Query psy9896
Match_columns 145
No_of_seqs 101 out of 309
Neff 4.4
Searched_HMMs 46136
Date Fri Aug 16 22:23:21 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy9896.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/9896hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1144|consensus 100.0 1.1E-47 2.4E-52 355.7 9.8 142 4-145 679-820 (1064)
2 cd03703 aeIF5B_II aeIF5B_II: T 100.0 7.1E-46 1.5E-50 276.6 12.4 110 25-134 1-110 (110)
3 PRK14845 translation initiatio 100.0 9.9E-33 2.2E-37 263.6 14.7 136 4-139 665-803 (1049)
4 TIGR00491 aIF-2 translation in 100.0 1.4E-30 3E-35 236.8 14.7 135 4-139 208-345 (590)
5 PRK04004 translation initiatio 100.0 4.5E-28 9.8E-33 219.7 14.9 134 5-139 211-347 (586)
6 cd03702 IF2_mtIF2_II This fami 99.9 5.3E-24 1.2E-28 154.5 10.3 91 25-131 1-92 (95)
7 COG0532 InfB Translation initi 99.9 2.4E-24 5.2E-29 193.7 10.2 136 2-140 160-299 (509)
8 cd03701 IF2_IF5B_II IF2_IF5B_I 99.9 2.6E-22 5.6E-27 144.8 10.1 92 25-131 1-92 (95)
9 TIGR00487 IF-2 translation ini 99.6 2.8E-15 6.1E-20 136.7 13.2 98 21-134 258-356 (587)
10 KOG1145|consensus 99.5 2.3E-14 5E-19 131.3 10.1 105 15-135 318-423 (683)
11 PRK05306 infB translation init 99.4 8.7E-12 1.9E-16 117.6 14.0 92 24-131 463-555 (787)
12 CHL00189 infB translation init 99.3 8.9E-12 1.9E-16 117.0 12.6 93 24-132 421-514 (742)
13 PF03144 GTP_EFTU_D2: Elongati 98.2 3.5E-06 7.5E-11 56.1 5.7 69 39-117 1-74 (74)
14 cd01342 Translation_Factor_II_ 98.2 3.8E-05 8.1E-10 49.1 9.6 80 26-116 2-81 (83)
15 cd03691 BipA_TypA_II BipA_TypA 96.9 0.02 4.4E-07 39.2 10.0 82 26-116 2-84 (86)
16 cd03697 EFTU_II EFTU_II: Elong 96.6 0.013 2.8E-07 40.8 7.2 77 29-116 5-83 (87)
17 PLN03127 Elongation factor Tu; 96.6 0.028 6E-07 50.3 10.7 82 25-117 262-347 (447)
18 PRK12735 elongation factor Tu; 96.6 0.021 4.6E-07 49.8 9.7 82 25-117 213-296 (396)
19 TIGR01394 TypA_BipA GTP-bindin 96.5 0.028 6E-07 52.2 10.5 84 25-117 201-285 (594)
20 cd03692 mtIF2_IVc mtIF2_IVc: t 96.4 0.058 1.3E-06 37.5 9.6 81 26-117 2-83 (84)
21 PRK00049 elongation factor Tu; 96.3 0.032 6.8E-07 48.8 9.4 82 25-117 213-296 (396)
22 cd03694 GTPBP_II Domain II of 96.3 0.061 1.3E-06 37.5 9.0 67 28-105 4-72 (87)
23 PRK12736 elongation factor Tu; 96.3 0.04 8.8E-07 48.0 9.7 81 25-116 211-293 (394)
24 PTZ00141 elongation factor 1- 96.3 0.032 7E-07 49.8 9.2 80 24-116 233-314 (446)
25 CHL00071 tufA elongation facto 96.2 0.024 5.1E-07 49.7 8.2 82 25-117 221-304 (409)
26 TIGR00475 selB selenocysteine- 96.2 0.035 7.5E-07 51.2 9.5 77 24-113 176-254 (581)
27 cd03693 EF1_alpha_II EF1_alpha 96.2 0.089 1.9E-06 36.9 9.4 79 25-116 5-85 (91)
28 TIGR00490 aEF-2 translation el 96.2 0.032 7E-07 52.5 9.1 82 25-117 290-371 (720)
29 PRK10512 selenocysteinyl-tRNA- 96.1 0.072 1.6E-06 49.6 11.0 80 25-117 175-257 (614)
30 cd04088 EFG_mtEFG_II EFG_mtEFG 96.1 0.091 2E-06 35.6 8.7 79 27-116 3-81 (83)
31 PRK12317 elongation factor 1-a 96.0 0.049 1.1E-06 47.5 9.1 79 25-116 226-306 (425)
32 TIGR00483 EF-1_alpha translati 95.9 0.053 1.1E-06 47.4 8.8 80 25-117 228-309 (426)
33 cd03696 selB_II selB_II: this 95.9 0.1 2.2E-06 35.7 8.4 74 28-114 4-79 (83)
34 cd03690 Tet_II Tet_II: This su 95.9 0.11 2.4E-06 36.1 8.6 81 24-116 3-83 (85)
35 cd03698 eRF3_II_like eRF3_II_l 95.8 0.14 2.9E-06 35.2 8.8 73 29-115 6-80 (83)
36 PRK05433 GTP-binding protein L 95.7 0.15 3.3E-06 47.3 11.4 49 25-75 194-242 (600)
37 PLN03126 Elongation factor Tu; 95.5 0.13 2.8E-06 46.6 10.1 82 25-117 290-373 (478)
38 cd03695 CysN_NodQ_II CysN_NodQ 95.5 0.22 4.7E-06 34.4 9.0 75 28-115 4-78 (81)
39 TIGR00485 EF-Tu translation el 95.4 0.14 3E-06 44.5 9.5 81 25-116 211-293 (394)
40 TIGR01393 lepA GTP-binding pro 95.3 0.22 4.8E-06 46.2 10.9 49 25-75 190-238 (595)
41 PRK04004 translation initiatio 95.3 0.28 6E-06 45.5 11.5 114 7-136 440-569 (586)
42 PLN00043 elongation factor 1-a 95.3 0.17 3.7E-06 45.3 9.8 79 25-116 234-314 (447)
43 cd04092 mtEFG2_II_like mtEFG2_ 95.2 0.36 7.8E-06 32.9 9.2 80 27-117 3-82 (83)
44 TIGR00491 aIF-2 translation in 95.0 0.43 9.4E-06 44.5 11.8 115 7-135 438-566 (590)
45 cd03689 RF3_II RF3_II: this su 94.8 0.32 7E-06 33.9 8.2 72 35-117 12-83 (85)
46 COG0532 InfB Translation initi 94.8 0.32 6.9E-06 45.1 10.2 105 8-126 393-505 (509)
47 cd04091 mtEFG1_II_like mtEFG1_ 94.6 0.84 1.8E-05 31.0 9.7 78 26-116 2-79 (81)
48 cd03699 lepA_II lepA_II: This 94.6 0.72 1.5E-05 31.8 9.4 81 26-116 2-84 (86)
49 PRK13351 elongation factor G; 94.6 0.32 6.9E-06 45.3 9.9 82 25-117 306-387 (687)
50 PRK10218 GTP-binding protein; 94.2 0.34 7.4E-06 45.3 9.3 83 25-116 205-288 (607)
51 cd04089 eRF3_II eRF3_II: domai 94.1 0.56 1.2E-05 32.1 8.0 63 39-114 14-78 (82)
52 PRK12740 elongation factor G; 94.0 0.4 8.8E-06 44.3 9.3 82 25-117 289-370 (668)
53 PRK14845 translation initiatio 94.0 0.94 2E-05 45.2 12.2 116 7-136 896-1025(1049)
54 PF14578 GTP_EFTU_D4: Elongati 93.8 0.21 4.6E-06 35.7 5.6 76 26-118 6-81 (81)
55 PRK07560 elongation factor EF- 93.8 0.46 9.9E-06 44.9 9.4 82 25-117 291-372 (731)
56 PTZ00327 eukaryotic translatio 92.5 1.1 2.3E-05 40.7 9.4 67 25-102 243-328 (460)
57 TIGR00487 IF-2 translation ini 92.2 1.1 2.4E-05 41.7 9.3 100 7-120 471-578 (587)
58 TIGR03680 eif2g_arch translati 91.6 1.5 3.3E-05 38.4 9.0 67 25-102 206-290 (406)
59 PRK04000 translation initiatio 91.6 2.1 4.5E-05 37.8 10.0 68 25-103 211-296 (411)
60 PRK05306 infB translation init 90.7 3.3 7.3E-05 40.1 11.1 100 7-120 673-780 (787)
61 cd04090 eEF2_II_snRNP Loc2 eEF 90.4 4.1 8.9E-05 28.5 8.8 34 29-62 5-39 (94)
62 cd03688 eIF2_gamma_II eIF2_gam 90.1 1.9 4.2E-05 32.7 7.2 52 35-97 24-85 (113)
63 TIGR02034 CysN sulfate adenyly 89.3 1 2.2E-05 39.6 6.0 60 45-117 238-297 (406)
64 COG5258 GTPBP1 GTPase [General 88.5 2 4.3E-05 39.7 7.4 79 25-114 349-431 (527)
65 cd03700 eEF2_snRNP_like_II EF2 88.2 5 0.00011 27.9 7.8 30 32-61 8-38 (93)
66 CHL00189 infB translation init 88.1 6 0.00013 38.2 10.7 100 7-120 628-734 (742)
67 TIGR00484 EF-G translation elo 87.3 4.6 0.0001 37.9 9.3 82 25-117 308-389 (689)
68 PRK05124 cysN sulfate adenylyl 86.7 1.4 3.1E-05 39.7 5.5 61 44-117 265-325 (474)
69 PRK12739 elongation factor G; 85.5 6.3 0.00014 37.1 9.2 82 25-117 307-388 (691)
70 PRK05506 bifunctional sulfate 85.3 2.2 4.8E-05 39.5 6.0 61 44-117 261-321 (632)
71 COG3276 SelB Selenocysteine-sp 84.7 3.6 7.9E-05 37.7 7.0 47 26-74 173-219 (447)
72 PRK00007 elongation factor G; 83.9 6.7 0.00014 37.0 8.6 82 25-117 310-391 (693)
73 COG5256 TEF1 Translation elong 81.4 12 0.00026 34.3 8.9 51 24-76 231-281 (428)
74 PF01472 PUA: PUA domain; Int 78.6 2.9 6.2E-05 28.3 3.2 40 44-83 24-63 (74)
75 PF14453 ThiS-like: ThiS-like 75.2 2.2 4.7E-05 28.7 1.8 22 38-59 25-53 (57)
76 COG0480 FusA Translation elong 75.0 23 0.0005 34.1 9.2 84 25-119 308-391 (697)
77 KOG0462|consensus 73.8 13 0.00027 35.7 7.0 53 25-77 245-297 (650)
78 PRK09937 stationary phase/star 68.9 19 0.00041 24.9 5.4 48 26-73 3-67 (74)
79 KOG0460|consensus 65.5 6.9 0.00015 35.7 3.3 48 27-74 257-304 (449)
80 COG0481 LepA Membrane GTPase L 64.1 61 0.0013 30.9 9.2 55 25-79 196-250 (603)
81 cd06555 ASCH_PF0470_like ASC-1 63.3 15 0.00032 27.5 4.2 54 40-105 18-76 (109)
82 PF02080 TrkA_C: TrkA-C domain 61.7 6.6 0.00014 25.2 1.9 55 75-131 13-69 (71)
83 PRK10354 RNA chaperone/anti-te 61.2 36 0.00077 23.0 5.5 48 25-72 5-69 (70)
84 TIGR03802 Asp_Ala_antiprt aspa 59.2 19 0.0004 33.4 5.1 21 111-131 355-375 (562)
85 PRK09890 cold shock protein Cs 57.0 58 0.0013 22.0 6.2 48 26-73 6-70 (70)
86 PRK09507 cspE cold shock prote 56.8 56 0.0012 22.0 5.9 48 25-72 4-68 (69)
87 PF10844 DUF2577: Protein of u 55.5 24 0.00053 25.4 4.2 35 30-64 56-90 (100)
88 cd04714 BAH_BAHCC1 BAH, or Bro 55.0 17 0.00038 26.8 3.4 29 48-76 1-32 (121)
89 TIGR02381 cspD cold shock doma 53.4 63 0.0014 21.6 5.7 48 26-73 3-67 (68)
90 PRK03818 putative transporter; 51.8 32 0.0007 31.8 5.3 84 47-132 248-359 (552)
91 COG0050 TufB GTPases - transla 50.7 36 0.00079 30.7 5.2 46 25-70 211-256 (394)
92 PRK14998 cold shock-like prote 50.2 65 0.0014 22.1 5.5 48 26-73 3-67 (73)
93 COG1217 TypA Predicted membran 49.8 58 0.0013 31.0 6.6 82 25-117 207-289 (603)
94 cd04713 BAH_plant_3 BAH, or Br 47.1 42 0.0009 25.7 4.5 35 41-75 10-47 (146)
95 COG2895 CysN GTPases - Sulfate 45.8 43 0.00093 30.7 5.0 45 46-103 245-289 (431)
96 PF08544 GHMP_kinases_C: GHMP 45.8 31 0.00067 22.6 3.2 34 97-135 48-82 (85)
97 PF09866 DUF2093: Uncharacteri 44.9 15 0.00033 23.5 1.5 22 51-83 2-23 (42)
98 cd04719 BAH_Orc1p_animal BAH, 44.8 21 0.00046 27.2 2.6 28 49-76 2-31 (128)
99 PRK10943 cold shock-like prote 44.3 52 0.0011 22.2 4.2 48 25-72 4-68 (69)
100 PRK00741 prfC peptide chain re 44.0 2.2E+02 0.0048 26.3 9.4 82 25-117 293-377 (526)
101 PRK06789 flagellar motor switc 41.9 29 0.00063 24.4 2.7 44 25-70 29-72 (74)
102 cd04715 BAH_Orc1p_like BAH, or 40.6 78 0.0017 24.9 5.2 36 41-76 19-56 (159)
103 PRK15464 cold shock-like prote 40.0 75 0.0016 21.7 4.5 47 25-71 5-68 (70)
104 PRK00364 groES co-chaperonin G 39.7 60 0.0013 23.3 4.1 15 50-64 58-72 (95)
105 PRK14578 elongation factor P; 37.7 82 0.0018 25.6 5.1 63 7-69 99-186 (187)
106 COG4025 Predicted membrane pro 37.6 92 0.002 27.1 5.5 63 25-105 215-280 (284)
107 TIGR00503 prfC peptide chain r 37.0 3E+02 0.0065 25.4 9.2 82 25-117 294-378 (527)
108 PRK14533 groES co-chaperonin G 36.7 62 0.0013 23.3 3.8 32 25-64 36-67 (91)
109 PRK05933 type III secretion sy 36.3 38 0.00083 30.5 3.2 43 25-69 328-371 (372)
110 PLN00116 translation elongatio 35.9 2.1E+02 0.0046 27.9 8.3 36 26-61 377-413 (843)
111 PF08776 VASP_tetra: VASP tetr 35.3 36 0.00079 21.6 2.1 20 123-142 3-22 (40)
112 COG5257 GCD11 Translation init 34.9 38 0.00083 30.8 3.0 62 25-97 212-291 (415)
113 PF07831 PYNP_C: Pyrimidine nu 34.8 53 0.0011 22.6 3.1 44 90-133 24-69 (75)
114 cd04717 BAH_polybromo BAH, or 34.6 57 0.0012 23.7 3.4 28 49-76 2-32 (121)
115 PF09378 HAS-barrel: HAS barre 34.2 84 0.0018 21.0 4.0 26 50-75 22-48 (91)
116 PF00181 Ribosomal_L2: Ribosom 34.1 1.2E+02 0.0025 20.9 4.8 27 25-51 33-60 (77)
117 COG0490 Putative regulatory, l 34.0 51 0.0011 26.5 3.3 33 99-131 123-156 (162)
118 cd02394 vigilin_like_KH K homo 33.6 29 0.00063 21.9 1.5 43 87-131 18-60 (62)
119 PRK04542 elongation factor P; 32.7 1.4E+02 0.003 24.3 5.7 64 7-70 99-188 (189)
120 PF03473 MOSC: MOSC domain; I 32.4 64 0.0014 23.3 3.4 21 38-59 113-133 (133)
121 TIGR00739 yajC preprotein tran 32.0 51 0.0011 23.3 2.7 22 50-74 37-58 (84)
122 TIGR01564 S_layer_MJ S-layer p 30.8 31 0.00067 32.8 1.8 28 46-76 267-294 (571)
123 PF13533 Biotin_lipoyl_2: Biot 30.5 1E+02 0.0022 19.2 3.7 16 108-123 22-37 (50)
124 PRK15452 putative protease; Pr 30.3 3.7E+02 0.008 24.5 8.5 47 25-75 361-407 (443)
125 COG2016 Predicted RNA-binding 30.1 94 0.002 25.0 4.2 46 45-93 101-147 (161)
126 PRK04972 putative transporter; 29.6 1.2E+02 0.0027 28.1 5.5 101 31-132 235-371 (558)
127 cd05792 S1_eIF1AD_like S1_eIF1 29.6 47 0.001 23.5 2.2 35 51-85 39-75 (78)
128 PRK06531 yajC preprotein trans 29.0 56 0.0012 24.6 2.6 22 50-74 36-57 (113)
129 PF01954 DUF104: Protein of un 28.3 43 0.00094 22.5 1.7 34 38-76 1-34 (60)
130 smart00652 eIF1a eukaryotic tr 28.3 56 0.0012 23.1 2.4 36 51-86 44-80 (83)
131 cd04370 BAH BAH, or Bromo Adja 27.8 83 0.0018 21.6 3.2 27 50-76 3-34 (123)
132 TIGR00999 8a0102 Membrane Fusi 27.4 56 0.0012 25.9 2.5 20 43-63 243-262 (265)
133 PRK04163 exosome complex RNA-b 27.1 2.3E+02 0.005 23.3 6.1 94 15-132 108-203 (235)
134 KOG4435|consensus 26.3 42 0.0009 31.3 1.7 66 55-137 118-184 (535)
135 PRK05886 yajC preprotein trans 25.8 73 0.0016 23.9 2.7 22 50-74 38-59 (109)
136 smart00439 BAH Bromo adjacent 25.7 77 0.0017 22.0 2.7 28 50-77 1-31 (120)
137 cd04482 RPA2_OBF_like RPA2_OBF 25.6 1.7E+02 0.0037 20.5 4.5 32 28-62 19-59 (91)
138 COG3264 Small-conductance mech 25.4 45 0.00098 33.1 1.9 27 44-71 654-680 (835)
139 COG1886 FliN Flagellar motor s 25.1 66 0.0014 24.5 2.4 43 25-69 93-135 (136)
140 TIGR00149 TIGR00149_YbjQ secon 25.0 1.2E+02 0.0025 23.3 3.7 32 38-69 91-124 (132)
141 cd04456 S1_IF1A_like S1_IF1A_l 24.3 67 0.0015 22.4 2.2 35 51-85 39-75 (78)
142 PTZ00328 eukaryotic initiation 23.9 78 0.0017 25.6 2.7 40 37-80 14-53 (166)
143 PF12869 tRNA_anti-like: tRNA_ 23.4 1.5E+02 0.0033 21.5 4.0 37 25-61 72-127 (144)
144 cd02775 MopB_CT Molybdopterin- 23.3 91 0.002 20.8 2.6 21 51-71 37-57 (101)
145 PTZ00414 10 kDa heat shock pro 23.1 85 0.0019 23.2 2.6 20 49-71 61-80 (100)
146 PRK13631 cbiO cobalt transport 22.9 1.5E+02 0.0032 25.2 4.4 55 12-66 3-64 (320)
147 KOG0463|consensus 22.5 1.7E+02 0.0038 27.5 4.9 96 13-108 354-458 (641)
148 smart00359 PUA Putative RNA-bi 22.4 1.4E+02 0.0031 19.1 3.4 28 44-71 24-51 (77)
149 PF12124 Nsp3_PL2pro: Coronavi 22.3 61 0.0013 22.2 1.6 21 50-70 31-51 (66)
150 cd02792 MopB_CT_Formate-Dh-Na- 22.2 95 0.0021 21.8 2.7 21 51-71 49-69 (122)
151 TIGR00451 unchar_dom_2 unchara 22.1 2.2E+02 0.0047 20.2 4.6 37 45-84 55-92 (107)
152 cd02786 MopB_CT_3 The MopB_CT_ 22.1 91 0.002 21.8 2.5 21 51-71 45-65 (116)
153 cd02787 MopB_CT_ydeP The MopB_ 22.0 82 0.0018 22.1 2.3 21 51-71 45-65 (112)
154 cd04488 RecG_wedge_OBF RecG_we 21.8 2.1E+02 0.0045 17.6 4.9 24 26-49 3-27 (75)
155 PF01426 BAH: BAH domain; Int 21.8 1.3E+02 0.0027 20.9 3.2 27 50-76 2-31 (119)
156 cd02790 MopB_CT_Formate-Dh_H F 21.7 87 0.0019 21.7 2.4 21 51-71 49-69 (116)
157 cd02779 MopB_CT_Arsenite-Ox Th 21.0 91 0.002 22.1 2.4 21 51-71 47-67 (115)
158 PTZ00416 elongation factor 2; 20.9 5.3E+02 0.012 25.2 8.2 34 27-60 374-408 (836)
159 TIGR00300 conserved hypothetic 20.6 1.8E+02 0.0039 26.7 4.6 12 49-60 139-150 (407)
160 cd02781 MopB_CT_Acetylene-hydr 20.6 1.1E+02 0.0023 21.9 2.7 20 51-70 47-66 (130)
161 PF12857 TOBE_3: TOBE-like dom 20.6 1.5E+02 0.0032 19.0 3.1 31 28-59 21-55 (58)
162 PRK03926 mevalonate kinase; Pr 20.6 1.6E+02 0.0035 24.2 4.1 34 96-134 248-281 (302)
163 PF01568 Molydop_binding: Moly 20.5 88 0.0019 21.5 2.2 20 51-70 44-63 (110)
164 PF00924 MS_channel: Mechanose 20.4 19 0.00042 27.6 -1.3 20 45-64 55-74 (206)
165 COG1792 MreC Cell shape-determ 20.3 1.6E+02 0.0035 25.1 4.1 34 43-76 205-243 (284)
166 PRK09496 trkA potassium transp 20.2 40 0.00086 29.0 0.4 29 50-78 424-452 (453)
167 PRK01123 shikimate kinase; Pro 20.0 1.6E+02 0.0034 24.5 3.9 32 96-134 234-265 (282)
No 1
>KOG1144|consensus
Probab=100.00 E-value=1.1e-47 Score=355.70 Aligned_cols=142 Identities=53% Similarity=0.787 Sum_probs=139.7
Q ss_pred hhhHHHHHHHHHHhhcCccCcceEEEEEEeeeCCcceEEEEEEEccEEcCCCEEEEccCCCceeeeeeeccCCCcchhhc
Q psy9896 4 AMREIQYCQTFLKKRLMFKNELQATVLEVKAIPGLGTTIDTILVNGTLYEGDTVVLAGTDGPIVTQIRSLLMPQPMQELR 83 (145)
Q Consensus 4 ~~~l~gl~Q~~m~~~L~~~~~~~gtVLEvK~~kGlG~tidvIl~~G~L~~GD~Iv~~~~~Gpi~tkIRaLl~p~Pl~E~R 83 (145)
+.+|+.|||++|.+||+|.++++|||||||..+|+|+||||||+||+||.||+||+||++|||+|.||+||+|+||+|||
T Consensus 679 l~llv~ltQk~m~~kl~y~~ev~cTVlEVKvieG~GtTIDViLvNG~L~eGD~IvvcG~~GpIvTtIRaLLtP~PlkElR 758 (1064)
T KOG1144|consen 679 LLLLVQLTQKTMVEKLAYVDEVQCTVLEVKVIEGHGTTIDVILVNGELHEGDQIVVCGLQGPIVTTIRALLTPQPLKELR 758 (1064)
T ss_pred HHHHHHHHHHHHHHHHhhhhheeeEEEEEEeecCCCceEEEEEEcceeccCCEEEEcCCCCchhHHHHHhcCCcchHhhc
Confidence 56899999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ccccceeeceeecCcCeEEecCCCCcccCCCeEEEecCcccHHHHHHHHHHHHHHHhhhccC
Q psy9896 84 VKNAYVEYKKIKGTQGVKIAAKDLEKTIAGLNLRVAKDQDEIDDLCDEVARELKSALSTIKL 145 (145)
Q Consensus 84 ~k~~~~~~~~v~aa~gVkI~a~~Le~~~AGs~l~vv~~~~e~e~~~~ev~~e~~~~~~~i~~ 145 (145)
+++.|.||++++||+||||.|.|||+++||++|+|+.++||++.+++++|++++++|++|++
T Consensus 759 Vk~~Y~hhkEvkaA~GiKI~A~~LEkaiaG~~l~VvgpeDd~e~lk~~~m~dl~~~l~~Id~ 820 (1064)
T KOG1144|consen 759 VKGTYVHHKEVKAAQGIKIAAKDLEKAIAGTRLLVVGPEDDIEELKEEAMEDLESVLSRIDK 820 (1064)
T ss_pred cccceeehhHhhhhccchhhhcchHHHhcCCeeEEeCCcccHHHHHHHHHHHHHHHHHHhhc
Confidence 99999999999999999999999999999999999999999999999999999999999975
No 2
>cd03703 aeIF5B_II aeIF5B_II: This family represents the domain II of archeal and eukaryotic aeIF5B. aeIF5B is a homologue of prokaryotic Initiation Factor 2 (IF2). Disruption of the eIF5B gene (FUN12) in yeast causes a severe slow-growth phenotype, associated with a defect in translation. eIF5B has a function analogous to prokaryotic IF2 in mediating the joining of joining of 60S subunits. The eIF5B consists of three N-terminal domains (I, II, II) connected by a long helix to domain IV. Domain I is a G domain, domain II and IV are beta-barrels and domain III has a novel alpha-beta-alpha sandwich fold. The G domain and the beta-barrel domain II display a similar structure and arrangement to the homologous domains of EF1A, eEF1A and aeIF2gamma.
Probab=100.00 E-value=7.1e-46 Score=276.60 Aligned_cols=110 Identities=58% Similarity=0.873 Sum_probs=107.2
Q ss_pred ceEEEEEEeeeCCcceEEEEEEEccEEcCCCEEEEccCCCceeeeeeeccCCCcchhhcccccceeeceeecCcCeEEec
Q psy9896 25 LQATVLEVKAIPGLGTTIDTILVNGTLYEGDTVVLAGTDGPIVTQIRSLLMPQPMQELRVKNAYVEYKKIKGTQGVKIAA 104 (145)
Q Consensus 25 ~~gtVLEvK~~kGlG~tidvIl~~G~L~~GD~Iv~~~~~Gpi~tkIRaLl~p~Pl~E~R~k~~~~~~~~v~aa~gVkI~a 104 (145)
++|||||+|.++|+|+|+|+|||||+||+||+|++|+++|||+||||+||+|+|++|||++++|++++++.||+||+|+|
T Consensus 1 ~~gtVlEvk~~~G~G~t~dvIl~~GtL~~GD~Iv~g~~~Gpi~tkVRaLl~~~~~~E~r~~~~~~~vk~v~aa~gvkI~~ 80 (110)
T cd03703 1 LQGTVLEVKEEEGLGTTIDVILYDGTLREGDTIVVCGLNGPIVTKVRALLKPQPLKELRVKSRFIHVKEVKAAAGVKILA 80 (110)
T ss_pred CcEEEEEEEEcCCCceEEEEEEECCeEecCCEEEEccCCCCceEEEeEecCCCCchhhccccccceeeEEecCCCcEEEe
Confidence 47999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCcccCCCeEEEecCcccHHHHHHHHHH
Q psy9896 105 KDLEKTIAGLNLRVAKDQDEIDDLCDEVAR 134 (145)
Q Consensus 105 ~~Le~~~AGs~l~vv~~~~e~e~~~~ev~~ 134 (145)
+||++++|||+|+|++|+++++++++|+++
T Consensus 81 ~gL~~v~aG~~~~vv~~e~~a~~~~~~~~~ 110 (110)
T cd03703 81 PDLEKAIAGSPLLVVGPEDEIEELKEEVME 110 (110)
T ss_pred CCCccccCCCEEEEECCHHHHHHHHHHHhC
Confidence 999999999999999999999999998763
No 3
>PRK14845 translation initiation factor IF-2; Provisional
Probab=100.00 E-value=9.9e-33 Score=263.59 Aligned_cols=136 Identities=40% Similarity=0.653 Sum_probs=128.4
Q ss_pred hhhHHHHHHHHHHhhcCccCc--ceEEEEEEeeeCCcceEEEEEEEccEEcCCCEEEEccCCCceeeeeeeccCCCcchh
Q psy9896 4 AMREIQYCQTFLKKRLMFKNE--LQATVLEVKAIPGLGTTIDTILVNGTLYEGDTVVLAGTDGPIVTQIRSLLMPQPMQE 81 (145)
Q Consensus 4 ~~~l~gl~Q~~m~~~L~~~~~--~~gtVLEvK~~kGlG~tidvIl~~G~L~~GD~Iv~~~~~Gpi~tkIRaLl~p~Pl~E 81 (145)
+++|.+++|+||.++|..+.+ ++|+|+|++.++|+|+|+|+++++|+||+||+|++|+.+||++||||+|++|+||+|
T Consensus 665 l~~l~~l~~~~l~~~L~~~~~~~~~g~VlEv~~~kG~G~vvt~iv~~G~Lk~GD~iv~g~~~~~i~~kVRaLl~p~pl~e 744 (1049)
T PRK14845 665 LMMVAGLAQKYLEERLKLNVEGYAKGTILEVKEEKGLGTTIDAIIYDGTLRRGDTIVVGGPDDVIVTKVRALLKPKPLDE 744 (1049)
T ss_pred HHHHHHhhHHhhhhhhccCCCCceEEEEEEEEEecCceeEEEEEEEcCEEecCCEEEEccCCCcceEEEEEecCcccccc
Confidence 467889999999999987554 799999999999999999999999999999999999999999999999999999999
Q ss_pred hccc-ccceeeceeecCcCeEEecCCCCcccCCCeEEEecCcccHHHHHHHHHHHHHHH
Q psy9896 82 LRVK-NAYVEYKKIKGTQGVKIAAKDLEKTIAGLNLRVAKDQDEIDDLCDEVARELKSA 139 (145)
Q Consensus 82 ~R~k-~~~~~~~~v~aa~gVkI~a~~Le~~~AGs~l~vv~~~~e~e~~~~ev~~e~~~~ 139 (145)
||++ ++|++++++.||+||+|+|+||++++||++|+|++++++++++++++++|++++
T Consensus 745 ~r~~~~~~~~~~~~~~a~~vki~a~gl~~~~aG~~~~v~~~e~~~~~~~~~~~~~~~~~ 803 (1049)
T PRK14845 745 IRDPRDKFDPVDEVTAAAGVKIAAPGLEEVLAGSPIRIVPTKEKIEKAKEEVMKEVEEA 803 (1049)
T ss_pred cccccccccccccccCCCceEEecCCccccCCCCeEEEeCCHHHHHHHHHHHHHHHhhh
Confidence 9954 599999999999999999999999999999999999999999999999998765
No 4
>TIGR00491 aIF-2 translation initiation factor aIF-2/yIF-2. This model describes archaeal and eukaryotic orthologs of bacterial IF-2. Like IF-2, it helps convey the initiator tRNA to the ribosome, although the initiator is N-formyl-Met in bacteria and Met here. This protein is not closely related to the subunits of eIF-2 of eukaryotes, which is also involved in the initiation of translation. The aIF-2 of Methanococcus jannaschii contains a large intein interrupting a region of very strongly conserved sequence very near the amino end; this model does not correctly align the sequences from Methanococcus jannaschii and Pyrococcus horikoshii in this region.
Probab=99.97 E-value=1.4e-30 Score=236.77 Aligned_cols=135 Identities=35% Similarity=0.629 Sum_probs=123.3
Q ss_pred hhhHHHHHHHHHHhhcCccC--cceEEEEEEeeeCCcceEEEEEEEccEEcCCCEEEEccCCCceeeeeeeccCCCcchh
Q psy9896 4 AMREIQYCQTFLKKRLMFKN--ELQATVLEVKAIPGLGTTIDTILVNGTLYEGDTVVLAGTDGPIVTQIRSLLMPQPMQE 81 (145)
Q Consensus 4 ~~~l~gl~Q~~m~~~L~~~~--~~~gtVLEvK~~kGlG~tidvIl~~G~L~~GD~Iv~~~~~Gpi~tkIRaLl~p~Pl~E 81 (145)
+..|.+|+|+||.++|..+. .++|+|+|++.++|+|+++|+++++|+||+||+|++|+.+|||+||||+|++|+||+|
T Consensus 208 l~~l~~l~~~~l~~~l~~~~~~~~~~~V~e~~~~~G~G~v~t~~v~~G~l~~GD~iv~~~~~~~i~~kVr~l~~~~~l~e 287 (590)
T TIGR00491 208 LTMLAGLAQQYLEEQLKLEEEGPARGTILEVKEETGLGMTIDAVIYDGILRKGDTIAMAGSDDVIVTRVRALLKPRPLEE 287 (590)
T ss_pred HHHHHHHHHHHhhhhhccCCCCCeEEEEEEEEEcCCCceEEEEEEEcCEEeCCCEEEEccCCCcccEEEEEecCCCcccc
Confidence 34678899999999998754 4899999999999999999999999999999999999999999999999999999999
Q ss_pred hccc-ccceeeceeecCcCeEEecCCCCcccCCCeEEEecCcccHHHHHHHHHHHHHHH
Q psy9896 82 LRVK-NAYVEYKKIKGTQGVKIAAKDLEKTIAGLNLRVAKDQDEIDDLCDEVARELKSA 139 (145)
Q Consensus 82 ~R~k-~~~~~~~~v~aa~gVkI~a~~Le~~~AGs~l~vv~~~~e~e~~~~ev~~e~~~~ 139 (145)
||++ ++|++++++.||+|++|.++||+++.||++|+++ ++++++++++++++|.+++
T Consensus 288 ~r~~~~~~~~~~~~~~~~~~~v~~~~l~~~~aG~~~~~~-~~e~~~~~~~~~~~~~~~~ 345 (590)
T TIGR00491 288 MRESRKKFQKVDEVVAAAGVKIAAPGLDDVMAGSPIRVV-TDEEIEKVKEEILKEVEEI 345 (590)
T ss_pred ccccccccCCcceecCCCceeEEecCCCCCCCCCEEEEc-CcHHHHHHHHHHHHHhhhc
Confidence 9964 5799999999999999999999999999999877 5567888999999887643
No 5
>PRK04004 translation initiation factor IF-2; Validated
Probab=99.95 E-value=4.5e-28 Score=219.75 Aligned_cols=134 Identities=44% Similarity=0.733 Sum_probs=124.1
Q ss_pred hhHHHHHHHHHHhhcCccCc--ceEEEEEEeeeCCcceEEEEEEEccEEcCCCEEEEccCCCceeeeeeeccCCCcchhh
Q psy9896 5 MREIQYCQTFLKKRLMFKNE--LQATVLEVKAIPGLGTTIDTILVNGTLYEGDTVVLAGTDGPIVTQIRSLLMPQPMQEL 82 (145)
Q Consensus 5 ~~l~gl~Q~~m~~~L~~~~~--~~gtVLEvK~~kGlG~tidvIl~~G~L~~GD~Iv~~~~~Gpi~tkIRaLl~p~Pl~E~ 82 (145)
..+.+++|.||.+.|..+.+ ++|+|+|++.++|+|+++++++++|+||+||+|++|+.+||++||||+|++|+||+||
T Consensus 211 ~~i~~~~~~~l~~~l~~~~~~~~~~~V~ev~~~~g~G~v~~~~v~~GtL~~Gd~vv~~~~~~~i~~kVr~l~~~~~~~e~ 290 (586)
T PRK04004 211 MVLAGLAQRYLEERLKIDVEGPGKGTVLEVKEERGLGTTIDVILYDGTLRKGDTIVVGGKDGPIVTKVRALLKPRPLDEM 290 (586)
T ss_pred HHHHHHHHHHHHHhhccCCCCCeEEEEEEEEEeCCCceEEEEEEEcCEEECCCEEEECcCCCcceEEEEEEecCcchhhc
Confidence 34668899999998887543 7999999999999999999999999999999999999999999999999999999999
Q ss_pred c-ccccceeeceeecCcCeEEecCCCCcccCCCeEEEecCcccHHHHHHHHHHHHHHH
Q psy9896 83 R-VKNAYVEYKKIKGTQGVKIAAKDLEKTIAGLNLRVAKDQDEIDDLCDEVARELKSA 139 (145)
Q Consensus 83 R-~k~~~~~~~~v~aa~gVkI~a~~Le~~~AGs~l~vv~~~~e~e~~~~ev~~e~~~~ 139 (145)
| +++.|++++++.||+||+|.++||+++.||++|+|+++ ++++++++++++|++++
T Consensus 291 ~~~~~~~~~~~~~~~~~~v~i~~~gl~~~~~g~~~~v~~~-~~~~~~~~~~~~~~~~~ 347 (586)
T PRK04004 291 RDPEDKFKPVDEVVAAAGVKISAPDLEDALAGSPLRVVRD-EDVEEVKEEVEEEIEEI 347 (586)
T ss_pred cccccccccccccCCCCceEEEeCCccccCCCCeEEEeCc-HHHHHHHHHHHHHHHhc
Confidence 9 88899999999999999999999999999999999987 67888888998887654
No 6
>cd03702 IF2_mtIF2_II This family represents the domain II of bacterial Initiation Factor 2 (IF2) and its eukaryotic mitochondrial homologue mtIF2. IF2, the largest initiation factor is an essential GTP binding protein. In E. coli three natural forms of IF2 exist in the cell, IF2alpha, IF2beta1, and IF2beta2. Bacterial IF-2 is structurally and functionally related to eukaryotic mitochondrial mtIF-2.
Probab=99.91 E-value=5.3e-24 Score=154.46 Aligned_cols=91 Identities=25% Similarity=0.340 Sum_probs=83.3
Q ss_pred ceEEEEEEeeeCCcceEEEEEEEccEEcCCCEEEEccCCCceeeeeeeccCCCcchhhcccccceeeceeecCcCeEEec
Q psy9896 25 LQATVLEVKAIPGLGTTIDTILVNGTLYEGDTVVLAGTDGPIVTQIRSLLMPQPMQELRVKNAYVEYKKIKGTQGVKIAA 104 (145)
Q Consensus 25 ~~gtVLEvK~~kGlG~tidvIl~~G~L~~GD~Iv~~~~~Gpi~tkIRaLl~p~Pl~E~R~k~~~~~~~~v~aa~gVkI~a 104 (145)
++|+|||++.++|+|+++|+|+++|||++||+|++|+.+| |||+|+++ ..++++++.||+||+|+
T Consensus 1 a~g~VlE~~~~~g~G~vatviV~~GtL~~Gd~iv~G~~~g----kVr~l~d~----------~g~~v~~a~Ps~~V~I~- 65 (95)
T cd03702 1 AEGVVIESKLDKGRGPVATVLVQNGTLKVGDVLVAGTTYG----KVRAMFDE----------NGKRVKEAGPSTPVEIL- 65 (95)
T ss_pred CeEEEEEEEecCCCCccEEEEEEcCeEeCCCEEEEccccc----EEEEEECC----------CCCCCCEECCCCcEEEc-
Confidence 5799999999999999999999999999999999988876 99999987 46999999999999998
Q ss_pred CCCCcc-cCCCeEEEecCcccHHHHHHH
Q psy9896 105 KDLEKT-IAGLNLRVAKDQDEIDDLCDE 131 (145)
Q Consensus 105 ~~Le~~-~AGs~l~vv~~~~e~e~~~~e 131 (145)
||+++ .||++|+++.|+++++++.+.
T Consensus 66 -G~~~~P~aGd~~~~~~se~~Ak~~~~~ 92 (95)
T cd03702 66 -GLKGVPQAGDKFLVVESEKEAKEIAEY 92 (95)
T ss_pred -CCCCCCCCCCEEEEeCCHHHHHHHHHH
Confidence 56888 999999999998888777654
No 7
>COG0532 InfB Translation initiation factor 2 (IF-2; GTPase) [Translation, ribosomal structure and biogenesis]
Probab=99.91 E-value=2.4e-24 Score=193.74 Aligned_cols=136 Identities=24% Similarity=0.251 Sum_probs=123.8
Q ss_pred cchhhHHHHHHHHHHhhcCccCc--ceEEEEEEeeeCCcceEEEEEEEccEEcCCCEEEEccCCCceeeeeeeccCCCcc
Q psy9896 2 ESAMREIQYCQTFLKKRLMFKNE--LQATVLEVKAIPGLGTTIDTILVNGTLYEGDTVVLAGTDGPIVTQIRSLLMPQPM 79 (145)
Q Consensus 2 ~~~~~l~gl~Q~~m~~~L~~~~~--~~gtVLEvK~~kGlG~tidvIl~~G~L~~GD~Iv~~~~~Gpi~tkIRaLl~p~Pl 79 (145)
|-++++.++||.| +|.++.+ ++|||||+|+++|+|+++|+|+||||||+||+||+|+.+||+.|.+++++.|.|+
T Consensus 160 eLL~~ill~aev~---elka~~~~~a~gtviE~~~dkG~G~vatviv~~GtL~~GD~iv~g~~~g~I~t~v~~~~~~i~~ 236 (509)
T COG0532 160 ELLELILLLAEVL---ELKANPEGPARGTVIEVKLDKGLGPVATVIVQDGTLKKGDIIVAGGEYGRVRTMVDDLGKPIKE 236 (509)
T ss_pred HHHHHHHHHHHHH---hhhcCCCCcceEEEEEEEeccCCCceEEEEEecCeEecCCEEEEccCCCceEEeehhcCCCccc
Confidence 3578899999999 7777654 8999999999999999999999999999999999999999999999999999999
Q ss_pred hhhcccccceeeceeecCcCeEEecCCCCcccCCCeEEEec--CcccHHHHHHHHHHHHHHHh
Q psy9896 80 QELRVKNAYVEYKKIKGTQGVKIAAKDLEKTIAGLNLRVAK--DQDEIDDLCDEVARELKSAL 140 (145)
Q Consensus 80 ~E~R~k~~~~~~~~v~aa~gVkI~a~~Le~~~AGs~l~vv~--~~~e~e~~~~ev~~e~~~~~ 140 (145)
.++|...++..++++.+|.+++++++|++.|.+|+++++.. +++..+..+.+++++++.+.
T Consensus 237 a~ps~~v~i~g~~evp~Ag~~~~v~~~e~~A~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~ 299 (509)
T COG0532 237 AGPSKPVEILGLSEVPAAGDVFIVVKDEKKARAIAELRVVLLREAELASKKKGELEELIAEIK 299 (509)
T ss_pred cCCCCCeEEeccccccccCceEEecCChHHHhhhhhHhhhhhhhhhhhhHHHHHHHHHHHhhh
Confidence 99999999999999999999999999999999999999886 44545677778887777664
No 8
>cd03701 IF2_IF5B_II IF2_IF5B_II: This family represents the domain II of prokaryotic Initiation Factor 2 (IF2) and its archeal and eukaryotic homologue aeIF5B. IF2, the largest initiation factor is an essential GTP binding protein. In E. coli three natural forms of IF2 exist in the cell, IF2alpha, IF2beta1, and IF2beta2. Disruption of the eIF5B gene (FUN12) in yeast causes a severe slow-growth phenotype, associated with a defect in translation. eIF5B has a function analogous to prokaryotic IF2 in mediating the joining of the 60S ribosomal subunit. The eIF5B consists of three N-terminal domains (I, II, II) connected by a long helix to domain IV. Domain I is a G domain, domain II and IV are beta-barrels and domain III has a novel alpha-beta-alpha sandwich fold. The G domain and the beta-barrel domain II display a similar structure and arrangement to the homologous domains in EF1A, eEF1A and aeIF2gamma.
Probab=99.88 E-value=2.6e-22 Score=144.79 Aligned_cols=92 Identities=27% Similarity=0.340 Sum_probs=82.1
Q ss_pred ceEEEEEEeeeCCcceEEEEEEEccEEcCCCEEEEccCCCceeeeeeeccCCCcchhhcccccceeeceeecCcCeEEec
Q psy9896 25 LQATVLEVKAIPGLGTTIDTILVNGTLYEGDTVVLAGTDGPIVTQIRSLLMPQPMQELRVKNAYVEYKKIKGTQGVKIAA 104 (145)
Q Consensus 25 ~~gtVLEvK~~kGlG~tidvIl~~G~L~~GD~Iv~~~~~Gpi~tkIRaLl~p~Pl~E~R~k~~~~~~~~v~aa~gVkI~a 104 (145)
++|+|||++.++|+|+++|+|++|||||+||+|++|+.+| |||+|++. ..+.++++.|+++|.|.|
T Consensus 1 a~g~ViE~~~~~g~G~vatviV~~GtL~~Gd~iv~G~~~G----kVr~~~d~----------~g~~v~~a~Ps~~v~i~g 66 (95)
T cd03701 1 AEGTVIESKLDKGRGPVATVIVQNGTLKKGDVIVAGGTYG----KIRTMVDE----------NGKALLEAGPSTPVEILG 66 (95)
T ss_pred CeEEEEEEEecCCCCeeEEEEEEcCeEecCCEEEECCccc----eEEEEECC----------CCCCccccCCCCCEEEee
Confidence 4799999999999999999999999999999999988875 99999975 689999999999999997
Q ss_pred CCCCcccCCCeEEEecCcccHHHHHHH
Q psy9896 105 KDLEKTIAGLNLRVAKDQDEIDDLCDE 131 (145)
Q Consensus 105 ~~Le~~~AGs~l~vv~~~~e~e~~~~e 131 (145)
.+ +.+.||+.|+++.++.++..+.+.
T Consensus 67 ~~-~~p~aGd~~~~~~~e~~a~~~~~~ 92 (95)
T cd03701 67 LK-DVPKAGDGVLVVASEKEAKEIGSY 92 (95)
T ss_pred ec-CCccCCCEEEEeCCCHHHHHhhHh
Confidence 53 444999999999998887766544
No 9
>TIGR00487 IF-2 translation initiation factor IF-2. This model discriminates eubacterial (and mitochondrial) translation initiation factor 2 (IF-2), encoded by the infB gene in bacteria, from similar proteins in the Archaea and Eukaryotes. In the bacteria and in organelles, the initiator tRNA is charged with N-formyl-Met instead of Met. This translation factor acts in delivering the initator tRNA to the ribosome. It is one of a number of GTP-binding translation factors recognized by the pfam model GTP_EFTU.
Probab=99.64 E-value=2.8e-15 Score=136.73 Aligned_cols=98 Identities=22% Similarity=0.290 Sum_probs=85.0
Q ss_pred ccCcceEEEEEEeeeCCcceEEEEEEEccEEcCCCEEEEccCCCceeeeeeeccCCCcchhhcccccceeeceeecCcCe
Q psy9896 21 FKNELQATVLEVKAIPGLGTTIDTILVNGTLYEGDTVVLAGTDGPIVTQIRSLLMPQPMQELRVKNAYVEYKKIKGTQGV 100 (145)
Q Consensus 21 ~~~~~~gtVLEvK~~kGlG~tidvIl~~G~L~~GD~Iv~~~~~Gpi~tkIRaLl~p~Pl~E~R~k~~~~~~~~v~aa~gV 100 (145)
.+..++|+|+|++.++|.|+++++++++|+|++||+|+++ |.++|||+|+++ +++.++++.|+.+|
T Consensus 258 ~~~~~~~~V~ev~~~~g~G~v~~~~V~~GtL~~Gd~iv~~----~~~~kVr~l~~~----------~g~~v~~a~~g~~v 323 (587)
T TIGR00487 258 PNGQASGVVIEAQLDKGRGPVATVLVQSGTLRVGDIVVVG----AAYGRVRAMIDE----------NGKSVKEAGPSKPV 323 (587)
T ss_pred CCCCceeEEEEEEEeCCCcEEEEEEEEeCEEeCCCEEEEC----CCccEEEEEECC----------CCCCCCEECCCCEE
Confidence 3345899999999999999999999999999999999996 456899999986 57899999999999
Q ss_pred EEecCCCCcc-cCCCeEEEecCcccHHHHHHHHHH
Q psy9896 101 KIAAKDLEKT-IAGLNLRVAKDQDEIDDLCDEVAR 134 (145)
Q Consensus 101 kI~a~~Le~~-~AGs~l~vv~~~~e~e~~~~ev~~ 134 (145)
+|+| |+++ .||++|++++++++++++.+.-.+
T Consensus 324 ~i~G--l~~~p~aGd~~~~~~~e~~a~~~~~~r~~ 356 (587)
T TIGR00487 324 EILG--LSDVPAAGDEFIVFKDEKDARLVAEKRAG 356 (587)
T ss_pred EEeC--CCCCCCCCCEEEEcCCHHHHHHHHHHHHH
Confidence 9995 6777 999999999998888776554333
No 10
>KOG1145|consensus
Probab=99.54 E-value=2.3e-14 Score=131.34 Aligned_cols=105 Identities=19% Similarity=0.213 Sum_probs=88.5
Q ss_pred HHhhcCccCcceEEEEEEeeeCCcceEEEEEEEccEEcCCCEEEEccCCCceeeeeeeccCCCcchhhcccccceeecee
Q psy9896 15 LKKRLMFKNELQATVLEVKAIPGLGTTIDTILVNGTLYEGDTVVLAGTDGPIVTQIRSLLMPQPMQELRVKNAYVEYKKI 94 (145)
Q Consensus 15 m~~~L~~~~~~~gtVLEvK~~kGlG~tidvIl~~G~L~~GD~Iv~~~~~Gpi~tkIRaLl~p~Pl~E~R~k~~~~~~~~v 94 (145)
|.=|-..+..++|+|+|++.+||.|+.+++|++.|||++|+.+|+| -.|+|||+|++. +++.++++
T Consensus 318 mdLkA~p~g~~eg~VIES~vdkg~G~~aT~iVkrGTLkKG~vlV~G----~~w~KVr~l~D~----------nGk~i~~A 383 (683)
T KOG1145|consen 318 MDLKADPKGPAEGWVIESSVDKGRGPVATVIVKRGTLKKGSVLVAG----KSWCKVRALFDH----------NGKPIDEA 383 (683)
T ss_pred hhcccCCCCCceEEEEEeeecCCccceeEEEEeccccccccEEEEe----chhhhhhhhhhc----------CCCCcccc
Confidence 3334445555899999999999999999999999999999999996 455899999975 79999999
Q ss_pred ecCcCeEEecCCCCcc-cCCCeEEEecCcccHHHHHHHHHHH
Q psy9896 95 KGTQGVKIAAKDLEKT-IAGLNLRVAKDQDEIDDLCDEVARE 135 (145)
Q Consensus 95 ~aa~gVkI~a~~Le~~-~AGs~l~vv~~~~e~e~~~~ev~~e 135 (145)
.||+||.|+| +.++ +||+-++.+++++.++++.+-...+
T Consensus 384 ~Ps~pv~V~G--wkdlP~aGD~vleVeSe~~Ar~~~~~R~~~ 423 (683)
T KOG1145|consen 384 TPSQPVEVLG--WKDLPIAGDEVLEVESEDRARKVLSKRKDE 423 (683)
T ss_pred CCCCceEeec--ccCCCCCCceEEEEecHHHHHHHHHHHHHH
Confidence 9999999996 5677 9999999999998887665544333
No 11
>PRK05306 infB translation initiation factor IF-2; Validated
Probab=99.37 E-value=8.7e-12 Score=117.61 Aligned_cols=92 Identities=25% Similarity=0.322 Sum_probs=82.6
Q ss_pred cceEEEEEEeeeCCcceEEEEEEEccEEcCCCEEEEccCCCceeeeeeeccCCCcchhhcccccceeeceeecCcCeEEe
Q psy9896 24 ELQATVLEVKAIPGLGTTIDTILVNGTLYEGDTVVLAGTDGPIVTQIRSLLMPQPMQELRVKNAYVEYKKIKGTQGVKIA 103 (145)
Q Consensus 24 ~~~gtVLEvK~~kGlG~tidvIl~~G~L~~GD~Iv~~~~~Gpi~tkIRaLl~p~Pl~E~R~k~~~~~~~~v~aa~gVkI~ 103 (145)
.+.|+|+|++.++|.|+++++++++|+|+.||+|+++ |.++|||+|..+ +++.++++.|+.+|.|.
T Consensus 463 ~~~g~V~es~~dkg~G~v~~v~V~sGtLk~Gd~vv~g----~~~gkVr~m~~~----------~~~~v~~A~pGd~V~I~ 528 (787)
T PRK05306 463 PARGTVIEAKLDKGRGPVATVLVQNGTLKVGDIVVAG----TTYGRVRAMVDD----------NGKRVKEAGPSTPVEIL 528 (787)
T ss_pred CcEEEEEEEEEcCCCeEEEEEEEecCeEecCCEEEEC----CcEEEEEEEECC----------CCCCCCEEcCCCeEEEe
Confidence 3799999999999999999999999999999999984 678999999975 58899999999999999
Q ss_pred cCCCCcc-cCCCeEEEecCcccHHHHHHH
Q psy9896 104 AKDLEKT-IAGLNLRVAKDQDEIDDLCDE 131 (145)
Q Consensus 104 a~~Le~~-~AGs~l~vv~~~~e~e~~~~e 131 (145)
+|+++ .+|++|+++.++++++++.+.
T Consensus 529 --gl~~~p~~Gd~l~~~~~e~~a~~~~~~ 555 (787)
T PRK05306 529 --GLSGVPQAGDEFVVVEDEKKAREIAEY 555 (787)
T ss_pred --CCCCCCCCCCEEEEcCCHHHHHHHHHH
Confidence 57888 999999999988877665543
No 12
>CHL00189 infB translation initiation factor 2; Provisional
Probab=99.35 E-value=8.9e-12 Score=116.97 Aligned_cols=93 Identities=20% Similarity=0.198 Sum_probs=81.5
Q ss_pred cceEEEEEEeeeCCcceEEEEEEEccEEcCCCEEEEccCCCceeeeeeeccCCCcchhhcccccceeeceeecCcCeEEe
Q psy9896 24 ELQATVLEVKAIPGLGTTIDTILVNGTLYEGDTVVLAGTDGPIVTQIRSLLMPQPMQELRVKNAYVEYKKIKGTQGVKIA 103 (145)
Q Consensus 24 ~~~gtVLEvK~~kGlG~tidvIl~~G~L~~GD~Iv~~~~~Gpi~tkIRaLl~p~Pl~E~R~k~~~~~~~~v~aa~gVkI~ 103 (145)
.+.|+|+|++.++|.|+++++++++|+|+.||+|++|. .+++||+|+.+ .+++++++.|+.+|.|.
T Consensus 421 ~~~g~V~e~~iD~~~G~V~~~~V~sGtLr~GD~vv~g~----~~gkVr~m~~~----------~~~~v~~a~pgdiV~I~ 486 (742)
T CHL00189 421 LAQGIILEAHLDKTKGPVATILVQNGTLHIGDIIVIGT----SYAKIRGMINS----------LGNKINLATPSSVVEIW 486 (742)
T ss_pred CceEEEEEEEEcCCCceEEEEEEEcCEEecCCEEEECC----cceEEEEEEcC----------CCcCccEEcCCCceEec
Confidence 47999999999999999999999999999999999864 56799999975 57899999999999998
Q ss_pred cCCCCcc-cCCCeEEEecCcccHHHHHHHH
Q psy9896 104 AKDLEKT-IAGLNLRVAKDQDEIDDLCDEV 132 (145)
Q Consensus 104 a~~Le~~-~AGs~l~vv~~~~e~e~~~~ev 132 (145)
+|.++ .+|++|++++++++++++.++-
T Consensus 487 --gl~~~~~~Gd~l~v~~~e~~a~~~~~~~ 514 (742)
T CHL00189 487 --GLSSVPATGEHFQVFNSEKEAKLKIIKN 514 (742)
T ss_pred --CcccCCCCCCEEEEeCCHHHHHHHHHHH
Confidence 46555 7999999999988887776543
No 13
>PF03144 GTP_EFTU_D2: Elongation factor Tu domain 2; InterPro: IPR004161 Translation elongation factors are responsible for two main processes during protein synthesis on the ribosome [, , ]. EF1A (or EF-Tu) is responsible for the selection and binding of the cognate aminoacyl-tRNA to the A-site (acceptor site) of the ribosome. EF2 (or EF-G) is responsible for the translocation of the peptidyl-tRNA from the A-site to the P-site (peptidyl-tRNA site) of the ribosome, thereby freeing the A-site for the next aminoacyl-tRNA to bind. Elongation factors are responsible for achieving accuracy of translation and both EF1A and EF2 are remarkably conserved throughout evolution. EF1A (also known as EF-1alpha or EF-Tu) is a G-protein. It forms a ternary complex of EF1A-GTP-aminoacyltRNA. The binding of aminoacyl-tRNA stimulates GTP hydrolysis by EF1A, causing a conformational change in EF1A that causes EF1A-GDP to detach from the ribosome, leaving the aminoacyl-tRNA attached at the A-site. Only the cognate aminoacyl-tRNA can induce the required conformational change in EF1A through its tight anticodon-codon binding [, ]. EF1A-GDP is returned to its active state, EF1A-GTP, through the action of another elongation factor, EF1B (also known as EF-Ts or EF-1beta/gamma/delta). EF1A consists of three structural domains. This entry represents domain 2 of EF2, which adopts a beta-barrel structure, and is involved in binding to both charged tRNA []. This domain is structurally related to the C-terminal domain of EF2 (IPR004160 from INTERPRO), to which it displays weak sequence matches. This domain is also found in other proteins such as translation initiation factor IF-2 and tetracycline-resistance proteins. More information about these proteins can be found at Protein of the Month: Elongation Factors [].; GO: 0005525 GTP binding; PDB: 3MCA_A 3AGJ_E 1SKQ_B 1JNY_A 1S0U_A 1ZUN_B 3SFS_W 3UOQ_W 2H5E_B 2XEX_A ....
Probab=98.23 E-value=3.5e-06 Score=56.13 Aligned_cols=69 Identities=26% Similarity=0.304 Sum_probs=53.1
Q ss_pred ceEEEEEEEccEEcCCCEEEEccCCC----ceeeeeeeccCCCcchhhcccccceeeceeecCcCeEEecCCCCc-ccCC
Q psy9896 39 GTTIDTILVNGTLYEGDTVVLAGTDG----PIVTQIRSLLMPQPMQELRVKNAYVEYKKIKGTQGVKIAAKDLEK-TIAG 113 (145)
Q Consensus 39 G~tidvIl~~G~L~~GD~Iv~~~~~G----pi~tkIRaLl~p~Pl~E~R~k~~~~~~~~v~aa~gVkI~a~~Le~-~~AG 113 (145)
|.++.+-+++|+|++||+|.+.+ ++ +..++|++|+.++ .-.......+.+|+.+...++++ +..|
T Consensus 1 G~v~~grV~sG~l~~gd~v~~~~-~~~~~~~~~~~I~~i~~~~---------~~~~~~~~~~~~G~~~~~~~~~~~i~~G 70 (74)
T PF03144_consen 1 GRVATGRVYSGTLKKGDKVRVLP-NGTGKKGQVVKIKSIFMFN---------GDVQEAVAGANAGDIVAIIGLNDAIRRG 70 (74)
T ss_dssp EEEEEEEEEESEEETTEEEEEES-TTTTEECEEEEEEEEEETT---------EEESEEETTEEEEEEEESSSGCSCSSTT
T ss_pred CEEEEEEEEEeEEcCCCEEEECc-cCCcceeeeeecccccccc---------cCccEeCCceeeEEEEEEcCCCCCcCcC
Confidence 78899999999999999999955 32 5779999999874 22223345556677777778899 6999
Q ss_pred CeEE
Q psy9896 114 LNLR 117 (145)
Q Consensus 114 s~l~ 117 (145)
+.|.
T Consensus 71 dtl~ 74 (74)
T PF03144_consen 71 DTLT 74 (74)
T ss_dssp EEEE
T ss_pred CEEC
Confidence 9764
No 14
>cd01342 Translation_Factor_II_like Translation_Factor_II_like: Elongation factor Tu (EF-Tu) domain II-like proteins. Elongation factor Tu consists of three structural domains, this family represents the second domain. Domain II adopts a beta barrel structure and is involved in binding to charged tRNA. Domain II is found in other proteins such as elongation factor G and translation initiation factor IF-2. This group also includes the C2 subdomain of domain IV of IF-2 that has the same fold as domain II of (EF-Tu). Like IF-2 from certain prokaryotes such as Thermus thermophilus, mitochondrial IF-2 lacks domain II, which is thought to be involved in binding of E.coli IF-2 to 30S subunits.
Probab=98.18 E-value=3.8e-05 Score=49.06 Aligned_cols=80 Identities=28% Similarity=0.268 Sum_probs=60.2
Q ss_pred eEEEEEEeeeCCcceEEEEEEEccEEcCCCEEEEccCCCceeeeeeeccCCCcchhhcccccceeeceeecCcCeEEecC
Q psy9896 26 QATVLEVKAIPGLGTTIDTILVNGTLYEGDTVVLAGTDGPIVTQIRSLLMPQPMQELRVKNAYVEYKKIKGTQGVKIAAK 105 (145)
Q Consensus 26 ~gtVLEvK~~kGlG~tidvIl~~G~L~~GD~Iv~~~~~Gpi~tkIRaLl~p~Pl~E~R~k~~~~~~~~v~aa~gVkI~a~ 105 (145)
.+.|..+..+++.|..+.+.+++|+|++||.+.++..++....+|+.|..+. ..++++.|..-+-+...
T Consensus 2 ~~~v~~~~~~~~~g~v~~~rv~~G~l~~g~~v~~~~~~~~~~~~i~~i~~~~-----------~~~~~~~aG~~~~~~~~ 70 (83)
T cd01342 2 RALVFKVFKDKGRGTVATGRVESGTLKKGDKVRVGPGGGGVKGKVKSLKRFK-----------GEVDEAVAGDIVGIVLK 70 (83)
T ss_pred eeEEEEEEEeCCceEEEEEEEeeCEEecCCEEEEecCCceeEEEEeEeEecC-----------ceeceecCCCEEEEEEc
Confidence 4678889999999999999999999999999999876667778899887652 45566666655556554
Q ss_pred CCCcccCCCeE
Q psy9896 106 DLEKTIAGLNL 116 (145)
Q Consensus 106 ~Le~~~AGs~l 116 (145)
+.+.+..|+.+
T Consensus 71 ~~~~~~~g~~l 81 (83)
T cd01342 71 DKDDIKIGDTL 81 (83)
T ss_pred cccccCCCCEe
Confidence 43445566543
No 15
>cd03691 BipA_TypA_II BipA_TypA_II: domain II of BipA (also called TypA) having homology to domain II of the elongation factors (EFs) EF-G and EF-Tu. BipA is a highly conserved protein with global regulatory properties in Escherichia coli. BipA is phosphorylated on a tyrosine residue under some cellular conditions. Mutants show altered regulation of some pathways. BipA functions as a translation factor that is required specifically for the expression of the transcriptional modulator Fis. BipA binds to ribosomes at a site that coincides with that of EF-G and has a GTPase activity that is sensitive to high GDP:GTP ratios and, is stimulated by 70S ribosomes programmed with mRNA and aminoacylated tRNAs. The growth rate-dependent induction of BipA allows the efficient expression of Fis, thereby modulating a range of downstream processes, including DNA metabolism and type III secretion.
Probab=96.93 E-value=0.02 Score=39.21 Aligned_cols=82 Identities=22% Similarity=0.199 Sum_probs=56.8
Q ss_pred eEEEEEEeeeCCcceEEEEEEEccEEcCCCEEEEccCCCce-eeeeeeccCCCcchhhcccccceeeceeecCcCeEEec
Q psy9896 26 QATVLEVKAIPGLGTTIDTILVNGTLYEGDTVVLAGTDGPI-VTQIRSLLMPQPMQELRVKNAYVEYKKIKGTQGVKIAA 104 (145)
Q Consensus 26 ~gtVLEvK~~kGlG~tidvIl~~G~L~~GD~Iv~~~~~Gpi-~tkIRaLl~p~Pl~E~R~k~~~~~~~~v~aa~gVkI~a 104 (145)
++.|.-+..++..|..+=+=+++|+|++||.+.+...++.. ..+|+.|+.+. -.+..+++++.|-.=+ ..
T Consensus 2 ~~~vfk~~~d~~~g~i~~~Rv~sG~l~~g~~v~~~~~~~~~~~~~v~~l~~~~-------g~~~~~v~~~~aG~I~--~i 72 (86)
T cd03691 2 QMLVTTLDYDDYVGRIAIGRIFRGTVKVGQQVAVVKRDGKIEKAKITKLFGFE-------GLKRVEVEEAEAGDIV--AI 72 (86)
T ss_pred eEEEEEeEecCCCCeEEEEEEEeCEEcCCCEEEEEcCCCCEEEEEEeeEeeee-------CCCeeECcEECCCCEE--EE
Confidence 56777788889999999999999999999999877664322 13455554321 1245667776654433 33
Q ss_pred CCCCcccCCCeE
Q psy9896 105 KDLEKTIAGLNL 116 (145)
Q Consensus 105 ~~Le~~~AGs~l 116 (145)
.+|+++..|+.+
T Consensus 73 ~gl~~~~~Gdtl 84 (86)
T cd03691 73 AGIEDITIGDTI 84 (86)
T ss_pred ECCCCCccccee
Confidence 368888899876
No 16
>cd03697 EFTU_II EFTU_II: Elongation factor Tu domain II. Elongation factors Tu (EF-Tu) are three-domain GTPases with an essential function in the elongation phase of mRNA translation. The GTPase center of EF-Tu is in the N-terminal domain (domain I), also known as the catalytic or G-domain. The G-domain is composed of about 200 amino acid residues, arranged into a predominantly parallel six-stranded beta-sheet core surrounded by seven a-helices. Non-catalytic domains II and III are beta-barrels of seven and six, respectively, antiparallel beta-strands that share an extended interface. Either non-catalytic domain is composed of about 100 amino acid residues. EF-Tu proteins exist in two principal conformations: in a compact one, EF-Tu*GTP, with tight interfaces between all three domains and a high affinity for aminoacyl-tRNA, and in an open one, EF-Tu*GDP, with essentially no G-domain-domain II interactions and a low affinity for aminoacyl-tRNA. EF-Tu has approximately a 100-fold higher
Probab=96.61 E-value=0.013 Score=40.77 Aligned_cols=77 Identities=23% Similarity=0.370 Sum_probs=55.2
Q ss_pred EEEEeeeCCcceEEEEEEEccEEcCCCEEEEccCCCceeeeeeeccCCCcchhhcccccceeeceeecCcCeEEecCCC-
Q psy9896 29 VLEVKAIPGLGTTIDTILVNGTLYEGDTVVLAGTDGPIVTQIRSLLMPQPMQELRVKNAYVEYKKIKGTQGVKIAAKDL- 107 (145)
Q Consensus 29 VLEvK~~kGlG~tidvIl~~G~L~~GD~Iv~~~~~Gpi~tkIRaLl~p~Pl~E~R~k~~~~~~~~v~aa~gVkI~a~~L- 107 (145)
|-++-..+|.|+++.--+..|++++||.+.+.....+..++||+|-. ....++++.|-.-|.+.=.++
T Consensus 5 V~~v~~~~g~G~vv~G~v~~G~v~~gd~v~~~p~~~~~~~~V~si~~-----------~~~~~~~a~~G~~v~l~l~~~~ 73 (87)
T cd03697 5 IEDVFSIPGRGTVVTGRIERGTIKVGDEVEIVGFGETLKTTVTGIEM-----------FRKTLDEAEAGDNVGVLLRGVK 73 (87)
T ss_pred EEEEEeCCCcEEEEEEEECCCCCccCCEEEEeCCCCCceEEEEEEEE-----------CCcCCCEECCCCEEEEEECCCC
Confidence 44666678999989889999999999999987654356789999874 356667776655555554444
Q ss_pred -CcccCCCeE
Q psy9896 108 -EKTIAGLNL 116 (145)
Q Consensus 108 -e~~~AGs~l 116 (145)
+++..|+-+
T Consensus 74 ~~~v~rG~vl 83 (87)
T cd03697 74 REDVERGMVL 83 (87)
T ss_pred HHHcCCccEE
Confidence 334666643
No 17
>PLN03127 Elongation factor Tu; Provisional
Probab=96.56 E-value=0.028 Score=50.33 Aligned_cols=82 Identities=22% Similarity=0.298 Sum_probs=61.5
Q ss_pred ceEEEEEEeeeCCcceEEEEEEEccEEcCCCEEEEccC--CCceeeeeeeccCCCcchhhcccccceeeceeecCcCeEE
Q psy9896 25 LQATVLEVKAIPGLGTTIDTILVNGTLYEGDTVVLAGT--DGPIVTQIRSLLMPQPMQELRVKNAYVEYKKIKGTQGVKI 102 (145)
Q Consensus 25 ~~gtVLEvK~~kGlG~tidvIl~~G~L~~GD~Iv~~~~--~Gpi~tkIRaLl~p~Pl~E~R~k~~~~~~~~v~aa~gVkI 102 (145)
+.-.|.++...+|.|+++.--+..|++++||.|.+.+. .|.+.++||.+-.. ...++++.|-.=|-+
T Consensus 262 fr~~I~~vf~v~g~GtVvtG~v~~G~i~~Gd~v~i~p~~~~g~~~~~VksI~~~-----------~~~v~~a~aGd~v~l 330 (447)
T PLN03127 262 FLMPIEDVFSIQGRGTVATGRVEQGTIKVGEEVEIVGLRPGGPLKTTVTGVEMF-----------KKILDQGQAGDNVGL 330 (447)
T ss_pred eEeeEEEEEEcCCceEEEEEEEEccEEecCCEEEEcccCCCCcEEEEEEEEEEE-----------CcEeCEEcCCCEEEE
Confidence 67889999999999999999999999999999988764 34688999999743 455666666543444
Q ss_pred ecCCC--CcccCCCeEE
Q psy9896 103 AAKDL--EKTIAGLNLR 117 (145)
Q Consensus 103 ~a~~L--e~~~AGs~l~ 117 (145)
.-.++ +++..|+-+.
T Consensus 331 ~L~~i~~~~i~rG~Vl~ 347 (447)
T PLN03127 331 LLRGLKREDVQRGQVIC 347 (447)
T ss_pred EeCCCCHHHCCCccEEe
Confidence 33333 4457777543
No 18
>PRK12735 elongation factor Tu; Reviewed
Probab=96.56 E-value=0.021 Score=49.76 Aligned_cols=82 Identities=20% Similarity=0.224 Sum_probs=62.9
Q ss_pred ceEEEEEEeeeCCcceEEEEEEEccEEcCCCEEEEccCCCceeeeeeeccCCCcchhhcccccceeeceeecCcCeEEec
Q psy9896 25 LQATVLEVKAIPGLGTTIDTILVNGTLYEGDTVVLAGTDGPIVTQIRSLLMPQPMQELRVKNAYVEYKKIKGTQGVKIAA 104 (145)
Q Consensus 25 ~~gtVLEvK~~kGlG~tidvIl~~G~L~~GD~Iv~~~~~Gpi~tkIRaLl~p~Pl~E~R~k~~~~~~~~v~aa~gVkI~a 104 (145)
+...|-++...+|.|+++.--+.+|+|++||.|.+........++||.+-. ..++++++.|..=|-+.-
T Consensus 213 ~r~~I~~~f~v~g~Gtvv~G~v~~G~i~~gd~v~i~p~~~~~~~~VksI~~-----------~~~~v~~a~aGd~v~l~L 281 (396)
T PRK12735 213 FLMPIEDVFSISGRGTVVTGRVERGIVKVGDEVEIVGIKETQKTTVTGVEM-----------FRKLLDEGQAGDNVGVLL 281 (396)
T ss_pred eEEEEEEEEecCCceEEEEEEEEecEEeCCCEEEEecCCCCeEEEEEEEEE-----------CCeEeCEECCCCEEEEEe
Confidence 678999999999999999999999999999999988654346789999874 356777777766454433
Q ss_pred CCC--CcccCCCeEE
Q psy9896 105 KDL--EKTIAGLNLR 117 (145)
Q Consensus 105 ~~L--e~~~AGs~l~ 117 (145)
.++ +++..|+-+-
T Consensus 282 ~~i~~~~i~rG~vl~ 296 (396)
T PRK12735 282 RGTKREDVERGQVLA 296 (396)
T ss_pred CCCcHHHCCcceEEE
Confidence 333 4567787553
No 19
>TIGR01394 TypA_BipA GTP-binding protein TypA/BipA. This bacterial (and Arabidopsis) protein, termed TypA or BipA, a GTP-binding protein, is phosphorylated on a tyrosine residue under some cellular conditions. Mutants show altered regulation of some pathways, but the precise function is unknown.
Probab=96.48 E-value=0.028 Score=52.16 Aligned_cols=84 Identities=26% Similarity=0.210 Sum_probs=64.2
Q ss_pred ceEEEEEEeeeCCcceEEEEEEEccEEcCCCEEEEccCCCc-eeeeeeeccCCCcchhhcccccceeeceeecCcCeEEe
Q psy9896 25 LQATVLEVKAIPGLGTTIDTILVNGTLYEGDTVVLAGTDGP-IVTQIRSLLMPQPMQELRVKNAYVEYKKIKGTQGVKIA 103 (145)
Q Consensus 25 ~~gtVLEvK~~kGlG~tidvIl~~G~L~~GD~Iv~~~~~Gp-i~tkIRaLl~p~Pl~E~R~k~~~~~~~~v~aa~gVkI~ 103 (145)
+++.|..+..+++.|.++-.-+++|+|+.||.|.++..+|. ...||+.|+... ..+..+++++.|-.=+-|+
T Consensus 201 l~~~V~~i~~d~~~Grv~~gRV~sG~lk~G~~V~~~~~~~~~~~~kV~~i~~~~-------g~~~~~v~~a~aGDiv~i~ 273 (594)
T TIGR01394 201 LQMLVTNLDYDEYLGRIAIGRVHRGTVKKGQQVALMKRDGTIENGRISKLLGFE-------GLERVEIDEAGAGDIVAVA 273 (594)
T ss_pred EEEEEEEEEeeCCCceEEEEEEEeCEEccCCEEEEecCCCceeEEEEEEEEEcc-------CCCceECCEECCCCEEEEe
Confidence 68999999999999999999999999999999999887664 357888888542 1134566666665555554
Q ss_pred cCCCCcccCCCeEE
Q psy9896 104 AKDLEKTIAGLNLR 117 (145)
Q Consensus 104 a~~Le~~~AGs~l~ 117 (145)
+++++..|+.+.
T Consensus 274 --gl~~i~~Gdtl~ 285 (594)
T TIGR01394 274 --GLEDINIGETIA 285 (594)
T ss_pred --CCcccCCCCEEe
Confidence 567777777663
No 20
>cd03692 mtIF2_IVc mtIF2_IVc: this family represents the C2 subdomain of domain IV of mitochondrial translation initiation factor 2 (mtIF2) which adopts a beta-barrel fold displaying a high degree of structural similarity with domain II of the translation elongation factor EF-Tu. The C-terminal part of mtIF2 contains the entire fMet-tRNAfmet binding site of IF-2 and is resistant to proteolysis. This C-terminal portion consists of two domains, IF2 C1 and IF2 C2. IF2 C2 been shown to contain all molecular determinants necessary and sufficient for the recognition and binding of fMet-tRNAfMet. Like IF2 from certain prokaryotes such as Thermus thermophilus, mtIF2lacks domain II which is thought to be involved in binding of E.coli IF-2 to 30S subunits.
Probab=96.44 E-value=0.058 Score=37.53 Aligned_cols=81 Identities=17% Similarity=0.158 Sum_probs=60.3
Q ss_pred eEEEEEEeeeCCcceEEEEEEEccEEcCCCEEEEccCCCc-eeeeeeeccCCCcchhhcccccceeeceeecCcCeEEec
Q psy9896 26 QATVLEVKAIPGLGTTIDTILVNGTLYEGDTVVLAGTDGP-IVTQIRSLLMPQPMQELRVKNAYVEYKKIKGTQGVKIAA 104 (145)
Q Consensus 26 ~gtVLEvK~~kGlG~tidvIl~~G~L~~GD~Iv~~~~~Gp-i~tkIRaLl~p~Pl~E~R~k~~~~~~~~v~aa~gVkI~a 104 (145)
++.|..+....+.|+.+-.-+-+|+|++|+.+.+.-.+-. ..++|++|-.. -+.++++.|-.=+-|.-
T Consensus 2 ~~~V~~vf~~~~~g~vag~kV~~G~l~~g~~v~vlr~~~~~~~g~i~sl~~~-----------~~~v~~a~~G~ecgi~l 70 (84)
T cd03692 2 EAEVRAVFKISKVGNIAGCYVTDGKIKRNAKVRVLRNGEVIYEGKISSLKRF-----------KDDVKEVKKGYECGITL 70 (84)
T ss_pred EEEEEEEEECCCCcEEEEEEEEECEEeCCCEEEEEcCCCEEEEEEEEEEEEc-----------CcccCEECCCCEEEEEE
Confidence 5678888888888999999999999999999999653211 46788888743 45566666655444554
Q ss_pred CCCCcccCCCeEE
Q psy9896 105 KDLEKTIAGLNLR 117 (145)
Q Consensus 105 ~~Le~~~AGs~l~ 117 (145)
.++++..+|+.+.
T Consensus 71 ~~~~d~~~Gdvi~ 83 (84)
T cd03692 71 ENFNDIKVGDIIE 83 (84)
T ss_pred eCcccCCCCCEEE
Confidence 5778889998664
No 21
>PRK00049 elongation factor Tu; Reviewed
Probab=96.32 E-value=0.032 Score=48.75 Aligned_cols=82 Identities=18% Similarity=0.215 Sum_probs=61.0
Q ss_pred ceEEEEEEeeeCCcceEEEEEEEccEEcCCCEEEEccCCCceeeeeeeccCCCcchhhcccccceeeceeecCcCeEEec
Q psy9896 25 LQATVLEVKAIPGLGTTIDTILVNGTLYEGDTVVLAGTDGPIVTQIRSLLMPQPMQELRVKNAYVEYKKIKGTQGVKIAA 104 (145)
Q Consensus 25 ~~gtVLEvK~~kGlG~tidvIl~~G~L~~GD~Iv~~~~~Gpi~tkIRaLl~p~Pl~E~R~k~~~~~~~~v~aa~gVkI~a 104 (145)
++-.|-++...+|.|+++.--+..|++++||.|.+.+......++||++-.. .++++++.|-.=|-+.-
T Consensus 213 ~r~~I~~~f~v~g~G~Vv~G~v~~G~i~~gd~v~i~p~~~~~~~~VksI~~~-----------~~~~~~a~~Gd~v~l~l 281 (396)
T PRK00049 213 FLMPIEDVFSISGRGTVVTGRVERGIIKVGEEVEIVGIRDTQKTTVTGVEMF-----------RKLLDEGQAGDNVGALL 281 (396)
T ss_pred eEEEEEEEEeeCCceEEEEEEEeeeEEecCCEEEEeecCCCceEEEEEEEEC-----------CcEeCEEcCCCEEEEEe
Confidence 6888999999999999999999999999999999876544578999999743 45666666655344432
Q ss_pred CCC--CcccCCCeEE
Q psy9896 105 KDL--EKTIAGLNLR 117 (145)
Q Consensus 105 ~~L--e~~~AGs~l~ 117 (145)
.+. +++..|+-+.
T Consensus 282 ~~i~~~~i~~G~vl~ 296 (396)
T PRK00049 282 RGIKREDVERGQVLA 296 (396)
T ss_pred CCCCHHHCCcceEEe
Confidence 333 3456676443
No 22
>cd03694 GTPBP_II Domain II of the GP-1 family of GTPase. This group includes proteins similar to GTPBP1 and GTPBP2. GTPB1 is structurally, related to elongation factor 1 alpha, a key component of protein biosynthesis machinery. Immunohistochemical analyses on mouse tissues revealed that GTPBP1 is expressed in some neurons and smooth muscle cells of various organs as well as macrophages. Immunofluorescence analyses revealed that GTPBP1 is localized exclusively in cytoplasm and shows a diffuse granular network forming a gradient from the nucleus to the periphery of the cells in smooth muscle cell lines and macrophages. No significant difference was observed in the immune response to protein antigen between mutant mice and wild-type mice, suggesting normal function of antigen-presenting cells of the mutant mice. The absence of an eminent phenotype in GTPBP1-deficient mice may be due to functional compensation by GTPBP2, which is similar to GTPBP1 in structure and tissue distribution.
Probab=96.29 E-value=0.061 Score=37.54 Aligned_cols=67 Identities=22% Similarity=0.420 Sum_probs=50.9
Q ss_pred EEEEEeeeCCcceEEEEEEEccEEcCCCEEEEccCC-Cc-eeeeeeeccCCCcchhhcccccceeeceeecCcCeEEecC
Q psy9896 28 TVLEVKAIPGLGTTIDTILVNGTLYEGDTVVLAGTD-GP-IVTQIRSLLMPQPMQELRVKNAYVEYKKIKGTQGVKIAAK 105 (145)
Q Consensus 28 tVLEvK~~kGlG~tidvIl~~G~L~~GD~Iv~~~~~-Gp-i~tkIRaLl~p~Pl~E~R~k~~~~~~~~v~aa~gVkI~a~ 105 (145)
.|-++...+|.|+++.==+..|++++||.+.++... |. ..++||++-. ..+.++++.|-.=+.+.-.
T Consensus 4 ~I~~vf~v~g~GtVv~G~v~~G~v~~g~~v~~~P~~~g~~~~~~V~sI~~-----------~~~~~~~a~aGd~v~l~l~ 72 (87)
T cd03694 4 QIDEIYSVPGVGTVVGGTVSKGVIRLGDTLLLGPDQDGSFRPVTVKSIHR-----------NRSPVRVVRAGQSASLALK 72 (87)
T ss_pred EEEeEEEcCCcceEEEEEEecCEEeCCCEEEECCCCCCCEeEEEEEEEEE-----------CCeECCEECCCCEEEEEEc
Confidence 355677789999999999999999999999998753 43 6889999874 3566667766655555433
No 23
>PRK12736 elongation factor Tu; Reviewed
Probab=96.26 E-value=0.04 Score=47.98 Aligned_cols=81 Identities=21% Similarity=0.246 Sum_probs=60.8
Q ss_pred ceEEEEEEeeeCCcceEEEEEEEccEEcCCCEEEEccCCCceeeeeeeccCCCcchhhcccccceeeceeecCcCeEEec
Q psy9896 25 LQATVLEVKAIPGLGTTIDTILVNGTLYEGDTVVLAGTDGPIVTQIRSLLMPQPMQELRVKNAYVEYKKIKGTQGVKIAA 104 (145)
Q Consensus 25 ~~gtVLEvK~~kGlG~tidvIl~~G~L~~GD~Iv~~~~~Gpi~tkIRaLl~p~Pl~E~R~k~~~~~~~~v~aa~gVkI~a 104 (145)
+.-.|-++..++|.|+++.--+.+|+|++||.|.+.+......++||.+-. ..++++++.|-.=|-+.-
T Consensus 211 ~r~~I~~~~~~~g~G~Vv~G~v~~G~l~~gd~v~i~p~~~~~~~~V~sI~~-----------~~~~~~~a~aGd~v~l~l 279 (394)
T PRK12736 211 FLMPVEDVFTITGRGTVVTGRVERGTVKVGDEVEIVGIKETQKTVVTGVEM-----------FRKLLDEGQAGDNVGVLL 279 (394)
T ss_pred eEEEEEEEEecCCcEEEEEEEEeecEEecCCEEEEecCCCCeEEEEEEEEE-----------CCEEccEECCCCEEEEEE
Confidence 678899999999999999999999999999999987654356789999984 245667776655443322
Q ss_pred CCC--CcccCCCeE
Q psy9896 105 KDL--EKTIAGLNL 116 (145)
Q Consensus 105 ~~L--e~~~AGs~l 116 (145)
.++ +++..|+-+
T Consensus 280 ~~i~~~~i~~G~vl 293 (394)
T PRK12736 280 RGVDRDEVERGQVL 293 (394)
T ss_pred CCCcHHhCCcceEE
Confidence 333 345677755
No 24
>PTZ00141 elongation factor 1- alpha; Provisional
Probab=96.26 E-value=0.032 Score=49.78 Aligned_cols=80 Identities=21% Similarity=0.252 Sum_probs=62.1
Q ss_pred cceEEEEEEeeeCCcceEEEEEEEccEEcCCCEEEEccCCCceeeeeeeccCCCcchhhcccccceeeceeecCcCeEEe
Q psy9896 24 ELQATVLEVKAIPGLGTTIDTILVNGTLYEGDTVVLAGTDGPIVTQIRSLLMPQPMQELRVKNAYVEYKKIKGTQGVKIA 103 (145)
Q Consensus 24 ~~~gtVLEvK~~kGlG~tidvIl~~G~L~~GD~Iv~~~~~Gpi~tkIRaLl~p~Pl~E~R~k~~~~~~~~v~aa~gVkI~ 103 (145)
.++..|-++...+|.|+++.--+.+|+|++||.|.++.. ...++||+|-.. ..+++++.|-.-|-+.
T Consensus 233 p~r~~I~~v~~v~g~Gtvv~G~V~~G~l~~Gd~v~i~P~--~~~~~VksI~~~-----------~~~~~~a~aG~~v~i~ 299 (446)
T PTZ00141 233 PLRLPLQDVYKIGGIGTVPVGRVETGILKPGMVVTFAPS--GVTTEVKSVEMH-----------HEQLAEAVPGDNVGFN 299 (446)
T ss_pred CeEEEEEEEEecCCceEEEEEEEEcceEecCCEEEEccC--CcEEEEEEEEec-----------CcccCEECCCCEEEEE
Confidence 368999999999999999999999999999999999753 367999999853 4667777776655555
Q ss_pred cCCCC--cccCCCeE
Q psy9896 104 AKDLE--KTIAGLNL 116 (145)
Q Consensus 104 a~~Le--~~~AGs~l 116 (145)
-.+++ ++..|+-+
T Consensus 300 L~~i~~~~v~rG~vl 314 (446)
T PTZ00141 300 VKNVSVKDIKRGYVA 314 (446)
T ss_pred ECCCCHHHcCCceEE
Confidence 44433 34667644
No 25
>CHL00071 tufA elongation factor Tu
Probab=96.24 E-value=0.024 Score=49.66 Aligned_cols=82 Identities=23% Similarity=0.236 Sum_probs=59.6
Q ss_pred ceEEEEEEeeeCCcceEEEEEEEccEEcCCCEEEEccCCCceeeeeeeccCCCcchhhcccccceeeceeecCcCe--EE
Q psy9896 25 LQATVLEVKAIPGLGTTIDTILVNGTLYEGDTVVLAGTDGPIVTQIRSLLMPQPMQELRVKNAYVEYKKIKGTQGV--KI 102 (145)
Q Consensus 25 ~~gtVLEvK~~kGlG~tidvIl~~G~L~~GD~Iv~~~~~Gpi~tkIRaLl~p~Pl~E~R~k~~~~~~~~v~aa~gV--kI 102 (145)
++-.|-++...+|.|+++.--+..|++++||.+.+.+......++||.+... .++++++.|-.=| .+
T Consensus 221 ~r~~I~~v~~~~g~G~Vv~G~V~sG~l~~Gd~v~i~p~~~~~~~~VksI~~~-----------~~~v~~a~aGd~v~i~l 289 (409)
T CHL00071 221 FLMAIEDVFSITGRGTVATGRIERGTVKVGDTVEIVGLRETKTTTVTGLEMF-----------QKTLDEGLAGDNVGILL 289 (409)
T ss_pred EEEEEEEEEEeCCCeEEEEEEEecCEEeeCCEEEEeeCCCCcEEEEEEEEEc-----------CcCCCEECCCceeEEEE
Confidence 6788999999999999999999999999999998765432356899999854 3466666665334 44
Q ss_pred ecCCCCcccCCCeEE
Q psy9896 103 AAKDLEKTIAGLNLR 117 (145)
Q Consensus 103 ~a~~Le~~~AGs~l~ 117 (145)
.+-+-+++..|+-+-
T Consensus 290 ~~i~~~~i~~G~vl~ 304 (409)
T CHL00071 290 RGIQKEDIERGMVLA 304 (409)
T ss_pred cCCCHHHcCCeEEEe
Confidence 332223556777553
No 26
>TIGR00475 selB selenocysteine-specific elongation factor SelB. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several elements: SelC is the tRNA itself, SelD acts as a donor of reduced selenium, SelA modifies a serine residue on SelC into selenocysteine, and SelB is a selenocysteine-specific translation elongation factor. 3-prime or 5-prime non-coding elements of mRNA have been found as probable structures for directing selenocysteine incorporation. This model describes the elongation factor SelB, a close homolog rf EF-Tu. It may function by replacing EF-Tu. A C-terminal domain not found in EF-Tu is in all SelB sequences in the seed alignment except that from Methanococcus jannaschii. This model does not find an equivalent protein for eukaryotes.
Probab=96.22 E-value=0.035 Score=51.21 Aligned_cols=77 Identities=16% Similarity=0.234 Sum_probs=62.0
Q ss_pred cceEEEEEEeeeCCcceEEEEEEEccEEcCCCEEEEccCCCceeeeeeeccCCCcchhhcccccceeeceeecCcCeEEe
Q psy9896 24 ELQATVLEVKAIPGLGTTIDTILVNGTLYEGDTVVLAGTDGPIVTQIRSLLMPQPMQELRVKNAYVEYKKIKGTQGVKIA 103 (145)
Q Consensus 24 ~~~gtVLEvK~~kGlG~tidvIl~~G~L~~GD~Iv~~~~~Gpi~tkIRaLl~p~Pl~E~R~k~~~~~~~~v~aa~gVkI~ 103 (145)
.+...|-++...+|.|++++--+.+|++++||.+.+...+ ..++||+|-. ..++++++.|..-|-|.
T Consensus 176 p~r~~Id~~f~v~G~GtVv~G~v~~G~i~~Gd~l~i~P~~--~~~~Vr~iq~-----------~~~~v~~a~aG~rval~ 242 (581)
T TIGR00475 176 PLRMAIDRAFKVKGAGTVVTGTAFSGEVKVGDNLRLLPIN--HEVRVKAIQA-----------QNQDVEIAYAGQRIALN 242 (581)
T ss_pred CcEEEEEEEEecCCcEEEEEEEEecceEecCCEEEECCCC--ceEEEeEEEE-----------CCccCCEEECCCEEEEE
Confidence 3688899999999999999999999999999999997543 5789999974 46778888887766665
Q ss_pred cCCCC--cccCC
Q psy9896 104 AKDLE--KTIAG 113 (145)
Q Consensus 104 a~~Le--~~~AG 113 (145)
=.|++ ++..|
T Consensus 243 L~~i~~~~i~rG 254 (581)
T TIGR00475 243 LMDVEPESLKRG 254 (581)
T ss_pred eCCCCHHHcCCc
Confidence 44443 34667
No 27
>cd03693 EF1_alpha_II EF1_alpha_II: this family represents the domain II of elongation factor 1-alpha (EF-1a) that is found in archaea and all eukaryotic lineages. EF-1A is very abundant in the cytosol, where it is involved in the GTP-dependent binding of aminoacyl-tRNAs to the A site of the ribosomes in the second step of translation from mRNAs to proteins. Both domain II of EF1A and domain IV of IF2/eIF5B have been implicated in recognition of the 3'-ends of tRNA. More than 61% of eukaryotic elongation factor 1A (eEF-1A) in cells is estimated to be associated with actin cytoskeleton. The binding of eEF1A to actin is a noncanonical function that may link two distinct cellular processes, cytoskeleton organization and gene expression.
Probab=96.18 E-value=0.089 Score=36.92 Aligned_cols=79 Identities=20% Similarity=0.238 Sum_probs=60.1
Q ss_pred ceEEEEEEeeeCCcceEEEEEEEccEEcCCCEEEEccCCCceeeeeeeccCCCcchhhcccccceeeceeecCcCeEEec
Q psy9896 25 LQATVLEVKAIPGLGTTIDTILVNGTLYEGDTVVLAGTDGPIVTQIRSLLMPQPMQELRVKNAYVEYKKIKGTQGVKIAA 104 (145)
Q Consensus 25 ~~gtVLEvK~~kGlG~tidvIl~~G~L~~GD~Iv~~~~~Gpi~tkIRaLl~p~Pl~E~R~k~~~~~~~~v~aa~gVkI~a 104 (145)
+.-.|-++...+|.|+++.--+..|++++||++.+...+ ..++||+|.. ...+++++.|-.=|.|.-
T Consensus 5 ~r~~V~~vf~~~g~g~vv~G~v~~G~i~~gd~v~i~P~~--~~~~V~sI~~-----------~~~~~~~a~aG~~v~i~l 71 (91)
T cd03693 5 LRLPIQDVYKIGGIGTVPVGRVETGVLKPGMVVTFAPAG--VTGEVKSVEM-----------HHEPLEEALPGDNVGFNV 71 (91)
T ss_pred eEEEEEEEEEeCCceEEEEEEEecceeecCCEEEECCCC--cEEEEEEEEE-----------CCcCcCEECCCCEEEEEE
Confidence 566788999999999999999999999999999998643 7899999974 345667776655455554
Q ss_pred CCC--CcccCCCeE
Q psy9896 105 KDL--EKTIAGLNL 116 (145)
Q Consensus 105 ~~L--e~~~AGs~l 116 (145)
.++ +.+..|+-+
T Consensus 72 ~~i~~~~v~~G~vl 85 (91)
T cd03693 72 KNVSKKDIKRGDVA 85 (91)
T ss_pred CCCCHHHcCCcCEE
Confidence 443 445788744
No 28
>TIGR00490 aEF-2 translation elongation factor aEF-2. This model represents archaeal elongation factor 2, a protein more similar to eukaryotic EF-2 than to bacterial EF-G, both in sequence similarity and in sharing with eukaryotes the property of having a diphthamide (modified His) residue at a conserved position. The diphthamide can be ADP-ribosylated by diphtheria toxin in the presence of NAD.
Probab=96.16 E-value=0.032 Score=52.46 Aligned_cols=82 Identities=18% Similarity=0.190 Sum_probs=60.4
Q ss_pred ceEEEEEEeeeCCcceEEEEEEEccEEcCCCEEEEccCCCceeeeeeeccCCCcchhhcccccceeeceeecCcCeEEec
Q psy9896 25 LQATVLEVKAIPGLGTTIDTILVNGTLYEGDTVVLAGTDGPIVTQIRSLLMPQPMQELRVKNAYVEYKKIKGTQGVKIAA 104 (145)
Q Consensus 25 ~~gtVLEvK~~kGlG~tidvIl~~G~L~~GD~Iv~~~~~Gpi~tkIRaLl~p~Pl~E~R~k~~~~~~~~v~aa~gVkI~a 104 (145)
+.+.|..+..+++.|..+-+=+++|+|+.||+|...+.+ -..+|+.|..+. ......++++.|..=+-|.
T Consensus 290 l~a~VfK~~~~~~~G~ia~~RV~sGtL~~G~~l~~~~~~--~~~kv~~l~~~~-------g~~~~~v~~a~aGdIv~i~- 359 (720)
T TIGR00490 290 LALMITKIVVDKHAGEVAVGRLYSGTIRPGMEVYIVDRK--AKARIQQVGVYM-------GPERVEVDEIPAGNIVAVI- 359 (720)
T ss_pred eEEEEEEEEecCCCcEEEEEEEEeCEEcCCCEEEEcCCC--CeeEeeEEEEec-------cCCccCccEECCCCEEEEE-
Confidence 689999999999999999999999999999999876544 236777776431 1234567777765555554
Q ss_pred CCCCcccCCCeEE
Q psy9896 105 KDLEKTIAGLNLR 117 (145)
Q Consensus 105 ~~Le~~~AGs~l~ 117 (145)
+++++..|+.|.
T Consensus 360 -gl~~~~~GdtL~ 371 (720)
T TIGR00490 360 -GLKDAVAGETIC 371 (720)
T ss_pred -CccccccCceee
Confidence 466666777663
No 29
>PRK10512 selenocysteinyl-tRNA-specific translation factor; Provisional
Probab=96.10 E-value=0.072 Score=49.62 Aligned_cols=80 Identities=18% Similarity=0.246 Sum_probs=61.8
Q ss_pred ceEEEEEEeeeCCcceEEEEEEEccEEcCCCEEEEccCCCceeeeeeeccCCCcchhhcccccceeeceeecCcCeEEec
Q psy9896 25 LQATVLEVKAIPGLGTTIDTILVNGTLYEGDTVVLAGTDGPIVTQIRSLLMPQPMQELRVKNAYVEYKKIKGTQGVKIAA 104 (145)
Q Consensus 25 ~~gtVLEvK~~kGlG~tidvIl~~G~L~~GD~Iv~~~~~Gpi~tkIRaLl~p~Pl~E~R~k~~~~~~~~v~aa~gVkI~a 104 (145)
+.-.|-++...+|.|++++--+.+|+|++||.|.+.+.+ ..++||.|-. ...+++++.|..=|-|.-
T Consensus 175 ~rl~Id~vf~v~G~GtVvtGtv~sG~l~~Gd~v~i~p~~--~~~~VrsIq~-----------~~~~v~~a~aG~rval~l 241 (614)
T PRK10512 175 FRLAIDRAFTVKGAGLVVTGTALSGEVKVGDTLWLTGVN--KPMRVRGLHA-----------QNQPTEQAQAGQRIALNI 241 (614)
T ss_pred ceEEEEEEeccCCCeEEEEEEEecceEecCCEEEEcCCC--CcEEEEEEec-----------CCcCCCEEeCCCeEEEEe
Confidence 678899999999999999999999999999999997654 3479999874 356778887776555533
Q ss_pred C---CCCcccCCCeEE
Q psy9896 105 K---DLEKTIAGLNLR 117 (145)
Q Consensus 105 ~---~Le~~~AGs~l~ 117 (145)
. +-+++..|+-+.
T Consensus 242 ~g~~~~~~i~rGdvl~ 257 (614)
T PRK10512 242 AGDAEKEQINRGDWLL 257 (614)
T ss_pred cCCCChhhCCCcCEEe
Confidence 2 234567787554
No 30
>cd04088 EFG_mtEFG_II EFG_mtEFG_II: this subfamily represents the domain II of elongation factor G (EF-G) in bacteria and, the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2)_like proteins found in eukaryotes. During the process of peptide synthesis and tRNA site changes, the ribosome is moved along the mRNA a distance equal to one codon with the addition of each amino acid. In bacteria this translocation step is catalyzed by EF-G_GTP, which is hydrolyzed to provide the required energy. Thus, this action releases the uncharged tRNA from the P site and transfers the newly formed peptidyl-tRNA from the A site to the P site. Eukaryotic cells harbor 2 protein synthesis systems: one localized in the cytoplasm, the other in the mitochondria. Most factors regulating mitochondrial protein synthesis are encoded by nuclear genes, translated in the cytoplasm, and then transported to the mitochondria. The eukaryotic system of elongation factor (EF) components is more compl
Probab=96.05 E-value=0.091 Score=35.62 Aligned_cols=79 Identities=22% Similarity=0.165 Sum_probs=54.1
Q ss_pred EEEEEEeeeCCcceEEEEEEEccEEcCCCEEEEccCCCceeeeeeeccCCCcchhhcccccceeeceeecCcCeEEecCC
Q psy9896 27 ATVLEVKAIPGLGTTIDTILVNGTLYEGDTVVLAGTDGPIVTQIRSLLMPQPMQELRVKNAYVEYKKIKGTQGVKIAAKD 106 (145)
Q Consensus 27 gtVLEvK~~kGlG~tidvIl~~G~L~~GD~Iv~~~~~Gpi~tkIRaLl~p~Pl~E~R~k~~~~~~~~v~aa~gVkI~a~~ 106 (145)
+.|.=+..++..|..+-+=+++|+|++||.|...+... ..+|..|+.+.+ .++.+++++.|-.=+-|. +
T Consensus 3 a~Vfk~~~d~~~G~~~~~Rv~sG~l~~g~~v~~~~~~~--~~~v~~l~~~~g-------~~~~~v~~~~aGdI~~i~--g 71 (83)
T cd04088 3 ALVFKTIHDPFVGKLSFVRVYSGTLKAGSTLYNSTKGK--KERVGRLLRMHG-------KKQEEVEEAGAGDIGAVA--G 71 (83)
T ss_pred EEEEEcccCCCCceEEEEEEecCEEcCCCEEEECCCCc--EEEeeEEEEEcC-------CCceECCEeCCCCEEEEE--C
Confidence 45556667788899999999999999999998776432 235556654432 245666776555444443 6
Q ss_pred CCcccCCCeE
Q psy9896 107 LEKTIAGLNL 116 (145)
Q Consensus 107 Le~~~AGs~l 116 (145)
++++..|+.+
T Consensus 72 ~~~~~~Gdtl 81 (83)
T cd04088 72 LKDTATGDTL 81 (83)
T ss_pred CCCCccCCEe
Confidence 7888888876
No 31
>PRK12317 elongation factor 1-alpha; Reviewed
Probab=96.04 E-value=0.049 Score=47.54 Aligned_cols=79 Identities=22% Similarity=0.299 Sum_probs=62.7
Q ss_pred ceEEEEEEeeeCCcceEEEEEEEccEEcCCCEEEEccCCCceeeeeeeccCCCcchhhcccccceeeceeecCcCeEEec
Q psy9896 25 LQATVLEVKAIPGLGTTIDTILVNGTLYEGDTVVLAGTDGPIVTQIRSLLMPQPMQELRVKNAYVEYKKIKGTQGVKIAA 104 (145)
Q Consensus 25 ~~gtVLEvK~~kGlG~tidvIl~~G~L~~GD~Iv~~~~~Gpi~tkIRaLl~p~Pl~E~R~k~~~~~~~~v~aa~gVkI~a 104 (145)
+.-.|.++...+|.|+++.--+.+|+|++||.+.++..+ ..++||+|-. ....++++.|..-|-+.-
T Consensus 226 ~r~~i~~~~~~~g~G~vv~G~v~~G~v~~Gd~v~i~P~~--~~~~VksI~~-----------~~~~~~~a~aG~~v~i~l 292 (425)
T PRK12317 226 LRIPIQDVYSISGVGTVPVGRVETGVLKVGDKVVFMPAG--VVGEVKSIEM-----------HHEELPQAEPGDNIGFNV 292 (425)
T ss_pred cEEEEEEEEeeCCCeEEEEEEEeeccEecCCEEEECCCC--CeEEEEEEEE-----------CCcccCEECCCCeEEEEE
Confidence 678999999999999999999999999999999997643 4689999984 356778888877666654
Q ss_pred CCCC--cccCCCeE
Q psy9896 105 KDLE--KTIAGLNL 116 (145)
Q Consensus 105 ~~Le--~~~AGs~l 116 (145)
.+++ ++..|+-+
T Consensus 293 ~~~~~~~i~rG~vl 306 (425)
T PRK12317 293 RGVGKKDIKRGDVC 306 (425)
T ss_pred CCCCHHHccCccEe
Confidence 4443 45677754
No 32
>TIGR00483 EF-1_alpha translation elongation factor EF-1 alpha. This model represents the counterpart of bacterial EF-Tu for the Archaea (aEF-1 alpha) and Eukaryotes (eEF-1 alpha). The trusted cutoff is set fairly high so that incomplete sequences will score between suggested and trusted cutoff levels.
Probab=95.92 E-value=0.053 Score=47.42 Aligned_cols=80 Identities=19% Similarity=0.285 Sum_probs=61.2
Q ss_pred ceEEEEEEeeeCCcceEEEEEEEccEEcCCCEEEEccCCCceeeeeeeccCCCcchhhcccccceeeceeecCcCeEEec
Q psy9896 25 LQATVLEVKAIPGLGTTIDTILVNGTLYEGDTVVLAGTDGPIVTQIRSLLMPQPMQELRVKNAYVEYKKIKGTQGVKIAA 104 (145)
Q Consensus 25 ~~gtVLEvK~~kGlG~tidvIl~~G~L~~GD~Iv~~~~~Gpi~tkIRaLl~p~Pl~E~R~k~~~~~~~~v~aa~gVkI~a 104 (145)
.+..|-++...+|.|+++.--+..|+|++||.|.++..+ ..++||.+.. ...+++++.|-.-|-|.-
T Consensus 228 ~r~~i~~v~~~~g~G~vv~G~v~~G~i~~gd~v~i~P~~--~~~~VksI~~-----------~~~~~~~a~aG~~v~i~l 294 (426)
T TIGR00483 228 LRIPIQDVYSITGVGTVPVGRVETGVLKPGDKVVFEPAG--VSGEVKSIEM-----------HHEQIEQAEPGDNIGFNV 294 (426)
T ss_pred cEEEEEEEEecCCCeEEEEEEEccceeecCCEEEECCCC--cEEEEEEEEE-----------CCcccCEEcCCCEEEEEE
Confidence 689999999999999999999999999999999997533 5789999984 345677777766555544
Q ss_pred CCC--CcccCCCeEE
Q psy9896 105 KDL--EKTIAGLNLR 117 (145)
Q Consensus 105 ~~L--e~~~AGs~l~ 117 (145)
.++ +++..|+-+.
T Consensus 295 ~~i~~~~i~rG~vl~ 309 (426)
T TIGR00483 295 RGVSKKDIRRGDVCG 309 (426)
T ss_pred CCCChhhcccceEEe
Confidence 333 3456676443
No 33
>cd03696 selB_II selB_II: this subfamily represents the domain of elongation factor SelB, homologous to domain II of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several elements: SelC is the tRNA itself, SelD acts as a donor of reduced selenium, SelA modifies a serine residue on SelC into selenocysteine, and SelB is a selenocysteine-specific translation elongation factor. 3' or 5' non-coding elements of mRNA have been found as probable structures for directing selenocysteine incorporation.
Probab=95.88 E-value=0.1 Score=35.68 Aligned_cols=74 Identities=19% Similarity=0.262 Sum_probs=51.9
Q ss_pred EEEEEeeeCCcceEEEEEEEccEEcCCCEEEEccCCCceeeeeeeccCCCcchhhcccccceeeceeecCcCeEEecCCC
Q psy9896 28 TVLEVKAIPGLGTTIDTILVNGTLYEGDTVVLAGTDGPIVTQIRSLLMPQPMQELRVKNAYVEYKKIKGTQGVKIAAKDL 107 (145)
Q Consensus 28 tVLEvK~~kGlG~tidvIl~~G~L~~GD~Iv~~~~~Gpi~tkIRaLl~p~Pl~E~R~k~~~~~~~~v~aa~gVkI~a~~L 107 (145)
.|-++...+|.|+.+.-=+..|++++||++.+...+ ..++|+.+-. ..++++++.|-.-|.+.-.++
T Consensus 4 ~i~~~~~~~~~g~vv~G~v~sG~i~~g~~v~~~p~~--~~~~V~sI~~-----------~~~~~~~a~aGd~v~i~l~~~ 70 (83)
T cd03696 4 PIDRVFTVKGQGTVVTGTVLSGSVKVGDKVEILPLG--EETRVRSIQV-----------HGKDVEEAKAGDRVALNLTGV 70 (83)
T ss_pred EEEEEEEcCCcEEEEEEEEeecEEeCCCEEEECCCC--ceEEEEEEEE-----------CCcCcCEEcCCCEEEEEEcCC
Confidence 355666678999998889999999999999997643 6789999874 245566666655454443333
Q ss_pred --CcccCCC
Q psy9896 108 --EKTIAGL 114 (145)
Q Consensus 108 --e~~~AGs 114 (145)
+++..|+
T Consensus 71 ~~~~i~~G~ 79 (83)
T cd03696 71 DAKDLERGD 79 (83)
T ss_pred CHHHcCCcc
Confidence 2345555
No 34
>cd03690 Tet_II Tet_II: This subfamily represents domain II of ribosomal protection proteins Tet(M) and Tet(O). This domain has homology to domain II of the elongation factors EF-G and EF-2. Tet(M) and Tet(O) catalyze the release of tetracycline (Tc) from the ribosome in a GTP-dependent manner thereby mediating Tc resistance. Tcs are broad-spectrum antibiotics. Typical Tcs bind to the ribosome and inhibit the elongation phase of protein synthesis, by inhibiting the occupation of site A by aminoacyl-tRNA.
Probab=95.86 E-value=0.11 Score=36.05 Aligned_cols=81 Identities=20% Similarity=0.118 Sum_probs=56.7
Q ss_pred cceEEEEEEeeeCCcceEEEEEEEccEEcCCCEEEEccCCCceeeeeeeccCCCcchhhcccccceeeceeecCcCeEEe
Q psy9896 24 ELQATVLEVKAIPGLGTTIDTILVNGTLYEGDTVVLAGTDGPIVTQIRSLLMPQPMQELRVKNAYVEYKKIKGTQGVKIA 103 (145)
Q Consensus 24 ~~~gtVLEvK~~kGlG~tidvIl~~G~L~~GD~Iv~~~~~Gpi~tkIRaLl~p~Pl~E~R~k~~~~~~~~v~aa~gVkI~ 103 (145)
++.+.|.=+..++..|..+=+=++.|+||.||.+.... + ..-|+..|+.+. -.++..++++.|--=+-|.
T Consensus 3 p~~~~Vfkv~~d~~~G~la~~RV~sG~l~~g~~v~~~~--~-~~~~v~~l~~~~-------g~~~~~v~~~~aGdI~ai~ 72 (85)
T cd03690 3 ELSGTVFKIERDDKGERLAYLRLYSGTLRLRDSVRVNR--E-EKIKITELRVFN-------NGEVVTADTVTAGDIAILT 72 (85)
T ss_pred CcEEEEEEeEECCCCCeEEEEEEccCEEcCCCEEEeCC--C-cEEEeceeEEEe-------CCCeEECcEECCCCEEEEE
Confidence 35778888888999999999999999999999997654 1 123555555432 2355666766654333333
Q ss_pred cCCCCcccCCCeE
Q psy9896 104 AKDLEKTIAGLNL 116 (145)
Q Consensus 104 a~~Le~~~AGs~l 116 (145)
+|+++..|+.|
T Consensus 73 --gl~~~~~Gdtl 83 (85)
T cd03690 73 --GLKGLRVGDVL 83 (85)
T ss_pred --CCCCCcCcccc
Confidence 67888888865
No 35
>cd03698 eRF3_II_like eRF3_II_like: domain similar to domain II of the eukaryotic class II release factor (eRF3). In eukaryotes, translation termination is mediated by two interacting release factors, eRF1 and eRF3, which act as class I and II factors, respectively. eRF1 functions as an omnipotent release factor, decoding all three stop codons and triggering the release of the nascent peptide catalyzed by the ribsome. eRF3 is a GTPase, which enhances the termination efficiency by stimulating the eRF1 activity in a GTP-dependent manner. Sequence comparison of class II release factors with elongation factors shows that eRF3 is more similar to eEF1alpha whereas prokaryote RF3 is more similar to EF-G, implying that their precise function may differ. Only eukaryote RF3s are found in this group. Saccharomyces cerevisiae eRF3 (Sup35p) is a translation termination factor which is divided into three regions N, M and a C-terminal eEF1a-like region essential for translation termination. Sup35NM
Probab=95.80 E-value=0.14 Score=35.25 Aligned_cols=73 Identities=15% Similarity=0.234 Sum_probs=51.8
Q ss_pred EEEEeeeCCcceEEEEEEEccEEcCCCEEEEccCCCceeeeeeeccCCCcchhhcccccceeeceeecCcCeEEecCCCC
Q psy9896 29 VLEVKAIPGLGTTIDTILVNGTLYEGDTVVLAGTDGPIVTQIRSLLMPQPMQELRVKNAYVEYKKIKGTQGVKIAAKDLE 108 (145)
Q Consensus 29 VLEvK~~kGlG~tidvIl~~G~L~~GD~Iv~~~~~Gpi~tkIRaLl~p~Pl~E~R~k~~~~~~~~v~aa~gVkI~a~~Le 108 (145)
|-++...+ .|+++.-=+..|++++||.+.+...+ ..++||.|.. ...+++++.|-.-|.+.-.+++
T Consensus 6 V~~v~~~~-~g~vv~G~v~~G~i~~Gd~v~i~P~~--~~~~V~si~~-----------~~~~~~~a~aGd~v~~~l~~~~ 71 (83)
T cd03698 6 ISDKYKDQ-GGTVVSGKVESGSIQKGDTLLVMPSK--ESVEVKSIYV-----------DDEEVDYAVAGENVRLKLKGID 71 (83)
T ss_pred EEeEEEcC-CCcEEEEEEeeeEEeCCCEEEEeCCC--cEEEEEEEEE-----------CCeECCEECCCCEEEEEECCCC
Confidence 44555556 88999999999999999999998654 5789999874 3466777777655554444433
Q ss_pred --cccCCCe
Q psy9896 109 --KTIAGLN 115 (145)
Q Consensus 109 --~~~AGs~ 115 (145)
++..|+-
T Consensus 72 ~~~v~~G~v 80 (83)
T cd03698 72 EEDISPGDV 80 (83)
T ss_pred HHHCCCCCE
Confidence 4566653
No 36
>PRK05433 GTP-binding protein LepA; Provisional
Probab=95.72 E-value=0.15 Score=47.28 Aligned_cols=49 Identities=20% Similarity=0.249 Sum_probs=41.7
Q ss_pred ceEEEEEEeeeCCcceEEEEEEEccEEcCCCEEEEccCCCceeeeeeeccC
Q psy9896 25 LQATVLEVKAIPGLGTTIDTILVNGTLYEGDTVVLAGTDGPIVTQIRSLLM 75 (145)
Q Consensus 25 ~~gtVLEvK~~kGlG~tidvIl~~G~L~~GD~Iv~~~~~Gpi~tkIRaLl~ 75 (145)
+.+.|..+..+++.|.++-+-+++|+|+.||.|.....+. ..+|+.+..
T Consensus 194 l~~~Vfd~~~d~~~G~v~~~rV~sG~Lk~Gd~i~~~~~~~--~~~V~~i~~ 242 (600)
T PRK05433 194 LKALIFDSWYDNYRGVVVLVRVVDGTLKKGDKIKMMSTGK--EYEVDEVGV 242 (600)
T ss_pred ceEEEEEEEecCCCceEEEEEEEcCEEecCCEEEEecCCc--eEEEEEeec
Confidence 7999999999999999999999999999999999876543 345666653
No 37
>PLN03126 Elongation factor Tu; Provisional
Probab=95.55 E-value=0.13 Score=46.63 Aligned_cols=82 Identities=21% Similarity=0.236 Sum_probs=61.6
Q ss_pred ceEEEEEEeeeCCcceEEEEEEEccEEcCCCEEEEccCCCceeeeeeeccCCCcchhhcccccceeeceeecCcCeEEec
Q psy9896 25 LQATVLEVKAIPGLGTTIDTILVNGTLYEGDTVVLAGTDGPIVTQIRSLLMPQPMQELRVKNAYVEYKKIKGTQGVKIAA 104 (145)
Q Consensus 25 ~~gtVLEvK~~kGlG~tidvIl~~G~L~~GD~Iv~~~~~Gpi~tkIRaLl~p~Pl~E~R~k~~~~~~~~v~aa~gVkI~a 104 (145)
+.-.|.++..++|.|+++.--+..|+|++||.|.++...-...++||.+... ..+++++.|-.=|-|.-
T Consensus 290 ~r~~I~~vf~v~g~GtVv~G~V~sG~i~~Gd~v~i~p~~~~~~~~VksI~~~-----------~~~v~~A~aG~~v~l~L 358 (478)
T PLN03126 290 FLLAVEDVFSITGRGTVATGRVERGTVKVGETVDIVGLRETRSTTVTGVEMF-----------QKILDEALAGDNVGLLL 358 (478)
T ss_pred eeeEEEEEEEeCCceEEEEEEEEcCeEecCCEEEEecCCCceEEEEEEEEEC-----------CeECCEEeCCceeeeec
Confidence 6889999999999999999999999999999999975422357899999854 46677777765455543
Q ss_pred CCCC--cccCCCeEE
Q psy9896 105 KDLE--KTIAGLNLR 117 (145)
Q Consensus 105 ~~Le--~~~AGs~l~ 117 (145)
.+++ ++..|+-+.
T Consensus 359 ~~i~~~di~rG~VL~ 373 (478)
T PLN03126 359 RGIQKADIQRGMVLA 373 (478)
T ss_pred cCCcHHHcCCccEEe
Confidence 3333 356676443
No 38
>cd03695 CysN_NodQ_II CysN_NodQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN and a smaller subunit CysD and CysN. ATPS produces adenosine-5'-phosphosulfate (APS) from ATP and sulfate, coupled with GTP hydrolysis. In the subsequent reaction APS is phosphorylated by an APS kinase (CysC), to produce 3'-phosphoadenosine-5'-phosphosulfate (PAPS) for use in amino acid (aa) biosynthesis. The Rhizobiaceae group (alpha-proteobacteria) appears to carry out the same chemistry for the sufation of a nodulation factor. In Rhizobium meliloti, a the hererodimeric complex comprised of NodP and NodQ appears to possess both ATPS and APS kinase activities. The N and C termini of NodQ correspond to CysN and CysC, respectively. Other eubacteria, Archaea, and eukaryotes use a different ATP sulfurylase, which sho
Probab=95.51 E-value=0.22 Score=34.41 Aligned_cols=75 Identities=16% Similarity=0.103 Sum_probs=50.6
Q ss_pred EEEEEeeeCCcceEEEEEEEccEEcCCCEEEEccCCCceeeeeeeccCCCcchhhcccccceeeceeecCcCeEEecCCC
Q psy9896 28 TVLEVKAIPGLGTTIDTILVNGTLYEGDTVVLAGTDGPIVTQIRSLLMPQPMQELRVKNAYVEYKKIKGTQGVKIAAKDL 107 (145)
Q Consensus 28 tVLEvK~~kGlG~tidvIl~~G~L~~GD~Iv~~~~~Gpi~tkIRaLl~p~Pl~E~R~k~~~~~~~~v~aa~gVkI~a~~L 107 (145)
.|.++-..++-|..+.--+..|++++||++.+...+ ..++||.+.. ...+++.+.|..=|.+.-.+-
T Consensus 4 ~V~dv~k~~~~~~~v~Gkv~~G~v~~Gd~v~~~P~~--~~~~V~si~~-----------~~~~~~~a~aGd~v~l~l~~~ 70 (81)
T cd03695 4 PVQYVIRPNADFRGYAGTIASGSIRVGDEVVVLPSG--KTSRVKSIET-----------FDGELDEAGAGESVTLTLEDE 70 (81)
T ss_pred eEEEEEeeCCCcEEEEEEEccceEECCCEEEEcCCC--CeEEEEEEEE-----------CCcEeCEEcCCCEEEEEECCc
Confidence 455666666666778888999999999999998643 6789999874 245566666653333332243
Q ss_pred CcccCCCe
Q psy9896 108 EKTIAGLN 115 (145)
Q Consensus 108 e~~~AGs~ 115 (145)
+++..|+-
T Consensus 71 ~~i~~G~v 78 (81)
T cd03695 71 IDVSRGDV 78 (81)
T ss_pred cccCCCCE
Confidence 45566653
No 39
>TIGR00485 EF-Tu translation elongation factor TU. This alignment models orthologs of translation elongation factor EF-Tu in bacteria, mitochondria, and chloroplasts, one of several GTP-binding translation factors found by the more general pfam model GTP_EFTU. The eukaryotic conterpart, eukaryotic translation elongation factor 1 (eEF-1 alpha), is excluded from this model. EF-Tu is one of the most abundant proteins in bacteria, as well as one of the most highly conserved, and in a number of species the gene is duplicated with identical function. When bound to GTP, EF-Tu can form a complex with any (correctly) aminoacylated tRNA except those for initiation and for selenocysteine, in which case EF-Tu is replaced by other factors. Transfer RNA is carried to the ribosome in these complexes for protein translation.
Probab=95.40 E-value=0.14 Score=44.49 Aligned_cols=81 Identities=20% Similarity=0.284 Sum_probs=57.2
Q ss_pred ceEEEEEEeeeCCcceEEEEEEEccEEcCCCEEEEccCCCceeeeeeeccCCCcchhhcccccceeeceeecCcCeEEec
Q psy9896 25 LQATVLEVKAIPGLGTTIDTILVNGTLYEGDTVVLAGTDGPIVTQIRSLLMPQPMQELRVKNAYVEYKKIKGTQGVKIAA 104 (145)
Q Consensus 25 ~~gtVLEvK~~kGlG~tidvIl~~G~L~~GD~Iv~~~~~Gpi~tkIRaLl~p~Pl~E~R~k~~~~~~~~v~aa~gVkI~a 104 (145)
+.-.|-++..++|.|+++.--+.+|+|++||++.+........++||.+-. ...+++++.|-.=|-+.-
T Consensus 211 ~r~~V~~vf~~~g~G~Vv~G~v~~G~l~~gd~v~i~p~~~~~~~~VksI~~-----------~~~~~~~a~aGd~v~l~l 279 (394)
T TIGR00485 211 FLMPIEDVFSITGRGTVVTGRVERGIVKVGEEVEIVGLKDTRKTTVTGVEM-----------FRKELDEGRAGDNVGLLL 279 (394)
T ss_pred eEEEEEEEEeeCCceEEEEEEEEeeEEeCCCEEEEecCCCCcEEEEEEEEE-----------CCeEEEEECCCCEEEEEe
Confidence 678899999999999999999999999999999986532224678998874 235556665544343322
Q ss_pred CCC--CcccCCCeE
Q psy9896 105 KDL--EKTIAGLNL 116 (145)
Q Consensus 105 ~~L--e~~~AGs~l 116 (145)
.++ .++..|+-+
T Consensus 280 ~~i~~~~i~rG~vl 293 (394)
T TIGR00485 280 RGIKREEIERGMVL 293 (394)
T ss_pred CCccHHHCCccEEE
Confidence 233 335666644
No 40
>TIGR01393 lepA GTP-binding protein LepA. LepA (GUF1 in Saccaromyces) is a GTP-binding membrane protein related to EF-G and EF-Tu. Two types of phylogenetic tree, rooted by other GTP-binding proteins, suggest that eukaryotic homologs (including GUF1 of yeast) originated within the bacterial LepA family. The function is unknown.
Probab=95.31 E-value=0.22 Score=46.21 Aligned_cols=49 Identities=16% Similarity=0.192 Sum_probs=41.7
Q ss_pred ceEEEEEEeeeCCcceEEEEEEEccEEcCCCEEEEccCCCceeeeeeeccC
Q psy9896 25 LQATVLEVKAIPGLGTTIDTILVNGTLYEGDTVVLAGTDGPIVTQIRSLLM 75 (145)
Q Consensus 25 ~~gtVLEvK~~kGlG~tidvIl~~G~L~~GD~Iv~~~~~Gpi~tkIRaLl~ 75 (145)
+++.|..+..+++.|.++-+-+++|+|+.||.|.....+. ..+|+.+..
T Consensus 190 l~~~V~~~~~d~~~G~v~~~rV~sG~lk~Gd~v~~~~~~~--~~~v~~i~~ 238 (595)
T TIGR01393 190 LKALIFDSHYDNYRGVVALVRVFEGTIKPGDKIRFMSTGK--EYEVDEVGV 238 (595)
T ss_pred eEEEEEEEEEeCCCcEEEEEEEECCEEecCCEEEEecCCC--eeEEeEEEE
Confidence 7999999999999999999999999999999998876532 356666653
No 41
>PRK04004 translation initiation factor IF-2; Validated
Probab=95.29 E-value=0.28 Score=45.54 Aligned_cols=114 Identities=18% Similarity=0.181 Sum_probs=80.0
Q ss_pred HHHHHHHHHHhhcCccC-----c--ceEEEE----EEeeeCCcceEEEEEEEccEEcCCCEEEEccCCCceeeeeeeccC
Q psy9896 7 EIQYCQTFLKKRLMFKN-----E--LQATVL----EVKAIPGLGTTIDTILVNGTLYEGDTVVLAGTDGPIVTQIRSLLM 75 (145)
Q Consensus 7 l~gl~Q~~m~~~L~~~~-----~--~~gtVL----EvK~~kGlG~tidvIl~~G~L~~GD~Iv~~~~~Gpi~tkIRaLl~ 75 (145)
|+.-.+++|...+.... + ..|.|. .+...+. +..+=+-+.+|+|+.|-.++- .+|-..++|.+|=.
T Consensus 440 lid~~~~~~~~~~~~~~~~~~~~~~g~a~v~il~~~vf~~~~-~~IaGc~V~~G~i~~~~~v~r--~~g~~iG~i~Slk~ 516 (586)
T PRK04004 440 LIEDYEKWVKEQKEAEKEKILEKIVRPAKIRILPGYVFRQSD-PAIVGVEVLGGTIKPGVPLIK--EDGKRVGTIKQIQD 516 (586)
T ss_pred HHHHHHHHHHhhhcchhhhhhheeeceEEEEEccceeEecCC-CeEEEEEEEeCEEecCCEEEE--ECCEEEEEEehhhc
Confidence 44456788887765431 1 345554 6666555 799999999999999987554 25666688877763
Q ss_pred CCcchhhcccccceeeceeec--CcCeEEecCCC---CcccCCCeEEEecCcccHHHHHHHHHHHH
Q psy9896 76 PQPMQELRVKNAYVEYKKIKG--TQGVKIAAKDL---EKTIAGLNLRVAKDQDEIDDLCDEVAREL 136 (145)
Q Consensus 76 p~Pl~E~R~k~~~~~~~~v~a--a~gVkI~a~~L---e~~~AGs~l~vv~~~~e~e~~~~ev~~e~ 136 (145)
..+.++++.. .+|+.|- ++ ++..+|+.|+++...+.++.+++..+.|+
T Consensus 517 -----------~k~~V~ev~~G~Ecgi~i~--~~~~g~~~~~gD~i~~~~~~~~~~~l~~~~~~~l 569 (586)
T PRK04004 517 -----------QGENVKEAKAGMEVAISID--GPTVGRQIKEGDILYVDIPEEHAKILEQELKDEL 569 (586)
T ss_pred -----------cCCcccEeCCCCEEEEEEe--cccccCCCCCCCEEEEEEEehhHHHHHHHHHhhC
Confidence 2355666655 4677766 45 68899999999988888888877655543
No 42
>PLN00043 elongation factor 1-alpha; Provisional
Probab=95.28 E-value=0.17 Score=45.29 Aligned_cols=79 Identities=22% Similarity=0.286 Sum_probs=61.9
Q ss_pred ceEEEEEEeeeCCcceEEEEEEEccEEcCCCEEEEccCCCceeeeeeeccCCCcchhhcccccceeeceeecCcCeEEec
Q psy9896 25 LQATVLEVKAIPGLGTTIDTILVNGTLYEGDTVVLAGTDGPIVTQIRSLLMPQPMQELRVKNAYVEYKKIKGTQGVKIAA 104 (145)
Q Consensus 25 ~~gtVLEvK~~kGlG~tidvIl~~G~L~~GD~Iv~~~~~Gpi~tkIRaLl~p~Pl~E~R~k~~~~~~~~v~aa~gVkI~a 104 (145)
++-.|-++...+|.|+++.--+..|+|++||.|.++.. | ..++||++-. ...+++++.|-.-|-|.-
T Consensus 234 lr~~I~~v~~~~g~G~vv~G~V~~G~l~~Gd~v~~~P~-~-~~~~VksI~~-----------~~~~v~~a~aGd~v~i~l 300 (447)
T PLN00043 234 LRLPLQDVYKIGGIGTVPVGRVETGVIKPGMVVTFGPT-G-LTTEVKSVEM-----------HHESLQEALPGDNVGFNV 300 (447)
T ss_pred cEEEEEEEEEeCCcEEEEEEEEECCEEeeCCEEEEcCC-C-CEEEEEEEEE-----------CCeEeCEecCCCeEEEEE
Confidence 78899999999999999999999999999999999743 2 4789999974 357778887765455554
Q ss_pred CCC--CcccCCCeE
Q psy9896 105 KDL--EKTIAGLNL 116 (145)
Q Consensus 105 ~~L--e~~~AGs~l 116 (145)
.++ +++..|+-+
T Consensus 301 ~~~~~~~i~rG~vl 314 (447)
T PLN00043 301 KNVAVKDLKRGYVA 314 (447)
T ss_pred CCCCHhhCCCccEE
Confidence 444 445777744
No 43
>cd04092 mtEFG2_II_like mtEFG2_C: C-terminus of mitochondrial Elongation factor G2 (mtEFG2)-like proteins found in eukaryotes. Eukaryotic cells harbor 2 protein synthesis systems: one localized in the cytoplasm, the other in the mitochondria. Most factors regulating mitochondrial protein synthesis are encoded by nuclear genes, translated in the cytoplasm, and then transported to the mitochondria. The eukaryotic system of elongation factor (EF) components is more complex than that in prokaryotes, with both cytoplasmic and mitochondrial elongation factors and multiple isoforms being expressed in certain species. Eukaryotic EF-2 operates in the cytosolic protein synthesis machinery of eukaryotes, EF-Gs in protein synthesis in bacteria. Eukaryotic mtEFG1 proteins show significant homology to bacterial EF-Gs. No clear phenotype has been found for mutants in the yeast homologue of mtEFG2, MEF2. There are two forms of mtEFG present in mammals (designated mtEFG1s and mtEFG2s) mtEFG1s are n
Probab=95.20 E-value=0.36 Score=32.89 Aligned_cols=80 Identities=25% Similarity=0.256 Sum_probs=52.9
Q ss_pred EEEEEEeeeCCcceEEEEEEEccEEcCCCEEEEccCCCceeeeeeeccCCCcchhhcccccceeeceeecCcCeEEecCC
Q psy9896 27 ATVLEVKAIPGLGTTIDTILVNGTLYEGDTVVLAGTDGPIVTQIRSLLMPQPMQELRVKNAYVEYKKIKGTQGVKIAAKD 106 (145)
Q Consensus 27 gtVLEvK~~kGlG~tidvIl~~G~L~~GD~Iv~~~~~Gpi~tkIRaLl~p~Pl~E~R~k~~~~~~~~v~aa~gVkI~a~~ 106 (145)
+-|.=+..++..|..+=+=+++|+|++||.+....... ..+|..|+.+. -.+..+++++.|-.=+-|. +
T Consensus 3 a~VfK~~~d~~~g~i~~~Ri~sGtl~~g~~v~~~~~~~--~~~v~~l~~~~-------g~~~~~v~~~~aGdI~~i~--g 71 (83)
T cd04092 3 ALAFKVVHDPQRGPLTFVRVYSGTLKRGSALYNTNTGK--KERISRLLQPF-------ADQYQEIPSLSAGNIGVIT--G 71 (83)
T ss_pred EEEEecccCCCCCeEEEEEEecCEECCCCEEEECCCCC--EEEeeEEEEEE-------CCCceECCeeCCCCEEEEE--C
Confidence 55666677888899999999999999999997654331 13454554331 1245566666554433343 5
Q ss_pred CCcccCCCeEE
Q psy9896 107 LEKTIAGLNLR 117 (145)
Q Consensus 107 Le~~~AGs~l~ 117 (145)
++++..|+.+.
T Consensus 72 l~~~~~Gdtl~ 82 (83)
T cd04092 72 LKQTRTGDTLV 82 (83)
T ss_pred CCCcccCCEEe
Confidence 78888888763
No 44
>TIGR00491 aIF-2 translation initiation factor aIF-2/yIF-2. This model describes archaeal and eukaryotic orthologs of bacterial IF-2. Like IF-2, it helps convey the initiator tRNA to the ribosome, although the initiator is N-formyl-Met in bacteria and Met here. This protein is not closely related to the subunits of eIF-2 of eukaryotes, which is also involved in the initiation of translation. The aIF-2 of Methanococcus jannaschii contains a large intein interrupting a region of very strongly conserved sequence very near the amino end; this model does not correctly align the sequences from Methanococcus jannaschii and Pyrococcus horikoshii in this region.
Probab=94.96 E-value=0.43 Score=44.50 Aligned_cols=115 Identities=14% Similarity=0.127 Sum_probs=81.2
Q ss_pred HHHHHHHHHHhhcCccC-----c--ceEEEE----EEeeeCCcceEEEEEEEccEEcCCCEEEEccCCCceeeeeeeccC
Q psy9896 7 EIQYCQTFLKKRLMFKN-----E--LQATVL----EVKAIPGLGTTIDTILVNGTLYEGDTVVLAGTDGPIVTQIRSLLM 75 (145)
Q Consensus 7 l~gl~Q~~m~~~L~~~~-----~--~~gtVL----EvK~~kGlG~tidvIl~~G~L~~GD~Iv~~~~~Gpi~tkIRaLl~ 75 (145)
|+.-.+.||++.+.... . ..|.|. .+...+. +..+=|-+-+|+|+.|-.++- .+|-++++|..|=.
T Consensus 438 l~d~~~~~~~~~~~~~~~~~~~~~~~~a~v~il~~~vf~~~~-~~i~G~~V~~G~i~~~~~v~r--~~~~~iG~i~slk~ 514 (590)
T TIGR00491 438 LMEEFEEWIEGIEEEKKRKWMEAIIKPAKIRLIPKLVFRQSK-PAIVGVEVLTGVIRQGYPLMK--DDGETVGTVRSMQD 514 (590)
T ss_pred HHHHHHHHHHhhhcchhhhhcceeEEEEEEEEeeheeeeCCC-CeEEEEEEecCEEecCCeEEe--cCCEEEEEEchhcc
Confidence 44456788887776532 1 356665 5655555 899999999999999987644 35666788887763
Q ss_pred CCcchhhcccccceeeceeecC--cCeEEecCCC-CcccCCCeEEEecCcccHHHHHHHHHHH
Q psy9896 76 PQPMQELRVKNAYVEYKKIKGT--QGVKIAAKDL-EKTIAGLNLRVAKDQDEIDDLCDEVARE 135 (145)
Q Consensus 76 p~Pl~E~R~k~~~~~~~~v~aa--~gVkI~a~~L-e~~~AGs~l~vv~~~~e~e~~~~ev~~e 135 (145)
..+.++++..- +|++|-++-. .+...|+.||+-=+.++++.+++....|
T Consensus 515 -----------~k~~V~ev~~G~Ecgi~i~~~~~g~~~~~gD~l~~~i~~~~~~~l~~~~~~~ 566 (590)
T TIGR00491 515 -----------KGENVKSASAGQEVAIAIKDVVYGRTIHEGDTLYVDVPENHYHILKEQLSDD 566 (590)
T ss_pred -----------cCccccEECCCCEEEEEEeCccccCCCCCCCEEEEeCCHHHHHHHHHHHHhh
Confidence 34567777654 5777764322 6789999999988899998777655543
No 45
>cd03689 RF3_II RF3_II: this subfamily represents the domain II of bacterial Release Factor 3 (RF3). Termination of protein synthesis by the ribosome requires two release factor (RF) classes. The class II RF3 is a GTPase that removes class I RFs (RF1 or RF2) from the ribosome after release of the nascent polypeptide. RF3 in the GDP state binds to the ribosomal class I RF complex, followed by an exchange of GDP for GTP and release of the class I RF. Sequence comparison of class II release factors with elongation factors shows that prokaryotic RF3 is more similar to EF-G whereas eukaryotic eRF3 is more similar to eEF1A, implying that their precise function may differ.
Probab=94.81 E-value=0.32 Score=33.92 Aligned_cols=72 Identities=8% Similarity=-0.051 Sum_probs=47.4
Q ss_pred eCCcceEEEEEEEccEEcCCCEEEEccCCCceeeeeeeccCCCcchhhcccccceeeceeecCcCeEEecCCCCcccCCC
Q psy9896 35 IPGLGTTIDTILVNGTLYEGDTVVLAGTDGPIVTQIRSLLMPQPMQELRVKNAYVEYKKIKGTQGVKIAAKDLEKTIAGL 114 (145)
Q Consensus 35 ~kGlG~tidvIl~~G~L~~GD~Iv~~~~~Gpi~tkIRaLl~p~Pl~E~R~k~~~~~~~~v~aa~gVkI~a~~Le~~~AGs 114 (145)
++..|..+-+=++.|+|+.||.+..... |. ..||..|+.++ -.+..+++++.|--=+-+. +|+++..|+
T Consensus 12 ~~~~Gkla~~Rv~sG~l~~g~~v~~~~~-~~-~~kv~~l~~~~-------g~~~~~v~~a~aGdIv~v~--gl~~~~~Gd 80 (85)
T cd03689 12 PAHRDRIAFVRVCSGKFERGMKVKHVRL-GK-EVRLSNPQQFF-------AQDRETVDEAYPGDIIGLV--NPGNFQIGD 80 (85)
T ss_pred CCCCcEEEEEEEECCEEcCCCEEEEcCC-CC-EEEeeEeEEEe-------cCCeeEcCEECCCCEEEEE--CCCCccccC
Confidence 7788999999999999999999976553 32 23555555432 1234555665543333333 578888888
Q ss_pred eEE
Q psy9896 115 NLR 117 (145)
Q Consensus 115 ~l~ 117 (145)
.|-
T Consensus 81 tl~ 83 (85)
T cd03689 81 TLT 83 (85)
T ss_pred Eee
Confidence 763
No 46
>COG0532 InfB Translation initiation factor 2 (IF-2; GTPase) [Translation, ribosomal structure and biogenesis]
Probab=94.76 E-value=0.32 Score=45.08 Aligned_cols=105 Identities=20% Similarity=0.255 Sum_probs=81.1
Q ss_pred HHHHHHHHHhhcCccCc----ceEEEEEEeeeCCcceEEEEEEEccEEcCCCEEEEccCCCcee--eeeeeccCCCcchh
Q psy9896 8 IQYCQTFLKKRLMFKNE----LQATVLEVKAIPGLGTTIDTILVNGTLYEGDTVVLAGTDGPIV--TQIRSLLMPQPMQE 81 (145)
Q Consensus 8 ~gl~Q~~m~~~L~~~~~----~~gtVLEvK~~kGlG~tidvIl~~G~L~~GD~Iv~~~~~Gpi~--tkIRaLl~p~Pl~E 81 (145)
+-=.+.+|+..|....+ ..+.+.+++..++.|..+=+-+.+|+++.|..+.+-- +|... ++|..|-..
T Consensus 393 ied~~~~~~g~l~p~~~e~~~g~~~~r~v~~~~k~g~IaG~~V~~G~ikr~~~v~~~r-d~~vi~~G~i~sLk~~----- 466 (509)
T COG0532 393 IEDVEAAMKGMLEPEKKERVIGLAEVRAVFKLPKVGAIAGCMVTEGVIKRGAPVRVVR-DGVVIYEGEVESLKRF----- 466 (509)
T ss_pred HHHHHHHHHhccchhhhhhcccceEEEEEEEcCCCCeEEEEEEecCEEecCCcEEEEe-CCeEEEeeEEEeeecc-----
Confidence 33457788888876322 6899999999999999999999999999999998853 77777 899888743
Q ss_pred hcccccceeeceeecC--cCeEEecCCCCcccCCCeEEEecCcccHH
Q psy9896 82 LRVKNAYVEYKKIKGT--QGVKIAAKDLEKTIAGLNLRVAKDQDEID 126 (145)
Q Consensus 82 ~R~k~~~~~~~~v~aa--~gVkI~a~~Le~~~AGs~l~vv~~~~e~e 126 (145)
...++++.+. +|++|- |.+++..|+.|+++...+-.+
T Consensus 467 ------kddv~ev~~G~ecgI~i~--~~~di~~gD~le~~~~~~~~r 505 (509)
T COG0532 467 ------KDDVKEVRKGQECGIAIE--NYRDIKEGDILEVFEPVEVKR 505 (509)
T ss_pred ------CccHhHhccCcEEEEEec--CcccCCCCCEEEEEEEEeech
Confidence 3455555544 566666 579999999999997655443
No 47
>cd04091 mtEFG1_II_like mtEFG1_C: C-terminus of mitochondrial Elongation factor G1 (mtEFG1)-like proteins found in eukaryotes. Eukaryotic cells harbor 2 protein synthesis systems: one localized in the cytoplasm, the other in the mitochondria. Most factors regulating mitochondrial protein synthesis are encoded by nuclear genes, translated in the cytoplasm, and then transported to the mitochondria. The eukaryotic system of elongation factor (EF) components is more complex than that in prokaryotes, with both cytoplasmic and mitochondrial elongation factors and multiple isoforms being expressed in certain species. Eukaryotic EF-2 operates in the cytosolic protein synthesis machinery of eukaryotes, EF-Gs in protein synthesis in bacteria. Eukaryotic mtEFG1 proteins show significant homology to bacterial EF-Gs. Mutants in yeast mtEFG1 have impaired mitochondrial protein synthesis, respiratory defects and a tendency to lose mitochondrial DNA. There are two forms of mtEFG present in mammals
Probab=94.60 E-value=0.84 Score=31.04 Aligned_cols=78 Identities=15% Similarity=0.153 Sum_probs=49.3
Q ss_pred eEEEEEEeeeCCcceEEEEEEEccEEcCCCEEEEccCCCceeeeeeeccCCCcchhhcccccceeeceeecCcCeEEecC
Q psy9896 26 QATVLEVKAIPGLGTTIDTILVNGTLYEGDTVVLAGTDGPIVTQIRSLLMPQPMQELRVKNAYVEYKKIKGTQGVKIAAK 105 (145)
Q Consensus 26 ~gtVLEvK~~kGlG~tidvIl~~G~L~~GD~Iv~~~~~Gpi~tkIRaLl~p~Pl~E~R~k~~~~~~~~v~aa~gVkI~a~ 105 (145)
.+.|.=+..++- |..+=+=+++|+|++||.|.....+. .-+|..|....| .+..+++++.|-.=+-+.
T Consensus 2 ~a~vfK~~~~~~-G~i~~~Rv~sG~lk~gd~v~~~~~~~--~~~v~~i~~~~g-------~~~~~~~~~~aGdI~~i~-- 69 (81)
T cd04091 2 VGLAFKLEEGRF-GQLTYMRIYQGKLKKGDTIYNVRTGK--KVRVPRLVRMHS-------NEMEEVEEAGAGDICAIF-- 69 (81)
T ss_pred eEEEEEeecCCC-CCEEEEEEecCEEcCCCEEEEcCCCC--EEEEeEEEEEeC-------CCceEccEECCCCEEEEE--
Confidence 355666677766 99999999999999999998765332 234445532221 134555666554423333
Q ss_pred CCCcccCCCeE
Q psy9896 106 DLEKTIAGLNL 116 (145)
Q Consensus 106 ~Le~~~AGs~l 116 (145)
+++ +..|+.+
T Consensus 70 g~~-~~~Gdtl 79 (81)
T cd04091 70 GID-CASGDTF 79 (81)
T ss_pred CCC-cccCCEe
Confidence 456 7777765
No 48
>cd03699 lepA_II lepA_II: This subfamily represents the domain II of LepA, a GTP-binding protein localized in the cytoplasmic membrane. The N-terminal domain of LepA shares regions of homology to translation factors. In terms of interaction with the ribosome, EF-G, EF-Tu and IF2 have all been demonstrated to interact at overlapping sites on the ribosome. Chemical protection studies demonstrate that they all include the universally conserved alpha-sarcin loop as part of their binding site. These data indicate that LepA may bind to this location on the ribosome as well. LepA has never been observed in archaea, and eukaryl LepA is organellar. LepA is therefore a true bacterial GTPase, found only in the bacterial lineage.
Probab=94.57 E-value=0.72 Score=31.81 Aligned_cols=81 Identities=16% Similarity=0.161 Sum_probs=50.0
Q ss_pred eEEEEEEeeeCCcceEEEEEEEccEEcCCCEEEEccCCCceeeeeeeccCCCcchhhcccccceeeceeecCcCeEEec-
Q psy9896 26 QATVLEVKAIPGLGTTIDTILVNGTLYEGDTVVLAGTDGPIVTQIRSLLMPQPMQELRVKNAYVEYKKIKGTQGVKIAA- 104 (145)
Q Consensus 26 ~gtVLEvK~~kGlG~tidvIl~~G~L~~GD~Iv~~~~~Gpi~tkIRaLl~p~Pl~E~R~k~~~~~~~~v~aa~gVkI~a- 104 (145)
.+.|.=+-.++..|..+=+=+++|+|+.||.+..+..+.+ .++..|.... . .-.+++++.|-.=+-+.+
T Consensus 2 ~~~Vfk~~~d~~~G~i~~~Rv~sG~l~~~~~v~~~~~~~~--~~i~~l~~~~-------~-~~~~~~~~~aGdI~~v~~g 71 (86)
T cd03699 2 RALIFDSWYDPYRGVIALVRVFDGTLKKGDKIRFMSTGKE--YEVEEVGIFR-------P-EMTPTDELSAGQVGYIIAG 71 (86)
T ss_pred EEEEEEeeccCCCCEEEEEEEEcCEEcCCCEEEEecCCCe--EEEEEEEEEC-------C-CccCCceECCCCEEEEEcc
Confidence 4566677778889999999999999999999977653321 3444444211 0 123445554433233322
Q ss_pred C-CCCcccCCCeE
Q psy9896 105 K-DLEKTIAGLNL 116 (145)
Q Consensus 105 ~-~Le~~~AGs~l 116 (145)
. +|+++..|+.+
T Consensus 72 ~~~l~~~~~Gdtl 84 (86)
T cd03699 72 IKTVKDARVGDTI 84 (86)
T ss_pred ccccCccccccEe
Confidence 1 46667777765
No 49
>PRK13351 elongation factor G; Reviewed
Probab=94.56 E-value=0.32 Score=45.27 Aligned_cols=82 Identities=24% Similarity=0.220 Sum_probs=58.7
Q ss_pred ceEEEEEEeeeCCcceEEEEEEEccEEcCCCEEEEccCCCceeeeeeeccCCCcchhhcccccceeeceeecCcCeEEec
Q psy9896 25 LQATVLEVKAIPGLGTTIDTILVNGTLYEGDTVVLAGTDGPIVTQIRSLLMPQPMQELRVKNAYVEYKKIKGTQGVKIAA 104 (145)
Q Consensus 25 ~~gtVLEvK~~kGlG~tidvIl~~G~L~~GD~Iv~~~~~Gpi~tkIRaLl~p~Pl~E~R~k~~~~~~~~v~aa~gVkI~a 104 (145)
..+-|..+..+++.|..+=+=+++|+|+.||++...+.+.. -+|..|+.+. -..+.+++++.|-.=+-|.
T Consensus 306 l~a~VfK~~~d~~~G~i~~~RV~sGtl~~g~~v~~~~~~~~--~~i~~i~~~~-------g~~~~~v~~~~aGdI~~i~- 375 (687)
T PRK13351 306 LLALVFKVQYDPYAGKLTYLRVYSGTLRAGSQLYNGTGGKR--EKVGRLFRLQ-------GNKREEVDRAKAGDIVAVA- 375 (687)
T ss_pred eEEEEEEeeecCCCceEEEEEEeEEEEcCCCEEEeCCCCCc--eEeeeEEEEc-------cCCeeECCccCCCCEEEEE-
Confidence 68899999999999999999999999999999988765432 2333443321 1346777777776555454
Q ss_pred CCCCcccCCCeEE
Q psy9896 105 KDLEKTIAGLNLR 117 (145)
Q Consensus 105 ~~Le~~~AGs~l~ 117 (145)
+|+++..|+.|.
T Consensus 376 -gl~~~~~gdtl~ 387 (687)
T PRK13351 376 -GLKELETGDTLH 387 (687)
T ss_pred -CcccCccCCEEe
Confidence 567777777664
No 50
>PRK10218 GTP-binding protein; Provisional
Probab=94.21 E-value=0.34 Score=45.32 Aligned_cols=83 Identities=12% Similarity=0.087 Sum_probs=59.2
Q ss_pred ceEEEEEEeeeCCcceEEEEEEEccEEcCCCEEEEccCCCce-eeeeeeccCCCcchhhcccccceeeceeecCcCeEEe
Q psy9896 25 LQATVLEVKAIPGLGTTIDTILVNGTLYEGDTVVLAGTDGPI-VTQIRSLLMPQPMQELRVKNAYVEYKKIKGTQGVKIA 103 (145)
Q Consensus 25 ~~gtVLEvK~~kGlG~tidvIl~~G~L~~GD~Iv~~~~~Gpi-~tkIRaLl~p~Pl~E~R~k~~~~~~~~v~aa~gVkI~ 103 (145)
++.-|--+..+++.|..+-.=+++|+|+.||.|.+...+|.. ..||..|+... ..+...++++.|-.=|-|+
T Consensus 205 l~~~V~k~~~d~~~G~i~~gRV~sG~lk~Gd~v~~~~~~~~~~~~rv~~l~~~~-------g~~~~~v~~a~AGdIvai~ 277 (607)
T PRK10218 205 FQMQISQLDYNSYVGVIGIGRIKRGKVKPNQQVTIIDSEGKTRNAKVGKVLGHL-------GLERIETDLAEAGDIVAIT 277 (607)
T ss_pred eEEEEEeeEecCCCcEEEEEEEEeCcCcCCCEEEEecCCCcEeeEEEEEEEEEe-------cCCceECCEEcCCCEEEEE
Confidence 688998888899999999999999999999999987765542 46777776432 1134555665554434444
Q ss_pred cCCCCcccCCCeE
Q psy9896 104 AKDLEKTIAGLNL 116 (145)
Q Consensus 104 a~~Le~~~AGs~l 116 (145)
+|+++..|+.+
T Consensus 278 --gl~~~~~GdTl 288 (607)
T PRK10218 278 --GLGELNISDTV 288 (607)
T ss_pred --CccccccCcEE
Confidence 46666666655
No 51
>cd04089 eRF3_II eRF3_II: domain II of the eukaryotic class II release factor (eRF3). In eukaryotes, translation termination is mediated by two interacting release factors, eRF1 and eRF3, which act as class I and II factors, respectively. eRF1 functions as an omnipotent release factor, decoding all three stop codons and triggering the release of the nascent peptide catalyzed by the ribsome. eRF3 is a GTPase, which enhances the termination efficiency by stimulating the eRF1 activity in a GTP-dependent manner. Sequence comparison of class II release factors with elongation factors shows that eRF3 is more similar to eEF1alpha whereas prokaryote RF3 is more similar to EF-G, implying that their precise function may differ. Only eukaryote RF3s are found in this group. Saccharomyces cerevisiae eRF3 (Sup35p) is a translation termination factor which is divided into three regions N, M and a C-terminal eEF1a-like region essential for translation termination. Sup35NM is a non-pathogenic prion-li
Probab=94.06 E-value=0.56 Score=32.15 Aligned_cols=63 Identities=21% Similarity=0.340 Sum_probs=45.1
Q ss_pred ceEEEEEEEccEEcCCCEEEEccCCCceeeeeeeccCCCcchhhcccccceeeceeecCcCeEEecCCC--CcccCCC
Q psy9896 39 GTTIDTILVNGTLYEGDTVVLAGTDGPIVTQIRSLLMPQPMQELRVKNAYVEYKKIKGTQGVKIAAKDL--EKTIAGL 114 (145)
Q Consensus 39 G~tidvIl~~G~L~~GD~Iv~~~~~Gpi~tkIRaLl~p~Pl~E~R~k~~~~~~~~v~aa~gVkI~a~~L--e~~~AGs 114 (145)
|+++.=-+..|++++||.+.+...+ ..++||.+... .++++++.|..-|.+.=.++ +++..|+
T Consensus 14 g~vv~G~v~~G~i~~G~~v~i~P~~--~~~~V~si~~~-----------~~~~~~a~aGd~v~l~l~~i~~~~v~~G~ 78 (82)
T cd04089 14 GTVVLGKVESGTIKKGDKLLVMPNK--TQVEVLSIYNE-----------DVEVRYARPGENVRLRLKGIEEEDISPGF 78 (82)
T ss_pred CEEEEEEEeeeEEecCCEEEEeCCC--cEEEEEEEEEC-----------CEECCEECCCCEEEEEecCCCHHHCCCCC
Confidence 7888889999999999999998654 57889998742 46677777765555554332 3345555
No 52
>PRK12740 elongation factor G; Reviewed
Probab=94.00 E-value=0.4 Score=44.32 Aligned_cols=82 Identities=24% Similarity=0.236 Sum_probs=56.5
Q ss_pred ceEEEEEEeeeCCcceEEEEEEEccEEcCCCEEEEccCCCceeeeeeeccCCCcchhhcccccceeeceeecCcCeEEec
Q psy9896 25 LQATVLEVKAIPGLGTTIDTILVNGTLYEGDTVVLAGTDGPIVTQIRSLLMPQPMQELRVKNAYVEYKKIKGTQGVKIAA 104 (145)
Q Consensus 25 ~~gtVLEvK~~kGlG~tidvIl~~G~L~~GD~Iv~~~~~Gpi~tkIRaLl~p~Pl~E~R~k~~~~~~~~v~aa~gVkI~a 104 (145)
..+-|..+..+++.|.++=+-+++|+|+.||++..++.++. -+|..|+.+. .+.+.+++++.|..=+-|.
T Consensus 289 l~a~v~k~~~~~~~G~i~~~RV~sG~L~~g~~v~~~~~~~~--~~i~~l~~l~-------g~~~~~v~~~~aGdI~~i~- 358 (668)
T PRK12740 289 LVALVFKTMDDPFVGKLSLVRVYSGTLKKGDTLYNSGTGKK--ERVGRLYRMH-------GKQREEVDEAVAGDIVAVA- 358 (668)
T ss_pred eEEEEEEeeecCCCCcEEEEEEeeeEEcCCCEEEeCCCCCc--EEecceeeec-------CCCccccCccCCCCEEEEe-
Confidence 67889999999999999999999999999999988765432 2333333221 1245666666665544444
Q ss_pred CCCCcccCCCeEE
Q psy9896 105 KDLEKTIAGLNLR 117 (145)
Q Consensus 105 ~~Le~~~AGs~l~ 117 (145)
+++.+..|+.|.
T Consensus 359 -gl~~~~~Gdtl~ 370 (668)
T PRK12740 359 -KLKDAATGDTLC 370 (668)
T ss_pred -ccCccCCCCEEe
Confidence 455666666553
No 53
>PRK14845 translation initiation factor IF-2; Provisional
Probab=93.97 E-value=0.94 Score=45.21 Aligned_cols=116 Identities=18% Similarity=0.176 Sum_probs=80.9
Q ss_pred HHHHHHHHHHhhcCccC-------cceEEEE----EEeeeCCcceEEEEEEEccEEcCCCEEEEccCCCceeeeeeeccC
Q psy9896 7 EIQYCQTFLKKRLMFKN-------ELQATVL----EVKAIPGLGTTIDTILVNGTLYEGDTVVLAGTDGPIVTQIRSLLM 75 (145)
Q Consensus 7 l~gl~Q~~m~~~L~~~~-------~~~gtVL----EvK~~kGlG~tidvIl~~G~L~~GD~Iv~~~~~Gpi~tkIRaLl~ 75 (145)
|+.-.+.||++.+.... -..|.|- .+...+. |..+=|-+.+|+|+.|-.++- .+|.++++|.+|=.
T Consensus 896 Lid~~~~~~~~~~~~~~~~~~~~~~~p~~v~ilp~~vF~~~~-~~IaG~~V~~G~i~~~~~l~r--~~~~~iG~i~Slk~ 972 (1049)
T PRK14845 896 LVEDYTEWVKEEEEKKKRELFEKLIKPGIIRLLPDCIFRRSN-PAIVGVEVLEGTLRVGVTLIK--EDGMKVGTVRSIKD 972 (1049)
T ss_pred HHHHHHHHHHhhhchhhhhhhhcccCceEEEeccceEEeCCC-CeEEEEEEeeCEEecCcEEEe--cCCEEEEEEchHhc
Confidence 34446777877776531 1456655 5666655 899999999999999987754 45777889888863
Q ss_pred CCcchhhcccccceeeceeec--CcCeEEecCCC-CcccCCCeEEEecCcccHHHHHHHHHHHH
Q psy9896 76 PQPMQELRVKNAYVEYKKIKG--TQGVKIAAKDL-EKTIAGLNLRVAKDQDEIDDLCDEVAREL 136 (145)
Q Consensus 76 p~Pl~E~R~k~~~~~~~~v~a--a~gVkI~a~~L-e~~~AGs~l~vv~~~~e~e~~~~ev~~e~ 136 (145)
..+.++++.. .+||+|-++.. .+..+|+.||+--+.+++..+++..+.++
T Consensus 973 -----------~k~~V~ev~~G~ecgI~i~~~~~gr~~~~gD~l~~~i~~~~~~~l~~~~~~~l 1025 (1049)
T PRK14845 973 -----------RGENVKEAKAGKAVAIAIEGAILGRHVDEGETLYVDVPESHVRELYHKYMDRL 1025 (1049)
T ss_pred -----------cCccccEeCCCCEEEEEEecccccCCCCCCCEEEEecCHHHHHHHHHHHHhhc
Confidence 3456677765 46777764311 36799999999988888887776555443
No 54
>PF14578 GTP_EFTU_D4: Elongation factor Tu domain 4; PDB: 1G7R_A 1G7S_A 1G7T_A 1XE1_A.
Probab=93.81 E-value=0.21 Score=35.72 Aligned_cols=76 Identities=18% Similarity=0.202 Sum_probs=49.8
Q ss_pred eEEEEEEeeeCCcceEEEEEEEccEEcCCCEEEEccCCCceeeeeeeccCCCcchhhcccccceeeceeecCcCeEEecC
Q psy9896 26 QATVLEVKAIPGLGTTIDTILVNGTLYEGDTVVLAGTDGPIVTQIRSLLMPQPMQELRVKNAYVEYKKIKGTQGVKIAAK 105 (145)
Q Consensus 26 ~gtVLEvK~~kGlG~tidvIl~~G~L~~GD~Iv~~~~~Gpi~tkIRaLl~p~Pl~E~R~k~~~~~~~~v~aa~gVkI~a~ 105 (145)
+=.||-.-.-.+-...+= =+..|+|+.|..+ +|.-.++|+.|-. +.++++++.+-.=|-|+-.
T Consensus 6 ki~Ilp~~vFr~~~~IvG-~V~~G~ik~G~~l-----~G~~iG~I~sIe~-----------~~k~v~~A~~G~eVai~Ie 68 (81)
T PF14578_consen 6 KIRILPVCVFRQSDAIVG-EVLEGIIKPGYPL-----DGRKIGRIKSIED-----------NGKNVDEAKKGDEVAISIE 68 (81)
T ss_dssp EEEEEEEEEECTCCEEEE-EEEEEEEETT-EE-----CSSCEEEEEEEEE-----------TTEEESEEETT-EEEEEEE
T ss_pred EEEECCcCEEecCCeEEE-EEeeeEEeCCCcc-----CCEEEEEEEEeEE-----------CCcCccccCCCCEEEEEEe
Confidence 334444444455543444 5678999999999 6777999999984 5789999988766655544
Q ss_pred CCCcccCCCeEEE
Q psy9896 106 DLEKTIAGLNLRV 118 (145)
Q Consensus 106 ~Le~~~AGs~l~v 118 (145)
|--++..|+-|||
T Consensus 69 g~~~i~eGDiLyV 81 (81)
T PF14578_consen 69 GPTQIKEGDILYV 81 (81)
T ss_dssp T--TB-TT-EEEE
T ss_pred CCccCCCCCEEeC
Confidence 4347788998886
No 55
>PRK07560 elongation factor EF-2; Reviewed
Probab=93.80 E-value=0.46 Score=44.88 Aligned_cols=82 Identities=20% Similarity=0.242 Sum_probs=59.0
Q ss_pred ceEEEEEEeeeCCcceEEEEEEEccEEcCCCEEEEccCCCceeeeeeeccCCCcchhhcccccceeeceeecCcCeEEec
Q psy9896 25 LQATVLEVKAIPGLGTTIDTILVNGTLYEGDTVVLAGTDGPIVTQIRSLLMPQPMQELRVKNAYVEYKKIKGTQGVKIAA 104 (145)
Q Consensus 25 ~~gtVLEvK~~kGlG~tidvIl~~G~L~~GD~Iv~~~~~Gpi~tkIRaLl~p~Pl~E~R~k~~~~~~~~v~aa~gVkI~a 104 (145)
..+.|.-+..+++.|..+-+=+++|+|+.||.|...+.+. ..+|+.|.... -+....++++.|-.=+-|.
T Consensus 291 ~~a~VfK~~~d~~~G~va~~RV~sGtL~~Gd~v~~~~~~~--~~~v~~i~~~~-------g~~~~~v~~a~AGdIv~i~- 360 (731)
T PRK07560 291 LVMMVTDIIVDPHAGEVATGRVFSGTLRKGQEVYLVGAKK--KNRVQQVGIYM-------GPEREEVEEIPAGNIAAVT- 360 (731)
T ss_pred EEEEEEeeEEcCCCCeEEEEEEEEeEEcCCCEEEEcCCCC--ceEeheehhhh-------cCCCceeeeECCCCEEEEE-
Confidence 5788999999999999999999999999999998766543 24666665431 1234567777665444443
Q ss_pred CCCCcccCCCeEE
Q psy9896 105 KDLEKTIAGLNLR 117 (145)
Q Consensus 105 ~~Le~~~AGs~l~ 117 (145)
+|+++..|+.|.
T Consensus 361 -gl~~~~~GdtL~ 372 (731)
T PRK07560 361 -GLKDARAGETVV 372 (731)
T ss_pred -cccccccCCEEe
Confidence 577777787664
No 56
>PTZ00327 eukaryotic translation initiation factor 2 gamma subunit; Provisional
Probab=92.47 E-value=1.1 Score=40.66 Aligned_cols=67 Identities=21% Similarity=0.223 Sum_probs=51.0
Q ss_pred ceEEEEEEeeeCC--------cceEEEEEEEccEEcCCCEEEEccCC------C-----ceeeeeeeccCCCcchhhccc
Q psy9896 25 LQATVLEVKAIPG--------LGTTIDTILVNGTLYEGDTVVLAGTD------G-----PIVTQIRSLLMPQPMQELRVK 85 (145)
Q Consensus 25 ~~gtVLEvK~~kG--------lG~tidvIl~~G~L~~GD~Iv~~~~~------G-----pi~tkIRaLl~p~Pl~E~R~k 85 (145)
++-.|-.+...+| .|+++.--+.+|++++||.|.+...+ | |+.++||+|-.
T Consensus 243 ~r~~Idr~F~V~~~g~~~~~~~GtVv~G~v~~G~l~~Gd~v~i~P~~~~~~~~g~~~~~~~~~~VksI~~---------- 312 (460)
T PTZ00327 243 PRMIVIRSFDVNKPGEDIENLKGGVAGGSILQGVLKVGDEIEIRPGIISKDSGGEFTCRPIRTRIVSLFA---------- 312 (460)
T ss_pred cEEEEEEEEeecccCCcccCCceEEEEEEEeeceEecCCEEEEccCcccccccCccccccceEEEEEEEE----------
Confidence 5667777765554 89999999999999999999998532 2 46789999985
Q ss_pred ccceeeceeecCcCeEE
Q psy9896 86 NAYVEYKKIKGTQGVKI 102 (145)
Q Consensus 86 ~~~~~~~~v~aa~gVkI 102 (145)
...+++++.|-.=|-|
T Consensus 313 -~~~~v~~a~aG~~vai 328 (460)
T PTZ00327 313 -ENNELQYAVPGGLIGV 328 (460)
T ss_pred -CCeECCEEcCCCEEEE
Confidence 4677788877654444
No 57
>TIGR00487 IF-2 translation initiation factor IF-2. This model discriminates eubacterial (and mitochondrial) translation initiation factor 2 (IF-2), encoded by the infB gene in bacteria, from similar proteins in the Archaea and Eukaryotes. In the bacteria and in organelles, the initiator tRNA is charged with N-formyl-Met instead of Met. This translation factor acts in delivering the initator tRNA to the ribosome. It is one of a number of GTP-binding translation factors recognized by the pfam model GTP_EFTU.
Probab=92.18 E-value=1.1 Score=41.69 Aligned_cols=100 Identities=21% Similarity=0.247 Sum_probs=73.3
Q ss_pred HHHHHHHHHHhhcCccCc----ceEEEEEEeeeCCcceEEEEEEEccEEcCCCEEEEccCCCce--eeeeeeccCCCcch
Q psy9896 7 EIQYCQTFLKKRLMFKNE----LQATVLEVKAIPGLGTTIDTILVNGTLYEGDTVVLAGTDGPI--VTQIRSLLMPQPMQ 80 (145)
Q Consensus 7 l~gl~Q~~m~~~L~~~~~----~~gtVLEvK~~kGlG~tidvIl~~G~L~~GD~Iv~~~~~Gpi--~tkIRaLl~p~Pl~ 80 (145)
|+.-..++|+..|..... .++.|+.+......|..+-+-+.+|+++.|..+.+-- +|-+ .++|..|-.
T Consensus 471 l~d~~~~~~~~~~~~~~~~~~~g~a~v~~vf~~~~~~~iaG~~V~~G~i~~~~~~~v~r-~~~~i~~g~i~sl~~----- 544 (587)
T TIGR00487 471 LIDEIRAAMKGMLDPEYEEEIIGQAEVRQVFNVPKIGNIAGCYVTEGVIKRGNPLRVIR-DGVVIFEGEIDSLKR----- 544 (587)
T ss_pred HHHHHHHHHHhccCcceeeEeeeeEEEEEEEecCCCCEEEEEEEecCEEecCCeEEEEe-CCEEEEeccchHhhc-----
Confidence 344456788887765421 6899999999999999999999999999999997743 4432 255555542
Q ss_pred hhcccccceeeceeec--CcCeEEecCCCCcccCCCeEEEec
Q psy9896 81 ELRVKNAYVEYKKIKG--TQGVKIAAKDLEKTIAGLNLRVAK 120 (145)
Q Consensus 81 E~R~k~~~~~~~~v~a--a~gVkI~a~~Le~~~AGs~l~vv~ 120 (145)
..+.++++.. .||+.|- |+++...|+.++.+.
T Consensus 545 ------~k~~v~ev~~g~ecgi~~~--~~~~~~~gD~i~~~~ 578 (587)
T TIGR00487 545 ------FKDDVKEVSNGYECGIGIK--NYNDIKEGDIIEAFE 578 (587)
T ss_pred ------cCccccEECCCCEEEEEEe--ccccCCCCCEEEEEE
Confidence 2345666663 5677766 679999999999885
No 58
>TIGR03680 eif2g_arch translation initiation factor 2 subunit gamma. eIF-2 functions in the early steps of protein synthesis by forming a ternary complex with GTP and initiator tRNA.
Probab=91.60 E-value=1.5 Score=38.41 Aligned_cols=67 Identities=24% Similarity=0.246 Sum_probs=50.6
Q ss_pred ceEEEEEEeeeCC--------cceEEEEEEEccEEcCCCEEEEccC-----CC-----ceeeeeeeccCCCcchhhcccc
Q psy9896 25 LQATVLEVKAIPG--------LGTTIDTILVNGTLYEGDTVVLAGT-----DG-----PIVTQIRSLLMPQPMQELRVKN 86 (145)
Q Consensus 25 ~~gtVLEvK~~kG--------lG~tidvIl~~G~L~~GD~Iv~~~~-----~G-----pi~tkIRaLl~p~Pl~E~R~k~ 86 (145)
+.-.|-++...+| .|+++.--+.+|+|++||.|.+... +| |+.++||+|-.
T Consensus 206 ~~~~I~~~f~v~~~g~~~~~~~G~Vv~G~v~~G~i~~gd~v~i~P~~~~~~~g~~~~~~~~~~V~sI~~----------- 274 (406)
T TIGR03680 206 PLMYVARSFDVNKPGTPPEKLKGGVIGGSLIQGKLKVGDEIEIRPGIKVEKGGKTKWEPIYTEITSLRA----------- 274 (406)
T ss_pred cEEEEEEEEeecCCCccccCCceeEEEEEEEeCEEeCCCEEEEccCccccccccccccccceEEeEEEE-----------
Confidence 6778888887666 5668888899999999999999743 12 56789999985
Q ss_pred cceeeceeecCcCeEE
Q psy9896 87 AYVEYKKIKGTQGVKI 102 (145)
Q Consensus 87 ~~~~~~~v~aa~gVkI 102 (145)
...+++++.|..=|-|
T Consensus 275 ~~~~~~~a~~G~~v~i 290 (406)
T TIGR03680 275 GGYKVEEARPGGLVGV 290 (406)
T ss_pred CCEECCEEcCCCEEEE
Confidence 3567777777554544
No 59
>PRK04000 translation initiation factor IF-2 subunit gamma; Validated
Probab=91.59 E-value=2.1 Score=37.75 Aligned_cols=68 Identities=22% Similarity=0.195 Sum_probs=51.1
Q ss_pred ceEEEEEEeeeCC--------cceEEEEEEEccEEcCCCEEEEccCC-------C---ceeeeeeeccCCCcchhhcccc
Q psy9896 25 LQATVLEVKAIPG--------LGTTIDTILVNGTLYEGDTVVLAGTD-------G---PIVTQIRSLLMPQPMQELRVKN 86 (145)
Q Consensus 25 ~~gtVLEvK~~kG--------lG~tidvIl~~G~L~~GD~Iv~~~~~-------G---pi~tkIRaLl~p~Pl~E~R~k~ 86 (145)
+.-.|.++...+| .|+++.--+..|+|++||.|.++... | |+.++||+|-.
T Consensus 211 ~r~~I~~~f~v~~~g~~~~~~~G~Vv~G~v~~G~l~~gd~v~i~P~~~~~~~~~~~~~~~~~~VksI~~----------- 279 (411)
T PRK04000 211 PRMYVARSFDVNKPGTPPEKLKGGVIGGSLIQGVLKVGDEIEIRPGIKVEEGGKTKWEPITTKIVSLRA----------- 279 (411)
T ss_pred ceEEEEeeeeecCCCccccCCcceEEEEEEEeCEEecCCEEEEcCCcceecccccccccceEEEeEEEE-----------
Confidence 6788888876666 45688899999999999999998543 1 56789999985
Q ss_pred cceeeceeecCcCeEEe
Q psy9896 87 AYVEYKKIKGTQGVKIA 103 (145)
Q Consensus 87 ~~~~~~~v~aa~gVkI~ 103 (145)
...+++++.|-.=|-|.
T Consensus 280 ~~~~~~~a~~G~~v~i~ 296 (411)
T PRK04000 280 GGEKVEEARPGGLVGVG 296 (411)
T ss_pred CCEECCEEcCCCEEEEE
Confidence 35667777765554443
No 60
>PRK05306 infB translation initiation factor IF-2; Validated
Probab=90.74 E-value=3.3 Score=40.13 Aligned_cols=100 Identities=19% Similarity=0.220 Sum_probs=74.6
Q ss_pred HHHHHHHHHHhhcCccC--c--ceEEEEEEeeeCCcceEEEEEEEccEEcCCCEEEEccCCCce--eeeeeeccCCCcch
Q psy9896 7 EIQYCQTFLKKRLMFKN--E--LQATVLEVKAIPGLGTTIDTILVNGTLYEGDTVVLAGTDGPI--VTQIRSLLMPQPMQ 80 (145)
Q Consensus 7 l~gl~Q~~m~~~L~~~~--~--~~gtVLEvK~~kGlG~tidvIl~~G~L~~GD~Iv~~~~~Gpi--~tkIRaLl~p~Pl~ 80 (145)
|+.-.+.+|...|.... . ..+.|.++......|..+-+.+.+|+++.|..+.+-- +|-+ .++|..|-.
T Consensus 673 l~d~~~~~~~~~l~~~~~e~~~g~a~v~~vF~~~k~~~iaGc~V~~G~i~~~~~~rv~R-~~~~i~~g~i~slk~----- 746 (787)
T PRK05306 673 LIDDVKAAMSGMLEPEYEEEIIGQAEVREVFKVSKVGTIAGCMVTEGKIKRNAKVRVLR-DGVVIYEGELESLKR----- 746 (787)
T ss_pred HHHHHHHHHhhccCchhheeeeeeEEEEEEEecCCCCeEEEEEEeeCEEecCCeEEEEe-CCEEEEEeEEehhcc-----
Confidence 44456677777776532 2 6899999999999999999999999999999988764 4542 467766652
Q ss_pred hhcccccceeeceeec--CcCeEEecCCCCcccCCCeEEEec
Q psy9896 81 ELRVKNAYVEYKKIKG--TQGVKIAAKDLEKTIAGLNLRVAK 120 (145)
Q Consensus 81 E~R~k~~~~~~~~v~a--a~gVkI~a~~Le~~~AGs~l~vv~ 120 (145)
....++++.. -||+.+- |+++...|+.|..+.
T Consensus 747 ------~k~~v~ev~~g~ecgi~~~--~~~d~~~gD~ie~~~ 780 (787)
T PRK05306 747 ------FKDDVKEVRAGYECGIGLE--NYNDIKEGDIIEAYE 780 (787)
T ss_pred ------cCcCccEeCCCCEEEEEee--ccccCCCCCEEEEEE
Confidence 2345666644 5677776 679999999999885
No 61
>cd04090 eEF2_II_snRNP Loc2 eEF2_C_snRNP, cd01514/C terminal domain:eEF2_C_snRNP: This family includes C-terminal portion of the spliceosomal human 116kD U5 small nuclear ribonucleoprotein (snRNP) protein (U5-116 kD) and, its yeast counterpart Snu114p. This domain is homologous to domain II of the eukaryotic translational elongation factor EF-2. Yeast Snu114p is essential for cell viability and for splicing in vivo. U5-116 kD binds GTP. Experiments suggest that GTP binding and probably GTP hydrolysis is important for the function of the U5-116 kD/Snu114p. In complex with GTP, EF-2 promotes the translocation step of translation. During translocation the peptidyl-tRNA is moved from the A site to the P site, the uncharged tRNA from the P site to the E-site and, the mRNA is shifted one codon relative to the ribosome.
Probab=90.37 E-value=4.1 Score=28.48 Aligned_cols=34 Identities=18% Similarity=0.154 Sum_probs=24.5
Q ss_pred EEEEeeeCCc-ceEEEEEEEccEEcCCCEEEEccC
Q psy9896 29 VLEVKAIPGL-GTTIDTILVNGTLYEGDTVVLAGT 62 (145)
Q Consensus 29 VLEvK~~kGl-G~tidvIl~~G~L~~GD~Iv~~~~ 62 (145)
|.=+..++.. |..+=+=+++|+|+.||.|.+++.
T Consensus 5 VfK~~~~~~~~~~la~~RV~sGtl~~g~~v~~~~~ 39 (94)
T cd04090 5 VTKLYSTSDGGSFWAFGRIYSGTIKKGQKVKVLGE 39 (94)
T ss_pred EEeeeecCCCCEEEEEEEEeeCeEcCCCEEEEECC
Confidence 3333445555 556778899999999999988653
No 62
>cd03688 eIF2_gamma_II eIF2_gamma_II: this subfamily represents the domain II of the gamma subunit of eukaryotic translation initiation factor 2 (eIF2-gamma) found in Eukaryota and Archaea. eIF2 is a G protein that delivers the methionyl initiator tRNA to the small ribosomal subunit and releases it upon GTP hydrolysis after the recognition of the initiation codon. eIF2 is composed three subunits, alpha, beta and gamma. Subunit gamma shows strongest conservation, and it confers both tRNA binding and GTP/GDP binding.
Probab=90.07 E-value=1.9 Score=32.75 Aligned_cols=52 Identities=23% Similarity=0.198 Sum_probs=39.9
Q ss_pred eCCcceEEEEEEEccEEcCCCEEEEc---------c-CCCceeeeeeeccCCCcchhhcccccceeeceeecC
Q psy9896 35 IPGLGTTIDTILVNGTLYEGDTVVLA---------G-TDGPIVTQIRSLLMPQPMQELRVKNAYVEYKKIKGT 97 (145)
Q Consensus 35 ~kGlG~tidvIl~~G~L~~GD~Iv~~---------~-~~Gpi~tkIRaLl~p~Pl~E~R~k~~~~~~~~v~aa 97 (145)
+++.|.++.==+.+|+||+||.|-.- + ..-|+.|+|..|... .+.++++.|-
T Consensus 24 ~~l~GgVigGsi~~G~lkvgdeIEIrpg~~~~~~~~~~~~pi~T~I~sl~~~-----------~~~l~~a~pG 85 (113)
T cd03688 24 DDLKGGVAGGSLLQGVLKVGDEIEIRPGIVVKDEGKIKCRPIFTKIVSLKAE-----------NNDLQEAVPG 85 (113)
T ss_pred ccceeeEEEEEEEEEEEeCCCEEEEeeceeeecCCCeeEEEEEEEEEEEEec-----------CccccEEeCC
Confidence 34999999999999999999999433 1 124889999998853 5677777773
No 63
>TIGR02034 CysN sulfate adenylyltransferase, large subunit. Homologous to this E.coli activation pathway are nodPQH gene products found among members of the Rhizobiaceae family. These gene products have been shown to exhibit ATP sulfurase and APS kinase activity, yet are involved in Nod factor sulfation, and sulfation of other macromolecules. With members of the Rhizobiaceae family, nodQ often appears as a fusion of cysN (large subunit of ATP sulfurase) and cysC (APS kinase).
Probab=89.30 E-value=1 Score=39.55 Aligned_cols=60 Identities=17% Similarity=0.220 Sum_probs=44.2
Q ss_pred EEEccEEcCCCEEEEccCCCceeeeeeeccCCCcchhhcccccceeeceeecCcCeEEecCCCCcccCCCeEE
Q psy9896 45 ILVNGTLYEGDTVVLAGTDGPIVTQIRSLLMPQPMQELRVKNAYVEYKKIKGTQGVKIAAKDLEKTIAGLNLR 117 (145)
Q Consensus 45 Il~~G~L~~GD~Iv~~~~~Gpi~tkIRaLl~p~Pl~E~R~k~~~~~~~~v~aa~gVkI~a~~Le~~~AGs~l~ 117 (145)
-+..|+|++||.|.+... ...++||+|-. ...+++++.|..-|-+.-.+.+++..|+-+-
T Consensus 238 ~v~~G~l~~gd~v~i~P~--~~~~~VksI~~-----------~~~~~~~a~~G~~v~l~l~~~~~i~rG~vl~ 297 (406)
T TIGR02034 238 TIASGSVHVGDEVVVLPS--GRSSRVARIVT-----------FDGDLEQARAGQAVTLTLDDEIDISRGDLLA 297 (406)
T ss_pred EEecceeecCCEEEEeCC--CcEEEEEEEEE-----------CCcccCEeCCCCEEEEEECCccccCCccEEE
Confidence 367999999999999753 36799999974 3456777777776777665555667787543
No 64
>COG5258 GTPBP1 GTPase [General function prediction only]
Probab=88.52 E-value=2 Score=39.68 Aligned_cols=79 Identities=27% Similarity=0.374 Sum_probs=58.7
Q ss_pred ceEEEEEEeeeCCcceEEEEEEEccEEcCCCEEEEcc-CCCce-eeeeeeccCCCcchhhcccccceeeceeecCcCeEE
Q psy9896 25 LQATVLEVKAIPGLGTTIDTILVNGTLYEGDTVVLAG-TDGPI-VTQIRSLLMPQPMQELRVKNAYVEYKKIKGTQGVKI 102 (145)
Q Consensus 25 ~~gtVLEvK~~kGlG~tidvIl~~G~L~~GD~Iv~~~-~~Gpi-~tkIRaLl~p~Pl~E~R~k~~~~~~~~v~aa~gVkI 102 (145)
+---|=+.-...|.|+++.=-++.|+|+.||++.+|. .+|.. .++||++-+ ++-++++++|..=+-|
T Consensus 349 flmYId~iYsVtGVGtVvsGsV~~G~l~~gd~vllGP~~~G~fr~v~vkSIem-----------h~~rvdsa~aG~iig~ 417 (527)
T COG5258 349 FLMYIDKIYSVTGVGTVVSGSVKSGILHVGDTVLLGPFKDGKFREVVVKSIEM-----------HHYRVDSAKAGSIIGI 417 (527)
T ss_pred eEEEEEeeEEEeeeEEEEeeeEEeeeeccCCEEEEccCCCCcEEEEEEEEEEE-----------eeEEeccccCCcEEEE
Confidence 5677888899999999999999999999999999986 45554 456777765 4677777777765555
Q ss_pred ecCCCCc--ccCCC
Q psy9896 103 AAKDLEK--TIAGL 114 (145)
Q Consensus 103 ~a~~Le~--~~AGs 114 (145)
+-.+.++ +--|.
T Consensus 418 Al~gv~~e~lerGM 431 (527)
T COG5258 418 ALKGVEKEELERGM 431 (527)
T ss_pred EecccCHHHHhcce
Confidence 5444444 44454
No 65
>cd03700 eEF2_snRNP_like_II EF2_snRNP_like_II: this subfamily represents domain II of elongation factor (EF) EF-2 found eukaryotes and archaea and, the C-terminal portion of the spliceosomal human 116kD U5 small nuclear ribonucleoprotein (snRNP) protein (U5-116 kD) and, its yeast counterpart Snu114p. During the process of peptide synthesis and tRNA site changes, the ribosome is moved along the mRNA a distance equal to one codon with the addition of each amino acid. This translocation step is catalyzed by EF-2_GTP, which is hydrolyzed to provide the required energy. Thus, this action releases the uncharged tRNA from the P site and transfers the newly formed peptidyl-tRNA from the A site to the P site. Yeast Snu114p is essential for cell viability and for splicing in vivo. U5-116 kD binds GTP. Experiments suggest that GTP binding and probably GTP hydrolysis is important for the function of the U5-116 kD/Snu114p.
Probab=88.16 E-value=5 Score=27.93 Aligned_cols=30 Identities=23% Similarity=0.301 Sum_probs=24.7
Q ss_pred EeeeC-CcceEEEEEEEccEEcCCCEEEEcc
Q psy9896 32 VKAIP-GLGTTIDTILVNGTLYEGDTVVLAG 61 (145)
Q Consensus 32 vK~~k-GlG~tidvIl~~G~L~~GD~Iv~~~ 61 (145)
+..++ +-|..+=+=++.|+|+.||.+....
T Consensus 8 i~~~~~~~g~la~~RV~sGtl~~g~~v~~~~ 38 (93)
T cd03700 8 MVPTPDKGGFIAFGRVFSGTIRKGQKVRVLG 38 (93)
T ss_pred CeECCCCCEEEEEEEEeeCeEeCCCEEEEEC
Confidence 34556 7888899999999999999996654
No 66
>CHL00189 infB translation initiation factor 2; Provisional
Probab=88.11 E-value=6 Score=38.23 Aligned_cols=100 Identities=13% Similarity=0.147 Sum_probs=73.0
Q ss_pred HHHHHHHHHHhhcCccCc----ceEEEEEEeeeCCcceEEEEEEEccEEcCCCEEEEccCCCce-eeeeeeccCCCcchh
Q psy9896 7 EIQYCQTFLKKRLMFKNE----LQATVLEVKAIPGLGTTIDTILVNGTLYEGDTVVLAGTDGPI-VTQIRSLLMPQPMQE 81 (145)
Q Consensus 7 l~gl~Q~~m~~~L~~~~~----~~gtVLEvK~~kGlG~tidvIl~~G~L~~GD~Iv~~~~~Gpi-~tkIRaLl~p~Pl~E 81 (145)
|+.-...+|+..|..... +++.|..+..... |..+-+.+.+|+++.|..+-+---+..+ .++|..|-.
T Consensus 628 lid~~~~~~~~~l~~~~~~~~~g~a~v~~vF~~~k-~~iaGc~V~~G~i~~~~~~rv~R~~~~i~~G~i~slk~------ 700 (742)
T CHL00189 628 LLEYIEALMEDLLDPEYKKVPIGEAEVKTVFPLAK-RFVAGCRVTEGKITKNALIKVIRENKLIYEGKITSLKR------ 700 (742)
T ss_pred HHHHHHHHHhhccCceeeeeeceeEEeeEEEecCC-CEEEEEEEecCEEecCCeEEEEeCCeEEEEeEEhhHhh------
Confidence 444567788888865432 6888999988876 9999999999999999998775444443 366666552
Q ss_pred hcccccceeeceee--cCcCeEEecCCCCcccCCCeEEEec
Q psy9896 82 LRVKNAYVEYKKIK--GTQGVKIAAKDLEKTIAGLNLRVAK 120 (145)
Q Consensus 82 ~R~k~~~~~~~~v~--aa~gVkI~a~~Le~~~AGs~l~vv~ 120 (145)
....++++. -.||+.|- ++++...|+.+..+.
T Consensus 701 -----~k~~v~ev~~g~ecgi~i~--~~~d~~~gD~ie~y~ 734 (742)
T CHL00189 701 -----VKEDVEEAQEGNECGIFIE--EFQLWQSGDKIHAFE 734 (742)
T ss_pred -----cCccccEeCCCCEEEEEee--CCCCCCcCCEEEEEE
Confidence 234566664 45777776 689999999888774
No 67
>TIGR00484 EF-G translation elongation factor EF-G. After peptide bond formation, this elongation factor of bacteria and organelles catalyzes the translocation of the tRNA-mRNA complex, with its attached nascent polypeptide chain, from the A-site to the P-site of the ribosome. Every completed bacterial genome has at least one copy, but some species have additional EF-G-like proteins. The closest homolog to canonical (e.g. E. coli) EF-G in the spirochetes clusters as if it is derived from mitochondrial forms, while a more distant second copy is also present. Synechocystis PCC6803 has a few proteins more closely related to EF-G than to any other characterized protein. Two of these resemble E. coli EF-G more closely than does the best match from the spirochetes; it may be that both function as authentic EF-G.
Probab=87.34 E-value=4.6 Score=37.89 Aligned_cols=82 Identities=20% Similarity=0.200 Sum_probs=55.2
Q ss_pred ceEEEEEEeeeCCcceEEEEEEEccEEcCCCEEEEccCCCceeeeeeeccCCCcchhhcccccceeeceeecCcCeEEec
Q psy9896 25 LQATVLEVKAIPGLGTTIDTILVNGTLYEGDTVVLAGTDGPIVTQIRSLLMPQPMQELRVKNAYVEYKKIKGTQGVKIAA 104 (145)
Q Consensus 25 ~~gtVLEvK~~kGlG~tidvIl~~G~L~~GD~Iv~~~~~Gpi~tkIRaLl~p~Pl~E~R~k~~~~~~~~v~aa~gVkI~a 104 (145)
+.+.|.-+..++..|...=+=+++|+|+.||+|...... . ..+|..|+.+. -..+..++++.|-.=+-|.
T Consensus 308 l~a~VfK~~~d~~~G~i~~~RV~sGtL~~g~~v~~~~~~-~-~~~i~~l~~~~-------g~~~~~v~~~~aGdI~~i~- 377 (689)
T TIGR00484 308 FSALAFKVATDPFVGQLTFVRVYSGVLKSGSYVKNSRKN-K-KERVGRLVKMH-------ANNREEIKEVRAGDICAAI- 377 (689)
T ss_pred eEEEEEEeeecCCCCeEEEEEEEEeEEcCCCEEEeCCCC-c-eEEecceEEee-------cCCcccccccCCCCEEEEc-
Confidence 678899999999999999999999999999999754322 1 12344444331 1234566666555444444
Q ss_pred CCCCcccCCCeEE
Q psy9896 105 KDLEKTIAGLNLR 117 (145)
Q Consensus 105 ~~Le~~~AGs~l~ 117 (145)
+|+++..|+.|.
T Consensus 378 -gl~~~~~gdtl~ 389 (689)
T TIGR00484 378 -GLKDTTTGDTLC 389 (689)
T ss_pred -CCCCCCCCCEEe
Confidence 466677777664
No 68
>PRK05124 cysN sulfate adenylyltransferase subunit 1; Provisional
Probab=86.74 E-value=1.4 Score=39.65 Aligned_cols=61 Identities=13% Similarity=0.134 Sum_probs=44.7
Q ss_pred EEEEccEEcCCCEEEEccCCCceeeeeeeccCCCcchhhcccccceeeceeecCcCeEEecCCCCcccCCCeEE
Q psy9896 44 TILVNGTLYEGDTVVLAGTDGPIVTQIRSLLMPQPMQELRVKNAYVEYKKIKGTQGVKIAAKDLEKTIAGLNLR 117 (145)
Q Consensus 44 vIl~~G~L~~GD~Iv~~~~~Gpi~tkIRaLl~p~Pl~E~R~k~~~~~~~~v~aa~gVkI~a~~Le~~~AGs~l~ 117 (145)
=-+..|+|++||+|.++..+ ..++||.|.. ...+++++.|..-|-+...+-.++..|+-|-
T Consensus 265 G~V~sG~l~~Gd~v~i~P~~--~~~~VksI~~-----------~~~~v~~A~aG~~V~l~L~~~~~i~rG~VL~ 325 (474)
T PRK05124 265 GTLASGVVKVGDRVKVLPSG--KESNVARIVT-----------FDGDLEEAFAGEAITLVLEDEIDISRGDLLV 325 (474)
T ss_pred EEEEeEEEecCCEEEEecCC--ceEEEEEEEE-----------cCccccCcCCCCEEEEEeCCccccCCccEEE
Confidence 35789999999999998643 4689999984 3456677777777777666555667787444
No 69
>PRK12739 elongation factor G; Reviewed
Probab=85.50 E-value=6.3 Score=37.08 Aligned_cols=82 Identities=21% Similarity=0.180 Sum_probs=55.4
Q ss_pred ceEEEEEEeeeCCcceEEEEEEEccEEcCCCEEEEccCCCceeeeeeeccCCCcchhhcccccceeeceeecCcCeEEec
Q psy9896 25 LQATVLEVKAIPGLGTTIDTILVNGTLYEGDTVVLAGTDGPIVTQIRSLLMPQPMQELRVKNAYVEYKKIKGTQGVKIAA 104 (145)
Q Consensus 25 ~~gtVLEvK~~kGlG~tidvIl~~G~L~~GD~Iv~~~~~Gpi~tkIRaLl~p~Pl~E~R~k~~~~~~~~v~aa~gVkI~a 104 (145)
+.+-|.-+..++..|...=+=+++|+|+.||+|....... .-+|..|..+. -+.+..++++.|-.=+-|.
T Consensus 307 l~a~VfK~~~d~~~G~i~~~RV~sGtL~~g~~v~~~~~~~--~~~v~~l~~~~-------g~~~~~v~~~~aGdI~~i~- 376 (691)
T PRK12739 307 FAALAFKIMTDPFVGRLTFFRVYSGVLESGSYVLNTTKGK--KERIGRLLQMH-------ANKREEIKEVYAGDIAAAV- 376 (691)
T ss_pred eEEEEEEeeeCCCCCeEEEEEEeeeEEcCCCEEEeCCCCc--eEEecceEEEe-------cCCcccccccCCCCEEEEe-
Confidence 5778888889999999999999999999999997544322 12344443221 1245667776665544455
Q ss_pred CCCCcccCCCeEE
Q psy9896 105 KDLEKTIAGLNLR 117 (145)
Q Consensus 105 ~~Le~~~AGs~l~ 117 (145)
+|+++..|+.|.
T Consensus 377 -gl~~~~~gdtl~ 388 (691)
T PRK12739 377 -GLKDTTTGDTLC 388 (691)
T ss_pred -CCCcccCCCEEe
Confidence 466677777664
No 70
>PRK05506 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional
Probab=85.29 E-value=2.2 Score=39.50 Aligned_cols=61 Identities=16% Similarity=0.216 Sum_probs=44.0
Q ss_pred EEEEccEEcCCCEEEEccCCCceeeeeeeccCCCcchhhcccccceeeceeecCcCeEEecCCCCcccCCCeEE
Q psy9896 44 TILVNGTLYEGDTVVLAGTDGPIVTQIRSLLMPQPMQELRVKNAYVEYKKIKGTQGVKIAAKDLEKTIAGLNLR 117 (145)
Q Consensus 44 vIl~~G~L~~GD~Iv~~~~~Gpi~tkIRaLl~p~Pl~E~R~k~~~~~~~~v~aa~gVkI~a~~Le~~~AGs~l~ 117 (145)
--+..|+|++||++.+...+ ..++||+|.. ....++++.|..-|-|.-.+-.++..|+-+-
T Consensus 261 G~v~~G~l~~gd~v~i~P~~--~~~~VksI~~-----------~~~~~~~a~aG~~v~i~l~~~~~i~rG~vL~ 321 (632)
T PRK05506 261 GTVASGVVRPGDEVVVLPSG--KTSRVKRIVT-----------PDGDLDEAFAGQAVTLTLADEIDISRGDMLA 321 (632)
T ss_pred EEEecceeecCCEEEEcCCC--ceEEEEEEEE-----------CCceeCEEcCCCeEEEEecCccccCCccEEe
Confidence 45789999999999997532 6799999985 3556777877776666655545556776443
No 71
>COG3276 SelB Selenocysteine-specific translation elongation factor [Translation, ribosomal structure and biogenesis]
Probab=84.65 E-value=3.6 Score=37.74 Aligned_cols=47 Identities=19% Similarity=0.393 Sum_probs=37.8
Q ss_pred eEEEEEEeeeCCcceEEEEEEEccEEcCCCEEEEccCCCceeeeeeecc
Q psy9896 26 QATVLEVKAIPGLGTTIDTILVNGTLYEGDTVVLAGTDGPIVTQIRSLL 74 (145)
Q Consensus 26 ~gtVLEvK~~kGlG~tidvIl~~G~L~~GD~Iv~~~~~Gpi~tkIRaLl 74 (145)
.=-|==+...||.|++++=-+-.|+.++||.+.+...+- ..+||+|-
T Consensus 173 ri~IDraFtVKGvGTVVtGtv~sG~V~v~D~L~l~p~~k--~v~VRsIq 219 (447)
T COG3276 173 RIAIDRAFTVKGVGTVVTGTVLSGEVKVGDKLYLSPINK--EVRVRSIQ 219 (447)
T ss_pred EEEEeeEEEeccccEEEEeEEeeeeEEECCEEEEecCCC--eEEEEeee
Confidence 434456788999999999999999999999999986663 34677766
No 72
>PRK00007 elongation factor G; Reviewed
Probab=83.89 E-value=6.7 Score=36.97 Aligned_cols=82 Identities=20% Similarity=0.200 Sum_probs=55.8
Q ss_pred ceEEEEEEeeeCCcceEEEEEEEccEEcCCCEEEEccCCCceeeeeeeccCCCcchhhcccccceeeceeecCcCeEEec
Q psy9896 25 LQATVLEVKAIPGLGTTIDTILVNGTLYEGDTVVLAGTDGPIVTQIRSLLMPQPMQELRVKNAYVEYKKIKGTQGVKIAA 104 (145)
Q Consensus 25 ~~gtVLEvK~~kGlG~tidvIl~~G~L~~GD~Iv~~~~~Gpi~tkIRaLl~p~Pl~E~R~k~~~~~~~~v~aa~gVkI~a 104 (145)
+.+.|.-+..++..|..+=+=+++|+|+.||.+.....+. ..+|..|+.+. -..+.+++++.|-.=+-|.
T Consensus 310 l~a~VfK~~~d~~~G~ia~~RV~sGtl~~g~~v~~~~~~~--~eki~~l~~~~-------g~~~~~v~~~~aGdI~~i~- 379 (693)
T PRK00007 310 FSALAFKIMTDPFVGKLTFFRVYSGVLESGSYVLNSTKGK--KERIGRILQMH-------ANKREEIKEVRAGDIAAAV- 379 (693)
T ss_pred eEEEEEEeeecCCCCcEEEEEEeeeEEcCCCEEEeCCCCc--eeEeceeEEec-------cCCcccccccCCCcEEEEe-
Confidence 5788998989999999999999999999999997543221 23555555432 1245666776664444443
Q ss_pred CCCCcccCCCeEE
Q psy9896 105 KDLEKTIAGLNLR 117 (145)
Q Consensus 105 ~~Le~~~AGs~l~ 117 (145)
+|+++..|+.|.
T Consensus 380 -gl~~~~~GdtL~ 391 (693)
T PRK00007 380 -GLKDTTTGDTLC 391 (693)
T ss_pred -CCccCCcCCEee
Confidence 466667776663
No 73
>COG5256 TEF1 Translation elongation factor EF-1alpha (GTPase) [Translation, ribosomal structure and biogenesis]
Probab=81.43 E-value=12 Score=34.30 Aligned_cols=51 Identities=24% Similarity=0.404 Sum_probs=46.1
Q ss_pred cceEEEEEEeeeCCcceEEEEEEEccEEcCCCEEEEccCCCceeeeeeeccCC
Q psy9896 24 ELQATVLEVKAIPGLGTTIDTILVNGTLYEGDTVVLAGTDGPIVTQIRSLLMP 76 (145)
Q Consensus 24 ~~~gtVLEvK~~kGlG~tidvIl~~G~L~~GD~Iv~~~~~Gpi~tkIRaLl~p 76 (145)
.+..+|.++-.+.|.|++.-==+-.|.|++||.|.+...+ +.+.||++-+-
T Consensus 231 Plr~pI~~v~~i~~~gtv~vGrVEsG~i~~g~~v~~~p~~--~~~evksie~~ 281 (428)
T COG5256 231 PLRLPIQDVYSISGIGTVPVGRVESGVIKPGQKVTFMPAG--VVGEVKSIEMH 281 (428)
T ss_pred CeEeEeeeEEEecCCceEEEEEEeeeeeccCCEEEEecCc--ceEEEeeeeec
Confidence 3799999999999999999999999999999999998755 78899998864
No 74
>PF01472 PUA: PUA domain; InterPro: IPR002478 The PUA (PseudoUridine synthase and Archaeosine transglycosylase) domain was named after the proteins in which it was first found []. PUA is a highly conserved RNA-binding motif found in a wide range of archaeal, bacterial and eukaryotic proteins, including enzymes that catalyse tRNA and rRNA post-transcriptional modifications, proteins involved in ribosome biogenesis and translation, as well as in enzymes involved in proline biosynthesis [, ]. The structures of several PUA-RNA complexes reveal a common RNA recognition surface, but also some versatility in the way in which the motif binds to RNA []. PUA motifs are involved in dyskeratosis congenita and cancer, pointing to links between RNA metabolism and human diseases [].; GO: 0003723 RNA binding; PDB: 1ZE2_A 1ZE1_A 1R3E_A 2AB4_A 3R90_D 2J5T_A 2J5V_B 1Q7H_A 2APO_A 2RFK_A ....
Probab=78.56 E-value=2.9 Score=28.28 Aligned_cols=40 Identities=20% Similarity=0.498 Sum_probs=31.6
Q ss_pred EEEEccEEcCCCEEEEccCCCceeeeeeeccCCCcchhhc
Q psy9896 44 TILVNGTLYEGDTVVLAGTDGPIVTQIRSLLMPQPMQELR 83 (145)
Q Consensus 44 vIl~~G~L~~GD~Iv~~~~~Gpi~tkIRaLl~p~Pl~E~R 83 (145)
++=.+|.++.||.|.+...+|...+.=|+.+...-|.+++
T Consensus 24 V~~~~~~f~~gd~V~i~~~~g~~ia~G~a~~ss~ei~~~~ 63 (74)
T PF01472_consen 24 VVEVDGDFRKGDEVAIVDEDGEVIAVGRANMSSEEIKKMK 63 (74)
T ss_dssp EEEEETT--TTSEEEEEETTSSEEEEEEESSTHHHHHHHS
T ss_pred hEECCCCcCCCCEEEEEcCCCeEEEEEEEecCHHHHHHHc
Confidence 4556899999999999999999999999999865555554
No 75
>PF14453 ThiS-like: ThiS-like ubiquitin
Probab=75.16 E-value=2.2 Score=28.74 Aligned_cols=22 Identities=41% Similarity=0.643 Sum_probs=18.4
Q ss_pred cceEEEEEEEcc-------EEcCCCEEEE
Q psy9896 38 LGTTIDTILVNG-------TLYEGDTVVL 59 (145)
Q Consensus 38 lG~tidvIl~~G-------~L~~GD~Iv~ 59 (145)
+++-.||+++|| .|++||.|++
T Consensus 25 ~k~~~DI~I~NGF~~~~d~~L~e~D~v~~ 53 (57)
T PF14453_consen 25 SKPDADIVILNGFPTKEDIELKEGDEVFL 53 (57)
T ss_pred hCCCCCEEEEcCcccCCccccCCCCEEEE
Confidence 456789999999 5899999886
No 76
>COG0480 FusA Translation elongation factors (GTPases) [Translation, ribosomal structure and biogenesis]
Probab=75.02 E-value=23 Score=34.08 Aligned_cols=84 Identities=21% Similarity=0.242 Sum_probs=57.9
Q ss_pred ceEEEEEEeeeCCcceEEEEEEEccEEcCCCEEEEccCCCceeeeeeeccCCCcchhhcccccceeeceeecCcCeEEec
Q psy9896 25 LQATVLEVKAIPGLGTTIDTILVNGTLYEGDTVVLAGTDGPIVTQIRSLLMPQPMQELRVKNAYVEYKKIKGTQGVKIAA 104 (145)
Q Consensus 25 ~~gtVLEvK~~kGlG~tidvIl~~G~L~~GD~Iv~~~~~Gpi~tkIRaLl~p~Pl~E~R~k~~~~~~~~v~aa~gVkI~a 104 (145)
..+.|.=+-.++--|...=+=+|.|+|+.||++..++... ..||-.|+.+. -.+..+++++.|..=+-+.
T Consensus 308 ~~a~vfKi~~d~~~g~l~~~RvysGtl~~G~~v~n~~~~~--~erv~~l~~~~-------~~~~~~v~~~~AG~I~a~~- 377 (697)
T COG0480 308 LSALVFKIMTDPFVGKLTFVRVYSGTLKSGSEVLNSTKGK--KERVGRLLLMH-------GNEREEVDEVPAGDIVALV- 377 (697)
T ss_pred eEEEEEEeEecCCCCeEEEEEEeccEEcCCCEEEeCCCCc--cEEEEEEEEcc-------CCceeecccccCccEEEEE-
Confidence 5777777777777787776899999999999988876552 33455555432 2355777777766554444
Q ss_pred CCCCcccCCCeEEEe
Q psy9896 105 KDLEKTIAGLNLRVA 119 (145)
Q Consensus 105 ~~Le~~~AGs~l~vv 119 (145)
||.++..|+++...
T Consensus 378 -Gl~~~~tGdTl~~~ 391 (697)
T COG0480 378 -GLKDATTGDTLCDE 391 (697)
T ss_pred -cccccccCCeeecC
Confidence 56777777776644
No 77
>KOG0462|consensus
Probab=73.79 E-value=13 Score=35.68 Aligned_cols=53 Identities=19% Similarity=0.262 Sum_probs=45.9
Q ss_pred ceEEEEEEeeeCCcceEEEEEEEccEEcCCCEEEEccCCCceeeeeeeccCCC
Q psy9896 25 LQATVLEVKAIPGLGTTIDTILVNGTLYEGDTVVLAGTDGPIVTQIRSLLMPQ 77 (145)
Q Consensus 25 ~~gtVLEvK~~kGlG~tidvIl~~G~L~~GD~Iv~~~~~Gpi~tkIRaLl~p~ 77 (145)
.++-+..+--++=+|..+-+=+.+|.+++||.|.++.+.-.-..+.=.++.|+
T Consensus 245 lr~Lifds~yD~y~G~I~~vrv~~G~vrkGdkV~~~~t~~~yev~~vgvm~p~ 297 (650)
T KOG0462|consen 245 LRMLIFDSEYDEYRGVIALVRVVDGVVRKGDKVQSAATGKSYEVKVVGVMRPE 297 (650)
T ss_pred hHHHhhhhhhhhhcceEEEEEEeeeeeecCCEEEEeecCcceEeEEeEEeccC
Confidence 56677777788889999999999999999999999988877778888888884
No 78
>PRK09937 stationary phase/starvation inducible regulatory protein CspD; Provisional
Probab=68.89 E-value=19 Score=24.90 Aligned_cols=48 Identities=27% Similarity=0.395 Sum_probs=36.6
Q ss_pred eEEEEEEeeeCCcceE------EEEEE------Ecc--EEcCCCEEEEc---cCCCceeeeeeec
Q psy9896 26 QATVLEVKAIPGLGTT------IDTIL------VNG--TLYEGDTVVLA---GTDGPIVTQIRSL 73 (145)
Q Consensus 26 ~gtVLEvK~~kGlG~t------idvIl------~~G--~L~~GD~Iv~~---~~~Gpi~tkIRaL 73 (145)
+|||--...+||+|.. -||-+ .+| +|++||.|.+. +..||..+.|+.+
T Consensus 3 ~G~Vkwfn~~KGfGFI~~~~gg~dVFvH~s~i~~~g~~~l~~G~~V~f~~~~~~~G~~A~~V~~~ 67 (74)
T PRK09937 3 KGTVKWFNNAKGFGFICPEGGGEDIFAHYSTIQMDGYRTLKAGQSVQFDVHQGPKGNHASVIVPV 67 (74)
T ss_pred CeEEEEEeCCCCeEEEeeCCCCccEEEEEeeccccCCCCCCCCCEEEEEEEECCCCceeeEEEEC
Confidence 6899999999999976 23443 365 79999987654 5678888888876
No 79
>KOG0460|consensus
Probab=65.49 E-value=6.9 Score=35.70 Aligned_cols=48 Identities=29% Similarity=0.486 Sum_probs=38.0
Q ss_pred EEEEEEeeeCCcceEEEEEEEccEEcCCCEEEEccCCCceeeeeeecc
Q psy9896 27 ATVLEVKAIPGLGTTIDTILVNGTLYEGDTVVLAGTDGPIVTQIRSLL 74 (145)
Q Consensus 27 gtVLEvK~~kGlG~tidvIl~~G~L~~GD~Iv~~~~~Gpi~tkIRaLl 74 (145)
=-|=.|.-+.|.|++++==+-+|+||+||.+-.-|.+-.+.|.|-.+-
T Consensus 257 ~pie~vfsI~GRGTVvtGrlERG~lKkG~e~eivG~~~~lkttvtgie 304 (449)
T KOG0460|consen 257 LPIEDVFSIPGRGTVVTGRLERGVLKKGDEVEIVGHNKTLKTTVTGIE 304 (449)
T ss_pred eehhheeeecCCceEEEEEEeecccccCCEEEEeccCcceeeEeehHH
Confidence 344457789999999999999999999999988877755555555443
No 80
>COG0481 LepA Membrane GTPase LepA [Cell envelope biogenesis, outer membrane]
Probab=64.13 E-value=61 Score=30.89 Aligned_cols=55 Identities=20% Similarity=0.281 Sum_probs=44.5
Q ss_pred ceEEEEEEeeeCCcceEEEEEEEccEEcCCCEEEEccCCCceeeeeeeccCCCcc
Q psy9896 25 LQATVLEVKAIPGLGTTIDTILVNGTLYEGDTVVLAGTDGPIVTQIRSLLMPQPM 79 (145)
Q Consensus 25 ~~gtVLEvK~~kGlG~tidvIl~~G~L~~GD~Iv~~~~~Gpi~tkIRaLl~p~Pl 79 (145)
.++-+..+.-+.=+|.+.=|=+.||++++||.|-+.+++-...-.=-..++|++.
T Consensus 196 LkALifDS~yD~Y~GVv~~vRi~dG~ik~gdki~~m~tg~~y~V~evGvftP~~~ 250 (603)
T COG0481 196 LKALIFDSWYDNYLGVVVLVRIFDGTLKKGDKIRMMSTGKEYEVDEVGIFTPKMV 250 (603)
T ss_pred ceEEEEeccccccceEEEEEEEeeceecCCCEEEEEecCCEEEEEEEeeccCCcc
Confidence 7999999999999999999999999999999999987754333333356777543
No 81
>cd06555 ASCH_PF0470_like ASC-1 homology domain, subfamily similar to Pyrococcus furiosus Pf0470. The ASCH domain, a small beta-barrel domain found in all three kingdoms of life, resembles the RNA-binding PUA domain and may also interact with RNA. ASCH has been proposed to function as an RNA-binding domain during coactivation, RNA-processing and the regulation of prokaryotic translation.
Probab=63.26 E-value=15 Score=27.53 Aligned_cols=54 Identities=15% Similarity=0.369 Sum_probs=37.9
Q ss_pred eEEEEEEEcc---EEcCCCEEEEccCCC--ceeeeeeeccCCCcchhhcccccceeeceeecCcCeEEecC
Q psy9896 40 TTIDTILVNG---TLYEGDTVVLAGTDG--PIVTQIRSLLMPQPMQELRVKNAYVEYKKIKGTQGVKIAAK 105 (145)
Q Consensus 40 ~tidvIl~~G---~L~~GD~Iv~~~~~G--pi~tkIRaLl~p~Pl~E~R~k~~~~~~~~v~aa~gVkI~a~ 105 (145)
.|+.+=+.|. .+++||+|++...++ .+.++|..+- .|.+.++..-+-|.+-.++
T Consensus 18 KtiEiRlnD~kr~~ikvGD~I~f~~~~~~~~l~v~V~~i~------------~Y~sF~~ll~~e~~~~~~~ 76 (109)
T cd06555 18 KTIEIRLNDEKRQQIKVGDKILFNDLDTGQQLLVKVVDIR------------KYDSFRELLEEEGLEKVGP 76 (109)
T ss_pred CEEEEEecccchhcCCCCCEEEEEEcCCCcEEEEEEEEEE------------ecCCHHHHHHhcCHhhcCC
Confidence 6777788899 599999999977553 5777777777 3555555555555444443
No 82
>PF02080 TrkA_C: TrkA-C domain; InterPro: IPR006037 The regulator of K+ conductance (RCK) domain is found in many ligand-gated K+ channels, most often attached to the intracellular carboxy terminus. The domain is prevalent among prokaryotic K+ channels, and also found in eukaryotic, high-conductance Ca2+-activated K+ channels (BK channels) [, , ]. Largely involved in redox-linked regulation of potassium channels, the N-terminal part of the RCK domain is predicted to be an active dehydrogenase at least in some cases []. Some have a conserved sequence motif (G-x-G-x-x-G-x(n)-[DE]) for NAD+ binding [], but others do not, reflecting the diversity of ligands for RCK domains. The C-terminal part is less conserved, being absent in some channels, such as the kefC antiporter from Escherichia coli. It is predicted to bind unidentified ligands and to regulate sulphate, sodium and other transporters. The X-ray structure of several RCK domains has been solved [, , ]. It reveals an alpha-beta fold similar to dehydrogenase enzymes. The domain forms a homodimer, producing a cleft between two lobes. It has a composite structure, with an N-terminal (RCK-N), and a C-terminal (RCK-C) subdomain. The RCK-N subdomain forms a Rossmann fold with two alpha helices on one side of a six stranded parallel beta sheet and three alpha helices on the other side. The RCK-C subdomain is an all-beta-strand fold. It forms an extention of the dimer interface and further stabilises the RCK homodimer [, , ]. Ca2+ is a ligand that opens the channel in a concentration-dependent manner. Two Ca2+ ions are located at the base of a cleft between two RCK domains, coordinated by the carboxylate groups of two glutamate residues, and by an aspartate residue [, , ]. RCK domains occur in at least five different contexts: As a single domain on the C terminus of some K+ channels (for example, many prokaryotic K+ channels). As two tandem RCK domains on the C terminus of some transporters that form gating rings (for example, eukaryotic BK channels). The gating ring has an arrangement of eight identical RCK domains, one from each of the four pore-forming subunits and four from the intracellular solution. As two domains, one at the N terminus and another at the C terminus of transporter (for example, the prokaryotic trk system potassium uptake protein A). As a soluble protein (not part of a K+ channel) consisting of two tandem RCK domains. As a soluble protein consisting of a single RCK domain. This entry represents the C-terminal subdomain of RCK.; GO: 0008324 cation transmembrane transporter activity, 0006813 potassium ion transport; PDB: 2BKP_A 1VCT_A 2BKO_A 2BKN_A 3L4B_C 2FY8_D 2AEF_A 1LNQ_E 3RBX_C 3KXD_A ....
Probab=61.71 E-value=6.6 Score=25.20 Aligned_cols=55 Identities=25% Similarity=0.355 Sum_probs=31.1
Q ss_pred CCCcchhhcccccc-eeeceeecCcCeEEecCCCCcc-cCCCeEEEecCcccHHHHHHH
Q psy9896 75 MPQPMQELRVKNAY-VEYKKIKGTQGVKIAAKDLEKT-IAGLNLRVAKDQDEIDDLCDE 131 (145)
Q Consensus 75 ~p~Pl~E~R~k~~~-~~~~~v~aa~gVkI~a~~Le~~-~AGs~l~vv~~~~e~e~~~~e 131 (145)
--++++|++-...| -.+-.+.-. +..+...+ +.. .+|+.++++.+.++++++.+.
T Consensus 13 ~gk~l~el~l~~~~~~~i~~i~R~-~~~~~p~~-~~~l~~gD~l~v~g~~~~i~~~~~~ 69 (71)
T PF02080_consen 13 VGKTLKELDLPERYGVRIVAIKRG-GEIIIPDG-DTVLQAGDILIVVGDPEDIERFREL 69 (71)
T ss_dssp TTEBHHHCTHHCHHTEEEEEEEET-EEEES--T-T-BE-TTEEEEEEEEHHHHHHHHHH
T ss_pred CCCCHHHCCCCccCCEEEEEEEEC-CEEECCCC-CCEECCCCEEEEEECHHHHHHHHHh
Confidence 34567775533332 333333322 44444433 555 999999999999988887764
No 83
>PRK10354 RNA chaperone/anti-terminator; Provisional
Probab=61.17 E-value=36 Score=22.95 Aligned_cols=48 Identities=29% Similarity=0.455 Sum_probs=32.8
Q ss_pred ceEEEEEEeeeCCcceEE------------EEEEEcc--EEcCCCEEEEc---cCCCceeeeeee
Q psy9896 25 LQATVLEVKAIPGLGTTI------------DTILVNG--TLYEGDTVVLA---GTDGPIVTQIRS 72 (145)
Q Consensus 25 ~~gtVLEvK~~kGlG~ti------------dvIl~~G--~L~~GD~Iv~~---~~~Gpi~tkIRa 72 (145)
.+|+|-....++|+|... ..|-.+| .|++||.|-+. +..||....|+.
T Consensus 5 ~~G~Vk~f~~~kGfGFI~~~~g~~dvfvH~s~l~~~g~~~l~~G~~V~f~~~~~~~G~~A~~V~~ 69 (70)
T PRK10354 5 MTGIVKWFNADKGFGFITPDDGSKDVFVHFSAIQNDGYKSLDEGQKVSFTIESGAKGPAAGNVTS 69 (70)
T ss_pred ceEEEEEEeCCCCcEEEecCCCCccEEEEEeeccccCCCCCCCCCEEEEEEEECCCCceeEEEEe
Confidence 379999999999999652 2333455 58888877653 345666666654
No 84
>TIGR03802 Asp_Ala_antiprt aspartate-alanine antiporter. All members of the seed alignment for this model are asparate-alanine anti-transporters (AspT) encoded next to the gene for aspartate 4-decarboxylase (AspD), which converts asparate to alanine, releasing CO2. The exchange of Asp for Ala is electrogenic, so the AspD/AspT system confers a proton-motive force. This transporter contains two copies of the AspT/YidE/YbjL antiporter duplication domain (TIGR01625).
Probab=59.24 E-value=19 Score=33.44 Aligned_cols=21 Identities=10% Similarity=0.204 Sum_probs=18.5
Q ss_pred cCCCeEEEecCcccHHHHHHH
Q psy9896 111 IAGLNLRVAKDQDEIDDLCDE 131 (145)
Q Consensus 111 ~AGs~l~vv~~~~e~e~~~~e 131 (145)
.+||.+.++.+.++++++.+.
T Consensus 355 ~~GD~LlV~G~~~~l~~~~~~ 375 (562)
T TIGR03802 355 QRGDVVTLVGTPQDVDRAAKQ 375 (562)
T ss_pred cCCCEEEEEeCHHHHHHHHHH
Confidence 999999999999988887664
No 85
>PRK09890 cold shock protein CspG; Provisional
Probab=57.04 E-value=58 Score=21.99 Aligned_cols=48 Identities=29% Similarity=0.392 Sum_probs=34.1
Q ss_pred eEEEEEEeeeCCcceE------EEEEEE------cc--EEcCCCEEEEc---cCCCceeeeeeec
Q psy9896 26 QATVLEVKAIPGLGTT------IDTILV------NG--TLYEGDTVVLA---GTDGPIVTQIRSL 73 (145)
Q Consensus 26 ~gtVLEvK~~kGlG~t------idvIl~------~G--~L~~GD~Iv~~---~~~Gpi~tkIRaL 73 (145)
.|+|--...++|+|.. -|+-+. +| .|++||.|.+. +..||..++|+.|
T Consensus 6 ~G~Vk~f~~~kGfGFI~~~~g~~dvFvH~s~l~~~~~~~l~~G~~V~f~~~~~~~G~~A~~V~~~ 70 (70)
T PRK09890 6 TGLVKWFNADKGFGFITPDDGSKDVFVHFTAIQSNEFRTLNENQKVEFSIEQGQRGPAAANVVTL 70 (70)
T ss_pred eEEEEEEECCCCcEEEecCCCCceEEEEEeeeccCCCCCCCCCCEEEEEEEECCCCceeEEEEeC
Confidence 7999999999999944 344433 55 58899987654 4567777777654
No 86
>PRK09507 cspE cold shock protein CspE; Reviewed
Probab=56.77 E-value=56 Score=22.00 Aligned_cols=48 Identities=29% Similarity=0.494 Sum_probs=32.7
Q ss_pred ceEEEEEEeeeCCcceE------EEEEE------Ecc--EEcCCCEEEEc---cCCCceeeeeee
Q psy9896 25 LQATVLEVKAIPGLGTT------IDTIL------VNG--TLYEGDTVVLA---GTDGPIVTQIRS 72 (145)
Q Consensus 25 ~~gtVLEvK~~kGlG~t------idvIl------~~G--~L~~GD~Iv~~---~~~Gpi~tkIRa 72 (145)
.+|+|-....++|+|.. -|+-+ .+| .|++||.|.+. +..||....|+.
T Consensus 4 ~~G~Vk~f~~~kGyGFI~~~~g~~dvfvH~s~l~~~g~~~l~~G~~V~f~~~~~~~G~~A~~V~~ 68 (69)
T PRK09507 4 IKGNVKWFNESKGFGFITPEDGSKDVFVHFSAIQTNGFKTLAEGQRVEFEITNGAKGPSAANVIA 68 (69)
T ss_pred cceEEEEEeCCCCcEEEecCCCCeeEEEEeecccccCCCCCCCCCEEEEEEEECCCCcccEEEEe
Confidence 47999999999999975 24544 355 58888887664 344555555543
No 87
>PF10844 DUF2577: Protein of unknown function (DUF2577); InterPro: IPR022555 This family of proteins has no known function
Probab=55.50 E-value=24 Score=25.38 Aligned_cols=35 Identities=26% Similarity=0.223 Sum_probs=22.0
Q ss_pred EEEeeeCCcceEEEEEEEccEEcCCCEEEEccCCC
Q psy9896 30 LEVKAIPGLGTTIDTILVNGTLYEGDTVVLAGTDG 64 (145)
Q Consensus 30 LEvK~~kGlG~tidvIl~~G~L~~GD~Iv~~~~~G 64 (145)
.+.+..-..+..-+.|.+..+|++||++.+-..+|
T Consensus 56 ~~~~~~~~~~~~~~~i~~~~~Lk~GD~V~ll~~~~ 90 (100)
T PF10844_consen 56 RDITIEHNSETDNITITFTDGLKVGDKVLLLRVQG 90 (100)
T ss_pred EEEEEeccccccceeEEEecCCcCCCEEEEEEecC
Confidence 33333333333333388899999999999865443
No 88
>cd04714 BAH_BAHCC1 BAH, or Bromo Adjacent Homology domain, as present in mammalian BAHCC1 and similar proteins. BAHCC1 stands for BAH domain and coiled-coil containing 1. BAH domains are found in a variety of proteins playing roles in transcriptional silencing and the remodeling of chromatin. It is assumed that in most or all of these instances the BAH domain mediates protein-protein interactions.
Probab=54.96 E-value=17 Score=26.84 Aligned_cols=29 Identities=28% Similarity=0.407 Sum_probs=24.3
Q ss_pred ccEEcCCCEEEEccCCC---ceeeeeeeccCC
Q psy9896 48 NGTLYEGDTVVLAGTDG---PIVTQIRSLLMP 76 (145)
Q Consensus 48 ~G~L~~GD~Iv~~~~~G---pi~tkIRaLl~p 76 (145)
+.++++||.+.+.+.+. |.+++|..|+..
T Consensus 1 ~~~~~vGD~V~v~~~~~~~~pyIgrI~~i~e~ 32 (121)
T cd04714 1 KEIIRVGDCVLFKSPGRPSLPYVARIESLWED 32 (121)
T ss_pred CCEEEcCCEEEEeCCCCCCCCEEEEEEEEEEc
Confidence 46899999999988654 789999999864
No 89
>TIGR02381 cspD cold shock domain protein CspD. This model represents what appears to be a phylogenetically distinct clade, containing E. coli CspD and related proteobacterial proteins within the larger family of cold shock domain proteins described by pfam model pfam00313. The gene symbol cspD may have been used idependently for other subfamilies of cold shock domain proteins, such as for B. subtilis CspD. These proteins typically are shorter than 70 amino acids. In E. coli, CspD is a stress response protein induced in stationary phase. This homodimer binds single-stranded DNA and appears to inhibit DNA replication.
Probab=53.40 E-value=63 Score=21.60 Aligned_cols=48 Identities=27% Similarity=0.346 Sum_probs=34.8
Q ss_pred eEEEEEEeeeCCcceE------EEEEEE------cc--EEcCCCEEEEc---cCCCceeeeeeec
Q psy9896 26 QATVLEVKAIPGLGTT------IDTILV------NG--TLYEGDTVVLA---GTDGPIVTQIRSL 73 (145)
Q Consensus 26 ~gtVLEvK~~kGlG~t------idvIl~------~G--~L~~GD~Iv~~---~~~Gpi~tkIRaL 73 (145)
.|+|-.-..++|+|.. -|+-+. +| .|++||.|.+. +..||-..+|+.+
T Consensus 3 ~G~Vk~f~~~kGfGFI~~~~g~~dvfvH~s~~~~~g~~~l~~G~~V~f~~~~~~~G~~A~~V~~~ 67 (68)
T TIGR02381 3 IGIVKWFNNAKGFGFICPEGVDGDIFAHYSTIQMDGYRTLKAGQKVQFEVVQGPKGAHATHIVPI 67 (68)
T ss_pred CeEEEEEeCCCCeEEEecCCCCccEEEEHHHhhhcCCCCCCCCCEEEEEEEECCCCceeEEEEEC
Confidence 6899999999999965 244332 45 68999988664 4667777777754
No 90
>PRK03818 putative transporter; Validated
Probab=51.76 E-value=32 Score=31.85 Aligned_cols=84 Identities=19% Similarity=0.313 Sum_probs=50.4
Q ss_pred EccEEcCCCEEEEccCCCc----------e----------eeeeeeccCCC------cchhhcccccc-eeeceeecCcC
Q psy9896 47 VNGTLYEGDTVVLAGTDGP----------I----------VTQIRSLLMPQ------PMQELRVKNAY-VEYKKIKGTQG 99 (145)
Q Consensus 47 ~~G~L~~GD~Iv~~~~~Gp----------i----------~tkIRaLl~p~------Pl~E~R~k~~~-~~~~~v~aa~g 99 (145)
-|=+|+.||.+++-+.... - ...++.++.|+ .++|+|-.++| ..+-.+.- .|
T Consensus 248 ~~~~L~~GDiLlV~G~~e~l~~l~~~~Gl~~~~~~~~~~~~~~~E~Vvv~~S~liGkTL~eL~~r~~~Gv~VlaI~R-~g 326 (552)
T PRK03818 248 PDTIIQLGDLLHLVGQPEDLHKAQLVIGEEVDTSLSTRGTDLRSERVVVTNEKVLGKKLRDLHLKNKYGVVISRLNR-AG 326 (552)
T ss_pred CCCccCCCCEEEEEECHHHHHHHHHhcCCccCccccccCcceEEEEEEEcChhccCCcHHHhcccccCCeEEEEEeE-CC
Confidence 3347899999998432211 0 12244444443 56677643334 45555543 46
Q ss_pred eEEecCCCCc-ccCCCeEEEecCcccHHHHHHHH
Q psy9896 100 VKIAAKDLEK-TIAGLNLRVAKDQDEIDDLCDEV 132 (145)
Q Consensus 100 VkI~a~~Le~-~~AGs~l~vv~~~~e~e~~~~ev 132 (145)
..+.... +- ..+||.+.++.++++++++.+.+
T Consensus 327 ~~l~~~~-d~~Lq~GD~LlVvG~~~~i~~l~~~L 359 (552)
T PRK03818 327 VELVASP-DLSLQFGDILNLVGRPEAIDAVANVL 359 (552)
T ss_pred eecCCCC-CCEEecCCEEEEEECHHHHHHHHHHh
Confidence 6664332 32 39999999999999988877653
No 91
>COG0050 TufB GTPases - translation elongation factors [Translation, ribosomal structure and biogenesis]
Probab=50.67 E-value=36 Score=30.68 Aligned_cols=46 Identities=26% Similarity=0.359 Sum_probs=37.6
Q ss_pred ceEEEEEEeeeCCcceEEEEEEEccEEcCCCEEEEccCCCceeeee
Q psy9896 25 LQATVLEVKAIPGLGTTIDTILVNGTLYEGDTVVLAGTDGPIVTQI 70 (145)
Q Consensus 25 ~~gtVLEvK~~kGlG~tidvIl~~G~L~~GD~Iv~~~~~Gpi~tkI 70 (145)
+---|=.|..+-|.|+.++=.+-.|+|++||.+..-|..-+..|.+
T Consensus 211 flmpvEdvfsIsgrgtvvtGrVeRG~lkvg~eveivG~~~~~kttv 256 (394)
T COG0050 211 FLMPVEDVFSISGRGTVVTGRVERGILKVGEEVEIVGIKETQKTTV 256 (394)
T ss_pred ccccceeeEEEcCceeEEEEEEeeeeeccCCEEEEecccccceeEE
Confidence 4556778899999999999999999999999998877664444443
No 92
>PRK14998 cold shock-like protein CspD; Provisional
Probab=50.22 E-value=65 Score=22.10 Aligned_cols=48 Identities=27% Similarity=0.363 Sum_probs=35.3
Q ss_pred eEEEEEEeeeCCcceE------EEEEEE------cc--EEcCCCEEEEc---cCCCceeeeeeec
Q psy9896 26 QATVLEVKAIPGLGTT------IDTILV------NG--TLYEGDTVVLA---GTDGPIVTQIRSL 73 (145)
Q Consensus 26 ~gtVLEvK~~kGlG~t------idvIl~------~G--~L~~GD~Iv~~---~~~Gpi~tkIRaL 73 (145)
+|+|---..++|+|.. -||-+. +| .|.+||.|.+. +..||..+.|+.+
T Consensus 3 ~G~Vkwfn~~kGfGFI~~~~g~~dVFvH~s~l~~~g~~~l~~G~~V~f~~~~~~~G~~A~~V~~~ 67 (73)
T PRK14998 3 TGTVKWFNNAKGFGFICPEGGGEDIFAHYSTIQMDGYRTLKAGQSVRFDVHQGPKGNHASVIVPI 67 (73)
T ss_pred CeEEEEEeCCCceEEEecCCCCccEEEEeeeecccCCCCCCCCCEEEEEEEECCCCceeEEEEEC
Confidence 5899999999999965 345443 55 78999988664 4667777777655
No 93
>COG1217 TypA Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]
Probab=49.83 E-value=58 Score=30.97 Aligned_cols=82 Identities=24% Similarity=0.238 Sum_probs=57.1
Q ss_pred ceEEEEEEeeeCCcceEEEEEEEccEEcCCCEEEEccCCCce-eeeeeeccCCCcchhhcccccceeeceeecCcCeEEe
Q psy9896 25 LQATVLEVKAIPGLGTTIDTILVNGTLYEGDTVVLAGTDGPI-VTQIRSLLMPQPMQELRVKNAYVEYKKIKGTQGVKIA 103 (145)
Q Consensus 25 ~~gtVLEvK~~kGlG~tidvIl~~G~L~~GD~Iv~~~~~Gpi-~tkIRaLl~p~Pl~E~R~k~~~~~~~~v~aa~gVkI~ 103 (145)
.+.|-|+.. .=+|...-.=+++|++|+|+.+.+-..+|.+ .+||-.||.-.-| +-..++++.|.-=|-|+
T Consensus 207 ~qvt~Ldyn--~y~GrIgigRi~~G~vk~~q~V~~i~~~g~~~~gri~kllgf~GL-------~R~ei~eA~AGDIVaia 277 (603)
T COG1217 207 MQVTQLDYN--SYVGRIGIGRIFRGTVKPNQQVALIKSDGTTENGRITKLLGFLGL-------ERIEIEEAEAGDIVAIA 277 (603)
T ss_pred EEEEeeccc--cccceeEEEEEecCcccCCCeEEEEcCCCcEEeeEEEeeeeccce-------eeeecccccccCEEEEc
Confidence 355556554 4577788888999999999999999988876 5688888853211 22445555555555555
Q ss_pred cCCCCcccCCCeEE
Q psy9896 104 AKDLEKTIAGLNLR 117 (145)
Q Consensus 104 a~~Le~~~AGs~l~ 117 (145)
||+++.-|+++-
T Consensus 278 --G~~~~~igdTi~ 289 (603)
T COG1217 278 --GLEDINIGDTIC 289 (603)
T ss_pred --Cccccccccccc
Confidence 678888887664
No 94
>cd04713 BAH_plant_3 BAH, or Bromo Adjacent Homology domain, plant-specific sub-family with unknown function. BAH domains are found in a variety of proteins playing roles in transcriptional silencing and the remodeling of chromatin. It is assumed that in most or all of these instances the BAH domain mediates protein-protein interactions.
Probab=47.12 E-value=42 Score=25.74 Aligned_cols=35 Identities=20% Similarity=0.321 Sum_probs=27.4
Q ss_pred EEEEEEEccE-EcCCCEEEEccCC--CceeeeeeeccC
Q psy9896 41 TIDTILVNGT-LYEGDTVVLAGTD--GPIVTQIRSLLM 75 (145)
Q Consensus 41 tidvIl~~G~-L~~GD~Iv~~~~~--Gpi~tkIRaLl~ 75 (145)
-.+-+.+||+ +++||.|.+-+.+ -|.+++|..|+.
T Consensus 10 ~y~s~~~dg~~y~vgD~Vlv~~~~~~~pyI~~I~~i~~ 47 (146)
T cd04713 10 HYTSFEKDGNKYRLEDCVLLVPEDDQKPYIAIIKDIYK 47 (146)
T ss_pred eeeeEEECCEEEECCCEEEEeCCCCCCCEEEEEEEEEE
Confidence 4566778886 8999999997543 388999999984
No 95
>COG2895 CysN GTPases - Sulfate adenylate transferase subunit 1 [Inorganic ion transport and metabolism]
Probab=45.81 E-value=43 Score=30.73 Aligned_cols=45 Identities=16% Similarity=0.332 Sum_probs=31.4
Q ss_pred EEccEEcCCCEEEEccCCCceeeeeeeccCCCcchhhcccccceeeceeecCcCeEEe
Q psy9896 46 LVNGTLYEGDTVVLAGTDGPIVTQIRSLLMPQPMQELRVKNAYVEYKKIKGTQGVKIA 103 (145)
Q Consensus 46 l~~G~L~~GD~Iv~~~~~Gpi~tkIRaLl~p~Pl~E~R~k~~~~~~~~v~aa~gVkI~ 103 (145)
+-.|++++||.|++-... ..++|+.+.++. -..+++.|-..|.+.
T Consensus 245 iasG~v~~Gd~vvvlPsG--~~s~V~~Ivt~d-----------g~~~~A~aG~aVtl~ 289 (431)
T COG2895 245 IASGSVKVGDEVVVLPSG--KTSRVKRIVTFD-----------GELAQASAGEAVTLV 289 (431)
T ss_pred eeccceecCCeEEEccCC--CeeeEEEEeccC-----------CchhhccCCceEEEE
Confidence 468999999999996433 578999999872 234555555555554
No 96
>PF08544 GHMP_kinases_C: GHMP kinases C terminal ; InterPro: IPR013750 This domain is found in homoserine kinases (2.7.1.39 from EC), galactokinases (2.7.1.6 from EC) and mevalonate kinases (2.7.1.36 from EC). These kinases make up the GHMP kinase superfamily of ATP-dependent enzymes []. These enzymes are involved in the biosynthesis of isoprenes and amino acids as well as in carbohydrate metabolism. The C-terminal domain of homoserine kinase has a central alpha-beta plait fold and an insertion of four helices, which, together with the N-terminal fold, create a novel nucleotide binding fold [].; PDB: 2R3V_C 4EMD_A 4DXL_A 4ED4_A 2GS8_A 1K47_E 3GON_A 3K17_B 1PIE_A 2AJ4_A ....
Probab=45.77 E-value=31 Score=22.55 Aligned_cols=34 Identities=15% Similarity=0.350 Sum_probs=25.1
Q ss_pred CcCeEEecCCCCcccCCCeEEEec-CcccHHHHHHHHHHH
Q psy9896 97 TQGVKIAAKDLEKTIAGLNLRVAK-DQDEIDDLCDEVARE 135 (145)
Q Consensus 97 a~gVkI~a~~Le~~~AGs~l~vv~-~~~e~e~~~~ev~~e 135 (145)
+.|.+++|.| -|..++++- ++++++++.+.+++.
T Consensus 48 a~~~~~sGsG-----~G~~v~~l~~~~~~~~~v~~~l~~~ 82 (85)
T PF08544_consen 48 ALGAKMSGSG-----GGPTVFALCKDEDDAERVAEALREH 82 (85)
T ss_dssp ESEEEEETTS-----SSSEEEEEESSHHHHHHHHHHHHHH
T ss_pred CCceecCCCC-----CCCeEEEEECCHHHHHHHHHHHHHh
Confidence 5678898743 388888887 677788888777654
No 97
>PF09866 DUF2093: Uncharacterized protein conserved in bacteria (DUF2093); InterPro: IPR018661 This family of various hypothetical prokaryotic proteins has no known function.
Probab=44.92 E-value=15 Score=23.51 Aligned_cols=22 Identities=45% Similarity=0.552 Sum_probs=16.7
Q ss_pred EcCCCEEEEccCCCceeeeeeeccCCCcchhhc
Q psy9896 51 LYEGDTVVLAGTDGPIVTQIRSLLMPQPMQELR 83 (145)
Q Consensus 51 L~~GD~Iv~~~~~Gpi~tkIRaLl~p~Pl~E~R 83 (145)
|+.|++++++=+. .+.||+|+|
T Consensus 2 l~pG~~V~CAVTg-----------~~IpLd~Lr 23 (42)
T PF09866_consen 2 LSPGSFVRCAVTG-----------QPIPLDELR 23 (42)
T ss_pred ccCCCEEEEEeeC-----------CcccHHHhc
Confidence 6889888775433 467999998
No 98
>cd04719 BAH_Orc1p_animal BAH, or Bromo Adjacent Homology domain, as present in animal homologs of Saccharomyces cerevisiae Orc1p. Orc1 is part of the Yeast Sir1-origin recognition complex. The Orc1p BAH doman functions in epigenetic silencing. In vertebrates, a similar ORC protein complex exists, which has been shown essential for DNA replication in Xenopus laevis. BAH domains are found in a variety of proteins playing roles in transcriptional silencing and the remodeling of chromatin. It is assumed that in most or all of these instances the BAH domain mediates protein-protein interactions.
Probab=44.82 E-value=21 Score=27.25 Aligned_cols=28 Identities=39% Similarity=0.517 Sum_probs=23.9
Q ss_pred cEEcCCCEEEEccCC--CceeeeeeeccCC
Q psy9896 49 GTLYEGDTVVLAGTD--GPIVTQIRSLLMP 76 (145)
Q Consensus 49 G~L~~GD~Iv~~~~~--Gpi~tkIRaLl~p 76 (145)
-++++||.|.+.+.+ +|-++||..|..-
T Consensus 2 ~~i~vGd~VlI~~~d~~~~yVAkI~~i~e~ 31 (128)
T cd04719 2 LTIEVGDFVLIEGEDADGPDVARILHLYED 31 (128)
T ss_pred eEEecCCEEEEECCCCCCCcEeeehhhhcc
Confidence 379999999998755 6899999999864
No 99
>PRK10943 cold shock-like protein CspC; Provisional
Probab=44.33 E-value=52 Score=22.18 Aligned_cols=48 Identities=29% Similarity=0.497 Sum_probs=32.2
Q ss_pred ceEEEEEEeeeCCcceEE------EEEE------Ecc--EEcCCCEEEEc---cCCCceeeeeee
Q psy9896 25 LQATVLEVKAIPGLGTTI------DTIL------VNG--TLYEGDTVVLA---GTDGPIVTQIRS 72 (145)
Q Consensus 25 ~~gtVLEvK~~kGlG~ti------dvIl------~~G--~L~~GD~Iv~~---~~~Gpi~tkIRa 72 (145)
.+|+|---..++|+|... |+-+ .+| .|.+||.|.+. +..||....|++
T Consensus 4 ~~G~Vk~f~~~kGfGFI~~~~g~~dvFvH~s~l~~~g~~~l~~G~~V~f~~~~~~~g~~A~~V~~ 68 (69)
T PRK10943 4 IKGQVKWFNESKGFGFITPADGSKDVFVHFSAIQGNGFKTLAEGQNVEFEIQDGQKGPAAVNVTA 68 (69)
T ss_pred cceEEEEEeCCCCcEEEecCCCCeeEEEEhhHccccCCCCCCCCCEEEEEEEECCCCceeEEEEc
Confidence 379999999999999652 4433 344 58888877654 344565555554
No 100
>PRK00741 prfC peptide chain release factor 3; Provisional
Probab=44.03 E-value=2.2e+02 Score=26.31 Aligned_cols=82 Identities=12% Similarity=0.073 Sum_probs=51.7
Q ss_pred ceEEEEEEe---eeCCcceEEEEEEEccEEcCCCEEEEccCCCceeeeeeeccCCCcchhhcccccceeeceeecCcCeE
Q psy9896 25 LQATVLEVK---AIPGLGTTIDTILVNGTLYEGDTVVLAGTDGPIVTQIRSLLMPQPMQELRVKNAYVEYKKIKGTQGVK 101 (145)
Q Consensus 25 ~~gtVLEvK---~~kGlG~tidvIl~~G~L~~GD~Iv~~~~~Gpi~tkIRaLl~p~Pl~E~R~k~~~~~~~~v~aa~gVk 101 (145)
..|-|.=+. ..+..|..+=+=+++|+|+.||.+.-...+-+. |+..+... + -.+...++++.| |=-
T Consensus 293 ~~~~VFK~~~~m~~~~~grlafvRV~sG~l~~g~~v~~~~~~k~~--ri~~~~~~------~-g~~~~~v~~a~a--GDI 361 (526)
T PRK00741 293 FSGFVFKIQANMDPKHRDRIAFVRVCSGKFEKGMKVRHVRTGKDV--RISNALTF------M-AQDREHVEEAYA--GDI 361 (526)
T ss_pred eEEEEEEEEecCCCCcCceEEEEEEeccEECCCCEEEeccCCceE--EecceEEE------e-cCCceECceeCC--CCE
Confidence 567776665 345789999999999999999999766544322 23233321 0 124466666655 433
Q ss_pred EecCCCCcccCCCeEE
Q psy9896 102 IAAKDLEKTIAGLNLR 117 (145)
Q Consensus 102 I~a~~Le~~~AGs~l~ 117 (145)
+.-.++.+...|+.|.
T Consensus 362 v~v~~l~~~~~GDTL~ 377 (526)
T PRK00741 362 IGLHNHGTIQIGDTFT 377 (526)
T ss_pred EEEECCCCCccCCCcc
Confidence 4444677777777663
No 101
>PRK06789 flagellar motor switch protein; Validated
Probab=41.95 E-value=29 Score=24.41 Aligned_cols=44 Identities=14% Similarity=0.161 Sum_probs=35.6
Q ss_pred ceEEEEEEeeeCCcceEEEEEEEccEEcCCCEEEEccCCCceeeee
Q psy9896 25 LQATVLEVKAIPGLGTTIDTILVNGTLYEGDTVVLAGTDGPIVTQI 70 (145)
Q Consensus 25 ~~gtVLEvK~~kGlG~tidvIl~~G~L~~GD~Iv~~~~~Gpi~tkI 70 (145)
..|+|+|. ++-.|..+|+.+.+=.+-.|..+++.+.+|.-.|.+
T Consensus 29 ~~Gsvi~L--dk~~~epvdI~vNg~lia~GEvVvv~~~fGVRIteL 72 (74)
T PRK06789 29 TKGTLYRL--ENSTKNTVRLMLENEEIGTGKILTKNGKMYVEIVEL 72 (74)
T ss_pred CCCCEEEe--CCcCCCCEEEEECCEEEeEEeEEEECCEEEEEEEEc
Confidence 57899987 788889999887777788999999988888655543
No 102
>cd04715 BAH_Orc1p_like BAH, or Bromo Adjacent Homology domain, as present in the Schizosaccharomyces pombe homolog of Saccharomyces cerevisiae Orc1p and similar proteins. Orc1 is part of the Yeast Sir1-origin recognition complex, the Orc1p BAH doman functions in epigenetic silencing. BAH domains are found in a variety of proteins playing roles in transcriptional silencing and the remodeling of chromatin. It is assumed that in most or all of these instances the BAH domain mediates protein-protein interactions.
Probab=40.58 E-value=78 Score=24.92 Aligned_cols=36 Identities=14% Similarity=0.160 Sum_probs=29.3
Q ss_pred EEEEEEEccE-EcCCCEEEEccC-CCceeeeeeeccCC
Q psy9896 41 TIDTILVNGT-LYEGDTVVLAGT-DGPIVTQIRSLLMP 76 (145)
Q Consensus 41 tidvIl~~G~-L~~GD~Iv~~~~-~Gpi~tkIRaLl~p 76 (145)
..+-+.+||. +++||.+.+.+. .-|.+++|..|+..
T Consensus 19 ~Y~s~~~~g~~y~lGD~Vlv~s~~~~~yIgkI~~iwe~ 56 (159)
T cd04715 19 FYRSFTYDGVEYRLYDDVYVHNGDSEPYIGKIIKIYET 56 (159)
T ss_pred EEEEEEECCEEEeCCCEEEEeCCCCCCEEEEEEEEEEc
Confidence 5577778887 899999999864 44789999999975
No 103
>PRK15464 cold shock-like protein CspH; Provisional
Probab=40.03 E-value=75 Score=21.70 Aligned_cols=47 Identities=19% Similarity=0.274 Sum_probs=31.5
Q ss_pred ceEEEEEEeeeCCcceEE------EE------EEEcc--EEcCCCEEEEcc---CCCceeeeee
Q psy9896 25 LQATVLEVKAIPGLGTTI------DT------ILVNG--TLYEGDTVVLAG---TDGPIVTQIR 71 (145)
Q Consensus 25 ~~gtVLEvK~~kGlG~ti------dv------Il~~G--~L~~GD~Iv~~~---~~Gpi~tkIR 71 (145)
.+|||--...+||+|... || |-.+| +|++||.|.+.- ..||-.+.|+
T Consensus 5 ~~G~Vk~fn~~KGfGFI~~~~g~~DvFvH~s~l~~~g~~~l~~G~~V~f~v~~~~kG~~A~~v~ 68 (70)
T PRK15464 5 MTGIVKTFDRKSGKGFIIPSDGRKEVQVHISAFTPRDAEVLIPGLRVEFCRVNGLRGPTAANVY 68 (70)
T ss_pred ceEEEEEEECCCCeEEEccCCCCccEEEEehhehhcCCCCCCCCCEEEEEEEECCCCceeEEEE
Confidence 379999999999999762 33 33455 478888776643 3455555554
No 104
>PRK00364 groES co-chaperonin GroES; Reviewed
Probab=39.67 E-value=60 Score=23.29 Aligned_cols=15 Identities=27% Similarity=0.450 Sum_probs=12.6
Q ss_pred EEcCCCEEEEccCCC
Q psy9896 50 TLYEGDTVVLAGTDG 64 (145)
Q Consensus 50 ~L~~GD~Iv~~~~~G 64 (145)
.+++||++++....|
T Consensus 58 ~vk~GD~Vlf~~~~g 72 (95)
T PRK00364 58 DVKVGDKVLFGKYAG 72 (95)
T ss_pred ccCCCCEEEEcCCCC
Confidence 589999999987666
No 105
>PRK14578 elongation factor P; Provisional
Probab=37.65 E-value=82 Score=25.58 Aligned_cols=63 Identities=19% Similarity=0.285 Sum_probs=44.8
Q ss_pred HHHHHHHHHHhhcCc-----cCc------ceEEEEEEee-eCC-cceEEE-----EEEEccE-------EcCCCEEEEcc
Q psy9896 7 EIQYCQTFLKKRLMF-----KNE------LQATVLEVKA-IPG-LGTTID-----TILVNGT-------LYEGDTVVLAG 61 (145)
Q Consensus 7 l~gl~Q~~m~~~L~~-----~~~------~~gtVLEvK~-~kG-lG~tid-----vIl~~G~-------L~~GD~Iv~~~ 61 (145)
+.|...+||++-+.+ +++ +.-++|||.+ ++| -|-|+. +.|.+|- ++.||.|.+.+
T Consensus 99 ~~g~~~~fL~e~~~v~v~~~~~~~i~v~lP~~V~l~V~~tep~~KGdT~t~~~KpA~leTG~~v~VP~FI~~Gd~I~VdT 178 (187)
T PRK14578 99 AFSAIAPFLLDGTEVQLGLFQGRMVNVDLPMTVELTVTDTAPVMKNATATAQTKEAVLETGLRLQVPPYLESGEKIKVDT 178 (187)
T ss_pred HhhhHHhhccCCCEEEEEEECCEEEEEECCCEEEEEEEECCCccccCccCCCcceEEEcCCCEEEeCCcccCCCEEEEEC
Confidence 456678899887543 333 4667888887 445 466655 7788884 78999999999
Q ss_pred CCCceeee
Q psy9896 62 TDGPIVTQ 69 (145)
Q Consensus 62 ~~Gpi~tk 69 (145)
.+|--+.|
T Consensus 179 ~~g~Y~~R 186 (187)
T PRK14578 179 RDGRFISR 186 (187)
T ss_pred CCCcEEee
Confidence 99866655
No 106
>COG4025 Predicted membrane protein [Function unknown]
Probab=37.62 E-value=92 Score=27.07 Aligned_cols=63 Identities=17% Similarity=0.193 Sum_probs=42.3
Q ss_pred ceEEEEEEeeeCCcceEEEEEEEc---cEEcCCCEEEEccCCCceeeeeeeccCCCcchhhcccccceeeceeecCcCeE
Q psy9896 25 LQATVLEVKAIPGLGTTIDTILVN---GTLYEGDTVVLAGTDGPIVTQIRSLLMPQPMQELRVKNAYVEYKKIKGTQGVK 101 (145)
Q Consensus 25 ~~gtVLEvK~~kGlG~tidvIl~~---G~L~~GD~Iv~~~~~Gpi~tkIRaLl~p~Pl~E~R~k~~~~~~~~v~aa~gVk 101 (145)
--|.|+|||++ +.-|.+.+ -..++|-+||=+.++|..-+-|+-+. =.+.-+..+|.||+
T Consensus 215 TfGiV~EV~E~-----~v~V~V~~DIaaNvkPg~YiVe~n~~~~egd~Vkl~V-------------E~s~~s~rgsrPVR 276 (284)
T COG4025 215 TFGIVEEVKED-----LVEVFVHDDIAANVKPGYYIVEGNFHGKEGDIVKLLV-------------EHSGRSFRGSRPVR 276 (284)
T ss_pred eeEEEEEEcCC-----eEEEEEccchhhcCCCCeEEecCcccCCCCCeEEEEE-------------ecccceecCCCceE
Confidence 47999999987 55666554 34688888888876664444444443 12235677888999
Q ss_pred EecC
Q psy9896 102 IAAK 105 (145)
Q Consensus 102 I~a~ 105 (145)
|.+-
T Consensus 277 Il~v 280 (284)
T COG4025 277 ILEV 280 (284)
T ss_pred EEee
Confidence 9853
No 107
>TIGR00503 prfC peptide chain release factor 3. This translation releasing factor, RF-3 (prfC) was originally described as stop codon-independent, in contrast to peptide chain release factor 1 (RF-1, prfA) and RF-2 (prfB). RF-1 and RF-2 are closely related to each other, while RF-3 is similar to elongation factors EF-Tu and EF-G; RF-1 is active at UAA and UAG and RF-2 is active at UAA and UGA. More recently, RF-3 was shown to be active primarily at UGA stop codons in E. coli. All bacteria and organelles have RF-1. The Mycoplasmas and organelles, which translate UGA as Trp rather than as a stop codon, lack RF-2. RF-3, in contrast, seems to be rare among bacteria and is found so far only in Escherichia coli and some other gamma subdivision Proteobacteria, in Synechocystis PCC6803, and in Staphylococcus aureus.
Probab=36.99 E-value=3e+02 Score=25.44 Aligned_cols=82 Identities=13% Similarity=0.055 Sum_probs=53.4
Q ss_pred ceEEEEEEee--e-CCcceEEEEEEEccEEcCCCEEEEccCCCceeeeeeeccCCCcchhhcccccceeeceeecCcCeE
Q psy9896 25 LQATVLEVKA--I-PGLGTTIDTILVNGTLYEGDTVVLAGTDGPIVTQIRSLLMPQPMQELRVKNAYVEYKKIKGTQGVK 101 (145)
Q Consensus 25 ~~gtVLEvK~--~-kGlG~tidvIl~~G~L~~GD~Iv~~~~~Gpi~tkIRaLl~p~Pl~E~R~k~~~~~~~~v~aa~gVk 101 (145)
+.|-|.=+.. + +-.|..+=+=+++|+|+.||++.-....-+ -|+..++... -.+...++++.| |=-
T Consensus 294 ~~~~VFK~~~~mdp~~~griaf~RV~sG~l~~g~~v~~~~~~k~--~ri~~~~~~~-------g~~~~~v~~a~a--GDI 362 (527)
T TIGR00503 294 FSGFVFKIQANMDPKHRDRVAFMRVVSGKYEKGMKLKHVRTGKD--VVISDALTFM-------AGDREHVEEAYA--GDI 362 (527)
T ss_pred eeEEEEEEEeccCcccCceEEEEEEeeeEEcCCCEEEecCCCCc--EEecchhhhh-------cCCceEcceeCC--CCE
Confidence 6788888766 7 478999999999999999999976543322 2344444321 124466676665 333
Q ss_pred EecCCCCcccCCCeEE
Q psy9896 102 IAAKDLEKTIAGLNLR 117 (145)
Q Consensus 102 I~a~~Le~~~AGs~l~ 117 (145)
+...++.....|+.|.
T Consensus 363 ~~~~~~~~~~~GDtl~ 378 (527)
T TIGR00503 363 IGLHNHGTIQIGDTFT 378 (527)
T ss_pred EEEECCCCcccCCEec
Confidence 3334677777777663
No 108
>PRK14533 groES co-chaperonin GroES; Provisional
Probab=36.75 E-value=62 Score=23.33 Aligned_cols=32 Identities=25% Similarity=0.308 Sum_probs=22.5
Q ss_pred ceEEEEEEeeeCCcceEEEEEEEccEEcCCCEEEEccCCC
Q psy9896 25 LQATVLEVKAIPGLGTTIDTILVNGTLYEGDTVVLAGTDG 64 (145)
Q Consensus 25 ~~gtVLEvK~~kGlG~tidvIl~~G~L~~GD~Iv~~~~~G 64 (145)
.+|+|+.+-. |. + ...-.+++||++++....|
T Consensus 36 ~~G~VvavG~----g~--~--~~~~~Vk~GD~Vl~~~y~g 67 (91)
T PRK14533 36 MKAEVVAVGK----LD--D--EEDFDIKVGDKVIFSKYAG 67 (91)
T ss_pred ceEEEEEECC----CC--c--cccccccCCCEEEEccCCC
Confidence 4778887753 22 1 2256799999999987777
No 109
>PRK05933 type III secretion system protein; Validated
Probab=36.28 E-value=38 Score=30.49 Aligned_cols=43 Identities=19% Similarity=0.175 Sum_probs=33.2
Q ss_pred ceEEEEEEeeeCCc-ceEEEEEEEccEEcCCCEEEEccCCCceeee
Q psy9896 25 LQATVLEVKAIPGL-GTTIDTILVNGTLYEGDTVVLAGTDGPIVTQ 69 (145)
Q Consensus 25 ~~gtVLEvK~~kGl-G~tidvIl~~G~L~~GD~Iv~~~~~Gpi~tk 69 (145)
..|.|+|. ++.. |.-+|+.+.+=.+-.|+.||++...|...|.
T Consensus 328 ~~GSVIeL--Dk~a~GEpVDI~VNGrLIARGEVVVVdd~fGVRItE 371 (372)
T PRK05933 328 GPGSILQF--DGVHPTLGVDIILNGAKVGRGEIIALGDVLGIRVLE 371 (372)
T ss_pred CCCCEEEe--CCcCCCCCEEEEECCEEEeeeeEEEECCeeEEEEee
Confidence 58999998 4443 6788987766667899999999888855554
No 110
>PLN00116 translation elongation factor EF-2 subunit; Provisional
Probab=35.93 E-value=2.1e+02 Score=27.89 Aligned_cols=36 Identities=19% Similarity=0.154 Sum_probs=24.6
Q ss_pred eEEEEEEeeeCCcce-EEEEEEEccEEcCCCEEEEcc
Q psy9896 26 QATVLEVKAIPGLGT-TIDTILVNGTLYEGDTVVLAG 61 (145)
Q Consensus 26 ~gtVLEvK~~kGlG~-tidvIl~~G~L~~GD~Iv~~~ 61 (145)
.+.|.=+..++.-|. ..=+=+|.|+|+.||.|.+.+
T Consensus 377 ~a~VfK~~~~~~~g~~l~~~RVysGtL~~g~~v~v~~ 413 (843)
T PLN00116 377 MLYVSKMIPASDKGRFFAFGRVFSGTVATGMKVRIMG 413 (843)
T ss_pred EEEEEeeeecCCCCeEEEEEEEEeeeecCCCEEEEeC
Confidence 344443333555566 677789999999999996544
No 111
>PF08776 VASP_tetra: VASP tetramerisation domain; InterPro: IPR014885 Vasodilator-stimulated phosphoprotein (VASP) is an actin cytoskeletal regulatory protein. This region corresponds to the tetramerisation domain which forms a right handed alpha helical coiled coil structure []. ; PDB: 1USE_A 1USD_A.
Probab=35.29 E-value=36 Score=21.57 Aligned_cols=20 Identities=20% Similarity=0.483 Sum_probs=11.0
Q ss_pred ccHHHHHHHHHHHHHHHhhh
Q psy9896 123 DEIDDLCDEVARELKSALST 142 (145)
Q Consensus 123 ~e~e~~~~ev~~e~~~~~~~ 142 (145)
.|.+.+|.|+.+|+..-+++
T Consensus 3 ~dle~~KqEIL~EvrkEl~K 22 (40)
T PF08776_consen 3 SDLERLKQEILEEVRKELQK 22 (40)
T ss_dssp HHHHHHHHHHHHHHHHHHHH
T ss_pred hhHHHHHHHHHHHHHHHHHH
Confidence 45666666666655544433
No 112
>COG5257 GCD11 Translation initiation factor 2, gamma subunit (eIF-2gamma; GTPase) [Translation, ribosomal structure and biogenesis]
Probab=34.92 E-value=38 Score=30.80 Aligned_cols=62 Identities=26% Similarity=0.248 Sum_probs=41.2
Q ss_pred ceEEEEEEeeeCCcceE--------EEEEEEccEEcCCCEEEEc----------cCCCceeeeeeeccCCCcchhhcccc
Q psy9896 25 LQATVLEVKAIPGLGTT--------IDTILVNGTLYEGDTVVLA----------GTDGPIVTQIRSLLMPQPMQELRVKN 86 (145)
Q Consensus 25 ~~gtVLEvK~~kGlG~t--------idvIl~~G~L~~GD~Iv~~----------~~~Gpi~tkIRaLl~p~Pl~E~R~k~ 86 (145)
+.-.|+-+....-=|+- +-==|.+|.||+||.|-.- ...-|++|+|.+|.-
T Consensus 212 p~m~v~RSFDVNkPGt~~~~L~GGViGGsl~~G~l~vGDEIEIrPGi~v~k~~k~~~~pi~T~i~Sl~a----------- 280 (415)
T COG5257 212 PRMYVARSFDVNKPGTPPEELKGGVIGGSLVQGVLRVGDEIEIRPGIVVEKGGKTVWEPITTEIVSLQA----------- 280 (415)
T ss_pred ceEEEEeecccCCCCCCHHHccCceecceeeeeeEecCCeEEecCCeEeecCCceEEEEeeEEEEEEEe-----------
Confidence 56666666655444443 3344789999999998542 122388999999884
Q ss_pred cceeeceeecC
Q psy9896 87 AYVEYKKIKGT 97 (145)
Q Consensus 87 ~~~~~~~v~aa 97 (145)
....++++.|-
T Consensus 281 g~~~~~ea~PG 291 (415)
T COG5257 281 GGEDVEEARPG 291 (415)
T ss_pred CCeeeeeccCC
Confidence 35667777765
No 113
>PF07831 PYNP_C: Pyrimidine nucleoside phosphorylase C-terminal domain; InterPro: IPR013102 This domain is found at the C-terminal end of the large alpha/beta domain making up various pyrimidine nucleoside phosphorylases [, ]. It has slightly different conformations in different members of this family. For example, in pyrimidine nucleoside phosphorylase (PYNP, P77826 from SWISSPROT) there is an added three-stranded anti-parallel beta sheet as compared to other members of the family, such as Escherichia coli thymidine phosphorylase (TP, P07650 from SWISSPROT) []. The domain contains an alpha/ beta hammerhead fold and residues in this domain seem to be important in formation of the homodimer []. ; GO: 0016763 transferase activity, transferring pentosyl groups, 0006213 pyrimidine nucleoside metabolic process; PDB: 1AZY_A 1OTP_A 2TPT_A 3H5Q_A 1BRW_A 2WK5_C 2J0F_C 2WK6_B 1UOU_A 2DSJ_B ....
Probab=34.83 E-value=53 Score=22.62 Aligned_cols=44 Identities=16% Similarity=0.254 Sum_probs=27.3
Q ss_pred eeceeecCcCeEEecCCCCcccCCCeEEEecCccc--HHHHHHHHH
Q psy9896 90 EYKKIKGTQGVKIAAKDLEKTIAGLNLRVAKDQDE--IDDLCDEVA 133 (145)
Q Consensus 90 ~~~~v~aa~gVkI~a~~Le~~~AGs~l~vv~~~~e--~e~~~~ev~ 133 (145)
.=+.+-++.|+.+...==+.|.+|+||..+-..++ .++..+.++
T Consensus 24 k~d~ID~~vGi~l~~k~Gd~V~~Gd~l~~i~~~~~~~~~~a~~~~~ 69 (75)
T PF07831_consen 24 KEDPIDPAVGIELHKKVGDRVEKGDPLATIYANDEARLEEAVERLR 69 (75)
T ss_dssp TTS---TT-EEEESS-TTSEEBTTSEEEEEEESSSSHHHHHHHHHH
T ss_pred CCCccCcCcCeEecCcCcCEECCCCeEEEEEcCChHHHHHHHHHHH
Confidence 33678899999998873388899999988765443 455555443
No 114
>cd04717 BAH_polybromo BAH, or Bromo Adjacent Homology domain, as present in polybromo and yeast RSC1/2. The human polybromo protein (BAF180) is a component of the SWI/SNF chromatin-remodeling complex PBAF. It is thought that polybromo participates in transcriptional regulation. Saccharomyces cerevisiae RSC1 and RSC2 are part of the 15-subunit nucleosome remodeling RSC complex. BAH domains are found in a variety of proteins playing roles in transcriptional silencing and the remodeling of chromatin. It is assumed that in most or all of these instances the BAH domain mediates protein-protein interactions.
Probab=34.61 E-value=57 Score=23.69 Aligned_cols=28 Identities=29% Similarity=0.381 Sum_probs=23.1
Q ss_pred cEEcCCCEEEEccCCC---ceeeeeeeccCC
Q psy9896 49 GTLYEGDTVVLAGTDG---PIVTQIRSLLMP 76 (145)
Q Consensus 49 G~L~~GD~Iv~~~~~G---pi~tkIRaLl~p 76 (145)
-.+++||.+.+.+.++ |.+++|..|+..
T Consensus 2 ~~~~vGD~V~v~~~~~~~~~~i~~I~~i~~~ 32 (121)
T cd04717 2 LQYRVGDCVYVANPEDPSKPIIFRIERLWKD 32 (121)
T ss_pred CEEECCCEEEEeCCCCCCCCEEEEEeEEEEC
Confidence 3579999999987654 789999999975
No 115
>PF09378 HAS-barrel: HAS barrel domain; InterPro: IPR018538 The HAS barrel is named after HerA-ATP Synthase. In ATP synthases, this domain is implicated in the assembly of the catalytic toroid and docking of accessory subunits, such as the subunit of the ATP synthase complex. Similar roles in docking of the functional partner, the NurA nuclease, and assembly of the HerA toroid complex appear likely for the HAS-barrel of the HerA family []. ; PDB: 3OAA_I.
Probab=34.23 E-value=84 Score=21.02 Aligned_cols=26 Identities=15% Similarity=0.216 Sum_probs=20.1
Q ss_pred EEcCCCEEEEccC-CCceeeeeeeccC
Q psy9896 50 TLYEGDTVVLAGT-DGPIVTQIRSLLM 75 (145)
Q Consensus 50 ~L~~GD~Iv~~~~-~Gpi~tkIRaLl~ 75 (145)
-.+.||++++-.. +..+.++|..+-.
T Consensus 22 ~v~~GeyV~i~~~~~~~vlG~V~~i~~ 48 (91)
T PF09378_consen 22 DVRVGEYVVIEYDDGEKVLGMVTSISR 48 (91)
T ss_dssp T-BTTEEEEES----TTEEEEEEEEES
T ss_pred CCCcCeEEEEEEechhhhhhhhheeEE
Confidence 7899999999877 7889999999887
No 116
>PF00181 Ribosomal_L2: Ribosomal Proteins L2, RNA binding domain; InterPro: IPR022666 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. Ribosomal protein L2 is one of the proteins from the large ribosomal subunit. This entry represents the best conserved region located in the C-terminal section of these proteins.In Escherichia coli, L2 is known to bind to the 23S rRNA and to have peptidyltransferase activity. It belongs to a family of ribosomal proteins which, on the basis of sequence similarities [, ], groups: Eubacterial L2. Algal and plant chloroplast L2. Cyanelle L2. Archaebacterial L2. Plant L2. Slime mold L2. Marchantia polymorpha mitochondrial L2. Paramecium tetraurelia mitochondrial L2. Fission yeast K5, K37 and KD4. Yeast YL6. Vertebrate L8. ; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 1YIT_A 1Q7Y_C 1YJN_A 3CPW_A 3I56_A 1VQ9_A 1M1K_C 3CC7_A 1YIJ_A 1K9M_C ....
Probab=34.14 E-value=1.2e+02 Score=20.86 Aligned_cols=27 Identities=15% Similarity=0.337 Sum_probs=21.5
Q ss_pred ceEEEEEEeeeCCcceEEEEEEE-ccEE
Q psy9896 25 LQATVLEVKAIPGLGTTIDTILV-NGTL 51 (145)
Q Consensus 25 ~~gtVLEvK~~kGlG~tidvIl~-~G~L 51 (145)
..|+|+++..|++..+-+=.|.+ ||.+
T Consensus 33 ~~g~V~~i~~DP~Rsa~iAlV~~~~g~~ 60 (77)
T PF00181_consen 33 IKGIVIDIEYDPNRSAPIALVKYEDGEK 60 (77)
T ss_dssp EEEEEEEEEEETTTSSEEEEEEETTSEE
T ss_pred CcEEEEEEEecCCcCccEEEEEecCCcE
Confidence 58999999999999887776664 4444
No 117
>COG0490 Putative regulatory, ligand-binding protein related to C-terminal domains of K+ channels [Inorganic ion transport and metabolism]
Probab=33.98 E-value=51 Score=26.54 Aligned_cols=33 Identities=18% Similarity=0.040 Sum_probs=26.0
Q ss_pred CeEEecCCCCcc-cCCCeEEEecCcccHHHHHHH
Q psy9896 99 GVKIAAKDLEKT-IAGLNLRVAKDQDEIDDLCDE 131 (145)
Q Consensus 99 gVkI~a~~Le~~-~AGs~l~vv~~~~e~e~~~~e 131 (145)
+=+|..||=+.+ .+|+.|+++.++..+.+++.+
T Consensus 123 ~e~I~SPgPy~vle~gDtlvviG~~~~~~r~~~f 156 (162)
T COG0490 123 EEKILSPGPYTVLEAGDTLVVIGEETGLKRAKRF 156 (162)
T ss_pred CcEecCCCchhhhcCCCEEEEEecchHhHHHHHH
Confidence 345667776666 999999999988888877765
No 118
>cd02394 vigilin_like_KH K homology RNA-binding domain_vigilin_like. The vigilin family is a large and extended family of multiple KH-domain proteins, including vigilin, also called high density lipoprotein binding protien (HBP), fungal Scp160 and bicaudal-C. Yeast Scp160p has been shown to bind RNA and to associate with both soluble and membrane-bound polyribosomes as a mRNP component. Bicaudal-C is a RNA-binding molecule believed to function in embryonic development at the post-transcriptional level. In general, KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA.
Probab=33.58 E-value=29 Score=21.93 Aligned_cols=43 Identities=19% Similarity=0.239 Sum_probs=29.3
Q ss_pred cceeeceeecCcCeEEecCCCCcccCCCeEEEecCcccHHHHHHH
Q psy9896 87 AYVEYKKIKGTQGVKIAAKDLEKTIAGLNLRVAKDQDEIDDLCDE 131 (145)
Q Consensus 87 ~~~~~~~v~aa~gVkI~a~~Le~~~AGs~l~vv~~~~e~e~~~~e 131 (145)
.+.+++++...+|++|.-++-+ .+-..+.+..+.+.++..+++
T Consensus 18 ~G~~i~~i~~~~g~~I~i~~~~--~~~~~v~I~G~~~~v~~A~~~ 60 (62)
T cd02394 18 KGSNIRKIMEETGVKIRFPDPG--SKSDTITITGPKENVEKAKEE 60 (62)
T ss_pred CCCcHHHHHHHhCCEEEcCCCC--CCCCEEEEEcCHHHHHHHHHH
Confidence 5788899999999999987533 333456666665656555544
No 119
>PRK04542 elongation factor P; Provisional
Probab=32.74 E-value=1.4e+02 Score=24.31 Aligned_cols=64 Identities=16% Similarity=0.249 Sum_probs=43.2
Q ss_pred HHHHHHHHHHhhcC------ccCc------ceEEEEEEee-eCC------cceEEEEEEEcc-------EEcCCCEEEEc
Q psy9896 7 EIQYCQTFLKKRLM------FKNE------LQATVLEVKA-IPG------LGTTIDTILVNG-------TLYEGDTVVLA 60 (145)
Q Consensus 7 l~gl~Q~~m~~~L~------~~~~------~~gtVLEvK~-~kG------lG~tidvIl~~G-------~L~~GD~Iv~~ 60 (145)
++|.+.+||++-+. |+++ +.-++|||-. ++| -|.+=.+.|.+| -++.||.|.+-
T Consensus 99 ~lgd~~~~L~e~~~~v~v~~~~~~~i~v~lP~~V~l~V~etep~~kGdT~~~~~KpAtLetG~~v~VP~FI~~Gd~I~Vd 178 (189)
T PRK04542 99 QIEDELLFIPEGMPGMQVLTVDGQPVALELPQTVDLEIVETAPSIKGASASARTKPATLSTGLVIQVPEYISTGEKIRIN 178 (189)
T ss_pred HhhhHhhhhhcCCEEEEEEEECCEEEEEECCCEEEEEEEECCCCccccccCCCCccEEEcCCCEEEeCCcccCCCEEEEE
Confidence 45778899988876 3433 3556777776 222 222334667776 47899999999
Q ss_pred cCCCceeeee
Q psy9896 61 GTDGPIVTQI 70 (145)
Q Consensus 61 ~~~Gpi~tkI 70 (145)
+..|--+.|+
T Consensus 179 T~tgeYv~R~ 188 (189)
T PRK04542 179 TEERKFMGRA 188 (189)
T ss_pred CCCCcEEeec
Confidence 9998766654
No 120
>PF03473 MOSC: MOSC domain; InterPro: IPR005302 Molybdenum cofactor (MOCO) sulphurases [] catalyse the insertion of a terminal sulphur ligand into the molybdenum cofactor, thereby converting the oxo form of MOCO to a sulphurylated form. Suphurylated MOCO is required by several enzymes, including: aldehyde oxidase (1.2.3.1 from EC), which function in the last step of abscisic acid biosynthesis in plants []; and xanthine dehydrogenase (1.17.1.4 from EC), which synthesis uric acid from xanthine during nitrogen metabolism []. This entry represents the beta-barrel C-terminal domain of MOCO sulphurase (MOSC domain), which has a beta-barrel structure similar to that of the beta-barrel domain in pyruvate kinase and contains a highly conserved cysteine residue required for activity. MOSC domains are found in several diverse metal-sulphur cluster biosynthesis proteins from both eukaryotes and prokaryotes. MOSC domains occu as either stand-alone forms, such as the YiiM protein from Escherichia coli, or fused to other domains, such as a NifS-like catalytic domain in MOCO sulphurase. The MOSC domain is predicted to be a sulphur-carrier domain that receives sulphur abstracted from pyridoxal phosphate-dependent NifS-like enzymes, on its conserved cysteine, and delivers it for the formation of diverse sulphur-metal clusters []. The MOSC domain contains several patches of hydrophobic residues and an absolutely conserved cysteine residue situated closer to the C-terminal end of the domain. The absolutely conserved cysteine in the MOSC domain is reminiscent of the analogous conservation of a cysteine in the active site of the thioredoxin and rhodanese superfamilies. Members of both these superfamilies, especially of the latter one, have been implicated in the synthesis of Fe-S clusters, through mobilisation of sulphur with their active cysteine. ; GO: 0003824 catalytic activity, 0030151 molybdenum ion binding, 0030170 pyridoxal phosphate binding; PDB: 1ORU_B 1O67_C 1O65_C.
Probab=32.40 E-value=64 Score=23.32 Aligned_cols=21 Identities=29% Similarity=0.457 Sum_probs=14.6
Q ss_pred cceEEEEEEEccEEcCCCEEEE
Q psy9896 38 LGTTIDTILVNGTLYEGDTVVL 59 (145)
Q Consensus 38 lG~tidvIl~~G~L~~GD~Iv~ 59 (145)
.|..+. ++..|++++||.|.+
T Consensus 113 ~G~~~~-V~~~G~I~vGD~V~V 133 (133)
T PF03473_consen 113 RGVYAR-VIKGGTIRVGDEVEV 133 (133)
T ss_dssp S-EEEE-EEE-EEEETTSEEEE
T ss_pred ceEEEE-eccCCEEccCCeEEC
Confidence 355554 579999999999864
No 121
>TIGR00739 yajC preprotein translocase, YajC subunit. While this protein is part of the preprotein translocase in Escherichia coli, it is not essential for viability or protein secretion. The N-terminus region contains a predicted membrane-spanning region followed by a region consisting almost entirely of residues with charged (acidic, basic, or zwitterionic) side chains. This small protein is about 100 residues in length, and is restricted to bacteria; however, this protein is absent from some lineages, including spirochetes and Mycoplasmas.
Probab=32.01 E-value=51 Score=23.28 Aligned_cols=22 Identities=27% Similarity=0.527 Sum_probs=17.6
Q ss_pred EEcCCCEEEEccCCCceeeeeeecc
Q psy9896 50 TLYEGDTVVLAGTDGPIVTQIRSLL 74 (145)
Q Consensus 50 ~L~~GD~Iv~~~~~Gpi~tkIRaLl 74 (145)
.|++||.|+.. |=++++|.++=
T Consensus 37 ~L~~Gd~VvT~---gGi~G~V~~i~ 58 (84)
T TIGR00739 37 SLKKGDKVLTI---GGIIGTVTKIA 58 (84)
T ss_pred hCCCCCEEEEC---CCeEEEEEEEe
Confidence 58999999997 44777888775
No 122
>TIGR01564 S_layer_MJ S-layer protein, MJ0822 family. This model represents one of several families of proteins associated with the formation of prokaryotic S-layers. Members of this family are found in archaeal species, including Pyrococcus horikoshii (split into two tandem reading frames), Methanococcus jannaschii, and related species. Some local similarity can be found to other S-layer protein families.
Probab=30.77 E-value=31 Score=32.77 Aligned_cols=28 Identities=32% Similarity=0.500 Sum_probs=24.1
Q ss_pred EEccEEcCCCEEEEccCCCceeeeeeeccCC
Q psy9896 46 LVNGTLYEGDTVVLAGTDGPIVTQIRSLLMP 76 (145)
Q Consensus 46 l~~G~L~~GD~Iv~~~~~Gpi~tkIRaLl~p 76 (145)
+|+|+|++||++-+|.-+| .|+.+++.+
T Consensus 267 vy~G~ikegesy~~Gngy~---vkv~~il~~ 294 (571)
T TIGR01564 267 VSDGAIKEGDTYVYGTGYG---TKFYAILKE 294 (571)
T ss_pred hhcCccccCceEEecCceE---EEEEEEeec
Confidence 5899999999999987776 888898854
No 123
>PF13533 Biotin_lipoyl_2: Biotin-lipoyl like
Probab=30.47 E-value=1e+02 Score=19.19 Aligned_cols=16 Identities=25% Similarity=0.223 Sum_probs=13.3
Q ss_pred CcccCCCeEEEecCcc
Q psy9896 108 EKTIAGLNLRVAKDQD 123 (145)
Q Consensus 108 e~~~AGs~l~vv~~~~ 123 (145)
+.|.+|++|+.+++++
T Consensus 22 ~~VkkGd~L~~ld~~~ 37 (50)
T PF13533_consen 22 QQVKKGDVLLVLDSPD 37 (50)
T ss_pred CEEcCCCEEEEECcHH
Confidence 7789999999997644
No 124
>PRK15452 putative protease; Provisional
Probab=30.27 E-value=3.7e+02 Score=24.46 Aligned_cols=47 Identities=19% Similarity=0.227 Sum_probs=32.8
Q ss_pred ceEEEEEEeeeCCcceEEEEEEEccEEcCCCEEEEccCCCceeeeeeeccC
Q psy9896 25 LQATVLEVKAIPGLGTTIDTILVNGTLYEGDTVVLAGTDGPIVTQIRSLLM 75 (145)
Q Consensus 25 ~~gtVLEvK~~kGlG~tidvIl~~G~L~~GD~Iv~~~~~Gpi~tkIRaLl~ 75 (145)
.-|.|.++....|. +.+-+.| .+++||.|.+-+..|.+..+|..|.+
T Consensus 361 ~~g~v~~~~~~~~~---~~v~~~~-~~~~gd~~~~~~~~~~~~~~~~~~~~ 407 (443)
T PRK15452 361 FVGEFTGERAGTGL---AEVEVKN-KFSVGDSLELMTPQGNINFTLERMEN 407 (443)
T ss_pred EEEEEEEEecCCCE---EEEEEeC-CCCCCCEEEEeecCCceEEEeehhcc
Confidence 46888877544342 4444455 59999999997777777777777763
No 125
>COG2016 Predicted RNA-binding protein (contains PUA domain) [Translation, ribosomal structure and biogenesis]
Probab=30.08 E-value=94 Score=24.98 Aligned_cols=46 Identities=24% Similarity=0.301 Sum_probs=30.6
Q ss_pred EEEccEEcCCCEEEEccCC-CceeeeeeeccCCCcchhhcccccceeece
Q psy9896 45 ILVNGTLYEGDTVVLAGTD-GPIVTQIRSLLMPQPMQELRVKNAYVEYKK 93 (145)
Q Consensus 45 Il~~G~L~~GD~Iv~~~~~-Gpi~tkIRaLl~p~Pl~E~R~k~~~~~~~~ 93 (145)
+=+||.+++||+|++.... |-..+==+||.. -+||-..++++.++.
T Consensus 101 v~~~~~ik~Gd~VvV~~e~~~~plAVG~alm~---~~em~~~~kGkav~~ 147 (161)
T COG2016 101 VSADGEIKEGDIVVVVDEKKGRPLAVGIALMS---GKEMEEKKKGKAVKN 147 (161)
T ss_pred eecCCCccCCCEEEEEEcCCCCeeEEEeeccC---HHHHhhhcCCeEEEE
Confidence 4578999999999997655 666666667764 456654445444443
No 126
>PRK04972 putative transporter; Provisional
Probab=29.65 E-value=1.2e+02 Score=28.10 Aligned_cols=101 Identities=18% Similarity=0.238 Sum_probs=0.0
Q ss_pred EEeeeCCcceEEEEEEEcc---------EEcCCCEEEEccCCCcee---------------------eeeeeccCCC---
Q psy9896 31 EVKAIPGLGTTIDTILVNG---------TLYEGDTVVLAGTDGPIV---------------------TQIRSLLMPQ--- 77 (145)
Q Consensus 31 EvK~~kGlG~tidvIl~~G---------~L~~GD~Iv~~~~~Gpi~---------------------tkIRaLl~p~--- 77 (145)
|.+.....|.++--|.-+| .|+.||.+++-+....+. .-++.++.|+
T Consensus 235 el~~~~~~~v~I~~I~R~g~~~~p~~dt~L~~GDiL~V~G~~e~l~~l~~~~~lg~e~~~~~~~~~~~~~E~vVv~~s~l 314 (558)
T PRK04972 235 ELGIYRQTGCYIERIRRNGILANPDGDAVLQMGDEIALVGYPDAHARLDPSFRNGKEVFDRDLLDMRIVTEEIVVKNHNA 314 (558)
T ss_pred HHHhhcCCCEEEEEEEECCEEecCCCCCEeCCCCEEEEEECHHHHHHHHHhhcCCCcccCccccCcceEEEEEEEcCccc
Q ss_pred ---cchhhcccccceeeceeecCcCeEEecCCCCcccCCCeEEEecCcccHHHHHHHH
Q psy9896 78 ---PMQELRVKNAYVEYKKIKGTQGVKIAAKDLEKTIAGLNLRVAKDQDEIDDLCDEV 132 (145)
Q Consensus 78 ---Pl~E~R~k~~~~~~~~v~aa~gVkI~a~~Le~~~AGs~l~vv~~~~e~e~~~~ev 132 (145)
+++|++-+...-.+-.+.-.-.--+..++ -...+||.+.++.++++++++.+..
T Consensus 315 iGkTL~eL~~r~~gv~Vl~I~R~g~~~~~~~~-~~L~~GD~LlVvG~~~~i~~l~~~l 371 (558)
T PRK04972 315 VGKRLSQLKLTDHGCFLNRVIRSQIEMPIDDN-VVLNKGDVLQVSGDARRVKTIADRI 371 (558)
T ss_pred CCCCHHHhCCccCCeEEEEEecCCcccCCCCC-CEecCCCEEEEEECHHHHHHHHHHh
No 127
>cd05792 S1_eIF1AD_like S1_eIF1AD_like: eukaryotic translation initiation factor 1A domain containing protein (eIF1AD)-like, S1-like RNA-binding domain. eIF1AD is also known as MGC11102 protein. Little is known about the function of eIF1AD. S1-like RNA-binding domains are found in a wide variety of RNA-associated proteins, including translation initiation factor IF1A (also referred to as eIF1A in eukaryotes). eIF1A is essential for translation initiation. eIF1A acts synergistically with eIF1 to mediate assembly of ribosomal initiation complexes at the initiation codon and maintain the accuracy of this process by recognizing and destabilizing aberrant preinitiation complexes from the mRNA. Without eIF1A and eIF1, 43S ribosomal preinitiation complexes can bind to the cap-proximal region, but are unable to reach the initiation codon. eIF1a also enhances the formation of 5'-terminal complexes in the presence of other translation initiation factors.
Probab=29.59 E-value=47 Score=23.48 Aligned_cols=35 Identities=17% Similarity=0.380 Sum_probs=24.6
Q ss_pred EcCCCEEEEccCC-C-ceeeeeeeccCCCcchhhccc
Q psy9896 51 LYEGDTVVLAGTD-G-PIVTQIRSLLMPQPMQELRVK 85 (145)
Q Consensus 51 L~~GD~Iv~~~~~-G-pi~tkIRaLl~p~Pl~E~R~k 85 (145)
+|.||++++...+ | .+.+-|-..+++.-.+.+|.+
T Consensus 39 IkrGd~VlV~p~~~~~kvkgeIv~i~~~~qvk~L~k~ 75 (78)
T cd05792 39 IKRGDFVLVEPIEEGDKVKAEIVKILTRDHVKYIKEE 75 (78)
T ss_pred EEeCCEEEEEecccCCceEEEEEEEECHHHHHHHHHc
Confidence 7899999997633 4 367777777776656666644
No 128
>PRK06531 yajC preprotein translocase subunit YajC; Validated
Probab=29.00 E-value=56 Score=24.65 Aligned_cols=22 Identities=23% Similarity=0.383 Sum_probs=16.2
Q ss_pred EEcCCCEEEEccCCCceeeeeeecc
Q psy9896 50 TLYEGDTVVLAGTDGPIVTQIRSLL 74 (145)
Q Consensus 50 ~L~~GD~Iv~~~~~Gpi~tkIRaLl 74 (145)
.|++||.|+.. |=++++|..+-
T Consensus 36 sLk~GD~VvT~---GGi~G~V~~I~ 57 (113)
T PRK06531 36 AIQKGDEVVTI---GGLYGTVDEVD 57 (113)
T ss_pred hcCCCCEEEEC---CCcEEEEEEEe
Confidence 58899999975 34566777665
No 129
>PF01954 DUF104: Protein of unknown function DUF104; InterPro: IPR008203 This family includes short archaebacterial proteins of unknown function. Archaeoglobus fulgidus has twelve copies of this protein, with several being clustered together in the genome.; PDB: 2NWT_A.
Probab=28.31 E-value=43 Score=22.46 Aligned_cols=34 Identities=24% Similarity=0.409 Sum_probs=18.4
Q ss_pred cceEEEEEEEccEEcCCCEEEEccCCCceeeeeeeccCC
Q psy9896 38 LGTTIDTILVNGTLYEGDTVVLAGTDGPIVTQIRSLLMP 76 (145)
Q Consensus 38 lG~tidvIl~~G~L~~GD~Iv~~~~~Gpi~tkIRaLl~p 76 (145)
++.++.+|.-||+|+.=+-+-+. +| ++|+=.+.+
T Consensus 1 M~~~I~aiYe~GvlkPl~~~~L~--Eg---~~V~i~I~~ 34 (60)
T PF01954_consen 1 MSKVIEAIYENGVLKPLEPVDLP--EG---EEVKITIEE 34 (60)
T ss_dssp ----EEEEEETTEEEECS-------TT---EEEEEEE--
T ss_pred CCceEEEEEECCEEEECCCCCCC--CC---CEEEEEEec
Confidence 46789999999999988777664 45 566665544
No 130
>smart00652 eIF1a eukaryotic translation initiation factor 1A.
Probab=28.29 E-value=56 Score=23.06 Aligned_cols=36 Identities=14% Similarity=0.151 Sum_probs=27.3
Q ss_pred EcCCCEEEEcc-CCCceeeeeeeccCCCcchhhcccc
Q psy9896 51 LYEGDTVVLAG-TDGPIVTQIRSLLMPQPMQELRVKN 86 (145)
Q Consensus 51 L~~GD~Iv~~~-~~Gpi~tkIRaLl~p~Pl~E~R~k~ 86 (145)
++.||++.+.- .+++..+.|-..+++...+.+|.++
T Consensus 44 I~~GD~VlVe~~~~~~~kg~Iv~r~~~~~vk~L~k~g 80 (83)
T smart00652 44 IRRGDIVLVDPWDFQDVKADIIYKYTKDEVRWLKKEG 80 (83)
T ss_pred EcCCCEEEEEecCCCCCEEEEEEEeCHHHHHHHHHcC
Confidence 78999999864 4567788888888887777777543
No 131
>cd04370 BAH BAH, or Bromo Adjacent Homology domain (also called ELM1 and BAM for Bromo Adjacent Motif). BAH domains have first been described as domains found in the polybromo protein and Yeast Rsc1/Rsc2 (Remodeling of the Structure of Chromatin). They also occur in mammalian DNA methyltransferases and the MTA1 subunits of histone deacetylase complexes. A BAH domain is also found in Yeast Sir3p and in the origin receptor complex protein 1 (Orc1p), where it was found to interact with the N-terminal lobe of the silence information regulator 1 protein (Sir1p), confirming the initial hypothesis that BAH plays a role in protein-protein interactions.
Probab=27.85 E-value=83 Score=21.64 Aligned_cols=27 Identities=30% Similarity=0.441 Sum_probs=21.6
Q ss_pred EEcCCCEEEEccCCC-----ceeeeeeeccCC
Q psy9896 50 TLYEGDTVVLAGTDG-----PIVTQIRSLLMP 76 (145)
Q Consensus 50 ~L~~GD~Iv~~~~~G-----pi~tkIRaLl~p 76 (145)
+.++||.|.+.+.+. |-+++|..+...
T Consensus 3 ~y~vgd~V~v~~~~~~~~~~~~i~~I~~i~~~ 34 (123)
T cd04370 3 TYEVGDSVYVEPDDSIKSDPPYIARIEELWED 34 (123)
T ss_pred EEecCCEEEEecCCcCCCCCCEEEEEeeeeEC
Confidence 678999999987553 778999888865
No 132
>TIGR00999 8a0102 Membrane Fusion Protein cluster 2 (function with RND porters).
Probab=27.40 E-value=56 Score=25.88 Aligned_cols=20 Identities=25% Similarity=0.300 Sum_probs=15.1
Q ss_pred EEEEEccEEcCCCEEEEccCC
Q psy9896 43 DTILVNGTLYEGDTVVLAGTD 63 (145)
Q Consensus 43 dvIl~~G~L~~GD~Iv~~~~~ 63 (145)
.+.+.+| |..||.||+.|.+
T Consensus 243 ~~~I~~g-L~~gd~vv~~g~~ 262 (265)
T TIGR00999 243 YYEVLEG-LKPGERVAVENTF 262 (265)
T ss_pred EEEEecC-CCCCCEEEEcCcE
Confidence 4555566 9999999998654
No 133
>PRK04163 exosome complex RNA-binding protein Rrp4; Provisional
Probab=27.09 E-value=2.3e+02 Score=23.27 Aligned_cols=94 Identities=15% Similarity=0.177 Sum_probs=52.5
Q ss_pred HHhhcCccCcceEEEEEEeeeCCcceEEEEE-EEccEEcCCCEEEEccCCCceeeeeeeccCCCcchhhcccccceeece
Q psy9896 15 LKKRLMFKNELQATVLEVKAIPGLGTTIDTI-LVNGTLYEGDTVVLAGTDGPIVTQIRSLLMPQPMQELRVKNAYVEYKK 93 (145)
Q Consensus 15 m~~~L~~~~~~~gtVLEvK~~kGlG~tidvI-l~~G~L~~GD~Iv~~~~~Gpi~tkIRaLl~p~Pl~E~R~k~~~~~~~~ 93 (145)
|.+-+...+-..|.|+.+..+.. ..+.+= -.=|.|.-| +++-... .+++.|+.| ....++.
T Consensus 108 ~~~~~~~GDlV~akV~~i~~~~~--~~LS~k~~~lG~L~~G-~~~~V~~-----~~i~~lig~----------~g~~i~~ 169 (235)
T PRK04163 108 LRKYLDIGDYIIAKVKDVDRTRD--VVLTLKGKGLGKIEGG-TIVEIKP-----VKVPRVIGK----------KGSMINM 169 (235)
T ss_pred hHhhCCCCCEEEEEEEEECCCCc--EEEEEcCCCCCccCCC-EEEEECH-----HHHHhhcCC----------CChhHhh
Confidence 44445554558999998865432 222210 011667766 3333222 377788766 4677888
Q ss_pred eecCcCeEEecCCCCcccCCCeEEEecC-cccHHHHHHHH
Q psy9896 94 IKGTQGVKIAAKDLEKTIAGLNLRVAKD-QDEIDDLCDEV 132 (145)
Q Consensus 94 v~aa~gVkI~a~~Le~~~AGs~l~vv~~-~~e~e~~~~ev 132 (145)
+...+|++|.- +.+ |- +++..+ .+.++.+++-+
T Consensus 170 l~~~~~~~I~i-g~N----G~-VwI~~~~~~~~~~a~~~I 203 (235)
T PRK04163 170 LKEETGCDIIV-GQN----GR-IWIKGPDEEDEEIAIEAI 203 (235)
T ss_pred hhhhhCcEEEE-cCC----cE-EEEeeCCHHHHHHHHHHH
Confidence 88889999885 333 44 554444 33444444443
No 134
>KOG4435|consensus
Probab=26.30 E-value=42 Score=31.32 Aligned_cols=66 Identities=18% Similarity=0.324 Sum_probs=50.7
Q ss_pred CEEEEccCCCceeeeeeeccCCCcchhhcccccceeeceeecCcCeEEecCCCCcc-cCCCeEEEecCcccHHHHHHHHH
Q psy9896 55 DTVVLAGTDGPIVTQIRSLLMPQPMQELRVKNAYVEYKKIKGTQGVKIAAKDLEKT-IAGLNLRVAKDQDEIDDLCDEVA 133 (145)
Q Consensus 55 D~Iv~~~~~Gpi~tkIRaLl~p~Pl~E~R~k~~~~~~~~v~aa~gVkI~a~~Le~~-~AGs~l~vv~~~~e~e~~~~ev~ 133 (145)
|.|+|+|-+|.+-+-|-.++.. -.+-+||-+.--|.+++ .+-+-..++.|.|+++.+-+..+
T Consensus 118 Dii~VaGGDGT~~eVVTGi~Rr-----------------r~~~~pv~~~P~G~~~l~~~s~l~~vfe~~d~V~h~~~a~~ 180 (535)
T KOG4435|consen 118 DIIYVAGGDGTIGEVVTGIFRR-----------------RKAQLPVGFYPGGYDNLWLKSMLPSVFENSDDVRHACEAAM 180 (535)
T ss_pred CeEEEecCCCcHHHhhHHHHhc-----------------ccccCceeeccCccchHhhhhhchhhhccchHHHHHHHHHH
Confidence 9999999999998888888842 14567888887788877 66666677888898888777766
Q ss_pred HHHH
Q psy9896 134 RELK 137 (145)
Q Consensus 134 ~e~~ 137 (145)
.=++
T Consensus 181 avik 184 (535)
T KOG4435|consen 181 AVIK 184 (535)
T ss_pred HHhc
Confidence 5444
No 135
>PRK05886 yajC preprotein translocase subunit YajC; Validated
Probab=25.75 E-value=73 Score=23.91 Aligned_cols=22 Identities=23% Similarity=0.300 Sum_probs=17.3
Q ss_pred EEcCCCEEEEccCCCceeeeeeecc
Q psy9896 50 TLYEGDTVVLAGTDGPIVTQIRSLL 74 (145)
Q Consensus 50 ~L~~GD~Iv~~~~~Gpi~tkIRaLl 74 (145)
.|++||.|+.. |=++++|..+-
T Consensus 38 ~Lk~GD~VvT~---gGi~G~V~~I~ 59 (109)
T PRK05886 38 SLQPGDRVHTT---SGLQATIVGIT 59 (109)
T ss_pred hcCCCCEEEEC---CCeEEEEEEEe
Confidence 58999999987 45677888765
No 136
>smart00439 BAH Bromo adjacent homology domain.
Probab=25.74 E-value=77 Score=21.97 Aligned_cols=28 Identities=21% Similarity=0.333 Sum_probs=22.1
Q ss_pred EEcCCCEEEEccCC---CceeeeeeeccCCC
Q psy9896 50 TLYEGDTVVLAGTD---GPIVTQIRSLLMPQ 77 (145)
Q Consensus 50 ~L~~GD~Iv~~~~~---Gpi~tkIRaLl~p~ 77 (145)
++++||+|.+-+.+ -+-+++|..|....
T Consensus 1 ~~~vgd~V~v~~~~~~~~~~i~~I~~i~~~~ 31 (120)
T smart00439 1 TIRVGDFVLVEPDDADEPYYIGRIEEIFETK 31 (120)
T ss_pred CcccCCEEEEeCCCCCCCCEEEEEEEEEECC
Confidence 46899999998665 36799999998754
No 137
>cd04482 RPA2_OBF_like RPA2_OBF_like: A subgroup of uncharacterized archaeal OB folds with similarity to the OB fold of the central ssDNA-binding domain (DBD)-D of human RPA2 (also called RPA32). RPA2 is a subunit of Replication protein A (RPA). RPA is a nuclear ssDNA-binding protein (SSB) which appears to be involved in all aspects of DNA metabolism including replication, recombination, and repair. RPA also mediates specific interactions of various nuclear proteins. In animals, plants, and fungi, RPA is a heterotrimer with subunits of 70KDa (RPA1), 32kDa (RPA2), and 14 KDa (RPA3). The major DNA binding activity of RPA is associated with RPA1 DBD-A and DBD-B; RPA2 DBD-D is a weak ssDNA-binding domain. RPA2 DBD-D is also involved in trimerization. The ssDNA binding mechanism is believed to be multistep and to involve conformational change. N-terminal to human RPA2 DBD-D is a domain containing all the known phosphorylation sites of RPA. Human RPA2 is phosphorylated in a cell cycle depende
Probab=25.59 E-value=1.7e+02 Score=20.47 Aligned_cols=32 Identities=25% Similarity=0.341 Sum_probs=22.7
Q ss_pred EEEEEeeeCCcceEEEEEEEccE---------EcCCCEEEEccC
Q psy9896 28 TVLEVKAIPGLGTTIDTILVNGT---------LYEGDTVVLAGT 62 (145)
Q Consensus 28 tVLEvK~~kGlG~tidvIl~~G~---------L~~GD~Iv~~~~ 62 (145)
+.+..|.+. ..++++.+.++ |+.||.|.+.|.
T Consensus 19 ~yFtlkD~~---~~i~cv~f~~~g~~~~~~~~l~~Gd~V~v~G~ 59 (91)
T cd04482 19 VFFKISDGT---GEIDCAAYEPTKEFRDVVRLLIPGDEVTVYGS 59 (91)
T ss_pred EEEEEECCC---cEEEEEEECcccccccccCCCCCCCEEEEEEE
Confidence 555565533 47888888876 388998888753
No 138
>COG3264 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]
Probab=25.41 E-value=45 Score=33.06 Aligned_cols=27 Identities=33% Similarity=0.491 Sum_probs=20.1
Q ss_pred EEEEccEEcCCCEEEEccCCCceeeeee
Q psy9896 44 TILVNGTLYEGDTVVLAGTDGPIVTQIR 71 (145)
Q Consensus 44 vIl~~G~L~~GD~Iv~~~~~Gpi~tkIR 71 (145)
+|+..=-+|+||+|.+|+..| +++|||
T Consensus 654 IiL~ErpvkvGD~It~g~~~G-~V~~I~ 680 (835)
T COG3264 654 IILFERPVKVGDTVTIGTVSG-TVRKIS 680 (835)
T ss_pred hhheecCcccCCEEEECCceE-EEEEEE
Confidence 356667789999999999887 344444
No 139
>COG1886 FliN Flagellar motor switch/type III secretory pathway protein [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=25.07 E-value=66 Score=24.54 Aligned_cols=43 Identities=21% Similarity=0.323 Sum_probs=34.5
Q ss_pred ceEEEEEEeeeCCcceEEEEEEEccEEcCCCEEEEccCCCceeee
Q psy9896 25 LQATVLEVKAIPGLGTTIDTILVNGTLYEGDTVVLAGTDGPIVTQ 69 (145)
Q Consensus 25 ~~gtVLEvK~~kGlG~tidvIl~~G~L~~GD~Iv~~~~~Gpi~tk 69 (145)
.+|.|||.. +-.|--+|+++.+=.+-.|..+++...+|...|.
T Consensus 93 ~~Gsvi~Ld--~~~~~~VdI~vNg~~Ig~GEvVvvd~~~GVrIte 135 (136)
T COG1886 93 GKGSVIELD--KLAGEPVDILVNGRLIGRGEVVVVDDKFGVRITE 135 (136)
T ss_pred CCCCEEEcC--CcCCCceEEEECCEEEEEEeEEEECCeEEEEEEe
Confidence 478999887 7777888888777788999999998888865554
No 140
>TIGR00149 TIGR00149_YbjQ secondary thiamine-phosphate synthase enzyme. Members of this protein family have been studied extensively by crystallography. Members from several different species have been shown to have sufficient thiamin phosphate synthase activity (EC 2.5.1.3) to complement thiE mutants. However, it is presumed that this is a secondary activity, and the primary function of this enzyme remains unknown.
Probab=25.01 E-value=1.2e+02 Score=23.32 Aligned_cols=32 Identities=34% Similarity=0.501 Sum_probs=27.3
Q ss_pred cceEEEEEEEccEEcCCC--EEEEccCCCceeee
Q psy9896 38 LGTTIDTILVNGTLYEGD--TVVLAGTDGPIVTQ 69 (145)
Q Consensus 38 lG~tidvIl~~G~L~~GD--~Iv~~~~~Gpi~tk 69 (145)
+|+..++.+.||.|..|. .|.++-++||-.-+
T Consensus 91 ~G~s~tipi~dG~L~LGtwQ~I~l~E~Dg~r~R~ 124 (132)
T TIGR00149 91 LGTSQHVPVENGRLQLGTWQGIFFAEFDGPRTRR 124 (132)
T ss_pred cCccEEEEEeCCEEcccCccEEEEEECCCCCCcE
Confidence 689999999999999995 69999999876433
No 141
>cd04456 S1_IF1A_like S1_IF1A_like: Translation initiation factor IF1A-like, S1-like RNA-binding domain. IF1A is also referred to as eIF1A in eukaryotes and aIF1A in archaea. S1-like RNA-binding domains are found in a wide variety of RNA-associated proteins. IF1A is essential for translation initiation. eIF1A acts synergistically with eIF1 to mediate assembly of ribosomal initiation complexes at the initiation codon and maintain the accuracy of this process by recognizing and destabilizing aberrant preinitiation complexes from the mRNA. Without eIF1A and eIF1, 43S ribosomal preinitiation complexes can bind to the cap-proximal region, but are unable to reach the initiation codon. eIF1a also enhances the formation of 5'-terminal complexes in the presence of other translation initiation factors. This protein family is only found in eukaryotes and archaea.
Probab=24.33 E-value=67 Score=22.43 Aligned_cols=35 Identities=11% Similarity=0.258 Sum_probs=25.8
Q ss_pred EcCCCEEEEccCC--CceeeeeeeccCCCcchhhccc
Q psy9896 51 LYEGDTVVLAGTD--GPIVTQIRSLLMPQPMQELRVK 85 (145)
Q Consensus 51 L~~GD~Iv~~~~~--Gpi~tkIRaLl~p~Pl~E~R~k 85 (145)
++.||++.+.-.. .+..+.|-.-+++.-.+.+|.+
T Consensus 39 I~~GD~VlV~~~~~~~~~kg~Iv~r~~~~~vk~L~k~ 75 (78)
T cd04456 39 IKRGDFLIVDPIEEGEDVKADIIFVYCKDHVRSLKKE 75 (78)
T ss_pred EcCCCEEEEEecccCCCceEEEEEEeCHHHHHHHHHc
Confidence 6789999997543 3778888888887666666644
No 142
>PTZ00328 eukaryotic initiation factor 5a; Provisional
Probab=23.89 E-value=78 Score=25.57 Aligned_cols=40 Identities=20% Similarity=0.266 Sum_probs=31.6
Q ss_pred CcceEEEEEEEccEEcCCCEEEEccCCCceeeeeeeccCCCcch
Q psy9896 37 GLGTTIDTILVNGTLYEGDTVVLAGTDGPIVTQIRSLLMPQPMQ 80 (145)
Q Consensus 37 GlG~tidvIl~~G~L~~GD~Iv~~~~~Gpi~tkIRaLl~p~Pl~ 80 (145)
.-|+..+.=.+=|.||+|++|++-|. -|||-.+.+.+|=|
T Consensus 14 ~~gas~t~p~q~~~LkkG~yvvIkGr----PCKIveistSKtGK 53 (166)
T PTZ00328 14 GDNASKTYPLPAGALKKGGYVCINGR----PCKVIDLSVSKTGK 53 (166)
T ss_pred CCCCCceecccccceeECCEEEECCe----eeEEEEEecCCCCc
Confidence 45677778888999999999999654 38888888876643
No 143
>PF12869 tRNA_anti-like: tRNA_anti-like; InterPro: IPR024422 The function of the proteins in this entry is not known, but they contain a novel variant of the nucleic acid-binding OB fold [].; PDB: 3F1Z_I.
Probab=23.38 E-value=1.5e+02 Score=21.55 Aligned_cols=37 Identities=22% Similarity=0.290 Sum_probs=19.2
Q ss_pred ceEEEEEEeeeCCcce-----------EEEEEEEccE--------EcCCCEEEEcc
Q psy9896 25 LQATVLEVKAIPGLGT-----------TIDTILVNGT--------LYEGDTVVLAG 61 (145)
Q Consensus 25 ~~gtVLEvK~~kGlG~-----------tidvIl~~G~--------L~~GD~Iv~~~ 61 (145)
.+|+|-++....+--. .+.+-+.+.. |++||.|.+-|
T Consensus 72 vtG~V~~I~~~~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~l~~G~~Vti~G 127 (144)
T PF12869_consen 72 VTGTVSSIDKGFGDNYVVLLGTENGFAGVQCYFSNDQEKRASVAKLKKGQKVTIKG 127 (144)
T ss_dssp EEEEEEEEEE-STT-EEEEEE-TT-S-S--EEEEEEGGGHHHHHH--TTSEEEEEE
T ss_pred EEEEEEEEEEcCCCcEEEEccCCCCceeEEEEEccchhhhhhHhcCCCCCEEEEEE
Confidence 4899998866333222 1223333444 88888888754
No 144
>cd02775 MopB_CT Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and tungsten-containing enzymes, including formate dehydrogenase-H (Fdh-H) and -N (Fdh-N), several forms of nitrate reductase (Nap, Nas, NarG), dimethylsulfoxide reductase (DMSOR), thiosulfate reductase, formylmethanofuran dehydrogenase, and arsenite oxidase. Molybdenum is present in most of these enzymes in the form of molybdopterin, a modified pterin ring with a dithiolene side chain, which is responsible for ligating the Mo. In many bacterial and archaeal species, molybdopterin is in the form of a dinucleotide, with two molybdopterin dinucleotide units per molybdenum. These proteins can function as monomers, heterodimers, or heterotrimers, depending on the protein and organism. Also included in the MopB superfamily is
Probab=23.32 E-value=91 Score=20.84 Aligned_cols=21 Identities=24% Similarity=0.510 Sum_probs=16.3
Q ss_pred EcCCCEEEEccCCCceeeeee
Q psy9896 51 LYEGDTVVLAGTDGPIVTQIR 71 (145)
Q Consensus 51 L~~GD~Iv~~~~~Gpi~tkIR 71 (145)
|+.||.+.+....|.+..+++
T Consensus 37 l~~Gd~v~v~~~~g~~~~~v~ 57 (101)
T cd02775 37 IKDGDLVRVESRRGSVVLRAK 57 (101)
T ss_pred CCCCCEEEEEcCCcEEEEEEE
Confidence 567999999998987665553
No 145
>PTZ00414 10 kDa heat shock protein; Provisional
Probab=23.10 E-value=85 Score=23.19 Aligned_cols=20 Identities=35% Similarity=0.554 Sum_probs=16.0
Q ss_pred cEEcCCCEEEEccCCCceeeeee
Q psy9896 49 GTLYEGDTVVLAGTDGPIVTQIR 71 (145)
Q Consensus 49 G~L~~GD~Iv~~~~~Gpi~tkIR 71 (145)
-.+++||++++....| |+|+
T Consensus 61 ~~Vk~GD~Vl~~~y~G---tevk 80 (100)
T PTZ00414 61 PTVKVGDTVLLPEFGG---SSVK 80 (100)
T ss_pred ceecCCCEEEEcCCCC---cEEE
Confidence 4699999999987777 5554
No 146
>PRK13631 cbiO cobalt transporter ATP-binding subunit; Provisional
Probab=22.85 E-value=1.5e+02 Score=25.24 Aligned_cols=55 Identities=22% Similarity=0.257 Sum_probs=36.5
Q ss_pred HHHHHhhcCccC-cceEEEEEEeeeC-CcceE---EEEEE--EccEEcCCCEEEEccCCCce
Q psy9896 12 QTFLKKRLMFKN-ELQATVLEVKAIP-GLGTT---IDTIL--VNGTLYEGDTVVLAGTDGPI 66 (145)
Q Consensus 12 Q~~m~~~L~~~~-~~~gtVLEvK~~k-GlG~t---idvIl--~~G~L~~GD~Iv~~~~~Gpi 66 (145)
..||+++|.+-. ....++||++... .++.. -.-++ .|=+++.|+.+.+.|.+|.=
T Consensus 3 ~~~~~~~~~~~~~~~~~~~l~~~nl~~~y~~~~~~~~~~L~~vsl~i~~Ge~~~I~G~nGsG 64 (320)
T PRK13631 3 DYFMKKKLKVPNPLSDDIILRVKNLYCVFDEKQENELVALNNISYTFEKNKIYFIIGNSGSG 64 (320)
T ss_pred hhhhhcCCCCCCCCCCCceEEEEeEEEEeCCCCcccccceeeeEEEEcCCCEEEEECCCCCC
Confidence 468999999843 4566788887653 22210 00122 35678999999999998854
No 147
>KOG0463|consensus
Probab=22.51 E-value=1.7e+02 Score=27.50 Aligned_cols=96 Identities=21% Similarity=0.405 Sum_probs=59.7
Q ss_pred HHHHhhcCccCc--ceEEEEEEeeeCCcceEEEEEEEccEEcCCCEEEEcc-CCCcee-eeeeeccCCC-cchhhcc-cc
Q psy9896 13 TFLKKRLMFKNE--LQATVLEVKAIPGLGTTIDTILVNGTLYEGDTVVLAG-TDGPIV-TQIRSLLMPQ-PMQELRV-KN 86 (145)
Q Consensus 13 ~~m~~~L~~~~~--~~gtVLEvK~~kGlG~tidvIl~~G~L~~GD~Iv~~~-~~Gpi~-tkIRaLl~p~-Pl~E~R~-k~ 86 (145)
+.+.-|..++++ ++=-|=.+--.+|.|+++.=-+-.|++|.+|++.+|. .+|.+. -.||.+-.-+ |..+.|- ..
T Consensus 354 Nlls~R~~~~E~~PAeFQIDD~Y~VpGVGTvvSGT~L~GtIrLND~LlLGPd~~G~F~pI~iKSIHRKRMpV~~VrcGQt 433 (641)
T KOG0463|consen 354 NLLSLRRQLNENDPAEFQIDDIYWVPGVGTVVSGTLLSGTIRLNDILLLGPDSNGDFMPIPIKSIHRKRMPVGIVRCGQT 433 (641)
T ss_pred hhcCcccccccCCCcceeecceEecCCcceEeecceeeeeEEeccEEEecCCCCCCeeeeehhhhhhccccceEEeccch
Confidence 445566677654 7778888899999999999999999999999999974 444321 1233332211 3333331 11
Q ss_pred ---cceeeceeecCcCeEEecCCCC
Q psy9896 87 ---AYVEYKKIKGTQGVKIAAKDLE 108 (145)
Q Consensus 87 ---~~~~~~~v~aa~gVkI~a~~Le 108 (145)
..+.++...--.|.....|.|.
T Consensus 434 ASFALKKIkr~~vRKGMVmVsp~lk 458 (641)
T KOG0463|consen 434 ASFALKKIKRKDVRKGMVMVSPKLK 458 (641)
T ss_pred hhhHhhhcchhhhhcceEEecCCCC
Confidence 1244444444556666666543
No 148
>smart00359 PUA Putative RNA-binding Domain in PseudoUridine synthase and Archaeosine transglycosylase.
Probab=22.43 E-value=1.4e+02 Score=19.05 Aligned_cols=28 Identities=29% Similarity=0.399 Sum_probs=20.2
Q ss_pred EEEEccEEcCCCEEEEccCCCceeeeee
Q psy9896 44 TILVNGTLYEGDTVVLAGTDGPIVTQIR 71 (145)
Q Consensus 44 vIl~~G~L~~GD~Iv~~~~~Gpi~tkIR 71 (145)
++-.+|.++.||.+.+...+|-.++.-.
T Consensus 24 v~~~~~~~~~g~~V~v~~~~g~~vg~G~ 51 (77)
T smart00359 24 VVRVDGGIKEGDVVVIVDEKGEPLGIGL 51 (77)
T ss_pred eEEEeCCcCCCCEEEEEcCCCCEEEEEE
Confidence 3445677888998888887887766544
No 149
>PF12124 Nsp3_PL2pro: Coronavirus polyprotein cleavage domain; InterPro: IPR022733 This domain is found in SARS coronaviruses, and is about 70 amino acids in length. It is found associated with various other coronavirus proteins due to the polyprotein nature of most viral translation. PL2pro is a domain of the non-structural protein nsp3. The domain performs three of the cleavages required to separate the translated polyprotein into its distinct proteins. ; GO: 0004197 cysteine-type endopeptidase activity, 0008242 omega peptidase activity, 0016740 transferase activity, 0016788 hydrolase activity, acting on ester bonds, 0016817 hydrolase activity, acting on acid anhydrides; PDB: 2KAF_A 2KQW_A.
Probab=22.29 E-value=61 Score=22.16 Aligned_cols=21 Identities=29% Similarity=0.483 Sum_probs=14.2
Q ss_pred EEcCCCEEEEccCCCceeeee
Q psy9896 50 TLYEGDTVVLAGTDGPIVTQI 70 (145)
Q Consensus 50 ~L~~GD~Iv~~~~~Gpi~tkI 70 (145)
-|+.||.||.-+...|+.-..
T Consensus 31 flkrgdkivyht~~~~iefh~ 51 (66)
T PF12124_consen 31 FLKRGDKIVYHTVENPIEFHM 51 (66)
T ss_dssp EEEETTEEEEE-SSSS--EEE
T ss_pred HHhcCCEEEEEecCCceEEEe
Confidence 489999999988877765443
No 150
>cd02792 MopB_CT_Formate-Dh-Na-like Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the major electron donor to the nitrate respiratory chain. Also included in this CD is the Desulfovibrio gigas tungsten formate dehydrogenase, DgW-FDH. In contrast to Fdh-N, which is a functional heterotrimer, DgW-FDH is a heterodimer. The DgW-FDH complex is composed of a large subunit carrying the W active site and one [4Fe-4S] center, and a small subunit that harbors a series of three [4Fe-4S] clusters as well as a putative vacant binding site for a fourth cluster. The smaller subunit is not included in this alignment. This CD (MopB_CT_Formate-Dh-Na-like) is of the conserved molybdopterin_binding C-terminal (MopB_CT) region present in many, but not all, MopB homologs.
Probab=22.19 E-value=95 Score=21.76 Aligned_cols=21 Identities=24% Similarity=0.366 Sum_probs=16.4
Q ss_pred EcCCCEEEEccCCCceeeeee
Q psy9896 51 LYEGDTVVLAGTDGPIVTQIR 71 (145)
Q Consensus 51 L~~GD~Iv~~~~~Gpi~tkIR 71 (145)
|+.||.|.+.+..|.+..+++
T Consensus 49 i~~Gd~V~v~s~~G~~~~~v~ 69 (122)
T cd02792 49 IKNGDMVWVSSPRGKIKVKAL 69 (122)
T ss_pred CCCCCEEEEEcCCceEEEEEE
Confidence 578999999999987655443
No 151
>TIGR00451 unchar_dom_2 uncharacterized domain 2. This uncharacterized domain is found a number of enzymes and uncharacterized proteins, often at the C-terminus. It is found in some but not all members of a family of related tRNA-guanine transglycosylases (tgt), which exchange a guanine base for some modified base without breaking the phosphodiester backbone of the tRNA. It is also found in rRNA pseudouridine synthase, another enzyme of RNA base modification not otherwise homologous to tgt. It is found, again at the C-terminus, in two putative glutamate 5-kinases. It is also found in a family of small, uncharacterized archaeal proteins consisting mostly of this domain.
Probab=22.12 E-value=2.2e+02 Score=20.21 Aligned_cols=37 Identities=19% Similarity=0.285 Sum_probs=27.8
Q ss_pred EEEccEEcCCCEEEEccCC-CceeeeeeeccCCCcchhhcc
Q psy9896 45 ILVNGTLYEGDTVVLAGTD-GPIVTQIRSLLMPQPMQELRV 84 (145)
Q Consensus 45 Il~~G~L~~GD~Iv~~~~~-Gpi~tkIRaLl~p~Pl~E~R~ 84 (145)
+=.+|.+++||.+.+...+ |...+.=+++++. +||+.
T Consensus 55 ~~~~~~~~~gd~V~I~~~~~~~~iavG~a~~~s---~e~~~ 92 (107)
T TIGR00451 55 VDADEDIKEGDDVVVVDENKDRPLAVGIALMSG---EEMKE 92 (107)
T ss_pred EeCCCCcCCCCEEEEEECCCCeEEEEEEEecCH---HHHHh
Confidence 3446889999999998776 8888888888864 45543
No 152
>cd02786 MopB_CT_3 The MopB_CT_3 CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. This CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region present in many, but not all, MopB homologs.
Probab=22.06 E-value=91 Score=21.78 Aligned_cols=21 Identities=24% Similarity=0.507 Sum_probs=16.0
Q ss_pred EcCCCEEEEccCCCceeeeee
Q psy9896 51 LYEGDTVVLAGTDGPIVTQIR 71 (145)
Q Consensus 51 L~~GD~Iv~~~~~Gpi~tkIR 71 (145)
|+.||.|.+-+..|-+..+++
T Consensus 45 i~~Gd~V~v~s~~G~~~~~v~ 65 (116)
T cd02786 45 IADGDLVVVFNDRGSVTLRAK 65 (116)
T ss_pred CCCCCEEEEEcCCeEEEEEEE
Confidence 578999999999986654443
No 153
>cd02787 MopB_CT_ydeP The MopB_CT_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. This CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region present in many, but not all, MopB homologs.
Probab=22.02 E-value=82 Score=22.12 Aligned_cols=21 Identities=33% Similarity=0.260 Sum_probs=17.0
Q ss_pred EcCCCEEEEccCCCceeeeee
Q psy9896 51 LYEGDTVVLAGTDGPIVTQIR 71 (145)
Q Consensus 51 L~~GD~Iv~~~~~Gpi~tkIR 71 (145)
|+.||.|.+-+..|.+..+++
T Consensus 45 I~dGd~V~v~s~~G~i~~~a~ 65 (112)
T cd02787 45 LKAGDRVDLESAFGDGQGRIV 65 (112)
T ss_pred CCCCCEEEEEecCCCCeEEEE
Confidence 578999999999997765554
No 154
>cd04488 RecG_wedge_OBF RecG_wedge_OBF: A subfamily of OB folds corresponding to the OB fold found in the N-terminal (wedge) domain of Escherichia coli RecG. RecG is a branched-DNA-specific helicase, which catalyzes the interconversion of a DNA replication fork to a four-stranded (Holliday) junction in vivo and in vitro. This interconversion provides a route to repair stalled forks. The RecG monomer contains three domains. The N-terminal domain is named for its wedge structure, and may provide the specificity of RecG for binding branched-DNA structures. During the reversal of fork to Holliday junction, the wedge domain is fixed at the junction of the fork where the leading and lagging strand duplex arms meet, and is thought to promote the unwinding of the nascent leading and lagging strands. In order to form the Holliday junction, these nascent strands would be annealed, and the parental strands reannealed. The wedge domain may also be a processivity factor of RecG on these branched cha
Probab=21.76 E-value=2.1e+02 Score=17.57 Aligned_cols=24 Identities=25% Similarity=0.493 Sum_probs=11.2
Q ss_pred eEEEEEEeeeCCc-ceEEEEEEEcc
Q psy9896 26 QATVLEVKAIPGL-GTTIDTILVNG 49 (145)
Q Consensus 26 ~gtVLEvK~~kGl-G~tidvIl~~G 49 (145)
.|+|.+.....+- +..+.+.+.|+
T Consensus 3 ~~~V~~~~~~~~~~~~~~~~~~~D~ 27 (75)
T cd04488 3 EGTVVSVEVVPRRGRRRLKVTLSDG 27 (75)
T ss_pred EEEEEEEEeccCCCccEEEEEEEcC
Confidence 4556555443321 23455555554
No 155
>PF01426 BAH: BAH domain; InterPro: IPR001025 The BAH (bromo-adjacent homology) family contains proteins such as eukaryotic DNA (cytosine-5) methyltransferases IPR001525 from INTERPRO, the origin recognition complex 1 (Orc1) proteins, as well as several proteins involved in transcriptional regulation. The BAH domain appears to act as a protein-protein interaction module specialised in gene silencing, as suggested for example by its interaction within yeast Orc1p with the silent information regulator Sir1p. The BAH module might therefore play an important role by linking DNA methylation, replication and transcriptional regulation [].; GO: 0003677 DNA binding; PDB: 4DA4_A 3PT6_B 3AV6_A 3AV5_A 3AV4_A 3PT9_A 3SWR_A 3PTA_A 1M4Z_A 1ZBX_A ....
Probab=21.75 E-value=1.3e+02 Score=20.88 Aligned_cols=27 Identities=30% Similarity=0.362 Sum_probs=20.7
Q ss_pred EEcCCCEEEEccCC---CceeeeeeeccCC
Q psy9896 50 TLYEGDTVVLAGTD---GPIVTQIRSLLMP 76 (145)
Q Consensus 50 ~L~~GD~Iv~~~~~---Gpi~tkIRaLl~p 76 (145)
++++||.|.+-..+ .+.+++|..|...
T Consensus 2 ~~~vGD~V~v~~~~~~~~~~v~~I~~i~~~ 31 (119)
T PF01426_consen 2 TYKVGDFVYVKPDDPPEPPYVARIEEIWED 31 (119)
T ss_dssp EEETTSEEEEECTSTTSEEEEEEEEEEEEE
T ss_pred EEeCCCEEEEeCCCCCCCCEEEEEEEEEcC
Confidence 57899999997755 2568888888743
No 156
>cd02790 MopB_CT_Formate-Dh_H Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H) is a monomer composed of a single polypeptide chain with a Mo active site region and a [4Fe-4S] center. This CD (MopB_CT_Formate-Dh_H) is of the conserved molybdopterin_binding C-terminal (MopB_CT) region present in many, but not all, MopB homologs.
Probab=21.72 E-value=87 Score=21.69 Aligned_cols=21 Identities=19% Similarity=0.477 Sum_probs=16.3
Q ss_pred EcCCCEEEEccCCCceeeeee
Q psy9896 51 LYEGDTVVLAGTDGPIVTQIR 71 (145)
Q Consensus 51 L~~GD~Iv~~~~~Gpi~tkIR 71 (145)
|+.||.|.+.+..|.+..+++
T Consensus 49 i~~Gd~V~v~~~~G~~~~~v~ 69 (116)
T cd02790 49 IEDGEKVRVSSRRGSVEVRAR 69 (116)
T ss_pred CCCCCEEEEEcCCEEEEEEEE
Confidence 688999999998886654443
No 157
>cd02779 MopB_CT_Arsenite-Ox This CD contains the molybdopterin_binding C-terminal (MopB_CT) region of Arsenite oxidase (Arsenite-Ox) and related proteins. Arsenite oxidase oxidizes arsenite to the less toxic arsenate; it transfers the electrons obtained from the oxidation of arsenite towards the soluble periplasmic electron carriers cytochrome c and/or amicyanin.
Probab=20.97 E-value=91 Score=22.11 Aligned_cols=21 Identities=24% Similarity=0.238 Sum_probs=16.8
Q ss_pred EcCCCEEEEccCCCceeeeee
Q psy9896 51 LYEGDTVVLAGTDGPIVTQIR 71 (145)
Q Consensus 51 L~~GD~Iv~~~~~Gpi~tkIR 71 (145)
|+.||.|.+-+..|.+..+++
T Consensus 47 i~~Gd~V~v~s~~G~i~~~~~ 67 (115)
T cd02779 47 LKNGDLVEVYNDYGSTTAMAY 67 (115)
T ss_pred CCCCCEEEEEeCCEEEEEEEE
Confidence 678999999999987665554
No 158
>PTZ00416 elongation factor 2; Provisional
Probab=20.93 E-value=5.3e+02 Score=25.21 Aligned_cols=34 Identities=15% Similarity=0.162 Sum_probs=24.3
Q ss_pred EEEEEEeeeCCcce-EEEEEEEccEEcCCCEEEEc
Q psy9896 27 ATVLEVKAIPGLGT-TIDTILVNGTLYEGDTVVLA 60 (145)
Q Consensus 27 gtVLEvK~~kGlG~-tidvIl~~G~L~~GD~Iv~~ 60 (145)
+-|.=+..++..|. ..=+=+|+|+|+.||+|.+-
T Consensus 374 a~VfK~~~~~~~g~~~s~~RV~SGtL~~g~~v~v~ 408 (836)
T PTZ00416 374 MYISKMVPTSDKGRFYAFGRVFSGTVATGQKVRIQ 408 (836)
T ss_pred EEEEeeeecCCCCcEEEEEEEEeeeecCCCEEEEe
Confidence 33444444566677 67777999999999999653
No 159
>TIGR00300 conserved hypothetical protein TIGR00300. All members of the family come from genome projects. A partial length search brings in two plant lysine-ketoglutarate reductase/saccharopine dehydrogenase bifunctional enzymes hitting the N-terminal region of the family.
Probab=20.64 E-value=1.8e+02 Score=26.71 Aligned_cols=12 Identities=33% Similarity=0.584 Sum_probs=8.7
Q ss_pred cEEcCCCEEEEc
Q psy9896 49 GTLYEGDTVVLA 60 (145)
Q Consensus 49 G~L~~GD~Iv~~ 60 (145)
..||+||.||+|
T Consensus 139 r~lk~GD~VVvG 150 (407)
T TIGR00300 139 REIKKGDRVVVG 150 (407)
T ss_pred cccCCCCEEEEC
Confidence 357788888775
No 160
>cd02781 MopB_CT_Acetylene-hydratase The MopB_CT_Acetylene-hydratase CD contains acetylene hydratase (Ahy) and other related proteins. The acetylene hydratase of Pelobacter acetylenicus is a tungsten iron-sulfur protein involved in the fermentation of acetylene to ethanol and acetate. This CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region present in many, but not all, MopB homologs.
Probab=20.63 E-value=1.1e+02 Score=21.85 Aligned_cols=20 Identities=20% Similarity=0.268 Sum_probs=15.8
Q ss_pred EcCCCEEEEccCCCceeeee
Q psy9896 51 LYEGDTVVLAGTDGPIVTQI 70 (145)
Q Consensus 51 L~~GD~Iv~~~~~Gpi~tkI 70 (145)
|+.||.|.+.+..|.+..++
T Consensus 47 i~~Gd~V~v~s~~G~~~~~v 66 (130)
T cd02781 47 IADGDWVWVETPRGRARQKA 66 (130)
T ss_pred CCCCCEEEEECCCCEEEEEE
Confidence 47899999999998665544
No 161
>PF12857 TOBE_3: TOBE-like domain; InterPro: IPR024765 The TOBE (transport-associated OB) domain [] always occurs as a dimer and it is found in ABC transporters immediately after the ATPase domain. This entry represents a TOBE-like domain, found in the C terminus of ATPase subunit CysA. CysA is part of the CysATWP ABC transporter complex, involved in sulphate/thiosulphate import [, ].
Probab=20.58 E-value=1.5e+02 Score=18.97 Aligned_cols=31 Identities=35% Similarity=0.433 Sum_probs=23.1
Q ss_pred EEEEEeeeCCcceEEEEEEEccE----EcCCCEEEE
Q psy9896 28 TVLEVKAIPGLGTTIDTILVNGT----LYEGDTVVL 59 (145)
Q Consensus 28 tVLEvK~~kGlG~tidvIl~~G~----L~~GD~Iv~ 59 (145)
+=+|++.. +-|..+.+-+..-. |..||++.+
T Consensus 21 vRlEl~~~-~~~~~iEvel~~~~~~l~l~~G~~V~l 55 (58)
T PF12857_consen 21 VRLELKRL-DDGEPIEVELPRERRQLGLQPGDRVYL 55 (58)
T ss_pred EEEEEEEC-CCCCEEEEEeCHhHHhcCCCCCCEEEE
Confidence 44677666 67778888887777 788888876
No 162
>PRK03926 mevalonate kinase; Provisional
Probab=20.57 E-value=1.6e+02 Score=24.17 Aligned_cols=34 Identities=15% Similarity=0.274 Sum_probs=22.9
Q ss_pred cCcCeEEecCCCCcccCCCeEEEecCcccHHHHHHHHHH
Q psy9896 96 GTQGVKIAAKDLEKTIAGLNLRVAKDQDEIDDLCDEVAR 134 (145)
Q Consensus 96 aa~gVkI~a~~Le~~~AGs~l~vv~~~~e~e~~~~ev~~ 134 (145)
.+.|.|++|.| +|..++.+-++++.+++.+++.+
T Consensus 248 ga~ga~lSGaG-----~Gg~v~~l~~~~~~~~~~~~~~~ 281 (302)
T PRK03926 248 GALGAKITGAG-----GGGCMVALAAPEKQSEVATAIKI 281 (302)
T ss_pred CCceeeeccCC-----CCCEEEEEeccccHHHHHHHHHh
Confidence 45688999876 36788887666666666655543
No 163
>PF01568 Molydop_binding: Molydopterin dinucleotide binding domain; InterPro: IPR006657 A domain in this entry corresponds to the C-terminal domain IV in dimethyl sulphoxide (DMSO)reductase which interacts with the 2-amino pyrimidone ring of both molybdopterin guanine dinucleotide molecules [].; GO: 0016491 oxidoreductase activity, 0030151 molybdenum ion binding, 0055114 oxidation-reduction process; PDB: 2IVF_A 1OGY_G 3ML1_A 3O5A_A 1TI2_G 1VLE_M 1VLD_U 1VLF_O 1TI4_I 1TI6_E ....
Probab=20.47 E-value=88 Score=21.50 Aligned_cols=20 Identities=20% Similarity=0.476 Sum_probs=14.6
Q ss_pred EcCCCEEEEccCCCceeeee
Q psy9896 51 LYEGDTVVLAGTDGPIVTQI 70 (145)
Q Consensus 51 L~~GD~Iv~~~~~Gpi~tkI 70 (145)
|+.||.|.+.+..|-+..++
T Consensus 44 i~~Gd~V~v~s~~G~v~~~v 63 (110)
T PF01568_consen 44 IKDGDWVRVSSPRGSVEVRV 63 (110)
T ss_dssp --TTCEEEEEETTEEEEEEE
T ss_pred CcCCCEEEEEeccceEeeee
Confidence 78999999999998555544
No 164
>PF00924 MS_channel: Mechanosensitive ion channel; InterPro: IPR006685 Mechanosensitive (MS) channels provide protection against hypo-osmotic shock, responding both to stretching of the cell membrane and to membrane depolarisation. They are present in the membranes of organisms from the three domains of life: bacteria, archaea, and eukarya []. There are two families of MS channels: large-conductance MS channels (MscL) and small-conductance MS channels (MscS or YGGB). The pressure threshold for MscS opening is 50% that of MscL []. The MscS family is much larger and more variable in size and sequence than the MscL family. Much of the diversity in MscS proteins occurs in the size of the transmembrane regions, which ranges from three to eleven transmembrane helices, although the three C-terminal helices are conserved. This family contains sequences form the MscS family of proteins. MscS folds as a homo-heptamer with a cylindrical shape, and can be divided into transmembrane and extramembrane regions: an N-terminal periplasmic region, a transmembrane region, and a C-terminal cytoplasmic region (middle and C-terminal domains). The transmembrane region forms a channel through the membrane that opens into a chamber enclosed by the extramembrane portion, the latter connecting to the cytoplasm through distinct portals [].; GO: 0055085 transmembrane transport, 0016020 membrane; PDB: 2OAU_E 2VV5_F.
Probab=20.44 E-value=19 Score=27.61 Aligned_cols=20 Identities=30% Similarity=0.627 Sum_probs=13.3
Q ss_pred EEEccEEcCCCEEEEccCCC
Q psy9896 45 ILVNGTLYEGDTVVLAGTDG 64 (145)
Q Consensus 45 Il~~G~L~~GD~Iv~~~~~G 64 (145)
|+.++-+++||.|.+++..|
T Consensus 55 i~~~~pf~vGD~I~i~~~~G 74 (206)
T PF00924_consen 55 ILFERPFKVGDRIEIGGVEG 74 (206)
T ss_dssp HHCC-SS-TT-EEESSS-EE
T ss_pred HhccCCccCCCEEEEEEeeh
Confidence 45678899999999997776
No 165
>COG1792 MreC Cell shape-determining protein [Cell envelope biogenesis, outer membrane]
Probab=20.25 E-value=1.6e+02 Score=25.06 Aligned_cols=34 Identities=29% Similarity=0.369 Sum_probs=27.9
Q ss_pred EEEEEccEEcCCCEEEEccCCCc-----eeeeeeeccCC
Q psy9896 43 DTILVNGTLYEGDTVVLAGTDGP-----IVTQIRSLLMP 76 (145)
Q Consensus 43 dvIl~~G~L~~GD~Iv~~~~~Gp-----i~tkIRaLl~p 76 (145)
.-+..+..+++||.|+..|..|. .+++|...-.+
T Consensus 205 ~~~~~~~~i~~GD~vvTSGlgg~fP~Gl~Vg~V~~v~~~ 243 (284)
T COG1792 205 VYLPPNSDIKEGDLVVTSGLGGVFPAGLPVGEVSSVKLD 243 (284)
T ss_pred eeccCCCCccCCCEEEecCCCCcCCCCcEEEEEEEEEeC
Confidence 56778999999999999998854 57888887754
No 166
>PRK09496 trkA potassium transporter peripheral membrane component; Reviewed
Probab=20.25 E-value=40 Score=29.05 Aligned_cols=29 Identities=24% Similarity=0.403 Sum_probs=22.1
Q ss_pred EEcCCCEEEEccCCCceeeeeeeccCCCc
Q psy9896 50 TLYEGDTVVLAGTDGPIVTQIRSLLMPQP 78 (145)
Q Consensus 50 ~L~~GD~Iv~~~~~Gpi~tkIRaLl~p~P 78 (145)
+|+.||.+++.+...-...+++.+|.|.|
T Consensus 424 ~l~~gD~l~v~~~~~~~~~~~~~~~~~~~ 452 (453)
T PRK09496 424 VIEPGDHVIVFVLDKKFVPDVEKLFQVSP 452 (453)
T ss_pred EECCCCEEEEEEcCcchHHHHHHHhcccC
Confidence 78999999998866532456777888776
No 167
>PRK01123 shikimate kinase; Provisional
Probab=20.03 E-value=1.6e+02 Score=24.45 Aligned_cols=32 Identities=16% Similarity=0.385 Sum_probs=22.9
Q ss_pred cCcCeEEecCCCCcccCCCeEEEecCcccHHHHHHHHHH
Q psy9896 96 GTQGVKIAAKDLEKTIAGLNLRVAKDQDEIDDLCDEVAR 134 (145)
Q Consensus 96 aa~gVkI~a~~Le~~~AGs~l~vv~~~~e~e~~~~ev~~ 134 (145)
++.|++++| +|..++.+-++++.+++.+.+.+
T Consensus 234 Ga~ga~lSG-------aGptv~al~~~~~~~~v~~~l~~ 265 (282)
T PRK01123 234 GAVGVGLSG-------TGPSYVAIVDEEDPEEVKEAWEK 265 (282)
T ss_pred CCeEEEEec-------CCCeEEEEeCCCCHHHHHHHHHh
Confidence 467889996 58999998776666666555443
Done!