Query psy13818
Match_columns 207
No_of_seqs 229 out of 1488
Neff 4.1
Searched_HMMs 46136
Date Fri Aug 16 21:15:03 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy13818.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/13818hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0466|consensus 100.0 5.2E-45 1.1E-49 332.5 5.5 118 1-142 336-453 (466)
2 COG5257 GCD11 Translation init 100.0 5.3E-42 1.1E-46 313.2 10.0 115 1-144 296-411 (415)
3 PF09173 eIF2_C: Initiation fa 100.0 1.3E-32 2.8E-37 209.4 6.4 87 30-144 1-88 (88)
4 COG5257 GCD11 Translation init 99.9 1.6E-25 3.5E-30 205.3 6.8 133 61-207 24-170 (415)
5 COG2895 CysN GTPases - Sulfate 99.8 5.5E-20 1.2E-24 170.3 5.9 111 51-205 46-165 (431)
6 PTZ00327 eukaryotic translatio 99.8 2E-19 4.3E-24 169.3 4.9 131 62-206 49-200 (460)
7 KOG0460|consensus 99.8 9.5E-19 2.1E-23 161.9 7.0 86 109-206 106-200 (449)
8 COG0050 TufB GTPases - transla 99.8 6.5E-19 1.4E-23 160.8 5.1 87 109-207 64-159 (394)
9 COG3276 SelB Selenocysteine-sp 99.7 4.7E-18 1E-22 159.8 7.1 110 62-206 15-132 (447)
10 COG5256 TEF1 Translation elong 99.7 2E-16 4.2E-21 148.2 8.3 85 109-206 74-172 (428)
11 KOG0466|consensus 99.6 2.2E-16 4.7E-21 145.4 5.5 85 118-207 110-209 (466)
12 PRK10512 selenocysteinyl-tRNA- 99.6 4.4E-16 9.6E-21 150.9 7.2 111 62-206 15-133 (614)
13 PTZ00327 eukaryotic translatio 99.6 1.5E-15 3.4E-20 143.1 8.5 121 2-146 329-451 (460)
14 TIGR03680 eif2g_arch translati 99.5 1E-14 2.2E-19 134.0 7.7 113 3-144 292-405 (406)
15 KOG0458|consensus 99.5 2E-14 4.3E-19 139.0 8.9 85 109-206 244-342 (603)
16 TIGR00475 selB selenocysteine- 99.5 6.4E-14 1.4E-18 134.9 6.7 86 109-206 39-132 (581)
17 TIGR03680 eif2g_arch translati 99.5 5.7E-14 1.2E-18 129.1 5.5 77 124-206 79-163 (406)
18 PLN03126 Elongation factor Tu; 99.4 1.6E-13 3.5E-18 129.9 5.8 86 109-206 133-227 (478)
19 PTZ00141 elongation factor 1- 99.4 5E-13 1.1E-17 125.1 7.2 79 122-206 82-178 (446)
20 PLN03127 Elongation factor Tu; 99.4 5.1E-13 1.1E-17 125.3 6.4 86 109-206 113-207 (447)
21 PLN00043 elongation factor 1-a 99.4 7.1E-13 1.5E-17 124.2 7.1 85 109-204 74-172 (447)
22 TIGR00485 EF-Tu translation el 99.3 2E-12 4.2E-17 118.2 6.0 77 123-206 73-158 (394)
23 TIGR02034 CysN sulfate adenyly 99.3 4.7E-12 1E-16 116.6 7.0 73 109-193 69-149 (406)
24 PRK04000 translation initiatio 99.3 7.4E-12 1.6E-16 115.8 7.9 110 5-143 299-409 (411)
25 PRK12736 elongation factor Tu; 99.3 1E-11 2.2E-16 113.8 7.0 77 123-206 73-158 (394)
26 CHL00071 tufA elongation facto 99.2 2.7E-11 5.8E-16 111.6 7.0 77 123-206 73-158 (409)
27 PRK05124 cysN sulfate adenylyl 99.2 3.3E-11 7.1E-16 113.7 7.7 84 109-204 96-189 (474)
28 PF00009 GTP_EFTU: Elongation 99.2 4.3E-11 9.4E-16 97.5 5.8 74 121-203 66-147 (188)
29 PRK12735 elongation factor Tu; 99.2 6.3E-11 1.4E-15 108.7 7.5 77 123-206 73-158 (396)
30 cd01884 EF_Tu EF-Tu subfamily. 99.1 6.3E-11 1.4E-15 99.4 6.1 77 123-206 63-148 (195)
31 PRK05506 bifunctional sulfate 99.1 1.2E-10 2.5E-15 112.7 6.9 85 109-205 93-187 (632)
32 KOG0459|consensus 99.1 1.6E-10 3.5E-15 109.2 7.5 85 110-205 147-245 (501)
33 cd01888 eIF2_gamma eIF2-gamma 99.1 1.8E-10 3.9E-15 95.6 6.6 76 125-206 83-166 (203)
34 PRK00049 elongation factor Tu; 99.1 2.7E-10 5.8E-15 104.7 7.9 77 123-206 73-158 (396)
35 PRK04000 translation initiatio 99.1 1.4E-10 3E-15 107.4 5.4 76 125-206 85-168 (411)
36 cd04165 GTPBP1_like GTPBP1-lik 99.1 2.9E-10 6.2E-15 97.4 6.8 82 118-207 77-168 (224)
37 PRK12317 elongation factor 1-a 99.0 1.8E-09 3.8E-14 99.3 8.9 86 109-206 73-170 (425)
38 TIGR00483 EF-1_alpha translati 99.0 1.5E-09 3.1E-14 100.1 7.9 76 124-206 84-172 (426)
39 cd01883 EF1_alpha Eukaryotic e 98.8 1.5E-08 3.3E-13 85.2 6.9 63 123-191 75-151 (219)
40 cd04094 selB_III This family r 98.6 2.6E-07 5.7E-12 69.5 7.8 86 17-142 1-94 (97)
41 TIGR01394 TypA_BipA GTP-bindin 98.6 8.3E-08 1.8E-12 93.5 6.4 81 122-206 61-144 (594)
42 cd04166 CysN_ATPS CysN_ATPS su 98.6 1.1E-07 2.4E-12 79.2 5.7 63 123-192 75-145 (208)
43 COG5258 GTPBP1 GTPase [General 98.5 2E-07 4.4E-12 88.5 7.3 77 124-207 199-285 (527)
44 cd01885 EF2 EF2 (for archaea a 98.5 2.8E-07 6.1E-12 79.4 6.6 79 123-204 71-158 (222)
45 cd04171 SelB SelB subfamily. 98.4 5.1E-07 1.1E-11 69.2 6.1 75 124-205 50-132 (164)
46 COG1217 TypA Predicted membran 98.4 8.7E-07 1.9E-11 85.7 7.8 69 121-193 64-136 (603)
47 KOG0461|consensus 98.3 4.6E-07 9.9E-12 85.5 4.8 79 109-195 50-140 (522)
48 KOG0052|consensus 98.3 3.7E-07 8E-12 85.7 3.9 68 132-204 88-169 (391)
49 PRK05306 infB translation init 98.3 9.9E-07 2.1E-11 88.8 6.2 62 123-192 335-404 (787)
50 TIGR00487 IF-2 translation ini 98.3 1.9E-06 4.1E-11 84.0 7.7 65 124-191 134-201 (587)
51 cd01889 SelB_euk SelB subfamil 98.2 2.1E-06 4.5E-11 69.9 5.7 73 124-204 67-147 (192)
52 cd01886 EF-G Elongation factor 98.2 2.1E-06 4.5E-11 75.8 5.9 81 122-206 61-144 (270)
53 PRK00007 elongation factor G; 98.2 1.9E-06 4.1E-11 84.8 5.9 80 123-206 73-155 (693)
54 PRK10218 GTP-binding protein; 98.2 3.6E-06 7.8E-11 82.5 7.8 81 122-206 65-148 (607)
55 COG0532 InfB Translation initi 98.1 4.7E-06 1E-10 80.6 5.9 61 124-193 54-123 (509)
56 PLN00116 translation elongatio 98.1 5.1E-06 1.1E-10 83.7 5.9 60 123-190 96-163 (843)
57 cd04168 TetM_like Tet(M)-like 98.1 7.9E-06 1.7E-10 70.6 6.1 81 122-206 61-144 (237)
58 CHL00189 infB translation init 98.0 4.4E-06 9.4E-11 83.8 4.5 61 124-192 294-362 (742)
59 PRK12739 elongation factor G; 98.0 9E-06 1.9E-10 80.0 6.1 80 123-206 71-153 (691)
60 KOG0462|consensus 98.0 3.8E-05 8.2E-10 75.5 9.2 89 109-206 113-205 (650)
61 KOG1143|consensus 97.9 3.2E-05 7E-10 73.9 7.1 81 118-206 242-332 (591)
62 PTZ00416 elongation factor 2; 97.9 1.7E-05 3.7E-10 80.0 5.4 59 124-190 91-157 (836)
63 PRK07560 elongation factor EF- 97.8 3E-05 6.5E-10 76.9 6.0 64 124-190 86-152 (731)
64 PRK04004 translation initiatio 97.8 3.9E-05 8.6E-10 74.8 6.1 56 127-190 73-136 (586)
65 KOG1145|consensus 97.8 6.7E-05 1.4E-09 74.0 7.2 71 110-193 190-269 (683)
66 cd04169 RF3 RF3 subfamily. Pe 97.7 9.4E-05 2E-09 65.1 6.5 82 120-206 66-151 (267)
67 TIGR00484 EF-G translation elo 97.7 0.00011 2.4E-09 72.4 7.2 80 123-206 73-155 (689)
68 PRK00741 prfC peptide chain re 97.7 6.5E-05 1.4E-09 72.5 5.5 82 120-206 74-159 (526)
69 PRK05433 GTP-binding protein L 97.6 0.00011 2.4E-09 71.8 6.8 76 125-204 74-152 (600)
70 COG0480 FusA Translation elong 97.6 0.00013 2.7E-09 73.1 6.3 82 119-205 69-155 (697)
71 PRK14845 translation initiatio 97.6 0.00018 3.8E-09 74.9 7.5 57 127-191 528-592 (1049)
72 KOG0463|consensus 97.6 0.00019 4.1E-09 68.9 6.9 81 119-207 213-303 (641)
73 cd01891 TypA_BipA TypA (tyrosi 97.6 0.00023 5E-09 58.0 6.6 65 124-192 64-132 (194)
74 cd04167 Snu114p Snu114p subfam 97.5 0.00021 4.6E-09 59.6 5.9 63 125-190 71-136 (213)
75 TIGR01393 lepA GTP-binding pro 97.5 0.00023 5E-09 69.6 6.6 64 126-192 71-137 (595)
76 cd00881 GTP_translation_factor 97.4 0.00059 1.3E-08 53.4 6.7 80 124-206 61-143 (189)
77 cd04170 EF-G_bact Elongation f 97.4 0.00032 7E-09 60.6 5.5 80 123-206 62-144 (268)
78 TIGR00503 prfC peptide chain r 97.3 0.00046 1E-08 66.7 6.7 80 123-206 78-160 (527)
79 TIGR00490 aEF-2 translation el 97.3 0.00042 9.2E-09 68.9 6.2 67 122-191 83-152 (720)
80 TIGR00491 aIF-2 translation in 97.3 0.00025 5.4E-09 69.6 4.2 62 127-191 71-135 (590)
81 cd01887 IF2_eIF5B IF2/eIF5B (i 97.1 0.0016 3.5E-08 50.2 6.5 66 124-192 49-117 (168)
82 PRK13351 elongation factor G; 97.1 0.0011 2.4E-08 65.1 6.8 80 123-206 71-153 (687)
83 cd01890 LepA LepA subfamily. 97.0 0.0018 4E-08 50.8 6.3 63 126-192 68-134 (179)
84 TIGR03598 GTPase_YsxC ribosome 97.0 0.0022 4.9E-08 51.6 6.5 56 149-206 101-158 (179)
85 cd03707 EFTU_III Domain III of 96.9 0.0027 5.9E-08 46.7 5.8 52 81-133 21-81 (90)
86 cd03706 mtEFTU_III Domain III 96.8 0.0042 9.1E-08 46.1 6.0 60 81-144 21-90 (93)
87 PRK12740 elongation factor G; 96.8 0.0024 5.3E-08 62.4 6.0 81 122-206 57-140 (668)
88 CHL00071 tufA elongation facto 96.7 0.0038 8.1E-08 58.0 6.3 97 11-145 294-405 (409)
89 COG0481 LepA Membrane GTPase L 96.5 0.011 2.3E-07 58.1 8.4 90 107-205 60-155 (603)
90 COG4108 PrfC Peptide chain rel 96.3 0.0081 1.8E-07 58.4 5.9 80 123-206 79-161 (528)
91 PRK10512 selenocysteinyl-tRNA- 96.2 0.013 2.9E-07 57.7 6.9 64 81-145 275-338 (614)
92 cd01882 BMS1 Bms1. Bms1 is an 96.0 0.02 4.3E-07 48.9 6.3 50 154-204 111-161 (225)
93 cd01894 EngA1 EngA1 subfamily. 95.8 0.038 8.2E-07 41.7 6.6 69 123-194 43-122 (157)
94 cd01513 Translation_factor_III 95.8 0.04 8.7E-07 40.5 6.4 48 82-129 17-90 (102)
95 PRK00093 GTP-binding protein D 95.7 0.026 5.7E-07 51.8 6.3 50 154-205 263-312 (435)
96 PRK12736 elongation factor Tu; 95.6 0.029 6.2E-07 51.9 6.4 97 11-145 284-390 (394)
97 PLN03126 Elongation factor Tu; 95.6 0.032 6.9E-07 53.6 6.9 96 11-144 363-473 (478)
98 TIGR03594 GTPase_EngA ribosome 95.5 0.032 6.9E-07 51.0 6.1 49 154-204 262-311 (429)
99 cd01895 EngA2 EngA2 subfamily. 95.4 0.052 1.1E-06 41.3 6.2 49 154-204 92-142 (174)
100 cd03708 GTPBP_III Domain III o 95.3 0.063 1.4E-06 38.9 5.9 59 82-145 17-85 (87)
101 cd04105 SR_beta Signal recogni 95.0 0.067 1.5E-06 44.7 6.2 70 123-193 46-125 (203)
102 PRK00454 engB GTP-binding prot 95.0 0.081 1.8E-06 42.2 6.3 51 154-206 114-164 (196)
103 PLN03127 Elongation factor Tu; 94.9 0.064 1.4E-06 51.0 6.3 98 10-145 336-443 (447)
104 TIGR00475 selB selenocysteine- 94.8 0.075 1.6E-06 52.1 6.8 61 82-145 275-336 (581)
105 PRK12317 elongation factor 1-a 94.7 0.08 1.7E-06 49.1 6.3 94 10-145 296-418 (425)
106 TIGR02034 CysN sulfate adenyly 94.5 0.14 3.1E-06 47.6 7.5 72 15-125 291-382 (406)
107 cd01857 HSR1_MMR1 HSR1/MMR1. 94.2 0.15 3.3E-06 39.8 6.1 40 154-194 19-59 (141)
108 TIGR00485 EF-Tu translation el 94.0 0.1 2.2E-06 48.2 5.4 96 12-145 285-390 (394)
109 cd01858 NGP_1 NGP-1. Autoanti 93.8 0.18 3.8E-06 40.0 5.8 43 154-197 16-59 (157)
110 PRK05506 bifunctional sulfate 93.7 0.21 4.6E-06 49.0 7.4 72 16-126 316-407 (632)
111 cd04164 trmE TrmE (MnmE, ThdF, 93.7 0.22 4.8E-06 37.4 5.9 65 124-193 48-123 (157)
112 PRK12289 GTPase RsgA; Reviewed 93.6 0.59 1.3E-05 43.4 9.6 41 154-195 97-138 (352)
113 PRK01889 GTPase RsgA; Reviewed 93.4 1.7 3.7E-05 40.0 12.2 37 154-192 120-157 (356)
114 COG2229 Predicted GTPase [Gene 93.3 0.29 6.2E-06 42.5 6.5 67 120-192 62-136 (187)
115 PRK04213 GTP-binding protein; 93.1 0.22 4.7E-06 40.4 5.4 31 162-193 116-146 (201)
116 TIGR00483 EF-1_alpha translati 93.0 0.28 6E-06 45.6 6.6 93 11-145 299-420 (426)
117 KOG1144|consensus 93.0 0.1 2.2E-06 53.9 3.9 57 129-190 543-605 (1064)
118 PRK00049 elongation factor Tu; 93.0 0.23 4.9E-06 46.1 5.9 98 10-145 285-392 (396)
119 COG1162 Predicted GTPases [Gen 92.9 1.1 2.3E-05 41.5 10.0 87 81-196 42-129 (301)
120 cd01876 YihA_EngB The YihA (En 92.8 0.38 8.3E-06 36.1 6.0 49 154-204 89-137 (170)
121 KOG0465|consensus 92.8 0.32 6.8E-06 49.2 6.9 81 119-204 98-182 (721)
122 PRK12735 elongation factor Tu; 92.6 0.21 4.5E-06 46.3 5.2 97 11-145 286-392 (396)
123 cd01849 YlqF_related_GTPase Yl 92.5 0.35 7.6E-06 38.3 5.7 23 172-195 25-47 (155)
124 KOG0467|consensus 92.5 0.34 7.3E-06 50.0 6.8 63 123-188 70-135 (887)
125 cd01879 FeoB Ferrous iron tran 92.5 0.39 8.5E-06 36.4 5.7 65 124-193 42-117 (158)
126 cd04178 Nucleostemin_like Nucl 92.5 0.29 6.2E-06 40.6 5.3 25 178-202 31-55 (172)
127 cd01854 YjeQ_engC YjeQ/EngC. 92.4 1.1 2.3E-05 39.9 9.2 88 83-193 34-125 (287)
128 PRK03003 GTP-binding protein D 92.1 0.37 8.1E-06 45.6 6.2 48 154-203 301-348 (472)
129 PRK05124 cysN sulfate adenylyl 91.4 0.81 1.8E-05 43.8 7.8 72 16-126 320-411 (474)
130 TIGR00231 small_GTP small GTP- 91.3 0.33 7.2E-06 35.5 4.0 64 126-193 51-124 (161)
131 cd01859 MJ1464 MJ1464. This f 91.3 0.4 8.6E-06 37.6 4.7 38 154-193 20-57 (156)
132 KOG0464|consensus 91.1 0.12 2.6E-06 50.8 1.8 69 121-193 98-170 (753)
133 TIGR03596 GTPase_YlqF ribosome 91.1 0.26 5.7E-06 43.3 3.8 36 154-193 29-64 (276)
134 TIGR03594 GTPase_EngA ribosome 90.8 0.4 8.6E-06 43.9 4.8 38 154-193 86-123 (429)
135 PRK09518 bifunctional cytidyla 90.6 0.55 1.2E-05 46.9 6.0 48 154-203 540-587 (712)
136 PRK00089 era GTPase Era; Revie 90.2 0.91 2E-05 39.5 6.3 48 154-203 92-140 (292)
137 cd04160 Arfrp1 Arfrp1 subfamil 89.7 0.57 1.2E-05 36.1 4.3 66 124-192 49-122 (167)
138 cd01878 HflX HflX subfamily. 89.7 0.63 1.4E-05 37.8 4.7 41 154-194 128-170 (204)
139 PRK12288 GTPase RsgA; Reviewed 89.6 6.8 0.00015 36.3 11.9 25 168-193 142-166 (347)
140 cd00880 Era_like Era (E. coli 89.4 1 2.3E-05 32.7 5.3 42 154-197 83-124 (163)
141 cd04163 Era Era subfamily. Er 88.4 1.8 3.9E-05 32.2 6.1 47 154-202 90-137 (168)
142 cd01856 YlqF YlqF. Proteins o 88.1 1.1 2.4E-05 36.1 5.1 36 154-193 27-62 (171)
143 COG1084 Predicted GTPase [Gene 87.7 0.36 7.7E-06 45.4 2.2 101 93-199 178-302 (346)
144 TIGR00436 era GTP-binding prot 87.6 1.7 3.8E-05 37.7 6.3 39 154-195 87-125 (270)
145 KOG0468|consensus 87.3 0.84 1.8E-05 47.0 4.7 59 131-191 202-263 (971)
146 cd04157 Arl6 Arl6 subfamily. 87.1 1.3 2.7E-05 33.8 4.6 67 124-192 44-119 (162)
147 COG0218 Predicted GTPase [Gene 87.0 1.4 3E-05 38.6 5.3 70 135-206 91-164 (200)
148 TIGR02528 EutP ethanolamine ut 86.4 0.67 1.4E-05 35.1 2.8 34 154-192 70-103 (142)
149 PRK00093 GTP-binding protein D 84.7 1.9 4.1E-05 39.7 5.3 66 123-191 47-123 (435)
150 cd00878 Arf_Arl Arf (ADP-ribos 84.5 1.5 3.3E-05 33.6 3.9 65 126-193 44-116 (158)
151 COG1160 Predicted GTPases [Gen 83.7 2.6 5.7E-05 40.9 6.0 51 154-206 268-320 (444)
152 PRK09563 rbgA GTPase YlqF; Rev 82.8 1.4 3E-05 39.1 3.5 36 154-193 32-67 (287)
153 PRK13768 GTPase; Provisional 82.7 1.7 3.7E-05 37.9 4.0 43 154-198 136-183 (253)
154 PTZ00141 elongation factor 1- 82.3 5.4 0.00012 38.0 7.4 99 11-151 305-434 (446)
155 cd01864 Rab19 Rab19 subfamily. 82.2 1.3 2.9E-05 34.3 2.8 64 126-192 53-123 (165)
156 cd04151 Arl1 Arl1 subfamily. 82.0 2.5 5.3E-05 32.7 4.3 67 125-192 43-115 (158)
157 cd01897 NOG NOG1 is a nucleola 81.9 2.9 6.2E-05 32.2 4.6 24 171-194 107-130 (168)
158 cd01850 CDC_Septin CDC/Septin. 81.4 4 8.6E-05 36.2 5.9 51 154-206 122-172 (276)
159 PRK00098 GTPase RsgA; Reviewed 79.3 13 0.00028 33.3 8.4 24 168-192 103-126 (298)
160 PRK09554 feoB ferrous iron tra 78.5 8.8 0.00019 39.4 7.9 66 123-193 48-128 (772)
161 PRK15494 era GTPase Era; Provi 77.9 5.3 0.00011 36.4 5.6 37 154-192 139-175 (339)
162 KOG0090|consensus 77.3 11 0.00024 34.0 7.3 87 98-192 62-160 (238)
163 PRK15467 ethanolamine utilizat 77.2 4.3 9.4E-05 32.4 4.4 36 154-193 72-107 (158)
164 cd01860 Rab5_related Rab5-rela 76.6 5.1 0.00011 30.6 4.5 64 126-191 51-120 (163)
165 cd04145 M_R_Ras_like M-Ras/R-R 76.5 3.5 7.6E-05 31.4 3.5 65 126-192 51-122 (164)
166 PF09439 SRPRB: Signal recogni 76.2 4.3 9.4E-05 34.6 4.3 88 99-192 28-127 (181)
167 cd01898 Obg Obg subfamily. Th 76.0 3 6.4E-05 32.1 3.0 17 178-194 115-131 (170)
168 PRK09435 membrane ATPase/prote 75.9 2.6 5.5E-05 39.1 3.1 26 181-206 198-223 (332)
169 smart00053 DYNc Dynamin, GTPas 75.8 6.7 0.00015 34.6 5.6 82 104-193 108-208 (240)
170 PF02492 cobW: CobW/HypB/UreG, 75.4 1.7 3.6E-05 35.6 1.5 48 154-204 121-169 (178)
171 PF02421 FeoB_N: Ferrous iron 75.0 1.1 2.4E-05 37.2 0.4 28 165-193 91-121 (156)
172 cd04104 p47_IIGP_like p47 (47- 74.3 6.9 0.00015 32.3 4.9 26 166-192 97-122 (197)
173 cd01855 YqeH YqeH. YqeH is an 74.2 3.3 7.2E-05 33.6 3.0 16 178-193 62-77 (190)
174 TIGR02475 CobW cobalamin biosy 74.1 3.7 8E-05 37.8 3.6 34 171-205 168-201 (341)
175 PF00025 Arf: ADP-ribosylation 74.1 11 0.00024 30.5 6.0 68 123-192 56-130 (175)
176 PRK03003 GTP-binding protein D 74.0 11 0.00025 35.6 7.0 37 154-192 125-161 (472)
177 PF03143 GTP_EFTU_D3: Elongati 73.1 11 0.00023 28.4 5.4 51 81-132 18-85 (99)
178 TIGR02729 Obg_CgtA Obg family 72.7 4.6 0.0001 36.9 3.9 25 178-202 274-298 (329)
179 KOG2485|consensus 72.4 4.6 9.9E-05 38.0 3.8 40 154-194 51-90 (335)
180 COG0523 Putative GTPases (G3E 72.1 4.2 9.1E-05 37.5 3.5 49 154-204 124-172 (323)
181 cd01881 Obg_like The Obg-like 71.4 5.8 0.00013 30.5 3.7 18 178-195 121-138 (176)
182 cd04116 Rab9 Rab9 subfamily. 71.1 6.8 0.00015 30.4 4.0 13 179-191 116-128 (170)
183 TIGR00157 ribosome small subun 70.0 27 0.00058 30.4 7.9 28 165-193 56-83 (245)
184 TIGR03156 GTP_HflX GTP-binding 69.8 6.5 0.00014 36.3 4.2 36 154-193 276-317 (351)
185 KOG2484|consensus 69.2 12 0.00027 36.3 6.0 42 154-197 154-197 (435)
186 TIGR00437 feoB ferrous iron tr 68.8 15 0.00033 36.3 6.8 65 124-193 40-115 (591)
187 cd04161 Arl2l1_Arl13_like Arl2 68.6 11 0.00023 29.8 4.7 66 125-193 43-116 (167)
188 cd01893 Miro1 Miro1 subfamily. 68.3 4.4 9.5E-05 31.7 2.4 16 178-193 104-119 (166)
189 cd00154 Rab Rab family. Rab G 68.3 3.8 8.2E-05 30.3 1.9 15 177-191 105-119 (159)
190 PRK13505 formate--tetrahydrofo 67.6 11 0.00025 37.6 5.6 38 162-200 358-395 (557)
191 PRK12298 obgE GTPase CgtA; Rev 66.8 7.5 0.00016 36.5 4.0 25 178-202 276-300 (390)
192 PRK10463 hydrogenase nickel in 65.4 5.7 0.00012 36.4 2.8 25 180-204 233-259 (290)
193 cd04154 Arl2 Arl2 subfamily. 63.6 6.6 0.00014 30.9 2.6 64 125-192 58-130 (173)
194 cd04113 Rab4 Rab4 subfamily. 63.2 6.9 0.00015 30.0 2.6 63 126-192 50-120 (161)
195 PRK09866 hypothetical protein; 63.2 12 0.00026 38.6 4.9 37 154-191 266-303 (741)
196 COG1160 Predicted GTPases [Gen 62.4 14 0.00031 36.0 5.0 38 154-193 91-128 (444)
197 cd04152 Arl4_Arl7 Arl4/Arl7 su 62.4 19 0.0004 29.0 5.1 62 123-191 50-123 (183)
198 cd04159 Arl10_like Arl10-like 62.2 8.7 0.00019 28.4 2.9 67 126-194 45-118 (159)
199 cd04147 Ras_dva Ras-dva subfam 62.0 14 0.0003 30.2 4.3 60 126-191 48-118 (198)
200 COG1159 Era GTPase [General fu 61.4 25 0.00054 32.7 6.2 37 154-194 93-131 (298)
201 smart00178 SAR Sar1p-like memb 60.7 14 0.00031 29.7 4.2 63 126-191 62-132 (184)
202 cd00876 Ras Ras family. The R 60.6 9.7 0.00021 28.6 3.0 16 177-192 104-119 (160)
203 cd04139 RalA_RalB RalA/RalB su 60.3 11 0.00024 28.5 3.2 14 178-191 106-119 (164)
204 cd00882 Ras_like_GTPase Ras-li 60.1 14 0.0003 26.1 3.6 66 126-194 46-119 (157)
205 TIGR00073 hypB hydrogenase acc 59.9 8.5 0.00018 32.0 2.8 13 180-192 151-163 (207)
206 cd04156 ARLTS1 ARLTS1 subfamil 59.4 9.2 0.0002 29.1 2.7 65 126-192 45-116 (160)
207 TIGR03597 GTPase_YqeH ribosome 59.3 11 0.00024 34.7 3.6 20 173-192 86-105 (360)
208 cd04138 H_N_K_Ras_like H-Ras/N 59.3 11 0.00024 28.3 3.0 60 132-192 55-121 (162)
209 COG1161 Predicted GTPases [Gen 58.6 9 0.00019 34.9 2.9 34 162-195 46-79 (322)
210 PF04670 Gtr1_RagA: Gtr1/RagA 58.1 14 0.00031 32.5 4.0 80 126-206 49-140 (232)
211 COG2262 HflX GTPases [General 58.0 9.3 0.0002 36.9 2.9 41 154-194 279-321 (411)
212 PRK09518 bifunctional cytidyla 58.0 19 0.00042 36.1 5.3 37 154-192 362-398 (712)
213 cd04155 Arl3 Arl3 subfamily. 57.7 10 0.00022 29.4 2.7 66 124-194 57-132 (173)
214 cd04137 RheB Rheb (Ras Homolog 56.6 12 0.00027 29.3 3.1 23 170-192 97-121 (180)
215 COG0536 Obg Predicted GTPase [ 55.3 16 0.00034 35.0 3.9 30 175-204 273-303 (369)
216 cd04106 Rab23_lke Rab23-like s 54.8 6 0.00013 30.1 1.0 16 176-192 106-121 (162)
217 cd01869 Rab1_Ypt1 Rab1/Ypt1 su 54.5 12 0.00025 28.9 2.6 65 126-192 52-122 (166)
218 KOG0469|consensus 53.4 29 0.00063 35.4 5.6 76 126-205 99-184 (842)
219 TIGR00101 ureG urease accessor 53.4 12 0.00027 31.5 2.7 24 181-204 141-166 (199)
220 cd01862 Rab7 Rab7 subfamily. 53.3 17 0.00038 27.8 3.3 56 132-191 55-123 (172)
221 PF06858 NOG1: Nucleolar GTP-b 52.5 17 0.00037 26.1 2.9 35 154-188 21-58 (58)
222 TIGR00750 lao LAO/AO transport 52.3 26 0.00056 31.2 4.7 19 174-193 170-188 (300)
223 PRK05291 trmE tRNA modificatio 51.8 14 0.00031 35.1 3.1 36 154-193 302-337 (449)
224 PRK12299 obgE GTPase CgtA; Rev 51.3 15 0.00033 33.7 3.1 16 178-193 272-287 (335)
225 cd04108 Rab36_Rab34 Rab34/Rab3 51.2 11 0.00024 30.0 2.0 14 180-193 109-122 (170)
226 cd04150 Arf1_5_like Arf1-Arf5- 51.1 17 0.00036 28.5 3.0 65 126-192 45-116 (159)
227 PLN00223 ADP-ribosylation fact 50.9 16 0.00035 29.6 3.0 65 125-193 61-134 (181)
228 cd04093 HBS1_C HBS1_C: this fa 50.9 57 0.0012 24.2 5.7 26 82-107 17-42 (107)
229 cd04123 Rab21 Rab21 subfamily. 50.6 8.8 0.00019 28.9 1.3 60 132-192 55-120 (162)
230 KOG2423|consensus 50.0 9.2 0.0002 37.7 1.6 37 154-192 221-259 (572)
231 PRK11058 GTPase HflX; Provisio 49.3 20 0.00043 34.1 3.7 35 154-192 284-324 (426)
232 cd04107 Rab32_Rab38 Rab38/Rab3 48.9 11 0.00023 30.8 1.6 13 179-191 112-124 (201)
233 cd04153 Arl5_Arl8 Arl5/Arl8 su 47.2 21 0.00044 28.3 3.0 14 178-191 117-130 (174)
234 PTZ00099 rab6; Provisional 47.2 24 0.00052 28.9 3.4 64 126-191 30-99 (176)
235 cd01865 Rab3 Rab3 subfamily. 46.9 12 0.00027 29.0 1.6 16 178-193 107-122 (165)
236 cd03705 EF1_alpha_III Domain I 46.9 38 0.00083 25.0 4.2 25 82-106 17-41 (104)
237 cd04122 Rab14 Rab14 subfamily. 46.8 11 0.00024 29.2 1.4 14 179-192 109-122 (166)
238 cd04136 Rap_like Rap-like subf 46.4 15 0.00032 27.9 1.9 14 179-192 108-121 (163)
239 cd04127 Rab27A Rab27a subfamil 46.3 11 0.00023 29.6 1.1 61 126-192 64-135 (180)
240 cd00879 Sar1 Sar1 subfamily. 46.3 20 0.00044 28.4 2.8 14 178-191 121-134 (190)
241 smart00177 ARF ARF-like small 46.2 20 0.00044 28.6 2.8 65 126-192 58-129 (175)
242 cd04143 Rhes_like Rhes_like su 46.1 12 0.00027 32.5 1.7 14 178-191 114-127 (247)
243 cd01896 DRG The developmentall 46.0 18 0.00038 31.1 2.6 18 179-196 178-195 (233)
244 cd01868 Rab11_like Rab11-like. 45.6 12 0.00026 28.8 1.3 15 178-192 109-123 (165)
245 PRK13796 GTPase YqeH; Provisio 44.5 27 0.0006 32.2 3.7 35 154-192 77-111 (365)
246 cd04101 RabL4 RabL4 (Rab-like4 44.5 15 0.00033 28.0 1.8 16 178-193 108-123 (164)
247 KOG0092|consensus 44.0 38 0.00083 29.9 4.3 81 111-192 39-125 (200)
248 COG4774 Fiu Outer membrane rec 43.7 12 0.00026 38.3 1.3 45 126-170 606-652 (750)
249 cd04135 Tc10 TC10 subfamily. 43.2 19 0.00042 27.9 2.2 15 178-192 105-119 (174)
250 cd04158 ARD1 ARD1 subfamily. 42.9 26 0.00056 27.5 2.9 64 126-191 44-114 (169)
251 PRK12296 obgE GTPase CgtA; Rev 42.7 23 0.00049 34.9 3.0 16 178-193 285-300 (500)
252 smart00175 RAB Rab subfamily o 42.1 13 0.00028 28.2 1.1 15 178-192 106-120 (164)
253 cd04162 Arl9_Arfrp2_like Arl9/ 42.1 26 0.00057 27.6 2.8 67 125-193 44-115 (164)
254 cd01863 Rab18 Rab18 subfamily. 41.9 30 0.00065 26.3 3.1 12 180-191 109-120 (161)
255 KOG1490|consensus 41.4 18 0.00038 36.5 2.0 65 135-199 215-303 (620)
256 PRK13187 UDP-3-O-[3-hydroxymyr 41.2 60 0.0013 30.2 5.4 48 133-186 61-109 (304)
257 PLN00043 elongation factor 1-a 40.9 66 0.0014 30.7 5.8 31 11-41 305-336 (447)
258 COG0378 HypB Ni2+-binding GTPa 40.8 16 0.00035 32.2 1.5 14 180-193 145-158 (202)
259 cd04175 Rap1 Rap1 subgroup. T 40.5 18 0.00038 27.9 1.6 14 179-192 108-121 (164)
260 KOG4252|consensus 40.5 15 0.00033 32.7 1.3 16 180-195 127-142 (246)
261 cd04112 Rab26 Rab26 subfamily. 40.0 16 0.00034 29.6 1.2 13 179-191 108-120 (191)
262 PTZ00133 ADP-ribosylation fact 40.0 31 0.00068 27.8 3.0 63 126-192 62-133 (182)
263 PRK04950 ProP expression regul 39.9 38 0.00083 30.1 3.7 38 81-118 164-201 (213)
264 cd01861 Rab6 Rab6 subfamily. 39.8 17 0.00036 27.6 1.3 14 178-191 106-119 (161)
265 smart00173 RAS Ras subfamily o 39.8 42 0.00091 25.6 3.6 61 126-192 49-120 (164)
266 COG4917 EutP Ethanolamine util 39.6 43 0.00094 28.2 3.8 25 174-198 87-111 (148)
267 cd04149 Arf6 Arf6 subfamily. 39.3 29 0.00062 27.6 2.7 63 126-191 54-124 (168)
268 KOG3905|consensus 39.2 27 0.00058 33.8 2.8 35 171-206 217-256 (473)
269 PRK12297 obgE GTPase CgtA; Rev 39.2 32 0.0007 32.9 3.4 15 178-192 275-289 (424)
270 PRK11537 putative GTP-binding 38.8 32 0.00068 31.5 3.2 46 154-204 130-175 (318)
271 TIGR00450 mnmE_trmE_thdF tRNA 38.0 35 0.00076 32.6 3.5 34 154-192 290-325 (442)
272 cd04114 Rab30 Rab30 subfamily. 37.9 23 0.0005 27.2 1.9 13 180-192 115-127 (169)
273 cd04142 RRP22 RRP22 subfamily. 37.8 22 0.00048 29.5 1.8 14 179-192 118-131 (198)
274 cd01866 Rab2 Rab2 subfamily. 37.8 19 0.00041 28.1 1.4 13 179-191 111-123 (168)
275 cd04176 Rap2 Rap2 subgroup. T 37.4 22 0.00047 27.2 1.7 14 179-192 108-121 (163)
276 cd01867 Rab8_Rab10_Rab13_like 36.8 20 0.00044 27.8 1.4 14 179-192 110-123 (167)
277 cd04130 Wrch_1 Wrch-1 subfamil 36.4 14 0.00031 29.0 0.5 15 178-192 105-119 (173)
278 cd00157 Rho Rho (Ras homology) 36.1 23 0.0005 27.1 1.6 17 177-193 104-120 (171)
279 cd04119 RJL RJL (RabJ-Like) su 36.1 41 0.00088 25.3 3.0 14 178-191 111-124 (168)
280 cd04128 Spg1 Spg1p. Spg1p (se 36.0 76 0.0017 25.7 4.7 12 180-191 107-118 (182)
281 cd04095 CysN_NoDQ_III TCysN_No 35.6 96 0.0021 23.0 4.9 26 82-107 16-41 (103)
282 cd01874 Cdc42 Cdc42 subfamily. 35.5 26 0.00057 28.1 1.9 15 178-192 106-120 (175)
283 smart00174 RHO Rho (Ras homolo 35.5 51 0.0011 25.5 3.5 29 163-191 82-116 (174)
284 TIGR00739 yajC preprotein tran 35.4 1.3E+02 0.0028 22.6 5.5 42 81-131 35-76 (84)
285 smart00739 KOW KOW (Kyprides, 35.3 80 0.0017 17.7 3.5 26 83-108 1-27 (28)
286 COG1047 SlpA FKBP-type peptidy 35.3 1.3E+02 0.0028 26.0 6.1 51 80-133 87-137 (174)
287 PF03029 ATP_bind_1: Conserved 34.7 32 0.00069 30.0 2.4 17 175-192 155-171 (238)
288 cd04109 Rab28 Rab28 subfamily. 34.5 24 0.00052 29.2 1.6 14 179-192 111-124 (215)
289 cd04134 Rho3 Rho3 subfamily. 34.3 55 0.0012 26.4 3.6 15 179-193 106-120 (189)
290 KOG1532|consensus 34.3 47 0.001 31.5 3.5 30 166-195 168-199 (366)
291 cd04118 Rab24 Rab24 subfamily. 34.1 26 0.00057 27.9 1.7 14 179-192 107-120 (193)
292 cd01892 Miro2 Miro2 subfamily. 33.8 27 0.00058 27.7 1.7 14 179-192 110-123 (169)
293 cd04110 Rab35 Rab35 subfamily. 33.7 52 0.0011 26.8 3.4 60 132-192 61-125 (199)
294 cd04115 Rab33B_Rab33A Rab33B/R 33.5 25 0.00053 27.5 1.4 14 179-192 111-124 (170)
295 TIGR00325 lpxC UDP-3-0-acyl N- 33.3 79 0.0017 29.3 4.8 47 133-186 49-96 (297)
296 KOG1424|consensus 33.3 29 0.00063 34.8 2.1 39 154-194 182-222 (562)
297 cd04146 RERG_RasL11_like RERG/ 33.2 24 0.00052 27.2 1.3 14 179-192 108-121 (165)
298 PRK13186 lpxC UDP-3-O-[3-hydro 32.9 87 0.0019 29.0 5.0 28 158-186 69-97 (295)
299 cd04141 Rit_Rin_Ric Rit/Rin/Ri 32.0 28 0.0006 27.8 1.5 14 179-192 109-122 (172)
300 cd04131 Rnd Rnd subfamily. Th 31.9 95 0.0021 25.1 4.6 17 175-191 103-119 (178)
301 cd04174 Rnd1_Rho6 Rnd1/Rho6 su 31.5 1E+02 0.0022 26.8 5.0 21 171-191 111-131 (232)
302 PRK05585 yajC preprotein trans 31.4 1.5E+02 0.0033 23.2 5.5 42 81-131 50-91 (106)
303 cd01871 Rac1_like Rac1-like su 31.3 39 0.00084 27.0 2.2 14 178-191 106-119 (174)
304 PTZ00179 60S ribosomal protein 30.9 27 0.00058 30.1 1.3 54 100-153 20-83 (189)
305 cd01870 RhoA_like RhoA-like su 30.8 72 0.0016 24.6 3.6 16 177-192 105-120 (175)
306 PF03308 ArgK: ArgK protein; 30.6 55 0.0012 30.0 3.3 22 181-205 171-192 (266)
307 COG0486 ThdF Predicted GTPase 30.4 55 0.0012 32.1 3.4 83 101-193 243-340 (454)
308 cd04132 Rho4_like Rho4-like su 29.8 50 0.0011 26.1 2.6 13 179-191 107-119 (187)
309 KOG2743|consensus 29.5 49 0.0011 31.7 2.8 23 182-204 216-238 (391)
310 cd04120 Rab12 Rab12 subfamily. 29.4 37 0.00081 28.5 1.9 60 127-192 51-120 (202)
311 cd04140 ARHI_like ARHI subfami 29.2 37 0.00079 26.3 1.7 13 179-191 110-122 (165)
312 cd01852 AIG1 AIG1 (avrRpt2-ind 28.9 55 0.0012 26.7 2.8 17 177-193 116-132 (196)
313 PLN00023 GTP-binding protein; 28.6 35 0.00076 32.1 1.8 61 126-192 84-166 (334)
314 cd04144 Ras2 Ras2 subfamily. 28.6 64 0.0014 25.9 3.1 13 179-191 108-120 (190)
315 cd04126 Rab20 Rab20 subfamily. 28.2 63 0.0014 27.7 3.1 59 127-191 46-114 (220)
316 cd04177 RSR1 RSR1 subgroup. R 28.0 42 0.00092 26.1 1.9 61 126-193 50-122 (168)
317 PRK05886 yajC preprotein trans 27.7 1.9E+02 0.0041 23.1 5.5 41 81-130 36-76 (109)
318 PF10662 PduV-EutP: Ethanolami 27.2 89 0.0019 25.8 3.7 19 171-190 84-102 (143)
319 cd04124 RabL2 RabL2 subfamily. 27.1 40 0.00087 26.1 1.6 14 178-191 105-118 (161)
320 KOG1954|consensus 27.0 63 0.0014 31.9 3.2 39 162-201 197-235 (532)
321 cd00877 Ran Ran (Ras-related n 27.0 40 0.00086 26.5 1.6 19 173-191 100-118 (166)
322 COG1703 ArgK Putative periplas 26.6 60 0.0013 30.6 2.9 12 181-192 193-204 (323)
323 PF01926 MMR_HSR1: 50S ribosom 26.6 1E+02 0.0023 22.5 3.7 29 154-186 87-116 (116)
324 cd04148 RGK RGK subfamily. Th 25.9 40 0.00087 28.4 1.5 15 178-192 107-121 (221)
325 COG3276 SelB Selenocysteine-sp 25.5 1.5E+02 0.0033 29.1 5.5 49 81-130 275-323 (447)
326 KOG0395|consensus 25.2 68 0.0015 27.1 2.8 28 163-192 94-123 (196)
327 cd04133 Rop_like Rop subfamily 24.9 75 0.0016 25.9 2.9 14 178-191 106-119 (176)
328 KOG1489|consensus 24.8 76 0.0016 30.4 3.2 17 175-191 310-326 (366)
329 PLN03118 Rab family protein; P 24.5 54 0.0012 26.9 2.0 61 126-192 63-135 (211)
330 PLN03108 Rab family protein; P 24.5 43 0.00093 27.8 1.4 15 178-192 112-126 (210)
331 cd04111 Rab39 Rab39 subfamily. 23.8 94 0.002 25.9 3.4 57 131-192 57-124 (211)
332 TIGR02594 conserved hypothetic 23.8 3.3E+02 0.0072 21.8 6.4 57 80-141 70-126 (129)
333 COG0050 TufB GTPases - transla 23.3 1.5E+02 0.0032 28.6 4.8 91 11-129 284-377 (394)
334 cd01899 Ygr210 Ygr210 subfamil 23.2 1.2E+02 0.0027 27.7 4.2 20 175-194 212-231 (318)
335 cd04103 Centaurin_gamma Centau 23.0 32 0.0007 27.2 0.4 12 179-190 101-112 (158)
336 cd04125 RabA_like RabA-like su 22.5 63 0.0014 25.7 2.0 15 178-192 106-120 (188)
337 cd04121 Rab40 Rab40 subfamily. 22.4 47 0.001 27.5 1.2 14 178-191 111-124 (189)
338 COG3109 ProQ Activator of osmo 21.8 99 0.0021 27.3 3.1 38 81-118 159-196 (208)
339 cd04172 Rnd3_RhoE_Rho8 Rnd3/Rh 21.7 1.8E+02 0.004 23.7 4.6 14 178-191 110-123 (182)
340 cd04129 Rho2 Rho2 subfamily. 21.6 47 0.001 26.7 1.1 16 176-191 104-119 (187)
341 cd01875 RhoG RhoG subfamily. 21.3 80 0.0017 25.6 2.4 57 131-192 56-122 (191)
342 COG0126 Pgk 3-phosphoglycerate 21.2 39 0.00085 32.6 0.6 60 14-92 55-114 (395)
343 cd04482 RPA2_OBF_like RPA2_OBF 20.6 2.1E+02 0.0046 21.3 4.4 43 81-124 45-91 (91)
344 KOG0460|consensus 20.4 1.1E+02 0.0023 30.0 3.3 108 9-145 326-434 (449)
345 PF05783 DLIC: Dynein light in 20.4 60 0.0013 31.7 1.7 33 173-206 193-230 (472)
346 COG0774 LpxC UDP-3-O-acyl-N-ac 20.4 2.7E+02 0.0058 26.1 5.8 28 158-186 70-98 (300)
347 PTZ00369 Ras-like protein; Pro 20.1 65 0.0014 25.9 1.6 64 127-192 55-125 (189)
No 1
>KOG0466|consensus
Probab=100.00 E-value=5.2e-45 Score=332.50 Aligned_cols=118 Identities=78% Similarity=1.173 Sum_probs=116.6
Q ss_pred CCCccCCccccccccceeeccCCCCCCcceEEEEEeHhhHHHHHhhhccCCcccccccceeeeeeecccccccCCcccce
Q psy13818 1 VGTKIEPTLCRADRLVGQVLGAVGALPKIFIELEISYHLLKRLLGVRMEGDKKGAKLEISYHLLKRLLGVRMEGDKKGAK 80 (207)
Q Consensus 1 vgt~~dp~l~~~d~lvG~v~g~~g~lp~v~~~l~i~~~Ll~r~~~~~~~~~~~~~~~~~~~~~~~~~~Gv~t~~~k~~~K 80 (207)
|||++||||||||||||||+|+.|+||++|.||||+||||+|++ |++|+++++++|
T Consensus 336 VGT~~DPtlcraDrlVGqVlG~~G~LP~if~elei~y~Llrrll------------------------gvrt~~~~k~~k 391 (466)
T KOG0466|consen 336 VGTKMDPTLCRADRLVGQVLGAVGTLPDIFTELEISYFLLRRLL------------------------GVRTKGDKKQAK 391 (466)
T ss_pred eccccCcchhhhhHHHHHHHhhccCCccceeEEEeehhhhhHHh------------------------ccccccccccch
Confidence 79999999999999999999999999999999999999999999 899999999999
Q ss_pred eccCccCceEEEEeeccccceEEEEEecceEEEEeeCcccccCCcEEEEEEeecCcceeecc
Q psy13818 81 VQKLTRNEVLLVNIGSLSTGGRVLATKADLAKISLTNPVCTEVNEKIALSRRVEKHWSLIEG 142 (207)
Q Consensus 81 v~~l~~~E~lmlniGs~~t~g~V~~~~~Dla~i~L~~Pvc~~~G~kiaIsR~V~gh~rligg 142 (207)
|++|.+||+||+||||+||||+|.++|+|++++.|+.|+|++.|+|+|+|||+..|||||||
T Consensus 392 v~kL~k~E~lmvNIGS~sTG~~v~~vk~d~~k~~Lt~P~CteigEkiAlSRrvekhWRLIGw 453 (466)
T KOG0466|consen 392 VSKLVKNEILMVNIGSTSTGGRVSAVKADMAKIQLTSPVCTEIGEKIALSRRVEKHWRLIGW 453 (466)
T ss_pred hhhcccCcEEEEEecccccCceEEEEecceeeeEecCchhcccchhhhhhhhhhhheEEecc
Confidence 99999999999999999999999999999999999999999999999999999999999995
No 2
>COG5257 GCD11 Translation initiation factor 2, gamma subunit (eIF-2gamma; GTPase) [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=5.3e-42 Score=313.17 Aligned_cols=115 Identities=47% Similarity=0.873 Sum_probs=111.5
Q ss_pred CCCccCCccccccccceeeccCCCCCCcceEEEEEeHhhHHHHHhhhccCCcccccccceeeeeeecccccccCCcccce
Q psy13818 1 VGTKIEPTLCRADRLVGQVLGAVGALPKIFIELEISYHLLKRLLGVRMEGDKKGAKLEISYHLLKRLLGVRMEGDKKGAK 80 (207)
Q Consensus 1 vgt~~dp~l~~~d~lvG~v~g~~g~lp~v~~~l~i~~~Ll~r~~~~~~~~~~~~~~~~~~~~~~~~~~Gv~t~~~k~~~K 80 (207)
|||+|||+|||||+|+|||+|+||+|||+|++++|+||||+|++ |+ +++.|
T Consensus 296 vGT~lDP~ltKaD~L~G~V~G~pG~lPpv~~~~~ie~~LL~Rvv------------------------G~-----~~e~k 346 (415)
T COG5257 296 VGTKLDPTLTKADALVGQVVGKPGTLPPVWTSIRIEYHLLERVV------------------------GT-----KEELK 346 (415)
T ss_pred EecccCcchhhhhhhccccccCCCCCCCceEEEEEEeeehhhhh------------------------Cc-----ccccc
Confidence 79999999999999999999999999999999999999999999 77 67889
Q ss_pred eccCccCceEEEEeeccccceEEEEEecceEEEEeeCcccccCCcEEEEEEeecCcceeec-ccc
Q psy13818 81 VQKLTRNEVLLVNIGSLSTGGRVLATKADLAKISLTNPVCTEVNEKIALSRRVEKHWSLIE-GTV 144 (207)
Q Consensus 81 v~~l~~~E~lmlniGs~~t~g~V~~~~~Dla~i~L~~Pvc~~~G~kiaIsR~V~gh~rlig-g~~ 144 (207)
|+||+.||+||+||||++|+|+|+++++|.+++.|+.|+||+.|+|++||||+.+|||||| |++
T Consensus 347 vepik~~E~Lml~VGtatT~GvV~~~k~d~~ev~Lk~Pvcae~g~rvaisRri~~rWRLIG~G~i 411 (415)
T COG5257 347 VEPIKTNEVLMLNVGTATTVGVVTSAKKDEIEVKLKRPVCAEIGERVAISRRIGNRWRLIGYGTI 411 (415)
T ss_pred cccccCCCeEEEEeecceeEEEEEEecCceEEEEeccceecCCCCEEEEEeeecceEEEEeEEEE
Confidence 9999999999999999999999999999999999999999999999999999999999999 444
No 3
>PF09173 eIF2_C: Initiation factor eIF2 gamma, C terminal; InterPro: IPR015256 This entry represents a domain which is found in the initiation factors eIF2 and EF-Tu, adopting a beta barrel structure with Greek key topology. It is required for formation of the ternary complex with GTP and initiator tRNA []. ; PDB: 1S0U_A 1KK1_A 1KK0_A 1KK2_A 1KJZ_A 1KK3_A 2D74_A 2DCU_A 3P3M_A 3V11_A ....
Probab=99.97 E-value=1.3e-32 Score=209.36 Aligned_cols=87 Identities=49% Similarity=0.909 Sum_probs=74.1
Q ss_pred eEEEEEeHhhHHHHHhhhccCCcccccccceeeeeeecccccccCCcccceeccCccCceEEEEeeccccceEEEEEecc
Q psy13818 30 FIELEISYHLLKRLLGVRMEGDKKGAKLEISYHLLKRLLGVRMEGDKKGAKVQKLTRNEVLLVNIGSLSTGGRVLATKAD 109 (207)
Q Consensus 30 ~~~l~i~~~Ll~r~~~~~~~~~~~~~~~~~~~~~~~~~~Gv~t~~~k~~~Kv~~l~~~E~lmlniGs~~t~g~V~~~~~D 109 (207)
|++|+|+||||+|++ |++. ++.|++||++||+||+||||++|+|+|+++++|
T Consensus 1 ~~~l~i~~~Ll~r~v------------------------g~~~----~~~kv~~i~~~E~LmlnIGsatt~G~V~~~k~d 52 (88)
T PF09173_consen 1 YTELEIEYHLLERVV------------------------GVKE----KEAKVEPIKKGEVLMLNIGSATTGGVVTSVKKD 52 (88)
T ss_dssp EEEEEEEEEE-SSCS------------------------SSSS-----CCS-----TTEEEEEEETTEEEEEEEEEEETT
T ss_pred CEEEEEEEEEehhhh------------------------Cccc----cceecccCCCCCEEEEEEccccccEEEEEEECC
Confidence 789999999999999 7732 378999999999999999999999999999999
Q ss_pred eEEEEeeCcccccCCcEEEEEEeecCcceeec-ccc
Q psy13818 110 LAKISLTNPVCTEVNEKIALSRRVEKHWSLIE-GTV 144 (207)
Q Consensus 110 la~i~L~~Pvc~~~G~kiaIsR~V~gh~rlig-g~~ 144 (207)
.+++.|+.|+|++.|+|++|||++.+|||||| |++
T Consensus 53 ~~~v~L~~Pvc~~~g~rvaiSRri~~rWRLIG~G~I 88 (88)
T PF09173_consen 53 MAEVELKKPVCAEKGERVAISRRIGNRWRLIGWGII 88 (88)
T ss_dssp EEEEEEEEEEE-STTSEEEEEEEETTSEEEEEEEEE
T ss_pred EEEEEecCCeEcCcCCeeeeehhccCeEEEEEEEeC
Confidence 99999999999999999999999999999999 543
No 4
>COG5257 GCD11 Translation initiation factor 2, gamma subunit (eIF-2gamma; GTPase) [Translation, ribosomal structure and biogenesis]
Probab=99.92 E-value=1.6e-25 Score=205.26 Aligned_cols=133 Identities=38% Similarity=0.540 Sum_probs=108.7
Q ss_pred eeeeeecccccccCCcccceeccCccCceEEEEeeccccceEEEEEe-cceEEEEeeCcccccCCcEEEEEEeec-----
Q psy13818 61 YHLLKRLLGVRMEGDKKGAKVQKLTRNEVLLVNIGSLSTGGRVLATK-ADLAKISLTNPVCTEVNEKIALSRRVE----- 134 (207)
Q Consensus 61 ~~~~~~~~Gv~t~~~k~~~Kv~~l~~~E~lmlniGs~~t~g~V~~~~-~Dla~i~L~~Pvc~~~G~kiaIsR~V~----- 134 (207)
-||.|||+|+.|++-+|| |++|=++-| |=+-+. +..-- -+--..|...|.|-+||....+.|+++
T Consensus 24 tTlv~AlsGvwT~~hseE-----lkRgitIkL--GYAd~~--i~kC~~c~~~~~y~~~~~C~~cg~~~~l~R~VSfVDaP 94 (415)
T COG5257 24 TTLTKALSGVWTDRHSEE-----LKRGITIKL--GYADAK--IYKCPECYRPECYTTEPKCPNCGAETELVRRVSFVDAP 94 (415)
T ss_pred hhheehhhceeeechhHH-----HhcCcEEEe--ccccCc--eEeCCCCCCCcccccCCCCCCCCCCccEEEEEEEeeCC
Confidence 378999999999877766 344433433 544332 11111 011147889999999999888888775
Q ss_pred Ccceeecccccccccccee--------eecCCCCCCCchHHHHHHHHHcCCCeEEEEEecCCCCChhhHHHHHHHHHhhh
Q psy13818 135 KHWSLIEGTVTTKVLSTRK--------RTGNESCPQPQTSEHLAAIEIMKLKHIIILQNKIDLVKEGQANEQHEQIVKFV 206 (207)
Q Consensus 135 gh~rligg~~~~nMiaGa~--------V~A~eg~~~pQT~EHl~il~~lGI~~iIV~vNK~DlV~~~~~~~~~~eI~~~l 206 (207)
||+-|+ .+|++||+ |+|||.||||||+|||.+++++|++|+||++||+|||+.+++.+.|+||++|+
T Consensus 95 GHe~LM-----ATMLsGAAlMDgAlLvIaANEpcPQPQT~EHl~AleIigik~iiIvQNKIDlV~~E~AlE~y~qIk~Fv 169 (415)
T COG5257 95 GHETLM-----ATMLSGAALMDGALLVIAANEPCPQPQTREHLMALEIIGIKNIIIVQNKIDLVSRERALENYEQIKEFV 169 (415)
T ss_pred chHHHH-----HHHhcchhhhcceEEEEecCCCCCCCchHHHHHHHhhhccceEEEEecccceecHHHHHHHHHHHHHHh
Confidence 999999 99999998 99999999999999999999999999999999999999999999999999998
Q ss_pred C
Q psy13818 207 Q 207 (207)
Q Consensus 207 ~ 207 (207)
|
T Consensus 170 k 170 (415)
T COG5257 170 K 170 (415)
T ss_pred c
Confidence 6
No 5
>COG2895 CysN GTPases - Sulfate adenylate transferase subunit 1 [Inorganic ion transport and metabolism]
Probab=99.79 E-value=5.5e-20 Score=170.32 Aligned_cols=111 Identities=22% Similarity=0.278 Sum_probs=96.0
Q ss_pred Ccccccc-cceeeeeeecccccccCCcccceeccCccCceEEEEeeccccceEEEEEecceEEEEeeCcccccCCcEEEE
Q psy13818 51 DKKGAKL-EISYHLLKRLLGVRMEGDKKGAKVQKLTRNEVLLVNIGSLSTGGRVLATKADLAKISLTNPVCTEVNEKIAL 129 (207)
Q Consensus 51 ~~~~~~~-~~~~~~~~~~~Gv~t~~~k~~~Kv~~l~~~E~lmlniGs~~t~g~V~~~~~Dla~i~L~~Pvc~~~G~kiaI 129 (207)
+++|-.+ .+-|.|+-+=+ + .++-+.|+ | |.|+.||..+. |-.|
T Consensus 46 ~~~~t~g~~~D~ALLvDGL-------~-AEREQGIT------I----------------DVAYRyFsT~K------RkFI 89 (431)
T COG2895 46 KRKGTQGEKIDLALLVDGL-------E-AEREQGIT------I----------------DVAYRYFSTEK------RKFI 89 (431)
T ss_pred ccccCCCCccchhhhhhhh-------H-HHHhcCce------E----------------EEEeeeccccc------ceEE
Confidence 3457776 77887776544 2 22567777 7 99999999985 8888
Q ss_pred EEeecCcceeecccccccccccee--------eecCCCCCCCchHHHHHHHHHcCCCeEEEEEecCCCCChhhHHHHHHH
Q psy13818 130 SRRVEKHWSLIEGTVTTKVLSTRK--------RTGNESCPQPQTSEHLAAIEIMKLKHIIILQNKIDLVKEGQANEQHEQ 201 (207)
Q Consensus 130 sR~V~gh~rligg~~~~nMiaGa~--------V~A~eg~~~pQT~EHl~il~~lGI~~iIV~vNK~DlV~~~~~~~~~~e 201 (207)
+-+-|||+.|. |||++||+ |||.+|+ .+|||+|..|+++|||+|+||++||||||+|+ +++|++
T Consensus 90 iADTPGHeQYT-----RNMaTGASTadlAIlLVDAR~Gv-l~QTrRHs~I~sLLGIrhvvvAVNKmDLvdy~--e~~F~~ 161 (431)
T COG2895 90 IADTPGHEQYT-----RNMATGASTADLAILLVDARKGV-LEQTRRHSFIASLLGIRHVVVAVNKMDLVDYS--EEVFEA 161 (431)
T ss_pred EecCCcHHHHh-----hhhhcccccccEEEEEEecchhh-HHHhHHHHHHHHHhCCcEEEEEEeeecccccC--HHHHHH
Confidence 99999999999 99999999 9999998 99999999999999999999999999999999 789999
Q ss_pred HHhh
Q psy13818 202 IVKF 205 (207)
Q Consensus 202 I~~~ 205 (207)
|++-
T Consensus 162 I~~d 165 (431)
T COG2895 162 IVAD 165 (431)
T ss_pred HHHH
Confidence 9863
No 6
>PTZ00327 eukaryotic translation initiation factor 2 gamma subunit; Provisional
Probab=99.77 E-value=2e-19 Score=169.32 Aligned_cols=131 Identities=44% Similarity=0.623 Sum_probs=95.8
Q ss_pred eeeeecccccccCCcccceeccCccCceEEEEeeccccc-------eEEEEEecceEEEEeeCcccccCC------cEEE
Q psy13818 62 HLLKRLLGVRMEGDKKGAKVQKLTRNEVLLVNIGSLSTG-------GRVLATKADLAKISLTNPVCTEVN------EKIA 128 (207)
Q Consensus 62 ~~~~~~~Gv~t~~~k~~~Kv~~l~~~E~lmlniGs~~t~-------g~V~~~~~Dla~i~L~~Pvc~~~G------~kia 128 (207)
+|+++|||..++..++| |.+.++ +..|-+... +.+...... ..-.-..+.|..++ .++.
T Consensus 49 tLv~aLtg~~~~r~~~E-~~rGiT------i~lGfa~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~i~ 120 (460)
T PTZ00327 49 TVVKALSGVKTVRFKRE-KVRNIT------IKLGYANAKIYKCPKCPRPTCYQSY-GSSKPDNPPCPGCGHKMTLKRHVS 120 (460)
T ss_pred HHHHHHhCCCcccchhh-HHhCCc------hhccccccccccCcccCCccccccc-CCCcccccccccccccccccceEe
Confidence 78999999998877654 788888 644433321 001000000 00000023333333 2677
Q ss_pred EEEeecCcceeecccccccccccee--------eecCCCCCCCchHHHHHHHHHcCCCeEEEEEecCCCCChhhHHHHHH
Q psy13818 129 LSRRVEKHWSLIEGTVTTKVLSTRK--------RTGNESCPQPQTSEHLAAIEIMKLKHIIILQNKIDLVKEGQANEQHE 200 (207)
Q Consensus 129 IsR~V~gh~rligg~~~~nMiaGa~--------V~A~eg~~~pQT~EHl~il~~lGI~~iIV~vNK~DlV~~~~~~~~~~ 200 (207)
++ +.|||++|+ +||++|++ |||++|++||||+||+.+++++|++++|||+||||++++++.+++++
T Consensus 121 ~I-DtPGH~~fi-----~~m~~g~~~~D~alLVVda~~g~~~~qT~ehl~i~~~lgi~~iIVvlNKiDlv~~~~~~~~~~ 194 (460)
T PTZ00327 121 FV-DCPGHDILM-----ATMLNGAAVMDAALLLIAANESCPQPQTSEHLAAVEIMKLKHIIILQNKIDLVKEAQAQDQYE 194 (460)
T ss_pred ee-eCCCHHHHH-----HHHHHHHhhCCEEEEEEECCCCccchhhHHHHHHHHHcCCCcEEEEEecccccCHHHHHHHHH
Confidence 76 999999999 99999987 89999866999999999999999999999999999999888899999
Q ss_pred HHHhhh
Q psy13818 201 QIVKFV 206 (207)
Q Consensus 201 eI~~~l 206 (207)
+|++++
T Consensus 195 ei~~~l 200 (460)
T PTZ00327 195 EIRNFV 200 (460)
T ss_pred HHHHHH
Confidence 999876
No 7
>KOG0460|consensus
Probab=99.76 E-value=9.5e-19 Score=161.90 Aligned_cols=86 Identities=23% Similarity=0.375 Sum_probs=76.3
Q ss_pred ceEEEEeeCcccccCCcEEEEEEeecCcceeecccccccccccee--------eecCCCCCCCchHHHHHHHHHcCCCeE
Q psy13818 109 DLAKISLTNPVCTEVNEKIALSRRVEKHWSLIEGTVTTKVLSTRK--------RTGNESCPQPQTSEHLAAIEIMKLKHI 180 (207)
Q Consensus 109 Dla~i~L~~Pvc~~~G~kiaIsR~V~gh~rligg~~~~nMiaGa~--------V~A~eg~~~pQT~EHl~il~~lGI~~i 180 (207)
+.+.+.+..+ ....+.. +-|||-+|| ||||+||+ |+|++| ||||||||++++++.||+|+
T Consensus 106 n~aHveYeTa-----~RhYaH~-DCPGHADYI-----KNMItGaaqMDGaILVVaatDG-~MPQTrEHlLLArQVGV~~i 173 (449)
T KOG0460|consen 106 NAAHVEYETA-----KRHYAHT-DCPGHADYI-----KNMITGAAQMDGAILVVAATDG-PMPQTREHLLLARQVGVKHI 173 (449)
T ss_pred eeeeeeeecc-----ccccccC-CCCchHHHH-----HHhhcCccccCceEEEEEcCCC-CCcchHHHHHHHHHcCCceE
Confidence 5678877776 3456665 889999999 99999998 889999 59999999999999999999
Q ss_pred EEEEecCCCC-ChhhHHHHHHHHHhhh
Q psy13818 181 IILQNKIDLV-KEGQANEQHEQIVKFV 206 (207)
Q Consensus 181 IV~vNK~DlV-~~~~~~~~~~eI~~~l 206 (207)
||++||.|+| |++.++.+.-||+++|
T Consensus 174 vvfiNKvD~V~d~e~leLVEmE~RElL 200 (449)
T KOG0460|consen 174 VVFINKVDLVDDPEMLELVEMEIRELL 200 (449)
T ss_pred EEEEecccccCCHHHHHHHHHHHHHHH
Confidence 9999999999 6778888889999987
No 8
>COG0050 TufB GTPases - translation elongation factors [Translation, ribosomal structure and biogenesis]
Probab=99.75 E-value=6.5e-19 Score=160.80 Aligned_cols=87 Identities=18% Similarity=0.325 Sum_probs=77.0
Q ss_pred ceEEEEeeCcccccCCcEEEEEEeecCcceeecccccccccccee--------eecCCCCCCCchHHHHHHHHHcCCCeE
Q psy13818 109 DLAKISLTNPVCTEVNEKIALSRRVEKHWSLIEGTVTTKVLSTRK--------RTGNESCPQPQTSEHLAAIEIMKLKHI 180 (207)
Q Consensus 109 Dla~i~L~~Pvc~~~G~kiaIsR~V~gh~rligg~~~~nMiaGa~--------V~A~eg~~~pQT~EHl~il~~lGI~~i 180 (207)
+.+.+.+..+ ...++.. +.|||.+|| ||||+||+ |+|++| |||||+||++++++.|++++
T Consensus 64 ntahveyet~-----~rhyahV-DcPGHaDYv-----KNMItgAaqmDgAILVVsA~dG-pmPqTrEHiLlarqvGvp~i 131 (394)
T COG0050 64 NTAHVEYETA-----NRHYAHV-DCPGHADYV-----KNMITGAAQMDGAILVVAATDG-PMPQTREHILLARQVGVPYI 131 (394)
T ss_pred ccceeEEecC-----CceEEec-cCCChHHHH-----HHHhhhHHhcCccEEEEEcCCC-CCCcchhhhhhhhhcCCcEE
Confidence 5677777765 4567876 999999999 99999998 889999 69999999999999999999
Q ss_pred EEEEecCCCCC-hhhHHHHHHHHHhhhC
Q psy13818 181 IILQNKIDLVK-EGQANEQHEQIVKFVQ 207 (207)
Q Consensus 181 IV~vNK~DlV~-~~~~~~~~~eI~~~l~ 207 (207)
||++||+|+|+ ++.++.+..|++++|.
T Consensus 132 vvflnK~Dmvdd~ellelVemEvreLLs 159 (394)
T COG0050 132 VVFLNKVDMVDDEELLELVEMEVRELLS 159 (394)
T ss_pred EEEEecccccCcHHHHHHHHHHHHHHHH
Confidence 99999999998 6677888899999873
No 9
>COG3276 SelB Selenocysteine-specific translation elongation factor [Translation, ribosomal structure and biogenesis]
Probab=99.73 E-value=4.7e-18 Score=159.76 Aligned_cols=110 Identities=25% Similarity=0.292 Sum_probs=98.8
Q ss_pred eeeeecccccccCCcccceeccCccCceEEEEeeccccceEEEEEecceEEEEeeCcccccCCcEEEEEEeecCcceeec
Q psy13818 62 HLLKRLLGVRMEGDKKGAKVQKLTRNEVLLVNIGSLSTGGRVLATKADLAKISLTNPVCTEVNEKIALSRRVEKHWSLIE 141 (207)
Q Consensus 62 ~~~~~~~Gv~t~~~k~~~Kv~~l~~~E~lmlniGs~~t~g~V~~~~~Dla~i~L~~Pvc~~~G~kiaIsR~V~gh~rlig 141 (207)
+|+|+++|..++..+|+ |.+.++ + |+.+.|++.| ++ ++.++ ++|||.+||
T Consensus 15 ~L~~altg~~~d~l~Ee-kKRG~T------i----------------Dlg~~y~~~~----d~-~~~fI-Dvpgh~~~i- 64 (447)
T COG3276 15 TLLKALTGGVTDRLPEE-KKRGIT------I----------------DLGFYYRKLE----DG-VMGFI-DVPGHPDFI- 64 (447)
T ss_pred hhhhhhcccccccchhh-hhcCce------E----------------eeeeEeccCC----CC-ceEEe-eCCCcHHHH-
Confidence 78999999999988766 667777 6 9999999998 45 78888 999999999
Q ss_pred ccccccccccee--------eecCCCCCCCchHHHHHHHHHcCCCeEEEEEecCCCCChhhHHHHHHHHHhhh
Q psy13818 142 GTVTTKVLSTRK--------RTGNESCPQPQTSEHLAAIEIMKLKHIIILQNKIDLVKEGQANEQHEQIVKFV 206 (207)
Q Consensus 142 g~~~~nMiaGa~--------V~A~eg~~~pQT~EHl~il~~lGI~~iIV~vNK~DlV~~~~~~~~~~eI~~~l 206 (207)
+||++|+. |+++||. ||||.||++++++||++|.|||+||+|++++.+.++..++|.+.+
T Consensus 65 ----~~miag~~~~d~alLvV~~deGl-~~qtgEhL~iLdllgi~~giivltk~D~~d~~r~e~~i~~Il~~l 132 (447)
T COG3276 65 ----SNLLAGLGGIDYALLVVAADEGL-MAQTGEHLLILDLLGIKNGIIVLTKADRVDEARIEQKIKQILADL 132 (447)
T ss_pred ----HHHHhhhcCCceEEEEEeCccCc-chhhHHHHHHHHhcCCCceEEEEeccccccHHHHHHHHHHHHhhc
Confidence 99999976 8999996 999999999999999999999999999999998888888887654
No 10
>COG5256 TEF1 Translation elongation factor EF-1alpha (GTPase) [Translation, ribosomal structure and biogenesis]
Probab=99.66 E-value=2e-16 Score=148.20 Aligned_cols=85 Identities=22% Similarity=0.304 Sum_probs=74.1
Q ss_pred ceEEEEeeCcccccCCcEEEEEEeecCcceeecccccccccccee--------eecCCCC------CCCchHHHHHHHHH
Q psy13818 109 DLAKISLTNPVCTEVNEKIALSRRVEKHWSLIEGTVTTKVLSTRK--------RTGNESC------PQPQTSEHLAAIEI 174 (207)
Q Consensus 109 Dla~i~L~~Pvc~~~G~kiaIsR~V~gh~rligg~~~~nMiaGa~--------V~A~eg~------~~pQT~EHl~il~~ 174 (207)
|.+..++..|. -++.|. +-|||.+|+ +||++||+ |||+.|- ++||||||+.|++.
T Consensus 74 ~~~~~~fet~k-----~~~tIi-DaPGHrdFv-----knmItGasqAD~aVLVV~a~~~efE~g~~~~gQtrEH~~La~t 142 (428)
T COG5256 74 DVAHSKFETDK-----YNFTII-DAPGHRDFV-----KNMITGASQADVAVLVVDARDGEFEAGFGVGGQTREHAFLART 142 (428)
T ss_pred EEEEEEeecCC-----ceEEEe-eCCchHHHH-----HHhhcchhhccEEEEEEECCCCccccccccCCchhHHHHHHHh
Confidence 67788887763 257777 999999999 99999998 8888761 49999999999999
Q ss_pred cCCCeEEEEEecCCCCChhhHHHHHHHHHhhh
Q psy13818 175 MKLKHIIILQNKIDLVKEGQANEQHEQIVKFV 206 (207)
Q Consensus 175 lGI~~iIV~vNK~DlV~~~~~~~~~~eI~~~l 206 (207)
|||+|+||++||||+++|+ +++|++|++-+
T Consensus 143 lGi~~lIVavNKMD~v~wd--e~rf~ei~~~v 172 (428)
T COG5256 143 LGIKQLIVAVNKMDLVSWD--EERFEEIVSEV 172 (428)
T ss_pred cCCceEEEEEEcccccccC--HHHHHHHHHHH
Confidence 9999999999999999976 78999988754
No 11
>KOG0466|consensus
Probab=99.63 E-value=2.2e-16 Score=145.37 Aligned_cols=85 Identities=65% Similarity=0.897 Sum_probs=75.7
Q ss_pred cccccCCc--EEEEEEeec-----Ccceeecccccccccccee--------eecCCCCCCCchHHHHHHHHHcCCCeEEE
Q psy13818 118 PVCTEVNE--KIALSRRVE-----KHWSLIEGTVTTKVLSTRK--------RTGNESCPQPQTSEHLAAIEIMKLKHIII 182 (207)
Q Consensus 118 Pvc~~~G~--kiaIsR~V~-----gh~rligg~~~~nMiaGa~--------V~A~eg~~~pQT~EHl~il~~lGI~~iIV 182 (207)
|-|..+|. +..+.|.++ ||--|+ .+|+.||+ |++||.||||||.|||+..++|.++|+++
T Consensus 110 ~~c~~~g~~~~~klvRHVSfVDCPGHDiLM-----aTMLnGaAvmDaalLlIA~NEsCPQPQTsEHLaaveiM~Lkhiii 184 (466)
T KOG0466|consen 110 PPCDRPGCEGKMKLVRHVSFVDCPGHDILM-----ATMLNGAAVMDAALLLIAGNESCPQPQTSEHLAAVEIMKLKHIII 184 (466)
T ss_pred CCcccCCCCCceEEEEEEEeccCCchHHHH-----HHHhcchHHhhhhhhhhhcCCCCCCCchhhHHHHHHHhhhceEEE
Confidence 44555444 588888774 888888 99999988 89999999999999999999999999999
Q ss_pred EEecCCCCChhhHHHHHHHHHhhhC
Q psy13818 183 LQNKIDLVKEGQANEQHEQIVKFVQ 207 (207)
Q Consensus 183 ~vNK~DlV~~~~~~~~~~eI~~~l~ 207 (207)
++||+||+.++++.+.|++|.+|++
T Consensus 185 lQNKiDli~e~~A~eq~e~I~kFi~ 209 (466)
T KOG0466|consen 185 LQNKIDLIKESQALEQHEQIQKFIQ 209 (466)
T ss_pred EechhhhhhHHHHHHHHHHHHHHHh
Confidence 9999999999999999999999974
No 12
>PRK10512 selenocysteinyl-tRNA-specific translation factor; Provisional
Probab=99.62 E-value=4.4e-16 Score=150.92 Aligned_cols=111 Identities=22% Similarity=0.300 Sum_probs=90.7
Q ss_pred eeeeecccccccCCcccceeccCccCceEEEEeeccccceEEEEEecceEEEEeeCcccccCCcEEEEEEeecCcceeec
Q psy13818 62 HLLKRLLGVRMEGDKKGAKVQKLTRNEVLLVNIGSLSTGGRVLATKADLAKISLTNPVCTEVNEKIALSRRVEKHWSLIE 141 (207)
Q Consensus 62 ~~~~~~~Gv~t~~~k~~~Kv~~l~~~E~lmlniGs~~t~g~V~~~~~Dla~i~L~~Pvc~~~G~kiaIsR~V~gh~rlig 141 (207)
+|+++|||.+++..+++ +.+.++ + |+++.++..| .|.++.++ ++|||.+|+
T Consensus 15 tLi~aLtg~~~dr~~eE-~~rGiT------I----------------~l~~~~~~~~----~g~~i~~I-DtPGhe~fi- 65 (614)
T PRK10512 15 TLLQAITGVNADRLPEE-KKRGMT------I----------------DLGYAYWPQP----DGRVLGFI-DVPGHEKFL- 65 (614)
T ss_pred HHHHHHhCCCCccchhc-ccCCce------E----------------EeeeEEEecC----CCcEEEEE-ECCCHHHHH-
Confidence 56788889877665544 445555 4 4556666655 56778887 999999999
Q ss_pred ccccccccccee--------eecCCCCCCCchHHHHHHHHHcCCCeEEEEEecCCCCChhhHHHHHHHHHhhh
Q psy13818 142 GTVTTKVLSTRK--------RTGNESCPQPQTSEHLAAIEIMKLKHIIILQNKIDLVKEGQANEQHEQIVKFV 206 (207)
Q Consensus 142 g~~~~nMiaGa~--------V~A~eg~~~pQT~EHl~il~~lGI~~iIV~vNK~DlV~~~~~~~~~~eI~~~l 206 (207)
+||++|+. ||+++|+ ||||+||+.+++.+|++++|||+||||++++++.++..+++++++
T Consensus 66 ----~~m~~g~~~~D~~lLVVda~eg~-~~qT~ehl~il~~lgi~~iIVVlNKiDlv~~~~~~~v~~ei~~~l 133 (614)
T PRK10512 66 ----SNMLAGVGGIDHALLVVACDDGV-MAQTREHLAILQLTGNPMLTVALTKADRVDEARIAEVRRQVKAVL 133 (614)
T ss_pred ----HHHHHHhhcCCEEEEEEECCCCC-cHHHHHHHHHHHHcCCCeEEEEEECCccCCHHHHHHHHHHHHHHH
Confidence 99999866 8999996 999999999999999999999999999999887777788887765
No 13
>PTZ00327 eukaryotic translation initiation factor 2 gamma subunit; Provisional
Probab=99.61 E-value=1.5e-15 Score=143.10 Aligned_cols=121 Identities=62% Similarity=1.010 Sum_probs=107.1
Q ss_pred CCccCCccccccccceeeccCCCCCCcceEEEEEeHhhHHHHHhhhccCCcccccccceeeeeeecccccccCCccccee
Q psy13818 2 GTKIEPTLCRADRLVGQVLGAVGALPKIFIELEISYHLLKRLLGVRMEGDKKGAKLEISYHLLKRLLGVRMEGDKKGAKV 81 (207)
Q Consensus 2 gt~~dp~l~~~d~lvG~v~g~~g~lp~v~~~l~i~~~Ll~r~~~~~~~~~~~~~~~~~~~~~~~~~~Gv~t~~~k~~~Kv 81 (207)
.+++||.+.+.|-..|+|++.+|++|+++.++++++++|++.+ |...+++++..|.
T Consensus 329 ~l~ld~~v~~~dv~rG~Vl~~~~~~~~~~~~~~a~v~~L~~~~------------------------~~~~~~~~~~~~~ 384 (460)
T PTZ00327 329 GTTIDPTLTRADRLVGQVLGYPGKLPEVYAEIEIQYYLLRRLL------------------------GVKSQDGKKATKV 384 (460)
T ss_pred EeccCCCcchhhcccccEEEcCCCCCceeEEEEEEEEEecccc------------------------cccccccccccCC
Confidence 4578999999999999999999999999999999999998877 5543333333356
Q ss_pred ccCccCceEEEEeeccccceEEEEEecc-eEEEEeeCcccccCCcEEEEEEeecCcceeec-ccccc
Q psy13818 82 QKLTRNEVLLVNIGSLSTGGRVLATKAD-LAKISLTNPVCTEVNEKIALSRRVEKHWSLIE-GTVTT 146 (207)
Q Consensus 82 ~~l~~~E~lmlniGs~~t~g~V~~~~~D-la~i~L~~Pvc~~~G~kiaIsR~V~gh~rlig-g~~~~ 146 (207)
.+|+.|+.+++.+||..+.|+|..+++| .+++.|..|+|++.|+|+.|+|++..+||+|| |+|..
T Consensus 385 ~~l~~g~~~~l~~gt~~~~~~i~~i~~~~~~~l~l~~P~~~~~gdr~ilr~~~~~~~~tig~G~i~~ 451 (460)
T PTZ00327 385 AKLKKGESLMINIGSTTTGGRVVGIKDDGIAKLELTTPVCTSVGEKIALSRRVDKHWRLIGWGTIRK 451 (460)
T ss_pred cccCCCCEEEEEecccEEEEEEEEeCCCeEEEEEECccEeccCCCEEEEEeccCCCcEEEEEEEEcC
Confidence 8999999999999999999999999999 99999999999999999999999899999999 76664
No 14
>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=99.54 E-value=1e-14 Score=133.97 Aligned_cols=113 Identities=41% Similarity=0.773 Sum_probs=103.1
Q ss_pred CccCCccccccccceeeccCCCCCCcceEEEEEeHhhHHHHHhhhccCCcccccccceeeeeeecccccccCCcccceec
Q psy13818 3 TKIEPTLCRADRLVGQVLGAVGALPKIFIELEISYHLLKRLLGVRMEGDKKGAKLEISYHLLKRLLGVRMEGDKKGAKVQ 82 (207)
Q Consensus 3 t~~dp~l~~~d~lvG~v~g~~g~lp~v~~~l~i~~~Ll~r~~~~~~~~~~~~~~~~~~~~~~~~~~Gv~t~~~k~~~Kv~ 82 (207)
+++||.+.+.|-+.|+|++.+++.|++..++++++++|++.. |. .+..+..
T Consensus 292 l~~~~~i~~~dv~~G~vl~~~~~~~~~~~~f~a~i~~l~~~~------------------------~~-----~~~~~~~ 342 (406)
T TIGR03680 292 TKLDPALTKADALAGQVVGKPGTLPPVWESLELEVHLLERVV------------------------GT-----EEELKVE 342 (406)
T ss_pred eccCCCCCHHHcccccEEEcCCCCCCceeEEEEEEEEEeccc------------------------Cc-----ccccccc
Confidence 456889999999999999999999999999999999998876 44 2335678
Q ss_pred cCccCceEEEEeeccccceEEEEEecceEEEEeeCcccccCCcEEEEEEeecCcceeec-ccc
Q psy13818 83 KLTRNEVLLVNIGSLSTGGRVLATKADLAKISLTNPVCTEVNEKIALSRRVEKHWSLIE-GTV 144 (207)
Q Consensus 83 ~l~~~E~lmlniGs~~t~g~V~~~~~Dla~i~L~~Pvc~~~G~kiaIsR~V~gh~rlig-g~~ 144 (207)
+|+.|+.+++.+||..+.|+|..+.+|.+.+.|..|+|...|+|+.+||+..++||+|| |.+
T Consensus 343 ~i~~g~~~~l~~gt~~~~~~v~~~~~~~~~l~l~~p~~~~~g~r~~~~~~~~~~~~~~g~g~~ 405 (406)
T TIGR03680 343 PIKTGEVLMLNVGTATTVGVVTSARKDEIEVKLKRPVCAEEGDRVAISRRVGGRWRLIGYGII 405 (406)
T ss_pred cCCCCCEEEEEEccceEEEEEEEcCCcEEEEEECCcEEcCCCCEEEEEEecCCceEEEEEEEe
Confidence 99999999999999999999999999999999999999999999999999999999999 544
No 15
>KOG0458|consensus
Probab=99.53 E-value=2e-14 Score=139.03 Aligned_cols=85 Identities=21% Similarity=0.323 Sum_probs=70.2
Q ss_pred ceEEEEeeCcccccCCcEEEEEEeecCcceeecccccccccccee--------eecCCC-----C-CCCchHHHHHHHHH
Q psy13818 109 DLAKISLTNPVCTEVNEKIALSRRVEKHWSLIEGTVTTKVLSTRK--------RTGNES-----C-PQPQTSEHLAAIEI 174 (207)
Q Consensus 109 Dla~i~L~~Pvc~~~G~kiaIsR~V~gh~rligg~~~~nMiaGa~--------V~A~eg-----~-~~pQT~EHl~il~~ 174 (207)
|.+..++..+ -..+.|. +.|||-.|| +||++|++ |||+-| + +-.||+||+.+++.
T Consensus 244 ~v~~~~fes~-----~~~~tli-DaPGhkdFi-----~nmi~g~sqaD~avLvvd~s~~~FE~gfd~~gQtrEha~llr~ 312 (603)
T KOG0458|consen 244 DVKTTWFESK-----SKIVTLI-DAPGHKDFI-----PNMISGASQADVAVLVVDASTGEFESGFDPGGQTREHALLLRS 312 (603)
T ss_pred EeeeEEEecC-----ceeEEEe-cCCCccccc-----hhhhccccccceEEEEEECCcchhhhccCCCCchHHHHHHHHH
Confidence 5556666644 3456666 999999999 99999988 777632 2 57999999999999
Q ss_pred cCCCeEEEEEecCCCCChhhHHHHHHHHHhhh
Q psy13818 175 MKLKHIIILQNKIDLVKEGQANEQHEQIVKFV 206 (207)
Q Consensus 175 lGI~~iIV~vNK~DlV~~~~~~~~~~eI~~~l 206 (207)
|||.|+||++||||+|+|+ ++||++|+.-|
T Consensus 313 Lgi~qlivaiNKmD~V~Ws--q~RF~eIk~~l 342 (603)
T KOG0458|consen 313 LGISQLIVAINKMDLVSWS--QDRFEEIKNKL 342 (603)
T ss_pred cCcceEEEEeecccccCcc--HHHHHHHHHHH
Confidence 9999999999999999888 78898887643
No 16
>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=99.47 E-value=6.4e-14 Score=134.88 Aligned_cols=86 Identities=22% Similarity=0.364 Sum_probs=70.7
Q ss_pred ceEEEEeeCcccccCCcEEEEEEeecCcceeecccccccccccee--------eecCCCCCCCchHHHHHHHHHcCCCeE
Q psy13818 109 DLAKISLTNPVCTEVNEKIALSRRVEKHWSLIEGTVTTKVLSTRK--------RTGNESCPQPQTSEHLAAIEIMKLKHI 180 (207)
Q Consensus 109 Dla~i~L~~Pvc~~~G~kiaIsR~V~gh~rligg~~~~nMiaGa~--------V~A~eg~~~pQT~EHl~il~~lGI~~i 180 (207)
|..+.++..+ +.++.|. ++|||.+|+ +||++|+. ||+++|. ||||+||+.+++.+|++|+
T Consensus 39 d~~~~~~~~~-----~~~v~~i-DtPGhe~f~-----~~~~~g~~~aD~aILVVDa~~G~-~~qT~ehl~il~~lgi~~i 106 (581)
T TIGR00475 39 DLGFAYFPLP-----DYRLGFI-DVPGHEKFI-----SNAIAGGGGIDAALLVVDADEGV-MTQTGEHLAVLDLLGIPHT 106 (581)
T ss_pred EeEEEEEEeC-----CEEEEEE-ECCCHHHHH-----HHHHhhhccCCEEEEEEECCCCC-cHHHHHHHHHHHHcCCCeE
Confidence 4445555444 3567776 999999999 99998866 8999996 9999999999999999999
Q ss_pred EEEEecCCCCChhhHHHHHHHHHhhh
Q psy13818 181 IILQNKIDLVKEGQANEQHEQIVKFV 206 (207)
Q Consensus 181 IV~vNK~DlV~~~~~~~~~~eI~~~l 206 (207)
|||+||||+++.++.+...+++++++
T Consensus 107 IVVlNK~Dlv~~~~~~~~~~ei~~~l 132 (581)
T TIGR00475 107 IVVITKADRVNEEEIKRTEMFMKQIL 132 (581)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHHH
Confidence 99999999999876666666676654
No 17
>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=99.46 E-value=5.7e-14 Score=129.06 Aligned_cols=77 Identities=44% Similarity=0.678 Sum_probs=68.1
Q ss_pred CcEEEEEEeecCcceeecccccccccccee--------eecCCCCCCCchHHHHHHHHHcCCCeEEEEEecCCCCChhhH
Q psy13818 124 NEKIALSRRVEKHWSLIEGTVTTKVLSTRK--------RTGNESCPQPQTSEHLAAIEIMKLKHIIILQNKIDLVKEGQA 195 (207)
Q Consensus 124 G~kiaIsR~V~gh~rligg~~~~nMiaGa~--------V~A~eg~~~pQT~EHl~il~~lGI~~iIV~vNK~DlV~~~~~ 195 (207)
+.++.+. +.|||.+|+ +||++|++ |||++|++++||+||+.+++.+|++++||++||+|++++++.
T Consensus 79 ~~~i~li-DtPGh~~f~-----~~~~~g~~~aD~aIlVVDa~~g~~~~qt~e~l~~l~~~gi~~iIVvvNK~Dl~~~~~~ 152 (406)
T TIGR03680 79 LRRVSFV-DAPGHETLM-----ATMLSGAALMDGALLVIAANEPCPQPQTKEHLMALEIIGIKNIVIVQNKIDLVSKEKA 152 (406)
T ss_pred ccEEEEE-ECCCHHHHH-----HHHHHHHHHCCEEEEEEECCCCccccchHHHHHHHHHcCCCeEEEEEEccccCCHHHH
Confidence 3567776 999999999 99999964 999999779999999999999999999999999999988777
Q ss_pred HHHHHHHHhhh
Q psy13818 196 NEQHEQIVKFV 206 (207)
Q Consensus 196 ~~~~~eI~~~l 206 (207)
.+.++++++++
T Consensus 153 ~~~~~~i~~~l 163 (406)
T TIGR03680 153 LENYEEIKEFV 163 (406)
T ss_pred HHHHHHHHhhh
Confidence 77788888765
No 18
>PLN03126 Elongation factor Tu; Provisional
Probab=99.42 E-value=1.6e-13 Score=129.89 Aligned_cols=86 Identities=16% Similarity=0.282 Sum_probs=70.3
Q ss_pred ceEEEEeeCcccccCCcEEEEEEeecCcceeecccccccccccee--------eecCCCCCCCchHHHHHHHHHcCCCeE
Q psy13818 109 DLAKISLTNPVCTEVNEKIALSRRVEKHWSLIEGTVTTKVLSTRK--------RTGNESCPQPQTSEHLAAIEIMKLKHI 180 (207)
Q Consensus 109 Dla~i~L~~Pvc~~~G~kiaIsR~V~gh~rligg~~~~nMiaGa~--------V~A~eg~~~pQT~EHl~il~~lGI~~i 180 (207)
|.++.++.. .+.++.++ +.|||.+|+ +||++|+. |||.+|. +|||+||+.++..+|++++
T Consensus 133 ~~~~~~~~~-----~~~~i~li-DtPGh~~f~-----~~~~~g~~~aD~ailVVda~~G~-~~qt~e~~~~~~~~gi~~i 200 (478)
T PLN03126 133 NTATVEYET-----ENRHYAHV-DCPGHADYV-----KNMITGAAQMDGAILVVSGADGP-MPQTKEHILLAKQVGVPNM 200 (478)
T ss_pred EEEEEEEec-----CCcEEEEE-ECCCHHHHH-----HHHHHHHhhCCEEEEEEECCCCC-cHHHHHHHHHHHHcCCCeE
Confidence 556666543 46688887 999999999 99999876 8999996 9999999999999999999
Q ss_pred EEEEecCCCCChhhH-HHHHHHHHhhh
Q psy13818 181 IILQNKIDLVKEGQA-NEQHEQIVKFV 206 (207)
Q Consensus 181 IV~vNK~DlV~~~~~-~~~~~eI~~~l 206 (207)
||++||||+++.++. +...++++++|
T Consensus 201 IvvvNK~Dl~~~~~~~~~i~~~i~~~l 227 (478)
T PLN03126 201 VVFLNKQDQVDDEELLELVELEVRELL 227 (478)
T ss_pred EEEEecccccCHHHHHHHHHHHHHHHH
Confidence 999999999985433 33345677665
No 19
>PTZ00141 elongation factor 1- alpha; Provisional
Probab=99.39 E-value=5e-13 Score=125.07 Aligned_cols=79 Identities=16% Similarity=0.223 Sum_probs=64.1
Q ss_pred cCCcEEEEEEeecCcceeecccccccccccee--------eecCCCCC------CCchHHHHHHHHHcCCCeEEEEEecC
Q psy13818 122 EVNEKIALSRRVEKHWSLIEGTVTTKVLSTRK--------RTGNESCP------QPQTSEHLAAIEIMKLKHIIILQNKI 187 (207)
Q Consensus 122 ~~G~kiaIsR~V~gh~rligg~~~~nMiaGa~--------V~A~eg~~------~pQT~EHl~il~~lGI~~iIV~vNK~ 187 (207)
+.+.++.|+ +.|||.+|+ +||++|++ |||.+|+- .+||+||+.+++.+|++++|||+|||
T Consensus 82 ~~~~~i~lI-DtPGh~~f~-----~~~~~g~~~aD~ailVVda~~G~~e~~~~~~~qT~eh~~~~~~~gi~~iiv~vNKm 155 (446)
T PTZ00141 82 TPKYYFTII-DAPGHRDFI-----KNMITGTSQADVAILVVASTAGEFEAGISKDGQTREHALLAFTLGVKQMIVCINKM 155 (446)
T ss_pred cCCeEEEEE-ECCChHHHH-----HHHHHhhhhcCEEEEEEEcCCCceecccCCCccHHHHHHHHHHcCCCeEEEEEEcc
Confidence 346688887 999999999 99999977 89999861 48999999999999999999999999
Q ss_pred C--CCCh--hhHHHHHHHHHhhh
Q psy13818 188 D--LVKE--GQANEQHEQIVKFV 206 (207)
Q Consensus 188 D--lV~~--~~~~~~~~eI~~~l 206 (207)
| ++++ ++.++..++|++++
T Consensus 156 D~~~~~~~~~~~~~i~~~i~~~l 178 (446)
T PTZ00141 156 DDKTVNYSQERYDEIKKEVSAYL 178 (446)
T ss_pred ccccchhhHHHHHHHHHHHHHHH
Confidence 9 5544 34455555665554
No 20
>PLN03127 Elongation factor Tu; Provisional
Probab=99.38 E-value=5.1e-13 Score=125.27 Aligned_cols=86 Identities=15% Similarity=0.271 Sum_probs=68.3
Q ss_pred ceEEEEeeCcccccCCcEEEEEEeecCcceeecccccccccccee--------eecCCCCCCCchHHHHHHHHHcCCCeE
Q psy13818 109 DLAKISLTNPVCTEVNEKIALSRRVEKHWSLIEGTVTTKVLSTRK--------RTGNESCPQPQTSEHLAAIEIMKLKHI 180 (207)
Q Consensus 109 Dla~i~L~~Pvc~~~G~kiaIsR~V~gh~rligg~~~~nMiaGa~--------V~A~eg~~~pQT~EHl~il~~lGI~~i 180 (207)
|.+...+.. .+.++.++ +.|||.+|+ +||++|+. |||++|. ++||+||+.+++.+|++++
T Consensus 113 ~~~~~~~~~-----~~~~i~~i-DtPGh~~f~-----~~~~~g~~~aD~allVVda~~g~-~~qt~e~l~~~~~~gip~i 180 (447)
T PLN03127 113 ATAHVEYET-----AKRHYAHV-DCPGHADYV-----KNMITGAAQMDGGILVVSAPDGP-MPQTKEHILLARQVGVPSL 180 (447)
T ss_pred eeeEEEEcC-----CCeEEEEE-ECCCccchH-----HHHHHHHhhCCEEEEEEECCCCC-chhHHHHHHHHHHcCCCeE
Confidence 445555544 35577777 999999999 99999866 8999996 9999999999999999999
Q ss_pred EEEEecCCCCChhhHHHHH-HHHHhhh
Q psy13818 181 IILQNKIDLVKEGQANEQH-EQIVKFV 206 (207)
Q Consensus 181 IV~vNK~DlV~~~~~~~~~-~eI~~~l 206 (207)
||++||||++++++..+.. +++++++
T Consensus 181 IvviNKiDlv~~~~~~~~i~~~i~~~l 207 (447)
T PLN03127 181 VVFLNKVDVVDDEELLELVEMELRELL 207 (447)
T ss_pred EEEEEeeccCCHHHHHHHHHHHHHHHH
Confidence 9999999999755433333 4666554
No 21
>PLN00043 elongation factor 1-alpha; Provisional
Probab=99.38 E-value=7.1e-13 Score=124.19 Aligned_cols=85 Identities=19% Similarity=0.206 Sum_probs=66.5
Q ss_pred ceEEEEeeCcccccCCcEEEEEEeecCcceeecccccccccccee--------eecCCCCC------CCchHHHHHHHHH
Q psy13818 109 DLAKISLTNPVCTEVNEKIALSRRVEKHWSLIEGTVTTKVLSTRK--------RTGNESCP------QPQTSEHLAAIEI 174 (207)
Q Consensus 109 Dla~i~L~~Pvc~~~G~kiaIsR~V~gh~rligg~~~~nMiaGa~--------V~A~eg~~------~pQT~EHl~il~~ 174 (207)
|.+..++.. .+.++.|+ +.|||.+|+ +||++|++ |||++|.. .+||+||+.+++.
T Consensus 74 ~~~~~~~~~-----~~~~i~li-DtPGh~df~-----~~~~~g~~~aD~aIlVVda~~G~~e~g~~~~~qT~eh~~~~~~ 142 (447)
T PLN00043 74 DIALWKFET-----TKYYCTVI-DAPGHRDFI-----KNMITGTSQADCAVLIIDSTTGGFEAGISKDGQTREHALLAFT 142 (447)
T ss_pred EEEEEEecC-----CCEEEEEE-ECCCHHHHH-----HHHHhhhhhccEEEEEEEcccCceecccCCCchHHHHHHHHHH
Confidence 344555544 35678887 999999999 99999977 88988742 3999999999999
Q ss_pred cCCCeEEEEEecCCCCChhhHHHHHHHHHh
Q psy13818 175 MKLKHIIILQNKIDLVKEGQANEQHEQIVK 204 (207)
Q Consensus 175 lGI~~iIV~vNK~DlV~~~~~~~~~~eI~~ 204 (207)
+|++++|||+||||+++.++.+++|++|.+
T Consensus 143 ~gi~~iIV~vNKmD~~~~~~~~~~~~~i~~ 172 (447)
T PLN00043 143 LGVKQMICCCNKMDATTPKYSKARYDEIVK 172 (447)
T ss_pred cCCCcEEEEEEcccCCchhhhHHHHHHHHH
Confidence 999999999999999865444455544433
No 22
>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=99.32 E-value=2e-12 Score=118.20 Aligned_cols=77 Identities=17% Similarity=0.274 Sum_probs=64.1
Q ss_pred CCcEEEEEEeecCcceeecccccccccccee--------eecCCCCCCCchHHHHHHHHHcCCCeEEEEEecCCCCChhh
Q psy13818 123 VNEKIALSRRVEKHWSLIEGTVTTKVLSTRK--------RTGNESCPQPQTSEHLAAIEIMKLKHIIILQNKIDLVKEGQ 194 (207)
Q Consensus 123 ~G~kiaIsR~V~gh~rligg~~~~nMiaGa~--------V~A~eg~~~pQT~EHl~il~~lGI~~iIV~vNK~DlV~~~~ 194 (207)
.+.++.|. +.|||.+|+ +||+.|+. |||++|. ++||+||+.++..+|++++|||+||||++++++
T Consensus 73 ~~~~~~li-DtpGh~~f~-----~~~~~~~~~~D~~ilVvda~~g~-~~qt~e~l~~~~~~gi~~iIvvvNK~Dl~~~~~ 145 (394)
T TIGR00485 73 ENRHYAHV-DCPGHADYV-----KNMITGAAQMDGAILVVSATDGP-MPQTREHILLARQVGVPYIVVFLNKCDMVDDEE 145 (394)
T ss_pred CCEEEEEE-ECCchHHHH-----HHHHHHHhhCCEEEEEEECCCCC-cHHHHHHHHHHHHcCCCEEEEEEEecccCCHHH
Confidence 35578877 999999999 99988875 8999996 999999999999999999999999999997553
Q ss_pred H-HHHHHHHHhhh
Q psy13818 195 A-NEQHEQIVKFV 206 (207)
Q Consensus 195 ~-~~~~~eI~~~l 206 (207)
. +...+++++++
T Consensus 146 ~~~~~~~~i~~~l 158 (394)
T TIGR00485 146 LLELVEMEVRELL 158 (394)
T ss_pred HHHHHHHHHHHHH
Confidence 3 33345676665
No 23
>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=99.29 E-value=4.7e-12 Score=116.57 Aligned_cols=73 Identities=18% Similarity=0.273 Sum_probs=62.9
Q ss_pred ceEEEEeeCcccccCCcEEEEEEeecCcceeecccccccccccee--------eecCCCCCCCchHHHHHHHHHcCCCeE
Q psy13818 109 DLAKISLTNPVCTEVNEKIALSRRVEKHWSLIEGTVTTKVLSTRK--------RTGNESCPQPQTSEHLAAIEIMKLKHI 180 (207)
Q Consensus 109 Dla~i~L~~Pvc~~~G~kiaIsR~V~gh~rligg~~~~nMiaGa~--------V~A~eg~~~pQT~EHl~il~~lGI~~i 180 (207)
|.++.++..+ +.++.|+ +.|||.+|+ +||++|+. |||.+|. +|||+||+.+++.+|++++
T Consensus 69 d~~~~~~~~~-----~~~~~li-DtPGh~~f~-----~~~~~~~~~aD~allVVda~~G~-~~qt~~~~~~~~~~~~~~i 136 (406)
T TIGR02034 69 DVAYRYFSTD-----KRKFIVA-DTPGHEQYT-----RNMATGASTADLAVLLVDARKGV-LEQTRRHSYIASLLGIRHV 136 (406)
T ss_pred EeeeEEEccC-----CeEEEEE-eCCCHHHHH-----HHHHHHHhhCCEEEEEEECCCCC-ccccHHHHHHHHHcCCCcE
Confidence 5666666543 5578877 999999999 99988866 8999996 9999999999999999999
Q ss_pred EEEEecCCCCChh
Q psy13818 181 IILQNKIDLVKEG 193 (207)
Q Consensus 181 IV~vNK~DlV~~~ 193 (207)
|||+||||+++++
T Consensus 137 ivviNK~D~~~~~ 149 (406)
T TIGR02034 137 VLAVNKMDLVDYD 149 (406)
T ss_pred EEEEEecccccch
Confidence 9999999998754
No 24
>PRK04000 translation initiation factor IF-2 subunit gamma; Validated
Probab=99.28 E-value=7.4e-12 Score=115.75 Aligned_cols=110 Identities=40% Similarity=0.745 Sum_probs=99.7
Q ss_pred cCCccccccccceeeccCCCCCCcceEEEEEeHhhHHHHHhhhccCCcccccccceeeeeeecccccccCCcccceeccC
Q psy13818 5 IEPTLCRADRLVGQVLGAVGALPKIFIELEISYHLLKRLLGVRMEGDKKGAKLEISYHLLKRLLGVRMEGDKKGAKVQKL 84 (207)
Q Consensus 5 ~dp~l~~~d~lvG~v~g~~g~lp~v~~~l~i~~~Ll~r~~~~~~~~~~~~~~~~~~~~~~~~~~Gv~t~~~k~~~Kv~~l 84 (207)
+|+.+.+.|-..|+|++.+++.|++..+++.+..+|++.. |. +++.+-.+|
T Consensus 299 ~~~~i~~~~i~~G~vl~~~~~~~~~~~~f~a~v~~l~~~~------------------------~~-----~~~~~~~~i 349 (411)
T PRK04000 299 LDPSLTKADALAGSVAGKPGTLPPVWESLTIEVHLLERVV------------------------GT-----KEELKVEPI 349 (411)
T ss_pred cCCCCCHHHccCccEEEcCCCCCCceEEEEEEEEEEEhhc------------------------Cc-----cccccCCCC
Confidence 4667788888999999999999999999999999988765 33 445567899
Q ss_pred ccCceEEEEeeccccceEEEEEecceEEEEeeCcccccCCcEEEEEEeecCcceeec-cc
Q psy13818 85 TRNEVLLVNIGSLSTGGRVLATKADLAKISLTNPVCTEVNEKIALSRRVEKHWSLIE-GT 143 (207)
Q Consensus 85 ~~~E~lmlniGs~~t~g~V~~~~~Dla~i~L~~Pvc~~~G~kiaIsR~V~gh~rlig-g~ 143 (207)
+.|...++.+|+..+.|+|..+..|.+.+.|..|+|...|+|+.|+|+..+|||+|| |.
T Consensus 350 ~~g~~~~l~~~t~~~~~~i~~i~~~~~~~~l~~p~~~~~g~r~~~~~~~~~~~~~~~~~~ 409 (411)
T PRK04000 350 KTGEPLMLNVGTATTVGVVTSARKDEAEVKLKRPVCAEEGDRVAISRRVGGRWRLIGYGI 409 (411)
T ss_pred CCCCEEEEEEeccEEEEEEEEcCCcEEEEEECCcEecCCCCEEEEEEecCCcEEEEEEEE
Confidence 999999999999999999999999999999999999999999999999999999999 44
No 25
>PRK12736 elongation factor Tu; Reviewed
Probab=99.25 E-value=1e-11 Score=113.82 Aligned_cols=77 Identities=16% Similarity=0.258 Sum_probs=64.0
Q ss_pred CCcEEEEEEeecCcceeecccccccccccee--------eecCCCCCCCchHHHHHHHHHcCCCeEEEEEecCCCCChhh
Q psy13818 123 VNEKIALSRRVEKHWSLIEGTVTTKVLSTRK--------RTGNESCPQPQTSEHLAAIEIMKLKHIIILQNKIDLVKEGQ 194 (207)
Q Consensus 123 ~G~kiaIsR~V~gh~rligg~~~~nMiaGa~--------V~A~eg~~~pQT~EHl~il~~lGI~~iIV~vNK~DlV~~~~ 194 (207)
.+.++.++ +.|||.+|+ +||++|+. ||+++|. +|||+||+.++..+|++++|||+||||+++.++
T Consensus 73 ~~~~i~~i-DtPGh~~f~-----~~~~~~~~~~d~~llVvd~~~g~-~~~t~~~~~~~~~~g~~~~IvviNK~D~~~~~~ 145 (394)
T PRK12736 73 EKRHYAHV-DCPGHADYV-----KNMITGAAQMDGAILVVAATDGP-MPQTREHILLARQVGVPYLVVFLNKVDLVDDEE 145 (394)
T ss_pred CCcEEEEE-ECCCHHHHH-----HHHHHHHhhCCEEEEEEECCCCC-chhHHHHHHHHHHcCCCEEEEEEEecCCcchHH
Confidence 35577777 999999999 99998875 8999996 999999999999999999999999999996543
Q ss_pred HH-HHHHHHHhhh
Q psy13818 195 AN-EQHEQIVKFV 206 (207)
Q Consensus 195 ~~-~~~~eI~~~l 206 (207)
.. ...+++++++
T Consensus 146 ~~~~i~~~i~~~l 158 (394)
T PRK12736 146 LLELVEMEVRELL 158 (394)
T ss_pred HHHHHHHHHHHHH
Confidence 33 3445777664
No 26
>CHL00071 tufA elongation factor Tu
Probab=99.20 E-value=2.7e-11 Score=111.57 Aligned_cols=77 Identities=17% Similarity=0.261 Sum_probs=64.4
Q ss_pred CCcEEEEEEeecCcceeecccccccccccee--------eecCCCCCCCchHHHHHHHHHcCCCeEEEEEecCCCCChhh
Q psy13818 123 VNEKIALSRRVEKHWSLIEGTVTTKVLSTRK--------RTGNESCPQPQTSEHLAAIEIMKLKHIIILQNKIDLVKEGQ 194 (207)
Q Consensus 123 ~G~kiaIsR~V~gh~rligg~~~~nMiaGa~--------V~A~eg~~~pQT~EHl~il~~lGI~~iIV~vNK~DlV~~~~ 194 (207)
.+.++.++ +.|||.+|+ +||++|+. |||.+|. ++||+||+.++..+|++++|||+||||+++.++
T Consensus 73 ~~~~~~~i-DtPGh~~~~-----~~~~~~~~~~D~~ilVvda~~g~-~~qt~~~~~~~~~~g~~~iIvvvNK~D~~~~~~ 145 (409)
T CHL00071 73 ENRHYAHV-DCPGHADYV-----KNMITGAAQMDGAILVVSAADGP-MPQTKEHILLAKQVGVPNIVVFLNKEDQVDDEE 145 (409)
T ss_pred CCeEEEEE-ECCChHHHH-----HHHHHHHHhCCEEEEEEECCCCC-cHHHHHHHHHHHHcCCCEEEEEEEccCCCCHHH
Confidence 45577777 999999999 99988865 8999996 999999999999999999999999999998554
Q ss_pred H-HHHHHHHHhhh
Q psy13818 195 A-NEQHEQIVKFV 206 (207)
Q Consensus 195 ~-~~~~~eI~~~l 206 (207)
. +...++++++|
T Consensus 146 ~~~~~~~~l~~~l 158 (409)
T CHL00071 146 LLELVELEVRELL 158 (409)
T ss_pred HHHHHHHHHHHHH
Confidence 3 33445777665
No 27
>PRK05124 cysN sulfate adenylyltransferase subunit 1; Provisional
Probab=99.20 E-value=3.3e-11 Score=113.66 Aligned_cols=84 Identities=18% Similarity=0.249 Sum_probs=66.2
Q ss_pred ceEEEEeeCcccccCCcEEEEEEeecCcceeecccccccccccee--------eecCCCCCCCchHHHHHHHHHcCCCeE
Q psy13818 109 DLAKISLTNPVCTEVNEKIALSRRVEKHWSLIEGTVTTKVLSTRK--------RTGNESCPQPQTSEHLAAIEIMKLKHI 180 (207)
Q Consensus 109 Dla~i~L~~Pvc~~~G~kiaIsR~V~gh~rligg~~~~nMiaGa~--------V~A~eg~~~pQT~EHl~il~~lGI~~i 180 (207)
|.++.++..+ +.++.|+ +.|||.+|+ +||++|+. |||++|. ++||+||+.++..+|++++
T Consensus 96 d~~~~~~~~~-----~~~i~~i-DTPGh~~f~-----~~~~~~l~~aD~allVVDa~~G~-~~qt~~~~~l~~~lg~~~i 163 (474)
T PRK05124 96 DVAYRYFSTE-----KRKFIIA-DTPGHEQYT-----RNMATGASTCDLAILLIDARKGV-LDQTRRHSFIATLLGIKHL 163 (474)
T ss_pred EeeEEEeccC-----CcEEEEE-ECCCcHHHH-----HHHHHHHhhCCEEEEEEECCCCc-cccchHHHHHHHHhCCCce
Confidence 4556666543 5577776 999999999 88888765 8999996 9999999999999999999
Q ss_pred EEEEecCCCCChh--hHHHHHHHHHh
Q psy13818 181 IILQNKIDLVKEG--QANEQHEQIVK 204 (207)
Q Consensus 181 IV~vNK~DlV~~~--~~~~~~~eI~~ 204 (207)
||++||||+++++ ..++..+++++
T Consensus 164 IvvvNKiD~~~~~~~~~~~i~~~l~~ 189 (474)
T PRK05124 164 VVAVNKMDLVDYSEEVFERIREDYLT 189 (474)
T ss_pred EEEEEeeccccchhHHHHHHHHHHHH
Confidence 9999999999644 23333444444
No 28
>PF00009 GTP_EFTU: Elongation factor Tu GTP binding domain; InterPro: IPR000795 Elongation factors belong to a family of proteins that promote the GTP-dependent binding of aminoacyl tRNA to the A site of ribosomes during protein biosynthesis, and catalyse the translocation of the synthesised protein chain from the A to the P site. The proteins are all relatively similar in the vicinity of their C-termini, and are also highly similar to a range of proteins that includes the nodulation Q protein from Rhizobium meliloti (Sinorhizobium meliloti), bacterial tetracycline resistance proteins [] and the omnipotent suppressor protein 2 from yeast. In both prokaryotes and eukaryotes, there are three distinct types of elongation factors, EF-1alpha (EF-Tu), which binds GTP and an aminoacyl-tRNAand delivers the latter to the A site of ribosomes; EF-1beta (EF-Ts), which interacts with EF-1a/EF-Tu to displace GDP and thus allows the regeneration of GTP-EF-1a; and EF-2 (EF-G), which binds GTP and peptidyl-tRNA and translocates the latter from the A site to the P site. In EF-1-alpha, a specific region has been shown [] to be involved in a conformational change mediated by the hydrolysis of GTP to GDP. This region is conserved in both EF-1alpha/EF-Tu as well as EF-2/EF-G and thus seems typical for GTP-dependent proteins which bind non-initiator tRNAs to the ribosome. The GTP-binding protein synthesis factor family also includes the eukaryotic peptide chain release factor GTP-binding subunits [] and prokaryotic peptide chain release factor 3 (RF-3) []; the prokaryotic GTP-binding protein lepA and its homologue in yeast (GUF1) and Caenorhabditis elegans (ZK1236.1); yeast HBS1 []; rat statin S1 []; and the prokaryotic selenocysteine-specific elongation factor selB [].; GO: 0003924 GTPase activity, 0005525 GTP binding; PDB: 3IZW_C 1DG1_G 2BVN_B 3IZV_C 3MMP_C 1OB2_A 1EFU_A 3FIH_Z 3TR5_A 1TUI_C ....
Probab=99.16 E-value=4.3e-11 Score=97.46 Aligned_cols=74 Identities=34% Similarity=0.486 Sum_probs=62.1
Q ss_pred ccCCcEEEEEEeecCcceeecccccccccccee--------eecCCCCCCCchHHHHHHHHHcCCCeEEEEEecCCCCCh
Q psy13818 121 TEVNEKIALSRRVEKHWSLIEGTVTTKVLSTRK--------RTGNESCPQPQTSEHLAAIEIMKLKHIIILQNKIDLVKE 192 (207)
Q Consensus 121 ~~~G~kiaIsR~V~gh~rligg~~~~nMiaGa~--------V~A~eg~~~pQT~EHl~il~~lGI~~iIV~vNK~DlV~~ 192 (207)
.+.+.++.++ +.|||.+|+ ++|++|+. |||++|. ++||+||+.+++.++++ +|||+||||++ +
T Consensus 66 ~~~~~~i~~i-DtPG~~~f~-----~~~~~~~~~~D~ailvVda~~g~-~~~~~~~l~~~~~~~~p-~ivvlNK~D~~-~ 136 (188)
T PF00009_consen 66 NENNRKITLI-DTPGHEDFI-----KEMIRGLRQADIAILVVDANDGI-QPQTEEHLKILRELGIP-IIVVLNKMDLI-E 136 (188)
T ss_dssp TESSEEEEEE-EESSSHHHH-----HHHHHHHTTSSEEEEEEETTTBS-THHHHHHHHHHHHTT-S-EEEEEETCTSS-H
T ss_pred cccccceeec-cccccccee-----ecccceecccccceeeeeccccc-ccccccccccccccccc-eEEeeeeccch-h
Confidence 4467788888 999999999 77776654 9999996 99999999999999999 99999999999 4
Q ss_pred hhHHHHHHHHH
Q psy13818 193 GQANEQHEQIV 203 (207)
Q Consensus 193 ~~~~~~~~eI~ 203 (207)
.+.++..++++
T Consensus 137 ~~~~~~~~~~~ 147 (188)
T PF00009_consen 137 KELEEIIEEIK 147 (188)
T ss_dssp HHHHHHHHHHH
T ss_pred hhHHHHHHHHH
Confidence 45566667766
No 29
>PRK12735 elongation factor Tu; Reviewed
Probab=99.16 E-value=6.3e-11 Score=108.69 Aligned_cols=77 Identities=17% Similarity=0.279 Sum_probs=63.0
Q ss_pred CCcEEEEEEeecCcceeecccccccccccee--------eecCCCCCCCchHHHHHHHHHcCCCeEEEEEecCCCCChhh
Q psy13818 123 VNEKIALSRRVEKHWSLIEGTVTTKVLSTRK--------RTGNESCPQPQTSEHLAAIEIMKLKHIIILQNKIDLVKEGQ 194 (207)
Q Consensus 123 ~G~kiaIsR~V~gh~rligg~~~~nMiaGa~--------V~A~eg~~~pQT~EHl~il~~lGI~~iIV~vNK~DlV~~~~ 194 (207)
.+.++.++ +.|||.+|+ +||++|+. |||.+|. ++||+||+.++..+|++++||++||||+++.++
T Consensus 73 ~~~~i~~i-DtPGh~~f~-----~~~~~~~~~aD~~llVvda~~g~-~~qt~e~l~~~~~~gi~~iivvvNK~Dl~~~~~ 145 (396)
T PRK12735 73 ANRHYAHV-DCPGHADYV-----KNMITGAAQMDGAILVVSAADGP-MPQTREHILLARQVGVPYIVVFLNKCDMVDDEE 145 (396)
T ss_pred CCcEEEEE-ECCCHHHHH-----HHHHhhhccCCEEEEEEECCCCC-chhHHHHHHHHHHcCCCeEEEEEEecCCcchHH
Confidence 35567777 999999999 99998875 8899996 999999999999999999999999999996433
Q ss_pred -HHHHHHHHHhhh
Q psy13818 195 -ANEQHEQIVKFV 206 (207)
Q Consensus 195 -~~~~~~eI~~~l 206 (207)
.+...+++++++
T Consensus 146 ~~~~~~~ei~~~l 158 (396)
T PRK12735 146 LLELVEMEVRELL 158 (396)
T ss_pred HHHHHHHHHHHHH
Confidence 333344666654
No 30
>cd01884 EF_Tu EF-Tu subfamily. This subfamily includes orthologs of translation elongation factor EF-Tu in bacteria, mitochondria, and chloroplasts. It is one of several GTP-binding translation factors found in the larger family of GTP-binding elongation factors. The eukaryotic counterpart, eukaryotic translation elongation factor 1 (eEF-1 alpha), is excluded from this family. 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=99.14 E-value=6.3e-11 Score=99.36 Aligned_cols=77 Identities=19% Similarity=0.293 Sum_probs=62.5
Q ss_pred CCcEEEEEEeecCcceeecccccccccccee--------eecCCCCCCCchHHHHHHHHHcCCCeEEEEEecCCCCChhh
Q psy13818 123 VNEKIALSRRVEKHWSLIEGTVTTKVLSTRK--------RTGNESCPQPQTSEHLAAIEIMKLKHIIILQNKIDLVKEGQ 194 (207)
Q Consensus 123 ~G~kiaIsR~V~gh~rligg~~~~nMiaGa~--------V~A~eg~~~pQT~EHl~il~~lGI~~iIV~vNK~DlV~~~~ 194 (207)
.+.++.++ +.|||.+|+ ++|..++. |||.+|. ++||+||+.++..+|++++|+|+||||+++.++
T Consensus 63 ~~~~i~~i-DtPG~~~~~-----~~~~~~~~~~D~~ilVvda~~g~-~~~~~~~~~~~~~~~~~~iIvviNK~D~~~~~~ 135 (195)
T cd01884 63 ANRHYAHV-DCPGHADYI-----KNMITGAAQMDGAILVVSATDGP-MPQTREHLLLARQVGVPYIVVFLNKADMVDDEE 135 (195)
T ss_pred CCeEEEEE-ECcCHHHHH-----HHHHHHhhhCCEEEEEEECCCCC-cHHHHHHHHHHHHcCCCcEEEEEeCCCCCCcHH
Confidence 46677777 999999999 66666544 8899996 999999999999999999999999999986443
Q ss_pred -HHHHHHHHHhhh
Q psy13818 195 -ANEQHEQIVKFV 206 (207)
Q Consensus 195 -~~~~~~eI~~~l 206 (207)
.+...++++++|
T Consensus 136 ~~~~~~~~i~~~l 148 (195)
T cd01884 136 LLELVEMEVRELL 148 (195)
T ss_pred HHHHHHHHHHHHH
Confidence 333556777765
No 31
>PRK05506 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional
Probab=99.11 E-value=1.2e-10 Score=112.74 Aligned_cols=85 Identities=18% Similarity=0.252 Sum_probs=67.5
Q ss_pred ceEEEEeeCcccccCCcEEEEEEeecCcceeecccccccccccee--------eecCCCCCCCchHHHHHHHHHcCCCeE
Q psy13818 109 DLAKISLTNPVCTEVNEKIALSRRVEKHWSLIEGTVTTKVLSTRK--------RTGNESCPQPQTSEHLAAIEIMKLKHI 180 (207)
Q Consensus 109 Dla~i~L~~Pvc~~~G~kiaIsR~V~gh~rligg~~~~nMiaGa~--------V~A~eg~~~pQT~EHl~il~~lGI~~i 180 (207)
|.++.++.. .+.++.|+ +.|||.+|+ +||+.|+. |||++|. ++||+||+.+++.+|++++
T Consensus 93 d~~~~~~~~-----~~~~~~li-DtPG~~~f~-----~~~~~~~~~aD~~llVvda~~g~-~~~t~e~~~~~~~~~~~~i 160 (632)
T PRK05506 93 DVAYRYFAT-----PKRKFIVA-DTPGHEQYT-----RNMVTGASTADLAIILVDARKGV-LTQTRRHSFIASLLGIRHV 160 (632)
T ss_pred eeeeeEEcc-----CCceEEEE-ECCChHHHH-----HHHHHHHHhCCEEEEEEECCCCc-cccCHHHHHHHHHhCCCeE
Confidence 555555554 35677776 999999999 99998865 8999996 9999999999999999999
Q ss_pred EEEEecCCCCChh--hHHHHHHHHHhh
Q psy13818 181 IILQNKIDLVKEG--QANEQHEQIVKF 205 (207)
Q Consensus 181 IV~vNK~DlV~~~--~~~~~~~eI~~~ 205 (207)
||++||||+++++ +.++..+++++|
T Consensus 161 ivvvNK~D~~~~~~~~~~~i~~~i~~~ 187 (632)
T PRK05506 161 VLAVNKMDLVDYDQEVFDEIVADYRAF 187 (632)
T ss_pred EEEEEecccccchhHHHHHHHHHHHHH
Confidence 9999999999643 334444555544
No 32
>KOG0459|consensus
Probab=99.10 E-value=1.6e-10 Score=109.25 Aligned_cols=85 Identities=21% Similarity=0.280 Sum_probs=67.3
Q ss_pred eEEEEeeCcccccCCcEEEEEEeecCcceeecccccccccccee--------eecC----CCC--CCCchHHHHHHHHHc
Q psy13818 110 LAKISLTNPVCTEVNEKIALSRRVEKHWSLIEGTVTTKVLSTRK--------RTGN----ESC--PQPQTSEHLAAIEIM 175 (207)
Q Consensus 110 la~i~L~~Pvc~~~G~kiaIsR~V~gh~rligg~~~~nMiaGa~--------V~A~----eg~--~~pQT~EHl~il~~l 175 (207)
.+++|+..+ -.+..|. +.|||-.|+ +|||.||+ ++|. |+. .-.|||||..+++.+
T Consensus 147 vGrA~FEte-----~~~ftiL-DApGHk~fv-----~nmI~GasqAD~~vLvisar~gefetgFerGgQTREha~Lakt~ 215 (501)
T KOG0459|consen 147 VGRAYFETE-----NKRFTIL-DAPGHKSFV-----PNMIGGASQADLAVLVISARKGEFETGFEKGGQTREHAMLAKTA 215 (501)
T ss_pred eeeEEEEec-----ceeEEee-ccCcccccc-----hhhccccchhhhhhhhhhhhhchhhcccccccchhHHHHHHHhh
Confidence 445566554 3466666 889999999 99999998 4553 221 136999999999999
Q ss_pred CCCeEEEEEecCCCCChhhHHHHHHHHHhh
Q psy13818 176 KLKHIIILQNKIDLVKEGQANEQHEQIVKF 205 (207)
Q Consensus 176 GI~~iIV~vNK~DlV~~~~~~~~~~eI~~~ 205 (207)
|++|+||++||||-...+|..++|+|+++-
T Consensus 216 gv~~lVv~vNKMddPtvnWs~eRy~E~~~k 245 (501)
T KOG0459|consen 216 GVKHLIVLINKMDDPTVNWSNERYEECKEK 245 (501)
T ss_pred ccceEEEEEEeccCCccCcchhhHHHHHHH
Confidence 999999999999987777778888887753
No 33
>cd01888 eIF2_gamma eIF2-gamma (gamma subunit of initiation factor 2). eIF2 is a heterotrimeric translation initiation factor that consists of alpha, beta, and gamma subunits. The GTP-bound gamma subunit also binds initiator methionyl-tRNA and delivers it to the 40S ribosomal subunit. Following hydrolysis of GTP to GDP, eIF2:GDP is released from the ribosome. The gamma subunit has no intrinsic GTPase activity, but is stimulated by the GTPase activating protein (GAP) eIF5, and GDP/GTP exchange is stimulated by the guanine nucleotide exchange factor (GEF) eIF2B. eIF2B is a heteropentamer, and the epsilon chain binds eIF2. Both eIF5 and eIF2B-epsilon are known to bind strongly to eIF2-beta, but have also been shown to bind directly to eIF2-gamma. It is possible that eIF2-beta serves simply as a high-affinity docking site for eIF5 and eIF2B-epsilon, or that eIF2-beta serves a regulatory role. eIF2-gamma is found only in eukaryotes and archaea. It is closely related to SelB, the sel
Probab=99.09 E-value=1.8e-10 Score=95.63 Aligned_cols=76 Identities=59% Similarity=0.779 Sum_probs=63.6
Q ss_pred cEEEEEEeecCcceeecccccccccccee--------eecCCCCCCCchHHHHHHHHHcCCCeEEEEEecCCCCChhhHH
Q psy13818 125 EKIALSRRVEKHWSLIEGTVTTKVLSTRK--------RTGNESCPQPQTSEHLAAIEIMKLKHIIILQNKIDLVKEGQAN 196 (207)
Q Consensus 125 ~kiaIsR~V~gh~rligg~~~~nMiaGa~--------V~A~eg~~~pQT~EHl~il~~lGI~~iIV~vNK~DlV~~~~~~ 196 (207)
.++.|. +.|||++|+ ++|+.++. +|+.++.+++||.+|+..+...+++++||++||+|+++.++.+
T Consensus 83 ~~i~~i-DtPG~~~~~-----~~~~~~~~~~D~~llVvd~~~~~~~~~t~~~l~~~~~~~~~~iiivvNK~Dl~~~~~~~ 156 (203)
T cd01888 83 RHVSFV-DCPGHEILM-----ATMLSGAAVMDGALLLIAANEPCPQPQTSEHLAALEIMGLKHIIIVQNKIDLVKEEQAL 156 (203)
T ss_pred cEEEEE-ECCChHHHH-----HHHHHhhhcCCEEEEEEECCCCCCCcchHHHHHHHHHcCCCcEEEEEEchhccCHHHHH
Confidence 678887 999999999 77776653 8888865689999999999999999999999999999876666
Q ss_pred HHHHHHHhhh
Q psy13818 197 EQHEQIVKFV 206 (207)
Q Consensus 197 ~~~~eI~~~l 206 (207)
+.++++++++
T Consensus 157 ~~~~~i~~~~ 166 (203)
T cd01888 157 ENYEQIKKFV 166 (203)
T ss_pred HHHHHHHHHH
Confidence 6667776654
No 34
>PRK00049 elongation factor Tu; Reviewed
Probab=99.08 E-value=2.7e-10 Score=104.73 Aligned_cols=77 Identities=16% Similarity=0.258 Sum_probs=63.2
Q ss_pred CCcEEEEEEeecCcceeecccccccccccee--------eecCCCCCCCchHHHHHHHHHcCCCeEEEEEecCCCCChhh
Q psy13818 123 VNEKIALSRRVEKHWSLIEGTVTTKVLSTRK--------RTGNESCPQPQTSEHLAAIEIMKLKHIIILQNKIDLVKEGQ 194 (207)
Q Consensus 123 ~G~kiaIsR~V~gh~rligg~~~~nMiaGa~--------V~A~eg~~~pQT~EHl~il~~lGI~~iIV~vNK~DlV~~~~ 194 (207)
.+.++.++ +.|||.+|+ +||.+|+. |||.+|. ++||+||+.++..+|++++||++||||+++.++
T Consensus 73 ~~~~i~~i-DtPG~~~f~-----~~~~~~~~~aD~~llVVDa~~g~-~~qt~~~~~~~~~~g~p~iiVvvNK~D~~~~~~ 145 (396)
T PRK00049 73 EKRHYAHV-DCPGHADYV-----KNMITGAAQMDGAILVVSAADGP-MPQTREHILLARQVGVPYIVVFLNKCDMVDDEE 145 (396)
T ss_pred CCeEEEEE-ECCCHHHHH-----HHHHhhhccCCEEEEEEECCCCC-chHHHHHHHHHHHcCCCEEEEEEeecCCcchHH
Confidence 45577777 999999999 88888766 8999996 999999999999999999999999999996433
Q ss_pred -HHHHHHHHHhhh
Q psy13818 195 -ANEQHEQIVKFV 206 (207)
Q Consensus 195 -~~~~~~eI~~~l 206 (207)
.+...+++++++
T Consensus 146 ~~~~~~~~i~~~l 158 (396)
T PRK00049 146 LLELVEMEVRELL 158 (396)
T ss_pred HHHHHHHHHHHHH
Confidence 333445676665
No 35
>PRK04000 translation initiation factor IF-2 subunit gamma; Validated
Probab=99.07 E-value=1.4e-10 Score=107.35 Aligned_cols=76 Identities=45% Similarity=0.700 Sum_probs=65.7
Q ss_pred cEEEEEEeecCcceeecccccccccccee--------eecCCCCCCCchHHHHHHHHHcCCCeEEEEEecCCCCChhhHH
Q psy13818 125 EKIALSRRVEKHWSLIEGTVTTKVLSTRK--------RTGNESCPQPQTSEHLAAIEIMKLKHIIILQNKIDLVKEGQAN 196 (207)
Q Consensus 125 ~kiaIsR~V~gh~rligg~~~~nMiaGa~--------V~A~eg~~~pQT~EHl~il~~lGI~~iIV~vNK~DlV~~~~~~ 196 (207)
.++.|. +.|||.+|+ +||+.|+. +|+.++.+++||.+|+.+++.++++++|||+||+|++++++..
T Consensus 85 ~~i~li-DtPG~~~f~-----~~~~~~~~~~D~~llVVDa~~~~~~~~t~~~l~~l~~~~i~~iiVVlNK~Dl~~~~~~~ 158 (411)
T PRK04000 85 RRVSFV-DAPGHETLM-----ATMLSGAALMDGAILVIAANEPCPQPQTKEHLMALDIIGIKNIVIVQNKIDLVSKERAL 158 (411)
T ss_pred cEEEEE-ECCCHHHHH-----HHHHHHHhhCCEEEEEEECCCCCCChhHHHHHHHHHHcCCCcEEEEEEeeccccchhHH
Confidence 467776 999999999 88888864 8999986689999999999999999999999999999877766
Q ss_pred HHHHHHHhhh
Q psy13818 197 EQHEQIVKFV 206 (207)
Q Consensus 197 ~~~~eI~~~l 206 (207)
+.++++++++
T Consensus 159 ~~~~~i~~~l 168 (411)
T PRK04000 159 ENYEQIKEFV 168 (411)
T ss_pred HHHHHHHHHh
Confidence 6777887765
No 36
>cd04165 GTPBP1_like GTPBP1-like. Mammalian GTP binding protein 1 (GTPBP1), GTPBP2, and nematode homologs AGP-1 and CGP-1 are GTPases whose specific functions remain unknown. In mouse, GTPBP1 is expressed in macrophages, in smooth muscle cells of various tissues and in some neurons of the cerebral cortex; GTPBP2 tissue distribution appears to overlap that of GTPBP1. In human leukemia and macrophage cell lines, expression of both GTPBP1 and GTPBP2 is enhanced by interferon-gamma (IFN-gamma). The chromosomal location of both genes has been identified in humans, with GTPBP1 located in chromosome 22q12-13.1 and GTPBP2 located in chromosome 6p21-12. Human glioblastoma multiforme (GBM), a highly-malignant astrocytic glioma and the most common cancer in the central nervous system, has been linked to chromosomal deletions and a translocation on chromosome 6. The GBM translocation results in a fusion of GTPBP2 and PTPRZ1, a protein involved in oligodendrocyte differentiation, recovery, and
Probab=99.06 E-value=2.9e-10 Score=97.37 Aligned_cols=82 Identities=16% Similarity=0.282 Sum_probs=70.0
Q ss_pred cccccCCcEEEEEEeecCcceeecccccccccccee----------eecCCCCCCCchHHHHHHHHHcCCCeEEEEEecC
Q psy13818 118 PVCTEVNEKIALSRRVEKHWSLIEGTVTTKVLSTRK----------RTGNESCPQPQTSEHLAAIEIMKLKHIIILQNKI 187 (207)
Q Consensus 118 Pvc~~~G~kiaIsR~V~gh~rligg~~~~nMiaGa~----------V~A~eg~~~pQT~EHl~il~~lGI~~iIV~vNK~ 187 (207)
.+|...+..+.++ +.|||++|+ ++|+.|+. ||+++|. ++||++|+..+..+|++ +|||+||+
T Consensus 77 ~~~~~~~~~i~li-DtpG~~~~~-----~~~~~~~~~~~~D~~llVvda~~g~-~~~d~~~l~~l~~~~ip-~ivvvNK~ 148 (224)
T cd04165 77 EICEKSSKLVTFI-DLAGHERYL-----KTTLFGLTGYAPDYAMLVVAANAGI-IGMTKEHLGLALALNIP-VFVVVTKI 148 (224)
T ss_pred eeeeeCCcEEEEE-ECCCcHHHH-----HHHHHhhcccCCCEEEEEEECCCCC-cHHHHHHHHHHHHcCCC-EEEEEECc
Confidence 5566677788887 999999999 77777642 8899996 99999999999999998 78999999
Q ss_pred CCCChhhHHHHHHHHHhhhC
Q psy13818 188 DLVKEGQANEQHEQIVKFVQ 207 (207)
Q Consensus 188 DlV~~~~~~~~~~eI~~~l~ 207 (207)
|+++.++..+..++++++++
T Consensus 149 D~~~~~~~~~~~~~l~~~L~ 168 (224)
T cd04165 149 DLAPANILQETLKDLKRILK 168 (224)
T ss_pred cccCHHHHHHHHHHHHHHhc
Confidence 99988878888888887763
No 37
>PRK12317 elongation factor 1-alpha; Reviewed
Probab=98.98 E-value=1.8e-09 Score=99.34 Aligned_cols=86 Identities=20% Similarity=0.350 Sum_probs=66.9
Q ss_pred ceEEEEeeCcccccCCcEEEEEEeecCcceeecccccccccccee--------eecCC--CCCCCchHHHHHHHHHcCCC
Q psy13818 109 DLAKISLTNPVCTEVNEKIALSRRVEKHWSLIEGTVTTKVLSTRK--------RTGNE--SCPQPQTSEHLAAIEIMKLK 178 (207)
Q Consensus 109 Dla~i~L~~Pvc~~~G~kiaIsR~V~gh~rligg~~~~nMiaGa~--------V~A~e--g~~~pQT~EHl~il~~lGI~ 178 (207)
|..+.++.. .+.++.+. +.|||.+|. +||++++. ||+++ +. ++||+||+.+++.+|++
T Consensus 73 d~~~~~~~~-----~~~~i~li-DtpG~~~~~-----~~~~~~~~~aD~~ilVvDa~~~~~~-~~~~~~~~~~~~~~~~~ 140 (425)
T PRK12317 73 DLAHKKFET-----DKYYFTIV-DCPGHRDFV-----KNMITGASQADAAVLVVAADDAGGV-MPQTREHVFLARTLGIN 140 (425)
T ss_pred eeeeEEEec-----CCeEEEEE-ECCCcccch-----hhHhhchhcCCEEEEEEEcccCCCC-CcchHHHHHHHHHcCCC
Confidence 555555544 35678887 999999999 88887754 88988 85 99999999999999999
Q ss_pred eEEEEEecCCCCChh--hHHHHHHHHHhhh
Q psy13818 179 HIIILQNKIDLVKEG--QANEQHEQIVKFV 206 (207)
Q Consensus 179 ~iIV~vNK~DlV~~~--~~~~~~~eI~~~l 206 (207)
++||++||+|+++++ ..++..+++++++
T Consensus 141 ~iivviNK~Dl~~~~~~~~~~~~~~i~~~l 170 (425)
T PRK12317 141 QLIVAINKMDAVNYDEKRYEEVKEEVSKLL 170 (425)
T ss_pred eEEEEEEccccccccHHHHHHHHHHHHHHH
Confidence 999999999998743 2334445665553
No 38
>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=98.97 E-value=1.5e-09 Score=100.06 Aligned_cols=76 Identities=17% Similarity=0.322 Sum_probs=61.1
Q ss_pred CcEEEEEEeecCcceeecccccccccccee--------eecCCC---CCCCchHHHHHHHHHcCCCeEEEEEecCCCCCh
Q psy13818 124 NEKIALSRRVEKHWSLIEGTVTTKVLSTRK--------RTGNES---CPQPQTSEHLAAIEIMKLKHIIILQNKIDLVKE 192 (207)
Q Consensus 124 G~kiaIsR~V~gh~rligg~~~~nMiaGa~--------V~A~eg---~~~pQT~EHl~il~~lGI~~iIV~vNK~DlV~~ 192 (207)
+.++.|. +.+||.+|+ +||+.|+. ||++++ . ++||+||+.+++.++++++||++||+|++++
T Consensus 84 ~~~i~ii-DtpGh~~f~-----~~~~~~~~~aD~~ilVvDa~~~~~~~-~~~t~~~~~~~~~~~~~~iIVviNK~Dl~~~ 156 (426)
T TIGR00483 84 KYEVTIV-DCPGHRDFI-----KNMITGASQADAAVLVVAVGDGEFEV-QPQTREHAFLARTLGINQLIVAINKMDSVNY 156 (426)
T ss_pred CeEEEEE-ECCCHHHHH-----HHHHhhhhhCCEEEEEEECCCCCccc-CCchHHHHHHHHHcCCCeEEEEEEChhccCc
Confidence 4567776 999999999 88887644 889888 5 8999999999999999999999999999863
Q ss_pred --hhHHHHHHHHHhhh
Q psy13818 193 --GQANEQHEQIVKFV 206 (207)
Q Consensus 193 --~~~~~~~~eI~~~l 206 (207)
++.++..+++++++
T Consensus 157 ~~~~~~~~~~ei~~~~ 172 (426)
T TIGR00483 157 DEEEFEAIKKEVSNLI 172 (426)
T ss_pred cHHHHHHHHHHHHHHH
Confidence 33444455666554
No 39
>cd01883 EF1_alpha Eukaryotic elongation factor 1 (EF1) alpha subfamily. EF1 is responsible for the GTP-dependent binding of aminoacyl-tRNAs to the ribosomes. EF1 is composed of four subunits: the alpha chain which binds GTP and aminoacyl-tRNAs, the gamma chain that probably plays a role in anchoring the complex to other cellular components and the beta and delta (or beta') chains. This subfamily is the alpha subunit, and represents the counterpart of bacterial EF-Tu for the archaea (aEF1-alpha) and eukaryotes (eEF1-alpha). eEF1-alpha interacts with the actin of the eukaryotic cytoskeleton and may thereby play a role in cellular transformation and apoptosis. EF-Tu can have no such role in bacteria. In humans, the isoform eEF1A2 is overexpressed in 2/3 of breast cancers and has been identified as a putative oncogene. This subfamily also includes Hbs1, a G protein known to be important for efficient growth and protein synthesis under conditions of limiting translation initiation in
Probab=98.78 E-value=1.5e-08 Score=85.21 Aligned_cols=63 Identities=17% Similarity=0.254 Sum_probs=52.3
Q ss_pred CCcEEEEEEeecCcceeecccccccccccee--------eecCCC------CCCCchHHHHHHHHHcCCCeEEEEEecCC
Q psy13818 123 VNEKIALSRRVEKHWSLIEGTVTTKVLSTRK--------RTGNES------CPQPQTSEHLAAIEIMKLKHIIILQNKID 188 (207)
Q Consensus 123 ~G~kiaIsR~V~gh~rligg~~~~nMiaGa~--------V~A~eg------~~~pQT~EHl~il~~lGI~~iIV~vNK~D 188 (207)
.+.++.+. +.+||.+|+ ++++.++. ||+.++ ..++||.+|+.++..++++++|||+||||
T Consensus 75 ~~~~i~li-DtpG~~~~~-----~~~~~~~~~~d~~i~VvDa~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiivvNK~D 148 (219)
T cd01883 75 EKYRFTIL-DAPGHRDFV-----PNMITGASQADVAVLVVDARKGEFEAGFEKGGQTREHALLARTLGVKQLIVAVNKMD 148 (219)
T ss_pred CCeEEEEE-ECCChHHHH-----HHHHHHhhhCCEEEEEEECCCCccccccccccchHHHHHHHHHcCCCeEEEEEEccc
Confidence 46688887 999999998 66655532 888873 23899999999999999999999999999
Q ss_pred CCC
Q psy13818 189 LVK 191 (207)
Q Consensus 189 lV~ 191 (207)
++.
T Consensus 149 l~~ 151 (219)
T cd01883 149 DVT 151 (219)
T ss_pred ccc
Confidence 983
No 40
>cd04094 selB_III This family represents the domain of elongation factor SelB, homologous to domain III 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=98.58 E-value=2.6e-07 Score=69.49 Aligned_cols=86 Identities=21% Similarity=0.322 Sum_probs=70.3
Q ss_pred eeeccCCCCCCcceEEEEEeHhhHHHHHhhhccCCcccccccceeeeeeecccccccCCcccceeccCccCceEEEEeec
Q psy13818 17 GQVLGAVGALPKIFIELEISYHLLKRLLGVRMEGDKKGAKLEISYHLLKRLLGVRMEGDKKGAKVQKLTRNEVLLVNIGS 96 (207)
Q Consensus 17 G~v~g~~g~lp~v~~~l~i~~~Ll~r~~~~~~~~~~~~~~~~~~~~~~~~~~Gv~t~~~k~~~Kv~~l~~~E~lmlniGs 96 (207)
|+|++.||++++ +..++.+++++. + . ..+|+.++.+.+.+||
T Consensus 1 G~vl~~~~~~~~-~~~~~~~i~~l~----------------------------------~-~--~~~l~~~~~v~~~~Gt 42 (97)
T cd04094 1 GDVLADPGSLLP-TRRLDVRLTVLL----------------------------------S-A--PRPLKHRQRVHLHHGT 42 (97)
T ss_pred CCEEecCCCcCC-ceEEEEEEEEEC----------------------------------C-C--CccCCCCCeEEEEecc
Confidence 789999999999 589998886441 1 1 2789999999999999
Q ss_pred cccceEEEEEe--------cceEEEEeeCcccccCCcEEEEEEeecCcceeecc
Q psy13818 97 LSTGGRVLATK--------ADLAKISLTNPVCTEVNEKIALSRRVEKHWSLIEG 142 (207)
Q Consensus 97 ~~t~g~V~~~~--------~Dla~i~L~~Pvc~~~G~kiaIsR~V~gh~rligg 142 (207)
+.+.|+|.=.. ...+.+.|..|+++..|+|..| |..+.|+.|||
T Consensus 43 ~~v~~ri~ll~~~~~~pg~~~~a~l~l~~pl~~~~gdrfil--R~~~~~~tigg 94 (97)
T cd04094 43 SEVLARVVLLDRDELAPGEEALAQLRLEEPLVALRGDRFIL--RSYSPLRTLGG 94 (97)
T ss_pred ceEEEEEEeCCccccCCCCEEEEEEEECCcEeecCCCeEEE--eeCCCCeEEEe
Confidence 99999998543 2357777789999999999988 56677999983
No 41
>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=98.58 E-value=8.3e-08 Score=93.46 Aligned_cols=81 Identities=20% Similarity=0.136 Sum_probs=62.9
Q ss_pred cCCcEEEEEEeecCcceeec-ccccccccccee--eecCCCCCCCchHHHHHHHHHcCCCeEEEEEecCCCCChhhHHHH
Q psy13818 122 EVNEKIALSRRVEKHWSLIE-GTVTTKVLSTRK--RTGNESCPQPQTSEHLAAIEIMKLKHIIILQNKIDLVKEGQANEQ 198 (207)
Q Consensus 122 ~~G~kiaIsR~V~gh~rlig-g~~~~nMiaGa~--V~A~eg~~~pQT~EHl~il~~lGI~~iIV~vNK~DlV~~~~~~~~ 198 (207)
+.+.++.|. +.|||.+|.+ ..-.-++.+|+. |||.+|. +|||++|+..+..+|++ .|||+||||+.+.+ ..+.
T Consensus 61 ~~~~kinlI-DTPGh~DF~~ev~~~l~~aD~alLVVDa~~G~-~~qT~~~l~~a~~~~ip-~IVviNKiD~~~a~-~~~v 136 (594)
T TIGR01394 61 YNGTKINIV-DTPGHADFGGEVERVLGMVDGVLLLVDASEGP-MPQTRFVLKKALELGLK-PIVVINKIDRPSAR-PDEV 136 (594)
T ss_pred ECCEEEEEE-ECCCHHHHHHHHHHHHHhCCEEEEEEeCCCCC-cHHHHHHHHHHHHCCCC-EEEEEECCCCCCcC-HHHH
Confidence 356788887 9999999986 322256777877 9999995 99999999999999998 57899999997643 2344
Q ss_pred HHHHHhhh
Q psy13818 199 HEQIVKFV 206 (207)
Q Consensus 199 ~~eI~~~l 206 (207)
.+++.+++
T Consensus 137 ~~ei~~l~ 144 (594)
T TIGR01394 137 VDEVFDLF 144 (594)
T ss_pred HHHHHHHH
Confidence 56665554
No 42
>cd04166 CysN_ATPS CysN_ATPS subfamily. CysN, together with protein CysD, form the ATP sulfurylase (ATPS) complex in some bacteria and lower eukaryotes. ATPS catalyzes the production of ATP sulfurylase (APS) and pyrophosphate (PPi) from ATP and sulfate. CysD, which catalyzes ATP hydrolysis, is a member of the ATP pyrophosphatase (ATP PPase) family. CysN hydrolysis of GTP is required for CysD hydrolysis of ATP; however, CysN hydrolysis of GTP is not dependent on CysD hydrolysis of ATP. CysN is an example of lateral gene transfer followed by acquisition of new function. In many organisms, an ATPS exists which is not GTP-dependent and shares no sequence or structural similarity to CysN.
Probab=98.56 E-value=1.1e-07 Score=79.25 Aligned_cols=63 Identities=17% Similarity=0.305 Sum_probs=53.0
Q ss_pred CCcEEEEEEeecCcceeeccccccccccce------e--eecCCCCCCCchHHHHHHHHHcCCCeEEEEEecCCCCCh
Q psy13818 123 VNEKIALSRRVEKHWSLIEGTVTTKVLSTR------K--RTGNESCPQPQTSEHLAAIEIMKLKHIIILQNKIDLVKE 192 (207)
Q Consensus 123 ~G~kiaIsR~V~gh~rligg~~~~nMiaGa------~--V~A~eg~~~pQT~EHl~il~~lGI~~iIV~vNK~DlV~~ 192 (207)
.+.++.|. +.|||.+|. ++|+.++ . +|+.++. ++|+++|..+++.++++++|+|+||+|+++.
T Consensus 75 ~~~~~~li-DTpG~~~~~-----~~~~~~~~~ad~~llVvD~~~~~-~~~~~~~~~~~~~~~~~~iIvviNK~D~~~~ 145 (208)
T cd04166 75 PKRKFIIA-DTPGHEQYT-----RNMVTGASTADLAILLVDARKGV-LEQTRRHSYILSLLGIRHVVVAVNKMDLVDY 145 (208)
T ss_pred CCceEEEE-ECCcHHHHH-----HHHHHhhhhCCEEEEEEECCCCc-cHhHHHHHHHHHHcCCCcEEEEEEchhcccC
Confidence 46678876 999999998 5555432 2 8999996 9999999999999999999999999999864
No 43
>COG5258 GTPBP1 GTPase [General function prediction only]
Probab=98.53 E-value=2e-07 Score=88.50 Aligned_cols=77 Identities=19% Similarity=0.274 Sum_probs=67.9
Q ss_pred CcEEEEEEeecCcceeecccccccccccee----------eecCCCCCCCchHHHHHHHHHcCCCeEEEEEecCCCCChh
Q psy13818 124 NEKIALSRRVEKHWSLIEGTVTTKVLSTRK----------RTGNESCPQPQTSEHLAAIEIMKLKHIIILQNKIDLVKEG 193 (207)
Q Consensus 124 G~kiaIsR~V~gh~rligg~~~~nMiaGa~----------V~A~eg~~~pQT~EHl~il~~lGI~~iIV~vNK~DlV~~~ 193 (207)
-+|+.-..+..||+++. ++-+-|.. |+|++|. +-.|+||+-|+-.|+++ +||++||+|+++++
T Consensus 199 aDklVsfVDtvGHEpwL-----rTtirGL~gqk~dYglLvVaAddG~-~~~tkEHLgi~~a~~lP-viVvvTK~D~~~dd 271 (527)
T COG5258 199 ADKLVSFVDTVGHEPWL-----RTTIRGLLGQKVDYGLLVVAADDGV-TKMTKEHLGIALAMELP-VIVVVTKIDMVPDD 271 (527)
T ss_pred cccEEEEEecCCccHHH-----HHHHHHHhccccceEEEEEEccCCc-chhhhHhhhhhhhhcCC-EEEEEEecccCcHH
Confidence 34555556888999999 99888876 8999995 99999999999999998 77889999999999
Q ss_pred hHHHHHHHHHhhhC
Q psy13818 194 QANEQHEQIVKFVQ 207 (207)
Q Consensus 194 ~~~~~~~eI~~~l~ 207 (207)
..+...++|.+.|+
T Consensus 272 r~~~v~~ei~~~Lk 285 (527)
T COG5258 272 RFQGVVEEISALLK 285 (527)
T ss_pred HHHHHHHHHHHHHH
Confidence 99999999998874
No 44
>cd01885 EF2 EF2 (for archaea and eukarya). Translocation requires hydrolysis of a molecule of GTP and is mediated by EF-G in bacteria and by eEF2 in eukaryotes. The eukaryotic elongation factor eEF2 is a GTPase involved in the translocation of the peptidyl-tRNA from the A site to the P site on the ribosome. The 95-kDa protein is highly conserved, with 60% amino acid sequence identity between the human and yeast proteins. Two major mechanisms are known to regulate protein elongation and both involve eEF2. First, eEF2 can be modulated by reversible phosphorylation. Increased levels of phosphorylated eEF2 reduce elongation rates presumably because phosphorylated eEF2 fails to bind the ribosomes. Treatment of mammalian cells with agents that raise the cytoplasmic Ca2+ and cAMP levels reduce elongation rates by activating the kinase responsible for phosphorylating eEF2. In contrast, treatment of cells with insulin increases elongation rates by promoting eEF2 dephosphorylation. Seco
Probab=98.49 E-value=2.8e-07 Score=79.36 Aligned_cols=79 Identities=18% Similarity=0.142 Sum_probs=58.5
Q ss_pred CCcEEEEEEeecCcceeeccccc-ccccccee--eecCCCCCCCchHHHHHHHHHcCCCeEEEEEecCCCC------Chh
Q psy13818 123 VNEKIALSRRVEKHWSLIEGTVT-TKVLSTRK--RTGNESCPQPQTSEHLAAIEIMKLKHIIILQNKIDLV------KEG 193 (207)
Q Consensus 123 ~G~kiaIsR~V~gh~rligg~~~-~nMiaGa~--V~A~eg~~~pQT~EHl~il~~lGI~~iIV~vNK~DlV------~~~ 193 (207)
.+.++.|. +.|||.+|.+-... -...+|+. ||+.+|. ++||++|+..+...+++ +|+|+||||+. +++
T Consensus 71 ~~~~i~ii-DTPG~~~f~~~~~~~l~~aD~~ilVvD~~~g~-~~~t~~~l~~~~~~~~p-~ilviNKiD~~~~e~~~~~~ 147 (222)
T cd01885 71 NEYLINLI-DSPGHVDFSSEVTAALRLCDGALVVVDAVEGV-CVQTETVLRQALKERVK-PVLVINKIDRLILELKLSPE 147 (222)
T ss_pred CceEEEEE-CCCCccccHHHHHHHHHhcCeeEEEEECCCCC-CHHHHHHHHHHHHcCCC-EEEEEECCCcchhhhcCCHH
Confidence 34567776 99999999942222 23334544 9999996 99999999999999985 99999999986 556
Q ss_pred hHHHHHHHHHh
Q psy13818 194 QANEQHEQIVK 204 (207)
Q Consensus 194 ~~~~~~~eI~~ 204 (207)
++..++.+|.+
T Consensus 148 ~~~~~~~~ii~ 158 (222)
T cd01885 148 EAYQRLARIIE 158 (222)
T ss_pred HHHHHHHHHHH
Confidence 66666655544
No 45
>cd04171 SelB SelB subfamily. SelB is an elongation factor needed for the co-translational incorporation of selenocysteine. Selenocysteine is coded by a UGA stop codon in combination with a specific downstream mRNA hairpin. In bacteria, the C-terminal part of SelB recognizes this hairpin, while the N-terminal part binds GTP and tRNA in analogy with elongation factor Tu (EF-Tu). It specifically recognizes the selenocysteine charged tRNAsec, which has a UCA anticodon, in an EF-Tu like manner. This allows insertion of selenocysteine at in-frame UGA stop codons. In E. coli SelB binds GTP, selenocysteyl-tRNAsec, and a stem-loop structure immediately downstream of the UGA codon (the SECIS sequence). The absence of active SelB prevents the participation of selenocysteyl-tRNAsec in translation. Archaeal and animal mechanisms of selenocysteine incorporation are more complex. Although the SECIS elements have different secondary structures and conserved elements between archaea and eukaryo
Probab=98.43 E-value=5.1e-07 Score=69.17 Aligned_cols=75 Identities=27% Similarity=0.400 Sum_probs=55.7
Q ss_pred CcEEEEEEeecCcceeecccccccccc------cee--eecCCCCCCCchHHHHHHHHHcCCCeEEEEEecCCCCChhhH
Q psy13818 124 NEKIALSRRVEKHWSLIEGTVTTKVLS------TRK--RTGNESCPQPQTSEHLAAIEIMKLKHIIILQNKIDLVKEGQA 195 (207)
Q Consensus 124 G~kiaIsR~V~gh~rligg~~~~nMia------Ga~--V~A~eg~~~pQT~EHl~il~~lGI~~iIV~vNK~DlV~~~~~ 195 (207)
+.++.+. +.+|+.+|. .++.. ++. +|++++. .+|+.+++.+++..+.+++|+++||+|+.+.+..
T Consensus 50 ~~~~~~~-DtpG~~~~~-----~~~~~~~~~ad~ii~V~d~~~~~-~~~~~~~~~~~~~~~~~~~ilv~NK~Dl~~~~~~ 122 (164)
T cd04171 50 GKRLGFI-DVPGHEKFI-----KNMLAGAGGIDLVLLVVAADEGI-MPQTREHLEILELLGIKRGLVVLTKADLVDEDWL 122 (164)
T ss_pred CcEEEEE-ECCChHHHH-----HHHHhhhhcCCEEEEEEECCCCc-cHhHHHHHHHHHHhCCCcEEEEEECccccCHHHH
Confidence 4577776 999999887 44333 222 8888885 8999999999999998889999999999876533
Q ss_pred HHHHHHHHhh
Q psy13818 196 NEQHEQIVKF 205 (207)
Q Consensus 196 ~~~~~eI~~~ 205 (207)
....+++.++
T Consensus 123 ~~~~~~~~~~ 132 (164)
T cd04171 123 ELVEEEIREL 132 (164)
T ss_pred HHHHHHHHHH
Confidence 3334444443
No 46
>COG1217 TypA Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]
Probab=98.39 E-value=8.7e-07 Score=85.72 Aligned_cols=69 Identities=25% Similarity=0.261 Sum_probs=58.7
Q ss_pred ccCCcEEEEEEeecCcceeeccccc--ccccccee--eecCCCCCCCchHHHHHHHHHcCCCeEEEEEecCCCCChh
Q psy13818 121 TEVNEKIALSRRVEKHWSLIEGTVT--TKVLSTRK--RTGNESCPQPQTSEHLAAIEIMKLKHIIILQNKIDLVKEG 193 (207)
Q Consensus 121 ~~~G~kiaIsR~V~gh~rligg~~~--~nMiaGa~--V~A~eg~~~pQT~EHl~il~~lGI~~iIV~vNK~DlV~~~ 193 (207)
-|.|.||-|. +-|||.+| ||.+- -.|++|+. |||.|| ||||||=-+.=+=-+|++ -|||+||+|..+..
T Consensus 64 ~~~~~~INIv-DTPGHADF-GGEVERvl~MVDgvlLlVDA~EG-pMPQTrFVlkKAl~~gL~-PIVVvNKiDrp~Ar 136 (603)
T COG1217 64 NYNGTRINIV-DTPGHADF-GGEVERVLSMVDGVLLLVDASEG-PMPQTRFVLKKALALGLK-PIVVINKIDRPDAR 136 (603)
T ss_pred ecCCeEEEEe-cCCCcCCc-cchhhhhhhhcceEEEEEEcccC-CCCchhhhHHHHHHcCCC-cEEEEeCCCCCCCC
Confidence 4578899998 99999998 46666 59999988 999999 599999888888888987 56789999998743
No 47
>KOG0461|consensus
Probab=98.35 E-value=4.6e-07 Score=85.46 Aligned_cols=79 Identities=28% Similarity=0.320 Sum_probs=62.2
Q ss_pred ceEEEEeeCccccc--CCc--EEEEEEeecCcceeecccccccccccee--------eecCCCCCCCchHHHHHHHHHcC
Q psy13818 109 DLAKISLTNPVCTE--VNE--KIALSRRVEKHWSLIEGTVTTKVLSTRK--------RTGNESCPQPQTSEHLAAIEIMK 176 (207)
Q Consensus 109 Dla~i~L~~Pvc~~--~G~--kiaIsR~V~gh~rligg~~~~nMiaGa~--------V~A~eg~~~pQT~EHl~il~~lG 176 (207)
|+++--++.|.-+. .|+ ..+++ +-|||-.|| |++|.||. ||+..|. ||||.|||.|.+++.
T Consensus 50 DLGFS~~~v~~parLpq~e~lq~tlv-DCPGHasLI-----RtiiggaqiiDlm~lviDv~kG~-QtQtAEcLiig~~~c 122 (522)
T KOG0461|consen 50 DLGFSTMTVLSPARLPQGEQLQFTLV-DCPGHASLI-----RTIIGGAQIIDLMILVIDVQKGK-QTQTAECLIIGELLC 122 (522)
T ss_pred eecceeeecccccccCccccceeEEE-eCCCcHHHH-----HHHHhhhheeeeeeEEEehhccc-ccccchhhhhhhhhc
Confidence 78887776652111 333 33776 999999999 99999977 8899997 999999999999886
Q ss_pred CCeEEEEEecCCCCChhhH
Q psy13818 177 LKHIIILQNKIDLVKEGQA 195 (207)
Q Consensus 177 I~~iIV~vNK~DlV~~~~~ 195 (207)
++.||++||+|...+++.
T Consensus 123 -~klvvvinkid~lpE~qr 140 (522)
T KOG0461|consen 123 -KKLVVVINKIDVLPENQR 140 (522)
T ss_pred -cceEEEEeccccccchhh
Confidence 568888999998777543
No 48
>KOG0052|consensus
Probab=98.34 E-value=3.7e-07 Score=85.68 Aligned_cols=68 Identities=21% Similarity=0.243 Sum_probs=57.8
Q ss_pred eecCcceeecccccccccccee--------eecCCCC------CCCchHHHHHHHHHcCCCeEEEEEecCCCCChhhHHH
Q psy13818 132 RVEKHWSLIEGTVTTKVLSTRK--------RTGNESC------PQPQTSEHLAAIEIMKLKHIIILQNKIDLVKEGQANE 197 (207)
Q Consensus 132 ~V~gh~rligg~~~~nMiaGa~--------V~A~eg~------~~pQT~EHl~il~~lGI~~iIV~vNK~DlV~~~~~~~ 197 (207)
+.+||-.|+ +||+.|.+ |+|.-|. .-+||+||++++..||++++|+.+||||-..+...+.
T Consensus 88 d~pgh~d~~-----k~mitg~sqaD~avliva~~~gefEagiskngqt~ehalla~tlgv~qliv~v~k~D~~~~~~s~~ 162 (391)
T KOG0052|consen 88 DAPGHRDFI-----KNMITGTSQADCAVLIVAAGTGEFEAGISKNGQTREHALLAFTLGVKQLIVGVNKMDSTEPPYSEA 162 (391)
T ss_pred cCCCCCcee-----eeEEeeEeeeceeEEEEeeeccceeeeccccchhhhhhhhhccccceeeeEEeecccccCCCcccc
Confidence 788999999 99999977 5552211 3699999999999999999999999999999877788
Q ss_pred HHHHHHh
Q psy13818 198 QHEQIVK 204 (207)
Q Consensus 198 ~~~eI~~ 204 (207)
++.+|.+
T Consensus 163 r~~ei~k 169 (391)
T KOG0052|consen 163 RYEEIKK 169 (391)
T ss_pred chhhhhe
Confidence 8888754
No 49
>PRK05306 infB translation initiation factor IF-2; Validated
Probab=98.30 E-value=9.9e-07 Score=88.82 Aligned_cols=62 Identities=21% Similarity=0.215 Sum_probs=52.5
Q ss_pred CCcEEEEEEeecCcceeecccccccccccee--------eecCCCCCCCchHHHHHHHHHcCCCeEEEEEecCCCCCh
Q psy13818 123 VNEKIALSRRVEKHWSLIEGTVTTKVLSTRK--------RTGNESCPQPQTSEHLAAIEIMKLKHIIILQNKIDLVKE 192 (207)
Q Consensus 123 ~G~kiaIsR~V~gh~rligg~~~~nMiaGa~--------V~A~eg~~~pQT~EHl~il~~lGI~~iIV~vNK~DlV~~ 192 (207)
.|.++.|. +.|||.+|. ..+..|+. ||+++|+ +|||+||+..++..+++ +|||+||||+.+.
T Consensus 335 ~~~~Itfi-DTPGhe~F~-----~m~~rga~~aDiaILVVdAddGv-~~qT~e~i~~a~~~~vP-iIVviNKiDl~~a 404 (787)
T PRK05306 335 NGGKITFL-DTPGHEAFT-----AMRARGAQVTDIVVLVVAADDGV-MPQTIEAINHAKAAGVP-IIVAINKIDKPGA 404 (787)
T ss_pred CCEEEEEE-ECCCCccch-----hHHHhhhhhCCEEEEEEECCCCC-CHhHHHHHHHHHhcCCc-EEEEEECcccccc
Confidence 46788887 999999998 44444432 8899997 99999999999999998 9999999999764
No 50
>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=98.28 E-value=1.9e-06 Score=84.03 Aligned_cols=65 Identities=22% Similarity=0.248 Sum_probs=49.8
Q ss_pred CcEEEEEEeecCcceeec-ccccccccccee--eecCCCCCCCchHHHHHHHHHcCCCeEEEEEecCCCCC
Q psy13818 124 NEKIALSRRVEKHWSLIE-GTVTTKVLSTRK--RTGNESCPQPQTSEHLAAIEIMKLKHIIILQNKIDLVK 191 (207)
Q Consensus 124 G~kiaIsR~V~gh~rlig-g~~~~nMiaGa~--V~A~eg~~~pQT~EHl~il~~lGI~~iIV~vNK~DlV~ 191 (207)
+.++.|. +.|||.+|.. +.-..+..+++. +|+++|. +|||.||+..++..+++ +||++||+|+.+
T Consensus 134 ~~~i~~i-DTPGhe~F~~~r~rga~~aDiaILVVda~dgv-~~qT~e~i~~~~~~~vP-iIVviNKiDl~~ 201 (587)
T TIGR00487 134 GKMITFL-DTPGHEAFTSMRARGAKVTDIVVLVVAADDGV-MPQTIEAISHAKAANVP-IIVAINKIDKPE 201 (587)
T ss_pred CcEEEEE-ECCCCcchhhHHHhhhccCCEEEEEEECCCCC-CHhHHHHHHHHHHcCCC-EEEEEECccccc
Confidence 3378887 9999999982 111112222333 8899996 99999999999999998 999999999965
No 51
>cd01889 SelB_euk SelB subfamily. SelB is an elongation factor needed for the co-translational incorporation of selenocysteine. Selenocysteine is coded by a UGA stop codon in combination with a specific downstream mRNA hairpin. In bacteria, the C-terminal part of SelB recognizes this hairpin, while the N-terminal part binds GTP and tRNA in analogy with elongation factor Tu (EF-Tu). It specifically recognizes the selenocysteine charged tRNAsec, which has a UCA anticodon, in an EF-Tu like manner. This allows insertion of selenocysteine at in-frame UGA stop codons. In E. coli SelB binds GTP, selenocysteyl-tRNAsec and a stem-loop structure immediately downstream of the UGA codon (the SECIS sequence). The absence of active SelB prevents the participation of selenocysteyl-tRNAsec in translation. Archaeal and animal mechanisms of selenocysteine incorporation are more complex. Although the SECIS elements have different secondary structures and conserved elements between archaea and euk
Probab=98.23 E-value=2.1e-06 Score=69.89 Aligned_cols=73 Identities=32% Similarity=0.389 Sum_probs=55.9
Q ss_pred CcEEEEEEeecCcceeeccccccccccce------e--eecCCCCCCCchHHHHHHHHHcCCCeEEEEEecCCCCChhhH
Q psy13818 124 NEKIALSRRVEKHWSLIEGTVTTKVLSTR------K--RTGNESCPQPQTSEHLAAIEIMKLKHIIILQNKIDLVKEGQA 195 (207)
Q Consensus 124 G~kiaIsR~V~gh~rligg~~~~nMiaGa------~--V~A~eg~~~pQT~EHl~il~~lGI~~iIV~vNK~DlV~~~~~ 195 (207)
+.++.+. +.|||-+|+ ++++.++ . +|+.++. .+|+.+++.++..+++ .+++++||+|+++.++.
T Consensus 67 ~~~~~i~-DtpG~~~~~-----~~~~~~~~~~d~vi~VvD~~~~~-~~~~~~~~~~~~~~~~-~~iiv~NK~Dl~~~~~~ 138 (192)
T cd01889 67 NLQITLV-DCPGHASLI-----RTIIGGAQIIDLMLLVVDATKGI-QTQTAECLVIGEILCK-KLIVVLNKIDLIPEEER 138 (192)
T ss_pred CceEEEE-ECCCcHHHH-----HHHHHHHhhCCEEEEEEECCCCc-cHHHHHHHHHHHHcCC-CEEEEEECcccCCHHHH
Confidence 5577776 999998887 5555443 3 8888885 8999999999988887 78899999999976655
Q ss_pred HHHHHHHHh
Q psy13818 196 NEQHEQIVK 204 (207)
Q Consensus 196 ~~~~~eI~~ 204 (207)
+...+++++
T Consensus 139 ~~~~~~~~~ 147 (192)
T cd01889 139 ERKIEKMKK 147 (192)
T ss_pred HHHHHHHHH
Confidence 555555544
No 52
>cd01886 EF-G Elongation factor G (EF-G) subfamily. Translocation is mediated by EF-G (also called translocase). The structure of EF-G closely resembles that of the complex between EF-Tu and tRNA. This is an example of molecular mimicry; a protein domain evolved so that it mimics the shape of a tRNA molecule. EF-G in the GTP form binds to the ribosome, primarily through the interaction of its EF-Tu-like domain with the 50S subunit. The binding of EF-G to the ribosome in this manner stimulates the GTPase activity of EF-G. On GTP hydrolysis, EF-G undergoes a conformational change that forces its arm deeper into the A site on the 30S subunit. To accommodate this domain, the peptidyl-tRNA in the A site moves to the P site, carrying the mRNA and the deacylated tRNA with it. The ribosome may be prepared for these rearrangements by the initial binding of EF-G as well. The dissociation of EF-G leaves the ribosome ready to accept the next aminoacyl-tRNA into the A site. This group conta
Probab=98.22 E-value=2.1e-06 Score=75.79 Aligned_cols=81 Identities=17% Similarity=0.123 Sum_probs=59.1
Q ss_pred cCCcEEEEEEeecCcceeec-ccccccccccee--eecCCCCCCCchHHHHHHHHHcCCCeEEEEEecCCCCChhhHHHH
Q psy13818 122 EVNEKIALSRRVEKHWSLIE-GTVTTKVLSTRK--RTGNESCPQPQTSEHLAAIEIMKLKHIIILQNKIDLVKEGQANEQ 198 (207)
Q Consensus 122 ~~G~kiaIsR~V~gh~rlig-g~~~~nMiaGa~--V~A~eg~~~pQT~EHl~il~~lGI~~iIV~vNK~DlV~~~~~~~~ 198 (207)
+.+.++.++ +.|||-+|.+ +.-.-..++++. |||.+|. ++||.+++..+...|++. |+++||+|+.+.+ .++.
T Consensus 61 ~~~~~i~li-DTPG~~df~~~~~~~l~~aD~ailVVDa~~g~-~~~t~~~~~~~~~~~~p~-ivviNK~D~~~a~-~~~~ 136 (270)
T cd01886 61 WKDHRINII-DTPGHVDFTIEVERSLRVLDGAVAVFDAVAGV-EPQTETVWRQADRYNVPR-IAFVNKMDRTGAD-FFRV 136 (270)
T ss_pred ECCEEEEEE-ECCCcHHHHHHHHHHHHHcCEEEEEEECCCCC-CHHHHHHHHHHHHcCCCE-EEEEECCCCCCCC-HHHH
Confidence 346688877 9999999985 222222334444 8999997 999999999999999987 5789999998643 2345
Q ss_pred HHHHHhhh
Q psy13818 199 HEQIVKFV 206 (207)
Q Consensus 199 ~~eI~~~l 206 (207)
.+++++.+
T Consensus 137 ~~~l~~~l 144 (270)
T cd01886 137 VEQIREKL 144 (270)
T ss_pred HHHHHHHh
Confidence 56666654
No 53
>PRK00007 elongation factor G; Reviewed
Probab=98.21 E-value=1.9e-06 Score=84.83 Aligned_cols=80 Identities=18% Similarity=0.156 Sum_probs=60.7
Q ss_pred CCcEEEEEEeecCcceeeccccc-ccccccee--eecCCCCCCCchHHHHHHHHHcCCCeEEEEEecCCCCChhhHHHHH
Q psy13818 123 VNEKIALSRRVEKHWSLIEGTVT-TKVLSTRK--RTGNESCPQPQTSEHLAAIEIMKLKHIIILQNKIDLVKEGQANEQH 199 (207)
Q Consensus 123 ~G~kiaIsR~V~gh~rligg~~~-~nMiaGa~--V~A~eg~~~pQT~EHl~il~~lGI~~iIV~vNK~DlV~~~~~~~~~ 199 (207)
.+.++.++ +.|||-+|.+-... -..++++. |||.+|+ ++||++|+..+..+|++. ||++||||+++.+ ..+..
T Consensus 73 ~~~~~~li-DTPG~~~f~~ev~~al~~~D~~vlVvda~~g~-~~qt~~~~~~~~~~~~p~-iv~vNK~D~~~~~-~~~~~ 148 (693)
T PRK00007 73 KDHRINII-DTPGHVDFTIEVERSLRVLDGAVAVFDAVGGV-EPQSETVWRQADKYKVPR-IAFVNKMDRTGAD-FYRVV 148 (693)
T ss_pred CCeEEEEE-eCCCcHHHHHHHHHHHHHcCEEEEEEECCCCc-chhhHHHHHHHHHcCCCE-EEEEECCCCCCCC-HHHHH
Confidence 47788887 99999999841111 22334444 9999996 999999999999999986 5899999999765 44566
Q ss_pred HHHHhhh
Q psy13818 200 EQIVKFV 206 (207)
Q Consensus 200 ~eI~~~l 206 (207)
++|++.+
T Consensus 149 ~~i~~~l 155 (693)
T PRK00007 149 EQIKDRL 155 (693)
T ss_pred HHHHHHh
Confidence 7776654
No 54
>PRK10218 GTP-binding protein; Provisional
Probab=98.21 E-value=3.6e-06 Score=82.52 Aligned_cols=81 Identities=15% Similarity=0.061 Sum_probs=61.7
Q ss_pred cCCcEEEEEEeecCcceeec-ccccccccccee--eecCCCCCCCchHHHHHHHHHcCCCeEEEEEecCCCCChhhHHHH
Q psy13818 122 EVNEKIALSRRVEKHWSLIE-GTVTTKVLSTRK--RTGNESCPQPQTSEHLAAIEIMKLKHIIILQNKIDLVKEGQANEQ 198 (207)
Q Consensus 122 ~~G~kiaIsR~V~gh~rlig-g~~~~nMiaGa~--V~A~eg~~~pQT~EHl~il~~lGI~~iIV~vNK~DlV~~~~~~~~ 198 (207)
+.+.++.+. +.|||.+|.+ +.-.-.+.+|+. ||+.+|. ++||++|+..+..+|++. ||++||||+.+.+ ..+.
T Consensus 65 ~~~~~inli-DTPG~~df~~~v~~~l~~aDg~ILVVDa~~G~-~~qt~~~l~~a~~~gip~-IVviNKiD~~~a~-~~~v 140 (607)
T PRK10218 65 WNDYRINIV-DTPGHADFGGEVERVMSMVDSVLLVVDAFDGP-MPQTRFVTKKAFAYGLKP-IVVINKVDRPGAR-PDWV 140 (607)
T ss_pred cCCEEEEEE-ECCCcchhHHHHHHHHHhCCEEEEEEecccCc-cHHHHHHHHHHHHcCCCE-EEEEECcCCCCCc-hhHH
Confidence 356678887 9999999997 433345567766 8999996 999999999999999986 6789999997533 2344
Q ss_pred HHHHHhhh
Q psy13818 199 HEQIVKFV 206 (207)
Q Consensus 199 ~~eI~~~l 206 (207)
.+++.+++
T Consensus 141 l~ei~~l~ 148 (607)
T PRK10218 141 VDQVFDLF 148 (607)
T ss_pred HHHHHHHH
Confidence 55666554
No 55
>COG0532 InfB Translation initiation factor 2 (IF-2; GTPase) [Translation, ribosomal structure and biogenesis]
Probab=98.10 E-value=4.7e-06 Score=80.59 Aligned_cols=61 Identities=18% Similarity=0.223 Sum_probs=52.6
Q ss_pred CcEEEEEEeecCcceeeccccccccccc-ee--------eecCCCCCCCchHHHHHHHHHcCCCeEEEEEecCCCCChh
Q psy13818 124 NEKIALSRRVEKHWSLIEGTVTTKVLST-RK--------RTGNESCPQPQTSEHLAAIEIMKLKHIIILQNKIDLVKEG 193 (207)
Q Consensus 124 G~kiaIsR~V~gh~rligg~~~~nMiaG-a~--------V~A~eg~~~pQT~EHl~il~~lGI~~iIV~vNK~DlV~~~ 193 (207)
...+.++ +-|||+-|. ||=+. +. ||+++|+ ||||.|-+..++..|++ +||++||||..+.+
T Consensus 54 ~~~itFi-DTPGHeAFt------~mRaRGa~vtDIaILVVa~dDGv-~pQTiEAI~hak~a~vP-~iVAiNKiDk~~~n 123 (509)
T COG0532 54 IPGITFI-DTPGHEAFT------AMRARGASVTDIAILVVAADDGV-MPQTIEAINHAKAAGVP-IVVAINKIDKPEAN 123 (509)
T ss_pred CceEEEE-cCCcHHHHH------HHHhcCCccccEEEEEEEccCCc-chhHHHHHHHHHHCCCC-EEEEEecccCCCCC
Confidence 3478888 999999997 66553 33 9999998 99999999999999998 99999999998755
No 56
>PLN00116 translation elongation factor EF-2 subunit; Provisional
Probab=98.07 E-value=5.1e-06 Score=83.71 Aligned_cols=60 Identities=18% Similarity=0.111 Sum_probs=51.1
Q ss_pred CCcEEEEEEeecCcceeecccccccccccee--------eecCCCCCCCchHHHHHHHHHcCCCeEEEEEecCCCC
Q psy13818 123 VNEKIALSRRVEKHWSLIEGTVTTKVLSTRK--------RTGNESCPQPQTSEHLAAIEIMKLKHIIILQNKIDLV 190 (207)
Q Consensus 123 ~G~kiaIsR~V~gh~rligg~~~~nMiaGa~--------V~A~eg~~~pQT~EHl~il~~lGI~~iIV~vNK~DlV 190 (207)
.+.++-++ +.|||-+|+ .+|.+|+. |||.+|+ ++||++|+..+...+++. |+++||||+.
T Consensus 96 ~~~~inli-DtPGh~dF~-----~e~~~al~~~D~ailVvda~~Gv-~~~t~~~~~~~~~~~~p~-i~~iNK~D~~ 163 (843)
T PLN00116 96 NEYLINLI-DSPGHVDFS-----SEVTAALRITDGALVVVDCIEGV-CVQTETVLRQALGERIRP-VLTVNKMDRC 163 (843)
T ss_pred CceEEEEE-CCCCHHHHH-----HHHHHHHhhcCEEEEEEECCCCC-cccHHHHHHHHHHCCCCE-EEEEECCccc
Confidence 35578887 999999999 66655543 9999998 999999999999999875 7889999998
No 57
>cd04168 TetM_like Tet(M)-like subfamily. Tet(M), Tet(O), Tet(W), and OtrA are tetracycline resistance genes found in Gram-positive and Gram-negative bacteria. Tetracyclines inhibit protein synthesis by preventing aminoacyl-tRNA from binding to the ribosomal acceptor site. This subfamily contains tetracycline resistance proteins that function through ribosomal protection and are typically found on mobile genetic elements, such as transposons or plasmids, and are often conjugative. Ribosomal protection proteins are homologous to the elongation factors EF-Tu and EF-G. EF-G and Tet(M) compete for binding on the ribosomes. Tet(M) has a higher affinity than EF-G, suggesting these two proteins may have overlapping binding sites and that Tet(M) must be released before EF-G can bind. Tet(M) and Tet(O) have been shown to have ribosome-dependent GTPase activity. These proteins are part of the GTP translation factor family, which includes EF-G, EF-Tu, EF2, LepA, and SelB.
Probab=98.06 E-value=7.9e-06 Score=70.56 Aligned_cols=81 Identities=21% Similarity=0.187 Sum_probs=61.3
Q ss_pred cCCcEEEEEEeecCcceeec-ccccccccccee--eecCCCCCCCchHHHHHHHHHcCCCeEEEEEecCCCCChhhHHHH
Q psy13818 122 EVNEKIALSRRVEKHWSLIE-GTVTTKVLSTRK--RTGNESCPQPQTSEHLAAIEIMKLKHIIILQNKIDLVKEGQANEQ 198 (207)
Q Consensus 122 ~~G~kiaIsR~V~gh~rlig-g~~~~nMiaGa~--V~A~eg~~~pQT~EHl~il~~lGI~~iIV~vNK~DlV~~~~~~~~ 198 (207)
+.+.++.+. +.|||.+|.+ +.-.-...+++. +|+.+|. ++||.++...++..+++. ++++||+|+...+. .+.
T Consensus 61 ~~~~~i~li-DTPG~~~f~~~~~~~l~~aD~~IlVvd~~~g~-~~~~~~~~~~~~~~~~P~-iivvNK~D~~~a~~-~~~ 136 (237)
T cd04168 61 WEDTKVNLI-DTPGHMDFIAEVERSLSVLDGAILVISAVEGV-QAQTRILWRLLRKLNIPT-IIFVNKIDRAGADL-EKV 136 (237)
T ss_pred ECCEEEEEE-eCCCccchHHHHHHHHHHhCeEEEEEeCCCCC-CHHHHHHHHHHHHcCCCE-EEEEECccccCCCH-HHH
Confidence 346688887 9999999985 211112224444 8899997 899999999999999985 67999999986543 678
Q ss_pred HHHHHhhh
Q psy13818 199 HEQIVKFV 206 (207)
Q Consensus 199 ~~eI~~~l 206 (207)
+++|++.+
T Consensus 137 ~~~i~~~~ 144 (237)
T cd04168 137 YQEIKEKL 144 (237)
T ss_pred HHHHHHHH
Confidence 88888765
No 58
>CHL00189 infB translation initiation factor 2; Provisional
Probab=98.03 E-value=4.4e-06 Score=83.83 Aligned_cols=61 Identities=25% Similarity=0.313 Sum_probs=50.7
Q ss_pred CcEEEEEEeecCcceeecccccccccccee--------eecCCCCCCCchHHHHHHHHHcCCCeEEEEEecCCCCCh
Q psy13818 124 NEKIALSRRVEKHWSLIEGTVTTKVLSTRK--------RTGNESCPQPQTSEHLAAIEIMKLKHIIILQNKIDLVKE 192 (207)
Q Consensus 124 G~kiaIsR~V~gh~rligg~~~~nMiaGa~--------V~A~eg~~~pQT~EHl~il~~lGI~~iIV~vNK~DlV~~ 192 (207)
+.++.|. +.|||.+|. +.+..|+. |||++|. +|||.||+..+...+++ +|||+||+|+.+.
T Consensus 294 ~~kItfi-DTPGhe~F~-----~mr~rg~~~aDiaILVVDA~dGv-~~QT~E~I~~~k~~~iP-iIVViNKiDl~~~ 362 (742)
T CHL00189 294 NQKIVFL-DTPGHEAFS-----SMRSRGANVTDIAILIIAADDGV-KPQTIEAINYIQAANVP-IIVAINKIDKANA 362 (742)
T ss_pred ceEEEEE-ECCcHHHHH-----HHHHHHHHHCCEEEEEEECcCCC-ChhhHHHHHHHHhcCce-EEEEEECCCcccc
Confidence 4678887 999999998 44433332 8899996 99999999999999997 8999999999764
No 59
>PRK12739 elongation factor G; Reviewed
Probab=98.01 E-value=9e-06 Score=80.02 Aligned_cols=80 Identities=16% Similarity=0.160 Sum_probs=61.0
Q ss_pred CCcEEEEEEeecCcceeec-ccccccccccee--eecCCCCCCCchHHHHHHHHHcCCCeEEEEEecCCCCChhhHHHHH
Q psy13818 123 VNEKIALSRRVEKHWSLIE-GTVTTKVLSTRK--RTGNESCPQPQTSEHLAAIEIMKLKHIIILQNKIDLVKEGQANEQH 199 (207)
Q Consensus 123 ~G~kiaIsR~V~gh~rlig-g~~~~nMiaGa~--V~A~eg~~~pQT~EHl~il~~lGI~~iIV~vNK~DlV~~~~~~~~~ 199 (207)
.+.++.++ +.|||-+|.+ +.-.-..++++. |||.+|. ++||++++..+...|++. ||++||||+...+ ..+..
T Consensus 71 ~~~~i~li-DTPG~~~f~~e~~~al~~~D~~ilVvDa~~g~-~~qt~~i~~~~~~~~~p~-iv~iNK~D~~~~~-~~~~~ 146 (691)
T PRK12739 71 KGHRINII-DTPGHVDFTIEVERSLRVLDGAVAVFDAVSGV-EPQSETVWRQADKYGVPR-IVFVNKMDRIGAD-FFRSV 146 (691)
T ss_pred CCEEEEEE-cCCCHHHHHHHHHHHHHHhCeEEEEEeCCCCC-CHHHHHHHHHHHHcCCCE-EEEEECCCCCCCC-HHHHH
Confidence 46678876 9999999985 222233445555 9999997 999999999999999987 5899999999755 34566
Q ss_pred HHHHhhh
Q psy13818 200 EQIVKFV 206 (207)
Q Consensus 200 ~eI~~~l 206 (207)
++|++.+
T Consensus 147 ~~i~~~l 153 (691)
T PRK12739 147 EQIKDRL 153 (691)
T ss_pred HHHHHHh
Confidence 6776654
No 60
>KOG0462|consensus
Probab=97.95 E-value=3.8e-05 Score=75.52 Aligned_cols=89 Identities=20% Similarity=0.182 Sum_probs=69.0
Q ss_pred ceEEEEeeCcccccCCcEEEEEEeecCcceeeccccc--ccccccee--eecCCCCCCCchHHHHHHHHHcCCCeEEEEE
Q psy13818 109 DLAKISLTNPVCTEVNEKIALSRRVEKHWSLIEGTVT--TKVLSTRK--RTGNESCPQPQTSEHLAAIEIMKLKHIIILQ 184 (207)
Q Consensus 109 Dla~i~L~~Pvc~~~G~kiaIsR~V~gh~rligg~~~--~nMiaGa~--V~A~eg~~~pQT~EHl~il~~lGI~~iIV~v 184 (207)
-.+.+..+. ..+-.+-++ +-|||-+|- |.+- =+|..||. |||++|+ |+||.--+.++--.|+. +|.|+
T Consensus 113 Qtasify~~----~~~ylLNLI-DTPGHvDFs-~EVsRslaac~G~lLvVDA~qGv-qAQT~anf~lAfe~~L~-iIpVl 184 (650)
T KOG0462|consen 113 QTASIFYKD----GQSYLLNLI-DTPGHVDFS-GEVSRSLAACDGALLVVDASQGV-QAQTVANFYLAFEAGLA-IIPVL 184 (650)
T ss_pred eeeEEEEEc----CCceEEEee-cCCCccccc-ceehehhhhcCceEEEEEcCcCc-hHHHHHHHHHHHHcCCe-EEEee
Confidence 344444444 244567776 999999997 5555 48999988 9999997 99999999999999995 89999
Q ss_pred ecCCCCChhhHHHHHHHHHhhh
Q psy13818 185 NKIDLVKEGQANEQHEQIVKFV 206 (207)
Q Consensus 185 NK~DlV~~~~~~~~~~eI~~~l 206 (207)
||+|+...+ .+++..++.+++
T Consensus 185 NKIDlp~ad-pe~V~~q~~~lF 205 (650)
T KOG0462|consen 185 NKIDLPSAD-PERVENQLFELF 205 (650)
T ss_pred eccCCCCCC-HHHHHHHHHHHh
Confidence 999998755 245666676654
No 61
>KOG1143|consensus
Probab=97.88 E-value=3.2e-05 Score=73.88 Aligned_cols=81 Identities=14% Similarity=0.246 Sum_probs=65.0
Q ss_pred cccccCCcEEEEEEeecCcceeecccccccccccee----------eecCCCCCCCchHHHHHHHHHcCCCeEEEEEecC
Q psy13818 118 PVCTEVNEKIALSRRVEKHWSLIEGTVTTKVLSTRK----------RTGNESCPQPQTSEHLAAIEIMKLKHIIILQNKI 187 (207)
Q Consensus 118 Pvc~~~G~kiaIsR~V~gh~rligg~~~~nMiaGa~----------V~A~eg~~~pQT~EHl~il~~lGI~~iIV~vNK~ 187 (207)
.+|..+..-+.++ +..||.+|. ++-+-|.. |+|+-|+ ---|+||+.|+..|.++-+ |+++||
T Consensus 242 Ei~e~SSKlvTfi-DLAGh~kY~-----~TTi~gLtgY~Ph~A~LvVsA~~Gi-~~tTrEHLgl~~AL~iPfF-vlvtK~ 313 (591)
T KOG1143|consen 242 EIVEKSSKLVTFI-DLAGHAKYQ-----KTTIHGLTGYTPHFACLVVSADRGI-TWTTREHLGLIAALNIPFF-VLVTKM 313 (591)
T ss_pred HHHhhhcceEEEe-ecccchhhh-----eeeeeecccCCCceEEEEEEcCCCC-ccccHHHHHHHHHhCCCeE-EEEEee
Confidence 4555555556666 999999999 88888866 8999998 8899999999999999955 568999
Q ss_pred CCCChhhHHHHHHHHHhhh
Q psy13818 188 DLVKEGQANEQHEQIVKFV 206 (207)
Q Consensus 188 DlV~~~~~~~~~~eI~~~l 206 (207)
|+++..-++....++.+++
T Consensus 314 Dl~~~~~~~~tv~~l~nll 332 (591)
T KOG1143|consen 314 DLVDRQGLKKTVKDLSNLL 332 (591)
T ss_pred ccccchhHHHHHHHHHHHH
Confidence 9999866666666666554
No 62
>PTZ00416 elongation factor 2; Provisional
Probab=97.87 E-value=1.7e-05 Score=80.02 Aligned_cols=59 Identities=19% Similarity=0.108 Sum_probs=49.1
Q ss_pred CcEEEEEEeecCcceeeccccccccccc------ee--eecCCCCCCCchHHHHHHHHHcCCCeEEEEEecCCCC
Q psy13818 124 NEKIALSRRVEKHWSLIEGTVTTKVLST------RK--RTGNESCPQPQTSEHLAAIEIMKLKHIIILQNKIDLV 190 (207)
Q Consensus 124 G~kiaIsR~V~gh~rligg~~~~nMiaG------a~--V~A~eg~~~pQT~EHl~il~~lGI~~iIV~vNK~DlV 190 (207)
+.++.++ +.|||-+|+ .+|.++ |. |||.+|+ ++||++|+..+...++ .+|+++||||+.
T Consensus 91 ~~~i~li-DtPG~~~f~-----~~~~~al~~~D~ailVvda~~g~-~~~t~~~~~~~~~~~~-p~iv~iNK~D~~ 157 (836)
T PTZ00416 91 PFLINLI-DSPGHVDFS-----SEVTAALRVTDGALVVVDCVEGV-CVQTETVLRQALQERI-RPVLFINKVDRA 157 (836)
T ss_pred ceEEEEE-cCCCHHhHH-----HHHHHHHhcCCeEEEEEECCCCc-CccHHHHHHHHHHcCC-CEEEEEEChhhh
Confidence 4567887 999999999 555444 33 8999997 9999999999999996 468889999997
No 63
>PRK07560 elongation factor EF-2; Reviewed
Probab=97.81 E-value=3e-05 Score=76.91 Aligned_cols=64 Identities=19% Similarity=0.170 Sum_probs=49.3
Q ss_pred CcEEEEEEeecCcceeeccccc-ccccccee--eecCCCCCCCchHHHHHHHHHcCCCeEEEEEecCCCC
Q psy13818 124 NEKIALSRRVEKHWSLIEGTVT-TKVLSTRK--RTGNESCPQPQTSEHLAAIEIMKLKHIIILQNKIDLV 190 (207)
Q Consensus 124 G~kiaIsR~V~gh~rligg~~~-~nMiaGa~--V~A~eg~~~pQT~EHl~il~~lGI~~iIV~vNK~DlV 190 (207)
+.++.++ +.|||.+|.+=... -+..++|. ||+.+|+ ++||++|+..+...|++ .||++||||+.
T Consensus 86 ~~~i~li-DtPG~~df~~~~~~~l~~~D~avlVvda~~g~-~~~t~~~~~~~~~~~~~-~iv~iNK~D~~ 152 (731)
T PRK07560 86 EYLINLI-DTPGHVDFGGDVTRAMRAVDGAIVVVDAVEGV-MPQTETVLRQALRERVK-PVLFINKVDRL 152 (731)
T ss_pred cEEEEEE-cCCCccChHHHHHHHHHhcCEEEEEEECCCCC-CccHHHHHHHHHHcCCC-eEEEEECchhh
Confidence 4567777 99999999831111 23334444 8999996 99999999999889998 58899999987
No 64
>PRK04004 translation initiation factor IF-2; Validated
Probab=97.78 E-value=3.9e-05 Score=74.82 Aligned_cols=56 Identities=23% Similarity=0.220 Sum_probs=46.7
Q ss_pred EEEEEeecCcceeeccccccccccc------ee--eecCCCCCCCchHHHHHHHHHcCCCeEEEEEecCCCC
Q psy13818 127 IALSRRVEKHWSLIEGTVTTKVLST------RK--RTGNESCPQPQTSEHLAAIEIMKLKHIIILQNKIDLV 190 (207)
Q Consensus 127 iaIsR~V~gh~rligg~~~~nMiaG------a~--V~A~eg~~~pQT~EHl~il~~lGI~~iIV~vNK~DlV 190 (207)
+.+. +.|||.+|. ..+..| +. +|+++|. +|||.+|+.+++..+++ +||++||+|+.
T Consensus 73 i~~i-DTPG~e~f~-----~~~~~~~~~aD~~IlVvDa~~g~-~~qt~e~i~~~~~~~vp-iIvviNK~D~~ 136 (586)
T PRK04004 73 LLFI-DTPGHEAFT-----NLRKRGGALADIAILVVDINEGF-QPQTIEAINILKRRKTP-FVVAANKIDRI 136 (586)
T ss_pred EEEE-ECCChHHHH-----HHHHHhHhhCCEEEEEEECCCCC-CHhHHHHHHHHHHcCCC-EEEEEECcCCc
Confidence 5565 999999998 444444 22 8999996 99999999999999998 89999999986
No 65
>KOG1145|consensus
Probab=97.76 E-value=6.7e-05 Score=73.97 Aligned_cols=71 Identities=18% Similarity=0.264 Sum_probs=56.8
Q ss_pred eEEEEeeCcccccCCcEEEEEEeecCcceeeccccccccc-ccee--------eecCCCCCCCchHHHHHHHHHcCCCeE
Q psy13818 110 LAKISLTNPVCTEVNEKIALSRRVEKHWSLIEGTVTTKVL-STRK--------RTGNESCPQPQTSEHLAAIEIMKLKHI 180 (207)
Q Consensus 110 la~i~L~~Pvc~~~G~kiaIsR~V~gh~rligg~~~~nMi-aGa~--------V~A~eg~~~pQT~EHl~il~~lGI~~i 180 (207)
.+-...+.| .|.++.|. +-|||.-|- .|= -||. |+|++|+ ||||.|-..-++--+++ +
T Consensus 190 IGAF~V~~p----~G~~iTFL-DTPGHaAF~------aMRaRGA~vtDIvVLVVAadDGV-mpQT~EaIkhAk~A~Vp-i 256 (683)
T KOG1145|consen 190 IGAFTVTLP----SGKSITFL-DTPGHAAFS------AMRARGANVTDIVVLVVAADDGV-MPQTLEAIKHAKSANVP-I 256 (683)
T ss_pred eceEEEecC----CCCEEEEe-cCCcHHHHH------HHHhccCccccEEEEEEEccCCc-cHhHHHHHHHHHhcCCC-E
Confidence 334445556 79999999 999999987 232 2333 8889998 99999999999999997 9
Q ss_pred EEEEecCCCCChh
Q psy13818 181 IILQNKIDLVKEG 193 (207)
Q Consensus 181 IV~vNK~DlV~~~ 193 (207)
||++||+|....+
T Consensus 257 VvAinKiDkp~a~ 269 (683)
T KOG1145|consen 257 VVAINKIDKPGAN 269 (683)
T ss_pred EEEEeccCCCCCC
Confidence 9999999976544
No 66
>cd04169 RF3 RF3 subfamily. Peptide chain release factor 3 (RF3) is a protein involved in the termination step of translation in bacteria. Termination occurs when class I release factors (RF1 or RF2) recognize the stop codon at the A-site of the ribosome and activate the release of the nascent polypeptide. The class II release factor RF3 then initiates the release of the class I RF from the ribosome. RF3 binds to the RF/ribosome complex in the inactive (GDP-bound) state. GDP/GTP exchange occurs, followed by the release of the class I RF. Subsequent hydrolysis of GTP to GDP triggers the release of RF3 from the ribosome. RF3 also enhances the efficiency of class I RFs at less preferred stop codons and at stop codons in weak contexts.
Probab=97.68 E-value=9.4e-05 Score=65.15 Aligned_cols=82 Identities=18% Similarity=0.149 Sum_probs=58.9
Q ss_pred cccCCcEEEEEEeecCcceeec--ccccccccccee--eecCCCCCCCchHHHHHHHHHcCCCeEEEEEecCCCCChhhH
Q psy13818 120 CTEVNEKIALSRRVEKHWSLIE--GTVTTKVLSTRK--RTGNESCPQPQTSEHLAAIEIMKLKHIIILQNKIDLVKEGQA 195 (207)
Q Consensus 120 c~~~G~kiaIsR~V~gh~rlig--g~~~~nMiaGa~--V~A~eg~~~pQT~EHl~il~~lGI~~iIV~vNK~DlV~~~~~ 195 (207)
|.+.+.++.+. +.|||.+|.+ +...++ .+++. +|+.++. ++||.+++..++..+++ +++++||+|+...+.
T Consensus 66 ~~~~~~~i~li-DTPG~~df~~~~~~~l~~-aD~~IlVvda~~g~-~~~~~~i~~~~~~~~~P-~iivvNK~D~~~a~~- 140 (267)
T cd04169 66 FEYRDCVINLL-DTPGHEDFSEDTYRTLTA-VDSAVMVIDAAKGV-EPQTRKLFEVCRLRGIP-IITFINKLDREGRDP- 140 (267)
T ss_pred EeeCCEEEEEE-ECCCchHHHHHHHHHHHH-CCEEEEEEECCCCc-cHHHHHHHHHHHhcCCC-EEEEEECCccCCCCH-
Confidence 34467788887 9999999884 111132 24444 8898986 89999999999999998 778999999865432
Q ss_pred HHHHHHHHhhh
Q psy13818 196 NEQHEQIVKFV 206 (207)
Q Consensus 196 ~~~~~eI~~~l 206 (207)
.+..+++++.+
T Consensus 141 ~~~~~~l~~~l 151 (267)
T cd04169 141 LELLDEIEEEL 151 (267)
T ss_pred HHHHHHHHHHH
Confidence 23456666654
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=97.66 E-value=0.00011 Score=72.39 Aligned_cols=80 Identities=16% Similarity=0.127 Sum_probs=59.8
Q ss_pred CCcEEEEEEeecCcceeec-ccccccccccee--eecCCCCCCCchHHHHHHHHHcCCCeEEEEEecCCCCChhhHHHHH
Q psy13818 123 VNEKIALSRRVEKHWSLIE-GTVTTKVLSTRK--RTGNESCPQPQTSEHLAAIEIMKLKHIIILQNKIDLVKEGQANEQH 199 (207)
Q Consensus 123 ~G~kiaIsR~V~gh~rlig-g~~~~nMiaGa~--V~A~eg~~~pQT~EHl~il~~lGI~~iIV~vNK~DlV~~~~~~~~~ 199 (207)
.+.++.++ +.|||.+|.+ +.-.-..++++. ||+.+|. ++||.+++..++..+++. |+++||+|+.+.+ ..+..
T Consensus 73 ~~~~i~li-DTPG~~~~~~~~~~~l~~~D~~ilVvda~~g~-~~~~~~~~~~~~~~~~p~-ivviNK~D~~~~~-~~~~~ 148 (689)
T TIGR00484 73 KGHRINII-DTPGHVDFTVEVERSLRVLDGAVAVLDAVGGV-QPQSETVWRQANRYEVPR-IAFVNKMDKTGAN-FLRVV 148 (689)
T ss_pred CCeEEEEE-ECCCCcchhHHHHHHHHHhCEEEEEEeCCCCC-ChhHHHHHHHHHHcCCCE-EEEEECCCCCCCC-HHHHH
Confidence 36688887 9999999885 211123345555 9999996 999999999999999986 5689999998755 34556
Q ss_pred HHHHhhh
Q psy13818 200 EQIVKFV 206 (207)
Q Consensus 200 ~eI~~~l 206 (207)
++|++.+
T Consensus 149 ~~i~~~l 155 (689)
T TIGR00484 149 NQIKQRL 155 (689)
T ss_pred HHHHHHh
Confidence 6676643
No 68
>PRK00741 prfC peptide chain release factor 3; Provisional
Probab=97.66 E-value=6.5e-05 Score=72.47 Aligned_cols=82 Identities=17% Similarity=0.138 Sum_probs=60.7
Q ss_pred cccCCcEEEEEEeecCcceeec--ccccccccccee--eecCCCCCCCchHHHHHHHHHcCCCeEEEEEecCCCCChhhH
Q psy13818 120 CTEVNEKIALSRRVEKHWSLIE--GTVTTKVLSTRK--RTGNESCPQPQTSEHLAAIEIMKLKHIIILQNKIDLVKEGQA 195 (207)
Q Consensus 120 c~~~G~kiaIsR~V~gh~rlig--g~~~~nMiaGa~--V~A~eg~~~pQT~EHl~il~~lGI~~iIV~vNK~DlV~~~~~ 195 (207)
+.+.+.++.+. +.|||.+|.+ +...+ ..+++. ||+.+|+ ++||++++..++..+++ +|+++||||+...+.
T Consensus 74 ~~~~~~~inli-DTPG~~df~~~~~~~l~-~aD~aIlVvDa~~gv-~~~t~~l~~~~~~~~iP-iiv~iNK~D~~~a~~- 148 (526)
T PRK00741 74 FPYRDCLINLL-DTPGHEDFSEDTYRTLT-AVDSALMVIDAAKGV-EPQTRKLMEVCRLRDTP-IFTFINKLDRDGREP- 148 (526)
T ss_pred EEECCEEEEEE-ECCCchhhHHHHHHHHH-HCCEEEEEEecCCCC-CHHHHHHHHHHHhcCCC-EEEEEECCcccccCH-
Confidence 34567788887 9999999885 22113 235555 8999997 99999999999999998 889999999876442
Q ss_pred HHHHHHHHhhh
Q psy13818 196 NEQHEQIVKFV 206 (207)
Q Consensus 196 ~~~~~eI~~~l 206 (207)
.+..++|++.+
T Consensus 149 ~~~l~~i~~~l 159 (526)
T PRK00741 149 LELLDEIEEVL 159 (526)
T ss_pred HHHHHHHHHHh
Confidence 34456666543
No 69
>PRK05433 GTP-binding protein LepA; Provisional
Probab=97.63 E-value=0.00011 Score=71.83 Aligned_cols=76 Identities=17% Similarity=0.104 Sum_probs=54.7
Q ss_pred cEEEEEEeecCcceeec-ccccccccccee--eecCCCCCCCchHHHHHHHHHcCCCeEEEEEecCCCCChhhHHHHHHH
Q psy13818 125 EKIALSRRVEKHWSLIE-GTVTTKVLSTRK--RTGNESCPQPQTSEHLAAIEIMKLKHIIILQNKIDLVKEGQANEQHEQ 201 (207)
Q Consensus 125 ~kiaIsR~V~gh~rlig-g~~~~nMiaGa~--V~A~eg~~~pQT~EHl~il~~lGI~~iIV~vNK~DlV~~~~~~~~~~e 201 (207)
.++.|. +.|||.+|.+ +.-.-...+|+. ||+.+|. ++||.+|+..+...+++ +|+|+||+|+.+.+. ++..++
T Consensus 74 ~~lnLi-DTPGh~dF~~~v~~sl~~aD~aILVVDas~gv-~~qt~~~~~~~~~~~lp-iIvViNKiDl~~a~~-~~v~~e 149 (600)
T PRK05433 74 YILNLI-DTPGHVDFSYEVSRSLAACEGALLVVDASQGV-EAQTLANVYLALENDLE-IIPVLNKIDLPAADP-ERVKQE 149 (600)
T ss_pred EEEEEE-ECCCcHHHHHHHHHHHHHCCEEEEEEECCCCC-CHHHHHHHHHHHHCCCC-EEEEEECCCCCcccH-HHHHHH
Confidence 356776 9999999985 332222335555 9999997 99999999998888987 889999999975431 223344
Q ss_pred HHh
Q psy13818 202 IVK 204 (207)
Q Consensus 202 I~~ 204 (207)
+.+
T Consensus 150 i~~ 152 (600)
T PRK05433 150 IED 152 (600)
T ss_pred HHH
Confidence 444
No 70
>COG0480 FusA Translation elongation factors (GTPases) [Translation, ribosomal structure and biogenesis]
Probab=97.57 E-value=0.00013 Score=73.11 Aligned_cols=82 Identities=20% Similarity=0.135 Sum_probs=62.8
Q ss_pred ccccCC-cEEEEEEeecCcceeecccccc--cccccee--eecCCCCCCCchHHHHHHHHHcCCCeEEEEEecCCCCChh
Q psy13818 119 VCTEVN-EKIALSRRVEKHWSLIEGTVTT--KVLSTRK--RTGNESCPQPQTSEHLAAIEIMKLKHIIILQNKIDLVKEG 193 (207)
Q Consensus 119 vc~~~G-~kiaIsR~V~gh~rligg~~~~--nMiaGa~--V~A~eg~~~pQT~EHl~il~~lGI~~iIV~vNK~DlV~~~ 193 (207)
.|.|.| .++-++ +.|||-+|. ..+.+ -.++||. +||.+|+ +|||.-=..-+.-.+++. |+++||||....+
T Consensus 69 s~~~~~~~~iNlI-DTPGHVDFt-~EV~rslrvlDgavvVvdaveGV-~~QTEtv~rqa~~~~vp~-i~fiNKmDR~~a~ 144 (697)
T COG0480 69 TLFWKGDYRINLI-DTPGHVDFT-IEVERSLRVLDGAVVVVDAVEGV-EPQTETVWRQADKYGVPR-ILFVNKMDRLGAD 144 (697)
T ss_pred EEEEcCceEEEEe-CCCCccccH-HHHHHHHHhhcceEEEEECCCCe-eecHHHHHHHHhhcCCCe-EEEEECccccccC
Confidence 355665 799998 999999999 44443 3457776 9999998 999999999999999985 5679999987755
Q ss_pred hHHHHHHHHHhh
Q psy13818 194 QANEQHEQIVKF 205 (207)
Q Consensus 194 ~~~~~~~eI~~~ 205 (207)
. ....+++++.
T Consensus 145 ~-~~~~~~l~~~ 155 (697)
T COG0480 145 F-YLVVEQLKER 155 (697)
T ss_pred h-hhhHHHHHHH
Confidence 2 3344455443
No 71
>PRK14845 translation initiation factor IF-2; Provisional
Probab=97.57 E-value=0.00018 Score=74.91 Aligned_cols=57 Identities=23% Similarity=0.257 Sum_probs=46.6
Q ss_pred EEEEEeecCcceeeccccccccccc------ee--eecCCCCCCCchHHHHHHHHHcCCCeEEEEEecCCCCC
Q psy13818 127 IALSRRVEKHWSLIEGTVTTKVLST------RK--RTGNESCPQPQTSEHLAAIEIMKLKHIIILQNKIDLVK 191 (207)
Q Consensus 127 iaIsR~V~gh~rligg~~~~nMiaG------a~--V~A~eg~~~pQT~EHl~il~~lGI~~iIV~vNK~DlV~ 191 (207)
+.|. +.|||++|. ..+..| +. +|+++|. +|||.||+.+++..+++ +|+|+||+|++.
T Consensus 528 i~fi-DTPGhe~F~-----~lr~~g~~~aDivlLVVDa~~Gi-~~qT~e~I~~lk~~~iP-iIVViNKiDL~~ 592 (1049)
T PRK14845 528 LLFI-DTPGHEAFT-----SLRKRGGSLADLAVLVVDINEGF-KPQTIEAINILRQYKTP-FVVAANKIDLIP 592 (1049)
T ss_pred EEEE-ECCCcHHHH-----HHHHhhcccCCEEEEEEECcccC-CHhHHHHHHHHHHcCCC-EEEEEECCCCcc
Confidence 5665 999999997 333333 22 8899996 99999999999999986 999999999974
No 72
>KOG0463|consensus
Probab=97.56 E-value=0.00019 Score=68.91 Aligned_cols=81 Identities=15% Similarity=0.272 Sum_probs=64.6
Q ss_pred ccccCCcEEEEEEeecCcceeecccccccccccee----------eecCCCCCCCchHHHHHHHHHcCCCeEEEEEecCC
Q psy13818 119 VCTEVNEKIALSRRVEKHWSLIEGTVTTKVLSTRK----------RTGNESCPQPQTSEHLAAIEIMKLKHIIILQNKID 188 (207)
Q Consensus 119 vc~~~G~kiaIsR~V~gh~rligg~~~~nMiaGa~----------V~A~eg~~~pQT~EHl~il~~lGI~~iIV~vNK~D 188 (207)
+|..+-.-+.++ +..||++|. ++-+-|.. |.||-|+ -..|+||+-++-.|.++ +.||++|+|
T Consensus 213 Ice~saKviTFI-DLAGHEkYL-----KTTvFGMTGH~PDf~MLMiGaNaGI-iGmTKEHLgLALaL~VP-VfvVVTKID 284 (641)
T KOG0463|consen 213 ICEDSAKVITFI-DLAGHEKYL-----KTTVFGMTGHMPDFTMLMIGANAGI-IGMTKEHLGLALALHVP-VFVVVTKID 284 (641)
T ss_pred eccccceeEEEE-eccchhhhh-----heeeeccccCCCCceEEEecccccc-eeccHHhhhhhhhhcCc-EEEEEEeec
Confidence 466666667776 999999999 76655543 8899997 89999999999999998 456789999
Q ss_pred CCChhhHHHHHHHHHhhhC
Q psy13818 189 LVKEGQANEQHEQIVKFVQ 207 (207)
Q Consensus 189 lV~~~~~~~~~~eI~~~l~ 207 (207)
++-.+-+++...-+..+++
T Consensus 285 MCPANiLqEtmKll~rllk 303 (641)
T KOG0463|consen 285 MCPANILQETMKLLTRLLK 303 (641)
T ss_pred cCcHHHHHHHHHHHHHHhc
Confidence 9998877777666665553
No 73
>cd01891 TypA_BipA TypA (tyrosine phosphorylated protein A)/BipA subfamily. BipA is a protein belonging to the ribosome-binding family of GTPases and is widely distributed in bacteria and plants. BipA was originally described as a protein that is induced in Salmonella typhimurium after exposure to bactericidal/permeability-inducing protein (a cationic antimicrobial protein produced by neutrophils), and has since been identified in E. coli as well. The properties thus far described for BipA are related to its role in the process of pathogenesis by enteropathogenic E. coli. It appears to be involved in the regulation of several processes important for infection, including rearrangements of the cytoskeleton of the host, bacterial resistance to host defense peptides, flagellum-mediated cell motility, and expression of K5 capsular genes. It has been proposed that BipA may utilize a novel mechanism to regulate the expression of target genes. In addition, BipA from enteropathogenic E. co
Probab=97.55 E-value=0.00023 Score=57.96 Aligned_cols=65 Identities=25% Similarity=0.157 Sum_probs=48.1
Q ss_pred CcEEEEEEeecCcceeec-cccc-ccccccee--eecCCCCCCCchHHHHHHHHHcCCCeEEEEEecCCCCCh
Q psy13818 124 NEKIALSRRVEKHWSLIE-GTVT-TKVLSTRK--RTGNESCPQPQTSEHLAAIEIMKLKHIIILQNKIDLVKE 192 (207)
Q Consensus 124 G~kiaIsR~V~gh~rlig-g~~~-~nMiaGa~--V~A~eg~~~pQT~EHl~il~~lGI~~iIV~vNK~DlV~~ 192 (207)
+.++.+. +.+||.+|.. +... ++. .++. +|+.++. .+|+.+++..+...+++ +++|+||+|+.+.
T Consensus 64 ~~~~~l~-DtpG~~~~~~~~~~~~~~~-d~~ilV~d~~~~~-~~~~~~~~~~~~~~~~p-~iiv~NK~Dl~~~ 132 (194)
T cd01891 64 DTKINIV-DTPGHADFGGEVERVLSMV-DGVLLLVDASEGP-MPQTRFVLKKALELGLK-PIVVINKIDRPDA 132 (194)
T ss_pred CEEEEEE-ECCCcHHHHHHHHHHHHhc-CEEEEEEECCCCc-cHHHHHHHHHHHHcCCC-EEEEEECCCCCCC
Confidence 4567776 9999999875 2222 333 4444 8888885 89999988887778887 6788999999753
No 74
>cd04167 Snu114p Snu114p subfamily. Snu114p is one of several proteins that make up the U5 small nuclear ribonucleoprotein (snRNP) particle. U5 is a component of the spliceosome, which catalyzes the splicing of pre-mRNA to remove introns. Snu114p is homologous to EF-2, but typically contains an additional N-terminal domain not found in Ef-2. This protein is part of the GTP translation factor family and the Ras superfamily, characterized by five G-box motifs.
Probab=97.51 E-value=0.00021 Score=59.56 Aligned_cols=63 Identities=13% Similarity=0.116 Sum_probs=45.9
Q ss_pred cEEEEEEeecCcceeeccccc-ccccccee--eecCCCCCCCchHHHHHHHHHcCCCeEEEEEecCCCC
Q psy13818 125 EKIALSRRVEKHWSLIEGTVT-TKVLSTRK--RTGNESCPQPQTSEHLAAIEIMKLKHIIILQNKIDLV 190 (207)
Q Consensus 125 ~kiaIsR~V~gh~rligg~~~-~nMiaGa~--V~A~eg~~~pQT~EHl~il~~lGI~~iIV~vNK~DlV 190 (207)
.++.+. +.|||.+|...... ....+++. +|+.++. ..|+.+++..+...+ ..+++++||+|++
T Consensus 71 ~~i~ii-DtpG~~~f~~~~~~~~~~aD~~llVvD~~~~~-~~~~~~~~~~~~~~~-~p~iiviNK~D~~ 136 (213)
T cd04167 71 YLFNII-DTPGHVNFMDEVAAALRLSDGVVLVVDVVEGV-TSNTERLIRHAILEG-LPIVLVINKIDRL 136 (213)
T ss_pred EEEEEE-ECCCCcchHHHHHHHHHhCCEEEEEEECCCCC-CHHHHHHHHHHHHcC-CCEEEEEECcccC
Confidence 356665 99999998732211 22233433 8898886 889999988888778 5688999999987
No 75
>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=97.47 E-value=0.00023 Score=69.61 Aligned_cols=64 Identities=19% Similarity=0.096 Sum_probs=48.6
Q ss_pred EEEEEEeecCcceeec-ccccccccccee--eecCCCCCCCchHHHHHHHHHcCCCeEEEEEecCCCCCh
Q psy13818 126 KIALSRRVEKHWSLIE-GTVTTKVLSTRK--RTGNESCPQPQTSEHLAAIEIMKLKHIIILQNKIDLVKE 192 (207)
Q Consensus 126 kiaIsR~V~gh~rlig-g~~~~nMiaGa~--V~A~eg~~~pQT~EHl~il~~lGI~~iIV~vNK~DlV~~ 192 (207)
++.|. +.|||.+|.+ +.-.-....++. +|+++|. ++||.+|+..+...+++ +|+|+||+|+.+.
T Consensus 71 ~l~li-DTPG~~dF~~~v~~~l~~aD~aILVvDat~g~-~~qt~~~~~~~~~~~ip-iIiViNKiDl~~~ 137 (595)
T TIGR01393 71 VLNLI-DTPGHVDFSYEVSRSLAACEGALLLVDAAQGI-EAQTLANVYLALENDLE-IIPVINKIDLPSA 137 (595)
T ss_pred EEEEE-ECCCcHHHHHHHHHHHHhCCEEEEEecCCCCC-CHhHHHHHHHHHHcCCC-EEEEEECcCCCcc
Confidence 56676 9999999984 222212234444 8999996 99999999888888886 8899999999754
No 76
>cd00881 GTP_translation_factor GTP translation factor family. This family consists primarily of translation initiation, elongation, and release factors, which play specific roles in protein translation. In addition, the family includes Snu114p, a component of the U5 small nuclear riboprotein particle which is a component of the spliceosome and is involved in excision of introns, TetM, a tetracycline resistance gene that protects the ribosome from tetracycline binding, and the unusual subfamily CysN/ATPS, which has an unrelated function (ATP sulfurylase) acquired through lateral transfer of the EF1-alpha gene and development of a new function.
Probab=97.38 E-value=0.00059 Score=53.35 Aligned_cols=80 Identities=26% Similarity=0.246 Sum_probs=54.5
Q ss_pred CcEEEEEEeecCcceeec-ccccccccccee--eecCCCCCCCchHHHHHHHHHcCCCeEEEEEecCCCCChhhHHHHHH
Q psy13818 124 NEKIALSRRVEKHWSLIE-GTVTTKVLSTRK--RTGNESCPQPQTSEHLAAIEIMKLKHIIILQNKIDLVKEGQANEQHE 200 (207)
Q Consensus 124 G~kiaIsR~V~gh~rlig-g~~~~nMiaGa~--V~A~eg~~~pQT~EHl~il~~lGI~~iIV~vNK~DlV~~~~~~~~~~ 200 (207)
+.++.+. +.+|+.++.. +...-....++. +|+.++. ++|..+++..+...+ ..+++++||+|+.+++......+
T Consensus 61 ~~~~~li-DtpG~~~~~~~~~~~~~~~d~~i~v~d~~~~~-~~~~~~~~~~~~~~~-~~i~iv~nK~D~~~~~~~~~~~~ 137 (189)
T cd00881 61 DRRVNFI-DTPGHEDFSSEVIRGLSVSDGAILVVDANEGV-QPQTREHLRIAREGG-LPIIVAINKIDRVGEEDLEEVLR 137 (189)
T ss_pred CEEEEEE-eCCCcHHHHHHHHHHHHhcCEEEEEEECCCCC-cHHHHHHHHHHHHCC-CCeEEEEECCCCcchhcHHHHHH
Confidence 4467776 8888766653 222222334444 8888886 889999988888744 57999999999998655555555
Q ss_pred HHHhhh
Q psy13818 201 QIVKFV 206 (207)
Q Consensus 201 eI~~~l 206 (207)
++++.+
T Consensus 138 ~~~~~~ 143 (189)
T cd00881 138 EIKELL 143 (189)
T ss_pred HHHHHH
Confidence 665544
No 77
>cd04170 EF-G_bact Elongation factor G (EF-G) subfamily. Translocation is mediated by EF-G (also called translocase). The structure of EF-G closely resembles that of the complex between EF-Tu and tRNA. This is an example of molecular mimicry; a protein domain evolved so that it mimics the shape of a tRNA molecule. EF-G in the GTP form binds to the ribosome, primarily through the interaction of its EF-Tu-like domain with the 50S subunit. The binding of EF-G to the ribosome in this manner stimulates the GTPase activity of EF-G. On GTP hydrolysis, EF-G undergoes a conformational change that forces its arm deeper into the A site on the 30S subunit. To accommodate this domain, the peptidyl-tRNA in the A site moves to the P site, carrying the mRNA and the deacylated tRNA with it. The ribosome may be prepared for these rearrangements by the initial binding of EF-G as well. The dissociation of EF-G leaves the ribosome ready to accept the next aminoacyl-tRNA into the A site. This group
Probab=97.36 E-value=0.00032 Score=60.64 Aligned_cols=80 Identities=11% Similarity=0.098 Sum_probs=56.1
Q ss_pred CCcEEEEEEeecCcceeec-ccccccccccee--eecCCCCCCCchHHHHHHHHHcCCCeEEEEEecCCCCChhhHHHHH
Q psy13818 123 VNEKIALSRRVEKHWSLIE-GTVTTKVLSTRK--RTGNESCPQPQTSEHLAAIEIMKLKHIIILQNKIDLVKEGQANEQH 199 (207)
Q Consensus 123 ~G~kiaIsR~V~gh~rlig-g~~~~nMiaGa~--V~A~eg~~~pQT~EHl~il~~lGI~~iIV~vNK~DlV~~~~~~~~~ 199 (207)
.+.++.+. +.|||-+|.+ ..-.-...+++. +++.++. +.||.+++..++..|++.+ +++||+|+...+ .++..
T Consensus 62 ~~~~i~li-DtPG~~~f~~~~~~~l~~aD~~i~Vvd~~~g~-~~~~~~~~~~~~~~~~p~i-ivvNK~D~~~~~-~~~~~ 137 (268)
T cd04170 62 KGHKINLI-DTPGYADFVGETRAALRAADAALVVVSAQSGV-EVGTEKLWEFADEAGIPRI-IFINKMDRERAD-FDKTL 137 (268)
T ss_pred CCEEEEEE-ECcCHHHHHHHHHHHHHHCCEEEEEEeCCCCC-CHHHHHHHHHHHHcCCCEE-EEEECCccCCCC-HHHHH
Confidence 45677776 9999988763 111112223333 8888886 8999999999999998755 599999998754 34556
Q ss_pred HHHHhhh
Q psy13818 200 EQIVKFV 206 (207)
Q Consensus 200 ~eI~~~l 206 (207)
+++++.+
T Consensus 138 ~~l~~~~ 144 (268)
T cd04170 138 AALQEAF 144 (268)
T ss_pred HHHHHHh
Confidence 6676654
No 78
>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=97.33 E-value=0.00046 Score=66.70 Aligned_cols=80 Identities=13% Similarity=0.103 Sum_probs=57.3
Q ss_pred CCcEEEEEEeecCcceeeccccc-ccccccee--eecCCCCCCCchHHHHHHHHHcCCCeEEEEEecCCCCChhhHHHHH
Q psy13818 123 VNEKIALSRRVEKHWSLIEGTVT-TKVLSTRK--RTGNESCPQPQTSEHLAAIEIMKLKHIIILQNKIDLVKEGQANEQH 199 (207)
Q Consensus 123 ~G~kiaIsR~V~gh~rligg~~~-~nMiaGa~--V~A~eg~~~pQT~EHl~il~~lGI~~iIV~vNK~DlV~~~~~~~~~ 199 (207)
.+.++.+. +.|||.+|.+-... -...+++. ||+.+|. .+||.+++.+++..+++ +|+++||+|+...+ .++..
T Consensus 78 ~~~~inli-DTPG~~df~~~~~~~l~~aD~aIlVvDa~~gv-~~~t~~l~~~~~~~~~P-iivviNKiD~~~~~-~~~ll 153 (527)
T TIGR00503 78 RDCLVNLL-DTPGHEDFSEDTYRTLTAVDNCLMVIDAAKGV-ETRTRKLMEVTRLRDTP-IFTFMNKLDRDIRD-PLELL 153 (527)
T ss_pred CCeEEEEE-ECCChhhHHHHHHHHHHhCCEEEEEEECCCCC-CHHHHHHHHHHHhcCCC-EEEEEECccccCCC-HHHHH
Confidence 46678887 99999988841111 12334544 8999996 99999999999999987 88899999996433 23455
Q ss_pred HHHHhhh
Q psy13818 200 EQIVKFV 206 (207)
Q Consensus 200 ~eI~~~l 206 (207)
++|++.+
T Consensus 154 ~~i~~~l 160 (527)
T TIGR00503 154 DEVENEL 160 (527)
T ss_pred HHHHHHh
Confidence 6666554
No 79
>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=97.30 E-value=0.00042 Score=68.85 Aligned_cols=67 Identities=18% Similarity=0.134 Sum_probs=50.6
Q ss_pred cCCcEEEEEEeecCcceeeccccc-ccccccee--eecCCCCCCCchHHHHHHHHHcCCCeEEEEEecCCCCC
Q psy13818 122 EVNEKIALSRRVEKHWSLIEGTVT-TKVLSTRK--RTGNESCPQPQTSEHLAAIEIMKLKHIIILQNKIDLVK 191 (207)
Q Consensus 122 ~~G~kiaIsR~V~gh~rligg~~~-~nMiaGa~--V~A~eg~~~pQT~EHl~il~~lGI~~iIV~vNK~DlV~ 191 (207)
+.+.++.+. +.|||.+|.+-... -...+++. +|+.+|+ ++||.+|+..+...+++. |+++||||...
T Consensus 83 ~~~~~i~li-DTPG~~~f~~~~~~al~~aD~~llVvda~~g~-~~~t~~~~~~~~~~~~p~-ivviNKiD~~~ 152 (720)
T TIGR00490 83 GNEYLINLI-DTPGHVDFGGDVTRAMRAVDGAIVVVCAVEGV-MPQTETVLRQALKENVKP-VLFINKVDRLI 152 (720)
T ss_pred CCceEEEEE-eCCCccccHHHHHHHHHhcCEEEEEEecCCCC-CccHHHHHHHHHHcCCCE-EEEEEChhccc
Confidence 456688887 99999998831111 12223433 8899997 999999999988889986 59999999874
No 80
>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=97.27 E-value=0.00025 Score=69.56 Aligned_cols=62 Identities=21% Similarity=0.248 Sum_probs=46.6
Q ss_pred EEEEEeecCcceeec-ccccccccccee--eecCCCCCCCchHHHHHHHHHcCCCeEEEEEecCCCCC
Q psy13818 127 IALSRRVEKHWSLIE-GTVTTKVLSTRK--RTGNESCPQPQTSEHLAAIEIMKLKHIIILQNKIDLVK 191 (207)
Q Consensus 127 iaIsR~V~gh~rlig-g~~~~nMiaGa~--V~A~eg~~~pQT~EHl~il~~lGI~~iIV~vNK~DlV~ 191 (207)
+.|. +.|||++|.. +.-.-...+++. +|+++|. +|||.||+.+++..+++ +||++||+|+++
T Consensus 71 l~~i-DTpG~e~f~~l~~~~~~~aD~~IlVvD~~~g~-~~qt~e~i~~l~~~~vp-iIVv~NK~Dl~~ 135 (590)
T TIGR00491 71 LLFI-DTPGHEAFTNLRKRGGALADLAILIVDINEGF-KPQTQEALNILRMYKTP-FVVAANKIDRIP 135 (590)
T ss_pred EEEE-ECCCcHhHHHHHHHHHhhCCEEEEEEECCcCC-CHhHHHHHHHHHHcCCC-EEEEEECCCccc
Confidence 5565 9999999982 111111222322 8899996 99999999999999986 899999999974
No 81
>cd01887 IF2_eIF5B IF2/eIF5B (initiation factors 2/ eukaryotic initiation factor 5B) subfamily. IF2/eIF5B contribute to ribosomal subunit joining and function as GTPases that are maximally activated by the presence of both ribosomal subunits. As seen in other GTPases, IF2/IF5B undergoes conformational changes between its GTP- and GDP-bound states. Eukaryotic IF2/eIF5Bs possess three characteristic segments, including a divergent N-terminal region followed by conserved central and C-terminal segments. This core region is conserved among all known eukaryotic and archaeal IF2/eIF5Bs and eubacterial IF2s.
Probab=97.12 E-value=0.0016 Score=50.22 Aligned_cols=66 Identities=17% Similarity=0.182 Sum_probs=46.5
Q ss_pred CcEEEEEEeecCcceeec-ccccccccccee--eecCCCCCCCchHHHHHHHHHcCCCeEEEEEecCCCCCh
Q psy13818 124 NEKIALSRRVEKHWSLIE-GTVTTKVLSTRK--RTGNESCPQPQTSEHLAAIEIMKLKHIIILQNKIDLVKE 192 (207)
Q Consensus 124 G~kiaIsR~V~gh~rlig-g~~~~nMiaGa~--V~A~eg~~~pQT~EHl~il~~lGI~~iIV~vNK~DlV~~ 192 (207)
+.++.+. +.+|+.+|-. +...-...+++. +|++++. .+|+.+++..++..+++ +++++||+|+.+.
T Consensus 49 ~~~~~ii-DtpG~~~~~~~~~~~~~~~d~il~v~d~~~~~-~~~~~~~~~~~~~~~~p-~ivv~NK~Dl~~~ 117 (168)
T cd01887 49 IPGITFI-DTPGHEAFTNMRARGASLTDIAILVVAADDGV-MPQTIEAIKLAKAANVP-FIVALNKIDKPNA 117 (168)
T ss_pred cceEEEE-eCCCcHHHHHHHHHHHhhcCEEEEEEECCCCc-cHHHHHHHHHHHHcCCC-EEEEEEceecccc
Confidence 5567766 8888866542 111112222333 8888886 89999999999999875 8899999999854
No 82
>PRK13351 elongation factor G; Reviewed
Probab=97.11 E-value=0.0011 Score=65.15 Aligned_cols=80 Identities=21% Similarity=0.182 Sum_probs=59.6
Q ss_pred CCcEEEEEEeecCcceeec-ccccccccccee--eecCCCCCCCchHHHHHHHHHcCCCeEEEEEecCCCCChhhHHHHH
Q psy13818 123 VNEKIALSRRVEKHWSLIE-GTVTTKVLSTRK--RTGNESCPQPQTSEHLAAIEIMKLKHIIILQNKIDLVKEGQANEQH 199 (207)
Q Consensus 123 ~G~kiaIsR~V~gh~rlig-g~~~~nMiaGa~--V~A~eg~~~pQT~EHl~il~~lGI~~iIV~vNK~DlV~~~~~~~~~ 199 (207)
.+.++.+. +.|||-+|.+ +.-.-...+|+. +|+.++. ++||.+++..+...+++. ++++||+|+...+ ..+..
T Consensus 71 ~~~~i~li-DtPG~~df~~~~~~~l~~aD~~ilVvd~~~~~-~~~~~~~~~~~~~~~~p~-iiviNK~D~~~~~-~~~~~ 146 (687)
T PRK13351 71 DNHRINLI-DTPGHIDFTGEVERSLRVLDGAVVVFDAVTGV-QPQTETVWRQADRYGIPR-LIFINKMDRVGAD-LFKVL 146 (687)
T ss_pred CCEEEEEE-ECCCcHHHHHHHHHHHHhCCEEEEEEeCCCCC-CHHHHHHHHHHHhcCCCE-EEEEECCCCCCCC-HHHHH
Confidence 36678876 9999998885 222233345655 8999996 999999999999999985 5789999998754 34566
Q ss_pred HHHHhhh
Q psy13818 200 EQIVKFV 206 (207)
Q Consensus 200 ~eI~~~l 206 (207)
++|++.+
T Consensus 147 ~~i~~~l 153 (687)
T PRK13351 147 EDIEERF 153 (687)
T ss_pred HHHHHHH
Confidence 6777654
No 83
>cd01890 LepA LepA subfamily. LepA belongs to the GTPase family of and exhibits significant homology to the translation factors EF-G and EF-Tu, indicating its possible involvement in translation and association with the ribosome. LepA is ubiquitous in bacteria and eukaryota (e.g. yeast GUF1p), but is missing from archaea. This pattern of phyletic distribution suggests that LepA evolved through a duplication of the EF-G gene in bacteria, followed by early transfer into the eukaryotic lineage, most likely from the promitochondrial endosymbiont. Yeast GUF1p is not essential and mutant cells did not reveal any marked phenotype.
Probab=97.05 E-value=0.0018 Score=50.85 Aligned_cols=63 Identities=19% Similarity=0.117 Sum_probs=44.3
Q ss_pred EEEEEEeecCcceeec-cccc-ccccccee--eecCCCCCCCchHHHHHHHHHcCCCeEEEEEecCCCCCh
Q psy13818 126 KIALSRRVEKHWSLIE-GTVT-TKVLSTRK--RTGNESCPQPQTSEHLAAIEIMKLKHIIILQNKIDLVKE 192 (207)
Q Consensus 126 kiaIsR~V~gh~rlig-g~~~-~nMiaGa~--V~A~eg~~~pQT~EHl~il~~lGI~~iIV~vNK~DlV~~ 192 (207)
++.+. +.+||.+|.. +.-. ++ .+++. +|+.++. ..|+.+++..+...+++ +|+++||+|+.+.
T Consensus 68 ~~~l~-Dt~G~~~~~~~~~~~~~~-ad~~i~v~D~~~~~-~~~~~~~~~~~~~~~~~-iiiv~NK~Dl~~~ 134 (179)
T cd01890 68 LLNLI-DTPGHVDFSYEVSRSLAA-CEGALLLVDATQGV-EAQTLANFYLALENNLE-IIPVINKIDLPSA 134 (179)
T ss_pred EEEEE-ECCCChhhHHHHHHHHHh-cCeEEEEEECCCCc-cHhhHHHHHHHHHcCCC-EEEEEECCCCCcC
Confidence 45565 8899988864 1111 22 23333 8888875 78999998877777876 7889999999753
No 84
>TIGR03598 GTPase_YsxC ribosome biogenesis GTP-binding protein YsxC/EngB. Members of this protein family are a GTPase associated with ribosome biogenesis, typified by YsxC from Bacillus subutilis. The family is widely but not universally distributed among bacteria. Members commonly are called EngB based on homology to EngA, one of several other GTPases of ribosome biogenesis. Cutoffs as set find essentially all bacterial members, but also identify large numbers of eukaryotic (probably organellar) sequences. This protein is found in about 80 percent of bacterial genomes.
Probab=96.99 E-value=0.0022 Score=51.55 Aligned_cols=56 Identities=20% Similarity=0.173 Sum_probs=43.5
Q ss_pred cccee--eecCCCCCCCchHHHHHHHHHcCCCeEEEEEecCCCCChhhHHHHHHHHHhhh
Q psy13818 149 LSTRK--RTGNESCPQPQTSEHLAAIEIMKLKHIIILQNKIDLVKEGQANEQHEQIVKFV 206 (207)
Q Consensus 149 iaGa~--V~A~eg~~~pQT~EHl~il~~lGI~~iIV~vNK~DlV~~~~~~~~~~eI~~~l 206 (207)
..++. +|++.+. ..++.+++..+...+++ +++++||+|+.++++.+...+++++.+
T Consensus 101 ~~~ii~vvd~~~~~-~~~~~~~~~~~~~~~~p-viiv~nK~D~~~~~~~~~~~~~i~~~l 158 (179)
T TIGR03598 101 LKGVVLLMDIRHPL-KELDLEMLEWLRERGIP-VLIVLTKADKLKKSELNKQLKKIKKAL 158 (179)
T ss_pred hcEEEEEecCCCCC-CHHHHHHHHHHHHcCCC-EEEEEECcccCCHHHHHHHHHHHHHHH
Confidence 34555 8888775 88888888888888876 889999999998776666677777765
No 85
>cd03707 EFTU_III Domain III of elongation factor (EF) Tu. Ef-Tu consists of three structural domains, designated I, II and III. Domain III adopts a beta barrel structure. Domain III is involved in binding to both charged tRNA and binding to elongation factor Ts (EF-Ts). EF-Ts is the guanine-nucleotide-exchange factor for EF-Tu. EF-Tu and EF-G participate in the elongation phase during protein biosynthesis on the ribosome. Their functional cycles depend on GTP binding and its hydrolysis. The EF-Tu complexed with GTP and aminoacyl-tRNA delivers tRNA to the ribosome, whereas EF-G stimulates translocation, a process in which tRNA and mRNA movements occur in the ribosome. Crystallographic studies revealed structural similarities ("molecular mimicry") between tertiary structures of EF-G and the EF-Tu-aminoacyl-tRNA ternary complex. Domains III, IV, and V of EF-G mimic the tRNA structure in the EF-Tu ternary complex; domains III, IV and V can be related to the acceptor stem, anticodon helix
Probab=96.91 E-value=0.0027 Score=46.67 Aligned_cols=52 Identities=15% Similarity=0.187 Sum_probs=42.5
Q ss_pred eccCccCceEEEEeeccccceEEEEEe-------cceE--EEEeeCcccccCCcEEEEEEee
Q psy13818 81 VQKLTRNEVLLVNIGSLSTGGRVLATK-------ADLA--KISLTNPVCTEVNEKIALSRRV 133 (207)
Q Consensus 81 v~~l~~~E~lmlniGs~~t~g~V~~~~-------~Dla--~i~L~~Pvc~~~G~kiaIsR~V 133 (207)
-.+|+.|..+++.+||+.+.|++.... .|.+ ++.|..|+|.+.|.|..+ |+-
T Consensus 21 ~~~i~~g~~~~l~~gt~~~~~~i~~l~~~~~i~~g~~~~v~l~l~~pv~~~~~~rf~l-R~~ 81 (90)
T cd03707 21 HTPFFSGYRPQFYIRTTDVTGSITLPEGTEMVMPGDNVKMTVELIHPIALEKGLRFAI-REG 81 (90)
T ss_pred CCcccCCceeEEEeccCeEEEEEEccCcccccCCCCEEEEEEEECCcEEEecCCEEEE-ecC
Confidence 479999999999999999999998864 3444 555569999999999887 444
No 86
>cd03706 mtEFTU_III Domain III of mitochondrial EF-TU (mtEF-TU). mtEF-TU is highly conserved and is 55-60% identical to bacterial EF-TU. The overall structure is similar to that observed in the Escherichia coli and Thermus aquaticus EF-TU. However, compared with that observed in prokaryotic EF-TU the nucleotide-binding domain (domain I) of EF-TUmt is in a different orientation relative to the rest of the structure. Furthermore, domain III is followed by a short 11-amino acid extension that forms one helical turn. This extension seems to be specific to the mitochondrial factors and has not been observed in any of the prokaryotic factors.
Probab=96.78 E-value=0.0042 Score=46.10 Aligned_cols=60 Identities=17% Similarity=0.171 Sum_probs=48.0
Q ss_pred eccCccCceEEEEeeccccceEEEEEe-------cc--eEEEEeeCcccccCCcEEEEEEeecCcceeec-ccc
Q psy13818 81 VQKLTRNEVLLVNIGSLSTGGRVLATK-------AD--LAKISLTNPVCTEVNEKIALSRRVEKHWSLIE-GTV 144 (207)
Q Consensus 81 v~~l~~~E~lmlniGs~~t~g~V~~~~-------~D--la~i~L~~Pvc~~~G~kiaIsR~V~gh~rlig-g~~ 144 (207)
-.+|+.|..+.+.+||+.+.|+|.... .| .+++.|..|+|.+.|.|..+ |+-. +.|| |.|
T Consensus 21 ~~~i~~g~~~~~~~~t~~~~~~i~~~~~~~~l~~g~~~~v~i~l~~p~~~~~g~rf~l-R~~~---~tvg~G~V 90 (93)
T cd03706 21 HKPFVSNFQPQMFSLTWDCAARIDLPPGKEMVMPGEDTKVTLILRRPMVLEKGQRFTL-RDGN---RTIGTGLV 90 (93)
T ss_pred CccccCCCeeEEEeccceEEEEEECCCCCcEeCCCCEEEEEEEECCcEEEeeCCEEEE-EECC---EEEEEEEE
Confidence 489999999999999999999988864 33 45556669999999999887 5444 6787 665
No 87
>PRK12740 elongation factor G; Reviewed
Probab=96.78 E-value=0.0024 Score=62.36 Aligned_cols=81 Identities=20% Similarity=0.126 Sum_probs=56.8
Q ss_pred cCCcEEEEEEeecCcceeec-ccccccccccee--eecCCCCCCCchHHHHHHHHHcCCCeEEEEEecCCCCChhhHHHH
Q psy13818 122 EVNEKIALSRRVEKHWSLIE-GTVTTKVLSTRK--RTGNESCPQPQTSEHLAAIEIMKLKHIIILQNKIDLVKEGQANEQ 198 (207)
Q Consensus 122 ~~G~kiaIsR~V~gh~rlig-g~~~~nMiaGa~--V~A~eg~~~pQT~EHl~il~~lGI~~iIV~vNK~DlV~~~~~~~~ 198 (207)
+.+.++.++ +.|||-+|.+ +.-.-...+++. +|+.++. +.||.+++..+...+++. |+++||+|+...+ ..+.
T Consensus 57 ~~~~~i~li-DtPG~~~~~~~~~~~l~~aD~vllvvd~~~~~-~~~~~~~~~~~~~~~~p~-iiv~NK~D~~~~~-~~~~ 132 (668)
T PRK12740 57 WKGHKINLI-DTPGHVDFTGEVERALRVLDGAVVVVCAVGGV-EPQTETVWRQAEKYGVPR-IIFVNKMDRAGAD-FFRV 132 (668)
T ss_pred ECCEEEEEE-ECCCcHHHHHHHHHHHHHhCeEEEEEeCCCCc-CHHHHHHHHHHHHcCCCE-EEEEECCCCCCCC-HHHH
Confidence 456788887 9999988774 111122234444 8899986 999999999999999875 5589999998644 2344
Q ss_pred HHHHHhhh
Q psy13818 199 HEQIVKFV 206 (207)
Q Consensus 199 ~~eI~~~l 206 (207)
.+++++++
T Consensus 133 ~~~l~~~l 140 (668)
T PRK12740 133 LAQLQEKL 140 (668)
T ss_pred HHHHHHHH
Confidence 55565543
No 88
>CHL00071 tufA elongation factor Tu
Probab=96.69 E-value=0.0038 Score=57.96 Aligned_cols=97 Identities=19% Similarity=0.248 Sum_probs=72.7
Q ss_pred cccccceeeccCCCCCCcceEEEEEeHhhHHHHHhhhccCCcccccccceeeeeeecccccccCCcccceeccCccCceE
Q psy13818 11 RADRLVGQVLGAVGALPKIFIELEISYHLLKRLLGVRMEGDKKGAKLEISYHLLKRLLGVRMEGDKKGAKVQKLTRNEVL 90 (207)
Q Consensus 11 ~~d~lvG~v~g~~g~lp~v~~~l~i~~~Ll~r~~~~~~~~~~~~~~~~~~~~~~~~~~Gv~t~~~k~~~Kv~~l~~~E~l 90 (207)
+.|--.|.|++.++.+| ...+++.+..+|+..= .....+|+.|...
T Consensus 294 ~~~i~~G~vl~~~~~~~-~~~~f~a~i~~l~~~~---------------------------------~~~~~~i~~g~~~ 339 (409)
T CHL00071 294 KEDIERGMVLAKPGTIT-PHTKFEAQVYILTKEE---------------------------------GGRHTPFFPGYRP 339 (409)
T ss_pred HHHcCCeEEEecCCCCC-cceEEEEEEEEEeccc---------------------------------CCccccccCCceE
Confidence 45566799999998754 5688888887763311 0125789999999
Q ss_pred EEEeeccccceEEEEEec------------c--eEEEEeeCcccccCCcEEEEEEeecCcceeec-cccc
Q psy13818 91 LVNIGSLSTGGRVLATKA------------D--LAKISLTNPVCTEVNEKIALSRRVEKHWSLIE-GTVT 145 (207)
Q Consensus 91 mlniGs~~t~g~V~~~~~------------D--la~i~L~~Pvc~~~G~kiaIsR~V~gh~rlig-g~~~ 145 (207)
++.+|+....|+|..+.. | .+++.|..|+|.+.|.|..+ |+- ++.+| |.|.
T Consensus 340 ~~~~gt~~~~~~i~~i~~~~~~~~~~l~~g~~a~v~l~~~~pi~~e~~~rfil-R~~---~~tig~G~V~ 405 (409)
T CHL00071 340 QFYVRTTDVTGKIESFTADDGSKTEMVMPGDRIKMTVELIYPIAIEKGMRFAI-REG---GRTVGAGVVS 405 (409)
T ss_pred EEEEcccEEEEEEEEEcccCCCCCcEecCCCEEEEEEEECCeEEEeeCCEEEE-ecC---CeEEEEEEEE
Confidence 999999999999999964 3 45667789999999988776 432 68887 6654
No 89
>COG0481 LepA Membrane GTPase LepA [Cell envelope biogenesis, outer membrane]
Probab=96.53 E-value=0.011 Score=58.12 Aligned_cols=90 Identities=19% Similarity=0.194 Sum_probs=61.4
Q ss_pred ecceEEEEeeCcccccCCcE--EEEEEeecCcceeecccccccccc--cee--eecCCCCCCCchHHHHHHHHHcCCCeE
Q psy13818 107 KADLAKISLTNPVCTEVNEK--IALSRRVEKHWSLIEGTVTTKVLS--TRK--RTGNESCPQPQTSEHLAAIEIMKLKHI 180 (207)
Q Consensus 107 ~~Dla~i~L~~Pvc~~~G~k--iaIsR~V~gh~rligg~~~~nMia--Ga~--V~A~eg~~~pQT~EHl~il~~lGI~~i 180 (207)
|...+.+..+.. .|+. .-++ +.|||.+|. ..+-|...+ ||. |||.+|+ +.||.-+.+++=-.+++ +
T Consensus 60 Kaq~v~l~Yk~~----~g~~Y~lnlI-DTPGHVDFs-YEVSRSLAACEGalLvVDAsQGv-eAQTlAN~YlAle~~Le-I 131 (603)
T COG0481 60 KAQAVRLNYKAK----DGETYVLNLI-DTPGHVDFS-YEVSRSLAACEGALLVVDASQGV-EAQTLANVYLALENNLE-I 131 (603)
T ss_pred EeeEEEEEEEeC----CCCEEEEEEc-CCCCccceE-EEehhhHhhCCCcEEEEECccch-HHHHHHHHHHHHHcCcE-E
Confidence 444455544443 4553 3344 889999998 333354422 444 9999998 99999999999888885 8
Q ss_pred EEEEecCCCCChhhHHHHHHHHHhh
Q psy13818 181 IILQNKIDLVKEGQANEQHEQIVKF 205 (207)
Q Consensus 181 IV~vNK~DlV~~~~~~~~~~eI~~~ 205 (207)
|-|+||+||...+. +...+||.+.
T Consensus 132 iPViNKIDLP~Adp-ervk~eIe~~ 155 (603)
T COG0481 132 IPVLNKIDLPAADP-ERVKQEIEDI 155 (603)
T ss_pred EEeeecccCCCCCH-HHHHHHHHHH
Confidence 89999999976542 3444555543
No 90
>COG4108 PrfC Peptide chain release factor RF-3 [Translation, ribosomal structure and biogenesis]
Probab=96.27 E-value=0.0081 Score=58.35 Aligned_cols=80 Identities=16% Similarity=0.175 Sum_probs=60.7
Q ss_pred CCcEEEEEEeecCcceeeccccc-ccccccee--eecCCCCCCCchHHHHHHHHHcCCCeEEEEEecCCCCChhhHHHHH
Q psy13818 123 VNEKIALSRRVEKHWSLIEGTVT-TKVLSTRK--RTGNESCPQPQTSEHLAAIEIMKLKHIIILQNKIDLVKEGQANEQH 199 (207)
Q Consensus 123 ~G~kiaIsR~V~gh~rligg~~~-~nMiaGa~--V~A~eg~~~pQT~EHl~il~~lGI~~iIV~vNK~DlV~~~~~~~~~ 199 (207)
.|..+-|. +-|||++|-.-+.- -.-++.|- |||..|+ .|||+--+..|++=|++ ++-++||+|....+.+ +..
T Consensus 79 ~~~~iNLL-DTPGHeDFSEDTYRtLtAvDsAvMVIDaAKGi-E~qT~KLfeVcrlR~iP-I~TFiNKlDR~~rdP~-ELL 154 (528)
T COG4108 79 ADCLVNLL-DTPGHEDFSEDTYRTLTAVDSAVMVIDAAKGI-EPQTLKLFEVCRLRDIP-IFTFINKLDREGRDPL-ELL 154 (528)
T ss_pred CCeEEecc-CCCCccccchhHHHHHHhhheeeEEEecccCc-cHHHHHHHHHHhhcCCc-eEEEeeccccccCChH-HHH
Confidence 46677887 99999999852221 12223333 9999998 99999999999999998 8889999999887764 455
Q ss_pred HHHHhhh
Q psy13818 200 EQIVKFV 206 (207)
Q Consensus 200 ~eI~~~l 206 (207)
+||.+-|
T Consensus 155 dEiE~~L 161 (528)
T COG4108 155 DEIEEEL 161 (528)
T ss_pred HHHHHHh
Confidence 6666544
No 91
>PRK10512 selenocysteinyl-tRNA-specific translation factor; Provisional
Probab=96.17 E-value=0.013 Score=57.74 Aligned_cols=64 Identities=23% Similarity=0.332 Sum_probs=55.1
Q ss_pred eccCccCceEEEEeeccccceEEEEEecceEEEEeeCcccccCCcEEEEEEeecCcceeeccccc
Q psy13818 81 VQKLTRNEVLLVNIGSLSTGGRVLATKADLAKISLTNPVCTEVNEKIALSRRVEKHWSLIEGTVT 145 (207)
Q Consensus 81 v~~l~~~E~lmlniGs~~t~g~V~~~~~Dla~i~L~~Pvc~~~G~kiaIsR~V~gh~rligg~~~ 145 (207)
..||+.++.+++.+||+.+.|+|..+..+.+.+.|..|+|+..|+|..| |+.+.+.-+=||.|.
T Consensus 275 ~~~l~~~~~~~~~~gt~~~~~~i~~l~~~~~~l~l~~p~~~~~gdr~il-r~~s~~~tigGg~Vl 338 (614)
T PRK10512 275 HTPLTQWQPLHIHHAASHVTGRVSLLEDNLAELVLDTPLWLADNDRLVL-RDISARNTLAGARVV 338 (614)
T ss_pred CccCCCCCEEEEEEcccEEEEEEEEcCCeEEEEEECCcccccCCCEEEE-EeCCCCEEEEEEEEc
Confidence 4789999999999999999999999998999999999999999999888 676665444446665
No 92
>cd01882 BMS1 Bms1. Bms1 is an essential, evolutionarily conserved, nucleolar protein. Its depletion interferes with processing of the 35S pre-rRNA at sites A0, A1, and A2, and the formation of 40S subunits. Bms1, the putative endonuclease Rc11, and the essential U3 small nucleolar RNA form a stable subcomplex that is believed to control an early step in the formation of the 40S subumit. The C-terminal domain of Bms1 contains a GTPase-activating protein (GAP) that functions intramolecularly. It is believed that Rc11 activates Bms1 by acting as a guanine-nucleotide exchange factor (GEF) to promote GDP/GTP exchange, and that activated (GTP-bound) Bms1 delivers Rc11 to the preribosomes.
Probab=95.97 E-value=0.02 Score=48.93 Aligned_cols=50 Identities=12% Similarity=0.222 Sum_probs=39.1
Q ss_pred eecCCCCCCCchHHHHHHHHHcCCCeEEEEEecCCCCChh-hHHHHHHHHHh
Q psy13818 154 RTGNESCPQPQTSEHLAAIEIMKLKHIIILQNKIDLVKEG-QANEQHEQIVK 204 (207)
Q Consensus 154 V~A~eg~~~pQT~EHl~il~~lGI~~iIV~vNK~DlV~~~-~~~~~~~eI~~ 204 (207)
+|+.++. .+|+.+.+..++..|++.+|+++||+|+++.. ..++..+++++
T Consensus 111 iDa~~~~-~~~~~~i~~~l~~~g~p~vi~VvnK~D~~~~~~~~~~~~~~l~~ 161 (225)
T cd01882 111 IDASFGF-EMETFEFLNILQVHGFPRVMGVLTHLDLFKKNKTLRKTKKRLKH 161 (225)
T ss_pred EecCcCC-CHHHHHHHHHHHHcCCCeEEEEEeccccCCcHHHHHHHHHHHHH
Confidence 8899987 88999999999888999888999999998543 23344455544
No 93
>cd01894 EngA1 EngA1 subfamily. This CD represents the first GTPase domain of EngA and its orthologs, which are composed of two adjacent GTPase domains. Since the sequences of the two domains are more similar to each other than to other GTPases, it is likely that an ancient gene duplication, rather than a fusion of evolutionarily distinct GTPases, gave rise to this family. Although the exact function of these proteins has not been elucidated, studies have revealed that the E. coli EngA homolog, Der, and Neisseria gonorrhoeae EngA are essential for cell viability. A recent report suggests that E. coli Der functions in ribosome assembly and stability.
Probab=95.81 E-value=0.038 Score=41.71 Aligned_cols=69 Identities=20% Similarity=0.146 Sum_probs=44.8
Q ss_pred CCcEEEEEEeecCcceeec------cccc---ccccccee--eecCCCCCCCchHHHHHHHHHcCCCeEEEEEecCCCCC
Q psy13818 123 VNEKIALSRRVEKHWSLIE------GTVT---TKVLSTRK--RTGNESCPQPQTSEHLAAIEIMKLKHIIILQNKIDLVK 191 (207)
Q Consensus 123 ~G~kiaIsR~V~gh~rlig------g~~~---~nMiaGa~--V~A~eg~~~pQT~EHl~il~~lGI~~iIV~vNK~DlV~ 191 (207)
.+.++.+. +.||+..+.- +..+ -.-.+++. +++.++. ..+..++...++..+ ..+|+++||+|+.+
T Consensus 43 ~~~~~~i~-DtpG~~~~~~~~~~~~~~~~~~~~~~~d~ii~v~d~~~~~-~~~~~~~~~~~~~~~-~piiiv~nK~D~~~ 119 (157)
T cd01894 43 GGREFILI-DTGGIEPDDEGISKEIREQAELAIEEADVILFVVDGREGL-TPADEEIAKYLRKSK-KPVILVVNKVDNIK 119 (157)
T ss_pred CCeEEEEE-ECCCCCCchhHHHHHHHHHHHHHHHhCCEEEEEEeccccC-CccHHHHHHHHHhcC-CCEEEEEECcccCC
Confidence 34566666 8888877531 0000 11123333 7777765 677788888888777 56899999999987
Q ss_pred hhh
Q psy13818 192 EGQ 194 (207)
Q Consensus 192 ~~~ 194 (207)
.+.
T Consensus 120 ~~~ 122 (157)
T cd01894 120 EED 122 (157)
T ss_pred hHH
Confidence 654
No 94
>cd01513 Translation_factor_III Domain III of Elongation factor (EF) Tu (EF-TU) and EF-G. Elongation factors (EF) EF-Tu and EF-G participate in the elongation phase during protein biosynthesis on the ribosome. Their functional cycles depend on GTP binding and its hydrolysis. The EF-Tu complexed with GTP and aminoacyl-tRNA delivers tRNA to the ribosome, whereas EF-G stimulates translocation, a process in which tRNA and mRNA movements occur in the ribosome. Experimental data showed that: (1) intrinsic GTPase activity of EF-G is influenced by excision of its domain III; (2) that EF-G lacking domain III has a 1,000-fold decreased GTPase activity on the ribosome and, a slightly decreased affinity for GTP; and (3) EF-G lacking domain III does not stimulate translocation, despite the physical presence of domain IV which is also very important for translocation. These findings indicate an essential contribution of domain III to activation of GTP hydrolysis. Domains III and V of EF-G have the s
Probab=95.76 E-value=0.04 Score=40.51 Aligned_cols=48 Identities=21% Similarity=0.358 Sum_probs=40.7
Q ss_pred ccCccCceEEEEeeccccceEEEEEe------------------cceEEEEe--eCccccc------CCcEEEE
Q psy13818 82 QKLTRNEVLLVNIGSLSTGGRVLATK------------------ADLAKISL--TNPVCTE------VNEKIAL 129 (207)
Q Consensus 82 ~~l~~~E~lmlniGs~~t~g~V~~~~------------------~Dla~i~L--~~Pvc~~------~G~kiaI 129 (207)
.||+.|....+.+||+.+.|+|..+. .|.+.+.| ..|+|.+ .+.|..|
T Consensus 17 ~pl~~g~~~~l~~~t~~~~~~i~~i~~~~d~~~~~~~~~~~l~~~~~a~v~l~~~~pi~~e~~~~~~~~grfil 90 (102)
T cd01513 17 EPLSPGYKPVLNVGTAHVPGRIAKLLSKVDGKTEEKKPPEFLKSGERGIVEVELQKPVALETFSENQEGGRFAL 90 (102)
T ss_pred cccCCCCcEEEEeecCEEeEEEEeeeeecccCcccccCchhhcCCCEEEEEEEECCceEEEEhhhCCCcccEEE
Confidence 49999999999999999999999886 56666655 6899988 8888776
No 95
>PRK00093 GTP-binding protein Der; Reviewed
Probab=95.67 E-value=0.026 Score=51.79 Aligned_cols=50 Identities=20% Similarity=0.151 Sum_probs=38.4
Q ss_pred eecCCCCCCCchHHHHHHHHHcCCCeEEEEEecCCCCChhhHHHHHHHHHhh
Q psy13818 154 RTGNESCPQPQTSEHLAAIEIMKLKHIIILQNKIDLVKEGQANEQHEQIVKF 205 (207)
Q Consensus 154 V~A~eg~~~pQT~EHl~il~~lGI~~iIV~vNK~DlV~~~~~~~~~~eI~~~ 205 (207)
+|+.++. ..|+.+.+..+...|. .+||++||+|+++.+..++..+++.+.
T Consensus 263 iD~~~~~-~~~~~~i~~~~~~~~~-~~ivv~NK~Dl~~~~~~~~~~~~~~~~ 312 (435)
T PRK00093 263 IDATEGI-TEQDLRIAGLALEAGR-ALVIVVNKWDLVDEKTMEEFKKELRRR 312 (435)
T ss_pred EeCCCCC-CHHHHHHHHHHHHcCC-cEEEEEECccCCCHHHHHHHHHHHHHh
Confidence 8999996 8899888888777775 588999999999766555555555543
No 96
>PRK12736 elongation factor Tu; Reviewed
Probab=95.64 E-value=0.029 Score=51.89 Aligned_cols=97 Identities=22% Similarity=0.291 Sum_probs=69.1
Q ss_pred cccccceeeccCCCCCCcceEEEEEeHhhHHHHHhhhccCCcccccccceeeeeeecccccccCCcccceeccCccCceE
Q psy13818 11 RADRLVGQVLGAVGALPKIFIELEISYHLLKRLLGVRMEGDKKGAKLEISYHLLKRLLGVRMEGDKKGAKVQKLTRNEVL 90 (207)
Q Consensus 11 ~~d~lvG~v~g~~g~lp~v~~~l~i~~~Ll~r~~~~~~~~~~~~~~~~~~~~~~~~~~Gv~t~~~k~~~Kv~~l~~~E~l 90 (207)
+.|--.|.|++.++.+|+ +.+++.+..+|+..- | .+..+|+.|...
T Consensus 284 ~~~i~~G~vl~~~~~~~~-~~~f~a~i~vl~~~~------------------------~---------~~~~~i~~g~~~ 329 (394)
T PRK12736 284 RDEVERGQVLAKPGSIKP-HTKFKAEVYILTKEE------------------------G---------GRHTPFFNNYRP 329 (394)
T ss_pred HHhCCcceEEecCCCCCc-ceEEEEEEEEEeccc------------------------C---------CCCCcccCCceE
Confidence 345557999999997766 478888887764321 1 124678899999
Q ss_pred EEEeeccccceEEEEEe-------cce--EEEEeeCcccccCCcEEEEEEeecCcceeec-cccc
Q psy13818 91 LVNIGSLSTGGRVLATK-------ADL--AKISLTNPVCTEVNEKIALSRRVEKHWSLIE-GTVT 145 (207)
Q Consensus 91 mlniGs~~t~g~V~~~~-------~Dl--a~i~L~~Pvc~~~G~kiaIsR~V~gh~rlig-g~~~ 145 (207)
++.+||+...|++.... .|. +++.|..|+|.+.|+|..| |+ .| +.+| |.|+
T Consensus 330 ~l~~~t~~~~~~i~~~~~~~~l~~g~~a~v~l~~~~p~~~~~~~rfil-R~-~g--~tv~~G~V~ 390 (394)
T PRK12736 330 QFYFRTTDVTGSIELPEGTEMVMPGDNVTITVELIHPIAMEQGLKFAI-RE-GG--RTVGAGTVT 390 (394)
T ss_pred EEEEccCeEEEEEEecCCcceeCCCCEEEEEEEECceEEEeeCCEEEE-ec-CC--cEEEEEEEE
Confidence 99999999999986432 344 4555679999999998776 54 23 5666 6553
No 97
>PLN03126 Elongation factor Tu; Provisional
Probab=95.63 E-value=0.032 Score=53.59 Aligned_cols=96 Identities=21% Similarity=0.267 Sum_probs=71.2
Q ss_pred cccccceeeccCCCCCCcceEEEEEeHhhHHHHHhhhccCCcccccccceeeeeeecccccccCCcccceeccCccCceE
Q psy13818 11 RADRLVGQVLGAVGALPKIFIELEISYHLLKRLLGVRMEGDKKGAKLEISYHLLKRLLGVRMEGDKKGAKVQKLTRNEVL 90 (207)
Q Consensus 11 ~~d~lvG~v~g~~g~lp~v~~~l~i~~~Ll~r~~~~~~~~~~~~~~~~~~~~~~~~~~Gv~t~~~k~~~Kv~~l~~~E~l 90 (207)
+.|--.|.|+..++..|+ ..+++.++.+|+.-- ..+..+|+.|...
T Consensus 363 ~~di~rG~VL~~~~~~~~-~~~F~A~i~vL~~~~---------------------------------gg~~~~I~~G~~~ 408 (478)
T PLN03126 363 KADIQRGMVLAKPGSITP-HTKFEAIVYVLKKEE---------------------------------GGRHSPFFAGYRP 408 (478)
T ss_pred HHHcCCccEEecCCCCCc-eEEEEEEEEEecccc---------------------------------cCCcccccCCcEE
Confidence 456667999999987554 678998888775321 1124689999999
Q ss_pred EEEeeccccceEEEEEec------------c--eEEEEeeCcccccCCcEEEEEEeecCcceeec-ccc
Q psy13818 91 LVNIGSLSTGGRVLATKA------------D--LAKISLTNPVCTEVNEKIALSRRVEKHWSLIE-GTV 144 (207)
Q Consensus 91 mlniGs~~t~g~V~~~~~------------D--la~i~L~~Pvc~~~G~kiaIsR~V~gh~rlig-g~~ 144 (207)
++.+||..+.|+|..+.. | .+++.|..|+|.+.+.|+.+ |+- + +-+| |.|
T Consensus 409 ~lhigt~~~~~~I~~i~~~~~~~~~~l~~gd~a~v~l~~~~Pi~~~~~~Rfil-R~~-~--~Tva~G~V 473 (478)
T PLN03126 409 QFYMRTTDVTGKVTSIMNDKDEESKMVMPGDRVKMVVELIVPVACEQGMRFAI-REG-G--KTVGAGVI 473 (478)
T ss_pred EEEEEecEEEEEEEEEecccCCCccEeCCCCEEEEEEEECCeEEEccCCEEEE-ecC-C--ceEEEEEE
Confidence 999999999999999863 2 35567789999999998776 443 2 4454 544
No 98
>TIGR03594 GTPase_EngA ribosome-associated GTPase EngA. EngA (YfgK, Der) is a ribosome-associated essential GTPase with a duplication of its GTP-binding domain. It is broadly to universally distributed among bacteria. It appears to function in ribosome biogenesis or stability.
Probab=95.51 E-value=0.032 Score=50.95 Aligned_cols=49 Identities=22% Similarity=0.211 Sum_probs=36.4
Q ss_pred eecCCCCCCCchHHHHHHHHHcCCCeEEEEEecCCCC-ChhhHHHHHHHHHh
Q psy13818 154 RTGNESCPQPQTSEHLAAIEIMKLKHIIILQNKIDLV-KEGQANEQHEQIVK 204 (207)
Q Consensus 154 V~A~eg~~~pQT~EHl~il~~lGI~~iIV~vNK~DlV-~~~~~~~~~~eI~~ 204 (207)
+|+.++. ..|+.+.+..+...|. .+|+|+||+|++ +.+..++..+++.+
T Consensus 262 ~D~~~~~-~~~~~~~~~~~~~~~~-~iiiv~NK~Dl~~~~~~~~~~~~~~~~ 311 (429)
T TIGR03594 262 LDATEGI-TEQDLRIAGLILEAGK-ALVIVVNKWDLVKDEKTREEFKKELRR 311 (429)
T ss_pred EECCCCc-cHHHHHHHHHHHHcCC-cEEEEEECcccCCCHHHHHHHHHHHHH
Confidence 8999986 8899888888777775 589999999999 44444444445543
No 99
>cd01895 EngA2 EngA2 subfamily. This CD represents the second GTPase domain of EngA and its orthologs, which are composed of two adjacent GTPase domains. Since the sequences of the two domains are more similar to each other than to other GTPases, it is likely that an ancient gene duplication, rather than a fusion of evolutionarily distinct GTPases, gave rise to this family. Although the exact function of these proteins has not been elucidated, studies have revealed that the E. coli EngA homolog, Der, and Neisseria gonorrhoeae EngA are essential for cell viability. A recent report suggests that E. coli Der functions in ribosome assembly and stability.
Probab=95.44 E-value=0.052 Score=41.28 Aligned_cols=49 Identities=24% Similarity=0.232 Sum_probs=31.3
Q ss_pred eecCCCCCCCchHHHHHHHHHcCCCeEEEEEecCCCCCh--hhHHHHHHHHHh
Q psy13818 154 RTGNESCPQPQTSEHLAAIEIMKLKHIIILQNKIDLVKE--GQANEQHEQIVK 204 (207)
Q Consensus 154 V~A~eg~~~pQT~EHl~il~~lGI~~iIV~vNK~DlV~~--~~~~~~~~eI~~ 204 (207)
+|++.+. ..|..+.+..+...+ ..+++++||+|+.+. ....+..+++++
T Consensus 92 ~d~~~~~-~~~~~~~~~~~~~~~-~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~ 142 (174)
T cd01895 92 IDATEGI-TEQDLRIAGLILEEG-KALVIVVNKWDLVEKDSKTMKEFKKEIRR 142 (174)
T ss_pred EeCCCCc-chhHHHHHHHHHhcC-CCEEEEEeccccCCccHHHHHHHHHHHHh
Confidence 6777765 555554444444456 578899999999876 444444455544
No 100
>cd03708 GTPBP_III Domain III 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=95.28 E-value=0.063 Score=38.94 Aligned_cols=59 Identities=20% Similarity=0.331 Sum_probs=45.8
Q ss_pred ccCccCceEEEEeeccccceEEEEEe------cceE--EEEe-eCcccccCCcEEEEEEeecCcceeec-cccc
Q psy13818 82 QKLTRNEVLLVNIGSLSTGGRVLATK------ADLA--KISL-TNPVCTEVNEKIALSRRVEKHWSLIE-GTVT 145 (207)
Q Consensus 82 ~~l~~~E~lmlniGs~~t~g~V~~~~------~Dla--~i~L-~~Pvc~~~G~kiaIsR~V~gh~rlig-g~~~ 145 (207)
.+|+.|...++.++|+...++|..+. .|.+ ++.| ..|+|.+.|.|..+ |. | +.|| |.|+
T Consensus 17 ~~i~~Gy~~~l~~~t~~~~~~i~~i~~~~l~~g~~~~v~i~f~~~p~~~e~~grf~l--r~-g--~tva~G~I~ 85 (87)
T cd03708 17 TTISPGYQATVHIGSIRQTARIVSIDKDVLRTGDRALVRFRFLYHPEYLREGQRLIF--RE-G--RTKGVGEVT 85 (87)
T ss_pred CcccCCCEeEEEEcCCEEEEEEEeccHhhccCCCeEEEEEEECCCCcEEccCCeEEE--EC-C--CcEEEEEEE
Confidence 68999999999999999999998753 4544 4552 58999999999988 22 2 5777 7663
No 101
>cd04105 SR_beta Signal recognition particle receptor, beta subunit (SR-beta). SR-beta and SR-alpha form the heterodimeric signal recognition particle (SRP or SR) receptor that binds SRP to regulate protein translocation across the ER membrane. Nascent polypeptide chains are synthesized with an N-terminal hydrophobic signal sequence that binds SRP54, a component of the SRP. SRP directs targeting of the ribosome-nascent chain complex (RNC) to the ER membrane via interaction with the SR, which is localized to the ER membrane. The RNC is then transferred to the protein-conducting channel, or translocon, which facilitates polypeptide translation across the ER membrane or integration into the ER membrane. SR-beta is found only in eukaryotes; it is believed to control the release of the signal sequence from SRP54 upon binding of the ribosome to the translocon. High expression of SR-beta has been observed in human colon cancer, suggesting it may play a role in the development of this typ
Probab=95.02 E-value=0.067 Score=44.71 Aligned_cols=70 Identities=19% Similarity=0.074 Sum_probs=43.0
Q ss_pred CCcEEEEEEeecCcceeec-cccc-ccccccee--eecCCC-CCCCchHHHHHH-HH---Hc-CCCeEEEEEecCCCCCh
Q psy13818 123 VNEKIALSRRVEKHWSLIE-GTVT-TKVLSTRK--RTGNES-CPQPQTSEHLAA-IE---IM-KLKHIIILQNKIDLVKE 192 (207)
Q Consensus 123 ~G~kiaIsR~V~gh~rlig-g~~~-~nMiaGa~--V~A~eg-~~~pQT~EHl~i-l~---~l-GI~~iIV~vNK~DlV~~ 192 (207)
.+.++.+. +.|||.+|-. +.-. ++.+.|+. +|+... -...++.+++.- +. .. .-.-++|+.||+|+...
T Consensus 46 ~~~~~~l~-D~pG~~~~~~~~~~~~~~~~~~vV~VvD~~~~~~~~~~~~~~l~~il~~~~~~~~~~pvliv~NK~Dl~~a 124 (203)
T cd04105 46 KGKKFRLV-DVPGHPKLRDKLLETLKNSAKGIVFVVDSATFQKNLKDVAEFLYDILTDLEKVKNKIPVLIACNKQDLFTA 124 (203)
T ss_pred CCceEEEE-ECCCCHHHHHHHHHHHhccCCEEEEEEECccchhHHHHHHHHHHHHHHHHhhccCCCCEEEEecchhhccc
Confidence 45567765 9999999865 2222 44446655 777665 123556666542 22 11 23458899999999764
Q ss_pred h
Q psy13818 193 G 193 (207)
Q Consensus 193 ~ 193 (207)
.
T Consensus 125 ~ 125 (203)
T cd04105 125 K 125 (203)
T ss_pred C
Confidence 3
No 102
>PRK00454 engB GTP-binding protein YsxC; Reviewed
Probab=94.97 E-value=0.081 Score=42.21 Aligned_cols=51 Identities=14% Similarity=0.234 Sum_probs=35.3
Q ss_pred eecCCCCCCCchHHHHHHHHHcCCCeEEEEEecCCCCChhhHHHHHHHHHhhh
Q psy13818 154 RTGNESCPQPQTSEHLAAIEIMKLKHIIILQNKIDLVKEGQANEQHEQIVKFV 206 (207)
Q Consensus 154 V~A~eg~~~pQT~EHl~il~~lGI~~iIV~vNK~DlV~~~~~~~~~~eI~~~l 206 (207)
+|+..+. .++..+....++.++++ ++++.||+|+.+.++.+...+++++++
T Consensus 114 ~d~~~~~-~~~~~~i~~~l~~~~~~-~iiv~nK~Dl~~~~~~~~~~~~i~~~l 164 (196)
T PRK00454 114 IDSRHPL-KELDLQMIEWLKEYGIP-VLIVLTKADKLKKGERKKQLKKVRKAL 164 (196)
T ss_pred EecCCCC-CHHHHHHHHHHHHcCCc-EEEEEECcccCCHHHHHHHHHHHHHHH
Confidence 5666654 55555666677778876 788899999998766555555665543
No 103
>PLN03127 Elongation factor Tu; Provisional
Probab=94.86 E-value=0.064 Score=50.97 Aligned_cols=98 Identities=26% Similarity=0.302 Sum_probs=70.3
Q ss_pred ccccccceeeccCCCCCCcceEEEEEeHhhHHHHHhhhccCCcccccccceeeeeeecccccccCCcccceeccCccCce
Q psy13818 10 CRADRLVGQVLGAVGALPKIFIELEISYHLLKRLLGVRMEGDKKGAKLEISYHLLKRLLGVRMEGDKKGAKVQKLTRNEV 89 (207)
Q Consensus 10 ~~~d~lvG~v~g~~g~lp~v~~~l~i~~~Ll~r~~~~~~~~~~~~~~~~~~~~~~~~~~Gv~t~~~k~~~Kv~~l~~~E~ 89 (207)
.+.|--.|+|+..++. |+...+++.+.++|+.--| | ...+|..|-.
T Consensus 336 ~~~~i~rG~Vl~~~~~-~~~~~~F~A~i~vl~~~~g-----------------------g----------~~~~i~~g~~ 381 (447)
T PLN03127 336 KREDVQRGQVICKPGS-IKTYKKFEAEIYVLTKDEG-----------------------G----------RHTPFFSNYR 381 (447)
T ss_pred CHHHCCCccEEecCCC-CceeEEEEEEEEEEccccc-----------------------c----------cCcccccCce
Confidence 3345557999999976 5668899999887753210 1 2357888998
Q ss_pred EEEEeeccccceEEEEEe-------cce--EEEEeeCcccccCCcEEEEEEeecCcceeec-cccc
Q psy13818 90 LLVNIGSLSTGGRVLATK-------ADL--AKISLTNPVCTEVNEKIALSRRVEKHWSLIE-GTVT 145 (207)
Q Consensus 90 lmlniGs~~t~g~V~~~~-------~Dl--a~i~L~~Pvc~~~G~kiaIsR~V~gh~rlig-g~~~ 145 (207)
.++.+||+...|++.-.. .|. +++.|..|+|.+.|.|..+ |+- | +.+| |.|+
T Consensus 382 ~~~~~~t~~~~~~i~~~~~~~~l~~gd~a~v~l~~~~p~~le~g~Rfil-R~~-g--~Tvg~G~V~ 443 (447)
T PLN03127 382 PQFYLRTADVTGKVELPEGVKMVMPGDNVTAVFELISPVPLEPGQRFAL-REG-G--RTVGAGVVS 443 (447)
T ss_pred eEEEeeecceeEEEEeccCccccCCCCEEEEEEEECceEEEeeCCEEEE-EeC-C--cEEEEEEEE
Confidence 999999999999986432 344 4556679999999998776 543 3 6776 7664
No 104
>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=94.82 E-value=0.075 Score=52.05 Aligned_cols=61 Identities=18% Similarity=0.254 Sum_probs=52.7
Q ss_pred ccCccCceEEEEeeccccceEEEEEecceEEEEeeCcccccCCcEEEEEEeecCcceeec-cccc
Q psy13818 82 QKLTRNEVLLVNIGSLSTGGRVLATKADLAKISLTNPVCTEVNEKIALSRRVEKHWSLIE-GTVT 145 (207)
Q Consensus 82 ~~l~~~E~lmlniGs~~t~g~V~~~~~Dla~i~L~~Pvc~~~G~kiaIsR~V~gh~rlig-g~~~ 145 (207)
.+|+.+..+.+.+||..+.|+|.....+.+.+.|..|+|+..|+|..+ |+ +--+.|| |.|.
T Consensus 275 ~~l~~~~~~~~~~gt~~~~~~i~~l~~~~~~l~l~~P~~~~~gd~~i~-r~--~~~~tiggg~vl 336 (581)
T TIGR00475 275 VPLLELQPYHIAHGMSVTTGKISLLDKGIALLTLDAPLILAKGDKLVL-RD--SSGNFLAGARVL 336 (581)
T ss_pred CccCCCCeEEEEEeceEEEEEEEEccCcEEEEEECCceecCCCCEEEE-Ee--CCCEEEeeeEEe
Confidence 589999999999999999999999999999999999999999997776 67 3345666 5555
No 105
>PRK12317 elongation factor 1-alpha; Reviewed
Probab=94.70 E-value=0.08 Score=49.06 Aligned_cols=94 Identities=21% Similarity=0.209 Sum_probs=69.2
Q ss_pred ccccccceeeccCCCCCCcceEEEEEeHhhHHHHHhhhccCCcccccccceeeeeeecccccccCCcccceeccCccCce
Q psy13818 10 CRADRLVGQVLGAVGALPKIFIELEISYHLLKRLLGVRMEGDKKGAKLEISYHLLKRLLGVRMEGDKKGAKVQKLTRNEV 89 (207)
Q Consensus 10 ~~~d~lvG~v~g~~g~lp~v~~~l~i~~~Ll~r~~~~~~~~~~~~~~~~~~~~~~~~~~Gv~t~~~k~~~Kv~~l~~~E~ 89 (207)
.+.|--.|.|++.++..|++..+++.+..+|+ . -.+|++|..
T Consensus 296 ~~~~i~rG~vl~~~~~~~~~~~~f~a~v~~l~------------------------------------~--~~~i~~G~~ 337 (425)
T PRK12317 296 GKKDIKRGDVCGHPDNPPTVAEEFTAQIVVLQ------------------------------------H--PSAITVGYT 337 (425)
T ss_pred CHHHccCccEecCCCCCCCcccEEEEEEEEEC------------------------------------C--CCcCCCCCe
Confidence 44566789999999988888889988876541 1 257889999
Q ss_pred EEEEeeccccceEEEEEe--------------------cceE--EEEeeCcccccCC------cEEEEEEeecCcceeec
Q psy13818 90 LLVNIGSLSTGGRVLATK--------------------ADLA--KISLTNPVCTEVN------EKIALSRRVEKHWSLIE 141 (207)
Q Consensus 90 lmlniGs~~t~g~V~~~~--------------------~Dla--~i~L~~Pvc~~~G------~kiaIsR~V~gh~rlig 141 (207)
.++.+||....|+|..+. .|.| ++.|..|+|.+.+ .|+.| |+ .| +-+|
T Consensus 338 ~~~~~~t~~~~~~i~~i~~~~d~~t~~~~~~~p~~l~~g~~a~v~l~~~~p~~~~~~~~~~~lgrfil-r~-~g--~tv~ 413 (425)
T PRK12317 338 PVFHAHTAQVACTFEELVKKLDPRTGQVAEENPQFIKTGDAAIVKIKPTKPLVIEKVKEIPQLGRFAI-RD-MG--QTIA 413 (425)
T ss_pred EEEEEcCcEEEEEEEEEEEEeccccccccCCCCcEECCCCEEEEEEEECCeeEEEeCCcCCCCccEEE-EE-CC--CeEE
Confidence 999999999999998873 3444 4556789999886 57666 45 33 4565
Q ss_pred -cccc
Q psy13818 142 -GTVT 145 (207)
Q Consensus 142 -g~~~ 145 (207)
|.|.
T Consensus 414 ~G~i~ 418 (425)
T PRK12317 414 AGMVI 418 (425)
T ss_pred EEEEE
Confidence 6654
No 106
>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=94.48 E-value=0.14 Score=47.62 Aligned_cols=72 Identities=17% Similarity=0.260 Sum_probs=56.0
Q ss_pred cceeeccCCCCCCcceEEEEEeHhhHHHHHhhhccCCcccccccceeeeeeecccccccCCcccceeccCccCceEEEEe
Q psy13818 15 LVGQVLGAVGALPKIFIELEISYHLLKRLLGVRMEGDKKGAKLEISYHLLKRLLGVRMEGDKKGAKVQKLTRNEVLLVNI 94 (207)
Q Consensus 15 lvG~v~g~~g~lp~v~~~l~i~~~Ll~r~~~~~~~~~~~~~~~~~~~~~~~~~~Gv~t~~~k~~~Kv~~l~~~E~lmlni 94 (207)
-.|.|+..++..|++..+++.+...| . ..+|+.|...++.+
T Consensus 291 ~rG~vl~~~~~~~~~~~~f~a~i~~l-----------------------------------~----~~~i~~g~~~~l~~ 331 (406)
T TIGR02034 291 SRGDLLAAADSAPEVADQFAATLVWM-----------------------------------A----EEPLLPGRSYDLKL 331 (406)
T ss_pred CCccEEEcCCCCCCcceEEEEEEEEe-----------------------------------C----hhhcCCCCEEEEEe
Confidence 34899999999888888888775432 1 14799999999999
Q ss_pred eccccceEEEEEec------------------c--eEEEEeeCcccccCCc
Q psy13818 95 GSLSTGGRVLATKA------------------D--LAKISLTNPVCTEVNE 125 (207)
Q Consensus 95 Gs~~t~g~V~~~~~------------------D--la~i~L~~Pvc~~~G~ 125 (207)
||+.+.|+|..+.. | ++++.+..|+|.+.-+
T Consensus 332 gt~~~~~~i~~i~~~~d~~t~~~~~~~~l~~~~~~~v~l~~~~p~~~~~~~ 382 (406)
T TIGR02034 332 GTRKVRASVAAIKHKVDVNTLEKGAAKSLELNEIGRVNLSLDEPIAFDPYA 382 (406)
T ss_pred CCCEEEEEEEEEEEEecCCCCcccCCcccCCCCEEEEEEEECCeeccCccc
Confidence 99999999988853 3 3455668899988555
No 107
>cd01857 HSR1_MMR1 HSR1/MMR1. Human HSR1, is localized to the human MHC class I region and is highly homologous to a putative GTP-binding protein, MMR1 from mouse. These proteins represent a new subfamily of GTP-binding proteins that has only eukaryote members. This subfamily shows a circular permutation of the GTPase signature motifs so that the C-terminal strands 5, 6, and 7 (strand 6 contains the G4 box with sequence NKXD) are relocated to the N terminus.
Probab=94.19 E-value=0.15 Score=39.82 Aligned_cols=40 Identities=23% Similarity=0.196 Sum_probs=25.8
Q ss_pred eecCCCCCCCchHHHHHHHHHc-CCCeEEEEEecCCCCChhh
Q psy13818 154 RTGNESCPQPQTSEHLAAIEIM-KLKHIIILQNKIDLVKEGQ 194 (207)
Q Consensus 154 V~A~eg~~~pQT~EHl~il~~l-GI~~iIV~vNK~DlV~~~~ 194 (207)
+|+.++. ..|-.+-...+... .=+.+|+++||+|+++++.
T Consensus 19 iD~~~p~-~~~~~~l~~~l~~~~~~k~~iivlNK~DL~~~~~ 59 (141)
T cd01857 19 VDARNPL-LFRPPDLERYVKEVDPRKKNILLLNKADLLTEEQ 59 (141)
T ss_pred EEccCCc-ccCCHHHHHHHHhccCCCcEEEEEechhcCCHHH
Confidence 7777664 45544444444444 2357889999999987654
No 108
>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=94.03 E-value=0.1 Score=48.16 Aligned_cols=96 Identities=18% Similarity=0.249 Sum_probs=67.9
Q ss_pred ccccceeeccCCCCCCcceEEEEEeHhhHHHHHhhhccCCcccccccceeeeeeecccccccCCcccceeccCccCceEE
Q psy13818 12 ADRLVGQVLGAVGALPKIFIELEISYHLLKRLLGVRMEGDKKGAKLEISYHLLKRLLGVRMEGDKKGAKVQKLTRNEVLL 91 (207)
Q Consensus 12 ~d~lvG~v~g~~g~lp~v~~~l~i~~~Ll~r~~~~~~~~~~~~~~~~~~~~~~~~~~Gv~t~~~k~~~Kv~~l~~~E~lm 91 (207)
.|--.|.|++.++.+|+ ..+++.+..+|+.-- | .+-.+|+.|...+
T Consensus 285 ~~i~rG~vl~~~~~~~~-~~~f~a~i~vl~~~~------------------------g---------~~~~~i~~g~~~~ 330 (394)
T TIGR00485 285 EEIERGMVLAKPGSIKP-HTKFEAEVYVLKKEE------------------------G---------GRHTPFFSGYRPQ 330 (394)
T ss_pred HHCCccEEEecCCCCCc-ceEEEEEEEEEecCC------------------------C---------CCCCccccCceEE
Confidence 44457999999987655 578887777653211 1 1346889999999
Q ss_pred EEeeccccceEEEEEe-------cce--EEEEeeCcccccCCcEEEEEEeecCcceeec-cccc
Q psy13818 92 VNIGSLSTGGRVLATK-------ADL--AKISLTNPVCTEVNEKIALSRRVEKHWSLIE-GTVT 145 (207)
Q Consensus 92 lniGs~~t~g~V~~~~-------~Dl--a~i~L~~Pvc~~~G~kiaIsR~V~gh~rlig-g~~~ 145 (207)
+.+||..+.|++.... .|. +++.|..|+|.+.|+|..+ |+- | +.+| |.|.
T Consensus 331 l~~~t~~~~~~i~~~~~~~~l~~g~~a~v~~~~~~p~~~~~~~rfil-R~~-g--~tv~~G~V~ 390 (394)
T TIGR00485 331 FYFRTTDVTGSITLPEGVEMVMPGDNVKMTVELISPIALEQGMRFAI-REG-G--RTVGAGVVS 390 (394)
T ss_pred EEEecceEEEEEEecCCcceeCCCCEEEEEEEECceEEEeECCEEEE-ecC-C--cEEEEEEEE
Confidence 9999999999997543 344 4556669999999999887 542 3 4665 6554
No 109
>cd01858 NGP_1 NGP-1. Autoantigen NGP-1 (Nucleolar G-protein gene 1) has been shown to localize in the nucleolus and nucleolar organizers in all cell types analyzed, which is indicative of a function in ribosomal assembly. NGP-1 and its homologs show a circular permutation of the GTPase signature motifs so that the C-terminal strands 5, 6, and 7 (strand 6 contains the G4 box with NKXD motif) are relocated to the N terminus.
Probab=93.81 E-value=0.18 Score=39.98 Aligned_cols=43 Identities=21% Similarity=0.198 Sum_probs=25.2
Q ss_pred eecCCCCCCCchHHHHHHHHHcC-CCeEEEEEecCCCCChhhHHH
Q psy13818 154 RTGNESCPQPQTSEHLAAIEIMK-LKHIIILQNKIDLVKEGQANE 197 (207)
Q Consensus 154 V~A~eg~~~pQT~EHl~il~~lG-I~~iIV~vNK~DlV~~~~~~~ 197 (207)
+|+.+.. .++..+-...++... -+..|+++||+|+++.++.+.
T Consensus 16 vD~~~p~-~~~~~~i~~~l~~~~~~~p~ilVlNKiDl~~~~~~~~ 59 (157)
T cd01858 16 LDARDPM-GTRCKHVEEYLKKEKPHKHLIFVLNKCDLVPTWVTAR 59 (157)
T ss_pred EECCCCc-cccCHHHHHHHHhccCCCCEEEEEEchhcCCHHHHHH
Confidence 6776653 344443333333322 146899999999987664433
No 110
>PRK05506 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional
Probab=93.73 E-value=0.21 Score=48.96 Aligned_cols=72 Identities=15% Similarity=0.275 Sum_probs=56.9
Q ss_pred ceeeccCCCCCCcceEEEEEeHhhHHHHHhhhccCCcccccccceeeeeeecccccccCCcccceeccCccCceEEEEee
Q psy13818 16 VGQVLGAVGALPKIFIELEISYHLLKRLLGVRMEGDKKGAKLEISYHLLKRLLGVRMEGDKKGAKVQKLTRNEVLLVNIG 95 (207)
Q Consensus 16 vG~v~g~~g~lp~v~~~l~i~~~Ll~r~~~~~~~~~~~~~~~~~~~~~~~~~~Gv~t~~~k~~~Kv~~l~~~E~lmlniG 95 (207)
.|+|+..+++.|++..+++.+...|. ..++..|...++.+|
T Consensus 316 rG~vL~~~~~~~~~~~~f~a~i~~l~---------------------------------------~~~~~~g~~~~l~~g 356 (632)
T PRK05506 316 RGDMLARADNRPEVADQFDATVVWMA---------------------------------------EEPLLPGRPYLLKHG 356 (632)
T ss_pred CccEEecCCCCCcceeEEEEEEEEec---------------------------------------ccccCCCCeEEEEeC
Confidence 69999999999999999988876542 124667888999999
Q ss_pred ccccceEEEEEe------------------cce--EEEEeeCcccccCCcE
Q psy13818 96 SLSTGGRVLATK------------------ADL--AKISLTNPVCTEVNEK 126 (207)
Q Consensus 96 s~~t~g~V~~~~------------------~Dl--a~i~L~~Pvc~~~G~k 126 (207)
|....|+|..+. .|. +++.+..|+|.+..++
T Consensus 357 t~~~~a~i~~i~~~~d~~t~~~~~p~~l~~g~~~~v~l~~~~pi~~e~~~~ 407 (632)
T PRK05506 357 TRTVPASVAAIKYRVDVNTLERLAAKTLELNEIGRCNLSTDAPIAFDPYAR 407 (632)
T ss_pred CCEEEEEEEEEEEEecCCCCccCCcceeCCCCEEEEEEEECCEEeeeeccc
Confidence 999999998773 233 4566789999998876
No 111
>cd04164 trmE TrmE (MnmE, ThdF, MSS1) is a 3-domain protein found in bacteria and eukaryotes. It controls modification of the uridine at the wobble position (U34) of tRNAs that read codons ending with A or G in the mixed codon family boxes. TrmE contains a GTPase domain that forms a canonical Ras-like fold. It functions a molecular switch GTPase, and apparently uses a conformational change associated with GTP hydrolysis to promote the tRNA modification reaction, in which the conserved cysteine in the C-terminal domain is thought to function as a catalytic residue. In bacteria that are able to survive in extremely low pH conditions, TrmE regulates glutamate-dependent acid resistance.
Probab=93.71 E-value=0.22 Score=37.37 Aligned_cols=65 Identities=17% Similarity=0.126 Sum_probs=40.3
Q ss_pred CcEEEEEEeecCcceeeccc-------cc--ccccccee--eecCCCCCCCchHHHHHHHHHcCCCeEEEEEecCCCCCh
Q psy13818 124 NEKIALSRRVEKHWSLIEGT-------VT--TKVLSTRK--RTGNESCPQPQTSEHLAAIEIMKLKHIIILQNKIDLVKE 192 (207)
Q Consensus 124 G~kiaIsR~V~gh~rligg~-------~~--~nMiaGa~--V~A~eg~~~pQT~EHl~il~~lGI~~iIV~vNK~DlV~~ 192 (207)
+.++.+. +.+|+.++.... .. -....++. +|+.. +.+.++..++....-..+|+++||+|+++.
T Consensus 48 ~~~~~i~-DtpG~~~~~~~~~~~~~~~~~~~~~~~~~~v~v~d~~~----~~~~~~~~~~~~~~~~~vi~v~nK~D~~~~ 122 (157)
T cd04164 48 GIPVRLI-DTAGIRETEDEIEKIGIERAREAIEEADLVLFVIDASR----GLDEEDLEILELPADKPIIVVLNKSDLLPD 122 (157)
T ss_pred CEEEEEE-ECCCcCCCcchHHHHHHHHHHHHHhhCCEEEEEEECCC----CCCHHHHHHHHhhcCCCEEEEEEchhcCCc
Confidence 4466665 888876654210 00 01122322 55554 567777777777777889999999999865
Q ss_pred h
Q psy13818 193 G 193 (207)
Q Consensus 193 ~ 193 (207)
.
T Consensus 123 ~ 123 (157)
T cd04164 123 S 123 (157)
T ss_pred c
Confidence 4
No 112
>PRK12289 GTPase RsgA; Reviewed
Probab=93.56 E-value=0.59 Score=43.41 Aligned_cols=41 Identities=32% Similarity=0.296 Sum_probs=27.3
Q ss_pred eecCCCCCCC-chHHHHHHHHHcCCCeEEEEEecCCCCChhhH
Q psy13818 154 RTGNESCPQP-QTSEHLAAIEIMKLKHIIILQNKIDLVKEGQA 195 (207)
Q Consensus 154 V~A~eg~~~p-QT~EHl~il~~lGI~~iIV~vNK~DlV~~~~~ 195 (207)
+|+.+.-+.+ +-.+.+..+...++ .+|+|+||+||+++++.
T Consensus 97 ~d~~~p~~~~~~LdR~L~~a~~~~i-p~ILVlNK~DLv~~~~~ 138 (352)
T PRK12289 97 FALAEPPLDPWQLSRFLVKAESTGL-EIVLCLNKADLVSPTEQ 138 (352)
T ss_pred EECCCCCCCHHHHHHHHHHHHHCCC-CEEEEEEchhcCChHHH
Confidence 5655442234 44566666666786 57899999999976543
No 113
>PRK01889 GTPase RsgA; Reviewed
Probab=93.36 E-value=1.7 Score=40.04 Aligned_cols=37 Identities=19% Similarity=0.097 Sum_probs=25.5
Q ss_pred eecCCCCCCCchHHHH-HHHHHcCCCeEEEEEecCCCCCh
Q psy13818 154 RTGNESCPQPQTSEHL-AAIEIMKLKHIIILQNKIDLVKE 192 (207)
Q Consensus 154 V~A~eg~~~pQT~EHl-~il~~lGI~~iIV~vNK~DlV~~ 192 (207)
++++.. +.+...|++ .++...|++- +||+||+||+++
T Consensus 120 ~s~~p~-~~~~~ldr~L~~a~~~~i~p-iIVLNK~DL~~~ 157 (356)
T PRK01889 120 CSLNHD-FNLRRIERYLALAWESGAEP-VIVLTKADLCED 157 (356)
T ss_pred EecCCC-CChhHHHHHHHHHHHcCCCE-EEEEEChhcCCC
Confidence 444434 377555555 4558899965 678999999875
No 114
>COG2229 Predicted GTPase [General function prediction only]
Probab=93.26 E-value=0.29 Score=42.54 Aligned_cols=67 Identities=12% Similarity=0.051 Sum_probs=45.8
Q ss_pred cccCC-cEEEEEEeecCcceeec-cccc-ccccccee--eecCCCCCCCchHHHHHHHHHcCCC---eEEEEEecCCCCC
Q psy13818 120 CTEVN-EKIALSRRVEKHWSLIE-GTVT-TKVLSTRK--RTGNESCPQPQTSEHLAAIEIMKLK---HIIILQNKIDLVK 191 (207)
Q Consensus 120 c~~~G-~kiaIsR~V~gh~rlig-g~~~-~nMiaGa~--V~A~eg~~~pQT~EHl~il~~lGI~---~iIV~vNK~DlV~ 191 (207)
|.-.+ ..+.+. ..|||.||== |.+. ++ .-|+. ||++ .|||++-..|++++-.+ +++|+.||.||-+
T Consensus 62 ~~~~~~~~v~Lf-gtPGq~RF~fm~~~l~~g-a~gaivlVDss----~~~~~~a~~ii~f~~~~~~ip~vVa~NK~DL~~ 135 (187)
T COG2229 62 IELDEDTGVHLF-GTPGQERFKFMWEILSRG-AVGAIVLVDSS----RPITFHAEEIIDFLTSRNPIPVVVAINKQDLFD 135 (187)
T ss_pred eEEcCcceEEEe-cCCCcHHHHHHHHHHhCC-cceEEEEEecC----CCcchHHHHHHHHHhhccCCCEEEEeeccccCC
Confidence 44444 467776 9999999865 7766 55 45665 6654 36776444555555544 4999999999987
Q ss_pred h
Q psy13818 192 E 192 (207)
Q Consensus 192 ~ 192 (207)
.
T Consensus 136 a 136 (187)
T COG2229 136 A 136 (187)
T ss_pred C
Confidence 4
No 115
>PRK04213 GTP-binding protein; Provisional
Probab=93.14 E-value=0.22 Score=40.36 Aligned_cols=31 Identities=23% Similarity=0.313 Sum_probs=24.1
Q ss_pred CCchHHHHHHHHHcCCCeEEEEEecCCCCChh
Q psy13818 162 QPQTSEHLAAIEIMKLKHIIILQNKIDLVKEG 193 (207)
Q Consensus 162 ~pQT~EHl~il~~lGI~~iIV~vNK~DlV~~~ 193 (207)
.+++.+.+..+...+++ ++|++||+|+.+.+
T Consensus 116 ~~~~~~l~~~~~~~~~p-~iiv~NK~Dl~~~~ 146 (201)
T PRK04213 116 IPIDVEMFDFLRELGIP-PIVAVNKMDKIKNR 146 (201)
T ss_pred cHHHHHHHHHHHHcCCC-eEEEEECccccCcH
Confidence 45677878887777876 58899999997654
No 116
>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=93.03 E-value=0.28 Score=45.60 Aligned_cols=93 Identities=20% Similarity=0.243 Sum_probs=65.3
Q ss_pred cccccceeeccCCCCCCcceEEEEEeHhhHHHHHhhhccCCcccccccceeeeeeecccccccCCcccceeccCccCceE
Q psy13818 11 RADRLVGQVLGAVGALPKIFIELEISYHLLKRLLGVRMEGDKKGAKLEISYHLLKRLLGVRMEGDKKGAKVQKLTRNEVL 90 (207)
Q Consensus 11 ~~d~lvG~v~g~~g~lp~v~~~l~i~~~Ll~r~~~~~~~~~~~~~~~~~~~~~~~~~~Gv~t~~~k~~~Kv~~l~~~E~l 90 (207)
+.|--.|+|++.++.-|+..++++.+..+|. .-.+|+.|-.-
T Consensus 299 ~~~i~rG~vl~~~~~~~~~~~~f~a~v~~l~--------------------------------------~~~~i~~g~~~ 340 (426)
T TIGR00483 299 KKDIRRGDVCGHPDNPPKVAKEFTAQIVVLQ--------------------------------------HPGAITVGYTP 340 (426)
T ss_pred hhhcccceEEecCCCCCceeeEEEEEEEEEC--------------------------------------CCCccCCCCeE
Confidence 3455579999999886777778877765541 02478888777
Q ss_pred EEEeeccccceEEEEEe--------------------cceE--EEEeeCcccccC------CcEEEEEEeecCcceeec-
Q psy13818 91 LVNIGSLSTGGRVLATK--------------------ADLA--KISLTNPVCTEV------NEKIALSRRVEKHWSLIE- 141 (207)
Q Consensus 91 mlniGs~~t~g~V~~~~--------------------~Dla--~i~L~~Pvc~~~------G~kiaIsR~V~gh~rlig- 141 (207)
++.+||....|+|..+. .|.+ ++.|..|+|.+. +.|..| |+- | +.||
T Consensus 341 ~~~~~t~~~~~~i~~i~~~~~~~t~~~~~~~p~~l~~g~~a~v~l~~~~pi~~e~~~~~~~~grf~l-r~~-g--~tv~~ 416 (426)
T TIGR00483 341 VFHCHTAQIACRFDELLKKNDPRTGQVLEENPQFLKTGDAAIVKFKPTKPMVIEAVKEIPPLGRFAI-RDM-G--QTVAA 416 (426)
T ss_pred EEEecCcEEEEEEEEEEEEecCccccccCCCCceeCCCCEEEEEEEECCeeEEeecccCCCCccEEE-EEC-C--CEEEE
Confidence 78999999999998763 3444 445678999886 667776 453 3 4565
Q ss_pred cccc
Q psy13818 142 GTVT 145 (207)
Q Consensus 142 g~~~ 145 (207)
|.|.
T Consensus 417 G~v~ 420 (426)
T TIGR00483 417 GMII 420 (426)
T ss_pred EEEE
Confidence 6654
No 117
>KOG1144|consensus
Probab=92.98 E-value=0.1 Score=53.85 Aligned_cols=57 Identities=25% Similarity=0.180 Sum_probs=42.2
Q ss_pred EEEeecCcceeeccccccccccce----e--eecCCCCCCCchHHHHHHHHHcCCCeEEEEEecCCCC
Q psy13818 129 LSRRVEKHWSLIEGTVTTKVLSTR----K--RTGNESCPQPQTSEHLAAIEIMKLKHIIILQNKIDLV 190 (207)
Q Consensus 129 IsR~V~gh~rligg~~~~nMiaGa----~--V~A~eg~~~pQT~EHl~il~~lGI~~iIV~vNK~DlV 190 (207)
+..+-|||+.|.. -|+--+.. . ||--.|. .|||.|-+.+|+.=..+ +||++||+|..
T Consensus 543 lvIdtpghEsFtn---lRsrgsslC~~aIlvvdImhGl-epqtiESi~lLR~rktp-FivALNKiDRL 605 (1064)
T KOG1144|consen 543 LVIDTPGHESFTN---LRSRGSSLCDLAILVVDIMHGL-EPQTIESINLLRMRKTP-FIVALNKIDRL 605 (1064)
T ss_pred EEecCCCchhhhh---hhhccccccceEEEEeehhccC-CcchhHHHHHHHhcCCC-eEEeehhhhhh
Confidence 3448999999972 01221111 1 6777786 99999999999988876 99999999964
No 118
>PRK00049 elongation factor Tu; Reviewed
Probab=92.95 E-value=0.23 Score=46.11 Aligned_cols=98 Identities=20% Similarity=0.253 Sum_probs=68.6
Q ss_pred ccccccceeeccCCCCCCcceEEEEEeHhhHHHHHhhhccCCcccccccceeeeeeecccccccCCcccceeccCccCce
Q psy13818 10 CRADRLVGQVLGAVGALPKIFIELEISYHLLKRLLGVRMEGDKKGAKLEISYHLLKRLLGVRMEGDKKGAKVQKLTRNEV 89 (207)
Q Consensus 10 ~~~d~lvG~v~g~~g~lp~v~~~l~i~~~Ll~r~~~~~~~~~~~~~~~~~~~~~~~~~~Gv~t~~~k~~~Kv~~l~~~E~ 89 (207)
.+.|--.|.|++.++.+|+ ..+++.+..+|+-.- | .+..+|+.|..
T Consensus 285 ~~~~i~~G~vl~~~~~~~~-~~~f~a~i~vl~~~~------------------------~---------g~~~~i~~g~~ 330 (396)
T PRK00049 285 KREDVERGQVLAKPGSITP-HTKFEAEVYVLSKEE------------------------G---------GRHTPFFNGYR 330 (396)
T ss_pred CHHHCCcceEEecCCCCCc-ceEEEEEEEEEecCc------------------------C---------CCCCcccCCCE
Confidence 3456668999999987665 588888877663211 1 12468899999
Q ss_pred EEEEeeccccceEEEE------Ee-cceE--EEEeeCcccccCCcEEEEEEeecCcceeec-cccc
Q psy13818 90 LLVNIGSLSTGGRVLA------TK-ADLA--KISLTNPVCTEVNEKIALSRRVEKHWSLIE-GTVT 145 (207)
Q Consensus 90 lmlniGs~~t~g~V~~------~~-~Dla--~i~L~~Pvc~~~G~kiaIsR~V~gh~rlig-g~~~ 145 (207)
.++.+||+.+.++|.= ++ .|.+ ++.+..|+|.+.|.|..| |+ .| +.+| |.|.
T Consensus 331 ~~~~~~t~~~~~~i~l~~~~~~l~~g~~a~v~i~~~~p~~~e~~~Rfil-R~-~g--~t~~~G~V~ 392 (396)
T PRK00049 331 PQFYFRTTDVTGVIELPEGVEMVMPGDNVEMTVELIAPIAMEEGLRFAI-RE-GG--RTVGAGVVT 392 (396)
T ss_pred EEEEEecCcEEEEEEecCCCcccCCCCEEEEEEEECceEEEeeCCEEEE-ec-CC--cEEEEEEEE
Confidence 9999999999999831 11 3444 445569999999998776 54 34 4665 6554
No 119
>COG1162 Predicted GTPases [General function prediction only]
Probab=92.85 E-value=1.1 Score=41.47 Aligned_cols=87 Identities=16% Similarity=0.122 Sum_probs=55.0
Q ss_pred eccCccCceEEEEeeccccceEEEEEecceEEEEeeCcccccCCcEEEEEEeecCcceeeccccccccccceeeecCCCC
Q psy13818 81 VQKLTRNEVLLVNIGSLSTGGRVLATKADLAKISLTNPVCTEVNEKIALSRRVEKHWSLIEGTVTTKVLSTRKRTGNESC 160 (207)
Q Consensus 81 v~~l~~~E~lmlniGs~~t~g~V~~~~~Dla~i~L~~Pvc~~~G~kiaIsR~V~gh~rligg~~~~nMiaGa~V~A~eg~ 160 (207)
...+-.||.+.+.-+..+ |.|.++-.. +-.|.+|..++.-. ..|+ +++.++-
T Consensus 42 ~~~~vVGD~V~~~~~~~~--g~I~~i~~R--kn~L~Rp~v~n~d~-~iiI-----------------------vs~~~P~ 93 (301)
T COG1162 42 DLKPVVGDRVVFEDENNN--GVIEKILPR--KNVLIRPPVANNDQ-AIIV-----------------------VSLVDPD 93 (301)
T ss_pred CccccccCeEEEecCCCc--ceEEEEecc--cCceeCCcccccce-EEEE-----------------------EeccCCC
Confidence 455566887777776655 777777644 34566665444222 1111 5555543
Q ss_pred CC-CchHHHHHHHHHcCCCeEEEEEecCCCCChhhHH
Q psy13818 161 PQ-PQTSEHLAAIEIMKLKHIIILQNKIDLVKEGQAN 196 (207)
Q Consensus 161 ~~-pQT~EHl~il~~lGI~~iIV~vNK~DlV~~~~~~ 196 (207)
+. -+--+-|.++...||+-+ |++||+||++++..+
T Consensus 94 ~~~~~ldR~Lv~ae~~gi~pv-IvlnK~DL~~~~~~~ 129 (301)
T COG1162 94 FNTNLLDRYLVLAEAGGIEPV-IVLNKIDLLDDEEAA 129 (301)
T ss_pred CCHHHHHHHHHHHHHcCCcEE-EEEEccccCcchHHH
Confidence 33 355567778888999755 559999999987655
No 120
>cd01876 YihA_EngB The YihA (EngB) subfamily. This subfamily of GTPases is typified by the E. coli YihA, an essential protein involved in cell division control. YihA and its orthologs are small proteins that typically contain less than 200 amino acid residues and consists of the GTPase domain only (some of the eukaryotic homologs contain an N-terminal extension of about 120 residues that might be involved in organellar targeting). Homologs of yihA are found in most Gram-positive and Gram-negative pathogenic bacteria, with the exception of Mycobacterium tuberculosis. The broad-spectrum nature of YihA and its essentiality for cell viability in bacteria make it an attractive antibacterial target.
Probab=92.81 E-value=0.38 Score=36.08 Aligned_cols=49 Identities=16% Similarity=0.192 Sum_probs=33.7
Q ss_pred eecCCCCCCCchHHHHHHHHHcCCCeEEEEEecCCCCChhhHHHHHHHHHh
Q psy13818 154 RTGNESCPQPQTSEHLAAIEIMKLKHIIILQNKIDLVKEGQANEQHEQIVK 204 (207)
Q Consensus 154 V~A~eg~~~pQT~EHl~il~~lGI~~iIV~vNK~DlV~~~~~~~~~~eI~~ 204 (207)
+++.... +++..+....+...+. .+++++||+|+.+.++......++..
T Consensus 89 ~d~~~~~-~~~~~~~~~~l~~~~~-~vi~v~nK~D~~~~~~~~~~~~~~~~ 137 (170)
T cd01876 89 IDSRHGP-TEIDLEMLDWLEELGI-PFLVVLTKADKLKKSELAKALKEIKK 137 (170)
T ss_pred EEcCcCC-CHhHHHHHHHHHHcCC-CEEEEEEchhcCChHHHHHHHHHHHH
Confidence 5566664 6777777777777774 48889999999877655444444443
No 121
>KOG0465|consensus
Probab=92.78 E-value=0.32 Score=49.20 Aligned_cols=81 Identities=17% Similarity=0.136 Sum_probs=61.2
Q ss_pred ccccCCcEEEEEEeecCcceeecccccc--cccccee--eecCCCCCCCchHHHHHHHHHcCCCeEEEEEecCCCCChhh
Q psy13818 119 VCTEVNEKIALSRRVEKHWSLIEGTVTT--KVLSTRK--RTGNESCPQPQTSEHLAAIEIMKLKHIIILQNKIDLVKEGQ 194 (207)
Q Consensus 119 vc~~~G~kiaIsR~V~gh~rligg~~~~--nMiaGa~--V~A~eg~~~pQT~EHl~il~~lGI~~iIV~vNK~DlV~~~~ 194 (207)
-|.|...++-|+ +.|||-+|.= .+-| -.++||- ++|-.|+ ++||.---.-++--|++++ .++||||....+.
T Consensus 98 ~~~w~~~~iNiI-DTPGHvDFT~-EVeRALrVlDGaVlvl~aV~GV-qsQt~tV~rQ~~ry~vP~i-~FiNKmDRmGa~~ 173 (721)
T KOG0465|consen 98 YFTWRDYRINII-DTPGHVDFTF-EVERALRVLDGAVLVLDAVAGV-ESQTETVWRQMKRYNVPRI-CFINKMDRMGASP 173 (721)
T ss_pred eeeeccceeEEe-cCCCceeEEE-EehhhhhhccCeEEEEEcccce-ehhhHHHHHHHHhcCCCeE-EEEehhhhcCCCh
Confidence 367788899998 9999999971 1113 4678887 8888998 9999998888888899865 6799999987653
Q ss_pred HHHHHHHHHh
Q psy13818 195 ANEQHEQIVK 204 (207)
Q Consensus 195 ~~~~~~eI~~ 204 (207)
. ...++|+.
T Consensus 174 ~-~~l~~i~~ 182 (721)
T KOG0465|consen 174 F-RTLNQIRT 182 (721)
T ss_pred H-HHHHHHHh
Confidence 2 23445544
No 122
>PRK12735 elongation factor Tu; Reviewed
Probab=92.63 E-value=0.21 Score=46.31 Aligned_cols=97 Identities=20% Similarity=0.263 Sum_probs=67.6
Q ss_pred cccccceeeccCCCCCCcceEEEEEeHhhHHHHHhhhccCCcccccccceeeeeeecccccccCCcccceeccCccCceE
Q psy13818 11 RADRLVGQVLGAVGALPKIFIELEISYHLLKRLLGVRMEGDKKGAKLEISYHLLKRLLGVRMEGDKKGAKVQKLTRNEVL 90 (207)
Q Consensus 11 ~~d~lvG~v~g~~g~lp~v~~~l~i~~~Ll~r~~~~~~~~~~~~~~~~~~~~~~~~~~Gv~t~~~k~~~Kv~~l~~~E~l 90 (207)
+.|--.|.|+..++.+|+ ..+++.+..+|...- | .+..+|+.|...
T Consensus 286 ~~~i~rG~vl~~~~~~~~-~~~f~a~i~vl~~~~------------------------~---------~~~~~i~~g~~~ 331 (396)
T PRK12735 286 REDVERGQVLAKPGSIKP-HTKFEAEVYVLSKEE------------------------G---------GRHTPFFNGYRP 331 (396)
T ss_pred HHHCCcceEEEcCCCCCc-ceEEEEEEEEEeccc------------------------C---------CCCCcccCCCee
Confidence 345557999999987655 588888877764211 1 124688899999
Q ss_pred EEEeeccccceEEEEEe-------cceE--EEEeeCcccccCCcEEEEEEeecCcceeec-cccc
Q psy13818 91 LVNIGSLSTGGRVLATK-------ADLA--KISLTNPVCTEVNEKIALSRRVEKHWSLIE-GTVT 145 (207)
Q Consensus 91 mlniGs~~t~g~V~~~~-------~Dla--~i~L~~Pvc~~~G~kiaIsR~V~gh~rlig-g~~~ 145 (207)
++.+||..+.|++.... .|.+ ++.|..|+|.+.|+|..+ |+- | +.+| |.|.
T Consensus 332 ~l~~~t~~~~~~i~~~~~~~~l~~g~~a~v~l~~~~p~~~~~~~rfil-R~~-g--~tv~~G~V~ 392 (396)
T PRK12735 332 QFYFRTTDVTGTIELPEGVEMVMPGDNVKMTVELIAPIAMEEGLRFAI-REG-G--RTVGAGVVA 392 (396)
T ss_pred EEEeccceEEEEEEccCCCceeCCCCEEEEEEEECceEEEeECCEEEE-EcC-C--cEEEEEEEE
Confidence 99999999999986432 4444 555669999999998776 442 3 4555 5553
No 123
>cd01849 YlqF_related_GTPase YlqF-related GTPases. These proteins are found in bacteria, eukaryotes, and archaea. They all exhibit a circular permutation of the GTPase signature motifs so that the order of the conserved G box motifs is G4-G5-G1-G2-G3, with G4 and G5 being permuted from the C-terminal region of proteins in the Ras superfamily to the N-terminus of YlqF-related GTPases.
Probab=92.54 E-value=0.35 Score=38.30 Aligned_cols=23 Identities=35% Similarity=0.421 Sum_probs=16.7
Q ss_pred HHHcCCCeEEEEEecCCCCChhhH
Q psy13818 172 IEIMKLKHIIILQNKIDLVKEGQA 195 (207)
Q Consensus 172 l~~lGI~~iIV~vNK~DlV~~~~~ 195 (207)
+...+ +.+|+++||+|+++.++.
T Consensus 25 ~~~~~-~p~IiVlNK~Dl~~~~~~ 47 (155)
T cd01849 25 IKEKG-KKLILVLNKADLVPKEVL 47 (155)
T ss_pred HhcCC-CCEEEEEechhcCCHHHH
Confidence 34445 469999999999876543
No 124
>KOG0467|consensus
Probab=92.52 E-value=0.34 Score=50.01 Aligned_cols=63 Identities=22% Similarity=0.121 Sum_probs=45.3
Q ss_pred CCcEEEEEEeecCcceeeccccc-ccccccee--eecCCCCCCCchHHHHHHHHHcCCCeEEEEEecCC
Q psy13818 123 VNEKIALSRRVEKHWSLIEGTVT-TKVLSTRK--RTGNESCPQPQTSEHLAAIEIMKLKHIIILQNKID 188 (207)
Q Consensus 123 ~G~kiaIsR~V~gh~rligg~~~-~nMiaGa~--V~A~eg~~~pQT~EHl~il~~lGI~~iIV~vNK~D 188 (207)
.+-.+-++ +.|||-+|-+=.-. .-.-+||. ||+.||+ -+||.--+.=+-.=|+ ..|+|+||||
T Consensus 70 ~~~~~nli-dspghvdf~sevssas~l~d~alvlvdvvegv-~~qt~~vlrq~~~~~~-~~~lvinkid 135 (887)
T KOG0467|consen 70 KDYLINLI-DSPGHVDFSSEVSSASRLSDGALVLVDVVEGV-CSQTYAVLRQAWIEGL-KPILVINKID 135 (887)
T ss_pred CceEEEEe-cCCCccchhhhhhhhhhhcCCcEEEEeecccc-chhHHHHHHHHHHccC-ceEEEEehhh
Confidence 34477887 99999999832211 22334555 9999998 8999877665555565 4889999999
No 125
>cd01879 FeoB Ferrous iron transport protein B (FeoB) subfamily. E. coli has an iron(II) transport system, known as feo, which may make an important contribution to the iron supply of the cell under anaerobic conditions. FeoB has been identified as part of this transport system. FeoB is a large 700-800 amino acid integral membrane protein. The N terminus contains a P-loop motif suggesting that iron transport may be ATP dependent.
Probab=92.50 E-value=0.39 Score=36.39 Aligned_cols=65 Identities=14% Similarity=0.137 Sum_probs=34.9
Q ss_pred CcEEEEEEeecCcceeecc----cccccccc--cee-----eecCCCCCCCchHHHHHHHHHcCCCeEEEEEecCCCCCh
Q psy13818 124 NEKIALSRRVEKHWSLIEG----TVTTKVLS--TRK-----RTGNESCPQPQTSEHLAAIEIMKLKHIIILQNKIDLVKE 192 (207)
Q Consensus 124 G~kiaIsR~V~gh~rligg----~~~~nMia--Ga~-----V~A~eg~~~pQT~EHl~il~~lGI~~iIV~vNK~DlV~~ 192 (207)
|..+.+. +.||+.++.+. .+.++++. ++. +|+... .+......-+...++ .+|+++||+|+.+.
T Consensus 42 ~~~~~li-DtpG~~~~~~~~~~~~~~~~~~~~~~~d~vi~v~d~~~~---~~~~~~~~~~~~~~~-~~iiv~NK~Dl~~~ 116 (158)
T cd01879 42 GKEIEIV-DLPGTYSLSPYSEDEKVARDFLLGEKPDLIVNVVDATNL---ERNLYLTLQLLELGL-PVVVALNMIDEAEK 116 (158)
T ss_pred CeEEEEE-ECCCccccCCCChhHHHHHHHhcCCCCcEEEEEeeCCcc---hhHHHHHHHHHHcCC-CEEEEEehhhhccc
Confidence 3456665 88887766542 11233332 222 566542 222222222344565 58899999999875
Q ss_pred h
Q psy13818 193 G 193 (207)
Q Consensus 193 ~ 193 (207)
+
T Consensus 117 ~ 117 (158)
T cd01879 117 R 117 (158)
T ss_pred c
Confidence 4
No 126
>cd04178 Nucleostemin_like Nucleostemin-like. Nucleostemin (NS) is a nucleolar protein that functions as a regulator of cell growth and proliferation in stem cells and in several types of cancer cells, but is not expressed in the differentiated cells of most mammalian adult tissues. NS shuttles between the nucleolus and nucleoplasm bidirectionally at a rate that is fast and independent of cell type. Lowering GTP levels decreases the nucleolar retention of NS, and expression of NS is abruptly down-regulated during differentiation prior to terminal cell division. Found only in eukaryotes, NS consists of an N-terminal basic domain, a coiled-coil domain, a GTP-binding domain, an intermediate domain, and a C-terminal acidic domain. Experimental evidence indicates that NS uses its GTP-binding property as a molecular switch to control the transition between the nucleolus and nucleoplasm, and this process involves interaction between the basic, GTP-binding, and intermediate domains of the
Probab=92.46 E-value=0.29 Score=40.60 Aligned_cols=25 Identities=28% Similarity=0.484 Sum_probs=18.4
Q ss_pred CeEEEEEecCCCCChhhHHHHHHHH
Q psy13818 178 KHIIILQNKIDLVKEGQANEQHEQI 202 (207)
Q Consensus 178 ~~iIV~vNK~DlV~~~~~~~~~~eI 202 (207)
+..|+++||+|+++.+...+..++.
T Consensus 31 kp~IlVlNK~DL~~~~~l~~~~~~~ 55 (172)
T cd04178 31 KKLVLVLNKIDLVPKENVEKWLKYL 55 (172)
T ss_pred CCEEEEEehhhcCCHHHHHHHHHHH
Confidence 6789999999999877554443333
No 127
>cd01854 YjeQ_engC YjeQ/EngC. YjeQ (YloQ in Bacillus subtilis) represents a protein family whose members are broadly conserved in bacteria and have been shown to be essential to the growth of E. coli and B. subtilis. Proteins of the YjeQ family contain all sequence motifs typical of the vast class of P-loop-containing GTPases, but show a circular permutation, with a G4-G1-G3 pattern of motifs as opposed to the regular G1-G3-G4 pattern seen in most GTPases. All YjeQ family proteins display a unique domain architecture, which includes an N-terminal OB-fold RNA-binding domain, the central permuted GTPase domain, and a zinc knuckle-like C-terminal cysteine domain. This domain architecture suggests a role for YjeQ as a regulator of translation.
Probab=92.37 E-value=1.1 Score=39.90 Aligned_cols=88 Identities=23% Similarity=0.244 Sum_probs=48.6
Q ss_pred cCccCceEEEEeeccccceEEEEEecceEEEEeeCcccccCCcEEEEEEeecCcc-eeecccccccccccee--eecCCC
Q psy13818 83 KLTRNEVLLVNIGSLSTGGRVLATKADLAKISLTNPVCTEVNEKIALSRRVEKHW-SLIEGTVTTKVLSTRK--RTGNES 159 (207)
Q Consensus 83 ~l~~~E~lmlniGs~~t~g~V~~~~~Dla~i~L~~Pvc~~~G~kiaIsR~V~gh~-rligg~~~~nMiaGa~--V~A~eg 159 (207)
.+..||.+++..-. ..-|.|.++- | .|-.++|.-+++. +.| .+|. +.+. +|+++.
T Consensus 34 ~~~vGD~V~~~~~~-~~~~~i~~i~----------~------R~~~l~R~~~~~~~~~i----~anv-D~vllV~d~~~p 91 (287)
T cd01854 34 KPVVGDWVEVEPDD-DGEGVIVRVL----------P------RKNLLSRPAAGGREQVI----AANV-DQLVIVVSLNEP 91 (287)
T ss_pred CccCCCEEEEEecC-CCcEEEEEEE----------C------CCceEEccCCCCcceeE----EEeC-CEEEEEEEcCCC
Confidence 47778888885322 1223443332 2 2445555544333 111 1443 4444 666665
Q ss_pred CCCCch-HHHHHHHHHcCCCeEEEEEecCCCCChh
Q psy13818 160 CPQPQT-SEHLAAIEIMKLKHIIILQNKIDLVKEG 193 (207)
Q Consensus 160 ~~~pQT-~EHl~il~~lGI~~iIV~vNK~DlV~~~ 193 (207)
.+.++. .+++..+...+++ +|+|+||+||.++.
T Consensus 92 ~~s~~~ldr~L~~~~~~~ip-~iIVlNK~DL~~~~ 125 (287)
T cd01854 92 FFNPRLLDRYLVAAEAAGIE-PVIVLTKADLLDDE 125 (287)
T ss_pred CCCHHHHHHHHHHHHHcCCC-EEEEEEHHHCCChH
Confidence 323333 4466667777865 88889999998764
No 128
>PRK03003 GTP-binding protein Der; Reviewed
Probab=92.06 E-value=0.37 Score=45.56 Aligned_cols=48 Identities=21% Similarity=0.178 Sum_probs=31.0
Q ss_pred eecCCCCCCCchHHHHHHHHHcCCCeEEEEEecCCCCChhhHHHHHHHHH
Q psy13818 154 RTGNESCPQPQTSEHLAAIEIMKLKHIIILQNKIDLVKEGQANEQHEQIV 203 (207)
Q Consensus 154 V~A~eg~~~pQT~EHl~il~~lGI~~iIV~vNK~DlV~~~~~~~~~~eI~ 203 (207)
+|+.++. ..|..+.+..+.-.|. .+|||+||+|+++.+......+++.
T Consensus 301 ~Da~~~~-s~~~~~~~~~~~~~~~-piIiV~NK~Dl~~~~~~~~~~~~i~ 348 (472)
T PRK03003 301 IDASEPI-SEQDQRVLSMVIEAGR-ALVLAFNKWDLVDEDRRYYLEREID 348 (472)
T ss_pred EeCCCCC-CHHHHHHHHHHHHcCC-CEEEEEECcccCChhHHHHHHHHHH
Confidence 8888885 6666655544444554 5899999999987543333334443
No 129
>PRK05124 cysN sulfate adenylyltransferase subunit 1; Provisional
Probab=91.40 E-value=0.81 Score=43.79 Aligned_cols=72 Identities=15% Similarity=0.203 Sum_probs=55.7
Q ss_pred ceeeccCCCCCCcceEEEEEeHhhHHHHHhhhccCCcccccccceeeeeeecccccccCCcccceeccCccCceEEEEee
Q psy13818 16 VGQVLGAVGALPKIFIELEISYHLLKRLLGVRMEGDKKGAKLEISYHLLKRLLGVRMEGDKKGAKVQKLTRNEVLLVNIG 95 (207)
Q Consensus 16 vG~v~g~~g~lp~v~~~l~i~~~Ll~r~~~~~~~~~~~~~~~~~~~~~~~~~~Gv~t~~~k~~~Kv~~l~~~E~lmlniG 95 (207)
.|.|+..++..|+...+++.+...|. ..+|+.|-..++.+|
T Consensus 320 rG~VL~~~~~~~~~~~~f~a~i~~l~---------------------------------------~~~i~~G~~~~l~~g 360 (474)
T PRK05124 320 RGDLLVAADEALQAVQHASADVVWMA---------------------------------------EQPLQPGQSYDIKIA 360 (474)
T ss_pred CccEEECCCCCCccceEEEEEEEEeC---------------------------------------CcccCCCCeEEEEeC
Confidence 58899999988888888887765431 146888888889999
Q ss_pred ccccceEEEEEe------------------cce--EEEEeeCcccccCCcE
Q psy13818 96 SLSTGGRVLATK------------------ADL--AKISLTNPVCTEVNEK 126 (207)
Q Consensus 96 s~~t~g~V~~~~------------------~Dl--a~i~L~~Pvc~~~G~k 126 (207)
|..+.|+|..+. .|. +++.+..|+|.+..++
T Consensus 361 t~~~~a~i~~i~~~id~~t~~~~~~~~l~~g~~a~v~l~~~~pv~~e~~~~ 411 (474)
T PRK05124 361 GKKTRARVDAIRYQVDINTLTQREAENLPLNGIGLVELTFDEPLVLDPYQQ 411 (474)
T ss_pred CCEEEEEEEEEeeeeccCCCcccCccccCCCCEEEEEEEECCeeccccCCc
Confidence 999999998885 233 4556688999887765
No 130
>TIGR00231 small_GTP small GTP-binding protein domain. This model recognizes a large number of small GTP-binding proteins and related domains in larger proteins. Note that the alpha chains of heterotrimeric G proteins are larger proteins in which the NKXD motif is separated from the GxxxxGK[ST] motif (P-loop) by a long insert and are not easily detected by this model.
Probab=91.30 E-value=0.33 Score=35.47 Aligned_cols=64 Identities=25% Similarity=0.196 Sum_probs=32.4
Q ss_pred EEEEEEeecCcceeec-cccc-ccccccee-e-------ecCCCCCCCchHHHHHHHHHcCCCeEEEEEecCCCCChh
Q psy13818 126 KIALSRRVEKHWSLIE-GTVT-TKVLSTRK-R-------TGNESCPQPQTSEHLAAIEIMKLKHIIILQNKIDLVKEG 193 (207)
Q Consensus 126 kiaIsR~V~gh~rlig-g~~~-~nMiaGa~-V-------~A~eg~~~pQT~EHl~il~~lGI~~iIV~vNK~DlV~~~ 193 (207)
++.+. +.+|+.++-. |... +++...+. + ++.++. ..+..+....+.. ++ -++|++||+|+.+.+
T Consensus 51 ~~~~~-D~~G~~~~~~~~~~~~~~~~~~i~~~d~~~~v~~~~~~~-~~~~~~~~~~~~~-~~-p~ivv~nK~D~~~~~ 124 (161)
T TIGR00231 51 KFNLL-DTAGQEDYRAIRRLYYRAVESSLRVFDIVILVLDVEEIL-EKQTKEIIHHAES-NV-PIILVGNKIDLRDAK 124 (161)
T ss_pred EEEEE-ECCCcccchHHHHHHHhhhhEEEEEEEEeeeehhhhhHh-HHHHHHHHHhccc-CC-cEEEEEEcccCCcch
Confidence 34444 7888776632 2111 44444333 1 222221 2333333333332 43 489999999998754
No 131
>cd01859 MJ1464 MJ1464. This family represents archaeal GTPase typified by the protein MJ1464 from Methanococcus jannaschii. The members of this family show a circular permutation of the GTPase signature motifs so that C-terminal strands 5, 6, and 7 (strands 6 contain the NKxD motif) are relocated to the N terminus.
Probab=91.26 E-value=0.4 Score=37.64 Aligned_cols=38 Identities=18% Similarity=0.218 Sum_probs=25.2
Q ss_pred eecCCCCCCCchHHHHHHHHHcCCCeEEEEEecCCCCChh
Q psy13818 154 RTGNESCPQPQTSEHLAAIEIMKLKHIIILQNKIDLVKEG 193 (207)
Q Consensus 154 V~A~eg~~~pQT~EHl~il~~lGI~~iIV~vNK~DlV~~~ 193 (207)
+|+.++. ..|..+-...+...+ +.+|+++||+|+++.+
T Consensus 20 ~D~~~~~-~~~~~~l~~~~~~~~-~p~iiv~NK~Dl~~~~ 57 (156)
T cd01859 20 LDARDPE-LTRSRKLERYVLELG-KKLLIVLNKADLVPKE 57 (156)
T ss_pred eeCCCCc-ccCCHHHHHHHHhCC-CcEEEEEEhHHhCCHH
Confidence 7776654 555544444444556 4688999999998654
No 132
>KOG0464|consensus
Probab=91.09 E-value=0.12 Score=50.79 Aligned_cols=69 Identities=17% Similarity=0.138 Sum_probs=53.0
Q ss_pred ccCCcEEEEEEeecCcceeeccccc--ccccccee--eecCCCCCCCchHHHHHHHHHcCCCeEEEEEecCCCCChh
Q psy13818 121 TEVNEKIALSRRVEKHWSLIEGTVT--TKVLSTRK--RTGNESCPQPQTSEHLAAIEIMKLKHIIILQNKIDLVKEG 193 (207)
Q Consensus 121 ~~~G~kiaIsR~V~gh~rligg~~~--~nMiaGa~--V~A~eg~~~pQT~EHl~il~~lGI~~iIV~vNK~DlV~~~ 193 (207)
-|.|.|+-++ +.|||.+|-= .+- --.++|+- +||..|+ +|||-.--.-+.-+.++. +.++||||....+
T Consensus 98 dwkg~rinli-dtpghvdf~l-everclrvldgavav~dasagv-e~qtltvwrqadk~~ip~-~~finkmdk~~an 170 (753)
T KOG0464|consen 98 DWKGHRINLI-DTPGHVDFRL-EVERCLRVLDGAVAVFDASAGV-EAQTLTVWRQADKFKIPA-HCFINKMDKLAAN 170 (753)
T ss_pred ccccceEeee-cCCCcceEEE-EHHHHHHHhcCeEEEEeccCCc-ccceeeeehhccccCCch-hhhhhhhhhhhhh
Confidence 4789999998 9999999861 111 24678877 8999998 999987766677778875 4679999976543
No 133
>TIGR03596 GTPase_YlqF ribosome biogenesis GTP-binding protein YlqF. Members of this protein family are GTP-binding proteins involved in ribosome biogenesis, including the essential YlqF protein of Bacillus subtilis, which is an essential protein. They are related to Era, EngA, and other GTPases of ribosome biogenesis, but are circularly permuted. This family is not universal, and is not present in Escherichia coli, and so is not as well studied as some other GTPases. This model is built for bacterial members.
Probab=91.05 E-value=0.26 Score=43.31 Aligned_cols=36 Identities=28% Similarity=0.228 Sum_probs=26.5
Q ss_pred eecCCCCCCCchHHHHHHHHHcCCCeEEEEEecCCCCChh
Q psy13818 154 RTGNESCPQPQTSEHLAAIEIMKLKHIIILQNKIDLVKEG 193 (207)
Q Consensus 154 V~A~eg~~~pQT~EHl~il~~lGI~~iIV~vNK~DlV~~~ 193 (207)
+||. .|.+.++..+.+.+.-+.+|+|+||+|+++.+
T Consensus 29 ~Dar----~p~~~~~~~i~~~l~~kp~IiVlNK~DL~~~~ 64 (276)
T TIGR03596 29 LDAR----IPLSSRNPMIDEIRGNKPRLIVLNKADLADPA 64 (276)
T ss_pred EeCC----CCCCCCChhHHHHHCCCCEEEEEEccccCCHH
Confidence 5664 35556666677777667899999999998764
No 134
>TIGR03594 GTPase_EngA ribosome-associated GTPase EngA. EngA (YfgK, Der) is a ribosome-associated essential GTPase with a duplication of its GTP-binding domain. It is broadly to universally distributed among bacteria. It appears to function in ribosome biogenesis or stability.
Probab=90.78 E-value=0.4 Score=43.85 Aligned_cols=38 Identities=29% Similarity=0.326 Sum_probs=32.0
Q ss_pred eecCCCCCCCchHHHHHHHHHcCCCeEEEEEecCCCCChh
Q psy13818 154 RTGNESCPQPQTSEHLAAIEIMKLKHIIILQNKIDLVKEG 193 (207)
Q Consensus 154 V~A~eg~~~pQT~EHl~il~~lGI~~iIV~vNK~DlV~~~ 193 (207)
+|+.++. .++..+....++..+.+ +|+|+||+|+.+.+
T Consensus 86 vD~~~~~-~~~d~~i~~~l~~~~~p-iilVvNK~D~~~~~ 123 (429)
T TIGR03594 86 VDGREGL-TPEDEEIAKWLRKSGKP-VILVANKIDGKKED 123 (429)
T ss_pred EeCCCCC-CHHHHHHHHHHHHhCCC-EEEEEECccCCccc
Confidence 8899886 88888888888888764 88999999997654
No 135
>PRK09518 bifunctional cytidylate kinase/GTPase Der; Reviewed
Probab=90.61 E-value=0.55 Score=46.92 Aligned_cols=48 Identities=13% Similarity=0.065 Sum_probs=34.0
Q ss_pred eecCCCCCCCchHHHHHHHHHcCCCeEEEEEecCCCCChhhHHHHHHHHH
Q psy13818 154 RTGNESCPQPQTSEHLAAIEIMKLKHIIILQNKIDLVKEGQANEQHEQIV 203 (207)
Q Consensus 154 V~A~eg~~~pQT~EHl~il~~lGI~~iIV~vNK~DlV~~~~~~~~~~eI~ 203 (207)
+|+.++. +.|..+.+..+.-.|. -+|||+||+|+++.+..+...+++.
T Consensus 540 iDat~~~-s~~~~~i~~~~~~~~~-piIiV~NK~DL~~~~~~~~~~~~~~ 587 (712)
T PRK09518 540 FDASQPI-SEQDLKVMSMAVDAGR-ALVLVFNKWDLMDEFRRQRLERLWK 587 (712)
T ss_pred EECCCCC-CHHHHHHHHHHHHcCC-CEEEEEEchhcCChhHHHHHHHHHH
Confidence 8999986 8888776665555565 5889999999987654333333443
No 136
>PRK00089 era GTPase Era; Reviewed
Probab=90.15 E-value=0.91 Score=39.53 Aligned_cols=48 Identities=25% Similarity=0.318 Sum_probs=30.0
Q ss_pred eecCCCCCCCchHHHHHHHHHcCCCeEEEEEecCCCC-ChhhHHHHHHHHH
Q psy13818 154 RTGNESCPQPQTSEHLAAIEIMKLKHIIILQNKIDLV-KEGQANEQHEQIV 203 (207)
Q Consensus 154 V~A~eg~~~pQT~EHl~il~~lGI~~iIV~vNK~DlV-~~~~~~~~~~eI~ 203 (207)
+|++++. .....+++..+...+. .+++|+||+|++ +.++..+..+++.
T Consensus 92 vd~~~~~-~~~~~~i~~~l~~~~~-pvilVlNKiDl~~~~~~l~~~~~~l~ 140 (292)
T PRK00089 92 VDADEKI-GPGDEFILEKLKKVKT-PVILVLNKIDLVKDKEELLPLLEELS 140 (292)
T ss_pred EeCCCCC-ChhHHHHHHHHhhcCC-CEEEEEECCcCCCCHHHHHHHHHHHH
Confidence 7777753 4455555555554444 578899999999 4454444444443
No 137
>cd04160 Arfrp1 Arfrp1 subfamily. Arfrp1 (Arf-related protein 1), formerly known as ARP, is a membrane-associated Arf family member that lacks the N-terminal myristoylation motif. Arfrp1 is mainly associated with the trans-Golgi compartment and the trans-Golgi network, where it regulates the targeting of Arl1 and the GRIP domain-containing proteins, golgin-97 and golgin-245, onto Golgi membranes. It is also involved in the anterograde transport of the vesicular stomatitis virus G protein from the Golgi to the plasma membrane, and in the retrograde transport of TGN38 and Shiga toxin from endosomes to the trans-Golgi network. Arfrp1 also inhibits Arf/Sec7-dependent activation of phospholipase D. Deletion of Arfrp1 in mice causes embryonic lethality at the gastrulation stage and apoptosis of mesodermal cells, indicating its importance in development.
Probab=89.74 E-value=0.57 Score=36.15 Aligned_cols=66 Identities=15% Similarity=0.146 Sum_probs=33.7
Q ss_pred CcEEEEEEeecCcceeec-cccc-ccccccee--eecCCCCCCCchHHHHHH-HH---HcCCCeEEEEEecCCCCCh
Q psy13818 124 NEKIALSRRVEKHWSLIE-GTVT-TKVLSTRK--RTGNESCPQPQTSEHLAA-IE---IMKLKHIIILQNKIDLVKE 192 (207)
Q Consensus 124 G~kiaIsR~V~gh~rlig-g~~~-~nMiaGa~--V~A~eg~~~pQT~EHl~i-l~---~lGI~~iIV~vNK~DlV~~ 192 (207)
+.++.+. +.+||.++-. +.-. ++. .++. +|+.+.....+..+.+.- ++ .-+++ +++++||+|+.+.
T Consensus 49 ~~~~~l~-Dt~G~~~~~~~~~~~~~~~-~~~v~vvd~~~~~~~~~~~~~~~~~~~~~~~~~~p-~ilv~NK~D~~~~ 122 (167)
T cd04160 49 NARLKFW-DLGGQESLRSLWDKYYAEC-HAIIYVIDSTDRERFEESKSALEKVLRNEALEGVP-LLILANKQDLPDA 122 (167)
T ss_pred CEEEEEE-ECCCChhhHHHHHHHhCCC-CEEEEEEECchHHHHHHHHHHHHHHHhChhhcCCC-EEEEEEccccccC
Confidence 3455554 7788776653 1111 221 2322 777654322333333221 11 23554 8899999998664
No 138
>cd01878 HflX HflX subfamily. A distinct conserved domain with a glycine-rich segment N-terminal of the GTPase domain characterizes the HflX subfamily. The E. coli HflX has been implicated in the control of the lambda cII repressor proteolysis, but the actual biological functions of these GTPases remain unclear. HflX is widespread, but not universally represented in all three superkingdoms.
Probab=89.66 E-value=0.63 Score=37.81 Aligned_cols=41 Identities=17% Similarity=0.231 Sum_probs=29.6
Q ss_pred eecCCCCCCCchHHHHHHHHHcCC--CeEEEEEecCCCCChhh
Q psy13818 154 RTGNESCPQPQTSEHLAAIEIMKL--KHIIILQNKIDLVKEGQ 194 (207)
Q Consensus 154 V~A~eg~~~pQT~EHl~il~~lGI--~~iIV~vNK~DlV~~~~ 194 (207)
+|+++.....+..++..+++.++. ..+|+|+||+|+.+...
T Consensus 128 ~D~~~~~~~~~~~~~~~~l~~~~~~~~~viiV~NK~Dl~~~~~ 170 (204)
T cd01878 128 VDASDPDYEEQIETVEKVLKELGAEDIPMILVLNKIDLLDDEE 170 (204)
T ss_pred EECCCCChhhHHHHHHHHHHHcCcCCCCEEEEEEccccCChHH
Confidence 788766534556666677777764 46899999999987553
No 139
>PRK12288 GTPase RsgA; Reviewed
Probab=89.62 E-value=6.8 Score=36.28 Aligned_cols=25 Identities=36% Similarity=0.537 Sum_probs=18.5
Q ss_pred HHHHHHHcCCCeEEEEEecCCCCChh
Q psy13818 168 HLAAIEIMKLKHIIILQNKIDLVKEG 193 (207)
Q Consensus 168 Hl~il~~lGI~~iIV~vNK~DlV~~~ 193 (207)
-+.++...+++ .|+|+||+||++++
T Consensus 142 ~L~~a~~~~i~-~VIVlNK~DL~~~~ 166 (347)
T PRK12288 142 YLVACETLGIE-PLIVLNKIDLLDDE 166 (347)
T ss_pred HHHHHHhcCCC-EEEEEECccCCCcH
Confidence 35556777875 56789999998754
No 140
>cd00880 Era_like Era (E. coli Ras-like protein)-like. This family includes several distinct subfamilies (TrmE/ThdF, FeoB, YihA (EngG), Era, and EngA/YfgK) that generally show sequence conservation in the region between the Walker A and B motifs (G1 and G3 box motifs), to the exclusion of other GTPases. TrmE is ubiquitous in bacteria and is a widespread mitochondrial protein in eukaryotes, but is absent from archaea. The yeast member of TrmE family, MSS1, is involved in mitochondrial translation; bacterial members are often present in translation-related operons. FeoB represents an unusual adaptation of GTPases for high-affinity iron (II) transport. YihA (EngB) family of GTPases is typified by the E. coli YihA, which is an essential protein involved in cell division control. Era is characterized by a distinct derivative of the KH domain (the pseudo-KH domain) which is located C-terminal to the GTPase domain. EngA and its orthologs are composed of two GTPase domains and, since the se
Probab=89.43 E-value=1 Score=32.74 Aligned_cols=42 Identities=19% Similarity=0.286 Sum_probs=26.4
Q ss_pred eecCCCCCCCchHHHHHHHHHcCCCeEEEEEecCCCCChhhHHH
Q psy13818 154 RTGNESCPQPQTSEHLAAIEIMKLKHIIILQNKIDLVKEGQANE 197 (207)
Q Consensus 154 V~A~eg~~~pQT~EHl~il~~lGI~~iIV~vNK~DlV~~~~~~~ 197 (207)
+++.... ..++..........++ .+++++||+|++..+....
T Consensus 83 ~~~~~~~-~~~~~~~~~~~~~~~~-~~ivv~nK~D~~~~~~~~~ 124 (163)
T cd00880 83 VDADLRA-DEEEEKLLELLRERGK-PVLLVLNKIDLLPEEEEEE 124 (163)
T ss_pred EeCCCCC-CHHHHHHHHHHHhcCC-eEEEEEEccccCChhhHHH
Confidence 6676664 3333333444444444 5889999999998764443
No 141
>cd04163 Era Era subfamily. Era (E. coli Ras-like protein) is a multifunctional GTPase found in all bacteria except some eubacteria. It binds to the 16S ribosomal RNA (rRNA) of the 30S subunit and appears to play a role in the assembly of the 30S subunit, possibly by chaperoning the 16S rRNA. It also contacts several assembly elements of the 30S subunit. Era couples cell growth with cytokinesis and plays a role in cell division and energy metabolism. Homologs have also been found in eukaryotes. Era contains two domains: the N-terminal GTPase domain and a C-terminal domain KH domain that is critical for RNA binding. Both domains are important for Era function. Era is functionally able to compensate for deletion of RbfA, a cold-shock adaptation protein that is required for efficient processing of the 16S rRNA.
Probab=88.43 E-value=1.8 Score=32.21 Aligned_cols=47 Identities=23% Similarity=0.234 Sum_probs=27.4
Q ss_pred eecCCCCCCCchHHHHHHHHHcCCCeEEEEEecCCCC-ChhhHHHHHHHH
Q psy13818 154 RTGNESCPQPQTSEHLAAIEIMKLKHIIILQNKIDLV-KEGQANEQHEQI 202 (207)
Q Consensus 154 V~A~eg~~~pQT~EHl~il~~lGI~~iIV~vNK~DlV-~~~~~~~~~~eI 202 (207)
+++.+.. .-+..+....+...+. .+++++||+|+. +.+...+..+++
T Consensus 90 ~d~~~~~-~~~~~~~~~~~~~~~~-~~iiv~nK~Dl~~~~~~~~~~~~~~ 137 (168)
T cd04163 90 VDASEPI-GEGDEFILELLKKSKT-PVILVLNKIDLVKDKEDLLPLLEKL 137 (168)
T ss_pred EECCCcc-CchHHHHHHHHHHhCC-CEEEEEEchhccccHHHHHHHHHHH
Confidence 7777653 3344444444554444 478999999998 344444433333
No 142
>cd01856 YlqF YlqF. Proteins of the YlqF family contain all sequence motifs typical of the vast class of P-loop-containing GTPases, but show a circular permutation, with a G4-G1-G3 pattern of motifs as opposed to the regular G1-G3-G4 pattern seen in most GTPases. The YlqF subfamily is represented in a phylogenetically diverse array of bacteria (including gram-positive bacteria, proteobacteria, Synechocystis, Borrelia, and Thermotoga) and in all eukaryotes.
Probab=88.09 E-value=1.1 Score=36.08 Aligned_cols=36 Identities=25% Similarity=0.236 Sum_probs=23.1
Q ss_pred eecCCCCCCCchHHHHHHHHHcCCCeEEEEEecCCCCChh
Q psy13818 154 RTGNESCPQPQTSEHLAAIEIMKLKHIIILQNKIDLVKEG 193 (207)
Q Consensus 154 V~A~eg~~~pQT~EHl~il~~lGI~~iIV~vNK~DlV~~~ 193 (207)
+|+.++. ..... .+++.+.-+..|+++||+|+.+.+
T Consensus 27 ~D~~~~~-~~~~~---~i~~~~~~k~~ilVlNK~Dl~~~~ 62 (171)
T cd01856 27 RDARIPL-SSRNP---LLEKILGNKPRIIVLNKADLADPK 62 (171)
T ss_pred eeccCcc-CcCCh---hhHhHhcCCCEEEEEehhhcCChH
Confidence 6776653 33222 245555446788999999998654
No 143
>COG1084 Predicted GTPase [General function prediction only]
Probab=87.68 E-value=0.36 Score=45.40 Aligned_cols=101 Identities=23% Similarity=0.282 Sum_probs=66.5
Q ss_pred EeeccccceEEEEEecceEEEEeeCcccccCCcEEEEEEeecCcceeec--cccc-----ccc-----------cccee-
Q psy13818 93 NIGSLSTGGRVLATKADLAKISLTNPVCTEVNEKIALSRRVEKHWSLIE--GTVT-----TKV-----------LSTRK- 153 (207)
Q Consensus 93 niGs~~t~g~V~~~~~Dla~i~L~~Pvc~~~G~kiaIsR~V~gh~rlig--g~~~-----~nM-----------iaGa~- 153 (207)
|||-+|-.-.|+..+-+.|.--|++- |-.+...=+=..+|++|- |.+= +|- ++|+.
T Consensus 178 NVGKSSlv~~lT~AkpEvA~YPFTTK-----~i~vGhfe~~~~R~QvIDTPGlLDRPl~ErN~IE~qAi~AL~hl~~~Il 252 (346)
T COG1084 178 NVGKSSLVRKLTTAKPEVAPYPFTTK-----GIHVGHFERGYLRIQVIDTPGLLDRPLEERNEIERQAILALRHLAGVIL 252 (346)
T ss_pred CCcHHHHHHHHhcCCCccCCCCcccc-----ceeEeeeecCCceEEEecCCcccCCChHHhcHHHHHHHHHHHHhcCeEE
Confidence 78888888889888888887666653 445655533345888887 6654 332 23433
Q ss_pred --eecCCCCC---CCchHHHHHHHHHcCCCeEEEEEecCCCCChhhHHHHH
Q psy13818 154 --RTGNESCP---QPQTSEHLAAIEIMKLKHIIILQNKIDLVKEGQANEQH 199 (207)
Q Consensus 154 --V~A~eg~~---~pQT~EHl~il~~lGI~~iIV~vNK~DlV~~~~~~~~~ 199 (207)
+|..+.|- ..|-.=-..|=..+. .-+++|+||+|+.+++..++..
T Consensus 253 F~~D~Se~cgy~lE~Q~~L~~eIk~~f~-~p~v~V~nK~D~~~~e~~~~~~ 302 (346)
T COG1084 253 FLFDPSETCGYSLEEQISLLEEIKELFK-APIVVVINKIDIADEEKLEEIE 302 (346)
T ss_pred EEEcCccccCCCHHHHHHHHHHHHHhcC-CCeEEEEecccccchhHHHHHH
Confidence 88888762 233333334555666 6799999999999877554433
No 144
>TIGR00436 era GTP-binding protein Era. Era is an essential GTPase in Escherichia coli and many other bacteria. It plays a role in ribosome biogenesis. Few bacteria lack this protein.
Probab=87.61 E-value=1.7 Score=37.73 Aligned_cols=39 Identities=13% Similarity=0.132 Sum_probs=26.0
Q ss_pred eecCCCCCCCchHHHHHHHHHcCCCeEEEEEecCCCCChhhH
Q psy13818 154 RTGNESCPQPQTSEHLAAIEIMKLKHIIILQNKIDLVKEGQA 195 (207)
Q Consensus 154 V~A~eg~~~pQT~EHl~il~~lGI~~iIV~vNK~DlV~~~~~ 195 (207)
+|+++.. ..+ ...+..+...+.+ +|+|+||+|+++.+..
T Consensus 87 vD~~~~~-~~~-~~i~~~l~~~~~p-~ilV~NK~Dl~~~~~~ 125 (270)
T TIGR00436 87 VDSDQWN-GDG-EFVLTKLQNLKRP-VVLTRNKLDNKFKDKL 125 (270)
T ss_pred EECCCCC-chH-HHHHHHHHhcCCC-EEEEEECeeCCCHHHH
Confidence 7887764 444 4445555556654 7899999999875543
No 145
>KOG0468|consensus
Probab=87.33 E-value=0.84 Score=47.00 Aligned_cols=59 Identities=14% Similarity=0.075 Sum_probs=38.4
Q ss_pred EeecCcceeeccccc-ccccccee--eecCCCCCCCchHHHHHHHHHcCCCeEEEEEecCCCCC
Q psy13818 131 RRVEKHWSLIEGTVT-TKVLSTRK--RTGNESCPQPQTSEHLAAIEIMKLKHIIILQNKIDLVK 191 (207)
Q Consensus 131 R~V~gh~rligg~~~-~nMiaGa~--V~A~eg~~~pQT~EHl~il~~lGI~~iIV~vNK~DlV~ 191 (207)
-+.|||-.|.--+.. --+.+|+- ||+.||+ |=||.+-+.-+-+ .-.-++||+||+|+.-
T Consensus 202 lDTPGHVnF~DE~ta~l~~sDgvVlvvDv~EGV-mlntEr~ikhaiq-~~~~i~vviNKiDRLi 263 (971)
T KOG0468|consen 202 LDTPGHVNFSDETTASLRLSDGVVLVVDVAEGV-MLNTERIIKHAIQ-NRLPIVVVINKVDRLI 263 (971)
T ss_pred ecCCCcccchHHHHHHhhhcceEEEEEEcccCc-eeeHHHHHHHHHh-ccCcEEEEEehhHHHH
Confidence 377899999821111 23334444 9999998 9888664433322 3345899999999754
No 146
>cd04157 Arl6 Arl6 subfamily. Arl6 (Arf-like 6) forms a subfamily of the Arf family of small GTPases. Arl6 expression is limited to the brain and kidney in adult mice, but it is expressed in the neural plate and somites during embryogenesis, suggesting a possible role for Arl6 in early development. Arl6 is also believed to have a role in cilia or flagella function. Several proteins have been identified that bind Arl6, including Arl6 interacting protein (Arl6ip), and SEC61beta, a subunit of the heterotrimeric conducting channel SEC61p. Based on Arl6 binding to these effectors, Arl6 is also proposed to play a role in protein transport, membrane trafficking, or cell signaling during hematopoietic maturation. At least three specific homozygous Arl6 mutations in humans have been found to cause Bardet-Biedl syndrome, a disorder characterized by obesity, retinopathy, polydactyly, renal and cardiac malformations, learning disabilities, and hypogenitalism. Older literature suggests that A
Probab=87.10 E-value=1.3 Score=33.82 Aligned_cols=67 Identities=10% Similarity=0.026 Sum_probs=37.0
Q ss_pred CcEEEEEEeecCcceeec-cccc-ccccccee--eecCCCCCCCchHHHHH-HHHHcC----CCeEEEEEecCCCCCh
Q psy13818 124 NEKIALSRRVEKHWSLIE-GTVT-TKVLSTRK--RTGNESCPQPQTSEHLA-AIEIMK----LKHIIILQNKIDLVKE 192 (207)
Q Consensus 124 G~kiaIsR~V~gh~rlig-g~~~-~nMiaGa~--V~A~eg~~~pQT~EHl~-il~~lG----I~~iIV~vNK~DlV~~ 192 (207)
+.++.+. +.+|+.++-. |... ++ ..++. +|+.+........+.+. +++.-. =..++++.||+|+.+.
T Consensus 44 ~~~~~l~-Dt~G~~~~~~~~~~~~~~-~d~ii~v~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~iiv~NK~Dl~~~ 119 (162)
T cd04157 44 NLSFTAF-DMSGQGKYRGLWEHYYKN-IQGIIFVIDSSDRLRLVVVKDELELLLNHPDIKHRRVPILFFANKMDLPDA 119 (162)
T ss_pred CEEEEEE-ECCCCHhhHHHHHHHHcc-CCEEEEEEeCCcHHHHHHHHHHHHHHHcCcccccCCCCEEEEEeCccccCC
Confidence 3355554 8888877764 3333 33 24444 77776532233333332 223211 1348999999999764
No 147
>COG0218 Predicted GTPase [General function prediction only]
Probab=87.00 E-value=1.4 Score=38.62 Aligned_cols=70 Identities=17% Similarity=0.270 Sum_probs=51.3
Q ss_pred Ccce-eeccccc-ccccccee--eecCCCCCCCchHHHHHHHHHcCCCeEEEEEecCCCCChhhHHHHHHHHHhhh
Q psy13818 135 KHWS-LIEGTVT-TKVLSTRK--RTGNESCPQPQTSEHLAAIEIMKLKHIIILQNKIDLVKEGQANEQHEQIVKFV 206 (207)
Q Consensus 135 gh~r-ligg~~~-~nMiaGa~--V~A~eg~~~pQT~EHl~il~~lGI~~iIV~vNK~DlV~~~~~~~~~~eI~~~l 206 (207)
-+|. +|+-.+. |.-+.++. ||+.-+. ...-+|-+..+...|++ ++|++||||-++.++......++++.+
T Consensus 91 e~w~~~i~~YL~~R~~L~~vvlliD~r~~~-~~~D~em~~~l~~~~i~-~~vv~tK~DKi~~~~~~k~l~~v~~~l 164 (200)
T COG0218 91 EKWKKLIEEYLEKRANLKGVVLLIDARHPP-KDLDREMIEFLLELGIP-VIVVLTKADKLKKSERNKQLNKVAEEL 164 (200)
T ss_pred HHHHHHHHHHHhhchhheEEEEEEECCCCC-cHHHHHHHHHHHHcCCC-eEEEEEccccCChhHHHHHHHHHHHHh
Confidence 4553 4444444 43377777 9998884 77788999999999997 667799999999876666666776543
No 148
>TIGR02528 EutP ethanolamine utilization protein, EutP. This protein is found within operons which code for polyhedral organelles containing the enzyme ethanolamine ammonia lyase. The function of this gene is unknown, although the presence of an N-terminal GxxGxGK motif implies a GTP-binding site.
Probab=86.43 E-value=0.67 Score=35.11 Aligned_cols=34 Identities=24% Similarity=0.261 Sum_probs=21.5
Q ss_pred eecCCCCCCCchHHHHHHHHHcCCCeEEEEEecCCCCCh
Q psy13818 154 RTGNESCPQPQTSEHLAAIEIMKLKHIIILQNKIDLVKE 192 (207)
Q Consensus 154 V~A~eg~~~pQT~EHl~il~~lGI~~iIV~vNK~DlV~~ 192 (207)
+|+++.. ..|+.+ +...++ +.+|+++||+|+.+.
T Consensus 70 ~d~~~~~-s~~~~~---~~~~~~-~p~ilv~NK~Dl~~~ 103 (142)
T TIGR02528 70 QSATDPE-SRFPPG---FASIFV-KPVIGLVTKIDLAEA 103 (142)
T ss_pred ecCCCCC-cCCChh---HHHhcc-CCeEEEEEeeccCCc
Confidence 6666654 444433 334444 378888999999763
No 149
>PRK00093 GTP-binding protein Der; Reviewed
Probab=84.74 E-value=1.9 Score=39.73 Aligned_cols=66 Identities=12% Similarity=0.069 Sum_probs=40.8
Q ss_pred CCcEEEEEEeecCcce----eecccc--ccc---ccccee--eecCCCCCCCchHHHHHHHHHcCCCeEEEEEecCCCCC
Q psy13818 123 VNEKIALSRRVEKHWS----LIEGTV--TTK---VLSTRK--RTGNESCPQPQTSEHLAAIEIMKLKHIIILQNKIDLVK 191 (207)
Q Consensus 123 ~G~kiaIsR~V~gh~r----ligg~~--~~n---MiaGa~--V~A~eg~~~pQT~EHl~il~~lGI~~iIV~vNK~DlV~ 191 (207)
.|.++.+. +.+|+++ +..+.. +.. -.+++. +|+.++. .+...+....++..+. .+|+|+||+|+.+
T Consensus 47 ~~~~~~li-DT~G~~~~~~~~~~~~~~~~~~~~~~ad~il~vvd~~~~~-~~~~~~~~~~l~~~~~-piilv~NK~D~~~ 123 (435)
T PRK00093 47 LGREFILI-DTGGIEPDDDGFEKQIREQAELAIEEADVILFVVDGRAGL-TPADEEIAKILRKSNK-PVILVVNKVDGPD 123 (435)
T ss_pred CCcEEEEE-ECCCCCCcchhHHHHHHHHHHHHHHhCCEEEEEEECCCCC-CHHHHHHHHHHHHcCC-cEEEEEECccCcc
Confidence 35566666 8888877 221100 001 112222 8888875 6666666777777775 5889999999865
No 150
>cd00878 Arf_Arl Arf (ADP-ribosylation factor)/Arl (Arf-like) small GTPases. Arf proteins are activators of phospholipase D isoforms. Unlike Ras proteins they lack cysteine residues at their C-termini and therefore are unlikely to be prenylated. Arfs are N-terminally myristoylated. Members of the Arf family are regulators of vesicle formation in intracellular traffic that interact reversibly with membranes of the secretory and endocytic compartments in a GTP-dependent manner. They depart from other small GTP-binding proteins by a unique structural device, interswitch toggle, that implements front-back communication from N-terminus to the nucleotide binding site. Arf-like (Arl) proteins are close relatives of the Arf, but only Arl1 has been shown to function in membrane traffic like the Arf proteins. Arl2 has an unrelated function in the folding of native tubulin, and Arl4 may function in the nucleus. Most other Arf family proteins are so far relatively poorly characterized. Thu
Probab=84.46 E-value=1.5 Score=33.57 Aligned_cols=65 Identities=14% Similarity=0.054 Sum_probs=34.4
Q ss_pred EEEEEEeecCcceeeccccccccccc---ee--eecCCCCCCCchHHHHHHHHH---cCCCeEEEEEecCCCCChh
Q psy13818 126 KIALSRRVEKHWSLIEGTVTTKVLST---RK--RTGNESCPQPQTSEHLAAIEI---MKLKHIIILQNKIDLVKEG 193 (207)
Q Consensus 126 kiaIsR~V~gh~rligg~~~~nMiaG---a~--V~A~eg~~~pQT~EHl~il~~---lGI~~iIV~vNK~DlV~~~ 193 (207)
.+.+. +.+|+.++-. ....++.+ +. +|+......++..+++.-+.. ..-..++++.||+|+.+..
T Consensus 44 ~~~i~-D~~G~~~~~~--~~~~~~~~~~~~i~v~D~~~~~~~~~~~~~~~~~~~~~~~~~~piiiv~nK~D~~~~~ 116 (158)
T cd00878 44 SFTVW-DVGGQDKIRP--LWKHYYENTNGIIFVVDSSDRERIEEAKEELHKLLNEEELKGVPLLIFANKQDLPGAL 116 (158)
T ss_pred EEEEE-ECCCChhhHH--HHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHhCcccCCCcEEEEeeccCCcccc
Confidence 45554 7777766431 11222223 22 677654223444444432222 2345688999999998754
No 151
>COG1160 Predicted GTPases [General function prediction only]
Probab=83.69 E-value=2.6 Score=40.91 Aligned_cols=51 Identities=25% Similarity=0.253 Sum_probs=38.2
Q ss_pred eecCCCCCCCchHHHHHHHHHcCCCeEEEEEecCCCCCh--hhHHHHHHHHHhhh
Q psy13818 154 RTGNESCPQPQTSEHLAAIEIMKLKHIIILQNKIDLVKE--GQANEQHEQIVKFV 206 (207)
Q Consensus 154 V~A~eg~~~pQT~EHl~il~~lGI~~iIV~vNK~DlV~~--~~~~~~~~eI~~~l 206 (207)
+||.+|. ..|-.+=+-++.-.|-. +||++||.|+++. ...++..++|+..|
T Consensus 268 iDa~~~~-~~qD~~ia~~i~~~g~~-~vIvvNKWDl~~~~~~~~~~~k~~i~~~l 320 (444)
T COG1160 268 IDATEGI-SEQDLRIAGLIEEAGRG-IVIVVNKWDLVEEDEATMEEFKKKLRRKL 320 (444)
T ss_pred EECCCCc-hHHHHHHHHHHHHcCCC-eEEEEEccccCCchhhHHHHHHHHHHHHh
Confidence 8999997 77888877777777764 7788999999986 33445556666543
No 152
>PRK09563 rbgA GTPase YlqF; Reviewed
Probab=82.79 E-value=1.4 Score=39.08 Aligned_cols=36 Identities=22% Similarity=0.178 Sum_probs=23.6
Q ss_pred eecCCCCCCCchHHHHHHHHHcCCCeEEEEEecCCCCChh
Q psy13818 154 RTGNESCPQPQTSEHLAAIEIMKLKHIIILQNKIDLVKEG 193 (207)
Q Consensus 154 V~A~eg~~~pQT~EHl~il~~lGI~~iIV~vNK~DlV~~~ 193 (207)
+||.++. +.+...+.+.++=+..|+++||+|+++.+
T Consensus 32 vDar~p~----~~~~~~l~~~~~~kp~iiVlNK~DL~~~~ 67 (287)
T PRK09563 32 LDARIPL----SSENPMIDKIIGNKPRLLILNKSDLADPE 67 (287)
T ss_pred EECCCCC----CCCChhHHHHhCCCCEEEEEEchhcCCHH
Confidence 7776543 22333445555557789999999998764
No 153
>PRK13768 GTPase; Provisional
Probab=82.71 E-value=1.7 Score=37.92 Aligned_cols=43 Identities=21% Similarity=0.158 Sum_probs=29.7
Q ss_pred eecCCCCCCCchHHHHHHHH-----HcCCCeEEEEEecCCCCChhhHHHH
Q psy13818 154 RTGNESCPQPQTSEHLAAIE-----IMKLKHIIILQNKIDLVKEGQANEQ 198 (207)
Q Consensus 154 V~A~eg~~~pQT~EHl~il~-----~lGI~~iIV~vNK~DlV~~~~~~~~ 198 (207)
+|+..+. .|+..+....+. ..++ .+|+|+||+|+++.++.++.
T Consensus 136 iD~~~~~-~~~d~~~~~~l~~~~~~~~~~-~~i~v~nK~D~~~~~~~~~~ 183 (253)
T PRK13768 136 IDAVLAK-TPSDFVSLLLLALSVQLRLGL-PQIPVLNKADLLSEEELERI 183 (253)
T ss_pred echHHhC-CHHHHHHHHHHHHHHHHHcCC-CEEEEEEhHhhcCchhHHHH
Confidence 8887764 777766655543 4564 57779999999987654443
No 154
>PTZ00141 elongation factor 1- alpha; Provisional
Probab=82.34 E-value=5.4 Score=37.98 Aligned_cols=99 Identities=17% Similarity=0.231 Sum_probs=64.6
Q ss_pred cccccceeeccCCCCCC-cceEEEEEeHhhHHHHHhhhccCCcccccccceeeeeeecccccccCCcccceeccCccCce
Q psy13818 11 RADRLVGQVLGAVGALP-KIFIELEISYHLLKRLLGVRMEGDKKGAKLEISYHLLKRLLGVRMEGDKKGAKVQKLTRNEV 89 (207)
Q Consensus 11 ~~d~lvG~v~g~~g~lp-~v~~~l~i~~~Ll~r~~~~~~~~~~~~~~~~~~~~~~~~~~Gv~t~~~k~~~Kv~~l~~~E~ 89 (207)
+.|--.|.|+..+...| +...+++.+..+|+. -.+|++|..
T Consensus 305 ~~~v~rG~vl~~~~~~p~~~~~~f~a~i~~l~~--------------------------------------~~~i~~G~~ 346 (446)
T PTZ00141 305 VKDIKRGYVASDSKNDPAKECADFTAQVIVLNH--------------------------------------PGQIKNGYT 346 (446)
T ss_pred HHHcCCceEEecCCCCCCccceEEEEEEEEECC--------------------------------------CCccCCCCe
Confidence 44556799998886544 457788877765521 157788877
Q ss_pred EEEEeeccccceEEEEEe--------------------cceE--EEEeeCccccc------CCcEEEEEEeecCcceeec
Q psy13818 90 LLVNIGSLSTGGRVLATK--------------------ADLA--KISLTNPVCTE------VNEKIALSRRVEKHWSLIE 141 (207)
Q Consensus 90 lmlniGs~~t~g~V~~~~--------------------~Dla--~i~L~~Pvc~~------~G~kiaIsR~V~gh~rlig 141 (207)
.++.+||....|+|..+. .|.+ ++.|..|+|.+ ...|..+ |+- | +-||
T Consensus 347 ~vl~~~t~~~~~~i~~i~~~ld~~t~~~~~~~p~~l~~g~~a~v~l~~~~pi~~e~~~~~~~lgrfil-rd~-g--~tva 422 (446)
T PTZ00141 347 PVLDCHTAHIACKFAEIESKIDRRSGKVLEENPKAIKSGDAAIVKMVPTKPMCVEVFNEYPPLGRFAV-RDM-K--QTVA 422 (446)
T ss_pred EEEEEeceEEEEEEEEEEEEeccccccccCCCCcEECCCCEEEEEEEECCceEEeecccCCCCccEEE-EEC-C--CEEE
Confidence 778888888888888772 3444 44567999988 4567666 453 3 4565
Q ss_pred -cccc-cccccc
Q psy13818 142 -GTVT-TKVLST 151 (207)
Q Consensus 142 -g~~~-~nMiaG 151 (207)
|.|. -.+-+|
T Consensus 423 ~G~I~~v~~~~~ 434 (446)
T PTZ00141 423 VGVIKSVEKKEG 434 (446)
T ss_pred EEEEEEEecCCC
Confidence 6665 334344
No 155
>cd01864 Rab19 Rab19 subfamily. Rab19 proteins are associated with Golgi stacks. Similarity analysis indicated that Rab41 is closely related to Rab19. However, the function of these Rabs is not yet chracterized. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation.
Probab=82.22 E-value=1.3 Score=34.34 Aligned_cols=64 Identities=9% Similarity=0.081 Sum_probs=31.7
Q ss_pred EEEEEEeecCcceeec-cccc-ccccccee--eecCCCCCCCchH-HHHHHHHHcCCC--eEEEEEecCCCCCh
Q psy13818 126 KIALSRRVEKHWSLIE-GTVT-TKVLSTRK--RTGNESCPQPQTS-EHLAAIEIMKLK--HIIILQNKIDLVKE 192 (207)
Q Consensus 126 kiaIsR~V~gh~rlig-g~~~-~nMiaGa~--V~A~eg~~~pQT~-EHl~il~~lGI~--~iIV~vNK~DlV~~ 192 (207)
++.| .+.+|+.+|-. +.-. ++ .+++. +|+++.. ..|.. +-+..+....-. .+|++.||+|+.+.
T Consensus 53 ~l~i-~D~~G~~~~~~~~~~~~~~-~d~~llv~d~~~~~-s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~ 123 (165)
T cd01864 53 KLQI-WDTAGQERFRTITQSYYRS-ANGAIIAYDITRRS-SFESVPHWIEEVEKYGASNVVLLLIGNKCDLEEQ 123 (165)
T ss_pred EEEE-EECCChHHHHHHHHHHhcc-CCEEEEEEECcCHH-HHHhHHHHHHHHHHhCCCCCcEEEEEECcccccc
Confidence 3444 48999887763 2111 22 24433 6665432 11221 112222222211 27899999999764
No 156
>cd04151 Arl1 Arl1 subfamily. Arl1 (Arf-like 1) localizes to the Golgi complex, where it is believed to recruit effector proteins to the trans-Golgi network. Like most members of the Arf family, Arl1 is myristoylated at its N-terminal helix and mutation of the myristoylation site disrupts Golgi targeting. In humans, the Golgi-localized proteins golgin-97 and golgin-245 have been identified as Arl1 effectors. Golgins are large coiled-coil proteins found in the Golgi, and these golgins contain a C-terminal GRIP domain, which is the site of Arl1 binding. Additional Arl1 effectors include the GARP (Golgi-associated retrograde protein)/VFT (Vps53) vesicle-tethering complex and Arfaptin 2. Arl1 is not required for exocytosis, but appears necessary for trafficking from the endosomes to the Golgi. In Drosophila zygotes, mutation of Arl1 is lethal, and in the host-bloodstream form of Trypanosoma brucei, Arl1 is essential for viability.
Probab=82.00 E-value=2.5 Score=32.66 Aligned_cols=67 Identities=13% Similarity=0.022 Sum_probs=34.0
Q ss_pred cEEEEEEeecCcceeec-ccccccccccee--eecCCCCCCCchHHHHH-HHHHc--CCCeEEEEEecCCCCCh
Q psy13818 125 EKIALSRRVEKHWSLIE-GTVTTKVLSTRK--RTGNESCPQPQTSEHLA-AIEIM--KLKHIIILQNKIDLVKE 192 (207)
Q Consensus 125 ~kiaIsR~V~gh~rlig-g~~~~nMiaGa~--V~A~eg~~~pQT~EHl~-il~~l--GI~~iIV~vNK~DlV~~ 192 (207)
.++.+. +.+|+.+|-. |...-.-.+++. +|+.+....+...+++. +++.. .=..++++.||+|+.+.
T Consensus 43 ~~~~i~-Dt~G~~~~~~~~~~~~~~~~~ii~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~piiiv~nK~Dl~~~ 115 (158)
T cd04151 43 LKFQVW-DLGGQTSIRPYWRCYYSNTDAIIYVVDSTDRDRLGTAKEELHAMLEEEELKGAVLLVFANKQDMPGA 115 (158)
T ss_pred EEEEEE-ECCCCHHHHHHHHHHhcCCCEEEEEEECCCHHHHHHHHHHHHHHHhchhhcCCcEEEEEeCCCCCCC
Confidence 355555 8888877652 221111123333 67665321122333332 22221 12468999999999754
No 157
>cd01897 NOG NOG1 is a nucleolar GTP-binding protein present in eukaryotes ranging from trypanosomes to humans. NOG1 is functionally linked to ribosome biogenesis and found in association with the nuclear pore complexes and identified in many preribosomal complexes. Thus, defects in NOG1 can lead to defects in 60S biogenesis. The S. cerevisiae NOG1 gene is essential for cell viability, and mutations in the predicted G motifs abrogate function. It is a member of the ODN family of GTP-binding proteins that also includes the bacterial Obg and DRG proteins.
Probab=81.95 E-value=2.9 Score=32.23 Aligned_cols=24 Identities=33% Similarity=0.439 Sum_probs=17.2
Q ss_pred HHHHcCCCeEEEEEecCCCCChhh
Q psy13818 171 AIEIMKLKHIIILQNKIDLVKEGQ 194 (207)
Q Consensus 171 il~~lGI~~iIV~vNK~DlV~~~~ 194 (207)
+.+.+.-..+|+|.||+|+.+.+.
T Consensus 107 l~~~~~~~pvilv~NK~Dl~~~~~ 130 (168)
T cd01897 107 IKPLFKNKPVIVVLNKIDLLTFED 130 (168)
T ss_pred HHhhcCcCCeEEEEEccccCchhh
Confidence 334443467999999999987553
No 158
>cd01850 CDC_Septin CDC/Septin. Septins are a conserved family of GTP-binding proteins associated with diverse processes in dividing and non-dividing cells. They were first discovered in the budding yeast S. cerevisiae as a set of genes (CDC3, CDC10, CDC11 and CDC12) required for normal bud morphology. Septins are also present in metazoan cells, where they are required for cytokinesis in some systems, and implicated in a variety of other processes involving organization of the cell cortex and exocytosis. In humans, 12 septin genes generate dozens of polypeptides, many of which comprise heterooligomeric complexes. Since septin mutants are commonly defective in cytokinesis and formation of the neck formation of the neck filaments/septin rings, septins have been considered to be the primary constituents of the neck filaments. Septins belong to the GTPase superfamily for their conserved GTPase motifs and enzymatic activities.
Probab=81.36 E-value=4 Score=36.23 Aligned_cols=51 Identities=16% Similarity=0.186 Sum_probs=30.4
Q ss_pred eecCCCCCCCchHHHHHHHHHcCCCeEEEEEecCCCCChhhHHHHHHHHHhhh
Q psy13818 154 RTGNESCPQPQTSEHLAAIEIMKLKHIIILQNKIDLVKEGQANEQHEQIVKFV 206 (207)
Q Consensus 154 V~A~eg~~~pQT~EHl~il~~lGI~~iIV~vNK~DlV~~~~~~~~~~eI~~~l 206 (207)
+++....+.+.-.+-+..+.. + ..+|+|+||+|+...++.....+++.+.+
T Consensus 122 i~~~~~~l~~~D~~~lk~l~~-~-v~vi~VinK~D~l~~~e~~~~k~~i~~~l 172 (276)
T cd01850 122 IEPTGHGLKPLDIEFMKRLSK-R-VNIIPVIAKADTLTPEELKEFKQRIMEDI 172 (276)
T ss_pred EeCCCCCCCHHHHHHHHHHhc-c-CCEEEEEECCCcCCHHHHHHHHHHHHHHH
Confidence 554432224443444444432 3 46889999999998776665666666554
No 159
>PRK00098 GTPase RsgA; Reviewed
Probab=79.32 E-value=13 Score=33.29 Aligned_cols=24 Identities=42% Similarity=0.526 Sum_probs=17.1
Q ss_pred HHHHHHHcCCCeEEEEEecCCCCCh
Q psy13818 168 HLAAIEIMKLKHIIILQNKIDLVKE 192 (207)
Q Consensus 168 Hl~il~~lGI~~iIV~vNK~DlV~~ 192 (207)
.+..+...+++ +|+|+||+||++.
T Consensus 103 ~L~~~~~~~ip-~iIVlNK~DL~~~ 126 (298)
T PRK00098 103 FLVLAEANGIK-PIIVLNKIDLLDD 126 (298)
T ss_pred HHHHHHHCCCC-EEEEEEhHHcCCC
Confidence 34445666765 7789999999843
No 160
>PRK09554 feoB ferrous iron transport protein B; Reviewed
Probab=78.48 E-value=8.8 Score=39.37 Aligned_cols=66 Identities=11% Similarity=0.128 Sum_probs=37.9
Q ss_pred CCcEEEEEEeecCcceeeccc--------ccccc-----cccee--eecCCCCCCCchHHHHHHHHHcCCCeEEEEEecC
Q psy13818 123 VNEKIALSRRVEKHWSLIEGT--------VTTKV-----LSTRK--RTGNESCPQPQTSEHLAAIEIMKLKHIIILQNKI 187 (207)
Q Consensus 123 ~G~kiaIsR~V~gh~rligg~--------~~~nM-----iaGa~--V~A~eg~~~pQT~EHl~il~~lGI~~iIV~vNK~ 187 (207)
.+.++.+. |.||+.+|-+-. +.+.. .+.+. +||+... ..++ -.. -+.-+|++ +|+++||+
T Consensus 48 ~~~~i~lv-DtPG~ysl~~~~~~~s~~E~i~~~~l~~~~aD~vI~VvDat~le-r~l~-l~~-ql~e~giP-vIvVlNK~ 122 (772)
T PRK09554 48 TDHQVTLV-DLPGTYSLTTISSQTSLDEQIACHYILSGDADLLINVVDASNLE-RNLY-LTL-QLLELGIP-CIVALNML 122 (772)
T ss_pred CceEEEEE-ECCCccccccccccccHHHHHHHHHHhccCCCEEEEEecCCcch-hhHH-HHH-HHHHcCCC-EEEEEEch
Confidence 46678776 999998886310 11111 23333 7776643 2222 111 22346765 89999999
Q ss_pred CCCChh
Q psy13818 188 DLVKEG 193 (207)
Q Consensus 188 DlV~~~ 193 (207)
|+.+..
T Consensus 123 Dl~~~~ 128 (772)
T PRK09554 123 DIAEKQ 128 (772)
T ss_pred hhhhcc
Confidence 997543
No 161
>PRK15494 era GTPase Era; Provisional
Probab=77.87 E-value=5.3 Score=36.43 Aligned_cols=37 Identities=24% Similarity=0.276 Sum_probs=25.2
Q ss_pred eecCCCCCCCchHHHHHHHHHcCCCeEEEEEecCCCCCh
Q psy13818 154 RTGNESCPQPQTSEHLAAIEIMKLKHIIILQNKIDLVKE 192 (207)
Q Consensus 154 V~A~eg~~~pQT~EHl~il~~lGI~~iIV~vNK~DlV~~ 192 (207)
+|+.++. ...+.+.+..++..+.+. |+|+||+|+.+.
T Consensus 139 vD~~~s~-~~~~~~il~~l~~~~~p~-IlViNKiDl~~~ 175 (339)
T PRK15494 139 IDSLKSF-DDITHNILDKLRSLNIVP-IFLLNKIDIESK 175 (339)
T ss_pred EECCCCC-CHHHHHHHHHHHhcCCCE-EEEEEhhcCccc
Confidence 7777764 455555555566667665 578999999754
No 162
>KOG0090|consensus
Probab=77.29 E-value=11 Score=33.95 Aligned_cols=87 Identities=17% Similarity=0.152 Sum_probs=57.2
Q ss_pred ccceEEEEEecceEEEEeeCcccccCCcEEEEEEeecCcceeeccccc---ccccccee---eecCCCCC-CCchHHHHH
Q psy13818 98 STGGRVLATKADLAKISLTNPVCTEVNEKIALSRRVEKHWSLIEGTVT---TKVLSTRK---RTGNESCP-QPQTSEHLA 170 (207)
Q Consensus 98 ~t~g~V~~~~~Dla~i~L~~Pvc~~~G~kiaIsR~V~gh~rligg~~~---~nMiaGa~---V~A~eg~~-~pQT~EHl~ 170 (207)
+.-++|+++..+.|.-++..- .+.++ ++|||.|+.=|... .|--+++. ||+.+.-+ ---+.|-++
T Consensus 62 s~~~TvtSiepn~a~~r~gs~-------~~~LV-D~PGH~rlR~kl~e~~~~~~~akaiVFVVDSa~f~k~vrdvaefLy 133 (238)
T KOG0090|consen 62 SHRGTVTSIEPNEATYRLGSE-------NVTLV-DLPGHSRLRRKLLEYLKHNYSAKAIVFVVDSATFLKNVRDVAEFLY 133 (238)
T ss_pred CccCeeeeeccceeeEeecCc-------ceEEE-eCCCcHHHHHHHHHHccccccceeEEEEEeccccchhhHHHHHHHH
Confidence 677899999999888877654 25665 99999999865544 33333333 77766531 123444443
Q ss_pred --HHHH---cCCCeEEEEEecCCCCCh
Q psy13818 171 --AIEI---MKLKHIIILQNKIDLVKE 192 (207)
Q Consensus 171 --il~~---lGI~~iIV~vNK~DlV~~ 192 (207)
++.. -...++.||-||-|+.-.
T Consensus 134 dil~~~~~~~~~~~vLIaCNKqDl~tA 160 (238)
T KOG0090|consen 134 DILLDSRVKKNKPPVLIACNKQDLFTA 160 (238)
T ss_pred HHHHhhccccCCCCEEEEecchhhhhc
Confidence 2333 345679999999998653
No 163
>PRK15467 ethanolamine utilization protein EutP; Provisional
Probab=77.17 E-value=4.3 Score=32.37 Aligned_cols=36 Identities=19% Similarity=0.171 Sum_probs=22.9
Q ss_pred eecCCCCCCCchHHHHHHHHHcCCCeEEEEEecCCCCChh
Q psy13818 154 RTGNESCPQPQTSEHLAAIEIMKLKHIIILQNKIDLVKEG 193 (207)
Q Consensus 154 V~A~eg~~~pQT~EHl~il~~lGI~~iIV~vNK~DlV~~~ 193 (207)
+|++++. +.++.+.+ ++..-+.+++++||+|+.+.+
T Consensus 72 ~d~~~~~-s~~~~~~~---~~~~~~~ii~v~nK~Dl~~~~ 107 (158)
T PRK15467 72 HGANDPE-SRLPAGLL---DIGVSKRQIAVISKTDMPDAD 107 (158)
T ss_pred EeCCCcc-cccCHHHH---hccCCCCeEEEEEccccCccc
Confidence 7888775 45554433 322223589999999997643
No 164
>cd01860 Rab5_related Rab5-related subfamily. This subfamily includes Rab5 and Rab22 of mammals, Ypt51/Ypt52/Ypt53 of yeast, and RabF of plants. The members of this subfamily are involved in endocytosis and endocytic-sorting pathways. In mammals, Rab5 GTPases localize to early endosomes and regulate fusion of clathrin-coated vesicles to early endosomes and fusion between early endosomes. In yeast, Ypt51p family members similarly regulate membrane trafficking through prevacuolar compartments. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence mo
Probab=76.63 E-value=5.1 Score=30.56 Aligned_cols=64 Identities=9% Similarity=0.009 Sum_probs=33.0
Q ss_pred EEEEEEeecCcceeec-cccc-ccccccee--eecCCCCCCCchHHHHHHHHHcCCC--eEEEEEecCCCCC
Q psy13818 126 KIALSRRVEKHWSLIE-GTVT-TKVLSTRK--RTGNESCPQPQTSEHLAAIEIMKLK--HIIILQNKIDLVK 191 (207)
Q Consensus 126 kiaIsR~V~gh~rlig-g~~~-~nMiaGa~--V~A~eg~~~pQT~EHl~il~~lGI~--~iIV~vNK~DlV~ 191 (207)
++.+. +.+|+.++.. +... ++. .++. +|+.....-.+....+..+.....+ .+||+.||+|+.+
T Consensus 51 ~~~i~-D~~G~~~~~~~~~~~~~~~-~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~iivv~nK~D~~~ 120 (163)
T cd01860 51 KFEIW-DTAGQERYRSLAPMYYRGA-AAAIVVYDITSEESFEKAKSWVKELQRNASPNIIIALVGNKADLES 120 (163)
T ss_pred EEEEE-eCCchHHHHHHHHHHhccC-CEEEEEEECcCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECccccc
Confidence 34454 6777766553 2222 332 3333 6665332123334444444444322 3889999999874
No 165
>cd04145 M_R_Ras_like M-Ras/R-Ras-like subfamily. This subfamily contains R-Ras2/TC21, M-Ras/R-Ras3, and related members of the Ras family. M-Ras is expressed in lympho-hematopoetic cells. It interacts with some of the known Ras effectors, but appears to also have its own effectors. Expression of mutated M-Ras leads to transformation of several types of cell lines, including hematopoietic cells, mammary epithelial cells, and fibroblasts. Overexpression of M-Ras is observed in carcinomas from breast, uterus, thyroid, stomach, colon, kidney, lung, and rectum. In addition, expression of a constitutively active M-Ras mutant in murine bone marrow induces a malignant mast cell leukemia that is distinct from the monocytic leukemia induced by H-Ras. TC21, along with H-Ras, has been shown to regulate the branching morphogenesis of ureteric bud cell branching in mice. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an ali
Probab=76.47 E-value=3.5 Score=31.43 Aligned_cols=65 Identities=9% Similarity=0.035 Sum_probs=31.7
Q ss_pred EEEEEEeecCcceeec-cccc-ccccccee--eecCCCCCCCchHH-HHHHHHHcCC--CeEEEEEecCCCCCh
Q psy13818 126 KIALSRRVEKHWSLIE-GTVT-TKVLSTRK--RTGNESCPQPQTSE-HLAAIEIMKL--KHIIILQNKIDLVKE 192 (207)
Q Consensus 126 kiaIsR~V~gh~rlig-g~~~-~nMiaGa~--V~A~eg~~~pQT~E-Hl~il~~lGI--~~iIV~vNK~DlV~~ 192 (207)
++.+. +.+|+.+|-. +.-. ++ .+++. +|+++......-.+ ...+.+.... ..+||+.||+|+.+.
T Consensus 51 ~~~i~-Dt~G~~~~~~~~~~~~~~-~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~piiiv~NK~Dl~~~ 122 (164)
T cd04145 51 ILDIL-DTAGQEEFSAMREQYMRT-GEGFLLVFSVTDRGSFEEVDKFHTQILRVKDRDEFPMILVGNKADLEHQ 122 (164)
T ss_pred EEEEE-ECCCCcchhHHHHHHHhh-CCEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCCCEEEEeeCcccccc
Confidence 34444 7788777653 1111 22 24433 56554320111111 2233333321 258889999999753
No 166
>PF09439 SRPRB: Signal recognition particle receptor beta subunit; InterPro: IPR019009 The signal recognition particle (SRP) is a multimeric protein, which along with its conjugate receptor (SR), is involved in targeting secretory proteins to the rough endoplasmic reticulum (RER) membrane in eukaryotes, or to the plasma membrane in prokaryotes [, ]. SRP recognises the signal sequence of the nascent polypeptide on the ribosome, retards its elongation, and docks the SRP-ribosome-polypeptide complex to the RER membrane via the SR receptor. Eukaryotic SRP consists of six polypeptides (SRP9, SRP14, SRP19, SRP54, SRP68 and SRP72) and a single 300 nucleotide 7S RNA molecule. The RNA component catalyses the interaction of SRP with its SR receptor []. In higher eukaryotes, the SRP complex consists of the Alu domain and the S domain linked by the SRP RNA. The Alu domain consists of a heterodimer of SRP9 and SRP14 bound to the 5' and 3' terminal sequences of SRP RNA. This domain is necessary for retarding the elongation of the nascent polypeptide chain, which gives SRP time to dock the ribosome-polypeptide complex to the RER membrane. In archaea, the SRP complex contains 7S RNA like its eukaryotic counterpart, yet only includes two of the six protein subunits found in the eukarytic complex: SRP19 and SRP54 []. The SR receptor is a monomer consisting of the loosely membrane-associated SR-alpha homologue FtsY, while the eukaryotic SR receptor is a heterodimer of SR-alpha (70 kDa) and SR-beta (25 kDa), both of which contain a GTP-binding domain []. SR-alpha regulates the targeting of SRP-ribosome-nascent polypeptide complexes to the translocon []. SR-alpha binds to the SRP54 subunit of the SRP complex. The SR-beta subunit is a transmembrane GTPase that anchors the SR-alpha subunit (a peripheral membrane GTPase) to the ER membrane []. SR-beta interacts with the N-terminal SRX-domain of SR-alpha, which is not present in the bacterial FtsY homologue. SR-beta also functions in recruiting the SRP-nascent polypeptide to the protein-conducting channel. The beta subunit of the signal recognition particle receptor (SRP) is a transmembrane GTPase, which anchors the alpha subunit to the endoplasmic reticulum membrane []. ; PDB: 2GED_B 1NRJ_B 2GO5_2 2FH5_B.
Probab=76.17 E-value=4.3 Score=34.62 Aligned_cols=88 Identities=18% Similarity=0.126 Sum_probs=43.5
Q ss_pred cceEEEEEecceEEEEeeCcccccCCcEEEEEEeecCcceeeccccc----ccccccee--eecCCCC-CCCchHHHHHH
Q psy13818 99 TGGRVLATKADLAKISLTNPVCTEVNEKIALSRRVEKHWSLIEGTVT----TKVLSTRK--RTGNESC-PQPQTSEHLAA 171 (207)
Q Consensus 99 t~g~V~~~~~Dla~i~L~~Pvc~~~G~kiaIsR~V~gh~rligg~~~----~nMiaGa~--V~A~eg~-~~pQT~EHl~i 171 (207)
+..+|+|+..+.+ ..+..+ .+.++.++ ++|||.|+-...+. ..-+.|.. ||+.... -.-++.|+|+=
T Consensus 28 ~~~T~tS~e~n~~-~~~~~~----~~~~~~lv-D~PGH~rlr~~~~~~~~~~~~~k~IIfvvDSs~~~~~~~~~Ae~Ly~ 101 (181)
T PF09439_consen 28 TVPTVTSMENNIA-YNVNNS----KGKKLRLV-DIPGHPRLRSKLLDELKYLSNAKGIIFVVDSSTDQKELRDVAEYLYD 101 (181)
T ss_dssp ---B---SSEEEE-CCGSST----CGTCECEE-EETT-HCCCHHHHHHHHHHGGEEEEEEEEETTTHHHHHHHHHHHHHH
T ss_pred cCCeeccccCCce-EEeecC----CCCEEEEE-ECCCcHHHHHHHHHhhhchhhCCEEEEEEeCccchhhHHHHHHHHHH
Confidence 3456666633332 222222 45577776 99999999853222 12234443 8886421 02466777642
Q ss_pred --HHH---cCCCeEEEEEecCCCCCh
Q psy13818 172 --IEI---MKLKHIIILQNKIDLVKE 192 (207)
Q Consensus 172 --l~~---lGI~~iIV~vNK~DlV~~ 192 (207)
... -.-..+.|+.||.|+..-
T Consensus 102 iL~~~~~~~~~~piLIacNK~Dl~~A 127 (181)
T PF09439_consen 102 ILSDTEVQKNKPPILIACNKQDLFTA 127 (181)
T ss_dssp HHHHHHCCTT--EEEEEEE-TTSTT-
T ss_pred HHHhhhhccCCCCEEEEEeCcccccc
Confidence 222 245678999999998763
No 167
>cd01898 Obg Obg subfamily. The Obg nucleotide binding protein subfamily has been implicated in stress response, chromosome partitioning, replication initiation, mycelium development, and sporulation. Obg proteins are among a large group of GTP binding proteins conserved from bacteria to humans. The E. coli homolog, ObgE is believed to function in ribosomal biogenesis. Members of the subfamily contain two equally and highly conserved domains, a C-terminal GTP binding domain and an N-terminal glycine-rich domain.
Probab=75.99 E-value=3 Score=32.12 Aligned_cols=17 Identities=47% Similarity=0.657 Sum_probs=13.5
Q ss_pred CeEEEEEecCCCCChhh
Q psy13818 178 KHIIILQNKIDLVKEGQ 194 (207)
Q Consensus 178 ~~iIV~vNK~DlV~~~~ 194 (207)
+.+++++||+|+.+...
T Consensus 115 ~p~ivv~NK~Dl~~~~~ 131 (170)
T cd01898 115 KPRIVVLNKIDLLDEEE 131 (170)
T ss_pred cccEEEEEchhcCCchh
Confidence 45789999999987653
No 168
>PRK09435 membrane ATPase/protein kinase; Provisional
Probab=75.90 E-value=2.6 Score=39.07 Aligned_cols=26 Identities=19% Similarity=0.152 Sum_probs=19.9
Q ss_pred EEEEecCCCCChhhHHHHHHHHHhhh
Q psy13818 181 IILQNKIDLVKEGQANEQHEQIVKFV 206 (207)
Q Consensus 181 IV~vNK~DlV~~~~~~~~~~eI~~~l 206 (207)
|+|+||+|+.+.+.+.....++++.+
T Consensus 198 IiVVNKaDl~~~~~a~~~~~el~~~L 223 (332)
T PRK09435 198 LIVINKADGDNKTAARRAAAEYRSAL 223 (332)
T ss_pred eEEeehhcccchhHHHHHHHHHHHHH
Confidence 79999999998766666666676554
No 169
>smart00053 DYNc Dynamin, GTPase. Large GTPases that mediate vesicle trafficking. Dynamin participates in the endocytic uptake of receptors, associated ligands, and plasma membrane following an exocytic event.
Probab=75.78 E-value=6.7 Score=34.64 Aligned_cols=82 Identities=12% Similarity=0.118 Sum_probs=50.2
Q ss_pred EEEecceEEEEeeCcccccCCcEEEEEEeecCcceeec-cc---c---cccccccee----------eecCCCCCCCchH
Q psy13818 104 LATKADLAKISLTNPVCTEVNEKIALSRRVEKHWSLIE-GT---V---TTKVLSTRK----------RTGNESCPQPQTS 166 (207)
Q Consensus 104 ~~~~~Dla~i~L~~Pvc~~~G~kiaIsR~V~gh~rlig-g~---~---~~nMiaGa~----------V~A~eg~~~pQT~ 166 (207)
.+++.|...+....|-|. ...++ +.||--+... +. + ..+|+.-+. ++|+.+. .+|.
T Consensus 108 ~~~s~~~i~l~i~~p~~~----~ltLI-DlPGl~~~~~~~~~~~~~~~i~~lv~~yi~~~~~IIL~Vvda~~d~-~~~d- 180 (240)
T smart00053 108 KGISPVPINLRVYSPHVL----NLTLI-DLPGITKVAVGDQPPDIEEQIKDMIKQFISKEECLILAVTPANVDL-ANSD- 180 (240)
T ss_pred CcccCcceEEEEeCCCCC----ceEEE-eCCCccccccCCccHHHHHHHHHHHHHHHhCccCeEEEEEECCCCC-Cchh-
Confidence 457889999999999653 36665 7777643210 10 0 134333221 7788775 6664
Q ss_pred HHHHHHHHcC--CCeEEEEEecCCCCChh
Q psy13818 167 EHLAAIEIMK--LKHIIILQNKIDLVKEG 193 (207)
Q Consensus 167 EHl~il~~lG--I~~iIV~vNK~DlV~~~ 193 (207)
.+.+++.+. -+..|+|+||+|..++.
T Consensus 181 -~l~ia~~ld~~~~rti~ViTK~D~~~~~ 208 (240)
T smart00053 181 -ALKLAKEVDPQGERTIGVITKLDLMDEG 208 (240)
T ss_pred -HHHHHHHHHHcCCcEEEEEECCCCCCcc
Confidence 334444432 25789999999998765
No 170
>PF02492 cobW: CobW/HypB/UreG, nucleotide-binding domain; InterPro: IPR003495 Cobalamin (vitamin B12) is a structurally complex cofactor, consisting of a modified tetrapyrrole with a centrally chelated cobalt. Cobalamin is usually found in one of two biologically active forms: methylcobalamin and adocobalamin. Most prokaryotes, as well as animals, have cobalamin-dependent enzymes, whereas plants and fungi do not appear to use it. In bacteria and archaea, these include methionine synthase, ribonucleotide reductase, glutamate and methylmalonyl-CoA mutases, ethanolamine ammonia lyase, and diol dehydratase []. In mammals, cobalamin is obtained through the diet, and is required for methionine synthase and methylmalonyl-CoA mutase []. There are at least two distinct cobalamin biosynthetic pathways in bacteria []: Aerobic pathway that requires oxygen and in which cobalt is inserted late in the pathway []; found in Pseudomonas denitrificans and Rhodobacter capsulatus. Anaerobic pathway in which cobalt insertion is the first committed step towards cobalamin synthesis []; found in Salmonella typhimurium, Bacillus megaterium, and Propionibacterium freudenreichii subsp. shermanii. Either pathway can be divided into two parts: (1) corrin ring synthesis (differs in aerobic and anaerobic pathways) and (2) adenosylation of corrin ring, attachment of aminopropanol arm, and assembly of the nucleotide loop (common to both pathways) []. There are about 30 enzymes involved in either pathway, where those involved in the aerobic pathway are prefixed Cob and those of the anaerobic pathway Cbi. Several of these enzymes are pathway-specific: CbiD, CbiG, and CbiK are specific to the anaerobic route of S. typhimurium, whereas CobE, CobF, CobG, CobN, CobS, CobT, and CobW are unique to the aerobic pathway of P. denitrificans. CobW proteins are generally found proximal to the trimeric cobaltochelatase subunit CobN, which is essential for vitamin B12 (cobalamin) biosynthesis []. They contain a P-loop nucleotide-binding loop in the N-terminal domain and a histidine-rich region in the C-terminal portion suggesting a role in metal binding, possibly as an intermediary between the cobalt transport and chelation systems. CobW might be involved in cobalt reduction leading to cobalt(I) corrinoids. This entry represents CobW-like proteins, including P47K (P31521 from SWISSPROT), a Pseudomonas chlororaphis protein needed for nitrile hydratase expression [], and urease accessory protein UreG, which acts as a chaperone in the activation of urease upon insertion of nickel into the active site [].; PDB: 2WSM_B 1NIJ_A 2HF9_A 2HF8_B.
Probab=75.43 E-value=1.7 Score=35.62 Aligned_cols=48 Identities=23% Similarity=0.222 Sum_probs=27.4
Q ss_pred eecCCCCCCCchHHHHHHHHHcCCCeEEEEEecCCCCChhhH-HHHHHHHHh
Q psy13818 154 RTGNESCPQPQTSEHLAAIEIMKLKHIIILQNKIDLVKEGQA-NEQHEQIVK 204 (207)
Q Consensus 154 V~A~eg~~~pQT~EHl~il~~lGI~~iIV~vNK~DlV~~~~~-~~~~~eI~~ 204 (207)
|||...- ..+.. +..+.+++..-++| ++||+|++++++. +...+.|++
T Consensus 121 VDa~~~~-~~~~~-~~~~~~Qi~~ADvI-vlnK~D~~~~~~~i~~~~~~ir~ 169 (178)
T PF02492_consen 121 VDATNFD-ELENI-PELLREQIAFADVI-VLNKIDLVSDEQKIERVREMIRE 169 (178)
T ss_dssp EEGTTHG-GHTTH-CHHHHHHHCT-SEE-EEE-GGGHHHH--HHHHHHHHHH
T ss_pred ecccccc-ccccc-hhhhhhcchhcCEE-EEeccccCChhhHHHHHHHHHHH
Confidence 7775431 22333 45567777777765 4999999998844 444455554
No 171
>PF02421 FeoB_N: Ferrous iron transport protein B; InterPro: IPR011619 Escherichia coli has an iron(II) transport system (feo) which may make an important contribution to the iron supply of the cell under anaerobic conditions. FeoB has been identified as part of this transport system and may play a role in the transport of ferrous iron. FeoB is a large 700-800 amino acid integral membrane protein. The N terminus contains a P-loop motif suggesting that iron transport may be ATP dependent [].; GO: 0005525 GTP binding, 0015093 ferrous iron transmembrane transporter activity, 0015684 ferrous iron transport, 0016021 integral to membrane; PDB: 3TAH_B 3B1X_A 3SS8_A 3B1W_C 3B1V_A 3LX5_A 3B1Y_A 3LX8_A 3B1Z_A 3K53_B ....
Probab=75.03 E-value=1.1 Score=37.22 Aligned_cols=28 Identities=14% Similarity=0.245 Sum_probs=19.8
Q ss_pred hHHHHHHH---HHcCCCeEEEEEecCCCCChh
Q psy13818 165 TSEHLAAI---EIMKLKHIIILQNKIDLVKEG 193 (207)
Q Consensus 165 T~EHl~il---~~lGI~~iIV~vNK~DlV~~~ 193 (207)
..+++.++ .-+|++ +|+|+||||++...
T Consensus 91 l~r~l~l~~ql~e~g~P-~vvvlN~~D~a~~~ 121 (156)
T PF02421_consen 91 LERNLYLTLQLLELGIP-VVVVLNKMDEAERK 121 (156)
T ss_dssp HHHHHHHHHHHHHTTSS-EEEEEETHHHHHHT
T ss_pred HHHHHHHHHHHHHcCCC-EEEEEeCHHHHHHc
Confidence 44555554 347876 89999999987654
No 172
>cd04104 p47_IIGP_like p47 (47-kDa) family. The p47 GTPase family consists of several highly homologous proteins, including IGTP, TGTP/Mg21, IRG-47, GTPI, LRG-47, and IIGP1. They are found in higher eukaryotes where they play a role in immune resistance against intracellular pathogens. p47 proteins exist at low resting levels in mouse cells, but are strongly induced by Type II interferon (IFN-gamma). ITGP is critical for resistance to Toxoplasma gondii infection and in involved in inhibition of Coxsackievirus-B3-induced apoptosis. TGTP was shown to limit vesicular stomatitis virus (VSV) infection of fibroblasts in vitro. IRG-47 is involved in resistance to T. gondii infection. LRG-47 has been implicated in resistance to T. gondii, Listeria monocytogenes, Leishmania, and mycobacterial infections. IIGP1 has been shown to localize to the ER and to the Golgi membranes in IFN-induced cells and inflamed tissues. In macrophages, IIGP1 interacts with hook3, a microtubule binding protei
Probab=74.27 E-value=6.9 Score=32.28 Aligned_cols=26 Identities=23% Similarity=0.256 Sum_probs=18.5
Q ss_pred HHHHHHHHHcCCCeEEEEEecCCCCCh
Q psy13818 166 SEHLAAIEIMKLKHIIILQNKIDLVKE 192 (207)
Q Consensus 166 ~EHl~il~~lGI~~iIV~vNK~DlV~~ 192 (207)
.+.+..++-.| +.+++|.||+|+..+
T Consensus 97 ~~~~~~l~~~~-~~~ilV~nK~D~~~~ 122 (197)
T cd04104 97 VKLAKAIQCMG-KKFYFVRTKVDRDLS 122 (197)
T ss_pred HHHHHHHHHhC-CCEEEEEecccchhh
Confidence 34455566666 468999999999654
No 173
>cd01855 YqeH YqeH. YqeH is an essential GTP-binding protein. Depletion of YqeH induces an excess initiation of DNA replication, suggesting that it negatively controls initiation of chromosome replication. The YqeH subfamily is common in eukaryotes and sporadically present in bacteria with probable acquisition by plants from chloroplasts. Proteins of the YqeH family contain all sequence motifs typical of the vast class of P-loop-containing GTPases, but show a circular permutation, with a G4-G1-G3 pattern of motifs as opposed to the regular G1-G3-G4 pattern seen in most GTPases.
Probab=74.25 E-value=3.3 Score=33.64 Aligned_cols=16 Identities=38% Similarity=0.679 Sum_probs=13.1
Q ss_pred CeEEEEEecCCCCChh
Q psy13818 178 KHIIILQNKIDLVKEG 193 (207)
Q Consensus 178 ~~iIV~vNK~DlV~~~ 193 (207)
+.+|+++||+|+++.+
T Consensus 62 ~~~ilV~NK~Dl~~~~ 77 (190)
T cd01855 62 NPVILVGNKIDLLPKD 77 (190)
T ss_pred CcEEEEEEchhcCCCC
Confidence 5788999999998643
No 174
>TIGR02475 CobW cobalamin biosynthesis protein CobW. A broader CobW family is delineated by two PFAM models which identify the N- and C-terminal domains (pfam02492 and pfam07683).
Probab=74.09 E-value=3.7 Score=37.77 Aligned_cols=34 Identities=15% Similarity=0.198 Sum_probs=25.0
Q ss_pred HHHHcCCCeEEEEEecCCCCChhhHHHHHHHHHhh
Q psy13818 171 AIEIMKLKHIIILQNKIDLVKEGQANEQHEQIVKF 205 (207)
Q Consensus 171 il~~lGI~~iIV~vNK~DlV~~~~~~~~~~eI~~~ 205 (207)
+.+++....+ |++||+|++++++.++..+.|++.
T Consensus 168 ~~~Qi~~AD~-IvlnK~Dl~~~~~l~~~~~~l~~~ 201 (341)
T TIGR02475 168 FEDQLACADL-VILNKADLLDAAGLARVRAEIAAE 201 (341)
T ss_pred HHHHHHhCCE-EEEeccccCCHHHHHHHHHHHHHh
Confidence 3456665544 569999999998887777777763
No 175
>PF00025 Arf: ADP-ribosylation factor family The prints entry specific to Sar1 proteins The Prosite entry specific to Sar1 proteins; InterPro: IPR006689 Small GTPases form an independent superfamily within the larger class of regulatory GTP hydrolases. This superfamily contains proteins that control a vast number of important processes and possess a common, structurally preserved GTP-binding domain [, ]. Sequence comparisons of small G proteins from various species have revealed that they are conserved in primary structures at the level of 30-55% similarity []. Crystallographic analysis of various small G proteins revealed the presence of a 20 kDa catalytic domain that is unique for the whole superfamily [, ]. The domain is built of five alpha helices (A1-A5), six beta-strands (B1-B6) and five polypeptide loops (G1-G5). A structural comparison of the GTP- and GDP-bound form, allows one to distinguish two functional loop regions: switch I and switch II that surround the gamma-phosphate group of the nucleotide. The G1 loop (also called the P-loop) that connects the B1 strand and the A1 helix is responsible for the binding of the phosphate groups. The G3 loop provides residues for Mg(2+) and phosphate binding and is located at the N terminus of the A2 helix. The G1 and G3 loops are sequentially similar to Walker A and Walker B boxes that are found in other nucleotide binding motifs. The G2 loop connects the A1 helix and the B2 strand and contains a conserved Thr residue responsible for Mg(2+) binding. The guanine base is recognised by the G4 and G5 loops. The consensus sequence NKXD of the G4 loop contains Lys and Asp residues directly interacting with the nucleotide. Part of the G5 loop located between B6 and A5 acts as a recognition site for the guanine base []. The small GTPase superfamily can be divided into at least 8 different families, including: Arf small GTPases. GTP-binding proteins involved in protein trafficking by modulating vesicle budding and uncoating within the Golgi apparatus. Ran small GTPases. GTP-binding proteins involved in nucleocytoplasmic transport. Required for the import of proteins into the nucleus and also for RNA export. Rab small GTPases. GTP-binding proteins involved in vesicular traffic. Rho small GTPases. GTP-binding proteins that control cytoskeleton reorganisation. Ras small GTPases. GTP-binding proteins involved in signalling pathways. Sar1 small GTPases. Small GTPase component of the coat protein complex II (COPII) which promotes the formation of transport vesicles from the endoplasmic reticulum (ER). Mitochondrial Rho (Miro). Small GTPase domain found in mitochondrial proteins involved in mitochondrial trafficking. Roc small GTPases domain. Small GTPase domain always found associated with the COR domain. This entry represents a branch of the small GTPase superfamily that includes the ADP ribosylation factor Arf, Arl (Arf-like), Arp (Arf-related proteins) and the remotely related Sar (Secretion-associated and Ras-related) proteins. Arf proteins are major regulators of vesicle biogenesis in intracellular traffic []. They cycle between inactive GDP-bound and active GTP-bound forms that bind selectively to effectors. The classical structural GDP/GTP switch is characterised by conformational changes at the so-called switch 1 and switch 2 regions, which bind tightly to the gamma-phosphate of GTP but poorly or not at all to the GDP nucleotide. Structural studies of Arf1 and Arf6 have revealed that although these proteins feature the switch 1 and 2 conformational changes, they depart from other small GTP-binding proteins in that they use an additional, unique switch to propagate structural information from one side of the protein to the other. The GDP/GTP structural cycles of human Arf1 and Arf6 feature a unique conformational change that affects the beta2-beta3 strands connecting switch 1 and switch 2 (interswitch) and also the amphipathic helical N terminus. In GDP-bound Arf1 and Arf6, the interswitch is retracted and forms a pocket to which the N-terminal helix binds, the latter serving as a molecular hasp to maintain the inactive conformation. In the GTP-bound form of these proteins, the interswitch undergoes a two-residue register shift that pulls switch 1 and switch 2 up, restoring an active conformation that can bind GTP. In this conformation, the interswitch projects out of the protein and extrudes the N-terminal hasp by occluding its binding pocket.; GO: 0005525 GTP binding; PDB: 2H57_B 2W83_B 3N5C_B 2J5X_A 3LVR_E 2BAO_A 3LVQ_E 2A5F_A 3PCR_B 1E0S_A ....
Probab=74.08 E-value=11 Score=30.46 Aligned_cols=68 Identities=16% Similarity=0.106 Sum_probs=43.9
Q ss_pred CCcEEEEEEeecCcceeec-cccc-ccccccee--eecCCCCCCCchHHHHHHH-H--HcCCCeEEEEEecCCCCCh
Q psy13818 123 VNEKIALSRRVEKHWSLIE-GTVT-TKVLSTRK--RTGNESCPQPQTSEHLAAI-E--IMKLKHIIILQNKIDLVKE 192 (207)
Q Consensus 123 ~G~kiaIsR~V~gh~rlig-g~~~-~nMiaGa~--V~A~eg~~~pQT~EHl~il-~--~lGI~~iIV~vNK~DlV~~ 192 (207)
.+.++.+ .+++|+.++-- |..+ ++. .|.. ||+.+...+++.++.+.-+ + .+.-..++|+.||.|+.+.
T Consensus 56 ~~~~~~~-~d~gG~~~~~~~w~~y~~~~-~~iIfVvDssd~~~l~e~~~~L~~ll~~~~~~~~piLIl~NK~D~~~~ 130 (175)
T PF00025_consen 56 KGYSLTI-WDLGGQESFRPLWKSYFQNA-DGIIFVVDSSDPERLQEAKEELKELLNDPELKDIPILILANKQDLPDA 130 (175)
T ss_dssp TTEEEEE-EEESSSGGGGGGGGGGHTTE-SEEEEEEETTGGGGHHHHHHHHHHHHTSGGGTTSEEEEEEESTTSTTS
T ss_pred CcEEEEE-Eeccccccccccceeecccc-ceeEEEEecccceeecccccchhhhcchhhcccceEEEEeccccccCc
Confidence 3446665 48888877655 6555 443 5544 8888653367788776432 2 1333568899999999764
No 176
>PRK03003 GTP-binding protein Der; Reviewed
Probab=73.99 E-value=11 Score=35.64 Aligned_cols=37 Identities=11% Similarity=0.085 Sum_probs=26.3
Q ss_pred eecCCCCCCCchHHHHHHHHHcCCCeEEEEEecCCCCCh
Q psy13818 154 RTGNESCPQPQTSEHLAAIEIMKLKHIIILQNKIDLVKE 192 (207)
Q Consensus 154 V~A~eg~~~pQT~EHl~il~~lGI~~iIV~vNK~DlV~~ 192 (207)
+|+.++. .+...+-+..++..+. .+|+|+||+|+...
T Consensus 125 vD~~~~~-s~~~~~i~~~l~~~~~-piilV~NK~Dl~~~ 161 (472)
T PRK03003 125 VDATVGA-TATDEAVARVLRRSGK-PVILAANKVDDERG 161 (472)
T ss_pred EECCCCC-CHHHHHHHHHHHHcCC-CEEEEEECccCCcc
Confidence 8888885 5555555556665554 59999999999653
No 177
>PF03143 GTP_EFTU_D3: Elongation factor Tu C-terminal domain; InterPro: IPR004160 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 the C-terminal domain, which adopts a beta-barrel structure, and is involved in binding to both charged tRNA and to EF1B (or EF-Ts, IPR001816 from INTERPRO) []. More information about these proteins can be found at Protein of the Month: Elongation Factors [].; GO: 0005525 GTP binding; PDB: 1TUI_C 1OB5_E 1TTT_B 1B23_P 1EFT_A 3E20_E 1R5B_A 1R5O_A 1R5N_A 3AGJ_C ....
Probab=73.07 E-value=11 Score=28.40 Aligned_cols=51 Identities=18% Similarity=0.343 Sum_probs=39.6
Q ss_pred eccCccCceEEEEeeccccceEEEEEe---------------cceE--EEEeeCcccccCCcEEEEEEe
Q psy13818 81 VQKLTRNEVLLVNIGSLSTGGRVLATK---------------ADLA--KISLTNPVCTEVNEKIALSRR 132 (207)
Q Consensus 81 v~~l~~~E~lmlniGs~~t~g~V~~~~---------------~Dla--~i~L~~Pvc~~~G~kiaIsR~ 132 (207)
-.+|+.|-..++.++++...+++..+. .|.| ++.+.+|+|.+.++|..+ |+
T Consensus 18 ~~~i~~Gy~~~~~~~t~~~~~~i~~i~~~~~~~~~~p~~l~~g~~a~v~l~~~~pi~ve~~~Rf~l-R~ 85 (99)
T PF03143_consen 18 PKPISPGYQPVLHIHTADVPCRIVKIISKIDTGKKKPKFLKPGDRAVVELEFQKPICVEPFSRFIL-RD 85 (99)
T ss_dssp SS-BETTEEEEEEETTEEEEEEEEEEEEEESTTTEE-SEB-TTEEEEEEEEEEEEEEETTTTEEEE-EE
T ss_pred CccccCCCccceEEeeceeeEEEEeeeeccccccccccccccccccccceeeccceeeecCceEEE-cc
Confidence 568888999999999999999998882 2324 556688999999998777 45
No 178
>TIGR02729 Obg_CgtA Obg family GTPase CgtA. This model describes a univeral, mostly one-gene-per-genome GTP-binding protein that associates with ribosomal subunits and appears to play a role in ribosomal RNA maturation. This GTPase, related to the nucleolar protein Obg, is designated CgtA in bacteria. Mutations in this gene are pleiotropic, but it appears that effects on cellular functions such as chromosome partition may be secondary to the effect on ribosome structure. Recent work done in Vibrio cholerae shows an essential role in the stringent response, in which RelA-dependent ability to synthesize the alarmone ppGpp is required for deletion of this GTPase to be lethal.
Probab=72.66 E-value=4.6 Score=36.88 Aligned_cols=25 Identities=36% Similarity=0.505 Sum_probs=16.7
Q ss_pred CeEEEEEecCCCCChhhHHHHHHHH
Q psy13818 178 KHIIILQNKIDLVKEGQANEQHEQI 202 (207)
Q Consensus 178 ~~iIV~vNK~DlV~~~~~~~~~~eI 202 (207)
+.+|||+||+|+.+.+..++..+++
T Consensus 274 kp~IIV~NK~DL~~~~~~~~~~~~l 298 (329)
T TIGR02729 274 KPRIVVLNKIDLLDEEELAELLKEL 298 (329)
T ss_pred CCEEEEEeCccCCChHHHHHHHHHH
Confidence 5678899999998765433333333
No 179
>KOG2485|consensus
Probab=72.43 E-value=4.6 Score=38.03 Aligned_cols=40 Identities=23% Similarity=0.233 Sum_probs=32.3
Q ss_pred eecCCCCCCCchHHHHHHHHHcCCCeEEEEEecCCCCChhh
Q psy13818 154 RTGNESCPQPQTSEHLAAIEIMKLKHIIILQNKIDLVKEGQ 194 (207)
Q Consensus 154 V~A~eg~~~pQT~EHl~il~~lGI~~iIV~vNK~DlV~~~~ 194 (207)
|--.+.. -|=+.+.-..=++++.+.=|||+|||||.+..+
T Consensus 51 iEvrDaR-iPLssrn~~~~~~~~~k~riiVlNK~DLad~~~ 90 (335)
T KOG2485|consen 51 IEVRDAR-IPLSSRNELFQDFLPPKPRIIVLNKMDLADPKE 90 (335)
T ss_pred EEeeccc-cCCccccHHHHHhcCCCceEEEEecccccCchh
Confidence 3334444 688889999999999999999999999999543
No 180
>COG0523 Putative GTPases (G3E family) [General function prediction only]
Probab=72.10 E-value=4.2 Score=37.53 Aligned_cols=49 Identities=16% Similarity=0.155 Sum_probs=29.1
Q ss_pred eecCCCCCCCchHHHHHHHHHcCCCeEEEEEecCCCCChhhHHHHHHHHHh
Q psy13818 154 RTGNESCPQPQTSEHLAAIEIMKLKHIIILQNKIDLVKEGQANEQHEQIVK 204 (207)
Q Consensus 154 V~A~eg~~~pQT~EHl~il~~lGI~~iIV~vNK~DlV~~~~~~~~~~eI~~ 204 (207)
|||.-.. ......+-.+-+++..-.+ |++||.|+++.++.+.....+++
T Consensus 124 VDa~~~~-~~~~~~~~~~~~Qia~AD~-ivlNK~Dlv~~~~l~~l~~~l~~ 172 (323)
T COG0523 124 VDAAHFL-EGLDAIAELAEDQLAFADV-IVLNKTDLVDAEELEALEARLRK 172 (323)
T ss_pred EeHHHhh-hhHHHHHHHHHHHHHhCcE-EEEecccCCCHHHHHHHHHHHHH
Confidence 6665543 2232244555566665554 56999999998865444444443
No 181
>cd01881 Obg_like The Obg-like subfamily consists of five well-delimited, ancient subfamilies, namely Obg, DRG, YyaF/YchF, Ygr210, and NOG1. Four of these groups (Obg, DRG, YyaF/YchF, and Ygr210) are characterized by a distinct glycine-rich motif immediately following the Walker B motif (G3 box). Obg/CgtA is an essential gene that is involved in the initiation of sporulation and DNA replication in the bacteria Caulobacter and Bacillus, but its exact molecular role is unknown. Furthermore, several OBG family members possess a C-terminal RNA-binding domain, the TGS domain, which is also present in threonyl-tRNA synthetase and in bacterial guanosine polyphosphatase SpoT. Nog1 is a nucleolar protein that might function in ribosome assembly. The DRG and Nog1 subfamilies are ubiquitous in archaea and eukaryotes, the Ygr210 subfamily is present in archaea and fungi, and the Obg and YyaF/YchF subfamilies are ubiquitous in bacteria and eukaryotes. The Obg/Nog1 and DRG subfamilies appear to
Probab=71.42 E-value=5.8 Score=30.46 Aligned_cols=18 Identities=39% Similarity=0.477 Sum_probs=14.1
Q ss_pred CeEEEEEecCCCCChhhH
Q psy13818 178 KHIIILQNKIDLVKEGQA 195 (207)
Q Consensus 178 ~~iIV~vNK~DlV~~~~~ 195 (207)
..+++++||+|+.+.+..
T Consensus 121 ~p~ivv~NK~Dl~~~~~~ 138 (176)
T cd01881 121 KPVIYVLNKIDLDDAEEL 138 (176)
T ss_pred CCeEEEEEchhcCchhHH
Confidence 568888999999876543
No 182
>cd04116 Rab9 Rab9 subfamily. Rab9 is found in late endosomes, together with mannose 6-phosphate receptors (MPRs) and the tail-interacting protein of 47 kD (TIP47). Rab9 is a key mediator of vesicular transport from late endosomes to the trans-Golgi network (TGN) by redirecting the MPRs. Rab9 has been identified as a key component for the replication of several viruses, including HIV1, Ebola, Marburg, and measles, making it a potential target for inhibiting a variety of viruses. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CX
Probab=71.14 E-value=6.8 Score=30.39 Aligned_cols=13 Identities=31% Similarity=0.519 Sum_probs=10.7
Q ss_pred eEEEEEecCCCCC
Q psy13818 179 HIIILQNKIDLVK 191 (207)
Q Consensus 179 ~iIV~vNK~DlV~ 191 (207)
-+|++.||+|+.+
T Consensus 116 piilv~nK~Dl~~ 128 (170)
T cd04116 116 PFVVLGNKNDIPE 128 (170)
T ss_pred cEEEEEECccccc
Confidence 3788999999964
No 183
>TIGR00157 ribosome small subunit-dependent GTPase A. The Aquifex aeolicus ortholog is split into consecutive open reading frames. Consequently, this model was build in fragment mode (-f option).
Probab=70.03 E-value=27 Score=30.40 Aligned_cols=28 Identities=32% Similarity=0.456 Sum_probs=18.8
Q ss_pred hHHHHHHHHHcCCCeEEEEEecCCCCChh
Q psy13818 165 TSEHLAAIEIMKLKHIIILQNKIDLVKEG 193 (207)
Q Consensus 165 T~EHl~il~~lGI~~iIV~vNK~DlV~~~ 193 (207)
-.+.+..++.-++ .+|+|+||+||.+..
T Consensus 56 l~r~l~~~~~~~i-~~vIV~NK~DL~~~~ 83 (245)
T TIGR00157 56 LDRFLVVAEAQNI-EPIIVLNKIDLLDDE 83 (245)
T ss_pred HHHHHHHHHHCCC-CEEEEEECcccCCCH
Confidence 3344445555666 467789999998654
No 184
>TIGR03156 GTP_HflX GTP-binding protein HflX. This protein family is one of a number of homologous small, well-conserved GTP-binding proteins with pleiotropic effects. Bacterial members are designated HflX, following the naming convention in Escherichia coli where HflX is encoded immediately downstream of the RNA chaperone Hfq, and immediately upstream of HflKC, a membrane-associated protease pair with an important housekeeping function. Over large numbers of other bacterial genomes, the pairing with hfq is more significant than with hflK and hlfC. The gene from Homo sapiens in this family has been named PGPL (pseudoautosomal GTP-binding protein-like).
Probab=69.78 E-value=6.5 Score=36.26 Aligned_cols=36 Identities=22% Similarity=0.315 Sum_probs=24.2
Q ss_pred eecCCCCCCCchHHH----HHHHHHcCC--CeEEEEEecCCCCChh
Q psy13818 154 RTGNESCPQPQTSEH----LAAIEIMKL--KHIIILQNKIDLVKEG 193 (207)
Q Consensus 154 V~A~eg~~~pQT~EH----l~il~~lGI--~~iIV~vNK~DlV~~~ 193 (207)
+|+.+. ++.+| ..+++.++. ..+|+|+||+|+.+.+
T Consensus 276 vD~s~~----~~~~~~~~~~~~L~~l~~~~~piIlV~NK~Dl~~~~ 317 (351)
T TIGR03156 276 VDASDP----DREEQIEAVEKVLEELGAEDIPQLLVYNKIDLLDEP 317 (351)
T ss_pred EECCCC----chHHHHHHHHHHHHHhccCCCCEEEEEEeecCCChH
Confidence 666544 34444 356777763 4589999999998654
No 185
>KOG2484|consensus
Probab=69.25 E-value=12 Score=36.34 Aligned_cols=42 Identities=24% Similarity=0.359 Sum_probs=28.2
Q ss_pred eecCC--CCCCCchHHHHHHHHHcCCCeEEEEEecCCCCChhhHHH
Q psy13818 154 RTGNE--SCPQPQTSEHLAAIEIMKLKHIIILQNKIDLVKEGQANE 197 (207)
Q Consensus 154 V~A~e--g~~~pQT~EHl~il~~lGI~~iIV~vNK~DlV~~~~~~~ 197 (207)
+||.+ |+-.||--|- ++..=|=+++|+++||+|||-.+-+++
T Consensus 154 lDARDPlgtR~~~vE~~--V~~~~gnKkLILVLNK~DLVPrEv~e~ 197 (435)
T KOG2484|consen 154 LDARDPLGTRCPEVEEA--VLQAHGNKKLILVLNKIDLVPREVVEK 197 (435)
T ss_pred eeccCCCCCCChhHHHH--HHhccCCceEEEEeehhccCCHHHHHH
Confidence 78875 4434555543 233335699999999999998764443
No 186
>TIGR00437 feoB ferrous iron transporter FeoB. FeoB (773 amino acids in E. coli), a cytoplasmic membrane protein required for iron(II) update, is encoded in an operon with FeoA (75 amino acids), which is also required, and is regulated by Fur. There appear to be two copies in Archaeoglobus fulgidus and Clostridium acetobutylicum.
Probab=68.84 E-value=15 Score=36.28 Aligned_cols=65 Identities=14% Similarity=0.127 Sum_probs=34.7
Q ss_pred CcEEEEEEeecCcceeeccc----ccccc-----cccee--eecCCCCCCCchHHHHHHHHHcCCCeEEEEEecCCCCCh
Q psy13818 124 NEKIALSRRVEKHWSLIEGT----VTTKV-----LSTRK--RTGNESCPQPQTSEHLAAIEIMKLKHIIILQNKIDLVKE 192 (207)
Q Consensus 124 G~kiaIsR~V~gh~rligg~----~~~nM-----iaGa~--V~A~eg~~~pQT~EHl~il~~lGI~~iIV~vNK~DlV~~ 192 (207)
|.++.+. |.||+.++-.-. +.++. .+.+. +|++.. ..+......+. -+++ .+|+|+||+|+.+.
T Consensus 40 ~~~i~lv-DtPG~~~~~~~s~~e~v~~~~l~~~~aDvvI~VvDat~l--er~l~l~~ql~-~~~~-PiIIVlNK~Dl~~~ 114 (591)
T TIGR00437 40 GEDIEIV-DLPGIYSLTTFSLEEEVARDYLLNEKPDLVVNVVDASNL--ERNLYLTLQLL-ELGI-PMILALNLVDEAEK 114 (591)
T ss_pred CeEEEEE-ECCCccccCccchHHHHHHHHHhhcCCCEEEEEecCCcc--hhhHHHHHHHH-hcCC-CEEEEEehhHHHHh
Confidence 4456665 889988876421 12222 23322 666542 11222222222 3565 48899999999754
Q ss_pred h
Q psy13818 193 G 193 (207)
Q Consensus 193 ~ 193 (207)
.
T Consensus 115 ~ 115 (591)
T TIGR00437 115 K 115 (591)
T ss_pred C
Confidence 3
No 187
>cd04161 Arl2l1_Arl13_like Arl2l1/Arl13 subfamily. Arl2l1 (Arl2-like protein 1) and Arl13 form a subfamily of the Arf family of small GTPases. Arl2l1 was identified in human cells during a search for the gene(s) responsible for Bardet-Biedl syndrome (BBS). Like Arl6, the identified BBS gene, Arl2l1 is proposed to have cilia-specific functions. Arl13 is found on the X chromosome, but its expression has not been confirmed; it may be a pseudogene.
Probab=68.57 E-value=11 Score=29.82 Aligned_cols=66 Identities=12% Similarity=0.028 Sum_probs=34.6
Q ss_pred cEEEEEEeecCcceeec-cccc-ccccccee--eecCCCCCCCchHHHHH-HHHH---cCCCeEEEEEecCCCCChh
Q psy13818 125 EKIALSRRVEKHWSLIE-GTVT-TKVLSTRK--RTGNESCPQPQTSEHLA-AIEI---MKLKHIIILQNKIDLVKEG 193 (207)
Q Consensus 125 ~kiaIsR~V~gh~rlig-g~~~-~nMiaGa~--V~A~eg~~~pQT~EHl~-il~~---lGI~~iIV~vNK~DlV~~~ 193 (207)
.++.+. +++|+.++-. |.-. ++. .++. +|+.+.......++-+. +++. -+ ..++++.||+|+.+..
T Consensus 43 ~~~~i~-D~~G~~~~~~~~~~~~~~a-~~ii~V~D~s~~~s~~~~~~~l~~l~~~~~~~~-~piliv~NK~Dl~~~~ 116 (167)
T cd04161 43 YEVCIF-DLGGGANFRGIWVNYYAEA-HGLVFVVDSSDDDRVQEVKEILRELLQHPRVSG-KPILVLANKQDKKNAL 116 (167)
T ss_pred EEEEEE-ECCCcHHHHHHHHHHHcCC-CEEEEEEECCchhHHHHHHHHHHHHHcCccccC-CcEEEEEeCCCCcCCC
Confidence 345554 8888876654 3333 333 3333 67665321222333222 2211 23 3588999999997643
No 188
>cd01893 Miro1 Miro1 subfamily. Miro (mitochondrial Rho) proteins have tandem GTP-binding domains separated by a linker region containing putative calcium-binding EF hand motifs. Genes encoding Miro-like proteins were found in several eukaryotic organisms. This CD represents the N-terminal GTPase domain of Miro proteins. These atypical Rho GTPases have roles in mitochondrial homeostasis and apoptosis. Most Rho proteins contain a lipid modification site at the C-terminus; however, Miro is one of few Rho subfamilies that lack this feature.
Probab=68.31 E-value=4.4 Score=31.68 Aligned_cols=16 Identities=38% Similarity=0.434 Sum_probs=13.1
Q ss_pred CeEEEEEecCCCCChh
Q psy13818 178 KHIIILQNKIDLVKEG 193 (207)
Q Consensus 178 ~~iIV~vNK~DlV~~~ 193 (207)
..+++|.||+|+.+..
T Consensus 104 ~pviiv~nK~Dl~~~~ 119 (166)
T cd01893 104 VPIILVGNKSDLRDGS 119 (166)
T ss_pred CCEEEEEEchhccccc
Confidence 4689999999997644
No 189
>cd00154 Rab Rab family. Rab GTPases form the largest family within the Ras superfamily. There are at least 60 Rab genes in the human genome, and a number of Rab GTPases are conserved from yeast to humans. Rab GTPases are small, monomeric proteins that function as molecular switches to regulate vesicle trafficking pathways. The different Rab GTPases are localized to the cytosolic face of specific intracellular membranes, where they regulate distinct steps in membrane traffic pathways. In the GTP-bound form, Rab GTPases recruit specific sets of effector proteins onto membranes. Through their effectors, Rab GTPases regulate vesicle formation, actin- and tubulin-dependent vesicle movement, and membrane fusion. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide di
Probab=68.25 E-value=3.8 Score=30.27 Aligned_cols=15 Identities=47% Similarity=0.527 Sum_probs=12.6
Q ss_pred CCeEEEEEecCCCCC
Q psy13818 177 LKHIIILQNKIDLVK 191 (207)
Q Consensus 177 I~~iIV~vNK~DlV~ 191 (207)
-..++|+.||+|+.+
T Consensus 105 ~~p~ivv~nK~D~~~ 119 (159)
T cd00154 105 NIPIILVGNKIDLED 119 (159)
T ss_pred CCcEEEEEEcccccc
Confidence 467899999999973
No 190
>PRK13505 formate--tetrahydrofolate ligase; Provisional
Probab=67.59 E-value=11 Score=37.60 Aligned_cols=38 Identities=13% Similarity=0.211 Sum_probs=30.2
Q ss_pred CCchHHHHHHHHHcCCCeEEEEEecCCCCChhhHHHHHH
Q psy13818 162 QPQTSEHLAAIEIMKLKHIIILQNKIDLVKEGQANEQHE 200 (207)
Q Consensus 162 ~pQT~EHl~il~~lGI~~iIV~vNK~DlV~~~~~~~~~~ 200 (207)
..--.+|+..++.+|++ ++|++||-|.-.+++.+...+
T Consensus 358 l~NL~RHIenvr~FGvP-vVVAINKFd~DTe~Ei~~I~~ 395 (557)
T PRK13505 358 FANLERHIENIRKFGVP-VVVAINKFVTDTDAEIAALKE 395 (557)
T ss_pred HHHHHHHHHHHHHcCCC-EEEEEeCCCCCCHHHHHHHHH
Confidence 36778899999999997 889999999876655544433
No 191
>PRK12298 obgE GTPase CgtA; Reviewed
Probab=66.76 E-value=7.5 Score=36.53 Aligned_cols=25 Identities=40% Similarity=0.521 Sum_probs=16.8
Q ss_pred CeEEEEEecCCCCChhhHHHHHHHH
Q psy13818 178 KHIIILQNKIDLVKEGQANEQHEQI 202 (207)
Q Consensus 178 ~~iIV~vNK~DlV~~~~~~~~~~eI 202 (207)
+..|||+||+|+.+.++..+..+++
T Consensus 276 kP~IlVlNKiDl~~~~el~~~l~~l 300 (390)
T PRK12298 276 KPRWLVFNKIDLLDEEEAEERAKAI 300 (390)
T ss_pred CCEEEEEeCCccCChHHHHHHHHHH
Confidence 4567889999998765544444444
No 192
>PRK10463 hydrogenase nickel incorporation protein HypB; Provisional
Probab=65.37 E-value=5.7 Score=36.39 Aligned_cols=25 Identities=20% Similarity=0.169 Sum_probs=16.7
Q ss_pred EEEEEecCCCCCh--hhHHHHHHHHHh
Q psy13818 180 IIILQNKIDLVKE--GQANEQHEQIVK 204 (207)
Q Consensus 180 iIV~vNK~DlV~~--~~~~~~~~eI~~ 204 (207)
-++++||+|++++ .+.++..+++++
T Consensus 233 DIVVLNKiDLl~~~~~dle~~~~~lr~ 259 (290)
T PRK10463 233 SLMLLNKVDLLPYLNFDVEKCIACARE 259 (290)
T ss_pred cEEEEEhHHcCcccHHHHHHHHHHHHh
Confidence 4678999999974 234555555554
No 193
>cd04154 Arl2 Arl2 subfamily. Arl2 (Arf-like 2) GTPases are members of the Arf family that bind GDP and GTP with very low affinity. Unlike most Arf family proteins, Arl2 is not myristoylated at its N-terminal helix. The protein PDE-delta, first identified in photoreceptor rod cells, binds specifically to Arl2 and is structurally very similar to RhoGDI. Despite the high structural similarity between Arl2 and Rho proteins and between PDE-delta and RhoGDI, the interactions between the GTPases and their effectors are very different. In its GTP bound form, Arl2 interacts with the protein Binder of Arl2 (BART), and the complex is believed to play a role in mitochondrial adenine nucleotide transport. In its GDP bound form, Arl2 interacts with tubulin- folding Cofactor D; this interaction is believed to play a role in regulation of microtubule dynamics that impact the cytoskeleton, cell division, and cytokinesis.
Probab=63.61 E-value=6.6 Score=30.88 Aligned_cols=64 Identities=16% Similarity=0.150 Sum_probs=32.5
Q ss_pred cEEEEEEeecCcceeec-ccccccccccee-----eecCCCCCCCchHHHH-HHHH--HcCCCeEEEEEecCCCCCh
Q psy13818 125 EKIALSRRVEKHWSLIE-GTVTTKVLSTRK-----RTGNESCPQPQTSEHL-AAIE--IMKLKHIIILQNKIDLVKE 192 (207)
Q Consensus 125 ~kiaIsR~V~gh~rlig-g~~~~nMiaGa~-----V~A~eg~~~pQT~EHl-~il~--~lGI~~iIV~vNK~DlV~~ 192 (207)
.++.+. +.+|++++-. | ++.+.++. +|+.+.....+..+++ .+++ ...-..++|+.||+|+.+.
T Consensus 58 ~~l~l~-D~~G~~~~~~~~---~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~iiv~nK~Dl~~~ 130 (173)
T cd04154 58 YKLNIW-DVGGQKTLRPYW---RNYFESTDALIWVVDSSDRLRLDDCKRELKELLQEERLAGATLLILANKQDLPGA 130 (173)
T ss_pred EEEEEE-ECCCCHHHHHHH---HHHhCCCCEEEEEEECCCHHHHHHHHHHHHHHHhChhhcCCCEEEEEECcccccC
Confidence 355554 8888876532 2 23333322 6665542112222222 2221 1123568999999999753
No 194
>cd04113 Rab4 Rab4 subfamily. Rab4 has been implicated in numerous functions within the cell. It helps regulate endocytosis through the sorting, recycling, and degradation of early endosomes. Mammalian Rab4 is involved in the regulation of many surface proteins including G-protein-coupled receptors, transferrin receptor, integrins, and surfactant protein A. Experimental data implicate Rab4 in regulation of the recycling of internalized receptors back to the plasma membrane. It is also believed to influence receptor-mediated antigen processing in B-lymphocytes, in calcium-dependent exocytosis in platelets, in alpha-amylase secretion in pancreatic cells, and in insulin-induced translocation of Glut4 from internal vesicles to the cell surface. Rab4 is known to share effector proteins with Rab5 and Rab11. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to p
Probab=63.24 E-value=6.9 Score=29.98 Aligned_cols=63 Identities=11% Similarity=0.107 Sum_probs=32.4
Q ss_pred EEEEEEeecCcceeec-cccc-ccccccee--eecCCCCCCCch-HHHHHHHHHc---CCCeEEEEEecCCCCCh
Q psy13818 126 KIALSRRVEKHWSLIE-GTVT-TKVLSTRK--RTGNESCPQPQT-SEHLAAIEIM---KLKHIIILQNKIDLVKE 192 (207)
Q Consensus 126 kiaIsR~V~gh~rlig-g~~~-~nMiaGa~--V~A~eg~~~pQT-~EHl~il~~l---GI~~iIV~vNK~DlV~~ 192 (207)
++.+. +.+||.++-. +.-. ++. .++. +|.++.. ..+. .+-+..++.+ ++ .++|+.||+|+.+.
T Consensus 50 ~l~l~-D~~G~~~~~~~~~~~~~~~-~~~i~v~d~~~~~-s~~~~~~~~~~~~~~~~~~~-~iivv~nK~D~~~~ 120 (161)
T cd04113 50 KLQIW-DTAGQERFRSVTRSYYRGA-AGALLVYDITNRT-SFEALPTWLSDARALASPNI-VVILVGNKSDLADQ 120 (161)
T ss_pred EEEEE-ECcchHHHHHhHHHHhcCC-CEEEEEEECCCHH-HHHHHHHHHHHHHHhCCCCC-eEEEEEEchhcchh
Confidence 34454 7788766653 1111 332 3433 6776653 2222 2222222222 33 48999999999753
No 195
>PRK09866 hypothetical protein; Provisional
Probab=63.22 E-value=12 Score=38.58 Aligned_cols=37 Identities=19% Similarity=0.049 Sum_probs=23.9
Q ss_pred eecCCCCCCCchHHHHHHHHHcCC-CeEEEEEecCCCCC
Q psy13818 154 RTGNESCPQPQTSEHLAAIEIMKL-KHIIILQNKIDLVK 191 (207)
Q Consensus 154 V~A~eg~~~pQT~EHl~il~~lGI-~~iIV~vNK~DlV~ 191 (207)
||++.+. .+.-++-+..++..+- ..+++++||+|+.+
T Consensus 266 VDat~~~-s~~DeeIlk~Lkk~~K~~PVILVVNKIDl~d 303 (741)
T PRK09866 266 LDYTQLK-SISDEEVREAILAVGQSVPLYVLVNKFDQQD 303 (741)
T ss_pred EeCCCCC-ChhHHHHHHHHHhcCCCCCEEEEEEcccCCC
Confidence 7777653 4444444444444442 26999999999986
No 196
>COG1160 Predicted GTPases [General function prediction only]
Probab=62.41 E-value=14 Score=36.01 Aligned_cols=38 Identities=29% Similarity=0.360 Sum_probs=31.3
Q ss_pred eecCCCCCCCchHHHHHHHHHcCCCeEEEEEecCCCCChh
Q psy13818 154 RTGNESCPQPQTSEHLAAIEIMKLKHIIILQNKIDLVKEG 193 (207)
Q Consensus 154 V~A~eg~~~pQT~EHl~il~~lGI~~iIV~vNK~DlV~~~ 193 (207)
||+.+|. .|+-.+=+.+++-. =+.+|+|+||+|-.+.+
T Consensus 91 VD~~~Gi-t~~D~~ia~~Lr~~-~kpviLvvNK~D~~~~e 128 (444)
T COG1160 91 VDGREGI-TPADEEIAKILRRS-KKPVILVVNKIDNLKAE 128 (444)
T ss_pred EeCCCCC-CHHHHHHHHHHHhc-CCCEEEEEEcccCchhh
Confidence 9999997 99999998888833 35699999999976443
No 197
>cd04152 Arl4_Arl7 Arl4/Arl7 subfamily. Arl4 (Arf-like 4) is highly expressed in testicular germ cells, and is found in the nucleus and nucleolus. In mice, Arl4 is developmentally expressed during embryogenesis, and a role in somite formation and central nervous system differentiation has been proposed. Arl7 has been identified as the only Arf/Arl protein to be induced by agonists of liver X-receptor and retinoid X-receptor and by cholesterol loading in human macrophages. Arl7 is proposed to play a role in transport between a perinuclear compartment and the plasma membrane, apparently linked to the ABCA1-mediated cholesterol secretion pathway. Older literature suggests that Arl6 is a part of the Arl4/Arl7 subfamily, but analyses based on more recent sequence data place Arl6 in its own subfamily.
Probab=62.37 E-value=19 Score=28.99 Aligned_cols=62 Identities=13% Similarity=0.006 Sum_probs=32.5
Q ss_pred CCcEEEEEEeecCcceeec-cccc-ccccccee--eecCCCCCCCchHHHH-----HHHH---HcCCCeEEEEEecCCCC
Q psy13818 123 VNEKIALSRRVEKHWSLIE-GTVT-TKVLSTRK--RTGNESCPQPQTSEHL-----AAIE---IMKLKHIIILQNKIDLV 190 (207)
Q Consensus 123 ~G~kiaIsR~V~gh~rlig-g~~~-~nMiaGa~--V~A~eg~~~pQT~EHl-----~il~---~lGI~~iIV~vNK~DlV 190 (207)
.+.++.+. +++|+.+|-. |... +|. +++. +|+.+. ++.+++ .+.+ ..++ -++|++||+|+.
T Consensus 50 ~~~~l~l~-Dt~G~~~~~~~~~~~~~~~-d~ii~v~D~~~~----~~~~~~~~~~~~i~~~~~~~~~-p~iiv~NK~D~~ 122 (183)
T cd04152 50 KGITFHFW-DVGGQEKLRPLWKSYTRCT-DGIVFVVDSVDV----ERMEEAKTELHKITRFSENQGV-PVLVLANKQDLP 122 (183)
T ss_pred CceEEEEE-ECCCcHhHHHHHHHHhccC-CEEEEEEECCCH----HHHHHHHHHHHHHHhhhhcCCC-cEEEEEECcCcc
Confidence 34455554 8888876643 2221 332 2322 676653 233222 1222 2333 489999999986
Q ss_pred C
Q psy13818 191 K 191 (207)
Q Consensus 191 ~ 191 (207)
+
T Consensus 123 ~ 123 (183)
T cd04152 123 N 123 (183)
T ss_pred c
Confidence 4
No 198
>cd04159 Arl10_like Arl10-like subfamily. Arl9/Arl10 was identified from a human cancer-derived EST dataset. No functional information about the subfamily is available at the current time, but crystal structures of human Arl10b and Arl10c have been solved.
Probab=62.20 E-value=8.7 Score=28.41 Aligned_cols=67 Identities=9% Similarity=0.045 Sum_probs=33.2
Q ss_pred EEEEEEeecCcceeec-ccccccccccee--eecCCCCCCCchHHHHHHHH----HcCCCeEEEEEecCCCCChhh
Q psy13818 126 KIALSRRVEKHWSLIE-GTVTTKVLSTRK--RTGNESCPQPQTSEHLAAIE----IMKLKHIIILQNKIDLVKEGQ 194 (207)
Q Consensus 126 kiaIsR~V~gh~rlig-g~~~~nMiaGa~--V~A~eg~~~pQT~EHl~il~----~lGI~~iIV~vNK~DlV~~~~ 194 (207)
++.+. +.+|+.++-. |.-.-.-..++. +|+.+.....+.++++.-+. ..++ .++++.||+|+.+...
T Consensus 45 ~~~~~-D~~g~~~~~~~~~~~~~~~d~ii~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~-p~iiv~nK~D~~~~~~ 118 (159)
T cd04159 45 TLKVW-DLGGQPRFRSMWERYCRGVNAIVYVVDAADRTALEAAKNELHDLLEKPSLEGI-PLLVLGNKNDLPGALS 118 (159)
T ss_pred EEEEE-ECCCCHhHHHHHHHHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHcChhhcCC-CEEEEEeCccccCCcC
Confidence 34443 6777665542 111101112222 66665322345554443332 1244 4789999999987543
No 199
>cd04147 Ras_dva Ras-dva subfamily. Ras-dva (Ras - dorsal-ventral anterior localization) subfamily consists of a set of proteins characterized only in Xenopus leavis, to date. In Xenopus Ras-dva expression is activated by the transcription factor Otx2 and begins during gastrulation throughout the anterior ectoderm. Ras-dva expression is inhibited in the anterior neural plate by factor Xanf1. Downregulation of Ras-dva results in head development abnormalities through the inhibition of several regulators of the anterior neural plate and folds patterning, including Otx2, BF-1, Xag2, Pax6, Slug, and Sox9. Downregulation of Ras-dva also interferes with the FGF-8a signaling within the anterior ectoderm. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Ras proteins.
Probab=62.01 E-value=14 Score=30.15 Aligned_cols=60 Identities=12% Similarity=0.244 Sum_probs=30.8
Q ss_pred EEEEEEeecCcceeec-cccc-ccccccee--eecCCCCCCCchHHHH-----HHHHHcC--CCeEEEEEecCCCCC
Q psy13818 126 KIALSRRVEKHWSLIE-GTVT-TKVLSTRK--RTGNESCPQPQTSEHL-----AAIEIMK--LKHIIILQNKIDLVK 191 (207)
Q Consensus 126 kiaIsR~V~gh~rlig-g~~~-~nMiaGa~--V~A~eg~~~pQT~EHl-----~il~~lG--I~~iIV~vNK~DlV~ 191 (207)
++.|. +.+|+.+|-. +... ++ .+++. +|+.+. .+.+++ .+.+... -.-+||+.||+|+..
T Consensus 48 ~l~i~-D~~G~~~~~~~~~~~~~~-ad~vilv~d~~~~----~s~~~~~~~~~~i~~~~~~~~~piilv~NK~Dl~~ 118 (198)
T cd04147 48 TLDIL-DTSGSYSFPAMRKLSIQN-SDAFALVYAVDDP----ESFEEVERLREEILEVKEDKFVPIVVVGNKADSLE 118 (198)
T ss_pred EEEEE-ECCCchhhhHHHHHHhhc-CCEEEEEEECCCH----HHHHHHHHHHHHHHHhcCCCCCcEEEEEEcccccc
Confidence 34444 6777766643 2111 22 12333 666543 333332 2333332 234889999999976
No 200
>COG1159 Era GTPase [General function prediction only]
Probab=61.41 E-value=25 Score=32.71 Aligned_cols=37 Identities=30% Similarity=0.363 Sum_probs=25.8
Q ss_pred eecCCCCCCCchHHHHHHHHHcCC--CeEEEEEecCCCCChhh
Q psy13818 154 RTGNESCPQPQTSEHLAAIEIMKL--KHIIILQNKIDLVKEGQ 194 (207)
Q Consensus 154 V~A~eg~~~pQT~EHl~il~~lGI--~~iIV~vNK~DlV~~~~ 194 (207)
|+|++++ .+ +-..+++.|.- ..+|+++||+|.++++.
T Consensus 93 vd~~~~~-~~---~d~~il~~lk~~~~pvil~iNKID~~~~~~ 131 (298)
T COG1159 93 VDADEGW-GP---GDEFILEQLKKTKTPVILVVNKIDKVKPKT 131 (298)
T ss_pred EeccccC-Cc---cHHHHHHHHhhcCCCeEEEEEccccCCcHH
Confidence 7888875 44 34445555533 36889999999999876
No 201
>smart00178 SAR Sar1p-like members of the Ras-family of small GTPases. Yeast SAR1 is an essential gene required for transport of secretory proteins from the endoplasmic reticulum to the Golgi apparatus.
Probab=60.72 E-value=14 Score=29.72 Aligned_cols=63 Identities=16% Similarity=0.107 Sum_probs=32.6
Q ss_pred EEEEEEeecCcceeec-cccc-ccccccee--eecCCCCCCCchHHHHH-HHH---HcCCCeEEEEEecCCCCC
Q psy13818 126 KIALSRRVEKHWSLIE-GTVT-TKVLSTRK--RTGNESCPQPQTSEHLA-AIE---IMKLKHIIILQNKIDLVK 191 (207)
Q Consensus 126 kiaIsR~V~gh~rlig-g~~~-~nMiaGa~--V~A~eg~~~pQT~EHl~-il~---~lGI~~iIV~vNK~DlV~ 191 (207)
++.+. +.+|+.++-. |.-. ++. .++. +|+.+.....++++.+. +++ +-++ -++++.||+|+..
T Consensus 62 ~~~~~-D~~G~~~~~~~~~~~~~~a-d~ii~vvD~~~~~~~~~~~~~l~~l~~~~~~~~~-piliv~NK~Dl~~ 132 (184)
T smart00178 62 KFTTF-DLGGHQQARRLWKDYFPEV-NGIVYLVDAYDKERFAESKRELDALLSDEELATV-PFLILGNKIDAPY 132 (184)
T ss_pred EEEEE-ECCCCHHHHHHHHHHhCCC-CEEEEEEECCcHHHHHHHHHHHHHHHcChhhcCC-CEEEEEeCccccC
Confidence 44443 7887766542 2222 332 3333 67765421334444332 221 1243 4999999999864
No 202
>cd00876 Ras Ras family. The Ras family of the Ras superfamily includes classical N-Ras, H-Ras, and K-Ras, as well as R-Ras, Rap, Ral, Rheb, Rhes, ARHI, RERG, Rin/Rit, RSR1, RRP22, Ras2, Ras-dva, and RGK proteins. Ras proteins regulate cell growth, proliferation and differentiation. Ras is activated by guanine nucleotide exchange factors (GEFs) that release GDP and allow GTP binding. Many RasGEFs have been identified. These are sequestered in the cytosol until activation by growth factors triggers recruitment to the plasma membrane or Golgi, where the GEF colocalizes with Ras. Active GTP-bound Ras interacts with several effector proteins: among the best characterized are the Raf kinases, phosphatidylinositol 3-kinase (PI3K), RalGEFs and NORE/MST1. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of m
Probab=60.65 E-value=9.7 Score=28.56 Aligned_cols=16 Identities=38% Similarity=0.430 Sum_probs=13.7
Q ss_pred CCeEEEEEecCCCCCh
Q psy13818 177 LKHIIILQNKIDLVKE 192 (207)
Q Consensus 177 I~~iIV~vNK~DlV~~ 192 (207)
-..++++.||+|+.+.
T Consensus 104 ~~p~ivv~nK~D~~~~ 119 (160)
T cd00876 104 DIPIVLVGNKCDLENE 119 (160)
T ss_pred CCcEEEEEECCccccc
Confidence 5789999999999863
No 203
>cd04139 RalA_RalB RalA/RalB subfamily. The Ral (Ras-like) subfamily consists of the highly homologous RalA and RalB. Ral proteins are believed to play a crucial role in tumorigenesis, metastasis, endocytosis, and actin cytoskeleton dynamics. Despite their high sequence similarity (80% sequence identity), nonoverlapping and opposing functions have been assigned to RalA and RalBs in tumor migration. In human bladder and prostate cancer cells, RalB promotes migration while RalA inhibits it. A Ral-specific set of GEFs has been identified that are activated by Ras binding. This RalGEF activity is enhanced by Ras binding to another of its target proteins, phosphatidylinositol 3-kinase (PI3K). Ral effectors include RLIP76/RalBP1, a Rac/cdc42 GAP, and the exocyst (Sec6/8) complex, a heterooctomeric protein complex that is involved in tethering vesicles to specific sites on the plasma membrane prior to exocytosis. In rat kidney cells, RalB is required for functional assembly of the exo
Probab=60.27 E-value=11 Score=28.51 Aligned_cols=14 Identities=29% Similarity=0.468 Sum_probs=11.9
Q ss_pred CeEEEEEecCCCCC
Q psy13818 178 KHIIILQNKIDLVK 191 (207)
Q Consensus 178 ~~iIV~vNK~DlV~ 191 (207)
..+|+|.||+|+.+
T Consensus 106 ~piiiv~NK~D~~~ 119 (164)
T cd04139 106 VPLLLVGNKCDLED 119 (164)
T ss_pred CCEEEEEEcccccc
Confidence 34899999999976
No 204
>cd00882 Ras_like_GTPase Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras, Rho, Rab, and Sar1/Arf families. This superfamily also includes proteins like the GTP translation factors, Era-like GTPases, and G-alpha chain of the heterotrimeric G proteins. Members of the Ras superfamily regulate a wide variety of cellular functions: the Ras family regulates gene expression, the Rho family regulates cytoskeletal reorganization and gene expression, the Rab and Sar1/Arf families regulate vesicle trafficking, and the Ran family regulates nucleocytoplasmic transport and microtubule organization. The GTP translation factor family regulate initiation, elongation, termination, and release in translation, and the Era-like GTPase family regulates cell division, sporulation, and DNA replication. Memb
Probab=60.09 E-value=14 Score=26.14 Aligned_cols=66 Identities=14% Similarity=0.025 Sum_probs=36.2
Q ss_pred EEEEEEeecCcceeec-cccc-ccccccee--eecCCCCCCCchHH----HHHHHHHcCCCeEEEEEecCCCCChhh
Q psy13818 126 KIALSRRVEKHWSLIE-GTVT-TKVLSTRK--RTGNESCPQPQTSE----HLAAIEIMKLKHIIILQNKIDLVKEGQ 194 (207)
Q Consensus 126 kiaIsR~V~gh~rlig-g~~~-~nMiaGa~--V~A~eg~~~pQT~E----Hl~il~~lGI~~iIV~vNK~DlV~~~~ 194 (207)
++.+. +.+|+..+.. +... +++ .++. +++..+. ..+..+ .........-..+++++||+|+.+.+.
T Consensus 46 ~~~l~-D~~g~~~~~~~~~~~~~~~-~~~i~v~d~~~~~-~~~~~~~~~~~~~~~~~~~~~~~ivv~nk~D~~~~~~ 119 (157)
T cd00882 46 KLQIW-DTAGQERFRSLRRLYYRGA-DGIILVYDVTDRE-SFENVKEWLLLILINKEGENIPIILVGNKIDLPEERV 119 (157)
T ss_pred EEEEE-ecCChHHHHhHHHHHhcCC-CEEEEEEECcCHH-HHHHHHHHHHHHHHhhccCCCcEEEEEeccccccccc
Confidence 45554 7777776664 2111 222 3333 6666653 222222 122233444677999999999987653
No 205
>TIGR00073 hypB hydrogenase accessory protein HypB. HypB is implicated in insertion of nickel into the large subunit of NiFe hydrogenases.
Probab=59.87 E-value=8.5 Score=32.04 Aligned_cols=13 Identities=38% Similarity=0.491 Sum_probs=11.2
Q ss_pred EEEEEecCCCCCh
Q psy13818 180 IIILQNKIDLVKE 192 (207)
Q Consensus 180 iIV~vNK~DlV~~ 192 (207)
.++++||+|+++.
T Consensus 151 ~iiv~NK~Dl~~~ 163 (207)
T TIGR00073 151 DLIVINKADLAEA 163 (207)
T ss_pred CEEEEEHHHcccc
Confidence 5899999999864
No 206
>cd04156 ARLTS1 ARLTS1 subfamily. ARLTS1 (Arf-like tumor suppressor gene 1), also known as Arl11, is a member of the Arf family of small GTPases that is believed to play a major role in apoptotic signaling. ARLTS1 is widely expressed and functions as a tumor suppressor gene in several human cancers. ARLTS1 is a low-penetrance suppressor that accounts for a small percentage of familial melanoma or familial chronic lymphocytic leukemia (CLL). ARLTS1 inactivation seems to occur most frequently through biallelic down-regulation by hypermethylation of the promoter. In breast cancer, ARLTS1 alterations were typically a combination of a hypomorphic polymorphism plus loss of heterozygosity. In a case of thyroid adenoma, ARLTS1 alterations were polymorphism plus promoter hypermethylation. The nonsense polymorphism Trp149Stop occurs with significantly greater frequency in familial cancer cases than in sporadic cancer cases, and the Cys148Arg polymorphism is associated with an increase in h
Probab=59.36 E-value=9.2 Score=29.15 Aligned_cols=65 Identities=11% Similarity=0.080 Sum_probs=31.6
Q ss_pred EEEEEEeecCcceeec-cccc-ccccccee--eecCCCCCCCchHHH-HHHHHH--cCCCeEEEEEecCCCCCh
Q psy13818 126 KIALSRRVEKHWSLIE-GTVT-TKVLSTRK--RTGNESCPQPQTSEH-LAAIEI--MKLKHIIILQNKIDLVKE 192 (207)
Q Consensus 126 kiaIsR~V~gh~rlig-g~~~-~nMiaGa~--V~A~eg~~~pQT~EH-l~il~~--lGI~~iIV~vNK~DlV~~ 192 (207)
++.+. +.+|++++-. |.-. ++. .++. +|+.+.....+..+. ..+++. +.=..++++.||+|+.+.
T Consensus 45 ~l~i~-D~~G~~~~~~~~~~~~~~~-~~iv~v~D~~~~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~ 116 (160)
T cd04156 45 SLTVW-DVGGQEKMRTVWKCYLENT-DGLVYVVDSSDEARLDESQKELKHILKNEHIKGVPVVLLANKQDLPGA 116 (160)
T ss_pred EEEEE-ECCCCHhHHHHHHHHhccC-CEEEEEEECCcHHHHHHHHHHHHHHHhchhhcCCCEEEEEECcccccC
Confidence 45555 8888877653 2211 222 2222 666554201111111 112221 122458999999999653
No 207
>TIGR03597 GTPase_YqeH ribosome biogenesis GTPase YqeH. This family describes YqeH, a member of a larger family of GTPases involved in ribosome biogenesis. Like YqlF, it shows a cyclical permutation relative to GTPases EngA (in which the GTPase domain is duplicated), Era, and others. Members of this protein family are found in a relatively small number of bacterial species, including Bacillus subtilis but not Escherichia coli.
Probab=59.34 E-value=11 Score=34.71 Aligned_cols=20 Identities=25% Similarity=0.481 Sum_probs=15.5
Q ss_pred HHcCCCeEEEEEecCCCCCh
Q psy13818 173 EIMKLKHIIILQNKIDLVKE 192 (207)
Q Consensus 173 ~~lGI~~iIV~vNK~DlV~~ 192 (207)
+.++-+.+++|+||+|+...
T Consensus 86 ~~~~~~piilV~NK~DLl~k 105 (360)
T TIGR03597 86 RFVGGNPVLLVGNKIDLLPK 105 (360)
T ss_pred HHhCCCCEEEEEEchhhCCC
Confidence 33456789999999999764
No 208
>cd04138 H_N_K_Ras_like H-Ras/N-Ras/K-Ras subfamily. H-Ras, N-Ras, and K-Ras4A/4B are the prototypical members of the Ras family. These isoforms generate distinct signal outputs despite interacting with a common set of activators and effectors, and are strongly associated with oncogenic progression in tumor initiation. Mutated versions of Ras that are insensitive to GAP stimulation (and are therefore constitutively active) are found in a significant fraction of human cancers. Many Ras guanine nucleotide exchange factors (GEFs) have been identified. They are sequestered in the cytosol until activation by growth factors triggers recruitment to the plasma membrane or Golgi, where the GEF colocalizes with Ras. Active (GTP-bound) Ras interacts with several effector proteins that stimulate a variety of diverse cytoplasmic signaling activities. Some are known to positively mediate the oncogenic properties of Ras, including Raf, phosphatidylinositol 3-kinase (PI3K), RalGEFs, and Tiam1.
Probab=59.33 E-value=11 Score=28.34 Aligned_cols=60 Identities=8% Similarity=-0.103 Sum_probs=30.2
Q ss_pred eecCcceeec-cccc-ccccccee--eecCCCC-CCCchHHHHHHHHHcC--CCeEEEEEecCCCCCh
Q psy13818 132 RVEKHWSLIE-GTVT-TKVLSTRK--RTGNESC-PQPQTSEHLAAIEIMK--LKHIIILQNKIDLVKE 192 (207)
Q Consensus 132 ~V~gh~rlig-g~~~-~nMiaGa~--V~A~eg~-~~pQT~EHl~il~~lG--I~~iIV~vNK~DlV~~ 192 (207)
+.+|+.++-. +... ++ ..++. ++.+... .......+..+.+... -..+||+.||+|+.+.
T Consensus 55 Dt~G~~~~~~l~~~~~~~-~~~~i~v~~~~~~~s~~~~~~~~~~i~~~~~~~~~piivv~nK~Dl~~~ 121 (162)
T cd04138 55 DTAGQEEYSAMRDQYMRT-GEGFLCVFAINSRKSFEDIHTYREQIKRVKDSDDVPMVLVGNKCDLAAR 121 (162)
T ss_pred ECCCCcchHHHHHHHHhc-CCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECcccccc
Confidence 7777766543 2222 33 23433 4444321 0122233344555432 2357899999999763
No 209
>COG1161 Predicted GTPases [General function prediction only]
Probab=58.58 E-value=9 Score=34.93 Aligned_cols=34 Identities=24% Similarity=0.284 Sum_probs=28.3
Q ss_pred CCchHHHHHHHHHcCCCeEEEEEecCCCCChhhH
Q psy13818 162 QPQTSEHLAAIEIMKLKHIIILQNKIDLVKEGQA 195 (207)
Q Consensus 162 ~pQT~EHl~il~~lGI~~iIV~vNK~DlV~~~~~ 195 (207)
.|.+..+-.+-+..+-+..++++||+||++....
T Consensus 46 ~P~~s~~~~l~~~v~~k~~i~vlNK~DL~~~~~~ 79 (322)
T COG1161 46 DPLGTRNPELERIVKEKPKLLVLNKADLAPKEVT 79 (322)
T ss_pred ccccccCccHHHHHccCCcEEEEehhhcCCHHHH
Confidence 4667777788889998888999999999997643
No 210
>PF04670 Gtr1_RagA: Gtr1/RagA G protein conserved region; InterPro: IPR006762 GTR1 was first identified in Saccharomyces cerevisiae (Baker's yeast) as a suppressor of a mutation in RCC1. RCC1 catalyzes guanine nucleotide exchange on Ran, a well characterised nuclear Ras-like small G protein that plays an essential role in the import and export of proteins and RNAs across the nuclear membrane through the nuclear pore complex. RCC1 is located inside the nucleus, bound to chromatin. The concentration of GTP within the cell is ~30 times higher than the concentration of GDP, thus resulting in the preferential production of the GTP form of Ran by RCC1 within the nucleus. Gtr1p is located within both the cytoplasm and the nucleus and has been reported to play a role in cell growth. Biochemical analysis revealed that Gtr1 is in fact a G protein of the Ras family. The RagA/B proteins are the human homologues of Gtr1 and Rag A and Gtr1p belong to the sixth subfamily of the Ras-like small GTPase superfamily []. ; GO: 0005525 GTP binding, 0005634 nucleus, 0005737 cytoplasm; PDB: 3R7W_B 2Q3F_B 3LLU_A.
Probab=58.14 E-value=14 Score=32.47 Aligned_cols=80 Identities=13% Similarity=0.193 Sum_probs=40.7
Q ss_pred EEEEEEeecCcceeeccc--cc-ccccccee-----eecC-CCC--CCCchHHHHHHHHHcC-CCeEEEEEecCCCCChh
Q psy13818 126 KIALSRRVEKHWSLIEGT--VT-TKVLSTRK-----RTGN-ESC--PQPQTSEHLAAIEIMK-LKHIIILQNKIDLVKEG 193 (207)
Q Consensus 126 kiaIsR~V~gh~rligg~--~~-~nMiaGa~-----V~A~-eg~--~~pQT~EHl~il~~lG-I~~iIV~vNK~DlV~~~ 193 (207)
.+.|- +.||.-.+.--. .+ ....+.+. +|+. +.. ....-.+=+..+.... =-++-|++.|||++.++
T Consensus 49 ~l~iw-D~pGq~~~~~~~~~~~~~~if~~v~~LIyV~D~qs~~~~~~l~~~~~~i~~l~~~sp~~~v~vfiHK~D~l~~~ 127 (232)
T PF04670_consen 49 PLNIW-DCPGQDDFMENYFNSQREEIFSNVGVLIYVFDAQSDDYDEDLAYLSDCIEALRQYSPNIKVFVFIHKMDLLSED 127 (232)
T ss_dssp EEEEE-EE-SSCSTTHTTHTCCHHHHHCTESEEEEEEETT-STCHHHHHHHHHHHHHHHHHSTT-EEEEEEE-CCCS-HH
T ss_pred EEEEE-EcCCccccccccccccHHHHHhccCEEEEEEEcccccHHHHHHHHHHHHHHHHHhCCCCeEEEEEeecccCCHH
Confidence 56665 777777766211 11 11233333 7776 322 0112222222233333 23588999999999988
Q ss_pred hHHHHHHHHHhhh
Q psy13818 194 QANEQHEQIVKFV 206 (207)
Q Consensus 194 ~~~~~~~eI~~~l 206 (207)
..++.++++.+-+
T Consensus 128 ~r~~~~~~~~~~i 140 (232)
T PF04670_consen 128 EREEIFRDIQQRI 140 (232)
T ss_dssp HHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHH
Confidence 7777777776543
No 211
>COG2262 HflX GTPases [General function prediction only]
Probab=57.99 E-value=9.3 Score=36.93 Aligned_cols=41 Identities=17% Similarity=0.223 Sum_probs=28.7
Q ss_pred eecCCCCCCCchHHHHHHHHHcCCC--eEEEEEecCCCCChhh
Q psy13818 154 RTGNESCPQPQTSEHLAAIEIMKLK--HIIILQNKIDLVKEGQ 194 (207)
Q Consensus 154 V~A~eg~~~pQT~EHl~il~~lGI~--~iIV~vNK~DlV~~~~ 194 (207)
|||.+.-...|-.-=..++.-+|+. .+|+|.||+|++.++.
T Consensus 279 VDaSdp~~~~~~~~v~~vL~el~~~~~p~i~v~NKiD~~~~~~ 321 (411)
T COG2262 279 VDASDPEILEKLEAVEDVLAEIGADEIPIILVLNKIDLLEDEE 321 (411)
T ss_pred eecCChhHHHHHHHHHHHHHHcCCCCCCEEEEEecccccCchh
Confidence 7777654344444445678888765 4899999999887653
No 212
>PRK09518 bifunctional cytidylate kinase/GTPase Der; Reviewed
Probab=57.95 E-value=19 Score=36.13 Aligned_cols=37 Identities=14% Similarity=0.126 Sum_probs=27.4
Q ss_pred eecCCCCCCCchHHHHHHHHHcCCCeEEEEEecCCCCCh
Q psy13818 154 RTGNESCPQPQTSEHLAAIEIMKLKHIIILQNKIDLVKE 192 (207)
Q Consensus 154 V~A~eg~~~pQT~EHl~il~~lGI~~iIV~vNK~DlV~~ 192 (207)
+|+.++. .++..+-...++..+. .+|+|+||+|+.+.
T Consensus 362 vDa~~~~-~~~d~~i~~~Lr~~~~-pvIlV~NK~D~~~~ 398 (712)
T PRK09518 362 VDGQVGL-TSTDERIVRMLRRAGK-PVVLAVNKIDDQAS 398 (712)
T ss_pred EECCCCC-CHHHHHHHHHHHhcCC-CEEEEEECcccccc
Confidence 8898885 6666655556666665 58889999998754
No 213
>cd04155 Arl3 Arl3 subfamily. Arl3 (Arf-like 3) is an Arf family protein that differs from most Arf family members in the N-terminal extension. In is inactive, GDP-bound form, the N-terminal extension forms an elongated loop that is hydrophobically anchored into the membrane surface; however, it has been proposed that this region might form a helix in the GTP-bound form. The delta subunit of the rod-specific cyclic GMP phosphodiesterase type 6 (PDEdelta) is an Arl3 effector. Arl3 binds microtubules in a regulated manner to alter specific aspects of cytokinesis via interactions with retinitis pigmentosa 2 (RP2). It has been proposed that RP2 functions in concert with Arl3 to link the cell membrane and the cytoskeleton in photoreceptors as part of the cell signaling or vesicular transport machinery. In mice, the absence of Arl3 is associated with abnormal epithelial cell proliferation and cyst formation.
Probab=57.68 E-value=10 Score=29.40 Aligned_cols=66 Identities=9% Similarity=0.158 Sum_probs=33.6
Q ss_pred CcEEEEEEeecCcceeec-cccccccccce---e--eecCCCCCCCchHHHHHHH----HHcCCCeEEEEEecCCCCChh
Q psy13818 124 NEKIALSRRVEKHWSLIE-GTVTTKVLSTR---K--RTGNESCPQPQTSEHLAAI----EIMKLKHIIILQNKIDLVKEG 193 (207)
Q Consensus 124 G~kiaIsR~V~gh~rlig-g~~~~nMiaGa---~--V~A~eg~~~pQT~EHl~il----~~lGI~~iIV~vNK~DlV~~~ 193 (207)
|..+.+. +.+|++++.. | .+.+.++ . +|+.+....+++.+.+.-+ ...++ .+++++||+|+.+..
T Consensus 57 ~~~~~~~-D~~G~~~~~~~~---~~~~~~~~~ii~v~D~~~~~~~~~~~~~~~~~~~~~~~~~~-p~ivv~nK~D~~~~~ 131 (173)
T cd04155 57 GFKLNVW-DIGGQRAIRPYW---RNYFENTDCLIYVIDSADKKRLEEAGAELVELLEEEKLAGV-PVLVFANKQDLATAA 131 (173)
T ss_pred CEEEEEE-ECCCCHHHHHHH---HHHhcCCCEEEEEEeCCCHHHHHHHHHHHHHHHhChhhcCC-CEEEEEECCCCccCC
Confidence 4556665 7778776642 1 2222232 2 5665432122333322111 12233 478889999998754
Q ss_pred h
Q psy13818 194 Q 194 (207)
Q Consensus 194 ~ 194 (207)
.
T Consensus 132 ~ 132 (173)
T cd04155 132 P 132 (173)
T ss_pred C
Confidence 3
No 214
>cd04137 RheB Rheb (Ras Homolog Enriched in Brain) subfamily. Rheb was initially identified in rat brain, where its expression is elevated by seizures or by long-term potentiation. It is expressed ubiquitously, with elevated levels in muscle and brain. Rheb functions as an important mediator between the tuberous sclerosis complex proteins, TSC1 and TSC2, and the mammalian target of rapamycin (TOR) kinase to stimulate cell growth. TOR kinase regulates cell growth by controlling nutrient availability, growth factors, and the energy status of the cell. TSC1 and TSC2 form a dimeric complex that has tumor suppressor activity, and TSC2 is a GTPase activating protein (GAP) for Rheb. The TSC1/TSC2 complex inhibits the activation of TOR kinase through Rheb. Rheb has also been shown to induce the formation of large cytoplasmic vacuoles in a process that is dependent on the GTPase cycle of Rheb, but independent of the TOR kinase, suggesting Rheb plays a role in endocytic trafficking that le
Probab=56.65 E-value=12 Score=29.25 Aligned_cols=23 Identities=22% Similarity=0.449 Sum_probs=15.8
Q ss_pred HHHHHcCCC--eEEEEEecCCCCCh
Q psy13818 170 AAIEIMKLK--HIIILQNKIDLVKE 192 (207)
Q Consensus 170 ~il~~lGI~--~iIV~vNK~DlV~~ 192 (207)
.+++..+.. -+|+|.||+|+.+.
T Consensus 97 ~~~~~~~~~~~p~ilv~NK~Dl~~~ 121 (180)
T cd04137 97 KILDMLGKESVPIVLVGNKSDLHTQ 121 (180)
T ss_pred HHHHhcCCCCCCEEEEEEchhhhhc
Confidence 455554433 38999999999753
No 215
>COG0536 Obg Predicted GTPase [General function prediction only]
Probab=55.28 E-value=16 Score=34.97 Aligned_cols=30 Identities=30% Similarity=0.411 Sum_probs=19.2
Q ss_pred cCCCeEEEEEecCCCC-ChhhHHHHHHHHHh
Q psy13818 175 MKLKHIIILQNKIDLV-KEGQANEQHEQIVK 204 (207)
Q Consensus 175 lGI~~iIV~vNK~DlV-~~~~~~~~~~eI~~ 204 (207)
|-=+..+||.||||++ +++.+++..+++.+
T Consensus 273 L~~K~~ivv~NKiD~~~~~e~~~~~~~~l~~ 303 (369)
T COG0536 273 LAEKPRIVVLNKIDLPLDEEELEELKKALAE 303 (369)
T ss_pred hccCceEEEEeccCCCcCHHHHHHHHHHHHH
Confidence 3345677999999954 45555555555543
No 216
>cd04106 Rab23_lke Rab23-like subfamily. Rab23 is a member of the Rab family of small GTPases. In mouse, Rab23 has been shown to function as a negative regulator in the sonic hedgehog (Shh) signalling pathway. Rab23 mediates the activity of Gli2 and Gli3, transcription factors that regulate Shh signaling in the spinal cord, primarily by preventing Gli2 activation in the absence of Shh ligand. Rab23 also regulates a step in the cytoplasmic signal transduction pathway that mediates the effect of Smoothened (one of two integral membrane proteins that are essential components of the Shh signaling pathway in vertebrates). In humans, Rab23 is expressed in the retina. Mice contain an isoform that shares 93% sequence identity with the human Rab23 and an alternative splicing isoform that is specific to the brain. This isoform causes the murine open brain phenotype, indicating it may have a role in the development of the central nervous system. GTPase activating proteins (GAPs) interact with G
Probab=54.80 E-value=6 Score=30.15 Aligned_cols=16 Identities=31% Similarity=0.740 Sum_probs=12.6
Q ss_pred CCCeEEEEEecCCCCCh
Q psy13818 176 KLKHIIILQNKIDLVKE 192 (207)
Q Consensus 176 GI~~iIV~vNK~DlV~~ 192 (207)
++ .+|+|.||+|+.+.
T Consensus 106 ~~-p~iiv~nK~Dl~~~ 121 (162)
T cd04106 106 DI-PMVLVQTKIDLLDQ 121 (162)
T ss_pred CC-CEEEEEEChhcccc
Confidence 44 48899999999764
No 217
>cd01869 Rab1_Ypt1 Rab1/Ypt1 subfamily. Rab1 is found in every eukaryote and is a key regulatory component for the transport of vesicles from the ER to the Golgi apparatus. Studies on mutations of Ypt1, the yeast homolog of Rab1, showed that this protein is necessary for the budding of vesicles of the ER as well as for their transport to, and fusion with, the Golgi apparatus. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to t
Probab=54.54 E-value=12 Score=28.91 Aligned_cols=65 Identities=11% Similarity=0.042 Sum_probs=32.5
Q ss_pred EEEEEEeecCcceeec-cccc-ccccccee--eecCCCCCCCchHHHHHHHHHcC--CCeEEEEEecCCCCCh
Q psy13818 126 KIALSRRVEKHWSLIE-GTVT-TKVLSTRK--RTGNESCPQPQTSEHLAAIEIMK--LKHIIILQNKIDLVKE 192 (207)
Q Consensus 126 kiaIsR~V~gh~rlig-g~~~-~nMiaGa~--V~A~eg~~~pQT~EHl~il~~lG--I~~iIV~vNK~DlV~~ 192 (207)
++.+. +.+|+.++-. +.-. ++ ..++. +|+++.....+-.+.+..++.+. -.-+|++.||+|+.+.
T Consensus 52 ~~~i~-D~~G~~~~~~~~~~~~~~-~~~ii~v~d~~~~~s~~~l~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~ 122 (166)
T cd01869 52 KLQIW-DTAGQERFRTITSSYYRG-AHGIIIVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDLTDK 122 (166)
T ss_pred EEEEE-ECCCcHhHHHHHHHHhCc-CCEEEEEEECcCHHHHHhHHHHHHHHHHhCCCCCcEEEEEEChhcccc
Confidence 34444 7778777653 1111 22 13322 66654321233333344343332 1357888999998654
No 218
>KOG0469|consensus
Probab=53.38 E-value=29 Score=35.42 Aligned_cols=76 Identities=20% Similarity=0.164 Sum_probs=46.5
Q ss_pred EEEEEEeecCcceeeccccc--ccccccee--eecCCCCCCCchHHHHHHHHHcCCCeEEEEEecCCCC------ChhhH
Q psy13818 126 KIALSRRVEKHWSLIEGTVT--TKVLSTRK--RTGNESCPQPQTSEHLAAIEIMKLKHIIILQNKIDLV------KEGQA 195 (207)
Q Consensus 126 kiaIsR~V~gh~rligg~~~--~nMiaGa~--V~A~eg~~~pQT~EHl~il~~lGI~~iIV~vNK~DlV------~~~~~ 195 (207)
-+-++ +.|||-+|-- .++ --..+||. ||.-+|+ .-||..-|.-+-.=-|+ =++++||||.. +.+++
T Consensus 99 LiNLI-DSPGHVDFSS-EVTAALRVTDGALVVVDcv~Gv-CVQTETVLrQA~~ERIk-Pvlv~NK~DRAlLELq~~~EeL 174 (842)
T KOG0469|consen 99 LINLI-DSPGHVDFSS-EVTAALRVTDGALVVVDCVSGV-CVQTETVLRQAIAERIK-PVLVMNKMDRALLELQLSQEEL 174 (842)
T ss_pred eEEec-cCCCcccchh-hhhheeEeccCcEEEEEccCce-EechHHHHHHHHHhhcc-ceEEeehhhHHHHhhcCCHHHH
Confidence 45555 8899999982 222 23446666 8888997 66876655433333343 46789999952 34455
Q ss_pred HHHHHHHHhh
Q psy13818 196 NEQHEQIVKF 205 (207)
Q Consensus 196 ~~~~~eI~~~ 205 (207)
-+.|..|.+-
T Consensus 175 yqtf~R~VE~ 184 (842)
T KOG0469|consen 175 YQTFQRIVEN 184 (842)
T ss_pred HHHHHHHHhc
Confidence 5555555553
No 219
>TIGR00101 ureG urease accessory protein UreG. This model represents UreG, a GTP hydrolase that acts in the assembly of the nickel metallocenter of urease. It is found only in urease-positive species, although some urease-positive species (e.g. Bacillus subtilis) lack this protein. A similar protein, hypB, is an accessory protein for expression of hydrogenase, which also uses nickel.
Probab=53.36 E-value=12 Score=31.46 Aligned_cols=24 Identities=25% Similarity=0.318 Sum_probs=15.6
Q ss_pred EEEEecCCCCCh--hhHHHHHHHHHh
Q psy13818 181 IILQNKIDLVKE--GQANEQHEQIVK 204 (207)
Q Consensus 181 IV~vNK~DlV~~--~~~~~~~~eI~~ 204 (207)
++++||+|++++ .+.+...+++++
T Consensus 141 ~~~~~k~d~~~~~~~~~~~~~~~~~~ 166 (199)
T TIGR00101 141 LLVINKIDLAPMVGADLGVMERDAKK 166 (199)
T ss_pred EEEEEhhhccccccccHHHHHHHHHH
Confidence 678999999863 334444455554
No 220
>cd01862 Rab7 Rab7 subfamily. Rab7 is a small Rab GTPase that regulates vesicular traffic from early to late endosomal stages of the endocytic pathway. The yeast Ypt7 and mammalian Rab7 are both involved in transport to the vacuole/lysosome, whereas Ypt7 is also required for homotypic vacuole fusion. Mammalian Rab7 is an essential participant in the autophagic pathway for sequestration and targeting of cytoplasmic components to the lytic compartment. Mammalian Rab7 is also proposed to function as a tumor suppressor. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-
Probab=53.32 E-value=17 Score=27.78 Aligned_cols=56 Identities=16% Similarity=0.085 Sum_probs=29.4
Q ss_pred eecCcceeec-ccccccccccee--eecCCCCCCCchHHHH-----HHHHHcC-----CCeEEEEEecCCCCC
Q psy13818 132 RVEKHWSLIE-GTVTTKVLSTRK--RTGNESCPQPQTSEHL-----AAIEIMK-----LKHIIILQNKIDLVK 191 (207)
Q Consensus 132 ~V~gh~rlig-g~~~~nMiaGa~--V~A~eg~~~pQT~EHl-----~il~~lG-----I~~iIV~vNK~DlV~ 191 (207)
+.+|+.++.. |.-.-+..+++. +|++.. |+.+++ .++..+. -..++++.||+|+.+
T Consensus 55 D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~ 123 (172)
T cd01862 55 DTAGQERFQSLGVAFYRGADCCVLVYDVTNP----KSFESLDSWRDEFLIQASPSDPENFPFVVLGNKIDLEE 123 (172)
T ss_pred eCCChHHHHhHHHHHhcCCCEEEEEEECCCH----HHHHHHHHHHHHHHHhcCccCCCCceEEEEEECccccc
Confidence 7777765543 221112223333 665543 443333 3444443 235789999999984
No 221
>PF06858 NOG1: Nucleolar GTP-binding protein 1 (NOG1); InterPro: IPR010674 This domain represents a conserved region of approximately 60 residues in length within nucleolar GTP-binding protein 1 (NOG1). The NOG1 family includes eukaryotic, bacterial and archaeal proteins. In Saccharomyces cerevisiae, the NOG1 gene has been shown to be essential for cell viability, suggesting that NOG1 may play an important role in nucleolar functions. In particular, NOG1 is believed to be functionally linked to ribosome biogenesis, which occurs in the nucleolus. In eukaryotes, NOG1 mutants were found to disrupt the biogenesis of the 60S ribosomal subunit []. The DRG and OBG proteins as well as the prokaryotic NOG-like proteins are homologous throughout their length to the amino half of eukaryotic NOG1, which contains the GTP binding motifs (IPR006073 from INTERPRO); the N-terminal GTP-binding motif is required for function.; GO: 0005525 GTP binding; PDB: 2E87_A.
Probab=52.45 E-value=17 Score=26.14 Aligned_cols=35 Identities=29% Similarity=0.344 Sum_probs=18.1
Q ss_pred eecCCCCC---CCchHHHHHHHHHcCCCeEEEEEecCC
Q psy13818 154 RTGNESCP---QPQTSEHLAAIEIMKLKHIIILQNKID 188 (207)
Q Consensus 154 V~A~eg~~---~pQT~EHl~il~~lGI~~iIV~vNK~D 188 (207)
+|..|.|- ..|-.=--.|-..++=+-+++|+||+|
T Consensus 21 ~D~Se~CGysie~Q~~L~~~ik~~F~~~P~i~V~nK~D 58 (58)
T PF06858_consen 21 IDPSEQCGYSIEEQLSLFKEIKPLFPNKPVIVVLNKID 58 (58)
T ss_dssp E-TT-TTSS-HHHHHHHHHHHHHHTTTS-EEEEE--TT
T ss_pred EcCCCCCCCCHHHHHHHHHHHHHHcCCCCEEEEEeccC
Confidence 77777661 123332334556676677999999998
No 222
>TIGR00750 lao LAO/AO transport system ATPase. Mutations have also been found that do not phosphorylate the periplasmic binding proteins, yet still allow transport. The ATPase activity of this protein seems to be necessary, however.
Probab=52.33 E-value=26 Score=31.23 Aligned_cols=19 Identities=26% Similarity=0.302 Sum_probs=14.4
Q ss_pred HcCCCeEEEEEecCCCCChh
Q psy13818 174 IMKLKHIIILQNKIDLVKEG 193 (207)
Q Consensus 174 ~lGI~~iIV~vNK~DlV~~~ 193 (207)
+++.+. ++++||+|+.+.+
T Consensus 170 l~~~~~-ivv~NK~Dl~~~~ 188 (300)
T TIGR00750 170 LMEIAD-IYVVNKADGEGAT 188 (300)
T ss_pred Hhhhcc-EEEEEcccccchh
Confidence 455554 7899999998754
No 223
>PRK05291 trmE tRNA modification GTPase TrmE; Reviewed
Probab=51.83 E-value=14 Score=35.06 Aligned_cols=36 Identities=33% Similarity=0.323 Sum_probs=22.9
Q ss_pred eecCCCCCCCchHHHHHHHHHcCCCeEEEEEecCCCCChh
Q psy13818 154 RTGNESCPQPQTSEHLAAIEIMKLKHIIILQNKIDLVKEG 193 (207)
Q Consensus 154 V~A~eg~~~pQT~EHl~il~~lGI~~iIV~vNK~DlV~~~ 193 (207)
+|++.+. +.++..++....-..+++|+||+|+.+..
T Consensus 302 vD~s~~~----s~~~~~~l~~~~~~piiiV~NK~DL~~~~ 337 (449)
T PRK05291 302 LDASEPL----TEEDDEILEELKDKPVIVVLNKADLTGEI 337 (449)
T ss_pred ecCCCCC----ChhHHHHHHhcCCCCcEEEEEhhhccccc
Confidence 6675543 33344444444445789999999997643
No 224
>PRK12299 obgE GTPase CgtA; Reviewed
Probab=51.26 E-value=15 Score=33.74 Aligned_cols=16 Identities=50% Similarity=0.657 Sum_probs=13.2
Q ss_pred CeEEEEEecCCCCChh
Q psy13818 178 KHIIILQNKIDLVKEG 193 (207)
Q Consensus 178 ~~iIV~vNK~DlV~~~ 193 (207)
+.+|||+||+|+.+.+
T Consensus 272 kp~IIV~NKiDL~~~~ 287 (335)
T PRK12299 272 KPRILVLNKIDLLDEE 287 (335)
T ss_pred CCeEEEEECcccCCch
Confidence 5688999999998654
No 225
>cd04108 Rab36_Rab34 Rab34/Rab36 subfamily. Rab34, found primarily in the Golgi, interacts with its effector, Rab-interacting lysosomal protein (RILP). This enables its participation in microtubular dynenin-dynactin-mediated repositioning of lysosomes from the cell periphery to the Golgi. A Rab34 (Rah) isoform that lacks the consensus GTP-binding region has been identified in mice. This isoform is associated with membrane ruffles and promotes macropinosome formation. Rab36 has been mapped to human chromosome 22q11.2, a region that is homozygously deleted in malignant rhabdoid tumors (MRTs). However, experimental assessments do not implicate Rab36 as a tumor suppressor that would enable tumor formation through a loss-of-function mechanism. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further re
Probab=51.15 E-value=11 Score=30.02 Aligned_cols=14 Identities=21% Similarity=0.401 Sum_probs=11.7
Q ss_pred EEEEEecCCCCChh
Q psy13818 180 IIILQNKIDLVKEG 193 (207)
Q Consensus 180 iIV~vNK~DlV~~~ 193 (207)
+|+|.||+|+.+..
T Consensus 109 iilVgnK~Dl~~~~ 122 (170)
T cd04108 109 LFLVGTKKDLSSPA 122 (170)
T ss_pred EEEEEEChhcCccc
Confidence 78999999997643
No 226
>cd04150 Arf1_5_like Arf1-Arf5-like subfamily. This subfamily contains Arf1, Arf2, Arf3, Arf4, Arf5, and related proteins. Arfs1-5 are soluble proteins that are crucial for assembling coat proteins during vesicle formation. Each contains an N-terminal myristoylated amphipathic helix that is folded into the protein in the GDP-bound state. GDP/GTP exchange exposes the helix, which anchors to the membrane. Following GTP hydrolysis, the helix dissociates from the membrane and folds back into the protein. A general feature of Arf1-5 signaling may be the cooperation of two Arfs at the same site. Arfs1-5 are generally considered to be interchangeable in function and location, but some specific functions have been assigned. Arf1 localizes to the early/cis-Golgi, where it is activated by GBF1 and recruits the coat protein COPI. It also localizes to the trans-Golgi network (TGN), where it is activated by BIG1/BIG2 and recruits the AP1, AP3, AP4, and GGA proteins. Humans, but not rodents
Probab=51.09 E-value=17 Score=28.47 Aligned_cols=65 Identities=12% Similarity=0.078 Sum_probs=32.9
Q ss_pred EEEEEEeecCcceeec-cccc-ccccccee--eecCCCCCCCchHHHHH-HHH--HcCCCeEEEEEecCCCCCh
Q psy13818 126 KIALSRRVEKHWSLIE-GTVT-TKVLSTRK--RTGNESCPQPQTSEHLA-AIE--IMKLKHIIILQNKIDLVKE 192 (207)
Q Consensus 126 kiaIsR~V~gh~rlig-g~~~-~nMiaGa~--V~A~eg~~~pQT~EHl~-il~--~lGI~~iIV~vNK~DlV~~ 192 (207)
++.+. +.+|+.++-. |.-. ++. +++. +|+++.....+..+++. +++ -+.-..++|+.||+|+.+.
T Consensus 45 ~~~l~-D~~G~~~~~~~~~~~~~~a-d~~i~v~D~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~ 116 (159)
T cd04150 45 SFTVW-DVGGQDKIRPLWRHYFQNT-QGLIFVVDSNDRERIGEAREELQRMLNEDELRDAVLLVFANKQDLPNA 116 (159)
T ss_pred EEEEE-ECCCCHhHHHHHHHHhcCC-CEEEEEEeCCCHHHHHHHHHHHHHHHhcHHhcCCCEEEEEECCCCCCC
Confidence 34443 7777766542 2221 332 3333 66654321344444332 222 1223568999999999653
No 227
>PLN00223 ADP-ribosylation factor; Provisional
Probab=50.92 E-value=16 Score=29.55 Aligned_cols=65 Identities=9% Similarity=0.016 Sum_probs=33.0
Q ss_pred cEEEEEEeecCcceeec-cccc-ccccccee--eecCCCCCCCchHHHHHHHHHc-----CCCeEEEEEecCCCCChh
Q psy13818 125 EKIALSRRVEKHWSLIE-GTVT-TKVLSTRK--RTGNESCPQPQTSEHLAAIEIM-----KLKHIIILQNKIDLVKEG 193 (207)
Q Consensus 125 ~kiaIsR~V~gh~rlig-g~~~-~nMiaGa~--V~A~eg~~~pQT~EHl~il~~l-----GI~~iIV~vNK~DlV~~~ 193 (207)
-++.|. +++|+.++-- |... ++. .++. +|+.+.-...+.++ .+-+++ .-..++|+.||+|+.+..
T Consensus 61 ~~~~i~-D~~Gq~~~~~~~~~~~~~a-~~iI~V~D~s~~~s~~~~~~--~l~~~l~~~~~~~~piilv~NK~Dl~~~~ 134 (181)
T PLN00223 61 ISFTVW-DVGGQDKIRPLWRHYFQNT-QGLIFVVDSNDRDRVVEARD--ELHRMLNEDELRDAVLLVFANKQDLPNAM 134 (181)
T ss_pred EEEEEE-ECCCCHHHHHHHHHHhccC-CEEEEEEeCCcHHHHHHHHH--HHHHHhcCHhhCCCCEEEEEECCCCCCCC
Confidence 345554 8888876542 2222 332 3333 66664321112221 222222 234589999999997643
No 228
>cd04093 HBS1_C HBS1_C: this family represents the C-terminal domain of Hsp70 subfamily B suppressor 1 (HBS1) which is homologous to the domain III of EF-1alpha. This group contains proteins similar to yeast Hbs1, a G protein known to be important for efficient growth and protein synthesis under conditions of limiting translation initiation and, to associate with Dom34. It has been speculated that yeast Hbs1 and Dom34 proteins may function as part of a complex with a role in gene expression.
Probab=50.86 E-value=57 Score=24.23 Aligned_cols=26 Identities=8% Similarity=-0.031 Sum_probs=22.0
Q ss_pred ccCccCceEEEEeeccccceEEEEEe
Q psy13818 82 QKLTRNEVLLVNIGSLSTGGRVLATK 107 (207)
Q Consensus 82 ~~l~~~E~lmlniGs~~t~g~V~~~~ 107 (207)
.||..|-..++-+||..+.++|.++.
T Consensus 17 ~pl~~G~~~~l~~~t~~~~~~v~~I~ 42 (107)
T cd04093 17 KPILPGTPFELFRHSLKEPATITKLV 42 (107)
T ss_pred cccCCCCcEEEEecccEEeEEEEEee
Confidence 67888988889999999999988653
No 229
>cd04123 Rab21 Rab21 subfamily. The localization and function of Rab21 are not clearly defined, with conflicting data reported. Rab21 has been reported to localize in the ER in human intestinal epithelial cells, with partial colocalization with alpha-glucosidase, a late endosomal/lysosomal marker. More recently, Rab21 was shown to colocalize with and affect the morphology of early endosomes. In Dictyostelium, GTP-bound Rab21, together with two novel LIM domain proteins, LimF and ChLim, has been shown to regulate phagocytosis. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site
Probab=50.60 E-value=8.8 Score=28.86 Aligned_cols=60 Identities=12% Similarity=0.112 Sum_probs=30.0
Q ss_pred eecCcceeec-cccc-ccccccee--eecCCCCCCCchHHHH-HHHHHcC-CCeEEEEEecCCCCCh
Q psy13818 132 RVEKHWSLIE-GTVT-TKVLSTRK--RTGNESCPQPQTSEHL-AAIEIMK-LKHIIILQNKIDLVKE 192 (207)
Q Consensus 132 ~V~gh~rlig-g~~~-~nMiaGa~--V~A~eg~~~pQT~EHl-~il~~lG-I~~iIV~vNK~DlV~~ 192 (207)
+.+|+.++-. +... ++ ..++. +|.++...-.+....+ .+..... -..++++.||+|+.+.
T Consensus 55 D~~g~~~~~~~~~~~~~~-~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piiiv~nK~D~~~~ 120 (162)
T cd04123 55 DTAGQERYHALGPIYYRD-ADGAILVYDITDADSFQKVKKWIKELKQMRGNNISLVIVGNKIDLERQ 120 (162)
T ss_pred ECCchHHHHHhhHHHhcc-CCEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECcccccc
Confidence 6666655442 2222 32 23433 6666553112222222 2233333 2468999999999854
No 230
>KOG2423|consensus
Probab=50.01 E-value=9.2 Score=37.69 Aligned_cols=37 Identities=24% Similarity=0.328 Sum_probs=24.9
Q ss_pred eecCCCCCCCchHHHHH--HHHHcCCCeEEEEEecCCCCCh
Q psy13818 154 RTGNESCPQPQTSEHLA--AIEIMKLKHIIILQNKIDLVKE 192 (207)
Q Consensus 154 V~A~eg~~~pQT~EHl~--il~~lGI~~iIV~vNK~DlV~~ 192 (207)
+||.+. |+--.+|+. +=+----+|+|.++||+|||-.
T Consensus 221 lDARDP--mGTrc~~ve~ylkke~phKHli~vLNKvDLVPt 259 (572)
T KOG2423|consen 221 LDARDP--MGTRCKHVEEYLKKEKPHKHLIYVLNKVDLVPT 259 (572)
T ss_pred eeccCC--cccccHHHHHHHhhcCCcceeEEEeeccccccH
Confidence 555553 565566642 3333457899999999999864
No 231
>PRK11058 GTPase HflX; Provisional
Probab=49.27 E-value=20 Score=34.12 Aligned_cols=35 Identities=17% Similarity=0.389 Sum_probs=23.0
Q ss_pred eecCCCCCCCchHHHH----HHHHHcCC--CeEEEEEecCCCCCh
Q psy13818 154 RTGNESCPQPQTSEHL----AAIEIMKL--KHIIILQNKIDLVKE 192 (207)
Q Consensus 154 V~A~eg~~~pQT~EHl----~il~~lGI--~~iIV~vNK~DlV~~ 192 (207)
+|+.+ |.+.+|+ .+++.++. ..+|+|.||+|+.+.
T Consensus 284 vDaS~----~~~~e~l~~v~~iL~el~~~~~pvIiV~NKiDL~~~ 324 (426)
T PRK11058 284 VDAAD----VRVQENIEAVNTVLEEIDAHEIPTLLVMNKIDMLDD 324 (426)
T ss_pred EeCCC----ccHHHHHHHHHHHHHHhccCCCCEEEEEEcccCCCc
Confidence 66644 4556665 34555543 458899999999754
No 232
>cd04107 Rab32_Rab38 Rab38/Rab32 subfamily. Rab32 and Rab38 are members of the Rab family of small GTPases. Human Rab32 was first identified in platelets but it is expressed in a variety of cell types, where it functions as an A-kinase anchoring protein (AKAP). Rab38 has been shown to be melanocyte-specific. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins.
Probab=48.89 E-value=11 Score=30.78 Aligned_cols=13 Identities=46% Similarity=0.598 Sum_probs=11.0
Q ss_pred eEEEEEecCCCCC
Q psy13818 179 HIIILQNKIDLVK 191 (207)
Q Consensus 179 ~iIV~vNK~DlV~ 191 (207)
-+|||.||+|+.+
T Consensus 112 piilv~NK~Dl~~ 124 (201)
T cd04107 112 PCLLLANKCDLKK 124 (201)
T ss_pred cEEEEEECCCccc
Confidence 4799999999974
No 233
>cd04153 Arl5_Arl8 Arl5/Arl8 subfamily. Arl5 (Arf-like 5) and Arl8, like Arl4 and Arl7, are localized to the nucleus and nucleolus. Arl5 is developmentally regulated during embryogenesis in mice. Human Arl5 interacts with the heterochromatin protein 1-alpha (HP1alpha), a nonhistone chromosomal protein that is associated with heterochromatin and telomeres, and prevents telomere fusion. Arl5 may also play a role in embryonic nuclear dynamics and/or signaling cascades. Arl8 was identified from a fetal cartilage cDNA library. It is found in brain, heart, lung, cartilage, and kidney. No function has been assigned for Arl8 to date.
Probab=47.23 E-value=21 Score=28.34 Aligned_cols=14 Identities=36% Similarity=0.503 Sum_probs=11.8
Q ss_pred CeEEEEEecCCCCC
Q psy13818 178 KHIIILQNKIDLVK 191 (207)
Q Consensus 178 ~~iIV~vNK~DlV~ 191 (207)
..++|+.||+|+.+
T Consensus 117 ~p~viv~NK~Dl~~ 130 (174)
T cd04153 117 AVLLVLANKQDLKG 130 (174)
T ss_pred CCEEEEEECCCCCC
Confidence 45899999999975
No 234
>PTZ00099 rab6; Provisional
Probab=47.20 E-value=24 Score=28.85 Aligned_cols=64 Identities=11% Similarity=-0.063 Sum_probs=31.8
Q ss_pred EEEEEEeecCcceeec-cccc-ccccccee--eecCCCCCCCch-HHHHHHHHHcCC-CeEEEEEecCCCCC
Q psy13818 126 KIALSRRVEKHWSLIE-GTVT-TKVLSTRK--RTGNESCPQPQT-SEHLAAIEIMKL-KHIIILQNKIDLVK 191 (207)
Q Consensus 126 kiaIsR~V~gh~rlig-g~~~-~nMiaGa~--V~A~eg~~~pQT-~EHl~il~~lGI-~~iIV~vNK~DlV~ 191 (207)
++.|. +.+|++++-. +... ++. .++. +|.+........ .++..+.+..+- .-+|+|.||+||.+
T Consensus 30 ~l~iw-Dt~G~e~~~~~~~~~~~~a-d~~ilv~D~t~~~sf~~~~~w~~~i~~~~~~~~piilVgNK~DL~~ 99 (176)
T PTZ00099 30 RLQLW-DTAGQERFRSLIPSYIRDS-AAAIVVYDITNRQSFENTTKWIQDILNERGKDVIIALVGNKTDLGD 99 (176)
T ss_pred EEEEE-ECCChHHhhhccHHHhCCC-cEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCeEEEEEECccccc
Confidence 45555 7788877663 2211 332 2222 555543111111 223334444332 23689999999964
No 235
>cd01865 Rab3 Rab3 subfamily. The Rab3 subfamily contains Rab3A, Rab3B, Rab3C, and Rab3D. All four isoforms were found in mouse brain and endocrine tissues, with varying levels of expression. Rab3A, Rab3B, and Rab3C localized to synaptic and secretory vesicles; Rab3D was expressed at high levels only in adipose tissue, exocrine glands, and the endocrine pituitary, where it is localized to cytoplasmic secretory granules. Rab3 appears to control Ca2+-regulated exocytosis. The appropriate GDP/GTP exchange cycle of Rab3A is required for Ca2+-regulated exocytosis to occur, and interaction of the GTP-bound form of Rab3A with effector molecule(s) is widely believed to be essential for this process. Functionally, most studies point toward a role for Rab3 in the secretion of hormones and neurotransmitters. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promot
Probab=46.90 E-value=12 Score=28.99 Aligned_cols=16 Identities=31% Similarity=0.544 Sum_probs=13.0
Q ss_pred CeEEEEEecCCCCChh
Q psy13818 178 KHIIILQNKIDLVKEG 193 (207)
Q Consensus 178 ~~iIV~vNK~DlV~~~ 193 (207)
..++|+.||+|+.+..
T Consensus 107 ~piivv~nK~Dl~~~~ 122 (165)
T cd01865 107 AQVILVGNKCDMEDER 122 (165)
T ss_pred CCEEEEEECcccCccc
Confidence 4589999999997643
No 236
>cd03705 EF1_alpha_III Domain III of EF-1. Eukaryotic elongation factor 1 (EF-1) is responsible for the GTP-dependent binding of aminoacyl-tRNAs to ribosomes. EF-1 is composed of four subunits: the alpha chain, which binds GTP and aminoacyl-tRNAs, the gamma chain that probably plays a role in anchoring the complex to other cellular components and the beta and delta (or beta') chains. This family is the alpha subunit, and represents the counterpart of bacterial EF-Tu for the archaea (aEF-1 alpha) and eukaryotes (eEF-1 alpha).
Probab=46.88 E-value=38 Score=25.04 Aligned_cols=25 Identities=4% Similarity=0.040 Sum_probs=22.0
Q ss_pred ccCccCceEEEEeeccccceEEEEE
Q psy13818 82 QKLTRNEVLLVNIGSLSTGGRVLAT 106 (207)
Q Consensus 82 ~~l~~~E~lmlniGs~~t~g~V~~~ 106 (207)
.||.+|-..++.+||..+.++|.++
T Consensus 17 ~pl~~G~~~~~~~~t~~~~~~I~~i 41 (104)
T cd03705 17 GQIKPGYTPVLDCHTAHVACRFAEI 41 (104)
T ss_pred CcccCCceEEEEeccceEeEEEEhh
Confidence 6888899999999999999999866
No 237
>cd04122 Rab14 Rab14 subfamily. Rab14 GTPases are localized to biosynthetic compartments, including the rough ER, the Golgi complex, and the trans-Golgi network, and to endosomal compartments, including early endosomal vacuoles and associated vesicles. Rab14 is believed to function in both the biosynthetic and recycling pathways between the Golgi and endosomal compartments. Rab14 has also been identified on GLUT4 vesicles, and has been suggested to help regulate GLUT4 translocation. In addition, Rab14 is believed to play a role in the regulation of phagocytosis. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GT
Probab=46.80 E-value=11 Score=29.20 Aligned_cols=14 Identities=36% Similarity=0.522 Sum_probs=11.9
Q ss_pred eEEEEEecCCCCCh
Q psy13818 179 HIIILQNKIDLVKE 192 (207)
Q Consensus 179 ~iIV~vNK~DlV~~ 192 (207)
.++++.||+|+.+.
T Consensus 109 ~iiiv~nK~Dl~~~ 122 (166)
T cd04122 109 VIFLIGNKADLEAQ 122 (166)
T ss_pred eEEEEEECcccccc
Confidence 58999999999764
No 238
>cd04136 Rap_like Rap-like subfamily. The Rap subfamily consists of the Rap1, Rap2, and RSR1. Rap subfamily proteins perform different cellular functions, depending on the isoform and its subcellular localization. For example, in rat salivary gland, neutrophils, and platelets, Rap1 localizes to secretory granules and is believed to regulate exocytosis or the formation of secretory granules. Rap1 has also been shown to localize in the Golgi of rat fibroblasts, zymogen granules, plasma membrane, and microsomal membrane of the pancreatic acini, as well as in the endocytic compartment of skeletal muscle cells and fibroblasts. Rap1 localizes in the nucleus of human oropharyngeal squamous cell carcinomas (SCCs) and cell lines. Rap1 plays a role in phagocytosis by controlling the binding of adhesion receptors (typically integrins) to their ligands. In yeast, Rap1 has been implicated in multiple functions, including activation and silencing of transcription and maintenance of telomeres.
Probab=46.36 E-value=15 Score=27.94 Aligned_cols=14 Identities=36% Similarity=0.593 Sum_probs=11.5
Q ss_pred eEEEEEecCCCCCh
Q psy13818 179 HIIILQNKIDLVKE 192 (207)
Q Consensus 179 ~iIV~vNK~DlV~~ 192 (207)
.+|++.||+|+.+.
T Consensus 108 piilv~nK~Dl~~~ 121 (163)
T cd04136 108 PMVLVGNKCDLEDE 121 (163)
T ss_pred CEEEEEECcccccc
Confidence 47889999999764
No 239
>cd04127 Rab27A Rab27a subfamily. The Rab27a subfamily consists of Rab27a and its highly homologous isoform, Rab27b. Unlike most Rab proteins whose functions remain poorly defined, Rab27a has many known functions. Rab27a has multiple effector proteins, and depending on which effector it binds, Rab27a has different functions as well as tissue distribution and/or cellular localization. Putative functions have been assigned to Rab27a when associated with the effector proteins Slp1, Slp2, Slp3, Slp4, Slp5, DmSlp, rabphilin, Dm/Ce-rabphilin, Slac2-a, Slac2-b, Slac2-c, Noc2, JFC1, and Munc13-4. Rab27a has been associated with several human diseases, including hemophagocytic syndrome (Griscelli syndrome or GS), Hermansky-Pudlak syndrome, and choroidermia. In the case of GS, a rare, autosomal recessive disease, a Rab27a mutation is directly responsible for the disorder. When Rab27a is localized to the secretory granules of pancreatic beta cells, it is believed to mediate glucose-stimulated
Probab=46.30 E-value=11 Score=29.59 Aligned_cols=61 Identities=13% Similarity=-0.000 Sum_probs=33.8
Q ss_pred EEEEEEeecCcceeec-cccc-ccccccee--eecCCCCCCCchHHHHH-----HHHHc--CCCeEEEEEecCCCCCh
Q psy13818 126 KIALSRRVEKHWSLIE-GTVT-TKVLSTRK--RTGNESCPQPQTSEHLA-----AIEIM--KLKHIIILQNKIDLVKE 192 (207)
Q Consensus 126 kiaIsR~V~gh~rlig-g~~~-~nMiaGa~--V~A~eg~~~pQT~EHl~-----il~~l--GI~~iIV~vNK~DlV~~ 192 (207)
++.|. +.+|+++|-. +... ++. .|+. .|++ .+++.+++. +.... .-..+++|.||+|+.+.
T Consensus 64 ~~~i~-Dt~G~~~~~~~~~~~~~~~-~~~i~v~d~~----~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~ 135 (180)
T cd04127 64 HLQLW-DTAGQERFRSLTTAFFRDA-MGFLLIFDLT----NEQSFLNVRNWMSQLQTHAYCENPDIVLCGNKADLEDQ 135 (180)
T ss_pred EEEEE-eCCChHHHHHHHHHHhCCC-CEEEEEEECC----CHHHHHHHHHHHHHHHHhcCCCCCcEEEEEeCccchhc
Confidence 34454 7788777653 2222 443 3333 4544 356666652 22222 12358899999999764
No 240
>cd00879 Sar1 Sar1 subfamily. Sar1 is an essential component of COPII vesicle coats involved in export of cargo from the ER. The GTPase activity of Sar1 functions as a molecular switch to control protein-protein and protein-lipid interactions that direct vesicle budding from the ER. Activation of the GDP to the GTP-bound form of Sar1 involves the membrane-associated guanine nucleotide exchange factor (GEF) Sec12. Sar1 is unlike all Ras superfamily GTPases that use either myristoyl or prenyl groups to direct membrane association and function, in that Sar1 lacks such modification. Instead, Sar1 contains a unique nine-amino-acid N-terminal extension. This extension contains an evolutionarily conserved cluster of bulky hydrophobic amino acids, referred to as the Sar1-N-terminal activation recruitment (STAR) motif. The STAR motif mediates the recruitment of Sar1 to ER membranes and facilitates its interaction with mammalian Sec12 GEF leading to activation.
Probab=46.27 E-value=20 Score=28.40 Aligned_cols=14 Identities=50% Similarity=0.591 Sum_probs=11.4
Q ss_pred CeEEEEEecCCCCC
Q psy13818 178 KHIIILQNKIDLVK 191 (207)
Q Consensus 178 ~~iIV~vNK~DlV~ 191 (207)
.-++|+.||+|+.+
T Consensus 121 ~pvivv~NK~Dl~~ 134 (190)
T cd00879 121 VPFLILGNKIDLPG 134 (190)
T ss_pred CCEEEEEeCCCCCC
Confidence 35788999999974
No 241
>smart00177 ARF ARF-like small GTPases; ARF, ADP-ribosylation factor. Ras homologues involved in vesicular transport. Activator of phospholipase D isoforms. Unlike Ras proteins they lack cysteine residues at their C-termini and therefore are unlikely to be prenylated. ARFs are N-terminally myristoylated. Contains ATP/GTP-binding motif (P-loop).
Probab=46.17 E-value=20 Score=28.56 Aligned_cols=65 Identities=15% Similarity=0.095 Sum_probs=33.1
Q ss_pred EEEEEEeecCcceeec-cccc-ccccccee--eecCCCCCCCchHHHHHHH-HH--cCCCeEEEEEecCCCCCh
Q psy13818 126 KIALSRRVEKHWSLIE-GTVT-TKVLSTRK--RTGNESCPQPQTSEHLAAI-EI--MKLKHIIILQNKIDLVKE 192 (207)
Q Consensus 126 kiaIsR~V~gh~rlig-g~~~-~nMiaGa~--V~A~eg~~~pQT~EHl~il-~~--lGI~~iIV~vNK~DlV~~ 192 (207)
++.+. +++|+.++-. |.-. ++. .++. +|+++.....+.++++.-+ +. +.-..++|+.||+|+.+.
T Consensus 58 ~l~l~-D~~G~~~~~~~~~~~~~~a-d~ii~v~D~t~~~s~~~~~~~l~~~~~~~~~~~~piilv~NK~Dl~~~ 129 (175)
T smart00177 58 SFTVW-DVGGQDKIRPLWRHYYTNT-QGLIFVVDSNDRDRIDEAREELHRMLNEDELRDAVILVFANKQDLPDA 129 (175)
T ss_pred EEEEE-ECCCChhhHHHHHHHhCCC-CEEEEEEECCCHHHHHHHHHHHHHHhhCHhhcCCcEEEEEeCcCcccC
Confidence 44544 7788777654 3222 332 2222 6765432123344443222 11 112358999999999753
No 242
>cd04143 Rhes_like Rhes_like subfamily. This subfamily includes Rhes (Ras homolog enriched in striatum) and Dexras1/AGS1 (activator of G-protein signaling 1). These proteins are homologous, but exhibit significant differences in tissue distribution and subcellular localization. Rhes is found primarily in the striatum of the brain, but is also expressed in other areas of the brain, such as the cerebral cortex, hippocampus, inferior colliculus, and cerebellum. Rhes expression is controlled by thyroid hormones. In rat PC12 cells, Rhes is farnesylated and localizes to the plasma membrane. Rhes binds and activates PI3K, and plays a role in coupling serpentine membrane receptors with heterotrimeric G-protein signaling. Rhes has recently been shown to be reduced under conditions of dopamine supersensitivity and may play a role in determining dopamine receptor sensitivity. Dexras1/AGS1 is a dexamethasone-induced Ras protein that is expressed primarily in the brain, with low expression l
Probab=46.11 E-value=12 Score=32.46 Aligned_cols=14 Identities=29% Similarity=0.154 Sum_probs=11.8
Q ss_pred CeEEEEEecCCCCC
Q psy13818 178 KHIIILQNKIDLVK 191 (207)
Q Consensus 178 ~~iIV~vNK~DlV~ 191 (207)
..+|++.||+|+.+
T Consensus 114 ~piIivgNK~Dl~~ 127 (247)
T cd04143 114 IPMVICGNKADRDF 127 (247)
T ss_pred CcEEEEEECccchh
Confidence 45899999999975
No 243
>cd01896 DRG The developmentally regulated GTP-binding protein (DRG) subfamily is an uncharacterized member of the Obg family, an evolutionary branch of GTPase superfamily proteins. GTPases act as molecular switches regulating diverse cellular processes. DRG2 and DRG1 comprise the DRG subfamily in eukaryotes. In view of their widespread expression in various tissues and high conservation among distantly related species in eukaryotes and archaea, DRG proteins may regulate fundamental cellular processes. It is proposed that the DRG subfamily proteins play their physiological roles through RNA binding.
Probab=46.03 E-value=18 Score=31.10 Aligned_cols=18 Identities=28% Similarity=0.410 Sum_probs=14.7
Q ss_pred eEEEEEecCCCCChhhHH
Q psy13818 179 HIIILQNKIDLVKEGQAN 196 (207)
Q Consensus 179 ~iIV~vNK~DlV~~~~~~ 196 (207)
.+++|.||+|+++.++.+
T Consensus 178 p~iiV~NK~Dl~~~~~~~ 195 (233)
T cd01896 178 PCLYVYNKIDLISIEELD 195 (233)
T ss_pred eEEEEEECccCCCHHHHH
Confidence 578999999999877554
No 244
>cd01868 Rab11_like Rab11-like. Rab11a, Rab11b, and Rab25 are closely related, evolutionary conserved Rab proteins that are differentially expressed. Rab11a is ubiquitously synthesized, Rab11b is enriched in brain and heart and Rab25 is only found in epithelia. Rab11/25 proteins seem to regulate recycling pathways from endosomes to the plasma membrane and to the trans-Golgi network. Furthermore, Rab11a is thought to function in the histamine-induced fusion of tubulovesicles containing H+, K+ ATPase with the plasma membrane in gastric parietal cells and in insulin-stimulated insertion of GLUT4 in the plasma membrane of cardiomyocytes. Overexpression of Rab25 has recently been observed in ovarian cancer and breast cancer, and has been correlated with worsened outcomes in both diseases. In addition, Rab25 overexpression has also been observed in prostate cancer, transitional cell carcinoma of the bladder, and invasive breast tumor cells. GTPase activating proteins (GAPs) interact with GTP
Probab=45.60 E-value=12 Score=28.76 Aligned_cols=15 Identities=33% Similarity=0.350 Sum_probs=12.3
Q ss_pred CeEEEEEecCCCCCh
Q psy13818 178 KHIIILQNKIDLVKE 192 (207)
Q Consensus 178 ~~iIV~vNK~DlV~~ 192 (207)
..++|+.||+|+.+.
T Consensus 109 ~pi~vv~nK~Dl~~~ 123 (165)
T cd01868 109 IVIMLVGNKSDLRHL 123 (165)
T ss_pred CeEEEEEECcccccc
Confidence 458899999999764
No 245
>PRK13796 GTPase YqeH; Provisional
Probab=44.52 E-value=27 Score=32.25 Aligned_cols=35 Identities=11% Similarity=0.044 Sum_probs=22.2
Q ss_pred eecCCCCCCCchHHHHHHHHHcCCCeEEEEEecCCCCCh
Q psy13818 154 RTGNESCPQPQTSEHLAAIEIMKLKHIIILQNKIDLVKE 192 (207)
Q Consensus 154 V~A~eg~~~pQT~EHl~il~~lGI~~iIV~vNK~DlV~~ 192 (207)
||+.+.. ++..+ .+-+..+-+.+++++||+||...
T Consensus 77 VD~~D~~---~s~~~-~L~~~~~~kpviLViNK~DLl~~ 111 (365)
T PRK13796 77 VDIFDFN---GSWIP-GLHRFVGNNPVLLVGNKADLLPK 111 (365)
T ss_pred EECccCC---CchhH-HHHHHhCCCCEEEEEEchhhCCC
Confidence 7776632 22222 34444556789999999999753
No 246
>cd04101 RabL4 RabL4 (Rab-like4) subfamily. RabL4s are novel proteins that have high sequence similarity with Rab family members, but display features that are distinct from Rabs, and have been termed Rab-like. As in other Rab-like proteins, RabL4 lacks a prenylation site at the C-terminus. The specific function of RabL4 remains unknown.
Probab=44.49 E-value=15 Score=28.02 Aligned_cols=16 Identities=25% Similarity=0.422 Sum_probs=12.5
Q ss_pred CeEEEEEecCCCCChh
Q psy13818 178 KHIIILQNKIDLVKEG 193 (207)
Q Consensus 178 ~~iIV~vNK~DlV~~~ 193 (207)
..+|++.||+|+.+..
T Consensus 108 ~p~ilv~nK~Dl~~~~ 123 (164)
T cd04101 108 MPGVLVGNKMDLADKA 123 (164)
T ss_pred CCEEEEEECccccccc
Confidence 4578889999997653
No 247
>KOG0092|consensus
Probab=43.99 E-value=38 Score=29.91 Aligned_cols=81 Identities=14% Similarity=0.114 Sum_probs=48.7
Q ss_pred EEEEeeCcccccCCc-EEEEEEeecCcceeec-cccc-ccccccee-eecCCCCCCCchHHHHHHHHHcCCCeEEE--EE
Q psy13818 111 AKISLTNPVCTEVNE-KIALSRRVEKHWSLIE-GTVT-TKVLSTRK-RTGNESCPQPQTSEHLAAIEIMKLKHIII--LQ 184 (207)
Q Consensus 111 a~i~L~~Pvc~~~G~-kiaIsR~V~gh~rlig-g~~~-~nMiaGa~-V~A~eg~~~pQT~EHl~il~~lGI~~iIV--~v 184 (207)
+-.+++.-+|..... +..| =+-.|.+||=+ .-++ ||--+... -|.+.--.--+.++-+.=|.--.-+++|+ |=
T Consensus 39 GaaF~tktv~~~~~~ikfeI-WDTAGQERy~slapMYyRgA~AAivvYDit~~~SF~~aK~WvkeL~~~~~~~~vialvG 117 (200)
T KOG0092|consen 39 GAAFLTKTVTVDDNTIKFEI-WDTAGQERYHSLAPMYYRGANAAIVVYDITDEESFEKAKNWVKELQRQASPNIVIALVG 117 (200)
T ss_pred ccEEEEEEEEeCCcEEEEEE-EEcCCcccccccccceecCCcEEEEEEecccHHHHHHHHHHHHHHHhhCCCCeEEEEec
Confidence 445666666655443 3444 48889999887 5555 77644433 33332111245555555555555588887 77
Q ss_pred ecCCCCCh
Q psy13818 185 NKIDLVKE 192 (207)
Q Consensus 185 NK~DlV~~ 192 (207)
||+||.+.
T Consensus 118 NK~DL~~~ 125 (200)
T KOG0092|consen 118 NKADLLER 125 (200)
T ss_pred chhhhhhc
Confidence 99999874
No 248
>COG4774 Fiu Outer membrane receptor for monomeric catechols [Inorganic ion transport and metabolism]
Probab=43.74 E-value=12 Score=38.26 Aligned_cols=45 Identities=16% Similarity=0.366 Sum_probs=36.9
Q ss_pred EEEEEEeecCcceeeccccc--cccccceeeecCCCCCCCchHHHHH
Q psy13818 126 KIALSRRVEKHWSLIEGTVT--TKVLSTRKRTGNESCPQPQTSEHLA 170 (207)
Q Consensus 126 kiaIsR~V~gh~rligg~~~--~nMiaGa~V~A~eg~~~pQT~EHl~ 170 (207)
.+..+=++--||+++||.-+ ....-|..|++++|-++|||-+|..
T Consensus 606 Els~sG~it~~W~vfggyTylDsei~kg~~v~~d~g~~L~~Tp~~af 652 (750)
T COG4774 606 ELSVSGNITPAWQVFGGYTYLDSEIKKGKDVSQDGGSSLPYTPEHAF 652 (750)
T ss_pred EEeeccccCchheeecceEeeehhhhcCCcccccCCCcCCCCCccce
Confidence 34445566789999998777 7888888899999999999999964
No 249
>cd04135 Tc10 TC10 subfamily. TC10 is a Rho family protein that has been shown to induce microspike formation and neurite outgrowth in vitro. Its expression changes dramatically after peripheral nerve injury, suggesting an important role in promoting axonal outgrowth and regeneration. TC10 regulates translocation of insulin-stimulated GLUT4 in adipocytes and has also been shown to bind directly to Golgi COPI coat proteins. GTP-bound TC10 in vitro can bind numerous potential effectors. Depending on its subcellular localization and distinct functional domains, TC10 can differentially regulate two types of filamentous actin in adipocytes. TC10 mRNAs are highly expressed in three types of mouse muscle tissues: leg skeletal muscle, cardiac muscle, and uterus; they were also present in brain, with higher levels in adults than in newborns. TC10 has also been shown to play a role in regulating the expression of cystic fibrosis transmembrane conductance regulator (CFTR) through interacti
Probab=43.16 E-value=19 Score=27.85 Aligned_cols=15 Identities=20% Similarity=0.419 Sum_probs=12.0
Q ss_pred CeEEEEEecCCCCCh
Q psy13818 178 KHIIILQNKIDLVKE 192 (207)
Q Consensus 178 ~~iIV~vNK~DlV~~ 192 (207)
..++|+.||+|+.+.
T Consensus 105 ~piivv~nK~Dl~~~ 119 (174)
T cd04135 105 VPYLLVGTQIDLRDD 119 (174)
T ss_pred CCEEEEeEchhhhcC
Confidence 457899999999754
No 250
>cd04158 ARD1 ARD1 subfamily. ARD1 (ADP-ribosylation factor domain protein 1) is an unusual member of the Arf family. In addition to the C-terminal Arf domain, ARD1 has an additional 46-kDa N-terminal domain that contains a RING finger domain, two predicted B-Boxes, and a coiled-coil protein interaction motif. This domain belongs to the TRIM (tripartite motif) or RBCC (RING, B-Box, coiled-coil) family. Like most Arfs, the ARD1 Arf domain lacks detectable GTPase activity. However, unlike most Arfs, the full-length ARD1 protein has significant GTPase activity due to the GAP (GTPase-activating protein) activity exhibited by the 46-kDa N-terminal domain. The GAP domain of ARD1 is specific for its own Arf domain and does not bind other Arfs. The rate of GDP dissociation from the ARD1 Arf domain is slowed by the adjacent 15 amino acids, which act as a GDI (GDP-dissociation inhibitor) domain. ARD1 is ubiquitously expressed in cells and localizes to the Golgi and to the lysosomal membra
Probab=42.92 E-value=26 Score=27.55 Aligned_cols=64 Identities=13% Similarity=0.070 Sum_probs=31.0
Q ss_pred EEEEEEeecCcceeec-cccc-ccccccee--eecCCCCCCCchHHH-HHHHHHcCC--CeEEEEEecCCCCC
Q psy13818 126 KIALSRRVEKHWSLIE-GTVT-TKVLSTRK--RTGNESCPQPQTSEH-LAAIEIMKL--KHIIILQNKIDLVK 191 (207)
Q Consensus 126 kiaIsR~V~gh~rlig-g~~~-~nMiaGa~--V~A~eg~~~pQT~EH-l~il~~lGI--~~iIV~vNK~DlV~ 191 (207)
++.+. +.+|+.++-. |.-. ++. .++. +|+.+........+. ..+++.... ..++||.||+|+.+
T Consensus 44 ~i~l~-Dt~G~~~~~~~~~~~~~~a-d~ii~V~D~s~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~ 114 (169)
T cd04158 44 KFTIW-DVGGKHKLRPLWKHYYLNT-QAVVFVVDSSHRDRVSEAHSELAKLLTEKELRDALLLIFANKQDVAG 114 (169)
T ss_pred EEEEE-ECCCChhcchHHHHHhccC-CEEEEEEeCCcHHHHHHHHHHHHHHhcChhhCCCCEEEEEeCcCccc
Confidence 45554 7777666553 2222 333 3333 566542101112221 222222222 46999999999964
No 251
>PRK12296 obgE GTPase CgtA; Reviewed
Probab=42.73 E-value=23 Score=34.86 Aligned_cols=16 Identities=25% Similarity=0.428 Sum_probs=13.0
Q ss_pred CeEEEEEecCCCCChh
Q psy13818 178 KHIIILQNKIDLVKEG 193 (207)
Q Consensus 178 ~~iIV~vNK~DlV~~~ 193 (207)
+..|||+||+|+.+..
T Consensus 285 kP~IVVlNKiDL~da~ 300 (500)
T PRK12296 285 RPRLVVLNKIDVPDAR 300 (500)
T ss_pred CCEEEEEECccchhhH
Confidence 5688999999997654
No 252
>smart00175 RAB Rab subfamily of small GTPases. Rab GTPases are implicated in vesicle trafficking.
Probab=42.12 E-value=13 Score=28.15 Aligned_cols=15 Identities=33% Similarity=0.459 Sum_probs=12.5
Q ss_pred CeEEEEEecCCCCCh
Q psy13818 178 KHIIILQNKIDLVKE 192 (207)
Q Consensus 178 ~~iIV~vNK~DlV~~ 192 (207)
..++++.||+|+...
T Consensus 106 ~pivvv~nK~D~~~~ 120 (164)
T smart00175 106 VVIMLVGNKSDLEDQ 120 (164)
T ss_pred CeEEEEEEchhcccc
Confidence 468999999999763
No 253
>cd04162 Arl9_Arfrp2_like Arl9/Arfrp2-like subfamily. Arl9 (Arf-like 9) was first identified as part of the Human Cancer Genome Project. It maps to chromosome 4q12 and is sometimes referred to as Arfrp2 (Arf-related protein 2). This is a novel subfamily identified in human cancers that is uncharacterized to date.
Probab=42.11 E-value=26 Score=27.60 Aligned_cols=67 Identities=15% Similarity=0.075 Sum_probs=33.1
Q ss_pred cEEEEEEeecCcceeec-cccc-ccccccee--eecCCCCCCCchHHHHH-HHHHcCCCeEEEEEecCCCCChh
Q psy13818 125 EKIALSRRVEKHWSLIE-GTVT-TKVLSTRK--RTGNESCPQPQTSEHLA-AIEIMKLKHIIILQNKIDLVKEG 193 (207)
Q Consensus 125 ~kiaIsR~V~gh~rlig-g~~~-~nMiaGa~--V~A~eg~~~pQT~EHl~-il~~lGI~~iIV~vNK~DlV~~~ 193 (207)
.++.+. +.+|+.+|-. |.-. ++- .++. +|+.+....+..++.+. +++...=..+++|.||+|+.+..
T Consensus 44 ~~l~i~-Dt~G~~~~~~~~~~~~~~a-d~ii~V~D~t~~~s~~~~~~~l~~~~~~~~~~piilv~NK~Dl~~~~ 115 (164)
T cd04162 44 AIMELL-EIGGSQNLRKYWKRYLSGS-QGLIFVVDSADSERLPLARQELHQLLQHPPDLPLVVLANKQDLPAAR 115 (164)
T ss_pred eEEEEE-ECCCCcchhHHHHHHHhhC-CEEEEEEECCCHHHHHHHHHHHHHHHhCCCCCcEEEEEeCcCCcCCC
Confidence 355555 7777776653 2222 332 3322 66655321122222211 22211223589999999997644
No 254
>cd01863 Rab18 Rab18 subfamily. Mammalian Rab18 is implicated in endocytic transport and is expressed most highly in polarized epithelial cells. However, trypanosomal Rab, TbRAB18, is upregulated in the BSF (Blood Stream Form) stage and localized predominantly to elements of the Golgi complex. In human and mouse cells, Rab18 has been identified in lipid droplets, organelles that store neutral lipids. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of mos
Probab=41.92 E-value=30 Score=26.30 Aligned_cols=12 Identities=33% Similarity=0.459 Sum_probs=10.4
Q ss_pred EEEEEecCCCCC
Q psy13818 180 IIILQNKIDLVK 191 (207)
Q Consensus 180 iIV~vNK~DlV~ 191 (207)
++++.||+|+..
T Consensus 109 ~~iv~nK~D~~~ 120 (161)
T cd01863 109 KMLVGNKIDKEN 120 (161)
T ss_pred EEEEEECCcccc
Confidence 688899999984
No 255
>KOG1490|consensus
Probab=41.42 E-value=18 Score=36.53 Aligned_cols=65 Identities=18% Similarity=0.348 Sum_probs=40.3
Q ss_pred Ccceeec--cccc-----ccccccee--------------eecCCCC---CCCchHHHHHHHHHcCCCeEEEEEecCCCC
Q psy13818 135 KHWSLIE--GTVT-----TKVLSTRK--------------RTGNESC---PQPQTSEHLAAIEIMKLKHIIILQNKIDLV 190 (207)
Q Consensus 135 gh~rlig--g~~~-----~nMiaGa~--------------V~A~eg~---~~pQT~EHl~il~~lGI~~iIV~vNK~DlV 190 (207)
-+|..|. |++- +|.|--.+ .|-.|-| +..|-+=.-.|=.++-=+-.|+|+||+|+.
T Consensus 215 lrwQViDTPGILD~plEdrN~IEmqsITALAHLraaVLYfmDLSe~CGySva~QvkLfhsIKpLFaNK~~IlvlNK~D~m 294 (620)
T KOG1490|consen 215 LRWQVIDTPGILDRPEEDRNIIEMQIITALAHLRSAVLYFMDLSEMCGYSVAAQVKLYHSIKPLFANKVTILVLNKIDAM 294 (620)
T ss_pred eeeeecCCccccCcchhhhhHHHHHHHHHHHHhhhhheeeeechhhhCCCHHHHHHHHHHhHHHhcCCceEEEeeccccc
Confidence 5788887 6654 56554433 3444443 234555555555666677799999999998
Q ss_pred ChhhHHHHH
Q psy13818 191 KEGQANEQH 199 (207)
Q Consensus 191 ~~~~~~~~~ 199 (207)
..+.+.+.-
T Consensus 295 ~~edL~~~~ 303 (620)
T KOG1490|consen 295 RPEDLDQKN 303 (620)
T ss_pred CccccCHHH
Confidence 766443333
No 256
>PRK13187 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed
Probab=41.19 E-value=60 Score=30.20 Aligned_cols=48 Identities=15% Similarity=0.114 Sum_probs=31.3
Q ss_pred ecCcceeeccccccccccceeeecCCCCCCCchHHHHH-HHHHcCCCeEEEEEec
Q psy13818 133 VEKHWSLIEGTVTTKVLSTRKRTGNESCPQPQTSEHLA-AIEIMKLKHIIILQNK 186 (207)
Q Consensus 133 V~gh~rligg~~~~nMiaGa~V~A~eg~~~pQT~EHl~-il~~lGI~~iIV~vNK 186 (207)
++.+|.++ .+.--+..+..+.+. .=+|.||++ ++..|||++++|-++=
T Consensus 61 Ipa~~~~v-----~~t~l~T~L~~~~~~-~V~TVEHLlAAL~glgIDN~~Ievdg 109 (304)
T PRK13187 61 LPVDPALR-----RAQPLCTMLRNADGV-GVRTVEHLLASLLACEIDHAIVELDA 109 (304)
T ss_pred EEcCHHHc-----cCCcceeEEecCCCc-EEeeHHHHHHHHHhCCCceEEEEeCC
Confidence 56677766 332112124421344 679999986 5789999999998763
No 257
>PLN00043 elongation factor 1-alpha; Provisional
Probab=40.87 E-value=66 Score=30.75 Aligned_cols=31 Identities=13% Similarity=0.008 Sum_probs=22.5
Q ss_pred cccccceeeccCCC-CCCcceEEEEEeHhhHH
Q psy13818 11 RADRLVGQVLGAVG-ALPKIFIELEISYHLLK 41 (207)
Q Consensus 11 ~~d~lvG~v~g~~g-~lp~v~~~l~i~~~Ll~ 41 (207)
+.|---|.|+..+. .-|+...+++-+..+|+
T Consensus 305 ~~~i~rG~vl~~~~~~p~~~~~~F~A~i~~l~ 336 (447)
T PLN00043 305 VKDLKRGYVASNSKDDPAKEAANFTSQVIIMN 336 (447)
T ss_pred HhhCCCccEEccCCCCCCccccEEEEEEEEEC
Confidence 34555699999875 44477888888888764
No 258
>COG0378 HypB Ni2+-binding GTPase involved in regulation of expression and maturation of urease and hydrogenase [Posttranslational modification, protein turnover, chaperones / Transcription]
Probab=40.84 E-value=16 Score=32.22 Aligned_cols=14 Identities=29% Similarity=0.247 Sum_probs=11.4
Q ss_pred EEEEEecCCCCChh
Q psy13818 180 IIILQNKIDLVKEG 193 (207)
Q Consensus 180 iIV~vNK~DlV~~~ 193 (207)
=++++||.||+.+-
T Consensus 145 DllVInK~DLa~~v 158 (202)
T COG0378 145 DLLVINKTDLAPYV 158 (202)
T ss_pred eEEEEehHHhHHHh
Confidence 47889999998753
No 259
>cd04175 Rap1 Rap1 subgroup. The Rap1 subgroup is part of the Rap subfamily of the Ras family. It can be further divided into the Rap1a and Rap1b isoforms. In humans, Rap1a and Rap1b share 95% sequence homology, but are products of two different genes located on chromosomes 1 and 12, respectively. Rap1a is sometimes called smg p21 or Krev1 in the older literature. Rap1 proteins are believed to perform different cellular functions, depending on the isoform, its subcellular localization, and the effector proteins it binds. For example, in rat salivary gland, neutrophils, and platelets, Rap1 localizes to secretory granules and is believed to regulate exocytosis or the formation of secretory granules. Rap1 has also been shown to localize in the Golgi of rat fibroblasts, zymogen granules, plasma membrane, and the microsomal membrane of pancreatic acini, as well as in the endocytic compartment of skeletal muscle cells and fibroblasts. High expression of Rap1 has been observed in the n
Probab=40.51 E-value=18 Score=27.87 Aligned_cols=14 Identities=43% Similarity=0.615 Sum_probs=11.6
Q ss_pred eEEEEEecCCCCCh
Q psy13818 179 HIIILQNKIDLVKE 192 (207)
Q Consensus 179 ~iIV~vNK~DlV~~ 192 (207)
-++++.||+|+.+.
T Consensus 108 piilv~nK~Dl~~~ 121 (164)
T cd04175 108 PMILVGNKCDLEDE 121 (164)
T ss_pred CEEEEEECCcchhc
Confidence 38999999999753
No 260
>KOG4252|consensus
Probab=40.46 E-value=15 Score=32.73 Aligned_cols=16 Identities=50% Similarity=0.779 Sum_probs=13.1
Q ss_pred EEEEEecCCCCChhhH
Q psy13818 180 IIILQNKIDLVKEGQA 195 (207)
Q Consensus 180 iIV~vNK~DlV~~~~~ 195 (207)
.|+++||+||+++++.
T Consensus 127 tV~vqNKIDlveds~~ 142 (246)
T KOG4252|consen 127 TVFVQNKIDLVEDSQM 142 (246)
T ss_pred eEEeeccchhhHhhhc
Confidence 6788999999987643
No 261
>cd04112 Rab26 Rab26 subfamily. First identified in rat pancreatic acinar cells, Rab26 is believed to play a role in recruiting mature granules to the plasma membrane upon beta-adrenergic stimulation. Rab26 belongs to the Rab functional group III, which are considered key regulators of intracellular vesicle transport during exocytosis. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins.
Probab=39.99 E-value=16 Score=29.57 Aligned_cols=13 Identities=38% Similarity=0.562 Sum_probs=11.2
Q ss_pred eEEEEEecCCCCC
Q psy13818 179 HIIILQNKIDLVK 191 (207)
Q Consensus 179 ~iIV~vNK~DlV~ 191 (207)
.+++|.||+|+..
T Consensus 108 piiiv~NK~Dl~~ 120 (191)
T cd04112 108 VIMLLGNKADMSG 120 (191)
T ss_pred cEEEEEEcccchh
Confidence 5889999999974
No 262
>PTZ00133 ADP-ribosylation factor; Provisional
Probab=39.96 E-value=31 Score=27.85 Aligned_cols=63 Identities=14% Similarity=0.061 Sum_probs=31.5
Q ss_pred EEEEEEeecCcceeec-cccc-ccccccee--eecCCCCCCCchHHHHHHHHHcC-----CCeEEEEEecCCCCCh
Q psy13818 126 KIALSRRVEKHWSLIE-GTVT-TKVLSTRK--RTGNESCPQPQTSEHLAAIEIMK-----LKHIIILQNKIDLVKE 192 (207)
Q Consensus 126 kiaIsR~V~gh~rlig-g~~~-~nMiaGa~--V~A~eg~~~pQT~EHl~il~~lG-----I~~iIV~vNK~DlV~~ 192 (207)
++.+. +.+|+.++-. |... ++ .+++. +|+++.-...+.+++ +.+.+. -..+||+.||.|+.+.
T Consensus 62 ~~~l~-D~~G~~~~~~~~~~~~~~-ad~iI~v~D~t~~~s~~~~~~~--l~~~~~~~~~~~~piilv~NK~Dl~~~ 133 (182)
T PTZ00133 62 KFTMW-DVGGQDKLRPLWRHYYQN-TNGLIFVVDSNDRERIGDAREE--LERMLSEDELRDAVLLVFANKQDLPNA 133 (182)
T ss_pred EEEEE-ECCCCHhHHHHHHHHhcC-CCEEEEEEeCCCHHHHHHHHHH--HHHHHhCHhhcCCCEEEEEeCCCCCCC
Confidence 45554 7788766553 2222 22 12322 666532101222222 233322 2468999999999753
No 263
>PRK04950 ProP expression regulator; Provisional
Probab=39.90 E-value=38 Score=30.12 Aligned_cols=38 Identities=21% Similarity=0.321 Sum_probs=35.4
Q ss_pred eccCccCceEEEEeeccccceEEEEEecceEEEEeeCc
Q psy13818 81 VQKLTRNEVLLVNIGSLSTGGRVLATKADLAKISLTNP 118 (207)
Q Consensus 81 v~~l~~~E~lmlniGs~~t~g~V~~~~~Dla~i~L~~P 118 (207)
...|+.|..+-++.|.....|+|+.+.+|-+.++|.+-
T Consensus 164 ~~~l~~gq~v~vk~g~~~~~a~i~ei~kd~v~vql~~G 201 (213)
T PRK04950 164 ISELTVGQAVKVKAGKSAMDATVLEITKDDVRVQLDSG 201 (213)
T ss_pred HHHhccCCEEEEeccCCCCceEEEEEecCcEEEEcCCC
Confidence 46788999999999999999999999999999999875
No 264
>cd01861 Rab6 Rab6 subfamily. Rab6 is involved in microtubule-dependent transport pathways through the Golgi and from endosomes to the Golgi. Rab6A of mammals is implicated in retrograde transport through the Golgi stack, and is also required for a slow, COPI-independent, retrograde transport pathway from the Golgi to the endoplasmic reticulum (ER). This pathway may allow Golgi residents to be recycled through the ER for scrutiny by ER quality-control systems. Yeast Ypt6p, the homolog of the mammalian Rab6 GTPase, is not essential for cell viability. Ypt6p acts in endosome-to-Golgi, in intra-Golgi retrograde transport, and possibly also in Golgi-to-ER trafficking. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate
Probab=39.84 E-value=17 Score=27.65 Aligned_cols=14 Identities=36% Similarity=0.510 Sum_probs=11.8
Q ss_pred CeEEEEEecCCCCC
Q psy13818 178 KHIIILQNKIDLVK 191 (207)
Q Consensus 178 ~~iIV~vNK~DlV~ 191 (207)
..++++.||+|+.+
T Consensus 106 ~~iilv~nK~D~~~ 119 (161)
T cd01861 106 VIIVLVGNKTDLSD 119 (161)
T ss_pred CEEEEEEEChhccc
Confidence 45999999999954
No 265
>smart00173 RAS Ras subfamily of RAS small GTPases. Similar in fold and function to the bacterial EF-Tu GTPase. p21Ras couples receptor Tyr kinases and G protein receptors to protein kinase cascades
Probab=39.76 E-value=42 Score=25.58 Aligned_cols=61 Identities=13% Similarity=0.050 Sum_probs=31.8
Q ss_pred EEEEEEeecCcceeec-cccc-ccccccee--eecCCCCCCCchHH-----HHHHHHHcCC--CeEEEEEecCCCCCh
Q psy13818 126 KIALSRRVEKHWSLIE-GTVT-TKVLSTRK--RTGNESCPQPQTSE-----HLAAIEIMKL--KHIIILQNKIDLVKE 192 (207)
Q Consensus 126 kiaIsR~V~gh~rlig-g~~~-~nMiaGa~--V~A~eg~~~pQT~E-----Hl~il~~lGI--~~iIV~vNK~DlV~~ 192 (207)
++.+. +.+|+.++-. +... ++ ..|+. .|++. ++|-+ +..+.+...- ..+|++.||+|+.+.
T Consensus 49 ~l~i~-Dt~g~~~~~~~~~~~~~~-~~~~i~v~d~~~----~~s~~~~~~~~~~i~~~~~~~~~pii~v~nK~Dl~~~ 120 (164)
T smart00173 49 LLDIL-DTAGQEEFSAMRDQYMRT-GEGFLLVYSITD----RQSFEEIKKFREQILRVKDRDDVPIVLVGNKCDLESE 120 (164)
T ss_pred EEEEE-ECCCcccchHHHHHHHhh-CCEEEEEEECCC----HHHHHHHHHHHHHHHHhcCCCCCCEEEEEECcccccc
Confidence 44454 7777777653 2111 22 23333 44432 33332 3344444432 358899999999763
No 266
>COG4917 EutP Ethanolamine utilization protein [Amino acid transport and metabolism]
Probab=39.59 E-value=43 Score=28.24 Aligned_cols=25 Identities=20% Similarity=0.254 Sum_probs=18.2
Q ss_pred HcCCCeEEEEEecCCCCChhhHHHH
Q psy13818 174 IMKLKHIIILQNKIDLVKEGQANEQ 198 (207)
Q Consensus 174 ~lGI~~iIV~vNK~DlV~~~~~~~~ 198 (207)
-++.+..|=+++|+||.++.+....
T Consensus 87 ~~~~k~vIgvVTK~DLaed~dI~~~ 111 (148)
T COG4917 87 DIGVKKVIGVVTKADLAEDADISLV 111 (148)
T ss_pred cccccceEEEEecccccchHhHHHH
Confidence 4567778999999999975544433
No 267
>cd04149 Arf6 Arf6 subfamily. Arf6 (ADP ribosylation factor 6) proteins localize to the plasma membrane, where they perform a wide variety of functions. In its active, GTP-bound form, Arf6 is involved in cell spreading, Rac-induced formation of plasma membrane ruffles, cell migration, wound healing, and Fc-mediated phagocytosis. Arf6 appears to change the actin structure at the plasma membrane by activating Rac, a Rho family protein involved in membrane ruffling. Arf6 is required for and enhances Rac formation of ruffles. Arf6 can regulate dendritic branching in hippocampal neurons, and in yeast it localizes to the growing bud, where it plays a role in polarized growth and bud site selection. In leukocytes, Arf6 is required for chemokine-stimulated migration across endothelial cells. Arf6 also plays a role in down-regulation of beta2-adrenergic receptors and luteinizing hormone receptors by facilitating the release of sequestered arrestin to allow endocytosis. Arf6 is believed t
Probab=39.28 E-value=29 Score=27.55 Aligned_cols=63 Identities=14% Similarity=0.079 Sum_probs=32.2
Q ss_pred EEEEEEeecCcceeec-cccc-ccccccee--eecCCCCCCCchHHHH-HHHH---HcCCCeEEEEEecCCCCC
Q psy13818 126 KIALSRRVEKHWSLIE-GTVT-TKVLSTRK--RTGNESCPQPQTSEHL-AAIE---IMKLKHIIILQNKIDLVK 191 (207)
Q Consensus 126 kiaIsR~V~gh~rlig-g~~~-~nMiaGa~--V~A~eg~~~pQT~EHl-~il~---~lGI~~iIV~vNK~DlV~ 191 (207)
++.+. +++|+.++-. |... ++. .++. +|+.+...+.+..+++ .+++ .-++ .++++.||+|+.+
T Consensus 54 ~~~l~-Dt~G~~~~~~~~~~~~~~a-~~ii~v~D~t~~~s~~~~~~~~~~~~~~~~~~~~-piilv~NK~Dl~~ 124 (168)
T cd04149 54 KFNVW-DVGGQDKIRPLWRHYYTGT-QGLIFVVDSADRDRIDEARQELHRIINDREMRDA-LLLVFANKQDLPD 124 (168)
T ss_pred EEEEE-ECCCCHHHHHHHHHHhccC-CEEEEEEeCCchhhHHHHHHHHHHHhcCHhhcCC-cEEEEEECcCCcc
Confidence 55555 7888876542 2111 221 2222 7776542223333322 2222 1233 5999999999965
No 268
>KOG3905|consensus
Probab=39.23 E-value=27 Score=33.84 Aligned_cols=35 Identities=14% Similarity=0.252 Sum_probs=24.1
Q ss_pred HHHHcCCCeEEEEEecCCCCC-----hhhHHHHHHHHHhhh
Q psy13818 171 AIEIMKLKHIIILQNKIDLVK-----EGQANEQHEQIVKFV 206 (207)
Q Consensus 171 il~~lGI~~iIV~vNK~DlV~-----~~~~~~~~~eI~~~l 206 (207)
+..-+||+ ++||++|+|++. .+...+.|+.|...+
T Consensus 217 Lt~NlGi~-vlVV~TK~D~~s~leke~eyrDehfdfiq~~l 256 (473)
T KOG3905|consen 217 LTHNLGIP-VLVVCTKCDAVSVLEKEHEYRDEHFDFIQSHL 256 (473)
T ss_pred hhhcCCCc-EEEEEeccchhhHhhhcchhhHHHHHHHHHHH
Confidence 56779997 778899999854 345566666665443
No 269
>PRK12297 obgE GTPase CgtA; Reviewed
Probab=39.16 E-value=32 Score=32.92 Aligned_cols=15 Identities=33% Similarity=0.578 Sum_probs=11.6
Q ss_pred CeEEEEEecCCCCCh
Q psy13818 178 KHIIILQNKIDLVKE 192 (207)
Q Consensus 178 ~~iIV~vNK~DlV~~ 192 (207)
+..|||+||+|+.+.
T Consensus 275 kP~IVV~NK~DL~~~ 289 (424)
T PRK12297 275 RPQIVVANKMDLPEA 289 (424)
T ss_pred CcEEEEEeCCCCcCC
Confidence 457789999998543
No 270
>PRK11537 putative GTP-binding protein YjiA; Provisional
Probab=38.80 E-value=32 Score=31.45 Aligned_cols=46 Identities=17% Similarity=0.179 Sum_probs=25.7
Q ss_pred eecCCCCCCCchHHHHHHHHHcCCCeEEEEEecCCCCChhhHHHHHHHHHh
Q psy13818 154 RTGNESCPQPQTSEHLAAIEIMKLKHIIILQNKIDLVKEGQANEQHEQIVK 204 (207)
Q Consensus 154 V~A~eg~~~pQT~EHl~il~~lGI~~iIV~vNK~DlV~~~~~~~~~~eI~~ 204 (207)
|||.... .|-.++-...+++..-.+ |++||+|++++. ++..+.+++
T Consensus 130 vDa~~~~--~~~~~~~~~~~Qi~~AD~-IvlnK~Dl~~~~--~~~~~~l~~ 175 (318)
T PRK11537 130 VDAVHAD--EQMNQFTIAQSQVGYADR-ILLTKTDVAGEA--EKLRERLAR 175 (318)
T ss_pred EEhhhhh--hhccccHHHHHHHHhCCE-EEEeccccCCHH--HHHHHHHHH
Confidence 7776543 222223344456665555 559999999854 344444443
No 271
>TIGR00450 mnmE_trmE_thdF tRNA modification GTPase TrmE. TrmE, also called MnmE and previously designated ThdF (thiophene and furan oxidation protein), is a GTPase involved in tRNA modification to create 5-methylaminomethyl-2-thiouridine in the wobble position of some tRNAs. This protein and GidA form an alpha2/beta2 heterotetramer.
Probab=38.00 E-value=35 Score=32.57 Aligned_cols=34 Identities=29% Similarity=0.429 Sum_probs=21.0
Q ss_pred eecCCCCCCCchHHHHHHHHH--cCCCeEEEEEecCCCCCh
Q psy13818 154 RTGNESCPQPQTSEHLAAIEI--MKLKHIIILQNKIDLVKE 192 (207)
Q Consensus 154 V~A~eg~~~pQT~EHl~il~~--lGI~~iIV~vNK~DlV~~ 192 (207)
+|++.+ .+.++..+..+ .+ ..+|+|+||+|+.+.
T Consensus 290 ~D~s~~----~s~~~~~l~~~~~~~-~piIlV~NK~Dl~~~ 325 (442)
T TIGR00450 290 LDASQP----LTKDDFLIIDLNKSK-KPFILVLNKIDLKIN 325 (442)
T ss_pred EECCCC----CChhHHHHHHHhhCC-CCEEEEEECccCCCc
Confidence 666543 45555433222 24 368899999999754
No 272
>cd04114 Rab30 Rab30 subfamily. Rab30 appears to be associated with the Golgi stack. It is expressed in a wide variety of tissue types and in humans maps to chromosome 11. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation.
Probab=37.86 E-value=23 Score=27.18 Aligned_cols=13 Identities=46% Similarity=0.728 Sum_probs=10.6
Q ss_pred EEEEEecCCCCCh
Q psy13818 180 IIILQNKIDLVKE 192 (207)
Q Consensus 180 iIV~vNK~DlV~~ 192 (207)
++++.||+|+.+.
T Consensus 115 ~i~v~NK~D~~~~ 127 (169)
T cd04114 115 TILVGNKIDLAER 127 (169)
T ss_pred EEEEEECcccccc
Confidence 4788999999754
No 273
>cd04142 RRP22 RRP22 subfamily. RRP22 (Ras-related protein on chromosome 22) subfamily consists of proteins that inhibit cell growth and promote caspase-independent cell death. Unlike most Ras proteins, RRP22 is down-regulated in many human tumor cells due to promoter methylation. RRP22 localizes to the nucleolus in a GTP-dependent manner, suggesting a novel function in modulating transport of nucleolar components. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Ras proteins. Like most Ras family proteins, RRP22 is farnesylated.
Probab=37.81 E-value=22 Score=29.50 Aligned_cols=14 Identities=29% Similarity=0.458 Sum_probs=11.4
Q ss_pred eEEEEEecCCCCCh
Q psy13818 179 HIIILQNKIDLVKE 192 (207)
Q Consensus 179 ~iIV~vNK~DlV~~ 192 (207)
-+|+|.||+|+.+.
T Consensus 118 piiivgNK~Dl~~~ 131 (198)
T cd04142 118 PIVVVGNKRDQQRH 131 (198)
T ss_pred CEEEEEECcccccc
Confidence 47889999999654
No 274
>cd01866 Rab2 Rab2 subfamily. Rab2 is localized on cis-Golgi membranes and interacts with Golgi matrix proteins. Rab2 is also implicated in the maturation of vesicular tubular clusters (VTCs), which are microtubule-associated intermediates in transport between the ER and Golgi apparatus. In plants, Rab2 regulates vesicle trafficking between the ER and the Golgi bodies and is important to pollen tube growth. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key featur
Probab=37.77 E-value=19 Score=28.12 Aligned_cols=13 Identities=38% Similarity=0.606 Sum_probs=11.2
Q ss_pred eEEEEEecCCCCC
Q psy13818 179 HIIILQNKIDLVK 191 (207)
Q Consensus 179 ~iIV~vNK~DlV~ 191 (207)
.+||+.||+|+.+
T Consensus 111 pvivv~nK~Dl~~ 123 (168)
T cd01866 111 TIMLIGNKCDLES 123 (168)
T ss_pred cEEEEEECccccc
Confidence 5799999999974
No 275
>cd04176 Rap2 Rap2 subgroup. The Rap2 subgroup is part of the Rap subfamily of the Ras family. It consists of Rap2a, Rap2b, and Rap2c. Both isoform 3 of the human mitogen-activated protein kinase kinase kinase kinase 4 (MAP4K4) and Traf2- and Nck-interacting kinase (TNIK) are putative effectors of Rap2 in mediating the activation of c-Jun N-terminal kinase (JNK) to regulate the actin cytoskeleton. In human platelets, Rap2 was shown to interact with the cytoskeleton by binding the actin filaments. In embryonic Xenopus development, Rap2 is necessary for the Wnt/beta-catenin signaling pathway. The Rap2 interacting protein 9 (RPIP9) is highly expressed in human breast carcinomas and correlates with a poor prognosis, suggesting a role for Rap2 in breast cancer oncogenesis. Rap2b, but not Rap2a, Rap2c, Rap1a, or Rap1b, is expressed in human red blood cells, where it is believed to be involved in vesiculation. A number of additional effector proteins for Rap2 have been identified, incl
Probab=37.43 E-value=22 Score=27.22 Aligned_cols=14 Identities=50% Similarity=0.741 Sum_probs=11.2
Q ss_pred eEEEEEecCCCCCh
Q psy13818 179 HIIILQNKIDLVKE 192 (207)
Q Consensus 179 ~iIV~vNK~DlV~~ 192 (207)
-++++.||+|+.+.
T Consensus 108 piviv~nK~Dl~~~ 121 (163)
T cd04176 108 PIILVGNKVDLESE 121 (163)
T ss_pred CEEEEEECccchhc
Confidence 37889999999653
No 276
>cd01867 Rab8_Rab10_Rab13_like Rab8/Sec4/Ypt2. Rab8/Sec4/Ypt2 are known or suspected to be involved in post-Golgi transport to the plasma membrane. It is likely that these Rabs have functions that are specific to the mammalian lineage and have no orthologs in plants. Rab8 modulates polarized membrane transport through reorganization of actin and microtubules, induces the formation of new surface extensions, and has an important role in directed membrane transport to cell surfaces. The Ypt2 gene of the fission yeast Schizosaccharomyces pombe encodes a member of the Ypt/Rab family of small GTP-binding proteins, related in sequence to Sec4p of Saccharomyces cerevisiae but closer to mammalian Rab8. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhi
Probab=36.76 E-value=20 Score=27.85 Aligned_cols=14 Identities=21% Similarity=0.430 Sum_probs=11.5
Q ss_pred eEEEEEecCCCCCh
Q psy13818 179 HIIILQNKIDLVKE 192 (207)
Q Consensus 179 ~iIV~vNK~DlV~~ 192 (207)
.++|+.||+|+.+.
T Consensus 110 p~iiv~nK~Dl~~~ 123 (167)
T cd01867 110 ERMLVGNKCDMEEK 123 (167)
T ss_pred cEEEEEECcccccc
Confidence 57888999999853
No 277
>cd04130 Wrch_1 Wrch-1 subfamily. Wrch-1 (Wnt-1 responsive Cdc42 homolog) is a Rho family GTPase that shares significant sequence and functional similarity with Cdc42. Wrch-1 was first identified in mouse mammary epithelial cells, where its transcription is upregulated in Wnt-1 transformation. Wrch-1 contains N- and C-terminal extensions relative to cdc42, suggesting potential differences in cellular localization and function. The Wrch-1 N-terminal extension contains putative SH3 domain-binding motifs and has been shown to bind the SH3 domain-containing protein Grb2, which increases the level of active Wrch-1 in cells. Unlike Cdc42, which localizes to the cytosol and perinuclear membranes, Wrch-1 localizes extensively with the plasma membrane and endosomes. The membrane association, localization, and biological activity of Wrch-1 indicate an atypical model of regulation distinct from other Rho family GTPases. Most Rho proteins contain a lipid modification site at the C-terminus,
Probab=36.41 E-value=14 Score=28.96 Aligned_cols=15 Identities=27% Similarity=0.463 Sum_probs=12.2
Q ss_pred CeEEEEEecCCCCCh
Q psy13818 178 KHIIILQNKIDLVKE 192 (207)
Q Consensus 178 ~~iIV~vNK~DlV~~ 192 (207)
..++++.||+|+.+.
T Consensus 105 ~piilv~nK~Dl~~~ 119 (173)
T cd04130 105 APIILVGTQADLRTD 119 (173)
T ss_pred CCEEEEeeChhhccC
Confidence 458999999999753
No 278
>cd00157 Rho Rho (Ras homology) family. Members of the Rho family include RhoA, Cdc42, Rac, Rnd, Wrch1, RhoBTB, and Rop. There are 22 human Rho family members identified currently. These proteins are all involved in the reorganization of the actin cytoskeleton in response to external stimuli. They also have roles in cell transformation by Ras in cytokinesis, in focal adhesion formation and in the stimulation of stress-activated kinase. These various functions are controlled through distinct effector proteins and mediated through a GTP-binding/GTPase cycle involving three classes of regulating proteins: GAPs (GTPase-activating proteins), GEFs (guanine nucleotide exchange factors), and GDIs (guanine nucleotide dissociation inhibitors). Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Rho protein
Probab=36.10 E-value=23 Score=27.08 Aligned_cols=17 Identities=35% Similarity=0.444 Sum_probs=13.9
Q ss_pred CCeEEEEEecCCCCChh
Q psy13818 177 LKHIIILQNKIDLVKEG 193 (207)
Q Consensus 177 I~~iIV~vNK~DlV~~~ 193 (207)
-..++++.||+|+.+..
T Consensus 104 ~~p~ivv~nK~Dl~~~~ 120 (171)
T cd00157 104 NVPIILVGTKIDLRDDE 120 (171)
T ss_pred CCCEEEEEccHHhhhch
Confidence 35689999999998755
No 279
>cd04119 RJL RJL (RabJ-Like) subfamily. RJLs are found in many protists and as chimeras with C-terminal DNAJ domains in deuterostome metazoa. They are not found in plants, fungi, and protostome metazoa, suggesting a horizontal gene transfer between protists and deuterostome metazoa. RJLs lack any known membrane targeting signal and contain a degenerate phosphate/magnesium-binding 3 (PM3) motif, suggesting an impaired ability to hydrolyze GTP. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization.
Probab=36.07 E-value=41 Score=25.34 Aligned_cols=14 Identities=43% Similarity=0.629 Sum_probs=12.0
Q ss_pred CeEEEEEecCCCCC
Q psy13818 178 KHIIILQNKIDLVK 191 (207)
Q Consensus 178 ~~iIV~vNK~DlV~ 191 (207)
..++++.||+|+.+
T Consensus 111 ~piilv~nK~Dl~~ 124 (168)
T cd04119 111 IVVVVCANKIDLTK 124 (168)
T ss_pred ceEEEEEEchhccc
Confidence 56899999999974
No 280
>cd04128 Spg1 Spg1p. Spg1p (septum-promoting GTPase) was first identified in the fission yeast S. pombe, where it regulates septum formation in the septation initiation network (SIN) through the cdc7 protein kinase. Spg1p is an essential gene that localizes to the spindle pole bodies. When GTP-bound, it binds cdc7 and causes it to translocate to spindle poles. Sid4p (septation initiation defective) is required for localization of Spg1p to the spindle pole body, and the ability of Spg1p to promote septum formation from any point in the cell cycle depends on Sid4p. Spg1p is negatively regulated by Byr4 and cdc16, which form a two-component GTPase activating protein (GAP) for Spg1p. The existence of a SIN-related pathway in plants has been proposed. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are
Probab=36.02 E-value=76 Score=25.71 Aligned_cols=12 Identities=33% Similarity=0.456 Sum_probs=9.6
Q ss_pred EEEEEecCCCCC
Q psy13818 180 IIILQNKIDLVK 191 (207)
Q Consensus 180 iIV~vNK~DlV~ 191 (207)
.|+|.||+|+..
T Consensus 107 pilVgnK~Dl~~ 118 (182)
T cd04128 107 PILVGTKYDLFA 118 (182)
T ss_pred EEEEEEchhccc
Confidence 367899999963
No 281
>cd04095 CysN_NoDQ_III TCysN_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 s
Probab=35.63 E-value=96 Score=23.01 Aligned_cols=26 Identities=23% Similarity=0.339 Sum_probs=21.5
Q ss_pred ccCccCceEEEEeeccccceEEEEEe
Q psy13818 82 QKLTRNEVLLVNIGSLSTGGRVLATK 107 (207)
Q Consensus 82 ~~l~~~E~lmlniGs~~t~g~V~~~~ 107 (207)
.||.+|-...+-+||..+.++|.++.
T Consensus 16 ~pl~~G~~~~l~~~t~~~~~~i~~i~ 41 (103)
T cd04095 16 EPLRPGRKYLLKLGTRTVRATVTAIK 41 (103)
T ss_pred cccCCCCEEEEEEcCCEEEEEEeeee
Confidence 37888888888899998888888774
No 282
>cd01874 Cdc42 Cdc42 subfamily. Cdc42 is an essential GTPase that belongs to the Rho family of Ras-like GTPases. These proteins act as molecular switches by responding to exogenous and/or endogenous signals and relaying those signals to activate downstream components of a biological pathway. Cdc42 transduces signals to the actin cytoskeleton to initiate and maintain polarized growth and to mitogen-activated protein morphogenesis. In the budding yeast Saccharomyces cerevisiae, Cdc42 plays an important role in multiple actin-dependent morphogenetic events such as bud emergence, mating-projection formation, and pseudohyphal growth. In mammalian cells, Cdc42 regulates a variety of actin-dependent events and induces the JNK/SAPK protein kinase cascade, which leads to the activation of transcription factors within the nucleus. Cdc42 mediates these processes through interactions with a myriad of downstream effectors, whose number and regulation we are just starting to understand. In addi
Probab=35.54 E-value=26 Score=28.05 Aligned_cols=15 Identities=20% Similarity=0.496 Sum_probs=12.5
Q ss_pred CeEEEEEecCCCCCh
Q psy13818 178 KHIIILQNKIDLVKE 192 (207)
Q Consensus 178 ~~iIV~vNK~DlV~~ 192 (207)
..+|||.||+|+.+.
T Consensus 106 ~piilvgnK~Dl~~~ 120 (175)
T cd01874 106 TPFLLVGTQIDLRDD 120 (175)
T ss_pred CCEEEEEECHhhhhC
Confidence 468999999999764
No 283
>smart00174 RHO Rho (Ras homology) subfamily of Ras-like small GTPases. Members of this subfamily of Ras-like small GTPases include Cdc42 and Rac, as well as Rho isoforms.
Probab=35.46 E-value=51 Score=25.47 Aligned_cols=29 Identities=24% Similarity=0.371 Sum_probs=18.7
Q ss_pred CchHHHHH------HHHHcCCCeEEEEEecCCCCC
Q psy13818 163 PQTSEHLA------AIEIMKLKHIIILQNKIDLVK 191 (207)
Q Consensus 163 pQT~EHl~------il~~lGI~~iIV~vNK~DlV~ 191 (207)
++|.+++. +.+...-..+|++.||+|+.+
T Consensus 82 ~~s~~~~~~~~~~~i~~~~~~~piilv~nK~Dl~~ 116 (174)
T smart00174 82 PASFENVKEKWYPEVKHFCPNTPIILVGTKLDLRE 116 (174)
T ss_pred HHHHHHHHHHHHHHHHhhCCCCCEEEEecChhhhh
Confidence 46666542 222233457899999999976
No 284
>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=35.37 E-value=1.3e+02 Score=22.60 Aligned_cols=42 Identities=21% Similarity=0.285 Sum_probs=32.6
Q ss_pred eccCccCceEEEEeeccccceEEEEEecceEEEEeeCcccccCCcEEEEEE
Q psy13818 81 VQKLTRNEVLLVNIGSLSTGGRVLATKADLAKISLTNPVCTEVNEKIALSR 131 (207)
Q Consensus 81 v~~l~~~E~lmlniGs~~t~g~V~~~~~Dla~i~L~~Pvc~~~G~kiaIsR 131 (207)
.+.|++|+.++. +..-.|+|.++.+|...+... +|.++.+.|
T Consensus 35 ~~~L~~Gd~VvT---~gGi~G~V~~i~d~~v~vei~------~g~~i~~~r 76 (84)
T TIGR00739 35 IESLKKGDKVLT---IGGIIGTVTKIAENTIVIELN------DNTEITFSK 76 (84)
T ss_pred HHhCCCCCEEEE---CCCeEEEEEEEeCCEEEEEEC------CCeEEEEEh
Confidence 788999999998 555789999999987766653 366676664
No 285
>smart00739 KOW KOW (Kyprides, Ouzounis, Woese) motif. Motif in ribosomal proteins, NusG, Spt5p, KIN17 and T54.
Probab=35.33 E-value=80 Score=17.73 Aligned_cols=26 Identities=23% Similarity=0.388 Sum_probs=18.8
Q ss_pred cCccCceEEEEeeccccc-eEEEEEec
Q psy13818 83 KLTRNEVLLVNIGSLSTG-GRVLATKA 108 (207)
Q Consensus 83 ~l~~~E~lmlniGs~~t~-g~V~~~~~ 108 (207)
++++|+.++|.-|...-. |.|.++..
T Consensus 1 ~~~~G~~V~I~~G~~~g~~g~i~~i~~ 27 (28)
T smart00739 1 KFEVGDTVRVIAGPFKGKVGKVLEVDG 27 (28)
T ss_pred CCCCCCEEEEeECCCCCcEEEEEEEcC
Confidence 357889999988886654 77776653
No 286
>COG1047 SlpA FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]
Probab=35.29 E-value=1.3e+02 Score=25.98 Aligned_cols=51 Identities=16% Similarity=0.208 Sum_probs=44.2
Q ss_pred eeccCccCceEEEEeeccccceEEEEEecceEEEEeeCcccccCCcEEEEEEee
Q psy13818 80 KVQKLTRNEVLLVNIGSLSTGGRVLATKADLAKISLTNPVCTEVNEKIALSRRV 133 (207)
Q Consensus 80 Kv~~l~~~E~lmlniGs~~t~g~V~~~~~Dla~i~L~~Pvc~~~G~kiaIsR~V 133 (207)
...++.+|..+.++-++..-.|+|+++..+.+.+.+..|. .|..+.+.-.|
T Consensus 87 ~~~~~~vGm~~~~~~~~~~~~~~V~~V~~~~V~VDfNHpL---AGktL~feveV 137 (174)
T COG1047 87 GVGELEVGMEVEAEGGDGEIPGVVTEVSGDRVTVDFNHPL---AGKTLHFEVEV 137 (174)
T ss_pred cCCCCCCCcEEEEcCCCceeeEEEEEEcCCEEEEeCCCcC---CCCeEEEEEEE
Confidence 3447899999999998888899999999999999999997 89888776444
No 287
>PF03029 ATP_bind_1: Conserved hypothetical ATP binding protein; InterPro: IPR004130 Members of this family are found in a range of archaea and eukaryotes and have hypothesised ATP binding activity.; GO: 0000166 nucleotide binding; PDB: 1YR7_A 1YRA_B 1YR8_A 1YR6_A 1YR9_A 1YRB_A 2OXR_A.
Probab=34.75 E-value=32 Score=30.05 Aligned_cols=17 Identities=35% Similarity=0.663 Sum_probs=11.0
Q ss_pred cCCCeEEEEEecCCCCCh
Q psy13818 175 MKLKHIIILQNKIDLVKE 192 (207)
Q Consensus 175 lGI~~iIV~vNK~DlV~~ 192 (207)
++++|+ .|+||+|+++.
T Consensus 155 ~~lP~v-nvlsK~Dl~~~ 171 (238)
T PF03029_consen 155 LELPHV-NVLSKIDLLSK 171 (238)
T ss_dssp HTSEEE-EEE--GGGS-H
T ss_pred CCCCEE-EeeeccCcccc
Confidence 788865 56999999983
No 288
>cd04109 Rab28 Rab28 subfamily. First identified in maize, Rab28 has been shown to be a late embryogenesis-abundant (Lea) protein that is regulated by the plant hormone abcisic acid (ABA). In Arabidopsis, Rab28 is expressed during embryo development and is generally restricted to provascular tissues in mature embryos. Unlike maize Rab28, it is not ABA-inducible. Characterization of the human Rab28 homolog revealed two isoforms, which differ by a 95-base pair insertion, producing an alternative sequence for the 30 amino acids at the C-terminus. The two human isoforms are presumbly the result of alternative splicing. Since they differ at the C-terminus but not in the GTP-binding region, they are predicted to be targeted to different cellular locations. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs
Probab=34.54 E-value=24 Score=29.24 Aligned_cols=14 Identities=29% Similarity=0.539 Sum_probs=11.6
Q ss_pred eEEEEEecCCCCCh
Q psy13818 179 HIIILQNKIDLVKE 192 (207)
Q Consensus 179 ~iIV~vNK~DlV~~ 192 (207)
.+|+|.||+|+.+.
T Consensus 111 piilVgNK~DL~~~ 124 (215)
T cd04109 111 LVVLVGNKTDLEHN 124 (215)
T ss_pred eEEEEEECcccccc
Confidence 48899999999753
No 289
>cd04134 Rho3 Rho3 subfamily. Rho3 is a member of the Rho family found only in fungi. Rho3 is believed to regulate cell polarity by interacting with the diaphanous/formin family protein For3 to control both the actin cytoskeleton and microtubules. Rho3 is also believed to have a direct role in exocytosis that is independent of its role in regulating actin polarity. The function in exocytosis may be two-pronged: first, in the transport of post-Golgi vesicles from the mother cell to the bud, mediated by myosin (Myo2); second, in the docking and fusion of vesicles to the plasma membrane, mediated by an exocyst (Exo70) protein. Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Rho proteins.
Probab=34.32 E-value=55 Score=26.37 Aligned_cols=15 Identities=20% Similarity=0.377 Sum_probs=12.6
Q ss_pred eEEEEEecCCCCChh
Q psy13818 179 HIIILQNKIDLVKEG 193 (207)
Q Consensus 179 ~iIV~vNK~DlV~~~ 193 (207)
.+|+|.||+||.+..
T Consensus 106 piilvgNK~Dl~~~~ 120 (189)
T cd04134 106 KLVLVALKCDLREAR 120 (189)
T ss_pred CEEEEEEChhhccCh
Confidence 489999999997654
No 290
>KOG1532|consensus
Probab=34.26 E-value=47 Score=31.50 Aligned_cols=30 Identities=30% Similarity=0.286 Sum_probs=21.9
Q ss_pred HHHHHHHHHcCCC--eEEEEEecCCCCChhhH
Q psy13818 166 SEHLAAIEIMKLK--HIIILQNKIDLVKEGQA 195 (207)
Q Consensus 166 ~EHl~il~~lGI~--~iIV~vNK~DlV~~~~~ 195 (207)
.--+++|++|--. -+||+.||+|+.+.+.+
T Consensus 168 SNMlYAcSilyktklp~ivvfNK~Dv~d~~fa 199 (366)
T KOG1532|consen 168 SNMLYACSILYKTKLPFIVVFNKTDVSDSEFA 199 (366)
T ss_pred HHHHHHHHHHHhccCCeEEEEecccccccHHH
Confidence 4567778877532 27899999999997644
No 291
>cd04118 Rab24 Rab24 subfamily. Rab24 is distinct from other Rabs in several ways. It exists primarily in the GTP-bound state, having a low intrinsic GTPase activity; it is not efficiently geranyl-geranylated at the C-terminus; it does not form a detectable complex with Rab GDP-dissociation inhibitors (GDIs); and it has recently been shown to undergo tyrosine phosphorylation when overexpressed in vitro. The specific function of Rab24 still remains unknown. It is found in a transport route between ER-cis-Golgi and late endocytic compartments. It is putatively involved in an autophagic pathway, possibly directing misfolded proteins in the ER to degradative pathways. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilita
Probab=34.14 E-value=26 Score=27.90 Aligned_cols=14 Identities=29% Similarity=0.496 Sum_probs=11.8
Q ss_pred eEEEEEecCCCCCh
Q psy13818 179 HIIILQNKIDLVKE 192 (207)
Q Consensus 179 ~iIV~vNK~DlV~~ 192 (207)
.+++|.||+|+.+.
T Consensus 107 piilv~nK~Dl~~~ 120 (193)
T cd04118 107 KIYLCGTKSDLIEQ 120 (193)
T ss_pred CEEEEEEccccccc
Confidence 58999999999753
No 292
>cd01892 Miro2 Miro2 subfamily. Miro (mitochondrial Rho) proteins have tandem GTP-binding domains separated by a linker region containing putative calcium-binding EF hand motifs. Genes encoding Miro-like proteins were found in several eukaryotic organisms. This CD represents the putative GTPase domain in the C terminus of Miro proteins. These atypical Rho GTPases have roles in mitochondrial homeostasis and apoptosis. Most Rho proteins contain a lipid modification site at the C-terminus; however, Miro is one of few Rho subfamilies that lack this feature.
Probab=33.84 E-value=27 Score=27.68 Aligned_cols=14 Identities=21% Similarity=0.335 Sum_probs=11.7
Q ss_pred eEEEEEecCCCCCh
Q psy13818 179 HIIILQNKIDLVKE 192 (207)
Q Consensus 179 ~iIV~vNK~DlV~~ 192 (207)
-+++|.||+|+.+.
T Consensus 110 p~iiv~NK~Dl~~~ 123 (169)
T cd01892 110 PCLFVAAKADLDEQ 123 (169)
T ss_pred eEEEEEEccccccc
Confidence 48999999999754
No 293
>cd04110 Rab35 Rab35 subfamily. Rab35 is one of several Rab proteins to be found to participate in the regulation of osteoclast cells in rats. In addition, Rab35 has been identified as a protein that interacts with nucleophosmin-anaplastic lymphoma kinase (NPM-ALK) in human cells. Overexpression of NPM-ALK is a key oncogenic event in some anaplastic large-cell lymphomas; since Rab35 interacts with N|PM-ALK, it may provide a target for cancer treatments. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is
Probab=33.66 E-value=52 Score=26.82 Aligned_cols=60 Identities=8% Similarity=-0.079 Sum_probs=29.9
Q ss_pred eecCcceeec-cccc-ccccccee--eecCCCCCCCchHHHHHHH-HHcCCCeEEEEEecCCCCCh
Q psy13818 132 RVEKHWSLIE-GTVT-TKVLSTRK--RTGNESCPQPQTSEHLAAI-EIMKLKHIIILQNKIDLVKE 192 (207)
Q Consensus 132 ~V~gh~rlig-g~~~-~nMiaGa~--V~A~eg~~~pQT~EHl~il-~~lGI~~iIV~vNK~DlV~~ 192 (207)
+.+|++++-- +... ++. .++. +|+++........+.+.-+ ....-..++|+.||+|+.+.
T Consensus 61 D~~G~~~~~~~~~~~~~~a-~~iilv~D~~~~~s~~~~~~~~~~i~~~~~~~piivVgNK~Dl~~~ 125 (199)
T cd04110 61 DTAGQERFRTITSTYYRGT-HGVIVVYDVTNGESFVNVKRWLQEIEQNCDDVCKVLVGNKNDDPER 125 (199)
T ss_pred eCCCchhHHHHHHHHhCCC-cEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCEEEEEECcccccc
Confidence 7777766542 1111 332 2333 5665432112222222222 33344567899999999764
No 294
>cd04115 Rab33B_Rab33A Rab33B/Rab33A subfamily. Rab33B is ubiquitously expressed in mouse tissues and cells, where it is localized to the medial Golgi cisternae. It colocalizes with alpha-mannose II. Together with the other cisternal Rabs, Rab6A and Rab6A', it is believed to regulate the Golgi response to stress and is likely a molecular target in stress-activated signaling pathways. Rab33A (previously known as S10) is expressed primarily in the brain and immune system cells. In humans, it is located on the X chromosome at Xq26 and its expression is down-regulated in tuberculosis patients. Experimental evidence suggests that Rab33A is a novel CD8+ T cell factor that likely plays a role in tuberculosis disease processes. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine
Probab=33.53 E-value=25 Score=27.55 Aligned_cols=14 Identities=36% Similarity=0.468 Sum_probs=11.6
Q ss_pred eEEEEEecCCCCCh
Q psy13818 179 HIIILQNKIDLVKE 192 (207)
Q Consensus 179 ~iIV~vNK~DlV~~ 192 (207)
-+|++.||+|+.+.
T Consensus 111 p~iiv~nK~Dl~~~ 124 (170)
T cd04115 111 PRILVGNKCDLREQ 124 (170)
T ss_pred CEEEEEECccchhh
Confidence 58999999998653
No 295
>TIGR00325 lpxC UDP-3-0-acyl N-acetylglucosamine deacetylase. UDP-3-O-(R-3-hydroxymyristoyl)-GlcNAc deacetylase from E. coli, LpxC, was previously designated EnvA. This enzyme is involved in lipid-A precursor biosynthesis. It is essential for cell viability.
Probab=33.32 E-value=79 Score=29.33 Aligned_cols=47 Identities=17% Similarity=0.196 Sum_probs=30.9
Q ss_pred ecCcceeeccccccccccceeeecCCCCCCCchHHHHH-HHHHcCCCeEEEEEec
Q psy13818 133 VEKHWSLIEGTVTTKVLSTRKRTGNESCPQPQTSEHLA-AIEIMKLKHIIILQNK 186 (207)
Q Consensus 133 V~gh~rligg~~~~nMiaGa~V~A~eg~~~pQT~EHl~-il~~lGI~~iIV~vNK 186 (207)
++-||.++ .+.--+..+.. +|. .=.|.||++ ++..|||++++|-++=
T Consensus 49 ipa~~~~v-----~~t~l~T~L~~-~g~-~V~TVEHLmAAL~glgIDN~~Ieidg 96 (297)
T TIGR00325 49 FPADPTSV-----RDTMLCTELGN-EGA-RISTVEHLLAALAALGIDNLRIEVNA 96 (297)
T ss_pred EEecHHHc-----ccccceeEEec-CCe-EEEeHHHHHHHHHhCCCceEEEEeCC
Confidence 56677666 33222222443 344 679999986 5789999999998753
No 296
>KOG1424|consensus
Probab=33.29 E-value=29 Score=34.82 Aligned_cols=39 Identities=23% Similarity=0.249 Sum_probs=27.0
Q ss_pred eecCCCCC--CCchHHHHHHHHHcCCCeEEEEEecCCCCChhh
Q psy13818 154 RTGNESCP--QPQTSEHLAAIEIMKLKHIIILQNKIDLVKEGQ 194 (207)
Q Consensus 154 V~A~eg~~--~pQT~EHl~il~~lGI~~iIV~vNK~DlV~~~~ 194 (207)
|||..... .|--.+ ++-....-++.++++||+||..+++
T Consensus 182 VDARnPllfr~~dLe~--Yvke~d~~K~~~LLvNKaDLl~~~q 222 (562)
T KOG1424|consen 182 VDARNPLLFRSPDLED--YVKEVDPSKANVLLVNKADLLPPEQ 222 (562)
T ss_pred eecCCccccCChhHHH--HHhccccccceEEEEehhhcCCHHH
Confidence 78877542 233322 3456666799999999999998764
No 297
>cd04146 RERG_RasL11_like RERG/RasL11-like subfamily. RERG (Ras-related and Estrogen- Regulated Growth inhibitor) and Ras-like 11 are members of a novel subfamily of Ras that were identified based on their behavior in breast and prostate tumors, respectively. RERG expression was decreased or lost in a significant fraction of primary human breast tumors that lack estrogen receptor and are correlated with poor clinical prognosis. Elevated RERG expression correlated with favorable patient outcome in a breast tumor subtype that is positive for estrogen receptor expression. In contrast to most Ras proteins, RERG overexpression inhibited the growth of breast tumor cells in vitro and in vivo. RasL11 was found to be ubiquitously expressed in human tissue, but down-regulated in prostate tumors. Both RERG and RasL11 lack the C-terminal CaaX prenylation motif, where a = an aliphatic amino acid and X = any amino acid, and are localized primarily in the cytoplasm. Both are believed to have tu
Probab=33.15 E-value=24 Score=27.22 Aligned_cols=14 Identities=36% Similarity=0.577 Sum_probs=11.2
Q ss_pred eEEEEEecCCCCCh
Q psy13818 179 HIIILQNKIDLVKE 192 (207)
Q Consensus 179 ~iIV~vNK~DlV~~ 192 (207)
.+|+|.||+|+...
T Consensus 108 piilv~nK~Dl~~~ 121 (165)
T cd04146 108 PVILVGNKADLLHY 121 (165)
T ss_pred CEEEEEECCchHHh
Confidence 48899999998643
No 298
>PRK13186 lpxC UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed
Probab=32.89 E-value=87 Score=28.95 Aligned_cols=28 Identities=21% Similarity=0.283 Sum_probs=22.7
Q ss_pred CCCCCCchHHHHH-HHHHcCCCeEEEEEec
Q psy13818 158 ESCPQPQTSEHLA-AIEIMKLKHIIILQNK 186 (207)
Q Consensus 158 eg~~~pQT~EHl~-il~~lGI~~iIV~vNK 186 (207)
+|. .=.|.||++ ++..|||++++|-++=
T Consensus 69 ~~~-~V~TVEHllAAL~glgIDN~~Ievdg 97 (295)
T PRK13186 69 GGV-RVSTVEHLMAALAGLGIDNALIEVDG 97 (295)
T ss_pred CCe-EEEeHHHHHHHHHhCCCceEEEEeCC
Confidence 454 679999986 5788999999998763
No 299
>cd04141 Rit_Rin_Ric Rit/Rin/Ric subfamily. Rit (Ras-like protein in all tissues), Rin (Ras-like protein in neurons) and Ric (Ras-related protein which interacts with calmodulin) form a subfamily with several unique structural and functional characteristics. These proteins all lack a the C-terminal CaaX lipid-binding motif typical of Ras family proteins, and Rin and Ric contain calmodulin-binding domains. Rin, which is expressed only in neurons, induces neurite outgrowth in rat pheochromocytoma cells through its association with calmodulin and its activation of endogenous Rac/cdc42. Rit, which is ubiquitously expressed in mammals, inhibits growth-factor withdrawl-mediated apoptosis and induces neurite extension in pheochromocytoma cells. Rit and Rin are both able to form a ternary complex with PAR6, a cell polarity-regulating protein, and Rac/cdc42. This ternary complex is proposed to have physiological function in processes such as tumorigenesis. Activated Ric is likely to sign
Probab=32.02 E-value=28 Score=27.77 Aligned_cols=14 Identities=29% Similarity=0.646 Sum_probs=11.5
Q ss_pred eEEEEEecCCCCCh
Q psy13818 179 HIIILQNKIDLVKE 192 (207)
Q Consensus 179 ~iIV~vNK~DlV~~ 192 (207)
.+|+|.||+|+.+.
T Consensus 109 piilvgNK~Dl~~~ 122 (172)
T cd04141 109 PLVLVGNKVDLESQ 122 (172)
T ss_pred CEEEEEEChhhhhc
Confidence 58899999998653
No 300
>cd04131 Rnd Rnd subfamily. The Rnd subfamily contains Rnd1/Rho6, Rnd2/Rho7, and Rnd3/RhoE/Rho8. These novel Rho family proteins have substantial structural differences compared to other Rho members, including N- and C-terminal extensions relative to other Rhos. Rnd3/RhoE is farnesylated at the C-terminal prenylation site, unlike most other Rho proteins that are geranylgeranylated. In addition, Rnd members are unable to hydrolyze GTP and are resistant to GAP activity. They are believed to exist only in the GTP-bound conformation, and are antagonists of RhoA activity. Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Rho proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation.
Probab=31.90 E-value=95 Score=25.13 Aligned_cols=17 Identities=18% Similarity=0.262 Sum_probs=12.7
Q ss_pred cCCCeEEEEEecCCCCC
Q psy13818 175 MKLKHIIILQNKIDLVK 191 (207)
Q Consensus 175 lGI~~iIV~vNK~DlV~ 191 (207)
..-..+|+|-||+||.+
T Consensus 103 ~~~~~iilVgnK~DL~~ 119 (178)
T cd04131 103 CPNTKVLLVGCKTDLRT 119 (178)
T ss_pred CCCCCEEEEEEChhhhc
Confidence 33446889999999964
No 301
>cd04174 Rnd1_Rho6 Rnd1/Rho6 subfamily. Rnd1/Rho6 is a member of the novel Rho subfamily Rnd, together with Rnd2/Rho7 and Rnd3/RhoE/Rho8. Rnd1/Rho6 binds GTP but does not hydrolyze it to GDP, indicating that it is constitutively active. In rat, Rnd1/Rho6 is highly expressed in the cerebral cortex and hippocampus during synapse formation, and plays a role in spine formation. Rnd1/Rho6 is also expressed in the liver and in endothelial cells, and is upregulated in uterine myometrial cells during pregnancy. Like Rnd3/RhoE/Rho8, Rnd1/Rho6 is believed to function as an antagonist to RhoA. Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Rho proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation.
Probab=31.50 E-value=1e+02 Score=26.84 Aligned_cols=21 Identities=19% Similarity=0.316 Sum_probs=14.2
Q ss_pred HHHHcCCCeEEEEEecCCCCC
Q psy13818 171 AIEIMKLKHIIILQNKIDLVK 191 (207)
Q Consensus 171 il~~lGI~~iIV~vNK~DlV~ 191 (207)
+.+...-..+|+|.||+||.+
T Consensus 111 i~~~~~~~piilVgNK~DL~~ 131 (232)
T cd04174 111 IMDYCPSTRILLIGCKTDLRT 131 (232)
T ss_pred HHHhCCCCCEEEEEECccccc
Confidence 444343345899999999853
No 302
>PRK05585 yajC preprotein translocase subunit YajC; Validated
Probab=31.37 E-value=1.5e+02 Score=23.22 Aligned_cols=42 Identities=17% Similarity=0.320 Sum_probs=32.7
Q ss_pred eccCccCceEEEEeeccccceEEEEEecceEEEEeeCcccccCCcEEEEEE
Q psy13818 81 VQKLTRNEVLLVNIGSLSTGGRVLATKADLAKISLTNPVCTEVNEKIALSR 131 (207)
Q Consensus 81 v~~l~~~E~lmlniGs~~t~g~V~~~~~Dla~i~L~~Pvc~~~G~kiaIsR 131 (207)
.+.|++|+.++. +..-.|+|.++.+|...+.+. +|.++.+.|
T Consensus 50 ~~~Lk~Gd~VvT---~gGi~G~Vv~i~~~~v~lei~------~g~~i~~~r 91 (106)
T PRK05585 50 LSSLAKGDEVVT---NGGIIGKVTKVSEDFVIIELN------DDTEIKIQK 91 (106)
T ss_pred HHhcCCCCEEEE---CCCeEEEEEEEeCCEEEEEEC------CCeEEEEEh
Confidence 889999999997 556789999999887666662 366777763
No 303
>cd01871 Rac1_like Rac1-like subfamily. The Rac1-like subfamily consists of Rac1, Rac2, and Rac3 proteins, plus the splice variant Rac1b that contains a 19-residue insertion near switch II relative to Rac1. While Rac1 is ubiquitously expressed, Rac2 and Rac3 are largely restricted to hematopoietic and neural tissues respectively. Rac1 stimulates the formation of actin lamellipodia and membrane ruffles. It also plays a role in cell-matrix adhesion and cell anoikis. In intestinal epithelial cells, Rac1 is an important regulator of migration and mediates apoptosis. Rac1 is also essential for RhoA-regulated actin stress fiber and focal adhesion complex formation. In leukocytes, Rac1 and Rac2 have distinct roles in regulating cell morphology, migration, and invasion, but are not essential for macrophage migration or chemotaxis. Rac3 has biochemical properties that are closely related to Rac1, such as effector interaction, nucleotide binding, and hydrolysis; Rac2 has a slower nucleoti
Probab=31.32 E-value=39 Score=27.03 Aligned_cols=14 Identities=36% Similarity=0.579 Sum_probs=11.7
Q ss_pred CeEEEEEecCCCCC
Q psy13818 178 KHIIILQNKIDLVK 191 (207)
Q Consensus 178 ~~iIV~vNK~DlV~ 191 (207)
..+|||.||+|+.+
T Consensus 106 ~piilvgnK~Dl~~ 119 (174)
T cd01871 106 TPIILVGTKLDLRD 119 (174)
T ss_pred CCEEEEeeChhhcc
Confidence 36899999999965
No 304
>PTZ00179 60S ribosomal protein L9; Provisional
Probab=30.88 E-value=27 Score=30.07 Aligned_cols=54 Identities=11% Similarity=0.075 Sum_probs=34.8
Q ss_pred ceEEEEEecceEEEEeeCcc------cccCCcEEEEEEeec--Ccceeec--ccccccccccee
Q psy13818 100 GGRVLATKADLAKISLTNPV------CTEVNEKIALSRRVE--KHWSLIE--GTVTTKVLSTRK 153 (207)
Q Consensus 100 ~g~V~~~~~Dla~i~L~~Pv------c~~~G~kiaIsR~V~--gh~rlig--g~~~~nMiaGa~ 153 (207)
-+.+..++...+++.+.-|- |...+.++.+++.-. .+|.+.| ..+.+||+.|++
T Consensus 20 ~~~~ItVkGpkG~Ls~~~~~~~~~i~i~~~~~~I~v~~~~~~kk~~al~Gt~rslI~NMI~GVt 83 (189)
T PTZ00179 20 KDRIVTVKGKRGTLTKDLRHLQLDFRVNKKNRTFTAVRWFGSKIPNSTINTALSHVRNMITGVT 83 (189)
T ss_pred eCCEEEEECCCcEEEEEcCCCCcEEEEEecCCEEEEEeCCCCHHHHHHHHHHHHHHHHHhhhhc
Confidence 35678888888877765542 223455777775433 3455666 344499999987
No 305
>cd01870 RhoA_like RhoA-like subfamily. The RhoA subfamily consists of RhoA, RhoB, and RhoC. RhoA promotes the formation of stress fibers and focal adhesions, regulating cell shape, attachment, and motility. RhoA can bind to multiple effector proteins, thereby triggering different downstream responses. In many cell types, RhoA mediates local assembly of the contractile ring, which is necessary for cytokinesis. RhoA is vital for muscle contraction; in vascular smooth muscle cells, RhoA plays a key role in cell contraction, differentiation, migration, and proliferation. RhoA activities appear to be elaborately regulated in a time- and space-dependent manner to control cytoskeletal changes. Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Rho proteins. RhoA and RhoC are observed only in geranyl
Probab=30.80 E-value=72 Score=24.63 Aligned_cols=16 Identities=38% Similarity=0.436 Sum_probs=12.8
Q ss_pred CCeEEEEEecCCCCCh
Q psy13818 177 LKHIIILQNKIDLVKE 192 (207)
Q Consensus 177 I~~iIV~vNK~DlV~~ 192 (207)
-..++++.||+|+.+.
T Consensus 105 ~~piilv~nK~Dl~~~ 120 (175)
T cd01870 105 NVPIILVGNKKDLRND 120 (175)
T ss_pred CCCEEEEeeChhcccC
Confidence 3468999999998754
No 306
>PF03308 ArgK: ArgK protein; InterPro: IPR005129 Bacterial periplasmic transport systems require the function of a specific substrate-binding protein, located in the periplasm, and several cytoplasmic membrane transport components. In Escherichia coli, the arginine-ornithine transport system requires an arginine-ornithine-binding protein and the lysine-arginine-ornithine (LAO) transport system includes a LAO-binding protein. Both periplasmic proteins can be phosphorylated by a single kinase, ArgK [] resulting in reduced levels of transport activity of the periplasmic transport systems that include each of the binding proteins. The ArgK protein acts as an ATPase enzyme and as a kinase.; PDB: 3MD0_A 3P32_A 2QM7_A 2QM8_A 2WWW_D 2P67_A 3NXS_A.
Probab=30.64 E-value=55 Score=29.99 Aligned_cols=22 Identities=23% Similarity=0.273 Sum_probs=11.4
Q ss_pred EEEEecCCCCChhhHHHHHHHHHhh
Q psy13818 181 IILQNKIDLVKEGQANEQHEQIVKF 205 (207)
Q Consensus 181 IV~vNK~DlV~~~~~~~~~~eI~~~ 205 (207)
|+|+||+|+.. ++..+.+++..
T Consensus 171 i~vVNKaD~~g---A~~~~~~l~~~ 192 (266)
T PF03308_consen 171 IFVVNKADRPG---ADRTVRDLRSM 192 (266)
T ss_dssp EEEEE--SHHH---HHHHHHHHHHH
T ss_pred EEEEeCCChHH---HHHHHHHHHHH
Confidence 57899999543 34444455443
No 307
>COG0486 ThdF Predicted GTPase [General function prediction only]
Probab=30.37 E-value=55 Score=32.14 Aligned_cols=83 Identities=24% Similarity=0.270 Sum_probs=48.3
Q ss_pred eEEEEE---ecceEEEEeeCcccccCCcEEEEEEeec---Ccceeec--cccc-ccccccee-----eecCCCCCCCchH
Q psy13818 101 GRVLAT---KADLAKISLTNPVCTEVNEKIALSRRVE---KHWSLIE--GTVT-TKVLSTRK-----RTGNESCPQPQTS 166 (207)
Q Consensus 101 g~V~~~---~~Dla~i~L~~Pvc~~~G~kiaIsR~V~---gh~rlig--g~~~-~nMiaGa~-----V~A~eg~~~pQT~ 166 (207)
+.|+.+ +.|..+.++..- |..+-+. +-. -+.+.|. |+-- ++.+.-|- +|+++.. +.
T Consensus 243 AIVTdI~GTTRDviee~i~i~-----G~pv~l~-DTAGiRet~d~VE~iGIeRs~~~i~~ADlvL~v~D~~~~~----~~ 312 (454)
T COG0486 243 AIVTDIAGTTRDVIEEDINLN-----GIPVRLV-DTAGIRETDDVVERIGIERAKKAIEEADLVLFVLDASQPL----DK 312 (454)
T ss_pred eEecCCCCCccceEEEEEEEC-----CEEEEEE-ecCCcccCccHHHHHHHHHHHHHHHhCCEEEEEEeCCCCC----ch
Confidence 445544 467777777663 6666665 433 2344444 4333 44444443 7777764 23
Q ss_pred HHHHHHH-HcCCCeEEEEEecCCCCChh
Q psy13818 167 EHLAAIE-IMKLKHIIILQNKIDLVKEG 193 (207)
Q Consensus 167 EHl~il~-~lGI~~iIV~vNK~DlV~~~ 193 (207)
+-..+.. +-.-+.+++++||+||++..
T Consensus 313 ~d~~~~~~~~~~~~~i~v~NK~DL~~~~ 340 (454)
T COG0486 313 EDLALIELLPKKKPIIVVLNKADLVSKI 340 (454)
T ss_pred hhHHHHHhcccCCCEEEEEechhccccc
Confidence 3333444 44446799999999999854
No 308
>cd04132 Rho4_like Rho4-like subfamily. Rho4 is a GTPase that controls septum degradation by regulating secretion of Eng1 or Agn1 during cytokinesis. Rho4 also plays a role in cell morphogenesis. Rho4 regulates septation and cell morphology by controlling the actin cytoskeleton and cytoplasmic microtubules. The localization of Rho4 is modulated by Rdi1, which may function as a GDI, and by Rga9, which is believed to function as a GAP. In S. pombe, both Rho4 deletion and Rho4 overexpression result in a defective cell wall, suggesting a role for Rho4 in maintaining cell wall integrity. Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Rho proteins.
Probab=29.82 E-value=50 Score=26.06 Aligned_cols=13 Identities=38% Similarity=0.475 Sum_probs=11.3
Q ss_pred eEEEEEecCCCCC
Q psy13818 179 HIIILQNKIDLVK 191 (207)
Q Consensus 179 ~iIV~vNK~DlV~ 191 (207)
.+|+|.||.|+.+
T Consensus 107 piilv~nK~Dl~~ 119 (187)
T cd04132 107 PIMLVGLKTDLRK 119 (187)
T ss_pred CEEEEEeChhhhh
Confidence 5899999999975
No 309
>KOG2743|consensus
Probab=29.54 E-value=49 Score=31.68 Aligned_cols=23 Identities=35% Similarity=0.512 Sum_probs=18.6
Q ss_pred EEEecCCCCChhhHHHHHHHHHh
Q psy13818 182 ILQNKIDLVKEGQANEQHEQIVK 204 (207)
Q Consensus 182 V~vNK~DlV~~~~~~~~~~eI~~ 204 (207)
+.+||.||+..++.....+.|++
T Consensus 216 II~NKtDli~~e~~~~l~q~I~~ 238 (391)
T KOG2743|consen 216 IIMNKTDLVSEEEVKKLRQRIRS 238 (391)
T ss_pred eeeccccccCHHHHHHHHHHHHH
Confidence 35899999999888777777765
No 310
>cd04120 Rab12 Rab12 subfamily. Rab12 was first identified in canine cells, where it was localized to the Golgi complex. The specific function of Rab12 remains unknown, and inconsistent results about its cellular localization have been reported. More recent studies have identified Rab12 associated with post-Golgi vesicles, or with other small vesicle-like structures but not with the Golgi complex. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic
Probab=29.36 E-value=37 Score=28.52 Aligned_cols=60 Identities=10% Similarity=0.091 Sum_probs=31.5
Q ss_pred EEEEEeecCcceeec-cccc-ccccccee--eecCCCCCCCchHHHH----HHHHHcC--CCeEEEEEecCCCCCh
Q psy13818 127 IALSRRVEKHWSLIE-GTVT-TKVLSTRK--RTGNESCPQPQTSEHL----AAIEIMK--LKHIIILQNKIDLVKE 192 (207)
Q Consensus 127 iaIsR~V~gh~rlig-g~~~-~nMiaGa~--V~A~eg~~~pQT~EHl----~il~~lG--I~~iIV~vNK~DlV~~ 192 (207)
+.|- +.+|+.+|-. |..+ ++. +|+. +|.++. +|.+++ ..++... =..+|+|.||+||.+.
T Consensus 51 l~iw-DtaGqe~~~~l~~~y~~~a-d~iIlVfDvtd~----~Sf~~l~~w~~~i~~~~~~~~piilVgNK~DL~~~ 120 (202)
T cd04120 51 LQIW-DTAGQERFNSITSAYYRSA-KGIILVYDITKK----ETFDDLPKWMKMIDKYASEDAELLLVGNKLDCETD 120 (202)
T ss_pred EEEE-eCCCchhhHHHHHHHhcCC-CEEEEEEECcCH----HHHHHHHHHHHHHHHhCCCCCcEEEEEECcccccc
Confidence 3443 7777777654 3333 433 3333 455432 333332 3333332 1357899999999753
No 311
>cd04140 ARHI_like ARHI subfamily. ARHI (A Ras homolog member I) is a member of the Ras family with several unique structural and functional properties. ARHI is expressed in normal human ovarian and breast tissue, but its expression is decreased or eliminated in breast and ovarian cancer. ARHI contains an N-terminal extension of 34 residues (human) that is required to retain its tumor suppressive activity. Unlike most other Ras family members, ARHI is maintained in the constitutively active (GTP-bound) state in resting cells and has modest GTPase activity. ARHI inhibits STAT3 (signal transducers and activators of transcription 3), a latent transcription factor whose abnormal activation plays a critical role in oncogenesis. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Ras proteins. Due to
Probab=29.16 E-value=37 Score=26.33 Aligned_cols=13 Identities=31% Similarity=0.422 Sum_probs=11.1
Q ss_pred eEEEEEecCCCCC
Q psy13818 179 HIIILQNKIDLVK 191 (207)
Q Consensus 179 ~iIV~vNK~DlV~ 191 (207)
.+++|.||+|+.+
T Consensus 110 piilv~nK~Dl~~ 122 (165)
T cd04140 110 PIMLVGNKCDESH 122 (165)
T ss_pred CEEEEEECccccc
Confidence 4788999999966
No 312
>cd01852 AIG1 AIG1 (avrRpt2-induced gene 1). This represents Arabidoposis protein AIG1 that appears to be involved in plant resistance to bacteria. The Arabidopsis disease resistance gene RPS2 is involved in recognition of bacterial pathogens carrying the avirulence gene avrRpt2. AIG1 exhibits RPS2- and avrRpt1-dependent induction early after infection with Pseudomonas syringae carrying avrRpt2. This subfamily also includes IAN-4 protein, which has GTP-binding activity and shares sequence homology with a novel family of putative GTP-binding proteins: the immuno-associated nucleotide (IAN) family. The evolutionary conservation of the IAN family provides a unique example of a plant pathogen response gene conserved in animals. The IAN/IMAP subfamily has been proposed to regulate apoptosis in vertebrates and angiosperm plants, particularly in relation to cancer, diabetes, and infections. The human IAN genes were renamed GIMAP (GTPase of the immunity associated proteins).
Probab=28.94 E-value=55 Score=26.67 Aligned_cols=17 Identities=35% Similarity=0.522 Sum_probs=14.2
Q ss_pred CCeEEEEEecCCCCChh
Q psy13818 177 LKHIIILQNKIDLVKEG 193 (207)
Q Consensus 177 I~~iIV~vNK~DlV~~~ 193 (207)
.+|+||++|+.|....+
T Consensus 116 ~~~~ivv~T~~d~l~~~ 132 (196)
T cd01852 116 LDHTIVLFTRGDDLEGG 132 (196)
T ss_pred HhcEEEEEECccccCCC
Confidence 48999999999987654
No 313
>PLN00023 GTP-binding protein; Provisional
Probab=28.61 E-value=35 Score=32.05 Aligned_cols=61 Identities=15% Similarity=0.166 Sum_probs=34.0
Q ss_pred EEEEEEeecCcceeec-cccc-ccccccee--eecCCCCCCCchHHHHH----HHHHcC--------------CCeEEEE
Q psy13818 126 KIALSRRVEKHWSLIE-GTVT-TKVLSTRK--RTGNESCPQPQTSEHLA----AIEIMK--------------LKHIIIL 183 (207)
Q Consensus 126 kiaIsR~V~gh~rlig-g~~~-~nMiaGa~--V~A~eg~~~pQT~EHl~----il~~lG--------------I~~iIV~ 183 (207)
++.|- +..|+++|-. +... ++ .+|+. .|.+. +++.+++. -+...+ --.+|||
T Consensus 84 ~LqIW-DTAGqErfrsL~~~yyr~-AdgiILVyDITd----r~SFenL~kWl~eI~~~~~~s~p~~s~~~~~~~ipIILV 157 (334)
T PLN00023 84 FVELW-DVSGHERYKDCRSLFYSQ-INGVIFVHDLSQ----RRTKTSLQKWASEVAATGTFSAPLGSGGPGGLPVPYIVI 157 (334)
T ss_pred EEEEE-ECCCChhhhhhhHHhccC-CCEEEEEEeCCC----HHHHHHHHHHHHHHHHhcccccccccccccCCCCcEEEE
Confidence 34554 7888888764 3333 44 34444 34332 45665553 122221 0248999
Q ss_pred EecCCCCCh
Q psy13818 184 QNKIDLVKE 192 (207)
Q Consensus 184 vNK~DlV~~ 192 (207)
-||+||.+.
T Consensus 158 GNK~DL~~~ 166 (334)
T PLN00023 158 GNKADIAPK 166 (334)
T ss_pred EECcccccc
Confidence 999999764
No 314
>cd04144 Ras2 Ras2 subfamily. The Ras2 subfamily, found exclusively in fungi, was first identified in Ustilago maydis. In U. maydis, Ras2 is regulated by Sql2, a protein that is homologous to GEFs (guanine nucleotide exchange factors) of the CDC25 family. Ras2 has been shown to induce filamentous growth, but the signaling cascade through which Ras2 and Sql2 regulate cell morphology is not known. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Ras proteins.
Probab=28.57 E-value=64 Score=25.94 Aligned_cols=13 Identities=46% Similarity=0.514 Sum_probs=11.1
Q ss_pred eEEEEEecCCCCC
Q psy13818 179 HIIILQNKIDLVK 191 (207)
Q Consensus 179 ~iIV~vNK~DlV~ 191 (207)
.+|++.||+|+.+
T Consensus 108 piilvgNK~Dl~~ 120 (190)
T cd04144 108 PIMIVGNKCDKVY 120 (190)
T ss_pred CEEEEEEChhccc
Confidence 5788999999965
No 315
>cd04126 Rab20 Rab20 subfamily. Rab20 is one of several Rab proteins that appear to be restricted in expression to the apical domain of murine polarized epithelial cells. It is expressed on the apical side of polarized kidney tubule and intestinal epithelial cells, and in non-polarized cells. It also localizes to vesico-tubular structures below the apical brush border of renal proximal tubule cells and in the apical region of duodenal epithelial cells. Rab20 has also been shown to colocalize with vacuolar H+-ATPases (V-ATPases) in mouse kidney cells, suggesting a role in the regulation of V-ATPase traffic in specific portions of the nephron. It was also shown to be one of several proteins whose expression is upregulated in human myelodysplastic syndrome (MDS) patients. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bo
Probab=28.19 E-value=63 Score=27.69 Aligned_cols=59 Identities=15% Similarity=0.146 Sum_probs=30.7
Q ss_pred EEEEEeecCcceeec-cccc-ccccccee--eecCCCCCCCchHHHHH--HHHHc--CC--CeEEEEEecCCCCC
Q psy13818 127 IALSRRVEKHWSLIE-GTVT-TKVLSTRK--RTGNESCPQPQTSEHLA--AIEIM--KL--KHIIILQNKIDLVK 191 (207)
Q Consensus 127 iaIsR~V~gh~rlig-g~~~-~nMiaGa~--V~A~eg~~~pQT~EHl~--il~~l--GI--~~iIV~vNK~DlV~ 191 (207)
+.|. +.+|+.+|-. +... ++. +++. +|.++ +||.+++. +..+. .- .-+|+|.||+||.+
T Consensus 46 l~iw-Dt~G~e~~~~l~~~~~~~a-d~~IlV~Dvt~----~~Sf~~l~~~~~~l~~~~~~~~piIlVgNK~DL~~ 114 (220)
T cd04126 46 ISIW-DTAGREQFHGLGSMYCRGA-AAVILTYDVSN----VQSLEELEDRFLGLTDTANEDCLFAVVGNKLDLTE 114 (220)
T ss_pred EEEE-eCCCcccchhhHHHHhccC-CEEEEEEECCC----HHHHHHHHHHHHHHHHhcCCCCcEEEEEECccccc
Confidence 4444 6677766553 2222 322 3322 45443 45665553 22221 11 24899999999976
No 316
>cd04177 RSR1 RSR1 subgroup. RSR1/Bud1p is a member of the Rap subfamily of the Ras family that is found in fungi. In budding yeasts, RSR1 is involved in selecting a site for bud growth on the cell cortex, which directs the establishment of cell polarization. The Rho family GTPase cdc42 and its GEF, cdc24, then establish an axis of polarized growth by organizing the actin cytoskeleton and secretory apparatus at the bud site. It is believed that cdc42 interacts directly with RSR1 in vivo. In filamentous fungi, polar growth occurs at the tips of hypha and at novel growth sites along the extending hypha. In Ashbya gossypii, RSR1 is a key regulator of hyphal growth, localizing at the tip region and regulating in apical polarization of the actin cytoskeleton. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key featu
Probab=27.98 E-value=42 Score=26.06 Aligned_cols=61 Identities=10% Similarity=0.122 Sum_probs=31.4
Q ss_pred EEEEEEeecCcceeec-cccc-ccccccee--eecCCCCCCCchHHHHH-----HHHHc---CCCeEEEEEecCCCCChh
Q psy13818 126 KIALSRRVEKHWSLIE-GTVT-TKVLSTRK--RTGNESCPQPQTSEHLA-----AIEIM---KLKHIIILQNKIDLVKEG 193 (207)
Q Consensus 126 kiaIsR~V~gh~rlig-g~~~-~nMiaGa~--V~A~eg~~~pQT~EHl~-----il~~l---GI~~iIV~vNK~DlV~~~ 193 (207)
++.+. +.+|+.+|-. +... ++ ..|+. ++.+. ++|.++.. +.+.. +++ +|++.||+|+.+..
T Consensus 50 ~~~i~-Dt~G~~~~~~~~~~~~~~-~~~~vlv~~~~~----~~s~~~~~~~~~~i~~~~~~~~~p-iiiv~nK~D~~~~~ 122 (168)
T cd04177 50 DLEIL-DTAGTEQFTAMRELYIKS-GQGFLLVYSVTS----EASLNELGELREQVLRIKDSDNVP-MVLVGNKADLEDDR 122 (168)
T ss_pred EEEEE-eCCCcccchhhhHHHHhh-CCEEEEEEECCC----HHHHHHHHHHHHHHHHhhCCCCCC-EEEEEEChhccccC
Confidence 45555 8888887764 3332 33 23332 33332 33333332 22222 343 67889999997643
No 317
>PRK05886 yajC preprotein translocase subunit YajC; Validated
Probab=27.68 E-value=1.9e+02 Score=23.11 Aligned_cols=41 Identities=7% Similarity=0.157 Sum_probs=32.1
Q ss_pred eccCccCceEEEEeeccccceEEEEEecceEEEEeeCcccccCCcEEEEE
Q psy13818 81 VQKLTRNEVLLVNIGSLSTGGRVLATKADLAKISLTNPVCTEVNEKIALS 130 (207)
Q Consensus 81 v~~l~~~E~lmlniGs~~t~g~V~~~~~Dla~i~L~~Pvc~~~G~kiaIs 130 (207)
.+.|++|+.++- +..-.|+|.++..|...+.+. | |.++.+.
T Consensus 36 ~~~Lk~GD~VvT---~gGi~G~V~~I~d~~v~leia-~-----gv~i~~~ 76 (109)
T PRK05886 36 HESLQPGDRVHT---TSGLQATIVGITDDTVDLEIA-P-----GVVTTWM 76 (109)
T ss_pred HHhcCCCCEEEE---CCCeEEEEEEEeCCEEEEEEC-C-----CeEEEEE
Confidence 688999999997 455689999999887777763 3 6677766
No 318
>PF10662 PduV-EutP: Ethanolamine utilisation - propanediol utilisation; InterPro: IPR012381 Members of this family function in ethanolamine [] and propanediol [] degradation pathways. Both pathways require coenzyme B12 (adenosylcobalamin, AdoCbl). Bacteria that harbour these pathways can use ethanolamine as a source of carbon and nitrogen, or propanediol as a sole carbon and energy source, respectively. The exact roles of the EutP and PduV proteins in these respective pathways are not yet determined. Members of this family contain P-loop consensus motifs in the N-terminal part, and are distantly related to various GTPases and ATPases, including ATPase components of transport systems. Propanediol degradation is thought to be important for the natural Salmonella populations, since propanediol is produced by the fermentation of the common plant sugars rhamnose and fucose [, ]. More than 1% of the Salmonella enterica genome is devoted to the utilisation of propanediol and cobalamin biosynthesis. In vivo expression technology has indicated that propanediol utilisation (pdu) genes may be important for growth in host tissues, and competitive index studies with mice have shown that pdu mutations confer a virulence defect [, ]. The pdu operon is contiguous and co-regulated with the cobalamin (B12) biosynthesis cob operon, indicating that propanediol catabolism may be the primary reason for de novo B12 synthesis in Salmonella [, , ]. Please see IPR003207 from INTERPRO, IPR003208 from INTERPRO, IPR009204 from INTERPRO, IPR009191 from INTERPRO, IPR009192 from INTERPRO for more details on the propanediol utilisation pathway and the pdu operon.; GO: 0005524 ATP binding, 0006576 cellular biogenic amine metabolic process
Probab=27.20 E-value=89 Score=25.84 Aligned_cols=19 Identities=32% Similarity=0.373 Sum_probs=15.0
Q ss_pred HHHHcCCCeEEEEEecCCCC
Q psy13818 171 AIEIMKLKHIIILQNKIDLV 190 (207)
Q Consensus 171 il~~lGI~~iIV~vNK~DlV 190 (207)
.++.+. +.+|=++||+|+.
T Consensus 84 fa~~f~-~pvIGVITK~Dl~ 102 (143)
T PF10662_consen 84 FASMFN-KPVIGVITKIDLP 102 (143)
T ss_pred hhcccC-CCEEEEEECccCc
Confidence 345554 5699999999999
No 319
>cd04124 RabL2 RabL2 subfamily. RabL2 (Rab-like2) subfamily. RabL2s are novel Rab proteins identified recently which display features that are distinct from other Rabs, and have been termed Rab-like. RabL2 contains RabL2a and RabL2b, two very similar Rab proteins that share 98% sequence identity in humans. RabL2b maps to the subtelomeric region of chromosome 22q13.3 and RabL2a maps to 2q13, a region that suggests it is also a subtelomeric gene. Both genes are believed to be expressed ubiquitously, suggesting that RabL2s are the first example of duplicated genes in human proximal subtelomeric regions that are both expressed actively. Like other Rab-like proteins, RabL2s lack a prenylation site at the C-terminus. The specific functions of RabL2a and RabL2b remain unknown. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-b
Probab=27.10 E-value=40 Score=26.15 Aligned_cols=14 Identities=43% Similarity=0.491 Sum_probs=11.7
Q ss_pred CeEEEEEecCCCCC
Q psy13818 178 KHIIILQNKIDLVK 191 (207)
Q Consensus 178 ~~iIV~vNK~DlV~ 191 (207)
..+||+.||+|+..
T Consensus 105 ~p~ivv~nK~Dl~~ 118 (161)
T cd04124 105 IPCIVVANKIDLDP 118 (161)
T ss_pred CcEEEEEECccCch
Confidence 46899999999954
No 320
>KOG1954|consensus
Probab=27.03 E-value=63 Score=31.90 Aligned_cols=39 Identities=18% Similarity=0.095 Sum_probs=27.5
Q ss_pred CCchHHHHHHHHHcCCCeEEEEEecCCCCChhhHHHHHHH
Q psy13818 162 QPQTSEHLAAIEIMKLKHIIILQNKIDLVKEGQANEQHEQ 201 (207)
Q Consensus 162 ~pQT~EHl~il~~lGI~~iIV~vNK~DlV~~~~~~~~~~e 201 (207)
.+-++|-+..++-- =.++=||+||+|.|+.+|+..+|-.
T Consensus 197 sdEf~~vi~aLkG~-EdkiRVVLNKADqVdtqqLmRVyGA 235 (532)
T KOG1954|consen 197 SDEFKRVIDALKGH-EDKIRVVLNKADQVDTQQLMRVYGA 235 (532)
T ss_pred cHHHHHHHHHhhCC-cceeEEEeccccccCHHHHHHHHHH
Confidence 56666654444321 3568899999999999988877753
No 321
>cd00877 Ran Ran (Ras-related nuclear proteins) /TC4 subfamily of small GTPases. Ran GTPase is involved in diverse biological functions, such as nuclear transport, spindle formation during mitosis, DNA replication, and cell division. Among the Ras superfamily, Ran is a unique small G protein. It does not have a lipid modification motif at the C-terminus to bind to the membrane, which is often observed within the Ras superfamily. Ran may therefore interact with a wide range of proteins in various intracellular locations. Like other GTPases, Ran exists in GTP- and GDP-bound conformations that interact differently with effectors. Conversion between these forms and the assembly or disassembly of effector complexes requires the interaction of regulator proteins. The intrinsic GTPase activity of Ran is very low, but it is greatly stimulated by a GTPase-activating protein (RanGAP1) located in the cytoplasm. By contrast, RCC1, a guanine nucleotide exchange factor that generates RanGTP, is
Probab=27.02 E-value=40 Score=26.55 Aligned_cols=19 Identities=21% Similarity=0.336 Sum_probs=13.9
Q ss_pred HHcCCCeEEEEEecCCCCC
Q psy13818 173 EIMKLKHIIILQNKIDLVK 191 (207)
Q Consensus 173 ~~lGI~~iIV~vNK~DlV~ 191 (207)
+..+=..+|++.||+|+.+
T Consensus 100 ~~~~~~piiiv~nK~Dl~~ 118 (166)
T cd00877 100 RVCGNIPIVLCGNKVDIKD 118 (166)
T ss_pred HhCCCCcEEEEEEchhccc
Confidence 3343456899999999974
No 322
>COG1703 ArgK Putative periplasmic protein kinase ArgK and related GTPases of G3E family [Amino acid transport and metabolism]
Probab=26.57 E-value=60 Score=30.63 Aligned_cols=12 Identities=42% Similarity=0.385 Sum_probs=9.1
Q ss_pred EEEEecCCCCCh
Q psy13818 181 IILQNKIDLVKE 192 (207)
Q Consensus 181 IV~vNK~DlV~~ 192 (207)
|+|+||+|.-+-
T Consensus 193 i~vINKaD~~~A 204 (323)
T COG1703 193 IIVINKADRKGA 204 (323)
T ss_pred eeeEeccChhhH
Confidence 678999996443
No 323
>PF01926 MMR_HSR1: 50S ribosome-binding GTPase; InterPro: IPR002917 Human HSR1, has been localized to the human MHC class I region and is highly homologous to a putative GTP-binding protein, MMR1 from mouse. These proteins represent a new subfamily of GTP-binding proteins that has both prokaryote and eukaryote members [].; GO: 0005525 GTP binding, 0005622 intracellular; PDB: 2DWQ_B 2DBY_A 3CNN_A 3CNO_A 3CNL_A 3IBY_A 1PUI_B 1WXQ_A 1LNZ_A 3GEE_A ....
Probab=26.56 E-value=1e+02 Score=22.53 Aligned_cols=29 Identities=24% Similarity=0.354 Sum_probs=19.8
Q ss_pred eecCCCCCCCchHHHHHHHHHc-CCCeEEEEEec
Q psy13818 154 RTGNESCPQPQTSEHLAAIEIM-KLKHIIILQNK 186 (207)
Q Consensus 154 V~A~eg~~~pQT~EHl~il~~l-GI~~iIV~vNK 186 (207)
+++.+ +++..+..+++.| .-+++++|+||
T Consensus 87 v~~~~----~~~~~~~~~~~~l~~~~~~i~v~NK 116 (116)
T PF01926_consen 87 VDASN----PITEDDKNILRELKNKKPIILVLNK 116 (116)
T ss_dssp EETTS----HSHHHHHHHHHHHHTTSEEEEEEES
T ss_pred EECCC----CCCHHHHHHHHHHhcCCCEEEEEcC
Confidence 66554 4556666666655 56788999998
No 324
>cd04148 RGK RGK subfamily. The RGK (Rem, Rem2, Rad, Gem/Kir) subfamily of Ras GTPases are expressed in a tissue-specific manner and are dynamically regulated by transcriptional and posttranscriptional mechanisms in response to environmental cues. RGK proteins bind to the beta subunit of L-type calcium channels, causing functional down-regulation of these voltage-dependent calcium channels, and either termination of calcium-dependent secretion or modulation of electrical conduction and contractile function. Inhibition of L-type calcium channels by Rem2 may provide a mechanism for modulating calcium-triggered exocytosis in hormone-secreting cells, and has been proposed to influence the secretion of insulin in pancreatic beta cells. RGK proteins also interact with and inhibit the Rho/Rho kinase pathway to modulate remodeling of the cytoskeleton. Two characteristics of RGK proteins cited in the literature are N-terminal and C-terminal extensions beyond the GTPase domain typical of Ra
Probab=25.93 E-value=40 Score=28.36 Aligned_cols=15 Identities=40% Similarity=0.669 Sum_probs=12.3
Q ss_pred CeEEEEEecCCCCCh
Q psy13818 178 KHIIILQNKIDLVKE 192 (207)
Q Consensus 178 ~~iIV~vNK~DlV~~ 192 (207)
..+|+|.||+|+.+.
T Consensus 107 ~piilV~NK~Dl~~~ 121 (221)
T cd04148 107 RPIILVGNKSDLARS 121 (221)
T ss_pred CCEEEEEEChhcccc
Confidence 358999999999764
No 325
>COG3276 SelB Selenocysteine-specific translation elongation factor [Translation, ribosomal structure and biogenesis]
Probab=25.45 E-value=1.5e+02 Score=29.13 Aligned_cols=49 Identities=20% Similarity=0.470 Sum_probs=40.0
Q ss_pred eccCccCceEEEEeeccccceEEEEEecceEEEEeeCcccccCCcEEEEE
Q psy13818 81 VQKLTRNEVLLVNIGSLSTGGRVLATKADLAKISLTNPVCTEVNEKIALS 130 (207)
Q Consensus 81 v~~l~~~E~lmlniGs~~t~g~V~~~~~Dla~i~L~~Pvc~~~G~kiaIs 130 (207)
-.++++++++.|.+|+.++.|++.-..++ ++..+..|+-...+.+..+.
T Consensus 275 ~~~l~~~~~~hi~~g~~~~~~~i~~l~~~-~~l~~~k~i~~~~~~~l~lr 323 (447)
T COG3276 275 KKTLKQGQPVHIHVGLRSVTGRIVPLEKN-AELNLVKPIALGDNDRLVLR 323 (447)
T ss_pred ccccCCCceEEEEEeccccceEeeecccc-ceeeeecccccccCceEEEE
Confidence 57899999999999999999999999877 67777777655566666654
No 326
>KOG0395|consensus
Probab=25.20 E-value=68 Score=27.14 Aligned_cols=28 Identities=32% Similarity=0.493 Sum_probs=21.3
Q ss_pred CchHHHHHHHHHcCCCe--EEEEEecCCCCCh
Q psy13818 163 PQTSEHLAAIEIMKLKH--IIILQNKIDLVKE 192 (207)
Q Consensus 163 pQT~EHl~il~~lGI~~--iIV~vNK~DlV~~ 192 (207)
.|.++++ ++.-+-.+ +|+|-||+|+...
T Consensus 94 ~~l~~~I--~r~~~~~~~PivlVGNK~Dl~~~ 123 (196)
T KOG0395|consen 94 KQLREQI--LRVKGRDDVPIILVGNKCDLERE 123 (196)
T ss_pred HHHHHHH--HHhhCcCCCCEEEEEEcccchhc
Confidence 4556655 77777777 7999999999763
No 327
>cd04133 Rop_like Rop subfamily. The Rop (Rho-related protein from plants) subfamily plays a role in diverse cellular processes, including cytoskeletal organization, pollen and vegetative cell growth, hormone responses, stress responses, and pathogen resistance. Rops are able to regulate several downstream pathways to amplify a specific signal by acting as master switches early in the signaling cascade. They transmit a variety of extracellular and intracellular signals. Rops are involved in establishing cell polarity in root-hair development, root-hair elongation, pollen-tube growth, cell-shape formation, responses to hormones such as abscisic acid (ABA) and auxin, responses to abiotic stresses such as oxygen deprivation, and disease resistance and disease susceptibility. An individual Rop can have a unique function or an overlapping function shared with other Rop proteins; in addition, a given Rop-regulated function can be controlled by one or multiple Rop proteins. For example,
Probab=24.87 E-value=75 Score=25.91 Aligned_cols=14 Identities=29% Similarity=0.515 Sum_probs=11.6
Q ss_pred CeEEEEEecCCCCC
Q psy13818 178 KHIIILQNKIDLVK 191 (207)
Q Consensus 178 ~~iIV~vNK~DlV~ 191 (207)
-.+|+|-||+||.+
T Consensus 106 ~piilvgnK~Dl~~ 119 (176)
T cd04133 106 VPIVLVGTKLDLRD 119 (176)
T ss_pred CCEEEEEeChhhcc
Confidence 35899999999965
No 328
>KOG1489|consensus
Probab=24.76 E-value=76 Score=30.40 Aligned_cols=17 Identities=35% Similarity=0.524 Sum_probs=13.1
Q ss_pred cCCCeEEEEEecCCCCC
Q psy13818 175 MKLKHIIILQNKIDLVK 191 (207)
Q Consensus 175 lGI~~iIV~vNK~DlV~ 191 (207)
|.=+-.+||.||||+.+
T Consensus 310 L~~rp~liVaNKiD~~e 326 (366)
T KOG1489|consen 310 LADRPALIVANKIDLPE 326 (366)
T ss_pred hccCceEEEEeccCchh
Confidence 44555889999999963
No 329
>PLN03118 Rab family protein; Provisional
Probab=24.50 E-value=54 Score=26.89 Aligned_cols=61 Identities=13% Similarity=0.100 Sum_probs=31.5
Q ss_pred EEEEEEeecCcceeec-cccc-ccccccee--eecCCCCCCCchHHHHH-----HHHHcCC---CeEEEEEecCCCCCh
Q psy13818 126 KIALSRRVEKHWSLIE-GTVT-TKVLSTRK--RTGNESCPQPQTSEHLA-----AIEIMKL---KHIIILQNKIDLVKE 192 (207)
Q Consensus 126 kiaIsR~V~gh~rlig-g~~~-~nMiaGa~--V~A~eg~~~pQT~EHl~-----il~~lGI---~~iIV~vNK~DlV~~ 192 (207)
++.|. +.+|+.+|-. +... ++. .++. +|+.. +++.+.+. .+..... ..+|++.||+|+...
T Consensus 63 ~l~l~-Dt~G~~~~~~~~~~~~~~~-d~~vlv~D~~~----~~sf~~~~~~~~~~~~~~~~~~~~~~ilv~NK~Dl~~~ 135 (211)
T PLN03118 63 KLTIW-DTAGQERFRTLTSSYYRNA-QGIILVYDVTR----RETFTNLSDVWGKEVELYSTNQDCVKMLVGNKVDRESE 135 (211)
T ss_pred EEEEE-ECCCchhhHHHHHHHHhcC-CEEEEEEECCC----HHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECcccccc
Confidence 34444 7777766653 2222 332 3433 55443 44455442 2222211 247888999999753
No 330
>PLN03108 Rab family protein; Provisional
Probab=24.48 E-value=43 Score=27.76 Aligned_cols=15 Identities=33% Similarity=0.558 Sum_probs=12.0
Q ss_pred CeEEEEEecCCCCCh
Q psy13818 178 KHIIILQNKIDLVKE 192 (207)
Q Consensus 178 ~~iIV~vNK~DlV~~ 192 (207)
..++++.||+|+.+.
T Consensus 112 ~piiiv~nK~Dl~~~ 126 (210)
T PLN03108 112 MTIMLIGNKCDLAHR 126 (210)
T ss_pred CcEEEEEECccCccc
Confidence 358999999999753
No 331
>cd04111 Rab39 Rab39 subfamily. Found in eukaryotes, Rab39 is mainly found in epithelial cell lines, but is distributed widely in various human tissues and cell lines. It is believed to be a novel Rab protein involved in regulating Golgi-associated vesicular transport during cellular endocytosis. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins.
Probab=23.83 E-value=94 Score=25.86 Aligned_cols=57 Identities=12% Similarity=0.038 Sum_probs=29.1
Q ss_pred EeecCcceeec-cccc-ccccccee--eecCCCCCCCchHHHH-----HHHHHcCCC--eEEEEEecCCCCCh
Q psy13818 131 RRVEKHWSLIE-GTVT-TKVLSTRK--RTGNESCPQPQTSEHL-----AAIEIMKLK--HIIILQNKIDLVKE 192 (207)
Q Consensus 131 R~V~gh~rlig-g~~~-~nMiaGa~--V~A~eg~~~pQT~EHl-----~il~~lGI~--~iIV~vNK~DlV~~ 192 (207)
-+.+|+.++-- +... ++. .++. .|.++ |+|-+++ .+.+.+... -+||+.||+|+.+.
T Consensus 57 ~Dt~G~~~~~~~~~~~~~~~-d~iilv~D~~~----~~Sf~~l~~~~~~i~~~~~~~~~~iilvgNK~Dl~~~ 124 (211)
T cd04111 57 WDTAGQERFRSITRSYYRNS-VGVLLVFDITN----RESFEHVHDWLEEARSHIQPHRPVFILVGHKCDLESQ 124 (211)
T ss_pred EeCCcchhHHHHHHHHhcCC-cEEEEEEECCC----HHHHHHHHHHHHHHHHhcCCCCCeEEEEEEccccccc
Confidence 37777766542 1111 332 3322 45443 3444442 233444433 36788899999763
No 332
>TIGR02594 conserved hypothetical protein TIGR02594. Members of this protein family known so far are restricted to the bacteria, and for the most to the proteobacteria. The function is unknown.
Probab=23.78 E-value=3.3e+02 Score=21.77 Aligned_cols=57 Identities=11% Similarity=0.118 Sum_probs=41.3
Q ss_pred eeccCccCceEEEEeeccccceEEEEEecceEEEEeeCcccccCCcEEEEEEeecCcceeec
Q psy13818 80 KVQKLTRNEVLLVNIGSLSTGGRVLATKADLAKISLTNPVCTEVNEKIALSRRVEKHWSLIE 141 (207)
Q Consensus 80 Kv~~l~~~E~lmlniGs~~t~g~V~~~~~Dla~i~L~~Pvc~~~G~kiaIsR~V~gh~rlig 141 (207)
++...++|+++.+.-+...-.|.|....++-..+++-.. +.++.+.+++.... |++|
T Consensus 70 ~v~~p~~GDiv~f~~~~~~HVGi~~g~~~~~g~i~~lgG---Nq~~~V~~~~~~~~--~~~~ 126 (129)
T TIGR02594 70 KLSKPAYGCIAVKRRGGGGHVGFVVGKDKQTGTIIVLGG---NQGDRVREALYSRS--RIVA 126 (129)
T ss_pred cCCCCCccEEEEEECCCCCEEEEEEeEcCCCCEEEEeeC---CCCCeEEEEEEecc--cEEE
Confidence 466679999999988877788999887766567777554 46778888754332 5553
No 333
>COG0050 TufB GTPases - translation elongation factors [Translation, ribosomal structure and biogenesis]
Probab=23.30 E-value=1.5e+02 Score=28.56 Aligned_cols=91 Identities=23% Similarity=0.297 Sum_probs=50.5
Q ss_pred cccccceeeccCCCCCCcceEEEEEeHhhHHHHHhhhccCCcccccccceeeeeeecccccccCCcccceeccCccC-ce
Q psy13818 11 RADRLVGQVLGAVGALPKIFIELEISYHLLKRLLGVRMEGDKKGAKLEISYHLLKRLLGVRMEGDKKGAKVQKLTRN-EV 89 (207)
Q Consensus 11 ~~d~lvG~v~g~~g~lp~v~~~l~i~~~Ll~r~~~~~~~~~~~~~~~~~~~~~~~~~~Gv~t~~~k~~~Kv~~l~~~-E~ 89 (207)
|.|-=-||||++||++-|- ++++-+.+.|.+=-|-|--+.-.|+.-. -|-=--+.||.- .+..+ |.
T Consensus 284 r~~veRGqvLakpgsi~ph-~kfeaevyvL~keeggrhtpff~~yrpq-fyfRttDVtg~i-----------~l~eg~em 350 (394)
T COG0050 284 REDVERGQVLAKPGSIKPH-TKFEAEVYVLSKEEGGRHTPFFHGYRPQ-FYFRTTDVTGAI-----------TLPEGVEM 350 (394)
T ss_pred ccceecceEeecCCccccc-ceeeEEEEEEecccCCCCCCcccCccce-eEEEeeeeeeeE-----------eccCCcce
Confidence 4555569999999999764 6777787777665542211111111111 122222333321 11111 33
Q ss_pred EEEEeeccccceEEEEEecc--eEEEEeeCcccccCCcEEEE
Q psy13818 90 LLVNIGSLSTGGRVLATKAD--LAKISLTNPVCTEVNEKIAL 129 (207)
Q Consensus 90 lmlniGs~~t~g~V~~~~~D--la~i~L~~Pvc~~~G~kiaI 129 (207)
+|= .| ...+.|..|+..+.|.|.+|
T Consensus 351 vmp---------------gdnv~~~veLi~pia~e~G~rFaI 377 (394)
T COG0050 351 VMP---------------GDNVKMVVELIHPIAMEEGLRFAI 377 (394)
T ss_pred ecC---------------CCceEEEEEEeeeeecCCCCEEEE
Confidence 331 23 23678999999999999887
No 334
>cd01899 Ygr210 Ygr210 subfamily. Ygr210 is a member of Obg-like family and present in archaea and fungi. They are characterized by a distinct glycine-rich motif immediately following the Walker B motif. The Ygr210 and YyaF/YchF subfamilies appear to form one major branch of the Obg-like family. Among eukaryotes, the Ygr210 subfamily is represented only in fungi. These fungal proteins form a tight cluster with their archaeal orthologs, which suggests the possibility of horizontal transfer from archaea to fungi.
Probab=23.17 E-value=1.2e+02 Score=27.74 Aligned_cols=20 Identities=25% Similarity=0.365 Sum_probs=15.4
Q ss_pred cCCCeEEEEEecCCCCChhh
Q psy13818 175 MKLKHIIILQNKIDLVKEGQ 194 (207)
Q Consensus 175 lGI~~iIV~vNK~DlV~~~~ 194 (207)
+--+.+|+++||+|+.+.+.
T Consensus 212 lt~KPvI~VlNK~Dl~~~~~ 231 (318)
T cd01899 212 KRSKPMVIAANKADIPDAEN 231 (318)
T ss_pred hcCCcEEEEEEHHHccChHH
Confidence 33478999999999876543
No 335
>cd04103 Centaurin_gamma Centaurin gamma. The centaurins (alpha, beta, gamma, and delta) are large, multi-domain proteins that all contain an ArfGAP domain and ankyrin repeats, and in some cases, numerous additional domains. Centaurin gamma contains an additional GTPase domain near its N-terminus. The specific function of this GTPase domain has not been well characterized, but centaurin gamma 2 (CENTG2) may play a role in the development of autism. Centaurin gamma 1 is also called PIKE (phosphatidyl inositol (PI) 3-kinase enhancer) and centaurin gamma 2 is also known as AGAP (ArfGAP protein with a GTPase-like domain, ankyrin repeats and a Pleckstrin homology domain) or GGAP. Three isoforms of PIKE have been identified. PIKE-S (short) and PIKE-L (long) are brain-specific isoforms, with PIKE-S restricted to the nucleus and PIKE-L found in multiple cellular compartments. A third isoform, PIKE-A was identified in human glioblastoma brain cancers and has been found in various tissues.
Probab=22.99 E-value=32 Score=27.19 Aligned_cols=12 Identities=8% Similarity=0.252 Sum_probs=10.4
Q ss_pred eEEEEEecCCCC
Q psy13818 179 HIIILQNKIDLV 190 (207)
Q Consensus 179 ~iIV~vNK~DlV 190 (207)
.++++-||+|+.
T Consensus 101 piilvgnK~Dl~ 112 (158)
T cd04103 101 PLILVGTQDAIS 112 (158)
T ss_pred CEEEEeeHHHhh
Confidence 488999999985
No 336
>cd04125 RabA_like RabA-like subfamily. RabA was first identified in D. discoideum, where its expression levels were compared to other Rabs in growing and developing cells. The RabA mRNA levels were below the level of detection by Northern blot analysis, suggesting a very low level of expression. The function of RabA remains unknown. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins.
Probab=22.45 E-value=63 Score=25.74 Aligned_cols=15 Identities=40% Similarity=0.483 Sum_probs=12.3
Q ss_pred CeEEEEEecCCCCCh
Q psy13818 178 KHIIILQNKIDLVKE 192 (207)
Q Consensus 178 ~~iIV~vNK~DlV~~ 192 (207)
..+|++.||+|+.+.
T Consensus 106 ~~~ivv~nK~Dl~~~ 120 (188)
T cd04125 106 VIKVIVANKSDLVNN 120 (188)
T ss_pred CeEEEEEECCCCccc
Confidence 468999999999853
No 337
>cd04121 Rab40 Rab40 subfamily. This subfamily contains Rab40a, Rab40b, and Rab40c, which are all highly homologous. In rat, Rab40c is localized to the perinuclear recycling compartment (PRC), and is distributed in a tissue-specific manor, with high expression in brain, heart, kidney, and testis, low expression in lung and liver, and no expression in spleen and skeletal muscle. Rab40c is highly expressed in differentiated oligodendrocytes but minimally expressed in oligodendrocyte progenitors, suggesting a role in the vesicular transport of myelin components. Unlike most other Ras-superfamily proteins, Rab40c was shown to have a much lower affinity for GTP, and an affinity for GDP that is lower than for GTP. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide d
Probab=22.38 E-value=47 Score=27.52 Aligned_cols=14 Identities=21% Similarity=0.316 Sum_probs=11.5
Q ss_pred CeEEEEEecCCCCC
Q psy13818 178 KHIIILQNKIDLVK 191 (207)
Q Consensus 178 ~~iIV~vNK~DlV~ 191 (207)
-.+||+-||+||.+
T Consensus 111 ~piilVGNK~DL~~ 124 (189)
T cd04121 111 VPKILVGNRLHLAF 124 (189)
T ss_pred CCEEEEEECccchh
Confidence 35788999999965
No 338
>COG3109 ProQ Activator of osmoprotectant transporter ProP [Signal transduction mechanisms]
Probab=21.78 E-value=99 Score=27.30 Aligned_cols=38 Identities=24% Similarity=0.320 Sum_probs=35.5
Q ss_pred eccCccCceEEEEeeccccceEEEEEecceEEEEeeCc
Q psy13818 81 VQKLTRNEVLLVNIGSLSTGGRVLATKADLAKISLTNP 118 (207)
Q Consensus 81 v~~l~~~E~lmlniGs~~t~g~V~~~~~Dla~i~L~~P 118 (207)
++.|..|+.+-++.|-..--++|+.+.+|.+.++|.+-
T Consensus 159 ~s~l~~g~~~kVk~G~~a~~AtvlEv~Kd~vRVqL~~G 196 (208)
T COG3109 159 ISALTVGQALKVKAGQNAMDATVLEITKDGVRVQLNSG 196 (208)
T ss_pred HHhhhccceeeeccccccccceEEEEeccceEEeecCC
Confidence 57789999999999999999999999999999999876
No 339
>cd04172 Rnd3_RhoE_Rho8 Rnd3/RhoE/Rho8 subfamily. Rnd3/RhoE/Rho8 is a member of the novel Rho subfamily Rnd, together with Rnd1/Rho6 and Rnd2/Rho7. Rnd3/RhoE is known to bind the serine-threonine kinase ROCK I. Unphosphorylated Rnd3/RhoE associates primarily with membranes, but ROCK I-phosphorylated Rnd3/RhoE localizes in the cytosol. Phosphorylation of Rnd3/RhoE correlates with its activity in disrupting RhoA-induced stress fibers and inhibiting Ras-induced fibroblast transformation. In cells that lack stress fibers, such as macrophages and monocytes, Rnd3/RhoE induces a redistribution of actin, causing morphological changes in the cell. In addition, Rnd3/RhoE has been shown to inhibit cell cycle progression in G1 phase at a point upstream of the pRb family pocket protein checkpoint. Rnd3/RhoE has also been shown to inhibit Ras- and Raf-induced fibroblast transformation. In mammary epithelial tumor cells, Rnd3/RhoE regulates the assembly of the apical junction complex and tight
Probab=21.72 E-value=1.8e+02 Score=23.71 Aligned_cols=14 Identities=21% Similarity=0.382 Sum_probs=11.5
Q ss_pred CeEEEEEecCCCCC
Q psy13818 178 KHIIILQNKIDLVK 191 (207)
Q Consensus 178 ~~iIV~vNK~DlV~ 191 (207)
..+|+|-||+||.+
T Consensus 110 ~piilVgNK~DL~~ 123 (182)
T cd04172 110 TKMLLVGCKSDLRT 123 (182)
T ss_pred CCEEEEeEChhhhc
Confidence 46899999999854
No 340
>cd04129 Rho2 Rho2 subfamily. Rho2 is a fungal GTPase that plays a role in cell morphogenesis, control of cell wall integrity, control of growth polarity, and maintenance of growth direction. Rho2 activates the protein kinase C homolog Pck2, and Pck2 controls Mok1, the major (1-3) alpha-D-glucan synthase. Together with Rho1 (RhoA), Rho2 regulates the construction of the cell wall. Unlike Rho1, Rho2 is not an essential protein, but its overexpression is lethal. Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for proper intracellular localization via membrane attachment. As with other Rho family GTPases, the GDP/GTP cycling is regulated by GEFs (guanine nucleotide exchange factors), GAPs (GTPase-activating proteins) and GDIs (guanine nucleotide dissociation inhibitors).
Probab=21.65 E-value=47 Score=26.68 Aligned_cols=16 Identities=25% Similarity=0.223 Sum_probs=12.8
Q ss_pred CCCeEEEEEecCCCCC
Q psy13818 176 KLKHIIILQNKIDLVK 191 (207)
Q Consensus 176 GI~~iIV~vNK~DlV~ 191 (207)
.-..+|++.||+|+.+
T Consensus 104 ~~~piilvgnK~Dl~~ 119 (187)
T cd04129 104 PNVPVILVGLKKDLRQ 119 (187)
T ss_pred CCCCEEEEeeChhhhh
Confidence 3456899999999965
No 341
>cd01875 RhoG RhoG subfamily. RhoG is a GTPase with high sequence similarity to members of the Rac subfamily, including the regions involved in effector recognition and binding. However, RhoG does not bind to known Rac1 and Cdc42 effectors, including proteins containing a Cdc42/Rac interacting binding (CRIB) motif. Instead, RhoG interacts directly with Elmo, an upstream regulator of Rac1, in a GTP-dependent manner and forms a ternary complex with Dock180 to induce activation of Rac1. The RhoG-Elmo-Dock180 pathway is required for activation of Rac1 and cell spreading mediated by integrin, as well as for neurite outgrowth induced by nerve growth factor. Thus RhoG activates Rac1 through Elmo and Dock180 to control cell morphology. RhoG has also been shown to play a role in caveolar trafficking and has a novel role in signaling the neutrophil respiratory burst stimulated by G protein-coupled receptor (GPCR) agonists. Most Rho proteins contain a lipid modification site at the C-termin
Probab=21.25 E-value=80 Score=25.59 Aligned_cols=57 Identities=12% Similarity=0.072 Sum_probs=29.8
Q ss_pred EeecCcceeec-cccc-ccccccee--eecCCCCCCCchHHHHH------HHHHcCCCeEEEEEecCCCCCh
Q psy13818 131 RRVEKHWSLIE-GTVT-TKVLSTRK--RTGNESCPQPQTSEHLA------AIEIMKLKHIIILQNKIDLVKE 192 (207)
Q Consensus 131 R~V~gh~rlig-g~~~-~nMiaGa~--V~A~eg~~~pQT~EHl~------il~~lGI~~iIV~vNK~DlV~~ 192 (207)
-+.+|+.+|-. +... ++. +|+. .|.+. ++|-+++. +.+...=--+|+|-||.||.+.
T Consensus 56 ~Dt~G~e~~~~l~~~~~~~a-~~~ilvydit~----~~Sf~~~~~~w~~~i~~~~~~~piilvgNK~DL~~~ 122 (191)
T cd01875 56 WDTAGQEEYDRLRTLSYPQT-NVFIICFSIAS----PSSYENVRHKWHPEVCHHCPNVPILLVGTKKDLRND 122 (191)
T ss_pred EECCCchhhhhhhhhhccCC-CEEEEEEECCC----HHHHHHHHHHHHHHHHhhCCCCCEEEEEeChhhhcC
Confidence 37778777754 3333 442 3333 34332 34444442 2222222357899999999654
No 342
>COG0126 Pgk 3-phosphoglycerate kinase [Carbohydrate transport and metabolism]
Probab=21.23 E-value=39 Score=32.60 Aligned_cols=60 Identities=25% Similarity=0.238 Sum_probs=43.4
Q ss_pred ccceeeccCCCCCCcceEEEEEeHhhHHHHHhhhccCCcccccccceeeeeeecccccccCCcccceeccCccCceEEE
Q psy13818 14 RLVGQVLGAVGALPKIFIELEISYHLLKRLLGVRMEGDKKGAKLEISYHLLKRLLGVRMEGDKKGAKVQKLTRNEVLLV 92 (207)
Q Consensus 14 ~lvG~v~g~~g~lp~v~~~l~i~~~Ll~r~~~~~~~~~~~~~~~~~~~~~~~~~~Gv~t~~~k~~~Kv~~l~~~E~lml 92 (207)
-.+.+=+|+|+. +.-+.+|+--...|.+++| ..-.+..+..|. +-.+++..++.||+||+
T Consensus 55 Vvl~SHlGRPk~-~~~~~SL~pva~~Ls~ll~-------------~~V~f~~d~~g~-----~a~~~v~~l~~GevlLL 114 (395)
T COG0126 55 VVLLSHLGRPKE-YSDKTSLEPVAKRLSELLG-------------KEVKFVDDCVGP-----EARQAVAELKDGEVLLL 114 (395)
T ss_pred EEEEecCCCCCC-CCCcccHHHHHHHHHHhcC-------------CceEecccccCH-----HHHHHHhccCCCcEEEE
Confidence 345677899988 7778888888888998884 223334454553 33456999999999999
No 343
>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=20.59 E-value=2.1e+02 Score=21.35 Aligned_cols=43 Identities=28% Similarity=0.460 Sum_probs=27.4
Q ss_pred eccCccCceEEEEeeccccce--EEEEEe-cceEE-EEeeCcccccCC
Q psy13818 81 VQKLTRNEVLLVNIGSLSTGG--RVLATK-ADLAK-ISLTNPVCTEVN 124 (207)
Q Consensus 81 v~~l~~~E~lmlniGs~~t~g--~V~~~~-~Dla~-i~L~~Pvc~~~G 124 (207)
...++.|+.+.+ .|+.+... .|.++. ..++. ....+|.|..||
T Consensus 45 ~~~l~~Gd~V~v-~G~v~~y~ql~ve~l~~~glg~~~~~~np~C~~C~ 91 (91)
T cd04482 45 VRLLIPGDEVTV-YGSVRPGTTLNLEKLRVIRLARLYERENPVCPKCG 91 (91)
T ss_pred cCCCCCCCEEEE-EEEEecCCEEEEEEEEECCCcceEEEcCCcCCCCC
Confidence 567888998876 56666655 222222 33444 555899998876
No 344
>KOG0460|consensus
Probab=20.39 E-value=1.1e+02 Score=29.97 Aligned_cols=108 Identities=22% Similarity=0.295 Sum_probs=66.1
Q ss_pred cccccccceeeccCCCCCCcceEEEEEeHhhHHHHHhhhccCCcccccccceeeeeeecccccccCCcccceeccCccCc
Q psy13818 9 LCRADRLVGQVLGAVGALPKIFIELEISYHLLKRLLGVRMEGDKKGAKLEISYHLLKRLLGVRMEGDKKGAKVQKLTRNE 88 (207)
Q Consensus 9 l~~~d~lvG~v~g~~g~lp~v~~~l~i~~~Ll~r~~~~~~~~~~~~~~~~~~~~~~~~~~Gv~t~~~k~~~Kv~~l~~~E 88 (207)
+.|.|-=-|.|+++||+ -++.+.++-++++|.+-=| |..++|--..+-++.-+-. .--.+++-+.++|
T Consensus 326 ik~~dvkRGmvl~~pGs-vk~~~k~ea~~YiLsk~EG----GR~~pf~s~y~~q~fs~Tw-------D~~~~v~~~~~~~ 393 (449)
T KOG0460|consen 326 IKREDVKRGMVLAKPGS-VKPHNKFEAQLYILSKEEG----GRHKPFVSGYRPQMFSRTW-------DVTGRVDIPPEKE 393 (449)
T ss_pred CCHHHHhcccEEecCCc-ccccceeeEEEEEEEhhhC----CCccchhhccchhheeeec-------ccceEEEccChHh
Confidence 44566667999999999 6889999999999988654 4445543322222222111 1123455554455
Q ss_pred eEEEEeeccccceEEEEEecceEEEEeeCcccccCCcEEEEEEeecCcceeec-cccc
Q psy13818 89 VLLVNIGSLSTGGRVLATKADLAKISLTNPVCTEVNEKIALSRRVEKHWSLIE-GTVT 145 (207)
Q Consensus 89 ~lmlniGs~~t~g~V~~~~~Dla~i~L~~Pvc~~~G~kiaIsR~V~gh~rlig-g~~~ 145 (207)
.+|= | ..-.+.+.|..|+-.+.|.|..| |. .| +-|| |.++
T Consensus 394 mvMP--G-----------e~~~~~~~Li~pm~le~GqrFti-Re-Gg--~TvgtGvvt 434 (449)
T KOG0460|consen 394 MVMP--G-----------ENVKVEVTLIRPMPLEKGQRFTL-RE-GG--RTVGTGVVT 434 (449)
T ss_pred cccC--C-----------CCeEEEEEEecccccCCCceeeE-cc-CC--eeeeeeeEe
Confidence 5553 0 01145778899999999999887 32 22 2555 5554
No 345
>PF05783 DLIC: Dynein light intermediate chain (DLIC); InterPro: IPR022780 This entry consists of several eukaryotic dynein light intermediate chain proteins. The light intermediate chains (LICs) of cytoplasmic dynein consist of multiple isoforms, which undergo post-translational modification to produce a large number of species. DLIC1 is known to be involved in assembly, organisation, and function of centrosomes and mitotic spindles when bound to pericentrin [, ]. DLIC2 is a subunit of cytoplasmic dynein 2 that may play a role in maintaining Golgi organisation by binding cytoplasmic dynein 2 to its Golgi-associated cargo [].
Probab=20.37 E-value=60 Score=31.70 Aligned_cols=33 Identities=18% Similarity=0.371 Sum_probs=22.2
Q ss_pred HHcCCCeEEEEEecCCCCC-----hhhHHHHHHHHHhhh
Q psy13818 173 EIMKLKHIIILQNKIDLVK-----EGQANEQHEQIVKFV 206 (207)
Q Consensus 173 ~~lGI~~iIV~vNK~DlV~-----~~~~~~~~~eI~~~l 206 (207)
.-|||+ ++||++|.|..+ .++-++.|+-|..+|
T Consensus 193 ~nlGip-i~VV~tksD~~~~Lek~~~~~~e~~DfIqq~L 230 (472)
T PF05783_consen 193 ENLGIP-IVVVCTKSDKIETLEKETDWKEEHFDFIQQYL 230 (472)
T ss_pred cccCcc-eEEEEecccHHHHHhhhcccchhhHHHHHHHH
Confidence 457886 888999999754 224456666666654
No 346
>COG0774 LpxC UDP-3-O-acyl-N-acetylglucosamine deacetylase [Cell envelope biogenesis, outer membrane]
Probab=20.35 E-value=2.7e+02 Score=26.15 Aligned_cols=28 Identities=25% Similarity=0.344 Sum_probs=23.1
Q ss_pred CCCCCCchHHHHH-HHHHcCCCeEEEEEec
Q psy13818 158 ESCPQPQTSEHLA-AIEIMKLKHIIILQNK 186 (207)
Q Consensus 158 eg~~~pQT~EHl~-il~~lGI~~iIV~vNK 186 (207)
.|. +=.|.||++ .+..|||.+++|-+|=
T Consensus 70 ~~~-~I~TVEHLmaAl~~lgIDN~~Iev~g 98 (300)
T COG0774 70 HGV-RISTVEHLMAALAGLGIDNLIIEVDG 98 (300)
T ss_pred CCc-EEeeHHHHHHHHHhCCCccEEEEecC
Confidence 365 679999986 5789999999998864
No 347
>PTZ00369 Ras-like protein; Provisional
Probab=20.09 E-value=65 Score=25.88 Aligned_cols=64 Identities=9% Similarity=0.021 Sum_probs=30.7
Q ss_pred EEEEEeecCcceeec-cccc-ccccccee--eecCCCCCCCchHH-HHHHHHHcCCC--eEEEEEecCCCCCh
Q psy13818 127 IALSRRVEKHWSLIE-GTVT-TKVLSTRK--RTGNESCPQPQTSE-HLAAIEIMKLK--HIIILQNKIDLVKE 192 (207)
Q Consensus 127 iaIsR~V~gh~rlig-g~~~-~nMiaGa~--V~A~eg~~~pQT~E-Hl~il~~lGI~--~iIV~vNK~DlV~~ 192 (207)
+.|. +.+|+.+|-. |... ++. .|+. +|.++.....+..+ ...+.+....+ -+|++.||+|+.+.
T Consensus 55 l~i~-Dt~G~~~~~~l~~~~~~~~-d~iilv~D~s~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~ 125 (189)
T PTZ00369 55 LDIL-DTAGQEEYSAMRDQYMRTG-QGFLCVYSITSRSSFEEIASFREQILRVKDKDRVPMILVGNKCDLDSE 125 (189)
T ss_pred EEEE-eCCCCccchhhHHHHhhcC-CEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECcccccc
Confidence 4444 7777777653 2222 332 3333 45443210112222 22334443222 37889999998653
Done!