Query 005392
Match_columns 698
No_of_seqs 560 out of 2843
Neff 5.3
Searched_HMMs 46136
Date Thu Mar 28 22:43:47 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/005392.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/005392hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 COG0317 SpoT Guanosine polypho 100.0 6E-117 1E-121 1003.2 30.6 407 9-531 65-500 (701)
2 PRK10872 relA (p)ppGpp synthet 100.0 3E-112 7E-117 977.4 27.4 413 8-531 70-521 (743)
3 PRK11092 bifunctional (p)ppGpp 100.0 4E-110 9E-115 961.7 31.5 405 8-529 60-497 (702)
4 TIGR00691 spoT_relA (p)ppGpp s 100.0 3E-104 6E-109 914.9 31.7 406 9-531 36-473 (683)
5 KOG1157 Predicted guanosine po 100.0 2E-66 4.3E-71 547.8 19.7 284 9-405 116-400 (543)
6 PF13328 HD_4: HD domain; PDB: 100.0 8.2E-30 1.8E-34 245.0 0.2 121 5-136 33-153 (153)
7 PF04607 RelA_SpoT: Region fou 99.9 2.9E-28 6.3E-33 222.5 7.6 108 284-402 1-114 (115)
8 cd05399 NT_Rel-Spo_like Nucleo 99.9 2.7E-27 5.8E-32 220.9 12.2 118 259-391 6-129 (129)
9 COG2357 PpGpp synthetase catal 99.9 5.9E-27 1.3E-31 236.7 9.9 139 256-407 31-182 (231)
10 COG0317 SpoT Guanosine polypho 99.9 5.8E-23 1.3E-27 235.6 6.4 90 600-698 355-448 (701)
11 PRK11092 bifunctional (p)ppGpp 99.9 2.3E-22 4.9E-27 233.8 6.9 88 602-698 356-447 (702)
12 PRK10872 relA (p)ppGpp synthet 99.8 1.8E-20 3.9E-25 217.9 5.7 91 599-698 371-465 (743)
13 TIGR00691 spoT_relA (p)ppGpp s 99.8 2.8E-19 6.1E-24 208.3 7.2 88 602-698 330-421 (683)
14 PF02824 TGS: TGS domain; Int 99.4 8.5E-14 1.8E-18 114.7 4.2 56 643-698 1-60 (60)
15 cd01668 TGS_RelA_SpoT TGS_RelA 98.8 1.6E-08 3.5E-13 81.5 7.0 56 643-698 1-60 (60)
16 cd01666 TGS_DRG_C TGS_DRG_C: 98.8 6.6E-09 1.4E-13 89.6 4.3 49 650-698 16-75 (75)
17 cd01669 TGS_Ygr210_C TGS_Ygr21 98.8 7.6E-09 1.6E-13 89.5 4.6 48 650-698 22-76 (76)
18 PRK01777 hypothetical protein; 98.3 1.2E-06 2.7E-11 78.9 7.3 56 641-697 7-74 (95)
19 PF02824 TGS: TGS domain; Int 98.2 5E-07 1.1E-11 74.6 1.3 49 436-491 2-60 (60)
20 cd01616 TGS The TGS domain, na 98.2 4.2E-06 9.1E-11 65.7 6.5 54 645-698 3-60 (60)
21 PRK05659 sulfur carrier protei 98.0 1.1E-05 2.4E-10 67.2 6.3 53 646-698 3-61 (66)
22 PRK06944 sulfur carrier protei 97.9 2.1E-05 4.5E-10 65.3 6.4 52 647-698 4-60 (65)
23 PRK06437 hypothetical protein; 97.9 2.3E-05 5E-10 66.2 6.2 53 646-698 5-62 (67)
24 cd00565 ThiS ThiaminS ubiquiti 97.9 2.2E-05 4.9E-10 65.4 5.5 52 647-698 3-60 (65)
25 PF14451 Ub-Mut7C: Mut7-C ubiq 97.8 4.2E-05 9E-10 67.2 6.1 46 652-697 26-74 (81)
26 PRK07440 hypothetical protein; 97.7 6.6E-05 1.4E-09 64.0 6.2 54 645-698 6-65 (70)
27 PRK09602 translation-associate 97.7 2.4E-05 5.2E-10 87.1 4.4 46 652-698 342-394 (396)
28 PRK08364 sulfur carrier protei 97.7 7.9E-05 1.7E-09 63.3 6.4 47 652-698 17-65 (70)
29 COG2104 ThiS Sulfur transfer p 97.7 9.4E-05 2E-09 62.9 5.9 50 649-698 8-63 (68)
30 TIGR01683 thiS thiamine biosyn 97.7 0.00011 2.3E-09 61.2 6.2 50 649-698 4-59 (64)
31 PRK07696 sulfur carrier protei 97.6 0.0001 2.2E-09 62.2 5.5 52 647-698 4-62 (67)
32 cd01667 TGS_ThrRS_N TGS _ThrRS 97.6 0.00021 4.6E-09 56.4 6.4 53 646-698 4-60 (61)
33 cd04938 TGS_Obg-like TGS_Obg-l 97.6 0.00013 2.7E-09 63.4 5.3 48 651-698 24-76 (76)
34 PRK08053 sulfur carrier protei 97.5 0.0003 6.5E-09 59.0 6.2 53 646-698 3-61 (66)
35 PRK06488 sulfur carrier protei 97.3 0.00046 1E-08 57.5 5.8 50 648-698 5-60 (65)
36 PF03658 Ub-RnfH: RnfH family 97.3 0.00022 4.8E-09 63.0 3.6 55 642-697 5-71 (84)
37 cd01669 TGS_Ygr210_C TGS_Ygr21 97.2 0.00024 5.2E-09 61.7 2.5 43 444-491 27-76 (76)
38 PRK05863 sulfur carrier protei 97.0 0.0011 2.3E-08 55.6 5.2 53 646-698 3-60 (65)
39 cd01666 TGS_DRG_C TGS_DRG_C: 96.9 0.00044 9.6E-09 59.9 1.7 46 444-491 21-75 (75)
40 PRK06083 sulfur carrier protei 96.9 0.0027 5.8E-08 56.2 6.4 58 641-698 16-79 (84)
41 cd00754 MoaD Ubiquitin domain 96.8 0.0025 5.3E-08 54.5 5.4 48 651-698 18-75 (80)
42 PLN02799 Molybdopterin synthas 96.6 0.0043 9.3E-08 53.8 5.5 50 649-698 19-77 (82)
43 TIGR03276 Phn-HD phosphonate d 96.2 0.0064 1.4E-07 61.0 4.7 47 7-53 40-103 (179)
44 PF02597 ThiS: ThiS family; I 96.1 0.0072 1.6E-07 51.2 4.2 48 651-698 14-72 (77)
45 TIGR01682 moaD molybdopterin c 95.7 0.025 5.3E-07 48.9 6.0 47 651-697 18-74 (80)
46 COG2914 Uncharacterized protei 95.7 0.012 2.6E-07 53.0 4.0 46 652-697 20-74 (99)
47 cd01668 TGS_RelA_SpoT TGS_RelA 94.8 0.025 5.4E-07 45.3 2.9 48 437-491 3-60 (60)
48 PTZ00258 GTP-binding protein; 94.4 0.051 1.1E-06 60.8 5.2 55 643-697 305-385 (390)
49 PRK14707 hypothetical protein; 94.2 0.12 2.6E-06 66.6 8.1 108 283-402 2308-2424(2710)
50 COG1163 DRG Predicted GTPase [ 94.0 0.038 8.3E-07 60.1 3.0 46 652-697 307-363 (365)
51 TIGR01687 moaD_arch MoaD famil 93.5 0.15 3.3E-06 44.6 5.4 45 652-697 19-82 (88)
52 PRK11130 moaD molybdopterin sy 93.2 0.28 6E-06 42.7 6.5 41 657-697 24-75 (81)
53 PRK12444 threonyl-tRNA synthet 93.0 0.2 4.4E-06 59.3 7.0 56 643-698 6-65 (639)
54 cd01764 Urm1 Urm1-like ubuitin 91.7 0.3 6.5E-06 44.1 5.0 41 657-697 27-88 (94)
55 PLN02908 threonyl-tRNA synthet 91.3 0.99 2.2E-05 54.1 10.3 58 641-698 50-112 (686)
56 PRK09602 translation-associate 91.0 0.083 1.8E-06 59.2 0.8 45 444-493 345-396 (396)
57 PF14453 ThiS-like: ThiS-like 91.0 0.71 1.5E-05 38.3 6.0 49 649-697 6-54 (57)
58 cd01616 TGS The TGS domain, na 90.6 0.23 4.9E-06 38.5 2.8 41 444-491 13-60 (60)
59 PRK05659 sulfur carrier protei 85.2 0.8 1.7E-05 38.0 2.9 43 443-492 11-62 (66)
60 PRK14707 hypothetical protein; 85.2 2.2 4.8E-05 55.9 7.7 103 287-401 2544-2654(2710)
61 PRK09169 hypothetical protein; 84.5 2.7 5.9E-05 55.6 8.3 108 283-402 1917-2034(2316)
62 PF03658 Ub-RnfH: RnfH family 84.1 0.47 1E-05 42.2 1.1 22 470-493 53-74 (84)
63 PRK01777 hypothetical protein; 84.1 0.76 1.7E-05 41.7 2.4 23 469-493 55-77 (95)
64 TIGR02988 YaaA_near_RecF S4 do 83.9 1 2.2E-05 36.8 2.9 26 671-696 32-58 (59)
65 PF01479 S4: S4 domain; Inter 82.5 0.75 1.6E-05 35.7 1.5 24 671-694 24-48 (48)
66 cd04938 TGS_Obg-like TGS_Obg-l 81.4 1.2 2.7E-05 38.7 2.6 42 444-491 28-76 (76)
67 COG2104 ThiS Sulfur transfer p 81.0 1.3 2.9E-05 37.8 2.6 22 469-492 39-64 (68)
68 cd01667 TGS_ThrRS_N TGS _ThrRS 80.4 1.5 3.2E-05 34.2 2.6 41 444-491 13-60 (61)
69 PRK09601 GTP-binding protein Y 80.1 1.6 3.4E-05 48.7 3.5 53 645-697 283-361 (364)
70 PRK00413 thrS threonyl-tRNA sy 78.4 1.6 3.4E-05 51.7 3.1 45 444-495 14-65 (638)
71 cd00565 ThiS ThiaminS ubiquiti 78.1 1.8 3.8E-05 36.0 2.5 22 469-492 36-61 (65)
72 smart00363 S4 S4 RNA-binding d 77.5 2.1 4.5E-05 33.0 2.6 26 672-697 25-51 (60)
73 PRK07440 hypothetical protein; 75.6 2.8 6.1E-05 35.8 3.1 43 443-492 15-66 (70)
74 COG1977 MoaD Molybdopterin con 73.1 3.2 6.8E-05 36.6 2.8 42 656-697 25-78 (84)
75 PRK06437 hypothetical protein; 72.5 2.6 5.7E-05 35.6 2.1 22 469-492 42-63 (67)
76 COG1188 Ribosome-associated he 71.4 4.3 9.2E-05 37.4 3.3 25 673-697 34-58 (100)
77 PF01966 HD: HD domain; Inter 68.8 4.7 0.0001 35.6 3.0 16 89-104 107-122 (122)
78 PF13510 Fer2_4: 2Fe-2S iron-s 66.4 12 0.00025 32.9 4.9 54 643-696 3-79 (82)
79 PF00498 FHA: FHA domain; Int 66.4 3.9 8.4E-05 33.6 1.8 24 673-696 42-67 (68)
80 PRK08053 sulfur carrier protei 66.1 5.7 0.00012 33.2 2.8 22 469-492 37-62 (66)
81 PRK08364 sulfur carrier protei 64.2 6.9 0.00015 33.2 3.0 22 469-492 45-66 (70)
82 cd00165 S4 S4/Hsp/ tRNA synthe 63.9 6.7 0.00015 31.0 2.8 25 672-696 25-50 (70)
83 PRK06488 sulfur carrier protei 61.1 8.3 0.00018 32.0 2.9 22 469-492 36-61 (65)
84 TIGR01683 thiS thiamine biosyn 60.7 4.7 0.0001 33.4 1.3 22 469-492 35-60 (64)
85 PRK07696 sulfur carrier protei 58.5 9 0.00019 32.3 2.7 22 469-492 38-63 (67)
86 COG3383 Uncharacterized anaero 57.4 19 0.00041 43.7 5.9 55 642-696 4-76 (978)
87 PRK12703 tRNA 2'-O-methylase; 54.2 29 0.00063 38.6 6.4 50 91-146 282-331 (339)
88 PRK06944 sulfur carrier protei 52.1 13 0.00028 30.6 2.6 22 469-492 36-61 (65)
89 PF14451 Ub-Mut7C: Mut7-C ubiq 50.5 17 0.00036 32.2 3.2 30 450-490 45-74 (81)
90 PRK06083 sulfur carrier protei 48.2 10 0.00022 33.7 1.5 22 469-492 55-80 (84)
91 PRK05327 rpsD 30S ribosomal pr 45.1 19 0.00041 37.0 3.1 26 672-697 117-143 (203)
92 PTZ00305 NADH:ubiquinone oxido 44.9 43 0.00093 36.5 5.8 51 646-696 71-142 (297)
93 PRK00413 thrS threonyl-tRNA sy 43.5 18 0.00038 43.0 2.9 30 669-698 32-61 (638)
94 cd00754 MoaD Ubiquitin domain 43.3 20 0.00042 30.4 2.4 22 469-492 55-76 (80)
95 cd01809 Scythe_N Ubiquitin-lik 42.9 65 0.0014 26.4 5.5 55 643-697 3-70 (72)
96 smart00471 HDc Metal dependent 41.5 33 0.00071 29.6 3.7 21 89-109 100-120 (124)
97 TIGR03401 cyanamide_fam HD dom 40.9 34 0.00074 35.8 4.2 27 90-116 152-179 (228)
98 COG0522 RpsD Ribosomal protein 39.6 30 0.00064 35.8 3.5 34 664-697 99-144 (205)
99 TIGR02008 fdx_plant ferredoxin 39.1 32 0.0007 30.9 3.3 24 647-670 9-34 (97)
100 TIGR01017 rpsD_bact ribosomal 37.3 31 0.00066 35.4 3.2 25 673-697 115-140 (200)
101 PRK03826 5'-nucleotidase; Prov 36.8 29 0.00062 35.5 2.9 17 8-24 55-71 (195)
102 COG1977 MoaD Molybdopterin con 36.1 37 0.0008 29.9 3.1 30 456-492 51-80 (84)
103 CHL00113 rps4 ribosomal protei 35.2 32 0.0007 35.4 2.9 28 670-697 111-139 (201)
104 TIGR02007 fdx_isc ferredoxin, 33.6 50 0.0011 30.4 3.7 28 642-669 3-34 (110)
105 COG0012 Predicted GTPase, prob 33.1 14 0.00031 41.4 -0.1 46 651-696 320-368 (372)
106 PRK11507 ribosome-associated p 32.7 45 0.00098 28.9 3.0 27 670-696 34-61 (70)
107 PLN00051 RNA-binding S4 domain 32.5 38 0.00082 36.4 3.1 27 671-697 214-241 (267)
108 PF02597 ThiS: ThiS family; I 32.2 39 0.00085 28.2 2.5 22 469-492 49-73 (77)
109 TIGR03069 PS_II_S4 photosystem 32.2 42 0.00091 35.8 3.3 27 671-697 206-233 (257)
110 cd01805 RAD23_N Ubiquitin-like 32.1 1.6E+02 0.0034 24.6 6.3 56 642-697 2-72 (77)
111 PF09138 Urm1: Urm1 (Ubiquitin 31.6 46 0.001 30.5 3.0 47 652-698 21-91 (96)
112 PTZ00258 GTP-binding protein; 31.1 27 0.00059 39.5 1.8 49 444-492 320-387 (390)
113 COG2914 Uncharacterized protei 30.6 38 0.00082 31.1 2.2 22 470-493 56-77 (99)
114 PRK10119 putative hydrolase; P 30.5 44 0.00095 35.2 3.1 19 90-108 118-136 (231)
115 PRK12577 succinate dehydrogena 30.0 72 0.0016 35.1 4.8 39 652-690 22-78 (329)
116 PLN02799 Molybdopterin synthas 29.1 47 0.001 28.6 2.5 22 469-492 57-78 (82)
117 cd00196 UBQ Ubiquitin-like pro 28.1 1.7E+02 0.0038 21.1 5.4 48 650-697 9-67 (69)
118 TIGR00384 dhsB succinate dehyd 27.7 64 0.0014 33.2 3.7 40 653-692 19-77 (220)
119 PF04753 Corona_NS2: Coronavir 26.8 34 0.00073 31.4 1.2 12 140-151 20-31 (109)
120 PRK10348 ribosome-associated h 26.6 67 0.0015 31.2 3.3 25 673-697 34-58 (133)
121 cd00118 LysM Lysin domain, fou 25.1 51 0.0011 23.1 1.8 42 653-696 3-45 (46)
122 PRK11840 bifunctional sulfur c 24.9 54 0.0012 36.3 2.6 24 659-682 259-282 (326)
123 PRK11025 23S rRNA pseudouridyl 24.1 67 0.0015 34.9 3.2 25 672-696 44-68 (317)
124 smart00257 LysM Lysin motif. 24.0 58 0.0013 22.4 1.9 42 653-696 2-44 (44)
125 cd01806 Nedd8 Nebb8-like ubiq 22.6 4E+02 0.0087 21.9 7.0 55 643-697 3-70 (76)
126 cd04867 TGS_YchF_C TGS_YchF_C: 22.5 47 0.001 29.8 1.3 43 651-697 13-82 (83)
127 COG0564 RluA Pseudouridylate s 22.4 71 0.0015 34.6 2.9 25 673-697 37-61 (289)
128 cd00060 FHA Forkhead associate 21.3 90 0.002 26.8 2.9 24 674-697 67-92 (102)
129 PRK10713 2Fe-2S ferredoxin Yfa 21.2 1.1E+02 0.0024 26.7 3.4 26 645-670 5-31 (84)
No 1
>COG0317 SpoT Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]
Probab=100.00 E-value=6e-117 Score=1003.23 Aligned_cols=407 Identities=40% Similarity=0.646 Sum_probs=369.6
Q ss_pred CChHHHHHHhhcccccccCCCHHHHHHHhcHHHHHHHHHhhhhhhhhHHHHHHHhhhccCCCcchhhHHHHHHHHhhccC
Q 005392 9 RAVDTVVAGILHDVVDDACESLGSIEEEFGDEVAKLVAGVSRLSYINQLLRRHRRINVNQGTLGHEEANDLRVMLLGMVD 88 (698)
Q Consensus 9 ~d~~tIiAALLHDvVEDT~~T~eeI~~~FG~~VA~LV~gvTKl~~i~~~~r~~~rk~~~~~~~~~~qae~lRkmlLam~~ 88 (698)
.|.++++||||||++|||++|.++|++.||++||+||+||||++.+.... .....|+||+|||+|||++
T Consensus 65 ~d~~tl~AaLLHD~vEDt~~t~e~i~~~FG~eVa~LV~GvTkl~~i~~~~-----------~~~~~qaen~rkmllAm~~ 133 (701)
T COG0317 65 MDMETLAAALLHDTIEDTPVTEELIEEIFGKEVAKLVEGVTKLKKIGQLS-----------SEEELQAENLRKMLLAMVK 133 (701)
T ss_pred CCHHHHHHHHccchHhcCCCCHHHHHHHHCHHHHHHHhhHHHhhhhhccC-----------ccchhHHHHHHHHHHHhcc
Confidence 68899999999999999999999999999999999999999998874211 1123489999999999999
Q ss_pred CccEEeehhhhHHhhhhccccCChHHHHHHHHHHHHHHHHHHHHhCchHHHHHHHHHHHHhhCHHHHHHHHHHHhhccCC
Q 005392 89 DPRVVLIKLADRLHNMRTIYALPPAKARAVAQETLLIWCSLASRLGLWALKAELEDLCFAVLQPQIFRKMRADLASMWSP 168 (698)
Q Consensus 89 D~RVvlIKLADRLhNmRtl~~~~~ek~~~iA~ETl~IyaPLA~RLGi~~ik~ELEDL~F~~L~P~~y~~i~~~l~~~~~~ 168 (698)
|+||++||||||||||||+.+++++||+++|+||++||||||||||||++|||||||||+||+|++|+.|.+.|.+
T Consensus 134 DiRvilIKLADRLhNmrtl~~~~~ek~~riakETl~IyAPLA~RLGi~~iK~ELEDlsFr~l~P~~Y~~I~~~l~e---- 209 (701)
T COG0317 134 DIRVVLIKLADRLHNLRTLKNLDEEKRRRIARETLDIYAPLAHRLGIGQIKWELEDLSFRYLHPDQYKRIAKLLDE---- 209 (701)
T ss_pred CccEEEeehhhhhhhcccCccCCHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHhhhhhhhChHHHHHHHHHHHH----
Confidence 9999999999999999999998899999999999999999999999999999999999999999999999999976
Q ss_pred CcccccccccccccCCCCCccCccCCCCcccchhhhhhhHHhhhhhccccchhhhhHHHHHHHHHHhhhhHHHHHHHHHH
Q 005392 169 RNRVGYSRRITTIVSSPPLDERTASDDESFTTFDEHVLSMKDLLEAVVPFDILSDRRKRTKFLHDLAKSSEAQKKAKVVQ 248 (698)
Q Consensus 169 ~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~v~~~~~~~~r~~r~~~~~~~~~~~~~~~~~~~~~ 248 (698)
.|.+|+.+++++.
T Consensus 210 ------------------------------------------------------~r~~re~~i~~~~------------- 222 (701)
T COG0317 210 ------------------------------------------------------KRLEREQYIENVV------------- 222 (701)
T ss_pred ------------------------------------------------------HHHHHHHHHHHHH-------------
Confidence 4888999998876
Q ss_pred hhhhhhhhhHHHHHHHHHHHhhccCCCCCceEEEEEeecChhHHHHHHHhcCCCCCcccceeeEEEEEcCCCCCCCCCcH
Q 005392 249 DAGIALTSLVACEEALEKELLISTSYIPGMEVTLSSRLKSLYSIFSKMRRKDVGIHKVYDARALRVVVGDKNGTLHGPAI 328 (698)
Q Consensus 249 ~~~~~l~~l~~~~~~L~~~~~~~~~~~~gi~~~V~~R~K~~ySI~~Km~rk~~~~~~I~Di~giRVIv~~~~~~~~~~~~ 328 (698)
..+++.|.+ .|+.++|+||+||+||||+||++|+..|++|+|++||||||++ +
T Consensus 223 ---------~~l~~~L~~---------~gi~a~v~gR~KhiYSIyrKM~~k~~~f~~I~Dl~avRiIv~~---------~ 275 (701)
T COG0317 223 ---------SELREELKA---------AGIKAEVSGRPKHIYSIYRKMQKKKLSFDEIYDVRAVRIIVDT---------I 275 (701)
T ss_pred ---------HHHHHHHHH---------cCCeEEEEcCCCcccHHHHHHHHcccChhhhhhheeEEEEECC---------h
Confidence 235566666 3889999999999999999999999999999999999999996 8
Q ss_pred HHHHHHHHHHHhcCccccccccccccCCCCCCCceeEEEEEcCCCceEEEEEEecchhhHHHhhhhhhhhccccCCCccc
Q 005392 329 QCCYSLLDIVHRLWIPIDGEFDDYIVNPKPSGYQSLHTAVQGPDGSALEVQIRTQKMHEYAEHGLAAHWLYKETGNKLQS 408 (698)
Q Consensus 329 ~dCy~vlgiIh~~~~pi~~~~kDYIa~PK~nGYqSLHt~V~~~~g~~vEIQIRT~~Mh~~AE~G~aAhw~YK~~~~~~~~ 408 (698)
.|||++||+||.+|+|+|+|||||||+||+||||||||||.||.|.++||||||..||..||+|+||||.||+++.....
T Consensus 276 ~dCY~~LGiVH~~~kp~PgrFKDYIA~PK~NgYQSlHTtv~gp~g~~vEvQIRT~eMh~~AE~GvAAHW~YKe~~~~~~~ 355 (701)
T COG0317 276 PDCYTALGIVHTLWKPIPGEFDDYIANPKPNGYQSLHTTVIGPEGKPVEVQIRTKEMHEIAELGVAAHWRYKEGGSAYEE 355 (701)
T ss_pred HHHHHHHHHHHhcCcCCCCccccccccCCCCCCceeEEEEECCCCceEEEEEecHHHHHHHhhhHHHHhHhhcCCchhhH
Confidence 89999999999999999999999999999999999999999999999999999999999999999999999998732211
Q ss_pred ccccccchHHHhccCCCCCCCCCcccccc-------cccccc---CCCCCc-------eeeecCCceeeeEEEEEccCCe
Q 005392 409 ISSMDESDIEASSSLSKDTDDHNPLDTDL-------FQKYSS---LKMGHP-------VIRVEGSNLLAAVIIRVEKGGR 471 (698)
Q Consensus 409 ~~~~~~~l~~~~~~~~~~~e~~~~~~~~~-------ftp~g~---lp~g~~-------v~t~iG~~c~gAkV~~v~~ngr 471 (698)
.-.+-++|.+|++...++.||++++|.|+ |||||+ ||.|+| |||.|||+|+|||| ||+
T Consensus 356 ~~~Wlr~lle~q~~~~d~~ef~e~~k~dlf~d~VyvfTPkG~vi~LP~GatplDFAY~vHt~iG~~c~gAkV-----nG~ 430 (701)
T COG0317 356 KIAWLRQLLEWQEESADSGEFLEQLKSDLFPDRVYVFTPKGKVIDLPKGATPLDFAYAVHTDIGHRCIGAKV-----NGR 430 (701)
T ss_pred HHHHHHHHHHHHHhcCCcHHHHHHHhhcccCceEEEECCCCCEEeCCCCCcchhhhhhhhchhcceeeEEEE-----CCE
Confidence 11233567888888888899999999874 799994 799977 56669999999999 999
Q ss_pred eEEEecccccCCCCeEEEcCCCC--cchhHHHHhHhhccccc--ccc--------ccCCCCchhhhccccce
Q 005392 472 ELLVAVSFGLAASEVVADRRPSF--QIKCWEAYARLYKKASD--EWW--------CQPGHGDWCTCLEKYTL 531 (698)
Q Consensus 472 ~l~v~l~~~L~~gD~Vei~T~~~--p~~dWL~fv~t~k~~~~--~~~--------~~~g~g~~~~~l~k~~~ 531 (698)
+|||+++|+|||+|||+|+++ |+++||+||+|++++++ +|+ .+.|.-.++..|++-+.
T Consensus 431 --ivpl~~~Lk~Gd~VEIit~k~~~Ps~~Wl~~v~t~kAR~kIr~~~k~~~re~~i~~G~~lLe~~l~~~g~ 500 (701)
T COG0317 431 --IVPLTTKLQTGDQVEIITSKHAGPSRDWLNFVVTSRARAKIRAWFKKQDRDENVEAGRELLEKELSRLGL 500 (701)
T ss_pred --EeccceecCCCCEEEEEeCCCCCCCHHHHHHHhhHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHcCC
Confidence 999999999999999999994 89999999999999988 888 77899899999988776
No 2
>PRK10872 relA (p)ppGpp synthetase I/GTP pyrophosphokinase; Provisional
Probab=100.00 E-value=3.3e-112 Score=977.41 Aligned_cols=413 Identities=32% Similarity=0.545 Sum_probs=365.2
Q ss_pred CCChHHHHHHhhcccccccCCCHHHHHHHhcHHHHHHHHHhhhhhhhhHHHHHHHhhhccCCCcchhhHHHHHHHHhhcc
Q 005392 8 KRAVDTVVAGILHDVVDDACESLGSIEEEFGDEVAKLVAGVSRLSYINQLLRRHRRINVNQGTLGHEEANDLRVMLLGMV 87 (698)
Q Consensus 8 ~~d~~tIiAALLHDvVEDT~~T~eeI~~~FG~~VA~LV~gvTKl~~i~~~~r~~~rk~~~~~~~~~~qae~lRkmlLam~ 87 (698)
..|.+||+||||||+||||++|.++|++.||++||.||+||||++.+....+. . .......|+|+||||||||+
T Consensus 70 ~~D~~ti~AaLLHD~vedt~~t~e~i~~~FG~~Va~lVdgvtKl~~i~~~~~~----~--~~~~~~~qae~~RKmllam~ 143 (743)
T PRK10872 70 SMDIDTLRAALLFPLADANVVSEDVLRESVGKSIVNLIHGVRDMDAIRQLKAT----H--NDSVSSEQVDNVRRMLLAMV 143 (743)
T ss_pred CCCHHHHHHHHhhhhHhcCCCCHHHHHHHHCHHHHHHHHHHHHHHHhhhhhcc----c--ccchhHHHHHHHHHHHHHhh
Confidence 45899999999999999999999999999999999999999999987542100 0 01123459999999999999
Q ss_pred CCccEEeehhhhHHhhhhccccCChHHHHHHHHHHHHHHHHHHHHhCchHHHHHHHHHHHHhhCHHHHHHHHHHHhhccC
Q 005392 88 DDPRVVLIKLADRLHNMRTIYALPPAKARAVAQETLLIWCSLASRLGLWALKAELEDLCFAVLQPQIFRKMRADLASMWS 167 (698)
Q Consensus 88 ~D~RVvlIKLADRLhNmRtl~~~~~ek~~~iA~ETl~IyaPLA~RLGi~~ik~ELEDL~F~~L~P~~y~~i~~~l~~~~~ 167 (698)
+|+||+||||||||||||||.++|++||++||+|||+||||||||||||+||||||||||+||+|+.|+.|++.|.+
T Consensus 144 ~DiRVilIKLADRLhnmrTl~~~~~~kq~~iA~ETl~IyAPlA~RLGi~~iK~ELEDL~f~~l~P~~Y~~i~~~l~~--- 220 (743)
T PRK10872 144 EDFRCVVIKLAERIAHLREVKDAPEDERVLAAKECTNIYAPLANRLGIGQLKWELEDYCFRYLHPDEYKRIAKLLHE--- 220 (743)
T ss_pred ccchhhHHHHHHHHHHHHHhhcCChHHHHHHHHHHHHHHHHHHHHhChHHHHHHHHHHHHHhcCHHHHHHHHHHHHH---
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999975
Q ss_pred CCcccccccccccccCCCCCccCccCCCCcccchhhhhhhHHhhhhhccccchhhhhHHHHHHHHHHhhhhHHHHHHHHH
Q 005392 168 PRNRVGYSRRITTIVSSPPLDERTASDDESFTTFDEHVLSMKDLLEAVVPFDILSDRRKRTKFLHDLAKSSEAQKKAKVV 247 (698)
Q Consensus 168 ~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~v~~~~~~~~r~~r~~~~~~~~~~~~~~~~~~~~ 247 (698)
.+.+|+.+++++.
T Consensus 221 -------------------------------------------------------~~~~r~~~i~~~~------------ 233 (743)
T PRK10872 221 -------------------------------------------------------RRIDREHYIEEFV------------ 233 (743)
T ss_pred -------------------------------------------------------HHHHHHHHHHHHH------------
Confidence 4778999998876
Q ss_pred HhhhhhhhhhHHHHHHHHHHHhhccCCCCCceEEEEEeecChhHHHHHHHhcCCCCCcccceeeEEEEEcCCCCCCCCCc
Q 005392 248 QDAGIALTSLVACEEALEKELLISTSYIPGMEVTLSSRLKSLYSIFSKMRRKDVGIHKVYDARALRVVVGDKNGTLHGPA 327 (698)
Q Consensus 248 ~~~~~~l~~l~~~~~~L~~~~~~~~~~~~gi~~~V~~R~K~~ySI~~Km~rk~~~~~~I~Di~giRVIv~~~~~~~~~~~ 327 (698)
..+++.|++. |++++|+||+||+||||+||++++.+|++|+|++|+||||++
T Consensus 234 ----------~~l~~~L~~~---------~i~~~v~gR~K~~ySI~~Km~~k~~~~~~i~Di~a~RIIv~~--------- 285 (743)
T PRK10872 234 ----------GHLRAEMKAE---------GVKAEVYGRPKHIYSIWRKMQKKSLAFDELFDVRAVRIVAER--------- 285 (743)
T ss_pred ----------HHHHHHHHhc---------CCceEEEeecCCHHHHHHHHHHcCCCHHHhccceeEEEEECC---------
Confidence 2355566653 788999999999999999999999999999999999999985
Q ss_pred HHHHHHHHHHHHhcCccccccccccccCCCCCCCceeEEEEEcCCCceEEEEEEecchhhHHHhhhhhhhhccccCCCcc
Q 005392 328 IQCCYSLLDIVHRLWIPIDGEFDDYIVNPKPSGYQSLHTAVQGPDGSALEVQIRTQKMHEYAEHGLAAHWLYKETGNKLQ 407 (698)
Q Consensus 328 ~~dCy~vlgiIh~~~~pi~~~~kDYIa~PK~nGYqSLHt~V~~~~g~~vEIQIRT~~Mh~~AE~G~aAhw~YK~~~~~~~ 407 (698)
+.+||++||+||++|+|+|++|||||++||+||||||||+|.+|+|.++||||||..||.+||+|+||||+||++...+.
T Consensus 286 ~~dCY~vLg~ih~~~~pip~~fkDYIa~PK~NGYqSLHttv~~~~g~~vEVQIRT~~Mh~~AE~GvAAHW~YKeg~~~~~ 365 (743)
T PRK10872 286 LQDCYAALGIVHTHYRHLPDEFDDYVANPKPNGYQSIHTVVLGPGGKTVEIQIRTRQMHEDAELGVAAHWKYKEGAAAGG 365 (743)
T ss_pred HHHHHHHHHHHHhhccCCcchhhhcccCCCCCCcceeEEEEECCCCcEEEEEEEcHHHHHHHhhhHHHHHhccCCCCccc
Confidence 88999999999999999999999999999999999999999999999999999999999999999999999998643210
Q ss_pred cccccc------cchHHHhccCCCCCCCCCccccc-------ccccccc---CCCCCce-------eeecCCceeeeEEE
Q 005392 408 SISSMD------ESDIEASSSLSKDTDDHNPLDTD-------LFQKYSS---LKMGHPV-------IRVEGSNLLAAVII 464 (698)
Q Consensus 408 ~~~~~~------~~l~~~~~~~~~~~e~~~~~~~~-------~ftp~g~---lp~g~~v-------~t~iG~~c~gAkV~ 464 (698)
....++ +++.+|++...++.||++.+|.| +|||+|+ ||.|+|+ ||.+|++|+||||
T Consensus 366 ~~~~~~~~~~wLr~lle~~~~~~d~~ef~e~~k~dl~~d~V~VfTPkG~~~~Lp~gaT~lDfAy~iHt~iG~~~~gAkv- 444 (743)
T PRK10872 366 GRSGHEDRIAWLRKLIAWQEEMADSGEMLDEVRSQVFDDRVYVFTPKGDVVDLPAGSTPLDFAYHIHSDVGHRCIGAKI- 444 (743)
T ss_pred cccchHHHHHHHHHHHHHHhccCCHHHHHHHHHHHhcCCeEEEECCCCCeEEcCCCCcHHHHHHHHhHHHHhhceEEEE-
Confidence 111122 34456666666778999999865 5799995 7999885 5569999999999
Q ss_pred EEccCCeeEEEecccccCCCCeEEEcCCCC--cchhHHH----HhHhhccccc--ccc--------ccCCCCchhhhccc
Q 005392 465 RVEKGGRELLVAVSFGLAASEVVADRRPSF--QIKCWEA----YARLYKKASD--EWW--------CQPGHGDWCTCLEK 528 (698)
Q Consensus 465 ~v~~ngr~l~v~l~~~L~~gD~Vei~T~~~--p~~dWL~----fv~t~k~~~~--~~~--------~~~g~g~~~~~l~k 528 (698)
||+ +||++|.|++||+|||+|+++ |+++||+ ||+|++++++ +|+ .+.|...++.+|.+
T Consensus 445 ----ng~--~v~l~~~L~~GD~VeIits~~~~Ps~dWL~~~lg~v~T~rAR~kIr~~~k~~~~~~~i~~Gr~lL~k~l~~ 518 (743)
T PRK10872 445 ----GGR--IVPFTYQLQMGDQIEIITQKQPNPSRDWLNPNLGYVTTSRGRSKIHAWFRKQDRDKNILAGRQILDDELEH 518 (743)
T ss_pred ----CCE--ECCCCcCCCCCCEEEEEeCCCCCCChhHhccccCeeeCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 999 899999999999999999985 9999999 9999999888 888 57888888888888
Q ss_pred cce
Q 005392 529 YTL 531 (698)
Q Consensus 529 ~~~ 531 (698)
+++
T Consensus 519 ~~~ 521 (743)
T PRK10872 519 LGI 521 (743)
T ss_pred cCC
Confidence 764
No 3
>PRK11092 bifunctional (p)ppGpp synthetase II/ guanosine-3',5'-bis pyrophosphate 3'-pyrophosphohydrolase; Provisional
Probab=100.00 E-value=4.2e-110 Score=961.65 Aligned_cols=405 Identities=34% Similarity=0.526 Sum_probs=360.9
Q ss_pred CCChHHHHHHhhcccccccCCCHHHHHHHhcHHHHHHHHHhhhhhhhhHHHHHHHhhhccCCCcchhhHHHHHHHHhhcc
Q 005392 8 KRAVDTVVAGILHDVVDDACESLGSIEEEFGDEVAKLVAGVSRLSYINQLLRRHRRINVNQGTLGHEEANDLRVMLLGMV 87 (698)
Q Consensus 8 ~~d~~tIiAALLHDvVEDT~~T~eeI~~~FG~~VA~LV~gvTKl~~i~~~~r~~~rk~~~~~~~~~~qae~lRkmlLam~ 87 (698)
..|.++++||||||++|||++|.++|++.||++||.+|+||||++.++... ....|++++||||+||+
T Consensus 60 ~~D~~ti~AaLLHDvvEDt~~t~e~i~~~FG~~Va~lV~gvTk~~~l~~~~------------~~~~q~e~~rkmllam~ 127 (702)
T PRK11092 60 RLDYETLMAALLHDVIEDTPATYQDMEQLFGKSVAELVEGVSKLDKLKFRD------------KKEAQAENFRKMIMAMV 127 (702)
T ss_pred CCCHHHHHHhcccchhhhCCCCHHHHHHHHCHHHHHHHHHHHhhccccccc------------hhhHHHHHHHHHHHHhc
Confidence 458899999999999999999999999999999999999999998764311 12348999999999999
Q ss_pred CCccEEeehhhhHHhhhhccccCChHHHHHHHHHHHHHHHHHHHHhCchHHHHHHHHHHHHhhCHHHHHHHHHHHhhccC
Q 005392 88 DDPRVVLIKLADRLHNMRTIYALPPAKARAVAQETLLIWCSLASRLGLWALKAELEDLCFAVLQPQIFRKMRADLASMWS 167 (698)
Q Consensus 88 ~D~RVvlIKLADRLhNmRtl~~~~~ek~~~iA~ETl~IyaPLA~RLGi~~ik~ELEDL~F~~L~P~~y~~i~~~l~~~~~ 167 (698)
+|+||++|||||||||||||..+|+++|++||+||++|||||||||||++||||||||||+||+|+.|+.|++.|.+
T Consensus 128 ~DiRVvlIKLADRlhNmrtL~~~~~ek~~~iA~ETl~iyaPlA~rlGi~~ik~eLedL~f~~l~P~~y~~i~~~~~~--- 204 (702)
T PRK11092 128 QDIRVILIKLADRTHNMRTLGSLRPDKRRRIARETLEIYSPLAHRLGIHHIKTELEELGFEALYPNRYRVIKEVVKA--- 204 (702)
T ss_pred CCCceEEEEHHHHHhhHHHHHhcCccHHHHHHHHHHHHHHHHHHHhChHHHHHHHHHHHHHhhCHHHHHHHHHHHHH---
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999875
Q ss_pred CCcccccccccccccCCCCCccCccCCCCcccchhhhhhhHHhhhhhccccchhhhhHHHHHHHHHHhhhhHHHHHHHHH
Q 005392 168 PRNRVGYSRRITTIVSSPPLDERTASDDESFTTFDEHVLSMKDLLEAVVPFDILSDRRKRTKFLHDLAKSSEAQKKAKVV 247 (698)
Q Consensus 168 ~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~v~~~~~~~~r~~r~~~~~~~~~~~~~~~~~~~~ 247 (698)
.+.+|+.+++++.
T Consensus 205 -------------------------------------------------------~~~~r~~~i~~~~------------ 217 (702)
T PRK11092 205 -------------------------------------------------------ARGNRKEMIQKIL------------ 217 (702)
T ss_pred -------------------------------------------------------HHHHHHHHHHHHH------------
Confidence 4778899998876
Q ss_pred HhhhhhhhhhHHHHHHHHHHHhhccCCCCCceEEEEEeecChhHHHHHHHhcCCCCCcccceeeEEEEEcCCCCCCCCCc
Q 005392 248 QDAGIALTSLVACEEALEKELLISTSYIPGMEVTLSSRLKSLYSIFSKMRRKDVGIHKVYDARALRVVVGDKNGTLHGPA 327 (698)
Q Consensus 248 ~~~~~~l~~l~~~~~~L~~~~~~~~~~~~gi~~~V~~R~K~~ySI~~Km~rk~~~~~~I~Di~giRVIv~~~~~~~~~~~ 327 (698)
..+++.|++. |++++|+||.||+||||+||++|+.+|++|+|++|+||||++
T Consensus 218 ----------~~l~~~l~~~---------~i~~~i~~R~K~~ySI~~Km~~k~~~~~~i~Di~a~Riiv~~--------- 269 (702)
T PRK11092 218 ----------SEIEGRLQEA---------GIPCRVSGREKHLYSIYCKMVLKEQRFHSIMDIYAFRVIVDD--------- 269 (702)
T ss_pred ----------HHHHHHHHHc---------CCcEEEEeccCCHHHHHHHHHHcCCChhHhccceeEEEEECC---------
Confidence 2356667664 788999999999999999999999999999999999999985
Q ss_pred HHHHHHHHHHHHhcCccccccccccccCCCCCCCceeEEEEEcCCCceEEEEEEecchhhHHHhhhhhhhhccccCCCcc
Q 005392 328 IQCCYSLLDIVHRLWIPIDGEFDDYIVNPKPSGYQSLHTAVQGPDGSALEVQIRTQKMHEYAEHGLAAHWLYKETGNKLQ 407 (698)
Q Consensus 328 ~~dCy~vlgiIh~~~~pi~~~~kDYIa~PK~nGYqSLHt~V~~~~g~~vEIQIRT~~Mh~~AE~G~aAhw~YK~~~~~~~ 407 (698)
+.+||++||+||++|+|+|++|||||++||+||||||||+|.+|+|.++||||||..||.+||+|+||||+||++.....
T Consensus 270 ~~dCY~~lg~ih~~~~pip~~~kDyIa~PK~NgYqSLHt~v~g~~g~~vEvQIRT~~Mh~~Ae~GvaAhW~yK~~~~~~~ 349 (702)
T PRK11092 270 SDTCYRVLGQMHSLYKPRPGRVKDYIAIPKANGYQSLHTSMIGPHGVPVEVQIRTEDMDQMAEMGVAAHWAYKEHGETGT 349 (702)
T ss_pred HHHHHHHHHHHHhcCCCCcCccccccCCCCCCCCceEEEEEECCCCcEEEEEEEcHHHHHHHhhhhHhhhhhccCCCccc
Confidence 88999999999999999999999999999999999999999999999999999999999999999999999998643211
Q ss_pred ccc----ccccchHHHhccCCCCCCCCCccccc-------ccccccc---CCCCCce-------eeecCCceeeeEEEEE
Q 005392 408 SIS----SMDESDIEASSSLSKDTDDHNPLDTD-------LFQKYSS---LKMGHPV-------IRVEGSNLLAAVIIRV 466 (698)
Q Consensus 408 ~~~----~~~~~l~~~~~~~~~~~e~~~~~~~~-------~ftp~g~---lp~g~~v-------~t~iG~~c~gAkV~~v 466 (698)
... .+-+++.+|++...++.||++.+|.| +|||+|+ ||.|+|+ ||.+||||+||||
T Consensus 350 ~~~~~~~~wlr~ll~~~~~~~~~~ef~~~~~~dl~~d~v~VfTP~G~v~~LP~GaT~lDFAY~iHt~iG~~c~gAkV--- 426 (702)
T PRK11092 350 TAQIRAQRWMQSLLELQQSAGSSFEFIESVKSDLFPDEIYVFTPEGRIVELPAGATPVDFAYAVHTDIGHACVGARV--- 426 (702)
T ss_pred hhHHHHHHHHHHHHHHHhhcCChHHHHHHHHhhhccceEEEECCCCCEEeCCCCCchhhhhHhhCchhhceeEEEEE---
Confidence 100 12234556666666778999999865 5799995 7999884 5559999999999
Q ss_pred ccCCeeEEEecccccCCCCeEEEcCCCC--cchhHHHHhHhhccccc--ccc--------ccCCCCchhhhcccc
Q 005392 467 EKGGRELLVAVSFGLAASEVVADRRPSF--QIKCWEAYARLYKKASD--EWW--------CQPGHGDWCTCLEKY 529 (698)
Q Consensus 467 ~~ngr~l~v~l~~~L~~gD~Vei~T~~~--p~~dWL~fv~t~k~~~~--~~~--------~~~g~g~~~~~l~k~ 529 (698)
||+ +|||+|+|+|||+|||+|+++ |+++||+||+|.+++++ +|+ .+.|...++.+|.+.
T Consensus 427 --Ng~--~vpL~~~L~~Gd~VeIiT~~~~~P~~dWL~~v~T~rAr~kIr~~~r~~~~~~~i~~Gr~lL~~~l~~~ 497 (702)
T PRK11092 427 --DRQ--PYPLSQPLTSGQTVEIITAPGARPNAAWLNFVVSSKARAKIRQLLKNLKRDDSVSLGRRLLNHALGGS 497 (702)
T ss_pred --CCE--ECCCCccCCCCCEEEEEeCCCCCCChHHHHHhhhHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHhc
Confidence 999 999999999999999999984 89999999999998888 888 578888888887664
No 4
>TIGR00691 spoT_relA (p)ppGpp synthetase, RelA/SpoT family. (p)ppGpp is a regulatory metabolite of the stringent response, but appears also to be involved in antibiotic biosynthesis in some species.
Probab=100.00 E-value=2.7e-104 Score=914.92 Aligned_cols=406 Identities=36% Similarity=0.576 Sum_probs=360.7
Q ss_pred CChHHHHHHhhcccccccCCCHHHHHHHhcHHHHHHHHHhhhhhhhhHHHHHHHhhhccCCCcchhhHHHHHHHHhhccC
Q 005392 9 RAVDTVVAGILHDVVDDACESLGSIEEEFGDEVAKLVAGVSRLSYINQLLRRHRRINVNQGTLGHEEANDLRVMLLGMVD 88 (698)
Q Consensus 9 ~d~~tIiAALLHDvVEDT~~T~eeI~~~FG~~VA~LV~gvTKl~~i~~~~r~~~rk~~~~~~~~~~qae~lRkmlLam~~ 88 (698)
.|.++++||||||+||||++|.++|++.||++||.+|+||||++.++... + ...|++++||||++|+.
T Consensus 36 ~D~~~i~AaLLHDvvEDt~~t~e~i~~~FG~~Va~lV~~vTk~~~~~~~~----~--------~~~q~e~~rkmlla~~~ 103 (683)
T TIGR00691 36 MDEETVCAALLHDVIEDTPVTEEEIEEEFGEEVAELVDGVTKITKLKKKS----R--------QELQAENFRKMILAMAQ 103 (683)
T ss_pred CCHHHHHHHhccchHhcCCCCHHHHHHHHCHHHHHHHHHHHHhcccccch----h--------hHHHHHHHHHHHHhhcC
Confidence 58999999999999999999999999999999999999999998875421 1 13489999999999999
Q ss_pred CccEEeehhhhHHhhhhccccCChHHHHHHHHHHHHHHHHHHHHhCchHHHHHHHHHHHHhhCHHHHHHHHHHHhhccCC
Q 005392 89 DPRVVLIKLADRLHNMRTIYALPPAKARAVAQETLLIWCSLASRLGLWALKAELEDLCFAVLQPQIFRKMRADLASMWSP 168 (698)
Q Consensus 89 D~RVvlIKLADRLhNmRtl~~~~~ek~~~iA~ETl~IyaPLA~RLGi~~ik~ELEDL~F~~L~P~~y~~i~~~l~~~~~~ 168 (698)
|+||++|||||||||||||..+|+++|+++|+||++|||||||||||++||||||||||+||+|+.|+.|++.|.+
T Consensus 104 d~rvvlVKLADrlhNmrtl~~~~~~k~~~iA~Et~~iyaPlA~rLG~~~ik~eLedl~f~~l~p~~y~~i~~~l~~---- 179 (683)
T TIGR00691 104 DIRVIVIKLADRLHNMRTLDFLPPEKQKRIAKETLEIYAPLAHRLGMSSIKTELEDLSFKYLYPKEYENIKSLVNE---- 179 (683)
T ss_pred CcceEeeeHHHHHhHHHHHHhhChHHHHHHHHHHHHHHHHHHHHhChHHHHHHHHHHHHHhcCHHHHHHHHHHHHH----
Confidence 9999999999999999999999999999999999999999999999999999999999999999999999999975
Q ss_pred CcccccccccccccCCCCCccCccCCCCcccchhhhhhhHHhhhhhccccchhhhhHHHHHHHHHHhhhhHHHHHHHHHH
Q 005392 169 RNRVGYSRRITTIVSSPPLDERTASDDESFTTFDEHVLSMKDLLEAVVPFDILSDRRKRTKFLHDLAKSSEAQKKAKVVQ 248 (698)
Q Consensus 169 ~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~v~~~~~~~~r~~r~~~~~~~~~~~~~~~~~~~~~ 248 (698)
.+.+|+.+++.+.
T Consensus 180 ------------------------------------------------------~~~~~~~~~~~~~------------- 192 (683)
T TIGR00691 180 ------------------------------------------------------QKVNRENKLEKFK------------- 192 (683)
T ss_pred ------------------------------------------------------HHHHHHHHHHHHH-------------
Confidence 4778888988776
Q ss_pred hhhhhhhhhHHHHHHHHHHHhhccCCCCCceEEEEEeecChhHHHHHHHhcCCCCCcccceeeEEEEEcCCCCCCCCCcH
Q 005392 249 DAGIALTSLVACEEALEKELLISTSYIPGMEVTLSSRLKSLYSIFSKMRRKDVGIHKVYDARALRVVVGDKNGTLHGPAI 328 (698)
Q Consensus 249 ~~~~~l~~l~~~~~~L~~~~~~~~~~~~gi~~~V~~R~K~~ySI~~Km~rk~~~~~~I~Di~giRVIv~~~~~~~~~~~~ 328 (698)
..+++.|.+. |++++|+||+|++||||+||++++.+|++|+|++|+||||++ +
T Consensus 193 ---------~~l~~~l~~~---------~i~~~i~~R~K~~~Si~~Km~~k~~~~~~i~Di~~~RIi~~~---------~ 245 (683)
T TIGR00691 193 ---------SELEKRLEDS---------GIEAELEGRSKHLYSIYQKMTRKGQNFDEIHDLLAIRIIVKS---------E 245 (683)
T ss_pred ---------HHHHHHHHhc---------CCceEEEeeeCCHHHHHHHHHhcCCCHHHcccceeEEEEECC---------H
Confidence 1345566553 778999999999999999999999999999999999999985 8
Q ss_pred HHHHHHHHHHHhcCccccccccccccCCCCCCCceeEEEEEcCCCceEEEEEEecchhhHHHhhhhhhhhccccCCCccc
Q 005392 329 QCCYSLLDIVHRLWIPIDGEFDDYIVNPKPSGYQSLHTAVQGPDGSALEVQIRTQKMHEYAEHGLAAHWLYKETGNKLQS 408 (698)
Q Consensus 329 ~dCy~vlgiIh~~~~pi~~~~kDYIa~PK~nGYqSLHt~V~~~~g~~vEIQIRT~~Mh~~AE~G~aAhw~YK~~~~~~~~ 408 (698)
.+||+++|+||++|+|+|++|||||++||+||||||||+|.+|+|.++||||||..||+|||+|+||||+||++......
T Consensus 246 ~dcy~vlg~ih~~~~p~~~~~kDyIa~PK~nGYqSlHt~v~~~~g~~~EvQIRT~~mh~~Ae~Gvaahw~yk~~~~~~~~ 325 (683)
T TIGR00691 246 LDCYRVLGIIHLLFKPIPGRFKDYIASPKENGYQSLHTTVRGPKGLPVEIQIRTEDMDRVAEYGIAAHWIYKEGNPQKEA 325 (683)
T ss_pred HHHHHHHHHHHhcCCCCcccccccccCCCCCCcceeEEEEEcCCCCEEEEEEEehHHHHHHHHHHHHHHhhcCCCCcchh
Confidence 89999999999999999999999999999999999999999999999999999999999999999999999986432111
Q ss_pred cc---ccccchHHHhccCCCCCCCCCccccc-------ccccccc---CCCCCce-------eeecCCceeeeEEEEEcc
Q 005392 409 IS---SMDESDIEASSSLSKDTDDHNPLDTD-------LFQKYSS---LKMGHPV-------IRVEGSNLLAAVIIRVEK 468 (698)
Q Consensus 409 ~~---~~~~~l~~~~~~~~~~~e~~~~~~~~-------~ftp~g~---lp~g~~v-------~t~iG~~c~gAkV~~v~~ 468 (698)
.. .+-+++.+|+....++.||++.+|.+ +|||+|+ ||.|+|+ |+.+|++|+||||
T Consensus 326 ~~~~~~wl~~~~~~~~~~~~~~~~~~~~k~~l~~~~i~vfTPkG~~~~lp~gst~~DfAy~ih~~~g~~~~~a~v----- 400 (683)
T TIGR00691 326 LIDDMRWLNYLVEWQQESANFFEFIENLKSDLFNEEIYVFTPKGDVVELPSGSTPVDFAYAVHTDVGNKCTGAKV----- 400 (683)
T ss_pred HHHHHHHHHHHHHHHhhcccchhHHHHhhHHhccCceEEECCCCeEEEcCCCCCHHHHHHHHhHHhHhceeEEEE-----
Confidence 11 12234566666666778999988765 5899995 7999885 5559999999999
Q ss_pred CCeeEEEecccccCCCCeEEEcCCCC--cchhHHHHhHhhccccc--ccc--------ccCCCCchhhhccccce
Q 005392 469 GGRELLVAVSFGLAASEVVADRRPSF--QIKCWEAYARLYKKASD--EWW--------CQPGHGDWCTCLEKYTL 531 (698)
Q Consensus 469 ngr~l~v~l~~~L~~gD~Vei~T~~~--p~~dWL~fv~t~k~~~~--~~~--------~~~g~g~~~~~l~k~~~ 531 (698)
||+ .||++++|++||+|||+|+++ |+++||+||+|++++++ +|+ .+.|...++..|.+.+.
T Consensus 401 ng~--~v~l~~~l~~gd~vei~t~~~~~P~~dWL~~v~T~rAR~kIr~~~k~~~r~~~i~~G~~lLek~l~~~~~ 473 (683)
T TIGR00691 401 NGK--IVPLDKELENGDVVEIITGKNSNPSVIWLNFVVTSKARNKIRQWLKKLRREVAISEGKNILEKELGRSGL 473 (683)
T ss_pred CCE--ECCCCccCCCCCEEEEEeCCCCCCCHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCC
Confidence 999 899999999999999999994 99999999999998888 888 67888777777766443
No 5
>KOG1157 consensus Predicted guanosine polyphosphate pyrophosphohydrolase/synthase [Signal transduction mechanisms]
Probab=100.00 E-value=2e-66 Score=547.84 Aligned_cols=284 Identities=43% Similarity=0.638 Sum_probs=250.7
Q ss_pred CChHHHHHHhhcccccccCCCHHHHHHHhcHHHHHHHHHhhhhhhhhHHHHHHHhhhccCCCcchhhHHHHHHHHhhccC
Q 005392 9 RAVDTVVAGILHDVVDDACESLGSIEEEFGDEVAKLVAGVSRLSYINQLLRRHRRINVNQGTLGHEEANDLRVMLLGMVD 88 (698)
Q Consensus 9 ~d~~tIiAALLHDvVEDT~~T~eeI~~~FG~~VA~LV~gvTKl~~i~~~~r~~~rk~~~~~~~~~~qae~lRkmlLam~~ 88 (698)
.|.+.++||+||||||||.+|.++|++.||..||.||++||+.+.+++..| +. .+|++++| |+++++
T Consensus 116 ~ds~Vv~AaiLHDVVDDt~~S~eeI~~~FG~gVa~LV~EvtddKnL~K~eR----k~-------l~qiet~~-~fyak~- 182 (543)
T KOG1157|consen 116 ADSTVVVAAILHDVVDDTFMSYEEILRHFGTGVADLVEEVTDDKNLSKLER----KN-------LTQIETVE-MFYAKA- 182 (543)
T ss_pred cchHHHHHHHHHHHHhhccCCHHHHHHHhCccHHHHHHHHhcccchhHHHH----HH-------HHHHHHHH-HHHHHH-
Confidence 577789999999999999999999999999999999999999999987643 21 25788998 677886
Q ss_pred CccEEeehhhhHHhhhhccccCChHHHHHHHHHHHHHHHHHHHHhCchHHHHHHHHHHHHhhCHHHHHHHHHHHhhccCC
Q 005392 89 DPRVVLIKLADRLHNMRTIYALPPAKARAVAQETLLIWCSLASRLGLWALKAELEDLCFAVLQPQIFRKMRADLASMWSP 168 (698)
Q Consensus 89 D~RVvlIKLADRLhNmRtl~~~~~ek~~~iA~ETl~IyaPLA~RLGi~~ik~ELEDL~F~~L~P~~y~~i~~~l~~~~~~ 168 (698)
+.|++||||||||||||+|..+||-+|++.++||+.||||+|+|+|++..+.+||+|||+||+|..|-.+...|+..
T Consensus 183 s~RAvLIkLADKLdNMRdL~~lpPvgwq~~r~e~lfIwapla~~~g~gtn~~lle~Ldf~~l~p~~~~~m~s~l~~~--- 259 (543)
T KOG1157|consen 183 SARAVLIKLADKLDNMRDLYALPPVGWQRFRKETLFIWAPLANRLGIGTNKVLLENLDFKHLFPCQHIEMSSMLEDS--- 259 (543)
T ss_pred HHHHHHHHHHHHHhhhhhhhccCcchhHHHHHHHHHHhhHHHHHhcccchHHHHhhhhHHHhCchhHHHHHHHHhcc---
Confidence 69999999999999999999999999999999999999999999999999999999999999999999999998641
Q ss_pred CcccccccccccccCCCCCccCccCCCCcccchhhhhhhHHhhhhhccccchhhhhHHHHHHHHHHhhhhHHHHHHHHHH
Q 005392 169 RNRVGYSRRITTIVSSPPLDERTASDDESFTTFDEHVLSMKDLLEAVVPFDILSDRRKRTKFLHDLAKSSEAQKKAKVVQ 248 (698)
Q Consensus 169 ~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~v~~~~~~~~r~~r~~~~~~~~~~~~~~~~~~~~~ 248 (698)
|| +..|...+
T Consensus 260 -------------------------------------------------~~--------~~mi~~~~------------- 269 (543)
T KOG1157|consen 260 -------------------------------------------------FD--------EAMITSAI------------- 269 (543)
T ss_pred -------------------------------------------------cc--------hHHHHHHH-------------
Confidence 11 11222111
Q ss_pred hhhhhhhhhHHHHHHHHHHHhhccCCCCCce-EEEEEeecChhHHHHHHHhcCCCCCcccceeeEEEEEcCCCCCCCCCc
Q 005392 249 DAGIALTSLVACEEALEKELLISTSYIPGME-VTLSSRLKSLYSIFSKMRRKDVGIHKVYDARALRVVVGDKNGTLHGPA 327 (698)
Q Consensus 249 ~~~~~l~~l~~~~~~L~~~~~~~~~~~~gi~-~~V~~R~K~~ySI~~Km~rk~~~~~~I~Di~giRVIv~~~~~~~~~~~ 327 (698)
..++..|..+ |+. .-|+||.|++||||.||.|++...++|+|+.|+|+|+++
T Consensus 270 ---------~~l~~~l~~a---------~i~~~~i~gr~ks~ysi~~kmlk~~~~~dei~di~glr~i~~~--------- 322 (543)
T KOG1157|consen 270 ---------EKLEQALKKA---------GISYHVIKGRHKSLYSIYKKMLKKKLTPDEIHDIHGLRLIVDN--------- 322 (543)
T ss_pred ---------HHHHHHHHhc---------cceeEEEecchhhHHHHHHHHHhcCCCHHHhhhhcceEEEEcC---------
Confidence 1234445443 443 579999999999999999999999999999999999996
Q ss_pred HHHHHHHHHHHHhcCccccccccccccCCCCCCCceeEEEEEcCCCceEEEEEEecchhhHHHhhhhhhhhccccCCC
Q 005392 328 IQCCYSLLDIVHRLWIPIDGEFDDYIVNPKPSGYQSLHTAVQGPDGSALEVQIRTQKMHEYAEHGLAAHWLYKETGNK 405 (698)
Q Consensus 328 ~~dCy~vlgiIh~~~~pi~~~~kDYIa~PK~nGYqSLHt~V~~~~g~~vEIQIRT~~Mh~~AE~G~aAhw~YK~~~~~ 405 (698)
..+||+++|+||++|+.+|++.||||+.||.||||||||+|.+..-.|+||||||..||--||+|.||||+||++...
T Consensus 323 ~~~cyk~~~vv~slw~evp~k~kdyia~pk~ngy~slh~~v~~d~~~plevqirt~em~~~a~~g~aah~~yk~g~~~ 400 (543)
T KOG1157|consen 323 ESDCYKALGVVHSLWSEVPGKLKDYIAHPKFNGYQSLHTVVMVDGTRPLEVQIRTMEMHLQAEFGFAAHWRYKEGKTS 400 (543)
T ss_pred chHHHHHHHHHHHHHHhCcchhhhhhcCccccccceeeeEEecCCcceeEEEEeeeccccccccchhhHhhhhcCCCC
Confidence 569999999999999999999999999999999999999999865679999999999999999999999999998544
No 6
>PF13328 HD_4: HD domain; PDB: 3NR1_B.
Probab=99.95 E-value=8.2e-30 Score=244.99 Aligned_cols=121 Identities=47% Similarity=0.735 Sum_probs=69.6
Q ss_pred CCCCCChHHHHHHhhcccccccCCCHHHHHHHhcHHHHHHHHHhhhhhhhhHHHHHHHhhhccCCCcchhhHHHHHHHHh
Q 005392 5 SSGKRAVDTVVAGILHDVVDDACESLGSIEEEFGDEVAKLVAGVSRLSYINQLLRRHRRINVNQGTLGHEEANDLRVMLL 84 (698)
Q Consensus 5 ~~g~~d~~tIiAALLHDvVEDT~~T~eeI~~~FG~~VA~LV~gvTKl~~i~~~~r~~~rk~~~~~~~~~~qae~lRkmlL 84 (698)
+.| .|+++++||||||++|||..+ ++|++.||++|+++|.++|+++.+... ++.. ...++.+++|+||+
T Consensus 33 ~~~-~d~~~i~aalLHD~ied~~~~-~~i~~~fg~~V~~lV~~lt~~~~~~~~-~~~~--------~~~~~~~~~r~ml~ 101 (153)
T PF13328_consen 33 ELG-LDEETIAAALLHDVIEDTETT-EDIEERFGEDVADLVDALTKIKKLSKK-PWEE--------RSEEYAERLRRMLL 101 (153)
T ss_dssp TS----HHHHHHHHHTTHHHHSS---HHHHHHHHHHHHHHHHHT---TTS-HH----H--------HHHHHHHHGGG---
T ss_pred HcC-CCHHHHhhheeecHHHhcCCH-HHHHHccChHHHHHHHHHHhccccccc-cchh--------hHHHHHHHhhhhcc
Confidence 445 678999999999999999666 999999999999999999999887653 1111 12468999999999
Q ss_pred hccCCccEEeehhhhHHhhhhccccCChHHHHHHHHHHHHHHHHHHHHhCch
Q 005392 85 GMVDDPRVVLIKLADRLHNMRTIYALPPAKARAVAQETLLIWCSLASRLGLW 136 (698)
Q Consensus 85 am~~D~RVvlIKLADRLhNmRtl~~~~~ek~~~iA~ETl~IyaPLA~RLGi~ 136 (698)
+|++|+||++|||||||||||++...++++++++|+||+++|+|||||||||
T Consensus 102 ~~~~d~~~~lIKlaDrl~nl~~~~~~~~~~~~~~a~Et~~i~apLA~rLGiw 153 (153)
T PF13328_consen 102 AMSEDVRAVLIKLADRLHNLRTIKYLPPEKQRRYARETLDIYAPLAHRLGIW 153 (153)
T ss_dssp --S-H-HHHHHHHHHHHHHHHHHHH---TT----------------------
T ss_pred ccCCchHHHHHHHHHHHHhhccHHHCCHHHhhhhhhccccccccccccccCC
Confidence 9999999999999999999999999999999999999999999999999998
No 7
>PF04607 RelA_SpoT: Region found in RelA / SpoT proteins; InterPro: IPR007685 The functions of Escherichia coli RelA and SpoT differ somewhat. RelA (2.7.6.5 from EC) produces pppGpp (or ppGpp) from ATP and GTP (or GDP). SpoT (3.1.7.2 from EC) degrades ppGpp, but may also act as a secondary ppGpp synthetase. The two proteins are strongly similar. In many species, a single homologue to SpoT and RelA appears reponsible for both ppGpp synthesis and ppGpp degradation. (p)ppGpp is a regulatory metabolite of the stringent response, but appears also to be involved in antibiotic biosynthesis in some species. ; GO: 0015969 guanosine tetraphosphate metabolic process; PDB: 2BE3_B 1VJ7_B 3L9D_B.
Probab=99.95 E-value=2.9e-28 Score=222.47 Aligned_cols=108 Identities=37% Similarity=0.548 Sum_probs=93.6
Q ss_pred EeecChhHHHHHHHhcCC---CCCcccceeeEEEEEcCCCCCCCCCcHHHHHHHHHHHHhcCccccccccccccCCCCCC
Q 005392 284 SRLKSLYSIFSKMRRKDV---GIHKVYDARALRVVVGDKNGTLHGPAIQCCYSLLDIVHRLWIPIDGEFDDYIVNPKPSG 360 (698)
Q Consensus 284 ~R~K~~ySI~~Km~rk~~---~~~~I~Di~giRVIv~~~~~~~~~~~~~dCy~vlgiIh~~~~pi~~~~kDYIa~PK~nG 360 (698)
+|+|+++|+++|+.|++. ++.+|+|++|+||||.+ ..+||.++++|++.|.+.+.+++|||+.|+.||
T Consensus 1 ~RvK~~~Sl~~Kl~r~~~~~~~~~~i~Dl~G~RIi~~~---------~~d~~~v~~~l~~~~~~~~~~~~d~i~~~~~~G 71 (115)
T PF04607_consen 1 SRVKSPESLIEKLRRKGGPDNPLKDIQDLVGIRIIVYF---------PDDCYKVLGLLHKLFDVKIDRSKDYIANPKSNG 71 (115)
T ss_dssp EEE--HHHHHHCHHHHTGCCCCCCCTCCSEEEEEEESS---------CCHHHHHHHHHHTHSSCEEEEEEETTTT--TTS
T ss_pred CCCCCHHHHHHHHHhHCCCcccHHHhccccEEEEEEee---------HHHHHHHHHHHHHcCCcccccccccccccccCC
Confidence 699999999999999874 78999999999999986 679999999999999999999999999999999
Q ss_pred CceeEEEE---EcCCCceEEEEEEecchhhHHHhhhhhhhhcccc
Q 005392 361 YQSLHTAV---QGPDGSALEVQIRTQKMHEYAEHGLAAHWLYKET 402 (698)
Q Consensus 361 YqSLHt~V---~~~~g~~vEIQIRT~~Mh~~AE~G~aAhw~YK~~ 402 (698)
|||+|++| ..+.|.++||||||.+||.|||..| ||.||.+
T Consensus 72 Yrs~H~~v~~~~~~~~~~~EiQIrT~~~~~waei~h--~~~YK~~ 114 (115)
T PF04607_consen 72 YRSLHYIVPENESFKGYPFEIQIRTLLQHAWAEIEH--DLRYKSS 114 (115)
T ss_dssp --EEEEEEEETTECEEEEEEEEEEEHHHHHHHHHHH--HHHHHCT
T ss_pred cEeeEeeeeecccCCCceeeeeeccHHHHHHHHHHH--HHhCCCC
Confidence 99999999 3457889999999999999999554 7999964
No 8
>cd05399 NT_Rel-Spo_like Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases. This family includes the catalytic domains of Escherichia coli ppGpp synthetase (RelA), ppGpp synthetase/hydrolase (SpoT), and related proteins. RelA synthesizes (p)ppGpp in response to amino-acid starvation and in association with ribosomes. (p)ppGpp triggers the bacterial stringent response. SpoT catalyzes (p)ppGpp synthesis under carbon limitation in a ribosome-independent manner. It also catalyzes (p)ppGpp degradation. Gram-negative bacteria have two enzymes involved in (p)ppGpp metabolism while most Gram-positive organisms have a single Rel-Spo enzyme (Rel), which both synthesizes and degrades (p)ppGpp. The Arabidopsis thaliana Rel-Spo proteins, At-RSH1,-2, and-3 appear to regulate a rapid (p)ppGpp-mediated response to pathogens and other stresses. This catalytic domain is found in association with an N-terminal HD domain and a C-terminal metal dependent phosphohydro
Probab=99.94 E-value=2.7e-27 Score=220.91 Aligned_cols=118 Identities=42% Similarity=0.714 Sum_probs=105.7
Q ss_pred HHHHHHHHHHhhccCCCCCceEEEEEeecChhHHHHHHHhcCCCC---CcccceeeEEEEEcCCCCCCCCCcHHHHHHHH
Q 005392 259 ACEEALEKELLISTSYIPGMEVTLSSRLKSLYSIFSKMRRKDVGI---HKVYDARALRVVVGDKNGTLHGPAIQCCYSLL 335 (698)
Q Consensus 259 ~~~~~L~~~~~~~~~~~~gi~~~V~~R~K~~ySI~~Km~rk~~~~---~~I~Di~giRVIv~~~~~~~~~~~~~dCy~vl 335 (698)
.|++.|++.... +..+.|++|+|+++|+++||.+++.+. ++|+|++|+||||++ ..|||.++
T Consensus 6 ~l~~~L~~~~~~------~~~~~v~~RvK~~~sl~~Kl~~~~~~~~~~~~i~Dl~g~Rii~~~---------~~d~~~v~ 70 (129)
T cd05399 6 EIADLLRDAGII------GRVASVSGRVKSPYSIYEKLRRKGKDLPILDEITDLVGVRVVLLF---------VDDCYRVL 70 (129)
T ss_pred HHHHHHHHcCCC------CCCcEEEEecCCHHHHHHHHHhhCCCCCcHHHhhhhheEEEEEeC---------HHHHHHHH
Confidence 466677764220 125789999999999999999998777 999999999999995 78999999
Q ss_pred HHHHhcCccccccccccccCCCCCCCceeEEEEEcCC---CceEEEEEEecchhhHHHh
Q 005392 336 DIVHRLWIPIDGEFDDYIVNPKPSGYQSLHTAVQGPD---GSALEVQIRTQKMHEYAEH 391 (698)
Q Consensus 336 giIh~~~~pi~~~~kDYIa~PK~nGYqSLHt~V~~~~---g~~vEIQIRT~~Mh~~AE~ 391 (698)
++|++.|++.|++++|||+.||+|||||+|++|..++ |.++||||||..||+|||.
T Consensus 71 ~~l~~~f~~~~~~~~D~~~~p~~~GYrslH~~~~~~~~~~~~~~EIQirT~~~~~wae~ 129 (129)
T cd05399 71 DLLHSLFKVIPGRVKDYIAEPKENGYQSLHLVVRGPEDKAGVLIEIQIRTILMHAWAEL 129 (129)
T ss_pred HHHHhCCcccCccccCCcCCCCCCCceEEEEEEEcCCCcCCcEEEEEeCCHHHHHHhcC
Confidence 9999999999999999999999999999999999887 8999999999999999984
No 9
>COG2357 PpGpp synthetase catalytic domain [General function prediction only]
Probab=99.94 E-value=5.9e-27 Score=236.68 Aligned_cols=139 Identities=31% Similarity=0.379 Sum_probs=118.4
Q ss_pred hhHHHHHHHHHHHhhccCCCCCceEEEEEeecChhHHHHHHHhcCCCC------CcccceeeEEEEEcCCCCCCCCCcHH
Q 005392 256 SLVACEEALEKELLISTSYIPGMEVTLSSRLKSLYSIFSKMRRKDVGI------HKVYDARALRVVVGDKNGTLHGPAIQ 329 (698)
Q Consensus 256 ~l~~~~~~L~~~~~~~~~~~~gi~~~V~~R~K~~ySI~~Km~rk~~~~------~~I~Di~giRVIv~~~~~~~~~~~~~ 329 (698)
.+......++.++.....++|.. .|++|+|++.||..|++|||.++ +.|+|++|+||+|.+ ++
T Consensus 31 e~~~k~~~~~~~~~~~~~~~pie--~Vt~RvK~~~Si~~Kl~RK~~~i~~~~~~e~i~DIaGIRI~c~F---------~~ 99 (231)
T COG2357 31 ELKTKLKILRDEYEKLHDYNPIE--HVTSRVKSPESILEKLRRKGLEITYENLKEDIQDIAGIRIICQF---------VD 99 (231)
T ss_pred HHHHHHHHHHHHHHhhcCCCchH--HHhhccCCHHHHHHHHHhcCCCCChHHHHhHHHhhcceeEeeeh---------Hh
Confidence 33445556677777777888876 47999999999999999999544 589999999999985 88
Q ss_pred HHHHHHHHHHhcCccccccccccccCCCCCCCceeEEEEEcCC-------CceEEEEEEecchhhHHHhhhhhhhhcccc
Q 005392 330 CCYSLLDIVHRLWIPIDGEFDDYIVNPKPSGYQSLHTAVQGPD-------GSALEVQIRTQKMHEYAEHGLAAHWLYKET 402 (698)
Q Consensus 330 dCy~vlgiIh~~~~pi~~~~kDYIa~PK~nGYqSLHt~V~~~~-------g~~vEIQIRT~~Mh~~AE~G~aAhw~YK~~ 402 (698)
|.|.+..++.+.........||||.+||+|||||+|++|..|- +..+||||||.+||.||++.|. .+||.+
T Consensus 100 DI~~v~~~l~~~~d~~iv~~kDyi~n~k~~GYRS~Hlive~pv~~~~~~~~~~vEIQIRTiam~fWAsiEH~--l~YKy~ 177 (231)
T COG2357 100 DIYRVVDLLKSRKDFTIVEEKDYIRNPKPNGYRSYHLILEVPVFTINGVKKVRVEIQIRTIAMDFWASIEHK--LRYKYG 177 (231)
T ss_pred hHHHHHHHHhcccCccchhHHHHHhCCCCCCCceEEEEEeccchhhccccceEEEEehhHHHHHHHHHHHHH--hhcccc
Confidence 9999999999886666668999999999999999999999763 3799999999999999999996 799988
Q ss_pred CCCcc
Q 005392 403 GNKLQ 407 (698)
Q Consensus 403 ~~~~~ 407 (698)
+..|+
T Consensus 178 ~~~Pe 182 (231)
T COG2357 178 GEVPE 182 (231)
T ss_pred ccChH
Confidence 76663
No 10
>COG0317 SpoT Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]
Probab=99.87 E-value=5.8e-23 Score=235.55 Aligned_cols=90 Identities=31% Similarity=0.462 Sum_probs=83.7
Q ss_pred chhhHHHhHHHHHHHhhhhHhHHhhhccCccCCCCCCCCCCcEEEEEccCCCeEecCCCCCHHHHHHHhC--CCCce--E
Q 005392 600 NKVRLLRTMLRWEEQLRSEASLRQSKLGGKANGNPDSVVPGEVVIVCWPNGEIMRLRSGSTAADAAMKVG--LEGKL--V 675 (698)
Q Consensus 600 ~~l~wLrT~r~W~k~~~~ee~~~~~~~~~~~~~~~~~~l~~~~v~vftp~G~~~~l~~g~T~~d~a~~i~--~~~~~--~ 675 (698)
+.+.||+++++||++..+ . .||++++|.+|+.++||||||||+++.||.||||+||||++| ||++| |
T Consensus 355 ~~~~Wlr~lle~q~~~~d-~--------~ef~e~~k~dlf~d~VyvfTPkG~vi~LP~GatplDFAY~vHt~iG~~c~gA 425 (701)
T COG0317 355 EKIAWLRQLLEWQEESAD-S--------GEFLEQLKSDLFPDRVYVFTPKGKVIDLPKGATPLDFAYAVHTDIGHRCIGA 425 (701)
T ss_pred HHHHHHHHHHHHHHhcCC-c--------HHHHHHHhhcccCceEEEECCCCCEEeCCCCCcchhhhhhhhchhcceeeEE
Confidence 345699999999998873 2 578999999999999999999999999999999999999999 99988 8
Q ss_pred EEcCEeeCCCCcCCCCCEEEEeC
Q 005392 676 LVNGQLVLPNTELKDGDIVEVRV 698 (698)
Q Consensus 676 ~vNg~~v~l~~~L~~Gd~v~i~~ 698 (698)
+||||+|||+|+|+|||+|||+|
T Consensus 426 kVnG~ivpl~~~Lk~Gd~VEIit 448 (701)
T COG0317 426 KVNGRIVPLTTKLQTGDQVEIIT 448 (701)
T ss_pred EECCEEeccceecCCCCEEEEEe
Confidence 99999999999999999999997
No 11
>PRK11092 bifunctional (p)ppGpp synthetase II/ guanosine-3',5'-bis pyrophosphate 3'-pyrophosphohydrolase; Provisional
Probab=99.86 E-value=2.3e-22 Score=233.81 Aligned_cols=88 Identities=22% Similarity=0.241 Sum_probs=81.4
Q ss_pred hhHHHhHHHHHHHhhhhHhHHhhhccCccCCCCCCCCCCcEEEEEccCCCeEecCCCCCHHHHHHHhC--CCCce--EEE
Q 005392 602 VRLLRTMLRWEEQLRSEASLRQSKLGGKANGNPDSVVPGEVVIVCWPNGEIMRLRSGSTAADAAMKVG--LEGKL--VLV 677 (698)
Q Consensus 602 l~wLrT~r~W~k~~~~ee~~~~~~~~~~~~~~~~~~l~~~~v~vftp~G~~~~l~~g~T~~d~a~~i~--~~~~~--~~v 677 (698)
++||+++++|+++.. +. .+|++++|.+|+.++||||||+|+++.||.||||+||||+|| +|++| |+|
T Consensus 356 ~~wlr~ll~~~~~~~-~~--------~ef~~~~~~dl~~d~v~VfTP~G~v~~LP~GaT~lDFAY~iHt~iG~~c~gAkV 426 (702)
T PRK11092 356 QRWMQSLLELQQSAG-SS--------FEFIESVKSDLFPDEIYVFTPEGRIVELPAGATPVDFAYAVHTDIGHACVGARV 426 (702)
T ss_pred HHHHHHHHHHHhhcC-Ch--------HHHHHHHHhhhccceEEEECCCCCEEeCCCCCchhhhhHhhCchhhceeEEEEE
Confidence 359999999988653 22 578999999999999999999999999999999999999999 99988 899
Q ss_pred cCEeeCCCCcCCCCCEEEEeC
Q 005392 678 NGQLVLPNTELKDGDIVEVRV 698 (698)
Q Consensus 678 Ng~~v~l~~~L~~Gd~v~i~~ 698 (698)
||++|||+|+|+|||+|||+|
T Consensus 427 Ng~~vpL~~~L~~Gd~VeIiT 447 (702)
T PRK11092 427 DRQPYPLSQPLTSGQTVEIIT 447 (702)
T ss_pred CCEECCCCccCCCCCEEEEEe
Confidence 999999999999999999998
No 12
>PRK10872 relA (p)ppGpp synthetase I/GTP pyrophosphokinase; Provisional
Probab=99.80 E-value=1.8e-20 Score=217.91 Aligned_cols=91 Identities=25% Similarity=0.471 Sum_probs=82.5
Q ss_pred cchhhHHHhHHHHHHHhhhhHhHHhhhccCccCCCCCCCCCCcEEEEEccCCCeEecCCCCCHHHHHHHhC--CCCce--
Q 005392 599 NNKVRLLRTMLRWEEQLRSEASLRQSKLGGKANGNPDSVVPGEVVIVCWPNGEIMRLRSGSTAADAAMKVG--LEGKL-- 674 (698)
Q Consensus 599 n~~l~wLrT~r~W~k~~~~ee~~~~~~~~~~~~~~~~~~l~~~~v~vftp~G~~~~l~~g~T~~d~a~~i~--~~~~~-- 674 (698)
..++.||+++++|+++.. +. .||++++|.+|+.++||||||+|+++.||.||||+||||++| +|++|
T Consensus 371 ~~~~~wLr~lle~~~~~~-d~--------~ef~e~~k~dl~~d~V~VfTPkG~~~~Lp~gaT~lDfAy~iHt~iG~~~~g 441 (743)
T PRK10872 371 EDRIAWLRKLIAWQEEMA-DS--------GEMLDEVRSQVFDDRVYVFTPKGDVVDLPAGSTPLDFAYHIHSDVGHRCIG 441 (743)
T ss_pred HHHHHHHHHHHHHHhccC-CH--------HHHHHHHHHHhcCCeEEEECCCCCeEEcCCCCcHHHHHHHHhHHHHhhceE
Confidence 344569999999998754 22 578999999999999999999999999999999999999999 88877
Q ss_pred EEEcCEeeCCCCcCCCCCEEEEeC
Q 005392 675 VLVNGQLVLPNTELKDGDIVEVRV 698 (698)
Q Consensus 675 ~~vNg~~v~l~~~L~~Gd~v~i~~ 698 (698)
|+|||++|||+|+|+|||+|||+|
T Consensus 442 Akvng~~v~l~~~L~~GD~VeIit 465 (743)
T PRK10872 442 AKIGGRIVPFTYQLQMGDQIEIIT 465 (743)
T ss_pred EEECCEECCCCcCCCCCCEEEEEe
Confidence 799999999999999999999997
No 13
>TIGR00691 spoT_relA (p)ppGpp synthetase, RelA/SpoT family. (p)ppGpp is a regulatory metabolite of the stringent response, but appears also to be involved in antibiotic biosynthesis in some species.
Probab=99.77 E-value=2.8e-19 Score=208.31 Aligned_cols=88 Identities=32% Similarity=0.458 Sum_probs=81.1
Q ss_pred hhHHHhHHHHHHHhhhhHhHHhhhccCccCCCCCCCCCCcEEEEEccCCCeEecCCCCCHHHHHHHhC--CCCce--EEE
Q 005392 602 VRLLRTMLRWEEQLRSEASLRQSKLGGKANGNPDSVVPGEVVIVCWPNGEIMRLRSGSTAADAAMKVG--LEGKL--VLV 677 (698)
Q Consensus 602 l~wLrT~r~W~k~~~~ee~~~~~~~~~~~~~~~~~~l~~~~v~vftp~G~~~~l~~g~T~~d~a~~i~--~~~~~--~~v 677 (698)
++||+++++|+.+.. +. .+|++.+|.+|+.++||||||+|+++.||.||||+||||++| +|++| |+|
T Consensus 330 ~~wl~~~~~~~~~~~-~~--------~~~~~~~k~~l~~~~i~vfTPkG~~~~lp~gst~~DfAy~ih~~~g~~~~~a~v 400 (683)
T TIGR00691 330 MRWLNYLVEWQQESA-NF--------FEFIENLKSDLFNEEIYVFTPKGDVVELPSGSTPVDFAYAVHTDVGNKCTGAKV 400 (683)
T ss_pred HHHHHHHHHHHhhcc-cc--------hhHHHHhhHHhccCceEEECCCCeEEEcCCCCCHHHHHHHHhHHhHhceeEEEE
Confidence 469999999988753 22 678999999999999999999999999999999999999999 88887 699
Q ss_pred cCEeeCCCCcCCCCCEEEEeC
Q 005392 678 NGQLVLPNTELKDGDIVEVRV 698 (698)
Q Consensus 678 Ng~~v~l~~~L~~Gd~v~i~~ 698 (698)
||++|||+|+|+|||+|||+|
T Consensus 401 ng~~v~l~~~l~~gd~vei~t 421 (683)
T TIGR00691 401 NGKIVPLDKELENGDVVEIIT 421 (683)
T ss_pred CCEECCCCccCCCCCEEEEEe
Confidence 999999999999999999987
No 14
>PF02824 TGS: TGS domain; InterPro: IPR004095 The TGS domain is present in a number of enzymes, for example, in threonyl-tRNA synthetase (ThrRS), GTPase, and guanosine-3',5'-bis(diphosphate) 3'-pyrophosphohydrolase (SpoT) []. The TGS domain is also present at the amino terminus of the uridine kinase from the spirochaete Treponema pallidum (but not any other organism, including the related spirochaete Borrelia burgdorferi). TGS is a small domain that consists of ~50 amino acid residues and is predicted to possess a predominantly beta-sheet structure. There is no direct information on the functions of the TGS domain, but its presence in two types of regulatory proteins (the GTPases and guanosine polyphosphate phosphohydrolases/synthetases) suggests a ligand (most likely nucleotide)-binding, regulatory role []. ; PDB: 1WXQ_A 1NYR_B 1NYQ_B 2KMM_A 1WWT_A 1TKE_A 1TKG_A 1TJE_A 1QF6_A 1TKY_A ....
Probab=99.43 E-value=8.5e-14 Score=114.68 Aligned_cols=56 Identities=41% Similarity=0.585 Sum_probs=51.3
Q ss_pred EEEEccCCCeEecCCCCCHHHHHHHhC--CCCc--eEEEcCEeeCCCCcCCCCCEEEEeC
Q 005392 643 VIVCWPNGEIMRLRSGSTAADAAMKVG--LEGK--LVLVNGQLVLPNTELKDGDIVEVRV 698 (698)
Q Consensus 643 v~vftp~G~~~~l~~g~T~~d~a~~i~--~~~~--~~~vNg~~v~l~~~L~~Gd~v~i~~ 698 (698)
|.||+|+|++..+|.|+||.||||.|| ++.+ .|+|||+.++|+++|++||+|+|+|
T Consensus 1 I~v~lpdG~~~~~~~g~T~~d~A~~I~~~l~~~~~~A~Vng~~vdl~~~L~~~d~v~iiT 60 (60)
T PF02824_consen 1 IRVYLPDGSIKELPEGSTVLDVAYSIHSSLAKRAVAAKVNGQLVDLDHPLEDGDVVEIIT 60 (60)
T ss_dssp EEEEETTSCEEEEETTBBHHHHHHHHSHHHHHCEEEEEETTEEEETTSBB-SSEEEEEEE
T ss_pred CEEECCCCCeeeCCCCCCHHHHHHHHCHHHHhheeEEEEcCEECCCCCCcCCCCEEEEEC
Confidence 568999999999999999999999999 6664 4899999999999999999999997
No 15
>cd01668 TGS_RelA_SpoT TGS_RelA_SpoT: The RelA (SpoT) protein, also referred to as ppGpp hydrolase/synthetase, is a ribosome-associated protein that is activated during amino acid starvation and thought to mediate the stringent response. RelA contains a TGS domain, named after the Threonyl-tRNA Synthetase, GTPase, and SpoT proteins where it occurs. The function of the TGS domain is unknown.
Probab=98.78 E-value=1.6e-08 Score=81.51 Aligned_cols=56 Identities=45% Similarity=0.539 Sum_probs=50.3
Q ss_pred EEEEccCCCeEecCCCCCHHHHHHHhCCCC----ceEEEcCEeeCCCCcCCCCCEEEEeC
Q 005392 643 VIVCWPNGEIMRLRSGSTAADAAMKVGLEG----KLVLVNGQLVLPNTELKDGDIVEVRV 698 (698)
Q Consensus 643 v~vftp~G~~~~l~~g~T~~d~a~~i~~~~----~~~~vNg~~v~l~~~L~~Gd~v~i~~ 698 (698)
+|||+|+|..+.+|.|.|+.|++..++.+. ..+.+||++++++++|.+||+|+++|
T Consensus 1 ~~~~~~~g~~~~~~~~~t~~~~~~~~~~~~~~~~va~~vng~~vdl~~~l~~~~~ve~v~ 60 (60)
T cd01668 1 IYVFTPKGEIIELPAGATVLDFAYAIHTEIGNRCVGAKVNGKLVPLSTVLKDGDIVEIIT 60 (60)
T ss_pred CEEECCCCCEEEcCCCCCHHHHHHHHChHhhhheEEEEECCEECCCCCCCCCCCEEEEEC
Confidence 489999999999999999999999888432 33799999999999999999999986
No 16
>cd01666 TGS_DRG_C TGS_DRG_C: DRG (developmentally regulated GTP-binding protein) represents a family of GTP-binding proteins that includes two members, DRG1 and DRG2. DRG1 and DRG2 have a C-terminal TGS domain (named after the ThrRS, GTPase, and SpoT proteins where it occurs) with a predominantly beta-sheet structure. The function of TGS is unknown but its presence in two types of regulatory proteins (the DRG GTPases and guanosine polyphosphate phosphohydrolases/synthetases) suggests a ligand (most likely nucleotide)-binding, regulatory role.
Probab=98.76 E-value=6.6e-09 Score=89.61 Aligned_cols=49 Identities=35% Similarity=0.358 Sum_probs=42.4
Q ss_pred CCeEecCCCCCHHHHHHHhC--CCC--ceEE-------EcCEeeCCCCcCCCCCEEEEeC
Q 005392 650 GEIMRLRSGSTAADAAMKVG--LEG--KLVL-------VNGQLVLPNTELKDGDIVEVRV 698 (698)
Q Consensus 650 G~~~~l~~g~T~~d~a~~i~--~~~--~~~~-------vNg~~v~l~~~L~~Gd~v~i~~ 698 (698)
.+.+.||.|+|+.|||+++| ++. +.|. +|||.|+++++|+|||+|+|.|
T Consensus 16 ~~~liL~~GaTV~D~a~~iH~di~~~f~~A~v~g~s~~~~gq~Vgl~~~L~d~DvVeI~~ 75 (75)
T cd01666 16 DEPVILRRGSTVEDVCNKIHKDLVKQFKYALVWGSSVKHSPQRVGLDHVLEDEDVVQIVK 75 (75)
T ss_pred CCCEEECCCCCHHHHHHHHHHHHHHhCCeeEEeccCCcCCCeECCCCCEecCCCEEEEeC
Confidence 46788999999999999999 444 3355 4999999999999999999986
No 17
>cd01669 TGS_Ygr210_C TGS_Ygr210_C: The C-terminal TGS domain of Ygr210 GTP-binding protein which is a member of Obg-like family of GTPases, and present in archaea. Several Obg-like family members possess a C-terminal RNA-binding domain, the TGS domain, which is also present in threonyl-tRNA synthetase and in bacterial guanosine polyphosphatase SpoT. TGS is a small domain of about 50 amino acid residues with a predominantly beta-sheet structure. There is no direct information on the function of the TGS domain, but its presence in two types of regulatory proteins (the GTPases and guanosine polyphosphate phosphohydrolases/synthetases) suggests a ligand (most likely nucleotide)-binding, regulatory role.
Probab=98.76 E-value=7.6e-09 Score=89.47 Aligned_cols=48 Identities=27% Similarity=0.359 Sum_probs=42.9
Q ss_pred CCeEecCCCCCHHHHHHHhC--CCCce-----EEEcCEeeCCCCcCCCCCEEEEeC
Q 005392 650 GEIMRLRSGSTAADAAMKVG--LEGKL-----VLVNGQLVLPNTELKDGDIVEVRV 698 (698)
Q Consensus 650 G~~~~l~~g~T~~d~a~~i~--~~~~~-----~~vNg~~v~l~~~L~~Gd~v~i~~ 698 (698)
++.+.||.|+|+.||||+|| +++.+ ++ |||.++++|+|+|||+|+|+|
T Consensus 22 ~d~~~l~~GaTv~D~A~~IHtdi~~~f~~Ai~~k-~~~~vg~~~~L~dgDvV~Ii~ 76 (76)
T cd01669 22 PDAFLLPKGSTARDLAYAIHTDIGDGFLHAIDAR-TGRRVGEDYELKHRDVIKIVS 76 (76)
T ss_pred cceEEECCCCCHHHHHHHHHHHHHhcceeeEEee-CCEEeCCCcEecCCCEEEEeC
Confidence 57888999999999999999 66642 35 999999999999999999997
No 18
>PRK01777 hypothetical protein; Validated
Probab=98.34 E-value=1.2e-06 Score=78.87 Aligned_cols=56 Identities=30% Similarity=0.369 Sum_probs=46.0
Q ss_pred cEEEEEccCC---CeEecCCCCCHHHHHHHhCCCCc---------eEEEcCEeeCCCCcCCCCCEEEEe
Q 005392 641 EVVIVCWPNG---EIMRLRSGSTAADAAMKVGLEGK---------LVLVNGQLVLPNTELKDGDIVEVR 697 (698)
Q Consensus 641 ~~v~vftp~G---~~~~l~~g~T~~d~a~~i~~~~~---------~~~vNg~~v~l~~~L~~Gd~v~i~ 697 (698)
+++|. +|+- .-+.+|+|+|+.|++.++|+... .+.|||+.+.++++|++||+|||.
T Consensus 7 ~V~ya-~~~~~~~~~l~vp~GtTv~dal~~sgi~~~~pei~~~~~~vgI~Gk~v~~d~~L~dGDRVeIy 74 (95)
T PRK01777 7 EVVYA-LPERQYLQRLTLQEGATVEEAIRASGLLELRTDIDLAKNKVGIYSRPAKLTDVLRDGDRVEIY 74 (95)
T ss_pred EEEEE-CCCceEEEEEEcCCCCcHHHHHHHcCCCccCcccccccceEEEeCeECCCCCcCCCCCEEEEe
Confidence 34443 5543 35789999999999999996543 589999999999999999999995
No 19
>PF02824 TGS: TGS domain; InterPro: IPR004095 The TGS domain is present in a number of enzymes, for example, in threonyl-tRNA synthetase (ThrRS), GTPase, and guanosine-3',5'-bis(diphosphate) 3'-pyrophosphohydrolase (SpoT) []. The TGS domain is also present at the amino terminus of the uridine kinase from the spirochaete Treponema pallidum (but not any other organism, including the related spirochaete Borrelia burgdorferi). TGS is a small domain that consists of ~50 amino acid residues and is predicted to possess a predominantly beta-sheet structure. There is no direct information on the functions of the TGS domain, but its presence in two types of regulatory proteins (the GTPases and guanosine polyphosphate phosphohydrolases/synthetases) suggests a ligand (most likely nucleotide)-binding, regulatory role []. ; PDB: 1WXQ_A 1NYR_B 1NYQ_B 2KMM_A 1WWT_A 1TKE_A 1TKG_A 1TJE_A 1QF6_A 1TKY_A ....
Probab=98.20 E-value=5e-07 Score=74.59 Aligned_cols=49 Identities=27% Similarity=0.340 Sum_probs=42.5
Q ss_pred cccccccc---CCCCCceeee-------cCCceeeeEEEEEccCCeeEEEecccccCCCCeEEEcC
Q 005392 436 DLFQKYSS---LKMGHPVIRV-------EGSNLLAAVIIRVEKGGRELLVAVSFGLAASEVVADRR 491 (698)
Q Consensus 436 ~~ftp~g~---lp~g~~v~t~-------iG~~c~gAkV~~v~~ngr~l~v~l~~~L~~gD~Vei~T 491 (698)
.+|+|.|. +|.|+|+.++ +|++|++|+| ||+ .|+++++|++||+|+|+|
T Consensus 2 ~v~lpdG~~~~~~~g~T~~d~A~~I~~~l~~~~~~A~V-----ng~--~vdl~~~L~~~d~v~iiT 60 (60)
T PF02824_consen 2 RVYLPDGSIKELPEGSTVLDVAYSIHSSLAKRAVAAKV-----NGQ--LVDLDHPLEDGDVVEIIT 60 (60)
T ss_dssp EEEETTSCEEEEETTBBHHHHHHHHSHHHHHCEEEEEE-----TTE--EEETTSBB-SSEEEEEEE
T ss_pred EEECCCCCeeeCCCCCCHHHHHHHHCHHHHhheeEEEE-----cCE--ECCCCCCcCCCCEEEEEC
Confidence 36789994 7999996654 8999999999 999 999999999999999987
No 20
>cd01616 TGS The TGS domain, named after the ThrRS, GTPase, and SpoT/RelA proteins where it occurs, is structurally similar to ubiquitin. TGS is a small domain of about 50 amino acid residues with a predominantly beta-sheet structure. There is no direct information on the function of the TGS domain, but its presence in two types of regulatory proteins (the GTPases and guanosine polyphosphate phosphohydrolases/synthetases) suggests a ligand (most likely nucleotide)-binding, regulatory role.
Probab=98.19 E-value=4.2e-06 Score=65.73 Aligned_cols=54 Identities=39% Similarity=0.521 Sum_probs=47.7
Q ss_pred EEccCCCeEecCCCCCHHHHHHHhCCC--C--ceEEEcCEeeCCCCcCCCCCEEEEeC
Q 005392 645 VCWPNGEIMRLRSGSTAADAAMKVGLE--G--KLVLVNGQLVLPNTELKDGDIVEVRV 698 (698)
Q Consensus 645 vftp~G~~~~l~~g~T~~d~a~~i~~~--~--~~~~vNg~~v~l~~~L~~Gd~v~i~~ 698 (698)
+..++|..+.+|.|+|+.|++..++.+ . ..++|||++++|+++|.+||.|+++|
T Consensus 3 ~~~~~~~~~~~~~g~t~~~~~~~~~~~~~~~~~~~~vn~~~~~l~~~l~~~~~i~~i~ 60 (60)
T cd01616 3 IFTPDGSAVELPKGATAMDFALKIHTDLGKGFIGALVNGQLVDLSYTLQDGDTVSIVT 60 (60)
T ss_pred EECCCCCEEEcCCCCCHHHHHHHHHHHHHhheEEEEECCEECCCCcCcCCCCEEEEeC
Confidence 567889999999999999999999843 2 34799999999999999999999986
No 21
>PRK05659 sulfur carrier protein ThiS; Validated
Probab=98.04 E-value=1.1e-05 Score=67.23 Aligned_cols=53 Identities=38% Similarity=0.549 Sum_probs=47.4
Q ss_pred EccCCCeEecCCCCCHHHHHHHhCCCCce--EEEcCEeeC----CCCcCCCCCEEEEeC
Q 005392 646 CWPNGEIMRLRSGSTAADAAMKVGLEGKL--VLVNGQLVL----PNTELKDGDIVEVRV 698 (698)
Q Consensus 646 ftp~G~~~~l~~g~T~~d~a~~i~~~~~~--~~vNg~~v~----l~~~L~~Gd~v~i~~ 698 (698)
++=||+.+++|+|.|+.|+..++++.... +.|||..+| .++.|++||+|||++
T Consensus 3 i~vNG~~~~~~~~~tl~~lL~~l~~~~~~vav~vNg~iv~r~~~~~~~l~~gD~vei~~ 61 (66)
T PRK05659 3 IQLNGEPRELPDGESVAALLAREGLAGRRVAVEVNGEIVPRSQHASTALREGDVVEIVH 61 (66)
T ss_pred EEECCeEEEcCCCCCHHHHHHhcCCCCCeEEEEECCeEeCHHHcCcccCCCCCEEEEEE
Confidence 45589999999999999999999977643 689999999 999999999999985
No 22
>PRK06944 sulfur carrier protein ThiS; Provisional
Probab=97.95 E-value=2.1e-05 Score=65.28 Aligned_cols=52 Identities=31% Similarity=0.397 Sum_probs=46.3
Q ss_pred ccCCCeEecCCCCCHHHHHHHhCCCCce-EEEcCEeeCC----CCcCCCCCEEEEeC
Q 005392 647 WPNGEIMRLRSGSTAADAAMKVGLEGKL-VLVNGQLVLP----NTELKDGDIVEVRV 698 (698)
Q Consensus 647 tp~G~~~~l~~g~T~~d~a~~i~~~~~~-~~vNg~~v~l----~~~L~~Gd~v~i~~ 698 (698)
+=||+.+++|.|+|+.|+..++++...+ +.|||+++|- ++.|++||+|+|++
T Consensus 4 ~vNg~~~~~~~~~tl~~ll~~l~~~~~~~v~vN~~~v~~~~~~~~~L~~gD~vei~~ 60 (65)
T PRK06944 4 QLNQQTLSLPDGATVADALAAYGARPPFAVAVNGDFVARTQHAARALAAGDRLDLVQ 60 (65)
T ss_pred EECCEEEECCCCCcHHHHHHhhCCCCCeEEEECCEEcCchhcccccCCCCCEEEEEe
Confidence 4489999999999999999999976555 6999999996 78999999999985
No 23
>PRK06437 hypothetical protein; Provisional
Probab=97.91 E-value=2.3e-05 Score=66.18 Aligned_cols=53 Identities=26% Similarity=0.370 Sum_probs=46.0
Q ss_pred EccCC---CeEecCCCCCHHHHHHHhCCCCc-e-EEEcCEeeCCCCcCCCCCEEEEeC
Q 005392 646 CWPNG---EIMRLRSGSTAADAAMKVGLEGK-L-VLVNGQLVLPNTELKDGDIVEVRV 698 (698)
Q Consensus 646 ftp~G---~~~~l~~g~T~~d~a~~i~~~~~-~-~~vNg~~v~l~~~L~~Gd~v~i~~ 698 (698)
++=+| +-++++.|.|+.|+...+++... + +.|||+++|.++.|++||+|+|++
T Consensus 5 ~~v~g~~~~~~~i~~~~tv~dLL~~Lgi~~~~vaV~vNg~iv~~~~~L~dgD~Veiv~ 62 (67)
T PRK06437 5 IRVKGHINKTIEIDHELTVNDIIKDLGLDEEEYVVIVNGSPVLEDHNVKKEDDVLILE 62 (67)
T ss_pred EEecCCcceEEEcCCCCcHHHHHHHcCCCCccEEEEECCEECCCceEcCCCCEEEEEe
Confidence 34457 66999999999999999997663 3 689999999999999999999974
No 24
>cd00565 ThiS ThiaminS ubiquitin-like sulfur carrier protein. ThiS (ThiaminS) is a sulfur carrier protein involved in thiamin biosynthesis in bacteria. The ThiS fold, like those of two closely related proteins MoaD and Urm1, is similar to that of ubiquitin although there is little or no sequence similarity.
Probab=97.88 E-value=2.2e-05 Score=65.43 Aligned_cols=52 Identities=35% Similarity=0.506 Sum_probs=46.4
Q ss_pred ccCCCeEecCCCCCHHHHHHHhCCCCce--EEEcCEeeCCC----CcCCCCCEEEEeC
Q 005392 647 WPNGEIMRLRSGSTAADAAMKVGLEGKL--VLVNGQLVLPN----TELKDGDIVEVRV 698 (698)
Q Consensus 647 tp~G~~~~l~~g~T~~d~a~~i~~~~~~--~~vNg~~v~l~----~~L~~Gd~v~i~~ 698 (698)
+=||+.+++|.|.|+.|+...+++.... +.|||+++|.+ ++|++||.|+|++
T Consensus 3 ~iNg~~~~~~~~~tv~~ll~~l~~~~~~i~V~vNg~~v~~~~~~~~~L~~gD~V~ii~ 60 (65)
T cd00565 3 TVNGEPREVEEGATLAELLEELGLDPRGVAVALNGEIVPRSEWASTPLQDGDRIEIVT 60 (65)
T ss_pred EECCeEEEcCCCCCHHHHHHHcCCCCCcEEEEECCEEcCHHHcCceecCCCCEEEEEE
Confidence 3489999999999999999999976643 68999999999 9999999999974
No 25
>PF14451 Ub-Mut7C: Mut7-C ubiquitin
Probab=97.80 E-value=4.2e-05 Score=67.17 Aligned_cols=46 Identities=37% Similarity=0.470 Sum_probs=42.5
Q ss_pred eEecCCCCCHHHHHHHhCCCC---ceEEEcCEeeCCCCcCCCCCEEEEe
Q 005392 652 IMRLRSGSTAADAAMKVGLEG---KLVLVNGQLVLPNTELKDGDIVEVR 697 (698)
Q Consensus 652 ~~~l~~g~T~~d~a~~i~~~~---~~~~vNg~~v~l~~~L~~Gd~v~i~ 697 (698)
.+.++.|+|+.|++.++||++ ..+.|||+.|++++.|++||+|.|.
T Consensus 26 ~~~~~~~~tvkd~IEsLGVP~tEV~~i~vNG~~v~~~~~~~~Gd~v~V~ 74 (81)
T PF14451_consen 26 THPFDGGATVKDVIESLGVPHTEVGLILVNGRPVDFDYRLKDGDRVAVY 74 (81)
T ss_pred EEecCCCCcHHHHHHHcCCChHHeEEEEECCEECCCcccCCCCCEEEEE
Confidence 468899999999999999999 4689999999999999999999985
No 26
>PRK07440 hypothetical protein; Provisional
Probab=97.74 E-value=6.6e-05 Score=64.00 Aligned_cols=54 Identities=28% Similarity=0.437 Sum_probs=49.0
Q ss_pred EEccCCCeEecCCCCCHHHHHHHhCCCCce--EEEcCEeeC----CCCcCCCCCEEEEeC
Q 005392 645 VCWPNGEIMRLRSGSTAADAAMKVGLEGKL--VLVNGQLVL----PNTELKDGDIVEVRV 698 (698)
Q Consensus 645 vftp~G~~~~l~~g~T~~d~a~~i~~~~~~--~~vNg~~v~----l~~~L~~Gd~v~i~~ 698 (698)
-++=||+.+++|.|.|..|+...+++.... +-+||.++| .++.|++||+|||++
T Consensus 6 ~i~vNG~~~~~~~~~tl~~lL~~l~~~~~~vav~~N~~iv~r~~w~~~~L~~gD~IEIv~ 65 (70)
T PRK07440 6 TLQVNGETRTCSSGTSLPDLLQQLGFNPRLVAVEYNGEILHRQFWEQTQVQPGDRLEIVT 65 (70)
T ss_pred EEEECCEEEEcCCCCCHHHHHHHcCCCCCeEEEEECCEEeCHHHcCceecCCCCEEEEEE
Confidence 466799999999999999999999977654 699999999 999999999999985
No 27
>PRK09602 translation-associated GTPase; Reviewed
Probab=97.74 E-value=2.4e-05 Score=87.07 Aligned_cols=46 Identities=30% Similarity=0.414 Sum_probs=41.3
Q ss_pred eEecCCCCCHHHHHHHhC--CCCce-----EEEcCEeeCCCCcCCCCCEEEEeC
Q 005392 652 IMRLRSGSTAADAAMKVG--LEGKL-----VLVNGQLVLPNTELKDGDIVEVRV 698 (698)
Q Consensus 652 ~~~l~~g~T~~d~a~~i~--~~~~~-----~~vNg~~v~l~~~L~~Gd~v~i~~ 698 (698)
.+.||.|+|+.|||+.|| ++..+ ++ ++|.++++|+|+|||+|+|+|
T Consensus 342 ~~~l~~g~t~~d~A~~IH~d~~~~fi~A~~~~-~~~~~g~~~~l~dgDiv~i~~ 394 (396)
T PRK09602 342 AFLLPKGSTARDLAYKIHTDIGEGFLYAIDAR-TKRRIGEDYELKDGDVIKIVS 394 (396)
T ss_pred eEEECCCCCHHHHHHHHHHHHHhhceehhccc-CCcccCCCcEecCCCEEEEEe
Confidence 899999999999999999 65543 35 899999999999999999986
No 28
>PRK08364 sulfur carrier protein ThiS; Provisional
Probab=97.72 E-value=7.9e-05 Score=63.31 Aligned_cols=47 Identities=36% Similarity=0.501 Sum_probs=42.7
Q ss_pred eEecCCCCCHHHHHHHhCCCCce--EEEcCEeeCCCCcCCCCCEEEEeC
Q 005392 652 IMRLRSGSTAADAAMKVGLEGKL--VLVNGQLVLPNTELKDGDIVEVRV 698 (698)
Q Consensus 652 ~~~l~~g~T~~d~a~~i~~~~~~--~~vNg~~v~l~~~L~~Gd~v~i~~ 698 (698)
.+++|.|+|+.|+...+++...+ +.|||++|+.++.|++||.|+|++
T Consensus 17 ~~~~~~~~tv~~ll~~l~~~~~~v~v~vNg~iv~~~~~l~~gD~Veii~ 65 (70)
T PRK08364 17 EIEWRKGMKVADILRAVGFNTESAIAKVNGKVALEDDPVKDGDYVEVIP 65 (70)
T ss_pred EEEcCCCCcHHHHHHHcCCCCccEEEEECCEECCCCcCcCCCCEEEEEc
Confidence 77889999999999999987654 699999999999999999999974
No 29
>COG2104 ThiS Sulfur transfer protein involved in thiamine biosynthesis [Coenzyme metabolism]
Probab=97.66 E-value=9.4e-05 Score=62.92 Aligned_cols=50 Identities=40% Similarity=0.579 Sum_probs=46.3
Q ss_pred CCCeEecCCCCCHHHHHHHhCCCCce--EEEcCEeeC----CCCcCCCCCEEEEeC
Q 005392 649 NGEIMRLRSGSTAADAAMKVGLEGKL--VLVNGQLVL----PNTELKDGDIVEVRV 698 (698)
Q Consensus 649 ~G~~~~l~~g~T~~d~a~~i~~~~~~--~~vNg~~v~----l~~~L~~Gd~v~i~~ 698 (698)
+|+-++++.+.|..|+-..+++.... +.|||..|| .++.|++||+|||++
T Consensus 8 ng~~~e~~~~~tv~dLL~~l~~~~~~vav~vNg~iVpr~~~~~~~l~~gD~ievv~ 63 (68)
T COG2104 8 NGKEVEIAEGTTVADLLAQLGLNPEGVAVAVNGEIVPRSQWADTILKEGDRIEVVR 63 (68)
T ss_pred CCEEEEcCCCCcHHHHHHHhCCCCceEEEEECCEEccchhhhhccccCCCEEEEEE
Confidence 59999999999999999999988754 699999999 999999999999974
No 30
>TIGR01683 thiS thiamine biosynthesis protein ThiS. This model represents ThiS, a small thiamine-biosynthesis protein related to MoaD, a molybdenum cofactor biosynthesis protein. Both proteins are involved in sulfur transfer. ThiS has a conserved Gly-Gly C-terminus that is modified, in reactions requiring ThiI, ThiF, IscS, and a sulfur atom from Cys, into the thiocarboxylate that provides the sulfur for thiazole biosynthesis.
Probab=97.66 E-value=0.00011 Score=61.21 Aligned_cols=50 Identities=38% Similarity=0.555 Sum_probs=44.4
Q ss_pred CCCeEecCCCCCHHHHHHHhCCCCce--EEEcCEeeC----CCCcCCCCCEEEEeC
Q 005392 649 NGEIMRLRSGSTAADAAMKVGLEGKL--VLVNGQLVL----PNTELKDGDIVEVRV 698 (698)
Q Consensus 649 ~G~~~~l~~g~T~~d~a~~i~~~~~~--~~vNg~~v~----l~~~L~~Gd~v~i~~ 698 (698)
||+.+.+|.|.|+.|+...+++.... +.|||+++| .++.|++||.|+|++
T Consensus 4 Ng~~~~~~~~~tv~~ll~~l~~~~~~v~v~vN~~iv~~~~~~~~~L~~gD~veii~ 59 (64)
T TIGR01683 4 NGEPVEVEDGLTLAALLESLGLDPRRVAVAVNGEIVPRSEWDDTILKEGDRIEIVT 59 (64)
T ss_pred CCeEEEcCCCCcHHHHHHHcCCCCCeEEEEECCEEcCHHHcCceecCCCCEEEEEE
Confidence 89999999999999999999977644 699999996 447999999999985
No 31
>PRK07696 sulfur carrier protein ThiS; Provisional
Probab=97.61 E-value=0.0001 Score=62.22 Aligned_cols=52 Identities=25% Similarity=0.367 Sum_probs=46.5
Q ss_pred ccCCCeEecCCC-CCHHHHHHHhCCCCce--EEEcCEeeCCC----CcCCCCCEEEEeC
Q 005392 647 WPNGEIMRLRSG-STAADAAMKVGLEGKL--VLVNGQLVLPN----TELKDGDIVEVRV 698 (698)
Q Consensus 647 tp~G~~~~l~~g-~T~~d~a~~i~~~~~~--~~vNg~~v~l~----~~L~~Gd~v~i~~ 698 (698)
+=||+.+++|.| +|+.|+...+++..+. +-+||.++|-+ +.|++||+|||++
T Consensus 4 ~vNG~~~~~~~~~~tv~~lL~~l~~~~~~vav~vN~~iv~r~~w~~~~L~~gD~iEIv~ 62 (67)
T PRK07696 4 KINGNQIEVPESVKTVAELLTHLELDNKIVVVERNKDILQKDDHTDTSVFDGDQIEIVT 62 (67)
T ss_pred EECCEEEEcCCCcccHHHHHHHcCCCCCeEEEEECCEEeCHHHcCceecCCCCEEEEEE
Confidence 348999999999 7999999999976643 69999999999 9999999999985
No 32
>cd01667 TGS_ThrRS_N TGS _ThrRS_N: ThrRS (threonyl-tRNA Synthetase) is a class II tRNA synthetase that couples threonine to its cognate tRNA. In addition to its catalytic and anticodon-binding domains, ThrRS has an N-terminal TGS domain, named after the ThrRS, GTPase, and SpoT proteins where it occurs. The TGS domain is thought to interact with the tRNA acceptor arm along with an adjacent N-terminal domain. The specific function of TGS is not well understood.
Probab=97.56 E-value=0.00021 Score=56.38 Aligned_cols=53 Identities=25% Similarity=0.334 Sum_probs=45.5
Q ss_pred EccCCCeEecCCCCCHHHHHHHhCCC--C--ceEEEcCEeeCCCCcCCCCCEEEEeC
Q 005392 646 CWPNGEIMRLRSGSTAADAAMKVGLE--G--KLVLVNGQLVLPNTELKDGDIVEVRV 698 (698)
Q Consensus 646 ftp~G~~~~l~~g~T~~d~a~~i~~~--~--~~~~vNg~~v~l~~~L~~Gd~v~i~~ 698 (698)
-.|+|..+.+|.|+|+.|+++.++.. . -.++|||++++|.++|.+|+.|+++|
T Consensus 4 ~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~v~~~vng~~~dL~~~l~~~~~ie~i~ 60 (61)
T cd01667 4 TLPDGSVKEFPKGTTPLDIAKSISPGLAKKAVAAKVNGELVDLSRPLEEDCELEIIT 60 (61)
T ss_pred EcCCCCEEEeCCCCCHHHHHHHHHHHHHhheEEEEECCEEecCCcCcCCCCEEEEEe
Confidence 34778999999999999999998732 2 23799999999999999999999875
No 33
>cd04938 TGS_Obg-like TGS_Obg-like: The C-terminal TGS domain of Obg-like GTPases such as those present in DRG (developmentally regulated GTP-binding protein), and GTP-binding proteins Ygr210 and YchF. The TGS domain (named after the ThrRS, GTPase, and SpoT proteins where it occurs) is a small domain of about 50 amino acid residues with a predominantly beta-sheet structure. There is no direct information on the function of the TGS domain, but its presence in two types of regulatory proteins (the GTPases and guanosine polyphosphate phosphohydrolases/synthetases) suggests a ligand (most likely nucleotide)-binding, regulatory role.
Probab=97.55 E-value=0.00013 Score=63.35 Aligned_cols=48 Identities=23% Similarity=0.302 Sum_probs=41.2
Q ss_pred CeEecCCCCCHHHHHHHhC--CCC--ceEEEcC-EeeCCCCcCCCCCEEEEeC
Q 005392 651 EIMRLRSGSTAADAAMKVG--LEG--KLVLVNG-QLVLPNTELKDGDIVEVRV 698 (698)
Q Consensus 651 ~~~~l~~g~T~~d~a~~i~--~~~--~~~~vNg-~~v~l~~~L~~Gd~v~i~~ 698 (698)
+.+-||.|+|+.|||+.|| +.. +.|.|-| |.+-+++.|++||+|+|+|
T Consensus 24 ~~~~l~~g~tv~d~a~~IH~d~~~~F~~A~v~~~~~vg~d~~l~d~DVv~i~~ 76 (76)
T cd04938 24 DCVLVKKGTTVGDVARKIHGDLEKGFIEAVGGRRRLEGKDVILGKNDILKFKT 76 (76)
T ss_pred eeEEEcCCCCHHHHHHHHhHHHHhccEEEEEccCEEECCCEEecCCCEEEEEC
Confidence 5677899999999999999 433 4577776 9999999999999999986
No 34
>PRK08053 sulfur carrier protein ThiS; Provisional
Probab=97.46 E-value=0.0003 Score=59.01 Aligned_cols=53 Identities=17% Similarity=0.198 Sum_probs=46.4
Q ss_pred EccCCCeEecCCCCCHHHHHHHhCCCCc-e-EEEcCEeeC----CCCcCCCCCEEEEeC
Q 005392 646 CWPNGEIMRLRSGSTAADAAMKVGLEGK-L-VLVNGQLVL----PNTELKDGDIVEVRV 698 (698)
Q Consensus 646 ftp~G~~~~l~~g~T~~d~a~~i~~~~~-~-~~vNg~~v~----l~~~L~~Gd~v~i~~ 698 (698)
++=||+.+++|.|.|+.|+-..++.... + +-|||+.|| -++.|++||.|+|++
T Consensus 3 i~vNg~~~~~~~~~tl~~ll~~l~~~~~~vaVavN~~iv~r~~w~~~~L~~gD~Ieii~ 61 (66)
T PRK08053 3 ILFNDQPMQCAAGQTVHELLEQLNQLQPGAALAINQQIIPREQWAQHIVQDGDQILLFQ 61 (66)
T ss_pred EEECCeEEEcCCCCCHHHHHHHcCCCCCcEEEEECCEEeChHHcCccccCCCCEEEEEE
Confidence 3448999999999999999999997654 4 699999999 777999999999985
No 35
>PRK06488 sulfur carrier protein ThiS; Validated
Probab=97.32 E-value=0.00046 Score=57.55 Aligned_cols=50 Identities=32% Similarity=0.437 Sum_probs=44.0
Q ss_pred cCCCeEecCCCCCHHHHHHHhCCCCce--EEEcCEeeCC----CCcCCCCCEEEEeC
Q 005392 648 PNGEIMRLRSGSTAADAAMKVGLEGKL--VLVNGQLVLP----NTELKDGDIVEVRV 698 (698)
Q Consensus 648 p~G~~~~l~~g~T~~d~a~~i~~~~~~--~~vNg~~v~l----~~~L~~Gd~v~i~~ 698 (698)
=||+.+.+ .+.|+.|+-..+++.... +-|||+++|- +++|++||+|+|++
T Consensus 5 ~Ng~~~~~-~~~tl~~Ll~~l~~~~~~vavavN~~iv~~~~~~~~~L~dgD~Ieiv~ 60 (65)
T PRK06488 5 VNGETLQT-EATTLALLLAELDYEGNWLATAVNGELVHKEARAQFVLHEGDRIEILS 60 (65)
T ss_pred ECCeEEEc-CcCcHHHHHHHcCCCCCeEEEEECCEEcCHHHcCccccCCCCEEEEEE
Confidence 48899999 468999999999987653 6999999998 89999999999985
No 36
>PF03658 Ub-RnfH: RnfH family Ubiquitin; InterPro: IPR005346 This is a small family of proteins of unknown function.; PDB: 2HJ1_B.
Probab=97.29 E-value=0.00022 Score=63.02 Aligned_cols=55 Identities=33% Similarity=0.446 Sum_probs=35.3
Q ss_pred EEEEEccCCC---eEecCCCCCHHHHHHHhCCC---------CceEEEcCEeeCCCCcCCCCCEEEEe
Q 005392 642 VVIVCWPNGE---IMRLRSGSTAADAAMKVGLE---------GKLVLVNGQLVLPNTELKDGDIVEVR 697 (698)
Q Consensus 642 ~v~vftp~G~---~~~l~~g~T~~d~a~~i~~~---------~~~~~vNg~~v~l~~~L~~Gd~v~i~ 697 (698)
++| .+|+.. .+.||+|+|+.|+..+-|+- ...+=|=|+.+++++.|++||+|||-
T Consensus 5 V~y-A~p~~q~~~~l~vp~GtTv~~Ai~~Sgi~~~~p~idl~~~~vGIfGk~~~~d~~L~~GDRVEIY 71 (84)
T PF03658_consen 5 VAY-ALPERQVILTLEVPEGTTVAQAIEASGILEQFPEIDLEKNKVGIFGKLVKLDTVLRDGDRVEIY 71 (84)
T ss_dssp EEE-EETTCEEEEEEEEETT-BHHHHHHHHTHHHH-TT--TTTSEEEEEE-S--TT-B--TT-EEEEE
T ss_pred EEE-ECCCeEEEEEEECCCcCcHHHHHHHcCchhhCcccCcccceeeeeeeEcCCCCcCCCCCEEEEe
Confidence 444 355544 36899999999999988832 23367889999999999999999984
No 37
>cd01669 TGS_Ygr210_C TGS_Ygr210_C: The C-terminal TGS domain of Ygr210 GTP-binding protein which is a member of Obg-like family of GTPases, and present in archaea. Several Obg-like family members possess a C-terminal RNA-binding domain, the TGS domain, which is also present in threonyl-tRNA synthetase and in bacterial guanosine polyphosphatase SpoT. TGS is a small domain of about 50 amino acid residues with a predominantly beta-sheet structure. There is no direct information on the function of the TGS domain, but its presence in two types of regulatory proteins (the GTPases and guanosine polyphosphate phosphohydrolases/synthetases) suggests a ligand (most likely nucleotide)-binding, regulatory role.
Probab=97.16 E-value=0.00024 Score=61.65 Aligned_cols=43 Identities=23% Similarity=0.295 Sum_probs=35.9
Q ss_pred CCCCCc-------eeeecCCceeeeEEEEEccCCeeEEEecccccCCCCeEEEcC
Q 005392 444 LKMGHP-------VIRVEGSNLLAAVIIRVEKGGRELLVAVSFGLAASEVVADRR 491 (698)
Q Consensus 444 lp~g~~-------v~t~iG~~c~gAkV~~v~~ngr~l~v~l~~~L~~gD~Vei~T 491 (698)
||.|+| ||+.+|++|+.|.+. . ||+ .++++|.|++||+|+|+|
T Consensus 27 l~~GaTv~D~A~~IHtdi~~~f~~Ai~~--k-~~~--~vg~~~~L~dgDvV~Ii~ 76 (76)
T cd01669 27 LPKGSTARDLAYAIHTDIGDGFLHAIDA--R-TGR--RVGEDYELKHRDVIKIVS 76 (76)
T ss_pred ECCCCCHHHHHHHHHHHHHhcceeeEEe--e-CCE--EeCCCcEecCCCEEEEeC
Confidence 466655 688899999988652 2 788 899999999999999987
No 38
>PRK05863 sulfur carrier protein ThiS; Provisional
Probab=97.04 E-value=0.0011 Score=55.62 Aligned_cols=53 Identities=26% Similarity=0.264 Sum_probs=45.3
Q ss_pred EccCCCeEecCCCCCHHHHHHHhCCCCce--EEEcCEeeCC---CCcCCCCCEEEEeC
Q 005392 646 CWPNGEIMRLRSGSTAADAAMKVGLEGKL--VLVNGQLVLP---NTELKDGDIVEVRV 698 (698)
Q Consensus 646 ftp~G~~~~l~~g~T~~d~a~~i~~~~~~--~~vNg~~v~l---~~~L~~Gd~v~i~~ 698 (698)
++=||+.+.+|+|.|..|+...++++... +-+||..+|- ++.|++||+|||++
T Consensus 3 i~vNG~~~~~~~~~tl~~ll~~l~~~~~~vav~~N~~iv~r~~~~~~L~~gD~ieIv~ 60 (65)
T PRK05863 3 VVVNEEQVEVDEQTTVAALLDSLGFPEKGIAVAVDWSVLPRSDWATKLRDGARLEVVT 60 (65)
T ss_pred EEECCEEEEcCCCCcHHHHHHHcCCCCCcEEEEECCcCcChhHhhhhcCCCCEEEEEe
Confidence 35589999999999999999999987643 6999998773 46799999999985
No 39
>cd01666 TGS_DRG_C TGS_DRG_C: DRG (developmentally regulated GTP-binding protein) represents a family of GTP-binding proteins that includes two members, DRG1 and DRG2. DRG1 and DRG2 have a C-terminal TGS domain (named after the ThrRS, GTPase, and SpoT proteins where it occurs) with a predominantly beta-sheet structure. The function of TGS is unknown but its presence in two types of regulatory proteins (the DRG GTPases and guanosine polyphosphate phosphohydrolases/synthetases) suggests a ligand (most likely nucleotide)-binding, regulatory role.
Probab=96.89 E-value=0.00044 Score=59.89 Aligned_cols=46 Identities=20% Similarity=0.187 Sum_probs=37.8
Q ss_pred CCCCCce-------eeecCCceeeeEEEE--EccCCeeEEEecccccCCCCeEEEcC
Q 005392 444 LKMGHPV-------IRVEGSNLLAAVIIR--VEKGGRELLVAVSFGLAASEVVADRR 491 (698)
Q Consensus 444 lp~g~~v-------~t~iG~~c~gAkV~~--v~~ngr~l~v~l~~~L~~gD~Vei~T 491 (698)
||.|+|| |+.++.+|..|+|-. +..+|+ .|+++++|++||+|+|+|
T Consensus 21 L~~GaTV~D~a~~iH~di~~~f~~A~v~g~s~~~~gq--~Vgl~~~L~d~DvVeI~~ 75 (75)
T cd01666 21 LRRGSTVEDVCNKIHKDLVKQFKYALVWGSSVKHSPQ--RVGLDHVLEDEDVVQIVK 75 (75)
T ss_pred ECCCCCHHHHHHHHHHHHHHhCCeeEEeccCCcCCCe--ECCCCCEecCCCEEEEeC
Confidence 6889885 566899999999742 223788 799999999999999975
No 40
>PRK06083 sulfur carrier protein ThiS; Provisional
Probab=96.86 E-value=0.0027 Score=56.24 Aligned_cols=58 Identities=22% Similarity=0.228 Sum_probs=49.8
Q ss_pred cEEEEEccCCCeEecCCCCCHHHHHHHhCCCCce--EEEcCEeeCC----CCcCCCCCEEEEeC
Q 005392 641 EVVIVCWPNGEIMRLRSGSTAADAAMKVGLEGKL--VLVNGQLVLP----NTELKDGDIVEVRV 698 (698)
Q Consensus 641 ~~v~vftp~G~~~~l~~g~T~~d~a~~i~~~~~~--~~vNg~~v~l----~~~L~~Gd~v~i~~ 698 (698)
....-++=||+.+.++.|.|..|+...++++.+. +-|||.+||- ++.|++||+|||++
T Consensus 16 ~~~m~I~VNG~~~~~~~~~tl~~LL~~l~~~~~~vAVevNg~iVpr~~w~~t~L~egD~IEIv~ 79 (84)
T PRK06083 16 MVLITISINDQSIQVDISSSLAQIIAQLSLPELGCVFAINNQVVPRSEWQSTVLSSGDAISLFQ 79 (84)
T ss_pred CceEEEEECCeEEEcCCCCcHHHHHHHcCCCCceEEEEECCEEeCHHHcCcccCCCCCEEEEEE
Confidence 3344567799999999999999999999988753 5999999995 68899999999985
No 41
>cd00754 MoaD Ubiquitin domain of MoaD-like proteins. MoaD family. Members of this family are involved in biosynthesis of the molybdenum cofactor (Moco), an essential cofactor of a diverse group of redox enzymes. Moco biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and eukaryotes. Moco contains a tricyclic pyranopterin, termed molybdopterin (MPT), that contains the cis-dithiolene group responsible for molybdenum ligation. This dithiolene group is generated by MPT synthase, the second major step in Moco biosynthesis. MPT synthase consists of a large (MoeE) and small (MoaD) subunit. The small subunit is inserted into the lare subunit to form the active site. The small subunit, which is structurally similar to ubiquitin, contains a C-terminal thiocarboxylated glycine residue that serves as a sulfur donor for the synthesis of the MPT dithiolene group.
Probab=96.78 E-value=0.0025 Score=54.49 Aligned_cols=48 Identities=31% Similarity=0.409 Sum_probs=40.5
Q ss_pred CeEecCCCCCHHHHHHHhCC--C-------Cc-eEEEcCEeeCCCCcCCCCCEEEEeC
Q 005392 651 EIMRLRSGSTAADAAMKVGL--E-------GK-LVLVNGQLVLPNTELKDGDIVEVRV 698 (698)
Q Consensus 651 ~~~~l~~g~T~~d~a~~i~~--~-------~~-~~~vNg~~v~l~~~L~~Gd~v~i~~ 698 (698)
..+.+|.|+|+.|+...+.. + .. .+.|||+.++.+++|++||.|.|+.
T Consensus 18 ~~~~~~~~~tv~~ll~~l~~~~~~~~~~~~~~~~v~vNg~~v~~~~~l~~gD~v~i~p 75 (80)
T cd00754 18 EELELPEGATVGELLDALEARYPGLLEELLARVRIAVNGEYVRLDTPLKDGDEVAIIP 75 (80)
T ss_pred EEEECCCCCcHHHHHHHHHHHCchHHHhhhhcEEEEECCeEcCCCcccCCCCEEEEeC
Confidence 45688999999999998872 2 12 3899999999999999999999974
No 42
>PLN02799 Molybdopterin synthase sulfur carrier subunit
Probab=96.57 E-value=0.0043 Score=53.84 Aligned_cols=50 Identities=24% Similarity=0.322 Sum_probs=41.7
Q ss_pred CCCeEecCCCCCHHHHHHHhCCC---------CceEEEcCEeeCCCCcCCCCCEEEEeC
Q 005392 649 NGEIMRLRSGSTAADAAMKVGLE---------GKLVLVNGQLVLPNTELKDGDIVEVRV 698 (698)
Q Consensus 649 ~G~~~~l~~g~T~~d~a~~i~~~---------~~~~~vNg~~v~l~~~L~~Gd~v~i~~ 698 (698)
+++.+++|.|+|+.|+...+... ...+.|||+.++.+++|++||.|.|+.
T Consensus 19 ~~~~~~~~~~~tv~~L~~~l~~~~p~l~~~~~~~~vavN~~~v~~~~~l~dgDeVai~P 77 (82)
T PLN02799 19 SDMTLELPAGSTTADCLAELVAKFPSLEEVRSCCVLALNEEYTTESAALKDGDELAIIP 77 (82)
T ss_pred CeEEEECCCCCcHHHHHHHHHHHChhHHHHhhCcEEEECCEEcCCCcCcCCCCEEEEeC
Confidence 44778999999999999988521 123799999999999999999999973
No 43
>TIGR03276 Phn-HD phosphonate degradation operons associated HDIG domain protein. This small clade of proteins are found adjacent to other genes implicated in the catabolism of phosphonates. They are members of the TIGR00277 domain family and contain a series of five invariant histidines (the domain in general has only four).
Probab=96.15 E-value=0.0064 Score=61.01 Aligned_cols=47 Identities=19% Similarity=0.230 Sum_probs=38.0
Q ss_pred CCCChHHHHHHhhccc---ccccC--------------CCHHHHHHHhcHHHHHHHHHhhhhhh
Q 005392 7 GKRAVDTVVAGILHDV---VDDAC--------------ESLGSIEEEFGDEVAKLVAGVSRLSY 53 (698)
Q Consensus 7 g~~d~~tIiAALLHDv---VEDT~--------------~T~eeI~~~FG~~VA~LV~gvTKl~~ 53 (698)
-+.+++.|+||||||+ ++|+. +..+.|+..||++|+.+|......+.
T Consensus 40 ~Gad~elvvAALLHDIGhll~~~~~~~~~~g~~~~He~iga~~Lr~~F~~~V~~lV~~Hv~aKr 103 (179)
T TIGR03276 40 AGADDELIVAAFLHDIGHLLADEGATPMGRGGDDHHEELAADYLRELFSPSVTEPIRLHVQAKR 103 (179)
T ss_pred cCCCHHHHHHHHHHhcchhhhcccccccccCCCccHHHHHHHHHHHHcCHHHHHHHHHHHHHHH
Confidence 4568999999999998 77653 22577889999999999999886544
No 44
>PF02597 ThiS: ThiS family; InterPro: IPR003749 ThiS (thiaminS) is a 66 aa protein involved in sulphur transfer. ThiS is coded in the thiCEFSGH operon in Escherichia coli. This family of proteins have two conserved Glycines at the COOH terminus. Thiocarboxylate is formed at the last G in the activation process. Sulphur is transferred from ThiI to ThiS in a reaction catalysed by IscS []. MoaD, a protein involved in sulphur transfer during molybdopterin synthesis, is about the same length and shows limited sequence similarity to ThiS. Both have the conserved GG at the COOH end.; PDB: 1JW9_D 1JWB_D 1JWA_D 3BII_D 1NVI_D 1FMA_D 1FM0_D 2QIE_G 2Q5W_D 2K5P_A ....
Probab=96.10 E-value=0.0072 Score=51.16 Aligned_cols=48 Identities=35% Similarity=0.467 Sum_probs=41.6
Q ss_pred CeEecCCCCCHHHHHHHhC--CC-----Cc-eEEEcCEeeCC---CCcCCCCCEEEEeC
Q 005392 651 EIMRLRSGSTAADAAMKVG--LE-----GK-LVLVNGQLVLP---NTELKDGDIVEVRV 698 (698)
Q Consensus 651 ~~~~l~~g~T~~d~a~~i~--~~-----~~-~~~vNg~~v~l---~~~L~~Gd~v~i~~ 698 (698)
....++.|+|+.|+..++. .+ .. .+.|||++++. +++|++||.|.|+.
T Consensus 14 ~~~~~~~~~tv~~ll~~l~~~~p~~~~~~~~~v~vN~~~v~~~~~~~~l~~gD~V~i~p 72 (77)
T PF02597_consen 14 EEIEVPEGSTVRDLLEALAERYPELALRDRVAVAVNGEIVPDDGLDTPLKDGDEVAILP 72 (77)
T ss_dssp EEEEESSTSBHHHHHHHHCHHTGGGHTTTTEEEEETTEEEGGGTTTSBEETTEEEEEEE
T ss_pred eEEecCCCCcHHHHHHHHHhhccccccCccEEEEECCEEcCCccCCcCcCCCCEEEEEC
Confidence 5678899999999999999 32 33 48999999999 99999999999973
No 45
>TIGR01682 moaD molybdopterin converting factor, subunit 1, non-archaeal. The C-terminal Gly-Gly of this model is critical to function.
Probab=95.72 E-value=0.025 Score=48.94 Aligned_cols=47 Identities=26% Similarity=0.360 Sum_probs=39.1
Q ss_pred CeEecCCC-CCHHHHHHHhC--CC------Cc-eEEEcCEeeCCCCcCCCCCEEEEe
Q 005392 651 EIMRLRSG-STAADAAMKVG--LE------GK-LVLVNGQLVLPNTELKDGDIVEVR 697 (698)
Q Consensus 651 ~~~~l~~g-~T~~d~a~~i~--~~------~~-~~~vNg~~v~l~~~L~~Gd~v~i~ 697 (698)
+.+++|.+ +|+.|+...+. .+ .. .+.|||+.++.+++|++||.|.|+
T Consensus 18 ~~~~~~~~~~tv~~L~~~L~~~~p~l~~~~~~~~v~vn~~~v~~~~~l~dgDevai~ 74 (80)
T TIGR01682 18 ETLELPDESTTVGELKEHLAKEGPELAASRGQVMVAVNEEYVTDDALLNEGDEVAFI 74 (80)
T ss_pred EEEECCCCCcCHHHHHHHHHHhCchhhhhccceEEEECCEEcCCCcCcCCCCEEEEe
Confidence 46788876 99999999996 11 22 389999999999999999999986
No 46
>COG2914 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=95.71 E-value=0.012 Score=53.03 Aligned_cols=46 Identities=35% Similarity=0.445 Sum_probs=38.6
Q ss_pred eEecCCCCCHHHHHHHhCCCC--------ce-EEEcCEeeCCCCcCCCCCEEEEe
Q 005392 652 IMRLRSGSTAADAAMKVGLEG--------KL-VLVNGQLVLPNTELKDGDIVEVR 697 (698)
Q Consensus 652 ~~~l~~g~T~~d~a~~i~~~~--------~~-~~vNg~~v~l~~~L~~Gd~v~i~ 697 (698)
-+.|+.|+|+.|++.+-|+-+ +| +=|=|+.+-|+.+|++||+|||.
T Consensus 20 ~v~v~egatV~dAi~~Sgll~~~~~idl~~n~~GI~~k~~kl~~~l~dgDRVEIy 74 (99)
T COG2914 20 RVQLQEGATVEDAILASGLLELFPDIDLHENKVGIYSKPVKLDDELHDGDRVEIY 74 (99)
T ss_pred EEEeccCcCHHHHHHhcchhhccccCCccccceeEEccccCccccccCCCEEEEe
Confidence 368999999999999988332 22 56779999999999999999984
No 47
>cd01668 TGS_RelA_SpoT TGS_RelA_SpoT: The RelA (SpoT) protein, also referred to as ppGpp hydrolase/synthetase, is a ribosome-associated protein that is activated during amino acid starvation and thought to mediate the stringent response. RelA contains a TGS domain, named after the Threonyl-tRNA Synthetase, GTPase, and SpoT proteins where it occurs. The function of the TGS domain is unknown.
Probab=94.78 E-value=0.025 Score=45.33 Aligned_cols=48 Identities=25% Similarity=0.391 Sum_probs=38.2
Q ss_pred ccccccc---CCCCCceeeec-------CCceeeeEEEEEccCCeeEEEecccccCCCCeEEEcC
Q 005392 437 LFQKYSS---LKMGHPVIRVE-------GSNLLAAVIIRVEKGGRELLVAVSFGLAASEVVADRR 491 (698)
Q Consensus 437 ~ftp~g~---lp~g~~v~t~i-------G~~c~gAkV~~v~~ngr~l~v~l~~~L~~gD~Vei~T 491 (698)
+|.|.|. +|.|.|+.+.+ ...++++++ ||+ ++++++.|..||.|+++|
T Consensus 3 ~~~~~g~~~~~~~~~t~~~~~~~~~~~~~~~~va~~v-----ng~--~vdl~~~l~~~~~ve~v~ 60 (60)
T cd01668 3 VFTPKGEIIELPAGATVLDFAYAIHTEIGNRCVGAKV-----NGK--LVPLSTVLKDGDIVEIIT 60 (60)
T ss_pred EECCCCCEEEcCCCCCHHHHHHHHChHhhhheEEEEE-----CCE--ECCCCCCCCCCCEEEEEC
Confidence 6888884 68898876642 235677777 899 899999999999999976
No 48
>PTZ00258 GTP-binding protein; Provisional
Probab=94.42 E-value=0.051 Score=60.79 Aligned_cols=55 Identities=20% Similarity=0.226 Sum_probs=43.3
Q ss_pred EEEEcc---CCCeEecCCCCCHHHHHHHhC--CCCc--eEEE-----------------cC--EeeCCCCcCCCCCEEEE
Q 005392 643 VIVCWP---NGEIMRLRSGSTAADAAMKVG--LEGK--LVLV-----------------NG--QLVLPNTELKDGDIVEV 696 (698)
Q Consensus 643 v~vftp---~G~~~~l~~g~T~~d~a~~i~--~~~~--~~~v-----------------Ng--~~v~l~~~L~~Gd~v~i 696 (698)
+-+||- .-+...+|.|+|+.|+|..|| +... .|.| -| |++--+|.++|||+|++
T Consensus 305 i~ffT~g~~e~raw~i~~Gsta~~aAg~IHsD~~kgFi~Aev~~~~d~~~~g~~~~ak~~g~~r~eGkdYiv~DGDIi~f 384 (390)
T PTZ00258 305 IHFFTAGPDEVRCWTIQKGTKAPQAAGVIHSDFEKGFICAEVMKYEDFLELGSEAAVKAEGKYRQEGKDYVVQDGDIIFF 384 (390)
T ss_pred EEEEcCCCCceeEEEeCCCCcHHHHHhhhhhHHhhCcEEEEECcHHHHHHcCCHHHHHhcCceeeeCCceEecCCCEEEE
Confidence 335772 236789999999999999999 4332 2555 26 89999999999999998
Q ss_pred e
Q 005392 697 R 697 (698)
Q Consensus 697 ~ 697 (698)
+
T Consensus 385 ~ 385 (390)
T PTZ00258 385 K 385 (390)
T ss_pred E
Confidence 6
No 49
>PRK14707 hypothetical protein; Provisional
Probab=94.18 E-value=0.12 Score=66.65 Aligned_cols=108 Identities=21% Similarity=0.333 Sum_probs=84.0
Q ss_pred EEeecChhHHHHHHHh----cCCCC----CcccceeeEEEEEcCCCCCCCCCcHHHHHHHHHHHHhc-Cccccccccccc
Q 005392 283 SSRLKSLYSIFSKMRR----KDVGI----HKVYDARALRVVVGDKNGTLHGPAIQCCYSLLDIVHRL-WIPIDGEFDDYI 353 (698)
Q Consensus 283 ~~R~K~~ySI~~Km~r----k~~~~----~~I~Di~giRVIv~~~~~~~~~~~~~dCy~vlgiIh~~-~~pi~~~~kDYI 353 (698)
..|+|+..|+.+|+.. ++.++ ..|.|.+-.-||+++. .++..+..+++.+... |+-+ +++++-
T Consensus 2308 e~RLKS~~SLkrKL~~~~~~~~~sleeAaa~VnDALRYTVVLpp~------~Fva~~r~Il~aL~~qGy~~v--kvkN~F 2379 (2710)
T PRK14707 2308 QHQLKSYSSLQEKLKQRVALKKQSLEEAAASVNDALRYSVVLEPQ------GFTAGLRAVLAALDDQGHARV--KLTNQF 2379 (2710)
T ss_pred HHHhcCHHHHHHHHHHHHhccCCCHHHHHHHhhhheeEEEEcCch------hHHHHHHHHHHHHHHcCCeEE--EEeecc
Confidence 5699999999999963 45665 5799987777777753 3788999999988764 5544 566666
Q ss_pred cCCCCCCCceeEEEEEcCCCceEEEEEEecchhhHHHhhhhhhhhcccc
Q 005392 354 VNPKPSGYQSLHTAVQGPDGSALEVQIRTQKMHEYAEHGLAAHWLYKET 402 (698)
Q Consensus 354 a~PK~nGYqSLHt~V~~~~g~~vEIQIRT~~Mh~~AE~G~aAhw~YK~~ 402 (698)
.. +.++|..+++++..|+|..+|||.=|..--..-+. -|=.||+.
T Consensus 2380 ~~-~~~~YkGINvtL~~pdG~~FEIQFHT~qSF~LK~r---~HdLYKQ~ 2424 (2710)
T PRK14707 2380 TE-YSPSFKAINLTLRSPEGALWEIQFHTPETFALKER---FHDLYKRT 2424 (2710)
T ss_pred cC-CCCCccceEEEEEcCCCcEEEEEeccHHHHHHHHH---HHHHHHHH
Confidence 33 45899999999999999999999999876665553 47799974
No 50
>COG1163 DRG Predicted GTPase [General function prediction only]
Probab=93.97 E-value=0.038 Score=60.06 Aligned_cols=46 Identities=41% Similarity=0.467 Sum_probs=38.6
Q ss_pred eEecCCCCCHHHHHHHhC---CCC--------ceEEEcCEeeCCCCcCCCCCEEEEe
Q 005392 652 IMRLRSGSTAADAAMKVG---LEG--------KLVLVNGQLVLPNTELKDGDIVEVR 697 (698)
Q Consensus 652 ~~~l~~g~T~~d~a~~i~---~~~--------~~~~vNg~~v~l~~~L~~Gd~v~i~ 697 (698)
=+-|+.|+|+.|++.+|| +.. +-++-.|+.|=++|.|.|||+|+|.
T Consensus 307 PlIlr~GsTV~Dvc~~IH~~l~~~FryA~VWGkSvk~~~QrVG~dHvLeD~DIV~I~ 363 (365)
T COG1163 307 PLILRRGSTVGDVCRKIHRDLVENFRYARVWGKSVKHPGQRVGLDHVLEDEDIVEIH 363 (365)
T ss_pred CeEEeCCCcHHHHHHHHHHHHHHhcceEEEeccCCCCCccccCcCcCccCCCeEEEe
Confidence 356789999999999999 222 2367788999999999999999996
No 51
>TIGR01687 moaD_arch MoaD family protein, archaeal. Members of this family appear to be archaeal versions of MoaD, subunit 1 of molybdopterin converting factor. This model has been split from the bacterial/eukaryotic equivalog model TIGR01682 because the presence of two members of this family in a substantial number of archaeal species suggests that roles might not be interchangeable.
Probab=93.49 E-value=0.15 Score=44.61 Aligned_cols=45 Identities=33% Similarity=0.445 Sum_probs=36.5
Q ss_pred eEecCCCCCHHHHHHHhC--CC---------------CceEEEcCEeeCCCC--cCCCCCEEEEe
Q 005392 652 IMRLRSGSTAADAAMKVG--LE---------------GKLVLVNGQLVLPNT--ELKDGDIVEVR 697 (698)
Q Consensus 652 ~~~l~~g~T~~d~a~~i~--~~---------------~~~~~vNg~~v~l~~--~L~~Gd~v~i~ 697 (698)
.+++| |+|+.|+..++. .+ ...+.|||+.+..+. +|++||.|.|+
T Consensus 19 ~v~~~-~~tv~~l~~~l~~~~p~~~~~~l~~~~~~~~~~~v~vN~~~v~~~~~~~l~dgdev~i~ 82 (88)
T TIGR01687 19 EIEIE-GKTVGDLLNELMARYPKEFSELFKEGLGLVPNVIILVNGRNVDWGLGTELKDGDVVAIF 82 (88)
T ss_pred EEEeC-CCCHHHHHHHHHHHCcHHHHHhCccCCcccccEEEEECCEecCccCCCCCCCCCEEEEe
Confidence 45667 999999999985 11 123799999998887 99999999986
No 52
>PRK11130 moaD molybdopterin synthase small subunit; Provisional
Probab=93.15 E-value=0.28 Score=42.69 Aligned_cols=41 Identities=32% Similarity=0.293 Sum_probs=33.3
Q ss_pred CCCCHHHHHHHhC--C--------CCc-eEEEcCEeeCCCCcCCCCCEEEEe
Q 005392 657 SGSTAADAAMKVG--L--------EGK-LVLVNGQLVLPNTELKDGDIVEVR 697 (698)
Q Consensus 657 ~g~T~~d~a~~i~--~--------~~~-~~~vNg~~v~l~~~L~~Gd~v~i~ 697 (698)
.|+|+.|+-..+- . ... .+.||++++.++|+|++||.|.|+
T Consensus 24 ~~~tv~~l~~~L~~~~~~~~~~~~~~~~~~aVN~~~~~~~~~l~dgDeVai~ 75 (81)
T PRK11130 24 DFPTVEALRQHLAQKGDRWALALEDGKLLAAVNQTLVSFDHPLTDGDEVAFF 75 (81)
T ss_pred CCCCHHHHHHHHHHhCccHHhhhcCCCEEEEECCEEcCCCCCCCCCCEEEEe
Confidence 4799999888773 1 112 379999999999999999999986
No 53
>PRK12444 threonyl-tRNA synthetase; Reviewed
Probab=92.96 E-value=0.2 Score=59.31 Aligned_cols=56 Identities=20% Similarity=0.248 Sum_probs=47.9
Q ss_pred EEEEccCCCeEecCCCCCHHHHHHHhCCC--C--ceEEEcCEeeCCCCcCCCCCEEEEeC
Q 005392 643 VIVCWPNGEIMRLRSGSTAADAAMKVGLE--G--KLVLVNGQLVLPNTELKDGDIVEVRV 698 (698)
Q Consensus 643 v~vftp~G~~~~l~~g~T~~d~a~~i~~~--~--~~~~vNg~~v~l~~~L~~Gd~v~i~~ 698 (698)
+.|.-|+|.+..+|.|.|+.|+|..+.-+ . -.|+|||++++|++++..+..|+++|
T Consensus 6 i~i~~~~~~~~~~~~g~t~~~ia~~~~~~~~~~iv~a~vn~~l~dL~~~i~~d~~i~fv~ 65 (639)
T PRK12444 6 IEIKFPDGSVKEFVKGITLEEIAGSISSSLKKKAVAGKVNDKLYDLRRNLEEDAEVEIIT 65 (639)
T ss_pred eEEEeCCCCEEEecCCCCHHHHHHHhhhhcchheEEEEECCEEEEcCcccCCCCeEEEec
Confidence 45677889999999999999999988733 2 24799999999999999999999875
No 54
>cd01764 Urm1 Urm1-like ubuitin domain. Urm1 (Ubiquitin-Related Modifier1) The Urm1 fold, like those of two closely related proteins MoaD (molybdopterin synthase) and ThiS (sulfur carrier protein), is similar to that of ubiquitin although there is little or no sequence similarity. The C-terminal glycines of Urm1 are conjugated to an E1-like protein Uba4 as part of a novel conjugation system in yeast. The Urm1 fold is found only in eukaryotes.
Probab=91.74 E-value=0.3 Score=44.07 Aligned_cols=41 Identities=32% Similarity=0.266 Sum_probs=33.0
Q ss_pred CCCCHHHHHHHhC--C----------CC-----ceEEEcCEeeC----CCCcCCCCCEEEEe
Q 005392 657 SGSTAADAAMKVG--L----------EG-----KLVLVNGQLVL----PNTELKDGDIVEVR 697 (698)
Q Consensus 657 ~g~T~~d~a~~i~--~----------~~-----~~~~vNg~~v~----l~~~L~~Gd~v~i~ 697 (698)
.|+|+.|+...|- . ++ -.+.|||+-+. ++|+|++||.|.|+
T Consensus 27 ~~~tV~dll~~L~~~~~~~~~~lf~~~g~lr~~i~VlvN~~di~~l~g~~t~L~dgD~v~i~ 88 (94)
T cd01764 27 KPVTVGDLLDYVASNLLEERPDLFIEGGSVRPGIIVLINDTDWELLGEEDYILEDGDHVVFI 88 (94)
T ss_pred CCCcHHHHHHHHHHhCchhhhhhEecCCcccCCEEEEECCccccccCCcccCCCCcCEEEEE
Confidence 6899999988883 1 11 23899999974 78999999999986
No 55
>PLN02908 threonyl-tRNA synthetase
Probab=91.35 E-value=0.99 Score=54.13 Aligned_cols=58 Identities=17% Similarity=0.181 Sum_probs=47.9
Q ss_pred cEEEEEccCCCeEecC-CCCCHHHHHHHhCCC--Cc--eEEEcCEeeCCCCcCCCCCEEEEeC
Q 005392 641 EVVIVCWPNGEIMRLR-SGSTAADAAMKVGLE--GK--LVLVNGQLVLPNTELKDGDIVEVRV 698 (698)
Q Consensus 641 ~~v~vftp~G~~~~l~-~g~T~~d~a~~i~~~--~~--~~~vNg~~v~l~~~L~~Gd~v~i~~ 698 (698)
+.+-|.-|+|.+...| .|+||.|+|..+.-+ .. .|+|||++.+|+++|.....|+++|
T Consensus 50 ~~i~i~~~dg~~~~~~~~~tt~~~ia~~i~~~~~~~~v~a~Vng~l~dL~~~l~~d~~le~l~ 112 (686)
T PLN02908 50 DPIKVTLPDGAVKDGKKWVTTPMDIAKEISKGLANSALIAQVDGVLWDMTRPLEGDCKLKLFK 112 (686)
T ss_pred CceEEEeCCCceEeecCCCCCHHHHHHHhCccchhhcEEEEECCEEeecCccccCCCeeEEec
Confidence 3455666999999999 469999999999843 33 4799999999999999888899875
No 56
>PRK09602 translation-associated GTPase; Reviewed
Probab=91.04 E-value=0.083 Score=59.21 Aligned_cols=45 Identities=18% Similarity=0.227 Sum_probs=37.3
Q ss_pred CCCCCc-------eeeecCCceeeeEEEEEccCCeeEEEecccccCCCCeEEEcCCC
Q 005392 444 LKMGHP-------VIRVEGSNLLAAVIIRVEKGGRELLVAVSFGLAASEVVADRRPS 493 (698)
Q Consensus 444 lp~g~~-------v~t~iG~~c~gAkV~~v~~ngr~l~v~l~~~L~~gD~Vei~T~~ 493 (698)
||.|+| ||+.+|++|+.|... . +++ .++.+|.|+.||+|+|+|++
T Consensus 345 l~~g~t~~d~A~~IH~d~~~~fi~A~~~--~-~~~--~~g~~~~l~dgDiv~i~~~~ 396 (396)
T PRK09602 345 LPKGSTARDLAYKIHTDIGEGFLYAIDA--R-TKR--RIGEDYELKDGDVIKIVSTA 396 (396)
T ss_pred ECCCCCHHHHHHHHHHHHHhhceehhcc--c-CCc--ccCCCcEecCCCEEEEEeCC
Confidence 577766 788899999888752 2 567 89999999999999999874
No 57
>PF14453 ThiS-like: ThiS-like ubiquitin
Probab=91.02 E-value=0.71 Score=38.28 Aligned_cols=49 Identities=22% Similarity=0.280 Sum_probs=45.9
Q ss_pred CCCeEecCCCCCHHHHHHHhCCCCceEEEcCEeeCCCCcCCCCCEEEEe
Q 005392 649 NGEIMRLRSGSTAADAAMKVGLEGKLVLVNGQLVLPNTELKDGDIVEVR 697 (698)
Q Consensus 649 ~G~~~~l~~g~T~~d~a~~i~~~~~~~~vNg~~v~l~~~L~~Gd~v~i~ 697 (698)
||.-+....|+|+-++...+.-+.-++-+||-.+.-+.+|++||.|-++
T Consensus 6 N~k~~~~~~~~tl~~lr~~~k~~~DI~I~NGF~~~~d~~L~e~D~v~~I 54 (57)
T PF14453_consen 6 NEKEIETEENTTLFELRKESKPDADIVILNGFPTKEDIELKEGDEVFLI 54 (57)
T ss_pred CCEEEEcCCCcCHHHHHHhhCCCCCEEEEcCcccCCccccCCCCEEEEE
Confidence 7889999999999999999998888999999999999999999999764
No 58
>cd01616 TGS The TGS domain, named after the ThrRS, GTPase, and SpoT/RelA proteins where it occurs, is structurally similar to ubiquitin. TGS is a small domain of about 50 amino acid residues with a predominantly beta-sheet structure. There is no direct information on the function of the TGS domain, but its presence in two types of regulatory proteins (the GTPases and guanosine polyphosphate phosphohydrolases/synthetases) suggests a ligand (most likely nucleotide)-binding, regulatory role.
Probab=90.60 E-value=0.23 Score=38.52 Aligned_cols=41 Identities=24% Similarity=0.455 Sum_probs=32.4
Q ss_pred CCCCCceeee-------cCCceeeeEEEEEccCCeeEEEecccccCCCCeEEEcC
Q 005392 444 LKMGHPVIRV-------EGSNLLAAVIIRVEKGGRELLVAVSFGLAASEVVADRR 491 (698)
Q Consensus 444 lp~g~~v~t~-------iG~~c~gAkV~~v~~ngr~l~v~l~~~L~~gD~Vei~T 491 (698)
+|.|.|+.++ .....++++| ||+ ++++++.|..||.|+++|
T Consensus 13 ~~~g~t~~~~~~~~~~~~~~~~~~~~v-----n~~--~~~l~~~l~~~~~i~~i~ 60 (60)
T cd01616 13 LPKGATAMDFALKIHTDLGKGFIGALV-----NGQ--LVDLSYTLQDGDTVSIVT 60 (60)
T ss_pred cCCCCCHHHHHHHHHHHHHhheEEEEE-----CCE--ECCCCcCcCCCCEEEEeC
Confidence 5777776654 2345677887 899 899999999999999876
No 59
>PRK05659 sulfur carrier protein ThiS; Validated
Probab=85.17 E-value=0.8 Score=37.99 Aligned_cols=43 Identities=28% Similarity=0.380 Sum_probs=30.0
Q ss_pred cCCCCCceeee---cC--CceeeeEEEEEccCCeeEEEe----cccccCCCCeEEEcCC
Q 005392 443 SLKMGHPVIRV---EG--SNLLAAVIIRVEKGGRELLVA----VSFGLAASEVVADRRP 492 (698)
Q Consensus 443 ~lp~g~~v~t~---iG--~~c~gAkV~~v~~ngr~l~v~----l~~~L~~gD~Vei~T~ 492 (698)
++|.|.|+.+. .| ...+...| ||. ++| .++.|+.||+|||++.
T Consensus 11 ~~~~~~tl~~lL~~l~~~~~~vav~v-----Ng~--iv~r~~~~~~~l~~gD~vei~~~ 62 (66)
T PRK05659 11 ELPDGESVAALLAREGLAGRRVAVEV-----NGE--IVPRSQHASTALREGDVVEIVHA 62 (66)
T ss_pred EcCCCCCHHHHHHhcCCCCCeEEEEE-----CCe--EeCHHHcCcccCCCCCEEEEEEE
Confidence 35677775543 22 23333334 898 888 9999999999999875
No 60
>PRK14707 hypothetical protein; Provisional
Probab=85.16 E-value=2.2 Score=55.92 Aligned_cols=103 Identities=24% Similarity=0.333 Sum_probs=76.5
Q ss_pred cChhHHHHHHHhc---CCCC----CcccceeeEEEEEcCCCCCCCCCcHHHHHHHHHHHHhc-CccccccccccccCCCC
Q 005392 287 KSLYSIFSKMRRK---DVGI----HKVYDARALRVVVGDKNGTLHGPAIQCCYSLLDIVHRL-WIPIDGEFDDYIVNPKP 358 (698)
Q Consensus 287 K~~ySI~~Km~rk---~~~~----~~I~Di~giRVIv~~~~~~~~~~~~~dCy~vlgiIh~~-~~pi~~~~kDYIa~PK~ 358 (698)
|+..||.+|+.+. |++. ..|.|.+-.=||.+. +.++...+.+...+... |+.+ ++|++-..| .
T Consensus 2544 Ks~~Si~RKI~~~~~~~ls~eqAaarVrDalRYtviLp~------e~Fv~~v~~~~~~L~~~G~~~~--rvKNtw~~~-d 2614 (2710)
T PRK14707 2544 KSLASIKDKIRRHLRAGMTAEQATQSVGDALRYALELPS------EGFVAKVQAAQDALRRQGMTCV--NLQNYFTSG-D 2614 (2710)
T ss_pred CCHHHHHHHHHHHHhcCCCHHHHHHHhhhheeEEEEcCc------chHHHHHHHHHHHHHhcCCeEE--EeeccccCC-C
Confidence 9999999999854 5543 468896655555553 24788888888887664 6655 678877554 4
Q ss_pred CCCceeEEEEEcCCCceEEEEEEecchhhHHHhhhhhhhhccc
Q 005392 359 SGYQSLHTAVQGPDGSALEVQIRTQKMHEYAEHGLAAHWLYKE 401 (698)
Q Consensus 359 nGYqSLHt~V~~~~g~~vEIQIRT~~Mh~~AE~G~aAhw~YK~ 401 (698)
+.|..+-+++..++|..+|||.=|..--. +..+ .|-.|+.
T Consensus 2615 ~tY~GvN~~~r~~~g~~FEIQFHT~~Sf~-~K~~--tH~lYek 2654 (2710)
T PRK14707 2615 GTYRGINASFTDAEGYAFEVQFHTAESFN-AKAQ--THLSYKR 2654 (2710)
T ss_pred CcccceeeeEEcCCCCeEEEEeccHHHHH-HHHH--hHHHHHh
Confidence 77999999999999999999999976544 3333 4778975
No 61
>PRK09169 hypothetical protein; Validated
Probab=84.55 E-value=2.7 Score=55.61 Aligned_cols=108 Identities=23% Similarity=0.324 Sum_probs=79.8
Q ss_pred EEeecChhHHHHHHH----hcCCCC----CcccceeeEEEEEcCCCCCCCCCcHHHHHHHHHHHHhc-Cccccccccccc
Q 005392 283 SSRLKSLYSIFSKMR----RKDVGI----HKVYDARALRVVVGDKNGTLHGPAIQCCYSLLDIVHRL-WIPIDGEFDDYI 353 (698)
Q Consensus 283 ~~R~K~~ySI~~Km~----rk~~~~----~~I~Di~giRVIv~~~~~~~~~~~~~dCy~vlgiIh~~-~~pi~~~~kDYI 353 (698)
..|+|+..|+.+|+. +++.++ ..|.|.+-.-|++++. .++..+..+++.+-.. |.-+ +++++-
T Consensus 1917 e~RlKS~~SL~rKL~~~~~~~~~s~e~Aaa~VnDALRYtvvLp~~------~Fva~~r~iv~~L~~~G~~~V--kv~N~F 1988 (2316)
T PRK09169 1917 AHRLKSEGSLFEKLRGLMAKKHLTPEEAAALVNDALRYSVVLPPQ------TFVAGYRRILGALDEQGHTRT--RVTNHF 1988 (2316)
T ss_pred HhhhCCHHHHHHHHHHHHhccCCCHHHHHHhccceeeEEEecCCc------cHHHHHHHHHHHHHhCCCeEE--EEEeee
Confidence 569999999999998 456665 4789976555665542 4788899999988764 5544 445533
Q ss_pred cCCCCCCCceeEEEE-EcCCCceEEEEEEecchhhHHHhhhhhhhhcccc
Q 005392 354 VNPKPSGYQSLHTAV-QGPDGSALEVQIRTQKMHEYAEHGLAAHWLYKET 402 (698)
Q Consensus 354 a~PK~nGYqSLHt~V-~~~~g~~vEIQIRT~~Mh~~AE~G~aAhw~YK~~ 402 (698)
..+ .++|..+|+++ ..++|..+|||.=|..--..-+. -|-.||..
T Consensus 1989 ~~~-~~~YkGVNv~l~~s~~g~~fEIQFHT~qSF~lK~r---~H~lYkq~ 2034 (2316)
T PRK09169 1989 KKR-GPAFKGINVTLDATGEGVRLEIQFHTPQTFDLKER---FHDLYKQA 2034 (2316)
T ss_pred ccC-CCCccceEEeeecCCCCceEEEEecCHHHHHHHHH---hHHHHHHH
Confidence 332 49999999999 67889999999999876555553 37799963
No 62
>PF03658 Ub-RnfH: RnfH family Ubiquitin; InterPro: IPR005346 This is a small family of proteins of unknown function.; PDB: 2HJ1_B.
Probab=84.13 E-value=0.47 Score=42.22 Aligned_cols=22 Identities=32% Similarity=0.385 Sum_probs=12.4
Q ss_pred CeeEEEecccccCCCCeEEEcCCC
Q 005392 470 GRELLVAVSFGLAASEVVADRRPS 493 (698)
Q Consensus 470 gr~l~v~l~~~L~~gD~Vei~T~~ 493 (698)
|| .+++++.|+.||+|||..+-
T Consensus 53 Gk--~~~~d~~L~~GDRVEIYRPL 74 (84)
T PF03658_consen 53 GK--LVKLDTVLRDGDRVEIYRPL 74 (84)
T ss_dssp E---S--TT-B--TT-EEEEE-S-
T ss_pred ee--EcCCCCcCCCCCEEEEeccC
Confidence 78 89999999999999999885
No 63
>PRK01777 hypothetical protein; Validated
Probab=84.10 E-value=0.76 Score=41.74 Aligned_cols=23 Identities=22% Similarity=0.092 Sum_probs=21.6
Q ss_pred CCeeEEEecccccCCCCeEEEcCCC
Q 005392 469 GGRELLVAVSFGLAASEVVADRRPS 493 (698)
Q Consensus 469 ngr~l~v~l~~~L~~gD~Vei~T~~ 493 (698)
||+ .+.+++.|+.||+|||+.+-
T Consensus 55 ~Gk--~v~~d~~L~dGDRVeIyrPL 77 (95)
T PRK01777 55 YSR--PAKLTDVLRDGDRVEIYRPL 77 (95)
T ss_pred eCe--ECCCCCcCCCCCEEEEecCC
Confidence 799 89999999999999999885
No 64
>TIGR02988 YaaA_near_RecF S4 domain protein YaaA. This small protein has a single S4 domain (pfam01479), as do bacterial ribosomal protein S4, some pseudouridine synthases, tyrosyl-tRNA synthetases. The S4 domain may bind RNA. Members of this protein family are found almost exclusively in the Firmicutes, and almost invariably just a few nucleotides upstream of the gene for the DNA replication and repair protein RecF. The few members of this family that are not near recF are found instead near dnaA and/or dnaN, the usual neighbors of recF, near the origin of replication. The conserved location suggests a possible role in replication in the Firmicutes lineage.
Probab=83.86 E-value=1 Score=36.78 Aligned_cols=26 Identities=38% Similarity=0.615 Sum_probs=23.0
Q ss_pred CCceEEEcCEee-CCCCcCCCCCEEEE
Q 005392 671 EGKLVLVNGQLV-LPNTELKDGDIVEV 696 (698)
Q Consensus 671 ~~~~~~vNg~~v-~l~~~L~~Gd~v~i 696 (698)
....++|||+.+ ..++.|+.||.|+|
T Consensus 32 ~~G~V~VNg~~~~~~~~~l~~Gd~v~i 58 (59)
T TIGR02988 32 QENEVLVNGELENRRGKKLYPGDVIEI 58 (59)
T ss_pred HcCCEEECCEEccCCCCCCCCCCEEEe
Confidence 445699999999 88999999999987
No 65
>PF01479 S4: S4 domain; InterPro: IPR002942 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. The S4 domain is a small domain consisting of 60-65 amino acid residues that was detected in the bacterial ribosomal protein S4, eukaryotic ribosomal S9, two families of pseudouridine synthases, a novel family of predicted RNA methylases, a yeast protein containing a pseudouridine synthetase and a deaminase domain, bacterial tyrosyl-tRNA synthetases, and a number of uncharacterised, small proteins that may be involved in translation regulation []. The S4 domain probably mediates binding to RNA.; GO: 0003723 RNA binding; PDB: 3BBU_A 1DM9_B 2K6P_A 3U5G_E 3U5C_E 3IZB_D 2XZM_D 2XZN_D 3O30_E 3O2Z_E ....
Probab=82.49 E-value=0.75 Score=35.70 Aligned_cols=24 Identities=38% Similarity=0.588 Sum_probs=21.4
Q ss_pred CCceEEEcCEeeC-CCCcCCCCCEE
Q 005392 671 EGKLVLVNGQLVL-PNTELKDGDIV 694 (698)
Q Consensus 671 ~~~~~~vNg~~v~-l~~~L~~Gd~v 694 (698)
..+.++|||+.+. ++++++.||+|
T Consensus 24 ~~g~V~VNg~~v~~~~~~v~~~d~I 48 (48)
T PF01479_consen 24 KQGRVKVNGKVVKDPSYIVKPGDVI 48 (48)
T ss_dssp HTTTEEETTEEESSTTSBESTTEEE
T ss_pred CCCEEEECCEEEcCCCCCCCCcCCC
Confidence 3456999999999 99999999987
No 66
>cd04938 TGS_Obg-like TGS_Obg-like: The C-terminal TGS domain of Obg-like GTPases such as those present in DRG (developmentally regulated GTP-binding protein), and GTP-binding proteins Ygr210 and YchF. The TGS domain (named after the ThrRS, GTPase, and SpoT proteins where it occurs) is a small domain of about 50 amino acid residues with a predominantly beta-sheet structure. There is no direct information on the function of the TGS domain, but its presence in two types of regulatory proteins (the GTPases and guanosine polyphosphate phosphohydrolases/synthetases) suggests a ligand (most likely nucleotide)-binding, regulatory role.
Probab=81.37 E-value=1.2 Score=38.68 Aligned_cols=42 Identities=17% Similarity=0.124 Sum_probs=33.6
Q ss_pred CCCCCc-------eeeecCCceeeeEEEEEccCCeeEEEecccccCCCCeEEEcC
Q 005392 444 LKMGHP-------VIRVEGSNLLAAVIIRVEKGGRELLVAVSFGLAASEVVADRR 491 (698)
Q Consensus 444 lp~g~~-------v~t~iG~~c~gAkV~~v~~ngr~l~v~l~~~L~~gD~Vei~T 491 (698)
||.|.| ||+.+....+-|.|. +++ .+..+|.|+.||+|.|.|
T Consensus 28 l~~g~tv~d~a~~IH~d~~~~F~~A~v~----~~~--~vg~d~~l~d~DVv~i~~ 76 (76)
T cd04938 28 VKKGTTVGDVARKIHGDLEKGFIEAVGG----RRR--LEGKDVILGKNDILKFKT 76 (76)
T ss_pred EcCCCCHHHHHHHHhHHHHhccEEEEEc----cCE--EECCCEEecCCCEEEEEC
Confidence 456655 688888888889983 235 799999999999999975
No 67
>COG2104 ThiS Sulfur transfer protein involved in thiamine biosynthesis [Coenzyme metabolism]
Probab=80.98 E-value=1.3 Score=37.81 Aligned_cols=22 Identities=18% Similarity=0.208 Sum_probs=20.6
Q ss_pred CCeeEEEe----cccccCCCCeEEEcCC
Q 005392 469 GGRELLVA----VSFGLAASEVVADRRP 492 (698)
Q Consensus 469 ngr~l~v~----l~~~L~~gD~Vei~T~ 492 (698)
||. +|| .++.|++||+|||++.
T Consensus 39 Ng~--iVpr~~~~~~~l~~gD~ievv~~ 64 (68)
T COG2104 39 NGE--IVPRSQWADTILKEGDRIEVVRV 64 (68)
T ss_pred CCE--EccchhhhhccccCCCEEEEEEe
Confidence 899 999 9999999999999874
No 68
>cd01667 TGS_ThrRS_N TGS _ThrRS_N: ThrRS (threonyl-tRNA Synthetase) is a class II tRNA synthetase that couples threonine to its cognate tRNA. In addition to its catalytic and anticodon-binding domains, ThrRS has an N-terminal TGS domain, named after the ThrRS, GTPase, and SpoT proteins where it occurs. The TGS domain is thought to interact with the tRNA acceptor arm along with an adjacent N-terminal domain. The specific function of TGS is not well understood.
Probab=80.36 E-value=1.5 Score=34.15 Aligned_cols=41 Identities=20% Similarity=0.199 Sum_probs=32.2
Q ss_pred CCCCCceeee-------cCCceeeeEEEEEccCCeeEEEecccccCCCCeEEEcC
Q 005392 444 LKMGHPVIRV-------EGSNLLAAVIIRVEKGGRELLVAVSFGLAASEVVADRR 491 (698)
Q Consensus 444 lp~g~~v~t~-------iG~~c~gAkV~~v~~ngr~l~v~l~~~L~~gD~Vei~T 491 (698)
+|.|.++.+. .+...++|+| ||+ +++|++.+.+|+.|+.++
T Consensus 13 ~~~~~t~~~~~~~~~~~~~~~~v~~~v-----ng~--~~dL~~~l~~~~~ie~i~ 60 (61)
T cd01667 13 FPKGTTPLDIAKSISPGLAKKAVAAKV-----NGE--LVDLSRPLEEDCELEIIT 60 (61)
T ss_pred eCCCCCHHHHHHHHHHHHHhheEEEEE-----CCE--EecCCcCcCCCCEEEEEe
Confidence 4667665543 3456788998 899 899999999999999876
No 69
>PRK09601 GTP-binding protein YchF; Reviewed
Probab=80.11 E-value=1.6 Score=48.71 Aligned_cols=53 Identities=23% Similarity=0.325 Sum_probs=37.6
Q ss_pred EEccCC---CeEecCCCCCHHHHHHHhC--CCCce--EE-E------------c----C--EeeCCCCcCCCCCEEEEe
Q 005392 645 VCWPNG---EIMRLRSGSTAADAAMKVG--LEGKL--VL-V------------N----G--QLVLPNTELKDGDIVEVR 697 (698)
Q Consensus 645 vftp~G---~~~~l~~g~T~~d~a~~i~--~~~~~--~~-v------------N----g--~~v~l~~~L~~Gd~v~i~ 697 (698)
+||-.. +...+|.|+|+.|+|..|| ++-.. |- | + | |+.--+|.++|||+|.|+
T Consensus 283 fftvg~~evrawti~~GstA~~aAg~IHsD~~kgFI~AeVi~~~d~~~~g~~~~ak~~gk~rleGkdY~v~DGDIi~f~ 361 (364)
T PRK09601 283 YFTAGPKEVRAWTIKKGTTAPQAAGVIHTDFEKGFIRAEVISYDDLIEYGSEAGAKEAGKVRLEGKDYIVQDGDVMHFR 361 (364)
T ss_pred EecCCCCeEEEEEeCCCCchHHHhhcchhhHhhccEEEEEecHHHHHHcCCHHHHHHccceeccCCceEecCCCEEEEE
Confidence 466332 5788999999999999999 33322 22 1 1 2 244569999999999986
No 70
>PRK00413 thrS threonyl-tRNA synthetase; Reviewed
Probab=78.38 E-value=1.6 Score=51.68 Aligned_cols=45 Identities=18% Similarity=0.189 Sum_probs=39.2
Q ss_pred CCCCCceeee-------cCCceeeeEEEEEccCCeeEEEecccccCCCCeEEEcCCCCc
Q 005392 444 LKMGHPVIRV-------EGSNLLAAVIIRVEKGGRELLVAVSFGLAASEVVADRRPSFQ 495 (698)
Q Consensus 444 lp~g~~v~t~-------iG~~c~gAkV~~v~~ngr~l~v~l~~~L~~gD~Vei~T~~~p 495 (698)
+|.|.|+.++ .++.+++|+| ||+ +++|++.+.+++.|+++|..++
T Consensus 14 ~~~gtt~~dia~~~~~~~~~~~v~a~v-----ng~--l~dL~~~l~~d~~Vefi~~~~~ 65 (638)
T PRK00413 14 FEAGVTVADVAASISPGLAKAAVAGKV-----NGE--LVDLSTPIEEDASLEIITAKDE 65 (638)
T ss_pred eCCCCCHHHHHHHhhhhchhheEEEEE-----CCE--EeeCCccccCCCceeeeeccch
Confidence 6888886654 6789999999 899 9999999999999999998754
No 71
>cd00565 ThiS ThiaminS ubiquitin-like sulfur carrier protein. ThiS (ThiaminS) is a sulfur carrier protein involved in thiamin biosynthesis in bacteria. The ThiS fold, like those of two closely related proteins MoaD and Urm1, is similar to that of ubiquitin although there is little or no sequence similarity.
Probab=78.11 E-value=1.8 Score=36.03 Aligned_cols=22 Identities=18% Similarity=0.188 Sum_probs=20.5
Q ss_pred CCeeEEEecc----cccCCCCeEEEcCC
Q 005392 469 GGRELLVAVS----FGLAASEVVADRRP 492 (698)
Q Consensus 469 ngr~l~v~l~----~~L~~gD~Vei~T~ 492 (698)
||+ ++|-+ +.|+.||.|+++++
T Consensus 36 Ng~--~v~~~~~~~~~L~~gD~V~ii~~ 61 (65)
T cd00565 36 NGE--IVPRSEWASTPLQDGDRIEIVTA 61 (65)
T ss_pred CCE--EcCHHHcCceecCCCCEEEEEEe
Confidence 899 99999 99999999999876
No 72
>smart00363 S4 S4 RNA-binding domain.
Probab=77.49 E-value=2.1 Score=33.02 Aligned_cols=26 Identities=42% Similarity=0.584 Sum_probs=22.7
Q ss_pred CceEEEcCEee-CCCCcCCCCCEEEEe
Q 005392 672 GKLVLVNGQLV-LPNTELKDGDIVEVR 697 (698)
Q Consensus 672 ~~~~~vNg~~v-~l~~~L~~Gd~v~i~ 697 (698)
.+.++|||+.+ ..++.|+.||+|++.
T Consensus 25 ~g~i~vng~~~~~~~~~l~~gd~i~~~ 51 (60)
T smart00363 25 QGRVKVNGKKVTKPSYIVKPGDVISVR 51 (60)
T ss_pred cCCEEECCEEecCCCeEeCCCCEEEEc
Confidence 44689999999 999999999999863
No 73
>PRK07440 hypothetical protein; Provisional
Probab=75.64 E-value=2.8 Score=35.76 Aligned_cols=43 Identities=14% Similarity=0.150 Sum_probs=29.6
Q ss_pred cCCCCCceeee---cCCc--eeeeEEEEEccCCeeEEEe----cccccCCCCeEEEcCC
Q 005392 443 SLKMGHPVIRV---EGSN--LLAAVIIRVEKGGRELLVA----VSFGLAASEVVADRRP 492 (698)
Q Consensus 443 ~lp~g~~v~t~---iG~~--c~gAkV~~v~~ngr~l~v~----l~~~L~~gD~Vei~T~ 492 (698)
++|.|.|+.+. .|.. -++..+ ||. ++| -++.|+.||.|||++.
T Consensus 15 ~~~~~~tl~~lL~~l~~~~~~vav~~-----N~~--iv~r~~w~~~~L~~gD~IEIv~~ 66 (70)
T PRK07440 15 TCSSGTSLPDLLQQLGFNPRLVAVEY-----NGE--ILHRQFWEQTQVQPGDRLEIVTI 66 (70)
T ss_pred EcCCCCCHHHHHHHcCCCCCeEEEEE-----CCE--EeCHHHcCceecCCCCEEEEEEE
Confidence 35666665543 2322 233333 899 999 9999999999999875
No 74
>COG1977 MoaD Molybdopterin converting factor, small subunit [Coenzyme metabolism]
Probab=73.14 E-value=3.2 Score=36.62 Aligned_cols=42 Identities=33% Similarity=0.298 Sum_probs=31.6
Q ss_pred CCCCCHHHHHHHhC---------CCC-ce--EEEcCEeeCCCCcCCCCCEEEEe
Q 005392 656 RSGSTAADAAMKVG---------LEG-KL--VLVNGQLVLPNTELKDGDIVEVR 697 (698)
Q Consensus 656 ~~g~T~~d~a~~i~---------~~~-~~--~~vNg~~v~l~~~L~~Gd~v~i~ 697 (698)
..|+|+.++-..+. ... .+ +.+|..+++++|+|++||.|.|+
T Consensus 25 ~~~~tv~~L~~~l~~~~~~~~~~~~~~~~v~~~~~~~~~~~~t~L~dGDeVa~~ 78 (84)
T COG1977 25 TVGATVGELEELLPKEGERWLLALEDNIVVNAANNEFLVGLDTPLKDGDEVAFF 78 (84)
T ss_pred cHHHHHHHHHHHHHhhhhhHHhccCccceEEeeeceeeccccccCCCCCEEEEe
Confidence 34777777777662 221 22 57788999999999999999986
No 75
>PRK06437 hypothetical protein; Provisional
Probab=72.54 E-value=2.6 Score=35.60 Aligned_cols=22 Identities=14% Similarity=0.024 Sum_probs=20.6
Q ss_pred CCeeEEEecccccCCCCeEEEcCC
Q 005392 469 GGRELLVAVSFGLAASEVVADRRP 492 (698)
Q Consensus 469 ngr~l~v~l~~~L~~gD~Vei~T~ 492 (698)
||+ ++|.++.|+.||.|+|++.
T Consensus 42 Ng~--iv~~~~~L~dgD~Veiv~~ 63 (67)
T PRK06437 42 NGS--PVLEDHNVKKEDDVLILEV 63 (67)
T ss_pred CCE--ECCCceEcCCCCEEEEEec
Confidence 899 9999999999999999875
No 76
>COG1188 Ribosome-associated heat shock protein implicated in the recycling of the 50S subunit (S4 paralog) [Translation, ribosomal structure and biogenesis]
Probab=71.38 E-value=4.3 Score=37.39 Aligned_cols=25 Identities=48% Similarity=0.659 Sum_probs=22.9
Q ss_pred ceEEEcCEeeCCCCcCCCCCEEEEe
Q 005392 673 KLVLVNGQLVLPNTELKDGDIVEVR 697 (698)
Q Consensus 673 ~~~~vNg~~v~l~~~L~~Gd~v~i~ 697 (698)
.-+.|||+.+-+++.++.||+++|.
T Consensus 34 GrV~vNG~~aKpS~~VK~GD~l~i~ 58 (100)
T COG1188 34 GRVKVNGQRAKPSKEVKVGDILTIR 58 (100)
T ss_pred CeEEECCEEcccccccCCCCEEEEE
Confidence 3489999999999999999999986
No 77
>PF01966 HD: HD domain; InterPro: IPR006674 This domain is found in a superfamily of enzymes with a predicted or known phosphohydrolase activity []. These enzymes appear to be involved in the nucleic acid metabolism, signal transduction and possibly other functions in bacteria, archaea and eukaryotes. The fact that all the highly conserved residues in the HD superfamily are histidines or aspartates suggests that coordination of divalent cations is essential for the activity of these proteins [].; GO: 0008081 phosphoric diester hydrolase activity, 0046872 metal ion binding; PDB: 2CQZ_A 2Q14_C 3CCG_A 2PAU_A 2PAQ_B 2PAR_B 3BG2_A 3NQW_A 2QGS_B 2DQB_D ....
Probab=68.83 E-value=4.7 Score=35.56 Aligned_cols=16 Identities=44% Similarity=0.625 Sum_probs=13.3
Q ss_pred CccEEeehhhhHHhhh
Q 005392 89 DPRVVLIKLADRLHNM 104 (698)
Q Consensus 89 D~RVvlIKLADRLhNm 104 (698)
...+.+|++||+|++|
T Consensus 107 ~~~~~iv~~aD~l~a~ 122 (122)
T PF01966_consen 107 SLEARIVKLADRLDAM 122 (122)
T ss_dssp SHHHHHHHHHHHHHHH
T ss_pred CHHHHHHHHHHHHhCC
Confidence 4457899999999987
No 78
>PF13510 Fer2_4: 2Fe-2S iron-sulfur cluster binding domain; PDB: 1Y56_A 3ADA_A 1VRQ_A 1X31_A 3AD9_A 3AD8_A 3AD7_A 2GAG_A 2GAH_A.
Probab=66.43 E-value=12 Score=32.86 Aligned_cols=54 Identities=26% Similarity=0.402 Sum_probs=37.8
Q ss_pred EEEEccCCCeEecCCCCCHHHHHHHhCCC--C------------------ce-EEEcCEe-e-CCCCcCCCCCEEEE
Q 005392 643 VIVCWPNGEIMRLRSGSTAADAAMKVGLE--G------------------KL-VLVNGQL-V-LPNTELKDGDIVEV 696 (698)
Q Consensus 643 v~vftp~G~~~~l~~g~T~~d~a~~i~~~--~------------------~~-~~vNg~~-v-~l~~~L~~Gd~v~i 696 (698)
.+-|+=+|+-+..++|.|.++++.+.|+. . .| |.|||+. + .=.|++++|-.|.-
T Consensus 3 ~v~i~idG~~v~~~~G~til~al~~~gi~ip~~c~~~~~r~~~~~~g~C~~C~Vev~g~~~v~AC~t~v~~GM~V~T 79 (82)
T PF13510_consen 3 MVTITIDGKPVEVPPGETILEALLAAGIDIPRLCYHGRPRGGLCPIGSCRLCLVEVDGEPNVRACSTPVEDGMVVET 79 (82)
T ss_dssp EEEEEETTEEEEEEET-BHHHHHHHTT--B-EETTTS-EEBSSSSSTT-SS-EEEESSEEEEETTT-B--TTEEEE-
T ss_pred EEEEEECCEEEEEcCCCHHHHHHHHCCCeEEEeeeccCcccccCCccccceEEEEECCCcceEcccCCCcCCcEEEE
Confidence 34678899999999999999999999821 1 12 8999988 4 34688999988864
No 79
>PF00498 FHA: FHA domain; InterPro: IPR000253 The forkhead-associated (FHA) domain [] is a phosphopeptide recognition domain found in many regulatory proteins. It displays specificity for phosphothreonine-containing epitopes but will also recognise phosphotyrosine with relatively high affinity. It spans approximately 80-100 amino acid residues folded into an 11-stranded beta sandwich, which sometimes contain small helical insertions between the loops connecting the strands []. To date, genes encoding FHA-containing proteins have been identified in eubacterial and eukaryotic but not archaeal genomes. The domain is present in a diverse range of proteins, such as kinases, phosphatases, kinesins, transcription factors, RNA-binding proteins and metabolic enzymes which partake in many different cellular processes - DNA repair, signal transduction, vesicular transport and protein degradation are just a few examples.; GO: 0005515 protein binding; PDB: 1LGQ_B 1LGP_A 2CSW_A 2PIE_A 3FM8_A 3MDB_B 3GQS_B 1UHT_A 1WLN_A 3POA_A ....
Probab=66.36 E-value=3.9 Score=33.58 Aligned_cols=24 Identities=46% Similarity=0.654 Sum_probs=20.0
Q ss_pred ceEEEcCEeeCC--CCcCCCCCEEEE
Q 005392 673 KLVLVNGQLVLP--NTELKDGDIVEV 696 (698)
Q Consensus 673 ~~~~vNg~~v~l--~~~L~~Gd~v~i 696 (698)
.+++|||+.++. .++|++||++.|
T Consensus 42 ngt~vng~~l~~~~~~~L~~gd~i~~ 67 (68)
T PF00498_consen 42 NGTFVNGQRLGPGEPVPLKDGDIIRF 67 (68)
T ss_dssp S-EEETTEEESSTSEEEE-TTEEEEE
T ss_pred CcEEECCEEcCCCCEEECCCCCEEEc
Confidence 568999999999 899999999986
No 80
>PRK08053 sulfur carrier protein ThiS; Provisional
Probab=66.15 E-value=5.7 Score=33.21 Aligned_cols=22 Identities=0% Similarity=0.004 Sum_probs=19.3
Q ss_pred CCeeEEEe----cccccCCCCeEEEcCC
Q 005392 469 GGRELLVA----VSFGLAASEVVADRRP 492 (698)
Q Consensus 469 ngr~l~v~----l~~~L~~gD~Vei~T~ 492 (698)
||+ +|| -++.|+.||.|||+++
T Consensus 37 N~~--iv~r~~w~~~~L~~gD~Ieii~~ 62 (66)
T PRK08053 37 NQQ--IIPREQWAQHIVQDGDQILLFQV 62 (66)
T ss_pred CCE--EeChHHcCccccCCCCEEEEEEE
Confidence 889 888 6678999999999976
No 81
>PRK08364 sulfur carrier protein ThiS; Provisional
Probab=64.22 E-value=6.9 Score=33.18 Aligned_cols=22 Identities=9% Similarity=0.024 Sum_probs=20.5
Q ss_pred CCeeEEEecccccCCCCeEEEcCC
Q 005392 469 GGRELLVAVSFGLAASEVVADRRP 492 (698)
Q Consensus 469 ngr~l~v~l~~~L~~gD~Vei~T~ 492 (698)
||+ +++-++.|+.||.|+++++
T Consensus 45 Ng~--iv~~~~~l~~gD~Veii~~ 66 (70)
T PRK08364 45 NGK--VALEDDPVKDGDYVEVIPV 66 (70)
T ss_pred CCE--ECCCCcCcCCCCEEEEEcc
Confidence 899 8999999999999999875
No 82
>cd00165 S4 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized functional similarity between these three protein classes.
Probab=63.88 E-value=6.7 Score=31.02 Aligned_cols=25 Identities=48% Similarity=0.773 Sum_probs=22.0
Q ss_pred CceEEEcCEee-CCCCcCCCCCEEEE
Q 005392 672 GKLVLVNGQLV-LPNTELKDGDIVEV 696 (698)
Q Consensus 672 ~~~~~vNg~~v-~l~~~L~~Gd~v~i 696 (698)
.+.++|||+.+ ..+++++.||+|.+
T Consensus 25 ~g~V~vn~~~~~~~~~~v~~~d~i~i 50 (70)
T cd00165 25 HGHVLVNGKVVTKPSYKVKPGDVIEV 50 (70)
T ss_pred cCCEEECCEEccCCccCcCCCCEEEE
Confidence 34589999999 89999999999876
No 83
>PRK06488 sulfur carrier protein ThiS; Validated
Probab=61.08 E-value=8.3 Score=32.00 Aligned_cols=22 Identities=27% Similarity=0.380 Sum_probs=20.0
Q ss_pred CCeeEEEec----ccccCCCCeEEEcCC
Q 005392 469 GGRELLVAV----SFGLAASEVVADRRP 492 (698)
Q Consensus 469 ngr~l~v~l----~~~L~~gD~Vei~T~ 492 (698)
||+ +||- ++.|+.||.|||+++
T Consensus 36 N~~--iv~~~~~~~~~L~dgD~Ieiv~~ 61 (65)
T PRK06488 36 NGE--LVHKEARAQFVLHEGDRIEILSP 61 (65)
T ss_pred CCE--EcCHHHcCccccCCCCEEEEEEe
Confidence 889 8997 789999999999976
No 84
>TIGR01683 thiS thiamine biosynthesis protein ThiS. This model represents ThiS, a small thiamine-biosynthesis protein related to MoaD, a molybdenum cofactor biosynthesis protein. Both proteins are involved in sulfur transfer. ThiS has a conserved Gly-Gly C-terminus that is modified, in reactions requiring ThiI, ThiF, IscS, and a sulfur atom from Cys, into the thiocarboxylate that provides the sulfur for thiazole biosynthesis.
Probab=60.74 E-value=4.7 Score=33.42 Aligned_cols=22 Identities=14% Similarity=0.045 Sum_probs=18.2
Q ss_pred CCeeEEEe----cccccCCCCeEEEcCC
Q 005392 469 GGRELLVA----VSFGLAASEVVADRRP 492 (698)
Q Consensus 469 ngr~l~v~----l~~~L~~gD~Vei~T~ 492 (698)
||+ ++| -++.|+.||.|+|+++
T Consensus 35 N~~--iv~~~~~~~~~L~~gD~veii~~ 60 (64)
T TIGR01683 35 NGE--IVPRSEWDDTILKEGDRIEIVTF 60 (64)
T ss_pred CCE--EcCHHHcCceecCCCCEEEEEEe
Confidence 888 775 3468999999999976
No 85
>PRK07696 sulfur carrier protein ThiS; Provisional
Probab=58.45 E-value=9 Score=32.34 Aligned_cols=22 Identities=0% Similarity=-0.080 Sum_probs=20.1
Q ss_pred CCeeEEEecc----cccCCCCeEEEcCC
Q 005392 469 GGRELLVAVS----FGLAASEVVADRRP 492 (698)
Q Consensus 469 ngr~l~v~l~----~~L~~gD~Vei~T~ 492 (698)
||. ++|=+ +.|+.||.|||++.
T Consensus 38 N~~--iv~r~~w~~~~L~~gD~iEIv~~ 63 (67)
T PRK07696 38 NKD--ILQKDDHTDTSVFDGDQIEIVTF 63 (67)
T ss_pred CCE--EeCHHHcCceecCCCCEEEEEEE
Confidence 899 99988 99999999999875
No 86
>COG3383 Uncharacterized anaerobic dehydrogenase [General function prediction only]
Probab=57.39 E-value=19 Score=43.70 Aligned_cols=55 Identities=27% Similarity=0.396 Sum_probs=45.6
Q ss_pred EEEEEccCCCeEecCCCCCHHHHHHHhC--CCC--------------ce-EEEcCEeeC-CCCcCCCCCEEEE
Q 005392 642 VVIVCWPNGEIMRLRSGSTAADAAMKVG--LEG--------------KL-VLVNGQLVL-PNTELKDGDIVEV 696 (698)
Q Consensus 642 ~v~vftp~G~~~~l~~g~T~~d~a~~i~--~~~--------------~~-~~vNg~~v~-l~~~L~~Gd~v~i 696 (698)
..+..|=+|+-+..++|+|+++++.+-| |++ .| +-|||++++ -+|++.+|..|..
T Consensus 4 ~~i~vtidg~~~~v~~G~tiL~a~~~~gI~iP~iCy~~~l~pi~sCd~ClVEidG~l~rsCsT~v~dGm~v~t 76 (978)
T COG3383 4 KMITVTIDGRSIEVEEGTTILRAANRNGIEIPHICYHESLGPIGSCDTCLVEIDGKLVRSCSTPVEDGMVVRT 76 (978)
T ss_pred eeEEEEECCeEEecCCChHHHHHHHhcCCcccceeccCCCCcccccceEEEEecCceeccccccccCCcEEec
Confidence 4456788999999999999999999998 443 23 799999886 4899999998854
No 87
>PRK12703 tRNA 2'-O-methylase; Reviewed
Probab=54.19 E-value=29 Score=38.55 Aligned_cols=50 Identities=20% Similarity=0.226 Sum_probs=29.0
Q ss_pred cEEeehhhhHHhhhhccccCChHHHHHHHHHHHHHHHHHHHHhCchHHHHHHHHHH
Q 005392 91 RVVLIKLADRLHNMRTIYALPPAKARAVAQETLLIWCSLASRLGLWALKAELEDLC 146 (698)
Q Consensus 91 RVvlIKLADRLhNmRtl~~~~~ek~~~iA~ETl~IyaPLA~RLGi~~ik~ELEDL~ 146 (698)
...+|-.||||...... .+.+.+.+-..+. -++.-++| +..|..|||.+|
T Consensus 282 EakIV~dADrL~~~~r~--v~~e~~~~k~~~~--~~~~~~~R--~~~l~~~~~~~~ 331 (339)
T PRK12703 282 EEMIVAHADNLFAGDKR--LNLKQVMDKYRKK--GLHDAAER--IKKLHEELSSIC 331 (339)
T ss_pred HHHHHHHHHHHhcCCCc--CCHHHHHHHHHhh--hhhHHHHH--HHHHHHHHHHHh
Confidence 45688899999777543 4444433333332 23445566 466777777665
No 88
>PRK06944 sulfur carrier protein ThiS; Provisional
Probab=52.05 E-value=13 Score=30.59 Aligned_cols=22 Identities=32% Similarity=0.386 Sum_probs=19.2
Q ss_pred CCeeEEEec----ccccCCCCeEEEcCC
Q 005392 469 GGRELLVAV----SFGLAASEVVADRRP 492 (698)
Q Consensus 469 ngr~l~v~l----~~~L~~gD~Vei~T~ 492 (698)
||+ ++|- ++.|+.||.|||+++
T Consensus 36 N~~--~v~~~~~~~~~L~~gD~vei~~~ 61 (65)
T PRK06944 36 NGD--FVARTQHAARALAAGDRLDLVQP 61 (65)
T ss_pred CCE--EcCchhcccccCCCCCEEEEEee
Confidence 888 7875 678999999999986
No 89
>PF14451 Ub-Mut7C: Mut7-C ubiquitin
Probab=50.54 E-value=17 Score=32.20 Aligned_cols=30 Identities=23% Similarity=0.325 Sum_probs=24.1
Q ss_pred eeeecCCceeeeEEEEEccCCeeEEEecccccCCCCeEEEc
Q 005392 450 VIRVEGSNLLAAVIIRVEKGGRELLVAVSFGLAASEVVADR 490 (698)
Q Consensus 450 v~t~iG~~c~gAkV~~v~~ngr~l~v~l~~~L~~gD~Vei~ 490 (698)
+||+|| ...+ ||+ -|+++|.++.||.|.|.
T Consensus 45 P~tEV~-----~i~v----NG~--~v~~~~~~~~Gd~v~V~ 74 (81)
T PF14451_consen 45 PHTEVG-----LILV----NGR--PVDFDYRLKDGDRVAVY 74 (81)
T ss_pred ChHHeE-----EEEE----CCE--ECCCcccCCCCCEEEEE
Confidence 466664 4443 899 89999999999999995
No 90
>PRK06083 sulfur carrier protein ThiS; Provisional
Probab=48.19 E-value=10 Score=33.73 Aligned_cols=22 Identities=14% Similarity=0.164 Sum_probs=18.5
Q ss_pred CCeeEEEec----ccccCCCCeEEEcCC
Q 005392 469 GGRELLVAV----SFGLAASEVVADRRP 492 (698)
Q Consensus 469 ngr~l~v~l----~~~L~~gD~Vei~T~ 492 (698)
||. +||= ++.|+.||.|||++.
T Consensus 55 Ng~--iVpr~~w~~t~L~egD~IEIv~~ 80 (84)
T PRK06083 55 NNQ--VVPRSEWQSTVLSSGDAISLFQA 80 (84)
T ss_pred CCE--EeCHHHcCcccCCCCCEEEEEEE
Confidence 888 7874 577999999999875
No 91
>PRK05327 rpsD 30S ribosomal protein S4; Validated
Probab=45.11 E-value=19 Score=36.98 Aligned_cols=26 Identities=46% Similarity=0.728 Sum_probs=22.9
Q ss_pred CceEEEcCEeeC-CCCcCCCCCEEEEe
Q 005392 672 GKLVLVNGQLVL-PNTELKDGDIVEVR 697 (698)
Q Consensus 672 ~~~~~vNg~~v~-l~~~L~~Gd~v~i~ 697 (698)
+..++|||+.|. +++.++.||+|+|.
T Consensus 117 ~G~V~VNgk~v~~ps~~v~~GD~I~v~ 143 (203)
T PRK05327 117 HGHILVNGKKVNIPSYRVKPGDVIEVR 143 (203)
T ss_pred CCcEEECCEEECCCCcCCCCCCEEEEC
Confidence 345999999997 89999999999985
No 92
>PTZ00305 NADH:ubiquinone oxidoreductase; Provisional
Probab=44.92 E-value=43 Score=36.54 Aligned_cols=51 Identities=18% Similarity=0.146 Sum_probs=39.7
Q ss_pred EccCCCeEec-CCCCCHHHHHHHhC--CCC--------------ce-EEEcCE--ee-CCCCcCCCCCEEEE
Q 005392 646 CWPNGEIMRL-RSGSTAADAAMKVG--LEG--------------KL-VLVNGQ--LV-LPNTELKDGDIVEV 696 (698)
Q Consensus 646 ftp~G~~~~l-~~g~T~~d~a~~i~--~~~--------------~~-~~vNg~--~v-~l~~~L~~Gd~v~i 696 (698)
.+=+|.-+++ |+|.|.+|+|.+.| |+. .| |.|+|+ ++ .=.|+.++|=.|.-
T Consensus 71 I~IDGk~VeV~~~G~TILeAAr~~GI~IPtLCy~~~L~p~G~CRlClVEVeG~~~lv~AC~tpV~eGM~V~T 142 (297)
T PTZ00305 71 MFVNKRPVEIIPQEENLLEVLEREGIRVPKFCYHPILSVAGNCRMCLVQVDGTQNLVVSCATVALPGMSIIT 142 (297)
T ss_pred EEECCEEEEecCCCChHHHHHHHcCCCcCccccCCCCCCCCccceeEEEECCCcCcccccCCcCCCCCEEEe
Confidence 4449999999 99999999999998 444 13 789986 33 45788899987764
No 93
>PRK00413 thrS threonyl-tRNA synthetase; Reviewed
Probab=43.49 E-value=18 Score=42.98 Aligned_cols=30 Identities=23% Similarity=0.234 Sum_probs=25.9
Q ss_pred CCCCceEEEcCEeeCCCCcCCCCCEEEEeC
Q 005392 669 GLEGKLVLVNGQLVLPNTELKDGDIVEVRV 698 (698)
Q Consensus 669 ~~~~~~~~vNg~~v~l~~~L~~Gd~v~i~~ 698 (698)
.-..-.++|||++++|++++.+|+.|+++|
T Consensus 32 ~~~~v~a~vng~l~dL~~~l~~d~~Vefi~ 61 (638)
T PRK00413 32 AKAAVAGKVNGELVDLSTPIEEDASLEIIT 61 (638)
T ss_pred hhheEEEEECCEEeeCCccccCCCceeeee
Confidence 334456899999999999999999999876
No 94
>cd00754 MoaD Ubiquitin domain of MoaD-like proteins. MoaD family. Members of this family are involved in biosynthesis of the molybdenum cofactor (Moco), an essential cofactor of a diverse group of redox enzymes. Moco biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and eukaryotes. Moco contains a tricyclic pyranopterin, termed molybdopterin (MPT), that contains the cis-dithiolene group responsible for molybdenum ligation. This dithiolene group is generated by MPT synthase, the second major step in Moco biosynthesis. MPT synthase consists of a large (MoeE) and small (MoaD) subunit. The small subunit is inserted into the lare subunit to form the active site. The small subunit, which is structurally similar to ubiquitin, contains a C-terminal thiocarboxylated glycine residue that serves as a sulfur donor for the synthesis of the MPT dithiolene group.
Probab=43.31 E-value=20 Score=30.35 Aligned_cols=22 Identities=27% Similarity=0.297 Sum_probs=20.5
Q ss_pred CCeeEEEecccccCCCCeEEEcCC
Q 005392 469 GGRELLVAVSFGLAASEVVADRRP 492 (698)
Q Consensus 469 ngr~l~v~l~~~L~~gD~Vei~T~ 492 (698)
||+ .++.++.|+.||.|+++.+
T Consensus 55 Ng~--~v~~~~~l~~gD~v~i~pp 76 (80)
T cd00754 55 NGE--YVRLDTPLKDGDEVAIIPP 76 (80)
T ss_pred CCe--EcCCCcccCCCCEEEEeCC
Confidence 899 8999999999999999876
No 95
>cd01809 Scythe_N Ubiquitin-like domain of Scythe protein. Scythe protein (also known as Bat3) is an apoptotic regulator that is highly conserved in eukaryotes and contains a ubiquitin-like domain near its N-terminus. Scythe binds reaper, a potent apoptotic inducer, and Scythe/Reaper are thought to signal apoptosis, in part through regulating the folding and activity of apoptotic signaling molecules.
Probab=42.93 E-value=65 Score=26.39 Aligned_cols=55 Identities=13% Similarity=0.247 Sum_probs=40.1
Q ss_pred EEEEccCCCe--EecCCCCCHHHHHHHhC----CCC--ceEEEcCEeeCCC-----CcCCCCCEEEEe
Q 005392 643 VIVCWPNGEI--MRLRSGSTAADAAMKVG----LEG--KLVLVNGQLVLPN-----TELKDGDIVEVR 697 (698)
Q Consensus 643 v~vftp~G~~--~~l~~g~T~~d~a~~i~----~~~--~~~~vNg~~v~l~-----~~L~~Gd~v~i~ 697 (698)
++|=+++|+. +.+++..|+.++-.++. ++. .....||+...-+ +-+++|++|.++
T Consensus 3 i~vk~~~g~~~~~~v~~~~tv~~lK~~i~~~~gi~~~~q~L~~~g~~L~d~~~L~~~~i~~~~~l~l~ 70 (72)
T cd01809 3 IKVKTLDSQTHTFTVEEEITVLDLKEKIAEEVGIPVEQQRLIYSGRVLKDDETLSEYKVEDGHTIHLV 70 (72)
T ss_pred EEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHCcCHHHeEEEECCEECCCcCcHHHCCCCCCCEEEEE
Confidence 6788888874 56779999999988885 443 2245689877644 457899988775
No 96
>smart00471 HDc Metal dependent phosphohydrolases with conserved 'HD' motif. Includes eukaryotic cyclic nucleotide phosphodiesterases (PDEc). This profile/HMM does not detect HD homologues in bacterial glycine aminoacyl-tRNA synthetases (beta subunit).
Probab=41.47 E-value=33 Score=29.60 Aligned_cols=21 Identities=29% Similarity=0.384 Sum_probs=16.6
Q ss_pred CccEEeehhhhHHhhhhcccc
Q 005392 89 DPRVVLIKLADRLHNMRTIYA 109 (698)
Q Consensus 89 D~RVvlIKLADRLhNmRtl~~ 109 (698)
...+.++++||++++++....
T Consensus 100 ~~~~~il~~aD~~~~~~~~~~ 120 (124)
T smart00471 100 TLEARIVKVADRLDALRRDRR 120 (124)
T ss_pred CHHHHHHHHHHHHHHHhcCCC
Confidence 346789999999999987543
No 97
>TIGR03401 cyanamide_fam HD domain protein, cyanamide hydratase family. Members of this protein family are known, so far, in the Ascomycota, a branch of the Fungi, and contain an HD domain (pfam01966), found typically in various metal-dependent phosphohydrolases. The only characterized member of this family, from the soil fungus Myrothecium verrucaria, is cyanamide hydratase (EC 4.2.1.69), a zinc-containing homohexamer that adds water to the fertilizer cyanamide (NCNH2), a nitrile compound, to produce urea (NH2-CO-NH2). Homologs are likely to be nitrile hydratases.
Probab=40.89 E-value=34 Score=35.80 Aligned_cols=27 Identities=19% Similarity=0.201 Sum_probs=18.0
Q ss_pred ccEEeehhhhHHhhhhc-cccCChHHHH
Q 005392 90 PRVVLIKLADRLHNMRT-IYALPPAKAR 116 (698)
Q Consensus 90 ~RVvlIKLADRLhNmRt-l~~~~~ek~~ 116 (698)
+.+.||..||++++|-. ...++++.+.
T Consensus 152 ~e~~lvq~Ad~lDa~Ga~~~~~~~~~~~ 179 (228)
T TIGR03401 152 TLGQLLQLATIFDNVGANTDLVHPDTVD 179 (228)
T ss_pred HHHHHHHHHHHHhHccCChhhCCHHHHH
Confidence 35678888999998853 3345565554
No 98
>COG0522 RpsD Ribosomal protein S4 and related proteins [Translation, ribosomal structure and biogenesis]
Probab=39.63 E-value=30 Score=35.83 Aligned_cols=34 Identities=32% Similarity=0.533 Sum_probs=27.4
Q ss_pred HHHHhC-----------CCCceEEEcCEeeC-CCCcCCCCCEEEEe
Q 005392 664 AAMKVG-----------LEGKLVLVNGQLVL-PNTELKDGDIVEVR 697 (698)
Q Consensus 664 ~a~~i~-----------~~~~~~~vNg~~v~-l~~~L~~Gd~v~i~ 697 (698)
++|++| |.+..+.|||+.|. +++.++.||.++|.
T Consensus 99 vVyR~GfA~T~~qARQlV~HGHI~VnGk~V~iPSy~V~~gdei~V~ 144 (205)
T COG0522 99 VVYRLGFAKTRRQARQLVSHGHILVNGKRVNIPSYLVSPGDEISVR 144 (205)
T ss_pred HHHHhcccccHHHHHHHhhcceEEECCEEeccCcEEecCCCEEEee
Confidence 468888 44455999999996 68899999999884
No 99
>TIGR02008 fdx_plant ferredoxin [2Fe-2S]. This model represents single domain 2Fe-2S (also called plant type) ferredoxins. In general, these occur as a single domain proteins or with a chloroplast transit peptide. Species tend to be photosynthetic, but several forms may occur in one species and individually may not be associated with photocynthesis. Halobacterial forms differ somewhat in architecture; they score between trusted and noise cutoffs. Sequences scoring below the noise cutoff tend to be ferredoxin-related domains of larger proteins.
Probab=39.14 E-value=32 Score=30.88 Aligned_cols=24 Identities=29% Similarity=0.437 Sum_probs=22.0
Q ss_pred ccCC--CeEecCCCCCHHHHHHHhCC
Q 005392 647 WPNG--EIMRLRSGSTAADAAMKVGL 670 (698)
Q Consensus 647 tp~G--~~~~l~~g~T~~d~a~~i~~ 670 (698)
+|+| ..+.+++|.|.+|.+.+-|+
T Consensus 9 ~~~~~~~~~~~~~g~tLLda~~~~Gi 34 (97)
T TIGR02008 9 NPDGGEETIECPDDQYILDAAEEAGI 34 (97)
T ss_pred ECCCCEEEEEECCCCcHHHHHHHcCC
Confidence 7888 88999999999999999993
No 100
>TIGR01017 rpsD_bact ribosomal protein S4, bacterial/organelle type. This model finds organelle (chloroplast and mitochondrial) ribosomal protein S4 as well as bacterial ribosomal protein S4.
Probab=37.28 E-value=31 Score=35.41 Aligned_cols=25 Identities=36% Similarity=0.800 Sum_probs=22.1
Q ss_pred ceEEEcCEee-CCCCcCCCCCEEEEe
Q 005392 673 KLVLVNGQLV-LPNTELKDGDIVEVR 697 (698)
Q Consensus 673 ~~~~vNg~~v-~l~~~L~~Gd~v~i~ 697 (698)
.-+.|||+.| .+++.++.||+|+|.
T Consensus 115 G~V~VNgk~v~~ps~~V~~GD~I~V~ 140 (200)
T TIGR01017 115 GHILVNGKKVDIPSYQVRPGDIISIK 140 (200)
T ss_pred CCEEECCEEeCCCCCCCCCCCEEEEe
Confidence 4489999999 689999999999984
No 101
>PRK03826 5'-nucleotidase; Provisional
Probab=36.78 E-value=29 Score=35.53 Aligned_cols=17 Identities=18% Similarity=0.276 Sum_probs=13.0
Q ss_pred CCChHHHHHHhhccccc
Q 005392 8 KRAVDTVVAGILHDVVD 24 (698)
Q Consensus 8 ~~d~~tIiAALLHDvVE 24 (698)
....-.+..||+||+.|
T Consensus 55 vd~~rv~~~aL~HDl~E 71 (195)
T PRK03826 55 LNAERIALLAMYHDASE 71 (195)
T ss_pred CCHHHHHHHHHhcchHH
Confidence 34455677999999998
No 102
>COG1977 MoaD Molybdopterin converting factor, small subunit [Coenzyme metabolism]
Probab=36.06 E-value=37 Score=29.88 Aligned_cols=30 Identities=23% Similarity=0.149 Sum_probs=23.6
Q ss_pred CceeeeEEEEEccCCeeEEEecccccCCCCeEEEcCC
Q 005392 456 SNLLAAVIIRVEKGGRELLVAVSFGLAASEVVADRRP 492 (698)
Q Consensus 456 ~~c~gAkV~~v~~ngr~l~v~l~~~L~~gD~Vei~T~ 492 (698)
..|+.+.+ |.. ++++++.|+.||.|.++-+
T Consensus 51 ~~~v~~~~-----~~~--~~~~~t~L~dGDeVa~~PP 80 (84)
T COG1977 51 NIVVNAAN-----NEF--LVGLDTPLKDGDEVAFFPP 80 (84)
T ss_pred cceEEeee-----cee--eccccccCCCCCEEEEeCC
Confidence 35566665 344 9999999999999999865
No 103
>CHL00113 rps4 ribosomal protein S4; Reviewed
Probab=35.18 E-value=32 Score=35.43 Aligned_cols=28 Identities=36% Similarity=0.648 Sum_probs=23.5
Q ss_pred CCCceEEEcCEee-CCCCcCCCCCEEEEe
Q 005392 670 LEGKLVLVNGQLV-LPNTELKDGDIVEVR 697 (698)
Q Consensus 670 ~~~~~~~vNg~~v-~l~~~L~~Gd~v~i~ 697 (698)
|.+.-+.|||+.| .+++.++.||+|+|.
T Consensus 111 I~~G~V~VNGk~v~~ps~~Vk~GD~I~V~ 139 (201)
T CHL00113 111 VNHGHILVNGRIVDIPSYRCKPKDIITVK 139 (201)
T ss_pred HHCCcEEECCEEecCccccCCCCCEEEEc
Confidence 3445589999999 689999999999974
No 104
>TIGR02007 fdx_isc ferredoxin, 2Fe-2S type, ISC system. This family consists of proteobacterial ferredoxins associated with and essential to the ISC system of 2Fe-2S cluster assembly. This family is closely related to (but excludes) eukaryotic (mitochondrial) adrenodoxins, which are ferredoxins involved in electron transfer to P450 cytochromes.
Probab=33.65 E-value=50 Score=30.42 Aligned_cols=28 Identities=29% Similarity=0.609 Sum_probs=25.4
Q ss_pred EEEE----EccCCCeEecCCCCCHHHHHHHhC
Q 005392 642 VVIV----CWPNGEIMRLRSGSTAADAAMKVG 669 (698)
Q Consensus 642 ~v~v----ftp~G~~~~l~~g~T~~d~a~~i~ 669 (698)
.+|+ |.|.|..+..++|.|.+|++.+-|
T Consensus 3 ~~~~~~~~~~p~~~~~~~~~g~tLL~a~~~~g 34 (110)
T TIGR02007 3 IVFLPHEDLCPEGAVVEAKPGETILDVALDNG 34 (110)
T ss_pred EEEEeCcccCCCCeEEEECCCChHHHHHHHcC
Confidence 4556 789999999999999999999998
No 105
>COG0012 Predicted GTPase, probable translation factor [Translation, ribosomal structure and biogenesis]
Probab=33.05 E-value=14 Score=41.36 Aligned_cols=46 Identities=13% Similarity=0.117 Sum_probs=34.0
Q ss_pred CeEecCCCCCHHHHHHHhCCCCce-EEEcCEe--eCCCCcCCCCCEEEE
Q 005392 651 EIMRLRSGSTAADAAMKVGLEGKL-VLVNGQL--VLPNTELKDGDIVEV 696 (698)
Q Consensus 651 ~~~~l~~g~T~~d~a~~i~~~~~~-~~vNg~~--v~l~~~L~~Gd~v~i 696 (698)
|......|+|++|++|.+|-+.-. |+-.|+. .-=+|.++|||++..
T Consensus 320 Dfe~~fi~aevi~~~d~i~~~~~~~Akeag~~r~~GkdY~vqdGDVi~F 368 (372)
T COG0012 320 DFEKGFIRAEVISYADLIHYGGEAAAKEAGKRRLEGKDYIVQDGDVIHF 368 (372)
T ss_pred chhhccccceEeeHHHHHhcCcHHHHHHhcceeeccccceecCCCEEEE
Confidence 455678899999999999977522 3333333 667999999999954
No 106
>PRK11507 ribosome-associated protein; Provisional
Probab=32.68 E-value=45 Score=28.92 Aligned_cols=27 Identities=19% Similarity=0.288 Sum_probs=21.2
Q ss_pred CCCceEEEcCEeeCCC-CcCCCCCEEEE
Q 005392 670 LEGKLVLVNGQLVLPN-TELKDGDIVEV 696 (698)
Q Consensus 670 ~~~~~~~vNg~~v~l~-~~L~~Gd~v~i 696 (698)
|....++|||....-. .+|++||+|++
T Consensus 34 I~eg~V~VNGeve~rRgkKl~~GD~V~~ 61 (70)
T PRK11507 34 IAEGQVKVDGAVETRKRCKIVAGQTVSF 61 (70)
T ss_pred HHcCceEECCEEecccCCCCCCCCEEEE
Confidence 3445699999977654 57999999987
No 107
>PLN00051 RNA-binding S4 domain-containing protein; Provisional
Probab=32.52 E-value=38 Score=36.37 Aligned_cols=27 Identities=41% Similarity=0.374 Sum_probs=23.5
Q ss_pred CCceEEEcCEee-CCCCcCCCCCEEEEe
Q 005392 671 EGKLVLVNGQLV-LPNTELKDGDIVEVR 697 (698)
Q Consensus 671 ~~~~~~vNg~~v-~l~~~L~~Gd~v~i~ 697 (698)
....|+|||+.+ ..++.++.||+|.|+
T Consensus 214 ~~g~V~vN~~~v~~~s~~v~~gD~isiR 241 (267)
T PLN00051 214 SSGDVRVNWREVTKNGTTLKTGDVVSVS 241 (267)
T ss_pred HcCcEEECCEEcCCCCCCCCCCCEEEEe
Confidence 334589999997 799999999999997
No 108
>PF02597 ThiS: ThiS family; InterPro: IPR003749 ThiS (thiaminS) is a 66 aa protein involved in sulphur transfer. ThiS is coded in the thiCEFSGH operon in Escherichia coli. This family of proteins have two conserved Glycines at the COOH terminus. Thiocarboxylate is formed at the last G in the activation process. Sulphur is transferred from ThiI to ThiS in a reaction catalysed by IscS []. MoaD, a protein involved in sulphur transfer during molybdopterin synthesis, is about the same length and shows limited sequence similarity to ThiS. Both have the conserved GG at the COOH end.; PDB: 1JW9_D 1JWB_D 1JWA_D 3BII_D 1NVI_D 1FMA_D 1FM0_D 2QIE_G 2Q5W_D 2K5P_A ....
Probab=32.18 E-value=39 Score=28.21 Aligned_cols=22 Identities=27% Similarity=0.285 Sum_probs=20.4
Q ss_pred CCeeEEEec---ccccCCCCeEEEcCC
Q 005392 469 GGRELLVAV---SFGLAASEVVADRRP 492 (698)
Q Consensus 469 ngr~l~v~l---~~~L~~gD~Vei~T~ 492 (698)
||+ +++- ++.|+.||.|.++.+
T Consensus 49 N~~--~v~~~~~~~~l~~gD~V~i~pp 73 (77)
T PF02597_consen 49 NGE--IVPDDGLDTPLKDGDEVAILPP 73 (77)
T ss_dssp TTE--EEGGGTTTSBEETTEEEEEEES
T ss_pred CCE--EcCCccCCcCcCCCCEEEEECC
Confidence 899 8999 999999999999876
No 109
>TIGR03069 PS_II_S4 photosystem II S4 domain protein. Members of this protein family are about 265 residues long and each contains an S4 RNA-binding domain of about 48 residues. The member from the Cyanobacterium, Synechocystis sp. PCC 6803, was detected as a novel polypeptide in a highly purified preparation of active photosystem II (Kashino, et al., 2002). The phylogenetic distribution, including Cyanobacteria and Arabidopsis, supports a role in photosystem II, although the high bit score cutoffs for this model reflect similar sequences in non-photosynthetic organisms such as Carboxydothermus hydrogenoformans, a Gram-positive bacterium.
Probab=32.16 E-value=42 Score=35.75 Aligned_cols=27 Identities=33% Similarity=0.454 Sum_probs=23.4
Q ss_pred CCceEEEcCEee-CCCCcCCCCCEEEEe
Q 005392 671 EGKLVLVNGQLV-LPNTELKDGDIVEVR 697 (698)
Q Consensus 671 ~~~~~~vNg~~v-~l~~~L~~Gd~v~i~ 697 (698)
...-++|||+.+ ..++.++.||+|.|+
T Consensus 206 ~~G~V~VNg~~v~~~s~~v~~gD~Isvr 233 (257)
T TIGR03069 206 KAGRLRLNWKTVTQPSRELKVGDRLQLR 233 (257)
T ss_pred HCCeEEECCEEcCCCCCcCCCCCEEEEc
Confidence 345589999999 899999999999986
No 110
>cd01805 RAD23_N Ubiquitin-like domain of RAD23. RAD23 belongs to a family of adaptor molecules having affinity for both the proteasome and ubiquitinylated proteins and thought to shuttle these ubiquitinylated proteins to the proteasome for destruction. RAD23 interacts with ubiquitin through its C-terminal ubiquitin-associated domains (UBA) and with the proteasome through its N-terminal ubiquitin-like domain (UBL).
Probab=32.11 E-value=1.6e+02 Score=24.64 Aligned_cols=56 Identities=13% Similarity=0.197 Sum_probs=39.9
Q ss_pred EEEEEccCCCeE--ecCCCCCHHHHHHHhC----C--CC-c-eEEEcCEeeCCC-----CcCCCCCEEEEe
Q 005392 642 VVIVCWPNGEIM--RLRSGSTAADAAMKVG----L--EG-K-LVLVNGQLVLPN-----TELKDGDIVEVR 697 (698)
Q Consensus 642 ~v~vftp~G~~~--~l~~g~T~~d~a~~i~----~--~~-~-~~~vNg~~v~l~-----~~L~~Gd~v~i~ 697 (698)
.++|-++.|+.+ .+++..|+.++=..|. + +. . ....||+...=+ +-+++|+.|-++
T Consensus 2 ~i~vk~~~g~~~~l~v~~~~TV~~lK~~i~~~~~i~~~~~~q~L~~~G~~L~d~~~L~~~~i~~~~~i~~~ 72 (77)
T cd01805 2 KITFKTLKQQTFPIEVDPDDTVAELKEKIEEEKGCDYPPEQQKLIYSGKILKDDTTLEEYKIDEKDFVVVM 72 (77)
T ss_pred EEEEEeCCCCEEEEEECCCCcHHHHHHHHHHhhCCCCChhHeEEEECCEEccCCCCHHHcCCCCCCEEEEE
Confidence 367888999874 6678889999977775 4 33 1 256789877533 467899988764
No 111
>PF09138 Urm1: Urm1 (Ubiquitin related modifier); InterPro: IPR015221 Ubiquitin related modifier 1 (Urm1) is a ubiquitin related protein that modifies proteins in the yeast ubiquitin-like urmylation pathway []. Structural comparisons and phylogenetic analysis of the ubiquitin superfamily has indicated that Urm1 has the most conserved structural and sequence features of the common ancestor of the entire superfamily []. ; GO: 0034227 tRNA thio-modification, 0005737 cytoplasm; PDB: 2AX5_A 2QJL_A 2PKO_A 1WGK_A 1XO3_A 2K9X_A.
Probab=31.59 E-value=46 Score=30.52 Aligned_cols=47 Identities=28% Similarity=0.203 Sum_probs=30.6
Q ss_pred eEecC---CCCCHHHHHHHhC---CC-------------C-ceEEEcCEeeCC----CCcCCCCCEEEEeC
Q 005392 652 IMRLR---SGSTAADAAMKVG---LE-------------G-KLVLVNGQLVLP----NTELKDGDIVEVRV 698 (698)
Q Consensus 652 ~~~l~---~g~T~~d~a~~i~---~~-------------~-~~~~vNg~~v~l----~~~L~~Gd~v~i~~ 698 (698)
.+.|| ..+|..|+...+- +. + -++.||+.--.| +|+|++||.|.+++
T Consensus 21 ~v~l~~~~~~~ti~~Li~~l~~nll~~r~elF~~~~~vrPGILvLINd~DwEl~g~~~y~l~~~D~I~FiS 91 (96)
T PF09138_consen 21 KVSLPSDGEPATIKDLIDYLRDNLLKERPELFLEGGSVRPGILVLINDADWELLGEEDYVLKDGDNITFIS 91 (96)
T ss_dssp EEEE-SSCSC-BHHHHHHHHCCCT-SSGHHHHBSSSSB-TTEEEEETTCEHHHHTCCCSB--TTEEEEEEE
T ss_pred EEEcCCCCCCcCHHHHHHHHHHhccCCCHhHEecCCeEcCcEEEEEcCccceeecCcceEcCCCCEEEEEc
Confidence 56666 6777778777774 21 1 248999987654 89999999998863
No 112
>PTZ00258 GTP-binding protein; Provisional
Probab=31.14 E-value=27 Score=39.45 Aligned_cols=49 Identities=8% Similarity=0.152 Sum_probs=38.6
Q ss_pred CCCCCc-------eeeecCCceeeeEEEEEc------------cCCeeEEEecccccCCCCeEEEcCC
Q 005392 444 LKMGHP-------VIRVEGSNLLAAVIIRVE------------KGGRELLVAVSFGLAASEVVADRRP 492 (698)
Q Consensus 444 lp~g~~-------v~t~iG~~c~gAkV~~v~------------~ngr~l~v~l~~~L~~gD~Vei~T~ 492 (698)
+|.|+| ||+.++-..+-|.|++-+ .-|+.+.+--+|.++.||+|++..+
T Consensus 320 i~~Gsta~~aAg~IHsD~~kgFi~Aev~~~~d~~~~g~~~~ak~~g~~r~eGkdYiv~DGDIi~f~fn 387 (390)
T PTZ00258 320 IQKGTKAPQAAGVIHSDFEKGFICAEVMKYEDFLELGSEAAVKAEGKYRQEGKDYVVQDGDIIFFKFN 387 (390)
T ss_pred eCCCCcHHHHHhhhhhHHhhCcEEEEECcHHHHHHcCCHHHHHhcCceeeeCCceEecCCCEEEEEec
Confidence 678866 899888888889985422 3376568999999999999998754
No 113
>COG2914 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=30.64 E-value=38 Score=31.10 Aligned_cols=22 Identities=23% Similarity=0.196 Sum_probs=19.8
Q ss_pred CeeEEEecccccCCCCeEEEcCCC
Q 005392 470 GRELLVAVSFGLAASEVVADRRPS 493 (698)
Q Consensus 470 gr~l~v~l~~~L~~gD~Vei~T~~ 493 (698)
|| .+.++..|+.||+|||..|-
T Consensus 56 ~k--~~kl~~~l~dgDRVEIyRPL 77 (99)
T COG2914 56 SK--PVKLDDELHDGDRVEIYRPL 77 (99)
T ss_pred cc--ccCccccccCCCEEEEeccc
Confidence 56 78899999999999999885
No 114
>PRK10119 putative hydrolase; Provisional
Probab=30.54 E-value=44 Score=35.17 Aligned_cols=19 Identities=26% Similarity=0.321 Sum_probs=13.5
Q ss_pred ccEEeehhhhHHhhhhccc
Q 005392 90 PRVVLIKLADRLHNMRTIY 108 (698)
Q Consensus 90 ~RVvlIKLADRLhNmRtl~ 108 (698)
+...+|.=||||+.|=.|.
T Consensus 118 lE~kIVQDADRLDAiGAIG 136 (231)
T PRK10119 118 LEAKIVQDADRLEALGAIG 136 (231)
T ss_pred HHHhhhhhHHHHHhcchHH
Confidence 3456788899998875543
No 115
>PRK12577 succinate dehydrogenase iron-sulfur subunit; Provisional
Probab=30.04 E-value=72 Score=35.11 Aligned_cols=39 Identities=18% Similarity=0.390 Sum_probs=28.9
Q ss_pred eEecCCCCCHHHHHHHhC--CCC--------------ce-EEEcCEeeCC-CCcCCC
Q 005392 652 IMRLRSGSTAADAAMKVG--LEG--------------KL-VLVNGQLVLP-NTELKD 690 (698)
Q Consensus 652 ~~~l~~g~T~~d~a~~i~--~~~--------------~~-~~vNg~~v~l-~~~L~~ 690 (698)
-+..++|.|++|++..++ +++ .| +.|||+.+.- .|++.+
T Consensus 22 ~v~~~~~~tvL~~l~~i~~~~d~tL~~~~~c~~~~Cg~C~v~inG~~~laC~t~v~~ 78 (329)
T PRK12577 22 TLEVEPGNTILDCLNRIKWEQDGSLAFRKNCRNTICGSCAMRINGRSALACKENVGS 78 (329)
T ss_pred EEECCCCChHHHHHHHhCCcCCCCcEEcCCCCCCCCCCCEEEECCeeecCcccchhh
Confidence 457789999999999998 531 13 7999997653 566654
No 116
>PLN02799 Molybdopterin synthase sulfur carrier subunit
Probab=29.09 E-value=47 Score=28.61 Aligned_cols=22 Identities=18% Similarity=0.128 Sum_probs=20.2
Q ss_pred CCeeEEEecccccCCCCeEEEcCC
Q 005392 469 GGRELLVAVSFGLAASEVVADRRP 492 (698)
Q Consensus 469 ngr~l~v~l~~~L~~gD~Vei~T~ 492 (698)
||+ .++.++.|+.||.|+++.+
T Consensus 57 N~~--~v~~~~~l~dgDeVai~Pp 78 (82)
T PLN02799 57 NEE--YTTESAALKDGDELAIIPP 78 (82)
T ss_pred CCE--EcCCCcCcCCCCEEEEeCC
Confidence 788 7899999999999999876
No 117
>cd00196 UBQ Ubiquitin-like proteins. Ubiquitin homologs; Includes ubiquitin and ubiquitin-like proteins. Ubiquitin-mediated proteolysis is part of the regulated turnover of proteins required for controlling cell cycle progression. Other family members are protein modifiers that perform a wide range of functions. Ubiquitination usually results in a covalent bond between the C-terminus of ubiquitin and the epsilon-amino group of a substrate lysine. The three-step mechanism requires an activating enzyme (E1) that forms a thiol ester with the C-terminal carboxy group, a conjugating enzyme (E2) that transiently carries the activated ubiquitin molecule as a thiol ester, and a ligase (E3) that transfers the activated ubiquitin from the E2 to the substrate lysine residue. In poly-ubiquitination, ubiquitin itself is the substrate.
Probab=28.13 E-value=1.7e+02 Score=21.15 Aligned_cols=48 Identities=31% Similarity=0.410 Sum_probs=34.5
Q ss_pred CCeEecCCCCCHHHHHHHhC----CCC--ceEEEcCEeeCCCC-----cCCCCCEEEEe
Q 005392 650 GEIMRLRSGSTAADAAMKVG----LEG--KLVLVNGQLVLPNT-----ELKDGDIVEVR 697 (698)
Q Consensus 650 G~~~~l~~g~T~~d~a~~i~----~~~--~~~~vNg~~v~l~~-----~L~~Gd~v~i~ 697 (698)
...+.++.+.|+.|+-..+- ++. -...+||...+... .+.+|+.|.+.
T Consensus 9 ~~~~~~~~~~tv~~l~~~i~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~~ 67 (69)
T cd00196 9 TVELLVPSGTTVADLKEKLAKKLGLPPEQQRLLVNGKILPDSLTLEDYGLQDGDELVLV 67 (69)
T ss_pred EEEEEcCCCCcHHHHHHHHHHHHCcChHHeEEEECCeECCCCCcHHHcCCCCCCEEEEE
Confidence 34556667999999877664 333 23688998877554 78999999875
No 118
>TIGR00384 dhsB succinate dehydrogenase and fumarate reductase iron-sulfur protein. Succinate dehydrogenase and fumarate reductase are reverse directions of the same enzymatic interconversion, succinate + FAD+ = fumarate + FADH2 (EC 1.3.11.1). In E. coli, the forward and reverse reactions are catalyzed by distinct complexes: fumarate reductase operates under anaerobic conditions and succinate dehydrogenase operates under aerobic conditions. This model also describes a region of the B subunit of a cytosolic archaeal fumarate reductase.
Probab=27.74 E-value=64 Score=33.22 Aligned_cols=40 Identities=28% Similarity=0.289 Sum_probs=30.9
Q ss_pred EecCCCCCHHHHHHHhC---CCC-------------ce-EEEcCEee-CCCCcCCC-CC
Q 005392 653 MRLRSGSTAADAAMKVG---LEG-------------KL-VLVNGQLV-LPNTELKD-GD 692 (698)
Q Consensus 653 ~~l~~g~T~~d~a~~i~---~~~-------------~~-~~vNg~~v-~l~~~L~~-Gd 692 (698)
++.++|.|++|+..+++ .+. .| +.|||+.+ .-.|++++ |.
T Consensus 19 v~~~~~~tvl~~l~~i~~~~~~~l~~~~~C~~g~Cg~C~v~vnG~~~laC~t~v~~~g~ 77 (220)
T TIGR00384 19 VPADEGMTVLDALNYIKDEQDPSLAFRRSCRNGICGSCAMNVNGKPVLACKTKVEDLGQ 77 (220)
T ss_pred EeCCCCCcHHHHHHHHHHhcCCCceeecccCCCCCCCCeeEECCEEhhhhhChHHHcCC
Confidence 45679999999999876 111 23 79999987 58888888 87
No 119
>PF04753 Corona_NS2: Coronavirus non-structural protein NS2; InterPro: IPR006841 This is a family of Coronavirus nonstructural protein NS2. Phosphoamino acid analysis confirmed the phosphorylated nature of NS2 and identified serine and threonine as its phosphorylated amino acid residues []. It was also demonstrated that the ns2 gene product is not essential for Murine hepatitis virus replication in transformed murine cells [].
Probab=26.79 E-value=34 Score=31.38 Aligned_cols=12 Identities=50% Similarity=0.888 Sum_probs=10.3
Q ss_pred HHHHHHHHHhhC
Q 005392 140 AELEDLCFAVLQ 151 (698)
Q Consensus 140 ~ELEDL~F~~L~ 151 (698)
.||||+||+|-+
T Consensus 20 t~LED~CfkfNY 31 (109)
T PF04753_consen 20 TELEDFCFKFNY 31 (109)
T ss_pred chHHHHHHHhcc
Confidence 699999999755
No 120
>PRK10348 ribosome-associated heat shock protein Hsp15; Provisional
Probab=26.64 E-value=67 Score=31.16 Aligned_cols=25 Identities=24% Similarity=0.236 Sum_probs=22.3
Q ss_pred ceEEEcCEeeCCCCcCCCCCEEEEe
Q 005392 673 KLVLVNGQLVLPNTELKDGDIVEVR 697 (698)
Q Consensus 673 ~~~~vNg~~v~l~~~L~~Gd~v~i~ 697 (698)
..|+|||+.+-...+++.||.|.|.
T Consensus 34 G~V~vnG~~~Kps~~V~~gd~l~v~ 58 (133)
T PRK10348 34 GKVHYNGQRSKPSKIVELNATLTLR 58 (133)
T ss_pred CCEEECCEECCCCCccCCCCEEEEE
Confidence 4489999999999999999999874
No 121
>cd00118 LysM Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function.
Probab=25.10 E-value=51 Score=23.10 Aligned_cols=42 Identities=21% Similarity=0.394 Sum_probs=31.7
Q ss_pred EecCCCCCHHHHHHHhCCCC-ceEEEcCEeeCCCCcCCCCCEEEE
Q 005392 653 MRLRSGSTAADAAMKVGLEG-KLVLVNGQLVLPNTELKDGDIVEV 696 (698)
Q Consensus 653 ~~l~~g~T~~d~a~~i~~~~-~~~~vNg~~v~l~~~L~~Gd~v~i 696 (698)
+.+.+|.|+.++|.+.++.. .++..|+. .-...+..|+.+.|
T Consensus 3 ~~v~~gdt~~~ia~~~~~~~~~~~~~N~~--~~~~~~~~g~~l~i 45 (46)
T cd00118 3 YTVKKGDTLSSIAQRYGISVEELLKLNGL--SDPDNLQVGQKLKI 45 (46)
T ss_pred EEECCCCCHHHHHHHHCcCHHHHHHHcCC--CCccccCCCCEEec
Confidence 46778999999999998775 45677776 23457888988764
No 122
>PRK11840 bifunctional sulfur carrier protein/thiazole synthase protein; Provisional
Probab=24.85 E-value=54 Score=36.27 Aligned_cols=24 Identities=38% Similarity=0.412 Sum_probs=20.5
Q ss_pred CCHHHHHHHhCCCCceEEEcCEee
Q 005392 659 STAADAAMKVGLEGKLVLVNGQLV 682 (698)
Q Consensus 659 ~T~~d~a~~i~~~~~~~~vNg~~v 682 (698)
.||.|++.++-+|...+.||.-.+
T Consensus 259 g~~sda~~AmelGadgVL~nSaIa 282 (326)
T PRK11840 259 GTASDAAVAMELGCDGVLMNTAIA 282 (326)
T ss_pred CCHHHHHHHHHcCCCEEEEcceec
Confidence 578899999999998888887766
No 123
>PRK11025 23S rRNA pseudouridylate synthase C; Provisional
Probab=24.13 E-value=67 Score=34.94 Aligned_cols=25 Identities=32% Similarity=0.412 Sum_probs=21.4
Q ss_pred CceEEEcCEeeCCCCcCCCCCEEEE
Q 005392 672 GKLVLVNGQLVLPNTELKDGDIVEV 696 (698)
Q Consensus 672 ~~~~~vNg~~v~l~~~L~~Gd~v~i 696 (698)
...++|||+.+..++.|+.||+|.|
T Consensus 44 ~G~V~VNg~~v~~~~~v~~GD~I~i 68 (317)
T PRK11025 44 KGEVRVNKKRIKPEYKLEAGDEVRI 68 (317)
T ss_pred cCCEEECCEEcCcccccCCCCEEEe
Confidence 3457899999999999999999886
No 124
>smart00257 LysM Lysin motif.
Probab=23.97 E-value=58 Score=22.43 Aligned_cols=42 Identities=19% Similarity=0.357 Sum_probs=30.8
Q ss_pred EecCCCCCHHHHHHHhCCCC-ceEEEcCEeeCCCCcCCCCCEEEE
Q 005392 653 MRLRSGSTAADAAMKVGLEG-KLVLVNGQLVLPNTELKDGDIVEV 696 (698)
Q Consensus 653 ~~l~~g~T~~d~a~~i~~~~-~~~~vNg~~v~l~~~L~~Gd~v~i 696 (698)
+.+.+|.|+.++|.+.+++. ..+..|+. + -...++.|+.+.|
T Consensus 2 ~~v~~gdt~~~ia~~~~~~~~~~~~~N~~-~-~~~~~~~g~~l~i 44 (44)
T smart00257 2 YTVKKGDTLSSIARRYGISVSDLLELNNI-L-DPDNLQVGQKLKI 44 (44)
T ss_pred eEeCCCCCHHHHHHHhCCCHHHHHHHcCC-C-CccccCCCCEEeC
Confidence 45788999999999999765 45678872 2 2356888987753
No 125
>cd01806 Nedd8 Nebb8-like ubiquitin protein. Nedd8 (also known as Rub1) has a single conserved ubiquitin-like domain that is part of a protein modification pathway similar to that of ubiquitin. Nedd8 modifies a family of molecular scaffold proteins called cullins that are responsible for assembling the ROC1/Rbx1 RING-based E3 ubiquitin ligases, of which several play a direct role in tumorigenesis.
Probab=22.61 E-value=4e+02 Score=21.87 Aligned_cols=55 Identities=11% Similarity=0.222 Sum_probs=39.6
Q ss_pred EEEEccCCCe--EecCCCCCHHHHHHHhC----CCCc--eEEEcCEeeCC-----CCcCCCCCEEEEe
Q 005392 643 VIVCWPNGEI--MRLRSGSTAADAAMKVG----LEGK--LVLVNGQLVLP-----NTELKDGDIVEVR 697 (698)
Q Consensus 643 v~vftp~G~~--~~l~~g~T~~d~a~~i~----~~~~--~~~vNg~~v~l-----~~~L~~Gd~v~i~ 697 (698)
++|=+.+|+. +++++..|+.++-.++. ++.. -...||+...- ++.+++|+.|.+.
T Consensus 3 i~v~~~~g~~~~~~v~~~~tv~~lK~~i~~~~g~~~~~qrL~~~g~~L~d~~tl~~~~i~~g~~i~l~ 70 (76)
T cd01806 3 IKVKTLTGKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQMNDDKTAADYKLEGGSVLHLV 70 (76)
T ss_pred EEEEeCCCCEEEEEECCCCCHHHHHHHHhHhhCCChhhEEEEECCeEccCCCCHHHcCCCCCCEEEEE
Confidence 5677777877 45889999999988885 4442 24578887543 4568899998764
No 126
>cd04867 TGS_YchF_C TGS_YchF_C: This subfamily represents TGS domain-containing YchF GTP-binding protein, a universally conserved GTPase whose function is unknown. The N-terminal domain of the YchF protein belongs to the Obg-like family of GTPases, and some members of the family contain a C-terminal TGS domain. TGS is a small domain of about 50 amino acid residues with a predominantly beta-sheet structure. There is no direct information on the function of the TGS domain, but its presence in two types of regulatory proteins (the GTPases and guanosine polyphosphate phosphohydrolases/synthetases) suggests a ligand (most likely nucleotide)-binding, regulatory role.
Probab=22.48 E-value=47 Score=29.76 Aligned_cols=43 Identities=23% Similarity=0.312 Sum_probs=32.2
Q ss_pred CeEecCCCCCHHHHHHHhCCCC--c-------------------------eEEEcCEeeCCCCcCCCCCEEEEe
Q 005392 651 EIMRLRSGSTAADAAMKVGLEG--K-------------------------LVLVNGQLVLPNTELKDGDIVEVR 697 (698)
Q Consensus 651 ~~~~l~~g~T~~d~a~~i~~~~--~-------------------------~~~vNg~~v~l~~~L~~Gd~v~i~ 697 (698)
..-.++.|+|+-++|-.||-+- . .++.-|+ +|.++|||++.++
T Consensus 13 RAWti~~g~tAp~AAG~IHsDfekgFIrAeVi~~~d~i~~g~~~~ak~~Gkir~eGK----~Yiv~DGDi~~f~ 82 (83)
T cd04867 13 RAWTIRKGTKAPQAAGVIHTDFEKGFIRAEVMKYEDLVELGSEAAAKEAGKYRQEGK----DYVVQDGDIIFFK 82 (83)
T ss_pred EEEEccCCCChHHhcCCcccccccCcEEEEEEcHHHHHHcCCHHHHHHcChhhhhCC----ceEeeCCeEEEEE
Confidence 3467999999999999999221 0 1344555 8899999999875
No 127
>COG0564 RluA Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]
Probab=22.38 E-value=71 Score=34.59 Aligned_cols=25 Identities=44% Similarity=0.628 Sum_probs=22.8
Q ss_pred ceEEEcCEeeCCCCcCCCCCEEEEe
Q 005392 673 KLVLVNGQLVLPNTELKDGDIVEVR 697 (698)
Q Consensus 673 ~~~~vNg~~v~l~~~L~~Gd~v~i~ 697 (698)
..++|||+.+-.++.|+.||+|.+-
T Consensus 37 g~v~vNg~~v~~~~~l~~gd~i~~~ 61 (289)
T COG0564 37 GRVRVNGKKVKPSYKLKPGDVVRIP 61 (289)
T ss_pred CCEEECCEEccCCeeeCCCCEEEEe
Confidence 3789999999999999999999873
No 128
>cd00060 FHA Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins localize to the nucleus, where they participate in establishing or maintaining cell cycle checkpoints, DNA repair, or transcriptional regulation. Members of the FHA family include: Dun1, Rad53, Cds1, Mek1, KAPP(kinase-associated protein phosphatase),and Ki-67 (a human nuclear protein related to cell proliferation).
Probab=21.31 E-value=90 Score=26.78 Aligned_cols=24 Identities=38% Similarity=0.588 Sum_probs=20.9
Q ss_pred eEEEcCEeeC--CCCcCCCCCEEEEe
Q 005392 674 LVLVNGQLVL--PNTELKDGDIVEVR 697 (698)
Q Consensus 674 ~~~vNg~~v~--l~~~L~~Gd~v~i~ 697 (698)
..+|||+.+. -..+|++||++.|-
T Consensus 67 g~~vn~~~~~~~~~~~l~~gd~i~ig 92 (102)
T cd00060 67 GTFVNGQRVSPGEPVRLRDGDVIRLG 92 (102)
T ss_pred CeEECCEECCCCCcEECCCCCEEEEC
Confidence 5799999999 68899999999873
No 129
>PRK10713 2Fe-2S ferredoxin YfaE; Provisional
Probab=21.23 E-value=1.1e+02 Score=26.69 Aligned_cols=26 Identities=8% Similarity=-0.025 Sum_probs=23.2
Q ss_pred EEccCCCeEecCC-CCCHHHHHHHhCC
Q 005392 645 VCWPNGEIMRLRS-GSTAADAAMKVGL 670 (698)
Q Consensus 645 vftp~G~~~~l~~-g~T~~d~a~~i~~ 670 (698)
.|.++|..+..+. |.|.+|++.+-|+
T Consensus 5 ~~~~~~~~~~~~~~~~tlL~a~~~~gi 31 (84)
T PRK10713 5 TLRITGTQLLCQDEHPSLLAALESHNV 31 (84)
T ss_pred EEEeCCcEEEecCCCCcHHHHHHHcCC
Confidence 5799999999986 5999999999993
Done!