence 34444444444444 2344555665321 33444455554444444444332223455666665 3566677777
Q ss_pred HHH
Q 028328 197 IKN 199 (210)
Q Consensus 197 L~~ 199 (210)
|++
T Consensus 385 L~~ 387 (499)
T TIGR01124 385 LND 387 (499)
T ss_pred HHH
Confidence 665
No 52
>PF04459 DUF512: Protein of unknown function (DUF512); InterPro: IPR007549 This is a domain of uncharacterised prokaryotic proteins. It is often found C-terminal to the radical SAM domain (IPR007197 from INTERPRO).
Probab=37.14 E-value=1.6e+02 Score=25.58 Aligned_cols=82 Identities=18% Similarity=0.221 Sum_probs=51.3
Q ss_pred chhhhHHHHHHHHHHhCCeeEEEEEEEEEEEEecCchHHHHHHHhhc--------CCeEE-eeeeCCCCCeeEEEEEEEe
Q 028328 116 GLVRAYGGVASECLRNAPTILVKSRVPMGVEVPFELLGILYHQLQLF--------QVEDT-NQDYDTGKDGIAMVTFKVD 186 (210)
Q Consensus 116 gL~rAY~~aa~~al~~a~~~~~~~~~~~~l~~~Y~~~~~v~~~l~~~--------~~~i~-~~~y~~~~~~~v~~~~~v~ 186 (210)
|++|.+.+--.+++...+ .....+++-+.-.-...++.++++. .+..+ +.-|.. +|++.--+.
T Consensus 77 Gm~r~f~~e~~~~l~~l~----~~~~~v~ivTG~la~~~l~~~~~~l~~~~~~~v~V~~V~N~fFG~----~ItVaGLLT 148 (204)
T PF04459_consen 77 GMVRLFLDEWEEALRKLP----KKPRRVTIVTGVLAYPFLKPLVEKLNRIPGLEVEVVPVKNRFFGG----TITVAGLLT 148 (204)
T ss_pred eEhHHHHHHHHHHHhhcC----CCCeeEEEEeeHHHHHHHHHHHHHHhccCCCeEEEEEeecCCCCC----CeEEeeCcc
Confidence 489999999999999977 3344455555555555555555544 22323 444565 588888887
Q ss_pred cCCHHHHHHHHHHhcCCceEEe
Q 028328 187 FDRAENLEDAIKNNCRRDLVFY 208 (210)
Q Consensus 187 ~~~~~~~~~~L~~~t~G~~~~~ 208 (210)
...+.++|+....|...++
T Consensus 149 ---g~Dii~~L~~~~~~d~lll 167 (204)
T PF04459_consen 149 ---GQDIIEQLKGKELGDLLLL 167 (204)
T ss_pred ---HHHHHHHhCcCCCCCEEEE
Confidence 4455666665555555544
No 53
>TIGR02877 spore_yhbH sporulation protein YhbH. This protein family, typified by YhbH in Bacillus subtilis, is found in nearly every endospore-forming bacterium and in no other genome (but note that the trusted cutoff score is set high to exclude a single high-scoring sequence from Nitrosococcus oceani ATCC 19707, which is classified in the Gammaproteobacteria). The gene in Bacillus subtilis was shown to be in the regulon of the sporulation sigma factor, sigma-E, and its mutation was shown to create a sporulation defect.
Probab=36.96 E-value=38 Score=32.18 Aligned_cols=56 Identities=20% Similarity=0.225 Sum_probs=41.5
Q ss_pred CCCCCceeeEEEEccccCCCCCCCCCCCCChHHHHHHHhCCCceEEEEEEEEecCeeecC----cchhhhHHH
Q 028328 55 DPRATHNCWAYKVGNQYRSNDDGEPSGTAGKPIHSAIVSSGLDRIMVVVTRYFGGIKLGT----GGLVRAYGG 123 (210)
Q Consensus 55 ~~~A~H~~~Ayr~~~~~~~sDDGEPsGtAG~piL~vL~~~~l~nv~vVV~RyfGGikLG~----ggL~rAY~~ 123 (210)
+|.+..|+|||-......++||++- +...+.+ ++=+++|||=+..+. +-|+++|.+
T Consensus 286 Ypp~~wNIY~f~aSDGDNw~~D~~~---c~~ll~~----------llp~~~~f~Y~Ei~~~~~~~~l~~~y~~ 345 (371)
T TIGR02877 286 YNPARYNIYAFHFSDGDNLTSDNER---AVKLVRK----------LLEVCNLFGYGEIMPYGYSNTLKNKFKN 345 (371)
T ss_pred CChhhCeeEEEEcccCCCccCCcHH---HHHHHHH----------HHHhhheEEEEEecCCCCcchHHHHHHh
Confidence 6899999999999877788899883 4333333 233677888777776 679999976
No 54
>cd01804 midnolin_N Ubiquitin-like domain of midnolin. midnolin_N Midnolin (midbrain nucleolar protein) is expressed in the nucleolus and is thought to regulate genes involved in neurogenesis. Midnolin contains an amino-terminal ubiquitin-like domain.
Probab=35.53 E-value=1.6e+02 Score=20.94 Aligned_cols=66 Identities=14% Similarity=0.125 Sum_probs=42.4
Q ss_pred cceEEEEEeeCCCHHHHHHHHHHhcCCCCCceeeEEEEccccCCCCCCCCCCCCChHHHHHHHhCCC--ceEEEEEEEEe
Q 028328 30 KSKFIAIAGPISNEQSAQSFLSQVSDPRATHNCWAYKVGNQYRSNDDGEPSGTAGKPIHSAIVSSGL--DRIMVVVTRYF 107 (210)
Q Consensus 30 kS~Fi~~~~~~~~~~ea~~~l~~~~~~~A~H~~~Ayr~~~~~~~sDDGEPsGtAG~piL~vL~~~~l--~nv~vVV~Ryf 107 (210)
+..|--.+-|-.|..+.+..|++...-.+......|. |. .-+|+ + |..+|+ .+++.+|..-+
T Consensus 11 G~~~~l~v~~~~TV~~LK~~I~~~~~~~~~~qrL~~~-Gk---~L~d~-~-----------L~~~gi~~~~~i~l~~~~~ 74 (78)
T cd01804 11 GTRFDLSVPPDETVEGLKKRISQRLKVPKERLALLHR-ET---RLSSG-K-----------LQDLGLGDGSKLTLVPTVE 74 (78)
T ss_pred CCEEEEEECCcCHHHHHHHHHHHHhCCChHHEEEEEC-Cc---CCCCC-c-----------HHHcCCCCCCEEEEEeecc
Confidence 3456666777789999999887665434444444443 21 11222 3 677788 56788888889
Q ss_pred cCee
Q 028328 108 GGIK 111 (210)
Q Consensus 108 GGik 111 (210)
||++
T Consensus 75 ~~~~ 78 (78)
T cd01804 75 AGLM 78 (78)
T ss_pred ccCC
Confidence 9874
No 55
>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=35.22 E-value=1.4e+02 Score=20.84 Aligned_cols=50 Identities=12% Similarity=0.006 Sum_probs=31.7
Q ss_pred hHHHHHHHhhcCCeEEeeeeCCCCCee--EEEEEEEecC-CHHHHHHHHHHhcC
Q 028328 152 LGILYHQLQLFQVEDTNQDYDTGKDGI--AMVTFKVDFD-RAENLEDAIKNNCR 202 (210)
Q Consensus 152 ~~~v~~~l~~~~~~i~~~~y~~~~~~~--v~~~~~v~~~-~~~~~~~~L~~~t~ 202 (210)
...+-+.+.++++.|.+-.-..- ++. ..+.+.+|++ ..+.|++.|..+..
T Consensus 13 v~~vt~~la~~~~nI~dl~~~~~-~~~f~~~~~v~~p~~~~~~~l~~~l~~l~~ 65 (75)
T cd04870 13 TSALTEVLAAHGVRILDVGQAVI-HGRLSLGILVQIPDSADSEALLKDLLFKAH 65 (75)
T ss_pred HHHHHHHHHHCCCCEEecccEEE-cCeeEEEEEEEcCCCCCHHHHHHHHHHHHH
Confidence 34567777788888876632110 011 3455666665 78899999988753
No 56
>cd04910 ACT_AK-Ectoine_1 ACT domains located C-terminal to the catalytic domain of the aspartokinase of the ectoine (1,4,5,6-tetrahydro-2-methyl pyrimidine-4-carboxylate) biosynthetic pathway. This CD includes the first of two ACT domains located C-terminal to the catalytic domain of the aspartokinase of the ectoine (1,4,5,6-tetrahydro-2-methyl pyrimidine-4-carboxylate) biosynthetic pathway found in Methylomicrobium alcaliphilum, Vibrio cholerae, and various other halotolerant or halophilic bacteria. Bacteria exposed to hyperosmotic stress accumulate organic solutes called 'compatible solutes' of which ectoine, a heterocyclic amino acid, is one. Apart from its osmotic function, ectoine also exhibits a protective effect on proteins, nucleic acids and membranes against a variety of stress factors. de novo synthesis of ectoine starts with the phosphorylation of L-aspartate and shares its first two enzymatic steps with the biosynthesis of amino acids of the aspartate family: aspartokinase
Probab=35.03 E-value=1.4e+02 Score=21.66 Aligned_cols=47 Identities=15% Similarity=0.162 Sum_probs=37.5
Q ss_pred HHHHHHHhhcCCeEEeeeeCCCCCeeEEEEEEEecCCHHHHHHHHHHhcC
Q 028328 153 GILYHQLQLFQVEDTNQDYDTGKDGIAMVTFKVDFDRAENLEDAIKNNCR 202 (210)
Q Consensus 153 ~~v~~~l~~~~~~i~~~~y~~~~~~~v~~~~~v~~~~~~~~~~~L~~~t~ 202 (210)
..+...|.++++.++..+-.-+ .+++.+..+.+..+++...|.+...
T Consensus 19 ~~i~~~l~~~~v~ii~K~~nAN---tit~yl~~~~k~~~r~~~~Le~~~p 65 (71)
T cd04910 19 LEILELLQRFKVSIIAKDTNAN---TITHYLAGSLKTIKRLTEDLENRFP 65 (71)
T ss_pred HHHHHHHHHcCCeEEEEecCCC---eEEEEEEcCHHHHHHHHHHHHHhCc
Confidence 4578888999999999987544 5788888888888999998876643
No 57
>PF00708 Acylphosphatase: Acylphosphatase; InterPro: IPR001792 Acylphosphatase (3.6.1.7 from EC) is an enzyme of approximately 98 amino acid residues that specifically catalyses the hydrolysis of the carboxyl-phosphate bond of acylphosphates [], its substrates including 1,3-diphosphoglycerate and carbamyl phosphate []. The enzyme has a mainly beta-sheet structure with 2 short alpha-helical segments. It is distributed in a tissue-specific manner in a wide variety of species, although its physiological role is as yet unknown []: it may, however, play a part in the regulation of the glycolytic pathway and pyrimidine biosynthesis []. There are two known isozymes. One seems to be specific to muscular tissues, the other, called 'organ-common type', is found in many different tissues. While bacterial and archebacterial hypothetical proteins that are highly similar to that enzyme and that probably possess the same activity. These proteins include: Escherichia coli putative acylphosphatase (3.6.1.7 from EC) (acylphosphate phosphohydrolase) (gene yccX). Bacillus subtilis putative acylphosphatase (3.6.1.7 from EC) (acylphosphate phosphohydrolase) (gene yflL). Archaeoglobus fulgidus putative acylphosphatase (3.6.1.7 from EC) (acylphosphate phosphohydrolase) (O29440 from SWISSPROT). An acylphosphatase-like domain is also found in some prokaryotic hydrogenase maturation HypF carbamoyltransferases [, ].; PDB: 1APS_A 1GXT_A 1GXU_A 2HLT_A 2FHM_A 2HLU_A 3BR8_A 1ULR_A 3TRG_A 2BJD_A ....
Probab=33.47 E-value=1.9e+02 Score=21.08 Aligned_cols=46 Identities=9% Similarity=0.058 Sum_probs=29.0
Q ss_pred HHHHHhhcCCeEEeeeeCCCCCeeEEEEEEEecCCHHHHHHHHHHhcCC
Q 028328 155 LYHQLQLFQVEDTNQDYDTGKDGIAMVTFKVDFDRAENLEDAIKNNCRR 203 (210)
Q Consensus 155 v~~~l~~~~~~i~~~~y~~~~~~~v~~~~~v~~~~~~~~~~~L~~~t~G 203 (210)
+.+...++++.=.=++-. |+.|.+.++-+++.++.|.++|..-...
T Consensus 23 v~~~A~~~gl~G~V~N~~---dg~V~i~~~G~~~~l~~f~~~l~~g~p~ 68 (91)
T PF00708_consen 23 VKRIARKLGLTGWVRNLP---DGSVEIEAEGEEEQLEEFIKWLKKGPPP 68 (91)
T ss_dssp HHHHHHHTT-EEEEEE-T---TSEEEEEEEEEHHHHHHHHHHHHHSSTT
T ss_pred HHHHHHHhCCceEEEECC---CCEEEEEEEeCHHHHHHHHHHHHhCCCC
Confidence 455555666553333333 3468888888888888888888875443
No 58
>COG0217 Uncharacterized conserved protein [Function unknown]
Probab=33.37 E-value=77 Score=28.52 Aligned_cols=73 Identities=19% Similarity=0.052 Sum_probs=45.5
Q ss_pred HHHHHHHHhCCeeEEEEE-EEEEEEEecCchHHHHHHHhhcCCeEEeeeeCCCCCeeEEEEEEEecCCHHHHHHHHHH
Q 028328 123 GVASECLRNAPTILVKSR-VPMGVEVPFELLGILYHQLQLFQVEDTNQDYDTGKDGIAMVTFKVDFDRAENLEDAIKN 199 (210)
Q Consensus 123 ~aa~~al~~a~~~~~~~~-~~~~l~~~Y~~~~~v~~~l~~~~~~i~~~~y~~~~~~~v~~~~~v~~~~~~~~~~~L~~ 199 (210)
....+++-+|+...+... ..+.+.++++.+..|...|++.+.++.+.+..--| ..++.+..++.+.|++.|..
T Consensus 150 d~l~e~~ieagaeDv~~~~~~~~V~t~p~~~~~V~~~L~~~g~~~~~ael~~iP----~~~v~~~~e~a~k~~kLid~ 223 (241)
T COG0217 150 DELLEAAIEAGAEDVEEDEGSIEVYTEPEDFNKVKEALEAAGYEIESAELTMIP----QNTVELDDEDAEKLEKLIDA 223 (241)
T ss_pred HHHHHHHHHCCchhhhcCCCeEEEEEChHHHHHHHHHHHHcCCceeeeeEEEec----CCceecCHHHHHHHHHHHHH
Confidence 455555555565544333 35888999999999999999888777765554211 22344555566655555443
No 59
>PRK09977 putative Mg(2+) transport ATPase; Provisional
Probab=33.28 E-value=1.6e+02 Score=25.67 Aligned_cols=60 Identities=5% Similarity=0.051 Sum_probs=39.5
Q ss_pred EEEEEEEecCchHHHHHHHhhcCCeEEeeeeCCC-CCeeEEEEEEEec-CCHHHHHHHHHHh
Q 028328 141 VPMGVEVPFELLGILYHQLQLFQVEDTNQDYDTG-KDGIAMVTFKVDF-DRAENLEDAIKNN 200 (210)
Q Consensus 141 ~~~~l~~~Y~~~~~v~~~l~~~~~~i~~~~y~~~-~~~~v~~~~~v~~-~~~~~~~~~L~~~ 200 (210)
..+.++++.+....+...+.+.++.+.+.++.+. ++..+++.+.++. .+.+++.+.|.+.
T Consensus 145 ~~~~i~~~~~~~~~i~~~l~~~~i~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~L~~~ 206 (215)
T PRK09977 145 YHLQLTLVNGNVVSMLDWFKQQKIKTDLVSLQENEDHEVVAIDITLHATTSIEDLYRLLKGI 206 (215)
T ss_pred EEEEEEEccccHHHHHHHHHHcCceEEEEEEEecCCCcEEEEEEEECCCCCHHHHHHHHhcC
Confidence 3456667777777888899999999888777422 1234666666663 4555666666554
No 60
>COG0481 LepA Membrane GTPase LepA [Cell envelope biogenesis, outer membrane]
Probab=30.99 E-value=1.1e+02 Score=30.72 Aligned_cols=69 Identities=17% Similarity=0.189 Sum_probs=56.8
Q ss_pred EEEEEEEEEEEecCchHHHHHHHhhcCCeEEeeeeCCCCCeeEEEEEEEec-CCHHHHHHHHHHhcCCceEE
Q 028328 137 VKSRVPMGVEVPFELLGILYHQLQLFQVEDTNQDYDTGKDGIAMVTFKVDF-DRAENLEDAIKNNCRRDLVF 207 (210)
Q Consensus 137 ~~~~~~~~l~~~Y~~~~~v~~~l~~~~~~i~~~~y~~~~~~~v~~~~~v~~-~~~~~~~~~L~~~t~G~~~~ 207 (210)
.++....++-+|=++.+.+..++.+..+.-.+-+|-+. ..|.++..+|. +-.-.|-++|+..|+|=+.|
T Consensus 405 ~EP~v~~~ii~P~eylG~vm~Lcq~kRG~~~~m~yl~~--~rv~l~Y~lPl~Eiv~DFfDkLKS~skGYAS~ 474 (603)
T COG0481 405 EEPYVKATIITPQEYLGNVMELCQEKRGIQIDMEYLDQ--NRVMLTYELPLAEIVFDFFDKLKSISKGYASF 474 (603)
T ss_pred eCceeEEEEeCcHHHHHHHHHHHHHhcCceecceEecC--ceEEEEEecchHHHHHHHhHhhhccccceeee
Confidence 45667788889999999999999988888899999652 26899999995 44568999999999997765
No 61
>PRK14420 acylphosphatase; Provisional
Probab=29.11 E-value=1.5e+02 Score=21.94 Aligned_cols=24 Identities=17% Similarity=0.147 Sum_probs=17.0
Q ss_pred eeEEEEEEEecCCHHHHHHHHHHh
Q 028328 177 GIAMVTFKVDFDRAENLEDAIKNN 200 (210)
Q Consensus 177 ~~v~~~~~v~~~~~~~~~~~L~~~ 200 (210)
+.|.+.++-+++.+++|.++|.+-
T Consensus 40 G~Vei~~qG~~~~i~~f~~~l~~~ 63 (91)
T PRK14420 40 GTVEIEAEGPEEALQLFLDAIEKG 63 (91)
T ss_pred CcEEEEEEECHHHHHHHHHHHHhC
Confidence 457777777777777777777654
No 62
>PRK14429 acylphosphatase; Provisional
Probab=28.89 E-value=1.5e+02 Score=21.96 Aligned_cols=43 Identities=12% Similarity=0.049 Sum_probs=25.7
Q ss_pred HHHHHhhcCCeEEeeeeCCCCCeeEEEEEEEecCCHHHHHHHHHHh
Q 028328 155 LYHQLQLFQVEDTNQDYDTGKDGIAMVTFKVDFDRAENLEDAIKNN 200 (210)
Q Consensus 155 v~~~l~~~~~~i~~~~y~~~~~~~v~~~~~v~~~~~~~~~~~L~~~ 200 (210)
+.++..++++.=-=.+-. ||.|.+.+.-+++.+++|.++|.+-
T Consensus 21 v~~~A~~~gl~G~V~N~~---dG~Vei~~qG~~~~i~~f~~~l~~g 63 (90)
T PRK14429 21 TLTKARALGVTGYVTNCE---DGSVEILAQGSDPAVDNLIAWCEVG 63 (90)
T ss_pred HHHHHHHhCCEEEEEECC---CCeEEEEEEeCHHHHHHHHHHHhhC
Confidence 444455555443323333 3467777777777778888777753
No 63
>cd04918 ACT_AK1-AT_2 ACT domains located C-terminal to the catalytic domain of a monofunctional, lysine-sensitive, plant aspartate kinase 1 (AK1). This CD includes the second of two ACT domains located C-terminal to the catalytic domain of a monofunctional, lysine-sensitive, plant aspartate kinase 1 (AK1), which can be synergistically inhibited by S-adenosylmethionine (SAM). This isoenzyme is found in higher plants, Arabidopsis thaliana (AT) and Zea mays, and also in Chlorophyta. In its inactive state, Arabidopsis AK1 binds the effectors lysine and SAM (two molecules each) at the interface of two ACT1 domain subunits. The second ACT domain (ACT2), this CD, does not interact with an effector. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=28.61 E-value=1.8e+02 Score=19.67 Aligned_cols=46 Identities=17% Similarity=0.124 Sum_probs=34.9
Q ss_pred hHHHHHHHhhcCCeEEeeeeCCCCCeeEEEEEEEecCCHHHHHHHHHHh
Q 028328 152 LGILYHQLQLFQVEDTNQDYDTGKDGIAMVTFKVDFDRAENLEDAIKNN 200 (210)
Q Consensus 152 ~~~v~~~l~~~~~~i~~~~y~~~~~~~v~~~~~v~~~~~~~~~~~L~~~ 200 (210)
...+...|.+.++.+.-..++.. ...+++-++.++.+...+.|.+.
T Consensus 17 ~~~i~~aL~~~~I~v~~i~~g~s---~~sis~~v~~~~~~~av~~Lh~~ 62 (65)
T cd04918 17 LERAFHVLYTKGVNVQMISQGAS---KVNISLIVNDSEAEGCVQALHKS 62 (65)
T ss_pred HHHHHHHHHHCCCCEEEEEecCc---cceEEEEEeHHHHHHHHHHHHHH
Confidence 45677777888999866666443 47899999999988888777654
No 64
>KOG1817 consensus Ribonuclease [RNA processing and modification]
Probab=28.30 E-value=49 Score=32.50 Aligned_cols=59 Identities=29% Similarity=0.345 Sum_probs=44.2
Q ss_pred cCCCCCCCCCCCCChHHHHHHHhCCCceE-EEEEEEEecCeeecCcc---hhhhHHHHHHHHHHhCC
Q 028328 71 YRSNDDGEPSGTAGKPIHSAIVSSGLDRI-MVVVTRYFGGIKLGTGG---LVRAYGGVASECLRNAP 133 (210)
Q Consensus 71 ~~~sDDGEPsGtAG~piL~vL~~~~l~nv-~vVV~RyfGGikLG~gg---L~rAY~~aa~~al~~a~ 133 (210)
.+.++.||| . .|...|+...|-.|. .-+|.=||+|.-||+|- .-.|=..||.+||+...
T Consensus 440 ~rys~~~ep--d--ip~y~V~~~~gpa~~r~y~Vavyf~gkrlat~~G~nik~Ae~rAA~~ALe~~~ 502 (533)
T KOG1817|consen 440 LRYSLGGEP--D--IPLYKVLGAKGPANDRNYKVAVYFKGKRLATGVGSNIKQAEMRAAMQALENLK 502 (533)
T ss_pred HhcccCCCC--C--CceEEEecccCCCCCCceEEEEEECCEEEeeccCchHhHHHHHHHHHHHHHHH
Confidence 367899998 2 788899998888776 45666689999999862 23455677888888654
No 65
>PRK06418 transcription elongation factor NusA-like protein; Validated
Probab=28.23 E-value=3.7e+02 Score=22.74 Aligned_cols=93 Identities=14% Similarity=0.090 Sum_probs=55.0
Q ss_pred eEEEEEEE-EecCeeecCcchhhhHHHHHHHHHHhCCeeEEEEEEEEEEEEecCchHHHHHHHhh--cCCeEEeeeeCCC
Q 028328 98 RIMVVVTR-YFGGIKLGTGGLVRAYGGVASECLRNAPTILVKSRVPMGVEVPFELLGILYHQLQL--FQVEDTNQDYDTG 174 (210)
Q Consensus 98 nv~vVV~R-yfGGikLG~ggL~rAY~~aa~~al~~a~~~~~~~~~~~~l~~~Y~~~~~v~~~l~~--~~~~i~~~~y~~~ 174 (210)
|-+++|++ =. |.-+|.|| ..-+++++.|.. -+++++ |+. ....++++ +..++........
T Consensus 61 drvIfvV~~gd-g~aIGk~G---~~ik~l~~~lgk--~VevVE---------~s~--d~~~fl~Nl~~PA~V~gV~i~~~ 123 (166)
T PRK06418 61 DLVILLVTSGP-RIPIGKGG---KIAKALSRKLGK--KVRVVE---------KTN--DIKKLAVQLLSPARVLGVNTVWL 123 (166)
T ss_pred CEEEEEEeCCC-cccccccc---hHHHHHHHHhCC--cEEEEE---------cCC--CHHHHHHhcCCCcEEEEEEEEEe
Confidence 44566664 34 88889888 345566666643 223222 433 35555555 4566655433333
Q ss_pred CCeeEEEEEEEec-------CCHHHHHHHHHHhcCCceEE
Q 028328 175 KDGIAMVTFKVDF-------DRAENLEDAIKNNCRRDLVF 207 (210)
Q Consensus 175 ~~~~v~~~~~v~~-------~~~~~~~~~L~~~t~G~~~~ 207 (210)
+|+.+.+.+.+++ ...+.|..-+..+|.-.+.|
T Consensus 124 ~dG~~~~kV~Vd~~Dk~~l~~k~e~~~~v~~kltgk~v~~ 163 (166)
T PRK06418 124 PDGTVQYVIRVSRRDRRRLPAKPELLESILSKITGTEVKI 163 (166)
T ss_pred CCCcEEEEEEECHHHhhcccccHHHHHHHHHHHHCCcEEE
Confidence 3456666677764 45677888888888877665
No 66
>PRK05325 hypothetical protein; Provisional
Probab=28.17 E-value=73 Score=30.60 Aligned_cols=56 Identities=21% Similarity=0.312 Sum_probs=40.0
Q ss_pred CCCCCceeeEEEEccccCCCCCCCCCCCCChHHH-HHHHhCCCceEEEEEEEEecCeeecC-----cchhhhHHH
Q 028328 55 DPRATHNCWAYKVGNQYRSNDDGEPSGTAGKPIH-SAIVSSGLDRIMVVVTRYFGGIKLGT-----GGLVRAYGG 123 (210)
Q Consensus 55 ~~~A~H~~~Ayr~~~~~~~sDDGEPsGtAG~piL-~vL~~~~l~nv~vVV~RyfGGikLG~-----ggL~rAY~~ 123 (210)
+|-+..|+|+|-......++||++- +-..+. ++| =+++|||=+-.++ +.|+++|..
T Consensus 306 Ypp~~wNIY~f~aSDGDNw~~D~~~---~~~ll~~~ll----------p~~~~f~Y~Ev~~~~~~~~~l~~~y~~ 367 (401)
T PRK05325 306 YPPAEWNIYAFQASDGDNWSSDNPR---CVELLREELL----------PVCNYFAYIEVTPRAYRHQTLWREYER 367 (401)
T ss_pred CCHhHCeeEEEEcccCCCcCCCCHH---HHHHHHHHHH----------HHhhheEEEEecCCCCCchHHHHHHHH
Confidence 6899999999999877788888884 434443 333 3566777766665 678888873
No 67
>PRK14449 acylphosphatase; Provisional
Probab=27.71 E-value=1.7e+02 Score=21.79 Aligned_cols=43 Identities=16% Similarity=0.210 Sum_probs=27.6
Q ss_pred HHHHHhhcCCeEEeeeeCCCCCeeEEEEEEEecCCHHHHHHHHHHh
Q 028328 155 LYHQLQLFQVEDTNQDYDTGKDGIAMVTFKVDFDRAENLEDAIKNN 200 (210)
Q Consensus 155 v~~~l~~~~~~i~~~~y~~~~~~~v~~~~~v~~~~~~~~~~~L~~~ 200 (210)
+.++..++++.=-=++-.+ +.|.+.++-+++.+++|.++|.+-
T Consensus 22 v~~~A~~lgl~G~V~N~~d---G~Vei~~~G~~~~v~~f~~~l~~~ 64 (90)
T PRK14449 22 VYQKAVSLGITGYAENLYD---GSVEVVAEGDEENIKELINFIKTG 64 (90)
T ss_pred HHHHHHHcCCEEEEEECCC---CeEEEEEEeCHHHHHHHHHHHhhC
Confidence 4555556665533334443 467888888888888888888764
No 68
>TIGR01033 DNA-binding regulatory protein, YebC/PmpR family. This model describes a minimally characterized protein family, restricted to bacteria excepting for some eukaryotic sequences that have possible transit peptides. YebC from E. coli is crystallized, and PA0964 from Pseudomonas aeruginosa has been shown to be a sequence-specific DNA-binding regulatory protein.
Probab=27.60 E-value=73 Score=28.22 Aligned_cols=55 Identities=18% Similarity=0.080 Sum_probs=37.2
Q ss_pred EEEEEEecCchHHHHHHHhhcCCeEEeeeeCCCCCeeEEEEEEEecCCHHHHHHHHHHh
Q 028328 142 PMGVEVPFELLGILYHQLQLFQVEDTNQDYDTGKDGIAMVTFKVDFDRAENLEDAIKNN 200 (210)
Q Consensus 142 ~~~l~~~Y~~~~~v~~~l~~~~~~i~~~~y~~~~~~~v~~~~~v~~~~~~~~~~~L~~~ 200 (210)
.+.+.|+.+.+..+...|++.++++.+.+-.-.| .-.+.+++++.+.+.+.|..+
T Consensus 170 ~~~v~~~~~~~~~v~~~L~~~g~~i~~sei~~~P----~~~v~l~~e~~~~~~~li~~L 224 (238)
T TIGR01033 170 EFEVYTAPEELEKVKEALEAKGFPIESAEITMIP----LTTVDLDDEQAEKLLKLIDAL 224 (238)
T ss_pred cEEEEECHHHHHHHHHHHHHcCCCceeeEEEEec----CCCcccCHHHHHHHHHHHHHH
Confidence 3889999999999999999988877755543211 112345666666655555544
No 69
>PRK14438 acylphosphatase; Provisional
Probab=25.72 E-value=2e+02 Score=21.45 Aligned_cols=42 Identities=14% Similarity=0.080 Sum_probs=26.2
Q ss_pred HHHHHhhcCCeEEeeeeCCCCCeeEEEEEEEecCCHHHHHHHHHH
Q 028328 155 LYHQLQLFQVEDTNQDYDTGKDGIAMVTFKVDFDRAENLEDAIKN 199 (210)
Q Consensus 155 v~~~l~~~~~~i~~~~y~~~~~~~v~~~~~v~~~~~~~~~~~L~~ 199 (210)
+.++..++++.=-=++-. |+.|.+.++-+++++++|.++|.+
T Consensus 22 ~~~~A~~~gl~G~V~N~~---dG~Vei~~qG~~~~i~~f~~~l~~ 63 (91)
T PRK14438 22 TQQTAQRLNVSGWVKNLP---NGSVQGCFEGEETDVAALIDWCHH 63 (91)
T ss_pred HHHHHHHcCCEEEEEECC---CCEEEEEEEECHHHHHHHHHHHhh
Confidence 445555555542222223 356788888888888888888864
No 70
>cd04888 ACT_PheB-BS C-terminal ACT domain of a small (~147 a.a.) putative phenylalanine biosynthetic pathway protein described in Bacillus subtilis (BS) PheB (PheB-BS) and related domains. This CD includes the C-terminal ACT domain of a small (~147 a.a.) putative phenylalanine biosynthetic pathway protein described in Bacillus subtilis (BS) PheB (PheB-BS) and other related ACT domains. In B. subtilis, the upstream gene of pheB, pheA encodes prephenate dehydratase (PDT). The presumed product of the pheB gene is chorismate mutase (CM). The deduced product of the B. subtilis pheB gene, however, has no significant homology to the CM portion of the bifunctional CM-PDT of Escherichia coli. The presence of an ACT domain lends support to the prediction that these proteins function as a phenylalanine-binding regulatory protein. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=25.54 E-value=2.2e+02 Score=19.16 Aligned_cols=51 Identities=12% Similarity=0.187 Sum_probs=33.4
Q ss_pred CchHHHHHHHhhcCCeEEeeeeCCCCCeeEEEEEEEecCCHH-HHHHHHHHh
Q 028328 150 ELLGILYHQLQLFQVEDTNQDYDTGKDGIAMVTFKVDFDRAE-NLEDAIKNN 200 (210)
Q Consensus 150 ~~~~~v~~~l~~~~~~i~~~~y~~~~~~~v~~~~~v~~~~~~-~~~~~L~~~ 200 (210)
.....+...|.+.++.+..-.....+++...+.+.++..+.+ .+.+-+.++
T Consensus 12 g~l~~I~~~la~~~inI~~i~~~~~~~~~~~i~~~v~v~~~~~~l~~l~~~L 63 (76)
T cd04888 12 GVLSKVLNTIAQVRGNVLTINQNIPIHGRANVTISIDTSTMNGDIDELLEEL 63 (76)
T ss_pred chHHHHHHHHHHcCCCEEEEEeCCCCCCeEEEEEEEEcCchHHHHHHHHHHH
Confidence 346678888888998888766533222356777888777776 555555544
No 71
>cd04915 ACT_AK-Ectoine_2 ACT domains located C-terminal to the catalytic domain of the aspartokinase of the ectoine (1,4,5,6-tetrahydro-2-methyl pyrimidine-4-carboxylate) biosynthetic pathway. This CD includes the second of two ACT domains located C-terminal to the catalytic domain of the aspartokinase of the ectoine (1,4,5,6-tetrahydro-2-methyl pyrimidine-4-carboxylate) biosynthetic pathway found in Methylomicrobium alcaliphilum, Vibrio cholerae, and various other halotolerant or halophilic bacteria. Bacteria exposed to hyperosmotic stress accumulate organic solutes called 'compatible solutes' of which ectoine, a heterocyclic amino acid, is one. Apart from its osmotic function, ectoine also exhibits a protective effect on proteins, nucleic acids and membranes against a variety of stress factors. de novo synthesis of ectoine starts with the phosphorylation of L-aspartate and shares its first two enzymatic steps with the biosynthesis of amino acids of the aspartate family: aspartokinas
Probab=25.23 E-value=2.3e+02 Score=19.41 Aligned_cols=46 Identities=22% Similarity=0.113 Sum_probs=35.4
Q ss_pred hHHHHHHHhhcCCeEEeeeeCCCCCeeEEEEEEEecCCHHHHHHHHHHh
Q 028328 152 LGILYHQLQLFQVEDTNQDYDTGKDGIAMVTFKVDFDRAENLEDAIKNN 200 (210)
Q Consensus 152 ~~~v~~~l~~~~~~i~~~~y~~~~~~~v~~~~~v~~~~~~~~~~~L~~~ 200 (210)
...+...|.+.++.+.-..++.+ +..+++-++.++.++..+.|.+.
T Consensus 18 ~~ki~~~L~~~~I~v~~i~~~~s---~~~is~~V~~~~~~~av~~Lh~~ 63 (66)
T cd04915 18 LARGLAALAEAGIEPIAAHQSMR---NVDVQFVVDRDDYDNAIKALHAA 63 (66)
T ss_pred HHHHHHHHHHCCCCEEEEEecCC---eeEEEEEEEHHHHHHHHHHHHHH
Confidence 44666777889999976677553 47899999999999888887654
No 72
>PF01709 Transcrip_reg: Transcriptional regulator; InterPro: IPR002876 This entry represents the core region of several hypothetical proteins found in bacteria, plants, and yeast proteins. This core region can be subdivided into three domains: a 3-helical bundle domain, and two alpha+beta domains with different folds, where domain 3 (ferredoxin-like fold) is inserted within domain 2. This core region is found in the following hypothetical proteins: YebC from Escherichia coli, HP0162 from Helicobacter pylori (Campylobacter pylori) and aq1575 from Aquifex aeolicus []. The crystal structure of a conserved hypothetical protein, Aq1575, from Aquifex aeolicus has been determined. A structural homology search reveals that this protein has a new fold with no obvious similarity to those of other proteins of known three-dimensional structure. The protein reveals a monomer consisting of three domains arranged along a pseudo threefold symmetry axis. There is a large cleft with approximate dimensions of 10 A x 10 A x 20 A in the centre of the three domains along the symmetry axis. Two possible active sites are suggested based on the structure and multiple sequence alignment. There are several highly conserved residues in these putative active sites [].; PDB: 1LFP_A 1MW7_A 1KON_A.
Probab=25.19 E-value=1.3e+02 Score=26.37 Aligned_cols=56 Identities=13% Similarity=-0.009 Sum_probs=33.4
Q ss_pred EEEEEEEecCchHHHHHHHhhcCCeEEeeeeCCCCCeeEEEEEEEecCCHHHHHHHHHHh
Q 028328 141 VPMGVEVPFELLGILYHQLQLFQVEDTNQDYDTGKDGIAMVTFKVDFDRAENLEDAIKNN 200 (210)
Q Consensus 141 ~~~~l~~~Y~~~~~v~~~l~~~~~~i~~~~y~~~~~~~v~~~~~v~~~~~~~~~~~L~~~ 200 (210)
..+.+.|+..++..+...|.+.++++.+.+..-.| .-.+.+..++.+.+.+.+..+
T Consensus 165 ~~~~~~c~p~~~~~v~~~L~~~g~~i~~~e~~~~P----~~~v~l~~e~~~~~~~lie~L 220 (234)
T PF01709_consen 165 GEFEFICDPSDLSAVKKALEKKGYEIESAELEYIP----NNPVELSEEDAEKVEKLIEAL 220 (234)
T ss_dssp SEEEEEEEGGGHHHHHHHHHHTT---SEEEEEEEE----SS-EE--HHHHHHHHHHHHHH
T ss_pred CeEEEEECHHHHHHHHHHHHHcCCCeeEEEEEEeC----CCCcccCHHHHHHHHHHHHHH
Confidence 56999999999999999999988877655542111 112344655666555554443
No 73
>PF01797 Y1_Tnp: Transposase IS200 like; InterPro: IPR002686 Transposases are needed for efficient transposition of the insertion sequence or transposon DNA. This entry represents a domain found in transposases for IS200 from Escherichia coli []. More information about these proteins can be found at Protein of the Month: Transposase [].; GO: 0003677 DNA binding, 0004803 transposase activity, 0006313 transposition, DNA-mediated; PDB: 2F5G_B 2F4F_B 2EC2_F 2XM3_C 2XQC_D 2XO6_A 2XMA_E 2VJV_B 2VIH_B 2VJU_A ....
Probab=25.05 E-value=2.6e+02 Score=20.66 Aligned_cols=47 Identities=11% Similarity=0.065 Sum_probs=34.6
Q ss_pred HHHHHHhhcCCeEEeeeeCCCCCeeEEEEEEEecCC-HHHHHHHHHHhcCC
Q 028328 154 ILYHQLQLFQVEDTNQDYDTGKDGIAMVTFKVDFDR-AENLEDAIKNNCRR 203 (210)
Q Consensus 154 ~v~~~l~~~~~~i~~~~y~~~~~~~v~~~~~v~~~~-~~~~~~~L~~~t~G 203 (210)
.+....+++++++..-....+ -+.+.+.++++. +.+|.+.|+..|+.
T Consensus 30 ~l~~~~~~~~~~i~~~~vm~n---HvHllv~~~~~~~is~~~~~lK~~~s~ 77 (121)
T PF01797_consen 30 ILREICEEYGIEIIAFVVMPN---HVHLLVSIPPKQSISKFMQRLKGRSSR 77 (121)
T ss_dssp HHHHHHHHTTEEEEEEEEETT---EEEEEEEE-TTS-HHHHHHHHHHHHHH
T ss_pred ccccccccccceeeeecccCc---ccceeeeecccccchheeecccccccc
Confidence 344555678999997777543 689999998876 88898888877653
No 74
>KOG0469 consensus Elongation factor 2 [Translation, ribosomal structure and biogenesis]
Probab=24.94 E-value=1.4e+02 Score=30.47 Aligned_cols=99 Identities=14% Similarity=0.157 Sum_probs=74.4
Q ss_pred EecCeeecCcchhhhHHHHHHHHHHhCCeeEEEEEEEEEEEEecCchHHHHHHHhhcCCeEEeeeeCCCCCeeEEEEEEE
Q 028328 106 YFGGIKLGTGGLVRAYGGVASECLRNAPTILVKSRVPMGVEVPFELLGILYHQLQLFQVEDTNQDYDTGKDGIAMVTFKV 185 (210)
Q Consensus 106 yfGGikLG~ggL~rAY~~aa~~al~~a~~~~~~~~~~~~l~~~Y~~~~~v~~~l~~~~~~i~~~~y~~~~~~~v~~~~~v 185 (210)
-=--|+=|.|-++.--..+...++-.|+-.-.++.....+.|+=...+.+..+|++....+.+.+---+ ..--.++..+
T Consensus 694 HADAIHRGggQiipt~rr~~ya~~l~A~P~l~EPvylvEIq~pe~avGgiy~vLn~kRG~v~~e~q~~G-tp~f~vkayL 772 (842)
T KOG0469|consen 694 HADAIHRGGGQIIPTARRVLYASVLTAGPILQEPVYLVEIQCPEQAVGGIYGVLNRKRGHVFEEEQVPG-TPMFVVKAYL 772 (842)
T ss_pred ehhhhhcCCCeechHHHHHHHHHHHhcCceecCceEEEEEeCchhhhchhhheeeccccceecccccCC-CcceEEEEEe
Confidence 345566677777777777777777778777778888888999999999999999988777775544211 1134566678
Q ss_pred ecCCHHHHHHHHHHhcCCce
Q 028328 186 DFDRAENLEDAIKNNCRRDL 205 (210)
Q Consensus 186 ~~~~~~~~~~~L~~~t~G~~ 205 (210)
|..+-=-|...|+..|.|++
T Consensus 773 PVnESFgFt~dLrs~t~GqA 792 (842)
T KOG0469|consen 773 PVNESFGFTADLRSNTGGQA 792 (842)
T ss_pred ecccccccchhhhcccCCcc
Confidence 87777789999999999975
No 75
>PRK00110 hypothetical protein; Validated
Probab=24.83 E-value=1.5e+02 Score=26.44 Aligned_cols=30 Identities=13% Similarity=0.081 Sum_probs=23.8
Q ss_pred EEEEEEecCchHHHHHHHhhcCCeEEeeee
Q 028328 142 PMGVEVPFELLGILYHQLQLFQVEDTNQDY 171 (210)
Q Consensus 142 ~~~l~~~Y~~~~~v~~~l~~~~~~i~~~~y 171 (210)
.+.+.|+.+.+..+...|++.++++.+.+.
T Consensus 168 ~~~i~~~p~~~~~v~~~L~~~g~~~~~sei 197 (245)
T PRK00110 168 SFEVITAPEDFEAVRDALEAAGLEAESAEV 197 (245)
T ss_pred eEEEEECHHHHHHHHHHHHHcCCCeeeeEE
Confidence 478889999999999999888877765444
No 76
>PRK14444 acylphosphatase; Provisional
Probab=24.59 E-value=62 Score=24.29 Aligned_cols=43 Identities=9% Similarity=0.017 Sum_probs=29.0
Q ss_pred HHHHHhhcCCeEEeeeeCCCCCeeEEEEEEEecCCHHHHHHHHHHh
Q 028328 155 LYHQLQLFQVEDTNQDYDTGKDGIAMVTFKVDFDRAENLEDAIKNN 200 (210)
Q Consensus 155 v~~~l~~~~~~i~~~~y~~~~~~~v~~~~~v~~~~~~~~~~~L~~~ 200 (210)
+.++..++++.=-=++-. ||.|.+.++-+++.++.|.++|.+.
T Consensus 23 v~~~A~~lgl~G~V~N~~---dG~Vei~~qG~~~~i~~f~~~l~~g 65 (92)
T PRK14444 23 TRDRAREAGVKGWVRNLS---DGRVEAVFEGSRPAVQKMISWCYSG 65 (92)
T ss_pred HHHHHHHhCCEEEEEECC---CCcEEEEEEcCHHHHHHHHHHHHhC
Confidence 444555555542222323 3578999999999999999999854
No 77
>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=24.51 E-value=2.4e+02 Score=19.36 Aligned_cols=53 Identities=11% Similarity=0.162 Sum_probs=35.8
Q ss_pred chHHHHHHHhhcCCeEEeeeeCCCCC-----ee--EEEEEEEecC-CHHHHHHHHHHhcCC
Q 028328 151 LLGILYHQLQLFQVEDTNQDYDTGKD-----GI--AMVTFKVDFD-RAENLEDAIKNNCRR 203 (210)
Q Consensus 151 ~~~~v~~~l~~~~~~i~~~~y~~~~~-----~~--v~~~~~v~~~-~~~~~~~~L~~~t~G 203 (210)
....+-.+|.++++.|.+-.....+. +. ..+.+.+|.. ..++|++.|..+...
T Consensus 12 iv~~it~~l~~~~~nI~~~~~~~~~~~~~~~~~~~~~~~v~~p~~~~~~~l~~~l~~l~~~ 72 (81)
T cd04869 12 IVHEVTQFLAQRNINIEDLSTETYSAPMSGTPLFKAQATLALPAGTDLDALREELEELCDD 72 (81)
T ss_pred HHHHHHHHHHHcCCCeEEeEeeeecCCCCCcceEEEEEEEecCCCCCHHHHHHHHHHHHHH
Confidence 35678888899999999877633210 12 3456666654 578999988887643
No 78
>PRK03187 tgl transglutaminase; Provisional
Probab=23.36 E-value=1.5e+02 Score=27.25 Aligned_cols=47 Identities=15% Similarity=0.056 Sum_probs=40.1
Q ss_pred CeeeEEEEecceEEEEEeeCCCHHHHHHHHHHhcCCCCCceeeEEEEcc
Q 028328 21 TVTFEKEIKKSKFIAIAGPISNEQSAQSFLSQVSDPRATHNCWAYKVGN 69 (210)
Q Consensus 21 ~~~~e~~ikkS~Fi~~~~~~~~~~ea~~~l~~~~~~~A~H~~~Ayr~~~ 69 (210)
.++--+..-...|.||..-+.+.+++-..|.+.|+|+|++ .||.+..
T Consensus 187 qGeNaiyLgn~~yyGHGiGI~t~~~iI~~LN~~R~~~a~~--sAyL~~~ 233 (272)
T PRK03187 187 QGENVIYLGNGLYYGHGIGIKTAEEIIYALNERRKPGATQ--SAYLTDQ 233 (272)
T ss_pred cceeEEEecCCceeecccccccHHHHHHHHHhccCCCccc--cchhhcc
Confidence 3555678889999999999999999999999999999997 5776654
No 79
>PRK14427 acylphosphatase; Provisional
Probab=23.32 E-value=2.3e+02 Score=21.34 Aligned_cols=43 Identities=16% Similarity=0.224 Sum_probs=24.4
Q ss_pred HHHHHhhcCCeEEeeeeCCCCCeeEEEEEEEecCCHHHHHHHHHHh
Q 028328 155 LYHQLQLFQVEDTNQDYDTGKDGIAMVTFKVDFDRAENLEDAIKNN 200 (210)
Q Consensus 155 v~~~l~~~~~~i~~~~y~~~~~~~v~~~~~v~~~~~~~~~~~L~~~ 200 (210)
+.++..++++.=-=++-. |+.|.+.++-+++.+++|.++|..-
T Consensus 25 v~~~A~~lgl~G~V~N~~---dGsVei~~qG~~~~i~~f~~~l~~~ 67 (94)
T PRK14427 25 TMRKAEELGLTGTVRNLD---DGSVALVAEGTGEQVEKLLDWLNSD 67 (94)
T ss_pred HHHHHHHcCCEEEEEECC---CCeEEEEEEECHHHHHHHHHHHhhC
Confidence 444445555442222223 3457777777777777777777653
No 80
>cd04887 ACT_MalLac-Enz ACT_MalLac-Enz CD includes the N-terminal ACT domain of putative NAD-dependent malic enzyme 1, Bacillus subtilis YqkI and related domains. The ACT_MalLac-Enz CD includes the N-terminal ACT domain of putative NAD-dependent malic enzyme 1, Bacillus subtilis YqkI, a malolactic enzyme (MalLac-Enz) which converts malate to lactate, and other related ACT domains. The yqkJ product is predicted to convert malate directly to lactate, as opposed to related malic enzymes that convert malate to pyruvate. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=23.22 E-value=2.4e+02 Score=18.92 Aligned_cols=49 Identities=14% Similarity=0.051 Sum_probs=31.6
Q ss_pred hHHHHHHHhhcCCeEEeeeeCCCCCeeEEEEEEEecCCHHHHHHHHHHh
Q 028328 152 LGILYHQLQLFQVEDTNQDYDTGKDGIAMVTFKVDFDRAENLEDAIKNN 200 (210)
Q Consensus 152 ~~~v~~~l~~~~~~i~~~~y~~~~~~~v~~~~~v~~~~~~~~~~~L~~~ 200 (210)
+..+...+.+.++.|.+-+.....++...+.+.+...+.+.+.+-+..+
T Consensus 13 L~~i~~~i~~~~~nI~~v~~~~~~~~~~~~~~~vev~~~~~l~~i~~~L 61 (74)
T cd04887 13 LGRVTTAIGEAGGDIGAIDLVEQGRDYTVRDITVDAPSEEHAETIVAAV 61 (74)
T ss_pred HHHHHHHHHHcCCcEEEEEEEEecCCEEEEEEEEEcCCHHHHHHHHHHH
Confidence 5667788888898888655532222356677777766666666555544
No 81
>PRK14435 acylphosphatase; Provisional
Probab=23.19 E-value=2.1e+02 Score=21.30 Aligned_cols=42 Identities=10% Similarity=0.107 Sum_probs=26.1
Q ss_pred HHHHHhhcCCeEEeeeeCCCCCeeEEEEEEEecCCHHHHHHHHHH
Q 028328 155 LYHQLQLFQVEDTNQDYDTGKDGIAMVTFKVDFDRAENLEDAIKN 199 (210)
Q Consensus 155 v~~~l~~~~~~i~~~~y~~~~~~~v~~~~~v~~~~~~~~~~~L~~ 199 (210)
+.++..++++.=-=.+-.+ +.|.+.+.-+++.+++|.++|.+
T Consensus 21 v~~~A~~~gl~G~V~N~~d---G~Vei~~~G~~~~i~~f~~~l~~ 62 (90)
T PRK14435 21 TRRVAKSLGVKGYVMNMDD---GSVFIHAEGDENALRRFLNEVAK 62 (90)
T ss_pred HHHHHHHhCCEEEEEECCC---CCEEEEEEECHHHHHHHHHHHhh
Confidence 4555555665533333333 45777777777778888888764
No 82
>PRK14426 acylphosphatase; Provisional
Probab=23.06 E-value=3.2e+02 Score=20.32 Aligned_cols=43 Identities=16% Similarity=0.177 Sum_probs=26.4
Q ss_pred HHHHHhhcCCeEEeeeeCCCCCeeEEEEEEEecCCHHHHHHHHHHh
Q 028328 155 LYHQLQLFQVEDTNQDYDTGKDGIAMVTFKVDFDRAENLEDAIKNN 200 (210)
Q Consensus 155 v~~~l~~~~~~i~~~~y~~~~~~~v~~~~~v~~~~~~~~~~~L~~~ 200 (210)
+.+...++++.=-=++-.+ +.|.+.++-+++.++.|.++|.+-
T Consensus 23 v~~~A~~~gl~G~V~N~~d---G~Vei~~~G~~~~i~~f~~~l~~g 65 (92)
T PRK14426 23 TQHEALKLGLTGYAKNLDD---GSVEVVACGEEEQVEKLMEWLKEG 65 (92)
T ss_pred HHHHHHHhCCEEEEEECCC---CcEEEEEEeCHHHHHHHHHHHhcC
Confidence 4555555555533333333 457777777777788888777754
No 83
>PRK14448 acylphosphatase; Provisional
Probab=22.96 E-value=2e+02 Score=21.39 Aligned_cols=23 Identities=13% Similarity=0.062 Sum_probs=16.2
Q ss_pred eeEEEEEEEecCCHHHHHHHHHH
Q 028328 177 GIAMVTFKVDFDRAENLEDAIKN 199 (210)
Q Consensus 177 ~~v~~~~~v~~~~~~~~~~~L~~ 199 (210)
+.|.+.++-+++.++.|.++|.+
T Consensus 40 G~Vei~~~G~~~~v~~f~~~l~~ 62 (90)
T PRK14448 40 GSVEVVAVGSDAQIAAFRDWLQH 62 (90)
T ss_pred CCEEEEEEeCHHHHHHHHHHHHh
Confidence 35777777777777777777764
No 84
>PRK14445 acylphosphatase; Provisional
Probab=22.94 E-value=3.2e+02 Score=20.25 Aligned_cols=43 Identities=7% Similarity=0.064 Sum_probs=27.9
Q ss_pred HHHHHhhcCCeEEeeeeCCCCCeeEEEEEEEecCCHHHHHHHHHHh
Q 028328 155 LYHQLQLFQVEDTNQDYDTGKDGIAMVTFKVDFDRAENLEDAIKNN 200 (210)
Q Consensus 155 v~~~l~~~~~~i~~~~y~~~~~~~v~~~~~v~~~~~~~~~~~L~~~ 200 (210)
+.++..++++.=-=++-. ||.|.+.++-+++.++.|.++|.+.
T Consensus 23 v~~~A~~~gl~G~V~N~~---dG~Vei~~qG~~~~l~~f~~~l~~g 65 (91)
T PRK14445 23 IDRAASELNLSGWVRNLP---DGTVEIEAQGSSGMIDELIKQAERG 65 (91)
T ss_pred HHHHHhhCCCEEEEEECC---CCeEEEEEEECHHHHHHHHHHHHhC
Confidence 445555565553323333 3568888888888888888888753
No 85
>PRK12378 hypothetical protein; Provisional
Probab=22.30 E-value=96 Score=27.53 Aligned_cols=56 Identities=9% Similarity=-0.022 Sum_probs=37.5
Q ss_pred EEEEEEEecCchHHHHHHHhhcCCeEEeeeeCCCCCeeEEEEEEEecCCHHHHHHHHHHh
Q 028328 141 VPMGVEVPFELLGILYHQLQLFQVEDTNQDYDTGKDGIAMVTFKVDFDRAENLEDAIKNN 200 (210)
Q Consensus 141 ~~~~l~~~Y~~~~~v~~~l~~~~~~i~~~~y~~~~~~~v~~~~~v~~~~~~~~~~~L~~~ 200 (210)
..+.+.|+.+.+..+...|++.++++.+.+..-.|. -++.++.++.+.+...|..+
T Consensus 166 ~~~~i~t~p~~~~~v~~~L~~~g~~~~~sei~~~P~----~~v~l~~e~~~~~~~li~~L 221 (235)
T PRK12378 166 GTITVYTDPTDFHKVKKALEAAGIEFLVAELEMIPQ----NPVELSGEDLEQFEKLLDAL 221 (235)
T ss_pred CeEEEEECHHHHHHHHHHHHHcCCCceeeEEEEecC----CCccCCHHHHHHHHHHHHHH
Confidence 368899999999999999999988877665532221 12344655555555554443
No 86
>PRK14441 acylphosphatase; Provisional
Probab=22.16 E-value=87 Score=23.53 Aligned_cols=43 Identities=12% Similarity=0.005 Sum_probs=29.5
Q ss_pred HHHHHhhcCCeEEeeeeCCCCCeeEEEEEEEecCCHHHHHHHHHHh
Q 028328 155 LYHQLQLFQVEDTNQDYDTGKDGIAMVTFKVDFDRAENLEDAIKNN 200 (210)
Q Consensus 155 v~~~l~~~~~~i~~~~y~~~~~~~v~~~~~v~~~~~~~~~~~L~~~ 200 (210)
+.++.+++++.=-=++- +|+.|.+.++-+++.++.|.++|.+.
T Consensus 24 v~~~A~~lgL~G~V~N~---~dG~Vei~~qG~~~~i~~f~~~l~~g 66 (93)
T PRK14441 24 AADEARRLGVEGWVRNL---PDGRVEAEAEGERAAVGALVRWCHAG 66 (93)
T ss_pred HHHHHhhcCcEEEEEEC---CCCEEEEEEEECHHHHHHHHHHHhhC
Confidence 44555566655322232 34579999999999999999999753
No 87
>PRK14451 acylphosphatase; Provisional
Probab=22.12 E-value=1.3e+02 Score=22.41 Aligned_cols=42 Identities=12% Similarity=0.054 Sum_probs=26.6
Q ss_pred HHHHHhhcCCeEEeeeeCCCCCeeEEEEEEEecCCHHHHHHHHHH
Q 028328 155 LYHQLQLFQVEDTNQDYDTGKDGIAMVTFKVDFDRAENLEDAIKN 199 (210)
Q Consensus 155 v~~~l~~~~~~i~~~~y~~~~~~~v~~~~~v~~~~~~~~~~~L~~ 199 (210)
++++..++++.=-=.+-. ||.|.+.++-+++.+++|.++|.+
T Consensus 22 ~~~~A~~~gl~G~V~N~~---dG~Vei~~qG~~~~i~~f~~~l~~ 63 (89)
T PRK14451 22 AKKLAEQLMISGWARNLA---DGRVEVFACGKEDKLEEFYTWLQK 63 (89)
T ss_pred HHHHHHHhCCEEEEEECC---CCCEEEEEEECHHHHHHHHHHHhh
Confidence 444455555542222333 346888888888888888888875
No 88
>PRK07334 threonine dehydratase; Provisional
Probab=21.93 E-value=6.5e+02 Score=23.41 Aligned_cols=112 Identities=13% Similarity=0.035 Sum_probs=60.8
Q ss_pred CCCCCCCCChHHHHHHHhCC-CceEEEEEEEEecCeeecCcchhhhHHHHHHHHHHhCCeeEEEEEEEEEEEEe--cCch
Q 028328 76 DGEPSGTAGKPIHSAIVSSG-LDRIMVVVTRYFGGIKLGTGGLVRAYGGVASECLRNAPTILVKSRVPMGVEVP--FELL 152 (210)
Q Consensus 76 DGEPsGtAG~piL~vL~~~~-l~nv~vVV~RyfGGikLG~ggL~rAY~~aa~~al~~a~~~~~~~~~~~~l~~~--Y~~~ 152 (210)
-.|| ++|-.+..+++... +.+. .||+-.-||- .. .+-+......+|...+.. ..+.+... -..+
T Consensus 274 ~v~~--s~a~~~aa~~~~~~~~~~~-~vv~i~~ggn-~d----~~~l~~il~~~l~~~~y~-----v~l~I~~~dr~GlL 340 (403)
T PRK07334 274 VVEG--AGAAGLAALLAYPERFRGR-KVGLVLSGGN-ID----TRLLANVLLRGLVRAGRL-----ARLRVDIRDRPGAL 340 (403)
T ss_pred EEec--hHHHHHHHHHhCchhcCCC-eEEEEECCCC-CC----HHHHHHHHHHHHHhCCCE-----EEEEEEeCCCCCHH
Confidence 4678 44455555554222 3332 2333334442 11 355566666678777742 22222221 1125
Q ss_pred HHHHHHHhhcCCeEEeeeeCCC----CCeeEEEEEEEecCCHHHHHHHHHHh
Q 028328 153 GILYHQLQLFQVEDTNQDYDTG----KDGIAMVTFKVDFDRAENLEDAIKNN 200 (210)
Q Consensus 153 ~~v~~~l~~~~~~i~~~~y~~~----~~~~v~~~~~v~~~~~~~~~~~L~~~ 200 (210)
..+.+.|.+.++.|.+-..... +++...+.+.+...+.+.|.+-+..+
T Consensus 341 ~dI~~~is~~~~nI~~v~~~~~~~~~~~~~~~i~l~i~V~d~~~L~~vi~~L 392 (403)
T PRK07334 341 ARVTALIGEAGANIIEVSHQRLFTDLPAKGAELELVIETRDAAHLQEVIAAL 392 (403)
T ss_pred HHHHHHHhhCCCceEEEEEEecccCCCCCeEEEEEEEEeCCHHHHHHHHHHH
Confidence 5666777788888887776421 23466777777777777666666655
No 89
>PRK14447 acylphosphatase; Provisional
Probab=21.88 E-value=1.5e+02 Score=22.34 Aligned_cols=42 Identities=10% Similarity=-0.013 Sum_probs=28.3
Q ss_pred HHHHHhhcCCeEEeeeeCCCCCe-eEEEEEEEecCCHHHHHHHHHH
Q 028328 155 LYHQLQLFQVEDTNQDYDTGKDG-IAMVTFKVDFDRAENLEDAIKN 199 (210)
Q Consensus 155 v~~~l~~~~~~i~~~~y~~~~~~-~v~~~~~v~~~~~~~~~~~L~~ 199 (210)
++++..++++.=-=++- +|| .|.+.++-+++.+++|.++|.+
T Consensus 23 ~~~~A~~~gl~G~V~N~---~dG~~Vei~~qG~~~~l~~f~~~l~~ 65 (95)
T PRK14447 23 MKEVANRNGVRGWVRNR---SDGRTVEAVLEGPRDAVLKVIEWARV 65 (95)
T ss_pred HHHHHhhcCeEEEEEEC---CCCCEEEEEEEeCHHHHHHHHHHHhh
Confidence 45555666654222222 346 4888889999999999998885
No 90
>cd04907 ACT_ThrD-I_2 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase). This CD includes the second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase) which catalyzes the committed step in branched chain amino acid biosynthesis in plants and microorganisms, the pyridoxal 5'-phosphate (PLP)-dependent dehydration/deamination of L-threonine (or L-serine) to 2-ketobutyrate (or pyruvate). ThrD-I is a cooperative, feedback-regulated (isoleucine and valine) allosteric enzyme that forms a tetramer and contains four pyridoxal phosphate moieties. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=21.72 E-value=3.2e+02 Score=19.83 Aligned_cols=55 Identities=18% Similarity=0.157 Sum_probs=36.4
Q ss_pred EEecC-chHHHHHHHhhcC--CeEEeeeeC--CCCCeeEEEEEEEecCCHHHHHHHHHHh
Q 028328 146 EVPFE-LLGILYHQLQLFQ--VEDTNQDYD--TGKDGIAMVTFKVDFDRAENLEDAIKNN 200 (210)
Q Consensus 146 ~~~Y~-~~~~v~~~l~~~~--~~i~~~~y~--~~~~~~v~~~~~v~~~~~~~~~~~L~~~ 200 (210)
.+..+ .-|.+.++++..+ ..|.+-.|. .+..+.|-+-++++..+.+.+.+.|++.
T Consensus 5 ~v~iPErpGal~~Fl~~l~p~~~ITeF~YR~~~~~~a~vlvGi~~~~~~~~~l~~~l~~~ 64 (81)
T cd04907 5 RFEFPERPGALKKFLNELLPKWNITLFHYRNQGSDYGRVLVGIQVPDADLDELKERLDAL 64 (81)
T ss_pred EEEcCCCCCHHHHHHHHhCCCCeEeEEEEecCCCCceeEEEEEEeChHHHHHHHHHHHHc
Confidence 44444 4677888887655 567777773 2233457778888766777888888764
No 91
>TIGR02884 spore_pdaA delta-lactam-biosynthetic de-N-acetylase. Muramic delta-lactam is an unusual constituent of peptidoglycan, found only in bacterial spores in the peptidoglycan wall, or spore cortex. The proteins in this family are PdaA (yfjS), a member of a larger family of polysaccharide deacetylases, and are specificially involved in delta-lactam biosynthesis. PdaA acts immediately after CwlD, an N-acetylmuramoyl-L-alanine amidase and performs a de-N-acetylation. PdaA may also perform the following transpeptidation for lactam ring formation, as heterologous expression in E. coli of CwlD and PdaA together is sufficient for delta-lactam production.
Probab=21.59 E-value=86 Score=26.79 Aligned_cols=82 Identities=10% Similarity=0.041 Sum_probs=46.7
Q ss_pred hHHHHHHHhCCCceEEEEEEEEec------------CeeecCcchh----hhHH--------HHHHHHHHhCCeeEEEEE
Q 028328 85 KPIHSAIVSSGLDRIMVVVTRYFG------------GIKLGTGGLV----RAYG--------GVASECLRNAPTILVKSR 140 (210)
Q Consensus 85 ~piL~vL~~~~l~nv~vVV~RyfG------------GikLG~ggL~----rAY~--------~aa~~al~~a~~~~~~~~ 140 (210)
..||++|+++++.-+.-|+.+|-+ |--+|.-+.. ..++ ..+.++|++.. -.
T Consensus 53 ~~lL~~L~~~~vkATFFv~G~~~~~~p~~ir~i~~~GheIgnHt~~H~~~~~ls~~~~~~ei~~~~~~i~~~~-----G~ 127 (224)
T TIGR02884 53 PKILDVLKEKKVPAAFFVTGHYIKTQPDLIKRMVDEGHIVGNHSVHHPSLTAVNDEKFKEELTGVEEEFKKVT-----GQ 127 (224)
T ss_pred HHHHHHHHHcCCCeEEEeechhhHHCHHHHHHHHHcCCEeeecCccCcCcccCCHHHHHHHHHHHHHHHHHHh-----CC
Confidence 469999999999998888887753 2233332210 0011 11222232211 11
Q ss_pred E-EEEEEEecCchH-HHHHHHhhcCCeEEeeee
Q 028328 141 V-PMGVEVPFELLG-ILYHQLQLFQVEDTNQDY 171 (210)
Q Consensus 141 ~-~~~l~~~Y~~~~-~v~~~l~~~~~~i~~~~y 171 (210)
. ..-+..||...+ .+..++++.|.+.+..+.
T Consensus 128 ~~~~~fR~P~G~~~~~~~~~l~~~Gy~~v~w~v 160 (224)
T TIGR02884 128 KEMKYFRPPRGVFSERTLAYTKELGYYTVFWSL 160 (224)
T ss_pred CCCCEEeCCCCCcCHHHHHHHHHcCCcEEeccc
Confidence 1 234677776644 588888998888775444
No 92
>cd04879 ACT_3PGDH-like ACT_3PGDH-like CD includes the C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH). ACT_3PGDH-like: The ACT_3PGDH-like CD includes the C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH), with or without an extended C-terminal (xct) region found in various bacteria, archaea, fungi, and plants. 3PGDH is an enzyme that belongs to the D-isomer specific, 2-hydroxyacid dehydrogenase family and catalyzes the oxidation of D-3-phosphoglycerate to 3- phosphohydroxypyruvate, which is the first step in the biosynthesis of L-serine, using NAD+ as the oxidizing agent. In bacteria, 3PGDH is feedback controlled by the end product L-serine in an allosteric manner. In the Escherichia coli homotetrameric enzyme, the interface at adjacent ACT (regulatory) domains couples to create an extended beta-sheet. Each regulatory interface forms two serine-binding sites. The mechanism by which serine transmits inhibition to the active
Probab=21.28 E-value=2.3e+02 Score=18.01 Aligned_cols=49 Identities=18% Similarity=0.207 Sum_probs=31.5
Q ss_pred hHHHHHHHhhcCCeEEeeeeCCCC-CeeEEEEEEEecCCHHHHHHHHHHh
Q 028328 152 LGILYHQLQLFQVEDTNQDYDTGK-DGIAMVTFKVDFDRAENLEDAIKNN 200 (210)
Q Consensus 152 ~~~v~~~l~~~~~~i~~~~y~~~~-~~~v~~~~~v~~~~~~~~~~~L~~~ 200 (210)
...+...+.++++.|.+....... ++...+.+.+.....+.+.+.|++.
T Consensus 13 l~~i~~~l~~~~~nI~~~~~~~~~~~~~~~~~~~v~~~~~~~l~~~l~~~ 62 (71)
T cd04879 13 IGKVGTILGEHGINIAAMQVGRKEKGGIAYMVLDVDSPVPEEVLEELKAL 62 (71)
T ss_pred HHHHHHHHHhcCCCeeeEEEeccCCCCEEEEEEEcCCCCCHHHHHHHHcC
Confidence 556777788888888765543321 2345667777655566777777665
No 93
>cd04922 ACT_AKi-HSDH-ThrA_2 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH). This CD includes the second of two ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH). The ACT domains are positioned between the N-terminal catalytic domain of AK and the C-terminal HSDH domain found in bacteria (Escherichia coli (EC) ThrA) and higher plants (Zea mays AK-HSDH). AK and HSDH are the first and third enzymes in the biosynthetic pathway of the aspartate family of amino acids. AK catalyzes the phosphorylation of Asp to P-aspartyl phosphate. HSDH catalyzes the NADPH-dependent conversion of Asp 3-semialdehyde to homoserine. HSDH is the first committed reaction in the branch of the pathway that leads to Thr and Met. In E. coli, ThrA is subject to allosteric regulation by the end product L-threonine and the native enzyme is reported to be tetrameric. As with bacteria, plant AK and HSDH are feedback inhibited by pathwa
Probab=21.18 E-value=2.5e+02 Score=18.24 Aligned_cols=47 Identities=13% Similarity=0.108 Sum_probs=31.7
Q ss_pred chHHHHHHHhhcCCeEEeeeeCCCCCeeEEEEEEEecCCHHHHHHHHHHh
Q 028328 151 LLGILYHQLQLFQVEDTNQDYDTGKDGIAMVTFKVDFDRAENLEDAIKNN 200 (210)
Q Consensus 151 ~~~~v~~~l~~~~~~i~~~~y~~~~~~~v~~~~~v~~~~~~~~~~~L~~~ 200 (210)
....+...|.+.++.+.--.++.. ...+++.++.++.++..+.|.+.
T Consensus 17 ~~~~i~~~l~~~~I~v~~i~~~~s---~~~is~~v~~~~~~~~~~~lh~~ 63 (66)
T cd04922 17 VAATFFSALAKANVNIRAIAQGSS---ERNISAVIDEDDATKALRAVHER 63 (66)
T ss_pred HHHHHHHHHHHCCCCEEEEEecCc---ccEEEEEEeHHHHHHHHHHHHHH
Confidence 355677777888888744443221 26888899988888777776653
No 94
>PRK14446 acylphosphatase; Provisional
Probab=20.88 E-value=1.5e+02 Score=22.25 Aligned_cols=43 Identities=14% Similarity=0.044 Sum_probs=28.9
Q ss_pred HHHHHhhcCCeEEeeeeCCCCCeeEEEEEEEecCCHHHHHHHHHHh
Q 028328 155 LYHQLQLFQVEDTNQDYDTGKDGIAMVTFKVDFDRAENLEDAIKNN 200 (210)
Q Consensus 155 v~~~l~~~~~~i~~~~y~~~~~~~v~~~~~v~~~~~~~~~~~L~~~ 200 (210)
+.++.+++++.=-=++- +|+.|.+.++-+++.++.|.++|.+.
T Consensus 21 v~~~A~~lgl~G~V~N~---~dGsVei~~qG~~~~l~~f~~~l~~g 63 (88)
T PRK14446 21 TRERAVALGLVGHARNQ---ADGSVEVVAAGSAAALEALEAWLWQG 63 (88)
T ss_pred HHHHHeeCCeEEEEEEC---CCCCEEEEEEeCHHHHHHHHHHHhhC
Confidence 45555666654222222 34578999998888899999998853
No 95
>PRK14425 acylphosphatase; Provisional
Probab=20.84 E-value=3.7e+02 Score=20.16 Aligned_cols=43 Identities=5% Similarity=0.013 Sum_probs=25.8
Q ss_pred HHHHHhhcCCeEEeeeeCCCCCeeEEEEEEEecCCHHHHHHHHHHh
Q 028328 155 LYHQLQLFQVEDTNQDYDTGKDGIAMVTFKVDFDRAENLEDAIKNN 200 (210)
Q Consensus 155 v~~~l~~~~~~i~~~~y~~~~~~~v~~~~~v~~~~~~~~~~~L~~~ 200 (210)
+.++..++++.=-=.+-. ||.|.+.+.-+.+.++.|.++|.+.
T Consensus 25 v~~~A~~~gl~G~V~N~~---dGsVei~~qG~~~~le~f~~~l~~g 67 (94)
T PRK14425 25 TRDEAERLGLTGWVRNES---DGSVTALIAGPDSAISAMIERFRRG 67 (94)
T ss_pred HHHHHHHhCCEEEEEECC---CCeEEEEEEeCHHHHHHHHHHHhhC
Confidence 444455555443323333 3467777777777778888877753
No 96
>PRK14440 acylphosphatase; Provisional
Probab=20.83 E-value=2.3e+02 Score=21.13 Aligned_cols=42 Identities=12% Similarity=0.068 Sum_probs=25.7
Q ss_pred HHHHHhhcCCeEEeeeeCCCCCeeEEEEEEEecCCHHHHHHHHHH
Q 028328 155 LYHQLQLFQVEDTNQDYDTGKDGIAMVTFKVDFDRAENLEDAIKN 199 (210)
Q Consensus 155 v~~~l~~~~~~i~~~~y~~~~~~~v~~~~~v~~~~~~~~~~~L~~ 199 (210)
+++...++++.=.=++-.+ +.|.+.+.-+++.++.|.++|++
T Consensus 22 v~~~A~~~gl~G~V~N~~d---G~Vei~~~G~~~~v~~f~~~l~~ 63 (90)
T PRK14440 22 VQIHAIRLGIKGYAKNLPD---GSVEVVAEGYEEALSKLLERIKQ 63 (90)
T ss_pred HHHHHHHcCCEEEEEECCC---CCEEEEEEcCHHHHHHHHHHHhh
Confidence 4555555555533333333 45777777777777777777774
No 97
>PF06718 DUF1203: Protein of unknown function (DUF1203); InterPro: IPR009593 This family consists of several hypothetical bacterial proteins of around 155 residues in length. Family members are present in Rhizobium, Agrobacterium and Streptomyces species.
Probab=20.77 E-value=82 Score=25.14 Aligned_cols=13 Identities=23% Similarity=0.647 Sum_probs=11.8
Q ss_pred CCCCceeeEEEEc
Q 028328 56 PRATHNCWAYKVG 68 (210)
Q Consensus 56 ~~A~H~~~Ayr~~ 68 (210)
..|++.||++|+.
T Consensus 104 r~a~~GCf~~ri~ 116 (117)
T PF06718_consen 104 RNARNGCFACRIE 116 (117)
T ss_pred eccCCCeEEEEEe
Confidence 7999999999983
Done!