Query psy15351
Match_columns 352
No_of_seqs 330 out of 3589
Neff 8.7
Searched_HMMs 46136
Date Fri Aug 16 18:42:07 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy15351.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/15351hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PRK09563 rbgA GTPase YlqF; Rev 100.0 3.8E-47 8.2E-52 350.9 28.1 273 1-347 11-283 (287)
2 TIGR03596 GTPase_YlqF ribosome 100.0 1.7E-46 3.8E-51 344.8 27.3 269 1-343 8-276 (276)
3 KOG2485|consensus 100.0 9.9E-42 2.1E-46 303.7 20.8 289 1-347 33-325 (335)
4 KOG2484|consensus 100.0 6.1E-41 1.3E-45 306.6 18.2 266 5-345 137-406 (435)
5 COG1161 Predicted GTPases [Gen 100.0 3.1E-38 6.7E-43 294.8 23.6 272 1-345 21-298 (322)
6 KOG1424|consensus 100.0 3.3E-38 7.1E-43 296.7 22.4 301 3-345 163-477 (562)
7 KOG2423|consensus 100.0 6.1E-37 1.3E-41 279.0 18.8 255 3-344 202-460 (572)
8 COG1160 Predicted GTPases [Gen 100.0 8.7E-31 1.9E-35 246.1 11.8 269 3-340 72-365 (444)
9 cd01858 NGP_1 NGP-1. Autoanti 100.0 6.2E-29 1.3E-33 209.8 17.6 154 7-231 1-157 (157)
10 cd01856 YlqF YlqF. Proteins o 100.0 5.6E-27 1.2E-31 200.6 18.9 166 1-232 6-171 (171)
11 cd01857 HSR1_MMR1 HSR1/MMR1. 99.9 8.3E-26 1.8E-30 187.3 16.8 137 5-234 2-141 (141)
12 cd04178 Nucleostemin_like Nucl 99.9 7.1E-26 1.5E-30 193.2 16.7 162 16-231 1-172 (172)
13 cd01849 YlqF_related_GTPase Yl 99.9 3.9E-25 8.5E-30 186.2 16.7 153 16-231 1-155 (155)
14 cd01859 MJ1464 MJ1464. This f 99.9 2.1E-24 4.6E-29 181.9 18.9 153 5-231 2-156 (156)
15 cd01855 YqeH YqeH. YqeH is an 99.9 1.7E-24 3.8E-29 188.4 17.6 156 6-231 26-190 (190)
16 PRK12289 GTPase RsgA; Reviewed 99.9 1.8E-23 3.9E-28 196.8 18.7 181 10-291 85-278 (352)
17 TIGR00157 ribosome small subun 99.9 2.4E-23 5.1E-28 187.8 18.1 184 10-294 32-227 (245)
18 PRK13796 GTPase YqeH; Provisio 99.9 1.2E-22 2.6E-27 193.4 18.7 159 5-234 59-223 (365)
19 TIGR03594 GTPase_EngA ribosome 99.9 1.3E-22 2.7E-27 198.4 17.9 166 4-235 68-234 (429)
20 TIGR03597 GTPase_YqeH ribosome 99.9 5.6E-22 1.2E-26 188.5 19.4 155 9-234 58-217 (360)
21 PRK12288 GTPase RsgA; Reviewed 99.9 1.1E-21 2.5E-26 184.6 19.9 182 11-294 117-313 (347)
22 PRK00093 GTP-binding protein D 99.9 1.3E-21 2.9E-26 191.5 18.8 164 5-235 71-235 (435)
23 PRK00098 GTPase RsgA; Reviewed 99.9 2.4E-21 5.3E-26 179.8 17.6 187 9-295 75-273 (298)
24 cd01854 YjeQ_engC YjeQ/EngC. 99.9 4.1E-21 8.9E-26 177.3 18.6 191 10-295 74-270 (287)
25 PRK03003 GTP-binding protein D 99.9 4.2E-21 9.1E-26 189.2 18.6 164 5-234 108-272 (472)
26 PRK09518 bifunctional cytidyla 99.8 3.3E-20 7.2E-25 191.1 19.2 166 5-234 345-511 (712)
27 COG1162 Predicted GTPases [Gen 99.8 3.7E-18 8.1E-23 154.5 18.9 189 11-294 76-272 (301)
28 PRK01889 GTPase RsgA; Reviewed 99.7 9.9E-17 2.1E-21 152.2 15.4 145 11-240 109-266 (356)
29 COG1159 Era GTPase [General fu 99.7 2.2E-16 4.8E-21 141.7 10.9 92 168-273 6-97 (298)
30 COG1084 Predicted GTPase [Gene 99.6 2.3E-15 4.9E-20 136.4 7.9 111 153-277 153-263 (346)
31 PF03193 DUF258: Protein of un 99.6 7E-15 1.5E-19 122.7 9.7 140 61-294 2-143 (161)
32 COG1160 Predicted GTPases [Gen 99.6 3.3E-15 7.1E-20 141.3 8.2 67 169-240 4-70 (444)
33 PF02421 FeoB_N: Ferrous iron 99.6 8.9E-15 1.9E-19 121.9 8.1 69 169-243 1-69 (156)
34 COG0486 ThdF Predicted GTPase 99.5 4.5E-14 9.6E-19 134.0 7.3 64 166-234 215-278 (454)
35 PTZ00258 GTP-binding protein; 99.5 1.1E-13 2.4E-18 131.5 9.2 110 166-291 19-145 (390)
36 PRK09601 GTP-binding protein Y 99.4 2.9E-13 6.2E-18 127.3 9.1 90 169-274 3-109 (364)
37 cd01900 YchF YchF subfamily. 99.4 2.3E-13 4.9E-18 124.1 7.5 103 171-289 1-120 (274)
38 PF01926 MMR_HSR1: 50S ribosom 99.4 2E-13 4.3E-18 108.9 5.1 60 170-234 1-60 (116)
39 PRK12298 obgE GTPase CgtA; Rev 99.4 4.1E-12 9E-17 121.8 12.1 61 169-235 160-221 (390)
40 KOG1191|consensus 99.4 6.6E-13 1.4E-17 125.9 6.4 63 166-233 266-328 (531)
41 TIGR00436 era GTP-binding prot 99.4 1.3E-12 2.8E-17 120.0 7.7 60 170-234 2-61 (270)
42 COG0218 Predicted GTPase [Gene 99.3 1.7E-11 3.7E-16 104.7 11.6 64 167-237 23-86 (200)
43 KOG1423|consensus 99.3 2.6E-12 5.6E-17 115.2 6.6 67 165-236 69-135 (379)
44 COG0012 Predicted GTPase, prob 99.3 2.4E-12 5.2E-17 119.4 6.0 107 168-290 2-126 (372)
45 COG0536 Obg Predicted GTPase [ 99.3 1.2E-11 2.5E-16 113.0 7.7 62 169-236 160-222 (369)
46 cd01853 Toc34_like Toc34-like 99.2 1.6E-10 3.4E-15 104.5 13.9 65 165-234 28-92 (249)
47 PRK09602 translation-associate 99.2 3E-11 6.5E-16 116.1 8.5 88 169-272 2-113 (396)
48 PRK15494 era GTPase Era; Provi 99.2 1.2E-10 2.7E-15 110.1 12.4 64 166-234 50-113 (339)
49 cd01852 AIG1 AIG1 (avrRpt2-ind 99.2 1.2E-10 2.7E-15 101.6 11.3 63 169-236 1-64 (196)
50 PRK00089 era GTPase Era; Revie 99.2 3.3E-11 7.2E-16 111.9 7.6 62 169-235 6-67 (292)
51 COG0370 FeoB Fe2+ transport sy 99.2 5.1E-11 1.1E-15 118.0 8.2 70 168-243 3-72 (653)
52 cd01899 Ygr210 Ygr210 subfamil 99.2 6.5E-11 1.4E-15 110.5 8.5 87 171-273 1-111 (318)
53 PRK12296 obgE GTPase CgtA; Rev 99.2 3.5E-11 7.6E-16 117.8 6.7 61 168-234 159-219 (500)
54 PRK12299 obgE GTPase CgtA; Rev 99.2 4.3E-11 9.3E-16 112.7 7.0 60 169-234 159-219 (335)
55 KOG1489|consensus 99.2 4.2E-11 9.2E-16 108.1 6.5 90 169-274 197-287 (366)
56 KOG1491|consensus 99.2 5.1E-11 1.1E-15 108.4 6.8 109 166-290 18-143 (391)
57 TIGR03156 GTP_HflX GTP-binding 99.2 1E-10 2.3E-15 110.9 8.9 62 166-233 187-249 (351)
58 KOG1547|consensus 99.1 1.2E-10 2.5E-15 101.2 7.6 169 166-347 44-228 (336)
59 TIGR00991 3a0901s02IAP34 GTP-b 99.1 1.6E-10 3.4E-15 106.3 8.6 66 164-234 34-99 (313)
60 PRK12297 obgE GTPase CgtA; Rev 99.1 1.3E-10 2.9E-15 112.2 8.1 60 169-234 159-219 (424)
61 TIGR00092 GTP-binding protein 99.1 9.1E-11 2E-15 110.5 6.2 106 169-289 3-125 (368)
62 TIGR02729 Obg_CgtA Obg family 99.1 1.6E-10 3.4E-15 108.8 7.5 61 168-234 157-218 (329)
63 COG1159 Era GTPase [General fu 99.1 8.4E-10 1.8E-14 99.6 11.5 100 5-107 76-177 (298)
64 TIGR00450 mnmE_trmE_thdF tRNA 99.1 3.6E-10 7.8E-15 110.3 7.8 64 166-234 201-264 (442)
65 KOG1490|consensus 99.0 2.6E-10 5.7E-15 108.4 6.5 94 147-246 147-240 (620)
66 KOG1249|consensus 99.0 5.3E-10 1.1E-14 107.3 8.2 212 10-235 106-375 (572)
67 PRK05291 trmE tRNA modificatio 99.0 4.4E-10 9.5E-15 110.2 7.4 64 166-234 213-276 (449)
68 PRK03003 GTP-binding protein D 99.0 7.4E-10 1.6E-14 109.6 8.4 62 167-233 37-98 (472)
69 cd01898 Obg Obg subfamily. Th 99.0 3.6E-10 7.8E-15 95.8 5.1 58 170-233 2-60 (170)
70 PF10662 PduV-EutP: Ethanolami 99.0 2.9E-09 6.3E-14 87.1 10.0 87 6-98 55-142 (143)
71 COG1163 DRG Predicted GTPase [ 99.0 8E-10 1.7E-14 100.3 6.4 64 166-235 61-124 (365)
72 PRK11058 GTPase HflX; Provisio 99.0 7.7E-10 1.7E-14 107.5 6.3 60 168-233 197-257 (426)
73 COG3596 Predicted GTPase [Gene 99.0 5.2E-09 1.1E-13 93.3 10.7 71 165-240 36-106 (296)
74 PRK09518 bifunctional cytidyla 99.0 1.7E-09 3.7E-14 112.1 8.6 62 167-233 274-335 (712)
75 PF04548 AIG1: AIG1 family; I 98.9 2.5E-09 5.5E-14 94.6 8.3 63 169-236 1-64 (212)
76 TIGR00436 era GTP-binding prot 98.9 7.6E-09 1.6E-13 95.0 11.5 97 5-105 70-167 (270)
77 PF00009 GTP_EFTU: Elongation 98.9 4.8E-09 1E-13 90.9 9.5 98 3-102 82-187 (188)
78 cd01896 DRG The developmentall 98.9 1.9E-09 4.1E-14 96.7 6.8 59 170-234 2-60 (233)
79 PRK04213 GTP-binding protein; 98.9 5.7E-09 1.2E-13 91.3 9.6 57 167-233 8-64 (201)
80 cd01897 NOG NOG1 is a nucleola 98.9 2.5E-09 5.5E-14 90.4 6.9 58 170-233 2-59 (168)
81 TIGR00993 3a0901s04IAP86 chlor 98.9 1.6E-08 3.4E-13 100.6 12.9 64 167-236 117-181 (763)
82 cd04164 trmE TrmE (MnmE, ThdF, 98.9 3.8E-09 8.2E-14 87.8 7.5 62 168-234 1-62 (157)
83 COG0486 ThdF Predicted GTPase 98.9 6.9E-09 1.5E-13 99.0 9.6 93 3-103 285-377 (454)
84 cd01894 EngA1 EngA1 subfamily. 98.9 2.2E-08 4.7E-13 83.3 11.2 88 6-100 68-156 (157)
85 cd01894 EngA1 EngA1 subfamily. 98.9 3.2E-09 7E-14 88.4 5.9 58 172-234 1-58 (157)
86 COG5019 CDC3 Septin family pro 98.9 7.7E-09 1.7E-13 95.7 8.6 168 166-348 21-208 (373)
87 cd01879 FeoB Ferrous iron tran 98.9 2.8E-09 6E-14 89.0 5.2 57 173-235 1-57 (158)
88 COG2262 HflX GTPases [General 98.9 3.8E-09 8.3E-14 99.0 6.3 67 162-234 186-253 (411)
89 PRK15467 ethanolamine utilizat 98.8 3.8E-08 8.3E-13 82.9 11.6 95 4-103 54-148 (158)
90 PRK09554 feoB ferrous iron tra 98.8 6E-09 1.3E-13 108.0 8.0 61 168-234 3-63 (772)
91 KOG2655|consensus 98.8 5.8E-09 1.3E-13 97.2 7.0 166 165-347 18-202 (366)
92 cd01895 EngA2 EngA2 subfamily. 98.8 7.6E-09 1.6E-13 87.4 7.2 62 168-234 2-63 (174)
93 cd04163 Era Era subfamily. Er 98.8 1.2E-08 2.5E-13 85.4 8.1 63 168-235 3-65 (168)
94 TIGR03598 GTPase_YsxC ribosome 98.8 1.4E-08 3E-13 87.3 8.5 63 166-235 16-78 (179)
95 cd01888 eIF2_gamma eIF2-gamma 98.8 5E-08 1.1E-12 85.7 11.9 99 4-104 96-201 (203)
96 cd01878 HflX HflX subfamily. 98.8 8.8E-09 1.9E-13 90.3 6.6 63 166-234 39-102 (204)
97 TIGR02528 EutP ethanolamine ut 98.8 5.9E-08 1.3E-12 79.8 11.1 85 8-98 56-141 (142)
98 PRK15494 era GTPase Era; Provi 98.8 3.3E-08 7.1E-13 93.6 10.8 97 5-105 122-219 (339)
99 cd01890 LepA LepA subfamily. 98.8 7.2E-08 1.6E-12 82.4 11.9 95 5-102 81-177 (179)
100 COG2262 HflX GTPases [General 98.8 4.8E-08 1E-12 91.8 11.1 109 2-126 259-372 (411)
101 PRK00454 engB GTP-binding prot 98.8 1.6E-08 3.5E-13 87.8 7.4 62 166-234 22-83 (196)
102 PRK00089 era GTPase Era; Revie 98.8 5.5E-08 1.2E-12 90.3 11.3 97 6-105 76-174 (292)
103 TIGR03594 GTPase_EngA ribosome 98.8 4.1E-08 9E-13 96.1 11.0 96 7-104 247-346 (429)
104 PRK00093 GTP-binding protein D 98.8 4.8E-08 1E-12 95.8 11.0 96 7-104 248-346 (435)
105 cd04165 GTPBP1_like GTPBP1-lik 98.7 7.5E-08 1.6E-12 85.8 10.8 95 3-99 96-220 (224)
106 PRK09866 hypothetical protein; 98.7 6.1E-08 1.3E-12 96.2 11.1 92 7-100 251-351 (741)
107 cd04171 SelB SelB subfamily. 98.7 9.9E-08 2.1E-12 80.0 11.1 93 5-99 65-163 (164)
108 cd01881 Obg_like The Obg-like 98.7 1.2E-08 2.5E-13 86.8 5.1 55 173-233 1-56 (176)
109 cd01895 EngA2 EngA2 subfamily. 98.7 1.5E-07 3.2E-12 79.4 11.2 91 8-100 78-173 (174)
110 PF00735 Septin: Septin; Inte 98.7 8.5E-09 1.8E-13 94.8 3.4 160 168-347 4-186 (281)
111 cd01889 SelB_euk SelB subfamil 98.7 1.8E-07 3.9E-12 81.3 11.0 96 5-102 82-186 (192)
112 TIGR02729 Obg_CgtA Obg family 98.7 8.6E-08 1.9E-12 90.3 9.3 91 6-101 227-328 (329)
113 cd01898 Obg Obg subfamily. Th 98.7 1.2E-07 2.7E-12 80.1 9.3 90 6-100 70-169 (170)
114 cd00881 GTP_translation_factor 98.7 2.5E-07 5.4E-12 79.4 11.4 95 6-102 77-187 (189)
115 cd01851 GBP Guanylate-binding 98.7 1E-07 2.3E-12 84.9 9.1 69 167-238 6-77 (224)
116 cd01850 CDC_Septin CDC/Septin. 98.6 6.9E-08 1.5E-12 88.8 7.7 68 167-234 3-76 (276)
117 PRK12299 obgE GTPase CgtA; Rev 98.6 1.5E-07 3.3E-12 88.7 10.2 93 6-103 228-329 (335)
118 PF05049 IIGP: Interferon-indu 98.6 4.3E-08 9.4E-13 92.6 6.4 72 167-240 34-105 (376)
119 TIGR03156 GTP_HflX GTP-binding 98.6 1.3E-07 2.8E-12 89.8 9.7 89 3-100 257-350 (351)
120 cd04171 SelB SelB subfamily. 98.6 7.7E-08 1.7E-12 80.7 7.0 60 169-231 1-61 (164)
121 PRK12296 obgE GTPase CgtA; Rev 98.6 2.2E-07 4.8E-12 91.3 11.0 93 7-104 229-342 (500)
122 cd04163 Era Era subfamily. Er 98.6 3.8E-07 8.1E-12 76.1 10.9 91 7-100 75-167 (168)
123 cd01878 HflX HflX subfamily. 98.6 2.2E-07 4.8E-12 81.4 9.9 89 4-100 110-203 (204)
124 cd04164 trmE TrmE (MnmE, ThdF, 98.6 3E-07 6.4E-12 76.3 9.5 86 5-101 71-156 (157)
125 TIGR00231 small_GTP small GTP- 98.6 1.5E-07 3.2E-12 77.7 7.5 58 169-232 2-61 (161)
126 cd01884 EF_Tu EF-Tu subfamily. 98.6 5.3E-07 1.2E-11 78.6 11.1 86 3-90 77-171 (195)
127 cd04104 p47_IIGP_like p47 (47- 98.6 1.7E-07 3.7E-12 81.9 7.9 66 168-235 1-66 (197)
128 PRK12298 obgE GTPase CgtA; Rev 98.6 3.1E-07 6.7E-12 88.4 10.0 97 6-105 229-336 (390)
129 TIGR00437 feoB ferrous iron tr 98.6 1.1E-07 2.5E-12 96.2 7.3 55 175-235 1-55 (591)
130 PTZ00327 eukaryotic translatio 98.5 6.7E-07 1.5E-11 87.6 11.5 99 3-103 129-234 (460)
131 cd00880 Era_like Era (E. coli 98.5 1.1E-06 2.3E-11 72.4 10.6 93 6-100 67-162 (163)
132 PRK10512 selenocysteinyl-tRNA- 98.5 7.6E-07 1.6E-11 90.5 11.5 99 3-103 63-167 (614)
133 cd01887 IF2_eIF5B IF2/eIF5B (i 98.5 2.6E-07 5.7E-12 77.9 6.6 57 170-232 2-61 (168)
134 cd01879 FeoB Ferrous iron tran 98.5 1.1E-06 2.4E-11 73.2 10.3 82 13-101 73-156 (158)
135 cd01897 NOG NOG1 is a nucleola 98.5 1.4E-06 2.9E-11 73.6 10.5 82 14-100 79-166 (168)
136 cd01861 Rab6 Rab6 subfamily. 98.5 4.1E-07 8.9E-12 76.2 7.2 56 170-231 2-59 (161)
137 cd04166 CysN_ATPS CysN_ATPS su 98.5 1.2E-07 2.7E-12 83.5 4.1 63 170-232 1-88 (208)
138 PRK05291 trmE tRNA modificatio 98.5 6E-07 1.3E-11 88.2 9.3 87 4-102 284-370 (449)
139 cd00880 Era_like Era (E. coli 98.5 3.1E-07 6.8E-12 75.7 6.3 59 173-236 1-60 (163)
140 cd01876 YihA_EngB The YihA (En 98.5 3.6E-07 7.9E-12 76.5 6.5 57 171-234 2-58 (170)
141 PRK12297 obgE GTPase CgtA; Rev 98.5 8.9E-07 1.9E-11 85.8 9.9 92 6-105 228-330 (424)
142 PF02421 FeoB_N: Ferrous iron 98.5 1.9E-07 4.2E-12 78.0 4.6 78 13-97 77-156 (156)
143 COG0218 Predicted GTPase [Gene 98.5 2.1E-06 4.5E-11 73.7 10.9 87 14-102 106-197 (200)
144 COG4917 EutP Ethanolamine util 98.4 1.3E-06 2.9E-11 68.7 8.5 85 8-98 58-142 (148)
145 TIGR00475 selB selenocysteine- 98.4 1.4E-06 3E-11 88.2 11.1 99 3-103 62-167 (581)
146 cd04160 Arfrp1 Arfrp1 subfamil 98.4 1.1E-06 2.3E-11 74.1 8.7 89 8-98 67-165 (167)
147 cd04156 ARLTS1 ARLTS1 subfamil 98.4 9.4E-07 2E-11 73.9 8.2 88 9-98 62-158 (160)
148 cd01886 EF-G Elongation factor 98.4 5.1E-07 1.1E-11 82.8 6.8 64 170-233 1-76 (270)
149 PRK04000 translation initiatio 98.4 2.2E-06 4.8E-11 83.3 11.5 99 3-103 97-202 (411)
150 cd04158 ARD1 ARD1 subfamily. 98.4 1.1E-06 2.3E-11 74.7 8.1 95 8-104 60-163 (169)
151 PRK00454 engB GTP-binding prot 98.4 3E-06 6.5E-11 73.5 11.0 88 11-103 103-195 (196)
152 KOG1486|consensus 98.4 4.6E-07 9.9E-12 79.7 5.6 62 167-234 61-122 (364)
153 cd04154 Arl2 Arl2 subfamily. 98.4 1.2E-06 2.5E-11 74.7 8.1 88 9-98 76-171 (173)
154 TIGR03680 eif2g_arch translati 98.4 2.8E-06 6E-11 82.6 11.6 98 3-102 92-196 (406)
155 PTZ00099 rab6; Provisional 98.4 4E-06 8.6E-11 71.9 11.3 92 9-105 47-145 (176)
156 cd04124 RabL2 RabL2 subfamily. 98.4 1.9E-06 4.2E-11 72.5 9.2 88 9-102 67-158 (161)
157 cd04149 Arf6 Arf6 subfamily. 98.4 1.3E-06 2.7E-11 74.3 8.1 87 10-98 72-166 (168)
158 cd01887 IF2_eIF5B IF2/eIF5B (i 98.4 4.6E-06 1E-10 70.2 11.3 90 10-101 69-165 (168)
159 cd01881 Obg_like The Obg-like 98.4 1.1E-06 2.4E-11 74.6 7.5 89 6-99 66-174 (176)
160 smart00178 SAR Sar1p-like memb 98.4 1.7E-06 3.7E-11 74.6 8.7 90 8-99 78-182 (184)
161 cd01889 SelB_euk SelB subfamil 98.4 4.9E-07 1.1E-11 78.5 5.2 64 169-232 1-79 (192)
162 cd04150 Arf1_5_like Arf1-Arf5- 98.4 1.8E-06 4E-11 72.6 8.5 88 9-98 62-157 (159)
163 cd04151 Arl1 Arl1 subfamily. 98.4 2.2E-06 4.9E-11 71.7 9.0 88 9-98 61-156 (158)
164 PRK11058 GTPase HflX; Provisio 98.4 2.8E-06 6E-11 82.8 10.7 93 4-103 266-363 (426)
165 cd01863 Rab18 Rab18 subfamily. 98.4 9.4E-07 2E-11 74.0 6.6 59 169-232 1-60 (161)
166 cd01891 TypA_BipA TypA (tyrosi 98.4 3.6E-06 7.8E-11 73.2 10.4 85 6-92 80-172 (194)
167 KOG1489|consensus 98.3 1.4E-06 3E-11 79.3 7.8 89 7-100 267-365 (366)
168 cd00154 Rab Rab family. Rab G 98.3 7.8E-07 1.7E-11 73.6 5.8 58 169-232 1-60 (159)
169 PRK13768 GTPase; Provisional 98.3 2.2E-06 4.7E-11 77.9 9.2 95 6-103 118-248 (253)
170 cd01893 Miro1 Miro1 subfamily. 98.3 2.9E-06 6.3E-11 71.7 9.2 93 7-101 63-163 (166)
171 cd04152 Arl4_Arl7 Arl4/Arl7 su 98.3 3.2E-06 6.9E-11 72.9 9.6 90 11-102 72-170 (183)
172 cd04153 Arl5_Arl8 Arl5/Arl8 su 98.3 2E-06 4.3E-11 73.4 8.2 88 9-98 77-172 (174)
173 KOG1423|consensus 98.3 1.9E-06 4.1E-11 78.0 8.3 101 3-105 144-274 (379)
174 cd04142 RRP22 RRP22 subfamily. 98.3 7.8E-07 1.7E-11 77.8 5.8 59 169-233 1-61 (198)
175 cd04145 M_R_Ras_like M-Ras/R-R 98.3 3.6E-06 7.9E-11 70.5 9.6 88 9-101 68-163 (164)
176 TIGR03598 GTPase_YsxC ribosome 98.3 2.3E-06 5.1E-11 73.4 8.5 76 13-91 99-179 (179)
177 smart00177 ARF ARF-like small 98.3 2.8E-06 6E-11 72.7 9.0 90 10-101 76-173 (175)
178 cd04157 Arl6 Arl6 subfamily. 98.3 3.2E-06 6.9E-11 70.7 9.2 88 9-98 63-160 (162)
179 cd04166 CysN_ATPS CysN_ATPS su 98.3 3.1E-06 6.7E-11 74.6 9.4 87 5-93 91-185 (208)
180 cd01890 LepA LepA subfamily. 98.3 1.7E-06 3.6E-11 73.9 7.4 64 170-233 2-79 (179)
181 PLN03118 Rab family protein; P 98.3 1.3E-06 2.7E-11 77.1 6.8 62 166-233 12-74 (211)
182 COG0536 Obg Predicted GTPase [ 98.3 2E-06 4.4E-11 79.1 8.1 94 7-104 230-335 (369)
183 cd01860 Rab5_related Rab5-rela 98.3 1.3E-06 2.9E-11 73.2 6.5 58 169-231 2-60 (163)
184 cd01866 Rab2 Rab2 subfamily. 98.3 1.3E-06 2.9E-11 73.9 6.6 59 168-231 4-63 (168)
185 TIGR01393 lepA GTP-binding pro 98.3 5.5E-06 1.2E-10 84.1 11.9 98 4-104 83-182 (595)
186 PRK12317 elongation factor 1-a 98.3 8.4E-07 1.8E-11 86.8 5.8 67 166-232 4-95 (425)
187 cd01868 Rab11_like Rab11-like. 98.3 1.5E-06 3.2E-11 73.2 6.6 59 169-232 4-63 (165)
188 cd04119 RJL RJL (RabJ-Like) su 98.3 1.6E-06 3.4E-11 72.9 6.5 59 169-232 1-60 (168)
189 PRK05433 GTP-binding protein L 98.3 6.5E-06 1.4E-10 83.6 12.1 98 4-104 87-186 (600)
190 cd00881 GTP_translation_factor 98.3 8.9E-07 1.9E-11 76.0 5.1 64 170-233 1-74 (189)
191 KOG0410|consensus 98.3 3.9E-07 8.4E-12 83.0 2.8 67 162-234 172-239 (410)
192 cd00878 Arf_Arl Arf (ADP-ribos 98.3 3.6E-06 7.7E-11 70.3 8.3 88 9-98 61-156 (158)
193 cd04127 Rab27A Rab27a subfamil 98.3 5.9E-06 1.3E-10 70.6 9.8 89 8-101 80-176 (180)
194 PLN00223 ADP-ribosylation fact 98.3 4.7E-06 1E-10 71.7 9.1 90 10-101 80-177 (181)
195 TIGR02836 spore_IV_A stage IV 98.3 1.6E-06 3.5E-11 82.2 6.6 69 165-234 14-104 (492)
196 cd04101 RabL4 RabL4 (Rab-like4 98.3 5.6E-06 1.2E-10 69.5 9.4 86 8-100 69-162 (164)
197 cd04155 Arl3 Arl3 subfamily. 98.3 2E-06 4.4E-11 72.9 6.7 58 166-232 12-69 (173)
198 cd00879 Sar1 Sar1 subfamily. 98.3 3.6E-06 7.8E-11 72.7 8.3 90 9-100 81-189 (190)
199 cd01892 Miro2 Miro2 subfamily. 98.3 2.4E-06 5.2E-11 72.6 7.0 88 10-101 73-165 (169)
200 cd04160 Arfrp1 Arfrp1 subfamil 98.3 1.4E-06 3E-11 73.5 5.4 62 170-233 1-62 (167)
201 cd01884 EF_Tu EF-Tu subfamily. 98.3 1.5E-06 3.2E-11 75.8 5.7 65 168-232 2-76 (195)
202 smart00175 RAB Rab subfamily o 98.3 6.2E-06 1.4E-10 69.0 9.3 88 8-102 66-162 (164)
203 cd04145 M_R_Ras_like M-Ras/R-R 98.2 2.7E-06 5.7E-11 71.4 6.8 59 168-233 2-62 (164)
204 cd01876 YihA_EngB The YihA (En 98.2 1.4E-05 3E-10 66.7 11.1 89 10-100 77-169 (170)
205 cd04113 Rab4 Rab4 subfamily. 98.2 2.3E-06 4.9E-11 71.7 6.2 59 169-232 1-60 (161)
206 cd04138 H_N_K_Ras_like H-Ras/N 98.2 7.5E-06 1.6E-10 68.2 9.3 86 10-100 68-160 (162)
207 cd01864 Rab19 Rab19 subfamily. 98.2 1E-05 2.2E-10 68.2 10.2 88 8-99 69-163 (165)
208 cd04112 Rab26 Rab26 subfamily. 98.2 8.6E-06 1.9E-10 70.6 9.9 91 9-104 68-165 (191)
209 cd01865 Rab3 Rab3 subfamily. 98.2 1.1E-05 2.3E-10 68.1 10.2 87 9-102 68-163 (165)
210 cd00877 Ran Ran (Ras-related n 98.2 6.6E-06 1.4E-10 69.6 8.9 88 10-102 68-159 (166)
211 TIGR02034 CysN sulfate adenyly 98.2 9.4E-06 2E-10 78.9 11.1 88 3-92 92-187 (406)
212 smart00175 RAB Rab subfamily o 98.2 3.7E-06 8E-11 70.4 7.2 57 169-231 1-59 (164)
213 cd04139 RalA_RalB RalA/RalB su 98.2 1.1E-05 2.3E-10 67.5 10.0 88 9-101 66-161 (164)
214 cd01862 Rab7 Rab7 subfamily. 98.2 1.2E-05 2.6E-10 67.9 10.4 91 8-102 66-167 (172)
215 PRK12736 elongation factor Tu; 98.2 1.1E-05 2.5E-10 78.0 11.4 100 3-102 87-201 (394)
216 TIGR00484 EF-G translation elo 98.2 4.4E-06 9.6E-11 86.5 9.1 67 168-234 10-88 (689)
217 cd01862 Rab7 Rab7 subfamily. 98.2 2.8E-06 6.2E-11 71.8 6.5 59 169-232 1-60 (172)
218 cd04154 Arl2 Arl2 subfamily. 98.2 3.4E-06 7.3E-11 71.8 6.9 57 167-232 13-69 (173)
219 cd01865 Rab3 Rab3 subfamily. 98.2 2.9E-06 6.3E-11 71.6 6.5 59 169-232 2-61 (165)
220 cd01869 Rab1_Ypt1 Rab1/Ypt1 su 98.2 9.9E-06 2.2E-10 68.2 9.7 86 9-101 69-163 (166)
221 PTZ00133 ADP-ribosylation fact 98.2 9.1E-06 2E-10 70.0 9.6 92 9-102 79-178 (182)
222 PRK15467 ethanolamine utilizat 98.2 2.9E-06 6.3E-11 71.4 6.3 21 170-190 3-23 (158)
223 cd01861 Rab6 Rab6 subfamily. 98.2 9.4E-06 2E-10 67.8 9.3 88 8-100 66-160 (161)
224 cd01867 Rab8_Rab10_Rab13_like 98.2 3.2E-06 7E-11 71.4 6.4 60 168-232 3-63 (167)
225 cd04119 RJL RJL (RabJ-Like) su 98.2 9.7E-06 2.1E-10 68.0 9.3 87 9-100 67-165 (168)
226 cd01866 Rab2 Rab2 subfamily. 98.2 1.4E-05 3E-10 67.7 10.2 87 8-101 70-165 (168)
227 cd04122 Rab14 Rab14 subfamily. 98.2 1.2E-05 2.6E-10 67.8 9.8 86 8-100 68-162 (166)
228 cd01869 Rab1_Ypt1 Rab1/Ypt1 su 98.2 4.8E-06 1E-10 70.1 7.3 58 169-232 3-62 (166)
229 cd04138 H_N_K_Ras_like H-Ras/N 98.2 3.9E-06 8.5E-11 70.0 6.7 23 169-191 2-24 (162)
230 smart00173 RAS Ras subfamily o 98.2 1.1E-05 2.4E-10 67.7 9.4 88 10-102 67-162 (164)
231 cd01867 Rab8_Rab10_Rab13_like 98.2 1.4E-05 3.1E-10 67.5 10.1 86 9-101 70-164 (167)
232 CHL00071 tufA elongation facto 98.2 2.9E-06 6.2E-11 82.6 6.6 68 165-232 9-86 (409)
233 cd04159 Arl10_like Arl10-like 98.2 9.9E-06 2.1E-10 67.0 9.0 90 8-99 61-158 (159)
234 cd04136 Rap_like Rap-like subf 98.2 9.6E-06 2.1E-10 67.8 9.0 86 10-100 68-161 (163)
235 cd04157 Arl6 Arl6 subfamily. 98.2 3.1E-06 6.7E-11 70.8 6.0 57 170-233 1-57 (162)
236 cd04121 Rab40 Rab40 subfamily. 98.2 1.3E-05 2.9E-10 69.5 10.0 88 10-102 74-167 (189)
237 cd04106 Rab23_lke Rab23-like s 98.2 1.2E-05 2.7E-10 67.1 9.6 84 9-99 69-160 (162)
238 cd04170 EF-G_bact Elongation f 98.2 2.9E-06 6.3E-11 77.8 6.1 21 170-190 1-21 (268)
239 smart00178 SAR Sar1p-like memb 98.2 4.5E-06 9.9E-11 72.0 7.0 59 166-233 15-73 (184)
240 cd04120 Rab12 Rab12 subfamily. 98.2 1.3E-05 2.8E-10 70.3 9.9 88 9-101 67-162 (202)
241 cd01864 Rab19 Rab19 subfamily. 98.2 5.3E-06 1.1E-10 69.9 7.2 59 168-231 3-62 (165)
242 cd04107 Rab32_Rab38 Rab38/Rab3 98.2 1.1E-05 2.4E-10 70.5 9.3 91 9-103 68-169 (201)
243 cd01891 TypA_BipA TypA (tyrosi 98.2 3.1E-06 6.7E-11 73.6 5.6 64 170-233 4-77 (194)
244 cd04108 Rab36_Rab34 Rab34/Rab3 98.2 1.4E-05 3E-10 68.0 9.5 90 9-103 67-166 (170)
245 cd04139 RalA_RalB RalA/RalB su 98.2 4E-06 8.6E-11 70.1 6.1 58 169-233 1-60 (164)
246 cd04175 Rap1 Rap1 subgroup. T 98.2 4.6E-06 1E-10 70.1 6.4 58 169-233 2-61 (164)
247 PF00350 Dynamin_N: Dynamin fa 98.1 3.4E-06 7.3E-11 71.4 5.5 22 171-192 1-22 (168)
248 cd04156 ARLTS1 ARLTS1 subfamil 98.1 4.8E-06 1E-10 69.6 6.4 55 170-232 1-55 (160)
249 cd04109 Rab28 Rab28 subfamily. 98.1 1.3E-05 2.8E-10 71.0 9.5 88 10-102 69-166 (215)
250 cd04123 Rab21 Rab21 subfamily. 98.1 1.1E-05 2.5E-10 67.1 8.7 86 10-100 68-160 (162)
251 cd04168 TetM_like Tet(M)-like 98.1 7.5E-06 1.6E-10 73.7 7.9 64 170-233 1-76 (237)
252 CHL00071 tufA elongation facto 98.1 1.5E-05 3.2E-10 77.6 10.4 83 3-85 87-178 (409)
253 cd04106 Rab23_lke Rab23-like s 98.1 5.4E-06 1.2E-10 69.4 6.5 22 169-190 1-22 (162)
254 cd01868 Rab11_like Rab11-like. 98.1 1.7E-05 3.6E-10 66.7 9.5 85 9-100 70-163 (165)
255 cd01860 Rab5_related Rab5-rela 98.1 2E-05 4.3E-10 66.0 9.9 87 10-101 69-162 (163)
256 PF00025 Arf: ADP-ribosylation 98.1 7E-06 1.5E-10 70.3 7.1 89 10-100 77-174 (175)
257 cd04113 Rab4 Rab4 subfamily. 98.1 1.8E-05 3.8E-10 66.3 9.4 87 8-99 66-159 (161)
258 cd00154 Rab Rab family. Rab G 98.1 1.8E-05 3.8E-10 65.3 9.3 86 8-98 66-158 (159)
259 cd04175 Rap1 Rap1 subgroup. T 98.1 1.6E-05 3.4E-10 66.9 9.0 87 10-101 68-162 (164)
260 cd04124 RabL2 RabL2 subfamily. 98.1 5.3E-06 1.1E-10 69.8 6.1 22 169-190 1-22 (161)
261 cd00878 Arf_Arl Arf (ADP-ribos 98.1 5.1E-06 1.1E-10 69.4 6.0 55 170-233 1-55 (158)
262 cd01883 EF1_alpha Eukaryotic e 98.1 1.4E-05 3.1E-10 71.0 9.0 85 5-91 91-194 (219)
263 PRK00007 elongation factor G; 98.1 6.3E-06 1.4E-10 85.4 7.7 66 168-233 10-87 (693)
264 smart00176 RAN Ran (Ras-relate 98.1 1.7E-05 3.7E-10 69.4 9.4 88 10-102 63-154 (200)
265 cd04153 Arl5_Arl8 Arl5/Arl8 su 98.1 6.8E-06 1.5E-10 70.1 6.7 57 167-232 14-70 (174)
266 cd04123 Rab21 Rab21 subfamily. 98.1 8.3E-06 1.8E-10 68.0 7.1 58 169-232 1-60 (162)
267 cd01863 Rab18 Rab18 subfamily. 98.1 2.1E-05 4.6E-10 65.7 9.6 84 9-99 67-159 (161)
268 cd04132 Rho4_like Rho4-like su 98.1 1.9E-05 4.1E-10 68.0 9.5 90 10-103 68-168 (187)
269 cd04112 Rab26 Rab26 subfamily. 98.1 7.4E-06 1.6E-10 71.0 6.9 22 169-190 1-22 (191)
270 cd04118 Rab24 Rab24 subfamily. 98.1 1.7E-05 3.7E-10 68.6 9.2 87 11-102 70-166 (193)
271 cd04142 RRP22 RRP22 subfamily. 98.1 1.7E-05 3.6E-10 69.4 9.1 89 8-101 74-173 (198)
272 smart00173 RAS Ras subfamily o 98.1 5.1E-06 1.1E-10 69.7 5.7 58 169-233 1-60 (164)
273 cd04110 Rab35 Rab35 subfamily. 98.1 2.1E-05 4.6E-10 68.7 9.7 87 9-102 73-167 (199)
274 cd04141 Rit_Rin_Ric Rit/Rin/Ri 98.1 1.7E-05 3.7E-10 67.6 8.9 87 10-101 69-163 (172)
275 cd04149 Arf6 Arf6 subfamily. 98.1 8E-06 1.7E-10 69.3 6.8 57 167-232 8-64 (168)
276 cd04114 Rab30 Rab30 subfamily. 98.1 2.6E-05 5.7E-10 65.7 10.0 89 8-100 73-167 (169)
277 cd04136 Rap_like Rap-like subf 98.1 6.7E-06 1.5E-10 68.8 6.2 58 169-233 2-61 (163)
278 cd00157 Rho Rho (Ras homology) 98.1 6.4E-06 1.4E-10 69.5 6.1 23 169-191 1-23 (171)
279 cd04147 Ras_dva Ras-dva subfam 98.1 1.6E-05 3.4E-10 69.4 8.7 88 10-102 66-163 (198)
280 TIGR00450 mnmE_trmE_thdF tRNA 98.1 2.1E-05 4.5E-10 77.1 10.3 88 4-102 272-360 (442)
281 cd04176 Rap2 Rap2 subgroup. T 98.1 1.7E-05 3.7E-10 66.5 8.5 86 10-100 68-161 (163)
282 cd04116 Rab9 Rab9 subfamily. 98.1 8.3E-06 1.8E-10 69.0 6.5 24 167-190 4-27 (170)
283 cd00879 Sar1 Sar1 subfamily. 98.1 9E-06 2E-10 70.2 6.8 57 167-232 18-74 (190)
284 PRK12317 elongation factor 1-a 98.1 1.9E-05 4.1E-10 77.3 9.8 87 4-92 97-195 (425)
285 cd00876 Ras Ras family. The R 98.1 6E-06 1.3E-10 68.7 5.5 57 170-233 1-59 (160)
286 PRK12735 elongation factor Tu; 98.1 6.6E-06 1.4E-10 79.7 6.5 68 165-232 9-86 (396)
287 cd04114 Rab30 Rab30 subfamily. 98.1 1.3E-05 2.8E-10 67.6 7.5 60 167-232 6-67 (169)
288 PRK00049 elongation factor Tu; 98.1 3E-05 6.5E-10 75.1 10.9 100 3-102 87-203 (396)
289 TIGR00487 IF-2 translation ini 98.1 8.8E-06 1.9E-10 82.3 7.4 62 166-233 85-147 (587)
290 PTZ00369 Ras-like protein; Pro 98.1 2.2E-05 4.8E-10 67.9 9.0 88 10-102 72-167 (189)
291 cd04140 ARHI_like ARHI subfami 98.1 8.2E-06 1.8E-10 68.8 6.2 59 169-233 2-61 (165)
292 cd04137 RheB Rheb (Ras Homolog 98.1 7.9E-06 1.7E-10 69.9 6.1 22 169-190 2-23 (180)
293 cd04177 RSR1 RSR1 subgroup. R 98.1 8.1E-06 1.8E-10 69.0 6.1 22 169-190 2-23 (168)
294 PRK12739 elongation factor G; 98.1 6.2E-06 1.3E-10 85.5 6.4 66 168-233 8-85 (691)
295 cd04162 Arl9_Arfrp2_like Arl9/ 98.1 1.1E-05 2.4E-10 68.2 6.8 85 9-98 62-162 (164)
296 cd00877 Ran Ran (Ras-related n 98.0 9E-06 1.9E-10 68.8 6.2 60 169-233 1-61 (166)
297 cd04122 Rab14 Rab14 subfamily. 98.0 1E-05 2.2E-10 68.2 6.5 22 169-190 3-24 (166)
298 cd04144 Ras2 Ras2 subfamily. 98.0 3.4E-05 7.4E-10 66.8 9.8 88 10-102 66-163 (190)
299 cd04155 Arl3 Arl3 subfamily. 98.0 2.7E-05 5.9E-10 65.9 9.0 88 9-98 76-171 (173)
300 PRK05506 bifunctional sulfate 98.0 3.1E-05 6.8E-10 79.5 11.1 88 3-92 116-211 (632)
301 cd04118 Rab24 Rab24 subfamily. 98.0 8.8E-06 1.9E-10 70.5 6.1 22 169-190 1-22 (193)
302 cd04140 ARHI_like ARHI subfami 98.0 2.9E-05 6.4E-10 65.4 9.2 85 10-99 68-162 (165)
303 cd04110 Rab35 Rab35 subfamily. 98.0 1.2E-05 2.6E-10 70.2 6.9 61 167-232 5-66 (199)
304 cd04161 Arl2l1_Arl13_like Arl2 98.0 1.1E-05 2.4E-10 68.3 6.4 54 170-232 1-54 (167)
305 PRK04213 GTP-binding protein; 98.0 4.3E-05 9.3E-10 66.6 10.3 87 11-103 87-193 (201)
306 cd04152 Arl4_Arl7 Arl4/Arl7 su 98.0 1.3E-05 2.9E-10 68.9 6.9 59 168-232 3-63 (183)
307 cd04158 ARD1 ARD1 subfamily. 98.0 1E-05 2.2E-10 68.6 6.0 55 170-233 1-55 (169)
308 cd04169 RF3 RF3 subfamily. Pe 98.0 1.5E-05 3.2E-10 73.0 7.4 21 170-190 4-24 (267)
309 cd04148 RGK RGK subfamily. Th 98.0 2.3E-05 5E-10 69.7 8.5 84 14-102 72-163 (221)
310 cd04128 Spg1 Spg1p. Spg1p (se 98.0 2.4E-05 5.3E-10 67.4 8.3 88 10-102 68-166 (182)
311 cd04151 Arl1 Arl1 subfamily. 98.0 1.2E-05 2.6E-10 67.2 6.2 55 170-233 1-55 (158)
312 cd01893 Miro1 Miro1 subfamily. 98.0 1.2E-05 2.7E-10 67.8 6.3 59 169-233 1-59 (166)
313 TIGR00483 EF-1_alpha translati 98.0 3E-05 6.4E-10 75.9 9.8 88 3-92 97-197 (426)
314 cd04115 Rab33B_Rab33A Rab33B/R 98.0 1.4E-05 3E-10 67.8 6.6 60 168-232 2-62 (170)
315 cd04125 RabA_like RabA-like su 98.0 1.2E-05 2.5E-10 69.5 6.2 59 169-232 1-60 (188)
316 PLN03127 Elongation factor Tu; 98.0 1.3E-05 2.8E-10 78.7 7.2 68 165-232 58-135 (447)
317 TIGR00485 EF-Tu translation el 98.0 3.8E-05 8.1E-10 74.4 10.3 97 3-101 87-200 (394)
318 PLN03118 Rab family protein; P 98.0 4.8E-05 1E-09 67.0 10.1 90 9-103 80-178 (211)
319 cd04130 Wrch_1 Wrch-1 subfamil 98.0 2.5E-05 5.3E-10 66.5 8.0 83 11-97 68-169 (173)
320 PRK05124 cysN sulfate adenylyl 98.0 3.2E-05 7E-10 76.5 9.9 89 3-93 119-216 (474)
321 cd04126 Rab20 Rab20 subfamily. 98.0 3.8E-05 8.2E-10 68.3 9.3 91 10-102 63-190 (220)
322 cd04132 Rho4_like Rho4-like su 98.0 1.9E-05 4.2E-10 67.9 7.3 22 169-190 1-22 (187)
323 CHL00189 infB translation init 98.0 5.2E-05 1.1E-09 78.2 11.5 91 8-101 312-409 (742)
324 PLN03071 GTP-binding nuclear p 98.0 1.7E-05 3.7E-10 70.4 7.0 63 166-233 11-74 (219)
325 PTZ00133 ADP-ribosylation fact 98.0 1.7E-05 3.7E-10 68.3 6.8 57 167-232 16-72 (182)
326 PLN03127 Elongation factor Tu; 98.0 5.2E-05 1.1E-09 74.5 10.9 98 3-102 136-252 (447)
327 cd00157 Rho Rho (Ras homology) 98.0 2.2E-05 4.8E-10 66.2 7.3 85 11-99 68-170 (171)
328 PRK12735 elongation factor Tu; 98.0 4.9E-05 1.1E-09 73.7 10.6 100 3-102 87-203 (396)
329 cd04101 RabL4 RabL4 (Rab-like4 98.0 2.3E-05 4.9E-10 65.8 7.2 22 169-190 1-22 (164)
330 PLN03071 GTP-binding nuclear p 98.0 2.7E-05 5.9E-10 69.1 8.0 87 11-102 82-172 (219)
331 TIGR01394 TypA_BipA GTP-bindin 98.0 4.2E-05 9.1E-10 77.6 10.3 99 4-104 77-193 (594)
332 smart00174 RHO Rho (Ras homolo 98.0 3.5E-05 7.5E-10 65.3 8.2 86 11-100 66-170 (174)
333 cd04125 RabA_like RabA-like su 98.0 5E-05 1.1E-09 65.5 9.3 88 8-102 66-162 (188)
334 cd04109 Rab28 Rab28 subfamily. 98.0 2.6E-05 5.6E-10 69.0 7.6 58 169-232 1-61 (215)
335 cd00876 Ras Ras family. The R 98.0 5.8E-05 1.3E-09 62.7 9.4 87 8-99 64-158 (160)
336 cd04144 Ras2 Ras2 subfamily. 98.0 1.2E-05 2.7E-10 69.5 5.4 21 170-190 1-21 (190)
337 TIGR00437 feoB ferrous iron tr 98.0 4E-05 8.8E-10 77.8 9.9 83 12-101 70-154 (591)
338 cd04127 Rab27A Rab27a subfamil 98.0 2.5E-05 5.4E-10 66.7 7.2 24 168-191 4-27 (180)
339 TIGR00491 aIF-2 translation in 98.0 6.4E-05 1.4E-09 76.0 11.2 91 9-101 87-215 (590)
340 cd04111 Rab39 Rab39 subfamily. 97.9 5E-05 1.1E-09 67.1 9.3 90 9-103 70-167 (211)
341 PRK05306 infB translation init 97.9 1.6E-05 3.5E-10 82.5 7.0 62 166-233 288-349 (787)
342 cd00882 Ras_like_GTPase Ras-li 97.9 4.7E-05 1E-09 61.7 8.5 85 9-98 63-156 (157)
343 TIGR00231 small_GTP small GTP- 97.9 1.4E-05 3E-10 65.6 5.3 53 42-98 108-160 (161)
344 KOG2486|consensus 97.9 1.7E-05 3.7E-10 71.1 6.0 63 166-235 134-197 (320)
345 cd04176 Rap2 Rap2 subgroup. T 97.9 1.9E-05 4E-10 66.3 6.1 22 169-190 2-23 (163)
346 cd04107 Rab32_Rab38 Rab38/Rab3 97.9 3.2E-05 6.8E-10 67.6 7.7 22 169-190 1-22 (201)
347 cd01882 BMS1 Bms1. Bms1 is an 97.9 5E-05 1.1E-09 67.8 9.1 80 6-85 95-181 (225)
348 cd01873 RhoBTB RhoBTB subfamil 97.9 4.4E-05 9.4E-10 66.6 8.5 84 11-99 84-193 (195)
349 cd04116 Rab9 Rab9 subfamily. 97.9 8.9E-05 1.9E-09 62.6 10.2 86 10-99 73-168 (170)
350 cd04146 RERG_RasL11_like RERG/ 97.9 4.2E-05 9.2E-10 64.3 8.2 89 8-101 65-163 (165)
351 cd04133 Rop_like Rop subfamily 97.9 5.3E-05 1.2E-09 64.9 8.8 88 10-101 68-172 (176)
352 cd04159 Arl10_like Arl10-like 97.9 1.9E-05 4.2E-10 65.2 5.9 54 171-232 2-55 (159)
353 PLN03108 Rab family protein; P 97.9 8E-05 1.7E-09 65.6 10.1 89 8-101 72-167 (210)
354 KOG0462|consensus 97.9 4.1E-05 9E-10 74.4 8.6 94 8-104 142-237 (650)
355 cd01871 Rac1_like Rac1-like su 97.9 4.9E-05 1.1E-09 64.9 8.4 86 10-99 68-172 (174)
356 PRK00049 elongation factor Tu; 97.9 1.7E-05 3.6E-10 76.9 6.1 67 166-232 10-86 (396)
357 COG0532 InfB Translation initi 97.9 7E-05 1.5E-09 73.0 10.1 94 4-100 67-168 (509)
358 TIGR00487 IF-2 translation ini 97.9 6.6E-05 1.4E-09 76.0 10.5 88 9-99 153-247 (587)
359 PLN03126 Elongation factor Tu; 97.9 7.7E-05 1.7E-09 73.7 10.7 84 2-85 155-247 (478)
360 PF08477 Miro: Miro-like prote 97.9 1.7E-05 3.6E-10 62.9 5.0 62 170-233 1-62 (119)
361 cd04146 RERG_RasL11_like RERG/ 97.9 1.5E-05 3.2E-10 67.1 4.9 56 170-233 1-59 (165)
362 cd04111 Rab39 Rab39 subfamily. 97.9 3.7E-05 7.9E-10 67.9 7.6 58 169-232 3-63 (211)
363 PLN03110 Rab GTPase; Provision 97.9 2.9E-05 6.3E-10 68.8 6.9 61 167-232 11-72 (216)
364 cd04150 Arf1_5_like Arf1-Arf5- 97.9 3.1E-05 6.6E-10 65.1 6.7 55 169-232 1-55 (159)
365 cd04135 Tc10 TC10 subfamily. 97.9 3.1E-05 6.6E-10 65.7 6.7 22 169-190 1-22 (174)
366 PRK05306 infB translation init 97.9 7.1E-05 1.5E-09 77.8 10.6 88 9-99 355-449 (787)
367 KOG1191|consensus 97.9 2.8E-05 6E-10 74.8 6.8 98 3-102 337-450 (531)
368 PF00009 GTP_EFTU: Elongation 97.9 3.9E-05 8.5E-10 66.3 7.3 65 168-232 3-81 (188)
369 PRK09554 feoB ferrous iron tra 97.9 7.9E-05 1.7E-09 77.7 10.7 84 12-102 83-168 (772)
370 PRK14845 translation initiatio 97.9 9.5E-05 2.1E-09 78.8 11.3 91 10-102 545-673 (1049)
371 TIGR02528 EutP ethanolamine ut 97.9 1.6E-05 3.5E-10 65.2 4.3 21 170-190 2-22 (142)
372 PLN03110 Rab GTPase; Provision 97.9 0.00011 2.4E-09 65.1 10.0 88 9-103 79-175 (216)
373 PRK10218 GTP-binding protein; 97.9 9.4E-05 2E-09 75.1 10.6 99 4-104 81-197 (607)
374 smart00174 RHO Rho (Ras homolo 97.9 3E-05 6.6E-10 65.7 6.1 57 171-233 1-58 (174)
375 cd04108 Rab36_Rab34 Rab34/Rab3 97.9 3.3E-05 7.2E-10 65.7 6.3 57 170-232 2-60 (170)
376 KOG0075|consensus 97.9 0.00018 3.9E-09 58.4 10.0 93 5-102 78-182 (186)
377 PTZ00369 Ras-like protein; Pro 97.9 3.5E-05 7.7E-10 66.6 6.5 60 168-233 5-65 (189)
378 cd04174 Rnd1_Rho6 Rnd1/Rho6 su 97.9 0.00014 2.9E-09 65.2 10.4 88 10-101 80-187 (232)
379 PRK05506 bifunctional sulfate 97.8 1.5E-05 3.2E-10 81.9 4.7 25 166-190 22-46 (632)
380 cd04115 Rab33B_Rab33A Rab33B/R 97.8 0.00011 2.4E-09 62.2 9.3 86 10-100 71-167 (170)
381 cd04148 RGK RGK subfamily. Th 97.8 3E-05 6.5E-10 69.0 6.1 22 169-190 1-22 (221)
382 cd04117 Rab15 Rab15 subfamily. 97.8 0.00013 2.8E-09 61.3 9.5 84 9-99 67-159 (161)
383 cd04134 Rho3 Rho3 subfamily. 97.8 6.2E-05 1.3E-09 65.1 7.8 88 11-102 68-174 (189)
384 cd04161 Arl2l1_Arl13_like Arl2 97.8 7E-05 1.5E-09 63.4 8.0 91 9-99 61-166 (167)
385 cd01874 Cdc42 Cdc42 subfamily. 97.8 7E-05 1.5E-09 64.0 8.0 86 10-99 68-172 (175)
386 KOG1487|consensus 97.8 2.4E-05 5.3E-10 69.3 5.0 60 169-234 60-119 (358)
387 cd04117 Rab15 Rab15 subfamily. 97.8 4E-05 8.8E-10 64.4 6.2 22 169-190 1-22 (161)
388 smart00177 ARF ARF-like small 97.8 5.1E-05 1.1E-09 64.8 7.0 58 167-233 12-69 (175)
389 COG3276 SelB Selenocysteine-sp 97.8 0.00017 3.7E-09 68.7 10.9 99 2-102 61-162 (447)
390 cd04135 Tc10 TC10 subfamily. 97.8 9.4E-05 2E-09 62.7 8.4 85 11-99 68-171 (174)
391 PRK12736 elongation factor Tu; 97.8 3.9E-05 8.5E-10 74.3 6.8 68 165-232 9-86 (394)
392 cd01870 RhoA_like RhoA-like su 97.8 9.3E-05 2E-09 62.7 8.4 86 11-100 69-173 (175)
393 TIGR00475 selB selenocysteine- 97.8 3.9E-05 8.5E-10 77.8 7.0 60 169-231 1-60 (581)
394 cd04141 Rit_Rin_Ric Rit/Rin/Ri 97.8 5.4E-05 1.2E-09 64.5 6.8 23 168-190 2-24 (172)
395 PLN00223 ADP-ribosylation fact 97.8 5.9E-05 1.3E-09 64.9 7.0 56 167-231 16-71 (181)
396 PLN03108 Rab family protein; P 97.8 4.7E-05 1E-09 67.1 6.5 60 168-232 6-66 (210)
397 cd01870 RhoA_like RhoA-like su 97.8 5E-05 1.1E-09 64.4 6.4 22 169-190 2-23 (175)
398 TIGR00485 EF-Tu translation el 97.8 4.2E-05 9.2E-10 74.1 6.6 67 166-232 10-86 (394)
399 cd04172 Rnd3_RhoE_Rho8 Rnd3/Rh 97.8 9.7E-05 2.1E-09 63.7 8.1 86 10-99 72-177 (182)
400 CHL00189 infB translation init 97.8 4E-05 8.7E-10 79.0 6.5 61 166-232 242-306 (742)
401 cd01875 RhoG RhoG subfamily. 97.8 0.00011 2.3E-09 63.8 8.1 87 11-101 71-176 (191)
402 cd04168 TetM_like Tet(M)-like 97.8 0.00027 5.9E-09 63.5 10.8 54 4-57 77-131 (237)
403 COG2895 CysN GTPases - Sulfate 97.8 5.9E-05 1.3E-09 69.8 6.5 83 6-91 101-192 (431)
404 cd04143 Rhes_like Rhes_like su 97.7 0.00029 6.2E-09 63.8 10.9 87 11-102 68-171 (247)
405 cd01882 BMS1 Bms1. Bms1 is an 97.7 6.9E-05 1.5E-09 66.9 6.7 59 165-232 36-94 (225)
406 PRK04004 translation initiatio 97.7 0.00025 5.5E-09 71.9 11.5 88 10-99 90-215 (586)
407 cd04131 Rnd Rnd subfamily. Th 97.7 0.00016 3.5E-09 62.0 8.7 85 11-99 69-173 (178)
408 cd01871 Rac1_like Rac1-like su 97.7 7.7E-05 1.7E-09 63.7 6.6 22 169-190 2-23 (174)
409 cd04130 Wrch_1 Wrch-1 subfamil 97.7 8.9E-05 1.9E-09 63.0 7.0 58 169-233 1-60 (173)
410 COG5257 GCD11 Translation init 97.7 9.5E-05 2.1E-09 67.6 7.3 97 6-105 101-205 (415)
411 cd01885 EF2 EF2 (for archaea a 97.7 0.00023 5E-09 63.3 9.6 52 4-55 86-138 (222)
412 cd04177 RSR1 RSR1 subgroup. R 97.7 0.00018 3.9E-09 60.7 8.6 86 10-99 68-161 (168)
413 cd04126 Rab20 Rab20 subfamily. 97.7 0.00011 2.3E-09 65.4 7.2 56 169-233 1-56 (220)
414 cd01874 Cdc42 Cdc42 subfamily. 97.7 0.00011 2.4E-09 62.8 7.0 22 169-190 2-23 (175)
415 cd04147 Ras_dva Ras-dva subfam 97.7 6.2E-05 1.4E-09 65.6 5.5 57 170-233 1-59 (198)
416 COG2229 Predicted GTPase [Gene 97.7 0.0005 1.1E-08 58.1 10.5 86 10-100 87-176 (187)
417 PLN03126 Elongation factor Tu; 97.7 7E-05 1.5E-09 74.0 6.4 69 165-233 78-156 (478)
418 PTZ00141 elongation factor 1- 97.7 0.00023 5.1E-09 69.9 10.0 97 2-100 96-223 (446)
419 TIGR00491 aIF-2 translation in 97.7 7.6E-05 1.7E-09 75.5 6.6 23 168-190 4-26 (590)
420 cd04167 Snu114p Snu114p subfam 97.7 0.00026 5.5E-09 62.6 9.1 52 4-55 84-136 (213)
421 cd04103 Centaurin_gamma Centau 97.7 0.00022 4.7E-09 59.9 8.1 84 11-99 62-156 (158)
422 cd00882 Ras_like_GTPase Ras-li 97.7 4.7E-05 1E-09 61.7 4.0 55 173-234 1-58 (157)
423 cd04137 RheB Rheb (Ras Homolog 97.7 0.00028 6.1E-09 60.1 9.0 89 10-103 68-164 (180)
424 cd04134 Rho3 Rho3 subfamily. 97.6 0.00012 2.6E-09 63.3 6.7 21 170-190 2-22 (189)
425 cd04131 Rnd Rnd subfamily. Th 97.6 0.00015 3.3E-09 62.2 7.0 22 169-190 2-23 (178)
426 cd01886 EF-G Elongation factor 97.6 0.00018 4E-09 65.9 7.9 81 4-85 77-160 (270)
427 cd04104 p47_IIGP_like p47 (47- 97.6 0.00035 7.7E-09 60.9 9.4 89 12-104 78-186 (197)
428 cd04162 Arl9_Arfrp2_like Arl9/ 97.6 0.00013 2.9E-09 61.5 6.4 55 171-233 2-56 (164)
429 smart00053 DYNc Dynamin, GTPas 97.6 0.00013 2.9E-09 65.4 6.6 25 168-192 26-50 (240)
430 cd01896 DRG The developmentall 97.6 0.00024 5.3E-09 63.7 8.2 50 43-102 177-226 (233)
431 KOG0078|consensus 97.6 0.00058 1.3E-08 58.9 9.8 94 3-101 73-173 (207)
432 cd04129 Rho2 Rho2 subfamily. 97.6 0.0003 6.5E-09 60.7 8.4 87 11-101 69-172 (187)
433 PF10662 PduV-EutP: Ethanolami 97.6 9.4E-05 2E-09 60.6 4.8 22 169-190 2-23 (143)
434 PTZ00132 GTP-binding nuclear p 97.6 0.00018 3.8E-09 63.6 7.0 62 166-232 7-69 (215)
435 cd04105 SR_beta Signal recogni 97.6 0.00015 3.3E-09 63.5 6.4 56 170-233 2-60 (203)
436 PRK12739 elongation factor G; 97.6 0.00053 1.1E-08 71.2 11.0 54 4-57 86-140 (691)
437 cd04143 Rhes_like Rhes_like su 97.6 0.00015 3.2E-09 65.7 6.0 58 169-233 1-60 (247)
438 PRK05124 cysN sulfate adenylyl 97.5 0.00012 2.6E-09 72.5 5.8 66 166-231 25-117 (474)
439 cd01892 Miro2 Miro2 subfamily. 97.5 0.00024 5.2E-09 60.2 6.9 61 167-233 3-66 (169)
440 TIGR00503 prfC peptide chain r 97.5 0.0002 4.4E-09 71.7 7.5 66 167-232 10-91 (527)
441 cd01883 EF1_alpha Eukaryotic e 97.5 0.0001 2.2E-09 65.5 4.7 63 170-232 1-88 (219)
442 TIGR00483 EF-1_alpha translati 97.5 0.00015 3.2E-09 71.0 6.1 66 166-231 5-95 (426)
443 PRK09435 membrane ATPase/prote 97.5 0.00037 8E-09 65.5 8.4 86 11-103 166-261 (332)
444 KOG1145|consensus 97.5 0.00078 1.7E-08 65.8 10.6 94 3-99 212-313 (683)
445 PRK00007 elongation factor G; 97.5 0.00075 1.6E-08 70.1 11.4 54 4-57 88-142 (693)
446 COG1100 GTPase SAR1 and relate 97.5 0.00021 4.6E-09 63.0 6.4 60 169-233 6-66 (219)
447 PRK10512 selenocysteinyl-tRNA- 97.5 0.00023 5.1E-09 72.5 7.4 60 169-231 1-61 (614)
448 KOG0073|consensus 97.5 0.00021 4.7E-09 59.0 5.7 147 166-334 14-179 (185)
449 KOG0094|consensus 97.5 0.00056 1.2E-08 58.3 8.1 90 10-104 90-187 (221)
450 COG5256 TEF1 Translation elong 97.5 0.00058 1.3E-08 64.7 9.1 88 3-92 97-201 (428)
451 PF00025 Arf: ADP-ribosylation 97.5 0.00023 4.9E-09 60.9 5.9 58 166-232 12-69 (175)
452 PLN00043 elongation factor 1-a 97.5 0.00072 1.6E-08 66.5 10.0 87 3-91 97-202 (447)
453 cd04121 Rab40 Rab40 subfamily. 97.5 0.00049 1.1E-08 59.7 7.9 61 167-233 5-67 (189)
454 cd04129 Rho2 Rho2 subfamily. 97.4 0.00031 6.6E-09 60.6 6.4 22 169-190 2-23 (187)
455 PRK13351 elongation factor G; 97.4 0.00023 5E-09 74.0 6.6 66 168-233 8-85 (687)
456 KOG0072|consensus 97.4 0.00058 1.3E-08 55.3 7.3 88 11-103 82-180 (182)
457 PRK00741 prfC peptide chain re 97.4 0.0004 8.8E-09 69.5 8.0 24 167-190 9-32 (526)
458 PRK04004 translation initiatio 97.4 0.00021 4.6E-09 72.5 6.0 24 167-190 5-28 (586)
459 cd04172 Rnd3_RhoE_Rho8 Rnd3/Rh 97.4 0.00043 9.3E-09 59.6 7.1 25 167-191 4-28 (182)
460 cd04173 Rnd2_Rho7 Rnd2/Rho7 su 97.4 0.00033 7.1E-09 62.3 6.5 22 169-190 2-23 (222)
461 cd04128 Spg1 Spg1p. Spg1p (se 97.4 0.00035 7.7E-09 60.1 6.5 59 169-232 1-60 (182)
462 KOG0092|consensus 97.4 0.00044 9.5E-09 58.8 6.6 87 11-104 74-169 (200)
463 COG0370 FeoB Fe2+ transport sy 97.4 0.00025 5.5E-09 71.1 6.1 85 13-104 80-166 (653)
464 PF00071 Ras: Ras family; Int 97.4 0.0002 4.4E-09 59.7 4.8 58 170-232 1-59 (162)
465 TIGR01393 lepA GTP-binding pro 97.4 0.00054 1.2E-08 69.7 8.5 65 170-234 5-83 (595)
466 cd04120 Rab12 Rab12 subfamily. 97.4 0.0005 1.1E-08 60.2 7.2 57 170-232 2-60 (202)
467 cd04133 Rop_like Rop subfamily 97.4 0.00049 1.1E-08 58.9 6.9 59 169-233 2-61 (176)
468 COG0481 LepA Membrane GTPase L 97.4 0.00068 1.5E-08 65.2 8.3 93 9-104 94-188 (603)
469 KOG0076|consensus 97.4 0.00041 8.9E-09 57.9 5.8 100 3-104 80-189 (197)
470 PRK10218 GTP-binding protein; 97.4 0.00059 1.3E-08 69.3 8.1 66 169-234 6-81 (607)
471 cd04174 Rnd1_Rho6 Rnd1/Rho6 su 97.3 0.00054 1.2E-08 61.4 6.9 25 167-191 12-36 (232)
472 cd01885 EF2 EF2 (for archaea a 97.3 0.00051 1.1E-08 61.1 6.3 21 170-190 2-22 (222)
473 cd01875 RhoG RhoG subfamily. 97.3 0.00068 1.5E-08 58.7 7.1 23 168-190 3-25 (191)
474 KOG0073|consensus 97.3 0.0015 3.2E-08 54.2 8.4 94 3-101 71-177 (185)
475 cd04173 Rnd2_Rho7 Rnd2/Rho7 su 97.3 0.0013 2.8E-08 58.5 8.6 85 11-99 69-173 (222)
476 PRK00741 prfC peptide chain re 97.3 0.0021 4.5E-08 64.5 11.0 52 5-56 93-145 (526)
477 TIGR00073 hypB hydrogenase acc 97.3 0.0013 2.9E-08 57.7 8.6 56 42-100 148-205 (207)
478 TIGR02034 CysN sulfate adenyly 97.3 0.00027 5.8E-09 68.8 4.3 64 169-232 1-91 (406)
479 KOG3859|consensus 97.3 0.00039 8.5E-09 62.4 4.9 66 166-234 40-108 (406)
480 PF00071 Ras: Ras family; Int 97.2 0.0011 2.4E-08 55.2 7.5 86 10-100 67-159 (162)
481 cd04167 Snu114p Snu114p subfam 97.2 0.00033 7.1E-09 61.9 4.3 21 170-190 2-22 (213)
482 KOG0084|consensus 97.2 0.0021 4.6E-08 54.9 8.8 90 8-103 75-173 (205)
483 PRK12740 elongation factor G; 97.2 0.0021 4.5E-08 66.7 10.7 53 5-57 74-127 (668)
484 cd04102 RabL3 RabL3 (Rab-like3 97.2 0.00085 1.8E-08 58.8 6.6 23 169-191 1-23 (202)
485 PTZ00132 GTP-binding nuclear p 97.2 0.0019 4E-08 57.0 8.8 88 11-103 78-169 (215)
486 COG1217 TypA Predicted membran 97.2 0.0028 6.2E-08 60.9 10.3 98 7-104 84-197 (603)
487 COG1163 DRG Predicted GTPase [ 97.2 0.00075 1.6E-08 62.0 6.1 51 43-103 240-290 (365)
488 PRK13351 elongation factor G; 97.2 0.0026 5.7E-08 66.1 11.0 54 4-57 86-140 (687)
489 TIGR00101 ureG urease accessor 97.2 0.0019 4.1E-08 56.5 8.1 81 15-101 113-195 (199)
490 KOG0461|consensus 97.1 0.0056 1.2E-07 56.8 11.0 95 5-101 84-192 (522)
491 TIGR01394 TypA_BipA GTP-bindin 97.1 0.0008 1.7E-08 68.4 6.1 64 170-233 3-76 (594)
492 PRK09866 hypothetical protein; 97.1 0.0008 1.7E-08 67.6 5.8 59 168-233 69-129 (741)
493 TIGR00503 prfC peptide chain r 97.1 0.0042 9.1E-08 62.3 11.0 51 5-55 94-145 (527)
494 cd01888 eIF2_gamma eIF2-gamma 97.1 0.001 2.2E-08 58.3 5.5 23 169-191 1-23 (203)
495 cd04169 RF3 RF3 subfamily. Pe 97.0 0.0042 9.1E-08 56.9 9.7 54 5-58 85-139 (267)
496 KOG1532|consensus 97.0 0.0039 8.4E-08 56.2 8.9 87 16-104 149-266 (366)
497 TIGR00484 EF-G translation elo 97.0 0.0019 4.1E-08 67.2 8.1 54 5-58 89-143 (689)
498 smart00053 DYNc Dynamin, GTPas 97.0 0.0046 1E-07 55.5 9.4 63 6-70 153-218 (240)
499 cd04103 Centaurin_gamma Centau 97.0 0.0017 3.6E-08 54.5 6.2 22 169-190 1-22 (158)
500 PF09439 SRPRB: Signal recogni 97.0 0.0005 1.1E-08 58.9 2.9 59 169-235 4-63 (181)
No 1
>PRK09563 rbgA GTPase YlqF; Reviewed
Probab=100.00 E-value=3.8e-47 Score=350.89 Aligned_cols=273 Identities=28% Similarity=0.484 Sum_probs=233.9
Q ss_pred ChhHHHHHHHHhhccCEEEEEEcCCCCCCCcCHHHHHHHhCCCCEEEEEEcccCCCccchHHHHHHHHhhcCCCCcEEEe
Q psy15351 1 MGRGLKDIEKHLKNVDIVIEVHDSRMPFTGRNHLLQQSVQNIRPMVLVLNKRDLINSKHESLIEEKVRKEQSHISEVIFT 80 (352)
Q Consensus 1 m~~~~~~~~~~i~~aD~vl~VvDar~p~~~~~~~l~~~l~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~v~~i 80 (352)
|+|+++++++.+++||+||+|+|+|.|+++.++.+.+++ .++|+++|+||+||+++.....|.+++++.+.. ++++
T Consensus 11 m~k~~~~l~~~l~~aDvIL~VvDar~p~~~~~~~l~~~~-~~kp~iiVlNK~DL~~~~~~~~~~~~~~~~~~~---vi~v 86 (287)
T PRK09563 11 MAKARREIKENLKLVDVVIEVLDARIPLSSENPMIDKII-GNKPRLLILNKSDLADPEVTKKWIEYFEEQGIK---ALAI 86 (287)
T ss_pred HHHHHHHHHHHhhhCCEEEEEEECCCCCCCCChhHHHHh-CCCCEEEEEEchhcCCHHHHHHHHHHHHHcCCe---EEEE
Confidence 899999999999999999999999999999999888877 589999999999998776567888888655544 8999
Q ss_pred ecCCCCCCCHHHHHHHHHHHhhhccccccccccceeEEEeccCCCCchhHHHHHhhhhcccCCCCCCCcchhhhhccccc
Q psy15351 81 NCRNPNCKGVQKILPTLQHISDNMTRYHRTEVYNTTVMVVGVPNVGKSSIINALRSSHMKKGKAVPILPTLQHISDNMTR 160 (352)
Q Consensus 81 Sa~~~~~~gi~~L~~~i~~~~~~~~~~~~~~~~~~~~~~~g~~nvgksslin~l~~~~~~~~~~~~~~~~~~~~~~~~~~ 160 (352)
||+++ .|+++|++.+.+++++...+ .+
T Consensus 87 Sa~~~--~gi~~L~~~l~~~l~~~~~~--------------------------~~------------------------- 113 (287)
T PRK09563 87 NAKKG--QGVKKILKAAKKLLKEKNER--------------------------RK------------------------- 113 (287)
T ss_pred ECCCc--ccHHHHHHHHHHHHHHHHhh--------------------------hh-------------------------
Confidence 99999 99999999988877642100 00
Q ss_pred cccccCcceEEEEeCCCCCChHHHHHHHhCCCCCCCCceecCCCCCceeEeeeeEEecCCCcEEEEeCCCCCCCCCCCHH
Q psy15351 161 YHRTEVYNTTVMVVGVPNVGKSSIINALRSSHMKKGKAVPVGPKAGVTRSVMSQVKISEKPLIYILDTPGISLPRIDNLE 240 (352)
Q Consensus 161 ~~~~~~~~~~v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~~~pg~T~~~~~~~~~~~~~~~~l~DtPGi~~~~~~~~~ 240 (352)
........++++++|.|||||||+||+|.+ .+.+.+++.||+|++.+ .+.. +.+++++||||+..+...+.+
T Consensus 114 ~~~~~~~~~~~~~~G~pnvGKSsliN~l~~-----~~~~~~~~~~g~T~~~~-~~~~--~~~~~l~DtPGi~~~~~~~~~ 185 (287)
T PRK09563 114 AKGMRPRAIRAMIIGIPNVGKSTLINRLAG-----KKIAKTGNRPGVTKAQQ-WIKL--GKGLELLDTPGILWPKLEDQE 185 (287)
T ss_pred hcccCcCceEEEEECCCCCCHHHHHHHHhc-----CCccccCCCCCeEEEEE-EEEe--CCcEEEEECCCcCCCCCCcHH
Confidence 000113568999999999999999999997 56678999999999986 4444 346999999999999888888
Q ss_pred HHHHHHHHhhhhhhccchhhhhHhHHhhhcCCCCCcccccccCCCCCccHHHHHHHHHHHhccccccccccCCcccCCCC
Q psy15351 241 CGMRLAACATLQDHLVGEINIADYILFYLNRTGNYRYVDFFNLDEPSDDIVMLLAKAAIKKKWFKRAFDVSSNSVRMFPD 320 (352)
Q Consensus 241 ~~~~l~~~~~i~~~~~~~~~~~~~il~~~~~~~~~~~~~~~~l~~~~~~~~~~l~~~a~~~g~~~~~~~~~~g~~~~~~d 320 (352)
.+.++++++++.+..++...++++++..+++..+..+...|+++.+.+++.++|+.+|+++|++.++ |.||
T Consensus 186 ~~~~l~~~~~i~~~~~~~~~~~~~ll~~l~~~~~~~l~~~y~~~~~~~~~~~~l~~~a~~~g~~~k~---------g~~D 256 (287)
T PRK09563 186 VGLKLALTGAIKDEALDLEEVAIFALEYLSKHYPERLKERYKLDELPEDILELLEAIARKRGALRKG---------GEID 256 (287)
T ss_pred HHHHHHHhCCcchhhcChHHHHHHHHHHHHhhCHHHHHHHhCCCCCCCCHHHHHHHHHHHhCccccC---------CccC
Confidence 8899999999999999999999999999998877778889999877678999999999999998764 6899
Q ss_pred HHHHHHHHHHHHhCCCCcceecCcccc
Q psy15351 321 TGEVARIFIEHFRKGSFGSVMLDRDFL 347 (352)
Q Consensus 321 ~~~a~~~~l~~~~~g~l~~~~~~~~~~ 347 (352)
+.+||+.+|++|++|+||++++|.++.
T Consensus 257 ~~~aa~~~l~d~~~Gklg~~~ld~~~~ 283 (287)
T PRK09563 257 YERASELLLNEFRNGKLGKITLETPEM 283 (287)
T ss_pred HHHHHHHHHHHHHcCCCCcEEccCCcc
Confidence 999999999999999999999998864
No 2
>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=100.00 E-value=1.7e-46 Score=344.78 Aligned_cols=269 Identities=32% Similarity=0.510 Sum_probs=231.1
Q ss_pred ChhHHHHHHHHhhccCEEEEEEcCCCCCCCcCHHHHHHHhCCCCEEEEEEcccCCCccchHHHHHHHHhhcCCCCcEEEe
Q psy15351 1 MGRGLKDIEKHLKNVDIVIEVHDSRMPFTGRNHLLQQSVQNIRPMVLVLNKRDLINSKHESLIEEKVRKEQSHISEVIFT 80 (352)
Q Consensus 1 m~~~~~~~~~~i~~aD~vl~VvDar~p~~~~~~~l~~~l~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~v~~i 80 (352)
|+|+++++++.+++||+||+|+|+|.|+++.++.+.+++ .++|+++|+||+|+++++....|.+++++.+. +++++
T Consensus 8 m~k~~~~~~~~l~~aDvVl~V~Dar~p~~~~~~~i~~~l-~~kp~IiVlNK~DL~~~~~~~~~~~~~~~~~~---~vi~i 83 (276)
T TIGR03596 8 MAKARREIKEKLKLVDVVIEVLDARIPLSSRNPMIDEIR-GNKPRLIVLNKADLADPAVTKQWLKYFEEKGI---KALAI 83 (276)
T ss_pred HHHHHHHHHHHHhhCCEEEEEEeCCCCCCCCChhHHHHH-CCCCEEEEEEccccCCHHHHHHHHHHHHHcCC---eEEEE
Confidence 899999999999999999999999999999999888887 57999999999999877656788888865444 48999
Q ss_pred ecCCCCCCCHHHHHHHHHHHhhhccccccccccceeEEEeccCCCCchhHHHHHhhhhcccCCCCCCCcchhhhhccccc
Q psy15351 81 NCRNPNCKGVQKILPTLQHISDNMTRYHRTEVYNTTVMVVGVPNVGKSSIINALRSSHMKKGKAVPILPTLQHISDNMTR 160 (352)
Q Consensus 81 Sa~~~~~~gi~~L~~~i~~~~~~~~~~~~~~~~~~~~~~~g~~nvgksslin~l~~~~~~~~~~~~~~~~~~~~~~~~~~ 160 (352)
||+++ .|+++|++.+.+++++.... .+
T Consensus 84 Sa~~~--~gi~~L~~~i~~~~~~~~~~--------------------------~~------------------------- 110 (276)
T TIGR03596 84 NAKKG--KGVKKIIKAAKKLLKEKNEK--------------------------LK------------------------- 110 (276)
T ss_pred ECCCc--ccHHHHHHHHHHHHHHhhhh--------------------------hh-------------------------
Confidence 99999 99999999998877642100 00
Q ss_pred cccccCcceEEEEeCCCCCChHHHHHHHhCCCCCCCCceecCCCCCceeEeeeeEEecCCCcEEEEeCCCCCCCCCCCHH
Q psy15351 161 YHRTEVYNTTVMVVGVPNVGKSSIINALRSSHMKKGKAVPVGPKAGVTRSVMSQVKISEKPLIYILDTPGISLPRIDNLE 240 (352)
Q Consensus 161 ~~~~~~~~~~v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~~~pg~T~~~~~~~~~~~~~~~~l~DtPGi~~~~~~~~~ 240 (352)
........++++++|+||||||||||+|.+ .+.+.+++.||+|+..+ .+... ..++++||||+..+...+.+
T Consensus 111 ~~~~~~~~~~~~~vG~~nvGKSslin~l~~-----~~~~~~~~~~g~T~~~~-~~~~~--~~~~l~DtPG~~~~~~~~~~ 182 (276)
T TIGR03596 111 AKGLKNRPIRAMIVGIPNVGKSTLINRLAG-----KKVAKVGNRPGVTKGQQ-WIKLS--DGLELLDTPGILWPKFEDQE 182 (276)
T ss_pred hccCCCCCeEEEEECCCCCCHHHHHHHHhC-----CCccccCCCCCeecceE-EEEeC--CCEEEEECCCcccCCCCchH
Confidence 000013468999999999999999999997 56678899999999976 45443 36899999999999888888
Q ss_pred HHHHHHHHhhhhhhccchhhhhHhHHhhhcCCCCCcccccccCCCCCccHHHHHHHHHHHhccccccccccCCcccCCCC
Q psy15351 241 CGMRLAACATLQDHLVGEINIADYILFYLNRTGNYRYVDFFNLDEPSDDIVMLLAKAAIKKKWFKRAFDVSSNSVRMFPD 320 (352)
Q Consensus 241 ~~~~l~~~~~i~~~~~~~~~~~~~il~~~~~~~~~~~~~~~~l~~~~~~~~~~l~~~a~~~g~~~~~~~~~~g~~~~~~d 320 (352)
.+.++++++.+++..++...++++++..+++.....+...|+++.+.+++.++|+.+|+++|++.++ |.||
T Consensus 183 ~~~~l~~~g~i~~~~~~~~~~~~~~~~~l~~~~~~~l~~~y~i~~~~~~~~~~l~~~a~~~g~~~k~---------g~~D 253 (276)
T TIGR03596 183 VGLKLAATGAIKDEALDLEDVALFLLEYLLEHYPERLKERYKLDELPEDIVELLEAIAKKRGCLLKG---------GELD 253 (276)
T ss_pred HHHHHHHhCCcccccCChHHHHHHHHHHHHhhCHHHHHHHhCcCCCCCCHHHHHHHHHHHhCccccC---------CccC
Confidence 8999999999999999999999999999999877778889999877778999999999999998764 6899
Q ss_pred HHHHHHHHHHHHhCCCCcceecC
Q psy15351 321 TGEVARIFIEHFRKGSFGSVMLD 343 (352)
Q Consensus 321 ~~~a~~~~l~~~~~g~l~~~~~~ 343 (352)
+++||+.+|++|++|+||+++||
T Consensus 254 ~~~aa~~~l~d~~~Gklg~~~ld 276 (276)
T TIGR03596 254 LDRAAEILLNDFRKGKLGRITLE 276 (276)
T ss_pred HHHHHHHHHHHHHcCCCCceecC
Confidence 99999999999999999999987
No 3
>KOG2485|consensus
Probab=100.00 E-value=9.9e-42 Score=303.72 Aligned_cols=289 Identities=39% Similarity=0.641 Sum_probs=241.8
Q ss_pred ChhHHHHHHHHhhccCEEEEEEcCCCCCCCcCHHHHHHHhCCCCEEEEEEcccCCCccchHHHHHHHHhhcCCCCcEEEe
Q psy15351 1 MGRGLKDIEKHLKNVDIVIEVHDSRMPFTGRNHLLQQSVQNIRPMVLVLNKRDLINSKHESLIEEKVRKEQSHISEVIFT 80 (352)
Q Consensus 1 m~~~~~~~~~~i~~aD~vl~VvDar~p~~~~~~~l~~~l~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~v~~i 80 (352)
|+||++++++.+..+|+||+|.|||.|++++++.+.+++ ..+|.|+|+||+||+++.+....+++++..+.. .+++.
T Consensus 33 makalr~i~~~l~~~D~iiEvrDaRiPLssrn~~~~~~~-~~k~riiVlNK~DLad~~~~k~~iq~~~~~~~~--~~~~~ 109 (335)
T KOG2485|consen 33 MAKALRAIQNRLPLVDCIIEVRDARIPLSSRNELFQDFL-PPKPRIIVLNKMDLADPKEQKKIIQYLEWQNLE--SYIKL 109 (335)
T ss_pred HHHHHHHHHhhcccccEEEEeeccccCCccccHHHHHhc-CCCceEEEEecccccCchhhhHHHHHHHhhccc--chhhh
Confidence 899999999999999999999999999999999999988 589999999999999977777888888666443 46666
Q ss_pred ecCCCCCCCHHHHHHHHHHHhhhccccccccccceeEEEeccCCCCchhHHHHHhhhhcccCCCCCCCcchhhhhccccc
Q psy15351 81 NCRNPNCKGVQKILPTLQHISDNMTRYHRTEVYNTTVMVVGVPNVGKSSIINALRSSHMKKGKAVPILPTLQHISDNMTR 160 (352)
Q Consensus 81 Sa~~~~~~gi~~L~~~i~~~~~~~~~~~~~~~~~~~~~~~g~~nvgksslin~l~~~~~~~~~~~~~~~~~~~~~~~~~~ 160 (352)
+|......++..++..+.....+ ..+
T Consensus 110 ~c~~~~~~~v~~l~~il~~~~~~------------------------------------------------------l~r 135 (335)
T KOG2485|consen 110 DCNKDCNKQVSPLLKILTILSEE------------------------------------------------------LVR 135 (335)
T ss_pred hhhhhhhhccccHHHHHHHHHHH------------------------------------------------------HHH
Confidence 66554112244444433322211 123
Q ss_pred cccccCcceEEEEeCCCCCChHHHHHHHhCCCCCCCCceecCCCCCceeEeeeeEEecCCCcEEEEeCCCCCCCCCCCHH
Q psy15351 161 YHRTEVYNTTVMVVGVPNVGKSSIINALRSSHMKKGKAVPVGPKAGVTRSVMSQVKISEKPLIYILDTPGISLPRIDNLE 240 (352)
Q Consensus 161 ~~~~~~~~~~v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~~~pg~T~~~~~~~~~~~~~~~~l~DtPGi~~~~~~~~~ 240 (352)
..++.+....++|+|.||||||||||++...++.+.+.+++|+.||.|+..+..+.+...+.++++||||+..|...+.+
T Consensus 136 ~irt~~~~~~vmVvGvPNVGKSsLINa~r~~~Lrk~k~a~vG~~pGVT~~V~~~iri~~rp~vy~iDTPGil~P~I~~~e 215 (335)
T KOG2485|consen 136 FIRTLNSEYNVMVVGVPNVGKSSLINALRNVHLRKKKAARVGAEPGVTRRVSERIRISHRPPVYLIDTPGILVPSIVDVE 215 (335)
T ss_pred hhcccCCceeEEEEcCCCCChHHHHHHHHHHHhhhccceeccCCCCceeeehhheEeccCCceEEecCCCcCCCCCCCHH
Confidence 34445678899999999999999999999988888899999999999999988889998889999999999999999999
Q ss_pred HHHHHHHHhhhhhhccchhhhhHhHHhhhcCCCCCcccccccCCC-CCccHHHHHHHHHHHhccccccccccCCc--ccC
Q psy15351 241 CGMRLAACATLQDHLVGEINIADYILFYLNRTGNYRYVDFFNLDE-PSDDIVMLLAKAAIKKKWFKRAFDVSSNS--VRM 317 (352)
Q Consensus 241 ~~~~l~~~~~i~~~~~~~~~~~~~il~~~~~~~~~~~~~~~~l~~-~~~~~~~~l~~~a~~~g~~~~~~~~~~g~--~~~ 317 (352)
.+++||+|+.+.++.++++.++||+++++|....+.+...++... +.++++..+..++.++.+..+.+++. |. ...
T Consensus 216 ~~lKLAL~g~Vkd~~V~~~~~adylL~~lN~~~~~~y~~~l~~~~~~~dd~~~nl~~l~v~~~~~~k~s~fd-g~~~~ei 294 (335)
T KOG2485|consen 216 DGLKLALCGLVKDHLVGEETIADYLLYLLNSHSDFSYVKDLKPGSTPADDIEQNLAVLAVRRTKNEKVSAFD-GNNKLEI 294 (335)
T ss_pred HhhhhhhcccccccccCHHHHHHHHHHHHhccCcchhHHHhccCCCccccHHHHHHHHHHHHHhcceeeEec-CCceeEE
Confidence 999999999999999999999999999999999888888777665 88899999999999999999999888 32 222
Q ss_pred C-CCHHHHHHHHHHHHhCCCCcceecCcccc
Q psy15351 318 F-PDTGEVARIFIEHFRKGSFGSVMLDRDFL 347 (352)
Q Consensus 318 ~-~d~~~a~~~~l~~~~~g~l~~~~~~~~~~ 347 (352)
. |.+-++++.++.-|++|.++...++-+.+
T Consensus 295 ~~~~~ln~~e~~l~~~rsg~l~~~~ln~~~~ 325 (335)
T KOG2485|consen 295 EQPNLLNLARFFLATFRSGLLGPEELNYVIL 325 (335)
T ss_pred echHHHHHHHHHHHHHHhccccceeecchhh
Confidence 2 35789999999999999999776654443
No 4
>KOG2484|consensus
Probab=100.00 E-value=6.1e-41 Score=306.65 Aligned_cols=266 Identities=27% Similarity=0.362 Sum_probs=207.9
Q ss_pred HHHHHHHhhccCEEEEEEcCCCCCCCcCHHHHHHHh---CCCCEEEEEEcccCCCccchHHHHHHHHhhcCCCCcEEEee
Q psy15351 5 LKDIEKHLKNVDIVIEVHDSRMPFTGRNHLLQQSVQ---NIRPMVLVLNKRDLINSKHESLIEEKVRKEQSHISEVIFTN 81 (352)
Q Consensus 5 ~~~~~~~i~~aD~vl~VvDar~p~~~~~~~l~~~l~---~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~v~~iS 81 (352)
.+.++++++.+|+||+|+|||+|+++++++.++++. ++|.+|+|+||+||+|.+.++.|+.||++.+.. |.|.+
T Consensus 137 ~ke~rkvve~sDVVleVlDARDPlgtR~~~vE~~V~~~~gnKkLILVLNK~DLVPrEv~e~Wl~YLr~~~pt---v~fka 213 (435)
T KOG2484|consen 137 DKEFRKVVEASDVVLEVLDARDPLGTRCPEVEEAVLQAHGNKKLILVLNKIDLVPREVVEKWLVYLRREGPT---VAFKA 213 (435)
T ss_pred HHHHHHHHhhhheEEEeeeccCCCCCCChhHHHHHHhccCCceEEEEeehhccCCHHHHHHHHHHHHhhCCc---ceeec
Confidence 455889999999999999999999999999998773 459999999999999999999999999988876 77776
Q ss_pred cCCCCCCCHHHHHHHHHHHhhhccccccccccceeEEEeccCCCCchhHHHHHhhhhcccCCCCCCCcchhhhhcccccc
Q psy15351 82 CRNPNCKGVQKILPTLQHISDNMTRYHRTEVYNTTVMVVGVPNVGKSSIINALRSSHMKKGKAVPILPTLQHISDNMTRY 161 (352)
Q Consensus 82 a~~~~~~gi~~L~~~i~~~~~~~~~~~~~~~~~~~~~~~g~~nvgksslin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~ 161 (352)
+... .+.. ... +-+....|+++++..|...-.
T Consensus 214 st~~--~~~~------~~~------------------~~~s~c~gae~l~~~lgny~~---------------------- 245 (435)
T KOG2484|consen 214 STQM--QNSN------SKN------------------LQSSVCFGAETLMKVLGNYCR---------------------- 245 (435)
T ss_pred cccc--cccc------ccc------------------cccchhhhHHHHHHHhcCccc----------------------
Confidence 6554 2211 000 011224688888877763211
Q ss_pred ccccCcceEEEEeCCCCCChHHHHHHHhCCCCCCCCceecCCCCCceeEeeeeEEecCCCcEEEEeCCCCCCCCCCCHHH
Q psy15351 162 HRTEVYNTTVMVVGVPNVGKSSIINALRSSHMKKGKAVPVGPKAGVTRSVMSQVKISEKPLIYILDTPGISLPRIDNLEC 241 (352)
Q Consensus 162 ~~~~~~~~~v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~~~pg~T~~~~~~~~~~~~~~~~l~DtPGi~~~~~~~~~~ 241 (352)
...-+..+++||+|+|||||||+||+|.. ++.+.+|+.||.|+..|. +.. +..+.|+|+||++.+...+.+
T Consensus 246 ~~~lk~sIrvGViG~PNVGKSSvINsL~~-----~k~C~vg~~pGvT~smqe-V~L--dk~i~llDsPgiv~~~~~~~~- 316 (435)
T KOG2484|consen 246 KGELKTSIRVGIIGYPNVGKSSVINSLKR-----RKACNVGNVPGVTRSMQE-VKL--DKKIRLLDSPGIVPPSIDEKD- 316 (435)
T ss_pred ccccCcceEeeeecCCCCChhHHHHHHHH-----hccccCCCCccchhhhhh-eec--cCCceeccCCceeecCCCccc-
Confidence 11124679999999999999999999997 677899999999999874 433 557999999999998776555
Q ss_pred HHHHHHHhhhhh-hccchhhhhHhHHhhhcCCCCCcccccccCCCCCccHHHHHHHHHHHhccccccccccCCcccCCCC
Q psy15351 242 GMRLAACATLQD-HLVGEINIADYILFYLNRTGNYRYVDFFNLDEPSDDIVMLLAKAAIKKKWFKRAFDVSSNSVRMFPD 320 (352)
Q Consensus 242 ~~~l~~~~~i~~-~~~~~~~~~~~il~~~~~~~~~~~~~~~~l~~~~~~~~~~l~~~a~~~g~~~~~~~~~~g~~~~~~d 320 (352)
.+++.+++.. .+.++...+.+||..+++. .+..+|+++... ...+||..+|+++|.+.++ |+||
T Consensus 317 --~~~Lrn~~~i~~~~dp~~~v~~iL~~~~~e---~~~~~Y~~~~~~-~~~~Fl~~~ar~~G~~~kG---------G~pd 381 (435)
T KOG2484|consen 317 --ALALRNCIPIGKVADPVTPVSCILKRCSKE---SRSVLYNIPSIR-ATDDFLEKFARRRGLLLKG---------GIPD 381 (435)
T ss_pred --hhhhhcccccccccCccchHHHHHHHhhHH---HHHHHhcCCCcc-hHHHHHHHHHHHHhhhhcC---------CCCc
Confidence 3344444443 2445666677888777763 346788887653 4679999999999998875 7999
Q ss_pred HHHHHHHHHHHHhCCCCcceecCcc
Q psy15351 321 TGEVARIFIEHFRKGSFGSVMLDRD 345 (352)
Q Consensus 321 ~~~a~~~~l~~~~~g~l~~~~~~~~ 345 (352)
+..||..+++||++|+|+||++||+
T Consensus 382 ~~~AA~~vl~Dw~~Gki~y~~~pp~ 406 (435)
T KOG2484|consen 382 VNAAAFAVLNDWRTGKIGYYTLPPT 406 (435)
T ss_pred HHHHHHHHHHhhccCceeeeeCCCh
Confidence 9999999999999999999999987
No 5
>COG1161 Predicted GTPases [General function prediction only]
Probab=100.00 E-value=3.1e-38 Score=294.78 Aligned_cols=272 Identities=29% Similarity=0.419 Sum_probs=214.3
Q ss_pred ChhHHHHHHHHhhccCEEEEEEcCCCCCCCcCHHHHHHHhCCCCEEEEEEcccCCCccchHHHHHHHHhh-cCCCCcEEE
Q psy15351 1 MGRGLKDIEKHLKNVDIVIEVHDSRMPFTGRNHLLQQSVQNIRPMVLVLNKRDLINSKHESLIEEKVRKE-QSHISEVIF 79 (352)
Q Consensus 1 m~~~~~~~~~~i~~aD~vl~VvDar~p~~~~~~~l~~~l~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~-~~~~~~v~~ 79 (352)
|.+++++..+.++.+|+|++|+|||+|.+++++.+.+++ .+++.++|+||+||++....+.|.+++.+. +.. .++
T Consensus 21 ~~k~~~~~~~~~~~~d~vvevvDar~P~~s~~~~l~~~v-~~k~~i~vlNK~DL~~~~~~~~W~~~~~~~~~~~---~~~ 96 (322)
T COG1161 21 MKKAKRQLKEVLKSVDVVVEVVDARDPLGTRNPELERIV-KEKPKLLVLNKADLAPKEVTKKWKKYFKKEEGIK---PIF 96 (322)
T ss_pred hHHHHHHHHHhcccCCEEEEEEeccccccccCccHHHHH-ccCCcEEEEehhhcCCHHHHHHHHHHHHhcCCCc---cEE
Confidence 889999999999999999999999999999999999998 577889999999999999999999999877 343 788
Q ss_pred eecCCCCCCCHHHHHHHHHHHhhhccccccccccceeEEEeccCCCCchhHHHHHhhhhcccCCCCCCCcchhhhhcccc
Q psy15351 80 TNCRNPNCKGVQKILPTLQHISDNMTRYHRTEVYNTTVMVVGVPNVGKSSIINALRSSHMKKGKAVPILPTLQHISDNMT 159 (352)
Q Consensus 80 iSa~~~~~~gi~~L~~~i~~~~~~~~~~~~~~~~~~~~~~~g~~nvgksslin~l~~~~~~~~~~~~~~~~~~~~~~~~~ 159 (352)
+|+..+ .+...+..++..+.+. .++.++..
T Consensus 97 v~~~~~--~~~~~i~~~~~~~~~~--------------------------~i~~~~~~---------------------- 126 (322)
T COG1161 97 VSAKSR--QGGKKIRKALEKLSEE--------------------------KIKRLKKK---------------------- 126 (322)
T ss_pred EEeecc--cCccchHHHHHHHHHH--------------------------HHHHHhhc----------------------
Confidence 999998 8888887665544321 11111110
Q ss_pred ccccccCcceEEEEeCCCCCChHHHHHHHhCCCCCCCCceecCCCCCceeEeeeeEEecCCCcEEEEeCCCCCCCCCCC-
Q psy15351 160 RYHRTEVYNTTVMVVGVPNVGKSSIINALRSSHMKKGKAVPVGPKAGVTRSVMSQVKISEKPLIYILDTPGISLPRIDN- 238 (352)
Q Consensus 160 ~~~~~~~~~~~v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~~~pg~T~~~~~~~~~~~~~~~~l~DtPGi~~~~~~~- 238 (352)
.......+++++|+|||||||+||+|.+ ++.+.+|+.||+|++.| .+.+.. .++|+||||++++...+
T Consensus 127 ---~~~~~~~~v~vvG~PNVGKSslIN~L~~-----k~~~~~s~~PG~Tk~~q-~i~~~~--~i~LlDtPGii~~~~~~~ 195 (322)
T COG1161 127 ---GLLKRKIRVGVVGYPNVGKSTLINRLLG-----KKVAKTSNRPGTTKGIQ-WIKLDD--GIYLLDTPGIIPPKFDDD 195 (322)
T ss_pred ---CCCccceEEEEEcCCCCcHHHHHHHHhc-----ccceeeCCCCceecceE-EEEcCC--CeEEecCCCcCCCCccch
Confidence 0123568899999999999999999998 67799999999999986 455443 59999999999998777
Q ss_pred HHHHHHHHHHhhhhhhccchhhhhHhHHhhh--cCCCCCcccc-cccCCC-CCccHHHHHHHHHHHhccccccccccCCc
Q psy15351 239 LECGMRLAACATLQDHLVGEINIADYILFYL--NRTGNYRYVD-FFNLDE-PSDDIVMLLAKAAIKKKWFKRAFDVSSNS 314 (352)
Q Consensus 239 ~~~~~~l~~~~~i~~~~~~~~~~~~~il~~~--~~~~~~~~~~-~~~l~~-~~~~~~~~l~~~a~~~g~~~~~~~~~~g~ 314 (352)
.....+++..+.+.+.+.+...++..++..+ +......+.. .|...+ ...+..+++..+|.++|+....
T Consensus 196 ~~v~~~l~~~~~Ik~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~y~~~~~~~~~~~~~l~~~a~~rg~~l~~------- 268 (322)
T COG1161 196 ELVLLKLAPKGEIKDPVLPADEVAERLLGGLLIDEHYGEKLNITRYESNPIHRTDPEEFLELIAKKRGWLLLK------- 268 (322)
T ss_pred HHHhhccccccccCccccChHHHHHHHHhhhhhhhhhhHhhCCcccccccccccCHHHHHHHHHHHhhhhhcC-------
Confidence 6666777788889998888888877776555 3333222222 343322 1225788999999999954322
Q ss_pred ccCCCCHHHHHHHHHHHHhCCCCcceecCcc
Q psy15351 315 VRMFPDTGEVARIFIEHFRKGSFGSVMLDRD 345 (352)
Q Consensus 315 ~~~~~d~~~a~~~~l~~~~~g~l~~~~~~~~ 345 (352)
++.+|+.+|+..+++||+.|+||++++|++
T Consensus 269 -~g~~d~~~~~~~~~~d~~~gklg~~~~~~~ 298 (322)
T COG1161 269 -GGEPDLERAAETILKDIRNGKLGWFSLEEP 298 (322)
T ss_pred -CCCccHHHHHHHHHHHHHhCCcceeecCCc
Confidence 257999999999999999999999999975
No 6
>KOG1424|consensus
Probab=100.00 E-value=3.3e-38 Score=296.68 Aligned_cols=301 Identities=25% Similarity=0.295 Sum_probs=190.5
Q ss_pred hHHHHHHHHhhccCEEEEEEcCCCCCCCcCHHHHHHHh---CCCCEEEEEEcccCCCccchHHHHHHHHhhcCCCCcEEE
Q psy15351 3 RGLKDIEKHLKNVDIVIEVHDSRMPFTGRNHLLQQSVQ---NIRPMVLVLNKRDLINSKHESLIEEKVRKEQSHISEVIF 79 (352)
Q Consensus 3 ~~~~~~~~~i~~aD~vl~VvDar~p~~~~~~~l~~~l~---~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~v~~ 79 (352)
..|||+|++++.+|+||.|||||+|+..+++++++|++ ..|..++++||+||++++.+..|.+||.+.++. ++|
T Consensus 163 E~WRQLWRVlErSDivvqIVDARnPllfr~~dLe~Yvke~d~~K~~~LLvNKaDLl~~~qr~aWa~YF~~~ni~---~vf 239 (562)
T KOG1424|consen 163 EIWRQLWRVLERSDIVVQIVDARNPLLFRSPDLEDYVKEVDPSKANVLLVNKADLLPPEQRVAWAEYFRQNNIP---VVF 239 (562)
T ss_pred HHHHHHHHHHhhcceEEEEeecCCccccCChhHHHHHhccccccceEEEEehhhcCCHHHHHHHHHHHHhcCce---EEE
Confidence 46999999999999999999999999999999999997 457889999999999999999999999988876 999
Q ss_pred eecCCCC----CCCHHHHHHHHHHHhhhccccccccccceeEEEeccCCCCchhHHHHHhhhhcccCCCCCCCcchhh-h
Q psy15351 80 TNCRNPN----CKGVQKILPTLQHISDNMTRYHRTEVYNTTVMVVGVPNVGKSSIINALRSSHMKKGKAVPILPTLQH-I 154 (352)
Q Consensus 80 iSa~~~~----~~gi~~L~~~i~~~~~~~~~~~~~~~~~~~~~~~g~~nvgksslin~l~~~~~~~~~~~~~~~~~~~-~ 154 (352)
.||.... ..++++-........ ...+ .+++|.-+ -.|..+. ++...+....++ .
T Consensus 240 ~SA~~at~~~~~~~~~e~~r~~d~~~---------~~~~--~~~~~~~d----~~i~r~~------~d~~e~~~v~~~~~ 298 (562)
T KOG1424|consen 240 FSALAATEQLESKVLKEDRRSLDGVS---------RALG--AIFVGEVD----LKIARDK------GDGEEIEDVEQLRL 298 (562)
T ss_pred Eecccccccccccchhhhhhcccchh---------hhcc--ccccccch----hhhhhhc------ccccchhhHHhhhh
Confidence 9987621 011111111100000 0001 11111111 0111111 000000000000 0
Q ss_pred hcccccc--ccccCcceEEEEeCCCCCChHHHHHHHhCCCCCCCCceecCCCCCceeEeeeeEEecCCCcEEEEeCCCCC
Q psy15351 155 SDNMTRY--HRTEVYNTTVMVVGVPNVGKSSIINALRSSHMKKGKAVPVGPKAGVTRSVMSQVKISEKPLIYILDTPGIS 232 (352)
Q Consensus 155 ~~~~~~~--~~~~~~~~~v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~~~pg~T~~~~~~~~~~~~~~~~l~DtPGi~ 232 (352)
.+..... ....+..++||+||+|||||||+||+|.| .+.+.|+.+||.|++.|+.+ +. +.+.|+||||++
T Consensus 299 ~s~~~~~~t~~~~~~~vtVG~VGYPNVGKSSTINaLvG-----~KkVsVS~TPGkTKHFQTi~-ls--~~v~LCDCPGLV 370 (562)
T KOG1424|consen 299 ISAMEPTPTGERYKDVVTVGFVGYPNVGKSSTINALVG-----RKKVSVSSTPGKTKHFQTIF-LS--PSVCLCDCPGLV 370 (562)
T ss_pred hhccccCCCCcCCCceeEEEeecCCCCchhHHHHHHhc-----CceeeeecCCCCcceeEEEE-cC--CCceecCCCCcc
Confidence 0000001 01112359999999999999999999998 78999999999999998644 33 369999999999
Q ss_pred CCCCCCHHHHHHHH---HHhhhhhhccchhhhhHhHH-hhhcCCCCCcccccccCCCCCccHHHHHHHHHHHhccccccc
Q psy15351 233 LPRIDNLECGMRLA---ACATLQDHLVGEINIADYIL-FYLNRTGNYRYVDFFNLDEPSDDIVMLLAKAAIKKKWFKRAF 308 (352)
Q Consensus 233 ~~~~~~~~~~~~l~---~~~~i~~~~~~~~~~~~~il-~~~~~~~~~~~~~~~~l~~~~~~~~~~l~~~a~~~g~~~~~~ 308 (352)
+|.+......+-+. .+..+.++.-+...+|+.|- ++|...+.......++-..|. ...++|..+|..+||+...
T Consensus 371 fPSf~~~r~emvl~GiLPIDQmrd~~~~~~llaerIP~~~Le~~Y~~k~~e~~~~~~pp-~A~ell~a~a~~RGfmts~- 448 (562)
T KOG1424|consen 371 FPSFSPTRAEMVLNGILPIDQLRDHYGAVGLLAERIPRHVLERLYGHKPREDPEDSRPP-SAAELLNAYAYKRGFMTSK- 448 (562)
T ss_pred ccCCCchHHHHHHhcCccHHHhhcccchHHHHHHhcCHHHHHHHhCCCcccccCCCCCc-hHHHHHHHHHHhcchhhhc-
Confidence 99887644333221 11223333222222232221 122211100001111222222 2689999999999998643
Q ss_pred cccCCcccCCCCHHHHHHHHHHHHhCCCCcceecCcc
Q psy15351 309 DVSSNSVRMFPDTGEVARIFIEHFRKGSFGSVMLDRD 345 (352)
Q Consensus 309 ~~~~g~~~~~~d~~~a~~~~l~~~~~g~l~~~~~~~~ 345 (352)
+.||..|||+.+|+||.+|+|.++..||-
T Consensus 449 --------~~~D~~RAAr~ILKDyv~GKL~~~~~PPg 477 (562)
T KOG1424|consen 449 --------GLPDEYRAARYILKDYVSGKLLYCFPPPG 477 (562)
T ss_pred --------cCCcchHHHHHHHHHHhCCeeeeeeCCCC
Confidence 56799999999999999999999877665
No 7
>KOG2423|consensus
Probab=100.00 E-value=6.1e-37 Score=278.97 Aligned_cols=255 Identities=25% Similarity=0.368 Sum_probs=195.7
Q ss_pred hHHHHHHHHhhccCEEEEEEcCCCCCCCcCHHHHHHHh---CCCCEEEEEEcccCCCccchHHHHHHHHhhcCCCCcEEE
Q psy15351 3 RGLKDIEKHLKNVDIVIEVHDSRMPFTGRNHLLQQSVQ---NIRPMVLVLNKRDLINSKHESLIEEKVRKEQSHISEVIF 79 (352)
Q Consensus 3 ~~~~~~~~~i~~aD~vl~VvDar~p~~~~~~~l~~~l~---~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~v~~ 79 (352)
+-|-.+.+++..+|+||+|+|||+|+++++..+++|++ ..|.+|+|+||+||+|-.....|+..+.+.... +.|
T Consensus 202 RIW~ELyKViDSSDVvvqVlDARDPmGTrc~~ve~ylkke~phKHli~vLNKvDLVPtwvt~~Wv~~lSkeyPT---iAf 278 (572)
T KOG2423|consen 202 RIWGELYKVIDSSDVVVQVLDARDPMGTRCKHVEEYLKKEKPHKHLIYVLNKVDLVPTWVTAKWVRHLSKEYPT---IAF 278 (572)
T ss_pred HHHHHHHHhhcccceeEEeeeccCCcccccHHHHHHHhhcCCcceeEEEeeccccccHHHHHHHHHHHhhhCcc---eee
Confidence 56778889999999999999999999999999999998 567899999999999999999999999765443 444
Q ss_pred eecCCCCCCCHHHHHHHHHHHhhhccccccccccceeEEEeccCCCCchhHHHHHhhhhcccCCCCCCCcchhhhhcccc
Q psy15351 80 TNCRNPNCKGVQKILPTLQHISDNMTRYHRTEVYNTTVMVVGVPNVGKSSIINALRSSHMKKGKAVPILPTLQHISDNMT 159 (352)
Q Consensus 80 iSa~~~~~~gi~~L~~~i~~~~~~~~~~~~~~~~~~~~~~~g~~nvgksslin~l~~~~~~~~~~~~~~~~~~~~~~~~~ 159 (352)
.++.++ ++||.++|+.|+.-..
T Consensus 279 HAsi~n--------------------------------------sfGKgalI~llRQf~k-------------------- 300 (572)
T KOG2423|consen 279 HASINN--------------------------------------SFGKGALIQLLRQFAK-------------------- 300 (572)
T ss_pred ehhhcC--------------------------------------ccchhHHHHHHHHHHh--------------------
Confidence 333332 3567777777664321
Q ss_pred ccccccCcceEEEEeCCCCCChHHHHHHHhCCCCCCCCceecCCCCCceeEeeeeEEecCCCcEEEEeCCCCCCCCCCCH
Q psy15351 160 RYHRTEVYNTTVMVVGVPNVGKSSIINALRSSHMKKGKAVPVGPKAGVTRSVMSQVKISEKPLIYILDTPGISLPRIDNL 239 (352)
Q Consensus 160 ~~~~~~~~~~~v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~~~pg~T~~~~~~~~~~~~~~~~l~DtPGi~~~~~~~~ 239 (352)
++ .....+.|+++|+|||||||+||+|+. ++++.+.+.||-|+-.|. +.+ -++++||||||++.|...+.
T Consensus 301 -Lh-~dkkqISVGfiGYPNvGKSSiINTLR~-----KkVCkvAPIpGETKVWQY-ItL--mkrIfLIDcPGvVyps~dse 370 (572)
T KOG2423|consen 301 -LH-SDKKQISVGFIGYPNVGKSSIINTLRK-----KKVCKVAPIPGETKVWQY-ITL--MKRIFLIDCPGVVYPSSDSE 370 (572)
T ss_pred -hc-cCccceeeeeecCCCCchHHHHHHHhh-----cccccccCCCCcchHHHH-HHH--HhceeEecCCCccCCCCCch
Confidence 11 134678999999999999999999997 789999999999998763 222 34699999999999865332
Q ss_pred HHHHHHHHHhhhh-hhccchhhhhHhHHhhhcCCCCCcccccccCCCCCccHHHHHHHHHHHhccccccccccCCcccCC
Q psy15351 240 ECGMRLAACATLQ-DHLVGEINIADYILFYLNRTGNYRYVDFFNLDEPSDDIVMLLAKAAIKKKWFKRAFDVSSNSVRMF 318 (352)
Q Consensus 240 ~~~~~l~~~~~i~-~~~~~~~~~~~~il~~~~~~~~~~~~~~~~l~~~~~~~~~~l~~~a~~~g~~~~~~~~~~g~~~~~ 318 (352)
.. . .+-+.++ +++..++..++.+| .+.....+...|.++.+.+ ..+||+.+|.+.|.+.++ |-
T Consensus 371 t~-i--vLkGvVRVenv~~pe~yi~~vl---~R~k~ehl~rtYkI~~w~d-~~dfle~La~k~GkLlKG---------GE 434 (572)
T KOG2423|consen 371 TD-I--VLKGVVRVENVKNPEDYIDGVL---ERCKPEHLSRTYKISGWND-STDFLEKLAIKQGKLLKG---------GE 434 (572)
T ss_pred HH-H--HhhceeeeeecCCHHHHHHHHH---HhhhHHHHHhhhCCCcccc-HHHHHHHHHHHhCccccC---------CC
Confidence 22 1 1233333 24445655555554 4443334466788877644 789999999999999876 68
Q ss_pred CCHHHHHHHHHHHHhCCCCcceecCc
Q psy15351 319 PDTGEVARIFIEHFRKGSFGSVMLDR 344 (352)
Q Consensus 319 ~d~~~a~~~~l~~~~~g~l~~~~~~~ 344 (352)
||+...++++|+||+.|+|++|..||
T Consensus 435 Pd~~~vsKmvLnDwqRGkiP~FVpPp 460 (572)
T KOG2423|consen 435 PDLVVVSKMVLNDWQRGKIPFFVPPP 460 (572)
T ss_pred CchhHHHHHHhhHhhcCCCceecCCC
Confidence 99999999999999999999997776
No 8
>COG1160 Predicted GTPases [General function prediction only]
Probab=99.97 E-value=8.7e-31 Score=246.11 Aligned_cols=269 Identities=19% Similarity=0.191 Sum_probs=186.6
Q ss_pred hHHHHHHHHhhccCEEEEEEcCCCCCCCcCHHHHHHHh-CCCCEEEEEEcccCCCccchHHHHHHHHhhcCCCCcEEEee
Q psy15351 3 RGLKDIEKHLKNVDIVIEVHDSRMPFTGRNHLLQQSVQ-NIRPMVLVLNKRDLINSKHESLIEEKVRKEQSHISEVIFTN 81 (352)
Q Consensus 3 ~~~~~~~~~i~~aD~vl~VvDar~p~~~~~~~l~~~l~-~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~v~~iS 81 (352)
+-.+|+..++++||++|||+|++.+++..+..+.++++ .++|+++|+||+|-...+ ....+++ +.|.. +++++|
T Consensus 72 ~i~~Qa~~Ai~eADvilfvVD~~~Git~~D~~ia~~Lr~~~kpviLvvNK~D~~~~e--~~~~efy-slG~g--~~~~IS 146 (444)
T COG1160 72 LIREQALIAIEEADVILFVVDGREGITPADEEIAKILRRSKKPVILVVNKIDNLKAE--ELAYEFY-SLGFG--EPVPIS 146 (444)
T ss_pred HHHHHHHHHHHhCCEEEEEEeCCCCCCHHHHHHHHHHHhcCCCEEEEEEcccCchhh--hhHHHHH-hcCCC--CceEee
Confidence 45678999999999999999999999999999999887 669999999999976333 3334444 56655 799999
Q ss_pred cCCCCCCCHHHHHHHHHHHhhhccccccccccceeEEEeccCCCCchhHHHHHhhhhcccCCCCCCCcchhhhhcccccc
Q psy15351 82 CRNPNCKGVQKILPTLQHISDNMTRYHRTEVYNTTVMVVGVPNVGKSSIINALRSSHMKKGKAVPILPTLQHISDNMTRY 161 (352)
Q Consensus 82 a~~~~~~gi~~L~~~i~~~~~~~~~~~~~~~~~~~~~~~g~~nvgksslin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~ 161 (352)
|.++ .|+.+|++.+.+.++ ..+.. .
T Consensus 147 A~Hg--~Gi~dLld~v~~~l~-~~e~~----------------------------------------------------~ 171 (444)
T COG1160 147 AEHG--RGIGDLLDAVLELLP-PDEEE----------------------------------------------------E 171 (444)
T ss_pred hhhc--cCHHHHHHHHHhhcC-Ccccc----------------------------------------------------c
Confidence 9999 999999999998875 22100 0
Q ss_pred ccccCcceEEEEeCCCCCChHHHHHHHhCCCCCCCCceecCCCCCceeEeeeeEEecCCCcEEEEeCCCCCCCCCCCHHH
Q psy15351 162 HRTEVYNTTVMVVGVPNVGKSSIINALRSSHMKKGKAVPVGPKAGVTRSVMSQVKISEKPLIYILDTPGISLPRIDNLEC 241 (352)
Q Consensus 162 ~~~~~~~~~v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~~~pg~T~~~~~~~~~~~~~~~~l~DtPGi~~~~~~~~~~ 241 (352)
......+++++++|.||||||||+|+|++ +..+.+++.|||||+.+......+++.+.++||.|+........ .
T Consensus 172 ~~~~~~~ikiaiiGrPNvGKSsLiN~ilg-----eeR~Iv~~~aGTTRD~I~~~~e~~~~~~~liDTAGiRrk~ki~e-~ 245 (444)
T COG1160 172 EEEETDPIKIAIIGRPNVGKSSLINAILG-----EERVIVSDIAGTTRDSIDIEFERDGRKYVLIDTAGIRRKGKITE-S 245 (444)
T ss_pred ccccCCceEEEEEeCCCCCchHHHHHhcc-----CceEEecCCCCccccceeeeEEECCeEEEEEECCCCCccccccc-c
Confidence 00012579999999999999999999998 78899999999999998866667788999999999997632111 0
Q ss_pred HHHHHHH---hh---------hhhhccc----hhhhhHhHH-------hhhcCCCCCcccccccCCCCCccHHHHHHHHH
Q psy15351 242 GMRLAAC---AT---------LQDHLVG----EINIADYIL-------FYLNRTGNYRYVDFFNLDEPSDDIVMLLAKAA 298 (352)
Q Consensus 242 ~~~l~~~---~~---------i~~~~~~----~~~~~~~il-------~~~~~~~~~~~~~~~~l~~~~~~~~~~l~~~a 298 (352)
.++.++. .+ +.|...+ +..++.++. .++|+|+..+- +..-+.....++...|.++
T Consensus 246 ~E~~Sv~rt~~aI~~a~vvllviDa~~~~~~qD~~ia~~i~~~g~~~vIvvNKWDl~~~-~~~~~~~~k~~i~~~l~~l- 323 (444)
T COG1160 246 VEKYSVARTLKAIERADVVLLVIDATEGISEQDLRIAGLIEEAGRGIVIVVNKWDLVEE-DEATMEEFKKKLRRKLPFL- 323 (444)
T ss_pred eEEEeehhhHhHHhhcCEEEEEEECCCCchHHHHHHHHHHHHcCCCeEEEEEccccCCc-hhhHHHHHHHHHHHHhccc-
Confidence 1111111 11 1121111 233444443 46677764221 0011111122334444444
Q ss_pred HHhcccccccccc-CCcccCCCCHHHHHHHHHHHHhCCCCcce
Q psy15351 299 IKKKWFKRAFDVS-SNSVRMFPDTGEVARIFIEHFRKGSFGSV 340 (352)
Q Consensus 299 ~~~g~~~~~~~~~-~g~~~~~~d~~~a~~~~l~~~~~g~l~~~ 340 (352)
.+.++.++||++ +|....++.+..++..+-+.+.++.|+++
T Consensus 324 -~~a~i~~iSA~~~~~i~~l~~~i~~~~~~~~~ri~Ts~LN~~ 365 (444)
T COG1160 324 -DFAPIVFISALTGQGLDKLFEAIKEIYECATRRISTSLLNRV 365 (444)
T ss_pred -cCCeEEEEEecCCCChHHHHHHHHHHHHHhccccCHHHHHHH
Confidence 355677888888 55555667778888888888888888876
No 9
>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=99.96 E-value=6.2e-29 Score=209.81 Aligned_cols=154 Identities=31% Similarity=0.462 Sum_probs=124.5
Q ss_pred HHHHHhhccCEEEEEEcCCCCCCCcCHHHHHHHh---CCCCEEEEEEcccCCCccchHHHHHHHHhhcCCCCcEEEeecC
Q psy15351 7 DIEKHLKNVDIVIEVHDSRMPFTGRNHLLQQSVQ---NIRPMVLVLNKRDLINSKHESLIEEKVRKEQSHISEVIFTNCR 83 (352)
Q Consensus 7 ~~~~~i~~aD~vl~VvDar~p~~~~~~~l~~~l~---~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~v~~iSa~ 83 (352)
++|+.++++|+|++|+|+++|+...+..+.+++. .++|+++|+||+|+++++....|.+++.+.. .+ .++++||+
T Consensus 1 ~~~~~l~~aD~il~VvD~~~p~~~~~~~i~~~l~~~~~~~p~ilVlNKiDl~~~~~~~~~~~~~~~~~-~~-~~~~iSa~ 78 (157)
T cd01858 1 ELYKVIDSSDVVIQVLDARDPMGTRCKHVEEYLKKEKPHKHLIFVLNKCDLVPTWVTARWVKILSKEY-PT-IAFHASIN 78 (157)
T ss_pred ChhHhhhhCCEEEEEEECCCCccccCHHHHHHHHhccCCCCEEEEEEchhcCCHHHHHHHHHHHhcCC-cE-EEEEeecc
Confidence 4789999999999999999998888888888775 2489999999999998776778888886542 21 25789999
Q ss_pred CCCCCCHHHHHHHHHHHhhhccccccccccceeEEEeccCCCCchhHHHHHhhhhcccCCCCCCCcchhhhhcccccccc
Q psy15351 84 NPNCKGVQKILPTLQHISDNMTRYHRTEVYNTTVMVVGVPNVGKSSIINALRSSHMKKGKAVPILPTLQHISDNMTRYHR 163 (352)
Q Consensus 84 ~~~~~gi~~L~~~i~~~~~~~~~~~~~~~~~~~~~~~g~~nvgksslin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 163 (352)
++ .|+++|++.+.+++...
T Consensus 79 ~~--~~~~~L~~~l~~~~~~~----------------------------------------------------------- 97 (157)
T cd01858 79 NP--FGKGSLIQLLRQFSKLH----------------------------------------------------------- 97 (157)
T ss_pred cc--ccHHHHHHHHHHHHhhh-----------------------------------------------------------
Confidence 99 99999999887654210
Q ss_pred ccCcceEEEEeCCCCCChHHHHHHHhCCCCCCCCceecCCCCCceeEeeeeEEecCCCcEEEEeCCCC
Q psy15351 164 TEVYNTTVMVVGVPNVGKSSIINALRSSHMKKGKAVPVGPKAGVTRSVMSQVKISEKPLIYILDTPGI 231 (352)
Q Consensus 164 ~~~~~~~v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~~~pg~T~~~~~~~~~~~~~~~~l~DtPGi 231 (352)
.....++++++|.||||||||||+|.+ ...+.+++.||+|++.+ .+.. +..++++||||+
T Consensus 98 ~~~~~~~v~~~G~~nvGKStliN~l~~-----~~~~~~~~~~g~T~~~~-~~~~--~~~~~liDtPGi 157 (157)
T cd01858 98 SDKKQISVGFIGYPNVGKSSIINTLRS-----KKVCKVAPIPGETKVWQ-YITL--MKRIYLIDCPGV 157 (157)
T ss_pred ccccceEEEEEeCCCCChHHHHHHHhc-----CCceeeCCCCCeeEeEE-EEEc--CCCEEEEECcCC
Confidence 012357899999999999999999997 57789999999999875 3433 346999999997
No 10
>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=99.95 E-value=5.6e-27 Score=200.63 Aligned_cols=166 Identities=41% Similarity=0.666 Sum_probs=130.5
Q ss_pred ChhHHHHHHHHhhccCEEEEEEcCCCCCCCcCHHHHHHHhCCCCEEEEEEcccCCCccchHHHHHHHHhhcCCCCcEEEe
Q psy15351 1 MGRGLKDIEKHLKNVDIVIEVHDSRMPFTGRNHLLQQSVQNIRPMVLVLNKRDLINSKHESLIEEKVRKEQSHISEVIFT 80 (352)
Q Consensus 1 m~~~~~~~~~~i~~aD~vl~VvDar~p~~~~~~~l~~~l~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~v~~i 80 (352)
|+++++++++.+++||+|++|+|++.|....+..+.+.+ .++|.++|+||+|+.+++....|.++++..+. .++++
T Consensus 6 ~~~~~~~~~~~i~~aD~il~v~D~~~~~~~~~~~i~~~~-~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~---~vi~i 81 (171)
T cd01856 6 MAKALRQIKEKLKLVDLVIEVRDARIPLSSRNPLLEKIL-GNKPRIIVLNKADLADPKKTKKWLKYFESKGE---KVLFV 81 (171)
T ss_pred HHHHHHHHHHHHhhCCEEEEEeeccCccCcCChhhHhHh-cCCCEEEEEehhhcCChHHHHHHHHHHHhcCC---eEEEE
Confidence 899999999999999999999999999887776666655 57899999999999876555567777755443 48999
Q ss_pred ecCCCCCCCHHHHHHHHHHHhhhccccccccccceeEEEeccCCCCchhHHHHHhhhhcccCCCCCCCcchhhhhccccc
Q psy15351 81 NCRNPNCKGVQKILPTLQHISDNMTRYHRTEVYNTTVMVVGVPNVGKSSIINALRSSHMKKGKAVPILPTLQHISDNMTR 160 (352)
Q Consensus 81 Sa~~~~~~gi~~L~~~i~~~~~~~~~~~~~~~~~~~~~~~g~~nvgksslin~l~~~~~~~~~~~~~~~~~~~~~~~~~~ 160 (352)
||+++ .|+++|.+.+.+.++... ...
T Consensus 82 Sa~~~--~gi~~L~~~l~~~l~~~~---------------------------~~~------------------------- 107 (171)
T cd01856 82 NAKSG--KGVKKLLKAAKKLLKDIE---------------------------KLK------------------------- 107 (171)
T ss_pred ECCCc--ccHHHHHHHHHHHHHHHh---------------------------hhh-------------------------
Confidence 99999 999999999887654210 000
Q ss_pred cccccCcceEEEEeCCCCCChHHHHHHHhCCCCCCCCceecCCCCCceeEeeeeEEecCCCcEEEEeCCCCC
Q psy15351 161 YHRTEVYNTTVMVVGVPNVGKSSIINALRSSHMKKGKAVPVGPKAGVTRSVMSQVKISEKPLIYILDTPGIS 232 (352)
Q Consensus 161 ~~~~~~~~~~v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~~~pg~T~~~~~~~~~~~~~~~~l~DtPGi~ 232 (352)
.....+..++++++|.||||||||+|+|.+ .....+++.||+|+..+. +... ..+.++||||+.
T Consensus 108 ~~~~~~~~~~~~~~G~~~vGKstlin~l~~-----~~~~~~~~~~~~T~~~~~-~~~~--~~~~~iDtpG~~ 171 (171)
T cd01856 108 AKGLLPRGIRAMVVGIPNVGKSTLINRLRG-----KKVAKVGNKPGVTKGIQW-IKIS--PGIYLLDTPGIL 171 (171)
T ss_pred hcccCCCCeEEEEECCCCCCHHHHHHHHhC-----CCceeecCCCCEEeeeEE-EEec--CCEEEEECCCCC
Confidence 000123457899999999999999999997 455688999999999764 4332 468999999984
No 11
>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=99.94 E-value=8.3e-26 Score=187.26 Aligned_cols=137 Identities=33% Similarity=0.506 Sum_probs=115.8
Q ss_pred HHHHHHHhhccCEEEEEEcCCCCCCCcCHHHHHHHh-C--CCCEEEEEEcccCCCccchHHHHHHHHhhcCCCCcEEEee
Q psy15351 5 LKDIEKHLKNVDIVIEVHDSRMPFTGRNHLLQQSVQ-N--IRPMVLVLNKRDLINSKHESLIEEKVRKEQSHISEVIFTN 81 (352)
Q Consensus 5 ~~~~~~~i~~aD~vl~VvDar~p~~~~~~~l~~~l~-~--~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~v~~iS 81 (352)
|++++++++++|++++|+|+++|....+..+.+++. . ++|+++|+||+|+++++....|.+++++.+.. ++++|
T Consensus 2 ~~~~~~~i~~aD~vl~ViD~~~p~~~~~~~l~~~l~~~~~~k~~iivlNK~DL~~~~~~~~~~~~~~~~~~~---ii~iS 78 (141)
T cd01857 2 WRQLWRVVERSDIVVQIVDARNPLLFRPPDLERYVKEVDPRKKNILLLNKADLLTEEQRKAWAEYFKKEGIV---VVFFS 78 (141)
T ss_pred HHHHHHHHhhCCEEEEEEEccCCcccCCHHHHHHHHhccCCCcEEEEEechhcCCHHHHHHHHHHHHhcCCe---EEEEE
Confidence 689999999999999999999999888888888775 3 79999999999998877677888888776654 89999
Q ss_pred cCCCCCCCHHHHHHHHHHHhhhccccccccccceeEEEeccCCCCchhHHHHHhhhhcccCCCCCCCcchhhhhcccccc
Q psy15351 82 CRNPNCKGVQKILPTLQHISDNMTRYHRTEVYNTTVMVVGVPNVGKSSIINALRSSHMKKGKAVPILPTLQHISDNMTRY 161 (352)
Q Consensus 82 a~~~~~~gi~~L~~~i~~~~~~~~~~~~~~~~~~~~~~~g~~nvgksslin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~ 161 (352)
|.++ .+
T Consensus 79 a~~~--~~------------------------------------------------------------------------ 84 (141)
T cd01857 79 ALKE--NA------------------------------------------------------------------------ 84 (141)
T ss_pred ecCC--Cc------------------------------------------------------------------------
Confidence 9876 21
Q ss_pred ccccCcceEEEEeCCCCCChHHHHHHHhCCCCCCCCceecCCCCCceeEeeeeEEecCCCcEEEEeCCCCCCC
Q psy15351 162 HRTEVYNTTVMVVGVPNVGKSSIINALRSSHMKKGKAVPVGPKAGVTRSVMSQVKISEKPLIYILDTPGISLP 234 (352)
Q Consensus 162 ~~~~~~~~~v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~~~pg~T~~~~~~~~~~~~~~~~l~DtPGi~~~ 234 (352)
+++++|.|||||||++|+|.+ .+...++..||+|++.+ .+.+. ..++++||||+..|
T Consensus 85 --------~~~~~G~~~vGKstlin~l~~-----~~~~~~~~~~~~~~~~~-~~~~~--~~~~i~DtpG~~~p 141 (141)
T cd01857 85 --------TIGLVGYPNVGKSSLINALVG-----KKKVSVSATPGKTKHFQ-TIFLT--PTITLCDCPGLVFP 141 (141)
T ss_pred --------EEEEECCCCCCHHHHHHHHhC-----CCceeeCCCCCcccceE-EEEeC--CCEEEEECCCcCCC
Confidence 488999999999999999997 45568999999999875 44443 36899999999875
No 12
>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=99.94 E-value=7.1e-26 Score=193.19 Aligned_cols=162 Identities=30% Similarity=0.460 Sum_probs=113.0
Q ss_pred CEEEEEEcCCCCCCCcCHHHHHH--Hh-CCCCEEEEEEcccCCCccchHHHHHHHHhhcCCCCcEEEeecCCCCCCCHHH
Q psy15351 16 DIVIEVHDSRMPFTGRNHLLQQS--VQ-NIRPMVLVLNKRDLINSKHESLIEEKVRKEQSHISEVIFTNCRNPNCKGVQK 92 (352)
Q Consensus 16 D~vl~VvDar~p~~~~~~~l~~~--l~-~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~v~~iSa~~~~~~gi~~ 92 (352)
|+|++|+|+|.|+++.++++.++ ++ .++|+++|+||+||++++....|.+++++.... +.+.|+... +...
T Consensus 1 DvVl~VvDar~p~~~~~~~i~~~~~l~~~~kp~IlVlNK~DL~~~~~l~~~~~~~~~~~~~---~~~~~~~~~---~~~~ 74 (172)
T cd04178 1 DVILEVLDARDPLGCRCPQVEEAVLQAGGNKKLVLVLNKIDLVPKENVEKWLKYLRREFPT---VAFKASTQS---QKKN 74 (172)
T ss_pred CEEEEEEECCCCCCCCCHHHHHHHHhccCCCCEEEEEehhhcCCHHHHHHHHHHHHhhCCE---EEEEecccc---cccc
Confidence 89999999999999999999888 43 578999999999999988888999999765432 445555432 1111
Q ss_pred HHHH-------HHHHhhhccccccccccceeEEEeccCCCCchhHHHHHhhhhcccCCCCCCCcchhhhhcccccccccc
Q psy15351 93 ILPT-------LQHISDNMTRYHRTEVYNTTVMVVGVPNVGKSSIINALRSSHMKKGKAVPILPTLQHISDNMTRYHRTE 165 (352)
Q Consensus 93 L~~~-------i~~~~~~~~~~~~~~~~~~~~~~~g~~nvgksslin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 165 (352)
+... ...++. .....|...+++.++....+ ...
T Consensus 75 ~~~~~~~~~~~~~~l~~------------------~~~~~~~~~l~~~~~~~~~~----------------------~~~ 114 (172)
T cd04178 75 LGQKSVKVEAASADLLR------------------SSVCFGADCLLKLLKNYSRN----------------------KDI 114 (172)
T ss_pred hhhcccccchhhhhhhh------------------hccccCHHHHHHHHHHHhhc----------------------ccc
Confidence 1110 001110 11123444454444321110 012
Q ss_pred CcceEEEEeCCCCCChHHHHHHHhCCCCCCCCceecCCCCCceeEeeeeEEecCCCcEEEEeCCCC
Q psy15351 166 VYNTTVMVVGVPNVGKSSIINALRSSHMKKGKAVPVGPKAGVTRSVMSQVKISEKPLIYILDTPGI 231 (352)
Q Consensus 166 ~~~~~v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~~~pg~T~~~~~~~~~~~~~~~~l~DtPGi 231 (352)
...++++++|.||||||||||+|.+ ...+.+++.||+|++.+. +.. +.+++++||||+
T Consensus 115 ~~~~~~~~vG~pnvGKSslin~l~~-----~~~~~~~~~pg~T~~~~~-~~~--~~~~~l~DtPGi 172 (172)
T cd04178 115 KTSITVGVVGFPNVGKSSLINSLKR-----SRACNVGATPGVTKSMQE-VHL--DKKVKLLDSPGI 172 (172)
T ss_pred ccCcEEEEEcCCCCCHHHHHHHHhC-----cccceecCCCCeEcceEE-EEe--CCCEEEEECcCC
Confidence 3468999999999999999999997 577899999999999764 333 346999999997
No 13
>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=99.93 E-value=3.9e-25 Score=186.19 Aligned_cols=153 Identities=31% Similarity=0.408 Sum_probs=115.9
Q ss_pred CEEEEEEcCCCCCCCcCHHHH-HHHh-CCCCEEEEEEcccCCCccchHHHHHHHHhhcCCCCcEEEeecCCCCCCCHHHH
Q psy15351 16 DIVIEVHDSRMPFTGRNHLLQ-QSVQ-NIRPMVLVLNKRDLINSKHESLIEEKVRKEQSHISEVIFTNCRNPNCKGVQKI 93 (352)
Q Consensus 16 D~vl~VvDar~p~~~~~~~l~-~~l~-~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~v~~iSa~~~~~~gi~~L 93 (352)
|++|+|+|+++|.++.+..+. ..+. .++|+++|+||+|+++++....|..++++... ..++++||+++ .|+++|
T Consensus 1 Dvvl~VvD~~~p~~~~~~~i~~~~~~~~~~p~IiVlNK~Dl~~~~~~~~~~~~~~~~~~--~~ii~vSa~~~--~gi~~L 76 (155)
T cd01849 1 DVILEVLDARDPLGTRSPDIERVLIKEKGKKLILVLNKADLVPKEVLRKWLAYLRHSYP--TIPFKISATNG--QGIEKK 76 (155)
T ss_pred CEEEEEEeccCCccccCHHHHHHHHhcCCCCEEEEEechhcCCHHHHHHHHHHHHhhCC--ceEEEEeccCC--cChhhH
Confidence 899999999999988888776 4444 67999999999999887666778766654432 25899999999 999999
Q ss_pred HHHHHHHhhhccccccccccceeEEEeccCCCCchhHHHHHhhhhcccCCCCCCCcchhhhhccccccccccCcceEEEE
Q psy15351 94 LPTLQHISDNMTRYHRTEVYNTTVMVVGVPNVGKSSIINALRSSHMKKGKAVPILPTLQHISDNMTRYHRTEVYNTTVMV 173 (352)
Q Consensus 94 ~~~i~~~~~~~~~~~~~~~~~~~~~~~g~~nvgksslin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~i 173 (352)
++.+.+...+.. +.... ........++++
T Consensus 77 ~~~i~~~~~~~~--------------------------~~~~~-------------------------~~~~~~~~~~~~ 105 (155)
T cd01849 77 ESAFTKQTNSNL--------------------------KSYAK-------------------------DGKLKKSITVGV 105 (155)
T ss_pred HHHHHHHhHHHH--------------------------HHHHh-------------------------ccccccCcEEEE
Confidence 988865432110 00000 000134688999
Q ss_pred eCCCCCChHHHHHHHhCCCCCCCCceecCCCCCceeEeeeeEEecCCCcEEEEeCCCC
Q psy15351 174 VGVPNVGKSSIINALRSSHMKKGKAVPVGPKAGVTRSVMSQVKISEKPLIYILDTPGI 231 (352)
Q Consensus 174 ~G~pnvGKStliN~l~~~~~~~~~~~~~~~~pg~T~~~~~~~~~~~~~~~~l~DtPGi 231 (352)
+|.|||||||++|+|.+ .....+++.||+|++.+. ... +..++++||||+
T Consensus 106 ~G~~~~GKstlin~l~~-----~~~~~~~~~~~~t~~~~~-~~~--~~~~~liDtPG~ 155 (155)
T cd01849 106 IGYPNVGKSSVINALLN-----KLKLKVGNVPGTTTSQQE-VKL--DNKIKLLDTPGI 155 (155)
T ss_pred EccCCCCHHHHHHHHHc-----cccccccCCCCcccceEE-EEe--cCCEEEEECCCC
Confidence 99999999999999997 455678999999999864 333 346999999997
No 14
>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=99.93 E-value=2.1e-24 Score=181.85 Aligned_cols=153 Identities=33% Similarity=0.468 Sum_probs=118.2
Q ss_pred HHHHHHHhhc-cCEEEEEEcCCCCCCCcCHHHHHHHh-CCCCEEEEEEcccCCCccchHHHHHHHHhhcCCCCcEEEeec
Q psy15351 5 LKDIEKHLKN-VDIVIEVHDSRMPFTGRNHLLQQSVQ-NIRPMVLVLNKRDLINSKHESLIEEKVRKEQSHISEVIFTNC 82 (352)
Q Consensus 5 ~~~~~~~i~~-aD~vl~VvDar~p~~~~~~~l~~~l~-~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~v~~iSa 82 (352)
|+++.+.+.+ +|++|+|+|+++|....+..+..++. .++|+++|+||+|+.+.+....|..+....+. +++++||
T Consensus 2 ~~~~~~~i~~~aD~vl~V~D~~~~~~~~~~~l~~~~~~~~~p~iiv~NK~Dl~~~~~~~~~~~~~~~~~~---~~~~iSa 78 (156)
T cd01859 2 WKRLVRRIIKESDVVLEVLDARDPELTRSRKLERYVLELGKKLLIVLNKADLVPKEVLEKWKSIKESEGI---PVVYVSA 78 (156)
T ss_pred HHHHHHHHHhhCCEEEEEeeCCCCcccCCHHHHHHHHhCCCcEEEEEEhHHhCCHHHHHHHHHHHHhCCC---cEEEEEc
Confidence 6777766655 99999999999988777777766654 57999999999999865444445433333333 4899999
Q ss_pred CCCCCCCHHHHHHHHHHHhhhccccccccccceeEEEeccCCCCchhHHHHHhhhhcccCCCCCCCcchhhhhccccccc
Q psy15351 83 RNPNCKGVQKILPTLQHISDNMTRYHRTEVYNTTVMVVGVPNVGKSSIINALRSSHMKKGKAVPILPTLQHISDNMTRYH 162 (352)
Q Consensus 83 ~~~~~~gi~~L~~~i~~~~~~~~~~~~~~~~~~~~~~~g~~nvgksslin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 162 (352)
+++ .|+++|++.+.+.++..
T Consensus 79 ~~~--~gi~~L~~~l~~~~~~~---------------------------------------------------------- 98 (156)
T cd01859 79 KER--LGTKILRRTIKELAKID---------------------------------------------------------- 98 (156)
T ss_pred ccc--ccHHHHHHHHHHHHhhc----------------------------------------------------------
Confidence 999 99999999988766521
Q ss_pred cccCcceEEEEeCCCCCChHHHHHHHhCCCCCCCCceecCCCCCceeEeeeeEEecCCCcEEEEeCCCC
Q psy15351 163 RTEVYNTTVMVVGVPNVGKSSIINALRSSHMKKGKAVPVGPKAGVTRSVMSQVKISEKPLIYILDTPGI 231 (352)
Q Consensus 163 ~~~~~~~~v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~~~pg~T~~~~~~~~~~~~~~~~l~DtPGi 231 (352)
....+++++|.|||||||++|+|.+ .....+++.+|+|++.+ .+.. +..+.++||||+
T Consensus 99 ---~~~~~~~~ig~~~~Gkssl~~~l~~-----~~~~~~~~~~~~t~~~~-~~~~--~~~~~~~DtpGi 156 (156)
T cd01859 99 ---GKEGKVGVVGYPNVGKSSIINALKG-----RHSASTSPSPGYTKGEQ-LVKI--TSKIYLLDTPGV 156 (156)
T ss_pred ---CCCcEEEEECCCCCCHHHHHHHHhC-----CCccccCCCCCeeeeeE-EEEc--CCCEEEEECcCC
Confidence 1346789999999999999999996 45677899999998764 3332 336999999996
No 15
>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=99.93 E-value=1.7e-24 Score=188.38 Aligned_cols=156 Identities=24% Similarity=0.275 Sum_probs=113.6
Q ss_pred HHHHHHhhccCEEEEEEcCCCCCCCcCHHHHHHHhCCCCEEEEEEcccCCCccch----HHHHHHH--HhhcCCCCcEEE
Q psy15351 6 KDIEKHLKNVDIVIEVHDSRMPFTGRNHLLQQSVQNIRPMVLVLNKRDLINSKHE----SLIEEKV--RKEQSHISEVIF 79 (352)
Q Consensus 6 ~~~~~~i~~aD~vl~VvDar~p~~~~~~~l~~~l~~~k~~ilVlNK~Dl~~~~~~----~~~~~~~--~~~~~~~~~v~~ 79 (352)
..+...++++|+|++|+|++++.......+.... .++|+++|+||+|+.+++.. ..|.+.+ +..+....++++
T Consensus 26 ~~l~~~~~~ad~il~VvD~~~~~~~~~~~l~~~~-~~~~~ilV~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~ 104 (190)
T cd01855 26 NLLSSISPKKALVVHVVDIFDFPGSLIPRLRLFG-GNNPVILVGNKIDLLPKDKNLVRIKNWLRAKAAAGLGLKPKDVIL 104 (190)
T ss_pred HHHHhcccCCcEEEEEEECccCCCccchhHHHhc-CCCcEEEEEEchhcCCCCCCHHHHHHHHHHHHHhhcCCCcccEEE
Confidence 3455678999999999999988766666663322 57899999999999865432 2233111 222332235899
Q ss_pred eecCCCCCCCHHHHHHHHHHHhhhccccccccccceeEEEeccCCCCchhHHHHHhhhhcccCCCCCCCcchhhhhcccc
Q psy15351 80 TNCRNPNCKGVQKILPTLQHISDNMTRYHRTEVYNTTVMVVGVPNVGKSSIINALRSSHMKKGKAVPILPTLQHISDNMT 159 (352)
Q Consensus 80 iSa~~~~~~gi~~L~~~i~~~~~~~~~~~~~~~~~~~~~~~g~~nvgksslin~l~~~~~~~~~~~~~~~~~~~~~~~~~ 159 (352)
+||+++ +|+++|++.|.+.++
T Consensus 105 vSA~~~--~gi~eL~~~l~~~l~--------------------------------------------------------- 125 (190)
T cd01855 105 ISAKKG--WGVEELINAIKKLAK--------------------------------------------------------- 125 (190)
T ss_pred EECCCC--CCHHHHHHHHHHHhh---------------------------------------------------------
Confidence 999999 999999998876543
Q ss_pred ccccccCcceEEEEeCCCCCChHHHHHHHhCCCCCCC---CceecCCCCCceeEeeeeEEecCCCcEEEEeCCCC
Q psy15351 160 RYHRTEVYNTTVMVVGVPNVGKSSIINALRSSHMKKG---KAVPVGPKAGVTRSVMSQVKISEKPLIYILDTPGI 231 (352)
Q Consensus 160 ~~~~~~~~~~~v~i~G~pnvGKStliN~l~~~~~~~~---~~~~~~~~pg~T~~~~~~~~~~~~~~~~l~DtPGi 231 (352)
...+++++|.||||||||||+|.+...... ..+.++..||||++.+. +.+.. .++++||||+
T Consensus 126 -------~~~~~~~~G~~nvGKStliN~l~~~~~~~~~~~~~~~~~~~~gtT~~~~~-~~~~~--~~~~~DtPG~ 190 (190)
T cd01855 126 -------KGGDVYVVGATNVGKSTLINALLKKDNGKKKLKDLLTTSPIPGTTLDLIK-IPLGN--GKKLYDTPGI 190 (190)
T ss_pred -------cCCcEEEEcCCCCCHHHHHHHHHHhcccccccccccccCCCCCeeeeeEE-EecCC--CCEEEeCcCC
Confidence 124689999999999999999997432221 34678999999999864 44332 5899999997
No 16
>PRK12289 GTPase RsgA; Reviewed
Probab=99.91 E-value=1.8e-23 Score=196.78 Aligned_cols=181 Identities=25% Similarity=0.362 Sum_probs=130.9
Q ss_pred HHhhccCEEEEEEcCCCCCCCcCHHHHHHHh----CCCCEEEEEEcccCCCccchHHHHHHHHhhcCCCCcEEEeecCCC
Q psy15351 10 KHLKNVDIVIEVHDSRMPFTGRNHLLQQSVQ----NIRPMVLVLNKRDLINSKHESLIEEKVRKEQSHISEVIFTNCRNP 85 (352)
Q Consensus 10 ~~i~~aD~vl~VvDar~p~~~~~~~l~~~l~----~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~v~~iSa~~~ 85 (352)
..++++|+|++|+|+.+|... ...+.+++. .+.|.++|+||+||++++....|.+.|...++. ++++||.++
T Consensus 85 ~~~aNvD~vLlV~d~~~p~~~-~~~LdR~L~~a~~~~ip~ILVlNK~DLv~~~~~~~~~~~~~~~g~~---v~~iSA~tg 160 (352)
T PRK12289 85 PPVANADQILLVFALAEPPLD-PWQLSRFLVKAESTGLEIVLCLNKADLVSPTEQQQWQDRLQQWGYQ---PLFISVETG 160 (352)
T ss_pred hhhhcCCEEEEEEECCCCCCC-HHHHHHHHHHHHHCCCCEEEEEEchhcCChHHHHHHHHHHHhcCCe---EEEEEcCCC
Confidence 358999999999999876422 223444443 578999999999999776667888888777775 999999999
Q ss_pred CCCCHHHHHHHHHHHhhhccccccccccceeEEEeccCCCCchhHHHHHhhhhcccCCCCCCCcchhhhhcccccccccc
Q psy15351 86 NCKGVQKILPTLQHISDNMTRYHRTEVYNTTVMVVGVPNVGKSSIINALRSSHMKKGKAVPILPTLQHISDNMTRYHRTE 165 (352)
Q Consensus 86 ~~~gi~~L~~~i~~~~~~~~~~~~~~~~~~~~~~~g~~nvgksslin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 165 (352)
.|+++|++.+..
T Consensus 161 --~GI~eL~~~L~~------------------------------------------------------------------ 172 (352)
T PRK12289 161 --IGLEALLEQLRN------------------------------------------------------------------ 172 (352)
T ss_pred --CCHHHHhhhhcc------------------------------------------------------------------
Confidence 999988766520
Q ss_pred CcceEEEEeCCCCCChHHHHHHHhCCCCCCCCceecCCCCC-------ceeEeeeeEEecCCCcEEEEeCCCCCCCCCCC
Q psy15351 166 VYNTTVMVVGVPNVGKSSIINALRSSHMKKGKAVPVGPKAG-------VTRSVMSQVKISEKPLIYILDTPGISLPRIDN 238 (352)
Q Consensus 166 ~~~~~v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~~~pg-------~T~~~~~~~~~~~~~~~~l~DtPGi~~~~~~~ 238 (352)
..++|+|.||||||||||+|.+ .....++..+| ||++.+ .+.+.. ..+|+|||||..+....
T Consensus 173 ---ki~v~iG~SgVGKSSLIN~L~~-----~~~~~t~~vs~~~~rGrHTT~~~~-l~~l~~--g~~liDTPG~~~~~l~~ 241 (352)
T PRK12289 173 ---KITVVAGPSGVGKSSLINRLIP-----DVELRVGKVSGKLGRGRHTTRHVE-LFELPN--GGLLADTPGFNQPDLDC 241 (352)
T ss_pred ---ceEEEEeCCCCCHHHHHHHHcC-----ccccccccccCCCCCCCCcCceeE-EEECCC--CcEEEeCCCcccccccc
Confidence 1378999999999999999997 56677888888 888874 454433 25899999999886521
Q ss_pred HHHHHHHHHHhhhhhhccchhhhhHhHHhhhc--CCCCCcccccccCCCCCccHH
Q psy15351 239 LECGMRLAACATLQDHLVGEINIADYILFYLN--RTGNYRYVDFFNLDEPSDDIV 291 (352)
Q Consensus 239 ~~~~~~l~~~~~i~~~~~~~~~~~~~il~~~~--~~~~~~~~~~~~l~~~~~~~~ 291 (352)
.... +..++..+-. ....|.|.+|.+..+|.+.+.
T Consensus 242 ~~~~------------------l~~~F~e~~~~~~~~~CrF~dC~H~~EPgCaV~ 278 (352)
T PRK12289 242 SPRE------------------LAHYFPEARQRLAQGNCQFNDCLHRDEPNCAVR 278 (352)
T ss_pred CHHH------------------HHhhHHHHHHhHhhCceEccCCccCCCCChhhh
Confidence 1111 1222111111 124578899999999987654
No 17
>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=99.91 E-value=2.4e-23 Score=187.80 Aligned_cols=184 Identities=24% Similarity=0.315 Sum_probs=129.6
Q ss_pred HHhhccCEEEEEEcCCCCCCCcCHHHHHHHh----CCCCEEEEEEcccCCCccch-HHHHHHHHhhcCCCCcEEEeecCC
Q psy15351 10 KHLKNVDIVIEVHDSRMPFTGRNHLLQQSVQ----NIRPMVLVLNKRDLINSKHE-SLIEEKVRKEQSHISEVIFTNCRN 84 (352)
Q Consensus 10 ~~i~~aD~vl~VvDar~p~~~~~~~l~~~l~----~~k~~ilVlNK~Dl~~~~~~-~~~~~~~~~~~~~~~~v~~iSa~~ 84 (352)
..++++|.+++|.|+++|..+.+. +.+++. .+.|.++|+||+||.+.... .+|.+.+.+.++. ++.+||++
T Consensus 32 ~~~~n~D~viiV~d~~~p~~s~~~-l~r~l~~~~~~~i~~vIV~NK~DL~~~~~~~~~~~~~~~~~g~~---v~~~SAkt 107 (245)
T TIGR00157 32 PIVANIDQIVIVSSAVLPELSLNQ-LDRFLVVAEAQNIEPIIVLNKIDLLDDEDMEKEQLDIYRNIGYQ---VLMTSSKN 107 (245)
T ss_pred cccccCCEEEEEEECCCCCCCHHH-HHHHHHHHHHCCCCEEEEEECcccCCCHHHHHHHHHHHHHCCCe---EEEEecCC
Confidence 367899999999999988755432 344432 57899999999999865443 3677777766665 99999999
Q ss_pred CCCCCHHHHHHHHHHHhhhccccccccccceeEEEeccCCCCchhHHHHHhhhhcccCCCCCCCcchhhhhccccccccc
Q psy15351 85 PNCKGVQKILPTLQHISDNMTRYHRTEVYNTTVMVVGVPNVGKSSIINALRSSHMKKGKAVPILPTLQHISDNMTRYHRT 164 (352)
Q Consensus 85 ~~~~gi~~L~~~i~~~~~~~~~~~~~~~~~~~~~~~g~~nvgksslin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 164 (352)
+ .|+++|++.+.
T Consensus 108 g--~gi~eLf~~l~------------------------------------------------------------------ 119 (245)
T TIGR00157 108 Q--DGLKELIEALQ------------------------------------------------------------------ 119 (245)
T ss_pred c--hhHHHHHhhhc------------------------------------------------------------------
Confidence 9 99999876542
Q ss_pred cCcceEEEEeCCCCCChHHHHHHHhCCCCCCCCceecCCC-------CCceeEeeeeEEecCCCcEEEEeCCCCCCCCCC
Q psy15351 165 EVYNTTVMVVGVPNVGKSSIINALRSSHMKKGKAVPVGPK-------AGVTRSVMSQVKISEKPLIYILDTPGISLPRID 237 (352)
Q Consensus 165 ~~~~~~v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~~~-------pg~T~~~~~~~~~~~~~~~~l~DtPGi~~~~~~ 237 (352)
...++++|.||||||||||+|.+. ....++.. .+||++.+ .+... ..+++||||+....+.
T Consensus 120 ---~~~~~~~G~sgvGKStLiN~L~~~-----~~~~t~~i~~~~~~G~hTT~~~~-l~~l~---~~~liDtPG~~~~~l~ 187 (245)
T TIGR00157 120 ---NRISVFAGQSGVGKSSLINALDPS-----VKQQVNDISSKLGLGKHTTTHVE-LFHFH---GGLIADTPGFNEFGLW 187 (245)
T ss_pred ---CCEEEEECCCCCCHHHHHHHHhhh-----hhccccceeccCCCCCCcCCceE-EEEcC---CcEEEeCCCccccCCC
Confidence 124789999999999999999973 33333333 34888875 44442 3589999999998765
Q ss_pred CHHHHHHHHHHhhhhhhccchhhhhHhHHhhhcCCCCCcccccccCCCCCccHHHHH
Q psy15351 238 NLECGMRLAACATLQDHLVGEINIADYILFYLNRTGNYRYVDFFNLDEPSDDIVMLL 294 (352)
Q Consensus 238 ~~~~~~~l~~~~~i~~~~~~~~~~~~~il~~~~~~~~~~~~~~~~l~~~~~~~~~~l 294 (352)
+.+.. .+..++..+-.....|.|.+|.++.+|.+.+.+-+
T Consensus 188 ~~~~~-----------------~~~~~f~e~~~~~~~C~f~~C~H~~ep~C~v~~a~ 227 (245)
T TIGR00157 188 HLEPE-----------------QLTQGFVEFRDYLGECKFRDCLHQSEPGCAVRQAV 227 (245)
T ss_pred CCCHH-----------------HHHHhCHHHHHHhCCCCCCCCccCCCCCChHHHHH
Confidence 43311 11222222222234588899999999999776544
No 18
>PRK13796 GTPase YqeH; Provisional
Probab=99.90 E-value=1.2e-22 Score=193.37 Aligned_cols=159 Identities=22% Similarity=0.298 Sum_probs=120.2
Q ss_pred HHHHHHHhhccC-EEEEEEcCCCCCCCcCHHHHHHHhCCCCEEEEEEcccCCCccc----hHHHHHHHH-hhcCCCCcEE
Q psy15351 5 LKDIEKHLKNVD-IVIEVHDSRMPFTGRNHLLQQSVQNIRPMVLVLNKRDLINSKH----ESLIEEKVR-KEQSHISEVI 78 (352)
Q Consensus 5 ~~~~~~~i~~aD-~vl~VvDar~p~~~~~~~l~~~l~~~k~~ilVlNK~Dl~~~~~----~~~~~~~~~-~~~~~~~~v~ 78 (352)
++++.+.+..+| +|++|+|+.+...+..+.+.++. .++|+++|+||+||.+++. ...|.+.+. +.++.+.+++
T Consensus 59 ~~~~l~~i~~~~~lIv~VVD~~D~~~s~~~~L~~~~-~~kpviLViNK~DLl~~~~~~~~i~~~l~~~~k~~g~~~~~v~ 137 (365)
T PRK13796 59 FLKLLNGIGDSDALVVNVVDIFDFNGSWIPGLHRFV-GNNPVLLVGNKADLLPKSVKKNKVKNWLRQEAKELGLRPVDVV 137 (365)
T ss_pred HHHHHHhhcccCcEEEEEEECccCCCchhHHHHHHh-CCCCEEEEEEchhhCCCccCHHHHHHHHHHHHHhcCCCcCcEE
Confidence 455667777777 99999999998888888887776 5889999999999987532 345655443 3355334689
Q ss_pred EeecCCCCCCCHHHHHHHHHHHhhhccccccccccceeEEEeccCCCCchhHHHHHhhhhcccCCCCCCCcchhhhhccc
Q psy15351 79 FTNCRNPNCKGVQKILPTLQHISDNMTRYHRTEVYNTTVMVVGVPNVGKSSIINALRSSHMKKGKAVPILPTLQHISDNM 158 (352)
Q Consensus 79 ~iSa~~~~~~gi~~L~~~i~~~~~~~~~~~~~~~~~~~~~~~g~~nvgksslin~l~~~~~~~~~~~~~~~~~~~~~~~~ 158 (352)
.+||+++ .|+++|++.+.+..+
T Consensus 138 ~vSAk~g--~gI~eL~~~I~~~~~-------------------------------------------------------- 159 (365)
T PRK13796 138 LISAQKG--HGIDELLEAIEKYRE-------------------------------------------------------- 159 (365)
T ss_pred EEECCCC--CCHHHHHHHHHHhcC--------------------------------------------------------
Confidence 9999999 999999888754311
Q ss_pred cccccccCcceEEEEeCCCCCChHHHHHHHhCCCCCCCCceecCCCCCceeEeeeeEEecCCCcEEEEeCCCCCCC
Q psy15351 159 TRYHRTEVYNTTVMVVGVPNVGKSSIINALRSSHMKKGKAVPVGPKAGVTRSVMSQVKISEKPLIYILDTPGISLP 234 (352)
Q Consensus 159 ~~~~~~~~~~~~v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~~~pg~T~~~~~~~~~~~~~~~~l~DtPGi~~~ 234 (352)
..+++++|.||||||||||+|.+..........+|..||||++.+. +.+.. ...++||||+...
T Consensus 160 ---------~~~v~vvG~~NvGKSTLiN~L~~~~~~~~~~~~~s~~pGTT~~~~~-~~l~~--~~~l~DTPGi~~~ 223 (365)
T PRK13796 160 ---------GRDVYVVGVTNVGKSTLINRIIKEITGEKDVITTSRFPGTTLDKIE-IPLDD--GSFLYDTPGIIHR 223 (365)
T ss_pred ---------CCeEEEEcCCCCcHHHHHHHHHhhccCccceEEecCCCCccceeEE-EEcCC--CcEEEECCCcccc
Confidence 1358999999999999999998643222345678999999999763 44433 4689999999854
No 19
>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=99.90 E-value=1.3e-22 Score=198.38 Aligned_cols=166 Identities=23% Similarity=0.273 Sum_probs=127.4
Q ss_pred HHHHHHHHhhccCEEEEEEcCCCCCCCcCHHHHHHHh-CCCCEEEEEEcccCCCccchHHHHHHHHhhcCCCCcEEEeec
Q psy15351 4 GLKDIEKHLKNVDIVIEVHDSRMPFTGRNHLLQQSVQ-NIRPMVLVLNKRDLINSKHESLIEEKVRKEQSHISEVIFTNC 82 (352)
Q Consensus 4 ~~~~~~~~i~~aD~vl~VvDar~p~~~~~~~l~~~l~-~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~v~~iSa 82 (352)
..+++..+++.+|++++|+|++.+....+..+.++++ .++|+++|+||+|+.+.+.. ..+ +.+.+.. +++.+||
T Consensus 68 ~~~~~~~~~~~ad~vl~vvD~~~~~~~~d~~i~~~l~~~~~piilVvNK~D~~~~~~~--~~~-~~~lg~~--~~~~vSa 142 (429)
T TIGR03594 68 IREQAEIAIEEADVILFVVDGREGLTPEDEEIAKWLRKSGKPVILVANKIDGKKEDAV--AAE-FYSLGFG--EPIPISA 142 (429)
T ss_pred HHHHHHHHHhhCCEEEEEEeCCCCCCHHHHHHHHHHHHhCCCEEEEEECccCCccccc--HHH-HHhcCCC--CeEEEeC
Confidence 4466778899999999999999988877777878776 68999999999999865431 222 2344543 6999999
Q ss_pred CCCCCCCHHHHHHHHHHHhhhccccccccccceeEEEeccCCCCchhHHHHHhhhhcccCCCCCCCcchhhhhccccccc
Q psy15351 83 RNPNCKGVQKILPTLQHISDNMTRYHRTEVYNTTVMVVGVPNVGKSSIINALRSSHMKKGKAVPILPTLQHISDNMTRYH 162 (352)
Q Consensus 83 ~~~~~~gi~~L~~~i~~~~~~~~~~~~~~~~~~~~~~~g~~nvgksslin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 162 (352)
.++ .|+.++++++.+.++.... ..
T Consensus 143 ~~g--~gv~~ll~~i~~~l~~~~~------------------------------------------------------~~ 166 (429)
T TIGR03594 143 EHG--RGIGDLLDAILELLPEEEE------------------------------------------------------EE 166 (429)
T ss_pred CcC--CChHHHHHHHHHhcCcccc------------------------------------------------------cc
Confidence 999 9999999998776643210 00
Q ss_pred cccCcceEEEEeCCCCCChHHHHHHHhCCCCCCCCceecCCCCCceeEeeeeEEecCCCcEEEEeCCCCCCCC
Q psy15351 163 RTEVYNTTVMVVGVPNVGKSSIINALRSSHMKKGKAVPVGPKAGVTRSVMSQVKISEKPLIYILDTPGISLPR 235 (352)
Q Consensus 163 ~~~~~~~~v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~~~pg~T~~~~~~~~~~~~~~~~l~DtPGi~~~~ 235 (352)
......++|+++|.||||||||+|+|++ .....+++.||||++.........+..+.++||||+....
T Consensus 167 ~~~~~~~~v~ivG~~~~GKSsLin~l~~-----~~~~~~~~~~gtt~~~~~~~~~~~~~~~~liDT~G~~~~~ 234 (429)
T TIGR03594 167 EEEDGPIKIAIIGRPNVGKSTLVNALLG-----EERVIVSDIAGTTRDSIDIPFERNGKKYLLIDTAGIRRKG 234 (429)
T ss_pred cccCCceEEEEECCCCCCHHHHHHHHHC-----CCeeecCCCCCceECcEeEEEEECCcEEEEEECCCccccc
Confidence 0112458999999999999999999997 4556788999999987654444455679999999998653
No 20
>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=99.89 E-value=5.6e-22 Score=188.52 Aligned_cols=155 Identities=23% Similarity=0.284 Sum_probs=118.2
Q ss_pred HHHhhccCEEEEEEcCCCCCCCcCHHHHHHHhCCCCEEEEEEcccCCCccc----hHHHHH-HHHhhcCCCCcEEEeecC
Q psy15351 9 EKHLKNVDIVIEVHDSRMPFTGRNHLLQQSVQNIRPMVLVLNKRDLINSKH----ESLIEE-KVRKEQSHISEVIFTNCR 83 (352)
Q Consensus 9 ~~~i~~aD~vl~VvDar~p~~~~~~~l~~~l~~~k~~ilVlNK~Dl~~~~~----~~~~~~-~~~~~~~~~~~v~~iSa~ 83 (352)
......+|+|++|+|+.++..+..+++.+++ .++|+++|+||+||+++.. ..+|.+ ++++.+....+++.+||+
T Consensus 58 ~~~~~~~~~Il~VvD~~d~~~s~~~~l~~~~-~~~piilV~NK~DLl~k~~~~~~~~~~l~~~~k~~g~~~~~i~~vSAk 136 (360)
T TIGR03597 58 NSLGDSNALIVYVVDIFDFEGSLIPELKRFV-GGNPVLLVGNKIDLLPKSVNLSKIKEWMKKRAKELGLKPVDIILVSAK 136 (360)
T ss_pred hhcccCCcEEEEEEECcCCCCCccHHHHHHh-CCCCEEEEEEchhhCCCCCCHHHHHHHHHHHHHHcCCCcCcEEEecCC
Confidence 3445788999999999998888888888877 5789999999999987542 344543 344445433358999999
Q ss_pred CCCCCCHHHHHHHHHHHhhhccccccccccceeEEEeccCCCCchhHHHHHhhhhcccCCCCCCCcchhhhhcccccccc
Q psy15351 84 NPNCKGVQKILPTLQHISDNMTRYHRTEVYNTTVMVVGVPNVGKSSIINALRSSHMKKGKAVPILPTLQHISDNMTRYHR 163 (352)
Q Consensus 84 ~~~~~gi~~L~~~i~~~~~~~~~~~~~~~~~~~~~~~g~~nvgksslin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 163 (352)
++ .|+++|++.+.+..
T Consensus 137 ~g--~gv~eL~~~l~~~~-------------------------------------------------------------- 152 (360)
T TIGR03597 137 KG--NGIDELLDKIKKAR-------------------------------------------------------------- 152 (360)
T ss_pred CC--CCHHHHHHHHHHHh--------------------------------------------------------------
Confidence 99 99999998875421
Q ss_pred ccCcceEEEEeCCCCCChHHHHHHHhCCCCCCCCceecCCCCCceeEeeeeEEecCCCcEEEEeCCCCCCC
Q psy15351 164 TEVYNTTVMVVGVPNVGKSSIINALRSSHMKKGKAVPVGPKAGVTRSVMSQVKISEKPLIYILDTPGISLP 234 (352)
Q Consensus 164 ~~~~~~~v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~~~pg~T~~~~~~~~~~~~~~~~l~DtPGi~~~ 234 (352)
.+.+++++|.||||||||||+|.+........+.++..||||++.+. +.. +..+.++||||+...
T Consensus 153 ---~~~~v~~vG~~nvGKStliN~l~~~~~~~~~~~~~s~~pgtT~~~~~-~~~--~~~~~l~DtPG~~~~ 217 (360)
T TIGR03597 153 ---NKKDVYVVGVTNVGKSSLINKLLKQNNGDKDVITTSPFPGTTLDLIE-IPL--DDGHSLYDTPGIINS 217 (360)
T ss_pred ---CCCeEEEECCCCCCHHHHHHHHHhhccCCcceeeecCCCCeEeeEEE-EEe--CCCCEEEECCCCCCh
Confidence 02469999999999999999999743222345789999999999763 333 235789999999875
No 21
>PRK12288 GTPase RsgA; Reviewed
Probab=99.89 E-value=1.1e-21 Score=184.56 Aligned_cols=182 Identities=20% Similarity=0.247 Sum_probs=127.0
Q ss_pred HhhccCEEEEEEcCCCCCCCcCHHHHHHHh----CCCCEEEEEEcccCCCccc---hHHHHHHHHhhcCCCCcEEEeecC
Q psy15351 11 HLKNVDIVIEVHDSRMPFTGRNHLLQQSVQ----NIRPMVLVLNKRDLINSKH---ESLIEEKVRKEQSHISEVIFTNCR 83 (352)
Q Consensus 11 ~i~~aD~vl~VvDar~p~~~~~~~l~~~l~----~~k~~ilVlNK~Dl~~~~~---~~~~~~~~~~~~~~~~~v~~iSa~ 83 (352)
.++++|.++.|.+...++ +. ..+.+|+. .+.|.++|+||+||++... ..+|.+.+.+.++. ++.+||+
T Consensus 117 iaANvD~vlIV~s~~p~~-s~-~~Ldr~L~~a~~~~i~~VIVlNK~DL~~~~~~~~~~~~~~~y~~~g~~---v~~vSA~ 191 (347)
T PRK12288 117 IAANIDQIVIVSAVLPEL-SL-NIIDRYLVACETLGIEPLIVLNKIDLLDDEGRAFVNEQLDIYRNIGYR---VLMVSSH 191 (347)
T ss_pred EEEEccEEEEEEeCCCCC-CH-HHHHHHHHHHHhcCCCEEEEEECccCCCcHHHHHHHHHHHHHHhCCCe---EEEEeCC
Confidence 578999999888865332 22 23344432 5789999999999987542 45666777666765 9999999
Q ss_pred CCCCCCHHHHHHHHHHHhhhccccccccccceeEEEeccCCCCchhHHHHHhhhhcccCCCCCCCcchhhhhcccccccc
Q psy15351 84 NPNCKGVQKILPTLQHISDNMTRYHRTEVYNTTVMVVGVPNVGKSSIINALRSSHMKKGKAVPILPTLQHISDNMTRYHR 163 (352)
Q Consensus 84 ~~~~~gi~~L~~~i~~~~~~~~~~~~~~~~~~~~~~~g~~nvgksslin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 163 (352)
++ .|+++|++.+..
T Consensus 192 tg--~GideL~~~L~~---------------------------------------------------------------- 205 (347)
T PRK12288 192 TG--EGLEELEAALTG---------------------------------------------------------------- 205 (347)
T ss_pred CC--cCHHHHHHHHhh----------------------------------------------------------------
Confidence 99 999998877631
Q ss_pred ccCcceEEEEeCCCCCChHHHHHHHhCCCCCCCCceecCCCCC-------ceeEeeeeEEecCCCcEEEEeCCCCCCCCC
Q psy15351 164 TEVYNTTVMVVGVPNVGKSSIINALRSSHMKKGKAVPVGPKAG-------VTRSVMSQVKISEKPLIYILDTPGISLPRI 236 (352)
Q Consensus 164 ~~~~~~~v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~~~pg-------~T~~~~~~~~~~~~~~~~l~DtPGi~~~~~ 236 (352)
..++++|.||||||||||+|.+ .....++..++ ||+..+ .+.+.. ...|+|||||....+
T Consensus 206 -----ki~~~vG~sgVGKSTLiN~Ll~-----~~~~~t~~is~~~~rGrHTT~~~~-l~~l~~--~~~liDTPGir~~~l 272 (347)
T PRK12288 206 -----RISIFVGQSGVGKSSLINALLP-----EAEILVGDVSDNSGLGQHTTTAAR-LYHFPH--GGDLIDSPGVREFGL 272 (347)
T ss_pred -----CCEEEECCCCCCHHHHHHHhcc-----ccceeeccccCcCCCCcCceeeEE-EEEecC--CCEEEECCCCCcccC
Confidence 1268999999999999999997 45566666665 676654 555543 357999999998876
Q ss_pred CCHH-HHHHHHHHhhhhhhccchhhhhHhHHhhhcCCCCCcccccccCCCCCccHHHHH
Q psy15351 237 DNLE-CGMRLAACATLQDHLVGEINIADYILFYLNRTGNYRYVDFFNLDEPSDDIVMLL 294 (352)
Q Consensus 237 ~~~~-~~~~l~~~~~i~~~~~~~~~~~~~il~~~~~~~~~~~~~~~~l~~~~~~~~~~l 294 (352)
.+.+ +.+ ..++..+-.....|.|.+|.+..+|.+.+.+-+
T Consensus 273 ~~~~~~~l------------------~~~F~ei~~~~~~CrF~dC~H~~EpgCaV~~Av 313 (347)
T PRK12288 273 WHLEPEQV------------------TQGFVEFRDYLGTCKFRDCKHDDDPGCALREAV 313 (347)
T ss_pred CCCCHHHH------------------HHhhHHHHHHhcCCCCCCCccCCCCCChHHHHH
Confidence 4322 122 222222222235588999999999999766544
No 22
>PRK00093 GTP-binding protein Der; Reviewed
Probab=99.88 E-value=1.3e-21 Score=191.45 Aligned_cols=164 Identities=24% Similarity=0.280 Sum_probs=123.2
Q ss_pred HHHHHHHhhccCEEEEEEcCCCCCCCcCHHHHHHHh-CCCCEEEEEEcccCCCccchHHHHHHHHhhcCCCCcEEEeecC
Q psy15351 5 LKDIEKHLKNVDIVIEVHDSRMPFTGRNHLLQQSVQ-NIRPMVLVLNKRDLINSKHESLIEEKVRKEQSHISEVIFTNCR 83 (352)
Q Consensus 5 ~~~~~~~i~~aD~vl~VvDar~p~~~~~~~l~~~l~-~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~v~~iSa~ 83 (352)
.+++..++..+|++|+|+|++.+.+..+..+.++++ .++|+++|+||+|+.+.+ ....+++ +.+.. +++.+||+
T Consensus 71 ~~~~~~~~~~ad~il~vvd~~~~~~~~~~~~~~~l~~~~~piilv~NK~D~~~~~--~~~~~~~-~lg~~--~~~~iSa~ 145 (435)
T PRK00093 71 REQAELAIEEADVILFVVDGRAGLTPADEEIAKILRKSNKPVILVVNKVDGPDEE--ADAYEFY-SLGLG--EPYPISAE 145 (435)
T ss_pred HHHHHHHHHhCCEEEEEEECCCCCCHHHHHHHHHHHHcCCcEEEEEECccCccch--hhHHHHH-hcCCC--CCEEEEee
Confidence 345667889999999999999987777777777776 689999999999976532 2222332 34443 58899999
Q ss_pred CCCCCCHHHHHHHHHHHhhhccccccccccceeEEEeccCCCCchhHHHHHhhhhcccCCCCCCCcchhhhhcccccccc
Q psy15351 84 NPNCKGVQKILPTLQHISDNMTRYHRTEVYNTTVMVVGVPNVGKSSIINALRSSHMKKGKAVPILPTLQHISDNMTRYHR 163 (352)
Q Consensus 84 ~~~~~gi~~L~~~i~~~~~~~~~~~~~~~~~~~~~~~g~~nvgksslin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 163 (352)
++ .|+.++++.+.+..+... ...
T Consensus 146 ~g--~gv~~l~~~I~~~~~~~~-------------------------------------------------------~~~ 168 (435)
T PRK00093 146 HG--RGIGDLLDAILEELPEEE-------------------------------------------------------EED 168 (435)
T ss_pred CC--CCHHHHHHHHHhhCCccc-------------------------------------------------------ccc
Confidence 99 999999988865221100 000
Q ss_pred ccCcceEEEEeCCCCCChHHHHHHHhCCCCCCCCceecCCCCCceeEeeeeEEecCCCcEEEEeCCCCCCCC
Q psy15351 164 TEVYNTTVMVVGVPNVGKSSIINALRSSHMKKGKAVPVGPKAGVTRSVMSQVKISEKPLIYILDTPGISLPR 235 (352)
Q Consensus 164 ~~~~~~~v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~~~pg~T~~~~~~~~~~~~~~~~l~DtPGi~~~~ 235 (352)
.....++|+++|.||+|||||+|+|++ .....+++.||+|++.........+..+.++||||+....
T Consensus 169 ~~~~~~~v~ivG~~n~GKStlin~ll~-----~~~~~~~~~~gtt~~~~~~~~~~~~~~~~lvDT~G~~~~~ 235 (435)
T PRK00093 169 EEDEPIKIAIIGRPNVGKSSLINALLG-----EERVIVSDIAGTTRDSIDTPFERDGQKYTLIDTAGIRRKG 235 (435)
T ss_pred ccccceEEEEECCCCCCHHHHHHHHhC-----CCceeecCCCCceEEEEEEEEEECCeeEEEEECCCCCCCc
Confidence 012468999999999999999999997 4567889999999998754444556679999999998764
No 23
>PRK00098 GTPase RsgA; Reviewed
Probab=99.87 E-value=2.4e-21 Score=179.77 Aligned_cols=187 Identities=22% Similarity=0.329 Sum_probs=125.5
Q ss_pred HHHhhccCEEEEEEcCCCCCCCcCHHHHHHH---h-CCCCEEEEEEcccCCCc-cchHHHHHHHHhhcCCCCcEEEeecC
Q psy15351 9 EKHLKNVDIVIEVHDSRMPFTGRNHLLQQSV---Q-NIRPMVLVLNKRDLINS-KHESLIEEKVRKEQSHISEVIFTNCR 83 (352)
Q Consensus 9 ~~~i~~aD~vl~VvDar~p~~~~~~~l~~~l---~-~~k~~ilVlNK~Dl~~~-~~~~~~~~~~~~~~~~~~~v~~iSa~ 83 (352)
+..++++|++++|+|+++|..... .+.+++ . .+.|.++|+||+||.+. .....|.+.+++.+.+ ++++||+
T Consensus 75 q~iaaniD~vllV~d~~~p~~~~~-~idr~L~~~~~~~ip~iIVlNK~DL~~~~~~~~~~~~~~~~~g~~---v~~vSA~ 150 (298)
T PRK00098 75 KLIAANVDQAVLVFAAKEPDFSTD-LLDRFLVLAEANGIKPIIVLNKIDLLDDLEEARELLALYRAIGYD---VLELSAK 150 (298)
T ss_pred cceeecCCEEEEEEECCCCCCCHH-HHHHHHHHHHHCCCCEEEEEEhHHcCCCHHHHHHHHHHHHHCCCe---EEEEeCC
Confidence 446799999999999987754322 233333 2 57899999999999743 3345677777666665 9999999
Q ss_pred CCCCCCHHHHHHHHHHHhhhccccccccccceeEEEeccCCCCchhHHHHHhhhhcccCCCCCCCcchhhhhcccccccc
Q psy15351 84 NPNCKGVQKILPTLQHISDNMTRYHRTEVYNTTVMVVGVPNVGKSSIINALRSSHMKKGKAVPILPTLQHISDNMTRYHR 163 (352)
Q Consensus 84 ~~~~~gi~~L~~~i~~~~~~~~~~~~~~~~~~~~~~~g~~nvgksslin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 163 (352)
++ .|+++|++.+.
T Consensus 151 ~g--~gi~~L~~~l~----------------------------------------------------------------- 163 (298)
T PRK00098 151 EG--EGLDELKPLLA----------------------------------------------------------------- 163 (298)
T ss_pred CC--ccHHHHHhhcc-----------------------------------------------------------------
Confidence 99 99998876541
Q ss_pred ccCcceEEEEeCCCCCChHHHHHHHhCCCCCCCCceecCCCCC-------ceeEeeeeEEecCCCcEEEEeCCCCCCCCC
Q psy15351 164 TEVYNTTVMVVGVPNVGKSSIINALRSSHMKKGKAVPVGPKAG-------VTRSVMSQVKISEKPLIYILDTPGISLPRI 236 (352)
Q Consensus 164 ~~~~~~~v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~~~pg-------~T~~~~~~~~~~~~~~~~l~DtPGi~~~~~ 236 (352)
+..++++|.||||||||+|+|.+. ....++..++ ||+..+ .+.... ..+++||||+....+
T Consensus 164 ----gk~~~~~G~sgvGKStlin~l~~~-----~~~~~g~v~~~~~~G~htT~~~~-~~~~~~--~~~~~DtpG~~~~~~ 231 (298)
T PRK00098 164 ----GKVTVLAGQSGVGKSTLLNALAPD-----LELKTGEISEALGRGKHTTTHVE-LYDLPG--GGLLIDTPGFSSFGL 231 (298)
T ss_pred ----CceEEEECCCCCCHHHHHHHHhCC-----cCCCCcceeccCCCCCcccccEE-EEEcCC--CcEEEECCCcCccCC
Confidence 135889999999999999999973 3344444443 676653 344432 369999999997654
Q ss_pred CCHHHHHHHHHHhhhhhhccchhhhhHhHHhhhcCCCCCcccccccCCCCCccHHHHHH
Q psy15351 237 DNLECGMRLAACATLQDHLVGEINIADYILFYLNRTGNYRYVDFFNLDEPSDDIVMLLA 295 (352)
Q Consensus 237 ~~~~~~~~l~~~~~i~~~~~~~~~~~~~il~~~~~~~~~~~~~~~~l~~~~~~~~~~l~ 295 (352)
...+. +.+..++..+-.-.+.|.|.+|.+..+|.+.+.+.++
T Consensus 232 ~~~~~-----------------~~~~~~f~~~~~~~~~c~f~~c~h~~ep~c~v~~a~~ 273 (298)
T PRK00098 232 HDLEA-----------------EELEHYFPEFRPLSGDCKFRNCTHLHEPGCAVKAAVE 273 (298)
T ss_pred CCCCH-----------------HHHHHHHHHHHHHhCCCCCCCCcCCCCCCChHHHHHH
Confidence 32211 0111222222222345778888888899887766543
No 24
>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=99.87 E-value=4.1e-21 Score=177.32 Aligned_cols=191 Identities=22% Similarity=0.262 Sum_probs=126.8
Q ss_pred HHhhccCEEEEEEcCCCCCCCcCHHHHHHHh----CCCCEEEEEEcccCCCccchHHHHHHHHhhcCCCCcEEEeecCCC
Q psy15351 10 KHLKNVDIVIEVHDSRMPFTGRNHLLQQSVQ----NIRPMVLVLNKRDLINSKHESLIEEKVRKEQSHISEVIFTNCRNP 85 (352)
Q Consensus 10 ~~i~~aD~vl~VvDar~p~~~~~~~l~~~l~----~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~v~~iSa~~~ 85 (352)
..++++|++++|+|++.|..+ ...+.+++. .++|.++|+||+||.++.....|..++.+.+.+ ++++||+++
T Consensus 74 ~i~anvD~vllV~d~~~p~~s-~~~ldr~L~~~~~~~ip~iIVlNK~DL~~~~~~~~~~~~~~~~g~~---v~~vSA~~g 149 (287)
T cd01854 74 VIAANVDQLVIVVSLNEPFFN-PRLLDRYLVAAEAAGIEPVIVLTKADLLDDEEEELELVEALALGYP---VLAVSAKTG 149 (287)
T ss_pred eEEEeCCEEEEEEEcCCCCCC-HHHHHHHHHHHHHcCCCEEEEEEHHHCCChHHHHHHHHHHHhCCCe---EEEEECCCC
Confidence 358999999999999988722 223444432 578999999999998764444555655555655 999999999
Q ss_pred CCCCHHHHHHHHHHHhhhccccccccccceeEEEeccCCCCchhHHHHHhhhhcccCCCCCCCcchhhhhcccccccccc
Q psy15351 86 NCKGVQKILPTLQHISDNMTRYHRTEVYNTTVMVVGVPNVGKSSIINALRSSHMKKGKAVPILPTLQHISDNMTRYHRTE 165 (352)
Q Consensus 86 ~~~gi~~L~~~i~~~~~~~~~~~~~~~~~~~~~~~g~~nvgksslin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 165 (352)
.|+++|...+.
T Consensus 150 --~gi~~L~~~L~------------------------------------------------------------------- 160 (287)
T cd01854 150 --EGLDELREYLK------------------------------------------------------------------- 160 (287)
T ss_pred --ccHHHHHhhhc-------------------------------------------------------------------
Confidence 99988876542
Q ss_pred CcceEEEEeCCCCCChHHHHHHHhCCCCCCCC-ce-ecCCCCCceeEeeeeEEecCCCcEEEEeCCCCCCCCCCCHHHHH
Q psy15351 166 VYNTTVMVVGVPNVGKSSIINALRSSHMKKGK-AV-PVGPKAGVTRSVMSQVKISEKPLIYILDTPGISLPRIDNLECGM 243 (352)
Q Consensus 166 ~~~~~v~i~G~pnvGKStliN~l~~~~~~~~~-~~-~~~~~pg~T~~~~~~~~~~~~~~~~l~DtPGi~~~~~~~~~~~~ 243 (352)
+..++++|.+|||||||||+|.+....... .. ..+..++||+..+ .+.... ..+++||||+....+.....
T Consensus 161 --~k~~~~~G~sg~GKSTlin~l~~~~~~~~g~v~~~~~~g~~tT~~~~-~~~~~~--~~~liDtPG~~~~~~~~~~~-- 233 (287)
T cd01854 161 --GKTSVLVGQSGVGKSTLINALLPDLDLATGEISEKLGRGRHTTTHRE-LFPLPG--GGLLIDTPGFREFGLLHIDP-- 233 (287)
T ss_pred --cceEEEECCCCCCHHHHHHHHhchhhccccceeccCCCCCcccceEE-EEEcCC--CCEEEECCCCCccCCccCCH--
Confidence 135899999999999999999974221111 11 1223445788764 444432 35899999998754221111
Q ss_pred HHHHHhhhhhhccchhhhhHhHHhhhcCCCCCcccccccCCCCCccHHHHHH
Q psy15351 244 RLAACATLQDHLVGEINIADYILFYLNRTGNYRYVDFFNLDEPSDDIVMLLA 295 (352)
Q Consensus 244 ~l~~~~~i~~~~~~~~~~~~~il~~~~~~~~~~~~~~~~l~~~~~~~~~~l~ 295 (352)
.++.+++-.+......|.|.+|.+..+|.+.+.+.++
T Consensus 234 ---------------~~~~~~f~~~~~~~~~C~F~~C~H~~Ep~Cav~~av~ 270 (287)
T cd01854 234 ---------------EELAHYFPEFRELAGQCKFRDCTHTNEPGCAVKAAVE 270 (287)
T ss_pred ---------------HHHHHHhHHHHHHhCCCCCCCCcCCCCCCCHHHHHHH
Confidence 1112222222233456889999999999997766553
No 25
>PRK03003 GTP-binding protein Der; Reviewed
Probab=99.87 E-value=4.2e-21 Score=189.24 Aligned_cols=164 Identities=21% Similarity=0.209 Sum_probs=121.4
Q ss_pred HHHHHHHhhccCEEEEEEcCCCCCCCcCHHHHHHHh-CCCCEEEEEEcccCCCccchHHHHHHHHhhcCCCCcEEEeecC
Q psy15351 5 LKDIEKHLKNVDIVIEVHDSRMPFTGRNHLLQQSVQ-NIRPMVLVLNKRDLINSKHESLIEEKVRKEQSHISEVIFTNCR 83 (352)
Q Consensus 5 ~~~~~~~i~~aD~vl~VvDar~p~~~~~~~l~~~l~-~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~v~~iSa~ 83 (352)
.+++...+..||++|+|+|++++.+..+..+..+++ .++|+++|+||+|+...+. +..+.+ ..+.. .++.+||+
T Consensus 108 ~~~~~~~~~~aD~il~VvD~~~~~s~~~~~i~~~l~~~~~piilV~NK~Dl~~~~~--~~~~~~-~~g~~--~~~~iSA~ 182 (472)
T PRK03003 108 AEQAEVAMRTADAVLFVVDATVGATATDEAVARVLRRSGKPVILAANKVDDERGEA--DAAALW-SLGLG--EPHPVSAL 182 (472)
T ss_pred HHHHHHHHHhCCEEEEEEECCCCCCHHHHHHHHHHHHcCCCEEEEEECccCCccch--hhHHHH-hcCCC--CeEEEEcC
Confidence 345667899999999999999887766666666665 6899999999999865331 222222 33443 46899999
Q ss_pred CCCCCCHHHHHHHHHHHhhhccccccccccceeEEEeccCCCCchhHHHHHhhhhcccCCCCCCCcchhhhhcccccccc
Q psy15351 84 NPNCKGVQKILPTLQHISDNMTRYHRTEVYNTTVMVVGVPNVGKSSIINALRSSHMKKGKAVPILPTLQHISDNMTRYHR 163 (352)
Q Consensus 84 ~~~~~gi~~L~~~i~~~~~~~~~~~~~~~~~~~~~~~g~~nvgksslin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 163 (352)
++ .|+++|++++.+.++.... . ..
T Consensus 183 ~g--~gi~eL~~~i~~~l~~~~~----------------------------------------------~--------~~ 206 (472)
T PRK03003 183 HG--RGVGDLLDAVLAALPEVPR----------------------------------------------V--------GS 206 (472)
T ss_pred CC--CCcHHHHHHHHhhcccccc----------------------------------------------c--------cc
Confidence 99 9999999998765543110 0 00
Q ss_pred ccCcceEEEEeCCCCCChHHHHHHHhCCCCCCCCceecCCCCCceeEeeeeEEecCCCcEEEEeCCCCCCC
Q psy15351 164 TEVYNTTVMVVGVPNVGKSSIINALRSSHMKKGKAVPVGPKAGVTRSVMSQVKISEKPLIYILDTPGISLP 234 (352)
Q Consensus 164 ~~~~~~~v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~~~pg~T~~~~~~~~~~~~~~~~l~DtPGi~~~ 234 (352)
.....++|+++|.||||||||+|+|++ .....+++.||+|++.........+..+.++||||+...
T Consensus 207 ~~~~~~kI~iiG~~nvGKSSLin~l~~-----~~~~~~s~~~gtT~d~~~~~~~~~~~~~~l~DTaG~~~~ 272 (472)
T PRK03003 207 ASGGPRRVALVGKPNVGKSSLLNKLAG-----EERSVVDDVAGTTVDPVDSLIELGGKTWRFVDTAGLRRR 272 (472)
T ss_pred ccccceEEEEECCCCCCHHHHHHHHhC-----CCcccccCCCCccCCcceEEEEECCEEEEEEECCCcccc
Confidence 012358999999999999999999997 445678899999998765444445667899999998653
No 26
>PRK09518 bifunctional cytidylate kinase/GTPase Der; Reviewed
Probab=99.85 E-value=3.3e-20 Score=191.07 Aligned_cols=166 Identities=24% Similarity=0.235 Sum_probs=123.3
Q ss_pred HHHHHHHhhccCEEEEEEcCCCCCCCcCHHHHHHHh-CCCCEEEEEEcccCCCccchHHHHHHHHhhcCCCCcEEEeecC
Q psy15351 5 LKDIEKHLKNVDIVIEVHDSRMPFTGRNHLLQQSVQ-NIRPMVLVLNKRDLINSKHESLIEEKVRKEQSHISEVIFTNCR 83 (352)
Q Consensus 5 ~~~~~~~i~~aD~vl~VvDar~p~~~~~~~l~~~l~-~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~v~~iSa~ 83 (352)
.+++...++.+|++|+|+|++.++...+..+.++++ .++|+++|+||+|+..... ...+++ ..+.. .++++||+
T Consensus 345 ~~~~~~~~~~aD~iL~VvDa~~~~~~~d~~i~~~Lr~~~~pvIlV~NK~D~~~~~~--~~~~~~-~lg~~--~~~~iSA~ 419 (712)
T PRK09518 345 ASQAQIAVSLADAVVFVVDGQVGLTSTDERIVRMLRRAGKPVVLAVNKIDDQASEY--DAAEFW-KLGLG--EPYPISAM 419 (712)
T ss_pred HHHHHHHHHhCCEEEEEEECCCCCCHHHHHHHHHHHhcCCCEEEEEECcccccchh--hHHHHH-HcCCC--CeEEEECC
Confidence 456778899999999999999887777777777666 7899999999999865431 222222 33443 57899999
Q ss_pred CCCCCCHHHHHHHHHHHhhhccccccccccceeEEEeccCCCCchhHHHHHhhhhcccCCCCCCCcchhhhhcccccccc
Q psy15351 84 NPNCKGVQKILPTLQHISDNMTRYHRTEVYNTTVMVVGVPNVGKSSIINALRSSHMKKGKAVPILPTLQHISDNMTRYHR 163 (352)
Q Consensus 84 ~~~~~gi~~L~~~i~~~~~~~~~~~~~~~~~~~~~~~g~~nvgksslin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 163 (352)
++ .|+.+|+++|.+.++..... . .. -
T Consensus 420 ~g--~GI~eLl~~i~~~l~~~~~~------------------------------------------------~---~a-~ 445 (712)
T PRK09518 420 HG--RGVGDLLDEALDSLKVAEKT------------------------------------------------S---GF-L 445 (712)
T ss_pred CC--CCchHHHHHHHHhccccccc------------------------------------------------c---cc-c
Confidence 99 99999999987765431100 0 00 0
Q ss_pred ccCcceEEEEeCCCCCChHHHHHHHhCCCCCCCCceecCCCCCceeEeeeeEEecCCCcEEEEeCCCCCCC
Q psy15351 164 TEVYNTTVMVVGVPNVGKSSIINALRSSHMKKGKAVPVGPKAGVTRSVMSQVKISEKPLIYILDTPGISLP 234 (352)
Q Consensus 164 ~~~~~~~v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~~~pg~T~~~~~~~~~~~~~~~~l~DtPGi~~~ 234 (352)
.....++|+++|.||||||||+|+|++ .....+++.||||++.........+..+.++||||+...
T Consensus 446 ~~~~~~kI~ivG~~nvGKSSLin~l~~-----~~~~~v~~~~gtT~d~~~~~~~~~~~~~~liDTaG~~~~ 511 (712)
T PRK09518 446 TPSGLRRVALVGRPNVGKSSLLNQLTH-----EERAVVNDLAGTTRDPVDEIVEIDGEDWLFIDTAGIKRR 511 (712)
T ss_pred CCCCCcEEEEECCCCCCHHHHHHHHhC-----ccccccCCCCCCCcCcceeEEEECCCEEEEEECCCcccC
Confidence 011347899999999999999999997 455677899999999876544456667999999999754
No 27
>COG1162 Predicted GTPases [General function prediction only]
Probab=99.80 E-value=3.7e-18 Score=154.49 Aligned_cols=189 Identities=22% Similarity=0.274 Sum_probs=125.2
Q ss_pred HhhccCEEEEEEcCCCCCCCcCHHHHHHHh----CCCCEEEEEEcccCCCccchH--HHHHHHHhhcCCCCcEEEeecCC
Q psy15351 11 HLKNVDIVIEVHDSRMPFTGRNHLLQQSVQ----NIRPMVLVLNKRDLINSKHES--LIEEKVRKEQSHISEVIFTNCRN 84 (352)
Q Consensus 11 ~i~~aD~vl~VvDar~p~~~~~~~l~~~l~----~~k~~ilVlNK~Dl~~~~~~~--~~~~~~~~~~~~~~~v~~iSa~~ 84 (352)
.+.++|-+++|+-+-+|..+. ..+.+++- .+..-++|+||+||++.+... ++...+.+.|+. ++.+|+++
T Consensus 76 ~v~n~d~~iiIvs~~~P~~~~-~~ldR~Lv~ae~~gi~pvIvlnK~DL~~~~~~~~~~~~~~y~~~gy~---v~~~s~~~ 151 (301)
T COG1162 76 PVANNDQAIIVVSLVDPDFNT-NLLDRYLVLAEAGGIEPVIVLNKIDLLDDEEAAVKELLREYEDIGYP---VLFVSAKN 151 (301)
T ss_pred cccccceEEEEEeccCCCCCH-HHHHHHHHHHHHcCCcEEEEEEccccCcchHHHHHHHHHHHHhCCee---EEEecCcC
Confidence 456688888888888775443 23445442 455558899999999887644 567777778887 99999999
Q ss_pred CCCCCHHHHHHHHHHHhhhccccccccccceeEEEeccCCCCchhHHHHHhhhhcccCCCCCCCcchhhhhccccccccc
Q psy15351 85 PNCKGVQKILPTLQHISDNMTRYHRTEVYNTTVMVVGVPNVGKSSIINALRSSHMKKGKAVPILPTLQHISDNMTRYHRT 164 (352)
Q Consensus 85 ~~~~gi~~L~~~i~~~~~~~~~~~~~~~~~~~~~~~g~~nvgksslin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 164 (352)
+ .|+++|.+.+.
T Consensus 152 ~--~~~~~l~~~l~------------------------------------------------------------------ 163 (301)
T COG1162 152 G--DGLEELAELLA------------------------------------------------------------------ 163 (301)
T ss_pred c--ccHHHHHHHhc------------------------------------------------------------------
Confidence 9 99998876653
Q ss_pred cCcceEEEEeCCCCCChHHHHHHHhCCC-CCCCCceecC-CCCCceeEeeeeEEecCCCcEEEEeCCCCCCCCCCCHHHH
Q psy15351 165 EVYNTTVMVVGVPNVGKSSIINALRSSH-MKKGKAVPVG-PKAGVTRSVMSQVKISEKPLIYILDTPGISLPRIDNLECG 242 (352)
Q Consensus 165 ~~~~~~v~i~G~pnvGKStliN~l~~~~-~~~~~~~~~~-~~pg~T~~~~~~~~~~~~~~~~l~DtPGi~~~~~~~~~~~ 242 (352)
+-..+++|.+|||||||+|+|.+.. ...+...... .--.||++. ..+.+.. ..+++|||||....+...+
T Consensus 164 ---~~~svl~GqSGVGKSSLiN~L~p~~~~~t~eIS~~~~rGkHTTt~~-~l~~l~~--gG~iiDTPGf~~~~l~~~~-- 235 (301)
T COG1162 164 ---GKITVLLGQSGVGKSTLINALLPELNQKTGEISEKLGRGRHTTTHV-ELFPLPG--GGWIIDTPGFRSLGLAHLE-- 235 (301)
T ss_pred ---CCeEEEECCCCCcHHHHHHhhCchhhhhhhhhcccCCCCCCccceE-EEEEcCC--CCEEEeCCCCCccCcccCC--
Confidence 1146678888888899988888631 1111111111 233466665 3455432 3689999999988763221
Q ss_pred HHHHHHhhhhhhccchhhhhHhHHhhhcCCCCCcccccccCCCCCccHHHHH
Q psy15351 243 MRLAACATLQDHLVGEINIADYILFYLNRTGNYRYVDFFNLDEPSDDIVMLL 294 (352)
Q Consensus 243 ~~l~~~~~i~~~~~~~~~~~~~il~~~~~~~~~~~~~~~~l~~~~~~~~~~l 294 (352)
++.+..++...-+....|.|.+|.+..+|.+.+.+-+
T Consensus 236 ---------------~e~l~~~F~ef~~~~~~CkFr~C~H~~EPgCav~~av 272 (301)
T COG1162 236 ---------------PEDLVQAFPEFAELARQCKFRDCTHTHEPGCAVKAAV 272 (301)
T ss_pred ---------------HHHHHHHhHHHHHHhcCCCCCCCCCCCCCCcHHHHHH
Confidence 1222333333444455688999999999999766544
No 28
>PRK01889 GTPase RsgA; Reviewed
Probab=99.72 E-value=9.9e-17 Score=152.24 Aligned_cols=145 Identities=23% Similarity=0.240 Sum_probs=96.7
Q ss_pred HhhccCEEEEEEcCCCCCCCcCHHHHHHHh----CCCCEEEEEEcccCCCccchHHHHHHHH--hhcCCCCcEEEeecCC
Q psy15351 11 HLKNVDIVIEVHDSRMPFTGRNHLLQQSVQ----NIRPMVLVLNKRDLINSKHESLIEEKVR--KEQSHISEVIFTNCRN 84 (352)
Q Consensus 11 ~i~~aD~vl~VvDar~p~~~~~~~l~~~l~----~~k~~ilVlNK~Dl~~~~~~~~~~~~~~--~~~~~~~~v~~iSa~~ 84 (352)
.++++|.+++|+++..++.. ..+.+++. .+.+.++|+||+||++.. +.+.+++. ..+++ ++++|+++
T Consensus 109 iaANvD~vliV~s~~p~~~~--~~ldr~L~~a~~~~i~piIVLNK~DL~~~~--~~~~~~~~~~~~g~~---Vi~vSa~~ 181 (356)
T PRK01889 109 IAANVDTVFIVCSLNHDFNL--RRIERYLALAWESGAEPVIVLTKADLCEDA--EEKIAEVEALAPGVP---VLAVSALD 181 (356)
T ss_pred EEEeCCEEEEEEecCCCCCh--hHHHHHHHHHHHcCCCEEEEEEChhcCCCH--HHHHHHHHHhCCCCc---EEEEECCC
Confidence 47999999999999643332 24445542 567779999999998752 22333332 23454 99999999
Q ss_pred CCCCCHHHHHHHHHHHhhhccccccccccceeEEEeccCCCCchhHHHHHhhhhcccCCCCCCCcchhhhhccccccccc
Q psy15351 85 PNCKGVQKILPTLQHISDNMTRYHRTEVYNTTVMVVGVPNVGKSSIINALRSSHMKKGKAVPILPTLQHISDNMTRYHRT 164 (352)
Q Consensus 85 ~~~~gi~~L~~~i~~~~~~~~~~~~~~~~~~~~~~~g~~nvgksslin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 164 (352)
+ .|+++|.+++.
T Consensus 182 g--~gl~~L~~~L~------------------------------------------------------------------ 193 (356)
T PRK01889 182 G--EGLDVLAAWLS------------------------------------------------------------------ 193 (356)
T ss_pred C--ccHHHHHHHhh------------------------------------------------------------------
Confidence 9 99999877652
Q ss_pred cCcceEEEEeCCCCCChHHHHHHHhCCCCCCCCceecCC-------CCCceeEeeeeEEecCCCcEEEEeCCCCCCCCCC
Q psy15351 165 EVYNTTVMVVGVPNVGKSSIINALRSSHMKKGKAVPVGP-------KAGVTRSVMSQVKISEKPLIYILDTPGISLPRID 237 (352)
Q Consensus 165 ~~~~~~v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~~-------~pg~T~~~~~~~~~~~~~~~~l~DtPGi~~~~~~ 237 (352)
.+-+++++|.||+|||||+|+|.+.. ...++. ...+|+..+ ...+.. ..+++||||+..+.+.
T Consensus 194 --~g~~~~lvG~sgvGKStLin~L~g~~-----~~~~G~i~~~~~~g~~tt~~~~-l~~l~~--~~~l~DtpG~~~~~l~ 263 (356)
T PRK01889 194 --GGKTVALLGSSGVGKSTLVNALLGEE-----VQKTGAVREDDSKGRHTTTHRE-LHPLPS--GGLLIDTPGMRELQLW 263 (356)
T ss_pred --cCCEEEEECCCCccHHHHHHHHHHhc-----ccceeeEEECCCCCcchhhhcc-EEEecC--CCeecCCCchhhhccc
Confidence 12358999999999999999998732 222222 122454432 333333 3579999999887665
Q ss_pred CHH
Q psy15351 238 NLE 240 (352)
Q Consensus 238 ~~~ 240 (352)
+.+
T Consensus 264 ~~~ 266 (356)
T PRK01889 264 DAE 266 (356)
T ss_pred Cch
Confidence 544
No 29
>COG1159 Era GTPase [General function prediction only]
Probab=99.68 E-value=2.2e-16 Score=141.71 Aligned_cols=92 Identities=37% Similarity=0.538 Sum_probs=73.3
Q ss_pred ceEEEEeCCCCCChHHHHHHHhCCCCCCCCceecCCCCCceeEeeeeEEecCCCcEEEEeCCCCCCCCCCCHHHHHHHHH
Q psy15351 168 NTTVMVVGVPNVGKSSIINALRSSHMKKGKAVPVGPKAGVTRSVMSQVKISEKPLIYILDTPGISLPRIDNLECGMRLAA 247 (352)
Q Consensus 168 ~~~v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~~~pg~T~~~~~~~~~~~~~~~~l~DtPGi~~~~~~~~~~~~~l~~ 247 (352)
...|+++|.||||||||+|+|.| .+.+.+|+.|.|||+.+.++...++.++.|+||||+..|+.. ....+..++
T Consensus 6 sGfVaIiGrPNvGKSTLlN~l~G-----~KisIvS~k~QTTR~~I~GI~t~~~~QiIfvDTPGih~pk~~-l~~~m~~~a 79 (298)
T COG1159 6 SGFVAIIGRPNVGKSTLLNALVG-----QKISIVSPKPQTTRNRIRGIVTTDNAQIIFVDTPGIHKPKHA-LGELMNKAA 79 (298)
T ss_pred EEEEEEEcCCCCcHHHHHHHHhc-----CceEeecCCcchhhhheeEEEEcCCceEEEEeCCCCCCcchH-HHHHHHHHH
Confidence 35699999999999999999998 799999999999999999888888889999999999998543 333344444
Q ss_pred HhhhhhhccchhhhhHhHHhhhcCCC
Q psy15351 248 CATLQDHLVGEINIADYILFYLNRTG 273 (352)
Q Consensus 248 ~~~i~~~~~~~~~~~~~il~~~~~~~ 273 (352)
..++.+ +|.++++++...
T Consensus 80 ~~sl~d--------vDlilfvvd~~~ 97 (298)
T COG1159 80 RSALKD--------VDLILFVVDADE 97 (298)
T ss_pred HHHhcc--------CcEEEEEEeccc
Confidence 455555 666666666543
No 30
>COG1084 Predicted GTPase [General function prediction only]
Probab=99.59 E-value=2.3e-15 Score=136.37 Aligned_cols=111 Identities=26% Similarity=0.332 Sum_probs=86.0
Q ss_pred hhhccccccccccCcceEEEEeCCCCCChHHHHHHHhCCCCCCCCceecCCCCCceeEeeeeEEecCCCcEEEEeCCCCC
Q psy15351 153 HISDNMTRYHRTEVYNTTVMVVGVPNVGKSSIINALRSSHMKKGKAVPVGPKAGVTRSVMSQVKISEKPLIYILDTPGIS 232 (352)
Q Consensus 153 ~~~~~~~~~~~~~~~~~~v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~~~pg~T~~~~~~~~~~~~~~~~l~DtPGi~ 232 (352)
+....+.+++.-.+...++.++|+||||||||++++++ ....+.++|+||+...-++...+..+++++||||+.
T Consensus 153 ~~r~~l~~LP~Idp~~pTivVaG~PNVGKSSlv~~lT~------AkpEvA~YPFTTK~i~vGhfe~~~~R~QvIDTPGlL 226 (346)
T COG1084 153 KARDHLKKLPAIDPDLPTIVVAGYPNVGKSSLVRKLTT------AKPEVAPYPFTTKGIHVGHFERGYLRIQVIDTPGLL 226 (346)
T ss_pred HHHHHHhcCCCCCCCCCeEEEecCCCCcHHHHHHHHhc------CCCccCCCCccccceeEeeeecCCceEEEecCCccc
Confidence 33445556666677889999999999999999999994 678999999999999888888777789999999999
Q ss_pred CCCCCCHHHHHHHHHHhhhhhhccchhhhhHhHHhhhcCCCCCcc
Q psy15351 233 LPRIDNLECGMRLAACATLQDHLVGEINIADYILFYLNRTGNYRY 277 (352)
Q Consensus 233 ~~~~~~~~~~~~l~~~~~i~~~~~~~~~~~~~il~~~~~~~~~~~ 277 (352)
+...+......+.|+.. + ..+.+.++|+++....|.|
T Consensus 227 DRPl~ErN~IE~qAi~A-L-------~hl~~~IlF~~D~Se~cgy 263 (346)
T COG1084 227 DRPLEERNEIERQAILA-L-------RHLAGVILFLFDPSETCGY 263 (346)
T ss_pred CCChHHhcHHHHHHHHH-H-------HHhcCeEEEEEcCccccCC
Confidence 98766555555555321 1 2346777888887766544
No 31
>PF03193 DUF258: Protein of unknown function, DUF258; InterPro: IPR004881 This entry contains Escherichia coli (strain K12) RsgA, which may play a role in 30S ribosomal subunit biogenesis. RsgA is an unusual circulary permuted GTPase that catalyzes rapid hydrolysis of GTP with a slow catalytic turnover. It is dispensible for viability, but important for overall fitness. The intrinsic GTPase activity is stimulated by the presence of 30S (160-fold increase in kcat) or 70S (96 fold increase in kcat) ribosomes []. The GTPase is inhibited by aminoglycoside antibiotics such as neomycin and paromycin [] streptomycin and spectinomycin []. This inhibition is not due to competition for binding sites on the 30S or 70S ribosome []. ; GO: 0003924 GTPase activity, 0005525 GTP binding; PDB: 2YKR_W 2YV5_A 1T9H_A 2RCN_A 4A2I_V 1U0L_B.
Probab=99.59 E-value=7e-15 Score=122.73 Aligned_cols=140 Identities=23% Similarity=0.343 Sum_probs=84.5
Q ss_pred HHHHHHHHhhcCCCCcEEEeecCCCCCCCHHHHHHHHHHHhhhccccccccccceeEEEeccCCCCchhHHHHHhhhhcc
Q psy15351 61 SLIEEKVRKEQSHISEVIFTNCRNPNCKGVQKILPTLQHISDNMTRYHRTEVYNTTVMVVGVPNVGKSSIINALRSSHMK 140 (352)
Q Consensus 61 ~~~~~~~~~~~~~~~~v~~iSa~~~~~~gi~~L~~~i~~~~~~~~~~~~~~~~~~~~~~~g~~nvgksslin~l~~~~~~ 140 (352)
++|.+.|++.|++ ++++|++++ +|+++|.+.+.
T Consensus 2 ~~~~~~y~~~gy~---v~~~S~~~~--~g~~~l~~~l~------------------------------------------ 34 (161)
T PF03193_consen 2 EELLEQYEKLGYP---VFFISAKTG--EGIEELKELLK------------------------------------------ 34 (161)
T ss_dssp HHHHHHHHHTTSE---EEE-BTTTT--TTHHHHHHHHT------------------------------------------
T ss_pred HHHHHHHHHcCCc---EEEEeCCCC--cCHHHHHHHhc------------------------------------------
Confidence 5788889888987 999999999 99999877653
Q ss_pred cCCCCCCCcchhhhhccccccccccCcceEEEEeCCCCCChHHHHHHHhCCCCC-CCCcee-cCCCCCceeEeeeeEEec
Q psy15351 141 KGKAVPILPTLQHISDNMTRYHRTEVYNTTVMVVGVPNVGKSSIINALRSSHMK-KGKAVP-VGPKAGVTRSVMSQVKIS 218 (352)
Q Consensus 141 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~i~G~pnvGKStliN~l~~~~~~-~~~~~~-~~~~pg~T~~~~~~~~~~ 218 (352)
+..++++|.+|||||||||+|.+.... ...... .+.--.||+..+ .+...
T Consensus 35 ---------------------------~k~~vl~G~SGvGKSSLiN~L~~~~~~~t~~is~~~~rGkHTTt~~~-l~~l~ 86 (161)
T PF03193_consen 35 ---------------------------GKTSVLLGQSGVGKSSLINALLPEAKQKTGEISEKTGRGKHTTTHRE-LFPLP 86 (161)
T ss_dssp ---------------------------TSEEEEECSTTSSHHHHHHHHHTSS----S--------------SEE-EEEET
T ss_pred ---------------------------CCEEEEECCCCCCHHHHHHHHHhhcchhhhhhhcccCCCcccCCCee-EEecC
Confidence 135788999999999999999975211 111111 122334566543 45543
Q ss_pred CCCcEEEEeCCCCCCCCCCCHHHHHHHHHHhhhhhhccchhhhhHhHHhhhcCCCCCcccccccCCCCCccHHHHH
Q psy15351 219 EKPLIYILDTPGISLPRIDNLECGMRLAACATLQDHLVGEINIADYILFYLNRTGNYRYVDFFNLDEPSDDIVMLL 294 (352)
Q Consensus 219 ~~~~~~l~DtPGi~~~~~~~~~~~~~l~~~~~i~~~~~~~~~~~~~il~~~~~~~~~~~~~~~~l~~~~~~~~~~l 294 (352)
. ..+++|||||....+.+.+. +.++.++..+-.-...|.|.+|.+..+|.+.+.+-+
T Consensus 87 ~--g~~iIDTPGf~~~~l~~~~~-----------------~~l~~~F~e~~~~~~~CkF~~C~H~~Ep~CaV~~av 143 (161)
T PF03193_consen 87 D--GGYIIDTPGFRSFGLWHIDP-----------------EELAQYFPEFRPLAGQCKFRDCTHIHEPGCAVKAAV 143 (161)
T ss_dssp T--SEEEECSHHHHT--GCCS-H-----------------HHHHHCSGGGHHHTTHSSSTTTTSSSSTT-HHHHHH
T ss_pred C--CcEEEECCCCCccccccCCH-----------------HHHHHHHHHhccccCCCCccCCCCCCCCCChHHHHH
Confidence 3 58999999999876653221 111222222222234578889999999998766544
No 32
>COG1160 Predicted GTPases [General function prediction only]
Probab=99.58 E-value=3.3e-15 Score=141.28 Aligned_cols=67 Identities=31% Similarity=0.388 Sum_probs=56.9
Q ss_pred eEEEEeCCCCCChHHHHHHHhCCCCCCCCceecCCCCCceeEeeeeEEecCCCcEEEEeCCCCCCCCCCCHH
Q psy15351 169 TTVMVVGVPNVGKSSIINALRSSHMKKGKAVPVGPKAGVTRSVMSQVKISEKPLIYILDTPGISLPRIDNLE 240 (352)
Q Consensus 169 ~~v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~~~pg~T~~~~~~~~~~~~~~~~l~DtPGi~~~~~~~~~ 240 (352)
..|+++|+||||||||+|+|++ ++.+.|++.||+||+.........+..+.++||+|+.....+...
T Consensus 4 ~~VAIVGRPNVGKSTLFNRL~g-----~r~AIV~D~pGvTRDr~y~~~~~~~~~f~lIDTgGl~~~~~~~l~ 70 (444)
T COG1160 4 PVVAIVGRPNVGKSTLFNRLTG-----RRIAIVSDTPGVTRDRIYGDAEWLGREFILIDTGGLDDGDEDELQ 70 (444)
T ss_pred CEEEEECCCCCcHHHHHHHHhC-----CeeeEeecCCCCccCCccceeEEcCceEEEEECCCCCcCCchHHH
Confidence 5699999999999999999998 788999999999999987655556677999999999975433333
No 33
>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=99.56 E-value=8.9e-15 Score=121.93 Aligned_cols=69 Identities=29% Similarity=0.348 Sum_probs=53.2
Q ss_pred eEEEEeCCCCCChHHHHHHHhCCCCCCCCceecCCCCCceeEeeeeEEecCCCcEEEEeCCCCCCCCCCCHHHHH
Q psy15351 169 TTVMVVGVPNVGKSSIINALRSSHMKKGKAVPVGPKAGVTRSVMSQVKISEKPLIYILDTPGISLPRIDNLECGM 243 (352)
Q Consensus 169 ~~v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~~~pg~T~~~~~~~~~~~~~~~~l~DtPGi~~~~~~~~~~~~ 243 (352)
++|+++|.||||||||+|+|++ ..+.+++.||+|.+...+.....+..+.++||||+.+....+.++..
T Consensus 1 i~ialvG~PNvGKStLfN~Ltg------~~~~v~n~pG~Tv~~~~g~~~~~~~~~~lvDlPG~ysl~~~s~ee~v 69 (156)
T PF02421_consen 1 IRIALVGNPNVGKSTLFNALTG------AKQKVGNWPGTTVEKKEGIFKLGDQQVELVDLPGIYSLSSKSEEERV 69 (156)
T ss_dssp -EEEEEESTTSSHHHHHHHHHT------TSEEEEESTTSSSEEEEEEEEETTEEEEEEE----SSSSSSSHHHHH
T ss_pred CEEEEECCCCCCHHHHHHHHHC------CCceecCCCCCCeeeeeEEEEecCceEEEEECCCcccCCCCCcHHHH
Confidence 5799999999999999999997 34889999999999877666556678999999999987655555544
No 34
>COG0486 ThdF Predicted GTPase [General function prediction only]
Probab=99.49 E-value=4.5e-14 Score=134.01 Aligned_cols=64 Identities=34% Similarity=0.417 Sum_probs=58.0
Q ss_pred CcceEEEEeCCCCCChHHHHHHHhCCCCCCCCceecCCCCCceeEeeeeEEecCCCcEEEEeCCCCCCC
Q psy15351 166 VYNTTVMVVGVPNVGKSSIINALRSSHMKKGKAVPVGPKAGVTRSVMSQVKISEKPLIYILDTPGISLP 234 (352)
Q Consensus 166 ~~~~~v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~~~pg~T~~~~~~~~~~~~~~~~l~DtPGi~~~ 234 (352)
..+++++++|.||||||||+|+|.+ +..+.|++.|||||+..+.....++-.+.++||.|+...
T Consensus 215 r~G~kvvIiG~PNvGKSSLLNaL~~-----~d~AIVTdI~GTTRDviee~i~i~G~pv~l~DTAGiRet 278 (454)
T COG0486 215 REGLKVVIIGRPNVGKSSLLNALLG-----RDRAIVTDIAGTTRDVIEEDINLNGIPVRLVDTAGIRET 278 (454)
T ss_pred hcCceEEEECCCCCcHHHHHHHHhc-----CCceEecCCCCCccceEEEEEEECCEEEEEEecCCcccC
Confidence 4689999999999999999999998 788999999999999998666666778999999999965
No 35
>PTZ00258 GTP-binding protein; Provisional
Probab=99.48 E-value=1.1e-13 Score=131.48 Aligned_cols=110 Identities=22% Similarity=0.190 Sum_probs=75.6
Q ss_pred CcceEEEEeCCCCCChHHHHHHHhCCCCCCCCceecCCCCCceeEeeeeEEecCC-----------------CcEEEEeC
Q psy15351 166 VYNTTVMVVGVPNVGKSSIINALRSSHMKKGKAVPVGPKAGVTRSVMSQVKISEK-----------------PLIYILDT 228 (352)
Q Consensus 166 ~~~~~v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~~~pg~T~~~~~~~~~~~~-----------------~~~~l~Dt 228 (352)
...++|+++|.||||||||+|+|++ ..+.+++.||||+++..+.....+ .++.++||
T Consensus 19 ~~~~kvgIVG~PNvGKSTLfnaLt~------~~~~v~n~pftTi~p~~g~v~~~d~r~~~l~~~~~~~~~~~aqi~lvDt 92 (390)
T PTZ00258 19 GNNLKMGIVGLPNVGKSTTFNALCK------QQVPAENFPFCTIDPNTARVNVPDERFDWLCKHFKPKSIVPAQLDITDI 92 (390)
T ss_pred CCCcEEEEECCCCCChHHHHHHHhc------CcccccCCCCCcccceEEEEecccchhhHHHHHcCCcccCCCCeEEEEC
Confidence 4678999999999999999999985 457899999999998765543332 25899999
Q ss_pred CCCCCCCCCCHHHHHHHHHHhhhhhhccchhhhhHhHHhhhcCCCCCcccccccCCCCCccHH
Q psy15351 229 PGISLPRIDNLECGMRLAACATLQDHLVGEINIADYILFYLNRTGNYRYVDFFNLDEPSDDIV 291 (352)
Q Consensus 229 PGi~~~~~~~~~~~~~l~~~~~i~~~~~~~~~~~~~il~~~~~~~~~~~~~~~~l~~~~~~~~ 291 (352)
||+...... ..++...+...+++ +|.++++++.....+.....+-.+|..++.
T Consensus 93 pGLv~ga~~--g~gLg~~fL~~Ir~--------aD~il~VVd~f~d~~v~h~~~~~dp~~d~~ 145 (390)
T PTZ00258 93 AGLVKGASE--GEGLGNAFLSHIRA--------VDGIYHVVRAFEDEDITHVEGEIDPVRDLE 145 (390)
T ss_pred CCcCcCCcc--hhHHHHHHHHHHHH--------CCEEEEEEeCCCCCCccccCCCCCHHHHHH
Confidence 999975322 22332233344444 888999999765544333333334444443
No 36
>PRK09601 GTP-binding protein YchF; Reviewed
Probab=99.44 E-value=2.9e-13 Score=127.29 Aligned_cols=90 Identities=22% Similarity=0.229 Sum_probs=65.4
Q ss_pred eEEEEeCCCCCChHHHHHHHhCCCCCCCCceecCCCCCceeEeeeeEEecCC-----------------CcEEEEeCCCC
Q psy15351 169 TTVMVVGVPNVGKSSIINALRSSHMKKGKAVPVGPKAGVTRSVMSQVKISEK-----------------PLIYILDTPGI 231 (352)
Q Consensus 169 ~~v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~~~pg~T~~~~~~~~~~~~-----------------~~~~l~DtPGi 231 (352)
++|+++|.||||||||+|+|++ ..+.+++.||||+++..++....+ .++.++||||+
T Consensus 3 ~~vgIVG~PNvGKSTLfnaLt~------~~~~v~nypftTi~p~~G~~~v~d~r~~~l~~~~~p~~~~~a~i~lvD~pGL 76 (364)
T PRK09601 3 LKCGIVGLPNVGKSTLFNALTK------AGAEAANYPFCTIEPNVGVVPVPDPRLDKLAEIVKPKKIVPATIEFVDIAGL 76 (364)
T ss_pred cEEEEECCCCCCHHHHHHHHhC------CCCeecccccccccceEEEEEeccccchhhHHhcCCccccCceEEEEECCCC
Confidence 6899999999999999999996 337899999999998754433332 14899999999
Q ss_pred CCCCCCCHHHHHHHHHHhhhhhhccchhhhhHhHHhhhcCCCC
Q psy15351 232 SLPRIDNLECGMRLAACATLQDHLVGEINIADYILFYLNRTGN 274 (352)
Q Consensus 232 ~~~~~~~~~~~~~l~~~~~i~~~~~~~~~~~~~il~~~~~~~~ 274 (352)
.... +...++.......+++ +|.+++|++....
T Consensus 77 ~~~a--~~g~glg~~fL~~i~~--------aD~li~VVd~f~d 109 (364)
T PRK09601 77 VKGA--SKGEGLGNQFLANIRE--------VDAIVHVVRCFED 109 (364)
T ss_pred CCCC--ChHHHHHHHHHHHHHh--------CCEEEEEEeCCcc
Confidence 9753 2223333333344443 8888899987643
No 37
>cd01900 YchF YchF subfamily. YchF is a member of the Obg family, which includes four other subfamilies of GTPases: Obg, DRG, Ygr210, and NOG1. Obg is an essential gene that is involved in DNA replication in C. crescentus and Streptomyces griseus and is associated with the ribosome. Several members of the family, including YchF, possess the TGS domain related to the RNA-binding proteins. Experimental data and genomic analysis suggest that YchF may be part of a nucleoprotein complex and may function as a GTP-dependent translational factor.
Probab=99.43 E-value=2.3e-13 Score=124.05 Aligned_cols=103 Identities=19% Similarity=0.200 Sum_probs=69.1
Q ss_pred EEEeCCCCCChHHHHHHHhCCCCCCCCceecCCCCCceeEeeeeEEecCCC-----------------cEEEEeCCCCCC
Q psy15351 171 VMVVGVPNVGKSSIINALRSSHMKKGKAVPVGPKAGVTRSVMSQVKISEKP-----------------LIYILDTPGISL 233 (352)
Q Consensus 171 v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~~~pg~T~~~~~~~~~~~~~-----------------~~~l~DtPGi~~ 233 (352)
++++|.||||||||+|+|++ ....+++.||||+++..+.....+. ++.++||||+..
T Consensus 1 igivG~PN~GKSTLfn~Lt~------~~~~~~n~pftTi~p~~g~v~v~d~r~~~l~~~~~~~k~~~~~i~lvD~pGl~~ 74 (274)
T cd01900 1 IGIVGLPNVGKSTLFNALTK------AGAEAANYPFCTIEPNVGIVPVPDERLDKLAEIVKPKKIVPATIEFVDIAGLVK 74 (274)
T ss_pred CeEeCCCCCcHHHHHHHHhC------CCCccccccccchhceeeeEEeccchhhhHHHHhCCceeeeeEEEEEECCCcCC
Confidence 58999999999999999996 3348899999999987644433332 489999999996
Q ss_pred CCCCCHHHHHHHHHHhhhhhhccchhhhhHhHHhhhcCCCCCcccccccCCCCCcc
Q psy15351 234 PRIDNLECGMRLAACATLQDHLVGEINIADYILFYLNRTGNYRYVDFFNLDEPSDD 289 (352)
Q Consensus 234 ~~~~~~~~~~~l~~~~~i~~~~~~~~~~~~~il~~~~~~~~~~~~~~~~l~~~~~~ 289 (352)
.. +...++...+...++. +|.+++|++.....+.....+-.+|..|
T Consensus 75 ~a--~~~~glg~~fL~~i~~--------~D~li~VV~~f~d~~~~~~~~~~dp~~d 120 (274)
T cd01900 75 GA--SKGEGLGNKFLSHIRE--------VDAIAHVVRCFEDDDITHVEGSVDPVRD 120 (274)
T ss_pred CC--chhhHHHHHHHHHHHh--------CCEEEEEEeCcCCCCccCCCCCCCHHHH
Confidence 53 2233333333344443 8888999987654443332232234443
No 38
>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=99.41 E-value=2e-13 Score=108.93 Aligned_cols=60 Identities=37% Similarity=0.483 Sum_probs=50.2
Q ss_pred EEEEeCCCCCChHHHHHHHhCCCCCCCCceecCCCCCceeEeeeeEEecCCCcEEEEeCCCCCCC
Q psy15351 170 TVMVVGVPNVGKSSIINALRSSHMKKGKAVPVGPKAGVTRSVMSQVKISEKPLIYILDTPGISLP 234 (352)
Q Consensus 170 ~v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~~~pg~T~~~~~~~~~~~~~~~~l~DtPGi~~~ 234 (352)
+|+++|.||+|||||+|+|++ .....++..+++|+..........+..+.++||||+...
T Consensus 1 ~V~iiG~~~~GKSTlin~l~~-----~~~~~~~~~~~~T~~~~~~~~~~~~~~~~~vDtpG~~~~ 60 (116)
T PF01926_consen 1 RVAIIGRPNVGKSTLINALTG-----KKLAKVSNIPGTTRDPVYGQFEYNNKKFILVDTPGINDG 60 (116)
T ss_dssp EEEEEESTTSSHHHHHHHHHT-----STSSEESSSTTSSSSEEEEEEEETTEEEEEEESSSCSSS
T ss_pred CEEEECCCCCCHHHHHHHHhc-----cccccccccccceeeeeeeeeeeceeeEEEEeCCCCccc
Confidence 589999999999999999997 456789999999999854333345567899999999876
No 39
>PRK12298 obgE GTPase CgtA; Reviewed
Probab=99.37 E-value=4.1e-12 Score=121.84 Aligned_cols=61 Identities=25% Similarity=0.262 Sum_probs=50.9
Q ss_pred eEEEEeCCCCCChHHHHHHHhCCCCCCCCceecCCCCCceeEeeeeEEecCC-CcEEEEeCCCCCCCC
Q psy15351 169 TTVMVVGVPNVGKSSIINALRSSHMKKGKAVPVGPKAGVTRSVMSQVKISEK-PLIYILDTPGISLPR 235 (352)
Q Consensus 169 ~~v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~~~pg~T~~~~~~~~~~~~-~~~~l~DtPGi~~~~ 235 (352)
..|+++|+||||||||+|+|++ ..+.+++.|+||+.+...+....+ .++.|+||||+..+.
T Consensus 160 adValVG~PNaGKSTLln~Lt~------~k~~vs~~p~TT~~p~~Giv~~~~~~~i~~vDtPGi~~~a 221 (390)
T PRK12298 160 ADVGLLGLPNAGKSTFIRAVSA------AKPKVADYPFTTLVPNLGVVRVDDERSFVVADIPGLIEGA 221 (390)
T ss_pred ccEEEEcCCCCCHHHHHHHHhC------CcccccCCCCCccCcEEEEEEeCCCcEEEEEeCCCccccc
Confidence 4699999999999999999996 335899999999998876654443 359999999998764
No 40
>KOG1191|consensus
Probab=99.37 E-value=6.6e-13 Score=125.90 Aligned_cols=63 Identities=33% Similarity=0.446 Sum_probs=57.4
Q ss_pred CcceEEEEeCCCCCChHHHHHHHhCCCCCCCCceecCCCCCceeEeeeeEEecCCCcEEEEeCCCCCC
Q psy15351 166 VYNTTVMVVGVPNVGKSSIINALRSSHMKKGKAVPVGPKAGVTRSVMSQVKISEKPLIYILDTPGISL 233 (352)
Q Consensus 166 ~~~~~v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~~~pg~T~~~~~~~~~~~~~~~~l~DtPGi~~ 233 (352)
..++.|+++|.||||||||+|+|.+ ...+.|++.|||||+........++..++|+||.|+..
T Consensus 266 q~gl~iaIvGrPNvGKSSLlNaL~~-----~drsIVSpv~GTTRDaiea~v~~~G~~v~L~DTAGiRe 328 (531)
T KOG1191|consen 266 QSGLQIAIVGRPNVGKSSLLNALSR-----EDRSIVSPVPGTTRDAIEAQVTVNGVPVRLSDTAGIRE 328 (531)
T ss_pred hcCCeEEEEcCCCCCHHHHHHHHhc-----CCceEeCCCCCcchhhheeEeecCCeEEEEEecccccc
Confidence 4579999999999999999999998 68899999999999998866667788899999999998
No 41
>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=99.36 E-value=1.3e-12 Score=119.98 Aligned_cols=60 Identities=37% Similarity=0.561 Sum_probs=52.3
Q ss_pred EEEEeCCCCCChHHHHHHHhCCCCCCCCceecCCCCCceeEeeeeEEecCCCcEEEEeCCCCCCC
Q psy15351 170 TVMVVGVPNVGKSSIINALRSSHMKKGKAVPVGPKAGVTRSVMSQVKISEKPLIYILDTPGISLP 234 (352)
Q Consensus 170 ~v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~~~pg~T~~~~~~~~~~~~~~~~l~DtPGi~~~ 234 (352)
+|+++|.||||||||+|+|.+ .+.+.+++.|+||++....+...++.++.|+||||+..+
T Consensus 2 ~V~liG~pnvGKSTLln~L~~-----~~~~~vs~~~~TTr~~i~~i~~~~~~qii~vDTPG~~~~ 61 (270)
T TIGR00436 2 FVAILGRPNVGKSTLLNQLHG-----QKISITSPKAQTTRNRISGIHTTGASQIIFIDTPGFHEK 61 (270)
T ss_pred EEEEECCCCCCHHHHHHHHhC-----CcEeecCCCCCcccCcEEEEEEcCCcEEEEEECcCCCCC
Confidence 589999999999999999997 566789999999999776666666668999999999876
No 42
>COG0218 Predicted GTPase [General function prediction only]
Probab=99.32 E-value=1.7e-11 Score=104.67 Aligned_cols=64 Identities=25% Similarity=0.402 Sum_probs=52.9
Q ss_pred cceEEEEeCCCCCChHHHHHHHhCCCCCCCCceecCCCCCceeEeeeeEEecCCCcEEEEeCCCCCCCCCC
Q psy15351 167 YNTTVMVVGVPNVGKSSIINALRSSHMKKGKAVPVGPKAGVTRSVMSQVKISEKPLIYILDTPGISLPRID 237 (352)
Q Consensus 167 ~~~~v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~~~pg~T~~~~~~~~~~~~~~~~l~DtPGi~~~~~~ 237 (352)
....|+++|++|||||||||+|+++ +..+++|.+||.|+... .+.+.+ .+.++|.||++..+..
T Consensus 23 ~~~EIaF~GRSNVGKSSlIN~l~~~----k~LArtSktPGrTq~iN-ff~~~~--~~~lVDlPGYGyAkv~ 86 (200)
T COG0218 23 DLPEIAFAGRSNVGKSSLINALTNQ----KNLARTSKTPGRTQLIN-FFEVDD--ELRLVDLPGYGYAKVP 86 (200)
T ss_pred CCcEEEEEccCcccHHHHHHHHhCC----cceeecCCCCCccceeE-EEEecC--cEEEEeCCCcccccCC
Confidence 5578999999999999999999973 45699999999999864 454433 4899999999987543
No 43
>KOG1423|consensus
Probab=99.32 E-value=2.6e-12 Score=115.20 Aligned_cols=67 Identities=30% Similarity=0.427 Sum_probs=61.0
Q ss_pred cCcceEEEEeCCCCCChHHHHHHHhCCCCCCCCceecCCCCCceeEeeeeEEecCCCcEEEEeCCCCCCCCC
Q psy15351 165 EVYNTTVMVVGVPNVGKSSIINALRSSHMKKGKAVPVGPKAGVTRSVMSQVKISEKPLIYILDTPGISLPRI 236 (352)
Q Consensus 165 ~~~~~~v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~~~pg~T~~~~~~~~~~~~~~~~l~DtPGi~~~~~ 236 (352)
..+-..|+++|.||||||||.|.+.+ .+.+.++..+.|||+...++...+..++.|+||||++.+..
T Consensus 69 ~~k~L~vavIG~PNvGKStLtN~mig-----~kv~~vS~K~~TTr~~ilgi~ts~eTQlvf~DTPGlvs~~~ 135 (379)
T KOG1423|consen 69 AQKSLYVAVIGAPNVGKSTLTNQMIG-----QKVSAVSRKVHTTRHRILGIITSGETQLVFYDTPGLVSKKM 135 (379)
T ss_pred cceEEEEEEEcCCCcchhhhhhHhhC-----CccccccccccceeeeeeEEEecCceEEEEecCCcccccch
Confidence 45678999999999999999999998 78899999999999988888888888999999999998754
No 44
>COG0012 Predicted GTPase, probable translation factor [Translation, ribosomal structure and biogenesis]
Probab=99.31 E-value=2.4e-12 Score=119.44 Aligned_cols=107 Identities=21% Similarity=0.257 Sum_probs=78.3
Q ss_pred ceEEEEeCCCCCChHHHHHHHhCCCCCCCCceecCCCCCceeEeeeeEEecCC------------------CcEEEEeCC
Q psy15351 168 NTTVMVVGVPNVGKSSIINALRSSHMKKGKAVPVGPKAGVTRSVMSQVKISEK------------------PLIYILDTP 229 (352)
Q Consensus 168 ~~~v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~~~pg~T~~~~~~~~~~~~------------------~~~~l~DtP 229 (352)
.+++++||.||||||||+|+|+. ..+..+++|+||.++..++....+ ..+.|+|.+
T Consensus 2 ~l~~GIVGlPNVGKSTlFnAlT~------~~a~~aNYPF~TIePN~Giv~v~d~rl~~L~~~~~c~~k~~~~~ve~vDIA 75 (372)
T COG0012 2 SLKIGIVGLPNVGKSTLFNALTK------AGAEIANYPFCTIEPNVGVVYVPDCRLDELAEIVKCPPKIRPAPVEFVDIA 75 (372)
T ss_pred CceeEEecCCCCcHHHHHHHHHc------CCccccCCCcccccCCeeEEecCchHHHHHHHhcCCCCcEEeeeeEEEEec
Confidence 47899999999999999999995 448889999999998654332211 148899999
Q ss_pred CCCCCCCCCHHHHHHHHHHhhhhhhccchhhhhHhHHhhhcCCCCCcccccccCCCCCccH
Q psy15351 230 GISLPRIDNLECGMRLAACATLQDHLVGEINIADYILFYLNRTGNYRYVDFFNLDEPSDDI 290 (352)
Q Consensus 230 Gi~~~~~~~~~~~~~l~~~~~i~~~~~~~~~~~~~il~~~~~~~~~~~~~~~~l~~~~~~~ 290 (352)
|+... .+.-+++--.+...|++ +|.|++|+++....+.....+-.+|..|+
T Consensus 76 GLV~G--As~GeGLGNkFL~~IRe--------vdaI~hVVr~f~d~di~hv~~~vDP~~DI 126 (372)
T COG0012 76 GLVKG--ASKGEGLGNKFLDNIRE--------VDAIIHVVRCFGDTDIEHVEGKVDPVEDI 126 (372)
T ss_pred ccCCC--cccCCCcchHHHHhhhh--------cCeEEEEEEecCCCcccCCCCCcCcHHHH
Confidence 99987 33344554445555655 89999999988766655554545565554
No 45
>COG0536 Obg Predicted GTPase [General function prediction only]
Probab=99.26 E-value=1.2e-11 Score=112.97 Aligned_cols=62 Identities=23% Similarity=0.298 Sum_probs=52.3
Q ss_pred eEEEEeCCCCCChHHHHHHHhCCCCCCCCceecCCCCCceeEeeeeE-EecCCCcEEEEeCCCCCCCCC
Q psy15351 169 TTVMVVGVPNVGKSSIINALRSSHMKKGKAVPVGPKAGVTRSVMSQV-KISEKPLIYILDTPGISLPRI 236 (352)
Q Consensus 169 ~~v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~~~pg~T~~~~~~~-~~~~~~~~~l~DtPGi~~~~~ 236 (352)
--|++||+||+|||||||++.. ..+.++++|+||..+..++ ......++++-|.||++....
T Consensus 160 ADVGLVG~PNaGKSTlls~vS~------AkPKIadYpFTTL~PnLGvV~~~~~~sfv~ADIPGLIEGAs 222 (369)
T COG0536 160 ADVGLVGLPNAGKSTLLSAVSA------AKPKIADYPFTTLVPNLGVVRVDGGESFVVADIPGLIEGAS 222 (369)
T ss_pred cccccccCCCCcHHHHHHHHhh------cCCcccCCccccccCcccEEEecCCCcEEEecCcccccccc
Confidence 3589999999999999999994 7789999999999987643 444566799999999998743
No 46
>cd01853 Toc34_like Toc34-like (Translocon at the Outer-envelope membrane of Chloroplasts). This family contains several Toc proteins, including Toc34, Toc33, Toc120, Toc159, Toc86, Toc125, and Toc90. The Toc complex at the outer envelope membrane of chloroplasts is a molecular machine of ~500 kDa that contains a single Toc159 protein, four Toc75 molecules, and four or five copies of Toc34. Toc64 and Toc12 are associated with the translocon, but do not appear to be part of the core complex. The Toc translocon initiates the import of nuclear-encoded preproteins from the cytosol into the organelle. Toc34 and Toc159 are both GTPases, while Toc75 is a beta-barrel integral membrane protein. Toc159 is equally distributed between a soluble cytoplasmic form and a membrane-inserted form, suggesting that assembly of the Toc complex is dynamic. Toc34 and Toc75 act sequentially to mediate docking and insertion of Toc159 resulting in assembly of the functional translocon.
Probab=99.24 E-value=1.6e-10 Score=104.48 Aligned_cols=65 Identities=26% Similarity=0.319 Sum_probs=53.2
Q ss_pred cCcceEEEEeCCCCCChHHHHHHHhCCCCCCCCceecCCCCCceeEeeeeEEecCCCcEEEEeCCCCCCC
Q psy15351 165 EVYNTTVMVVGVPNVGKSSIINALRSSHMKKGKAVPVGPKAGVTRSVMSQVKISEKPLIYILDTPGISLP 234 (352)
Q Consensus 165 ~~~~~~v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~~~pg~T~~~~~~~~~~~~~~~~l~DtPGi~~~ 234 (352)
....++|+++|.+|||||||+|+|.+ .....++..+++|+..+.......+..+.++||||+.+.
T Consensus 28 ~~~~~~IllvG~tGvGKSSliNaLlg-----~~~~~v~~~~~~T~~~~~~~~~~~g~~i~vIDTPGl~~~ 92 (249)
T cd01853 28 LDFSLTILVLGKTGVGKSSTINSIFG-----ERKAATSAFQSETLRVREVSGTVDGFKLNIIDTPGLLES 92 (249)
T ss_pred ccCCeEEEEECCCCCcHHHHHHHHhC-----CCCcccCCCCCceEEEEEEEEEECCeEEEEEECCCcCcc
Confidence 45679999999999999999999998 455677888888887765444455667999999999876
No 47
>PRK09602 translation-associated GTPase; Reviewed
Probab=99.21 E-value=3e-11 Score=116.06 Aligned_cols=88 Identities=23% Similarity=0.235 Sum_probs=62.8
Q ss_pred eEEEEeCCCCCChHHHHHHHhCCCCCCCCceecCCCCCceeEeeeeEEec---------------------C---CCcEE
Q psy15351 169 TTVMVVGVPNVGKSSIINALRSSHMKKGKAVPVGPKAGVTRSVMSQVKIS---------------------E---KPLIY 224 (352)
Q Consensus 169 ~~v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~~~pg~T~~~~~~~~~~---------------------~---~~~~~ 224 (352)
++|+++|.||||||||+|+|++ ..+.+++.||+|+++..+.... . .-.+.
T Consensus 2 ~kigivG~pnvGKSTlfn~Lt~------~~~~~~~y~f~t~~p~~g~~~v~~~~~~~r~~~~~~~~~~~~~~~~~~~~i~ 75 (396)
T PRK09602 2 ITIGLVGKPNVGKSTFFNAATL------ADVEIANYPFTTIDPNVGVAYVRVECPCKELGVKCNPRNGKCIDGTRFIPVE 75 (396)
T ss_pred cEEEEECCCCCCHHHHHHHHhC------CcccccCCCCcceeeeeeeeeeccCCchhhhhhhhccccccccCCcceeeEE
Confidence 5799999999999999999996 3457789999999887643221 1 12478
Q ss_pred EEeCCCCCCCCCCCHHHHHHHHHHhhhhhhccchhhhhHhHHhhhcCC
Q psy15351 225 ILDTPGISLPRIDNLECGMRLAACATLQDHLVGEINIADYILFYLNRT 272 (352)
Q Consensus 225 l~DtPGi~~~~~~~~~~~~~l~~~~~i~~~~~~~~~~~~~il~~~~~~ 272 (352)
++||||+..... ...++.......+++ +|.++++++..
T Consensus 76 i~D~aGl~~ga~--~g~glg~~fL~~ir~--------ad~ll~Vvd~~ 113 (396)
T PRK09602 76 LIDVAGLVPGAH--EGRGLGNQFLDDLRQ--------ADALIHVVDAS 113 (396)
T ss_pred EEEcCCcCCCcc--chhhHHHHHHHHHHH--------CCEEEEEEeCC
Confidence 999999987532 222333333444444 88888999876
No 48
>PRK15494 era GTPase Era; Provisional
Probab=99.21 E-value=1.2e-10 Score=110.07 Aligned_cols=64 Identities=33% Similarity=0.530 Sum_probs=53.5
Q ss_pred CcceEEEEeCCCCCChHHHHHHHhCCCCCCCCceecCCCCCceeEeeeeEEecCCCcEEEEeCCCCCCC
Q psy15351 166 VYNTTVMVVGVPNVGKSSIINALRSSHMKKGKAVPVGPKAGVTRSVMSQVKISEKPLIYILDTPGISLP 234 (352)
Q Consensus 166 ~~~~~v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~~~pg~T~~~~~~~~~~~~~~~~l~DtPGi~~~ 234 (352)
.+..+|+++|.||||||||+|+|.+ .+.+.+++.|+||++........++.++.++||||+..+
T Consensus 50 ~k~~kV~ivG~~nvGKSTLin~l~~-----~k~~ivs~k~~tTr~~~~~~~~~~~~qi~~~DTpG~~~~ 113 (339)
T PRK15494 50 QKTVSVCIIGRPNSGKSTLLNRIIG-----EKLSIVTPKVQTTRSIITGIITLKDTQVILYDTPGIFEP 113 (339)
T ss_pred cceeEEEEEcCCCCCHHHHHHHHhC-----CceeeccCCCCCccCcEEEEEEeCCeEEEEEECCCcCCC
Confidence 3557999999999999999999997 566778899999998765555556668999999999765
No 49
>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=99.21 E-value=1.2e-10 Score=101.64 Aligned_cols=63 Identities=19% Similarity=0.329 Sum_probs=48.6
Q ss_pred eEEEEeCCCCCChHHHHHHHhCCCCCCCCceecC-CCCCceeEeeeeEEecCCCcEEEEeCCCCCCCCC
Q psy15351 169 TTVMVVGVPNVGKSSIINALRSSHMKKGKAVPVG-PKAGVTRSVMSQVKISEKPLIYILDTPGISLPRI 236 (352)
Q Consensus 169 ~~v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~-~~pg~T~~~~~~~~~~~~~~~~l~DtPGi~~~~~ 236 (352)
++|+++|.|||||||++|+|++. +...++ ..+|+|+..+.......+.++.++||||+.+...
T Consensus 1 ~~i~lvG~~g~GKSsl~N~ilg~-----~~~~~~~~~~~~T~~~~~~~~~~~~~~i~viDTPG~~d~~~ 64 (196)
T cd01852 1 LRLVLVGKTGAGKSATGNTILGR-----EVFESKLSASSVTKTCQKESAVWDGRRVNVIDTPGLFDTSV 64 (196)
T ss_pred CEEEEECCCCCCHHHHHHHhhCC-----CccccccCCCCcccccceeeEEECCeEEEEEECcCCCCccC
Confidence 36999999999999999999983 333333 3678888877654445667899999999998643
No 50
>PRK00089 era GTPase Era; Reviewed
Probab=99.20 E-value=3.3e-11 Score=111.87 Aligned_cols=62 Identities=40% Similarity=0.610 Sum_probs=52.7
Q ss_pred eEEEEeCCCCCChHHHHHHHhCCCCCCCCceecCCCCCceeEeeeeEEecCCCcEEEEeCCCCCCCC
Q psy15351 169 TTVMVVGVPNVGKSSIINALRSSHMKKGKAVPVGPKAGVTRSVMSQVKISEKPLIYILDTPGISLPR 235 (352)
Q Consensus 169 ~~v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~~~pg~T~~~~~~~~~~~~~~~~l~DtPGi~~~~ 235 (352)
-.|+++|.||||||||+|+|.+ .+.+.+++.|+||+.....+...++.++.++||||+..+.
T Consensus 6 g~V~iiG~pn~GKSTLin~L~g-----~~~~~vs~~~~tt~~~i~~i~~~~~~qi~~iDTPG~~~~~ 67 (292)
T PRK00089 6 GFVAIVGRPNVGKSTLLNALVG-----QKISIVSPKPQTTRHRIRGIVTEDDAQIIFVDTPGIHKPK 67 (292)
T ss_pred EEEEEECCCCCCHHHHHHHHhC-----CceeecCCCCCcccccEEEEEEcCCceEEEEECCCCCCch
Confidence 4699999999999999999998 5677899999999987766555555689999999998764
No 51
>COG0370 FeoB Fe2+ transport system protein B [Inorganic ion transport and metabolism]
Probab=99.18 E-value=5.1e-11 Score=117.98 Aligned_cols=70 Identities=31% Similarity=0.319 Sum_probs=60.2
Q ss_pred ceEEEEeCCCCCChHHHHHHHhCCCCCCCCceecCCCCCceeEeeeeEEecCCCcEEEEeCCCCCCCCCCCHHHHH
Q psy15351 168 NTTVMVVGVPNVGKSSIINALRSSHMKKGKAVPVGPKAGVTRSVMSQVKISEKPLIYILDTPGISLPRIDNLECGM 243 (352)
Q Consensus 168 ~~~v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~~~pg~T~~~~~~~~~~~~~~~~l~DtPGi~~~~~~~~~~~~ 243 (352)
..+|+++|+||||||||+|+|+| ....+|+.||+|.+.-++.....+..+.++|+||+.+....+.++..
T Consensus 3 ~~~valvGNPNvGKTtlFN~LTG------~~q~VgNwpGvTVEkkeg~~~~~~~~i~ivDLPG~YSL~~~S~DE~V 72 (653)
T COG0370 3 KLTVALVGNPNVGKTTLFNALTG------ANQKVGNWPGVTVEKKEGKLKYKGHEIEIVDLPGTYSLTAYSEDEKV 72 (653)
T ss_pred cceEEEecCCCccHHHHHHHHhc------cCceecCCCCeeEEEEEEEEEecCceEEEEeCCCcCCCCCCCchHHH
Confidence 35699999999999999999996 67899999999999888777777778999999999998666655543
No 52
>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=99.18 E-value=6.5e-11 Score=110.51 Aligned_cols=87 Identities=23% Similarity=0.263 Sum_probs=61.0
Q ss_pred EEEeCCCCCChHHHHHHHhCCCCCCCCceecCCCCCceeEeeeeEEec------------------------CCCcEEEE
Q psy15351 171 VMVVGVPNVGKSSIINALRSSHMKKGKAVPVGPKAGVTRSVMSQVKIS------------------------EKPLIYIL 226 (352)
Q Consensus 171 v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~~~pg~T~~~~~~~~~~------------------------~~~~~~l~ 226 (352)
|+++|.||||||||+|+|++ ..+.+++.|++|+++..+.... ..-.+.++
T Consensus 1 i~ivG~pnvGKStLfn~lt~------~~~~~~~~pftT~~p~~g~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~v~i~l~ 74 (318)
T cd01899 1 IGLVGKPNAGKSTFFNAATL------ADVEIANYPFTTIDPNVGVGYVRVECPCKELGVSCNPRYGKCIDGKRYVPVELI 74 (318)
T ss_pred CEEECCCCCCHHHHHHHHhC------CCCcccCCCCccccceeEEEEEecCCCchhhhhhhcccccccccCcCcceEEEE
Confidence 58999999999999999996 3458899999998876532221 11258999
Q ss_pred eCCCCCCCCCCCHHHHHHHHHHhhhhhhccchhhhhHhHHhhhcCCC
Q psy15351 227 DTPGISLPRIDNLECGMRLAACATLQDHLVGEINIADYILFYLNRTG 273 (352)
Q Consensus 227 DtPGi~~~~~~~~~~~~~l~~~~~i~~~~~~~~~~~~~il~~~~~~~ 273 (352)
||||+.... +...++...+...+++ +|.+++|++...
T Consensus 75 D~aGlv~ga--~~~~glg~~fL~~ir~--------aD~ii~Vvd~~~ 111 (318)
T cd01899 75 DVAGLVPGA--HEGKGLGNKFLDDLRD--------ADALIHVVDASG 111 (318)
T ss_pred ECCCCCCCc--cchhhHHHHHHHHHHH--------CCEEEEEEeCCC
Confidence 999998652 2222333333344444 888999998764
No 53
>PRK12296 obgE GTPase CgtA; Reviewed
Probab=99.17 E-value=3.5e-11 Score=117.75 Aligned_cols=61 Identities=26% Similarity=0.266 Sum_probs=51.3
Q ss_pred ceEEEEeCCCCCChHHHHHHHhCCCCCCCCceecCCCCCceeEeeeeEEecCCCcEEEEeCCCCCCC
Q psy15351 168 NTTVMVVGVPNVGKSSIINALRSSHMKKGKAVPVGPKAGVTRSVMSQVKISEKPLIYILDTPGISLP 234 (352)
Q Consensus 168 ~~~v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~~~pg~T~~~~~~~~~~~~~~~~l~DtPGi~~~ 234 (352)
-..|+++|+||||||||+|+|++ ....+++.|+||+.+...+....+.+++++||||++..
T Consensus 159 ~adV~LVG~PNAGKSTLln~Ls~------akpkIadypfTTl~P~lGvv~~~~~~f~laDtPGlieg 219 (500)
T PRK12296 159 VADVGLVGFPSAGKSSLISALSA------AKPKIADYPFTTLVPNLGVVQAGDTRFTVADVPGLIPG 219 (500)
T ss_pred cceEEEEEcCCCCHHHHHHHHhc------CCccccccCcccccceEEEEEECCeEEEEEECCCCccc
Confidence 46799999999999999999996 34567999999999876655555567999999999865
No 54
>PRK12299 obgE GTPase CgtA; Reviewed
Probab=99.17 E-value=4.3e-11 Score=112.67 Aligned_cols=60 Identities=27% Similarity=0.287 Sum_probs=50.2
Q ss_pred eEEEEeCCCCCChHHHHHHHhCCCCCCCCceecCCCCCceeEeeeeEEec-CCCcEEEEeCCCCCCC
Q psy15351 169 TTVMVVGVPNVGKSSIINALRSSHMKKGKAVPVGPKAGVTRSVMSQVKIS-EKPLIYILDTPGISLP 234 (352)
Q Consensus 169 ~~v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~~~pg~T~~~~~~~~~~-~~~~~~l~DtPGi~~~ 234 (352)
..|+++|+||||||||+|+|++ ..+.+++.|+||+.++..+... .+.++.++||||+...
T Consensus 159 adVglVG~PNaGKSTLln~ls~------a~~~va~ypfTT~~p~~G~v~~~~~~~~~i~D~PGli~g 219 (335)
T PRK12299 159 ADVGLVGLPNAGKSTLISAVSA------AKPKIADYPFTTLHPNLGVVRVDDYKSFVIADIPGLIEG 219 (335)
T ss_pred CCEEEEcCCCCCHHHHHHHHHc------CCCccCCCCCceeCceEEEEEeCCCcEEEEEeCCCccCC
Confidence 5699999999999999999995 3467899999999988655443 4457999999999865
No 55
>KOG1489|consensus
Probab=99.17 E-value=4.2e-11 Score=108.08 Aligned_cols=90 Identities=26% Similarity=0.273 Sum_probs=66.0
Q ss_pred eEEEEeCCCCCChHHHHHHHhCCCCCCCCceecCCCCCceeEeeeeEEecCCC-cEEEEeCCCCCCCCCCCHHHHHHHHH
Q psy15351 169 TTVMVVGVPNVGKSSIINALRSSHMKKGKAVPVGPKAGVTRSVMSQVKISEKP-LIYILDTPGISLPRIDNLECGMRLAA 247 (352)
Q Consensus 169 ~~v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~~~pg~T~~~~~~~~~~~~~-~~~l~DtPGi~~~~~~~~~~~~~l~~ 247 (352)
..+++||+||+|||||+|+|.+ ..+.++++++||..+.-.....++. ++.+-|.|||+..... ..++-..+
T Consensus 197 advGLVG~PNAGKSTLL~als~------AKpkVa~YaFTTL~P~iG~v~yddf~q~tVADiPGiI~GAh~--nkGlG~~F 268 (366)
T KOG1489|consen 197 ADVGLVGFPNAGKSTLLNALSR------AKPKVAHYAFTTLRPHIGTVNYDDFSQITVADIPGIIEGAHM--NKGLGYKF 268 (366)
T ss_pred cccceecCCCCcHHHHHHHhhc------cCCcccccceeeeccccceeeccccceeEeccCccccccccc--cCcccHHH
Confidence 4689999999999999999995 5669999999999987654444443 5999999999987443 33343344
Q ss_pred HhhhhhhccchhhhhHhHHhhhcCCCC
Q psy15351 248 CATLQDHLVGEINIADYILFYLNRTGN 274 (352)
Q Consensus 248 ~~~i~~~~~~~~~~~~~il~~~~~~~~ 274 (352)
...|.+ ++.+++|++....
T Consensus 269 LrHiER--------~~~l~fVvD~s~~ 287 (366)
T KOG1489|consen 269 LRHIER--------CKGLLFVVDLSGK 287 (366)
T ss_pred HHHHHh--------hceEEEEEECCCc
Confidence 444433 6667777776543
No 56
>KOG1491|consensus
Probab=99.16 E-value=5.1e-11 Score=108.42 Aligned_cols=109 Identities=19% Similarity=0.200 Sum_probs=76.8
Q ss_pred CcceEEEEeCCCCCChHHHHHHHhCCCCCCCCceecCCCCCceeEeeeeEEecCC-----------------CcEEEEeC
Q psy15351 166 VYNTTVMVVGVPNVGKSSIINALRSSHMKKGKAVPVGPKAGVTRSVMSQVKISEK-----------------PLIYILDT 228 (352)
Q Consensus 166 ~~~~~v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~~~pg~T~~~~~~~~~~~~-----------------~~~~l~Dt 228 (352)
...++++|||.|||||||++|+|+. ..+..+++|++|.++........+ -.+.++|.
T Consensus 18 ~~~lkiGIVGlPNvGKST~fnalT~------~~a~~~NfPF~TIdPn~a~V~v~d~Rfd~l~~~Y~~~~~vpa~l~v~DI 91 (391)
T KOG1491|consen 18 GNNLKIGIVGLPNVGKSTFFNALTK------SKAGAANFPFCTIDPNEARVEVPDSRFDLLCPIYGPKSKVPAFLTVYDI 91 (391)
T ss_pred CCcceeeEeeCCCCchHHHHHHHhc------CCCCccCCCcceeccccceeecCchHHHHHHHhcCCcceeeeeEEEEee
Confidence 4568999999999999999999995 445599999999998653221111 14899999
Q ss_pred CCCCCCCCCCHHHHHHHHHHhhhhhhccchhhhhHhHHhhhcCCCCCcccccccCCCCCccH
Q psy15351 229 PGISLPRIDNLECGMRLAACATLQDHLVGEINIADYILFYLNRTGNYRYVDFFNLDEPSDDI 290 (352)
Q Consensus 229 PGi~~~~~~~~~~~~~l~~~~~i~~~~~~~~~~~~~il~~~~~~~~~~~~~~~~l~~~~~~~ 290 (352)
.|+.... +...++--++...|+. +|.|+++++.....+.....+--+|..|+
T Consensus 92 AGLvkGA--s~G~GLGN~FLs~iR~--------vDaifhVVr~f~d~di~hve~~vDPvrDi 143 (391)
T KOG1491|consen 92 AGLVKGA--SAGEGLGNKFLSHIRH--------VDAIFHVVRAFEDTDIIHVEGGVDPVRDI 143 (391)
T ss_pred cccccCc--ccCcCchHHHHHhhhh--------ccceeEEEEecCcccceeccCCCCchhhH
Confidence 9999873 3334555555555554 88999999887665544333333455554
No 57
>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=99.15 E-value=1e-10 Score=110.90 Aligned_cols=62 Identities=26% Similarity=0.303 Sum_probs=50.2
Q ss_pred CcceEEEEeCCCCCChHHHHHHHhCCCCCCCCceecCCCCCceeEeeee-EEecCCCcEEEEeCCCCCC
Q psy15351 166 VYNTTVMVVGVPNVGKSSIINALRSSHMKKGKAVPVGPKAGVTRSVMSQ-VKISEKPLIYILDTPGISL 233 (352)
Q Consensus 166 ~~~~~v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~~~pg~T~~~~~~-~~~~~~~~~~l~DtPGi~~ 233 (352)
...++|+++|+||||||||+|+|++ . ...+.+.||+|+++... +.+.++..+.++||||+..
T Consensus 187 ~~~~~ValvG~~NvGKSSLln~L~~-----~-~~~v~~~~~tT~d~~~~~i~~~~~~~i~l~DT~G~~~ 249 (351)
T TIGR03156 187 ADVPTVALVGYTNAGKSTLFNALTG-----A-DVYAADQLFATLDPTTRRLDLPDGGEVLLTDTVGFIR 249 (351)
T ss_pred cCCcEEEEECCCCCCHHHHHHHHhC-----C-ceeeccCCccccCCEEEEEEeCCCceEEEEecCcccc
Confidence 4558999999999999999999996 2 35678899999988753 3333456899999999954
No 58
>KOG1547|consensus
Probab=99.14 E-value=1.2e-10 Score=101.21 Aligned_cols=169 Identities=18% Similarity=0.180 Sum_probs=88.4
Q ss_pred CcceEEEEeCCCCCChHHHHHHHhCCCCCCCCceecC--CCCCceeEeeeeEEecCCC---cEEEEeCCCCCCCCCCCH-
Q psy15351 166 VYNTTVMVVGVPNVGKSSIINALRSSHMKKGKAVPVG--PKAGVTRSVMSQVKISEKP---LIYILDTPGISLPRIDNL- 239 (352)
Q Consensus 166 ~~~~~v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~--~~pg~T~~~~~~~~~~~~~---~~~l~DtPGi~~~~~~~~- 239 (352)
+-.++|++||.+|.||||++|+|...++........+ +.|.||.-......+..+. ++.++||||+++.-..+.
T Consensus 44 GF~FNIMVVgqSglgkstlinTlf~s~v~~~s~~~~~~~p~pkT~eik~~thvieE~gVklkltviDTPGfGDqInN~nc 123 (336)
T KOG1547|consen 44 GFDFNIMVVGQSGLGKSTLINTLFKSHVSDSSSSDNSAEPIPKTTEIKSITHVIEEKGVKLKLTVIDTPGFGDQINNDNC 123 (336)
T ss_pred cCceEEEEEecCCCCchhhHHHHHHHHHhhccCCCcccCcccceEEEEeeeeeeeecceEEEEEEecCCCcccccCccch
Confidence 4679999999999999999999997654332222222 3555544332222222222 578999999998522211
Q ss_pred -HHHHH---------HHHHhhhhhhccchhhhhHhHHhhhcCCCCCcccccccCCCCCccHHHHHHHHHHHhcccccccc
Q psy15351 240 -ECGMR---------LAACATLQDHLVGEINIADYILFYLNRTGNYRYVDFFNLDEPSDDIVMLLAKAAIKKKWFKRAFD 309 (352)
Q Consensus 240 -~~~~~---------l~~~~~i~~~~~~~~~~~~~il~~~~~~~~~~~~~~~~l~~~~~~~~~~l~~~a~~~g~~~~~~~ 309 (352)
+-.++ |.-.-.+.+.-.-++.-++++++.+....+ .+....-++...|..++.-...+.|.+.
T Consensus 124 WePI~kyIneQye~yL~eElni~R~kripDTRVHcclyFi~ptGh-------sLrplDieflkrLt~vvNvvPVIakaDt 196 (336)
T KOG1547|consen 124 WEPIEKYINEQYEQYLREELNIAREKRIPDTRVHCCLYFIPPTGH-------SLRPLDIEFLKRLTEVVNVVPVIAKADT 196 (336)
T ss_pred hHHHHHHHHHHHHHHHHHHHhHHhhhcCCCceEEEEEEEeCCCCC-------ccCcccHHHHHHHhhhheeeeeEeeccc
Confidence 00000 000000111001112224455555554432 1211112233334444444444555555
Q ss_pred ccCCcccCCCCHHHHHHHHHHHHhCCCCcceecCcccc
Q psy15351 310 VSSNSVRMFPDTGEVARIFIEHFRKGSFGSVMLDRDFL 347 (352)
Q Consensus 310 ~~~g~~~~~~d~~~a~~~~l~~~~~g~l~~~~~~~~~~ 347 (352)
+| ..+-....+.+-+++.++-+..|.++-.+.
T Consensus 197 lT------leEr~~FkqrI~~el~~~~i~vYPq~~fde 228 (336)
T KOG1547|consen 197 LT------LEERSAFKQRIRKELEKHGIDVYPQDSFDE 228 (336)
T ss_pred cc------HHHHHHHHHHHHHHHHhcCccccccccccc
Confidence 55 234455667788899999998887765543
No 59
>TIGR00991 3a0901s02IAP34 GTP-binding protein (Chloroplast Envelope Protein Translocase).
Probab=99.13 E-value=1.6e-10 Score=106.28 Aligned_cols=66 Identities=26% Similarity=0.325 Sum_probs=50.7
Q ss_pred ccCcceEEEEeCCCCCChHHHHHHHhCCCCCCCCceecCCCCCceeEeeeeEEecCCCcEEEEeCCCCCCC
Q psy15351 164 TEVYNTTVMVVGVPNVGKSSIINALRSSHMKKGKAVPVGPKAGVTRSVMSQVKISEKPLIYILDTPGISLP 234 (352)
Q Consensus 164 ~~~~~~~v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~~~pg~T~~~~~~~~~~~~~~~~l~DtPGi~~~ 234 (352)
.....++|+++|.+||||||++|+|++ +..+.++..+++|...+.......+..+.++||||+.+.
T Consensus 34 ~~~~~~rIllvGktGVGKSSliNsIlG-----~~v~~vs~f~s~t~~~~~~~~~~~G~~l~VIDTPGL~d~ 99 (313)
T TIGR00991 34 EDVSSLTILVMGKGGVGKSSTVNSIIG-----ERIATVSAFQSEGLRPMMVSRTRAGFTLNIIDTPGLIEG 99 (313)
T ss_pred ccccceEEEEECCCCCCHHHHHHHHhC-----CCcccccCCCCcceeEEEEEEEECCeEEEEEECCCCCch
Confidence 345678999999999999999999998 455566777776655443333345678999999999875
No 60
>PRK12297 obgE GTPase CgtA; Reviewed
Probab=99.12 E-value=1.3e-10 Score=112.22 Aligned_cols=60 Identities=23% Similarity=0.272 Sum_probs=49.5
Q ss_pred eEEEEeCCCCCChHHHHHHHhCCCCCCCCceecCCCCCceeEeeeeEEecC-CCcEEEEeCCCCCCC
Q psy15351 169 TTVMVVGVPNVGKSSIINALRSSHMKKGKAVPVGPKAGVTRSVMSQVKISE-KPLIYILDTPGISLP 234 (352)
Q Consensus 169 ~~v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~~~pg~T~~~~~~~~~~~-~~~~~l~DtPGi~~~ 234 (352)
..|+++|.||||||||||+|++ ..+.+++.|+||+.+...+.... +.++.++||||+...
T Consensus 159 adVglVG~pNaGKSTLLn~Lt~------ak~kIa~ypfTTl~PnlG~v~~~~~~~~~laD~PGlieg 219 (424)
T PRK12297 159 ADVGLVGFPNVGKSTLLSVVSN------AKPKIANYHFTTLVPNLGVVETDDGRSFVMADIPGLIEG 219 (424)
T ss_pred CcEEEEcCCCCCHHHHHHHHHc------CCCccccCCcceeceEEEEEEEeCCceEEEEECCCCccc
Confidence 4799999999999999999996 34678899999999876543333 567999999999864
No 61
>TIGR00092 GTP-binding protein YchF. This predicted GTP-binding protein is found in a single copy in every complete bacterial genome, and is found in Eukaryotes. A more distantly related protein, separated from this model, is found in the archaea. It is known to bind GTP and double-stranded nucleic acid. It is suggested to belong to a nucleoprotein complex and act as a translation factor.
Probab=99.11 E-value=9.1e-11 Score=110.52 Aligned_cols=106 Identities=22% Similarity=0.194 Sum_probs=71.3
Q ss_pred eEEEEeCCCCCChHHHHHHHhCCCCCCCCceecCCCCCceeEeeeeEEecCCC-----------------cEEEEeCCCC
Q psy15351 169 TTVMVVGVPNVGKSSIINALRSSHMKKGKAVPVGPKAGVTRSVMSQVKISEKP-----------------LIYILDTPGI 231 (352)
Q Consensus 169 ~~v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~~~pg~T~~~~~~~~~~~~~-----------------~~~l~DtPGi 231 (352)
++++++|.||||||||+|+|++ .....+++.|+||..+..++....+. .+.++|.||+
T Consensus 3 lk~GivGlPn~GKSTlfnaLT~-----~~~~~~a~ypftTi~p~~g~v~v~d~r~d~L~~~~~~~~~~~a~i~~~DiaGl 77 (368)
T TIGR00092 3 LSGGIVGLPNVGKSTLFAATTN-----LLGNEAANPPFTTIEPNAGVVNPSDPRLDLLAIYIKPEKVPPTTTEFVDIAGL 77 (368)
T ss_pred ceEEEECCCCCChHHHHHHHhC-----CCccccCCCCCCCCCCceeEEEechhHHHHHHHHhCCcCcCCceEEEEecccc
Confidence 7899999999999999999996 33327889999999987654444332 5899999999
Q ss_pred CCCCCCCHHHHHHHHHHhhhhhhccchhhhhHhHHhhhcCCCCCcccccccCCCCCcc
Q psy15351 232 SLPRIDNLECGMRLAACATLQDHLVGEINIADYILFYLNRTGNYRYVDFFNLDEPSDD 289 (352)
Q Consensus 232 ~~~~~~~~~~~~~l~~~~~i~~~~~~~~~~~~~il~~~~~~~~~~~~~~~~l~~~~~~ 289 (352)
..... ...++-..+...++. +|.+++|++...........+..+|.++
T Consensus 78 v~gAs--~g~Glgn~fL~~ir~--------~d~l~hVvr~f~d~~i~H~~~~~dp~~d 125 (368)
T TIGR00092 78 VGGAS--KGEGLGNQFLANIRE--------VDIIQHVVRCFEDDIIHHVGNVDDPRDD 125 (368)
T ss_pred ccchh--cccCcchHHHHHHHh--------CCEEEEEEeCCCCcccCccCCCCCHHHH
Confidence 98632 222232233444444 7888888887654443333343344443
No 62
>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=99.10 E-value=1.6e-10 Score=108.77 Aligned_cols=61 Identities=26% Similarity=0.274 Sum_probs=50.0
Q ss_pred ceEEEEeCCCCCChHHHHHHHhCCCCCCCCceecCCCCCceeEeeeeEEecCC-CcEEEEeCCCCCCC
Q psy15351 168 NTTVMVVGVPNVGKSSIINALRSSHMKKGKAVPVGPKAGVTRSVMSQVKISEK-PLIYILDTPGISLP 234 (352)
Q Consensus 168 ~~~v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~~~pg~T~~~~~~~~~~~~-~~~~l~DtPGi~~~ 234 (352)
-..|+++|.||||||||+|+|++ ....+++.|+||+.+...+....+ .++.++||||+...
T Consensus 157 ~adV~lvG~pnaGKSTLl~~lt~------~~~~va~y~fTT~~p~ig~v~~~~~~~~~i~D~PGli~~ 218 (329)
T TIGR02729 157 LADVGLVGLPNAGKSTLISAVSA------AKPKIADYPFTTLVPNLGVVRVDDGRSFVIADIPGLIEG 218 (329)
T ss_pred cccEEEEcCCCCCHHHHHHHHhc------CCccccCCCCCccCCEEEEEEeCCceEEEEEeCCCcccC
Confidence 35799999999999999999995 345789999999988765444333 67999999999865
No 63
>COG1159 Era GTPase [General function prediction only]
Probab=99.10 E-value=8.4e-10 Score=99.57 Aligned_cols=100 Identities=19% Similarity=0.278 Sum_probs=83.6
Q ss_pred HHHHHHHhhccCEEEEEEcCCCCCCCcCHHHHHHHh-CCCCEEEEEEcccCCCccc-hHHHHHHHHhhcCCCCcEEEeec
Q psy15351 5 LKDIEKHLKNVDIVIEVHDSRMPFTGRNHLLQQSVQ-NIRPMVLVLNKRDLINSKH-ESLIEEKVRKEQSHISEVIFTNC 82 (352)
Q Consensus 5 ~~~~~~~i~~aD~vl~VvDar~p~~~~~~~l~~~l~-~~k~~ilVlNK~Dl~~~~~-~~~~~~~~~~~~~~~~~v~~iSa 82 (352)
.+.++..+..+|+|+||+|+..++...+..+.+.++ ...|+++++||+|.+.++. .....+++.. ..++.+++++||
T Consensus 76 ~~~a~~sl~dvDlilfvvd~~~~~~~~d~~il~~lk~~~~pvil~iNKID~~~~~~~l~~~~~~~~~-~~~f~~ivpiSA 154 (298)
T COG1159 76 NKAARSALKDVDLILFVVDADEGWGPGDEFILEQLKKTKTPVILVVNKIDKVKPKTVLLKLIAFLKK-LLPFKEIVPISA 154 (298)
T ss_pred HHHHHHHhccCcEEEEEEeccccCCccHHHHHHHHhhcCCCeEEEEEccccCCcHHHHHHHHHHHHh-hCCcceEEEeec
Confidence 456889999999999999999999988888877776 3579999999999998876 4556666544 344568999999
Q ss_pred CCCCCCCHHHHHHHHHHHhhhcccc
Q psy15351 83 RNPNCKGVQKILPTLQHISDNMTRY 107 (352)
Q Consensus 83 ~~~~~~gi~~L~~~i~~~~~~~~~~ 107 (352)
+++ .|++.|++.+.+++++++.+
T Consensus 155 ~~g--~n~~~L~~~i~~~Lpeg~~~ 177 (298)
T COG1159 155 LKG--DNVDTLLEIIKEYLPEGPWY 177 (298)
T ss_pred ccc--CCHHHHHHHHHHhCCCCCCc
Confidence 999 99999999999999987743
No 64
>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=99.05 E-value=3.6e-10 Score=110.32 Aligned_cols=64 Identities=38% Similarity=0.402 Sum_probs=53.1
Q ss_pred CcceEEEEeCCCCCChHHHHHHHhCCCCCCCCceecCCCCCceeEeeeeEEecCCCcEEEEeCCCCCCC
Q psy15351 166 VYNTTVMVVGVPNVGKSSIINALRSSHMKKGKAVPVGPKAGVTRSVMSQVKISEKPLIYILDTPGISLP 234 (352)
Q Consensus 166 ~~~~~v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~~~pg~T~~~~~~~~~~~~~~~~l~DtPGi~~~ 234 (352)
..+++|+++|.||||||||+|+|++ ...+.+++.||||++........++..+.++||||+...
T Consensus 201 ~~g~kVvIvG~~nvGKSSLiN~L~~-----~~~aivs~~pgtTrd~~~~~i~~~g~~v~l~DTaG~~~~ 264 (442)
T TIGR00450 201 DDGFKLAIVGSPNVGKSSLLNALLK-----QDRAIVSDIKGTTRDVVEGDFELNGILIKLLDTAGIREH 264 (442)
T ss_pred hcCCEEEEECCCCCcHHHHHHHHhC-----CCCcccCCCCCcEEEEEEEEEEECCEEEEEeeCCCcccc
Confidence 4678999999999999999999997 455678899999999875444445567899999999754
No 65
>KOG1490|consensus
Probab=99.05 E-value=2.6e-10 Score=108.44 Aligned_cols=94 Identities=24% Similarity=0.236 Sum_probs=72.3
Q ss_pred CCcchhhhhccccccccccCcceEEEEeCCCCCChHHHHHHHhCCCCCCCCceecCCCCCceeEeeeeEEecCCCcEEEE
Q psy15351 147 ILPTLQHISDNMTRYHRTEVYNTTVMVVGVPNVGKSSIINALRSSHMKKGKAVPVGPKAGVTRSVMSQVKISEKPLIYIL 226 (352)
Q Consensus 147 ~~~~~~~~~~~~~~~~~~~~~~~~v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~~~pg~T~~~~~~~~~~~~~~~~l~ 226 (352)
.+.+.++...++.++..-.+...++.++|+|||||||++|.++ .....+.+.|+||+....+..-..-..+.++
T Consensus 147 sl~yLeqVrqhl~rlPsIDp~trTlllcG~PNVGKSSf~~~vt------radvevqpYaFTTksL~vGH~dykYlrwQVi 220 (620)
T KOG1490|consen 147 SLEYLEQVRQHLSRLPAIDPNTRTLLVCGYPNVGKSSFNNKVT------RADDEVQPYAFTTKLLLVGHLDYKYLRWQVI 220 (620)
T ss_pred hHHHHHHHHHHHhcCCCCCCCcCeEEEecCCCCCcHhhccccc------ccccccCCcccccchhhhhhhhhheeeeeec
Confidence 3445666777777887778889999999999999999999998 4667899999999987544443334468899
Q ss_pred eCCCCCCCCCCCHHHHHHHH
Q psy15351 227 DTPGISLPRIDNLECGMRLA 246 (352)
Q Consensus 227 DtPGi~~~~~~~~~~~~~l~ 246 (352)
|||||.+...++....++++
T Consensus 221 DTPGILD~plEdrN~IEmqs 240 (620)
T KOG1490|consen 221 DTPGILDRPEEDRNIIEMQI 240 (620)
T ss_pred CCccccCcchhhhhHHHHHH
Confidence 99999998766554444433
No 66
>KOG1249|consensus
Probab=99.04 E-value=5.3e-10 Score=107.30 Aligned_cols=212 Identities=21% Similarity=0.237 Sum_probs=134.1
Q ss_pred HHhhccCEEEEEEcCCCCCCCcCHHHHHHHhCCCCEEEEEEcccCCCccchHHHHHHHHhh------------cCC----
Q psy15351 10 KHLKNVDIVIEVHDSRMPFTGRNHLLQQSVQNIRPMVLVLNKRDLINSKHESLIEEKVRKE------------QSH---- 73 (352)
Q Consensus 10 ~~i~~aD~vl~VvDar~p~~~~~~~l~~~l~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~------------~~~---- 73 (352)
+..++--++..|+|..+...+..+.+...+ ..+..+++.||+|+.+.+..--..+.++.. +..
T Consensus 106 ~~~~~~~~~~~vvd~~d~p~~i~p~~~~~v-~~~~~~v~~n~vdl~p~d~~~~~c~rc~~l~~~~~vk~~~~en~~p~~~ 184 (572)
T KOG1249|consen 106 EKQENPALARKVVDLSDEPCSIDPLLTNDV-GSPRLFVDGNKVDLLPKDSRPGYCQRCHSLLHYGMIKAGGGENLNPDFD 184 (572)
T ss_pred hhhhcccceEEeeecccCccccccchhhcc-cCCceEeeccccccccccccchHHHHHHhhcccceeecccccCCCcccc
Confidence 344444467777887776666777776665 345579999999999877522222222111 111
Q ss_pred CCcEEEeecCCCCCCCHHHHHHHHHHHhhhccccccccccceeEEEeccCCCCchhHHHHHhhhhcccCCC---------
Q psy15351 74 ISEVIFTNCRNPNCKGVQKILPTLQHISDNMTRYHRTEVYNTTVMVVGVPNVGKSSIINALRSSHMKKGKA--------- 144 (352)
Q Consensus 74 ~~~v~~iSa~~~~~~gi~~L~~~i~~~~~~~~~~~~~~~~~~~~~~~g~~nvgksslin~l~~~~~~~~~~--------- 144 (352)
+..+..+|++++ .|+++|+-.+.... .++..++.+|..|+|||+++|.|..+..++.+.
T Consensus 185 f~~~~~~r~ktg--yg~eeLI~~lvd~~----------df~Gdf~lvg~tnvgks~~fn~ll~sD~c~~~~p~lVd~aT~ 252 (572)
T KOG1249|consen 185 FDHVDLIRAKTG--YGIEELIVMLVDIV----------DFRGDFYLVGATNVGKSTLFNALLESDLCSVNAPKLVDRATI 252 (572)
T ss_pred hhhhhhhhhhhc--ccHHHHHHHhhhee----------eccCceeeeeecccchhhHHHHHhhhccccccccceeeeeec
Confidence 334567899998 99999987776433 257889999999999999999998887764210
Q ss_pred CCCCcchhhhh---------------------------ccc--ccc----ccccCcceEEEEeCCCCCChHHHHHHHhCC
Q psy15351 145 VPILPTLQHIS---------------------------DNM--TRY----HRTEVYNTTVMVVGVPNVGKSSIINALRSS 191 (352)
Q Consensus 145 ~~~~~~~~~~~---------------------------~~~--~~~----~~~~~~~~~v~i~G~pnvGKStliN~l~~~ 191 (352)
.+-++..-.+. ++. .+. .........|+.+|.++.||+++||++...
T Consensus 253 ~dwpgTtlsllkfpv~~p~~~r~~~r~krl~~~~~~akk~~g~r~l~~~~~~~ag~~~~v~~vg~t~a~~e~~~~~~~~~ 332 (572)
T KOG1249|consen 253 SDWPGTTLSLLKFPVLVPHPYRLGGRRKRLGVHSVSAKKDMGERDLLALETGDAGKAGPVAAVGRTFAGSEELINAMAKE 332 (572)
T ss_pred ccCCccccchhhCccccccchhhccchhhhhhhhhhhHhhhhHHHHHHhhhhccccccchHHhhhhhhccchhhhhhhhh
Confidence 01111100000 000 000 011234678899999999999999999832
Q ss_pred CCCCCCceecCCCCCceeEeeeeEEecCCCcEEEEeCCCCCCCC
Q psy15351 192 HMKKGKAVPVGPKAGVTRSVMSQVKISEKPLIYILDTPGISLPR 235 (352)
Q Consensus 192 ~~~~~~~~~~~~~pg~T~~~~~~~~~~~~~~~~l~DtPGi~~~~ 235 (352)
.-.......-++.||||-.......+.. ..-+++||||+..+.
T Consensus 333 ~~a~~~~~~e~~vPgtTLg~~ri~~i~~-~~~w~YDTPG~~~~~ 375 (572)
T KOG1249|consen 333 LHADVEALAEEPVPGTTLGIRRIEGIFK-RGAWLYDTPGVLNPN 375 (572)
T ss_pred hccchhccccCCCCcccccceeeecccc-ccceeecCCCccChh
Confidence 1112334567889999988754332222 235899999999863
No 67
>PRK05291 trmE tRNA modification GTPase TrmE; Reviewed
Probab=99.03 E-value=4.4e-10 Score=110.21 Aligned_cols=64 Identities=34% Similarity=0.424 Sum_probs=52.3
Q ss_pred CcceEEEEeCCCCCChHHHHHHHhCCCCCCCCceecCCCCCceeEeeeeEEecCCCcEEEEeCCCCCCC
Q psy15351 166 VYNTTVMVVGVPNVGKSSIINALRSSHMKKGKAVPVGPKAGVTRSVMSQVKISEKPLIYILDTPGISLP 234 (352)
Q Consensus 166 ~~~~~v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~~~pg~T~~~~~~~~~~~~~~~~l~DtPGi~~~ 234 (352)
..+++|+++|.||||||||+|+|++ ...+.+++.||+|++........++..+.++||||+..+
T Consensus 213 ~~~~kV~ivG~~nvGKSSLln~L~~-----~~~a~v~~~~gtT~d~~~~~i~~~g~~i~l~DT~G~~~~ 276 (449)
T PRK05291 213 REGLKVVIAGRPNVGKSSLLNALLG-----EERAIVTDIAGTTRDVIEEHINLDGIPLRLIDTAGIRET 276 (449)
T ss_pred hcCCEEEEECCCCCCHHHHHHHHhC-----CCCcccCCCCCcccccEEEEEEECCeEEEEEeCCCCCCC
Confidence 3568999999999999999999997 455678899999998765444445567999999999753
No 68
>PRK03003 GTP-binding protein Der; Reviewed
Probab=99.01 E-value=7.4e-10 Score=109.57 Aligned_cols=62 Identities=32% Similarity=0.348 Sum_probs=51.2
Q ss_pred cceEEEEeCCCCCChHHHHHHHhCCCCCCCCceecCCCCCceeEeeeeEEecCCCcEEEEeCCCCCC
Q psy15351 167 YNTTVMVVGVPNVGKSSIINALRSSHMKKGKAVPVGPKAGVTRSVMSQVKISEKPLIYILDTPGISL 233 (352)
Q Consensus 167 ~~~~v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~~~pg~T~~~~~~~~~~~~~~~~l~DtPGi~~ 233 (352)
...+|+++|.||||||||+|+|++ ...+.+++.||+|++.........+..+.++||||+..
T Consensus 37 ~~~~V~IvG~~nvGKSSL~nrl~~-----~~~~~v~~~~gvT~d~~~~~~~~~~~~~~l~DT~G~~~ 98 (472)
T PRK03003 37 PLPVVAVVGRPNVGKSTLVNRILG-----RREAVVEDVPGVTRDRVSYDAEWNGRRFTVVDTGGWEP 98 (472)
T ss_pred CCCEEEEEcCCCCCHHHHHHHHhC-----cCcccccCCCCCCEeeEEEEEEECCcEEEEEeCCCcCC
Confidence 346899999999999999999997 44567889999999987654444566799999999863
No 69
>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=99.01 E-value=3.6e-10 Score=95.76 Aligned_cols=58 Identities=24% Similarity=0.300 Sum_probs=45.3
Q ss_pred EEEEeCCCCCChHHHHHHHhCCCCCCCCceecCCCCCceeEeeeeEEecCCC-cEEEEeCCCCCC
Q psy15351 170 TVMVVGVPNVGKSSIINALRSSHMKKGKAVPVGPKAGVTRSVMSQVKISEKP-LIYILDTPGISL 233 (352)
Q Consensus 170 ~v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~~~pg~T~~~~~~~~~~~~~-~~~l~DtPGi~~ 233 (352)
.|+++|.||||||||+|+|.+ ....++..|++|+.+........+. .+.++||||+..
T Consensus 2 ~v~ivG~~~~GKStl~~~l~~------~~~~v~~~~~~t~~~~~~~~~~~~~~~~~l~DtpG~~~ 60 (170)
T cd01898 2 DVGLVGLPNAGKSTLLSAISN------AKPKIADYPFTTLVPNLGVVRVDDGRSFVVADIPGLIE 60 (170)
T ss_pred CeEEECCCCCCHHHHHHHHhc------CCccccCCCccccCCcceEEEcCCCCeEEEEecCcccC
Confidence 489999999999999999986 2336788899988765444333444 789999999864
No 70
>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=99.00 E-value=2.9e-09 Score=87.05 Aligned_cols=87 Identities=14% Similarity=0.210 Sum_probs=74.1
Q ss_pred HHHHHHhhccCEEEEEEcCCCCCCCcCHHHHHHHhCCCCEEEEEEcccCC-CccchHHHHHHHHhhcCCCCcEEEeecCC
Q psy15351 6 KDIEKHLKNVDIVIEVHDSRMPFTGRNHLLQQSVQNIRPMVLVLNKRDLI-NSKHESLIEEKVRKEQSHISEVIFTNCRN 84 (352)
Q Consensus 6 ~~~~~~i~~aD~vl~VvDar~p~~~~~~~l~~~l~~~k~~ilVlNK~Dl~-~~~~~~~~~~~~~~~~~~~~~v~~iSa~~ 84 (352)
+.+.....+||+|++|.|+..+.....|.+...+ .+|+|-|+||+|+. +.+..+...++++..|.. +++.+|+.+
T Consensus 55 ~aLi~ta~dad~V~ll~dat~~~~~~pP~fa~~f--~~pvIGVITK~Dl~~~~~~i~~a~~~L~~aG~~--~if~vS~~~ 130 (143)
T PF10662_consen 55 HALIVTAQDADVVLLLQDATEPRSVFPPGFASMF--NKPVIGVITKIDLPSDDANIERAKKWLKNAGVK--EIFEVSAVT 130 (143)
T ss_pred HHHHHHHhhCCEEEEEecCCCCCccCCchhhccc--CCCEEEEEECccCccchhhHHHHHHHHHHcCCC--CeEEEECCC
Confidence 4455677899999999999999988889887765 69999999999999 444566677788888877 799999999
Q ss_pred CCCCCHHHHHHHHH
Q psy15351 85 PNCKGVQKILPTLQ 98 (352)
Q Consensus 85 ~~~~gi~~L~~~i~ 98 (352)
+ +|+++|+++|.
T Consensus 131 ~--eGi~eL~~~L~ 142 (143)
T PF10662_consen 131 G--EGIEELKDYLE 142 (143)
T ss_pred C--cCHHHHHHHHh
Confidence 9 99999999875
No 71
>COG1163 DRG Predicted GTPase [General function prediction only]
Probab=98.98 E-value=8e-10 Score=100.34 Aligned_cols=64 Identities=30% Similarity=0.344 Sum_probs=57.5
Q ss_pred CcceEEEEeCCCCCChHHHHHHHhCCCCCCCCceecCCCCCceeEeeeeEEecCCCcEEEEeCCCCCCCC
Q psy15351 166 VYNTTVMVVGVPNVGKSSIINALRSSHMKKGKAVPVGPKAGVTRSVMSQVKISEKPLIYILDTPGISLPR 235 (352)
Q Consensus 166 ~~~~~v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~~~pg~T~~~~~~~~~~~~~~~~l~DtPGi~~~~ 235 (352)
....+|+++|+|+||||||+|.|++ ..+.+++.|+||..++.++....+-+++++|+||++...
T Consensus 61 sGda~v~lVGfPsvGKStLL~~LTn------t~seva~y~FTTl~~VPG~l~Y~ga~IQild~Pgii~ga 124 (365)
T COG1163 61 SGDATVALVGFPSVGKSTLLNKLTN------TKSEVADYPFTTLEPVPGMLEYKGAQIQLLDLPGIIEGA 124 (365)
T ss_pred cCCeEEEEEcCCCccHHHHHHHHhC------CCccccccCceecccccceEeecCceEEEEcCcccccCc
Confidence 3567999999999999999999995 667899999999999888888888899999999999853
No 72
>PRK11058 GTPase HflX; Provisional
Probab=98.97 E-value=7.7e-10 Score=107.46 Aligned_cols=60 Identities=23% Similarity=0.280 Sum_probs=47.5
Q ss_pred ceEEEEeCCCCCChHHHHHHHhCCCCCCCCceecCCCCCceeEeeee-EEecCCCcEEEEeCCCCCC
Q psy15351 168 NTTVMVVGVPNVGKSSIINALRSSHMKKGKAVPVGPKAGVTRSVMSQ-VKISEKPLIYILDTPGISL 233 (352)
Q Consensus 168 ~~~v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~~~pg~T~~~~~~-~~~~~~~~~~l~DtPGi~~ 233 (352)
.++|+++|+||||||||+|+|++ .. ..+++.||+|+++... +.+.+...+.++||||+..
T Consensus 197 ~p~ValVG~~NaGKSSLlN~Lt~-----~~-~~v~~~~~tTld~~~~~i~l~~~~~~~l~DTaG~~r 257 (426)
T PRK11058 197 VPTVSLVGYTNAGKSTLFNRITE-----AR-VYAADQLFATLDPTLRRIDVADVGETVLADTVGFIR 257 (426)
T ss_pred CCEEEEECCCCCCHHHHHHHHhC-----Cc-eeeccCCCCCcCCceEEEEeCCCCeEEEEecCcccc
Confidence 36899999999999999999996 33 3478899999988753 3333334789999999954
No 73
>COG3596 Predicted GTPase [General function prediction only]
Probab=98.96 E-value=5.2e-09 Score=93.28 Aligned_cols=71 Identities=27% Similarity=0.284 Sum_probs=52.9
Q ss_pred cCcceEEEEeCCCCCChHHHHHHHhCCCCCCCCceecCCCCCceeEeeeeEEecCCCcEEEEeCCCCCCCCCCCHH
Q psy15351 165 EVYNTTVMVVGVPNVGKSSIINALRSSHMKKGKAVPVGPKAGVTRSVMSQVKISEKPLIYILDTPGISLPRIDNLE 240 (352)
Q Consensus 165 ~~~~~~v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~~~pg~T~~~~~~~~~~~~~~~~l~DtPGi~~~~~~~~~ 240 (352)
..+++++.++|.+|+|||||||+|+. +....++..+-+|..........++..++|+||||+.+....|.+
T Consensus 36 ~~~pvnvLi~G~TG~GKSSliNALF~-----~~~~~v~~vg~~t~~~~~~~~~~~~~~l~lwDtPG~gdg~~~D~~ 106 (296)
T COG3596 36 EKEPVNVLLMGATGAGKSSLINALFQ-----GEVKEVSKVGVGTDITTRLRLSYDGENLVLWDTPGLGDGKDKDAE 106 (296)
T ss_pred ccCceeEEEecCCCCcHHHHHHHHHh-----ccCceeeecccCCCchhhHHhhccccceEEecCCCcccchhhhHH
Confidence 45789999999999999999999996 455566666655554433333344568999999999997665543
No 74
>PRK09518 bifunctional cytidylate kinase/GTPase Der; Reviewed
Probab=98.95 E-value=1.7e-09 Score=112.06 Aligned_cols=62 Identities=31% Similarity=0.353 Sum_probs=51.7
Q ss_pred cceEEEEeCCCCCChHHHHHHHhCCCCCCCCceecCCCCCceeEeeeeEEecCCCcEEEEeCCCCCC
Q psy15351 167 YNTTVMVVGVPNVGKSSIINALRSSHMKKGKAVPVGPKAGVTRSVMSQVKISEKPLIYILDTPGISL 233 (352)
Q Consensus 167 ~~~~v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~~~pg~T~~~~~~~~~~~~~~~~l~DtPGi~~ 233 (352)
...+|+++|.||||||||+|+|++ .+.+.+++.||+|++.........+..+.++||||+..
T Consensus 274 ~~~~V~IvG~~nvGKSSL~n~l~~-----~~~~iv~~~pGvT~d~~~~~~~~~~~~~~liDT~G~~~ 335 (712)
T PRK09518 274 AVGVVAIVGRPNVGKSTLVNRILG-----RREAVVEDTPGVTRDRVSYDAEWAGTDFKLVDTGGWEA 335 (712)
T ss_pred cCcEEEEECCCCCCHHHHHHHHhC-----CCceeecCCCCeeEEEEEEEEEECCEEEEEEeCCCcCC
Confidence 346899999999999999999997 45678899999999987644444556799999999874
No 75
>PF04548 AIG1: AIG1 family; InterPro: IPR006703 This entry represents a domain found in Arabidopsis protein AIG1 which 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 (avrRpt2-induced gene) exhibits RPS2- and avrRpt2-dependent induction early after infection with Pseudomonas syringae carrying avrRpt2 []. The domain is also apparently found in a number of mammalian proteins, for example the rat immune-associated nucleotide 4 protein. ; GO: 0005525 GTP binding; PDB: 3LXX_A 3BB4_A 3DEF_A 3BB3_A 2J3E_A 3V70_B 3BB1_A 1H65_B 2XTP_A 3P1J_C ....
Probab=98.94 E-value=2.5e-09 Score=94.57 Aligned_cols=63 Identities=21% Similarity=0.296 Sum_probs=41.9
Q ss_pred eEEEEeCCCCCChHHHHHHHhCCCCCCCCceecC-CCCCceeEeeeeEEecCCCcEEEEeCCCCCCCCC
Q psy15351 169 TTVMVVGVPNVGKSSIINALRSSHMKKGKAVPVG-PKAGVTRSVMSQVKISEKPLIYILDTPGISLPRI 236 (352)
Q Consensus 169 ~~v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~-~~pg~T~~~~~~~~~~~~~~~~l~DtPGi~~~~~ 236 (352)
++|+++|.+|+||||++|+|++. ....++ ...++|...+.......+..+.++||||+.+...
T Consensus 1 l~IlllG~tGsGKSs~~N~ilg~-----~~f~~~~~~~~~t~~~~~~~~~~~g~~v~VIDTPGl~d~~~ 64 (212)
T PF04548_consen 1 LRILLLGKTGSGKSSLGNSILGK-----EVFKSGSSAKSVTQECQKYSGEVDGRQVTVIDTPGLFDSDG 64 (212)
T ss_dssp EEEEEECSTTSSHHHHHHHHHTS-----S-SS--TTTSS--SS-EEEEEEETTEEEEEEE--SSEETTE
T ss_pred CEEEEECCCCCCHHHHHHHHhcc-----cceeeccccCCcccccceeeeeecceEEEEEeCCCCCCCcc
Confidence 47999999999999999999983 333333 2344565555544456677899999999987654
No 76
>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=98.94 E-value=7.6e-09 Score=94.98 Aligned_cols=97 Identities=15% Similarity=0.113 Sum_probs=71.3
Q ss_pred HHHHHHHhhccCEEEEEEcCCCCCCCcCHHHHHHHh-CCCCEEEEEEcccCCCccchHHHHHHHHhhcCCCCcEEEeecC
Q psy15351 5 LKDIEKHLKNVDIVIEVHDSRMPFTGRNHLLQQSVQ-NIRPMVLVLNKRDLINSKHESLIEEKVRKEQSHISEVIFTNCR 83 (352)
Q Consensus 5 ~~~~~~~i~~aD~vl~VvDar~p~~~~~~~l~~~l~-~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~v~~iSa~ 83 (352)
.+.++..+..+|++++|+|++.+.... ..+...++ .++|+++|+||+|+.++.......+.+.+. ..+.+++++||+
T Consensus 70 ~~~~~~~l~~aDvvl~VvD~~~~~~~~-~~i~~~l~~~~~p~ilV~NK~Dl~~~~~~~~~~~~~~~~-~~~~~v~~iSA~ 147 (270)
T TIGR00436 70 MKEARSAIGGVDLILFVVDSDQWNGDG-EFVLTKLQNLKRPVVLTRNKLDNKFKDKLLPLIDKYAIL-EDFKDIVPISAL 147 (270)
T ss_pred HHHHHHHHhhCCEEEEEEECCCCCchH-HHHHHHHHhcCCCEEEEEECeeCCCHHHHHHHHHHHHhh-cCCCceEEEecC
Confidence 345678899999999999999765432 44444444 678999999999998655433333333222 122369999999
Q ss_pred CCCCCCHHHHHHHHHHHhhhcc
Q psy15351 84 NPNCKGVQKILPTLQHISDNMT 105 (352)
Q Consensus 84 ~~~~~gi~~L~~~i~~~~~~~~ 105 (352)
++ .|+++|++++.+.+++++
T Consensus 148 ~g--~gi~~L~~~l~~~l~~~~ 167 (270)
T TIGR00436 148 TG--DNTSFLAAFIEVHLPEGP 167 (270)
T ss_pred CC--CCHHHHHHHHHHhCCCCC
Confidence 99 999999999999988765
No 77
>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=98.93 E-value=4.8e-09 Score=90.94 Aligned_cols=98 Identities=24% Similarity=0.307 Sum_probs=71.5
Q ss_pred hHHHHHHHHhhccCEEEEEEcCCCCCCCcCHHHHHHHh-CCCCEEEEEEcccCCCccc---hHHHHHHH-HhhcCC---C
Q psy15351 3 RGLKDIEKHLKNVDIVIEVHDSRMPFTGRNHLLQQSVQ-NIRPMVLVLNKRDLINSKH---ESLIEEKV-RKEQSH---I 74 (352)
Q Consensus 3 ~~~~~~~~~i~~aD~vl~VvDar~p~~~~~~~l~~~l~-~~k~~ilVlNK~Dl~~~~~---~~~~~~~~-~~~~~~---~ 74 (352)
+..+++...+..+|++|+|+|++.++.....+....+. .+.|+++|+||+|+...+. .+++.+.+ +..+.. .
T Consensus 82 ~f~~~~~~~~~~~D~ailvVda~~g~~~~~~~~l~~~~~~~~p~ivvlNK~D~~~~~~~~~~~~~~~~l~~~~~~~~~~~ 161 (188)
T PF00009_consen 82 DFIKEMIRGLRQADIAILVVDANDGIQPQTEEHLKILRELGIPIIVVLNKMDLIEKELEEIIEEIKEKLLKEYGENGEEI 161 (188)
T ss_dssp HHHHHHHHHHTTSSEEEEEEETTTBSTHHHHHHHHHHHHTT-SEEEEEETCTSSHHHHHHHHHHHHHHHHHHTTSTTTST
T ss_pred ceeecccceecccccceeeeecccccccccccccccccccccceEEeeeeccchhhhHHHHHHHHHHHhccccccCcccc
Confidence 46778888999999999999999887665555555554 7889999999999993321 23333222 222222 2
Q ss_pred CcEEEeecCCCCCCCHHHHHHHHHHHhh
Q psy15351 75 SEVIFTNCRNPNCKGVQKILPTLQHISD 102 (352)
Q Consensus 75 ~~v~~iSa~~~~~~gi~~L~~~i~~~~~ 102 (352)
.+++++||.++ .|+.+|++.+.+++|
T Consensus 162 ~~vi~~Sa~~g--~gi~~Ll~~l~~~~P 187 (188)
T PF00009_consen 162 VPVIPISALTG--DGIDELLEALVELLP 187 (188)
T ss_dssp EEEEEEBTTTT--BTHHHHHHHHHHHS-
T ss_pred ceEEEEecCCC--CCHHHHHHHHHHhCc
Confidence 36999999999 999999999998876
No 78
>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=98.92 E-value=1.9e-09 Score=96.72 Aligned_cols=59 Identities=31% Similarity=0.385 Sum_probs=48.3
Q ss_pred EEEEeCCCCCChHHHHHHHhCCCCCCCCceecCCCCCceeEeeeeEEecCCCcEEEEeCCCCCCC
Q psy15351 170 TVMVVGVPNVGKSSIINALRSSHMKKGKAVPVGPKAGVTRSVMSQVKISEKPLIYILDTPGISLP 234 (352)
Q Consensus 170 ~v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~~~pg~T~~~~~~~~~~~~~~~~l~DtPGi~~~ 234 (352)
+|+++|.||+|||||+|+|++ ....+++.|++|.++..+.....+..+.++||||+...
T Consensus 2 ~v~lvG~~~~GKStLl~~Ltg------~~~~v~~~~~tT~~~~~g~~~~~~~~i~l~DtpG~~~~ 60 (233)
T cd01896 2 RVALVGFPSVGKSTLLSKLTN------TKSEVAAYEFTTLTCVPGVLEYKGAKIQLLDLPGIIEG 60 (233)
T ss_pred EEEEECCCCCCHHHHHHHHHC------CCccccCCCCccccceEEEEEECCeEEEEEECCCcccc
Confidence 589999999999999999996 33567889999988765544455667999999998764
No 79
>PRK04213 GTP-binding protein; Provisional
Probab=98.92 E-value=5.7e-09 Score=91.28 Aligned_cols=57 Identities=33% Similarity=0.532 Sum_probs=45.2
Q ss_pred cceEEEEeCCCCCChHHHHHHHhCCCCCCCCceecCCCCCceeEeeeeEEecCCCcEEEEeCCCCCC
Q psy15351 167 YNTTVMVVGVPNVGKSSIINALRSSHMKKGKAVPVGPKAGVTRSVMSQVKISEKPLIYILDTPGISL 233 (352)
Q Consensus 167 ~~~~v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~~~pg~T~~~~~~~~~~~~~~~~l~DtPGi~~ 233 (352)
..++|+++|.+|||||||+|+|.+ ....++..||+|+.... +... .+.++||||+..
T Consensus 8 ~~~~i~i~G~~~~GKSsLin~l~~------~~~~~~~~~~~t~~~~~-~~~~---~~~l~Dt~G~~~ 64 (201)
T PRK04213 8 RKPEIVFVGRSNVGKSTLVRELTG------KKVRVGKRPGVTRKPNH-YDWG---DFILTDLPGFGF 64 (201)
T ss_pred CCCEEEEECCCCCCHHHHHHHHhC------CCCccCCCCceeeCceE-Eeec---ceEEEeCCcccc
Confidence 457899999999999999999986 23567788999987643 2221 589999999854
No 80
>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=98.91 E-value=2.5e-09 Score=90.42 Aligned_cols=58 Identities=33% Similarity=0.417 Sum_probs=44.0
Q ss_pred EEEEeCCCCCChHHHHHHHhCCCCCCCCceecCCCCCceeEeeeeEEecCCCcEEEEeCCCCCC
Q psy15351 170 TVMVVGVPNVGKSSIINALRSSHMKKGKAVPVGPKAGVTRSVMSQVKISEKPLIYILDTPGISL 233 (352)
Q Consensus 170 ~v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~~~pg~T~~~~~~~~~~~~~~~~l~DtPGi~~ 233 (352)
+|+++|.||||||||+|+|.+. ...+++.|++|+..........+..+.++||||+..
T Consensus 2 ~i~~~G~~~~GKssli~~l~~~------~~~~~~~~~~t~~~~~~~~~~~~~~~~i~Dt~G~~~ 59 (168)
T cd01897 2 TLVIAGYPNVGKSSLVNKLTRA------KPEVAPYPFTTKSLFVGHFDYKYLRWQVIDTPGLLD 59 (168)
T ss_pred eEEEEcCCCCCHHHHHHHHhcC------CCccCCCCCcccceeEEEEccCceEEEEEECCCcCC
Confidence 6899999999999999999962 234566788888765433222345799999999864
No 81
>TIGR00993 3a0901s04IAP86 chloroplast protein import component Toc86/159, G and M domains. The long precursor of the 86K protein originally described is proposed to have three domains. The N-terminal A-domain is acidic, repetitive, weakly conserved, readily removed by proteolysis during chloroplast isolation, and not required for protein translocation. The other domains are designated G (GTPase) and M (membrane anchor); this family includes most of the G domain and all of M.
Probab=98.91 E-value=1.6e-08 Score=100.62 Aligned_cols=64 Identities=23% Similarity=0.365 Sum_probs=48.5
Q ss_pred cceEEEEeCCCCCChHHHHHHHhCCCCCCCCceecCCC-CCceeEeeeeEEecCCCcEEEEeCCCCCCCCC
Q psy15351 167 YNTTVMVVGVPNVGKSSIINALRSSHMKKGKAVPVGPK-AGVTRSVMSQVKISEKPLIYILDTPGISLPRI 236 (352)
Q Consensus 167 ~~~~v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~~~-pg~T~~~~~~~~~~~~~~~~l~DtPGi~~~~~ 236 (352)
..++|+++|.|||||||++|+|++ +....++.. ++||+. +.......+..+.++||||+.+...
T Consensus 117 fslrIvLVGKTGVGKSSLINSILG-----ekvf~vss~~~~TTr~-~ei~~~idG~~L~VIDTPGL~dt~~ 181 (763)
T TIGR00993 117 FSLNILVLGKSGVGKSATINSIFG-----EVKFSTDAFGMGTTSV-QEIEGLVQGVKIRVIDTPGLKSSAS 181 (763)
T ss_pred cceEEEEECCCCCCHHHHHHHHhc-----cccccccCCCCCceEE-EEEEEEECCceEEEEECCCCCcccc
Confidence 457899999999999999999997 444555554 666664 4433444567899999999998643
No 82
>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=98.90 E-value=3.8e-09 Score=87.82 Aligned_cols=62 Identities=37% Similarity=0.482 Sum_probs=49.4
Q ss_pred ceEEEEeCCCCCChHHHHHHHhCCCCCCCCceecCCCCCceeEeeeeEEecCCCcEEEEeCCCCCCC
Q psy15351 168 NTTVMVVGVPNVGKSSIINALRSSHMKKGKAVPVGPKAGVTRSVMSQVKISEKPLIYILDTPGISLP 234 (352)
Q Consensus 168 ~~~v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~~~pg~T~~~~~~~~~~~~~~~~l~DtPGi~~~ 234 (352)
+++|+++|.+|+|||||+|++.+ ...+.+++.|++|.+.........+..+.++||||+...
T Consensus 1 ~~~i~l~G~~~~GKstli~~l~~-----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~DtpG~~~~ 62 (157)
T cd04164 1 GIKVVIVGKPNVGKSSLLNALAG-----RDRAIVSDIAGTTRDVIEESIDIGGIPVRLIDTAGIRET 62 (157)
T ss_pred CcEEEEECCCCCCHHHHHHHHHC-----CceEeccCCCCCccceEEEEEEeCCEEEEEEECCCcCCC
Confidence 36799999999999999999997 455667889999988764333334557899999999765
No 83
>COG0486 ThdF Predicted GTPase [General function prediction only]
Probab=98.89 E-value=6.9e-09 Score=98.99 Aligned_cols=93 Identities=19% Similarity=0.380 Sum_probs=75.1
Q ss_pred hHHHHHHHHhhccCEEEEEEcCCCCCCCcCHHHHHHHhCCCCEEEEEEcccCCCccchHHHHHHHHhhcCCCCcEEEeec
Q psy15351 3 RGLKDIEKHLKNVDIVIEVHDSRMPFTGRNHLLQQSVQNIRPMVLVLNKRDLINSKHESLIEEKVRKEQSHISEVIFTNC 82 (352)
Q Consensus 3 ~~~~~~~~~i~~aD~vl~VvDar~p~~~~~~~l~~~l~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~v~~iSa 82 (352)
-|++++++.+++||+||+|+|++.|+...+..+.+.+..++|+++|+||+||.++...... .+ ..+. +++.+||
T Consensus 285 iGIeRs~~~i~~ADlvL~v~D~~~~~~~~d~~~~~~~~~~~~~i~v~NK~DL~~~~~~~~~--~~-~~~~---~~i~iSa 358 (454)
T COG0486 285 IGIERAKKAIEEADLVLFVLDASQPLDKEDLALIELLPKKKPIIVVLNKADLVSKIELESE--KL-ANGD---AIISISA 358 (454)
T ss_pred HHHHHHHHHHHhCCEEEEEEeCCCCCchhhHHHHHhcccCCCEEEEEechhcccccccchh--hc-cCCC---ceEEEEe
Confidence 5899999999999999999999998888787777744468999999999999987642222 11 1122 3899999
Q ss_pred CCCCCCCHHHHHHHHHHHhhh
Q psy15351 83 RNPNCKGVQKILPTLQHISDN 103 (352)
Q Consensus 83 ~~~~~~gi~~L~~~i~~~~~~ 103 (352)
+++ +|++.|.+.|.+.+..
T Consensus 359 ~t~--~Gl~~L~~~i~~~~~~ 377 (454)
T COG0486 359 KTG--EGLDALREAIKQLFGK 377 (454)
T ss_pred cCc--cCHHHHHHHHHHHHhh
Confidence 999 9999999999987764
No 84
>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=98.88 E-value=2.2e-08 Score=83.29 Aligned_cols=88 Identities=20% Similarity=0.340 Sum_probs=67.9
Q ss_pred HHHHHHhhccCEEEEEEcCCCCCCCcCHHHHHHHh-CCCCEEEEEEcccCCCccchHHHHHHHHhhcCCCCcEEEeecCC
Q psy15351 6 KDIEKHLKNVDIVIEVHDSRMPFTGRNHLLQQSVQ-NIRPMVLVLNKRDLINSKHESLIEEKVRKEQSHISEVIFTNCRN 84 (352)
Q Consensus 6 ~~~~~~i~~aD~vl~VvDar~p~~~~~~~l~~~l~-~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~v~~iSa~~ 84 (352)
+++...+..+|++++|+|++.+....+..+.++++ .+.|+++|+||+|+.+.... .+.+.+.+.. +++.+|+++
T Consensus 68 ~~~~~~~~~~d~ii~v~d~~~~~~~~~~~~~~~~~~~~~piiiv~nK~D~~~~~~~---~~~~~~~~~~--~~~~~Sa~~ 142 (157)
T cd01894 68 EQAELAIEEADVILFVVDGREGLTPADEEIAKYLRKSKKPVILVVNKVDNIKEEDE---AAEFYSLGFG--EPIPISAEH 142 (157)
T ss_pred HHHHHHHHhCCEEEEEEeccccCCccHHHHHHHHHhcCCCEEEEEECcccCChHHH---HHHHHhcCCC--CeEEEeccc
Confidence 34566789999999999999887777766666665 57999999999999876533 2233334442 589999999
Q ss_pred CCCCCHHHHHHHHHHH
Q psy15351 85 PNCKGVQKILPTLQHI 100 (352)
Q Consensus 85 ~~~~gi~~L~~~i~~~ 100 (352)
+ .|++++++++.+.
T Consensus 143 ~--~gv~~l~~~l~~~ 156 (157)
T cd01894 143 G--RGIGDLLDAILEL 156 (157)
T ss_pred C--CCHHHHHHHHHhh
Confidence 9 9999999988653
No 85
>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=98.87 E-value=3.2e-09 Score=88.35 Aligned_cols=58 Identities=33% Similarity=0.414 Sum_probs=45.1
Q ss_pred EEeCCCCCChHHHHHHHhCCCCCCCCceecCCCCCceeEeeeeEEecCCCcEEEEeCCCCCCC
Q psy15351 172 MVVGVPNVGKSSIINALRSSHMKKGKAVPVGPKAGVTRSVMSQVKISEKPLIYILDTPGISLP 234 (352)
Q Consensus 172 ~i~G~pnvGKStliN~l~~~~~~~~~~~~~~~~pg~T~~~~~~~~~~~~~~~~l~DtPGi~~~ 234 (352)
+++|.+|||||||+|+|.+ .....++..|++|++.........+..+.++||||+...
T Consensus 1 ~l~G~~~~GKssl~~~l~~-----~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~DtpG~~~~ 58 (157)
T cd01894 1 AIVGRPNVGKSTLFNRLTG-----RRDAIVEDTPGVTRDRIYGEAEWGGREFILIDTGGIEPD 58 (157)
T ss_pred CccCCCCCCHHHHHHHHhC-----CcEEeecCCCCceeCceeEEEEECCeEEEEEECCCCCCc
Confidence 4789999999999999996 344567788999987654333334557899999999864
No 86
>COG5019 CDC3 Septin family protein [Cell division and chromosome partitioning / Cytoskeleton]
Probab=98.86 E-value=7.7e-09 Score=95.72 Aligned_cols=168 Identities=17% Similarity=0.141 Sum_probs=89.9
Q ss_pred CcceEEEEeCCCCCChHHHHHHHhCCCCCCCCceecCC-----CCCceeEeeeeEEecCCC---cEEEEeCCCCCCCCCC
Q psy15351 166 VYNTTVMVVGVPNVGKSSIINALRSSHMKKGKAVPVGP-----KAGVTRSVMSQVKISEKP---LIYILDTPGISLPRID 237 (352)
Q Consensus 166 ~~~~~v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~~-----~pg~T~~~~~~~~~~~~~---~~~l~DtPGi~~~~~~ 237 (352)
+-.++|+++|..|.||||+||+|++.++.... ..... .|++..... ...+..+. ++.++||||+++.-..
T Consensus 21 Gi~f~im~~G~sG~GKttfiNtL~~~~l~~~~-~~~~~~~~~~~~~~~i~~~-~~~l~e~~~~~~l~vIDtpGfGD~idN 98 (373)
T COG5019 21 GIDFTIMVVGESGLGKTTFINTLFGTSLVDET-EIDDIRAEGTSPTLEIKIT-KAELEEDGFHLNLTVIDTPGFGDFIDN 98 (373)
T ss_pred CCceEEEEecCCCCchhHHHHhhhHhhccCCC-CccCcccccCCcceEEEee-eeeeecCCeEEEEEEeccCCccccccc
Confidence 56799999999999999999999986443221 11111 122222221 22222222 5889999999986322
Q ss_pred CH--HHH-------H--HHHHHhhhhhhccchhhhhHhHHhhhcCCCCCcccccccCCCCCccHHHHHHHHHHHhccccc
Q psy15351 238 NL--ECG-------M--RLAACATLQDHLVGEINIADYILFYLNRTGNYRYVDFFNLDEPSDDIVMLLAKAAIKKKWFKR 306 (352)
Q Consensus 238 ~~--~~~-------~--~l~~~~~i~~~~~~~~~~~~~il~~~~~~~~~~~~~~~~l~~~~~~~~~~l~~~a~~~g~~~~ 306 (352)
+. +.. . .+.--..+.++..-.+.-++++|+.+..... ++.+..-....-|...+.-..-+.|
T Consensus 99 s~~we~I~~yI~~q~d~yl~~E~~~~R~~~~~D~RVH~cLYFI~Ptgh-------~l~~~DIe~Mk~ls~~vNlIPVI~K 171 (373)
T COG5019 99 SKCWEPIVDYIDDQFDQYLDEEQKIKRNPKFKDTRVHACLYFIRPTGH-------GLKPLDIEAMKRLSKRVNLIPVIAK 171 (373)
T ss_pred cccHHHHHHHHHHHHHHHHHHhhccccccccccCceEEEEEEecCCCC-------CCCHHHHHHHHHHhcccCeeeeeec
Confidence 11 000 0 0111111222211112234555555554432 3332221223333344443444566
Q ss_pred cccccCCcccCCCCHHHHHHHHHHHHhCCCCccee-cCccccc
Q psy15351 307 AFDVSSNSVRMFPDTGEVARIFIEHFRKGSFGSVM-LDRDFLE 348 (352)
Q Consensus 307 ~~~~~~g~~~~~~d~~~a~~~~l~~~~~g~l~~~~-~~~~~~~ 348 (352)
.+.+| ..++....+.+.+++....+..|. +|++..+
T Consensus 172 aD~lT------~~El~~~K~~I~~~i~~~nI~vf~pyd~e~~~ 208 (373)
T COG5019 172 ADTLT------DDELAEFKERIREDLEQYNIPVFDPYDPEDDE 208 (373)
T ss_pred cccCC------HHHHHHHHHHHHHHHHHhCCceeCCCCccccc
Confidence 66666 236788889999999999999985 6666553
No 87
>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=98.86 E-value=2.8e-09 Score=89.02 Aligned_cols=57 Identities=35% Similarity=0.374 Sum_probs=44.4
Q ss_pred EeCCCCCChHHHHHHHhCCCCCCCCceecCCCCCceeEeeeeEEecCCCcEEEEeCCCCCCCC
Q psy15351 173 VVGVPNVGKSSIINALRSSHMKKGKAVPVGPKAGVTRSVMSQVKISEKPLIYILDTPGISLPR 235 (352)
Q Consensus 173 i~G~pnvGKStliN~l~~~~~~~~~~~~~~~~pg~T~~~~~~~~~~~~~~~~l~DtPGi~~~~ 235 (352)
++|.+|||||||+|++++ ....++..||+|++.........+..+.++||||+....
T Consensus 1 l~G~~~~GKssl~~~~~~------~~~~~~~~~~~t~~~~~~~~~~~~~~~~liDtpG~~~~~ 57 (158)
T cd01879 1 LVGNPNVGKTTLFNALTG------ARQKVGNWPGVTVEKKEGRFKLGGKEIEIVDLPGTYSLS 57 (158)
T ss_pred CCCCCCCCHHHHHHHHhc------CcccccCCCCcccccceEEEeeCCeEEEEEECCCccccC
Confidence 579999999999999986 235778889999987653333344579999999997643
No 88
>COG2262 HflX GTPases [General function prediction only]
Probab=98.85 E-value=3.8e-09 Score=99.03 Aligned_cols=67 Identities=25% Similarity=0.308 Sum_probs=55.0
Q ss_pred ccccCcceEEEEeCCCCCChHHHHHHHhCCCCCCCCceecCCCCCceeEeee-eEEecCCCcEEEEeCCCCCCC
Q psy15351 162 HRTEVYNTTVMVVGVPNVGKSSIINALRSSHMKKGKAVPVGPKAGVTRSVMS-QVKISEKPLIYILDTPGISLP 234 (352)
Q Consensus 162 ~~~~~~~~~v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~~~pg~T~~~~~-~~~~~~~~~~~l~DtPGi~~~ 234 (352)
.+....-+.|+++||+|+|||||+|+|++ ....+.+..+.|-++.. ...+.++..+.|.||-||+..
T Consensus 186 ~R~~~~~p~vaLvGYTNAGKSTL~N~LT~------~~~~~~d~LFATLdpttR~~~l~~g~~vlLtDTVGFI~~ 253 (411)
T COG2262 186 KRSRSGIPLVALVGYTNAGKSTLFNALTG------ADVYVADQLFATLDPTTRRIELGDGRKVLLTDTVGFIRD 253 (411)
T ss_pred hhcccCCCeEEEEeeccccHHHHHHHHhc------cCeeccccccccccCceeEEEeCCCceEEEecCccCccc
Confidence 34445678999999999999999999995 56677888998888765 345555678999999999975
No 89
>PRK15467 ethanolamine utilization protein EutP; Provisional
Probab=98.84 E-value=3.8e-08 Score=82.89 Aligned_cols=95 Identities=17% Similarity=0.229 Sum_probs=69.6
Q ss_pred HHHHHHHHhhccCEEEEEEcCCCCCCCcCHHHHHHHhCCCCEEEEEEcccCCCccchHHHHHHHHhhcCCCCcEEEeecC
Q psy15351 4 GLKDIEKHLKNVDIVIEVHDSRMPFTGRNHLLQQSVQNIRPMVLVLNKRDLINSKHESLIEEKVRKEQSHISEVIFTNCR 83 (352)
Q Consensus 4 ~~~~~~~~i~~aD~vl~VvDar~p~~~~~~~l~~~l~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~v~~iSa~ 83 (352)
..+.+...+..+|++++|+|+..+.+.....+..+. .++|+++++||+|+.+. ....+.+++.+.+.. .+++++||+
T Consensus 54 ~~~~~~~~~~~ad~il~v~d~~~~~s~~~~~~~~~~-~~~~ii~v~nK~Dl~~~-~~~~~~~~~~~~~~~-~p~~~~Sa~ 130 (158)
T PRK15467 54 WYHALITTLQDVDMLIYVHGANDPESRLPAGLLDIG-VSKRQIAVISKTDMPDA-DVAATRKLLLETGFE-EPIFELNSH 130 (158)
T ss_pred HHHHHHHHHhcCCEEEEEEeCCCcccccCHHHHhcc-CCCCeEEEEEccccCcc-cHHHHHHHHHHcCCC-CCEEEEECC
Confidence 344556678999999999999977655444444332 46899999999998653 334455555555531 259999999
Q ss_pred CCCCCCHHHHHHHHHHHhhh
Q psy15351 84 NPNCKGVQKILPTLQHISDN 103 (352)
Q Consensus 84 ~~~~~gi~~L~~~i~~~~~~ 103 (352)
++ +|+++|++.+.+.+..
T Consensus 131 ~g--~gi~~l~~~l~~~~~~ 148 (158)
T PRK15467 131 DP--QSVQQLVDYLASLTKQ 148 (158)
T ss_pred Cc--cCHHHHHHHHHHhchh
Confidence 99 9999999999877654
No 90
>PRK09554 feoB ferrous iron transport protein B; Reviewed
Probab=98.84 E-value=6e-09 Score=107.95 Aligned_cols=61 Identities=28% Similarity=0.361 Sum_probs=51.1
Q ss_pred ceEEEEeCCCCCChHHHHHHHhCCCCCCCCceecCCCCCceeEeeeeEEecCCCcEEEEeCCCCCCC
Q psy15351 168 NTTVMVVGVPNVGKSSIINALRSSHMKKGKAVPVGPKAGVTRSVMSQVKISEKPLIYILDTPGISLP 234 (352)
Q Consensus 168 ~~~v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~~~pg~T~~~~~~~~~~~~~~~~l~DtPGi~~~ 234 (352)
.++|+++|.||||||||+|+|++ ....+++.||+|.+.........+..+.++||||+.+.
T Consensus 3 ~~~IaLvG~pNvGKSTLfN~Ltg------~~~~vgn~pGvTve~k~g~~~~~~~~i~lvDtPG~ysl 63 (772)
T PRK09554 3 KLTIGLIGNPNSGKTTLFNQLTG------ARQRVGNWAGVTVERKEGQFSTTDHQVTLVDLPGTYSL 63 (772)
T ss_pred ceEEEEECCCCCCHHHHHHHHhC------CCCccCCCCCceEeeEEEEEEcCceEEEEEECCCcccc
Confidence 36899999999999999999996 33478999999998766555555667999999999875
No 91
>KOG2655|consensus
Probab=98.84 E-value=5.8e-09 Score=97.20 Aligned_cols=166 Identities=18% Similarity=0.242 Sum_probs=92.1
Q ss_pred cCcceEEEEeCCCCCChHHHHHHHhCCCCCCCC-ceecCCCCCceeEeee-eEEecCC-C--cEEEEeCCCCCCCCCCCH
Q psy15351 165 EVYNTTVMVVGVPNVGKSSIINALRSSHMKKGK-AVPVGPKAGVTRSVMS-QVKISEK-P--LIYILDTPGISLPRIDNL 239 (352)
Q Consensus 165 ~~~~~~v~i~G~pnvGKStliN~l~~~~~~~~~-~~~~~~~pg~T~~~~~-~~~~~~~-~--~~~l~DtPGi~~~~~~~~ 239 (352)
.+-.++++++|..|.|||||||+|+...+.... .......|-.|..... .+.+..+ - +++++||||+++.-..+.
T Consensus 18 kG~~ftlmvvG~sGlGKsTfiNsLf~~~l~~~~~~~~~~~~~~~t~~i~~~~~~iee~g~~l~LtvidtPGfGD~vdns~ 97 (366)
T KOG2655|consen 18 KGFDFTLMVVGESGLGKSTFINSLFLTDLSGNREVPGASERIKETVEIESTKVEIEENGVKLNLTVIDTPGFGDAVDNSN 97 (366)
T ss_pred cCCceEEEEecCCCccHHHHHHHHHhhhccCCcccCCcccCccccceeeeeeeeecCCCeEEeeEEeccCCCcccccccc
Confidence 356799999999999999999999975332211 1111112222332221 2222222 1 578999999998532211
Q ss_pred ---------HHHHHHHHH--hhhhhhccchhhhhHhHHhhhcCCCCCcccccccCCCCCccHHHHHHHHHHH---hcccc
Q psy15351 240 ---------ECGMRLAAC--ATLQDHLVGEINIADYILFYLNRTGNYRYVDFFNLDEPSDDIVMLLAKAAIK---KKWFK 305 (352)
Q Consensus 240 ---------~~~~~l~~~--~~i~~~~~~~~~~~~~il~~~~~~~~~~~~~~~~l~~~~~~~~~~l~~~a~~---~g~~~ 305 (352)
+......++ ..+.+..+ .+..++++||.|..+.+ ++.+.. -+++..++.+ .+.+.
T Consensus 98 ~w~pi~~yi~~q~~~yl~~E~~~~R~~~-~D~RVH~cLYFI~P~gh-------gL~p~D---i~~Mk~l~~~vNiIPVI~ 166 (366)
T KOG2655|consen 98 CWRPIVNYIDSQFDQYLDEESRLNRSKI-KDNRVHCCLYFISPTGH-------GLKPLD---IEFMKKLSKKVNLIPVIA 166 (366)
T ss_pred cchhhhHHHHHHHHHHHhhhccCCcccc-cCCceEEEEEEeCCCCC-------CCcHhh---HHHHHHHhccccccceee
Confidence 111111111 11222111 12235566666666554 343322 2344444433 33455
Q ss_pred ccccccCCcccCCCCHHHHHHHHHHHHhCCCCcceecCcccc
Q psy15351 306 RAFDVSSNSVRMFPDTGEVARIFIEHFRKGSFGSVMLDRDFL 347 (352)
Q Consensus 306 ~~~~~~~g~~~~~~d~~~a~~~~l~~~~~g~l~~~~~~~~~~ 347 (352)
|.+++| ..++....+.+++++....+..|.+|.+..
T Consensus 167 KaD~lT------~~El~~~K~~I~~~i~~~nI~vf~fp~~~~ 202 (366)
T KOG2655|consen 167 KADTLT------KDELNQFKKRIRQDIEEHNIKVFDFPTDES 202 (366)
T ss_pred ccccCC------HHHHHHHHHHHHHHHHHcCcceecCCCCcc
Confidence 666665 236788889999999999999998877643
No 92
>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=98.84 E-value=7.6e-09 Score=87.37 Aligned_cols=62 Identities=34% Similarity=0.436 Sum_probs=49.3
Q ss_pred ceEEEEeCCCCCChHHHHHHHhCCCCCCCCceecCCCCCceeEeeeeEEecCCCcEEEEeCCCCCCC
Q psy15351 168 NTTVMVVGVPNVGKSSIINALRSSHMKKGKAVPVGPKAGVTRSVMSQVKISEKPLIYILDTPGISLP 234 (352)
Q Consensus 168 ~~~v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~~~pg~T~~~~~~~~~~~~~~~~l~DtPGi~~~ 234 (352)
.++|+++|.+|+|||||+|+|.+ ......++.|++|+..........+..+.++||||+...
T Consensus 2 ~~~i~i~G~~~~GKstli~~l~~-----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiDtpG~~~~ 63 (174)
T cd01895 2 PIRIAIIGRPNVGKSSLVNALLG-----EERVIVSDIAGTTRDSIDVPFEYDGKKYTLIDTAGIRRK 63 (174)
T ss_pred CcEEEEEcCCCCCHHHHHHHHhC-----ccceeccCCCCCccCceeeEEEECCeeEEEEECCCCccc
Confidence 47899999999999999999997 344566778999888754444445567899999999865
No 93
>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=98.83 E-value=1.2e-08 Score=85.39 Aligned_cols=63 Identities=40% Similarity=0.611 Sum_probs=49.2
Q ss_pred ceEEEEeCCCCCChHHHHHHHhCCCCCCCCceecCCCCCceeEeeeeEEecCCCcEEEEeCCCCCCCC
Q psy15351 168 NTTVMVVGVPNVGKSSIINALRSSHMKKGKAVPVGPKAGVTRSVMSQVKISEKPLIYILDTPGISLPR 235 (352)
Q Consensus 168 ~~~v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~~~pg~T~~~~~~~~~~~~~~~~l~DtPGi~~~~ 235 (352)
..+|+++|.||+|||||+|++.+ ...+.+++.+++|+..........+..+.++||||+..+.
T Consensus 3 ~~~i~~~G~~g~GKttl~~~l~~-----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~~~~~ 65 (168)
T cd04163 3 SGFVAIVGRPNVGKSTLLNALVG-----QKISIVSPKPQTTRNRIRGIYTDDDAQIIFVDTPGIHKPK 65 (168)
T ss_pred eeEEEEECCCCCCHHHHHHHHhC-----CceEeccCCCCceeceEEEEEEcCCeEEEEEECCCCCcch
Confidence 36799999999999999999997 4556677778888876554444444568999999998653
No 94
>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=98.83 E-value=1.4e-08 Score=87.29 Aligned_cols=63 Identities=27% Similarity=0.374 Sum_probs=49.0
Q ss_pred CcceEEEEeCCCCCChHHHHHHHhCCCCCCCCceecCCCCCceeEeeeeEEecCCCcEEEEeCCCCCCCC
Q psy15351 166 VYNTTVMVVGVPNVGKSSIINALRSSHMKKGKAVPVGPKAGVTRSVMSQVKISEKPLIYILDTPGISLPR 235 (352)
Q Consensus 166 ~~~~~v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~~~pg~T~~~~~~~~~~~~~~~~l~DtPGi~~~~ 235 (352)
...++|+++|.+|+|||||+|+|++. .....+++.+|+|++... +... .++.++||||+....
T Consensus 16 ~~~~~i~ivG~~~~GKStlin~l~~~----~~~~~~~~~~~~t~~~~~-~~~~--~~~~liDtpG~~~~~ 78 (179)
T TIGR03598 16 DDGPEIAFAGRSNVGKSSLINALTNR----KKLARTSKTPGRTQLINF-FEVN--DGFRLVDLPGYGYAK 78 (179)
T ss_pred CCCCEEEEEcCCCCCHHHHHHHHhCC----CCcccccCCCCcceEEEE-EEeC--CcEEEEeCCCCcccc
Confidence 35689999999999999999999972 125677889999988653 3322 369999999987653
No 95
>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=98.82 E-value=5e-08 Score=85.68 Aligned_cols=99 Identities=11% Similarity=0.112 Sum_probs=65.9
Q ss_pred HHHHHHHHhhccCEEEEEEcCCCCC-CCcCHHHHHHHh--CCCCEEEEEEcccCCCccchHHHHHH----HHhhcCCCCc
Q psy15351 4 GLKDIEKHLKNVDIVIEVHDSRMPF-TGRNHLLQQSVQ--NIRPMVLVLNKRDLINSKHESLIEEK----VRKEQSHISE 76 (352)
Q Consensus 4 ~~~~~~~~i~~aD~vl~VvDar~p~-~~~~~~l~~~l~--~~k~~ilVlNK~Dl~~~~~~~~~~~~----~~~~~~~~~~ 76 (352)
..+.+...+..+|++++|+|++.+. ..........+. ..+|+++|+||+|+.++.......+. +........+
T Consensus 96 ~~~~~~~~~~~~D~~llVvd~~~~~~~~~t~~~l~~~~~~~~~~iiivvNK~Dl~~~~~~~~~~~~i~~~~~~~~~~~~~ 175 (203)
T cd01888 96 LMATMLSGAAVMDGALLLIAANEPCPQPQTSEHLAALEIMGLKHIIIVQNKIDLVKEEQALENYEQIKKFVKGTIAENAP 175 (203)
T ss_pred HHHHHHHhhhcCCEEEEEEECCCCCCCcchHHHHHHHHHcCCCcEEEEEEchhccCHHHHHHHHHHHHHHHhccccCCCc
Confidence 3556777888999999999999752 222222222222 33578999999999875433222222 2221111125
Q ss_pred EEEeecCCCCCCCHHHHHHHHHHHhhhc
Q psy15351 77 VIFTNCRNPNCKGVQKILPTLQHISDNM 104 (352)
Q Consensus 77 v~~iSa~~~~~~gi~~L~~~i~~~~~~~ 104 (352)
++++||+++ +|+++|++++.+.+++.
T Consensus 176 i~~vSA~~g--~gi~~L~~~l~~~l~~~ 201 (203)
T cd01888 176 IIPISAQLK--YNIDVLLEYIVKKIPTP 201 (203)
T ss_pred EEEEeCCCC--CCHHHHHHHHHHhCCCC
Confidence 899999999 99999999998877654
No 96
>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=98.80 E-value=8.8e-09 Score=90.32 Aligned_cols=63 Identities=25% Similarity=0.271 Sum_probs=45.6
Q ss_pred CcceEEEEeCCCCCChHHHHHHHhCCCCCCCCceecCCCCCceeEeeeeE-EecCCCcEEEEeCCCCCCC
Q psy15351 166 VYNTTVMVVGVPNVGKSSIINALRSSHMKKGKAVPVGPKAGVTRSVMSQV-KISEKPLIYILDTPGISLP 234 (352)
Q Consensus 166 ~~~~~v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~~~pg~T~~~~~~~-~~~~~~~~~l~DtPGi~~~ 234 (352)
+..++|+++|.+|||||||+|++.+. ...+.+.+++|....... ...+...+.++||||+...
T Consensus 39 ~~~~~I~iiG~~g~GKStLl~~l~~~------~~~~~~~~~~t~~~~~~~~~~~~~~~~~i~Dt~G~~~~ 102 (204)
T cd01878 39 SGIPTVALVGYTNAGKSTLFNALTGA------DVYAEDQLFATLDPTTRRLRLPDGREVLLTDTVGFIRD 102 (204)
T ss_pred cCCCeEEEECCCCCCHHHHHHHHhcc------hhccCCccceeccceeEEEEecCCceEEEeCCCccccC
Confidence 45589999999999999999999962 234455667776655432 2223337999999999754
No 97
>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=98.80 E-value=5.9e-08 Score=79.77 Aligned_cols=85 Identities=12% Similarity=0.193 Sum_probs=61.6
Q ss_pred HHHHhhccCEEEEEEcCCCCCCCcCHHHHHHHhCCCCEEEEEEcccCCCccc-hHHHHHHHHhhcCCCCcEEEeecCCCC
Q psy15351 8 IEKHLKNVDIVIEVHDSRMPFTGRNHLLQQSVQNIRPMVLVLNKRDLINSKH-ESLIEEKVRKEQSHISEVIFTNCRNPN 86 (352)
Q Consensus 8 ~~~~i~~aD~vl~VvDar~p~~~~~~~l~~~l~~~k~~ilVlNK~Dl~~~~~-~~~~~~~~~~~~~~~~~v~~iSa~~~~ 86 (352)
+...+.++|++++|+|+.++.+..+..+.+.+ .+|+++|+||+|+.+... .+...+++++.+.. +++.+||+++
T Consensus 56 ~~~~~~~ad~vilv~d~~~~~s~~~~~~~~~~--~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~--~~~~~Sa~~~- 130 (142)
T TIGR02528 56 LIVTAADADVIALVQSATDPESRFPPGFASIF--VKPVIGLVTKIDLAEADVDIERAKELLETAGAE--PIFEISSVDE- 130 (142)
T ss_pred HHHHhhcCCEEEEEecCCCCCcCCChhHHHhc--cCCeEEEEEeeccCCcccCHHHHHHHHHHcCCC--cEEEEecCCC-
Confidence 33457899999999999988876665544433 469999999999976432 22333444444442 4889999999
Q ss_pred CCCHHHHHHHHH
Q psy15351 87 CKGVQKILPTLQ 98 (352)
Q Consensus 87 ~~gi~~L~~~i~ 98 (352)
.|++++++++.
T Consensus 131 -~gi~~l~~~l~ 141 (142)
T TIGR02528 131 -QGLEALVDYLN 141 (142)
T ss_pred -CCHHHHHHHHh
Confidence 99999988763
No 98
>PRK15494 era GTPase Era; Provisional
Probab=98.80 E-value=3.3e-08 Score=93.63 Aligned_cols=97 Identities=15% Similarity=0.135 Sum_probs=72.5
Q ss_pred HHHHHHHhhccCEEEEEEcCCCCCCCcCHHHHHHHh-CCCCEEEEEEcccCCCccchHHHHHHHHhhcCCCCcEEEeecC
Q psy15351 5 LKDIEKHLKNVDIVIEVHDSRMPFTGRNHLLQQSVQ-NIRPMVLVLNKRDLINSKHESLIEEKVRKEQSHISEVIFTNCR 83 (352)
Q Consensus 5 ~~~~~~~i~~aD~vl~VvDar~p~~~~~~~l~~~l~-~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~v~~iSa~ 83 (352)
.+.++..+..||++++|+|++.++...+..+.+.++ .+.|.++|+||+|+.+. ...+..+++.+.+ .+.+++++||+
T Consensus 122 ~r~~~~~l~~aDvil~VvD~~~s~~~~~~~il~~l~~~~~p~IlViNKiDl~~~-~~~~~~~~l~~~~-~~~~i~~iSAk 199 (339)
T PRK15494 122 VRCAWSSLHSADLVLLIIDSLKSFDDITHNILDKLRSLNIVPIFLLNKIDIESK-YLNDIKAFLTENH-PDSLLFPISAL 199 (339)
T ss_pred HHHHHHHhhhCCEEEEEEECCCCCCHHHHHHHHHHHhcCCCEEEEEEhhcCccc-cHHHHHHHHHhcC-CCcEEEEEecc
Confidence 345667789999999999998876655545555544 46788999999999754 3344555554332 12358999999
Q ss_pred CCCCCCHHHHHHHHHHHhhhcc
Q psy15351 84 NPNCKGVQKILPTLQHISDNMT 105 (352)
Q Consensus 84 ~~~~~gi~~L~~~i~~~~~~~~ 105 (352)
++ .|+++++++|.+.+++++
T Consensus 200 tg--~gv~eL~~~L~~~l~~~~ 219 (339)
T PRK15494 200 SG--KNIDGLLEYITSKAKISP 219 (339)
T ss_pred Cc--cCHHHHHHHHHHhCCCCC
Confidence 99 999999999999988765
No 99
>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=98.79 E-value=7.2e-08 Score=82.39 Aligned_cols=95 Identities=15% Similarity=0.200 Sum_probs=64.1
Q ss_pred HHHHHHHhhccCEEEEEEcCCCCCCCcCHHH-HHHHhCCCCEEEEEEcccCCCccchHHHHHHHHh-hcCCCCcEEEeec
Q psy15351 5 LKDIEKHLKNVDIVIEVHDSRMPFTGRNHLL-QQSVQNIRPMVLVLNKRDLINSKHESLIEEKVRK-EQSHISEVIFTNC 82 (352)
Q Consensus 5 ~~~~~~~i~~aD~vl~VvDar~p~~~~~~~l-~~~l~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~-~~~~~~~v~~iSa 82 (352)
...+...+..+|++|+|+|++++....+... ......++|+++|+||+|+.+... ....+.+.+ .+....+++.+||
T Consensus 81 ~~~~~~~~~~ad~~i~v~D~~~~~~~~~~~~~~~~~~~~~~iiiv~NK~Dl~~~~~-~~~~~~~~~~~~~~~~~~~~~Sa 159 (179)
T cd01890 81 SYEVSRSLAACEGALLLVDATQGVEAQTLANFYLALENNLEIIPVINKIDLPSADP-ERVKQQIEDVLGLDPSEAILVSA 159 (179)
T ss_pred HHHHHHHHHhcCeEEEEEECCCCccHhhHHHHHHHHHcCCCEEEEEECCCCCcCCH-HHHHHHHHHHhCCCcccEEEeec
Confidence 3455667889999999999988655433222 222225789999999999865332 112222222 2333234899999
Q ss_pred CCCCCCCHHHHHHHHHHHhh
Q psy15351 83 RNPNCKGVQKILPTLQHISD 102 (352)
Q Consensus 83 ~~~~~~gi~~L~~~i~~~~~ 102 (352)
+++ .|+++|++++.+.++
T Consensus 160 ~~g--~gi~~l~~~l~~~~~ 177 (179)
T cd01890 160 KTG--LGVEDLLEAIVERIP 177 (179)
T ss_pred cCC--CCHHHHHHHHHhhCC
Confidence 999 999999999876553
No 100
>COG2262 HflX GTPases [General function prediction only]
Probab=98.79 E-value=4.8e-08 Score=91.78 Aligned_cols=109 Identities=17% Similarity=0.342 Sum_probs=76.8
Q ss_pred hhHHHHHHHHhhccCEEEEEEcCCCCCCCcC-HHHHHHHh----CCCCEEEEEEcccCCCccchHHHHHHHHhhcCCCCc
Q psy15351 2 GRGLKDIEKHLKNVDIVIEVHDSRMPFTGRN-HLLQQSVQ----NIRPMVLVLNKRDLINSKHESLIEEKVRKEQSHISE 76 (352)
Q Consensus 2 ~~~~~~~~~~i~~aD~vl~VvDar~p~~~~~-~~l~~~l~----~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~ 76 (352)
..|++.+.+.+..||++++|+|+.+|..... ....+.+. ..+|+|+|+||+|+++... ....+... .+ +
T Consensus 259 V~AFksTLEE~~~aDlllhVVDaSdp~~~~~~~~v~~vL~el~~~~~p~i~v~NKiD~~~~~~---~~~~~~~~-~~--~ 332 (411)
T COG2262 259 VEAFKSTLEEVKEADLLLHVVDASDPEILEKLEAVEDVLAEIGADEIPIILVLNKIDLLEDEE---ILAELERG-SP--N 332 (411)
T ss_pred HHHHHHHHHHhhcCCEEEEEeecCChhHHHHHHHHHHHHHHcCCCCCCEEEEEecccccCchh---hhhhhhhc-CC--C
Confidence 4688999999999999999999999832211 11223333 4689999999999987664 22222221 12 4
Q ss_pred EEEeecCCCCCCCHHHHHHHHHHHhhhccccccccccceeEEEeccCCCC
Q psy15351 77 VIFTNCRNPNCKGVQKILPTLQHISDNMTRYHRTEVYNTTVMVVGVPNVG 126 (352)
Q Consensus 77 v~~iSa~~~~~~gi~~L~~~i~~~~~~~~~~~~~~~~~~~~~~~g~~nvg 126 (352)
.+++||+++ .|++.|++.|.+.++... ......+++.+.|
T Consensus 333 ~v~iSA~~~--~gl~~L~~~i~~~l~~~~--------~~~~l~lp~~~~~ 372 (411)
T COG2262 333 PVFISAKTG--EGLDLLRERIIELLSGLR--------TEVTLELPYTDAG 372 (411)
T ss_pred eEEEEeccC--cCHHHHHHHHHHHhhhcc--------cceEEEcCccccc
Confidence 889999999 999999999998887432 3444556666666
No 101
>PRK00454 engB GTP-binding protein YsxC; Reviewed
Probab=98.78 E-value=1.6e-08 Score=87.79 Aligned_cols=62 Identities=26% Similarity=0.374 Sum_probs=48.7
Q ss_pred CcceEEEEeCCCCCChHHHHHHHhCCCCCCCCceecCCCCCceeEeeeeEEecCCCcEEEEeCCCCCCC
Q psy15351 166 VYNTTVMVVGVPNVGKSSIINALRSSHMKKGKAVPVGPKAGVTRSVMSQVKISEKPLIYILDTPGISLP 234 (352)
Q Consensus 166 ~~~~~v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~~~pg~T~~~~~~~~~~~~~~~~l~DtPGi~~~ 234 (352)
...++|+++|.+|||||||+|+|++. .....+++.+|+|+.... +.. +.++.++||||+...
T Consensus 22 ~~~~~v~ivG~~~~GKSsli~~l~~~----~~~~~~~~~~~~t~~~~~-~~~--~~~l~l~DtpG~~~~ 83 (196)
T PRK00454 22 DDGPEIAFAGRSNVGKSSLINALTNR----KNLARTSKTPGRTQLINF-FEV--NDKLRLVDLPGYGYA 83 (196)
T ss_pred CCCCEEEEEcCCCCCHHHHHHHHhCC----CCcccccCCCCceeEEEE-Eec--CCeEEEeCCCCCCCc
Confidence 35688999999999999999999972 125678889999988643 322 357999999998754
No 102
>PRK00089 era GTPase Era; Reviewed
Probab=98.78 E-value=5.5e-08 Score=90.31 Aligned_cols=97 Identities=21% Similarity=0.293 Sum_probs=74.2
Q ss_pred HHHHHHhhccCEEEEEEcCCCCCCCcCHHHHHHHh-CCCCEEEEEEcccCC-CccchHHHHHHHHhhcCCCCcEEEeecC
Q psy15351 6 KDIEKHLKNVDIVIEVHDSRMPFTGRNHLLQQSVQ-NIRPMVLVLNKRDLI-NSKHESLIEEKVRKEQSHISEVIFTNCR 83 (352)
Q Consensus 6 ~~~~~~i~~aD~vl~VvDar~p~~~~~~~l~~~l~-~~k~~ilVlNK~Dl~-~~~~~~~~~~~~~~~~~~~~~v~~iSa~ 83 (352)
+.++..+..+|++++|+|+..++......+.+.++ .+.|+++|+||+|+. +........+.+.+.. .+.+++.+||+
T Consensus 76 ~~~~~~~~~~D~il~vvd~~~~~~~~~~~i~~~l~~~~~pvilVlNKiDl~~~~~~l~~~~~~l~~~~-~~~~i~~iSA~ 154 (292)
T PRK00089 76 KAAWSSLKDVDLVLFVVDADEKIGPGDEFILEKLKKVKTPVILVLNKIDLVKDKEELLPLLEELSELM-DFAEIVPISAL 154 (292)
T ss_pred HHHHHHHhcCCEEEEEEeCCCCCChhHHHHHHHHhhcCCCEEEEEECCcCCCCHHHHHHHHHHHHhhC-CCCeEEEecCC
Confidence 45677889999999999999876665556656554 468999999999998 4444455555554421 23469999999
Q ss_pred CCCCCCHHHHHHHHHHHhhhcc
Q psy15351 84 NPNCKGVQKILPTLQHISDNMT 105 (352)
Q Consensus 84 ~~~~~gi~~L~~~i~~~~~~~~ 105 (352)
++ .|+++|++++.+.+++++
T Consensus 155 ~~--~gv~~L~~~L~~~l~~~~ 174 (292)
T PRK00089 155 KG--DNVDELLDVIAKYLPEGP 174 (292)
T ss_pred CC--CCHHHHHHHHHHhCCCCC
Confidence 99 999999999998887654
No 103
>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=98.77 E-value=4.1e-08 Score=96.08 Aligned_cols=96 Identities=21% Similarity=0.387 Sum_probs=70.9
Q ss_pred HHHHHhhccCEEEEEEcCCCCCCCcCHHHHHHHh-CCCCEEEEEEcccCC-CccchHHHHHHHHhhc--CCCCcEEEeec
Q psy15351 7 DIEKHLKNVDIVIEVHDSRMPFTGRNHLLQQSVQ-NIRPMVLVLNKRDLI-NSKHESLIEEKVRKEQ--SHISEVIFTNC 82 (352)
Q Consensus 7 ~~~~~i~~aD~vl~VvDar~p~~~~~~~l~~~l~-~~k~~ilVlNK~Dl~-~~~~~~~~~~~~~~~~--~~~~~v~~iSa 82 (352)
++...+..+|++|+|+|+.++.+..+..+...+. .++|+++|+||+|++ +.+......+.+.... ....+++++||
T Consensus 247 ~~~~~~~~ad~~ilV~D~~~~~~~~~~~~~~~~~~~~~~iiiv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~vi~~SA 326 (429)
T TIGR03594 247 RTLKAIERADVVLLVLDATEGITEQDLRIAGLILEAGKALVIVVNKWDLVKDEKTREEFKKELRRKLPFLDFAPIVFISA 326 (429)
T ss_pred HHHHHHHhCCEEEEEEECCCCccHHHHHHHHHHHHcCCcEEEEEECcccCCCHHHHHHHHHHHHHhcccCCCCceEEEeC
Confidence 3456789999999999999887776665555544 689999999999998 3333344444443321 12236999999
Q ss_pred CCCCCCCHHHHHHHHHHHhhhc
Q psy15351 83 RNPNCKGVQKILPTLQHISDNM 104 (352)
Q Consensus 83 ~~~~~~gi~~L~~~i~~~~~~~ 104 (352)
+++ .|++++++++.+.....
T Consensus 327 ~~g--~~v~~l~~~i~~~~~~~ 346 (429)
T TIGR03594 327 LTG--QGVDKLLDAIDEVYENA 346 (429)
T ss_pred CCC--CCHHHHHHHHHHHHHHh
Confidence 999 99999999998776544
No 104
>PRK00093 GTP-binding protein Der; Reviewed
Probab=98.76 E-value=4.8e-08 Score=95.81 Aligned_cols=96 Identities=22% Similarity=0.350 Sum_probs=72.9
Q ss_pred HHHHHhhccCEEEEEEcCCCCCCCcCHHHHHHHh-CCCCEEEEEEcccCCCccchHHHHHHHHhh--cCCCCcEEEeecC
Q psy15351 7 DIEKHLKNVDIVIEVHDSRMPFTGRNHLLQQSVQ-NIRPMVLVLNKRDLINSKHESLIEEKVRKE--QSHISEVIFTNCR 83 (352)
Q Consensus 7 ~~~~~i~~aD~vl~VvDar~p~~~~~~~l~~~l~-~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~--~~~~~~v~~iSa~ 83 (352)
++.+.+..+|++|+|+|+..+.+..+..+..++. .++|+++|+||+|+.+++...++.+.+... .....+++++||+
T Consensus 248 ~~~~~~~~ad~~ilViD~~~~~~~~~~~i~~~~~~~~~~~ivv~NK~Dl~~~~~~~~~~~~~~~~l~~~~~~~i~~~SA~ 327 (435)
T PRK00093 248 RTLKAIERADVVLLVIDATEGITEQDLRIAGLALEAGRALVIVVNKWDLVDEKTMEEFKKELRRRLPFLDYAPIVFISAL 327 (435)
T ss_pred HHHHHHHHCCEEEEEEeCCCCCCHHHHHHHHHHHHcCCcEEEEEECccCCCHHHHHHHHHHHHHhcccccCCCEEEEeCC
Confidence 3556889999999999999988777666665554 689999999999998655444555544332 1122369999999
Q ss_pred CCCCCCHHHHHHHHHHHhhhc
Q psy15351 84 NPNCKGVQKILPTLQHISDNM 104 (352)
Q Consensus 84 ~~~~~gi~~L~~~i~~~~~~~ 104 (352)
++ .|++++++.+.+.....
T Consensus 328 ~~--~gv~~l~~~i~~~~~~~ 346 (435)
T PRK00093 328 TG--QGVDKLLEAIDEAYENA 346 (435)
T ss_pred CC--CCHHHHHHHHHHHHHHH
Confidence 99 99999999988776544
No 105
>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=98.75 E-value=7.5e-08 Score=85.83 Aligned_cols=95 Identities=16% Similarity=0.068 Sum_probs=68.3
Q ss_pred hHHHHHHHHhh--ccCEEEEEEcCCCCCCCcCHHHHHHHh-CCCCEEEEEEcccCCCccchHHHHH----HHHhhcC---
Q psy15351 3 RGLKDIEKHLK--NVDIVIEVHDSRMPFTGRNHLLQQSVQ-NIRPMVLVLNKRDLINSKHESLIEE----KVRKEQS--- 72 (352)
Q Consensus 3 ~~~~~~~~~i~--~aD~vl~VvDar~p~~~~~~~l~~~l~-~~k~~ilVlNK~Dl~~~~~~~~~~~----~~~~~~~--- 72 (352)
+..+.+...+. .+|++++|+|++.++...+..+..++. .+.|+++|+||+|+++++......+ .++..+.
T Consensus 96 ~~~~~~~~~~~~~~~D~~llVvda~~g~~~~d~~~l~~l~~~~ip~ivvvNK~D~~~~~~~~~~~~~l~~~L~~~g~~~~ 175 (224)
T cd04165 96 RYLKTTLFGLTGYAPDYAMLVVAANAGIIGMTKEHLGLALALNIPVFVVVTKIDLAPANILQETLKDLKRILKVPGVRKL 175 (224)
T ss_pred HHHHHHHHhhcccCCCEEEEEEECCCCCcHHHHHHHHHHHHcCCCEEEEEECccccCHHHHHHHHHHHHHHhcCCCcccc
Confidence 34556666664 789999999999887766666666655 6899999999999987654333333 3321111
Q ss_pred --------------------CCCcEEEeecCCCCCCCHHHHHHHHHH
Q psy15351 73 --------------------HISEVIFTNCRNPNCKGVQKILPTLQH 99 (352)
Q Consensus 73 --------------------~~~~v~~iSa~~~~~~gi~~L~~~i~~ 99 (352)
...+++.+||.++ +|+++|.+.|..
T Consensus 176 p~~~~~~~~~~~~~~~~~~~~~~pi~~vSavtg--~Gi~~L~~~L~~ 220 (224)
T cd04165 176 PVPVKSDDDVVLAASNFSSERIVPIFQVSNVTG--EGLDLLHAFLNL 220 (224)
T ss_pred ceeeecccceeehhhcCCccccCcEEEeeCCCc--cCHHHHHHHHHh
Confidence 0126899999999 999999988764
No 106
>PRK09866 hypothetical protein; Provisional
Probab=98.75 E-value=6.1e-08 Score=96.23 Aligned_cols=92 Identities=11% Similarity=0.059 Sum_probs=69.4
Q ss_pred HHHHHhhccCEEEEEEcCCCCCCCcCHHHHHHHh-CC--CCEEEEEEcccCCCccc--hHHHHHH----HHhhcCCCCcE
Q psy15351 7 DIEKHLKNVDIVIEVHDSRMPFTGRNHLLQQSVQ-NI--RPMVLVLNKRDLINSKH--ESLIEEK----VRKEQSHISEV 77 (352)
Q Consensus 7 ~~~~~i~~aD~vl~VvDar~p~~~~~~~l~~~l~-~~--k~~ilVlNK~Dl~~~~~--~~~~~~~----~~~~~~~~~~v 77 (352)
.+.+.+..+|+|++|+|++.+++..+..+.+.++ .+ .|+++|+||+|+.+++. .+...++ +.+...++..+
T Consensus 251 ~M~eqL~eADvVLFVVDat~~~s~~DeeIlk~Lkk~~K~~PVILVVNKIDl~dreeddkE~Lle~V~~~L~q~~i~f~eI 330 (741)
T PRK09866 251 MLNQQLARASAVLAVLDYTQLKSISDEEVREAILAVGQSVPLYVLVNKFDQQDRNSDDADQVRALISGTLMKGCITPQQI 330 (741)
T ss_pred HHHHHHhhCCEEEEEEeCCCCCChhHHHHHHHHHhcCCCCCEEEEEEcccCCCcccchHHHHHHHHHHHHHhcCCCCceE
Confidence 4567899999999999999877777777777666 34 49999999999975322 2233333 22334455689
Q ss_pred EEeecCCCCCCCHHHHHHHHHHH
Q psy15351 78 IFTNCRNPNCKGVQKILPTLQHI 100 (352)
Q Consensus 78 ~~iSa~~~~~~gi~~L~~~i~~~ 100 (352)
+++||+++ .|++.|++.|.+.
T Consensus 331 fPVSAlkG--~nid~LLdeI~~~ 351 (741)
T PRK09866 331 FPVSSMWG--YLANRARHELANN 351 (741)
T ss_pred EEEeCCCC--CCHHHHHHHHHhC
Confidence 99999999 9999999998763
No 107
>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=98.75 E-value=9.9e-08 Score=79.98 Aligned_cols=93 Identities=16% Similarity=0.217 Sum_probs=62.0
Q ss_pred HHHHHHHhhccCEEEEEEcCCCCCCCcCHHHHHHHh--CCCCEEEEEEcccCCCccc----hHHHHHHHHhhcCCCCcEE
Q psy15351 5 LKDIEKHLKNVDIVIEVHDSRMPFTGRNHLLQQSVQ--NIRPMVLVLNKRDLINSKH----ESLIEEKVRKEQSHISEVI 78 (352)
Q Consensus 5 ~~~~~~~i~~aD~vl~VvDar~p~~~~~~~l~~~l~--~~k~~ilVlNK~Dl~~~~~----~~~~~~~~~~~~~~~~~v~ 78 (352)
.+.+...+..+|++++|+|+++++..........++ ..+|+++|+||+|+.+... ..++.+.++..+....+++
T Consensus 65 ~~~~~~~~~~ad~ii~V~d~~~~~~~~~~~~~~~~~~~~~~~~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 144 (164)
T cd04171 65 IKNMLAGAGGIDLVLLVVAADEGIMPQTREHLEILELLGIKRGLVVLTKADLVDEDWLELVEEEIRELLAGTFLADAPIF 144 (164)
T ss_pred HHHHHhhhhcCCEEEEEEECCCCccHhHHHHHHHHHHhCCCcEEEEEECccccCHHHHHHHHHHHHHHHHhcCcCCCcEE
Confidence 344566778999999999998754333222222222 3359999999999986532 2344444544211122599
Q ss_pred EeecCCCCCCCHHHHHHHHHH
Q psy15351 79 FTNCRNPNCKGVQKILPTLQH 99 (352)
Q Consensus 79 ~iSa~~~~~~gi~~L~~~i~~ 99 (352)
.+||+++ .|++++++.+.+
T Consensus 145 ~~Sa~~~--~~v~~l~~~l~~ 163 (164)
T cd04171 145 PVSAVTG--EGIEELKEYLDE 163 (164)
T ss_pred EEeCCCC--cCHHHHHHHHhh
Confidence 9999999 999999988753
No 108
>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=98.74 E-value=1.2e-08 Score=86.79 Aligned_cols=55 Identities=35% Similarity=0.404 Sum_probs=43.4
Q ss_pred EeCCCCCChHHHHHHHhCCCCCCCCceecCCCCCceeEeeeeEEecC-CCcEEEEeCCCCCC
Q psy15351 173 VVGVPNVGKSSIINALRSSHMKKGKAVPVGPKAGVTRSVMSQVKISE-KPLIYILDTPGISL 233 (352)
Q Consensus 173 i~G~pnvGKStliN~l~~~~~~~~~~~~~~~~pg~T~~~~~~~~~~~-~~~~~l~DtPGi~~ 233 (352)
++|.+|||||||+|+|.+ ... .+++.|++|+.+........ +..+.++||||+..
T Consensus 1 iiG~~~~GKStll~~l~~-----~~~-~~~~~~~~t~~~~~~~~~~~~~~~~~i~DtpG~~~ 56 (176)
T cd01881 1 LVGLPNVGKSTLLNALTN-----AKP-KVANYPFTTLEPNLGVVEVPDGARIQVADIPGLIE 56 (176)
T ss_pred CCCCCCCcHHHHHHHHhc-----CCc-cccCCCceeecCcceEEEcCCCCeEEEEeccccch
Confidence 579999999999999997 232 67888999988765443344 66899999999864
No 109
>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=98.71 E-value=1.5e-07 Score=79.37 Aligned_cols=91 Identities=20% Similarity=0.376 Sum_probs=66.8
Q ss_pred HHHHhhccCEEEEEEcCCCCCCCcCHHHHHHHh-CCCCEEEEEEcccCCCc--cchHHHHHHHHhhc--CCCCcEEEeec
Q psy15351 8 IEKHLKNVDIVIEVHDSRMPFTGRNHLLQQSVQ-NIRPMVLVLNKRDLINS--KHESLIEEKVRKEQ--SHISEVIFTNC 82 (352)
Q Consensus 8 ~~~~i~~aD~vl~VvDar~p~~~~~~~l~~~l~-~~k~~ilVlNK~Dl~~~--~~~~~~~~~~~~~~--~~~~~v~~iSa 82 (352)
+...+..+|++++|+|+.++.+.....+...+. .++|+++|+||+|+.+. ...+.+.+.+++.. ....+++.+||
T Consensus 78 ~~~~~~~~d~vi~v~d~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa 157 (174)
T cd01895 78 TLKAIERADVVLLVIDATEGITEQDLRIAGLILEEGKALVIVVNKWDLVEKDSKTMKEFKKEIRRKLPFLDYAPIVFISA 157 (174)
T ss_pred HHHHHhhcCeEEEEEeCCCCcchhHHHHHHHHHhcCCCEEEEEeccccCCccHHHHHHHHHHHHhhcccccCCceEEEec
Confidence 445678999999999999887765555444443 57999999999999876 33445555554431 11235999999
Q ss_pred CCCCCCCHHHHHHHHHHH
Q psy15351 83 RNPNCKGVQKILPTLQHI 100 (352)
Q Consensus 83 ~~~~~~gi~~L~~~i~~~ 100 (352)
+++ .|++++++++.++
T Consensus 158 ~~~--~~i~~~~~~l~~~ 173 (174)
T cd01895 158 LTG--QGVDKLFDAIDEV 173 (174)
T ss_pred cCC--CCHHHHHHHHHHh
Confidence 999 9999999888653
No 110
>PF00735 Septin: Septin; InterPro: IPR000038 Septins constitute a eukaryotic family of guanine nucleotide-binding proteins, most of which polymerise to form filaments []. Members of the family were first identified by genetic screening for Saccharomyces cerevisiae (Baker's yeast) mutants defective in cytokinesis []. Temperature-sensitive mutations in four genes, CDC3, CDC10, CDC11 and CDC12, were found to cause cell-cycle arrest and defects in bud growth and cytokinesis. The protein products of these genes localise at the division plane between mother and daughter cells, indicating a role in mother-daughter separation during cytokinesis []. Members of the family were therefore termed septins to reflect their role in septation and cell division. The identification of septin homologues in higher eukaryotes, which localise to the cleavage furrow in dividing cells, supports an orthologous function in cytokinesis. Septins have since been identified in most eukaryotes, except plants []. Septins are approximately 40-50 kDa in molecular mass, and typically comprise a conserved central core domain (more than 35% sequence identity between mammalian and yeast homologues) flanked by more divergent N- and C-termini. Most septins possess a P-loop motif in their N-terminal domain (which is characteristic of GTP-binding proteins), and a predicted C-terminal coiled-coil domain []. A number of septin interaction partners have been identified in yeast, many of which are components of the budding site selection machinery, kinase cascades or of the ubiquitination pathway. It has been proposed that septins may act as a scaffold that provides an interaction matrix for other proteins [, ]. In mammals, septins have been shown to regulate vesicle dynamics []. Mammalian septins have also been implicated in a variety of other cellular processes, including apoptosis, carcinogenesis and neurodegeneration []. This entry represents a variety of septins and homologous sequences involved in the cell division process.; GO: 0005525 GTP binding, 0007049 cell cycle; PDB: 2QAG_B 3FTQ_D 2QA5_A 2QNR_B 3TW4_A 3T5D_C.
Probab=98.70 E-value=8.5e-09 Score=94.81 Aligned_cols=160 Identities=18% Similarity=0.212 Sum_probs=70.4
Q ss_pred ceEEEEeCCCCCChHHHHHHHhCCCCCCCCce---ecCCCCCc-eeEeeeeEEecCCC---cEEEEeCCCCCCCCCCCHH
Q psy15351 168 NTTVMVVGVPNVGKSSIINALRSSHMKKGKAV---PVGPKAGV-TRSVMSQVKISEKP---LIYILDTPGISLPRIDNLE 240 (352)
Q Consensus 168 ~~~v~i~G~pnvGKStliN~l~~~~~~~~~~~---~~~~~pg~-T~~~~~~~~~~~~~---~~~l~DtPGi~~~~~~~~~ 240 (352)
.++|+++|.+|+|||||||+|++..+...... .....+.+ +... ....+..+. ++.++||||+++.- +.+
T Consensus 4 ~fnImVvG~sG~GKTTFIntL~~~~~~~~~~~~~~~~~~~~~~~~i~~-~~~~l~e~~~~l~LtiiDTpGfGd~i--~n~ 80 (281)
T PF00735_consen 4 NFNIMVVGESGLGKTTFINTLFNSDIISEDSSIPPPSASISRTLEIEE-RTVELEENGVKLNLTIIDTPGFGDNI--DNS 80 (281)
T ss_dssp EEEEEEEECTTSSHHHHHHHHHTSS---------S------SCEEEEE-EEEEEEETCEEEEEEEEEEC-CSSSS--THC
T ss_pred eEEEEEECCCCCCHHHHHHHHHhcccccccccccccccccccccceee-EEEEeccCCcceEEEEEeCCCccccc--cch
Confidence 58999999999999999999998543322100 00111112 1221 122222211 58899999998752 211
Q ss_pred HHHHHHHHhhhhhh-------------ccchhhhhHhHHhhhcCCCCCcccccccCCCCCccHHHHHHHHHHHh---ccc
Q psy15351 241 CGMRLAACATLQDH-------------LVGEINIADYILFYLNRTGNYRYVDFFNLDEPSDDIVMLLAKAAIKK---KWF 304 (352)
Q Consensus 241 ~~~~l~~~~~i~~~-------------~~~~~~~~~~il~~~~~~~~~~~~~~~~l~~~~~~~~~~l~~~a~~~---g~~ 304 (352)
.... .+...|.+. ....+..++++|+.+..... ++.+ .|+ +++..+..+- ..+
T Consensus 81 ~~~~-~I~~yI~~qf~~~l~eE~~~~R~~~~D~RVH~cLYfI~pt~~-------~L~~--~Di-~~mk~Ls~~vNvIPvI 149 (281)
T PF00735_consen 81 DCWE-PIVDYIESQFDSYLEEESKINRPRIEDTRVHACLYFIPPTGH-------GLKP--LDI-EFMKRLSKRVNVIPVI 149 (281)
T ss_dssp HHHH-HHHHHHHHHHHHHHHHHTSSS-TTS----EEEEEEEE-TTSS-------SS-H--HHH-HHHHHHTTTSEEEEEE
T ss_pred hhhH-HHHHHHHHHHHHHHHHhhcccccCcCCCCcceEEEEEcCCCc-------cchH--HHH-HHHHHhcccccEEeEE
Confidence 1111 011111100 00112223444444443221 2211 123 4566665433 234
Q ss_pred cccccccCCcccCCCCHHHHHHHHHHHHhCCCCcceecCcccc
Q psy15351 305 KRAFDVSSNSVRMFPDTGEVARIFIEHFRKGSFGSVMLDRDFL 347 (352)
Q Consensus 305 ~~~~~~~~g~~~~~~d~~~a~~~~l~~~~~g~l~~~~~~~~~~ 347 (352)
.|.+.++ ..++......+.++++...+..|.++.+..
T Consensus 150 aKaD~lt------~~el~~~k~~i~~~l~~~~I~~f~f~~~~~ 186 (281)
T PF00735_consen 150 AKADTLT------PEELQAFKQRIREDLEENNIKIFDFPEDDD 186 (281)
T ss_dssp STGGGS-------HHHHHHHHHHHHHHHHHTT--S--------
T ss_pred ecccccC------HHHHHHHHHHHHHHHHHcCceeeccccccc
Confidence 4554444 236777888999999999999988766554
No 111
>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=98.68 E-value=1.8e-07 Score=81.27 Aligned_cols=96 Identities=18% Similarity=0.217 Sum_probs=64.7
Q ss_pred HHHHHHHhhccCEEEEEEcCCCCCCCcCHHHHHHHh-CCCCEEEEEEcccCCCccch----HHHHHHHHhh----cCCCC
Q psy15351 5 LKDIEKHLKNVDIVIEVHDSRMPFTGRNHLLQQSVQ-NIRPMVLVLNKRDLINSKHE----SLIEEKVRKE----QSHIS 75 (352)
Q Consensus 5 ~~~~~~~i~~aD~vl~VvDar~p~~~~~~~l~~~l~-~~k~~ilVlNK~Dl~~~~~~----~~~~~~~~~~----~~~~~ 75 (352)
++.+...+..+|.+++|+|++.+......+...+.. .+.|+++|+||+|+...+.. +++.+.+... +....
T Consensus 82 ~~~~~~~~~~~d~vi~VvD~~~~~~~~~~~~~~~~~~~~~~~iiv~NK~Dl~~~~~~~~~~~~~~~~l~~~~~~~~~~~~ 161 (192)
T cd01889 82 IRTIIGGAQIIDLMLLVVDATKGIQTQTAECLVIGEILCKKLIVVLNKIDLIPEEERERKIEKMKKKLQKTLEKTRFKNS 161 (192)
T ss_pred HHHHHHHHhhCCEEEEEEECCCCccHHHHHHHHHHHHcCCCEEEEEECcccCCHHHHHHHHHHHHHHHHHHHHhcCcCCC
Confidence 566667778899999999998765433322222222 57899999999999865432 2233322211 11112
Q ss_pred cEEEeecCCCCCCCHHHHHHHHHHHhh
Q psy15351 76 EVIFTNCRNPNCKGVQKILPTLQHISD 102 (352)
Q Consensus 76 ~v~~iSa~~~~~~gi~~L~~~i~~~~~ 102 (352)
+++.+||+++ .|+++|++++.+.++
T Consensus 162 ~vi~iSa~~g--~gi~~L~~~l~~~~~ 186 (192)
T cd01889 162 PIIPVSAKPG--GGEAELGKDLNNLIV 186 (192)
T ss_pred CEEEEeccCC--CCHHHHHHHHHhccc
Confidence 5999999999 999999999987654
No 112
>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=98.67 E-value=8.6e-08 Score=90.26 Aligned_cols=91 Identities=18% Similarity=0.274 Sum_probs=64.1
Q ss_pred HHHHHHhhccCEEEEEEcCCCCCC-----CcC---HHHHHHHh--CCCCEEEEEEcccCCCccchHHHHHHHHhh-cCCC
Q psy15351 6 KDIEKHLKNVDIVIEVHDSRMPFT-----GRN---HLLQQSVQ--NIRPMVLVLNKRDLINSKHESLIEEKVRKE-QSHI 74 (352)
Q Consensus 6 ~~~~~~i~~aD~vl~VvDar~p~~-----~~~---~~l~~~l~--~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~-~~~~ 74 (352)
.+++++++++|++++|+|+.+.-. ... .++..+.. ..+|+++|+||+|+.+.....++.+.+.+. +.
T Consensus 227 ~~flrhierad~ll~VvD~s~~~~~~~~e~l~~l~~EL~~~~~~l~~kp~IIV~NK~DL~~~~~~~~~~~~l~~~~~~-- 304 (329)
T TIGR02729 227 HRFLKHIERTRVLLHLIDISPLDGRDPIEDYEIIRNELKKYSPELAEKPRIVVLNKIDLLDEEELAELLKELKKALGK-- 304 (329)
T ss_pred HHHHHHHHhhCEEEEEEcCccccccCHHHHHHHHHHHHHHhhhhhccCCEEEEEeCccCCChHHHHHHHHHHHHHcCC--
Confidence 356788999999999999986411 111 11111111 368999999999998765555555555433 43
Q ss_pred CcEEEeecCCCCCCCHHHHHHHHHHHh
Q psy15351 75 SEVIFTNCRNPNCKGVQKILPTLQHIS 101 (352)
Q Consensus 75 ~~v~~iSa~~~~~~gi~~L~~~i~~~~ 101 (352)
+++++||+++ +|++++++++.+.+
T Consensus 305 -~vi~iSAktg--~GI~eL~~~I~~~l 328 (329)
T TIGR02729 305 -PVFPISALTG--EGLDELLYALAELL 328 (329)
T ss_pred -cEEEEEccCC--cCHHHHHHHHHHHh
Confidence 4999999999 99999999987654
No 113
>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=98.67 E-value=1.2e-07 Score=80.11 Aligned_cols=90 Identities=18% Similarity=0.292 Sum_probs=62.2
Q ss_pred HHHHHHhhccCEEEEEEcCCCC-CCCcC-HHHHHHHh------CCCCEEEEEEcccCCCccchHHHHHHHHhh--cCCCC
Q psy15351 6 KDIEKHLKNVDIVIEVHDSRMP-FTGRN-HLLQQSVQ------NIRPMVLVLNKRDLINSKHESLIEEKVRKE--QSHIS 75 (352)
Q Consensus 6 ~~~~~~i~~aD~vl~VvDar~p-~~~~~-~~l~~~l~------~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~--~~~~~ 75 (352)
..+++.+..+|++++|+|++++ -+... ..+.+.+. .++|+++|+||+|+.+......+.+.+... +.
T Consensus 70 ~~~~~~~~~~d~vi~v~D~~~~~~~~~~~~~~~~~l~~~~~~~~~~p~ivv~NK~Dl~~~~~~~~~~~~~~~~~~~~--- 146 (170)
T cd01898 70 HRFLRHIERTRLLLHVIDLSGDDDPVEDYKTIRNELELYNPELLEKPRIVVLNKIDLLDEEELFELLKELLKELWGK--- 146 (170)
T ss_pred HHHHHHHHhCCEEEEEEecCCCCCHHHHHHHHHHHHHHhCccccccccEEEEEchhcCCchhhHHHHHHHHhhCCCC---
Confidence 3445667789999999999876 22111 12222121 268999999999998876655555544333 33
Q ss_pred cEEEeecCCCCCCCHHHHHHHHHHH
Q psy15351 76 EVIFTNCRNPNCKGVQKILPTLQHI 100 (352)
Q Consensus 76 ~v~~iSa~~~~~~gi~~L~~~i~~~ 100 (352)
+++.+||+++ .|++++++++.++
T Consensus 147 ~~~~~Sa~~~--~gi~~l~~~i~~~ 169 (170)
T cd01898 147 PVFPISALTG--EGLDELLRKLAEL 169 (170)
T ss_pred CEEEEecCCC--CCHHHHHHHHHhh
Confidence 4899999999 9999999988654
No 114
>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=98.67 E-value=2.5e-07 Score=79.41 Aligned_cols=95 Identities=14% Similarity=0.117 Sum_probs=67.4
Q ss_pred HHHHHHhhccCEEEEEEcCCCCCCCcCHHHHHHHh-CCCCEEEEEEcccCCCccchHHHH----HHHHhhcC--------
Q psy15351 6 KDIEKHLKNVDIVIEVHDSRMPFTGRNHLLQQSVQ-NIRPMVLVLNKRDLINSKHESLIE----EKVRKEQS-------- 72 (352)
Q Consensus 6 ~~~~~~i~~aD~vl~VvDar~p~~~~~~~l~~~l~-~~k~~ilVlNK~Dl~~~~~~~~~~----~~~~~~~~-------- 72 (352)
......+..+|.+++|+|+..+.......+...+. .++|+++|+||+|+..++...... +.++..+.
T Consensus 77 ~~~~~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~i~iv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 156 (189)
T cd00881 77 SEVIRGLSVSDGAILVVDANEGVQPQTREHLRIAREGGLPIIVAINKIDRVGEEDLEEVLREIKELLGLIGFISTKEEGT 156 (189)
T ss_pred HHHHHHHHhcCEEEEEEECCCCCcHHHHHHHHHHHHCCCCeEEEEECCCCcchhcHHHHHHHHHHHHccccccchhhhhc
Confidence 44566788999999999999876554444444443 589999999999998754433222 23322121
Q ss_pred ---CCCcEEEeecCCCCCCCHHHHHHHHHHHhh
Q psy15351 73 ---HISEVIFTNCRNPNCKGVQKILPTLQHISD 102 (352)
Q Consensus 73 ---~~~~v~~iSa~~~~~~gi~~L~~~i~~~~~ 102 (352)
...+++.+||+++ .|++++++++.+.++
T Consensus 157 ~~~~~~~v~~~Sa~~g--~gi~~l~~~l~~~l~ 187 (189)
T cd00881 157 RNGLLVPIVPGSALTG--IGVEELLEAIVEHLP 187 (189)
T ss_pred ccCCcceEEEEecccC--cCHHHHHHHHHhhCC
Confidence 1236899999999 999999999887664
No 115
>cd01851 GBP Guanylate-binding protein (GBP), N-terminal domain. Guanylate-binding proteins (GBPs) define a group of proteins that are synthesized after activation of the cell by interferons. The biochemical properties of GBPs are clearly different from those of Ras-like and heterotrimeric GTP-binding proteins. They bind guanine nucleotides with low affinity (micromolar range), are stable in their absence and have a high turnover GTPase. In addition to binding GDP/GTP, they have the unique ability to bind GMP with equal affinity and hydrolyze GTP not only to GDP, but also to GMP. Furthermore, two unique regions around the base and the phosphate-binding areas, the guanine and the phosphate caps, respectively, give the nucleotide-binding site a unique appearance not found in the canonical GTP-binding proteins. The phosphate cap, which constitutes the region analogous to switch I, completely shields the phosphate-binding site from solvent such that a potential GTPase-activating protein
Probab=98.66 E-value=1e-07 Score=84.91 Aligned_cols=69 Identities=19% Similarity=0.144 Sum_probs=48.8
Q ss_pred cceEEEEeCCCCCChHHHHHHHhCCCCCCCCceecCCCCCceeEeeeeEEec---CCCcEEEEeCCCCCCCCCCC
Q psy15351 167 YNTTVMVVGVPNVGKSSIINALRSSHMKKGKAVPVGPKAGVTRSVMSQVKIS---EKPLIYILDTPGISLPRIDN 238 (352)
Q Consensus 167 ~~~~v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~~~pg~T~~~~~~~~~~---~~~~~~l~DtPGi~~~~~~~ 238 (352)
+-..|+++|.+++|||+|+|.|.+.. ..-......+.||+...-+.... .+..+.++||||+..+....
T Consensus 6 ~v~vvsv~G~~~sGKS~llN~l~~~~---~~f~~~~~~~~~T~gi~~~~~~~~~~~~~~v~~lDteG~~~~~~~~ 77 (224)
T cd01851 6 PVAVVSVFGPQSSGKSFLLNHLFGTL---SGFDVMDTSQQTTKGIWMWSVPFKLGKEHAVLLLDTEGTDGRERGE 77 (224)
T ss_pred CEEEEEEECCCCCCHHHHHHHHhCCC---CCeEecCCCCCCccceEEEeccccCCCcceEEEEecCCcCccccCc
Confidence 44679999999999999999999731 12333445578888765332222 23579999999999875544
No 116
>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=98.65 E-value=6.9e-08 Score=88.80 Aligned_cols=68 Identities=24% Similarity=0.330 Sum_probs=40.3
Q ss_pred cceEEEEeCCCCCChHHHHHHHhCCCCCCCCce---ecCCCCCceeEeeeeEEec-CC--CcEEEEeCCCCCCC
Q psy15351 167 YNTTVMVVGVPNVGKSSIINALRSSHMKKGKAV---PVGPKAGVTRSVMSQVKIS-EK--PLIYILDTPGISLP 234 (352)
Q Consensus 167 ~~~~v~i~G~pnvGKStliN~l~~~~~~~~~~~---~~~~~pg~T~~~~~~~~~~-~~--~~~~l~DtPGi~~~ 234 (352)
-.++|+++|.+|+|||||+|+|++..+...... .....+.|+.-......+. .+ -++.++||||+.+.
T Consensus 3 ~~f~I~vvG~sg~GKSTliN~L~~~~~~~~~~~~~~~~~~~~~T~~i~~~~~~i~~~g~~~~l~iiDTpGfgd~ 76 (276)
T cd01850 3 FQFNIMVVGESGLGKSTFINTLFNTKLIPSDYPPDPAEEHIDKTVEIKSSKAEIEENGVKLKLTVIDTPGFGDN 76 (276)
T ss_pred cEEEEEEEcCCCCCHHHHHHHHHcCCCccccCCCCccccccCCceEEEEEEEEEEECCEEEEEEEEecCCcccc
Confidence 458999999999999999999997432211000 0011233332111112222 22 15899999999875
No 117
>PRK12299 obgE GTPase CgtA; Reviewed
Probab=98.65 E-value=1.5e-07 Score=88.68 Aligned_cols=93 Identities=17% Similarity=0.315 Sum_probs=63.9
Q ss_pred HHHHHHhhccCEEEEEEcCCCCCCCcC-HHHHHHHh------CCCCEEEEEEcccCCCccchH-HHHH-HHHhhcCCCCc
Q psy15351 6 KDIEKHLKNVDIVIEVHDSRMPFTGRN-HLLQQSVQ------NIRPMVLVLNKRDLINSKHES-LIEE-KVRKEQSHISE 76 (352)
Q Consensus 6 ~~~~~~i~~aD~vl~VvDar~p~~~~~-~~l~~~l~------~~k~~ilVlNK~Dl~~~~~~~-~~~~-~~~~~~~~~~~ 76 (352)
.+++++++++|++++|+|+.++.+..+ ..+...+. ..+|+++|+||+|+.+..... ...+ ++...+. +
T Consensus 228 ~~flrhie~a~vlI~ViD~s~~~s~e~~~~~~~EL~~~~~~L~~kp~IIV~NKiDL~~~~~~~~~~~~~~~~~~~~---~ 304 (335)
T PRK12299 228 HRFLKHIERTRLLLHLVDIEAVDPVEDYKTIRNELEKYSPELADKPRILVLNKIDLLDEEEEREKRAALELAALGG---P 304 (335)
T ss_pred HHHHHHhhhcCEEEEEEcCCCCCCHHHHHHHHHHHHHhhhhcccCCeEEEEECcccCCchhHHHHHHHHHHHhcCC---C
Confidence 367788999999999999986532111 11212121 368999999999998654322 2222 2223334 4
Q ss_pred EEEeecCCCCCCCHHHHHHHHHHHhhh
Q psy15351 77 VIFTNCRNPNCKGVQKILPTLQHISDN 103 (352)
Q Consensus 77 v~~iSa~~~~~~gi~~L~~~i~~~~~~ 103 (352)
++++||+++ +|+++|+++|.+.+++
T Consensus 305 i~~iSAktg--~GI~eL~~~L~~~l~~ 329 (335)
T PRK12299 305 VFLISAVTG--EGLDELLRALWELLEE 329 (335)
T ss_pred EEEEEcCCC--CCHHHHHHHHHHHHHh
Confidence 999999999 9999999999887764
No 118
>PF05049 IIGP: Interferon-inducible GTPase (IIGP); InterPro: IPR007743 Interferon-inducible GTPase (IIGP) is thought to play a role in in intracellular defence. IIGP is predominantly associated with the Golgi apparatus and also localizes to the endoplasmic reticulum and exerts a distinct role in IFN-induced intracellular membrane trafficking or processing [].; GO: 0005525 GTP binding, 0016817 hydrolase activity, acting on acid anhydrides, 0016020 membrane; PDB: 1TPZ_A 1TQD_A 1TQ6_A 1TQ2_B 1TQ4_A.
Probab=98.64 E-value=4.3e-08 Score=92.60 Aligned_cols=72 Identities=31% Similarity=0.362 Sum_probs=44.0
Q ss_pred cceEEEEeCCCCCChHHHHHHHhCCCCCCCCceecCCCCCceeEeeeeEEecCCCcEEEEeCCCCCCCCCCCHH
Q psy15351 167 YNTTVMVVGVPNVGKSSIINALRSSHMKKGKAVPVGPKAGVTRSVMSQVKISEKPLIYILDTPGISLPRIDNLE 240 (352)
Q Consensus 167 ~~~~v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~~~pg~T~~~~~~~~~~~~~~~~l~DtPGi~~~~~~~~~ 240 (352)
.+++|+|+|.+|+|||||||+|+|-.-.....+.+|.. .||..+. .+.-...+++.++|.||++.+.+...+
T Consensus 34 ~~l~IaV~G~sGsGKSSfINalrGl~~~d~~aA~tGv~-etT~~~~-~Y~~p~~pnv~lWDlPG~gt~~f~~~~ 105 (376)
T PF05049_consen 34 APLNIAVTGESGSGKSSFINALRGLGHEDEGAAPTGVV-ETTMEPT-PYPHPKFPNVTLWDLPGIGTPNFPPEE 105 (376)
T ss_dssp --EEEEEEESTTSSHHHHHHHHTT--TTSTTS--SSSH-SCCTS-E-EEE-SS-TTEEEEEE--GGGSS--HHH
T ss_pred CceEEEEECCCCCCHHHHHHHHhCCCCCCcCcCCCCCC-cCCCCCe-eCCCCCCCCCeEEeCCCCCCCCCCHHH
Confidence 46899999999999999999998753333344555543 4555543 444455568999999999988664443
No 119
>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=98.64 E-value=1.3e-07 Score=89.84 Aligned_cols=89 Identities=17% Similarity=0.357 Sum_probs=62.9
Q ss_pred hHHHHHHHHhhccCEEEEEEcCCCCCCCcCH-HHHHHHh----CCCCEEEEEEcccCCCccchHHHHHHHHhhcCCCCcE
Q psy15351 3 RGLKDIEKHLKNVDIVIEVHDSRMPFTGRNH-LLQQSVQ----NIRPMVLVLNKRDLINSKHESLIEEKVRKEQSHISEV 77 (352)
Q Consensus 3 ~~~~~~~~~i~~aD~vl~VvDar~p~~~~~~-~l~~~l~----~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~v 77 (352)
.+++.+++.+.+||++++|+|+++|...... .+..+++ .++|+++|+||+|+.+..... .+..... ++
T Consensus 257 e~f~~tle~~~~ADlil~VvD~s~~~~~~~~~~~~~~L~~l~~~~~piIlV~NK~Dl~~~~~v~----~~~~~~~---~~ 329 (351)
T TIGR03156 257 AAFRATLEEVREADLLLHVVDASDPDREEQIEAVEKVLEELGAEDIPQLLVYNKIDLLDEPRIE----RLEEGYP---EA 329 (351)
T ss_pred HHHHHHHHHHHhCCEEEEEEECCCCchHHHHHHHHHHHHHhccCCCCEEEEEEeecCCChHhHH----HHHhCCC---CE
Confidence 4566777889999999999999987643221 1223332 378999999999998653322 1112122 48
Q ss_pred EEeecCCCCCCCHHHHHHHHHHH
Q psy15351 78 IFTNCRNPNCKGVQKILPTLQHI 100 (352)
Q Consensus 78 ~~iSa~~~~~~gi~~L~~~i~~~ 100 (352)
+++||+++ .|+++|+++|.+.
T Consensus 330 i~iSAktg--~GI~eL~~~I~~~ 350 (351)
T TIGR03156 330 VFVSAKTG--EGLDLLLEAIAER 350 (351)
T ss_pred EEEEccCC--CCHHHHHHHHHhh
Confidence 99999999 9999999988653
No 120
>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=98.63 E-value=7.7e-08 Score=80.66 Aligned_cols=60 Identities=22% Similarity=0.256 Sum_probs=39.9
Q ss_pred eEEEEeCCCCCChHHHHHHHhCCCCCCCCceecCCCCCceeEeeeeEEecC-CCcEEEEeCCCC
Q psy15351 169 TTVMVVGVPNVGKSSIINALRSSHMKKGKAVPVGPKAGVTRSVMSQVKISE-KPLIYILDTPGI 231 (352)
Q Consensus 169 ~~v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~~~pg~T~~~~~~~~~~~-~~~~~l~DtPGi 231 (352)
+.|+++|.||||||||+|+|++... ........+++|.+......... +..+.++||||.
T Consensus 1 ~~i~i~G~~~~GKssl~~~l~~~~~---~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~DtpG~ 61 (164)
T cd04171 1 MIIGTAGHIDHGKTTLIKALTGIET---DRLPEEKKRGITIDLGFAYLDLPSGKRLGFIDVPGH 61 (164)
T ss_pred CEEEEEecCCCCHHHHHHHHhCccc---ccchhhhccCceEEeeeEEEEecCCcEEEEEECCCh
Confidence 3689999999999999999986211 11112234677766543222222 457899999996
No 121
>PRK12296 obgE GTPase CgtA; Reviewed
Probab=98.63 E-value=2.2e-07 Score=91.31 Aligned_cols=93 Identities=17% Similarity=0.313 Sum_probs=65.6
Q ss_pred HHHHHhhccCEEEEEEcCCC------CCCCcC---HHHHHHH----------h-CCCCEEEEEEcccCCCccchHHH-HH
Q psy15351 7 DIEKHLKNVDIVIEVHDSRM------PFTGRN---HLLQQSV----------Q-NIRPMVLVLNKRDLINSKHESLI-EE 65 (352)
Q Consensus 7 ~~~~~i~~aD~vl~VvDar~------p~~~~~---~~l~~~l----------~-~~k~~ilVlNK~Dl~~~~~~~~~-~~ 65 (352)
+++++++++|++|+|+|+.. |+.... .++..+. . ..+|+++|+||+|+.+.....++ .+
T Consensus 229 ~fLrhieradvLv~VVD~s~~e~~rdp~~d~~~i~~EL~~y~~~l~~~~~~~~l~~kP~IVVlNKiDL~da~el~e~l~~ 308 (500)
T PRK12296 229 DFLRHIERCAVLVHVVDCATLEPGRDPLSDIDALEAELAAYAPALDGDLGLGDLAERPRLVVLNKIDVPDARELAEFVRP 308 (500)
T ss_pred HHHHHHHhcCEEEEEECCcccccccCchhhHHHHHHHHHHhhhcccccchhhhhcCCCEEEEEECccchhhHHHHHHHHH
Confidence 46778999999999999964 222211 1233332 1 36899999999999755433222 33
Q ss_pred HHHhhcCCCCcEEEeecCCCCCCCHHHHHHHHHHHhhhc
Q psy15351 66 KVRKEQSHISEVIFTNCRNPNCKGVQKILPTLQHISDNM 104 (352)
Q Consensus 66 ~~~~~~~~~~~v~~iSa~~~~~~gi~~L~~~i~~~~~~~ 104 (352)
.+.+.+.. ++.+||+++ +|+++|+.+|.++++..
T Consensus 309 ~l~~~g~~---Vf~ISA~tg--eGLdEL~~~L~ell~~~ 342 (500)
T PRK12296 309 ELEARGWP---VFEVSAASR--EGLRELSFALAELVEEA 342 (500)
T ss_pred HHHHcCCe---EEEEECCCC--CCHHHHHHHHHHHHHhh
Confidence 44444554 999999999 99999999998887654
No 122
>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=98.62 E-value=3.8e-07 Score=76.15 Aligned_cols=91 Identities=23% Similarity=0.352 Sum_probs=68.6
Q ss_pred HHHHHhhccCEEEEEEcCCCCCCCcCHHHHHHHh-CCCCEEEEEEcccCCC-ccchHHHHHHHHhhcCCCCcEEEeecCC
Q psy15351 7 DIEKHLKNVDIVIEVHDSRMPFTGRNHLLQQSVQ-NIRPMVLVLNKRDLIN-SKHESLIEEKVRKEQSHISEVIFTNCRN 84 (352)
Q Consensus 7 ~~~~~i~~aD~vl~VvDar~p~~~~~~~l~~~l~-~~k~~ilVlNK~Dl~~-~~~~~~~~~~~~~~~~~~~~v~~iSa~~ 84 (352)
.....+..+|++++|+|++++.......+.+.+. .+.|.++|+||+|+.. .....++.+.+.... ...+++.+|+++
T Consensus 75 ~~~~~~~~~d~i~~v~d~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~-~~~~~~~~s~~~ 153 (168)
T cd04163 75 AAWSALKDVDLVLFVVDASEPIGEGDEFILELLKKSKTPVILVLNKIDLVKDKEDLLPLLEKLKELG-PFAEIFPISALK 153 (168)
T ss_pred HHHHHHHhCCEEEEEEECCCccCchHHHHHHHHHHhCCCEEEEEEchhccccHHHHHHHHHHHHhcc-CCCceEEEEecc
Confidence 3456789999999999999886555555555554 4589999999999983 444566666665543 123689999999
Q ss_pred CCCCCHHHHHHHHHHH
Q psy15351 85 PNCKGVQKILPTLQHI 100 (352)
Q Consensus 85 ~~~~gi~~L~~~i~~~ 100 (352)
+ .|++++++.|.+.
T Consensus 154 ~--~~~~~l~~~l~~~ 167 (168)
T cd04163 154 G--ENVDELLEEIVKY 167 (168)
T ss_pred C--CChHHHHHHHHhh
Confidence 9 9999999988754
No 123
>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=98.62 E-value=2.2e-07 Score=81.41 Aligned_cols=89 Identities=19% Similarity=0.442 Sum_probs=62.5
Q ss_pred HHHHHHHHhhccCEEEEEEcCCCCCCCcCH-HHHHHHh----CCCCEEEEEEcccCCCccchHHHHHHHHhhcCCCCcEE
Q psy15351 4 GLKDIEKHLKNVDIVIEVHDSRMPFTGRNH-LLQQSVQ----NIRPMVLVLNKRDLINSKHESLIEEKVRKEQSHISEVI 78 (352)
Q Consensus 4 ~~~~~~~~i~~aD~vl~VvDar~p~~~~~~-~l~~~l~----~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~v~ 78 (352)
+++.+...+..+|++++|+|++++....+. .+.+++. .++|+++|+||+|+.+..... ..+...+. +++
T Consensus 110 ~~~~~~~~~~~~d~ii~v~D~~~~~~~~~~~~~~~~l~~~~~~~~~viiV~NK~Dl~~~~~~~---~~~~~~~~---~~~ 183 (204)
T cd01878 110 AFRSTLEEVAEADLLLHVVDASDPDYEEQIETVEKVLKELGAEDIPMILVLNKIDLLDDEELE---ERLEAGRP---DAV 183 (204)
T ss_pred HHHHHHHHHhcCCeEEEEEECCCCChhhHHHHHHHHHHHcCcCCCCEEEEEEccccCChHHHH---HHhhcCCC---ceE
Confidence 344555567899999999999987654332 2223332 368999999999998765332 22322233 489
Q ss_pred EeecCCCCCCCHHHHHHHHHHH
Q psy15351 79 FTNCRNPNCKGVQKILPTLQHI 100 (352)
Q Consensus 79 ~iSa~~~~~~gi~~L~~~i~~~ 100 (352)
.+||+++ .|+++++++|.+.
T Consensus 184 ~~Sa~~~--~gi~~l~~~L~~~ 203 (204)
T cd01878 184 FISAKTG--EGLDELLEAIEEL 203 (204)
T ss_pred EEEcCCC--CCHHHHHHHHHhh
Confidence 9999999 9999999988653
No 124
>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=98.60 E-value=3e-07 Score=76.30 Aligned_cols=86 Identities=16% Similarity=0.290 Sum_probs=64.8
Q ss_pred HHHHHHHhhccCEEEEEEcCCCCCCCcCHHHHHHHhCCCCEEEEEEcccCCCccchHHHHHHHHhhcCCCCcEEEeecCC
Q psy15351 5 LKDIEKHLKNVDIVIEVHDSRMPFTGRNHLLQQSVQNIRPMVLVLNKRDLINSKHESLIEEKVRKEQSHISEVIFTNCRN 84 (352)
Q Consensus 5 ~~~~~~~i~~aD~vl~VvDar~p~~~~~~~l~~~l~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~v~~iSa~~ 84 (352)
+++++..+.++|++++|+|++.+....+..+.... .++|+++|+||+|+.+.... .....+. +++.+||++
T Consensus 71 ~~~~~~~~~~~~~~v~v~d~~~~~~~~~~~~~~~~-~~~~vi~v~nK~D~~~~~~~-----~~~~~~~---~~~~~Sa~~ 141 (157)
T cd04164 71 IERAREAIEEADLVLFVIDASRGLDEEDLEILELP-ADKPIIVVLNKSDLLPDSEL-----LSLLAGK---PIIAISAKT 141 (157)
T ss_pred HHHHHHHHhhCCEEEEEEECCCCCCHHHHHHHHhh-cCCCEEEEEEchhcCCcccc-----ccccCCC---ceEEEECCC
Confidence 45567788899999999999987665554444332 57999999999999876533 1112233 499999999
Q ss_pred CCCCCHHHHHHHHHHHh
Q psy15351 85 PNCKGVQKILPTLQHIS 101 (352)
Q Consensus 85 ~~~~gi~~L~~~i~~~~ 101 (352)
+ .|+++|+++|.+.+
T Consensus 142 ~--~~v~~l~~~l~~~~ 156 (157)
T cd04164 142 G--EGLDELKEALLELA 156 (157)
T ss_pred C--CCHHHHHHHHHHhh
Confidence 9 99999999987653
No 125
>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=98.59 E-value=1.5e-07 Score=77.66 Aligned_cols=58 Identities=34% Similarity=0.490 Sum_probs=44.1
Q ss_pred eEEEEeCCCCCChHHHHHHHhCCCCCCCCceecCCCCCceeEeeeeEEecCC--CcEEEEeCCCCC
Q psy15351 169 TTVMVVGVPNVGKSSIINALRSSHMKKGKAVPVGPKAGVTRSVMSQVKISEK--PLIYILDTPGIS 232 (352)
Q Consensus 169 ~~v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~~~pg~T~~~~~~~~~~~~--~~~~l~DtPGi~ 232 (352)
++|+++|.+|+|||||+|++.+ .. ...+..|++|++........++ ..+.++||||..
T Consensus 2 ~ki~~~G~~~~GKstl~~~l~~-----~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~G~~ 61 (161)
T TIGR00231 2 IKIVIVGDPNVGKSTLLNRLLG-----NK-FITEYKPGTTRNYVTTVIEEDGKTYKFNLLDTAGQE 61 (161)
T ss_pred eEEEEECCCCCCHHHHHHHHhC-----CC-CcCcCCCCceeeeeEEEEEECCEEEEEEEEECCCcc
Confidence 6899999999999999999996 23 5667778888876543233333 357889999954
No 126
>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=98.58 E-value=5.3e-07 Score=78.63 Aligned_cols=86 Identities=14% Similarity=0.056 Sum_probs=60.1
Q ss_pred hHHHHHHHHhhccCEEEEEEcCCCCCCCcCHHHHHHHh-CCCC-EEEEEEcccCCCccch-----HHHHHHHHhhcCC--
Q psy15351 3 RGLKDIEKHLKNVDIVIEVHDSRMPFTGRNHLLQQSVQ-NIRP-MVLVLNKRDLINSKHE-----SLIEEKVRKEQSH-- 73 (352)
Q Consensus 3 ~~~~~~~~~i~~aD~vl~VvDar~p~~~~~~~l~~~l~-~~k~-~ilVlNK~Dl~~~~~~-----~~~~~~~~~~~~~-- 73 (352)
+.+..+...+..+|++++|+|+..+.......+..++. .+.| +++++||+|+++.+.. ++..+++++.+++
T Consensus 77 ~~~~~~~~~~~~~D~~ilVvda~~g~~~~~~~~~~~~~~~~~~~iIvviNK~D~~~~~~~~~~~~~~i~~~l~~~g~~~~ 156 (195)
T cd01884 77 DYIKNMITGAAQMDGAILVVSATDGPMPQTREHLLLARQVGVPYIVVFLNKADMVDDEELLELVEMEVRELLSKYGFDGD 156 (195)
T ss_pred HHHHHHHHHhhhCCEEEEEEECCCCCcHHHHHHHHHHHHcCCCcEEEEEeCCCCCCcHHHHHHHHHHHHHHHHHhccccc
Confidence 45677888999999999999999877665555555554 5666 6789999999854332 2233444444432
Q ss_pred CCcEEEeecCCCCCCCH
Q psy15351 74 ISEVIFTNCRNPNCKGV 90 (352)
Q Consensus 74 ~~~v~~iSa~~~~~~gi 90 (352)
..+++++||.++ .+.
T Consensus 157 ~v~iipiSa~~g--~n~ 171 (195)
T cd01884 157 NTPIVRGSALKA--LEG 171 (195)
T ss_pred CCeEEEeeCccc--cCC
Confidence 236999999998 663
No 127
>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=98.58 E-value=1.7e-07 Score=81.90 Aligned_cols=66 Identities=30% Similarity=0.381 Sum_probs=40.9
Q ss_pred ceEEEEeCCCCCChHHHHHHHhCCCCCCCCceecCCCCCceeEeeeeEEecCCCcEEEEeCCCCCCCC
Q psy15351 168 NTTVMVVGVPNVGKSSIINALRSSHMKKGKAVPVGPKAGVTRSVMSQVKISEKPLIYILDTPGISLPR 235 (352)
Q Consensus 168 ~~~v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~~~pg~T~~~~~~~~~~~~~~~~l~DtPGi~~~~ 235 (352)
+++|+++|.+|||||||+|+|++........+.++ ...+|+... .+.......+.++||||+....
T Consensus 1 ~~kI~i~G~~g~GKSSLin~L~g~~~~~~~~~~~~-~~~~t~~~~-~~~~~~~~~l~l~DtpG~~~~~ 66 (197)
T cd04104 1 PLNIAVTGESGAGKSSFINALRGVGHEEEGAAPTG-VVETTMKRT-PYPHPKFPNVTLWDLPGIGSTA 66 (197)
T ss_pred CeEEEEECCCCCCHHHHHHHHhccCCCCCCccccC-ccccccCce-eeecCCCCCceEEeCCCCCccc
Confidence 36899999999999999999997321111111222 122343322 2222223468999999998754
No 128
>PRK12298 obgE GTPase CgtA; Reviewed
Probab=98.57 E-value=3.1e-07 Score=88.37 Aligned_cols=97 Identities=15% Similarity=0.199 Sum_probs=66.0
Q ss_pred HHHHHHhhccCEEEEEEcCCCC----CCCcCHHHHHHHh------CCCCEEEEEEcccCCCccchHHHHHHHHhh-cCCC
Q psy15351 6 KDIEKHLKNVDIVIEVHDSRMP----FTGRNHLLQQSVQ------NIRPMVLVLNKRDLINSKHESLIEEKVRKE-QSHI 74 (352)
Q Consensus 6 ~~~~~~i~~aD~vl~VvDar~p----~~~~~~~l~~~l~------~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~-~~~~ 74 (352)
.++.++++++|++++|+|++.. .......+.+.+. ..+|.++|+||+|+.+.....+.++.+.+. +. .
T Consensus 229 ~~~l~~i~radvlL~VVD~s~~~~~d~~e~~~~l~~eL~~~~~~L~~kP~IlVlNKiDl~~~~el~~~l~~l~~~~~~-~ 307 (390)
T PRK12298 229 IRFLKHLERCRVLLHLIDIAPIDGSDPVENARIIINELEKYSPKLAEKPRWLVFNKIDLLDEEEAEERAKAIVEALGW-E 307 (390)
T ss_pred HHHHHHHHhCCEEEEEeccCcccccChHHHHHHHHHHHHhhhhhhcCCCEEEEEeCCccCChHHHHHHHHHHHHHhCC-C
Confidence 4567789999999999998721 0000112222221 258999999999998765444444444332 21 0
Q ss_pred CcEEEeecCCCCCCCHHHHHHHHHHHhhhcc
Q psy15351 75 SEVIFTNCRNPNCKGVQKILPTLQHISDNMT 105 (352)
Q Consensus 75 ~~v~~iSa~~~~~~gi~~L~~~i~~~~~~~~ 105 (352)
.+++++||+++ .|+++|++.|.+.+++.+
T Consensus 308 ~~Vi~ISA~tg--~GIdeLl~~I~~~L~~~~ 336 (390)
T PRK12298 308 GPVYLISAASG--LGVKELCWDLMTFIEENP 336 (390)
T ss_pred CCEEEEECCCC--cCHHHHHHHHHHHhhhCc
Confidence 14899999999 999999999999887654
No 129
>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=98.57 E-value=1.1e-07 Score=96.18 Aligned_cols=55 Identities=38% Similarity=0.393 Sum_probs=44.8
Q ss_pred CCCCCChHHHHHHHhCCCCCCCCceecCCCCCceeEeeeeEEecCCCcEEEEeCCCCCCCC
Q psy15351 175 GVPNVGKSSIINALRSSHMKKGKAVPVGPKAGVTRSVMSQVKISEKPLIYILDTPGISLPR 235 (352)
Q Consensus 175 G~pnvGKStliN~l~~~~~~~~~~~~~~~~pg~T~~~~~~~~~~~~~~~~l~DtPGi~~~~ 235 (352)
|.||||||||+|+|++ ....+++.||+|.+........++.++.++||||.....
T Consensus 1 G~pNvGKSSL~N~Ltg------~~~~v~n~pG~Tv~~~~~~i~~~~~~i~lvDtPG~~~~~ 55 (591)
T TIGR00437 1 GNPNVGKSTLFNALTG------ANQTVGNWPGVTVEKKEGKLGFQGEDIEIVDLPGIYSLT 55 (591)
T ss_pred CCCCCCHHHHHHHHhC------CCCeecCCCCeEEEEEEEEEEECCeEEEEEECCCccccC
Confidence 8999999999999996 345789999999987654444455679999999998753
No 130
>PTZ00327 eukaryotic translation initiation factor 2 gamma subunit; Provisional
Probab=98.54 E-value=6.7e-07 Score=87.62 Aligned_cols=99 Identities=10% Similarity=0.090 Sum_probs=68.1
Q ss_pred hHHHHHHHHhhccCEEEEEEcCCCC-CCCcCHHHHHHHh--CCCCEEEEEEcccCCCccchHHHHHHHHh----hcCCCC
Q psy15351 3 RGLKDIEKHLKNVDIVIEVHDSRMP-FTGRNHLLQQSVQ--NIRPMVLVLNKRDLINSKHESLIEEKVRK----EQSHIS 75 (352)
Q Consensus 3 ~~~~~~~~~i~~aD~vl~VvDar~p-~~~~~~~l~~~l~--~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~----~~~~~~ 75 (352)
+.++.+...+..+|++++|+|+..+ ......+....+. ..+++++|+||+|+++.+...+..+.+++ ......
T Consensus 129 ~fi~~m~~g~~~~D~alLVVda~~g~~~~qT~ehl~i~~~lgi~~iIVvlNKiDlv~~~~~~~~~~ei~~~l~~~~~~~~ 208 (460)
T PTZ00327 129 ILMATMLNGAAVMDAALLLIAANESCPQPQTSEHLAAVEIMKLKHIIILQNKIDLVKEAQAQDQYEEIRNFVKGTIADNA 208 (460)
T ss_pred HHHHHHHHHHhhCCEEEEEEECCCCccchhhHHHHHHHHHcCCCcEEEEEecccccCHHHHHHHHHHHHHHHHhhccCCC
Confidence 4578888999999999999999975 3332222222222 34578899999999875543333333322 111223
Q ss_pred cEEEeecCCCCCCCHHHHHHHHHHHhhh
Q psy15351 76 EVIFTNCRNPNCKGVQKILPTLQHISDN 103 (352)
Q Consensus 76 ~v~~iSa~~~~~~gi~~L~~~i~~~~~~ 103 (352)
+++++||.++ .|++.|++.|.+.++.
T Consensus 209 ~iipVSA~~G--~nI~~Ll~~L~~~lp~ 234 (460)
T PTZ00327 209 PIIPISAQLK--YNIDVVLEYICTQIPI 234 (460)
T ss_pred eEEEeeCCCC--CCHHHHHHHHHhhCCC
Confidence 6999999999 9999999999876654
No 131
>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=98.51 E-value=1.1e-06 Score=72.44 Aligned_cols=93 Identities=20% Similarity=0.218 Sum_probs=66.2
Q ss_pred HHHHHHhhccCEEEEEEcCCCCCCCcCHHHHHHH-hCCCCEEEEEEcccCCCccchHHHHHHH--HhhcCCCCcEEEeec
Q psy15351 6 KDIEKHLKNVDIVIEVHDSRMPFTGRNHLLQQSV-QNIRPMVLVLNKRDLINSKHESLIEEKV--RKEQSHISEVIFTNC 82 (352)
Q Consensus 6 ~~~~~~i~~aD~vl~VvDar~p~~~~~~~l~~~l-~~~k~~ilVlNK~Dl~~~~~~~~~~~~~--~~~~~~~~~v~~iSa 82 (352)
..+...+..+|++++|+|+..+.......+.... ..+.|+++|+||+|+........+.+.. ........+++.+||
T Consensus 67 ~~~~~~~~~~d~il~v~~~~~~~~~~~~~~~~~~~~~~~~~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~sa 146 (163)
T cd00880 67 ELARRVLERADLILFVVDADLRADEEEEKLLELLRERGKPVLLVLNKIDLLPEEEEEELLELRLLILLLLLGLPVIAVSA 146 (163)
T ss_pred HHHHHHHHhCCEEEEEEeCCCCCCHHHHHHHHHHHhcCCeEEEEEEccccCChhhHHHHHHHHHhhcccccCCceEEEee
Confidence 4566788999999999999987665554422222 2689999999999999876655553211 111112235999999
Q ss_pred CCCCCCCHHHHHHHHHHH
Q psy15351 83 RNPNCKGVQKILPTLQHI 100 (352)
Q Consensus 83 ~~~~~~gi~~L~~~i~~~ 100 (352)
.++ .|++++++++.+.
T Consensus 147 ~~~--~~v~~l~~~l~~~ 162 (163)
T cd00880 147 LTG--EGIDELREALIEA 162 (163)
T ss_pred ecc--CCHHHHHHHHHhh
Confidence 999 9999999988654
No 132
>PRK10512 selenocysteinyl-tRNA-specific translation factor; Provisional
Probab=98.51 E-value=7.6e-07 Score=90.50 Aligned_cols=99 Identities=12% Similarity=0.184 Sum_probs=72.2
Q ss_pred hHHHHHHHHhhccCEEEEEEcCCCCCCCcCHHHHHHHh-CCCC-EEEEEEcccCCCccchH----HHHHHHHhhcCCCCc
Q psy15351 3 RGLKDIEKHLKNVDIVIEVHDSRMPFTGRNHLLQQSVQ-NIRP-MVLVLNKRDLINSKHES----LIEEKVRKEQSHISE 76 (352)
Q Consensus 3 ~~~~~~~~~i~~aD~vl~VvDar~p~~~~~~~l~~~l~-~~k~-~ilVlNK~Dl~~~~~~~----~~~~~~~~~~~~~~~ 76 (352)
+.++.+...+..+|++++|+|++.++.....+...++. .+.| +++|+||+|+++++... ++.+++...+....+
T Consensus 63 ~fi~~m~~g~~~~D~~lLVVda~eg~~~qT~ehl~il~~lgi~~iIVVlNKiDlv~~~~~~~v~~ei~~~l~~~~~~~~~ 142 (614)
T PRK10512 63 KFLSNMLAGVGGIDHALLVVACDDGVMAQTREHLAILQLTGNPMLTVALTKADRVDEARIAEVRRQVKAVLREYGFAEAK 142 (614)
T ss_pred HHHHHHHHHhhcCCEEEEEEECCCCCcHHHHHHHHHHHHcCCCeEEEEEECCccCCHHHHHHHHHHHHHHHHhcCCCCCc
Confidence 45677888899999999999999877665555555554 4556 57999999998754432 333344333432236
Q ss_pred EEEeecCCCCCCCHHHHHHHHHHHhhh
Q psy15351 77 VIFTNCRNPNCKGVQKILPTLQHISDN 103 (352)
Q Consensus 77 v~~iSa~~~~~~gi~~L~~~i~~~~~~ 103 (352)
++++||+++ .|+++|+++|.++...
T Consensus 143 ii~VSA~tG--~gI~~L~~~L~~~~~~ 167 (614)
T PRK10512 143 LFVTAATEG--RGIDALREHLLQLPER 167 (614)
T ss_pred EEEEeCCCC--CCCHHHHHHHHHhhcc
Confidence 999999999 9999999999876554
No 133
>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=98.50 E-value=2.6e-07 Score=77.86 Aligned_cols=57 Identities=28% Similarity=0.492 Sum_probs=39.8
Q ss_pred EEEEeCCCCCChHHHHHHHhCCCCCCCCceecCCCCCceeEeeeeEEec---CCCcEEEEeCCCCC
Q psy15351 170 TVMVVGVPNVGKSSIINALRSSHMKKGKAVPVGPKAGVTRSVMSQVKIS---EKPLIYILDTPGIS 232 (352)
Q Consensus 170 ~v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~~~pg~T~~~~~~~~~~---~~~~~~l~DtPGi~ 232 (352)
.|+++|.+|+|||||+|+|.+. .......+++|.+........ .+..+.++||||..
T Consensus 2 ~i~iiG~~~~GKtsli~~l~~~------~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~iiDtpG~~ 61 (168)
T cd01887 2 VVTVMGHVDHGKTTLLDKIRKT------NVAAGEAGGITQHIGAFEVPAEVLKIPGITFIDTPGHE 61 (168)
T ss_pred EEEEEecCCCCHHHHHHHHHhc------ccccccCCCeEEeeccEEEecccCCcceEEEEeCCCcH
Confidence 4899999999999999999862 223335567776653222222 24578999999974
No 134
>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=98.49 E-value=1.1e-06 Score=73.16 Aligned_cols=82 Identities=18% Similarity=0.236 Sum_probs=58.6
Q ss_pred hccCEEEEEEcCCCCCCCcCHHHHHHHh-CCCCEEEEEEcccCCCccchHHHHHHHHh-hcCCCCcEEEeecCCCCCCCH
Q psy15351 13 KNVDIVIEVHDSRMPFTGRNHLLQQSVQ-NIRPMVLVLNKRDLINSKHESLIEEKVRK-EQSHISEVIFTNCRNPNCKGV 90 (352)
Q Consensus 13 ~~aD~vl~VvDar~p~~~~~~~l~~~l~-~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~-~~~~~~~v~~iSa~~~~~~gi 90 (352)
+.+|++++|+|++.+.. ...+...+. .++|+++|+||+|+.+......+.+.+.+ .+.+ ++.+||.++ .|+
T Consensus 73 ~~~d~vi~v~d~~~~~~--~~~~~~~~~~~~~~~iiv~NK~Dl~~~~~~~~~~~~~~~~~~~~---~~~iSa~~~--~~~ 145 (158)
T cd01879 73 EKPDLIVNVVDATNLER--NLYLTLQLLELGLPVVVALNMIDEAEKRGIKIDLDKLSELLGVP---VVPTSARKG--EGI 145 (158)
T ss_pred CCCcEEEEEeeCCcchh--HHHHHHHHHHcCCCEEEEEehhhhcccccchhhHHHHHHhhCCC---eEEEEccCC--CCH
Confidence 59999999999987532 222322222 67999999999999876543333334433 3554 999999999 999
Q ss_pred HHHHHHHHHHh
Q psy15351 91 QKILPTLQHIS 101 (352)
Q Consensus 91 ~~L~~~i~~~~ 101 (352)
+++++++.+..
T Consensus 146 ~~l~~~l~~~~ 156 (158)
T cd01879 146 DELKDAIAELA 156 (158)
T ss_pred HHHHHHHHHHh
Confidence 99998887653
No 135
>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=98.47 E-value=1.4e-06 Score=73.58 Aligned_cols=82 Identities=23% Similarity=0.250 Sum_probs=55.3
Q ss_pred ccCEEEEEEcCCCCCCCcCH---HHHHHHh---CCCCEEEEEEcccCCCccchHHHHHHHHhhcCCCCcEEEeecCCCCC
Q psy15351 14 NVDIVIEVHDSRMPFTGRNH---LLQQSVQ---NIRPMVLVLNKRDLINSKHESLIEEKVRKEQSHISEVIFTNCRNPNC 87 (352)
Q Consensus 14 ~aD~vl~VvDar~p~~~~~~---~l~~~l~---~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~v~~iSa~~~~~ 87 (352)
.+|++++|+|++++...... .+...++ .+.|+++|+||+|+..........++...... +++.+||+++
T Consensus 79 ~~d~~l~v~d~~~~~~~~~~~~~~~~~~l~~~~~~~pvilv~NK~Dl~~~~~~~~~~~~~~~~~~---~~~~~Sa~~~-- 153 (168)
T cd01897 79 LRAAVLFLFDPSETCGYSLEEQLSLFEEIKPLFKNKPVIVVLNKIDLLTFEDLSEIEEEEELEGE---EVLKISTLTE-- 153 (168)
T ss_pred ccCcEEEEEeCCcccccchHHHHHHHHHHHhhcCcCCeEEEEEccccCchhhHHHHHHhhhhccC---ceEEEEeccc--
Confidence 36899999999876432111 2222232 37899999999999876543332222222233 4899999999
Q ss_pred CCHHHHHHHHHHH
Q psy15351 88 KGVQKILPTLQHI 100 (352)
Q Consensus 88 ~gi~~L~~~i~~~ 100 (352)
.|++++++++.+.
T Consensus 154 ~gi~~l~~~l~~~ 166 (168)
T cd01897 154 EGVDEVKNKACEL 166 (168)
T ss_pred CCHHHHHHHHHHH
Confidence 9999999988754
No 136
>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=98.47 E-value=4.1e-07 Score=76.15 Aligned_cols=56 Identities=23% Similarity=0.294 Sum_probs=38.1
Q ss_pred EEEEeCCCCCChHHHHHHHhCCCCCCCCceecCCCCCceeEeeeeEEecCCC--cEEEEeCCCC
Q psy15351 170 TVMVVGVPNVGKSSIINALRSSHMKKGKAVPVGPKAGVTRSVMSQVKISEKP--LIYILDTPGI 231 (352)
Q Consensus 170 ~v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~~~pg~T~~~~~~~~~~~~~--~~~l~DtPGi 231 (352)
+|+++|.||||||||+|++.+. ....+..|++|.+.........+. .+.++||||-
T Consensus 2 ki~liG~~~~GKSsli~~l~~~------~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~D~~G~ 59 (161)
T cd01861 2 KLVFLGDQSVGKTSIITRFMYD------TFDNQYQATIGIDFLSKTMYLEDKTVRLQLWDTAGQ 59 (161)
T ss_pred EEEEECCCCCCHHHHHHHHHcC------CCCccCCCceeeeEEEEEEEECCEEEEEEEEECCCc
Confidence 6999999999999999999863 223345566665543322112222 4789999994
No 137
>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=98.47 E-value=1.2e-07 Score=83.53 Aligned_cols=63 Identities=24% Similarity=0.312 Sum_probs=43.2
Q ss_pred EEEEeCCCCCChHHHHHHHhCCC--CCCC-----------------------CceecCCCCCceeEeeeeEEecCCCcEE
Q psy15351 170 TVMVVGVPNVGKSSIINALRSSH--MKKG-----------------------KAVPVGPKAGVTRSVMSQVKISEKPLIY 224 (352)
Q Consensus 170 ~v~i~G~pnvGKStliN~l~~~~--~~~~-----------------------~~~~~~~~pg~T~~~~~~~~~~~~~~~~ 224 (352)
+|+++|.+|+|||||+|+|+... +... ........+|+|++.........+.++.
T Consensus 1 ~i~iiG~~~~GKStL~~~Ll~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~e~~rg~T~~~~~~~~~~~~~~~~ 80 (208)
T cd04166 1 RFLTCGSVDDGKSTLIGRLLYDSKSIFEDQLAALESKSCGTGGEPLDLALLVDGLQAEREQGITIDVAYRYFSTPKRKFI 80 (208)
T ss_pred CEEEEECCCCCHHHHHHHHHHHcCCCCHHHHHHHHHHHHhcCCCCcceeeeccCChhhhcCCcCeecceeEEecCCceEE
Confidence 48999999999999999997521 0000 0001112388999887655555667899
Q ss_pred EEeCCCCC
Q psy15351 225 ILDTPGIS 232 (352)
Q Consensus 225 l~DtPGi~ 232 (352)
|+||||..
T Consensus 81 liDTpG~~ 88 (208)
T cd04166 81 IADTPGHE 88 (208)
T ss_pred EEECCcHH
Confidence 99999973
No 138
>PRK05291 trmE tRNA modification GTPase TrmE; Reviewed
Probab=98.47 E-value=6e-07 Score=88.19 Aligned_cols=87 Identities=20% Similarity=0.400 Sum_probs=65.0
Q ss_pred HHHHHHHHhhccCEEEEEEcCCCCCCCcCHHHHHHHhCCCCEEEEEEcccCCCccchHHHHHHHHhhcCCCCcEEEeecC
Q psy15351 4 GLKDIEKHLKNVDIVIEVHDSRMPFTGRNHLLQQSVQNIRPMVLVLNKRDLINSKHESLIEEKVRKEQSHISEVIFTNCR 83 (352)
Q Consensus 4 ~~~~~~~~i~~aD~vl~VvDar~p~~~~~~~l~~~l~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~v~~iSa~ 83 (352)
++++++..+..+|++++|+|+.++.+..+..+.... .++|+++|+||+|+.+..... ...+. +++.+||+
T Consensus 284 gi~~~~~~~~~aD~il~VvD~s~~~s~~~~~~l~~~-~~~piiiV~NK~DL~~~~~~~------~~~~~---~~i~iSAk 353 (449)
T PRK05291 284 GIERSREAIEEADLVLLVLDASEPLTEEDDEILEEL-KDKPVIVVLNKADLTGEIDLE------EENGK---PVIRISAK 353 (449)
T ss_pred HHHHHHHHHHhCCEEEEEecCCCCCChhHHHHHHhc-CCCCcEEEEEhhhccccchhh------hccCC---ceEEEEee
Confidence 456778889999999999999887654432222211 578999999999997654321 12233 48999999
Q ss_pred CCCCCCHHHHHHHHHHHhh
Q psy15351 84 NPNCKGVQKILPTLQHISD 102 (352)
Q Consensus 84 ~~~~~gi~~L~~~i~~~~~ 102 (352)
++ .|+++|++++.+.+.
T Consensus 354 tg--~GI~~L~~~L~~~l~ 370 (449)
T PRK05291 354 TG--EGIDELREAIKELAF 370 (449)
T ss_pred CC--CCHHHHHHHHHHHHh
Confidence 99 999999999987765
No 139
>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=98.47 E-value=3.1e-07 Score=75.71 Aligned_cols=59 Identities=32% Similarity=0.385 Sum_probs=43.8
Q ss_pred EeCCCCCChHHHHHHHhCCCCCCCCceecCCCCCceeEeeeeEEecC-CCcEEEEeCCCCCCCCC
Q psy15351 173 VVGVPNVGKSSIINALRSSHMKKGKAVPVGPKAGVTRSVMSQVKISE-KPLIYILDTPGISLPRI 236 (352)
Q Consensus 173 i~G~pnvGKStliN~l~~~~~~~~~~~~~~~~pg~T~~~~~~~~~~~-~~~~~l~DtPGi~~~~~ 236 (352)
++|.+|+|||||+|+|.+ ......+..+++|........... ...+.++||||+.....
T Consensus 1 i~G~~gsGKstl~~~l~~-----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Dt~g~~~~~~ 60 (163)
T cd00880 1 LFGRTNAGKSSLLNALLG-----QEVAIVSPVPGTTTDPVEYVWELGPLGPVVLIDTPGIDEAGG 60 (163)
T ss_pred CcCCCCCCHHHHHHHHhC-----ccccccCCCCCcEECCeEEEEEecCCCcEEEEECCCCCcccc
Confidence 579999999999999997 334446778888877654332222 45799999999987643
No 140
>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=98.46 E-value=3.6e-07 Score=76.49 Aligned_cols=57 Identities=30% Similarity=0.442 Sum_probs=44.4
Q ss_pred EEEeCCCCCChHHHHHHHhCCCCCCCCceecCCCCCceeEeeeeEEecCCCcEEEEeCCCCCCC
Q psy15351 171 VMVVGVPNVGKSSIINALRSSHMKKGKAVPVGPKAGVTRSVMSQVKISEKPLIYILDTPGISLP 234 (352)
Q Consensus 171 v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~~~pg~T~~~~~~~~~~~~~~~~l~DtPGi~~~ 234 (352)
|+++|.+|+|||||+|+|.+. ......++.+++|.... .+... ..++++||||+...
T Consensus 2 i~l~G~~g~GKTtL~~~l~~~----~~~~~~~~~~~~t~~~~-~~~~~--~~~~~~D~~g~~~~ 58 (170)
T cd01876 2 IAFAGRSNVGKSSLINALTNR----KKLARTSKTPGKTQLIN-FFNVN--DKFRLVDLPGYGYA 58 (170)
T ss_pred EEEEcCCCCCHHHHHHHHhcC----CceeeecCCCCcceeEE-EEEcc--CeEEEecCCCcccc
Confidence 789999999999999999942 34566788888887753 33322 37999999998765
No 141
>PRK12297 obgE GTPase CgtA; Reviewed
Probab=98.46 E-value=8.9e-07 Score=85.82 Aligned_cols=92 Identities=17% Similarity=0.293 Sum_probs=62.1
Q ss_pred HHHHHHhhccCEEEEEEcCCCC-----CCCcCHHHHHHHh------CCCCEEEEEEcccCCCccchHHHHHHHHhhcCCC
Q psy15351 6 KDIEKHLKNVDIVIEVHDSRMP-----FTGRNHLLQQSVQ------NIRPMVLVLNKRDLINSKHESLIEEKVRKEQSHI 74 (352)
Q Consensus 6 ~~~~~~i~~aD~vl~VvDar~p-----~~~~~~~l~~~l~------~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~ 74 (352)
.++.+.++++|++++|+|+... +... ..+.+.+. .++|.++|+||+||.... +.+.++.+..+.
T Consensus 228 ~~fLrhier~~llI~VID~s~~~~~dp~e~~-~~i~~EL~~y~~~L~~kP~IVV~NK~DL~~~~--e~l~~l~~~l~~-- 302 (424)
T PRK12297 228 HQFLRHIERTRVIVHVIDMSGSEGRDPIEDY-EKINKELKLYNPRLLERPQIVVANKMDLPEAE--ENLEEFKEKLGP-- 302 (424)
T ss_pred HHHHHHHhhCCEEEEEEeCCccccCChHHHH-HHHHHHHhhhchhccCCcEEEEEeCCCCcCCH--HHHHHHHHHhCC--
Confidence 4567789999999999999643 1111 11222221 368999999999984332 222222222233
Q ss_pred CcEEEeecCCCCCCCHHHHHHHHHHHhhhcc
Q psy15351 75 SEVIFTNCRNPNCKGVQKILPTLQHISDNMT 105 (352)
Q Consensus 75 ~~v~~iSa~~~~~~gi~~L~~~i~~~~~~~~ 105 (352)
+++++||+++ +|+++|++++.+.+...+
T Consensus 303 -~i~~iSA~tg--eGI~eL~~~L~~~l~~~~ 330 (424)
T PRK12297 303 -KVFPISALTG--QGLDELLYAVAELLEETP 330 (424)
T ss_pred -cEEEEeCCCC--CCHHHHHHHHHHHHHhCc
Confidence 4999999999 999999999988876543
No 142
>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=98.45 E-value=1.9e-07 Score=77.98 Aligned_cols=78 Identities=28% Similarity=0.330 Sum_probs=55.2
Q ss_pred hccCEEEEEEcCCCCCCCcCHHHH-HHHhCCCCEEEEEEcccCCCccchHHHHHHHH-hhcCCCCcEEEeecCCCCCCCH
Q psy15351 13 KNVDIVIEVHDSRMPFTGRNHLLQ-QSVQNIRPMVLVLNKRDLINSKHESLIEEKVR-KEQSHISEVIFTNCRNPNCKGV 90 (352)
Q Consensus 13 ~~aD~vl~VvDar~p~~~~~~~l~-~~l~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~-~~~~~~~~v~~iSa~~~~~~gi 90 (352)
++.|+++.|+||+.. .++..+. +++..++|+++|+||+|++.+....--.+.+. ..+.+ ++++||+++ +|+
T Consensus 77 ~~~D~ii~VvDa~~l--~r~l~l~~ql~e~g~P~vvvlN~~D~a~~~g~~id~~~Ls~~Lg~p---vi~~sa~~~--~g~ 149 (156)
T PF02421_consen 77 EKPDLIIVVVDATNL--ERNLYLTLQLLELGIPVVVVLNKMDEAERKGIEIDAEKLSERLGVP---VIPVSARTG--EGI 149 (156)
T ss_dssp TSSSEEEEEEEGGGH--HHHHHHHHHHHHTTSSEEEEEETHHHHHHTTEEE-HHHHHHHHTS----EEEEBTTTT--BTH
T ss_pred cCCCEEEEECCCCCH--HHHHHHHHHHHHcCCCEEEEEeCHHHHHHcCCEECHHHHHHHhCCC---EEEEEeCCC--cCH
Confidence 789999999999862 3343343 33337899999999999886653211122222 23665 999999999 999
Q ss_pred HHHHHHH
Q psy15351 91 QKILPTL 97 (352)
Q Consensus 91 ~~L~~~i 97 (352)
++|+++|
T Consensus 150 ~~L~~~I 156 (156)
T PF02421_consen 150 DELKDAI 156 (156)
T ss_dssp HHHHHHH
T ss_pred HHHHhhC
Confidence 9998865
No 143
>COG0218 Predicted GTPase [General function prediction only]
Probab=98.45 E-value=2.1e-06 Score=73.74 Aligned_cols=87 Identities=18% Similarity=0.217 Sum_probs=66.8
Q ss_pred ccCEEEEEEcCCCCCCCcCHHHHHHHh-CCCCEEEEEEcccCCCccchHHHHHHHHhh-cCC--CC-cEEEeecCCCCCC
Q psy15351 14 NVDIVIEVHDSRMPFTGRNHLLQQSVQ-NIRPMVLVLNKRDLINSKHESLIEEKVRKE-QSH--IS-EVIFTNCRNPNCK 88 (352)
Q Consensus 14 ~aD~vl~VvDar~p~~~~~~~l~~~l~-~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~-~~~--~~-~v~~iSa~~~~~~ 88 (352)
+...+++|+|+|+++...+.++.+++. .+.|+++|+||+|.++.......+...++. ... .. .++++|+.++ .
T Consensus 106 ~L~~vvlliD~r~~~~~~D~em~~~l~~~~i~~~vv~tK~DKi~~~~~~k~l~~v~~~l~~~~~~~~~~~~~ss~~k--~ 183 (200)
T COG0218 106 NLKGVVLLIDARHPPKDLDREMIEFLLELGIPVIVVLTKADKLKKSERNKQLNKVAEELKKPPPDDQWVVLFSSLKK--K 183 (200)
T ss_pred hheEEEEEEECCCCCcHHHHHHHHHHHHcCCCeEEEEEccccCChhHHHHHHHHHHHHhcCCCCccceEEEEecccc--c
Confidence 456899999999999988888888887 789999999999999876544434444321 211 11 2788899999 9
Q ss_pred CHHHHHHHHHHHhh
Q psy15351 89 GVQKILPTLQHISD 102 (352)
Q Consensus 89 gi~~L~~~i~~~~~ 102 (352)
|++++.+.|.+.+.
T Consensus 184 Gi~~l~~~i~~~~~ 197 (200)
T COG0218 184 GIDELKAKILEWLK 197 (200)
T ss_pred CHHHHHHHHHHHhh
Confidence 99999999887654
No 144
>COG4917 EutP Ethanolamine utilization protein [Amino acid transport and metabolism]
Probab=98.43 E-value=1.3e-06 Score=68.69 Aligned_cols=85 Identities=20% Similarity=0.319 Sum_probs=71.7
Q ss_pred HHHHhhccCEEEEEEcCCCCCCCcCHHHHHHHhCCCCEEEEEEcccCCCccchHHHHHHHHhhcCCCCcEEEeecCCCCC
Q psy15351 8 IEKHLKNVDIVIEVHDSRMPFTGRNHLLQQSVQNIRPMVLVLNKRDLINSKHESLIEEKVRKEQSHISEVIFTNCRNPNC 87 (352)
Q Consensus 8 ~~~~i~~aD~vl~VvDar~p~~~~~~~l~~~l~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~v~~iSa~~~~~ 87 (352)
+.-...++|++++|..+.+|.+...+-+... ..+|+|-|++|+||.....++...+++.+.|.. +|+.+|+.++
T Consensus 58 L~tt~~dadvi~~v~~and~~s~f~p~f~~~--~~k~vIgvVTK~DLaed~dI~~~~~~L~eaGa~--~IF~~s~~d~-- 131 (148)
T COG4917 58 LITTLQDADVIIYVHAANDPESRFPPGFLDI--GVKKVIGVVTKADLAEDADISLVKRWLREAGAE--PIFETSAVDN-- 131 (148)
T ss_pred HHHHhhccceeeeeecccCccccCCcccccc--cccceEEEEecccccchHhHHHHHHHHHHcCCc--ceEEEeccCc--
Confidence 4456789999999999999988888877654 467899999999999766677777888888865 8999999999
Q ss_pred CCHHHHHHHHH
Q psy15351 88 KGVQKILPTLQ 98 (352)
Q Consensus 88 ~gi~~L~~~i~ 98 (352)
.|+++|++.+.
T Consensus 132 ~gv~~l~~~L~ 142 (148)
T COG4917 132 QGVEELVDYLA 142 (148)
T ss_pred ccHHHHHHHHH
Confidence 99999998875
No 145
>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=98.43 E-value=1.4e-06 Score=88.21 Aligned_cols=99 Identities=11% Similarity=0.147 Sum_probs=69.7
Q ss_pred hHHHHHHHHhhccCEEEEEEcCCCCCCCcCHHHHHHHh-CCCC-EEEEEEcccCCCccchH----HHHHHHHhhcCC-CC
Q psy15351 3 RGLKDIEKHLKNVDIVIEVHDSRMPFTGRNHLLQQSVQ-NIRP-MVLVLNKRDLINSKHES----LIEEKVRKEQSH-IS 75 (352)
Q Consensus 3 ~~~~~~~~~i~~aD~vl~VvDar~p~~~~~~~l~~~l~-~~k~-~ilVlNK~Dl~~~~~~~----~~~~~~~~~~~~-~~ 75 (352)
+.++.+...+.++|++++|+|+++++.....+...++. .+.| +++|+||+|+++++... +..+.+...+.. ..
T Consensus 62 ~f~~~~~~g~~~aD~aILVVDa~~G~~~qT~ehl~il~~lgi~~iIVVlNK~Dlv~~~~~~~~~~ei~~~l~~~~~~~~~ 141 (581)
T TIGR00475 62 KFISNAIAGGGGIDAALLVVDADEGVMTQTGEHLAVLDLLGIPHTIVVITKADRVNEEEIKRTEMFMKQILNSYIFLKNA 141 (581)
T ss_pred HHHHHHHhhhccCCEEEEEEECCCCCcHHHHHHHHHHHHcCCCeEEEEEECCCCCCHHHHHHHHHHHHHHHHHhCCCCCC
Confidence 45667778889999999999999865443333333444 5667 99999999998765332 222333332221 12
Q ss_pred cEEEeecCCCCCCCHHHHHHHHHHHhhh
Q psy15351 76 EVIFTNCRNPNCKGVQKILPTLQHISDN 103 (352)
Q Consensus 76 ~v~~iSa~~~~~~gi~~L~~~i~~~~~~ 103 (352)
+++++||+++ .|++++.+.+.++++.
T Consensus 142 ~ii~vSA~tG--~GI~eL~~~L~~l~~~ 167 (581)
T TIGR00475 142 KIFKTSAKTG--QGIGELKKELKNLLES 167 (581)
T ss_pred cEEEEeCCCC--CCchhHHHHHHHHHHh
Confidence 5999999999 9999999998877664
No 146
>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=98.43 E-value=1.1e-06 Score=74.11 Aligned_cols=89 Identities=19% Similarity=0.172 Sum_probs=58.9
Q ss_pred HHHHhhccCEEEEEEcCCCCCCCc--CHHHHHHHh----CCCCEEEEEEcccCCCccchHHHHHHHHhh----cCCCCcE
Q psy15351 8 IEKHLKNVDIVIEVHDSRMPFTGR--NHLLQQSVQ----NIRPMVLVLNKRDLINSKHESLIEEKVRKE----QSHISEV 77 (352)
Q Consensus 8 ~~~~i~~aD~vl~VvDar~p~~~~--~~~l~~~l~----~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~----~~~~~~v 77 (352)
....+..+|++++|+|+.++.... ...+..+++ .+.|+++|+||+|+.+.....+..+++... +....++
T Consensus 67 ~~~~~~~~~~~v~vvd~~~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 146 (167)
T cd04160 67 WDKYYAECHAIIYVIDSTDRERFEESKSALEKVLRNEALEGVPLLILANKQDLPDALSVEEIKEVFQDKAEEIGRRDCLV 146 (167)
T ss_pred HHHHhCCCCEEEEEEECchHHHHHHHHHHHHHHHhChhhcCCCEEEEEEccccccCCCHHHHHHHhccccccccCCceEE
Confidence 445689999999999998653111 112223322 368999999999987654333433433221 1111258
Q ss_pred EEeecCCCCCCCHHHHHHHHH
Q psy15351 78 IFTNCRNPNCKGVQKILPTLQ 98 (352)
Q Consensus 78 ~~iSa~~~~~~gi~~L~~~i~ 98 (352)
+.+||+++ .|+++++++|.
T Consensus 147 ~~~Sa~~g--~gv~e~~~~l~ 165 (167)
T cd04160 147 LPVSALEG--TGVREGIEWLV 165 (167)
T ss_pred EEeeCCCC--cCHHHHHHHHh
Confidence 99999999 99999998875
No 147
>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=98.42 E-value=9.4e-07 Score=73.93 Aligned_cols=88 Identities=20% Similarity=0.161 Sum_probs=57.3
Q ss_pred HHHhhccCEEEEEEcCCCCCCC--cCHHHHHHHh----CCCCEEEEEEcccCCCccchHHHHHHHHhhcCC---CCcEEE
Q psy15351 9 EKHLKNVDIVIEVHDSRMPFTG--RNHLLQQSVQ----NIRPMVLVLNKRDLINSKHESLIEEKVRKEQSH---ISEVIF 79 (352)
Q Consensus 9 ~~~i~~aD~vl~VvDar~p~~~--~~~~l~~~l~----~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~---~~~v~~ 79 (352)
...+..+|++++|+|++++.+. ....+.++++ .+.|+++|+||+|+.......+....+...... ..+++.
T Consensus 62 ~~~~~~~~~iv~v~D~~~~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~i~~~~~~~~~~~~~~~~~~~ 141 (160)
T cd04156 62 KCYLENTDGLVYVVDSSDEARLDESQKELKHILKNEHIKGVPVVLLANKQDLPGALTAEEITRRFKLKKYCSDRDWYVQP 141 (160)
T ss_pred HHHhccCCEEEEEEECCcHHHHHHHHHHHHHHHhchhhcCCCEEEEEECcccccCcCHHHHHHHcCCcccCCCCcEEEEe
Confidence 3468899999999999876421 1223333332 468999999999996543333333332111110 013788
Q ss_pred eecCCCCCCCHHHHHHHHH
Q psy15351 80 TNCRNPNCKGVQKILPTLQ 98 (352)
Q Consensus 80 iSa~~~~~~gi~~L~~~i~ 98 (352)
+||+++ +|+++++++|.
T Consensus 142 ~Sa~~~--~gv~~~~~~i~ 158 (160)
T cd04156 142 CSAVTG--EGLAEAFRKLA 158 (160)
T ss_pred cccccC--CChHHHHHHHh
Confidence 999999 99999998875
No 148
>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=98.42 E-value=5.1e-07 Score=82.77 Aligned_cols=64 Identities=17% Similarity=0.163 Sum_probs=42.3
Q ss_pred EEEEeCCCCCChHHHHHHHhCCCCCCCCcee------------cCCCCCceeEeeeeEEecCCCcEEEEeCCCCCC
Q psy15351 170 TVMVVGVPNVGKSSIINALRSSHMKKGKAVP------------VGPKAGVTRSVMSQVKISEKPLIYILDTPGISL 233 (352)
Q Consensus 170 ~v~i~G~pnvGKStliN~l~~~~~~~~~~~~------------~~~~pg~T~~~~~~~~~~~~~~~~l~DtPGi~~ 233 (352)
+|+++|.+|+|||||+|+|....-...+... .....|+|.+.........+.++.++||||...
T Consensus 1 nv~ivGh~~~GKTtL~~~Ll~~~g~~~~~g~v~~~~~~~D~~~~E~~rgiti~~~~~~~~~~~~~i~liDTPG~~d 76 (270)
T cd01886 1 NIGIIAHIDAGKTTTTERILYYTGRIHKIGEVHGGGATMDFMEQERERGITIQSAATTCFWKDHRINIIDTPGHVD 76 (270)
T ss_pred CEEEEcCCCCCHHHHHHHHHHHcCCCcccccccCCccccCCCccccCCCcCeeccEEEEEECCEEEEEEECCCcHH
Confidence 4899999999999999999732100001111 113557887765444444566899999999764
No 149
>PRK04000 translation initiation factor IF-2 subunit gamma; Validated
Probab=98.41 E-value=2.2e-06 Score=83.31 Aligned_cols=99 Identities=15% Similarity=0.174 Sum_probs=66.1
Q ss_pred hHHHHHHHHhhccCEEEEEEcCCCCC-CCcCHHHHHHHh--CCCCEEEEEEcccCCCccchH----HHHHHHHhhcCCCC
Q psy15351 3 RGLKDIEKHLKNVDIVIEVHDSRMPF-TGRNHLLQQSVQ--NIRPMVLVLNKRDLINSKHES----LIEEKVRKEQSHIS 75 (352)
Q Consensus 3 ~~~~~~~~~i~~aD~vl~VvDar~p~-~~~~~~l~~~l~--~~k~~ilVlNK~Dl~~~~~~~----~~~~~~~~~~~~~~ 75 (352)
+.+..+...+..+|++++|+|++.+. .........++. ..+|+++|+||+|+.+++... ++.+++........
T Consensus 97 ~f~~~~~~~~~~~D~~llVVDa~~~~~~~~t~~~l~~l~~~~i~~iiVVlNK~Dl~~~~~~~~~~~~i~~~l~~~~~~~~ 176 (411)
T PRK04000 97 TLMATMLSGAALMDGAILVIAANEPCPQPQTKEHLMALDIIGIKNIVIVQNKIDLVSKERALENYEQIKEFVKGTVAENA 176 (411)
T ss_pred HHHHHHHHHHhhCCEEEEEEECCCCCCChhHHHHHHHHHHcCCCcEEEEEEeeccccchhHHHHHHHHHHHhccccCCCC
Confidence 34556777788899999999999875 333333333333 345789999999998754322 22222221111112
Q ss_pred cEEEeecCCCCCCCHHHHHHHHHHHhhh
Q psy15351 76 EVIFTNCRNPNCKGVQKILPTLQHISDN 103 (352)
Q Consensus 76 ~v~~iSa~~~~~~gi~~L~~~i~~~~~~ 103 (352)
+++++||+++ .|+++|++.|.+.++.
T Consensus 177 ~ii~vSA~~g--~gI~~L~~~L~~~l~~ 202 (411)
T PRK04000 177 PIIPVSALHK--VNIDALIEAIEEEIPT 202 (411)
T ss_pred eEEEEECCCC--cCHHHHHHHHHHhCCC
Confidence 5899999999 9999999999886653
No 150
>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=98.40 E-value=1.1e-06 Score=74.71 Aligned_cols=95 Identities=15% Similarity=0.025 Sum_probs=61.5
Q ss_pred HHHHhhccCEEEEEEcCCCCCCC--cCHHHHHHHh----CCCCEEEEEEcccCCCccchHHHHHHHHhhcC--C-CCcEE
Q psy15351 8 IEKHLKNVDIVIEVHDSRMPFTG--RNHLLQQSVQ----NIRPMVLVLNKRDLINSKHESLIEEKVRKEQS--H-ISEVI 78 (352)
Q Consensus 8 ~~~~i~~aD~vl~VvDar~p~~~--~~~~l~~~l~----~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~--~-~~~v~ 78 (352)
....+..+|.+++|+|+.++.+. ....+..+++ .+.|+++|.||+|+......++..+++..... . ...++
T Consensus 60 ~~~~~~~ad~ii~V~D~s~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~ 139 (169)
T cd04158 60 WKHYYLNTQAVVFVVDSSHRDRVSEAHSELAKLLTEKELRDALLLIFANKQDVAGALSVEEMTELLSLHKLCCGRSWYIQ 139 (169)
T ss_pred HHHHhccCCEEEEEEeCCcHHHHHHHHHHHHHHhcChhhCCCCEEEEEeCcCcccCCCHHHHHHHhCCccccCCCcEEEE
Confidence 33567899999999999875322 2223333432 24799999999999754333444343321111 0 01366
Q ss_pred EeecCCCCCCCHHHHHHHHHHHhhhc
Q psy15351 79 FTNCRNPNCKGVQKILPTLQHISDNM 104 (352)
Q Consensus 79 ~iSa~~~~~~gi~~L~~~i~~~~~~~ 104 (352)
.+||+++ .|+++++++|.+.+.++
T Consensus 140 ~~Sa~~g--~gv~~~f~~l~~~~~~~ 163 (169)
T cd04158 140 GCDARSG--MGLYEGLDWLSRQLVAA 163 (169)
T ss_pred eCcCCCC--CCHHHHHHHHHHHHhhc
Confidence 7899999 99999999998766543
No 151
>PRK00454 engB GTP-binding protein YsxC; Reviewed
Probab=98.40 E-value=3e-06 Score=73.45 Aligned_cols=88 Identities=17% Similarity=0.245 Sum_probs=63.3
Q ss_pred HhhccCEEEEEEcCCCCCCCcCHHHHHHHh-CCCCEEEEEEcccCCCccchHHHH----HHHHhhcCCCCcEEEeecCCC
Q psy15351 11 HLKNVDIVIEVHDSRMPFTGRNHLLQQSVQ-NIRPMVLVLNKRDLINSKHESLIE----EKVRKEQSHISEVIFTNCRNP 85 (352)
Q Consensus 11 ~i~~aD~vl~VvDar~p~~~~~~~l~~~l~-~~k~~ilVlNK~Dl~~~~~~~~~~----~~~~~~~~~~~~v~~iSa~~~ 85 (352)
..+.++++++|+|++.+....+..+.+++. .+.|+++++||+|+.+........ +.+..... +++++||+++
T Consensus 103 ~~~~~~~~~~v~d~~~~~~~~~~~i~~~l~~~~~~~iiv~nK~Dl~~~~~~~~~~~~i~~~l~~~~~---~~~~~Sa~~~ 179 (196)
T PRK00454 103 TRENLKGVVLLIDSRHPLKELDLQMIEWLKEYGIPVLIVLTKADKLKKGERKKQLKKVRKALKFGDD---EVILFSSLKK 179 (196)
T ss_pred hCccceEEEEEEecCCCCCHHHHHHHHHHHHcCCcEEEEEECcccCCHHHHHHHHHHHHHHHHhcCC---ceEEEEcCCC
Confidence 344568899999998876655545555555 578999999999998764433322 33322223 4899999999
Q ss_pred CCCCHHHHHHHHHHHhhh
Q psy15351 86 NCKGVQKILPTLQHISDN 103 (352)
Q Consensus 86 ~~~gi~~L~~~i~~~~~~ 103 (352)
.|++++++.|.+++.+
T Consensus 180 --~gi~~l~~~i~~~~~~ 195 (196)
T PRK00454 180 --QGIDELRAAIAKWLAE 195 (196)
T ss_pred --CCHHHHHHHHHHHhcC
Confidence 9999999999887653
No 152
>KOG1486|consensus
Probab=98.39 E-value=4.6e-07 Score=79.68 Aligned_cols=62 Identities=26% Similarity=0.341 Sum_probs=54.4
Q ss_pred cceEEEEeCCCCCChHHHHHHHhCCCCCCCCceecCCCCCceeEeeeeEEecCCCcEEEEeCCCCCCC
Q psy15351 167 YNTTVMVVGVPNVGKSSIINALRSSHMKKGKAVPVGPKAGVTRSVMSQVKISEKPLIYILDTPGISLP 234 (352)
Q Consensus 167 ~~~~v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~~~pg~T~~~~~~~~~~~~~~~~l~DtPGi~~~ 234 (352)
..-+|+++|+|.||||||+..++. ..+......+||-..+.++.-.++..+.++|.|||+..
T Consensus 61 GdaRValIGfPSVGKStlLs~iT~------T~SeaA~yeFTTLtcIpGvi~y~ga~IQllDLPGIieG 122 (364)
T KOG1486|consen 61 GDARVALIGFPSVGKSTLLSKITS------THSEAASYEFTTLTCIPGVIHYNGANIQLLDLPGIIEG 122 (364)
T ss_pred CCeEEEEecCCCccHHHHHHHhhc------chhhhhceeeeEEEeecceEEecCceEEEecCcccccc
Confidence 457899999999999999999995 55667788899999888888888889999999999985
No 153
>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=98.39 E-value=1.2e-06 Score=74.71 Aligned_cols=88 Identities=20% Similarity=0.198 Sum_probs=59.0
Q ss_pred HHHhhccCEEEEEEcCCCCCCCc--CHHHHHHHh----CCCCEEEEEEcccCCCccchHHHHHHHHhhc--CCCCcEEEe
Q psy15351 9 EKHLKNVDIVIEVHDSRMPFTGR--NHLLQQSVQ----NIRPMVLVLNKRDLINSKHESLIEEKVRKEQ--SHISEVIFT 80 (352)
Q Consensus 9 ~~~i~~aD~vl~VvDar~p~~~~--~~~l~~~l~----~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~--~~~~~v~~i 80 (352)
...+..+|++++|+|+.++.+.. ...+..++. .+.|+++|+||+|+......++..+.+.... ....+++.+
T Consensus 76 ~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 155 (173)
T cd04154 76 RNYFESTDALIWVVDSSDRLRLDDCKRELKELLQEERLAGATLLILANKQDLPGALSEEEIREALELDKISSHHWRIQPC 155 (173)
T ss_pred HHHhCCCCEEEEEEECCCHHHHHHHHHHHHHHHhChhhcCCCEEEEEECcccccCCCHHHHHHHhCccccCCCceEEEec
Confidence 45678999999999998763211 122333332 4689999999999976544444444442110 011248999
Q ss_pred ecCCCCCCCHHHHHHHHH
Q psy15351 81 NCRNPNCKGVQKILPTLQ 98 (352)
Q Consensus 81 Sa~~~~~~gi~~L~~~i~ 98 (352)
||+++ .|++++++++.
T Consensus 156 Sa~~g--~gi~~l~~~l~ 171 (173)
T cd04154 156 SAVTG--EGLLQGIDWLV 171 (173)
T ss_pred cCCCC--cCHHHHHHHHh
Confidence 99999 99999998874
No 154
>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=98.39 E-value=2.8e-06 Score=82.61 Aligned_cols=98 Identities=15% Similarity=0.189 Sum_probs=65.9
Q ss_pred hHHHHHHHHhhccCEEEEEEcCCCCC-CCcCHHHHHHHh--CCCCEEEEEEcccCCCccchH----HHHHHHHhhcCCCC
Q psy15351 3 RGLKDIEKHLKNVDIVIEVHDSRMPF-TGRNHLLQQSVQ--NIRPMVLVLNKRDLINSKHES----LIEEKVRKEQSHIS 75 (352)
Q Consensus 3 ~~~~~~~~~i~~aD~vl~VvDar~p~-~~~~~~l~~~l~--~~k~~ilVlNK~Dl~~~~~~~----~~~~~~~~~~~~~~ 75 (352)
+..+.+...+..+|++++|+|++.+. .....+...++. ..+++++|+||+|+.+.+... +..+++........
T Consensus 92 ~f~~~~~~g~~~aD~aIlVVDa~~g~~~~qt~e~l~~l~~~gi~~iIVvvNK~Dl~~~~~~~~~~~~i~~~l~~~~~~~~ 171 (406)
T TIGR03680 92 TLMATMLSGAALMDGALLVIAANEPCPQPQTKEHLMALEIIGIKNIVIVQNKIDLVSKEKALENYEEIKEFVKGTVAENA 171 (406)
T ss_pred HHHHHHHHHHHHCCEEEEEEECCCCccccchHHHHHHHHHcCCCeEEEEEEccccCCHHHHHHHHHHHHhhhhhcccCCC
Confidence 34566777888999999999999865 333333333333 346789999999998754322 22222222111112
Q ss_pred cEEEeecCCCCCCCHHHHHHHHHHHhh
Q psy15351 76 EVIFTNCRNPNCKGVQKILPTLQHISD 102 (352)
Q Consensus 76 ~v~~iSa~~~~~~gi~~L~~~i~~~~~ 102 (352)
+++++||+++ .|+++|+++|.+.++
T Consensus 172 ~ii~vSA~~g--~gi~~L~e~L~~~l~ 196 (406)
T TIGR03680 172 PIIPVSALHN--ANIDALLEAIEKFIP 196 (406)
T ss_pred eEEEEECCCC--CChHHHHHHHHHhCC
Confidence 4899999999 999999999988665
No 155
>PTZ00099 rab6; Provisional
Probab=98.39 E-value=4e-06 Score=71.93 Aligned_cols=92 Identities=15% Similarity=0.103 Sum_probs=62.6
Q ss_pred HHHhhccCEEEEEEcCCCCCCCcC--HHHHHHHh---CCCCEEEEEEcccCCCccc--hHHHHHHHHhhcCCCCcEEEee
Q psy15351 9 EKHLKNVDIVIEVHDSRMPFTGRN--HLLQQSVQ---NIRPMVLVLNKRDLINSKH--ESLIEEKVRKEQSHISEVIFTN 81 (352)
Q Consensus 9 ~~~i~~aD~vl~VvDar~p~~~~~--~~l~~~l~---~~k~~ilVlNK~Dl~~~~~--~~~~~~~~~~~~~~~~~v~~iS 81 (352)
...+..||++|+|+|+.++.+..+ ..+..+.+ ...|+++|.||+||..... ..+...+....+.. ++.+|
T Consensus 47 ~~~~~~ad~~ilv~D~t~~~sf~~~~~w~~~i~~~~~~~~piilVgNK~DL~~~~~v~~~e~~~~~~~~~~~---~~e~S 123 (176)
T PTZ00099 47 PSYIRDSAAAIVVYDITNRQSFENTTKWIQDILNERGKDVIIALVGNKTDLGDLRKVTYEEGMQKAQEYNTM---FHETS 123 (176)
T ss_pred HHHhCCCcEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCeEEEEEECcccccccCCCHHHHHHHHHHcCCE---EEEEE
Confidence 346789999999999987533222 22333332 3567899999999964321 23333433333433 77899
Q ss_pred cCCCCCCCHHHHHHHHHHHhhhcc
Q psy15351 82 CRNPNCKGVQKILPTLQHISDNMT 105 (352)
Q Consensus 82 a~~~~~~gi~~L~~~i~~~~~~~~ 105 (352)
|+++ .|+++++++|.+.+++.+
T Consensus 124 Ak~g--~nV~~lf~~l~~~l~~~~ 145 (176)
T PTZ00099 124 AKAG--HNIKVLFKKIAAKLPNLD 145 (176)
T ss_pred CCCC--CCHHHHHHHHHHHHHhcc
Confidence 9999 999999999998887543
No 156
>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=98.39 E-value=1.9e-06 Score=72.45 Aligned_cols=88 Identities=17% Similarity=0.139 Sum_probs=59.5
Q ss_pred HHHhhccCEEEEEEcCCCCCCCcC-HHHHHHHh---CCCCEEEEEEcccCCCccchHHHHHHHHhhcCCCCcEEEeecCC
Q psy15351 9 EKHLKNVDIVIEVHDSRMPFTGRN-HLLQQSVQ---NIRPMVLVLNKRDLINSKHESLIEEKVRKEQSHISEVIFTNCRN 84 (352)
Q Consensus 9 ~~~i~~aD~vl~VvDar~p~~~~~-~~l~~~l~---~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~v~~iSa~~ 84 (352)
...+..+|++++|+|+.++.+..+ ..+...++ .+.|+++|+||+|+.+.. ..+..++....+. +++.+||++
T Consensus 67 ~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~p~ivv~nK~Dl~~~~-~~~~~~~~~~~~~---~~~~~Sa~~ 142 (161)
T cd04124 67 ASYYHKAHACILVFDVTRKITYKNLSKWYEELREYRPEIPCIVVANKIDLDPSV-TQKKFNFAEKHNL---PLYYVSAAD 142 (161)
T ss_pred HHHhCCCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCcEEEEEECccCchhH-HHHHHHHHHHcCC---eEEEEeCCC
Confidence 346889999999999987644322 12222222 368999999999985432 2223333333344 489999999
Q ss_pred CCCCCHHHHHHHHHHHhh
Q psy15351 85 PNCKGVQKILPTLQHISD 102 (352)
Q Consensus 85 ~~~~gi~~L~~~i~~~~~ 102 (352)
+ .|++++++.+.+.+.
T Consensus 143 ~--~gv~~l~~~l~~~~~ 158 (161)
T cd04124 143 G--TNVVKLFQDAIKLAV 158 (161)
T ss_pred C--CCHHHHHHHHHHHHH
Confidence 9 999999998876543
No 157
>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=98.39 E-value=1.3e-06 Score=74.29 Aligned_cols=87 Identities=18% Similarity=0.078 Sum_probs=56.4
Q ss_pred HHhhccCEEEEEEcCCCCCCCc--CHHHHHHHh----CCCCEEEEEEcccCCCccchHHHHHHHHhhcC--CCCcEEEee
Q psy15351 10 KHLKNVDIVIEVHDSRMPFTGR--NHLLQQSVQ----NIRPMVLVLNKRDLINSKHESLIEEKVRKEQS--HISEVIFTN 81 (352)
Q Consensus 10 ~~i~~aD~vl~VvDar~p~~~~--~~~l~~~l~----~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~--~~~~v~~iS 81 (352)
..+..+|++++|+|+.++.+.. ...+.+++. .+.|+++|.||+|+......++..+++..... ..-.++.+|
T Consensus 72 ~~~~~a~~ii~v~D~t~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~~~~~~i~~~~~~~~~~~~~~~~~~~S 151 (168)
T cd04149 72 HYYTGTQGLIFVVDSADRDRIDEARQELHRIINDREMRDALLLVFANKQDLPDAMKPHEIQEKLGLTRIRDRNWYVQPSC 151 (168)
T ss_pred HHhccCCEEEEEEeCCchhhHHHHHHHHHHHhcCHhhcCCcEEEEEECcCCccCCCHHHHHHHcCCCccCCCcEEEEEee
Confidence 4579999999999998763221 122333332 35799999999999753323333333311110 001377899
Q ss_pred cCCCCCCCHHHHHHHHH
Q psy15351 82 CRNPNCKGVQKILPTLQ 98 (352)
Q Consensus 82 a~~~~~~gi~~L~~~i~ 98 (352)
|+++ .|+++++++|.
T Consensus 152 Ak~g--~gv~~~~~~l~ 166 (168)
T cd04149 152 ATSG--DGLYEGLTWLS 166 (168)
T ss_pred CCCC--CChHHHHHHHh
Confidence 9999 99999998875
No 158
>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=98.37 E-value=4.6e-06 Score=70.18 Aligned_cols=90 Identities=14% Similarity=0.123 Sum_probs=59.0
Q ss_pred HHhhccCEEEEEEcCCCCCCCcCHHHHHHHh-CCCCEEEEEEcccCCCccc--hHHHHHHHHhhc---C-CCCcEEEeec
Q psy15351 10 KHLKNVDIVIEVHDSRMPFTGRNHLLQQSVQ-NIRPMVLVLNKRDLINSKH--ESLIEEKVRKEQ---S-HISEVIFTNC 82 (352)
Q Consensus 10 ~~i~~aD~vl~VvDar~p~~~~~~~l~~~l~-~~k~~ilVlNK~Dl~~~~~--~~~~~~~~~~~~---~-~~~~v~~iSa 82 (352)
..+..+|++++|+|+.++..........++. .++|+++|+||+|+..... .......+.... . ...+++.+||
T Consensus 69 ~~~~~~d~il~v~d~~~~~~~~~~~~~~~~~~~~~p~ivv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa 148 (168)
T cd01887 69 RGASLTDIAILVVAADDGVMPQTIEAIKLAKAANVPFIVALNKIDKPNANPERVKNELSELGLQGEDEWGGDVQIVPTSA 148 (168)
T ss_pred HHHhhcCEEEEEEECCCCccHHHHHHHHHHHHcCCCEEEEEEceecccccHHHHHHHHHHhhccccccccCcCcEEEeec
Confidence 4678999999999998765332222233333 6789999999999975432 111111111111 0 0125899999
Q ss_pred CCCCCCCHHHHHHHHHHHh
Q psy15351 83 RNPNCKGVQKILPTLQHIS 101 (352)
Q Consensus 83 ~~~~~~gi~~L~~~i~~~~ 101 (352)
+++ .|++++++++.++.
T Consensus 149 ~~~--~gi~~l~~~l~~~~ 165 (168)
T cd01887 149 KTG--EGIDDLLEAILLLA 165 (168)
T ss_pred ccC--CCHHHHHHHHHHhh
Confidence 999 99999999987654
No 159
>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=98.37 E-value=1.1e-06 Score=74.56 Aligned_cols=89 Identities=19% Similarity=0.305 Sum_probs=59.6
Q ss_pred HHHHHHhhccCEEEEEEcCCCCC-----CCcC--HHHH-HHHh----------CCCCEEEEEEcccCCCccchHHHH--H
Q psy15351 6 KDIEKHLKNVDIVIEVHDSRMPF-----TGRN--HLLQ-QSVQ----------NIRPMVLVLNKRDLINSKHESLIE--E 65 (352)
Q Consensus 6 ~~~~~~i~~aD~vl~VvDar~p~-----~~~~--~~l~-~~l~----------~~k~~ilVlNK~Dl~~~~~~~~~~--~ 65 (352)
+++...+..+|++++|+|+.++. ...+ ..+. .... .++|+++|+||+|+........+. .
T Consensus 66 ~~~~~~~~~~d~ii~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~NK~Dl~~~~~~~~~~~~~ 145 (176)
T cd01881 66 NQFLAHIRRADAILHVVDASEDDDIGGVDPLEDYEILNAELKLYDLETILGLLTAKPVIYVLNKIDLDDAEELEEELVRE 145 (176)
T ss_pred HHHHHHHhccCEEEEEEeccCCccccccCHHHHHHHHHHHHHHhhhhhHHHHHhhCCeEEEEEchhcCchhHHHHHHHHH
Confidence 35566788999999999998763 1111 1111 1110 268999999999998766544442 1
Q ss_pred HHHhhcCCCCcEEEeecCCCCCCCHHHHHHHHHH
Q psy15351 66 KVRKEQSHISEVIFTNCRNPNCKGVQKILPTLQH 99 (352)
Q Consensus 66 ~~~~~~~~~~~v~~iSa~~~~~~gi~~L~~~i~~ 99 (352)
.....+. +++.+||+++ .|++++++++..
T Consensus 146 ~~~~~~~---~~~~~Sa~~~--~gl~~l~~~l~~ 174 (176)
T cd01881 146 LALEEGA---EVVPISAKTE--EGLDELIRAIYE 174 (176)
T ss_pred HhcCCCC---CEEEEehhhh--cCHHHHHHHHHh
Confidence 1111223 4899999999 999999988754
No 160
>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=98.37 E-value=1.7e-06 Score=74.64 Aligned_cols=90 Identities=13% Similarity=0.061 Sum_probs=60.3
Q ss_pred HHHHhhccCEEEEEEcCCCCCCC--cCHHHHHHHh----CCCCEEEEEEcccCCCccchHHHHHHHHhh---------cC
Q psy15351 8 IEKHLKNVDIVIEVHDSRMPFTG--RNHLLQQSVQ----NIRPMVLVLNKRDLINSKHESLIEEKVRKE---------QS 72 (352)
Q Consensus 8 ~~~~i~~aD~vl~VvDar~p~~~--~~~~l~~~l~----~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~---------~~ 72 (352)
....+..+|.+++|+|++++... ....+.++++ .+.|+++|+||+|+......++..+.+.-. +.
T Consensus 78 ~~~~~~~ad~ii~vvD~~~~~~~~~~~~~l~~l~~~~~~~~~piliv~NK~Dl~~~~~~~~i~~~l~l~~~~~~~~~~~~ 157 (184)
T smart00178 78 WKDYFPEVNGIVYLVDAYDKERFAESKRELDALLSDEELATVPFLILGNKIDAPYAASEDELRYALGLTNTTGSKGKVGV 157 (184)
T ss_pred HHHHhCCCCEEEEEEECCcHHHHHHHHHHHHHHHcChhhcCCCEEEEEeCccccCCCCHHHHHHHcCCCcccccccccCC
Confidence 34567899999999999876321 1223333332 478999999999986433334444443100 11
Q ss_pred CCCcEEEeecCCCCCCCHHHHHHHHHH
Q psy15351 73 HISEVIFTNCRNPNCKGVQKILPTLQH 99 (352)
Q Consensus 73 ~~~~v~~iSa~~~~~~gi~~L~~~i~~ 99 (352)
....++.+||+++ .|+++++++|.+
T Consensus 158 ~~~~i~~~Sa~~~--~g~~~~~~wl~~ 182 (184)
T smart00178 158 RPLEVFMCSVVRR--MGYGEGFKWLSQ 182 (184)
T ss_pred ceeEEEEeecccC--CChHHHHHHHHh
Confidence 2235899999999 999999999864
No 161
>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=98.36 E-value=4.9e-07 Score=78.52 Aligned_cols=64 Identities=25% Similarity=0.311 Sum_probs=41.0
Q ss_pred eEEEEeCCCCCChHHHHHHHhCCCC-CCCCceecCCCCCceeEeeee-EEec-------------CCCcEEEEeCCCCC
Q psy15351 169 TTVMVVGVPNVGKSSIINALRSSHM-KKGKAVPVGPKAGVTRSVMSQ-VKIS-------------EKPLIYILDTPGIS 232 (352)
Q Consensus 169 ~~v~i~G~pnvGKStliN~l~~~~~-~~~~~~~~~~~pg~T~~~~~~-~~~~-------------~~~~~~l~DtPGi~ 232 (352)
++|+++|.+|+|||||+|+|++..- ..-........+|+|.+.... ..+. .+..+.++||||..
T Consensus 1 ~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~~~~e~~~g~T~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~DtpG~~ 79 (192)
T cd01889 1 VNVGVLGHVDSGKTSLAKALSEIASTAAFDKNPQSQERGITLDLGFSSFYVDKPKHLRELINPGEENLQITLVDCPGHA 79 (192)
T ss_pred CeEEEEecCCCCHHHHHHHHHhccchhhhccCHHHHHcCCeeeecceEEEecccccccccccccccCceEEEEECCCcH
Confidence 4799999999999999999985200 000112234456777775432 1111 13478999999973
No 162
>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=98.36 E-value=1.8e-06 Score=72.56 Aligned_cols=88 Identities=19% Similarity=0.107 Sum_probs=55.8
Q ss_pred HHHhhccCEEEEEEcCCCCCCC--cCHHHHHHHh----CCCCEEEEEEcccCCCccchHHHHHHHHhhcC--CCCcEEEe
Q psy15351 9 EKHLKNVDIVIEVHDSRMPFTG--RNHLLQQSVQ----NIRPMVLVLNKRDLINSKHESLIEEKVRKEQS--HISEVIFT 80 (352)
Q Consensus 9 ~~~i~~aD~vl~VvDar~p~~~--~~~~l~~~l~----~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~--~~~~v~~i 80 (352)
......+|++++|+|+.++.+. ....+.+.+. ...|+++|.||+|+.+.....+..+.+..... ....++.+
T Consensus 62 ~~~~~~ad~~i~v~D~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~~~~~~i~~~~~~~~~~~~~~~~~~~ 141 (159)
T cd04150 62 RHYFQNTQGLIFVVDSNDRERIGEAREELQRMLNEDELRDAVLLVFANKQDLPNAMSAAEVTDKLGLHSLRNRNWYIQAT 141 (159)
T ss_pred HHHhcCCCEEEEEEeCCCHHHHHHHHHHHHHHHhcHHhcCCCEEEEEECCCCCCCCCHHHHHHHhCccccCCCCEEEEEe
Confidence 3457999999999999865321 1122333332 35899999999999654333333333311100 11135679
Q ss_pred ecCCCCCCCHHHHHHHHH
Q psy15351 81 NCRNPNCKGVQKILPTLQ 98 (352)
Q Consensus 81 Sa~~~~~~gi~~L~~~i~ 98 (352)
||+++ .|+++++++|.
T Consensus 142 Sak~g--~gv~~~~~~l~ 157 (159)
T cd04150 142 CATSG--DGLYEGLDWLS 157 (159)
T ss_pred eCCCC--CCHHHHHHHHh
Confidence 99999 99999998875
No 163
>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=98.36 E-value=2.2e-06 Score=71.68 Aligned_cols=88 Identities=19% Similarity=0.143 Sum_probs=57.6
Q ss_pred HHHhhccCEEEEEEcCCCCCCCc--CHHHHHHHh----CCCCEEEEEEcccCCCccchHHHHHHHHhhcC--CCCcEEEe
Q psy15351 9 EKHLKNVDIVIEVHDSRMPFTGR--NHLLQQSVQ----NIRPMVLVLNKRDLINSKHESLIEEKVRKEQS--HISEVIFT 80 (352)
Q Consensus 9 ~~~i~~aD~vl~VvDar~p~~~~--~~~l~~~l~----~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~--~~~~v~~i 80 (352)
...+..+|++++|+|+.++.... ...+..+++ .++|+++|+||+|+.+.....+..+.+..... ...+++.+
T Consensus 61 ~~~~~~~~~ii~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~piiiv~nK~Dl~~~~~~~~i~~~~~~~~~~~~~~~~~~~ 140 (158)
T cd04151 61 RCYYSNTDAIIYVVDSTDRDRLGTAKEELHAMLEEEELKGAVLLVFANKQDMPGALSEAEISEKLGLSELKDRTWSIFKT 140 (158)
T ss_pred HHHhcCCCEEEEEEECCCHHHHHHHHHHHHHHHhchhhcCCcEEEEEeCCCCCCCCCHHHHHHHhCccccCCCcEEEEEe
Confidence 34689999999999998753211 122333332 36899999999999754433333333311110 00148999
Q ss_pred ecCCCCCCCHHHHHHHHH
Q psy15351 81 NCRNPNCKGVQKILPTLQ 98 (352)
Q Consensus 81 Sa~~~~~~gi~~L~~~i~ 98 (352)
||+++ .|++++++++.
T Consensus 141 Sa~~~--~gi~~l~~~l~ 156 (158)
T cd04151 141 SAIKG--EGLDEGMDWLV 156 (158)
T ss_pred eccCC--CCHHHHHHHHh
Confidence 99999 99999998875
No 164
>PRK11058 GTPase HflX; Provisional
Probab=98.36 E-value=2.8e-06 Score=82.77 Aligned_cols=93 Identities=14% Similarity=0.225 Sum_probs=64.2
Q ss_pred HHHHHHHHhhccCEEEEEEcCCCCCCCcCH-HHHHHHh----CCCCEEEEEEcccCCCccchHHHHHHHHhhcCCCCcEE
Q psy15351 4 GLKDIEKHLKNVDIVIEVHDSRMPFTGRNH-LLQQSVQ----NIRPMVLVLNKRDLINSKHESLIEEKVRKEQSHISEVI 78 (352)
Q Consensus 4 ~~~~~~~~i~~aD~vl~VvDar~p~~~~~~-~l~~~l~----~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~v~ 78 (352)
+++.+.+.+..||++|+|+|+.+|....+. .+.+++. .++|+++|+||+|+.+... ...+.. ..+.+ .++
T Consensus 266 ~f~~tl~~~~~ADlIL~VvDaS~~~~~e~l~~v~~iL~el~~~~~pvIiV~NKiDL~~~~~--~~~~~~-~~~~~--~~v 340 (426)
T PRK11058 266 AFKATLQETRQATLLLHVVDAADVRVQENIEAVNTVLEEIDAHEIPTLLVMNKIDMLDDFE--PRIDRD-EENKP--IRV 340 (426)
T ss_pred HHHHHHHHhhcCCEEEEEEeCCCccHHHHHHHHHHHHHHhccCCCCEEEEEEcccCCCchh--HHHHHH-hcCCC--ceE
Confidence 466677788999999999999987543322 1223332 3689999999999975421 111111 12333 257
Q ss_pred EeecCCCCCCCHHHHHHHHHHHhhh
Q psy15351 79 FTNCRNPNCKGVQKILPTLQHISDN 103 (352)
Q Consensus 79 ~iSa~~~~~~gi~~L~~~i~~~~~~ 103 (352)
.+||+++ .|+++|+++|.+.+..
T Consensus 341 ~ISAktG--~GIdeL~e~I~~~l~~ 363 (426)
T PRK11058 341 WLSAQTG--AGIPLLFQALTERLSG 363 (426)
T ss_pred EEeCCCC--CCHHHHHHHHHHHhhh
Confidence 8999999 9999999999877653
No 165
>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=98.36 E-value=9.4e-07 Score=74.01 Aligned_cols=59 Identities=24% Similarity=0.356 Sum_probs=39.3
Q ss_pred eEEEEeCCCCCChHHHHHHHhCCCCCCCCceecCCCCCceeEeeeeEEecC-CCcEEEEeCCCCC
Q psy15351 169 TTVMVVGVPNVGKSSIINALRSSHMKKGKAVPVGPKAGVTRSVMSQVKISE-KPLIYILDTPGIS 232 (352)
Q Consensus 169 ~~v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~~~pg~T~~~~~~~~~~~-~~~~~l~DtPGi~ 232 (352)
++|+++|.+|||||||+|++.+.. ......+.++.+..... +.... .-.+.++||||..
T Consensus 1 ~ki~v~G~~~~GKSsli~~l~~~~----~~~~~~~~~~~~~~~~~-~~~~~~~~~~~l~D~~g~~ 60 (161)
T cd01863 1 LKILLIGDSGVGKSSLLLRFTDDT----FDPDLAATIGVDFKVKT-LTVDGKKVKLAIWDTAGQE 60 (161)
T ss_pred CEEEEECCCCCCHHHHHHHHHcCC----CCcccCCcccceEEEEE-EEECCEEEEEEEEECCCch
Confidence 479999999999999999999631 12234556665544322 22222 1257899999964
No 166
>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=98.35 E-value=3.6e-06 Score=73.18 Aligned_cols=85 Identities=14% Similarity=0.097 Sum_probs=54.4
Q ss_pred HHHHHHhhccCEEEEEEcCCCCCCCcCHHHHHHHh-CCCCEEEEEEcccCCCccc---hHHHHHHHHhhcCC----CCcE
Q psy15351 6 KDIEKHLKNVDIVIEVHDSRMPFTGRNHLLQQSVQ-NIRPMVLVLNKRDLINSKH---ESLIEEKVRKEQSH----ISEV 77 (352)
Q Consensus 6 ~~~~~~i~~aD~vl~VvDar~p~~~~~~~l~~~l~-~~k~~ilVlNK~Dl~~~~~---~~~~~~~~~~~~~~----~~~v 77 (352)
..+...+..+|++++|+|+++........+...+. .+.|+++|+||+|+..... .+++.+.+...+.. ..++
T Consensus 80 ~~~~~~~~~~d~~ilV~d~~~~~~~~~~~~~~~~~~~~~p~iiv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i 159 (194)
T cd01891 80 GEVERVLSMVDGVLLLVDASEGPMPQTRFVLKKALELGLKPIVVINKIDRPDARPEEVVDEVFDLFIELGATEEQLDFPV 159 (194)
T ss_pred HHHHHHHHhcCEEEEEEECCCCccHHHHHHHHHHHHcCCCEEEEEECCCCCCCCHHHHHHHHHHHHHHhCCccccCccCE
Confidence 44566789999999999998754332223222222 5789999999999975432 33444444322110 1148
Q ss_pred EEeecCCCCCCCHHH
Q psy15351 78 IFTNCRNPNCKGVQK 92 (352)
Q Consensus 78 ~~iSa~~~~~~gi~~ 92 (352)
+++||+++ .|+.+
T Consensus 160 v~~Sa~~g--~~~~~ 172 (194)
T cd01891 160 LYASAKNG--WASLN 172 (194)
T ss_pred EEeehhcc--ccccc
Confidence 99999998 66643
No 167
>KOG1489|consensus
Probab=98.35 E-value=1.4e-06 Score=79.26 Aligned_cols=89 Identities=18% Similarity=0.242 Sum_probs=59.6
Q ss_pred HHHHHhhccCEEEEEEcCCCCCC-----CcC---HHHHHHHh--CCCCEEEEEEcccCCCccchHHHHHHHHhhcCCCCc
Q psy15351 7 DIEKHLKNVDIVIEVHDSRMPFT-----GRN---HLLQQSVQ--NIRPMVLVLNKRDLINSKHESLIEEKVRKEQSHISE 76 (352)
Q Consensus 7 ~~~~~i~~aD~vl~VvDar~p~~-----~~~---~~l~~~l~--~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~ 76 (352)
++.+++++|+++++|+|...+.. ... .+++.|-+ ..+|.++|+||+|+.+.+ +..++.+.+.--. ..
T Consensus 267 ~FLrHiER~~~l~fVvD~s~~~~~~p~~~~~lL~~ELe~yek~L~~rp~liVaNKiD~~eae--~~~l~~L~~~lq~-~~ 343 (366)
T KOG1489|consen 267 KFLRHIERCKGLLFVVDLSGKQLRNPWQQLQLLIEELELYEKGLADRPALIVANKIDLPEAE--KNLLSSLAKRLQN-PH 343 (366)
T ss_pred HHHHHHHhhceEEEEEECCCcccCCHHHHHHHHHHHHHHHhhhhccCceEEEEeccCchhHH--HHHHHHHHHHcCC-Cc
Confidence 47899999999999999976521 111 12222222 578999999999996333 2333333322111 14
Q ss_pred EEEeecCCCCCCCHHHHHHHHHHH
Q psy15351 77 VIFTNCRNPNCKGVQKILPTLQHI 100 (352)
Q Consensus 77 v~~iSa~~~~~~gi~~L~~~i~~~ 100 (352)
|+.+||+++ +|+++|++.+++.
T Consensus 344 V~pvsA~~~--egl~~ll~~lr~~ 365 (366)
T KOG1489|consen 344 VVPVSAKSG--EGLEELLNGLREL 365 (366)
T ss_pred EEEeeeccc--cchHHHHHHHhhc
Confidence 899999999 9999999887653
No 168
>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=98.35 E-value=7.8e-07 Score=73.57 Aligned_cols=58 Identities=22% Similarity=0.322 Sum_probs=36.5
Q ss_pred eEEEEeCCCCCChHHHHHHHhCCCCCCCCcee-cCCCCCceeEeeeeEEec-CCCcEEEEeCCCCC
Q psy15351 169 TTVMVVGVPNVGKSSIINALRSSHMKKGKAVP-VGPKAGVTRSVMSQVKIS-EKPLIYILDTPGIS 232 (352)
Q Consensus 169 ~~v~i~G~pnvGKStliN~l~~~~~~~~~~~~-~~~~pg~T~~~~~~~~~~-~~~~~~l~DtPGi~ 232 (352)
++|+++|.||||||||+|++.+. .... ..++.+.+..... +... ....+.++||||..
T Consensus 1 ~~i~~~G~~~~GKStl~~~l~~~-----~~~~~~~~t~~~~~~~~~-~~~~~~~~~~~l~D~~g~~ 60 (159)
T cd00154 1 FKIVLIGDSGVGKTSLLLRFVDG-----KFDENYKSTIGVDFKSKT-IEIDGKTVKLQIWDTAGQE 60 (159)
T ss_pred CeEEEECCCCCCHHHHHHHHHhC-----cCCCccCCceeeeeEEEE-EEECCEEEEEEEEecCChH
Confidence 47999999999999999999863 2222 2333343333221 1111 12357899999973
No 169
>PRK13768 GTPase; Provisional
Probab=98.35 E-value=2.2e-06 Score=77.89 Aligned_cols=95 Identities=17% Similarity=0.210 Sum_probs=65.4
Q ss_pred HHHHHHhhc--cCEEEEEEcCCCCCCCcCHHHHHHH------hCCCCEEEEEEcccCCCccchHHHHHHHH---------
Q psy15351 6 KDIEKHLKN--VDIVIEVHDSRMPFTGRNHLLQQSV------QNIRPMVLVLNKRDLINSKHESLIEEKVR--------- 68 (352)
Q Consensus 6 ~~~~~~i~~--aD~vl~VvDar~p~~~~~~~l~~~l------~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~--------- 68 (352)
+.+.+.++. ++++++|+|++.+....+.....++ ..++|+++|+||+|+++....+...+++.
T Consensus 118 ~~~~~~l~~~~~~~ii~liD~~~~~~~~d~~~~~~l~~~~~~~~~~~~i~v~nK~D~~~~~~~~~~~~~l~~~~~~~~~l 197 (253)
T PRK13768 118 RKLVERLSGSSKSVVVFLIDAVLAKTPSDFVSLLLLALSVQLRLGLPQIPVLNKADLLSEEELERILKWLEDPEYLLEEL 197 (253)
T ss_pred HHHHHHHHhcCCeEEEEEechHHhCCHHHHHHHHHHHHHHHHHcCCCEEEEEEhHhhcCchhHHHHHHHHhCHHHHHHHH
Confidence 344455555 8999999999876544443332222 25789999999999998765433333222
Q ss_pred -------------------hhcCCCCcEEEeecCCCCCCCHHHHHHHHHHHhhh
Q psy15351 69 -------------------KEQSHISEVIFTNCRNPNCKGVQKILPTLQHISDN 103 (352)
Q Consensus 69 -------------------~~~~~~~~v~~iSa~~~~~~gi~~L~~~i~~~~~~ 103 (352)
+.+ ...+++.+|++++ .|+++|+++|.+.++.
T Consensus 198 ~~~~~~~~~~~~~~~~~i~~~~-~~~~vi~iSa~~~--~gl~~L~~~I~~~l~~ 248 (253)
T PRK13768 198 KLEKGLQGLLSLELLRALEETG-LPVRVIPVSAKTG--EGFDELYAAIQEVFCG 248 (253)
T ss_pred hcccchHHHHHHHHHHHHHHHC-CCCcEEEEECCCC--cCHHHHHHHHHHHcCC
Confidence 212 1125899999999 9999999999988764
No 170
>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=98.34 E-value=2.9e-06 Score=71.70 Aligned_cols=93 Identities=15% Similarity=0.161 Sum_probs=60.6
Q ss_pred HHHHHhhccCEEEEEEcCCCCCCCcC--HHHHHHHh---CCCCEEEEEEcccCCCccch---HHHHHHHHhhcCCCCcEE
Q psy15351 7 DIEKHLKNVDIVIEVHDSRMPFTGRN--HLLQQSVQ---NIRPMVLVLNKRDLINSKHE---SLIEEKVRKEQSHISEVI 78 (352)
Q Consensus 7 ~~~~~i~~aD~vl~VvDar~p~~~~~--~~l~~~l~---~~k~~ilVlNK~Dl~~~~~~---~~~~~~~~~~~~~~~~v~ 78 (352)
.+...+..+|++++|+|+.++.+... ..+...++ .+.|+++|+||+|+.+.... .+....+.+......+++
T Consensus 63 ~~~~~~~~ad~~ilv~d~~~~~s~~~~~~~~~~~i~~~~~~~pviiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~ 142 (166)
T cd01893 63 NLAAEIRKANVICLVYSVDRPSTLERIRTKWLPLIRRLGVKVPIILVGNKSDLRDGSSQAGLEEEMLPIMNEFREIETCV 142 (166)
T ss_pred HHhhhcccCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCCEEEEEEchhcccccchhHHHHHHHHHHHHHhcccEEE
Confidence 34556789999999999987654332 12222222 46899999999999865432 222222211111112588
Q ss_pred EeecCCCCCCCHHHHHHHHHHHh
Q psy15351 79 FTNCRNPNCKGVQKILPTLQHIS 101 (352)
Q Consensus 79 ~iSa~~~~~~gi~~L~~~i~~~~ 101 (352)
.+||+++ .|++++++.+.+.+
T Consensus 143 e~Sa~~~--~~v~~lf~~~~~~~ 163 (166)
T cd01893 143 ECSAKTL--INVSEVFYYAQKAV 163 (166)
T ss_pred Eeccccc--cCHHHHHHHHHHHh
Confidence 9999999 99999999887643
No 171
>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=98.34 E-value=3.2e-06 Score=72.86 Aligned_cols=90 Identities=20% Similarity=0.086 Sum_probs=57.4
Q ss_pred HhhccCEEEEEEcCCCCCCC--cCHHHHHHHh----CCCCEEEEEEcccCCCccchHHHHHHHH--hhcC-CCCcEEEee
Q psy15351 11 HLKNVDIVIEVHDSRMPFTG--RNHLLQQSVQ----NIRPMVLVLNKRDLINSKHESLIEEKVR--KEQS-HISEVIFTN 81 (352)
Q Consensus 11 ~i~~aD~vl~VvDar~p~~~--~~~~l~~~l~----~~k~~ilVlNK~Dl~~~~~~~~~~~~~~--~~~~-~~~~v~~iS 81 (352)
.+..+|++++|+|+.++-.. ....+.++.+ .++|+++|+||+|+......+.+...+. +.+. ...+++.+|
T Consensus 72 ~~~~~d~ii~v~D~~~~~~~~~~~~~~~~i~~~~~~~~~p~iiv~NK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~S 151 (183)
T cd04152 72 YTRCTDGIVFVVDSVDVERMEEAKTELHKITRFSENQGVPVLVLANKQDLPNALSVSEVEKLLALHELSASTPWHVQPAC 151 (183)
T ss_pred HhccCCEEEEEEECCCHHHHHHHHHHHHHHHhhhhcCCCcEEEEEECcCccccCCHHHHHHHhCccccCCCCceEEEEee
Confidence 46789999999999875221 1112222222 4689999999999865322233322221 1111 011478899
Q ss_pred cCCCCCCCHHHHHHHHHHHhh
Q psy15351 82 CRNPNCKGVQKILPTLQHISD 102 (352)
Q Consensus 82 a~~~~~~gi~~L~~~i~~~~~ 102 (352)
|+++ .|+++++++|.+.+.
T Consensus 152 A~~~--~gi~~l~~~l~~~l~ 170 (183)
T cd04152 152 AIIG--EGLQEGLEKLYEMIL 170 (183)
T ss_pred cccC--CCHHHHHHHHHHHHH
Confidence 9999 999999999886664
No 172
>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=98.34 E-value=2e-06 Score=73.45 Aligned_cols=88 Identities=19% Similarity=0.118 Sum_probs=57.1
Q ss_pred HHHhhccCEEEEEEcCCCCCCCc--CHHHHHHHh----CCCCEEEEEEcccCCCccchHHHHHHHHhhcC--CCCcEEEe
Q psy15351 9 EKHLKNVDIVIEVHDSRMPFTGR--NHLLQQSVQ----NIRPMVLVLNKRDLINSKHESLIEEKVRKEQS--HISEVIFT 80 (352)
Q Consensus 9 ~~~i~~aD~vl~VvDar~p~~~~--~~~l~~~l~----~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~--~~~~v~~i 80 (352)
...+..+|++++|+|+.++.... ...+.++++ .+.|+++|+||+|+.......+..+.+..... ..-+++.+
T Consensus 77 ~~~~~~~d~vi~V~D~s~~~~~~~~~~~l~~~~~~~~~~~~p~viv~NK~Dl~~~~~~~~i~~~l~~~~~~~~~~~~~~~ 156 (174)
T cd04153 77 NTYYTNTDAVILVIDSTDRERLPLTKEELYKMLAHEDLRKAVLLVLANKQDLKGAMTPAEISESLGLTSIRDHTWHIQGC 156 (174)
T ss_pred HHHhhcCCEEEEEEECCCHHHHHHHHHHHHHHHhchhhcCCCEEEEEECCCCCCCCCHHHHHHHhCcccccCCceEEEec
Confidence 34578999999999998763221 122334433 35899999999998753323333333311000 00147899
Q ss_pred ecCCCCCCCHHHHHHHHH
Q psy15351 81 NCRNPNCKGVQKILPTLQ 98 (352)
Q Consensus 81 Sa~~~~~~gi~~L~~~i~ 98 (352)
||+++ .|+++++++|.
T Consensus 157 SA~~g--~gi~e~~~~l~ 172 (174)
T cd04153 157 CALTG--EGLPEGLDWIA 172 (174)
T ss_pred ccCCC--CCHHHHHHHHh
Confidence 99999 99999998875
No 173
>KOG1423|consensus
Probab=98.33 E-value=1.9e-06 Score=77.98 Aligned_cols=101 Identities=20% Similarity=0.228 Sum_probs=71.2
Q ss_pred hHHHHHHHHhhccCEEEEEEcCCCCCCCcCHHHHHHHh--CCCCEEEEEEcccCCCccc-----------------hHHH
Q psy15351 3 RGLKDIEKHLKNVDIVIEVHDSRMPFTGRNHLLQQSVQ--NIRPMVLVLNKRDLINSKH-----------------ESLI 63 (352)
Q Consensus 3 ~~~~~~~~~i~~aD~vl~VvDar~p~~~~~~~l~~~l~--~~k~~ilVlNK~Dl~~~~~-----------------~~~~ 63 (352)
..++..|.+++.||+|+.|+|+.++-...++.+.+.++ ...|-++|+||+|...+.. ..+|
T Consensus 144 s~lq~~~~a~q~AD~vvVv~Das~tr~~l~p~vl~~l~~ys~ips~lvmnkid~~k~k~~Ll~l~~~Lt~g~l~~~kl~v 223 (379)
T KOG1423|consen 144 SVLQNPRDAAQNADCVVVVVDASATRTPLHPRVLHMLEEYSKIPSILVMNKIDKLKQKRLLLNLKDLLTNGELAKLKLEV 223 (379)
T ss_pred HhhhCHHHHHhhCCEEEEEEeccCCcCccChHHHHHHHHHhcCCceeeccchhcchhhhHHhhhHHhccccccchhhhhH
Confidence 34556889999999999999998765556664444333 4688899999999765432 1123
Q ss_pred HHHHHhh----------cC-CCCcEEEeecCCCCCCCHHHHHHHHHHHhhhcc
Q psy15351 64 EEKVRKE----------QS-HISEVIFTNCRNPNCKGVQKILPTLQHISDNMT 105 (352)
Q Consensus 64 ~~~~~~~----------~~-~~~~v~~iSa~~~~~~gi~~L~~~i~~~~~~~~ 105 (352)
.+.+... |. .|..||++||++| +|++++.++|....+.++
T Consensus 224 ~~~f~~~p~~~~~~~~~gwshfe~vF~vSaL~G--~GikdlkqyLmsqa~~gp 274 (379)
T KOG1423|consen 224 QEKFTDVPSDEKWRTICGWSHFERVFMVSALYG--EGIKDLKQYLMSQAPPGP 274 (379)
T ss_pred HHHhccCCcccccccccCcccceeEEEEecccc--cCHHHHHHHHHhcCCCCC
Confidence 3333111 11 1457999999999 999999999987776543
No 174
>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=98.33 E-value=7.8e-07 Score=77.80 Aligned_cols=59 Identities=24% Similarity=0.358 Sum_probs=36.3
Q ss_pred eEEEEeCCCCCChHHHHHHHhCCCCCCCCceecCCCCCceeEeeeeEEecCCC--cEEEEeCCCCCC
Q psy15351 169 TTVMVVGVPNVGKSSIINALRSSHMKKGKAVPVGPKAGVTRSVMSQVKISEKP--LIYILDTPGISL 233 (352)
Q Consensus 169 ~~v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~~~pg~T~~~~~~~~~~~~~--~~~l~DtPGi~~ 233 (352)
++|+++|.||||||||+|++.+. .. .....|.++.+.........+. .+.++||||...
T Consensus 1 ~kI~ivG~~~vGKTsLi~~~~~~-----~f-~~~~~pt~~~~~~~~~i~~~~~~~~l~i~Dt~G~~~ 61 (198)
T cd04142 1 VRVAVLGAPGVGKTAIVRQFLAQ-----EF-PEEYIPTEHRRLYRPAVVLSGRVYDLHILDVPNMQR 61 (198)
T ss_pred CEEEEECCCCCcHHHHHHHHHcC-----CC-CcccCCccccccceeEEEECCEEEEEEEEeCCCccc
Confidence 47999999999999999999863 11 1112333332221111112232 467999999864
No 175
>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=98.33 E-value=3.6e-06 Score=70.51 Aligned_cols=88 Identities=22% Similarity=0.187 Sum_probs=59.1
Q ss_pred HHHhhccCEEEEEEcCCCCCCCcC--HHHHHHHh----CCCCEEEEEEcccCCCccc--hHHHHHHHHhhcCCCCcEEEe
Q psy15351 9 EKHLKNVDIVIEVHDSRMPFTGRN--HLLQQSVQ----NIRPMVLVLNKRDLINSKH--ESLIEEKVRKEQSHISEVIFT 80 (352)
Q Consensus 9 ~~~i~~aD~vl~VvDar~p~~~~~--~~l~~~l~----~~k~~ilVlNK~Dl~~~~~--~~~~~~~~~~~~~~~~~v~~i 80 (352)
...+..+|.+++|+|+.++.+... ..+..+.+ .+.|+++|+||+|+.+... ..+..++.+..+.. ++.+
T Consensus 68 ~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~piiiv~NK~Dl~~~~~~~~~~~~~~~~~~~~~---~~~~ 144 (164)
T cd04145 68 EQYMRTGEGFLLVFSVTDRGSFEEVDKFHTQILRVKDRDEFPMILVGNKADLEHQRKVSREEGQELARKLKIP---YIET 144 (164)
T ss_pred HHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCCCEEEEeeCccccccceecHHHHHHHHHHcCCc---EEEe
Confidence 356789999999999987543211 11122222 3679999999999976432 22333333334554 8999
Q ss_pred ecCCCCCCCHHHHHHHHHHHh
Q psy15351 81 NCRNPNCKGVQKILPTLQHIS 101 (352)
Q Consensus 81 Sa~~~~~~gi~~L~~~i~~~~ 101 (352)
||+++ .|++++++++.+.+
T Consensus 145 Sa~~~--~~i~~l~~~l~~~~ 163 (164)
T cd04145 145 SAKDR--LNVDKAFHDLVRVI 163 (164)
T ss_pred eCCCC--CCHHHHHHHHHHhh
Confidence 99999 99999998886543
No 176
>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=98.33 E-value=2.3e-06 Score=73.37 Aligned_cols=76 Identities=18% Similarity=0.285 Sum_probs=53.9
Q ss_pred hccCEEEEEEcCCCCCCCcCHHHHHHHh-CCCCEEEEEEcccCCCccch----HHHHHHHHhhcCCCCcEEEeecCCCCC
Q psy15351 13 KNVDIVIEVHDSRMPFTGRNHLLQQSVQ-NIRPMVLVLNKRDLINSKHE----SLIEEKVRKEQSHISEVIFTNCRNPNC 87 (352)
Q Consensus 13 ~~aD~vl~VvDar~p~~~~~~~l~~~l~-~~k~~ilVlNK~Dl~~~~~~----~~~~~~~~~~~~~~~~v~~iSa~~~~~ 87 (352)
..+|.+++|+|++.++...+..+..++. .++|+++|+||+|+.++... .++.+.+...+. ..+++.+||+++
T Consensus 99 ~~~~~ii~vvd~~~~~~~~~~~~~~~~~~~~~pviiv~nK~D~~~~~~~~~~~~~i~~~l~~~~~-~~~v~~~Sa~~g-- 175 (179)
T TIGR03598 99 ENLKGVVLLMDIRHPLKELDLEMLEWLRERGIPVLIVLTKADKLKKSELNKQLKKIKKALKKDAD-DPSVQLFSSLKK-- 175 (179)
T ss_pred hhhcEEEEEecCCCCCCHHHHHHHHHHHHcCCCEEEEEECcccCCHHHHHHHHHHHHHHHhhccC-CCceEEEECCCC--
Confidence 4568999999999877766655555554 67899999999999865432 334444443321 125999999999
Q ss_pred CCHH
Q psy15351 88 KGVQ 91 (352)
Q Consensus 88 ~gi~ 91 (352)
+|++
T Consensus 176 ~gi~ 179 (179)
T TIGR03598 176 TGID 179 (179)
T ss_pred CCCC
Confidence 8863
No 177
>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=98.33 E-value=2.8e-06 Score=72.67 Aligned_cols=90 Identities=19% Similarity=0.070 Sum_probs=57.1
Q ss_pred HHhhccCEEEEEEcCCCCCCC--cCHHHHHHHh----CCCCEEEEEEcccCCCccchHHHHHHHHhhcC--CCCcEEEee
Q psy15351 10 KHLKNVDIVIEVHDSRMPFTG--RNHLLQQSVQ----NIRPMVLVLNKRDLINSKHESLIEEKVRKEQS--HISEVIFTN 81 (352)
Q Consensus 10 ~~i~~aD~vl~VvDar~p~~~--~~~~l~~~l~----~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~--~~~~v~~iS 81 (352)
..+..+|++|+|+|+.++.+. ....+.+++. .+.|+++|+||+||.......+..+.+.-... ....++.+|
T Consensus 76 ~~~~~ad~ii~v~D~t~~~s~~~~~~~l~~~~~~~~~~~~piilv~NK~Dl~~~~~~~~i~~~~~~~~~~~~~~~~~~~S 155 (175)
T smart00177 76 HYYTNTQGLIFVVDSNDRDRIDEAREELHRMLNEDELRDAVILVFANKQDLPDAMKAAEITEKLGLHSIRDRNWYIQPTC 155 (175)
T ss_pred HHhCCCCEEEEEEECCCHHHHHHHHHHHHHHhhCHhhcCCcEEEEEeCcCcccCCCHHHHHHHhCccccCCCcEEEEEee
Confidence 357999999999999876321 1222333332 35799999999999754322333332210000 101255799
Q ss_pred cCCCCCCCHHHHHHHHHHHh
Q psy15351 82 CRNPNCKGVQKILPTLQHIS 101 (352)
Q Consensus 82 a~~~~~~gi~~L~~~i~~~~ 101 (352)
|+++ .|+++++++|.+.+
T Consensus 156 a~~g--~gv~e~~~~l~~~~ 173 (175)
T smart00177 156 ATSG--DGLYEGLTWLSNNL 173 (175)
T ss_pred CCCC--CCHHHHHHHHHHHh
Confidence 9999 99999999987653
No 178
>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=98.33 E-value=3.2e-06 Score=70.71 Aligned_cols=88 Identities=22% Similarity=0.195 Sum_probs=57.0
Q ss_pred HHHhhccCEEEEEEcCCCCCCCc--CHHHHHHHh------CCCCEEEEEEcccCCCccchHHHHHHHHhh--cCCCCcEE
Q psy15351 9 EKHLKNVDIVIEVHDSRMPFTGR--NHLLQQSVQ------NIRPMVLVLNKRDLINSKHESLIEEKVRKE--QSHISEVI 78 (352)
Q Consensus 9 ~~~i~~aD~vl~VvDar~p~~~~--~~~l~~~l~------~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~--~~~~~~v~ 78 (352)
...+..+|++++|+|++++.+.. ...+..+++ .+.|+++|+||+|+.+.....++.+.+.-. ......++
T Consensus 63 ~~~~~~~d~ii~v~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~iiv~NK~Dl~~~~~~~~~~~~l~~~~~~~~~~~~~ 142 (162)
T cd04157 63 EHYYKNIQGIIFVIDSSDRLRLVVVKDELELLLNHPDIKHRRVPILFFANKMDLPDALTAVKITQLLGLENIKDKPWHIF 142 (162)
T ss_pred HHHHccCCEEEEEEeCCcHHHHHHHHHHHHHHHcCcccccCCCCEEEEEeCccccCCCCHHHHHHHhCCccccCceEEEE
Confidence 34578999999999998764321 122323322 368999999999997654333333332111 00111378
Q ss_pred EeecCCCCCCCHHHHHHHHH
Q psy15351 79 FTNCRNPNCKGVQKILPTLQ 98 (352)
Q Consensus 79 ~iSa~~~~~~gi~~L~~~i~ 98 (352)
.+||+++ .|+++++++|.
T Consensus 143 ~~Sa~~g--~gv~~~~~~l~ 160 (162)
T cd04157 143 ASNALTG--EGLDEGVQWLQ 160 (162)
T ss_pred EeeCCCC--CchHHHHHHHh
Confidence 8999999 99999999875
No 179
>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=98.33 E-value=3.1e-06 Score=74.58 Aligned_cols=87 Identities=15% Similarity=0.058 Sum_probs=56.2
Q ss_pred HHHHHHHhhccCEEEEEEcCCCCCCCcCHHHHHHHh-CC-CCEEEEEEcccCCCccc--h----HHHHHHHHhhcCCCCc
Q psy15351 5 LKDIEKHLKNVDIVIEVHDSRMPFTGRNHLLQQSVQ-NI-RPMVLVLNKRDLINSKH--E----SLIEEKVRKEQSHISE 76 (352)
Q Consensus 5 ~~~~~~~i~~aD~vl~VvDar~p~~~~~~~l~~~l~-~~-k~~ilVlNK~Dl~~~~~--~----~~~~~~~~~~~~~~~~ 76 (352)
...+...+..+|++|+|+|++.++.........++. .+ +++++|+||+|+..... . .+..+.++..+....+
T Consensus 91 ~~~~~~~~~~ad~~llVvD~~~~~~~~~~~~~~~~~~~~~~~iIvviNK~D~~~~~~~~~~~i~~~~~~~~~~~~~~~~~ 170 (208)
T cd04166 91 TRNMVTGASTADLAILLVDARKGVLEQTRRHSYILSLLGIRHVVVAVNKMDLVDYSEEVFEEIVADYLAFAAKLGIEDIT 170 (208)
T ss_pred HHHHHHhhhhCCEEEEEEECCCCccHhHHHHHHHHHHcCCCcEEEEEEchhcccCCHHHHHHHHHHHHHHHHHcCCCCce
Confidence 345666789999999999999876544443333333 34 45677999999975321 1 1222233333433235
Q ss_pred EEEeecCCCCCCCHHHH
Q psy15351 77 VIFTNCRNPNCKGVQKI 93 (352)
Q Consensus 77 v~~iSa~~~~~~gi~~L 93 (352)
++++||+++ .|+.+.
T Consensus 171 ii~iSA~~g--~ni~~~ 185 (208)
T cd04166 171 FIPISALDG--DNVVSR 185 (208)
T ss_pred EEEEeCCCC--CCCccC
Confidence 899999999 887753
No 180
>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=98.32 E-value=1.7e-06 Score=73.88 Aligned_cols=64 Identities=19% Similarity=0.313 Sum_probs=37.5
Q ss_pred EEEEeCCCCCChHHHHHHHhCCC--CCC-CC------ceecCCCCCceeEeeee-EEe----cCCCcEEEEeCCCCCC
Q psy15351 170 TVMVVGVPNVGKSSIINALRSSH--MKK-GK------AVPVGPKAGVTRSVMSQ-VKI----SEKPLIYILDTPGISL 233 (352)
Q Consensus 170 ~v~i~G~pnvGKStliN~l~~~~--~~~-~~------~~~~~~~pg~T~~~~~~-~~~----~~~~~~~l~DtPGi~~ 233 (352)
+|+++|.+|||||||+|+|.+.. +.. .. ........|+|...+.. ... ..+..+.++||||...
T Consensus 2 ni~~vG~~~~GKssL~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~g~t~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~ 79 (179)
T cd01890 2 NFSIIAHIDHGKSTLADRLLELTGTVSKREMKEQVLDSMDLERERGITIKAQTVRLNYKAKDGQEYLLNLIDTPGHVD 79 (179)
T ss_pred cEEEEeecCCCHHHHHHHHHHHhCCCCcCCCceEeccCChhHHHCCCeEecceEEEEEecCCCCcEEEEEEECCCChh
Confidence 58999999999999999998621 000 00 00111234566554321 111 1223577999999865
No 181
>PLN03118 Rab family protein; Provisional
Probab=98.32 E-value=1.3e-06 Score=77.15 Aligned_cols=62 Identities=27% Similarity=0.395 Sum_probs=40.8
Q ss_pred CcceEEEEeCCCCCChHHHHHHHhCCCCCCCCceecCCCCCceeEeeeeEEecCC-CcEEEEeCCCCCC
Q psy15351 166 VYNTTVMVVGVPNVGKSSIINALRSSHMKKGKAVPVGPKAGVTRSVMSQVKISEK-PLIYILDTPGISL 233 (352)
Q Consensus 166 ~~~~~v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~~~pg~T~~~~~~~~~~~~-~~~~l~DtPGi~~ 233 (352)
...++|+++|.+|||||||+|+|.+. ......+..|.+.... .+...+. -.+.++||||...
T Consensus 12 ~~~~kv~ivG~~~vGKTsli~~l~~~-----~~~~~~~t~~~~~~~~-~~~~~~~~~~l~l~Dt~G~~~ 74 (211)
T PLN03118 12 DLSFKILLIGDSGVGKSSLLVSFISS-----SVEDLAPTIGVDFKIK-QLTVGGKRLKLTIWDTAGQER 74 (211)
T ss_pred CcceEEEEECcCCCCHHHHHHHHHhC-----CCCCcCCCceeEEEEE-EEEECCEEEEEEEEECCCchh
Confidence 34689999999999999999999863 2233444444433322 2222221 2578999999643
No 182
>COG0536 Obg Predicted GTPase [General function prediction only]
Probab=98.31 E-value=2e-06 Score=79.05 Aligned_cols=94 Identities=17% Similarity=0.332 Sum_probs=65.1
Q ss_pred HHHHHhhccCEEEEEEcCCCCCCCcC---------HHHHHHHh--CCCCEEEEEEcccCC-CccchHHHHHHHHhhcCCC
Q psy15351 7 DIEKHLKNVDIVIEVHDSRMPFTGRN---------HLLQQSVQ--NIRPMVLVLNKRDLI-NSKHESLIEEKVRKEQSHI 74 (352)
Q Consensus 7 ~~~~~i~~aD~vl~VvDar~p~~~~~---------~~l~~~l~--~~k~~ilVlNK~Dl~-~~~~~~~~~~~~~~~~~~~ 74 (352)
++.++++++.++++|+|... ...++ .++..|-. .+||.++|+||+|+. +.+..+...+++.+....
T Consensus 230 ~FLrHIERt~vL~hviD~s~-~~~~dp~~~~~~i~~EL~~Y~~~L~~K~~ivv~NKiD~~~~~e~~~~~~~~l~~~~~~- 307 (369)
T COG0536 230 RFLRHIERTRVLLHVIDLSP-IDGRDPIEDYQTIRNELEKYSPKLAEKPRIVVLNKIDLPLDEEELEELKKALAEALGW- 307 (369)
T ss_pred HHHHHHHhhheeEEEEecCc-ccCCCHHHHHHHHHHHHHHhhHHhccCceEEEEeccCCCcCHHHHHHHHHHHHHhcCC-
Confidence 57889999999999999862 22122 22333321 589999999999954 445556666666544222
Q ss_pred CcEEEeecCCCCCCCHHHHHHHHHHHhhhc
Q psy15351 75 SEVIFTNCRNPNCKGVQKILPTLQHISDNM 104 (352)
Q Consensus 75 ~~v~~iSa~~~~~~gi~~L~~~i~~~~~~~ 104 (352)
...+++||.++ +|+++|+..+.+++...
T Consensus 308 ~~~~~ISa~t~--~g~~~L~~~~~~~l~~~ 335 (369)
T COG0536 308 EVFYLISALTR--EGLDELLRALAELLEET 335 (369)
T ss_pred Ccceeeehhcc--cCHHHHHHHHHHHHHHh
Confidence 02223999999 99999999998887754
No 183
>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=98.31 E-value=1.3e-06 Score=73.20 Aligned_cols=58 Identities=21% Similarity=0.287 Sum_probs=37.4
Q ss_pred eEEEEeCCCCCChHHHHHHHhCCCCCCCCceecCCCCCceeEeeeeEEecCC-CcEEEEeCCCC
Q psy15351 169 TTVMVVGVPNVGKSSIINALRSSHMKKGKAVPVGPKAGVTRSVMSQVKISEK-PLIYILDTPGI 231 (352)
Q Consensus 169 ~~v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~~~pg~T~~~~~~~~~~~~-~~~~l~DtPGi 231 (352)
++|+++|.+|||||||+|++.+... .....+..|.+.... .+..... -.+.++||||-
T Consensus 2 ~ki~v~G~~~~GKSsli~~l~~~~~----~~~~~~t~~~~~~~~-~v~~~~~~~~~~i~D~~G~ 60 (163)
T cd01860 2 FKLVLLGDSSVGKSSLVLRFVKNEF----SENQESTIGAAFLTQ-TVNLDDTTVKFEIWDTAGQ 60 (163)
T ss_pred eEEEEECCCCCCHHHHHHHHHcCCC----CCCCCCccceeEEEE-EEEECCEEEEEEEEeCCch
Confidence 6899999999999999999997321 122444555433221 1222221 25789999994
No 184
>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=98.31 E-value=1.3e-06 Score=73.91 Aligned_cols=59 Identities=22% Similarity=0.240 Sum_probs=37.3
Q ss_pred ceEEEEeCCCCCChHHHHHHHhCCCCCCCCceecCCCCCceeEeeeeEEecCC-CcEEEEeCCCC
Q psy15351 168 NTTVMVVGVPNVGKSSIINALRSSHMKKGKAVPVGPKAGVTRSVMSQVKISEK-PLIYILDTPGI 231 (352)
Q Consensus 168 ~~~v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~~~pg~T~~~~~~~~~~~~-~~~~l~DtPGi 231 (352)
.++|+++|.||||||||+|++.+.. .........|.+.... .+..... -.+.++||||.
T Consensus 4 ~~ki~vvG~~~vGKSsLl~~l~~~~----~~~~~~~t~~~~~~~~-~~~~~~~~~~~~i~Dt~G~ 63 (168)
T cd01866 4 LFKYIIIGDTGVGKSCLLLQFTDKR----FQPVHDLTIGVEFGAR-MITIDGKQIKLQIWDTAGQ 63 (168)
T ss_pred ceEEEEECCCCCCHHHHHHHHHcCC----CCCCCCCccceeEEEE-EEEECCEEEEEEEEECCCc
Confidence 3789999999999999999999621 1112223334433322 2222221 25789999994
No 185
>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=98.31 E-value=5.5e-06 Score=84.07 Aligned_cols=98 Identities=14% Similarity=0.196 Sum_probs=67.7
Q ss_pred HHHHHHHHhhccCEEEEEEcCCCCCCCcCHH-HHHHHhCCCCEEEEEEcccCCCccchHHHHHHHHh-hcCCCCcEEEee
Q psy15351 4 GLKDIEKHLKNVDIVIEVHDSRMPFTGRNHL-LQQSVQNIRPMVLVLNKRDLINSKHESLIEEKVRK-EQSHISEVIFTN 81 (352)
Q Consensus 4 ~~~~~~~~i~~aD~vl~VvDar~p~~~~~~~-l~~~l~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~-~~~~~~~v~~iS 81 (352)
....+...+..+|.+|+|+|++++....... +...+..+.|+++|+||+|+..... ....+.+.+ .+....+++++|
T Consensus 83 F~~~v~~~l~~aD~aILVvDat~g~~~qt~~~~~~~~~~~ipiIiViNKiDl~~~~~-~~~~~el~~~lg~~~~~vi~vS 161 (595)
T TIGR01393 83 FSYEVSRSLAACEGALLLVDAAQGIEAQTLANVYLALENDLEIIPVINKIDLPSADP-ERVKKEIEEVIGLDASEAILAS 161 (595)
T ss_pred HHHHHHHHHHhCCEEEEEecCCCCCCHhHHHHHHHHHHcCCCEEEEEECcCCCccCH-HHHHHHHHHHhCCCcceEEEee
Confidence 3445667889999999999999876544332 2222335789999999999965332 222222222 233323589999
Q ss_pred cCCCCCCCHHHHHHHHHHHhhhc
Q psy15351 82 CRNPNCKGVQKILPTLQHISDNM 104 (352)
Q Consensus 82 a~~~~~~gi~~L~~~i~~~~~~~ 104 (352)
|+++ .|+++|+++|.+.++..
T Consensus 162 AktG--~GI~~Lle~I~~~lp~p 182 (595)
T TIGR01393 162 AKTG--IGIEEILEAIVKRVPPP 182 (595)
T ss_pred ccCC--CCHHHHHHHHHHhCCCC
Confidence 9999 99999999998887643
No 186
>PRK12317 elongation factor 1-alpha; Reviewed
Probab=98.30 E-value=8.4e-07 Score=86.80 Aligned_cols=67 Identities=24% Similarity=0.296 Sum_probs=47.0
Q ss_pred CcceEEEEeCCCCCChHHHHHHHhCCC--CCCC-------------Cc----eec------CCCCCceeEeeeeEEecCC
Q psy15351 166 VYNTTVMVVGVPNVGKSSIINALRSSH--MKKG-------------KA----VPV------GPKAGVTRSVMSQVKISEK 220 (352)
Q Consensus 166 ~~~~~v~i~G~pnvGKStliN~l~~~~--~~~~-------------~~----~~~------~~~pg~T~~~~~~~~~~~~ 220 (352)
++.++|+++|.+|+|||||+|+|+... +... +. +.+ ...+|+|++.........+
T Consensus 4 k~~~~v~iiGh~d~GKSTL~~~Ll~~~g~i~~~~~~~~~~~~~~~g~~~~~~~~~~D~~~~Er~rG~T~d~~~~~~~~~~ 83 (425)
T PRK12317 4 KPHLNLAVIGHVDHGKSTLVGRLLYETGAIDEHIIEELREEAKEKGKESFKFAWVMDRLKEERERGVTIDLAHKKFETDK 83 (425)
T ss_pred CCEEEEEEECCCCCChHHHHHHHHHHcCCcCHHHHHHHHHHHHhcCCcccchhhhhccCHhHhhcCccceeeeEEEecCC
Confidence 467899999999999999999998421 0000 00 001 1269999998765554556
Q ss_pred CcEEEEeCCCCC
Q psy15351 221 PLIYILDTPGIS 232 (352)
Q Consensus 221 ~~~~l~DtPGi~ 232 (352)
..+.|+||||..
T Consensus 84 ~~i~liDtpG~~ 95 (425)
T PRK12317 84 YYFTIVDCPGHR 95 (425)
T ss_pred eEEEEEECCCcc
Confidence 689999999964
No 187
>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=98.30 E-value=1.5e-06 Score=73.21 Aligned_cols=59 Identities=22% Similarity=0.332 Sum_probs=36.7
Q ss_pred eEEEEeCCCCCChHHHHHHHhCCCCCCCCceecCCCCCceeEeeeeEEecCC-CcEEEEeCCCCC
Q psy15351 169 TTVMVVGVPNVGKSSIINALRSSHMKKGKAVPVGPKAGVTRSVMSQVKISEK-PLIYILDTPGIS 232 (352)
Q Consensus 169 ~~v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~~~pg~T~~~~~~~~~~~~-~~~~l~DtPGi~ 232 (352)
++|+++|.||||||||+|++.+.. ......+..|++.... .+...+. -.+.++||||..
T Consensus 4 ~ki~vvG~~~~GKSsli~~l~~~~----~~~~~~~t~~~~~~~~-~~~~~~~~~~~~l~D~~g~~ 63 (165)
T cd01868 4 FKIVLIGDSGVGKSNLLSRFTRNE----FNLDSKSTIGVEFATR-SIQIDGKTIKAQIWDTAGQE 63 (165)
T ss_pred eEEEEECCCCCCHHHHHHHHhcCC----CCCCCCCccceEEEEE-EEEECCEEEEEEEEeCCChH
Confidence 689999999999999999998631 1122233333322211 2222221 257899999964
No 188
>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=98.29 E-value=1.6e-06 Score=72.87 Aligned_cols=59 Identities=24% Similarity=0.377 Sum_probs=35.3
Q ss_pred eEEEEeCCCCCChHHHHHHHhCCCCCCCCceecCCCCCceeEeeeeEEecC-CCcEEEEeCCCCC
Q psy15351 169 TTVMVVGVPNVGKSSIINALRSSHMKKGKAVPVGPKAGVTRSVMSQVKISE-KPLIYILDTPGIS 232 (352)
Q Consensus 169 ~~v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~~~pg~T~~~~~~~~~~~-~~~~~l~DtPGi~ 232 (352)
++|+++|.||||||||+|++++... .....+..|.+... ..+...+ .-.+.++||||..
T Consensus 1 ~ki~~vG~~~vGKTsli~~l~~~~~----~~~~~~t~~~~~~~-~~~~~~~~~~~l~i~Dt~G~~ 60 (168)
T cd04119 1 IKVISMGNSGVGKSCIIKRYCEGRF----VSKYLPTIGIDYGV-KKVSVRNKEVRVNFFDLSGHP 60 (168)
T ss_pred CEEEEECCCCCCHHHHHHHHHhCCC----CCCCCCccceeEEE-EEEEECCeEEEEEEEECCccH
Confidence 4799999999999999999997321 11222222222111 1122211 1257899999963
No 189
>PRK05433 GTP-binding protein LepA; Provisional
Probab=98.29 E-value=6.5e-06 Score=83.63 Aligned_cols=98 Identities=13% Similarity=0.170 Sum_probs=67.3
Q ss_pred HHHHHHHHhhccCEEEEEEcCCCCCCCcCHHHHH-HHhCCCCEEEEEEcccCCCccchHHHHHHHHh-hcCCCCcEEEee
Q psy15351 4 GLKDIEKHLKNVDIVIEVHDSRMPFTGRNHLLQQ-SVQNIRPMVLVLNKRDLINSKHESLIEEKVRK-EQSHISEVIFTN 81 (352)
Q Consensus 4 ~~~~~~~~i~~aD~vl~VvDar~p~~~~~~~l~~-~l~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~-~~~~~~~v~~iS 81 (352)
....+...+..+|.+|+|+|++.+.......... +...+.|+++|+||+|+..... ....+.+.+ .+....+++++|
T Consensus 87 F~~~v~~sl~~aD~aILVVDas~gv~~qt~~~~~~~~~~~lpiIvViNKiDl~~a~~-~~v~~ei~~~lg~~~~~vi~iS 165 (600)
T PRK05433 87 FSYEVSRSLAACEGALLVVDASQGVEAQTLANVYLALENDLEIIPVLNKIDLPAADP-ERVKQEIEDVIGIDASDAVLVS 165 (600)
T ss_pred HHHHHHHHHHHCCEEEEEEECCCCCCHHHHHHHHHHHHCCCCEEEEEECCCCCcccH-HHHHHHHHHHhCCCcceEEEEe
Confidence 3445667889999999999999876543322222 2225789999999999865432 222222322 233322589999
Q ss_pred cCCCCCCCHHHHHHHHHHHhhhc
Q psy15351 82 CRNPNCKGVQKILPTLQHISDNM 104 (352)
Q Consensus 82 a~~~~~~gi~~L~~~i~~~~~~~ 104 (352)
|+++ .|+.+|+++|.+.++..
T Consensus 166 AktG--~GI~~Ll~~I~~~lp~P 186 (600)
T PRK05433 166 AKTG--IGIEEVLEAIVERIPPP 186 (600)
T ss_pred cCCC--CCHHHHHHHHHHhCccc
Confidence 9999 99999999998887643
No 190
>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=98.29 E-value=8.9e-07 Score=75.95 Aligned_cols=64 Identities=17% Similarity=0.124 Sum_probs=39.3
Q ss_pred EEEEeCCCCCChHHHHHHHhCCCCCCCCcee----------cCCCCCceeEeeeeEEecCCCcEEEEeCCCCCC
Q psy15351 170 TVMVVGVPNVGKSSIINALRSSHMKKGKAVP----------VGPKAGVTRSVMSQVKISEKPLIYILDTPGISL 233 (352)
Q Consensus 170 ~v~i~G~pnvGKStliN~l~~~~~~~~~~~~----------~~~~pg~T~~~~~~~~~~~~~~~~l~DtPGi~~ 233 (352)
+|+++|.+|+|||||+|+|.+.......... ....+|+|..............+.++||||...
T Consensus 1 ~v~v~G~~~~GKStlln~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~~~ 74 (189)
T cd00881 1 NVGIAGHVDHGKTTLTERLLYVTGDIERDGTVEETFLDVLKEERERGITIKSGVATFEWPDRRVNFIDTPGHED 74 (189)
T ss_pred CEEEEeCCCCCHHHHHHHHHHhcCCCCcCCceecccccCCHHHHHcCCCeecceEEEeeCCEEEEEEeCCCcHH
Confidence 4899999999999999999874321111000 112345555543222222344689999999753
No 191
>KOG0410|consensus
Probab=98.29 E-value=3.9e-07 Score=82.96 Aligned_cols=67 Identities=22% Similarity=0.268 Sum_probs=47.7
Q ss_pred ccccCcceEEEEeCCCCCChHHHHHHHhCCCCCCCCceecCCCCCceeEeee-eEEecCCCcEEEEeCCCCCCC
Q psy15351 162 HRTEVYNTTVMVVGVPNVGKSSIINALRSSHMKKGKAVPVGPKAGVTRSVMS-QVKISEKPLIYILDTPGISLP 234 (352)
Q Consensus 162 ~~~~~~~~~v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~~~pg~T~~~~~-~~~~~~~~~~~l~DtPGi~~~ 234 (352)
.+.......|++|||+|+||||||++|++..+ ...+.-+-|-++.. ......+..+.+.||-||++.
T Consensus 172 gr~~~s~pviavVGYTNaGKsTLikaLT~Aal------~p~drLFATLDpT~h~a~Lpsg~~vlltDTvGFisd 239 (410)
T KOG0410|consen 172 GREGESSPVIAVVGYTNAGKSTLIKALTKAAL------YPNDRLFATLDPTLHSAHLPSGNFVLLTDTVGFISD 239 (410)
T ss_pred ccccCCCceEEEEeecCccHHHHHHHHHhhhc------CccchhheeccchhhhccCCCCcEEEEeechhhhhh
Confidence 34455678899999999999999999996333 33334455555432 233455667899999999974
No 192
>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=98.28 E-value=3.6e-06 Score=70.29 Aligned_cols=88 Identities=20% Similarity=0.130 Sum_probs=58.9
Q ss_pred HHHhhccCEEEEEEcCCCCCCCc--CHHHHHHHh----CCCCEEEEEEcccCCCccchHHHHHHHHhh--cCCCCcEEEe
Q psy15351 9 EKHLKNVDIVIEVHDSRMPFTGR--NHLLQQSVQ----NIRPMVLVLNKRDLINSKHESLIEEKVRKE--QSHISEVIFT 80 (352)
Q Consensus 9 ~~~i~~aD~vl~VvDar~p~~~~--~~~l~~~l~----~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~--~~~~~~v~~i 80 (352)
...+..+|++++|+|++.+.... ...+..+.. .+.|+++|+||+|+......++..+.+... .....+++.+
T Consensus 61 ~~~~~~~~~~i~v~D~~~~~~~~~~~~~~~~~~~~~~~~~~piiiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 140 (158)
T cd00878 61 KHYYENTNGIIFVVDSSDRERIEEAKEELHKLLNEEELKGVPLLIFANKQDLPGALSVSELIEKLGLEKILGRRWHIQPC 140 (158)
T ss_pred HHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHhCcccCCCcEEEEeeccCCccccCHHHHHHhhChhhccCCcEEEEEe
Confidence 34668999999999998763211 122223222 368999999999998755444444433221 1112258899
Q ss_pred ecCCCCCCCHHHHHHHHH
Q psy15351 81 NCRNPNCKGVQKILPTLQ 98 (352)
Q Consensus 81 Sa~~~~~~gi~~L~~~i~ 98 (352)
||+++ .|+++++++|.
T Consensus 141 Sa~~~--~gv~~~~~~l~ 156 (158)
T cd00878 141 SAVTG--DGLDEGLDWLL 156 (158)
T ss_pred eCCCC--CCHHHHHHHHh
Confidence 99999 99999998875
No 193
>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=98.27 E-value=5.9e-06 Score=70.57 Aligned_cols=89 Identities=17% Similarity=0.092 Sum_probs=60.1
Q ss_pred HHHHhhccCEEEEEEcCCCCCCCcCH-HHHHHHh-----CCCCEEEEEEcccCCCccc--hHHHHHHHHhhcCCCCcEEE
Q psy15351 8 IEKHLKNVDIVIEVHDSRMPFTGRNH-LLQQSVQ-----NIRPMVLVLNKRDLINSKH--ESLIEEKVRKEQSHISEVIF 79 (352)
Q Consensus 8 ~~~~i~~aD~vl~VvDar~p~~~~~~-~l~~~l~-----~~k~~ilVlNK~Dl~~~~~--~~~~~~~~~~~~~~~~~v~~ 79 (352)
....+.++|++++|.|+.++.+..+. .+...+. .+.|+++|.||+|+.+... .++..++..+.+.+ ++.
T Consensus 80 ~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~v~~~~~~~~~~~~~~~---~~e 156 (180)
T cd04127 80 TTAFFRDAMGFLLIFDLTNEQSFLNVRNWMSQLQTHAYCENPDIVLCGNKADLEDQRQVSEEQAKALADKYGIP---YFE 156 (180)
T ss_pred HHHHhCCCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEeCccchhcCccCHHHHHHHHHHcCCe---EEE
Confidence 34568899999999999875432221 1111111 2568999999999976432 23333344444554 899
Q ss_pred eecCCCCCCCHHHHHHHHHHHh
Q psy15351 80 TNCRNPNCKGVQKILPTLQHIS 101 (352)
Q Consensus 80 iSa~~~~~~gi~~L~~~i~~~~ 101 (352)
+||+++ .|++++++.+.+.+
T Consensus 157 ~Sak~~--~~v~~l~~~l~~~~ 176 (180)
T cd04127 157 TSAATG--TNVEKAVERLLDLV 176 (180)
T ss_pred EeCCCC--CCHHHHHHHHHHHH
Confidence 999999 99999999987643
No 194
>PLN00223 ADP-ribosylation factor; Provisional
Probab=98.27 E-value=4.7e-06 Score=71.72 Aligned_cols=90 Identities=19% Similarity=0.106 Sum_probs=58.1
Q ss_pred HHhhccCEEEEEEcCCCCCCCc--CHHHHHHHh----CCCCEEEEEEcccCCCccchHHHHHHHHhhcCCCC--cEEEee
Q psy15351 10 KHLKNVDIVIEVHDSRMPFTGR--NHLLQQSVQ----NIRPMVLVLNKRDLINSKHESLIEEKVRKEQSHIS--EVIFTN 81 (352)
Q Consensus 10 ~~i~~aD~vl~VvDar~p~~~~--~~~l~~~l~----~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~--~v~~iS 81 (352)
..+..+|++|+|+|+.++.+.. ..++.+++. .+.|+++|+||+|+......++..+.+.-...... .++.+|
T Consensus 80 ~~~~~a~~iI~V~D~s~~~s~~~~~~~l~~~l~~~~~~~~piilv~NK~Dl~~~~~~~~~~~~l~l~~~~~~~~~~~~~S 159 (181)
T PLN00223 80 HYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRQRHWYIQSTC 159 (181)
T ss_pred HHhccCCEEEEEEeCCcHHHHHHHHHHHHHHhcCHhhCCCCEEEEEECCCCCCCCCHHHHHHHhCccccCCCceEEEecc
Confidence 3579999999999998753221 123333332 36899999999999765443444433311111001 144589
Q ss_pred cCCCCCCCHHHHHHHHHHHh
Q psy15351 82 CRNPNCKGVQKILPTLQHIS 101 (352)
Q Consensus 82 a~~~~~~gi~~L~~~i~~~~ 101 (352)
|+++ +|+.+++++|.+.+
T Consensus 160 a~~g--~gv~e~~~~l~~~~ 177 (181)
T PLN00223 160 ATSG--EGLYEGLDWLSNNI 177 (181)
T ss_pred CCCC--CCHHHHHHHHHHHH
Confidence 9999 99999999987654
No 195
>TIGR02836 spore_IV_A stage IV sporulation protein A. A comparative genome analysis of all sequenced genomes of shows a number of proteins conserved strictly among the endospore-forming subset of the Firmicutes. This protein, a member of this panel, is designated stage IV sporulation protein A. It acts in the mother cell compartment and plays a role in spore coat morphogenesis.
Probab=98.27 E-value=1.6e-06 Score=82.15 Aligned_cols=69 Identities=20% Similarity=0.183 Sum_probs=50.1
Q ss_pred cCcceEEEEeCCCCCChHHHHHHHhCCCCCCCCce-----------ecCCCCC---ceeEeee----eEEecCC----Cc
Q psy15351 165 EVYNTTVMVVGVPNVGKSSIINALRSSHMKKGKAV-----------PVGPKAG---VTRSVMS----QVKISEK----PL 222 (352)
Q Consensus 165 ~~~~~~v~i~G~pnvGKStliN~l~~~~~~~~~~~-----------~~~~~pg---~T~~~~~----~~~~~~~----~~ 222 (352)
.+..+.|+++|..|+|||||||++.+.-+-. ..+ .+++.+| ||.++.. .+.+... ..
T Consensus 14 T~G~IyIGvvGpvrtGKSTfIn~fm~q~VlP-~i~~~~~k~Ra~DELpqs~~GktItTTePkfvP~kAvEI~~~~~~~~~ 92 (492)
T TIGR02836 14 TQGDIYIGVVGPVRTGKSTFIKKFMELLVLP-NISNEYDKERAQDELPQSAAGKTIMTTEPKFVPNEAVEININEGTKFK 92 (492)
T ss_pred hCCcEEEEEEcCCCCChHHHHHHHHhhhccc-cccchhHHhHHHhccCcCCCCCCcccCCCccccCcceEEeccCCCccc
Confidence 3567999999999999999999999841100 223 6888999 8887652 2222222 46
Q ss_pred EEEEeCCCCCCC
Q psy15351 223 IYILDTPGISLP 234 (352)
Q Consensus 223 ~~l~DtPGi~~~ 234 (352)
+.|+||+|+...
T Consensus 93 VrlIDcvG~~v~ 104 (492)
T TIGR02836 93 VRLVDCVGYTVK 104 (492)
T ss_pred EEEEECCCcccC
Confidence 999999999875
No 196
>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=98.27 E-value=5.6e-06 Score=69.48 Aligned_cols=86 Identities=19% Similarity=0.116 Sum_probs=58.0
Q ss_pred HHHHhhccCEEEEEEcCCCCCCCcCHHHHHHH---h---CCCCEEEEEEcccCCCccchHH-HHHHHH-hhcCCCCcEEE
Q psy15351 8 IEKHLKNVDIVIEVHDSRMPFTGRNHLLQQSV---Q---NIRPMVLVLNKRDLINSKHESL-IEEKVR-KEQSHISEVIF 79 (352)
Q Consensus 8 ~~~~i~~aD~vl~VvDar~p~~~~~~~l~~~l---~---~~k~~ilVlNK~Dl~~~~~~~~-~~~~~~-~~~~~~~~v~~ 79 (352)
....+.++|++++|+|.+++.+.. .+..++ . .+.|+++|.||+|+.+...... ..+.+. ..+.. ++.
T Consensus 69 ~~~~~~~~d~ii~v~d~~~~~s~~--~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~---~~~ 143 (164)
T cd04101 69 VSNYWESPSVFILVYDVSNKASFE--NCSRWVNKVRTASKHMPGVLVGNKMDLADKAEVTDAQAQAFAQANQLK---FFK 143 (164)
T ss_pred HHHHhCCCCEEEEEEECcCHHHHH--HHHHHHHHHHHhCCCCCEEEEEECcccccccCCCHHHHHHHHHHcCCe---EEE
Confidence 356778999999999998653221 122222 1 3589999999999976543221 112222 23443 889
Q ss_pred eecCCCCCCCHHHHHHHHHHH
Q psy15351 80 TNCRNPNCKGVQKILPTLQHI 100 (352)
Q Consensus 80 iSa~~~~~~gi~~L~~~i~~~ 100 (352)
+||+++ .|++++++.+.+.
T Consensus 144 ~Sa~~~--~gi~~l~~~l~~~ 162 (164)
T cd04101 144 TSALRG--VGYEEPFESLARA 162 (164)
T ss_pred EeCCCC--CChHHHHHHHHHH
Confidence 999999 9999999888654
No 197
>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=98.27 E-value=2e-06 Score=72.94 Aligned_cols=58 Identities=19% Similarity=0.377 Sum_probs=40.6
Q ss_pred CcceEEEEeCCCCCChHHHHHHHhCCCCCCCCceecCCCCCceeEeeeeEEecCCCcEEEEeCCCCC
Q psy15351 166 VYNTTVMVVGVPNVGKSSIINALRSSHMKKGKAVPVGPKAGVTRSVMSQVKISEKPLIYILDTPGIS 232 (352)
Q Consensus 166 ~~~~~v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~~~pg~T~~~~~~~~~~~~~~~~l~DtPGi~ 232 (352)
...++|+++|.+|||||||+|++.+. ......+..|.+.... .. .+..+.++||||..
T Consensus 12 ~~~~~v~i~G~~g~GKStLl~~l~~~-----~~~~~~~t~g~~~~~i---~~-~~~~~~~~D~~G~~ 69 (173)
T cd04155 12 SEEPRILILGLDNAGKTTILKQLASE-----DISHITPTQGFNIKTV---QS-DGFKLNVWDIGGQR 69 (173)
T ss_pred CCccEEEEEccCCCCHHHHHHHHhcC-----CCcccCCCCCcceEEE---EE-CCEEEEEEECCCCH
Confidence 44789999999999999999999973 2223444555444322 12 24568899999964
No 198
>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=98.27 E-value=3.6e-06 Score=72.70 Aligned_cols=90 Identities=17% Similarity=0.147 Sum_probs=59.4
Q ss_pred HHHhhccCEEEEEEcCCCCCCC--cCHHHHHHHh----CCCCEEEEEEcccCCCccchHHHHHHHHhhc-----------
Q psy15351 9 EKHLKNVDIVIEVHDSRMPFTG--RNHLLQQSVQ----NIRPMVLVLNKRDLINSKHESLIEEKVRKEQ----------- 71 (352)
Q Consensus 9 ~~~i~~aD~vl~VvDar~p~~~--~~~~l~~~l~----~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~----------- 71 (352)
...+..+|.+++|+|++++-+. ....+...++ .+.|+++|+||+|+......++..+++....
T Consensus 81 ~~~~~~ad~iilV~D~~~~~s~~~~~~~~~~i~~~~~~~~~pvivv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 160 (190)
T cd00879 81 KDYFPEVDGIVFLVDAADPERFQESKEELDSLLSDEELANVPFLILGNKIDLPGAVSEEELRQALGLYGTTTGKGVSLKV 160 (190)
T ss_pred HHHhccCCEEEEEEECCcHHHHHHHHHHHHHHHcCccccCCCEEEEEeCCCCCCCcCHHHHHHHhCcccccccccccccc
Confidence 4567899999999999865221 1123333332 3589999999999975433344444442110
Q ss_pred --CCCCcEEEeecCCCCCCCHHHHHHHHHHH
Q psy15351 72 --SHISEVIFTNCRNPNCKGVQKILPTLQHI 100 (352)
Q Consensus 72 --~~~~~v~~iSa~~~~~~gi~~L~~~i~~~ 100 (352)
....+++.+||+++ +|+++++++|.+.
T Consensus 161 ~~~~~~~~~~~Sa~~~--~gv~e~~~~l~~~ 189 (190)
T cd00879 161 SGIRPIEVFMCSVVKR--QGYGEAFRWLSQY 189 (190)
T ss_pred cCceeEEEEEeEecCC--CChHHHHHHHHhh
Confidence 01114788999999 9999999998754
No 199
>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=98.26 E-value=2.4e-06 Score=72.61 Aligned_cols=88 Identities=17% Similarity=0.122 Sum_probs=57.2
Q ss_pred HHhhccCEEEEEEcCCCCCCCcC-HHHHHHHh--CCCCEEEEEEcccCCCccch--HHHHHHHHhhcCCCCcEEEeecCC
Q psy15351 10 KHLKNVDIVIEVHDSRMPFTGRN-HLLQQSVQ--NIRPMVLVLNKRDLINSKHE--SLIEEKVRKEQSHISEVIFTNCRN 84 (352)
Q Consensus 10 ~~i~~aD~vl~VvDar~p~~~~~-~~l~~~l~--~~k~~ilVlNK~Dl~~~~~~--~~~~~~~~~~~~~~~~v~~iSa~~ 84 (352)
..+.++|++++|+|+.++.+... ..+.+.+. .+.|+++|+||+|+.+.... .+..++.+..+.. .++.+||++
T Consensus 73 ~~~~~~d~~llv~d~~~~~s~~~~~~~~~~~~~~~~~p~iiv~NK~Dl~~~~~~~~~~~~~~~~~~~~~--~~~~~Sa~~ 150 (169)
T cd01892 73 AELAACDVACLVYDSSDPKSFSYCAEVYKKYFMLGEIPCLFVAAKADLDEQQQRYEVQPDEFCRKLGLP--PPLHFSSKL 150 (169)
T ss_pred hhhhcCCEEEEEEeCCCHHHHHHHHHHHHHhccCCCCeEEEEEEcccccccccccccCHHHHHHHcCCC--CCEEEEecc
Confidence 34689999999999987632111 12222221 36899999999999754321 1112222233432 368899999
Q ss_pred CCCCCHHHHHHHHHHHh
Q psy15351 85 PNCKGVQKILPTLQHIS 101 (352)
Q Consensus 85 ~~~~gi~~L~~~i~~~~ 101 (352)
+ .|++++++.+.+.+
T Consensus 151 ~--~~v~~lf~~l~~~~ 165 (169)
T cd01892 151 G--DSSNELFTKLATAA 165 (169)
T ss_pred C--ccHHHHHHHHHHHh
Confidence 9 99999999887654
No 200
>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=98.26 E-value=1.4e-06 Score=73.49 Aligned_cols=62 Identities=18% Similarity=0.181 Sum_probs=36.7
Q ss_pred EEEEeCCCCCChHHHHHHHhCCCCCCCCceecCCCCCceeEeeeeEEecCCCcEEEEeCCCCCC
Q psy15351 170 TVMVVGVPNVGKSSIINALRSSHMKKGKAVPVGPKAGVTRSVMSQVKISEKPLIYILDTPGISL 233 (352)
Q Consensus 170 ~v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~~~pg~T~~~~~~~~~~~~~~~~l~DtPGi~~ 233 (352)
+|+++|.+|||||||+|+|.+.... ........+.+|...........+..+.++||||...
T Consensus 1 ~i~~vG~~~~GKstLi~~l~~~~~~--~~~~~~~~~~~t~~~~~~~~~~~~~~~~l~Dt~G~~~ 62 (167)
T cd04160 1 SVLILGLDNAGKTTFLEQLKTLFSK--YKGLPPSKITPTVGLNIGTIEVGNARLKFWDLGGQES 62 (167)
T ss_pred CEEEEecCCCCHHHHHHHHhhhccc--ccCCcccccCCccccceEEEEECCEEEEEEECCCChh
Confidence 4889999999999999999852110 0011112223333322222222355789999999753
No 201
>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=98.26 E-value=1.5e-06 Score=75.85 Aligned_cols=65 Identities=22% Similarity=0.282 Sum_probs=44.0
Q ss_pred ceEEEEeCCCCCChHHHHHHHhCCCCCCC-C---------ceecCCCCCceeEeeeeEEecCCCcEEEEeCCCCC
Q psy15351 168 NTTVMVVGVPNVGKSSIINALRSSHMKKG-K---------AVPVGPKAGVTRSVMSQVKISEKPLIYILDTPGIS 232 (352)
Q Consensus 168 ~~~v~i~G~pnvGKStliN~l~~~~~~~~-~---------~~~~~~~pg~T~~~~~~~~~~~~~~~~l~DtPGi~ 232 (352)
.++|+++|.+++|||||+++|+....... . ........|+|.+.........+.++.|+||||..
T Consensus 2 ~~ni~iiGh~~~GKTTL~~~Ll~~~~~~g~~~~~~~~~~d~~~~E~~rg~Ti~~~~~~~~~~~~~i~~iDtPG~~ 76 (195)
T cd01884 2 HVNVGTIGHVDHGKTTLTAAITKVLAKKGGAKFKKYDEIDKAPEEKARGITINTAHVEYETANRHYAHVDCPGHA 76 (195)
T ss_pred cEEEEEECCCCCCHHHHHHHHHHHHHhcccccccccccccCChhhhhcCccEEeeeeEecCCCeEEEEEECcCHH
Confidence 47899999999999999999985310000 0 00112267888887543333455679999999975
No 202
>smart00175 RAB Rab subfamily of small GTPases. Rab GTPases are implicated in vesicle trafficking.
Probab=98.25 E-value=6.2e-06 Score=69.00 Aligned_cols=88 Identities=15% Similarity=0.044 Sum_probs=62.1
Q ss_pred HHHHhhccCEEEEEEcCCCCCCCcCHHHHHHH----h---CCCCEEEEEEcccCCCccc--hHHHHHHHHhhcCCCCcEE
Q psy15351 8 IEKHLKNVDIVIEVHDSRMPFTGRNHLLQQSV----Q---NIRPMVLVLNKRDLINSKH--ESLIEEKVRKEQSHISEVI 78 (352)
Q Consensus 8 ~~~~i~~aD~vl~VvDar~p~~~~~~~l~~~l----~---~~k~~ilVlNK~Dl~~~~~--~~~~~~~~~~~~~~~~~v~ 78 (352)
....+..+|++++|+|++++.+.. .+..++ . .+.|+++|+||+|+..... .+...++.++.+.. ++
T Consensus 66 ~~~~~~~~d~~ilv~d~~~~~s~~--~~~~~l~~~~~~~~~~~pivvv~nK~D~~~~~~~~~~~~~~~~~~~~~~---~~ 140 (164)
T smart00175 66 TSSYYRGAVGALLVYDITNRESFE--NLKNWLKELREYADPNVVIMLVGNKSDLEDQRQVSREEAEAFAEEHGLP---FF 140 (164)
T ss_pred HHHHhCCCCEEEEEEECCCHHHHH--HHHHHHHHHHHhCCCCCeEEEEEEchhcccccCCCHHHHHHHHHHcCCe---EE
Confidence 455678899999999998764332 222222 1 3589999999999876432 23344444444554 99
Q ss_pred EeecCCCCCCCHHHHHHHHHHHhh
Q psy15351 79 FTNCRNPNCKGVQKILPTLQHISD 102 (352)
Q Consensus 79 ~iSa~~~~~~gi~~L~~~i~~~~~ 102 (352)
.+|++++ .|++++++.+.+.+.
T Consensus 141 e~Sa~~~--~~i~~l~~~i~~~~~ 162 (164)
T smart00175 141 ETSAKTN--TNVEEAFEELAREIL 162 (164)
T ss_pred EEeCCCC--CCHHHHHHHHHHHHh
Confidence 9999999 999999999887653
No 203
>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=98.24 E-value=2.7e-06 Score=71.35 Aligned_cols=59 Identities=27% Similarity=0.288 Sum_probs=37.1
Q ss_pred ceEEEEeCCCCCChHHHHHHHhCCCCCCCCceecCCCCCceeEeee-eEEecCC-CcEEEEeCCCCCC
Q psy15351 168 NTTVMVVGVPNVGKSSIINALRSSHMKKGKAVPVGPKAGVTRSVMS-QVKISEK-PLIYILDTPGISL 233 (352)
Q Consensus 168 ~~~v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~~~pg~T~~~~~-~~~~~~~-~~~~l~DtPGi~~ 233 (352)
.++|+++|.||||||||+|++.+.. .++..++++..... .....+. ..+.++||||...
T Consensus 2 ~~ki~i~G~~~~GKtsl~~~~~~~~-------~~~~~~~t~~~~~~~~~~~~~~~~~~~i~Dt~G~~~ 62 (164)
T cd04145 2 TYKLVVVGGGGVGKSALTIQFIQSY-------FVTDYDPTIEDSYTKQCEIDGQWAILDILDTAGQEE 62 (164)
T ss_pred ceEEEEECCCCCcHHHHHHHHHhCC-------CCcccCCCccceEEEEEEECCEEEEEEEEECCCCcc
Confidence 3789999999999999999998621 12333444332211 1112211 2477899999653
No 204
>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=98.24 E-value=1.4e-05 Score=66.75 Aligned_cols=89 Identities=17% Similarity=0.192 Sum_probs=61.3
Q ss_pred HHhhccCEEEEEEcCCCCCCCcCHHHHHHHh-CCCCEEEEEEcccCCCccchHHHHHHHHhh---cCCCCcEEEeecCCC
Q psy15351 10 KHLKNVDIVIEVHDSRMPFTGRNHLLQQSVQ-NIRPMVLVLNKRDLINSKHESLIEEKVRKE---QSHISEVIFTNCRNP 85 (352)
Q Consensus 10 ~~i~~aD~vl~VvDar~p~~~~~~~l~~~l~-~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~---~~~~~~v~~iSa~~~ 85 (352)
...++++.+++|+|...+.......+.+++. .+.|+++|+||+|+..+.........+... .....+++++||+++
T Consensus 77 ~~~~~~~~~~~v~d~~~~~~~~~~~~~~~l~~~~~~vi~v~nK~D~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~Sa~~~ 156 (170)
T cd01876 77 ENRENLKGVVLLIDSRHGPTEIDLEMLDWLEELGIPFLVVLTKADKLKKSELAKALKEIKKELKLFEIDPPIILFSSLKG 156 (170)
T ss_pred HhChhhhEEEEEEEcCcCCCHhHHHHHHHHHHcCCCEEEEEEchhcCChHHHHHHHHHHHHHHHhccCCCceEEEecCCC
Confidence 3445678999999998776555555556665 568999999999998665433222222111 111225899999999
Q ss_pred CCCCHHHHHHHHHHH
Q psy15351 86 NCKGVQKILPTLQHI 100 (352)
Q Consensus 86 ~~~gi~~L~~~i~~~ 100 (352)
.|+.+++++|.++
T Consensus 157 --~~~~~l~~~l~~~ 169 (170)
T cd01876 157 --QGIDELRALIEKW 169 (170)
T ss_pred --CCHHHHHHHHHHh
Confidence 9999999998764
No 205
>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=98.23 E-value=2.3e-06 Score=71.73 Aligned_cols=59 Identities=19% Similarity=0.286 Sum_probs=35.6
Q ss_pred eEEEEeCCCCCChHHHHHHHhCCCCCCCCceecCCCCCceeEeeeeEEecCC-CcEEEEeCCCCC
Q psy15351 169 TTVMVVGVPNVGKSSIINALRSSHMKKGKAVPVGPKAGVTRSVMSQVKISEK-PLIYILDTPGIS 232 (352)
Q Consensus 169 ~~v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~~~pg~T~~~~~~~~~~~~-~~~~l~DtPGi~ 232 (352)
++|+++|.+|||||||+|+|.+.. ......+..+...... .+..... -.+.++||||..
T Consensus 1 ~ki~v~G~~~vGKTsli~~l~~~~----~~~~~~~~~~~~~~~~-~~~~~~~~~~l~l~D~~G~~ 60 (161)
T cd04113 1 FKFIIIGSSGTGKSCLLHRFVENK----FKEDSQHTIGVEFGSK-IIRVGGKRVKLQIWDTAGQE 60 (161)
T ss_pred CEEEEECCCCCCHHHHHHHHHhCC----CCCCCCCceeeeEEEE-EEEECCEEEEEEEEECcchH
Confidence 479999999999999999998631 1122223333222211 1222221 257899999964
No 206
>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=98.23 E-value=7.5e-06 Score=68.24 Aligned_cols=86 Identities=20% Similarity=0.130 Sum_probs=58.0
Q ss_pred HHhhccCEEEEEEcCCCCCCCcC--HHHHHHHh----CCCCEEEEEEcccCCCccc-hHHHHHHHHhhcCCCCcEEEeec
Q psy15351 10 KHLKNVDIVIEVHDSRMPFTGRN--HLLQQSVQ----NIRPMVLVLNKRDLINSKH-ESLIEEKVRKEQSHISEVIFTNC 82 (352)
Q Consensus 10 ~~i~~aD~vl~VvDar~p~~~~~--~~l~~~l~----~~k~~ilVlNK~Dl~~~~~-~~~~~~~~~~~~~~~~~v~~iSa 82 (352)
..+..+|.+++|+|..++.+..+ ..+..+.+ .+.|+++|+||+|+..... ..+..+..+..+.. ++.+||
T Consensus 68 ~~~~~~~~~i~v~~~~~~~s~~~~~~~~~~i~~~~~~~~~piivv~nK~Dl~~~~~~~~~~~~~~~~~~~~---~~~~Sa 144 (162)
T cd04138 68 QYMRTGEGFLCVFAINSRKSFEDIHTYREQIKRVKDSDDVPMVLVGNKCDLAARTVSSRQGQDLAKSYGIP---YIETSA 144 (162)
T ss_pred HHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECcccccceecHHHHHHHHHHhCCe---EEEecC
Confidence 46778999999999876432111 11222222 3679999999999976432 23333444444554 899999
Q ss_pred CCCCCCCHHHHHHHHHHH
Q psy15351 83 RNPNCKGVQKILPTLQHI 100 (352)
Q Consensus 83 ~~~~~~gi~~L~~~i~~~ 100 (352)
+++ .|++++++++.+.
T Consensus 145 ~~~--~gi~~l~~~l~~~ 160 (162)
T cd04138 145 KTR--QGVEEAFYTLVRE 160 (162)
T ss_pred CCC--CCHHHHHHHHHHH
Confidence 999 9999999888653
No 207
>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=98.23 E-value=1e-05 Score=68.17 Aligned_cols=88 Identities=14% Similarity=0.072 Sum_probs=58.4
Q ss_pred HHHHhhccCEEEEEEcCCCCCCCcC-HHHHHHH-h---CCCCEEEEEEcccCCCccc--hHHHHHHHHhhcCCCCcEEEe
Q psy15351 8 IEKHLKNVDIVIEVHDSRMPFTGRN-HLLQQSV-Q---NIRPMVLVLNKRDLINSKH--ESLIEEKVRKEQSHISEVIFT 80 (352)
Q Consensus 8 ~~~~i~~aD~vl~VvDar~p~~~~~-~~l~~~l-~---~~k~~ilVlNK~Dl~~~~~--~~~~~~~~~~~~~~~~~v~~i 80 (352)
....+..+|++++|+|+.++.+... +.+...+ . .+.|+++|.||+|+..... .....+..+..+.. .++.+
T Consensus 69 ~~~~~~~~d~~llv~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~--~~~e~ 146 (165)
T cd01864 69 TQSYYRSANGAIIAYDITRRSSFESVPHWIEEVEKYGASNVVLLLIGNKCDLEEQREVLFEEACTLAEKNGML--AVLET 146 (165)
T ss_pred HHHHhccCCEEEEEEECcCHHHHHhHHHHHHHHHHhCCCCCcEEEEEECcccccccccCHHHHHHHHHHcCCc--EEEEE
Confidence 3456788999999999987643221 1222222 1 3578999999999975532 12223333333332 48999
Q ss_pred ecCCCCCCCHHHHHHHHHH
Q psy15351 81 NCRNPNCKGVQKILPTLQH 99 (352)
Q Consensus 81 Sa~~~~~~gi~~L~~~i~~ 99 (352)
||+++ .|++++++.+.+
T Consensus 147 Sa~~~--~~v~~~~~~l~~ 163 (165)
T cd01864 147 SAKES--QNVEEAFLLMAT 163 (165)
T ss_pred ECCCC--CCHHHHHHHHHH
Confidence 99999 999999988764
No 208
>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=98.23 E-value=8.6e-06 Score=70.63 Aligned_cols=91 Identities=10% Similarity=0.047 Sum_probs=60.7
Q ss_pred HHHhhccCEEEEEEcCCCCCCCcC-HHHHHHHh----CCCCEEEEEEcccCCCccc--hHHHHHHHHhhcCCCCcEEEee
Q psy15351 9 EKHLKNVDIVIEVHDSRMPFTGRN-HLLQQSVQ----NIRPMVLVLNKRDLINSKH--ESLIEEKVRKEQSHISEVIFTN 81 (352)
Q Consensus 9 ~~~i~~aD~vl~VvDar~p~~~~~-~~l~~~l~----~~k~~ilVlNK~Dl~~~~~--~~~~~~~~~~~~~~~~~v~~iS 81 (352)
...+..+|++++|+|+.++.+..+ ..+...+. .+.|+++|+||+|+..+.. ..+..+.....+.+ ++.+|
T Consensus 68 ~~~~~~ad~~i~v~D~~~~~s~~~~~~~~~~i~~~~~~~~piiiv~NK~Dl~~~~~~~~~~~~~l~~~~~~~---~~e~S 144 (191)
T cd04112 68 HAYYRDAHALLLLYDITNKASFDNIRAWLTEIKEYAQEDVVIMLLGNKADMSGERVVKREDGERLAKEYGVP---FMETS 144 (191)
T ss_pred HHHccCCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCcEEEEEEcccchhccccCHHHHHHHHHHcCCe---EEEEe
Confidence 346788999999999987532211 11111111 3679999999999975332 22333333333444 89999
Q ss_pred cCCCCCCCHHHHHHHHHHHhhhc
Q psy15351 82 CRNPNCKGVQKILPTLQHISDNM 104 (352)
Q Consensus 82 a~~~~~~gi~~L~~~i~~~~~~~ 104 (352)
|+++ .|+++++.+|.+.+...
T Consensus 145 a~~~--~~v~~l~~~l~~~~~~~ 165 (191)
T cd04112 145 AKTG--LNVELAFTAVAKELKHR 165 (191)
T ss_pred CCCC--CCHHHHHHHHHHHHHHh
Confidence 9999 99999999998776543
No 209
>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=98.23 E-value=1.1e-05 Score=68.10 Aligned_cols=87 Identities=13% Similarity=0.038 Sum_probs=59.7
Q ss_pred HHHhhccCEEEEEEcCCCCCCCcCHHHHHHH---h----CCCCEEEEEEcccCCCccc--hHHHHHHHHhhcCCCCcEEE
Q psy15351 9 EKHLKNVDIVIEVHDSRMPFTGRNHLLQQSV---Q----NIRPMVLVLNKRDLINSKH--ESLIEEKVRKEQSHISEVIF 79 (352)
Q Consensus 9 ~~~i~~aD~vl~VvDar~p~~~~~~~l~~~l---~----~~k~~ilVlNK~Dl~~~~~--~~~~~~~~~~~~~~~~~v~~ 79 (352)
...+..+|++++|+|..++.+. ..+.+++ . ...|+++|.||+|+.+... .+...+.....+.+ ++.
T Consensus 68 ~~~~~~~~~~l~v~d~~~~~s~--~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~---~~~ 142 (165)
T cd01865 68 TAYYRGAMGFILMYDITNEESF--NAVQDWSTQIKTYSWDNAQVILVGNKCDMEDERVVSSERGRQLADQLGFE---FFE 142 (165)
T ss_pred HHHccCCcEEEEEEECCCHHHH--HHHHHHHHHHHHhCCCCCCEEEEEECcccCcccccCHHHHHHHHHHcCCE---EEE
Confidence 3567899999999999765322 1222222 1 3578999999999976532 22333333334454 899
Q ss_pred eecCCCCCCCHHHHHHHHHHHhh
Q psy15351 80 TNCRNPNCKGVQKILPTLQHISD 102 (352)
Q Consensus 80 iSa~~~~~~gi~~L~~~i~~~~~ 102 (352)
+||+++ .|++++++.+.+.+.
T Consensus 143 ~Sa~~~--~gv~~l~~~l~~~~~ 163 (165)
T cd01865 143 ASAKEN--INVKQVFERLVDIIC 163 (165)
T ss_pred EECCCC--CCHHHHHHHHHHHHH
Confidence 999999 999999999876553
No 210
>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=98.23 E-value=6.6e-06 Score=69.64 Aligned_cols=88 Identities=17% Similarity=0.047 Sum_probs=58.7
Q ss_pred HHhhccCEEEEEEcCCCCCCCcC-HHHHHHHh---CCCCEEEEEEcccCCCccchHHHHHHHHhhcCCCCcEEEeecCCC
Q psy15351 10 KHLKNVDIVIEVHDSRMPFTGRN-HLLQQSVQ---NIRPMVLVLNKRDLINSKHESLIEEKVRKEQSHISEVIFTNCRNP 85 (352)
Q Consensus 10 ~~i~~aD~vl~VvDar~p~~~~~-~~l~~~l~---~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~v~~iSa~~~ 85 (352)
.....+|++|+|+|..++.+... ..+...+. .+.|+++|.||+|+..........++.+..+. +++.+||+++
T Consensus 68 ~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~piiiv~nK~Dl~~~~~~~~~~~~~~~~~~---~~~e~Sa~~~ 144 (166)
T cd00877 68 GYYIGGQCAIIMFDVTSRVTYKNVPNWHRDLVRVCGNIPIVLCGNKVDIKDRKVKAKQITFHRKKNL---QYYEISAKSN 144 (166)
T ss_pred HHhcCCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCcEEEEEEchhcccccCCHHHHHHHHHcCC---EEEEEeCCCC
Confidence 35578999999999987643322 11111121 37999999999999744322222233323333 4899999999
Q ss_pred CCCCHHHHHHHHHHHhh
Q psy15351 86 NCKGVQKILPTLQHISD 102 (352)
Q Consensus 86 ~~~gi~~L~~~i~~~~~ 102 (352)
.|++++++++.+.+.
T Consensus 145 --~~v~~~f~~l~~~~~ 159 (166)
T cd00877 145 --YNFEKPFLWLARKLL 159 (166)
T ss_pred --CChHHHHHHHHHHHH
Confidence 999999999876554
No 211
>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=98.22 E-value=9.4e-06 Score=78.86 Aligned_cols=88 Identities=16% Similarity=0.137 Sum_probs=60.0
Q ss_pred hHHHHHHHHhhccCEEEEEEcCCCCCCCcCHHHHHHHh--CCCCEEEEEEcccCCCccc--hHHHHH----HHHhhcCCC
Q psy15351 3 RGLKDIEKHLKNVDIVIEVHDSRMPFTGRNHLLQQSVQ--NIRPMVLVLNKRDLINSKH--ESLIEE----KVRKEQSHI 74 (352)
Q Consensus 3 ~~~~~~~~~i~~aD~vl~VvDar~p~~~~~~~l~~~l~--~~k~~ilVlNK~Dl~~~~~--~~~~~~----~~~~~~~~~ 74 (352)
+..+.+...+..+|++++|+|++.++.....+...++. ..+++++++||+|+.+.+. .++..+ +++..+...
T Consensus 92 ~f~~~~~~~~~~aD~allVVda~~G~~~qt~~~~~~~~~~~~~~iivviNK~D~~~~~~~~~~~i~~~~~~~~~~~~~~~ 171 (406)
T TIGR02034 92 QYTRNMATGASTADLAVLLVDARKGVLEQTRRHSYIASLLGIRHVVLAVNKMDLVDYDEEVFENIKKDYLAFAEQLGFRD 171 (406)
T ss_pred HHHHHHHHHHhhCCEEEEEEECCCCCccccHHHHHHHHHcCCCcEEEEEEecccccchHHHHHHHHHHHHHHHHHcCCCC
Confidence 45667778899999999999999887766655444443 3456888999999985332 122222 223333322
Q ss_pred CcEEEeecCCCCCCCHHH
Q psy15351 75 SEVIFTNCRNPNCKGVQK 92 (352)
Q Consensus 75 ~~v~~iSa~~~~~~gi~~ 92 (352)
.+++++||+++ .|+.+
T Consensus 172 ~~iipiSA~~g--~ni~~ 187 (406)
T TIGR02034 172 VTFIPLSALKG--DNVVS 187 (406)
T ss_pred ccEEEeecccC--CCCcc
Confidence 25899999999 88875
No 212
>smart00175 RAB Rab subfamily of small GTPases. Rab GTPases are implicated in vesicle trafficking.
Probab=98.22 E-value=3.7e-06 Score=70.40 Aligned_cols=57 Identities=23% Similarity=0.366 Sum_probs=34.6
Q ss_pred eEEEEeCCCCCChHHHHHHHhCCCCCCCCceecCCCCCceeEee-eeEEecCC-CcEEEEeCCCC
Q psy15351 169 TTVMVVGVPNVGKSSIINALRSSHMKKGKAVPVGPKAGVTRSVM-SQVKISEK-PLIYILDTPGI 231 (352)
Q Consensus 169 ~~v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~~~pg~T~~~~-~~~~~~~~-~~~~l~DtPGi 231 (352)
++|+++|.||+|||||+|++.+. . ......+..+.+.. ..+...+. ..+.++||||.
T Consensus 1 ~kv~v~G~~~~GKTtli~~l~~~-----~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~D~~G~ 59 (164)
T smart00175 1 FKIILIGDSGVGKSSLLSRFTDG-----K-FSEQYKSTIGVDFKTKTIEVDGKRVKLQIWDTAGQ 59 (164)
T ss_pred CEEEEECCCCCCHHHHHHHHhcC-----C-CCCCCCCceeeEEEEEEEEECCEEEEEEEEECCCh
Confidence 47999999999999999999863 1 11122222222211 12222221 25789999995
No 213
>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=98.22 E-value=1.1e-05 Score=67.55 Aligned_cols=88 Identities=16% Similarity=0.102 Sum_probs=60.4
Q ss_pred HHHhhccCEEEEEEcCCCCCCCc--CHHHHHHHh----CCCCEEEEEEcccCCCcc--chHHHHHHHHhhcCCCCcEEEe
Q psy15351 9 EKHLKNVDIVIEVHDSRMPFTGR--NHLLQQSVQ----NIRPMVLVLNKRDLINSK--HESLIEEKVRKEQSHISEVIFT 80 (352)
Q Consensus 9 ~~~i~~aD~vl~VvDar~p~~~~--~~~l~~~l~----~~k~~ilVlNK~Dl~~~~--~~~~~~~~~~~~~~~~~~v~~i 80 (352)
...+..+|.+++|+|..++-+.. ...+..+.. .+.|+++|+||+|+.+.. ......+...+.+.+ ++.+
T Consensus 66 ~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piiiv~NK~D~~~~~~~~~~~~~~~~~~~~~~---~~~~ 142 (164)
T cd04139 66 DNYHRSGEGFLLVFSITDMESFTATAEFREQILRVKDDDNVPLLLVGNKCDLEDKRQVSSEEAANLARQWGVP---YVET 142 (164)
T ss_pred HHHhhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEEccccccccccCHHHHHHHHHHhCCe---EEEe
Confidence 34778899999999988653221 122223332 368999999999997632 223333444444554 9999
Q ss_pred ecCCCCCCCHHHHHHHHHHHh
Q psy15351 81 NCRNPNCKGVQKILPTLQHIS 101 (352)
Q Consensus 81 Sa~~~~~~gi~~L~~~i~~~~ 101 (352)
||+++ .|++++++.+.+.+
T Consensus 143 Sa~~~--~gi~~l~~~l~~~~ 161 (164)
T cd04139 143 SAKTR--QNVEKAFYDLVREI 161 (164)
T ss_pred eCCCC--CCHHHHHHHHHHHH
Confidence 99999 99999999887654
No 214
>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=98.22 E-value=1.2e-05 Score=67.87 Aligned_cols=91 Identities=14% Similarity=0.104 Sum_probs=61.0
Q ss_pred HHHHhhccCEEEEEEcCCCCCCCcCH-HHH-HHHh--C-----CCCEEEEEEcccCCCcc--chHHHHHHHHhhcCCCCc
Q psy15351 8 IEKHLKNVDIVIEVHDSRMPFTGRNH-LLQ-QSVQ--N-----IRPMVLVLNKRDLINSK--HESLIEEKVRKEQSHISE 76 (352)
Q Consensus 8 ~~~~i~~aD~vl~VvDar~p~~~~~~-~l~-~~l~--~-----~k~~ilVlNK~Dl~~~~--~~~~~~~~~~~~~~~~~~ 76 (352)
....++++|++|+|+|+.++.+.... .+. .++. . +.|+++|+||+|+..+. ..+....+.+..+.. +
T Consensus 66 ~~~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~--~ 143 (172)
T cd01862 66 GVAFYRGADCCVLVYDVTNPKSFESLDSWRDEFLIQASPSDPENFPFVVLGNKIDLEEKRQVSTKKAQQWCQSNGNI--P 143 (172)
T ss_pred HHHHhcCCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCccCCCCceEEEEEECcccccccccCHHHHHHHHHHcCCc--e
Confidence 34567889999999999876432111 111 2222 1 68999999999998432 223333444444422 4
Q ss_pred EEEeecCCCCCCCHHHHHHHHHHHhh
Q psy15351 77 VIFTNCRNPNCKGVQKILPTLQHISD 102 (352)
Q Consensus 77 v~~iSa~~~~~~gi~~L~~~i~~~~~ 102 (352)
++.+||+++ .|++++++++.+.+.
T Consensus 144 ~~~~Sa~~~--~gv~~l~~~i~~~~~ 167 (172)
T cd01862 144 YFETSAKEA--INVEQAFETIARKAL 167 (172)
T ss_pred EEEEECCCC--CCHHHHHHHHHHHHH
Confidence 999999999 999999999876544
No 215
>PRK12736 elongation factor Tu; Reviewed
Probab=98.22 E-value=1.1e-05 Score=78.02 Aligned_cols=100 Identities=14% Similarity=0.057 Sum_probs=68.3
Q ss_pred hHHHHHHHHhhccCEEEEEEcCCCCCCCcCHHHHHHHh-CCCC-EEEEEEcccCCCccchH-----HHHHHHHhhcCC--
Q psy15351 3 RGLKDIEKHLKNVDIVIEVHDSRMPFTGRNHLLQQSVQ-NIRP-MVLVLNKRDLINSKHES-----LIEEKVRKEQSH-- 73 (352)
Q Consensus 3 ~~~~~~~~~i~~aD~vl~VvDar~p~~~~~~~l~~~l~-~~k~-~ilVlNK~Dl~~~~~~~-----~~~~~~~~~~~~-- 73 (352)
+.+.++...+..+|++++|+|++.++.....++..++. .+.| +++++||+|+++.+... +..++++..+..
T Consensus 87 ~f~~~~~~~~~~~d~~llVvd~~~g~~~~t~~~~~~~~~~g~~~~IvviNK~D~~~~~~~~~~i~~~i~~~l~~~~~~~~ 166 (394)
T PRK12736 87 DYVKNMITGAAQMDGAILVVAATDGPMPQTREHILLARQVGVPYLVVFLNKVDLVDDEELLELVEMEVRELLSEYDFPGD 166 (394)
T ss_pred HHHHHHHHHHhhCCEEEEEEECCCCCchhHHHHHHHHHHcCCCEEEEEEEecCCcchHHHHHHHHHHHHHHHHHhCCCcC
Confidence 44667778889999999999999877666555555554 5777 57889999998543321 233334333431
Q ss_pred CCcEEEeecCCCC------CCCHHHHHHHHHHHhh
Q psy15351 74 ISEVIFTNCRNPN------CKGVQKILPTLQHISD 102 (352)
Q Consensus 74 ~~~v~~iSa~~~~------~~gi~~L~~~i~~~~~ 102 (352)
..+++++||.++. ..++..|++.+.+.++
T Consensus 167 ~~~ii~vSa~~g~~~~~~~~~~i~~Ll~~l~~~lp 201 (394)
T PRK12736 167 DIPVIRGSALKALEGDPKWEDAIMELMDAVDEYIP 201 (394)
T ss_pred CccEEEeeccccccCCCcchhhHHHHHHHHHHhCC
Confidence 2368999999861 0157788888887765
No 216
>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=98.22 E-value=4.4e-06 Score=86.54 Aligned_cols=67 Identities=18% Similarity=0.123 Sum_probs=45.5
Q ss_pred ceEEEEeCCCCCChHHHHHHHhCCCCCCCCceecC------------CCCCceeEeeeeEEecCCCcEEEEeCCCCCCC
Q psy15351 168 NTTVMVVGVPNVGKSSIINALRSSHMKKGKAVPVG------------PKAGVTRSVMSQVKISEKPLIYILDTPGISLP 234 (352)
Q Consensus 168 ~~~v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~------------~~pg~T~~~~~~~~~~~~~~~~l~DtPGi~~~ 234 (352)
-.+|+++|.+|+|||||+|+|....-...+...+. ...|+|.+.........+.++.++||||....
T Consensus 10 irni~iiG~~~~GKsTL~~~ll~~~g~~~~~~~~~~g~~~~D~~~~e~~rgiti~~~~~~~~~~~~~i~liDTPG~~~~ 88 (689)
T TIGR00484 10 FRNIGISAHIDAGKTTTTERILFYTGRIHKIGEVHDGAATMDWMEQEKERGITITSAATTVFWKGHRINIIDTPGHVDF 88 (689)
T ss_pred ccEEEEECCCCCCHHHHHHHHHHhCCCccccccccCCccccCCCHHHHhcCCCEecceEEEEECCeEEEEEECCCCcch
Confidence 35799999999999999999974210000111111 15788887665444556678999999999753
No 217
>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=98.21 E-value=2.8e-06 Score=71.76 Aligned_cols=59 Identities=24% Similarity=0.380 Sum_probs=34.7
Q ss_pred eEEEEeCCCCCChHHHHHHHhCCCCCCCCceecCCCCCceeEeeeeEEecCC-CcEEEEeCCCCC
Q psy15351 169 TTVMVVGVPNVGKSSIINALRSSHMKKGKAVPVGPKAGVTRSVMSQVKISEK-PLIYILDTPGIS 232 (352)
Q Consensus 169 ~~v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~~~pg~T~~~~~~~~~~~~-~~~~l~DtPGi~ 232 (352)
++|+++|.+|||||||+|++.+... ........|.+... ..+...+. -.+.++||||..
T Consensus 1 ~ki~viG~~~~GKSsl~~~l~~~~~----~~~~~~t~~~~~~~-~~~~~~~~~~~~~~~D~~g~~ 60 (172)
T cd01862 1 LKVIILGDSGVGKTSLMNQYVNKKF----SNQYKATIGADFLT-KEVTVDDKLVTLQIWDTAGQE 60 (172)
T ss_pred CEEEEECCCCCCHHHHHHHHhcCCC----CcCcCCccceEEEE-EEEEECCEEEEEEEEeCCChH
Confidence 4799999999999999999986321 11112222322111 11222221 146689999963
No 218
>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=98.21 E-value=3.4e-06 Score=71.81 Aligned_cols=57 Identities=21% Similarity=0.391 Sum_probs=39.0
Q ss_pred cceEEEEeCCCCCChHHHHHHHhCCCCCCCCceecCCCCCceeEeeeeEEecCCCcEEEEeCCCCC
Q psy15351 167 YNTTVMVVGVPNVGKSSIINALRSSHMKKGKAVPVGPKAGVTRSVMSQVKISEKPLIYILDTPGIS 232 (352)
Q Consensus 167 ~~~~v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~~~pg~T~~~~~~~~~~~~~~~~l~DtPGi~ 232 (352)
..++|+++|.+|||||||+|++.+. ....+.++.|..... +.. .+..+.++||||..
T Consensus 13 ~~~kv~ivG~~~~GKTsL~~~l~~~-----~~~~~~~t~g~~~~~---~~~-~~~~l~l~D~~G~~ 69 (173)
T cd04154 13 REMRILILGLDNAGKTTILKKLLGE-----DIDTISPTLGFQIKT---LEY-EGYKLNIWDVGGQK 69 (173)
T ss_pred CccEEEEECCCCCCHHHHHHHHccC-----CCCCcCCccccceEE---EEE-CCEEEEEEECCCCH
Confidence 4588999999999999999999873 222334444433221 222 24468999999964
No 219
>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=98.21 E-value=2.9e-06 Score=71.56 Aligned_cols=59 Identities=20% Similarity=0.318 Sum_probs=35.1
Q ss_pred eEEEEeCCCCCChHHHHHHHhCCCCCCCCceecCCCCCceeEeeeeEEecC-CCcEEEEeCCCCC
Q psy15351 169 TTVMVVGVPNVGKSSIINALRSSHMKKGKAVPVGPKAGVTRSVMSQVKISE-KPLIYILDTPGIS 232 (352)
Q Consensus 169 ~~v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~~~pg~T~~~~~~~~~~~-~~~~~l~DtPGi~ 232 (352)
++|+++|.+|||||||+|++.+... .....+..|++.... .+.... .-.+.++||||..
T Consensus 2 ~ki~i~G~~~~GKSsli~~l~~~~~----~~~~~~t~~~~~~~~-~~~~~~~~~~~~l~Dt~g~~ 61 (165)
T cd01865 2 FKLLIIGNSSVGKTSFLFRYADDSF----TSAFVSTVGIDFKVK-TVFRNDKRVKLQIWDTAGQE 61 (165)
T ss_pred eEEEEECCCCCCHHHHHHHHhcCCC----CCCCCCceeeEEEEE-EEEECCEEEEEEEEECCChH
Confidence 6899999999999999999996321 111112222222111 121111 1257899999964
No 220
>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=98.21 E-value=9.9e-06 Score=68.21 Aligned_cols=86 Identities=19% Similarity=0.090 Sum_probs=58.8
Q ss_pred HHHhhccCEEEEEEcCCCCCCCcCHHHHHHH---h----CCCCEEEEEEcccCCCccc--hHHHHHHHHhhcCCCCcEEE
Q psy15351 9 EKHLKNVDIVIEVHDSRMPFTGRNHLLQQSV---Q----NIRPMVLVLNKRDLINSKH--ESLIEEKVRKEQSHISEVIF 79 (352)
Q Consensus 9 ~~~i~~aD~vl~VvDar~p~~~~~~~l~~~l---~----~~k~~ilVlNK~Dl~~~~~--~~~~~~~~~~~~~~~~~v~~ 79 (352)
...+..+|++++|+|+.++-+. ..+..++ . .+.|+++|.||+|+..... ..+..++.+..+.+ ++.
T Consensus 69 ~~~~~~~~~ii~v~d~~~~~s~--~~l~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~---~~~ 143 (166)
T cd01869 69 SSYYRGAHGIIIVYDVTDQESF--NNVKQWLQEIDRYASENVNKLLVGNKCDLTDKRVVDYSEAQEFADELGIP---FLE 143 (166)
T ss_pred HHHhCcCCEEEEEEECcCHHHH--HhHHHHHHHHHHhCCCCCcEEEEEEChhcccccCCCHHHHHHHHHHcCCe---EEE
Confidence 4567889999999999875322 1222222 1 3579999999999875433 22333333334444 899
Q ss_pred eecCCCCCCCHHHHHHHHHHHh
Q psy15351 80 TNCRNPNCKGVQKILPTLQHIS 101 (352)
Q Consensus 80 iSa~~~~~~gi~~L~~~i~~~~ 101 (352)
+||+++ .|+++++..+.+.+
T Consensus 144 ~Sa~~~--~~v~~~~~~i~~~~ 163 (166)
T cd01869 144 TSAKNA--TNVEQAFMTMAREI 163 (166)
T ss_pred EECCCC--cCHHHHHHHHHHHH
Confidence 999999 99999998887644
No 221
>PTZ00133 ADP-ribosylation factor; Provisional
Probab=98.21 E-value=9.1e-06 Score=70.01 Aligned_cols=92 Identities=17% Similarity=0.087 Sum_probs=58.1
Q ss_pred HHHhhccCEEEEEEcCCCCCCC--cCHHHHHHHh----CCCCEEEEEEcccCCCccchHHHHHHHHhhcCCCC--cEEEe
Q psy15351 9 EKHLKNVDIVIEVHDSRMPFTG--RNHLLQQSVQ----NIRPMVLVLNKRDLINSKHESLIEEKVRKEQSHIS--EVIFT 80 (352)
Q Consensus 9 ~~~i~~aD~vl~VvDar~p~~~--~~~~l~~~l~----~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~--~v~~i 80 (352)
...+..+|++|+|+|+.++.+. ....+.+++. ...|+++|+||.|+.......+..+.+........ .++.+
T Consensus 79 ~~~~~~ad~iI~v~D~t~~~s~~~~~~~l~~~~~~~~~~~~piilv~NK~Dl~~~~~~~~i~~~l~~~~~~~~~~~~~~~ 158 (182)
T PTZ00133 79 RHYYQNTNGLIFVVDSNDRERIGDAREELERMLSEDELRDAVLLVFANKQDLPNAMSTTEVTEKLGLHSVRQRNWYIQGC 158 (182)
T ss_pred HHHhcCCCEEEEEEeCCCHHHHHHHHHHHHHHHhCHhhcCCCEEEEEeCCCCCCCCCHHHHHHHhCCCcccCCcEEEEee
Confidence 3467999999999999765321 1122333332 35799999999998654333333333211111101 24468
Q ss_pred ecCCCCCCCHHHHHHHHHHHhh
Q psy15351 81 NCRNPNCKGVQKILPTLQHISD 102 (352)
Q Consensus 81 Sa~~~~~~gi~~L~~~i~~~~~ 102 (352)
||+++ .|+++++++|.+.+.
T Consensus 159 Sa~tg--~gv~e~~~~l~~~i~ 178 (182)
T PTZ00133 159 CATTA--QGLYEGLDWLSANIK 178 (182)
T ss_pred eCCCC--CCHHHHHHHHHHHHH
Confidence 99999 999999999986554
No 222
>PRK15467 ethanolamine utilization protein EutP; Provisional
Probab=98.21 E-value=2.9e-06 Score=71.41 Aligned_cols=21 Identities=33% Similarity=0.632 Sum_probs=19.9
Q ss_pred EEEEeCCCCCChHHHHHHHhC
Q psy15351 170 TVMVVGVPNVGKSSIINALRS 190 (352)
Q Consensus 170 ~v~i~G~pnvGKStliN~l~~ 190 (352)
+|+++|.||||||||+|+|.+
T Consensus 3 ~i~~iG~~~~GKstl~~~l~~ 23 (158)
T PRK15467 3 RIAFVGAVGAGKTTLFNALQG 23 (158)
T ss_pred EEEEECCCCCCHHHHHHHHcC
Confidence 699999999999999999986
No 223
>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=98.20 E-value=9.4e-06 Score=67.81 Aligned_cols=88 Identities=18% Similarity=0.211 Sum_probs=58.6
Q ss_pred HHHHhhccCEEEEEEcCCCCCCCcC--HHHHHHHh-C--CCCEEEEEEcccCCCccc-hHH-HHHHHHhhcCCCCcEEEe
Q psy15351 8 IEKHLKNVDIVIEVHDSRMPFTGRN--HLLQQSVQ-N--IRPMVLVLNKRDLINSKH-ESL-IEEKVRKEQSHISEVIFT 80 (352)
Q Consensus 8 ~~~~i~~aD~vl~VvDar~p~~~~~--~~l~~~l~-~--~k~~ilVlNK~Dl~~~~~-~~~-~~~~~~~~~~~~~~v~~i 80 (352)
....+..+|++++|+|+.++-+..+ ..+..+.. . +.|+++|+||+|+..... ..+ .....+..+. +++.+
T Consensus 66 ~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~iilv~nK~D~~~~~~~~~~~~~~~~~~~~~---~~~~~ 142 (161)
T cd01861 66 IPSYIRDSSVAVVVYDITNRQSFDNTDKWIDDVRDERGNDVIIVLVGNKTDLSDKRQVSTEEGEKKAKELNA---MFIET 142 (161)
T ss_pred HHHHhccCCEEEEEEECcCHHHHHHHHHHHHHHHHhCCCCCEEEEEEEChhccccCccCHHHHHHHHHHhCC---EEEEE
Confidence 4456799999999999987533211 22222222 2 489999999999954332 222 2333333344 48999
Q ss_pred ecCCCCCCCHHHHHHHHHHH
Q psy15351 81 NCRNPNCKGVQKILPTLQHI 100 (352)
Q Consensus 81 Sa~~~~~~gi~~L~~~i~~~ 100 (352)
||+++ .|++++++++.+.
T Consensus 143 Sa~~~--~~v~~l~~~i~~~ 160 (161)
T cd01861 143 SAKAG--HNVKELFRKIASA 160 (161)
T ss_pred eCCCC--CCHHHHHHHHHHh
Confidence 99999 9999999988653
No 224
>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=98.20 E-value=3.2e-06 Score=71.43 Aligned_cols=60 Identities=18% Similarity=0.302 Sum_probs=37.3
Q ss_pred ceEEEEeCCCCCChHHHHHHHhCCCCCCCCceecCCCCCceeEeeeeEEecCC-CcEEEEeCCCCC
Q psy15351 168 NTTVMVVGVPNVGKSSIINALRSSHMKKGKAVPVGPKAGVTRSVMSQVKISEK-PLIYILDTPGIS 232 (352)
Q Consensus 168 ~~~v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~~~pg~T~~~~~~~~~~~~-~~~~l~DtPGi~ 232 (352)
.++|+++|.||||||||+|++.+... .....+..|.+.... .+...+. -.+.++||||..
T Consensus 3 ~~ki~vvG~~~~GKSsl~~~~~~~~f----~~~~~~t~~~~~~~~-~~~~~~~~~~l~l~D~~g~~ 63 (167)
T cd01867 3 LFKLLLIGDSGVGKSCLLLRFSEDSF----NPSFISTIGIDFKIR-TIELDGKKIKLQIWDTAGQE 63 (167)
T ss_pred ceEEEEECCCCCCHHHHHHHHhhCcC----CcccccCccceEEEE-EEEECCEEEEEEEEeCCchH
Confidence 47899999999999999999986321 112233333332221 2222221 257899999954
No 225
>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=98.20 E-value=9.7e-06 Score=67.99 Aligned_cols=87 Identities=20% Similarity=0.111 Sum_probs=58.2
Q ss_pred HHHhhccCEEEEEEcCCCCCCCcC--HHHHHHHh--------CCCCEEEEEEcccCCCcc--chHHHHHHHHhhcCCCCc
Q psy15351 9 EKHLKNVDIVIEVHDSRMPFTGRN--HLLQQSVQ--------NIRPMVLVLNKRDLINSK--HESLIEEKVRKEQSHISE 76 (352)
Q Consensus 9 ~~~i~~aD~vl~VvDar~p~~~~~--~~l~~~l~--------~~k~~ilVlNK~Dl~~~~--~~~~~~~~~~~~~~~~~~ 76 (352)
...+..+|++|+|+|.+++.+... ..+..+.+ .+.|+++|.||+|+.++. ...+...+..+.+..
T Consensus 67 ~~~~~~~d~~ilv~D~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~--- 143 (168)
T cd04119 67 NEFYKDTQGVLLVYDVTDRQSFEALDSWLKEMKQEGGPHGNMENIVVVVCANKIDLTKHRAVSEDEGRLWAESKGFK--- 143 (168)
T ss_pred HHHhccCCEEEEEEECCCHHHHHhHHHHHHHHHHhccccccCCCceEEEEEEchhcccccccCHHHHHHHHHHcCCe---
Confidence 346789999999999987633211 11111211 247899999999997432 223333344444544
Q ss_pred EEEeecCCCCCCCHHHHHHHHHHH
Q psy15351 77 VIFTNCRNPNCKGVQKILPTLQHI 100 (352)
Q Consensus 77 v~~iSa~~~~~~gi~~L~~~i~~~ 100 (352)
++.+||+++ .|+++++++|.+.
T Consensus 144 ~~~~Sa~~~--~gi~~l~~~l~~~ 165 (168)
T cd04119 144 YFETSACTG--EGVNEMFQTLFSS 165 (168)
T ss_pred EEEEECCCC--CCHHHHHHHHHHH
Confidence 899999999 9999999988653
No 226
>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=98.19 E-value=1.4e-05 Score=67.68 Aligned_cols=87 Identities=15% Similarity=0.040 Sum_probs=60.4
Q ss_pred HHHHhhccCEEEEEEcCCCCCCCcCHHHHHHH----h---CCCCEEEEEEcccCCCccc--hHHHHHHHHhhcCCCCcEE
Q psy15351 8 IEKHLKNVDIVIEVHDSRMPFTGRNHLLQQSV----Q---NIRPMVLVLNKRDLINSKH--ESLIEEKVRKEQSHISEVI 78 (352)
Q Consensus 8 ~~~~i~~aD~vl~VvDar~p~~~~~~~l~~~l----~---~~k~~ilVlNK~Dl~~~~~--~~~~~~~~~~~~~~~~~v~ 78 (352)
....++.+|++++|+|++++.+. ..+..++ + .+.|+++|.||+|+.++.. ..+...+..+.+.. ++
T Consensus 70 ~~~~~~~~d~il~v~d~~~~~s~--~~~~~~~~~~~~~~~~~~pvivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~---~~ 144 (168)
T cd01866 70 TRSYYRGAAGALLVYDITRRETF--NHLTSWLEDARQHSNSNMTIMLIGNKCDLESRREVSYEEGEAFAKEHGLI---FM 144 (168)
T ss_pred HHHHhccCCEEEEEEECCCHHHH--HHHHHHHHHHHHhCCCCCcEEEEEECcccccccCCCHHHHHHHHHHcCCE---EE
Confidence 45577899999999999865332 2223332 1 3679999999999985432 23333444444554 89
Q ss_pred EeecCCCCCCCHHHHHHHHHHHh
Q psy15351 79 FTNCRNPNCKGVQKILPTLQHIS 101 (352)
Q Consensus 79 ~iSa~~~~~~gi~~L~~~i~~~~ 101 (352)
.+||+++ .|+++++..+.+.+
T Consensus 145 e~Sa~~~--~~i~~~~~~~~~~~ 165 (168)
T cd01866 145 ETSAKTA--SNVEEAFINTAKEI 165 (168)
T ss_pred EEeCCCC--CCHHHHHHHHHHHH
Confidence 9999999 99999998876554
No 227
>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=98.19 E-value=1.2e-05 Score=67.80 Aligned_cols=86 Identities=12% Similarity=0.023 Sum_probs=58.9
Q ss_pred HHHHhhccCEEEEEEcCCCCCCCcCHHHHHHHh-------CCCCEEEEEEcccCCCccc--hHHHHHHHHhhcCCCCcEE
Q psy15351 8 IEKHLKNVDIVIEVHDSRMPFTGRNHLLQQSVQ-------NIRPMVLVLNKRDLINSKH--ESLIEEKVRKEQSHISEVI 78 (352)
Q Consensus 8 ~~~~i~~aD~vl~VvDar~p~~~~~~~l~~~l~-------~~k~~ilVlNK~Dl~~~~~--~~~~~~~~~~~~~~~~~v~ 78 (352)
....+..+|.+++|+|+.++.+.. .+..++. .+.|+++|.||+|+..... .++..++.++.+.. ++
T Consensus 68 ~~~~~~~~~~~ilv~d~~~~~s~~--~~~~~~~~~~~~~~~~~~iiiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~---~~ 142 (166)
T cd04122 68 TRSYYRGAAGALMVYDITRRSTYN--HLSSWLTDARNLTNPNTVIFLIGNKADLEAQRDVTYEEAKQFADENGLL---FL 142 (166)
T ss_pred HHHHhcCCCEEEEEEECCCHHHHH--HHHHHHHHHHHhCCCCCeEEEEEECcccccccCcCHHHHHHHHHHcCCE---EE
Confidence 345678999999999998764321 2222221 3578999999999976532 23333334344444 88
Q ss_pred EeecCCCCCCCHHHHHHHHHHH
Q psy15351 79 FTNCRNPNCKGVQKILPTLQHI 100 (352)
Q Consensus 79 ~iSa~~~~~~gi~~L~~~i~~~ 100 (352)
.+||+++ .|+++++..+.+.
T Consensus 143 e~Sa~~~--~~i~e~f~~l~~~ 162 (166)
T cd04122 143 ECSAKTG--ENVEDAFLETAKK 162 (166)
T ss_pred EEECCCC--CCHHHHHHHHHHH
Confidence 9999999 9999998777543
No 228
>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=98.19 E-value=4.8e-06 Score=70.14 Aligned_cols=58 Identities=16% Similarity=0.233 Sum_probs=35.5
Q ss_pred eEEEEeCCCCCChHHHHHHHhCCCCCCCCceecCCCCCceeEeee-eEEecC-CCcEEEEeCCCCC
Q psy15351 169 TTVMVVGVPNVGKSSIINALRSSHMKKGKAVPVGPKAGVTRSVMS-QVKISE-KPLIYILDTPGIS 232 (352)
Q Consensus 169 ~~v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~~~pg~T~~~~~-~~~~~~-~~~~~l~DtPGi~ 232 (352)
++|+++|.+|||||||+|++.+.. ......|..+.+... .+...+ .-.+.++||||..
T Consensus 3 ~ki~i~G~~~vGKSsli~~~~~~~------~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~ 62 (166)
T cd01869 3 FKLLLIGDSGVGKSCLLLRFADDT------YTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQE 62 (166)
T ss_pred EEEEEECCCCCCHHHHHHHHhcCC------CCCCCCCccceeEEEEEEEECCEEEEEEEEECCCcH
Confidence 689999999999999999998631 111222333322211 122221 1257899999954
No 229
>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=98.19 E-value=3.9e-06 Score=69.95 Aligned_cols=23 Identities=35% Similarity=0.469 Sum_probs=21.1
Q ss_pred eEEEEeCCCCCChHHHHHHHhCC
Q psy15351 169 TTVMVVGVPNVGKSSIINALRSS 191 (352)
Q Consensus 169 ~~v~i~G~pnvGKStliN~l~~~ 191 (352)
++|+++|.||||||||+|++.+.
T Consensus 2 ~ki~iiG~~~vGKTsl~~~~~~~ 24 (162)
T cd04138 2 YKLVVVGAGGVGKSALTIQLIQN 24 (162)
T ss_pred eEEEEECCCCCCHHHHHHHHHhC
Confidence 57999999999999999999963
No 230
>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=98.18 E-value=1.1e-05 Score=67.71 Aligned_cols=88 Identities=17% Similarity=0.097 Sum_probs=58.6
Q ss_pred HHhhccCEEEEEEcCCCCCCCcC-HHHH-HHHh----CCCCEEEEEEcccCCCccc--hHHHHHHHHhhcCCCCcEEEee
Q psy15351 10 KHLKNVDIVIEVHDSRMPFTGRN-HLLQ-QSVQ----NIRPMVLVLNKRDLINSKH--ESLIEEKVRKEQSHISEVIFTN 81 (352)
Q Consensus 10 ~~i~~aD~vl~VvDar~p~~~~~-~~l~-~~l~----~~k~~ilVlNK~Dl~~~~~--~~~~~~~~~~~~~~~~~v~~iS 81 (352)
..+..+|.+++|+|+.++-+... ..+. .+.+ ...|+++|.||+|+.+... .....++.+..+. +++.+|
T Consensus 67 ~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~pii~v~nK~Dl~~~~~~~~~~~~~~~~~~~~---~~~~~S 143 (164)
T smart00173 67 QYMRTGEGFLLVYSITDRQSFEEIKKFREQILRVKDRDDVPIVLVGNKCDLESERVVSTEEGKELARQWGC---PFLETS 143 (164)
T ss_pred HHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccccccceEcHHHHHHHHHHcCC---EEEEee
Confidence 45788999999999987533211 1111 1111 3679999999999976432 2222333333344 489999
Q ss_pred cCCCCCCCHHHHHHHHHHHhh
Q psy15351 82 CRNPNCKGVQKILPTLQHISD 102 (352)
Q Consensus 82 a~~~~~~gi~~L~~~i~~~~~ 102 (352)
|+++ .|++++++++.+.+.
T Consensus 144 a~~~--~~i~~l~~~l~~~~~ 162 (164)
T smart00173 144 AKER--VNVDEAFYDLVREIR 162 (164)
T ss_pred cCCC--CCHHHHHHHHHHHHh
Confidence 9999 999999999876543
No 231
>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=98.18 E-value=1.4e-05 Score=67.49 Aligned_cols=86 Identities=15% Similarity=0.008 Sum_probs=59.5
Q ss_pred HHHhhccCEEEEEEcCCCCCCCcCHHHHHHH----h---CCCCEEEEEEcccCCCccc--hHHHHHHHHhhcCCCCcEEE
Q psy15351 9 EKHLKNVDIVIEVHDSRMPFTGRNHLLQQSV----Q---NIRPMVLVLNKRDLINSKH--ESLIEEKVRKEQSHISEVIF 79 (352)
Q Consensus 9 ~~~i~~aD~vl~VvDar~p~~~~~~~l~~~l----~---~~k~~ilVlNK~Dl~~~~~--~~~~~~~~~~~~~~~~~v~~ 79 (352)
...+.++|++++|.|+.++.+.. .+.+++ + .+.|+++|.||+|+.+... .+...+.....+.+ ++.
T Consensus 70 ~~~~~~ad~~i~v~d~~~~~s~~--~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~---~~~ 144 (167)
T cd01867 70 TAYYRGAMGIILVYDITDEKSFE--NIRNWMRNIEEHASEDVERMLVGNKCDMEEKRVVSKEEGEALADEYGIK---FLE 144 (167)
T ss_pred HHHhCCCCEEEEEEECcCHHHHH--hHHHHHHHHHHhCCCCCcEEEEEECcccccccCCCHHHHHHHHHHcCCE---EEE
Confidence 35678999999999998754321 222222 1 3579999999999985432 23333444344444 899
Q ss_pred eecCCCCCCCHHHHHHHHHHHh
Q psy15351 80 TNCRNPNCKGVQKILPTLQHIS 101 (352)
Q Consensus 80 iSa~~~~~~gi~~L~~~i~~~~ 101 (352)
+||+++ .|++++++++.+.+
T Consensus 145 ~Sa~~~--~~v~~~~~~i~~~~ 164 (167)
T cd01867 145 TSAKAN--INVEEAFFTLAKDI 164 (167)
T ss_pred EeCCCC--CCHHHHHHHHHHHH
Confidence 999999 99999999887644
No 232
>CHL00071 tufA elongation factor Tu
Probab=98.18 E-value=2.9e-06 Score=82.56 Aligned_cols=68 Identities=18% Similarity=0.229 Sum_probs=46.5
Q ss_pred cCcceEEEEeCCCCCChHHHHHHHhCCCCC--CCC--------ceecCCCCCceeEeeeeEEecCCCcEEEEeCCCCC
Q psy15351 165 EVYNTTVMVVGVPNVGKSSIINALRSSHMK--KGK--------AVPVGPKAGVTRSVMSQVKISEKPLIYILDTPGIS 232 (352)
Q Consensus 165 ~~~~~~v~i~G~pnvGKStliN~l~~~~~~--~~~--------~~~~~~~pg~T~~~~~~~~~~~~~~~~l~DtPGi~ 232 (352)
..+.++|+++|.+|+|||||+|+|++..-. ... .......+|+|++.........+.++.|+||||..
T Consensus 9 ~~~~~~i~i~Gh~d~GKSTL~~~Ll~~~~~~~~~~~~~~~~~d~~~~e~~rg~T~~~~~~~~~~~~~~~~~iDtPGh~ 86 (409)
T CHL00071 9 KKPHVNIGTIGHVDHGKTTLTAAITMTLAAKGGAKAKKYDEIDSAPEEKARGITINTAHVEYETENRHYAHVDCPGHA 86 (409)
T ss_pred CCCeEEEEEECCCCCCHHHHHHHHHHHhCccccccccccccccCChhhhcCCEeEEccEEEEccCCeEEEEEECCChH
Confidence 356799999999999999999999863100 000 11122348999887543333455678999999953
No 233
>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=98.18 E-value=9.9e-06 Score=66.96 Aligned_cols=90 Identities=16% Similarity=0.194 Sum_probs=59.0
Q ss_pred HHHHhhccCEEEEEEcCCCCCCCcC--HHHHHHHh----CCCCEEEEEEcccCCCccchHHHHHHHHhh--cCCCCcEEE
Q psy15351 8 IEKHLKNVDIVIEVHDSRMPFTGRN--HLLQQSVQ----NIRPMVLVLNKRDLINSKHESLIEEKVRKE--QSHISEVIF 79 (352)
Q Consensus 8 ~~~~i~~aD~vl~VvDar~p~~~~~--~~l~~~l~----~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~--~~~~~~v~~ 79 (352)
....+..+|++++|+|++++..... ..+.+++. .++|+++|+||+|+.+......+.+.+... .....+++.
T Consensus 61 ~~~~~~~~d~ii~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 140 (159)
T cd04159 61 WERYCRGVNAIVYVVDAADRTALEAAKNELHDLLEKPSLEGIPLLVLGNKNDLPGALSVDELIEQMNLKSITDREVSCYS 140 (159)
T ss_pred HHHHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHcChhhcCCCEEEEEeCccccCCcCHHHHHHHhCcccccCCceEEEE
Confidence 4467889999999999986532111 12222222 367999999999998765444444333111 111124789
Q ss_pred eecCCCCCCCHHHHHHHHHH
Q psy15351 80 TNCRNPNCKGVQKILPTLQH 99 (352)
Q Consensus 80 iSa~~~~~~gi~~L~~~i~~ 99 (352)
+|++++ .|+++++++|.+
T Consensus 141 ~Sa~~~--~gi~~l~~~l~~ 158 (159)
T cd04159 141 ISCKEK--TNIDIVLDWLIK 158 (159)
T ss_pred EEeccC--CChHHHHHHHhh
Confidence 999999 999999988754
No 234
>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=98.18 E-value=9.6e-06 Score=67.83 Aligned_cols=86 Identities=21% Similarity=0.127 Sum_probs=56.7
Q ss_pred HHhhccCEEEEEEcCCCCCCCcC-HHHH-HHHh----CCCCEEEEEEcccCCCccch--HHHHHHHHhhcCCCCcEEEee
Q psy15351 10 KHLKNVDIVIEVHDSRMPFTGRN-HLLQ-QSVQ----NIRPMVLVLNKRDLINSKHE--SLIEEKVRKEQSHISEVIFTN 81 (352)
Q Consensus 10 ~~i~~aD~vl~VvDar~p~~~~~-~~l~-~~l~----~~k~~ilVlNK~Dl~~~~~~--~~~~~~~~~~~~~~~~v~~iS 81 (352)
..+..+|.+++|+|..++.+..+ ..+. .+.+ .+.|+++|+||+|+.+.... ....++.+..+. +++.+|
T Consensus 68 ~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~---~~~~~S 144 (163)
T cd04136 68 LYIKNGQGFVLVYSITSQSSFNDLQDLREQILRVKDTENVPMVLVGNKCDLEDERVVSREEGQALARQWGC---PFYETS 144 (163)
T ss_pred HHhhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccccccceecHHHHHHHHHHcCC---eEEEec
Confidence 45688999999999987543221 1111 2221 36899999999999764321 222222223343 489999
Q ss_pred cCCCCCCCHHHHHHHHHHH
Q psy15351 82 CRNPNCKGVQKILPTLQHI 100 (352)
Q Consensus 82 a~~~~~~gi~~L~~~i~~~ 100 (352)
|+++ .|++++++++.+.
T Consensus 145 a~~~--~~v~~l~~~l~~~ 161 (163)
T cd04136 145 AKSK--INVDEVFADLVRQ 161 (163)
T ss_pred CCCC--CCHHHHHHHHHHh
Confidence 9999 9999999988653
No 235
>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=98.18 E-value=3.1e-06 Score=70.78 Aligned_cols=57 Identities=25% Similarity=0.395 Sum_probs=38.1
Q ss_pred EEEEeCCCCCChHHHHHHHhCCCCCCCCceecCCCCCceeEeeeeEEecCCCcEEEEeCCCCCC
Q psy15351 170 TVMVVGVPNVGKSSIINALRSSHMKKGKAVPVGPKAGVTRSVMSQVKISEKPLIYILDTPGISL 233 (352)
Q Consensus 170 ~v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~~~pg~T~~~~~~~~~~~~~~~~l~DtPGi~~ 233 (352)
+|+++|.+|||||||++++.+... ......++.|.+... + ...+..+.++||||...
T Consensus 1 ~i~~vG~~~~GKTsl~~~l~~~~~---~~~~~~~t~g~~~~~---~-~~~~~~~~l~Dt~G~~~ 57 (162)
T cd04157 1 NILVVGLDNSGKTTIINQLKPENA---QSQIIVPTVGFNVES---F-EKGNLSFTAFDMSGQGK 57 (162)
T ss_pred CEEEECCCCCCHHHHHHHHcccCC---CcceecCccccceEE---E-EECCEEEEEEECCCCHh
Confidence 478999999999999999986210 123344555654332 1 12334688999999753
No 236
>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=98.18 E-value=1.3e-05 Score=69.49 Aligned_cols=88 Identities=11% Similarity=0.033 Sum_probs=61.5
Q ss_pred HHhhccCEEEEEEcCCCCCCCcCH--HHHHHHh--CCCCEEEEEEcccCCCccc--hHHHHHHHHhhcCCCCcEEEeecC
Q psy15351 10 KHLKNVDIVIEVHDSRMPFTGRNH--LLQQSVQ--NIRPMVLVLNKRDLINSKH--ESLIEEKVRKEQSHISEVIFTNCR 83 (352)
Q Consensus 10 ~~i~~aD~vl~VvDar~p~~~~~~--~l~~~l~--~~k~~ilVlNK~Dl~~~~~--~~~~~~~~~~~~~~~~~v~~iSa~ 83 (352)
.....+|++|+|.|.+++.+..+- .+.++.+ .+.|+++|.||+||..... .++..++.++.+.. ++.+||+
T Consensus 74 ~~~~~ad~illVfD~t~~~Sf~~~~~w~~~i~~~~~~~piilVGNK~DL~~~~~v~~~~~~~~a~~~~~~---~~e~SAk 150 (189)
T cd04121 74 SYSRGAQGIILVYDITNRWSFDGIDRWIKEIDEHAPGVPKILVGNRLHLAFKRQVATEQAQAYAERNGMT---FFEVSPL 150 (189)
T ss_pred HHhcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhCCCCCEEEEEECccchhccCCCHHHHHHHHHHcCCE---EEEecCC
Confidence 456899999999999887544321 1122222 4679999999999965322 23344444445554 8999999
Q ss_pred CCCCCCHHHHHHHHHHHhh
Q psy15351 84 NPNCKGVQKILPTLQHISD 102 (352)
Q Consensus 84 ~~~~~gi~~L~~~i~~~~~ 102 (352)
++ .|++++++++.+.+.
T Consensus 151 ~g--~~V~~~F~~l~~~i~ 167 (189)
T cd04121 151 CN--FNITESFTELARIVL 167 (189)
T ss_pred CC--CCHHHHHHHHHHHHH
Confidence 99 999999999876543
No 237
>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=98.18 E-value=1.2e-05 Score=67.15 Aligned_cols=84 Identities=18% Similarity=0.169 Sum_probs=59.2
Q ss_pred HHHhhccCEEEEEEcCCCCCCCcCHHHHHHH---h---CCCCEEEEEEcccCCCccc--hHHHHHHHHhhcCCCCcEEEe
Q psy15351 9 EKHLKNVDIVIEVHDSRMPFTGRNHLLQQSV---Q---NIRPMVLVLNKRDLINSKH--ESLIEEKVRKEQSHISEVIFT 80 (352)
Q Consensus 9 ~~~i~~aD~vl~VvDar~p~~~~~~~l~~~l---~---~~k~~ilVlNK~Dl~~~~~--~~~~~~~~~~~~~~~~~v~~i 80 (352)
...+..+|++++|.|+.++.+. ..+..++ . .+.|+++|+||+|+..... .++..+..+..+.+ ++.+
T Consensus 69 ~~~~~~~~~~v~v~d~~~~~s~--~~l~~~~~~~~~~~~~~p~iiv~nK~Dl~~~~~v~~~~~~~~~~~~~~~---~~~~ 143 (162)
T cd04106 69 KAYYRGAQACILVFSTTDRESF--EAIESWKEKVEAECGDIPMVLVQTKIDLLDQAVITNEEAEALAKRLQLP---LFRT 143 (162)
T ss_pred HHHhcCCCEEEEEEECCCHHHH--HHHHHHHHHHHHhCCCCCEEEEEEChhcccccCCCHHHHHHHHHHcCCe---EEEE
Confidence 4567899999999999876432 1222222 1 4789999999999976543 23333344444554 8999
Q ss_pred ecCCCCCCCHHHHHHHHHH
Q psy15351 81 NCRNPNCKGVQKILPTLQH 99 (352)
Q Consensus 81 Sa~~~~~~gi~~L~~~i~~ 99 (352)
||+++ .|+++++++|.+
T Consensus 144 Sa~~~--~~v~~l~~~l~~ 160 (162)
T cd04106 144 SVKDD--FNVTELFEYLAE 160 (162)
T ss_pred ECCCC--CCHHHHHHHHHH
Confidence 99999 999999988754
No 238
>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=98.18 E-value=2.9e-06 Score=77.76 Aligned_cols=21 Identities=29% Similarity=0.485 Sum_probs=19.2
Q ss_pred EEEEeCCCCCChHHHHHHHhC
Q psy15351 170 TVMVVGVPNVGKSSIINALRS 190 (352)
Q Consensus 170 ~v~i~G~pnvGKStliN~l~~ 190 (352)
+|+++|.+|+|||||+|+|..
T Consensus 1 ni~ivG~~gsGKStL~~~Ll~ 21 (268)
T cd04170 1 NIALVGHSGSGKTTLAEALLY 21 (268)
T ss_pred CEEEECCCCCCHHHHHHHHHH
Confidence 489999999999999999975
No 239
>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=98.18 E-value=4.5e-06 Score=71.97 Aligned_cols=59 Identities=15% Similarity=0.268 Sum_probs=39.2
Q ss_pred CcceEEEEeCCCCCChHHHHHHHhCCCCCCCCceecCCCCCceeEeeeeEEecCCCcEEEEeCCCCCC
Q psy15351 166 VYNTTVMVVGVPNVGKSSIINALRSSHMKKGKAVPVGPKAGVTRSVMSQVKISEKPLIYILDTPGISL 233 (352)
Q Consensus 166 ~~~~~v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~~~pg~T~~~~~~~~~~~~~~~~l~DtPGi~~ 233 (352)
.+.++|+++|.+|||||||+|++.+. ....+.++.+.+... + ...+..+.++||||...
T Consensus 15 ~~~~~i~ivG~~~~GKTsli~~l~~~-----~~~~~~~t~~~~~~~---~-~~~~~~~~~~D~~G~~~ 73 (184)
T smart00178 15 NKHAKILFLGLDNAGKTTLLHMLKND-----RLAQHQPTQHPTSEE---L-AIGNIKFTTFDLGGHQQ 73 (184)
T ss_pred cccCEEEEECCCCCCHHHHHHHHhcC-----CCcccCCccccceEE---E-EECCEEEEEEECCCCHH
Confidence 34588999999999999999999973 222233333333221 1 12344688999999753
No 240
>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=98.17 E-value=1.3e-05 Score=70.29 Aligned_cols=88 Identities=15% Similarity=0.027 Sum_probs=59.0
Q ss_pred HHHhhccCEEEEEEcCCCCCCCcCH-HHHHHHh----CCCCEEEEEEcccCCCccch--HHHHHHHHhh-cCCCCcEEEe
Q psy15351 9 EKHLKNVDIVIEVHDSRMPFTGRNH-LLQQSVQ----NIRPMVLVLNKRDLINSKHE--SLIEEKVRKE-QSHISEVIFT 80 (352)
Q Consensus 9 ~~~i~~aD~vl~VvDar~p~~~~~~-~l~~~l~----~~k~~ilVlNK~Dl~~~~~~--~~~~~~~~~~-~~~~~~v~~i 80 (352)
...+..+|++|+|.|..++.+..+- .+...++ .+.|+++|.||+||.....+ .+..++.++. +.. ++.+
T Consensus 67 ~~y~~~ad~iIlVfDvtd~~Sf~~l~~w~~~i~~~~~~~~piilVgNK~DL~~~~~v~~~~~~~~a~~~~~~~---~~et 143 (202)
T cd04120 67 SAYYRSAKGIILVYDITKKETFDDLPKWMKMIDKYASEDAELLLVGNKLDCETDREISRQQGEKFAQQITGMR---FCEA 143 (202)
T ss_pred HHHhcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhCCCCCcEEEEEECcccccccccCHHHHHHHHHhcCCCE---EEEe
Confidence 3567899999999999876433221 1222222 36799999999999754332 2222222222 343 8899
Q ss_pred ecCCCCCCCHHHHHHHHHHHh
Q psy15351 81 NCRNPNCKGVQKILPTLQHIS 101 (352)
Q Consensus 81 Sa~~~~~~gi~~L~~~i~~~~ 101 (352)
||+++ .|+++++.++.+.+
T Consensus 144 SAktg--~gV~e~F~~l~~~~ 162 (202)
T cd04120 144 SAKDN--FNVDEIFLKLVDDI 162 (202)
T ss_pred cCCCC--CCHHHHHHHHHHHH
Confidence 99999 99999998887654
No 241
>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=98.17 E-value=5.3e-06 Score=69.88 Aligned_cols=59 Identities=25% Similarity=0.437 Sum_probs=35.3
Q ss_pred ceEEEEeCCCCCChHHHHHHHhCCCCCCCCceecCCCCCceeEeeeeEEecCC-CcEEEEeCCCC
Q psy15351 168 NTTVMVVGVPNVGKSSIINALRSSHMKKGKAVPVGPKAGVTRSVMSQVKISEK-PLIYILDTPGI 231 (352)
Q Consensus 168 ~~~v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~~~pg~T~~~~~~~~~~~~-~~~~l~DtPGi 231 (352)
.++|+++|.+|+|||||++++..... ........|+.... ..+...+. ..+.++||||-
T Consensus 3 ~~kv~vvG~~~~GKTsli~~l~~~~~----~~~~~~t~~~~~~~-~~~~~~~~~~~l~i~D~~G~ 62 (165)
T cd01864 3 LFKIILIGDSNVGKTCVVQRFKSGTF----SERQGNTIGVDFTM-KTLEIEGKRVKLQIWDTAGQ 62 (165)
T ss_pred eeEEEEECCCCCCHHHHHHHHhhCCC----cccCCCccceEEEE-EEEEECCEEEEEEEEECCCh
Confidence 47899999999999999999985211 11112222221111 12222221 25789999994
No 242
>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=98.16 E-value=1.1e-05 Score=70.48 Aligned_cols=91 Identities=16% Similarity=0.080 Sum_probs=61.5
Q ss_pred HHHhhccCEEEEEEcCCCCCCCcC-----HHHHHHHh----CCCCEEEEEEcccCCCcc--chHHHHHHHHhhcCCCCcE
Q psy15351 9 EKHLKNVDIVIEVHDSRMPFTGRN-----HLLQQSVQ----NIRPMVLVLNKRDLINSK--HESLIEEKVRKEQSHISEV 77 (352)
Q Consensus 9 ~~~i~~aD~vl~VvDar~p~~~~~-----~~l~~~l~----~~k~~ilVlNK~Dl~~~~--~~~~~~~~~~~~~~~~~~v 77 (352)
...+.++|++++|+|..++.+... ..+...+. ...|+++|.||+|+.+.. ...+..++.+..+.. .+
T Consensus 68 ~~~~~~a~~~ilv~D~t~~~s~~~~~~~~~~i~~~~~~~~~~~~piilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~--~~ 145 (201)
T cd04107 68 RVYYRGAVGAIIVFDVTRPSTFEAVLKWKADLDSKVTLPNGEPIPCLLLANKCDLKKRLAKDGEQMDQFCKENGFI--GW 145 (201)
T ss_pred HHHhCCCCEEEEEEECCCHHHHHHHHHHHHHHHHhhcccCCCCCcEEEEEECCCcccccccCHHHHHHHHHHcCCc--eE
Confidence 456789999999999987643222 11212111 356999999999997422 233444444444522 48
Q ss_pred EEeecCCCCCCCHHHHHHHHHHHhhh
Q psy15351 78 IFTNCRNPNCKGVQKILPTLQHISDN 103 (352)
Q Consensus 78 ~~iSa~~~~~~gi~~L~~~i~~~~~~ 103 (352)
+.+||+++ .|++++++++.+.+..
T Consensus 146 ~e~Sak~~--~~v~e~f~~l~~~l~~ 169 (201)
T cd04107 146 FETSAKEG--INIEEAMRFLVKNILA 169 (201)
T ss_pred EEEeCCCC--CCHHHHHHHHHHHHHH
Confidence 99999999 9999999998866543
No 243
>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=98.16 E-value=3.1e-06 Score=73.61 Aligned_cols=64 Identities=19% Similarity=0.333 Sum_probs=39.5
Q ss_pred EEEEeCCCCCChHHHHHHHhCC--CCCCCCc--ee------cCCCCCceeEeeeeEEecCCCcEEEEeCCCCCC
Q psy15351 170 TVMVVGVPNVGKSSIINALRSS--HMKKGKA--VP------VGPKAGVTRSVMSQVKISEKPLIYILDTPGISL 233 (352)
Q Consensus 170 ~v~i~G~pnvGKStliN~l~~~--~~~~~~~--~~------~~~~pg~T~~~~~~~~~~~~~~~~l~DtPGi~~ 233 (352)
+|+++|.+|||||||+|+|++. .+..... .. .....|+|...........+..+.++||||...
T Consensus 4 ~i~ivG~~~~GKTsL~~~l~~~~~~~~~~~~~~~~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~l~DtpG~~~ 77 (194)
T cd01891 4 NIAIIAHVDHGKTTLVDALLKQSGTFRENEEVEERVMDSNDLERERGITILAKNTAVTYKDTKINIVDTPGHAD 77 (194)
T ss_pred EEEEEecCCCCHHHHHHHHHHHcCCCCccCcccccccccchhHHhcccccccceeEEEECCEEEEEEECCCcHH
Confidence 6999999999999999999852 1111000 00 012356665543322223445789999999754
No 244
>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=98.16 E-value=1.4e-05 Score=67.98 Aligned_cols=90 Identities=13% Similarity=0.098 Sum_probs=57.9
Q ss_pred HHHhhccCEEEEEEcCCCCCCCc--CHHHHHHHh----CCCCEEEEEEcccCCCccch---H-HHHHHHHhhcCCCCcEE
Q psy15351 9 EKHLKNVDIVIEVHDSRMPFTGR--NHLLQQSVQ----NIRPMVLVLNKRDLINSKHE---S-LIEEKVRKEQSHISEVI 78 (352)
Q Consensus 9 ~~~i~~aD~vl~VvDar~p~~~~--~~~l~~~l~----~~k~~ilVlNK~Dl~~~~~~---~-~~~~~~~~~~~~~~~v~ 78 (352)
...+..+|++++|.|+.++.+.. ...+..+.+ ...|+++|.||+|+.+.... . ...++.++.+. +++
T Consensus 67 ~~~~~~ad~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~iilVgnK~Dl~~~~~~~~~~~~~~~~~~~~~~---~~~ 143 (170)
T cd04108 67 STYYRGAQAIIIVFDLTDVASLEHTRQWLEDALKENDPSSVLLFLVGTKKDLSSPAQYALMEQDAIKLAAEMQA---EYW 143 (170)
T ss_pred HHHhcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEChhcCccccccccHHHHHHHHHHcCC---eEE
Confidence 34578999999999997642221 112222222 12458999999999754321 1 11122223343 388
Q ss_pred EeecCCCCCCCHHHHHHHHHHHhhh
Q psy15351 79 FTNCRNPNCKGVQKILPTLQHISDN 103 (352)
Q Consensus 79 ~iSa~~~~~~gi~~L~~~i~~~~~~ 103 (352)
.+||+++ .|++++++.+.+++.+
T Consensus 144 e~Sa~~g--~~v~~lf~~l~~~~~~ 166 (170)
T cd04108 144 SVSALSG--ENVREFFFRVAALTFE 166 (170)
T ss_pred EEECCCC--CCHHHHHHHHHHHHHH
Confidence 9999999 9999999998876643
No 245
>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=98.16 E-value=4e-06 Score=70.15 Aligned_cols=58 Identities=24% Similarity=0.259 Sum_probs=35.6
Q ss_pred eEEEEeCCCCCChHHHHHHHhCCCCCCCCceecCCCCCceeEeeeeEEecCC--CcEEEEeCCCCCC
Q psy15351 169 TTVMVVGVPNVGKSSIINALRSSHMKKGKAVPVGPKAGVTRSVMSQVKISEK--PLIYILDTPGISL 233 (352)
Q Consensus 169 ~~v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~~~pg~T~~~~~~~~~~~~--~~~~l~DtPGi~~ 233 (352)
++|+++|.||||||||+|++..... .....+++.+........++ -.+.++||||...
T Consensus 1 ~ki~~~G~~~~GKTsl~~~l~~~~~-------~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~ 60 (164)
T cd04139 1 YKVIVVGAGGVGKSALTLQFMYDEF-------VEDYEPTKADSYRKKVVLDGEDVQLNILDTAGQED 60 (164)
T ss_pred CEEEEECCCCCCHHHHHHHHHhCCC-------ccccCCcchhhEEEEEEECCEEEEEEEEECCChhh
Confidence 4799999999999999999986321 12223333222111111221 2478999999643
No 246
>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=98.15 E-value=4.6e-06 Score=70.10 Aligned_cols=58 Identities=24% Similarity=0.292 Sum_probs=35.9
Q ss_pred eEEEEeCCCCCChHHHHHHHhCCCCCCCCceecCCCCCceeEeee-eEEecC-CCcEEEEeCCCCCC
Q psy15351 169 TTVMVVGVPNVGKSSIINALRSSHMKKGKAVPVGPKAGVTRSVMS-QVKISE-KPLIYILDTPGISL 233 (352)
Q Consensus 169 ~~v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~~~pg~T~~~~~-~~~~~~-~~~~~l~DtPGi~~ 233 (352)
++|+++|.+|||||||++++... . .....+.|+.+... .+...+ ...+.++||||...
T Consensus 2 ~ki~~~G~~~~GKTsli~~~~~~-----~--~~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~~~ 61 (164)
T cd04175 2 YKLVVLGSGGVGKSALTVQFVQG-----I--FVEKYDPTIEDSYRKQVEVDGQQCMLEILDTAGTEQ 61 (164)
T ss_pred cEEEEECCCCCCHHHHHHHHHhC-----C--CCcccCCcchheEEEEEEECCEEEEEEEEECCCccc
Confidence 67999999999999999999852 1 12223334332221 222221 11456899999753
No 247
>PF00350 Dynamin_N: Dynamin family; InterPro: IPR001401 Membrane transport between compartments in eukaryotic cells requires proteins that allow the budding and scission of nascent cargo vesicles from one compartment and their targeting and fusion with another. Dynamins are large GTPases that belong to a protein superfamily [] that, in eukaryotic cells, includes classical dynamins, dynamin-like proteins, OPA1, Mx proteins, mitofusins and guanylate-binding proteins/atlastins [, , , ], and are involved in the scission of a wide range of vesicles and organelles. They play a role in many processes including budding of transport vesicles, division of organelles, cytokinesis and pathogen resistance. The minimal distinguishing architectural features that are common to all dynamins and are distinct from other GTPases are the structure of the large GTPase domain (300 amino acids) and the presence of two additional domains; the middle domain and the GTPase effector domain (GED), which are involved in oligomerization and regulation of the GTPase activity. This entry represents the GTPase domain, containing the GTP-binding motifs that are needed for guanine-nucleotide binding and hydrolysis. The conservation of these motifs is absolute except for the the final motif in guanylate-binding proteins. The GTPase catalytic activity can be stimulated by oligomerisation of the protein, which is mediated by interactions between the GTPase domain, the middle domain and the GED.; GO: 0003924 GTPase activity, 0005525 GTP binding; PDB: 1JWY_B 1JX2_B 3ZVR_A 2AKA_B 3L43_B 2X2F_D 2X2E_D 3SNH_A 3ZYS_D 3ZYC_D ....
Probab=98.15 E-value=3.4e-06 Score=71.37 Aligned_cols=22 Identities=50% Similarity=0.578 Sum_probs=20.1
Q ss_pred EEEeCCCCCChHHHHHHHhCCC
Q psy15351 171 VMVVGVPNVGKSSIINALRSSH 192 (352)
Q Consensus 171 v~i~G~pnvGKStliN~l~~~~ 192 (352)
|+++|..++|||||||+|.|..
T Consensus 1 V~v~G~~ssGKSTliNaLlG~~ 22 (168)
T PF00350_consen 1 VAVVGQFSSGKSTLINALLGRP 22 (168)
T ss_dssp EEEEEBTTSSHHHHHHHHHTSS
T ss_pred CEEEcCCCCCHHHHHHHHHhcc
Confidence 6899999999999999999853
No 248
>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=98.15 E-value=4.8e-06 Score=69.59 Aligned_cols=55 Identities=20% Similarity=0.439 Sum_probs=37.1
Q ss_pred EEEEeCCCCCChHHHHHHHhCCCCCCCCceecCCCCCceeEeeeeEEecCCCcEEEEeCCCCC
Q psy15351 170 TVMVVGVPNVGKSSIINALRSSHMKKGKAVPVGPKAGVTRSVMSQVKISEKPLIYILDTPGIS 232 (352)
Q Consensus 170 ~v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~~~pg~T~~~~~~~~~~~~~~~~l~DtPGi~ 232 (352)
+|+++|.+|||||||+|++.+. ......+..|.+... +.......+.++||||..
T Consensus 1 ~i~i~G~~~~GKTsl~~~~~~~-----~~~~~~~t~~~~~~~---~~~~~~~~l~i~D~~G~~ 55 (160)
T cd04156 1 QVLLLGLDSAGKSTLLYKLKHA-----ELVTTIPTVGFNVEM---LQLEKHLSLTVWDVGGQE 55 (160)
T ss_pred CEEEEcCCCCCHHHHHHHHhcC-----CcccccCccCcceEE---EEeCCceEEEEEECCCCH
Confidence 4889999999999999999973 222334444443322 222233468999999974
No 249
>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=98.15 E-value=1.3e-05 Score=70.97 Aligned_cols=88 Identities=17% Similarity=0.077 Sum_probs=57.7
Q ss_pred HHhhccCEEEEEEcCCCCCCCcCH-HHHHHHh-------CCCCEEEEEEcccCCCccc--hHHHHHHHHhhcCCCCcEEE
Q psy15351 10 KHLKNVDIVIEVHDSRMPFTGRNH-LLQQSVQ-------NIRPMVLVLNKRDLINSKH--ESLIEEKVRKEQSHISEVIF 79 (352)
Q Consensus 10 ~~i~~aD~vl~VvDar~p~~~~~~-~l~~~l~-------~~k~~ilVlNK~Dl~~~~~--~~~~~~~~~~~~~~~~~v~~ 79 (352)
..+..+|++|+|+|+.++-+..+. .+...+. .+.|+++|.||+|+..... .....++.+..+.. ++.
T Consensus 69 ~~~~~ad~iilV~D~t~~~s~~~~~~w~~~l~~~~~~~~~~~piilVgNK~DL~~~~~v~~~~~~~~~~~~~~~---~~~ 145 (215)
T cd04109 69 KYIYGAHAVFLVYDVTNSQSFENLEDWYSMVRKVLKSSETQPLVVLVGNKTDLEHNRTVKDDKHARFAQANGME---SCL 145 (215)
T ss_pred HHhhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhccccCCCceEEEEEECcccccccccCHHHHHHHHHHcCCE---EEE
Confidence 467899999999999876432211 1112121 1246899999999974332 12222333333443 889
Q ss_pred eecCCCCCCCHHHHHHHHHHHhh
Q psy15351 80 TNCRNPNCKGVQKILPTLQHISD 102 (352)
Q Consensus 80 iSa~~~~~~gi~~L~~~i~~~~~ 102 (352)
+||+++ .|++++++++.+.+.
T Consensus 146 iSAktg--~gv~~lf~~l~~~l~ 166 (215)
T cd04109 146 VSAKTG--DRVNLLFQQLAAELL 166 (215)
T ss_pred EECCCC--CCHHHHHHHHHHHHH
Confidence 999999 999999999886654
No 250
>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=98.15 E-value=1.1e-05 Score=67.13 Aligned_cols=86 Identities=22% Similarity=0.177 Sum_probs=57.9
Q ss_pred HHhhccCEEEEEEcCCCCCCCcC-HHH-HHHHh---CCCCEEEEEEcccCCCccc--hHHHHHHHHhhcCCCCcEEEeec
Q psy15351 10 KHLKNVDIVIEVHDSRMPFTGRN-HLL-QQSVQ---NIRPMVLVLNKRDLINSKH--ESLIEEKVRKEQSHISEVIFTNC 82 (352)
Q Consensus 10 ~~i~~aD~vl~VvDar~p~~~~~-~~l-~~~l~---~~k~~ilVlNK~Dl~~~~~--~~~~~~~~~~~~~~~~~v~~iSa 82 (352)
..+..+|++++|+|+.++-+... ..+ ..+.. .+.|+++|+||+|+..... .+...++.+..+.. ++.+|+
T Consensus 68 ~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piiiv~nK~D~~~~~~~~~~~~~~~~~~~~~~---~~~~s~ 144 (162)
T cd04123 68 IYYRDADGAILVYDITDADSFQKVKKWIKELKQMRGNNISLVIVGNKIDLERQRVVSKSEAEEYAKSVGAK---HFETSA 144 (162)
T ss_pred HHhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECcccccccCCCHHHHHHHHHHcCCE---EEEEeC
Confidence 34678999999999876532211 111 11111 3579999999999985432 23344444444554 899999
Q ss_pred CCCCCCCHHHHHHHHHHH
Q psy15351 83 RNPNCKGVQKILPTLQHI 100 (352)
Q Consensus 83 ~~~~~~gi~~L~~~i~~~ 100 (352)
+++ .|++++++++.+.
T Consensus 145 ~~~--~gi~~~~~~l~~~ 160 (162)
T cd04123 145 KTG--KGIEELFLSLAKR 160 (162)
T ss_pred CCC--CCHHHHHHHHHHH
Confidence 999 9999999998654
No 251
>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=98.14 E-value=7.5e-06 Score=73.65 Aligned_cols=64 Identities=17% Similarity=0.153 Sum_probs=38.1
Q ss_pred EEEEeCCCCCChHHHHHHHhCCCCCCCCce------ec------CCCCCceeEeeeeEEecCCCcEEEEeCCCCCC
Q psy15351 170 TVMVVGVPNVGKSSIINALRSSHMKKGKAV------PV------GPKAGVTRSVMSQVKISEKPLIYILDTPGISL 233 (352)
Q Consensus 170 ~v~i~G~pnvGKStliN~l~~~~~~~~~~~------~~------~~~pg~T~~~~~~~~~~~~~~~~l~DtPGi~~ 233 (352)
+|+++|.+|+|||||+++|+...-...+.. .+ ....|.|...........+.++.++||||...
T Consensus 1 ni~i~G~~~~GKTtL~~~ll~~~g~i~~~g~v~~~~~~~D~~~~e~~rg~ti~~~~~~~~~~~~~i~liDTPG~~~ 76 (237)
T cd04168 1 NIGILAHVDAGKTTLTESLLYTSGAIRKLGSVDKGTTRTDTMELERQRGITIFSAVASFQWEDTKVNLIDTPGHMD 76 (237)
T ss_pred CEEEEcCCCCCHHHHHHHHHHHcCCccccccccCCcccCCCchhHhhCCCceeeeeEEEEECCEEEEEEeCCCccc
Confidence 489999999999999999985310000000 00 11233344332222333455799999999964
No 252
>CHL00071 tufA elongation factor Tu
Probab=98.14 E-value=1.5e-05 Score=77.61 Aligned_cols=83 Identities=14% Similarity=0.031 Sum_probs=58.7
Q ss_pred hHHHHHHHHhhccCEEEEEEcCCCCCCCcCHHHHHHHh-CCCC-EEEEEEcccCCCccch-----HHHHHHHHhhcCC--
Q psy15351 3 RGLKDIEKHLKNVDIVIEVHDSRMPFTGRNHLLQQSVQ-NIRP-MVLVLNKRDLINSKHE-----SLIEEKVRKEQSH-- 73 (352)
Q Consensus 3 ~~~~~~~~~i~~aD~vl~VvDar~p~~~~~~~l~~~l~-~~k~-~ilVlNK~Dl~~~~~~-----~~~~~~~~~~~~~-- 73 (352)
+.++.+...+..+|++++|+|++.++.....++..++. .+.| +++++||+|+++.+.. ++..++++..++.
T Consensus 87 ~~~~~~~~~~~~~D~~ilVvda~~g~~~qt~~~~~~~~~~g~~~iIvvvNK~D~~~~~~~~~~~~~~l~~~l~~~~~~~~ 166 (409)
T CHL00071 87 DYVKNMITGAAQMDGAILVVSAADGPMPQTKEHILLAKQVGVPNIVVFLNKEDQVDDEELLELVELEVRELLSKYDFPGD 166 (409)
T ss_pred HHHHHHHHHHHhCCEEEEEEECCCCCcHHHHHHHHHHHHcCCCEEEEEEEccCCCCHHHHHHHHHHHHHHHHHHhCCCCC
Confidence 45677888999999999999999877665555555554 5778 6688999999875432 2333444443432
Q ss_pred CCcEEEeecCCC
Q psy15351 74 ISEVIFTNCRNP 85 (352)
Q Consensus 74 ~~~v~~iSa~~~ 85 (352)
..+++++||.++
T Consensus 167 ~~~ii~~Sa~~g 178 (409)
T CHL00071 167 DIPIVSGSALLA 178 (409)
T ss_pred cceEEEcchhhc
Confidence 135899999887
No 253
>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=98.14 E-value=5.4e-06 Score=69.38 Aligned_cols=22 Identities=50% Similarity=0.653 Sum_probs=20.5
Q ss_pred eEEEEeCCCCCChHHHHHHHhC
Q psy15351 169 TTVMVVGVPNVGKSSIINALRS 190 (352)
Q Consensus 169 ~~v~i~G~pnvGKStliN~l~~ 190 (352)
++|+++|.+|||||||+|++.+
T Consensus 1 ~kv~~vG~~~~GKTsl~~~~~~ 22 (162)
T cd04106 1 IKVIVVGNGNVGKSSMIQRFVK 22 (162)
T ss_pred CEEEEECCCCCCHHHHHHHHhc
Confidence 4799999999999999999986
No 254
>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=98.13 E-value=1.7e-05 Score=66.69 Aligned_cols=85 Identities=16% Similarity=0.052 Sum_probs=58.1
Q ss_pred HHHhhccCEEEEEEcCCCCCCCcCHHHHHHHh-------CCCCEEEEEEcccCCCccc--hHHHHHHHHhhcCCCCcEEE
Q psy15351 9 EKHLKNVDIVIEVHDSRMPFTGRNHLLQQSVQ-------NIRPMVLVLNKRDLINSKH--ESLIEEKVRKEQSHISEVIF 79 (352)
Q Consensus 9 ~~~i~~aD~vl~VvDar~p~~~~~~~l~~~l~-------~~k~~ilVlNK~Dl~~~~~--~~~~~~~~~~~~~~~~~v~~ 79 (352)
...+..+|.+++|+|+.++.+. ..+.+++. .+.|+++|.||+|+..... .++..++....+.. ++.
T Consensus 70 ~~~~~~~~~~i~v~d~~~~~s~--~~~~~~~~~~~~~~~~~~pi~vv~nK~Dl~~~~~~~~~~~~~~~~~~~~~---~~~ 144 (165)
T cd01868 70 SAYYRGAVGALLVYDITKKQTF--ENVERWLKELRDHADSNIVIMLVGNKSDLRHLRAVPTEEAKAFAEKNGLS---FIE 144 (165)
T ss_pred HHHHCCCCEEEEEEECcCHHHH--HHHHHHHHHHHHhCCCCCeEEEEEECccccccccCCHHHHHHHHHHcCCE---EEE
Confidence 3466889999999999865432 22222221 2579999999999975432 23333333333443 899
Q ss_pred eecCCCCCCCHHHHHHHHHHH
Q psy15351 80 TNCRNPNCKGVQKILPTLQHI 100 (352)
Q Consensus 80 iSa~~~~~~gi~~L~~~i~~~ 100 (352)
+||+++ .|++++++.+.+.
T Consensus 145 ~Sa~~~--~~v~~l~~~l~~~ 163 (165)
T cd01868 145 TSALDG--TNVEEAFKQLLTE 163 (165)
T ss_pred EECCCC--CCHHHHHHHHHHH
Confidence 999999 9999999987653
No 255
>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=98.13 E-value=2e-05 Score=65.99 Aligned_cols=87 Identities=14% Similarity=0.068 Sum_probs=59.3
Q ss_pred HHhhccCEEEEEEcCCCCCCCcC-HHH-HHHHh---CCCCEEEEEEcccCCCcc--chHHHHHHHHhhcCCCCcEEEeec
Q psy15351 10 KHLKNVDIVIEVHDSRMPFTGRN-HLL-QQSVQ---NIRPMVLVLNKRDLINSK--HESLIEEKVRKEQSHISEVIFTNC 82 (352)
Q Consensus 10 ~~i~~aD~vl~VvDar~p~~~~~-~~l-~~~l~---~~k~~ilVlNK~Dl~~~~--~~~~~~~~~~~~~~~~~~v~~iSa 82 (352)
..+..+|++++|+|+.++.+... ..+ ..+.. ...|+++|.||+|+.+.. ......+.....+. +++.+||
T Consensus 69 ~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~iivv~nK~D~~~~~~~~~~~~~~~~~~~~~---~~~~~Sa 145 (163)
T cd01860 69 MYYRGAAAAIVVYDITSEESFEKAKSWVKELQRNASPNIIIALVGNKADLESKRQVSTEEAQEYADENGL---LFFETSA 145 (163)
T ss_pred HHhccCCEEEEEEECcCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECccccccCcCCHHHHHHHHHHcCC---EEEEEEC
Confidence 46778999999999986532211 112 22222 346799999999987432 23344444444454 4999999
Q ss_pred CCCCCCCHHHHHHHHHHHh
Q psy15351 83 RNPNCKGVQKILPTLQHIS 101 (352)
Q Consensus 83 ~~~~~~gi~~L~~~i~~~~ 101 (352)
+++ .|+.+++++|.+.+
T Consensus 146 ~~~--~~v~~l~~~l~~~l 162 (163)
T cd01860 146 KTG--ENVNELFTEIAKKL 162 (163)
T ss_pred CCC--CCHHHHHHHHHHHh
Confidence 999 99999999987654
No 256
>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=98.13 E-value=7e-06 Score=70.28 Aligned_cols=89 Identities=25% Similarity=0.249 Sum_probs=60.7
Q ss_pred HHhhccCEEEEEEcCCCCCC--CcCHHHHHHHh----CCCCEEEEEEcccCCCccchHHHHHHHHhhcCC---CCcEEEe
Q psy15351 10 KHLKNVDIVIEVHDSRMPFT--GRNHLLQQSVQ----NIRPMVLVLNKRDLINSKHESLIEEKVRKEQSH---ISEVIFT 80 (352)
Q Consensus 10 ~~i~~aD~vl~VvDar~p~~--~~~~~l~~~l~----~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~---~~~v~~i 80 (352)
.....+|.||+|+|+.++-. .....+.+++. .+.|+++++||.|+.+.....+..+.+.-..+. .-.++.+
T Consensus 77 ~y~~~~~~iIfVvDssd~~~l~e~~~~L~~ll~~~~~~~~piLIl~NK~D~~~~~~~~~i~~~l~l~~l~~~~~~~v~~~ 156 (175)
T PF00025_consen 77 SYFQNADGIIFVVDSSDPERLQEAKEELKELLNDPELKDIPILILANKQDLPDAMSEEEIKEYLGLEKLKNKRPWSVFSC 156 (175)
T ss_dssp GGHTTESEEEEEEETTGGGGHHHHHHHHHHHHTSGGGTTSEEEEEEESTTSTTSSTHHHHHHHTTGGGTTSSSCEEEEEE
T ss_pred eeccccceeEEEEecccceeecccccchhhhcchhhcccceEEEEeccccccCcchhhHHHhhhhhhhcccCCceEEEee
Confidence 35678999999999986531 11123444443 468999999999987655445555544222221 1147789
Q ss_pred ecCCCCCCCHHHHHHHHHHH
Q psy15351 81 NCRNPNCKGVQKILPTLQHI 100 (352)
Q Consensus 81 Sa~~~~~~gi~~L~~~i~~~ 100 (352)
||.++ +|+.+.++||.+.
T Consensus 157 sa~~g--~Gv~e~l~WL~~~ 174 (175)
T PF00025_consen 157 SAKTG--EGVDEGLEWLIEQ 174 (175)
T ss_dssp BTTTT--BTHHHHHHHHHHH
T ss_pred eccCC--cCHHHHHHHHHhc
Confidence 99999 9999999998753
No 257
>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=98.12 E-value=1.8e-05 Score=66.28 Aligned_cols=87 Identities=11% Similarity=0.005 Sum_probs=60.3
Q ss_pred HHHHhhccCEEEEEEcCCCCCCCcC-HHHHHHHh----CCCCEEEEEEcccCCCccc--hHHHHHHHHhhcCCCCcEEEe
Q psy15351 8 IEKHLKNVDIVIEVHDSRMPFTGRN-HLLQQSVQ----NIRPMVLVLNKRDLINSKH--ESLIEEKVRKEQSHISEVIFT 80 (352)
Q Consensus 8 ~~~~i~~aD~vl~VvDar~p~~~~~-~~l~~~l~----~~k~~ilVlNK~Dl~~~~~--~~~~~~~~~~~~~~~~~v~~i 80 (352)
....+..+|.+++|+|+.++.+..+ ..+...++ .+.|+++|.||+|+..... .++...+.+..+.. ++.+
T Consensus 66 ~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~iivv~nK~D~~~~~~~~~~~~~~~~~~~~~~---~~~~ 142 (161)
T cd04113 66 TRSYYRGAAGALLVYDITNRTSFEALPTWLSDARALASPNIVVILVGNKSDLADQREVTFLEASRFAQENGLL---FLET 142 (161)
T ss_pred HHHHhcCCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCeEEEEEEchhcchhccCCHHHHHHHHHHcCCE---EEEE
Confidence 3456789999999999987643322 11211111 4789999999999976432 23444444455544 9999
Q ss_pred ecCCCCCCCHHHHHHHHHH
Q psy15351 81 NCRNPNCKGVQKILPTLQH 99 (352)
Q Consensus 81 Sa~~~~~~gi~~L~~~i~~ 99 (352)
||+++ .|++++++++.+
T Consensus 143 Sa~~~--~~i~~~~~~~~~ 159 (161)
T cd04113 143 SALTG--ENVEEAFLKCAR 159 (161)
T ss_pred ECCCC--CCHHHHHHHHHH
Confidence 99999 999999988764
No 258
>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=98.12 E-value=1.8e-05 Score=65.34 Aligned_cols=86 Identities=16% Similarity=0.146 Sum_probs=57.8
Q ss_pred HHHHhhccCEEEEEEcCCCCCCCcC-HHHHHHH-h---CCCCEEEEEEcccCC-Ccc-chHHHHHHHHhhcCCCCcEEEe
Q psy15351 8 IEKHLKNVDIVIEVHDSRMPFTGRN-HLLQQSV-Q---NIRPMVLVLNKRDLI-NSK-HESLIEEKVRKEQSHISEVIFT 80 (352)
Q Consensus 8 ~~~~i~~aD~vl~VvDar~p~~~~~-~~l~~~l-~---~~k~~ilVlNK~Dl~-~~~-~~~~~~~~~~~~~~~~~~v~~i 80 (352)
....++++|++++|+|+.++.+... ..+...+ . ...|+++|+||+|+. +.. ..++..++..+.+.. ++.+
T Consensus 66 ~~~~~~~~d~ii~v~d~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~---~~~~ 142 (159)
T cd00154 66 TPSYYRGAHGAILVYDITNRESFENLDKWLKELKEYAPENIPIILVGNKIDLEDQRQVSTEEAQQFAKENGLL---FFET 142 (159)
T ss_pred HHHHhcCCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCcEEEEEEcccccccccccHHHHHHHHHHcCCe---EEEE
Confidence 4567789999999999987432111 1122222 2 258999999999997 322 234444444443444 9999
Q ss_pred ecCCCCCCCHHHHHHHHH
Q psy15351 81 NCRNPNCKGVQKILPTLQ 98 (352)
Q Consensus 81 Sa~~~~~~gi~~L~~~i~ 98 (352)
||+++ .|+++++++|.
T Consensus 143 sa~~~--~~i~~~~~~i~ 158 (159)
T cd00154 143 SAKTG--ENVEELFQSLA 158 (159)
T ss_pred ecCCC--CCHHHHHHHHh
Confidence 99999 99999998874
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=98.12 E-value=1.6e-05 Score=66.86 Aligned_cols=87 Identities=22% Similarity=0.134 Sum_probs=57.6
Q ss_pred HHhhccCEEEEEEcCCCCCCCcC-H-HHHHHHh----CCCCEEEEEEcccCCCccch--HHHHHHHHhhcCCCCcEEEee
Q psy15351 10 KHLKNVDIVIEVHDSRMPFTGRN-H-LLQQSVQ----NIRPMVLVLNKRDLINSKHE--SLIEEKVRKEQSHISEVIFTN 81 (352)
Q Consensus 10 ~~i~~aD~vl~VvDar~p~~~~~-~-~l~~~l~----~~k~~ilVlNK~Dl~~~~~~--~~~~~~~~~~~~~~~~v~~iS 81 (352)
..+..+|.+++|+|..++.+..+ . .+..+.. .+.|+++|.||+|+.+.... ....++.++.+.+ ++.+|
T Consensus 68 ~~~~~~d~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~---~~~~S 144 (164)
T cd04175 68 LYMKNGQGFVLVYSITAQSTFNDLQDLREQILRVKDTEDVPMILVGNKCDLEDERVVGKEQGQNLARQWGCA---FLETS 144 (164)
T ss_pred HHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECCcchhccEEcHHHHHHHHHHhCCE---EEEee
Confidence 35788999999999876533221 1 1122221 46799999999999764321 2222222333444 89999
Q ss_pred cCCCCCCCHHHHHHHHHHHh
Q psy15351 82 CRNPNCKGVQKILPTLQHIS 101 (352)
Q Consensus 82 a~~~~~~gi~~L~~~i~~~~ 101 (352)
|+++ .|+++++.++.+.+
T Consensus 145 a~~~--~~v~~~~~~l~~~l 162 (164)
T cd04175 145 AKAK--INVNEIFYDLVRQI 162 (164)
T ss_pred CCCC--CCHHHHHHHHHHHh
Confidence 9999 99999999987544
No 260
>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=98.12 E-value=5.3e-06 Score=69.77 Aligned_cols=22 Identities=23% Similarity=0.504 Sum_probs=20.3
Q ss_pred eEEEEeCCCCCChHHHHHHHhC
Q psy15351 169 TTVMVVGVPNVGKSSIINALRS 190 (352)
Q Consensus 169 ~~v~i~G~pnvGKStliN~l~~ 190 (352)
++|+++|.+|||||||++++.+
T Consensus 1 ~ki~vvG~~~vGKTsli~~~~~ 22 (161)
T cd04124 1 VKIILLGDSAVGKSKLVERFLM 22 (161)
T ss_pred CEEEEECCCCCCHHHHHHHHHh
Confidence 4799999999999999999986
No 261
>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=98.12 E-value=5.1e-06 Score=69.35 Aligned_cols=55 Identities=18% Similarity=0.378 Sum_probs=37.5
Q ss_pred EEEEeCCCCCChHHHHHHHhCCCCCCCCceecCCCCCceeEeeeeEEecCCCcEEEEeCCCCCC
Q psy15351 170 TVMVVGVPNVGKSSIINALRSSHMKKGKAVPVGPKAGVTRSVMSQVKISEKPLIYILDTPGISL 233 (352)
Q Consensus 170 ~v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~~~pg~T~~~~~~~~~~~~~~~~l~DtPGi~~ 233 (352)
+|+++|.+|||||||+|++++. ......+..|.+.... .. .+..+.++||||...
T Consensus 1 ki~iiG~~~~GKssli~~~~~~-----~~~~~~~t~~~~~~~~---~~-~~~~~~i~D~~G~~~ 55 (158)
T cd00878 1 RILILGLDGAGKTTILYKLKLG-----EVVTTIPTIGFNVETV---EY-KNVSFTVWDVGGQDK 55 (158)
T ss_pred CEEEEcCCCCCHHHHHHHHhcC-----CCCCCCCCcCcceEEE---EE-CCEEEEEEECCCChh
Confidence 4899999999999999999973 2223344444443321 11 234689999999754
No 262
>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=98.11 E-value=1.4e-05 Score=70.98 Aligned_cols=85 Identities=13% Similarity=0.139 Sum_probs=52.6
Q ss_pred HHHHHHHhhccCEEEEEEcCCCCC-------CCcCHHHHHHHh--CCCCEEEEEEcccCCCc----cchHHHHH----HH
Q psy15351 5 LKDIEKHLKNVDIVIEVHDSRMPF-------TGRNHLLQQSVQ--NIRPMVLVLNKRDLINS----KHESLIEE----KV 67 (352)
Q Consensus 5 ~~~~~~~i~~aD~vl~VvDar~p~-------~~~~~~l~~~l~--~~k~~ilVlNK~Dl~~~----~~~~~~~~----~~ 67 (352)
+..+...+..+|++++|+|+.++. .........+.. ..+|+++|+||+|+... .......+ .+
T Consensus 91 ~~~~~~~~~~~d~~i~VvDa~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiivvNK~Dl~~~~~~~~~~~~i~~~l~~~l 170 (219)
T cd01883 91 VPNMITGASQADVAVLVVDARKGEFEAGFEKGGQTREHALLARTLGVKQLIVAVNKMDDVTVNWSEERYDEIKKELSPFL 170 (219)
T ss_pred HHHHHHHhhhCCEEEEEEECCCCccccccccccchHHHHHHHHHcCCCeEEEEEEccccccccccHHHHHHHHHHHHHHH
Confidence 455667788899999999998742 111122222222 34788999999999842 21222222 33
Q ss_pred HhhcCC--CCcEEEeecCCCCCCCHH
Q psy15351 68 RKEQSH--ISEVIFTNCRNPNCKGVQ 91 (352)
Q Consensus 68 ~~~~~~--~~~v~~iSa~~~~~~gi~ 91 (352)
...+.. ..+++++||+++ .|+.
T Consensus 171 ~~~~~~~~~~~ii~iSA~tg--~gi~ 194 (219)
T cd01883 171 KKVGYNPKDVPFIPISGLTG--DNLI 194 (219)
T ss_pred HHcCCCcCCceEEEeecCcC--CCCC
Confidence 333332 125999999999 8876
No 263
>PRK00007 elongation factor G; Reviewed
Probab=98.11 E-value=6.3e-06 Score=85.36 Aligned_cols=66 Identities=18% Similarity=0.162 Sum_probs=45.1
Q ss_pred ceEEEEeCCCCCChHHHHHHHhCCCCCCCCceecC------------CCCCceeEeeeeEEecCCCcEEEEeCCCCCC
Q psy15351 168 NTTVMVVGVPNVGKSSIINALRSSHMKKGKAVPVG------------PKAGVTRSVMSQVKISEKPLIYILDTPGISL 233 (352)
Q Consensus 168 ~~~v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~------------~~pg~T~~~~~~~~~~~~~~~~l~DtPGi~~ 233 (352)
-.+|+++|.+|+|||||+|+|....-.......++ ..+|+|.+.........+..+.|+||||...
T Consensus 10 Irni~iiG~~~~GKsTL~~~ll~~~g~~~~~g~v~~~~~~~D~~~~E~~rg~ti~~~~~~~~~~~~~~~liDTPG~~~ 87 (693)
T PRK00007 10 YRNIGIMAHIDAGKTTTTERILFYTGVNHKIGEVHDGAATMDWMEQEQERGITITSAATTCFWKDHRINIIDTPGHVD 87 (693)
T ss_pred eeEEEEECCCCCCHHHHHHHHHHhcCCccccccccCCcccCCCCHHHHhCCCCEeccEEEEEECCeEEEEEeCCCcHH
Confidence 35899999999999999999973110000111122 3678888875544445567899999999754
No 264
>smart00176 RAN Ran (Ras-related nuclear proteins) /TC4 subfamily of small GTPases. Ran is involved in the active transport of proteins through nuclear pores.
Probab=98.11 E-value=1.7e-05 Score=69.42 Aligned_cols=88 Identities=18% Similarity=0.050 Sum_probs=59.7
Q ss_pred HHhhccCEEEEEEcCCCCCCCcCH-HHHH-HHh--CCCCEEEEEEcccCCCccchHHHHHHHHhhcCCCCcEEEeecCCC
Q psy15351 10 KHLKNVDIVIEVHDSRMPFTGRNH-LLQQ-SVQ--NIRPMVLVLNKRDLINSKHESLIEEKVRKEQSHISEVIFTNCRNP 85 (352)
Q Consensus 10 ~~i~~aD~vl~VvDar~p~~~~~~-~l~~-~l~--~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~v~~iSa~~~ 85 (352)
.....+|++|+|+|+.++.+...- .+.. +.+ .+.|+++|.||+|+.......+-.++.+..+.. ++.+||+++
T Consensus 63 ~~~~~ad~~ilV~D~t~~~S~~~i~~w~~~i~~~~~~~piilvgNK~Dl~~~~v~~~~~~~~~~~~~~---~~e~SAk~~ 139 (200)
T smart00176 63 GYYIQGQCAIIMFDVTARVTYKNVPNWHRDLVRVCENIPIVLCGNKVDVKDRKVKAKSITFHRKKNLQ---YYDISAKSN 139 (200)
T ss_pred HHhcCCCEEEEEEECCChHHHHHHHHHHHHHHHhCCCCCEEEEEECcccccccCCHHHHHHHHHcCCE---EEEEeCCCC
Confidence 467899999999999876433211 1112 222 467999999999986533222223333334454 889999999
Q ss_pred CCCCHHHHHHHHHHHhh
Q psy15351 86 NCKGVQKILPTLQHISD 102 (352)
Q Consensus 86 ~~~gi~~L~~~i~~~~~ 102 (352)
.|+++++.+|.+.+.
T Consensus 140 --~~v~~~F~~l~~~i~ 154 (200)
T smart00176 140 --YNFEKPFLWLARKLI 154 (200)
T ss_pred --CCHHHHHHHHHHHHH
Confidence 999999999986554
No 265
>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=98.11 E-value=6.8e-06 Score=70.10 Aligned_cols=57 Identities=21% Similarity=0.337 Sum_probs=39.0
Q ss_pred cceEEEEeCCCCCChHHHHHHHhCCCCCCCCceecCCCCCceeEeeeeEEecCCCcEEEEeCCCCC
Q psy15351 167 YNTTVMVVGVPNVGKSSIINALRSSHMKKGKAVPVGPKAGVTRSVMSQVKISEKPLIYILDTPGIS 232 (352)
Q Consensus 167 ~~~~v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~~~pg~T~~~~~~~~~~~~~~~~l~DtPGi~ 232 (352)
...+|+++|.+|||||||++++... ......++.|.+... +. ..+..+.++||||..
T Consensus 14 ~~~kv~~~G~~~~GKTsl~~~l~~~-----~~~~~~~t~~~~~~~---~~-~~~~~~~l~D~~G~~ 70 (174)
T cd04153 14 KEYKVIIVGLDNAGKTTILYQFLLG-----EVVHTSPTIGSNVEE---IV-YKNIRFLMWDIGGQE 70 (174)
T ss_pred CccEEEEECCCCCCHHHHHHHHccC-----CCCCcCCccccceEE---EE-ECCeEEEEEECCCCH
Confidence 3578999999999999999999862 222334444544321 22 224468999999974
No 266
>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=98.11 E-value=8.3e-06 Score=67.96 Aligned_cols=58 Identities=22% Similarity=0.269 Sum_probs=34.7
Q ss_pred eEEEEeCCCCCChHHHHHHHhCCCCCCCCceecCCCCCceeEeee-eEEecC-CCcEEEEeCCCCC
Q psy15351 169 TTVMVVGVPNVGKSSIINALRSSHMKKGKAVPVGPKAGVTRSVMS-QVKISE-KPLIYILDTPGIS 232 (352)
Q Consensus 169 ~~v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~~~pg~T~~~~~-~~~~~~-~~~~~l~DtPGi~ 232 (352)
++|+++|.+|||||||+|++.+.. ... ...+.++..... .+.... ...+.++||||-.
T Consensus 1 ~ki~i~G~~~~GKStli~~l~~~~-----~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~ 60 (162)
T cd04123 1 FKVVLLGEGRVGKTSLVLRYVENK-----FNE-KHESTTQASFFQKTVNIGGKRIDLAIWDTAGQE 60 (162)
T ss_pred CEEEEECCCCCCHHHHHHHHHhCC-----CCC-CcCCccceeEEEEEEEECCEEEEEEEEECCchH
Confidence 479999999999999999999632 111 122222222211 122222 1257899999943
No 267
>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=98.11 E-value=2.1e-05 Score=65.71 Aligned_cols=84 Identities=25% Similarity=0.095 Sum_probs=57.9
Q ss_pred HHHhhccCEEEEEEcCCCCCCCcCHHHHHHH-------h-CCCCEEEEEEcccCCCccc-hHHHHHHHHhhcCCCCcEEE
Q psy15351 9 EKHLKNVDIVIEVHDSRMPFTGRNHLLQQSV-------Q-NIRPMVLVLNKRDLINSKH-ESLIEEKVRKEQSHISEVIF 79 (352)
Q Consensus 9 ~~~i~~aD~vl~VvDar~p~~~~~~~l~~~l-------~-~~k~~ilVlNK~Dl~~~~~-~~~~~~~~~~~~~~~~~v~~ 79 (352)
...++.+|++++|+|+.++.+.. .+..++ . .+.|+++|.||+|+..... .++..++..+.+.. ++.
T Consensus 67 ~~~~~~~d~~i~v~d~~~~~s~~--~~~~~~~~i~~~~~~~~~~~~iv~nK~D~~~~~~~~~~~~~~~~~~~~~---~~~ 141 (161)
T cd01863 67 SSYYRGAQGVILVYDVTRRDTFT--NLETWLNELETYSTNNDIVKMLVGNKIDKENREVTREEGLKFARKHNML---FIE 141 (161)
T ss_pred HHHhCCCCEEEEEEECCCHHHHH--hHHHHHHHHHHhCCCCCCcEEEEEECCcccccccCHHHHHHHHHHcCCE---EEE
Confidence 45678999999999998654322 122221 1 4678999999999984332 23333444344444 999
Q ss_pred eecCCCCCCCHHHHHHHHHH
Q psy15351 80 TNCRNPNCKGVQKILPTLQH 99 (352)
Q Consensus 80 iSa~~~~~~gi~~L~~~i~~ 99 (352)
+||+++ .|++++++.+.+
T Consensus 142 ~Sa~~~--~gi~~~~~~~~~ 159 (161)
T cd01863 142 TSAKTR--DGVQQAFEELVE 159 (161)
T ss_pred EecCCC--CCHHHHHHHHHH
Confidence 999999 999999988764
No 268
>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=98.11 E-value=1.9e-05 Score=68.00 Aligned_cols=90 Identities=18% Similarity=0.163 Sum_probs=60.1
Q ss_pred HHhhccCEEEEEEcCCCCCCCcCH--HHHHHHh---CCCCEEEEEEcccCCCcc------chHHHHHHHHhhcCCCCcEE
Q psy15351 10 KHLKNVDIVIEVHDSRMPFTGRNH--LLQQSVQ---NIRPMVLVLNKRDLINSK------HESLIEEKVRKEQSHISEVI 78 (352)
Q Consensus 10 ~~i~~aD~vl~VvDar~p~~~~~~--~l~~~l~---~~k~~ilVlNK~Dl~~~~------~~~~~~~~~~~~~~~~~~v~ 78 (352)
..+..+|++++|+|+.++.+..+. .+...+. .+.|+++|.||+|+.+.. ...+..++....+.. +++
T Consensus 68 ~~~~~ad~ii~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~v~~~~~~~~~~~~~~~--~~~ 145 (187)
T cd04132 68 LSYPDVDVLLICYAVDNPTSLDNVEDKWFPEVNHFCPGTPIMLVGLKTDLRKDKNLDRKVTPAQAESVAKKQGAF--AYL 145 (187)
T ss_pred HhCCCCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCCEEEEEeChhhhhCccccCCcCHHHHHHHHHHcCCc--EEE
Confidence 357899999999999875433221 1111111 468999999999997642 122333333334442 489
Q ss_pred EeecCCCCCCCHHHHHHHHHHHhhh
Q psy15351 79 FTNCRNPNCKGVQKILPTLQHISDN 103 (352)
Q Consensus 79 ~iSa~~~~~~gi~~L~~~i~~~~~~ 103 (352)
.+||+++ .|+++++..+.+.+..
T Consensus 146 e~Sa~~~--~~v~~~f~~l~~~~~~ 168 (187)
T cd04132 146 ECSAKTM--ENVEEVFDTAIEEALK 168 (187)
T ss_pred EccCCCC--CCHHHHHHHHHHHHHh
Confidence 9999999 9999999988766543
No 269
>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=98.11 E-value=7.4e-06 Score=71.03 Aligned_cols=22 Identities=27% Similarity=0.554 Sum_probs=20.3
Q ss_pred eEEEEeCCCCCChHHHHHHHhC
Q psy15351 169 TTVMVVGVPNVGKSSIINALRS 190 (352)
Q Consensus 169 ~~v~i~G~pnvGKStliN~l~~ 190 (352)
++|+++|.+|||||||++++.+
T Consensus 1 ~Ki~vvG~~~vGKTSli~~~~~ 22 (191)
T cd04112 1 FKVMLLGDSGVGKTCLLVRFKD 22 (191)
T ss_pred CEEEEECCCCCCHHHHHHHHhc
Confidence 4799999999999999999986
No 270
>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=98.10 E-value=1.7e-05 Score=68.63 Aligned_cols=87 Identities=11% Similarity=0.077 Sum_probs=57.9
Q ss_pred HhhccCEEEEEEcCCCCCCCcC-HHHHHHHh---CCCCEEEEEEcccCCCccc------hHHHHHHHHhhcCCCCcEEEe
Q psy15351 11 HLKNVDIVIEVHDSRMPFTGRN-HLLQQSVQ---NIRPMVLVLNKRDLINSKH------ESLIEEKVRKEQSHISEVIFT 80 (352)
Q Consensus 11 ~i~~aD~vl~VvDar~p~~~~~-~~l~~~l~---~~k~~ilVlNK~Dl~~~~~------~~~~~~~~~~~~~~~~~v~~i 80 (352)
.+..+|++++|+|..++.+..+ ..+.+.+. .+.|+++|.||+|+.+... ..+..++....+.. ++.+
T Consensus 70 ~~~~~d~iilv~d~~~~~s~~~~~~~~~~i~~~~~~~piilv~nK~Dl~~~~~~~~~v~~~~~~~~~~~~~~~---~~~~ 146 (193)
T cd04118 70 YYRGAKAAIVCYDLTDSSSFERAKFWVKELQNLEEHCKIYLCGTKSDLIEQDRSLRQVDFHDVQDFADEIKAQ---HFET 146 (193)
T ss_pred hcCCCCEEEEEEECCCHHHHHHHHHHHHHHHhcCCCCCEEEEEEcccccccccccCccCHHHHHHHHHHcCCe---EEEE
Confidence 4678999999999987633211 12222222 3689999999999875321 12222333333443 8899
Q ss_pred ecCCCCCCCHHHHHHHHHHHhh
Q psy15351 81 NCRNPNCKGVQKILPTLQHISD 102 (352)
Q Consensus 81 Sa~~~~~~gi~~L~~~i~~~~~ 102 (352)
||+++ .|++++++++.+.+-
T Consensus 147 Sa~~~--~gv~~l~~~i~~~~~ 166 (193)
T cd04118 147 SSKTG--QNVDELFQKVAEDFV 166 (193)
T ss_pred eCCCC--CCHHHHHHHHHHHHH
Confidence 99999 999999999886553
No 271
>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=98.10 E-value=1.7e-05 Score=69.38 Aligned_cols=89 Identities=22% Similarity=0.191 Sum_probs=57.9
Q ss_pred HHHHhhccCEEEEEEcCCCCCCCcC-HHHH-HHHh------CCCCEEEEEEcccCCCccch--HHHHHHHHh-hcCCCCc
Q psy15351 8 IEKHLKNVDIVIEVHDSRMPFTGRN-HLLQ-QSVQ------NIRPMVLVLNKRDLINSKHE--SLIEEKVRK-EQSHISE 76 (352)
Q Consensus 8 ~~~~i~~aD~vl~VvDar~p~~~~~-~~l~-~~l~------~~k~~ilVlNK~Dl~~~~~~--~~~~~~~~~-~~~~~~~ 76 (352)
....+..+|++|+|+|+.++.+... ..+. .+.. .+.|+++|.||+|+...... ....++..+ .+.+
T Consensus 74 ~~~~~~~ad~iilv~D~~~~~S~~~~~~~~~~i~~~~~~~~~~~piiivgNK~Dl~~~~~~~~~~~~~~~~~~~~~~--- 150 (198)
T cd04142 74 RFRGLRNSRAFILVYDICSPDSFHYVKLLRQQILETRPAGNKEPPIVVVGNKRDQQRHRFAPRHVLSVLVRKSWKCG--- 150 (198)
T ss_pred HHhhhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhcccCCCCCCEEEEEECccccccccccHHHHHHHHHHhcCCc---
Confidence 3456789999999999987643321 1121 2221 35799999999999654321 122222222 2444
Q ss_pred EEEeecCCCCCCCHHHHHHHHHHHh
Q psy15351 77 VIFTNCRNPNCKGVQKILPTLQHIS 101 (352)
Q Consensus 77 v~~iSa~~~~~~gi~~L~~~i~~~~ 101 (352)
++.+||+++ .|++++++.+.+..
T Consensus 151 ~~e~Sak~g--~~v~~lf~~i~~~~ 173 (198)
T cd04142 151 YLECSAKYN--WHILLLFKELLISA 173 (198)
T ss_pred EEEecCCCC--CCHHHHHHHHHHHh
Confidence 899999999 99999998876543
No 272
>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=98.10 E-value=5.1e-06 Score=69.73 Aligned_cols=58 Identities=26% Similarity=0.311 Sum_probs=35.0
Q ss_pred eEEEEeCCCCCChHHHHHHHhCCCCCCCCceecCCCCCceeEeee-eEEecCC-CcEEEEeCCCCCC
Q psy15351 169 TTVMVVGVPNVGKSSIINALRSSHMKKGKAVPVGPKAGVTRSVMS-QVKISEK-PLIYILDTPGISL 233 (352)
Q Consensus 169 ~~v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~~~pg~T~~~~~-~~~~~~~-~~~~l~DtPGi~~ 233 (352)
++|+++|.||||||||+|++.+. .. ....+.++.+... ....... -.+.++||||...
T Consensus 1 ~ki~v~G~~~~GKTsli~~~~~~-----~~--~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~g~~~ 60 (164)
T smart00173 1 YKLVVLGSGGVGKSALTIQFVQG-----HF--VDDYDPTIEDSYRKQIEIDGEVCLLDILDTAGQEE 60 (164)
T ss_pred CEEEEECCCCCCHHHHHHHHHhC-----cC--CcccCCchhhhEEEEEEECCEEEEEEEEECCCccc
Confidence 37999999999999999999863 11 1112222222211 1222211 2467899999754
No 273
>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=98.10 E-value=2.1e-05 Score=68.67 Aligned_cols=87 Identities=15% Similarity=0.011 Sum_probs=60.6
Q ss_pred HHHhhccCEEEEEEcCCCCCCCcCHHHHHHH---h---CCCCEEEEEEcccCCCccc--hHHHHHHHHhhcCCCCcEEEe
Q psy15351 9 EKHLKNVDIVIEVHDSRMPFTGRNHLLQQSV---Q---NIRPMVLVLNKRDLINSKH--ESLIEEKVRKEQSHISEVIFT 80 (352)
Q Consensus 9 ~~~i~~aD~vl~VvDar~p~~~~~~~l~~~l---~---~~k~~ilVlNK~Dl~~~~~--~~~~~~~~~~~~~~~~~v~~i 80 (352)
...+..+|++++|+|+.++.+.. .+..++ . ...|+++|.||+|+.+... ..+..++.+..+. +++.+
T Consensus 73 ~~~~~~a~~iilv~D~~~~~s~~--~~~~~~~~i~~~~~~~piivVgNK~Dl~~~~~~~~~~~~~~~~~~~~---~~~e~ 147 (199)
T cd04110 73 STYYRGTHGVIVVYDVTNGESFV--NVKRWLQEIEQNCDDVCKVLVGNKNDDPERKVVETEDAYKFAGQMGI---SLFET 147 (199)
T ss_pred HHHhCCCcEEEEEEECCCHHHHH--HHHHHHHHHHHhCCCCCEEEEEECcccccccccCHHHHHHHHHHcCC---EEEEE
Confidence 45678899999999998764321 222222 1 3578999999999976533 2333344444454 48999
Q ss_pred ecCCCCCCCHHHHHHHHHHHhh
Q psy15351 81 NCRNPNCKGVQKILPTLQHISD 102 (352)
Q Consensus 81 Sa~~~~~~gi~~L~~~i~~~~~ 102 (352)
||+++ .|+++++++|.+.+-
T Consensus 148 Sa~~~--~gi~~lf~~l~~~~~ 167 (199)
T cd04110 148 SAKEN--INVEEMFNCITELVL 167 (199)
T ss_pred ECCCC--cCHHHHHHHHHHHHH
Confidence 99999 999999999876553
No 274
>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=98.10 E-value=1.7e-05 Score=67.56 Aligned_cols=87 Identities=14% Similarity=0.041 Sum_probs=59.4
Q ss_pred HHhhccCEEEEEEcCCCCCCCcCH-HHHHHHh-----CCCCEEEEEEcccCCCccc--hHHHHHHHHhhcCCCCcEEEee
Q psy15351 10 KHLKNVDIVIEVHDSRMPFTGRNH-LLQQSVQ-----NIRPMVLVLNKRDLINSKH--ESLIEEKVRKEQSHISEVIFTN 81 (352)
Q Consensus 10 ~~i~~aD~vl~VvDar~p~~~~~~-~l~~~l~-----~~k~~ilVlNK~Dl~~~~~--~~~~~~~~~~~~~~~~~v~~iS 81 (352)
..+..+|.+++|+|..++.+.... .+...+. .+.|+++|.||+|+..... ..+..++.++.+.. ++.+|
T Consensus 69 ~~~~~~d~~ilv~d~~~~~Sf~~~~~~~~~i~~~~~~~~~piilvgNK~Dl~~~~~v~~~~~~~~a~~~~~~---~~e~S 145 (172)
T cd04141 69 QYMRCGEGFIICYSVTDRHSFQEASEFKKLITRVRLTEDIPLVLVGNKVDLESQRQVTTEEGRNLAREFNCP---FFETS 145 (172)
T ss_pred HHhhcCCEEEEEEECCchhHHHHHHHHHHHHHHhcCCCCCCEEEEEEChhhhhcCccCHHHHHHHHHHhCCE---EEEEe
Confidence 457789999999999877544331 1222221 4689999999999865432 12333333344554 88999
Q ss_pred cCCCCCCCHHHHHHHHHHHh
Q psy15351 82 CRNPNCKGVQKILPTLQHIS 101 (352)
Q Consensus 82 a~~~~~~gi~~L~~~i~~~~ 101 (352)
|+++ .|++++++++.+.+
T Consensus 146 a~~~--~~v~~~f~~l~~~~ 163 (172)
T cd04141 146 AALR--HYIDDAFHGLVREI 163 (172)
T ss_pred cCCC--CCHHHHHHHHHHHH
Confidence 9999 99999999887544
No 275
>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=98.10 E-value=8e-06 Score=69.34 Aligned_cols=57 Identities=19% Similarity=0.366 Sum_probs=37.1
Q ss_pred cceEEEEeCCCCCChHHHHHHHhCCCCCCCCceecCCCCCceeEeeeeEEecCCCcEEEEeCCCCC
Q psy15351 167 YNTTVMVVGVPNVGKSSIINALRSSHMKKGKAVPVGPKAGVTRSVMSQVKISEKPLIYILDTPGIS 232 (352)
Q Consensus 167 ~~~~v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~~~pg~T~~~~~~~~~~~~~~~~l~DtPGi~ 232 (352)
+.++|+++|.+|||||||++++... ......++.|.+.. .+. ...-.+.++||||..
T Consensus 8 ~~~kv~i~G~~~~GKTsli~~l~~~-----~~~~~~~t~g~~~~---~~~-~~~~~~~l~Dt~G~~ 64 (168)
T cd04149 8 KEMRILMLGLDAAGKTTILYKLKLG-----QSVTTIPTVGFNVE---TVT-YKNVKFNVWDVGGQD 64 (168)
T ss_pred CccEEEEECcCCCCHHHHHHHHccC-----CCccccCCcccceE---EEE-ECCEEEEEEECCCCH
Confidence 4589999999999999999999752 21222222232221 111 233468999999975
No 276
>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=98.10 E-value=2.6e-05 Score=65.71 Aligned_cols=89 Identities=18% Similarity=0.148 Sum_probs=59.3
Q ss_pred HHHHhhccCEEEEEEcCCCCCCCcC-HHHHHHHh----CCCCEEEEEEcccCCCccc-hHHHHHHHHhhcCCCCcEEEee
Q psy15351 8 IEKHLKNVDIVIEVHDSRMPFTGRN-HLLQQSVQ----NIRPMVLVLNKRDLINSKH-ESLIEEKVRKEQSHISEVIFTN 81 (352)
Q Consensus 8 ~~~~i~~aD~vl~VvDar~p~~~~~-~~l~~~l~----~~k~~ilVlNK~Dl~~~~~-~~~~~~~~~~~~~~~~~v~~iS 81 (352)
....+..+|++++|+|++++.+... +.+...++ .+.|+++|+||+|+.+... .....+.+.+.... .++.+|
T Consensus 73 ~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~i~v~NK~D~~~~~~i~~~~~~~~~~~~~~--~~~~~S 150 (169)
T cd04114 73 TQSYYRSANALILTYDITCEESFRCLPEWLREIEQYANNKVITILVGNKIDLAERREVSQQRAEEFSDAQDM--YYLETS 150 (169)
T ss_pred HHHHhcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECcccccccccCHHHHHHHHHHcCC--eEEEee
Confidence 4567899999999999986533211 12221122 3578899999999975433 23333444333222 488999
Q ss_pred cCCCCCCCHHHHHHHHHHH
Q psy15351 82 CRNPNCKGVQKILPTLQHI 100 (352)
Q Consensus 82 a~~~~~~gi~~L~~~i~~~ 100 (352)
|+++ .|++++++.|.+.
T Consensus 151 a~~~--~gv~~l~~~i~~~ 167 (169)
T cd04114 151 AKES--DNVEKLFLDLACR 167 (169)
T ss_pred CCCC--CCHHHHHHHHHHH
Confidence 9999 9999999988653
No 277
>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=98.09 E-value=6.7e-06 Score=68.81 Aligned_cols=58 Identities=24% Similarity=0.308 Sum_probs=35.2
Q ss_pred eEEEEeCCCCCChHHHHHHHhCCCCCCCCceecCCCCCceeEeee-eEEecCC-CcEEEEeCCCCCC
Q psy15351 169 TTVMVVGVPNVGKSSIINALRSSHMKKGKAVPVGPKAGVTRSVMS-QVKISEK-PLIYILDTPGISL 233 (352)
Q Consensus 169 ~~v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~~~pg~T~~~~~-~~~~~~~-~~~~l~DtPGi~~ 233 (352)
++|+++|.||||||||+|++... .. ....+.|+.+... .+...+. ..+.++||||...
T Consensus 2 ~ki~i~G~~~vGKTsl~~~~~~~-----~~--~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~~~ 61 (163)
T cd04136 2 YKVVVLGSGGVGKSALTVQFVQG-----IF--VEKYDPTIEDSYRKQIEVDGQQCMLEILDTAGTEQ 61 (163)
T ss_pred eEEEEECCCCCCHHHHHHHHHhC-----CC--CcccCCchhhhEEEEEEECCEEEEEEEEECCCccc
Confidence 68999999999999999999852 11 1222333322111 1222221 1467899999754
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=98.09 E-value=6.4e-06 Score=69.52 Aligned_cols=23 Identities=26% Similarity=0.482 Sum_probs=21.0
Q ss_pred eEEEEeCCCCCChHHHHHHHhCC
Q psy15351 169 TTVMVVGVPNVGKSSIINALRSS 191 (352)
Q Consensus 169 ~~v~i~G~pnvGKStliN~l~~~ 191 (352)
++|+++|.+|||||||+|+|.+.
T Consensus 1 iki~i~G~~~~GKSsli~~l~~~ 23 (171)
T cd00157 1 IKIVVVGDGAVGKTCLLISYTTG 23 (171)
T ss_pred CEEEEECCCCCCHHHHHHHHHhC
Confidence 47999999999999999999963
No 279
>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=98.09 E-value=1.6e-05 Score=69.42 Aligned_cols=88 Identities=17% Similarity=0.201 Sum_probs=57.8
Q ss_pred HHhhccCEEEEEEcCCCCCCCcC-HHH-HHHHh----CCCCEEEEEEcccCCCccc---hHHHHHHHH-hhcCCCCcEEE
Q psy15351 10 KHLKNVDIVIEVHDSRMPFTGRN-HLL-QQSVQ----NIRPMVLVLNKRDLINSKH---ESLIEEKVR-KEQSHISEVIF 79 (352)
Q Consensus 10 ~~i~~aD~vl~VvDar~p~~~~~-~~l-~~~l~----~~k~~ilVlNK~Dl~~~~~---~~~~~~~~~-~~~~~~~~v~~ 79 (352)
..+..+|++++|+|+.++.+... ..+ ..+.. .+.|+++|+||+|+.+... .....+... ..+. .++.
T Consensus 66 ~~~~~ad~vilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~NK~Dl~~~~~~v~~~~~~~~~~~~~~~---~~~~ 142 (198)
T cd04147 66 LSIQNSDAFALVYAVDDPESFEEVERLREEILEVKEDKFVPIVVVGNKADSLEEERQVPAKDALSTVELDWNC---GFVE 142 (198)
T ss_pred HHhhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEEccccccccccccHHHHHHHHHhhcCC---cEEE
Confidence 46789999999999987532221 111 12222 3689999999999976321 112222221 1123 3889
Q ss_pred eecCCCCCCCHHHHHHHHHHHhh
Q psy15351 80 TNCRNPNCKGVQKILPTLQHISD 102 (352)
Q Consensus 80 iSa~~~~~~gi~~L~~~i~~~~~ 102 (352)
+||+++ .|++++++++.+.+.
T Consensus 143 ~Sa~~g--~gv~~l~~~l~~~~~ 163 (198)
T cd04147 143 TSAKDN--ENVLEVFKELLRQAN 163 (198)
T ss_pred ecCCCC--CCHHHHHHHHHHHhh
Confidence 999999 999999999887654
No 280
>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=98.08 E-value=2.1e-05 Score=77.09 Aligned_cols=88 Identities=24% Similarity=0.345 Sum_probs=60.0
Q ss_pred HHHHHHHHhhccCEEEEEEcCCCCCCCcCHHHHHHHh-CCCCEEEEEEcccCCCccchHHHHHHHHhhcCCCCcEEEeec
Q psy15351 4 GLKDIEKHLKNVDIVIEVHDSRMPFTGRNHLLQQSVQ-NIRPMVLVLNKRDLINSKHESLIEEKVRKEQSHISEVIFTNC 82 (352)
Q Consensus 4 ~~~~~~~~i~~aD~vl~VvDar~p~~~~~~~l~~~l~-~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~v~~iSa 82 (352)
+++++...+..+|++++|+|+..+.+..+. +...+. .++|+++|+||+|+.+.+ ...+ .+..+.+ ++.+||
T Consensus 272 gi~~~~~~~~~aD~il~V~D~s~~~s~~~~-~l~~~~~~~~piIlV~NK~Dl~~~~-~~~~---~~~~~~~---~~~vSa 343 (442)
T TIGR00450 272 GIEKSFKAIKQADLVIYVLDASQPLTKDDF-LIIDLNKSKKPFILVLNKIDLKINS-LEFF---VSSKVLN---SSNLSA 343 (442)
T ss_pred HHHHHHHHHhhCCEEEEEEECCCCCChhHH-HHHHHhhCCCCEEEEEECccCCCcc-hhhh---hhhcCCc---eEEEEE
Confidence 345667888999999999999887654333 222232 578999999999997542 1211 1223343 788999
Q ss_pred CCCCCCCHHHHHHHHHHHhh
Q psy15351 83 RNPNCKGVQKILPTLQHISD 102 (352)
Q Consensus 83 ~~~~~~gi~~L~~~i~~~~~ 102 (352)
++ .|++++++.+.+.+.
T Consensus 344 k~---~gI~~~~~~L~~~i~ 360 (442)
T TIGR00450 344 KQ---LKIKALVDLLTQKIN 360 (442)
T ss_pred ec---CCHHHHHHHHHHHHH
Confidence 86 588888777766553
No 281
>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=98.08 E-value=1.7e-05 Score=66.46 Aligned_cols=86 Identities=19% Similarity=0.117 Sum_probs=56.3
Q ss_pred HHhhccCEEEEEEcCCCCCCCcC-HHHH-HHHh----CCCCEEEEEEcccCCCccch--HHHHHHHHhhcCCCCcEEEee
Q psy15351 10 KHLKNVDIVIEVHDSRMPFTGRN-HLLQ-QSVQ----NIRPMVLVLNKRDLINSKHE--SLIEEKVRKEQSHISEVIFTN 81 (352)
Q Consensus 10 ~~i~~aD~vl~VvDar~p~~~~~-~~l~-~~l~----~~k~~ilVlNK~Dl~~~~~~--~~~~~~~~~~~~~~~~v~~iS 81 (352)
..+.++|++++|.|..++-+..+ ..+. .+.+ .+.|+++|.||+|+.+.... .+.....+..+. +++.+|
T Consensus 68 ~~~~~ad~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piviv~nK~Dl~~~~~~~~~~~~~~~~~~~~---~~~~~S 144 (163)
T cd04176 68 LYIKNGQGFIVVYSLVNQQTFQDIKPMRDQIVRVKGYEKVPIILVGNKVDLESEREVSSAEGRALAEEWGC---PFMETS 144 (163)
T ss_pred HHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccchhcCccCHHHHHHHHHHhCC---EEEEec
Confidence 35689999999999987543221 1111 1211 36899999999999754321 222222222344 488999
Q ss_pred cCCCCCCCHHHHHHHHHHH
Q psy15351 82 CRNPNCKGVQKILPTLQHI 100 (352)
Q Consensus 82 a~~~~~~gi~~L~~~i~~~ 100 (352)
|+++ .|+.+++.++.+.
T Consensus 145 a~~~--~~v~~l~~~l~~~ 161 (163)
T cd04176 145 AKSK--TMVNELFAEIVRQ 161 (163)
T ss_pred CCCC--CCHHHHHHHHHHh
Confidence 9999 9999999888653
No 282
>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=98.08 E-value=8.3e-06 Score=68.98 Aligned_cols=24 Identities=33% Similarity=0.438 Sum_probs=22.0
Q ss_pred cceEEEEeCCCCCChHHHHHHHhC
Q psy15351 167 YNTTVMVVGVPNVGKSSIINALRS 190 (352)
Q Consensus 167 ~~~~v~i~G~pnvGKStliN~l~~ 190 (352)
..++|+++|.||||||||++++.+
T Consensus 4 ~~~ki~vvG~~~~GKTsli~~~~~ 27 (170)
T cd04116 4 SLLKVILLGDGGVGKSSLMNRYVT 27 (170)
T ss_pred eEEEEEEECCCCCCHHHHHHHHHc
Confidence 358999999999999999999986
No 283
>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=98.07 E-value=9e-06 Score=70.19 Aligned_cols=57 Identities=16% Similarity=0.301 Sum_probs=37.3
Q ss_pred cceEEEEeCCCCCChHHHHHHHhCCCCCCCCceecCCCCCceeEeeeeEEecCCCcEEEEeCCCCC
Q psy15351 167 YNTTVMVVGVPNVGKSSIINALRSSHMKKGKAVPVGPKAGVTRSVMSQVKISEKPLIYILDTPGIS 232 (352)
Q Consensus 167 ~~~~v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~~~pg~T~~~~~~~~~~~~~~~~l~DtPGi~ 232 (352)
+..+|+++|.+|||||||+|++.+. ......++.+.+.. .+. ..+..+.++||||-.
T Consensus 18 ~~~ki~ilG~~~~GKStLi~~l~~~-----~~~~~~~T~~~~~~---~i~-~~~~~~~l~D~~G~~ 74 (190)
T cd00879 18 KEAKILFLGLDNAGKTTLLHMLKDD-----RLAQHVPTLHPTSE---ELT-IGNIKFKTFDLGGHE 74 (190)
T ss_pred CCCEEEEECCCCCCHHHHHHHHhcC-----CCcccCCccCcceE---EEE-ECCEEEEEEECCCCH
Confidence 4688999999999999999999863 22222222332221 122 234468899999953
No 284
>PRK12317 elongation factor 1-alpha; Reviewed
Probab=98.07 E-value=1.9e-05 Score=77.33 Aligned_cols=87 Identities=11% Similarity=0.020 Sum_probs=56.6
Q ss_pred HHHHHHHHhhccCEEEEEEcCCC--CCCCcCHHHHHHHh-CC-CCEEEEEEcccCCCccc--h----HHHHHHHHhhcCC
Q psy15351 4 GLKDIEKHLKNVDIVIEVHDSRM--PFTGRNHLLQQSVQ-NI-RPMVLVLNKRDLINSKH--E----SLIEEKVRKEQSH 73 (352)
Q Consensus 4 ~~~~~~~~i~~aD~vl~VvDar~--p~~~~~~~l~~~l~-~~-k~~ilVlNK~Dl~~~~~--~----~~~~~~~~~~~~~ 73 (352)
.++.+...+..+|++++|+|+++ ++.........++. .+ +|+++|+||+|+.+... . ++..+++...+..
T Consensus 97 ~~~~~~~~~~~aD~~ilVvDa~~~~~~~~~~~~~~~~~~~~~~~~iivviNK~Dl~~~~~~~~~~~~~~i~~~l~~~g~~ 176 (425)
T PRK12317 97 FVKNMITGASQADAAVLVVAADDAGGVMPQTREHVFLARTLGINQLIVAINKMDAVNYDEKRYEEVKEEVSKLLKMVGYK 176 (425)
T ss_pred chhhHhhchhcCCEEEEEEEcccCCCCCcchHHHHHHHHHcCCCeEEEEEEccccccccHHHHHHHHHHHHHHHHhhCCC
Confidence 34556667789999999999998 44444434333333 34 46899999999986321 1 2333334333432
Q ss_pred --CCcEEEeecCCCCCCCHHH
Q psy15351 74 --ISEVIFTNCRNPNCKGVQK 92 (352)
Q Consensus 74 --~~~v~~iSa~~~~~~gi~~ 92 (352)
..+++++||+++ .|+.+
T Consensus 177 ~~~~~ii~iSA~~g--~gi~~ 195 (425)
T PRK12317 177 PDDIPFIPVSAFEG--DNVVK 195 (425)
T ss_pred cCcceEEEeecccC--CCccc
Confidence 125899999999 99876
No 285
>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=98.07 E-value=6e-06 Score=68.68 Aligned_cols=57 Identities=25% Similarity=0.252 Sum_probs=36.5
Q ss_pred EEEEeCCCCCChHHHHHHHhCCCCCCCCceecCCCCCceeEeeeeEEecCC--CcEEEEeCCCCCC
Q psy15351 170 TVMVVGVPNVGKSSIINALRSSHMKKGKAVPVGPKAGVTRSVMSQVKISEK--PLIYILDTPGISL 233 (352)
Q Consensus 170 ~v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~~~pg~T~~~~~~~~~~~~--~~~~l~DtPGi~~ 233 (352)
+|+++|.+|||||||+|++.+. . ..+..+.++.+.........+ -.+.++||||...
T Consensus 1 ki~i~G~~~~GKTsli~~l~~~-----~--~~~~~~~~~~~~~~~~~~~~~~~~~~~l~D~~g~~~ 59 (160)
T cd00876 1 KVVVLGAGGVGKSAITIQFVKG-----T--FVEEYDPTIEDSYRKTIVVDGETYTLDILDTAGQEE 59 (160)
T ss_pred CEEEECCCCCCHHHHHHHHHhC-----C--CCcCcCCChhHeEEEEEEECCEEEEEEEEECCChHH
Confidence 4899999999999999999862 1 233334444433322222221 2478999999654
No 286
>PRK12735 elongation factor Tu; Reviewed
Probab=98.07 E-value=6.6e-06 Score=79.70 Aligned_cols=68 Identities=19% Similarity=0.229 Sum_probs=46.3
Q ss_pred cCcceEEEEeCCCCCChHHHHHHHhCCCCC--CCC--------ceecCCCCCceeEeeeeEEecCCCcEEEEeCCCCC
Q psy15351 165 EVYNTTVMVVGVPNVGKSSIINALRSSHMK--KGK--------AVPVGPKAGVTRSVMSQVKISEKPLIYILDTPGIS 232 (352)
Q Consensus 165 ~~~~~~v~i~G~pnvGKStliN~l~~~~~~--~~~--------~~~~~~~pg~T~~~~~~~~~~~~~~~~l~DtPGi~ 232 (352)
..+.++|+++|.+|+|||||+|+|++.... ... ........|+|.+.........+.++.|+||||..
T Consensus 9 ~~~~~~i~iiGhvd~GKSTL~~~L~~~~~~~g~~~~~~~~~~d~~~~E~~rGiT~~~~~~~~~~~~~~i~~iDtPGh~ 86 (396)
T PRK12735 9 TKPHVNVGTIGHVDHGKTTLTAAITKVLAKKGGGEAKAYDQIDNAPEEKARGITINTSHVEYETANRHYAHVDCPGHA 86 (396)
T ss_pred CCCeEEEEEECcCCCCHHHHHHHHHHhhhhcCCcccchhhhccCChhHHhcCceEEEeeeEEcCCCcEEEEEECCCHH
Confidence 467799999999999999999999852100 000 00112367888887543333445579999999973
No 287
>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=98.07 E-value=1.3e-05 Score=67.62 Aligned_cols=60 Identities=23% Similarity=0.403 Sum_probs=36.1
Q ss_pred cceEEEEeCCCCCChHHHHHHHhCCCCCCCCceecCCCCCceeEeee-eEEecCC-CcEEEEeCCCCC
Q psy15351 167 YNTTVMVVGVPNVGKSSIINALRSSHMKKGKAVPVGPKAGVTRSVMS-QVKISEK-PLIYILDTPGIS 232 (352)
Q Consensus 167 ~~~~v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~~~pg~T~~~~~-~~~~~~~-~~~~l~DtPGi~ 232 (352)
...+|+++|.+|||||||++++.+.. ......|..+.+... .+...+. -.+.++||||..
T Consensus 6 ~~~~v~v~G~~~~GKSsli~~l~~~~------~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~D~~g~~ 67 (169)
T cd04114 6 FLFKIVLIGNAGVGKTCLVRRFTQGL------FPPGQGATIGVDFMIKTVEIKGEKIKLQIWDTAGQE 67 (169)
T ss_pred ceeEEEEECCCCCCHHHHHHHHHhCC------CCCCCCCceeeEEEEEEEEECCEEEEEEEEECCCcH
Confidence 35889999999999999999998521 111122222222222 1222221 246789999964
No 288
>PRK00049 elongation factor Tu; Reviewed
Probab=98.06 E-value=3e-05 Score=75.10 Aligned_cols=100 Identities=13% Similarity=0.067 Sum_probs=67.4
Q ss_pred hHHHHHHHHhhccCEEEEEEcCCCCCCCcCHHHHHHHh-CCCCEE-EEEEcccCCCccch-H----HHHHHHHhhcCC--
Q psy15351 3 RGLKDIEKHLKNVDIVIEVHDSRMPFTGRNHLLQQSVQ-NIRPMV-LVLNKRDLINSKHE-S----LIEEKVRKEQSH-- 73 (352)
Q Consensus 3 ~~~~~~~~~i~~aD~vl~VvDar~p~~~~~~~l~~~l~-~~k~~i-lVlNK~Dl~~~~~~-~----~~~~~~~~~~~~-- 73 (352)
+.++++...+..+|++++|+|++.+.......+..++. .+.|.+ +++||+|+++.+.. + +..+++...++.
T Consensus 87 ~f~~~~~~~~~~aD~~llVVDa~~g~~~qt~~~~~~~~~~g~p~iiVvvNK~D~~~~~~~~~~~~~~i~~~l~~~~~~~~ 166 (396)
T PRK00049 87 DYVKNMITGAAQMDGAILVVSAADGPMPQTREHILLARQVGVPYIVVFLNKCDMVDDEELLELVEMEVRELLSKYDFPGD 166 (396)
T ss_pred HHHHHHHhhhccCCEEEEEEECCCCCchHHHHHHHHHHHcCCCEEEEEEeecCCcchHHHHHHHHHHHHHHHHhcCCCcc
Confidence 45677788899999999999999877665555555555 678876 57999999864321 1 223334333331
Q ss_pred CCcEEEeecCCCC--------CCCHHHHHHHHHHHhh
Q psy15351 74 ISEVIFTNCRNPN--------CKGVQKILPTLQHISD 102 (352)
Q Consensus 74 ~~~v~~iSa~~~~--------~~gi~~L~~~i~~~~~ 102 (352)
..+++++||.++. .+|+..|++.|.+.++
T Consensus 167 ~~~iv~iSa~~g~~~~~~~~w~~~~~~ll~~l~~~~~ 203 (396)
T PRK00049 167 DTPIIRGSALKALEGDDDEEWEKKILELMDAVDSYIP 203 (396)
T ss_pred CCcEEEeecccccCCCCcccccccHHHHHHHHHhcCC
Confidence 2358999998761 1156788888877654
No 289
>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=98.06 E-value=8.8e-06 Score=82.29 Aligned_cols=62 Identities=27% Similarity=0.480 Sum_probs=44.8
Q ss_pred CcceEEEEeCCCCCChHHHHHHHhCCCCCCCCceecCCCCCceeEeeee-EEecCCCcEEEEeCCCCCC
Q psy15351 166 VYNTTVMVVGVPNVGKSSIINALRSSHMKKGKAVPVGPKAGVTRSVMSQ-VKISEKPLIYILDTPGISL 233 (352)
Q Consensus 166 ~~~~~v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~~~pg~T~~~~~~-~~~~~~~~~~l~DtPGi~~ 233 (352)
.++.+|+++|.+|+|||||+|+|++. ....+..+|+|.+.... +.+.++..+.|+||||...
T Consensus 85 ~r~p~V~I~Ghvd~GKTSLl~~l~~~------~v~~~e~~GIT~~ig~~~v~~~~~~~i~~iDTPGhe~ 147 (587)
T TIGR00487 85 ERPPVVTIMGHVDHGKTSLLDSIRKT------KVAQGEAGGITQHIGAYHVENEDGKMITFLDTPGHEA 147 (587)
T ss_pred cCCCEEEEECCCCCCHHHHHHHHHhC------CcccccCCceeecceEEEEEECCCcEEEEEECCCCcc
Confidence 35678999999999999999999862 23345567888775432 2222333799999999754
No 290
>PTZ00369 Ras-like protein; Provisional
Probab=98.06 E-value=2.2e-05 Score=67.88 Aligned_cols=88 Identities=16% Similarity=0.094 Sum_probs=58.4
Q ss_pred HHhhccCEEEEEEcCCCCCCCcC--HHHHHHHh----CCCCEEEEEEcccCCCccc--hHHHHHHHHhhcCCCCcEEEee
Q psy15351 10 KHLKNVDIVIEVHDSRMPFTGRN--HLLQQSVQ----NIRPMVLVLNKRDLINSKH--ESLIEEKVRKEQSHISEVIFTN 81 (352)
Q Consensus 10 ~~i~~aD~vl~VvDar~p~~~~~--~~l~~~l~----~~k~~ilVlNK~Dl~~~~~--~~~~~~~~~~~~~~~~~v~~iS 81 (352)
..+..+|++++|+|+.++.+..+ ..+..+.. .+.|+++|.||+|+.+... ..+..++.+..+. +++.+|
T Consensus 72 ~~~~~~d~iilv~D~s~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~i~~~~~~~~~~~~~~---~~~e~S 148 (189)
T PTZ00369 72 QYMRTGQGFLCVYSITSRSSFEEIASFREQILRVKDKDRVPMILVGNKCDLDSERQVSTGEGQELAKSFGI---PFLETS 148 (189)
T ss_pred HHhhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECcccccccccCHHHHHHHHHHhCC---EEEEee
Confidence 46778999999999987643211 11112221 3679999999999865432 2223333333344 489999
Q ss_pred cCCCCCCCHHHHHHHHHHHhh
Q psy15351 82 CRNPNCKGVQKILPTLQHISD 102 (352)
Q Consensus 82 a~~~~~~gi~~L~~~i~~~~~ 102 (352)
|+++ .|+++++.++.+.+.
T Consensus 149 ak~~--~gi~~~~~~l~~~l~ 167 (189)
T PTZ00369 149 AKQR--VNVDEAFYELVREIR 167 (189)
T ss_pred CCCC--CCHHHHHHHHHHHHH
Confidence 9999 999999998876554
No 291
>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=98.06 E-value=8.2e-06 Score=68.79 Aligned_cols=59 Identities=25% Similarity=0.296 Sum_probs=35.1
Q ss_pred eEEEEeCCCCCChHHHHHHHhCCCCCCCCceecCCCCCceeEeeeeEEec-CCCcEEEEeCCCCCC
Q psy15351 169 TTVMVVGVPNVGKSSIINALRSSHMKKGKAVPVGPKAGVTRSVMSQVKIS-EKPLIYILDTPGISL 233 (352)
Q Consensus 169 ~~v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~~~pg~T~~~~~~~~~~-~~~~~~l~DtPGi~~ 233 (352)
++|+++|.+|||||||+|++.+..... ......+.+++.. .... ..-.+.++||||...
T Consensus 2 ~kv~~vG~~~vGKTsli~~~~~~~f~~---~~~~t~~~~~~~~---~~~~~~~~~l~i~Dt~G~~~ 61 (165)
T cd04140 2 YRVVVFGAGGVGKSSLVLRFVKGTFRE---SYIPTIEDTYRQV---ISCSKNICTLQITDTTGSHQ 61 (165)
T ss_pred eEEEEECCCCCCHHHHHHHHHhCCCCC---CcCCcchheEEEE---EEECCEEEEEEEEECCCCCc
Confidence 689999999999999999998632211 1111112222111 1111 112478999999754
No 292
>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=98.06 E-value=7.9e-06 Score=69.86 Aligned_cols=22 Identities=32% Similarity=0.466 Sum_probs=20.5
Q ss_pred eEEEEeCCCCCChHHHHHHHhC
Q psy15351 169 TTVMVVGVPNVGKSSIINALRS 190 (352)
Q Consensus 169 ~~v~i~G~pnvGKStliN~l~~ 190 (352)
.+|+++|.||||||||++++.+
T Consensus 2 ~kv~l~G~~g~GKTtl~~~~~~ 23 (180)
T cd04137 2 RKIAVLGSRSVGKSSLTVQFVE 23 (180)
T ss_pred eEEEEECCCCCCHHHHHHHHHh
Confidence 4799999999999999999986
No 293
>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=98.06 E-value=8.1e-06 Score=69.05 Aligned_cols=22 Identities=27% Similarity=0.457 Sum_probs=20.7
Q ss_pred eEEEEeCCCCCChHHHHHHHhC
Q psy15351 169 TTVMVVGVPNVGKSSIINALRS 190 (352)
Q Consensus 169 ~~v~i~G~pnvGKStliN~l~~ 190 (352)
++|+++|.|||||||+++++.+
T Consensus 2 ~ki~liG~~~~GKTsli~~~~~ 23 (168)
T cd04177 2 YKIVVLGAGGVGKSALTVQFVQ 23 (168)
T ss_pred eEEEEECCCCCCHHHHHHHHHh
Confidence 6799999999999999999985
No 294
>PRK12739 elongation factor G; Reviewed
Probab=98.06 E-value=6.2e-06 Score=85.46 Aligned_cols=66 Identities=20% Similarity=0.189 Sum_probs=45.2
Q ss_pred ceEEEEeCCCCCChHHHHHHHhCCCCCCCCceecC------------CCCCceeEeeeeEEecCCCcEEEEeCCCCCC
Q psy15351 168 NTTVMVVGVPNVGKSSIINALRSSHMKKGKAVPVG------------PKAGVTRSVMSQVKISEKPLIYILDTPGISL 233 (352)
Q Consensus 168 ~~~v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~------------~~pg~T~~~~~~~~~~~~~~~~l~DtPGi~~ 233 (352)
-.+|+++|.+|+|||||+|+|....-.......+. ..+|+|.+.........+.++.|+||||...
T Consensus 8 irni~iiGh~~~GKsTL~~~ll~~~g~~~~~~~v~~~~~~~D~~~~E~~rgiti~~~~~~~~~~~~~i~liDTPG~~~ 85 (691)
T PRK12739 8 TRNIGIMAHIDAGKTTTTERILYYTGKSHKIGEVHDGAATMDWMEQEQERGITITSAATTCFWKGHRINIIDTPGHVD 85 (691)
T ss_pred eeEEEEECCCCCCHHHHHHHHHHhCCCccccccccCCccccCCChhHhhcCCCccceeEEEEECCEEEEEEcCCCHHH
Confidence 46799999999999999999974210001111122 2678888876544445667899999999754
No 295
>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=98.05 E-value=1.1e-05 Score=68.16 Aligned_cols=85 Identities=24% Similarity=0.204 Sum_probs=55.2
Q ss_pred HHHhhccCEEEEEEcCCCCCCCc--CHHHHHHHh--CCCCEEEEEEcccCCCccchHHHHHHH------HhhcCCCCcEE
Q psy15351 9 EKHLKNVDIVIEVHDSRMPFTGR--NHLLQQSVQ--NIRPMVLVLNKRDLINSKHESLIEEKV------RKEQSHISEVI 78 (352)
Q Consensus 9 ~~~i~~aD~vl~VvDar~p~~~~--~~~l~~~l~--~~k~~ilVlNK~Dl~~~~~~~~~~~~~------~~~~~~~~~v~ 78 (352)
...+..+|++++|+|+.++.+.. ...+.+++. .+.|+++|.||+|+.......+..+.+ ++.+. .++
T Consensus 62 ~~~~~~ad~ii~V~D~t~~~s~~~~~~~l~~~~~~~~~~piilv~NK~Dl~~~~~~~~i~~~~~~~~~~~~~~~---~~~ 138 (164)
T cd04162 62 KRYLSGSQGLIFVVDSADSERLPLARQELHQLLQHPPDLPLVVLANKQDLPAARSVQEIHKELELEPIARGRRW---ILQ 138 (164)
T ss_pred HHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHhCCCCCcEEEEEeCcCCcCCCCHHHHHHHhCChhhcCCCce---EEE
Confidence 35789999999999998764221 122333432 578999999999997654444333222 11223 266
Q ss_pred EeecCC------CCCCCHHHHHHHHH
Q psy15351 79 FTNCRN------PNCKGVQKILPTLQ 98 (352)
Q Consensus 79 ~iSa~~------~~~~gi~~L~~~i~ 98 (352)
.+||++ + +|++++++.+.
T Consensus 139 ~~Sa~~~~s~~~~--~~v~~~~~~~~ 162 (164)
T cd04162 139 GTSLDDDGSPSRM--EAVKDLLSQLI 162 (164)
T ss_pred EeeecCCCChhHH--HHHHHHHHHHh
Confidence 778877 7 88888877653
No 296
>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=98.05 E-value=9e-06 Score=68.83 Aligned_cols=60 Identities=17% Similarity=0.216 Sum_probs=36.2
Q ss_pred eEEEEeCCCCCChHHHHHHHhCCCCCCCCceecCCCCCceeEeeeeEEec-CCCcEEEEeCCCCCC
Q psy15351 169 TTVMVVGVPNVGKSSIINALRSSHMKKGKAVPVGPKAGVTRSVMSQVKIS-EKPLIYILDTPGISL 233 (352)
Q Consensus 169 ~~v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~~~pg~T~~~~~~~~~~-~~~~~~l~DtPGi~~ 233 (352)
++|+++|.+|||||||+|++..... .....+..|....... +... ..-.+.++||||...
T Consensus 1 ~ki~vvG~~~vGKTsli~~~~~~~~----~~~~~~t~~~~~~~~~-~~~~~~~~~l~i~Dt~G~~~ 61 (166)
T cd00877 1 FKLVLVGDGGTGKTTFVKRHLTGEF----EKKYVATLGVEVHPLD-FHTNRGKIRFNVWDTAGQEK 61 (166)
T ss_pred CEEEEECCCCCCHHHHHHHHHhCCC----CCCCCCceeeEEEEEE-EEECCEEEEEEEEECCCChh
Confidence 4799999999999999999985211 1222333333322211 1111 112578999999754
No 297
>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=98.05 E-value=1e-05 Score=68.22 Aligned_cols=22 Identities=23% Similarity=0.475 Sum_probs=20.8
Q ss_pred eEEEEeCCCCCChHHHHHHHhC
Q psy15351 169 TTVMVVGVPNVGKSSIINALRS 190 (352)
Q Consensus 169 ~~v~i~G~pnvGKStliN~l~~ 190 (352)
++|+++|.+|||||||++++.+
T Consensus 3 ~ki~iiG~~~vGKTsli~~~~~ 24 (166)
T cd04122 3 FKYIIIGDMGVGKSCLLHQFTE 24 (166)
T ss_pred eEEEEECCCCCCHHHHHHHHhc
Confidence 6899999999999999999986
No 298
>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=98.04 E-value=3.4e-05 Score=66.79 Aligned_cols=88 Identities=16% Similarity=0.121 Sum_probs=58.8
Q ss_pred HHhhccCEEEEEEcCCCCCCCcC-HHHHHHHh-------CCCCEEEEEEcccCCCccc--hHHHHHHHHhhcCCCCcEEE
Q psy15351 10 KHLKNVDIVIEVHDSRMPFTGRN-HLLQQSVQ-------NIRPMVLVLNKRDLINSKH--ESLIEEKVRKEQSHISEVIF 79 (352)
Q Consensus 10 ~~i~~aD~vl~VvDar~p~~~~~-~~l~~~l~-------~~k~~ilVlNK~Dl~~~~~--~~~~~~~~~~~~~~~~~v~~ 79 (352)
..+..+|++|+|+|..++.+... ..+...+. .+.|+++|.||+|+..... .....++.+..+.. ++.
T Consensus 66 ~~~~~ad~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~piilvgNK~Dl~~~~~v~~~~~~~~~~~~~~~---~~e 142 (190)
T cd04144 66 QWIREGEGFILVYSITSRSTFERVERFREQIQRVKDESAADVPIMIVGNKCDKVYEREVSTEEGAALARRLGCE---FIE 142 (190)
T ss_pred HHHHhCCEEEEEEECCCHHHHHHHHHHHHHHHHHhcccCCCCCEEEEEEChhccccCccCHHHHHHHHHHhCCE---EEE
Confidence 46789999999999976543221 11211121 2579999999999975432 12222333333444 899
Q ss_pred eecCCCCCCCHHHHHHHHHHHhh
Q psy15351 80 TNCRNPNCKGVQKILPTLQHISD 102 (352)
Q Consensus 80 iSa~~~~~~gi~~L~~~i~~~~~ 102 (352)
+||+++ .|++++++++.+.+.
T Consensus 143 ~SAk~~--~~v~~l~~~l~~~l~ 163 (190)
T cd04144 143 ASAKTN--VNVERAFYTLVRALR 163 (190)
T ss_pred ecCCCC--CCHHHHHHHHHHHHH
Confidence 999999 999999999886554
No 299
>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=98.04 E-value=2.7e-05 Score=65.94 Aligned_cols=88 Identities=18% Similarity=0.161 Sum_probs=57.0
Q ss_pred HHHhhccCEEEEEEcCCCCCCCc--CHHHHHHHh----CCCCEEEEEEcccCCCccchHHHHHHHHhhcCC--CCcEEEe
Q psy15351 9 EKHLKNVDIVIEVHDSRMPFTGR--NHLLQQSVQ----NIRPMVLVLNKRDLINSKHESLIEEKVRKEQSH--ISEVIFT 80 (352)
Q Consensus 9 ~~~i~~aD~vl~VvDar~p~~~~--~~~l~~~l~----~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~--~~~v~~i 80 (352)
...++.+|.+++|+|+.++.... ...+...++ .+.|+++++||+|+......++..+.+.-.... ..+++.+
T Consensus 76 ~~~~~~~~~ii~v~D~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~i~~~l~~~~~~~~~~~~~~~ 155 (173)
T cd04155 76 RNYFENTDCLIYVIDSADKKRLEEAGAELVELLEEEKLAGVPVLVFANKQDLATAAPAEEIAEALNLHDLRDRTWHIQAC 155 (173)
T ss_pred HHHhcCCCEEEEEEeCCCHHHHHHHHHHHHHHHhChhhcCCCEEEEEECCCCccCCCHHHHHHHcCCcccCCCeEEEEEe
Confidence 35578999999999998642211 112222222 368999999999997655444444433211110 0136789
Q ss_pred ecCCCCCCCHHHHHHHHH
Q psy15351 81 NCRNPNCKGVQKILPTLQ 98 (352)
Q Consensus 81 Sa~~~~~~gi~~L~~~i~ 98 (352)
||+++ +|+++++++|.
T Consensus 156 Sa~~~--~gi~~~~~~l~ 171 (173)
T cd04155 156 SAKTG--EGLQEGMNWVC 171 (173)
T ss_pred ECCCC--CCHHHHHHHHh
Confidence 99999 99999999875
No 300
>PRK05506 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional
Probab=98.04 E-value=3.1e-05 Score=79.52 Aligned_cols=88 Identities=19% Similarity=0.148 Sum_probs=59.1
Q ss_pred hHHHHHHHHhhccCEEEEEEcCCCCCCCcCHHHHHHHh--CCCCEEEEEEcccCCCcc--chHHHHHH----HHhhcCCC
Q psy15351 3 RGLKDIEKHLKNVDIVIEVHDSRMPFTGRNHLLQQSVQ--NIRPMVLVLNKRDLINSK--HESLIEEK----VRKEQSHI 74 (352)
Q Consensus 3 ~~~~~~~~~i~~aD~vl~VvDar~p~~~~~~~l~~~l~--~~k~~ilVlNK~Dl~~~~--~~~~~~~~----~~~~~~~~ 74 (352)
+..+.+...+..+|++++|+|+..++.....+...++. ..+++++|+||+|+++.+ ..++..+. +++.++..
T Consensus 116 ~f~~~~~~~~~~aD~~llVvda~~g~~~~t~e~~~~~~~~~~~~iivvvNK~D~~~~~~~~~~~i~~~i~~~~~~~~~~~ 195 (632)
T PRK05506 116 QYTRNMVTGASTADLAIILVDARKGVLTQTRRHSFIASLLGIRHVVLAVNKMDLVDYDQEVFDEIVADYRAFAAKLGLHD 195 (632)
T ss_pred HHHHHHHHHHHhCCEEEEEEECCCCccccCHHHHHHHHHhCCCeEEEEEEecccccchhHHHHHHHHHHHHHHHHcCCCC
Confidence 34556777889999999999999887665554444443 346788899999998522 22222222 23334332
Q ss_pred CcEEEeecCCCCCCCHHH
Q psy15351 75 SEVIFTNCRNPNCKGVQK 92 (352)
Q Consensus 75 ~~v~~iSa~~~~~~gi~~ 92 (352)
.+++++||+++ .|+.+
T Consensus 196 ~~iipiSA~~g--~ni~~ 211 (632)
T PRK05506 196 VTFIPISALKG--DNVVT 211 (632)
T ss_pred ccEEEEecccC--CCccc
Confidence 35899999999 88763
No 301
>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=98.04 E-value=8.8e-06 Score=70.49 Aligned_cols=22 Identities=27% Similarity=0.526 Sum_probs=20.5
Q ss_pred eEEEEeCCCCCChHHHHHHHhC
Q psy15351 169 TTVMVVGVPNVGKSSIINALRS 190 (352)
Q Consensus 169 ~~v~i~G~pnvGKStliN~l~~ 190 (352)
++|+++|.||||||||+|++.+
T Consensus 1 ~ki~vvG~~~vGKSsLi~~~~~ 22 (193)
T cd04118 1 VKVVMLGKESVGKTSLVERYVH 22 (193)
T ss_pred CEEEEECCCCCCHHHHHHHHHh
Confidence 4799999999999999999996
No 302
>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=98.04 E-value=2.9e-05 Score=65.39 Aligned_cols=85 Identities=14% Similarity=0.082 Sum_probs=56.4
Q ss_pred HHhhccCEEEEEEcCCCCCCCcC-HHHHHHHh-------CCCCEEEEEEcccCCCccch--HHHHHHHHhhcCCCCcEEE
Q psy15351 10 KHLKNVDIVIEVHDSRMPFTGRN-HLLQQSVQ-------NIRPMVLVLNKRDLINSKHE--SLIEEKVRKEQSHISEVIF 79 (352)
Q Consensus 10 ~~i~~aD~vl~VvDar~p~~~~~-~~l~~~l~-------~~k~~ilVlNK~Dl~~~~~~--~~~~~~~~~~~~~~~~v~~ 79 (352)
.....+|.+++|.|..++.+... ..+.+.++ .+.|+++|.||+|+.+.... .+...+....+.. ++.
T Consensus 68 ~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~piilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~---~~e 144 (165)
T cd04140 68 LSISKGHAFILVYSVTSKQSLEELKPIYELICEIKGNNIEKIPIMLVGNKCDESHKREVSSNEGAACATEWNCA---FME 144 (165)
T ss_pred HHhhcCCEEEEEEECCCHHHHHHHHHHHHHHHHHhcCCCCCCCEEEEEECccccccCeecHHHHHHHHHHhCCc---EEE
Confidence 45678999999999987643221 12222221 35799999999999763321 2222222233443 889
Q ss_pred eecCCCCCCCHHHHHHHHHH
Q psy15351 80 TNCRNPNCKGVQKILPTLQH 99 (352)
Q Consensus 80 iSa~~~~~~gi~~L~~~i~~ 99 (352)
+||+++ .|+++++++|.+
T Consensus 145 ~SA~~g--~~v~~~f~~l~~ 162 (165)
T cd04140 145 TSAKTN--HNVQELFQELLN 162 (165)
T ss_pred eecCCC--CCHHHHHHHHHh
Confidence 999999 999999998864
No 303
>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=98.04 E-value=1.2e-05 Score=70.24 Aligned_cols=61 Identities=23% Similarity=0.309 Sum_probs=37.1
Q ss_pred cceEEEEeCCCCCChHHHHHHHhCCCCCCCCceecCCCCCceeEeeeeEEecCC-CcEEEEeCCCCC
Q psy15351 167 YNTTVMVVGVPNVGKSSIINALRSSHMKKGKAVPVGPKAGVTRSVMSQVKISEK-PLIYILDTPGIS 232 (352)
Q Consensus 167 ~~~~v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~~~pg~T~~~~~~~~~~~~-~~~~l~DtPGi~ 232 (352)
..++|+++|.+|||||||++++.+... .....++.|..... ..+...+. ..+.++||||-.
T Consensus 5 ~~~kivvvG~~~vGKTsli~~l~~~~~----~~~~~~t~~~~~~~-~~~~~~~~~~~l~l~D~~G~~ 66 (199)
T cd04110 5 HLFKLLIIGDSGVGKSSLLLRFADNTF----SGSYITTIGVDFKI-RTVEINGERVKLQIWDTAGQE 66 (199)
T ss_pred ceeEEEEECCCCCCHHHHHHHHhcCCC----CCCcCccccceeEE-EEEEECCEEEEEEEEeCCCch
Confidence 358999999999999999999986321 11222333322211 12222221 247899999954
No 304
>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=98.03 E-value=1.1e-05 Score=68.33 Aligned_cols=54 Identities=30% Similarity=0.537 Sum_probs=37.4
Q ss_pred EEEEeCCCCCChHHHHHHHhCCCCCCCCceecCCCCCceeEeeeeEEecCCCcEEEEeCCCCC
Q psy15351 170 TVMVVGVPNVGKSSIINALRSSHMKKGKAVPVGPKAGVTRSVMSQVKISEKPLIYILDTPGIS 232 (352)
Q Consensus 170 ~v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~~~pg~T~~~~~~~~~~~~~~~~l~DtPGi~ 232 (352)
+|+++|.+|||||||+|.+.+. ......++.|.++.. +.. .+..+.++||||-.
T Consensus 1 ~i~~~G~~~~GKTsl~~~l~~~-----~~~~~~~t~g~~~~~---~~~-~~~~~~i~D~~G~~ 54 (167)
T cd04161 1 TLLTVGLDNAGKTTLVSALQGE-----IPKKVAPTVGFTPTK---LRL-DKYEVCIFDLGGGA 54 (167)
T ss_pred CEEEECCCCCCHHHHHHHHhCC-----CCccccCcccceEEE---EEE-CCEEEEEEECCCcH
Confidence 4789999999999999999862 223344555655332 222 34468899999953
No 305
>PRK04213 GTP-binding protein; Provisional
Probab=98.03 E-value=4.3e-05 Score=66.62 Aligned_cols=87 Identities=11% Similarity=0.109 Sum_probs=56.1
Q ss_pred HhhccCEEEEEEcCCCCCCC-----------cCHHHHHHHh-CCCCEEEEEEcccCCCcc--chHHHHHHHHhhcC--CC
Q psy15351 11 HLKNVDIVIEVHDSRMPFTG-----------RNHLLQQSVQ-NIRPMVLVLNKRDLINSK--HESLIEEKVRKEQS--HI 74 (352)
Q Consensus 11 ~i~~aD~vl~VvDar~p~~~-----------~~~~l~~~l~-~~k~~ilVlNK~Dl~~~~--~~~~~~~~~~~~~~--~~ 74 (352)
.+..+|++++|+|+...... .+..+...+. .+.|+++|+||+|+.+.. ...++.+.+ +. .+
T Consensus 87 ~~~~~~~vi~v~d~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~p~iiv~NK~Dl~~~~~~~~~~~~~~~---~~~~~~ 163 (201)
T PRK04213 87 NADRILAAVLVVDGKSFIEIIERWEGRGEIPIDVEMFDFLRELGIPPIVAVNKMDKIKNRDEVLDEIAERL---GLYPPW 163 (201)
T ss_pred hhhhheEEEEEEeCccccccccccccCCCcHHHHHHHHHHHHcCCCeEEEEECccccCcHHHHHHHHHHHh---cCCccc
Confidence 45667899999998643211 1122334433 578999999999997654 122232222 22 10
Q ss_pred ----CcEEEeecCCCCCCCHHHHHHHHHHHhhh
Q psy15351 75 ----SEVIFTNCRNPNCKGVQKILPTLQHISDN 103 (352)
Q Consensus 75 ----~~v~~iSa~~~~~~gi~~L~~~i~~~~~~ 103 (352)
.+++.+||+++ |+++++++|.+.+++
T Consensus 164 ~~~~~~~~~~SA~~g---gi~~l~~~l~~~~~~ 193 (201)
T PRK04213 164 RQWQDIIAPISAKKG---GIEELKEAIRKRLHE 193 (201)
T ss_pred cccCCcEEEEecccC---CHHHHHHHHHHhhcC
Confidence 13789999985 999999999876654
No 306
>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=98.02 E-value=1.3e-05 Score=68.92 Aligned_cols=59 Identities=17% Similarity=0.347 Sum_probs=36.5
Q ss_pred ceEEEEeCCCCCChHHHHHHHhCCCCCCCCceecCCCCCceeEeeeeEEec--CCCcEEEEeCCCCC
Q psy15351 168 NTTVMVVGVPNVGKSSIINALRSSHMKKGKAVPVGPKAGVTRSVMSQVKIS--EKPLIYILDTPGIS 232 (352)
Q Consensus 168 ~~~v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~~~pg~T~~~~~~~~~~--~~~~~~l~DtPGi~ 232 (352)
.++|+++|.+|||||||++++... ......++.|.+..... +... .+-.+.++||||..
T Consensus 3 ~~kv~~vG~~~~GKTsli~~~~~~-----~~~~~~~t~~~~~~~~~-~~~~~~~~~~l~l~Dt~G~~ 63 (183)
T cd04152 3 SLHIVMLGLDSAGKTTVLYRLKFN-----EFVNTVPTKGFNTEKIK-VSLGNSKGITFHFWDVGGQE 63 (183)
T ss_pred ceEEEEECCCCCCHHHHHHHHhcC-----CcCCcCCccccceeEEE-eeccCCCceEEEEEECCCcH
Confidence 478999999999999999999862 21111222333322211 1111 22358899999964
No 307
>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=98.02 E-value=1e-05 Score=68.59 Aligned_cols=55 Identities=18% Similarity=0.183 Sum_probs=35.0
Q ss_pred EEEEeCCCCCChHHHHHHHhCCCCCCCCceecCCCCCceeEeeeeEEecCCCcEEEEeCCCCCC
Q psy15351 170 TVMVVGVPNVGKSSIINALRSSHMKKGKAVPVGPKAGVTRSVMSQVKISEKPLIYILDTPGISL 233 (352)
Q Consensus 170 ~v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~~~pg~T~~~~~~~~~~~~~~~~l~DtPGi~~ 233 (352)
+|+++|.+|||||||+|++.+. .. .. +..|...........+-.+.++||||...
T Consensus 1 ~vvlvG~~~~GKTsl~~~l~~~-----~~--~~--~~~T~~~~~~~~~~~~~~i~l~Dt~G~~~ 55 (169)
T cd04158 1 RVVTLGLDGAGKTTILFKLKQD-----EF--MQ--PIPTIGFNVETVEYKNLKFTIWDVGGKHK 55 (169)
T ss_pred CEEEECCCCCCHHHHHHHHhcC-----CC--CC--cCCcCceeEEEEEECCEEEEEEECCCChh
Confidence 4889999999999999999862 11 11 22233222111122334688999999754
No 308
>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=98.02 E-value=1.5e-05 Score=73.03 Aligned_cols=21 Identities=24% Similarity=0.502 Sum_probs=19.6
Q ss_pred EEEEeCCCCCChHHHHHHHhC
Q psy15351 170 TVMVVGVPNVGKSSIINALRS 190 (352)
Q Consensus 170 ~v~i~G~pnvGKStliN~l~~ 190 (352)
+|+++|.+|+|||||+|+|+.
T Consensus 4 ni~ivGh~~~GKTTL~e~ll~ 24 (267)
T cd04169 4 TFAIISHPDAGKTTLTEKLLL 24 (267)
T ss_pred EEEEEcCCCCCHHHHHHHHHH
Confidence 599999999999999999984
No 309
>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=98.01 E-value=2.3e-05 Score=69.70 Aligned_cols=84 Identities=19% Similarity=0.113 Sum_probs=57.2
Q ss_pred ccCEEEEEEcCCCCCCCcC-HHHHHHH-h----CCCCEEEEEEcccCCCccch--HHHHHHHHhhcCCCCcEEEeecCCC
Q psy15351 14 NVDIVIEVHDSRMPFTGRN-HLLQQSV-Q----NIRPMVLVLNKRDLINSKHE--SLIEEKVRKEQSHISEVIFTNCRNP 85 (352)
Q Consensus 14 ~aD~vl~VvDar~p~~~~~-~~l~~~l-~----~~k~~ilVlNK~Dl~~~~~~--~~~~~~~~~~~~~~~~v~~iSa~~~ 85 (352)
.+|++++|+|+.++.+... ..+...+ . .+.|+++|.||+|+.+...+ ++..+.....+.. ++.+||+++
T Consensus 72 ~ad~iilV~d~td~~S~~~~~~~~~~l~~~~~~~~~piilV~NK~Dl~~~~~v~~~~~~~~a~~~~~~---~~e~SA~~~ 148 (221)
T cd04148 72 QGDAFVVVYSVTDRSSFERASELRIQLRRNRQLEDRPIILVGNKSDLARSREVSVQEGRACAVVFDCK---FIETSAGLQ 148 (221)
T ss_pred CCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEEChhccccceecHHHHHHHHHHcCCe---EEEecCCCC
Confidence 8999999999987643221 1222222 1 36899999999999765432 2222222233444 889999999
Q ss_pred CCCCHHHHHHHHHHHhh
Q psy15351 86 NCKGVQKILPTLQHISD 102 (352)
Q Consensus 86 ~~~gi~~L~~~i~~~~~ 102 (352)
.|++++++++.+.+.
T Consensus 149 --~gv~~l~~~l~~~~~ 163 (221)
T cd04148 149 --HNVDELLEGIVRQIR 163 (221)
T ss_pred --CCHHHHHHHHHHHHH
Confidence 999999999987665
No 310
>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=98.01 E-value=2.4e-05 Score=67.37 Aligned_cols=88 Identities=16% Similarity=0.104 Sum_probs=55.8
Q ss_pred HHhhccCEEEEEEcCCCCCCCcC--HHHHHHHh--CCCCEEEEEEcccCCCc---cc---hHHHH-HHHHhhcCCCCcEE
Q psy15351 10 KHLKNVDIVIEVHDSRMPFTGRN--HLLQQSVQ--NIRPMVLVLNKRDLINS---KH---ESLIE-EKVRKEQSHISEVI 78 (352)
Q Consensus 10 ~~i~~aD~vl~VvDar~p~~~~~--~~l~~~l~--~~k~~ilVlNK~Dl~~~---~~---~~~~~-~~~~~~~~~~~~v~ 78 (352)
..+..+|++++|+|+.++.+..+ ..+.++.+ ...+.++|.||+||... .. ..+.. ++.+..+. +++
T Consensus 68 ~~~~~a~~iilv~D~t~~~s~~~i~~~~~~~~~~~~~~~pilVgnK~Dl~~~~~~~~~~~~~~~~~~~a~~~~~---~~~ 144 (182)
T cd04128 68 LVCNDAVAILFMFDLTRKSTLNSIKEWYRQARGFNKTAIPILVGTKYDLFADLPPEEQEEITKQARKYAKAMKA---PLI 144 (182)
T ss_pred HHCcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhCCCCCEEEEEEchhccccccchhhhhhHHHHHHHHHHcCC---EEE
Confidence 45789999999999987644322 22222222 22233789999999631 11 11122 22223343 489
Q ss_pred EeecCCCCCCCHHHHHHHHHHHhh
Q psy15351 79 FTNCRNPNCKGVQKILPTLQHISD 102 (352)
Q Consensus 79 ~iSa~~~~~~gi~~L~~~i~~~~~ 102 (352)
.+||+++ .|++++++++.+.+.
T Consensus 145 e~SAk~g--~~v~~lf~~l~~~l~ 166 (182)
T cd04128 145 FCSTSHS--INVQKIFKIVLAKAF 166 (182)
T ss_pred EEeCCCC--CCHHHHHHHHHHHHH
Confidence 9999999 999999998876554
No 311
>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=98.01 E-value=1.2e-05 Score=67.25 Aligned_cols=55 Identities=22% Similarity=0.383 Sum_probs=34.5
Q ss_pred EEEEeCCCCCChHHHHHHHhCCCCCCCCceecCCCCCceeEeeeeEEecCCCcEEEEeCCCCCC
Q psy15351 170 TVMVVGVPNVGKSSIINALRSSHMKKGKAVPVGPKAGVTRSVMSQVKISEKPLIYILDTPGISL 233 (352)
Q Consensus 170 ~v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~~~pg~T~~~~~~~~~~~~~~~~l~DtPGi~~ 233 (352)
+|+++|.+|||||||++++... ......+.-|.+.. .+. ..+..+.++||||...
T Consensus 1 kv~lvG~~~~GKTsl~~~l~~~-----~~~~~~~t~~~~~~---~~~-~~~~~~~i~Dt~G~~~ 55 (158)
T cd04151 1 RILILGLDNAGKTTILYRLQLG-----EVVTTIPTIGFNVE---TVT-YKNLKFQVWDLGGQTS 55 (158)
T ss_pred CEEEECCCCCCHHHHHHHHccC-----CCcCcCCccCcCeE---EEE-ECCEEEEEEECCCCHH
Confidence 4899999999999999999752 22122222222211 111 2334689999999753
No 312
>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=98.01 E-value=1.2e-05 Score=67.81 Aligned_cols=59 Identities=25% Similarity=0.278 Sum_probs=34.5
Q ss_pred eEEEEeCCCCCChHHHHHHHhCCCCCCCCceecCCCCCceeEeeeeEEecCCCcEEEEeCCCCCC
Q psy15351 169 TTVMVVGVPNVGKSSIINALRSSHMKKGKAVPVGPKAGVTRSVMSQVKISEKPLIYILDTPGISL 233 (352)
Q Consensus 169 ~~v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~~~pg~T~~~~~~~~~~~~~~~~l~DtPGi~~ 233 (352)
++|+++|.+|||||||+|++.+..... . .....+.+|.... + ....-.+.++||||...
T Consensus 1 ~kv~ivG~~~vGKTsl~~~l~~~~~~~-~--~~~~~~~~~~~~~--~-~~~~~~~~i~Dt~G~~~ 59 (166)
T cd01893 1 VRIVLIGDEGVGKSSLIMSLVSEEFPE-N--VPRVLPEITIPAD--V-TPERVPTTIVDTSSRPQ 59 (166)
T ss_pred CEEEEECCCCCCHHHHHHHHHhCcCCc-c--CCCcccceEeeee--e-cCCeEEEEEEeCCCchh
Confidence 379999999999999999998632110 0 0001122222211 1 11223578999999753
No 313
>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=98.01 E-value=3e-05 Score=75.95 Aligned_cols=88 Identities=15% Similarity=0.088 Sum_probs=56.0
Q ss_pred hHHHHHHHHhhccCEEEEEEcCCCCCCCcCH---HHHHHHh--CCCCEEEEEEcccCCCcc--c----hHHHHHHHHhhc
Q psy15351 3 RGLKDIEKHLKNVDIVIEVHDSRMPFTGRNH---LLQQSVQ--NIRPMVLVLNKRDLINSK--H----ESLIEEKVRKEQ 71 (352)
Q Consensus 3 ~~~~~~~~~i~~aD~vl~VvDar~p~~~~~~---~l~~~l~--~~k~~ilVlNK~Dl~~~~--~----~~~~~~~~~~~~ 71 (352)
+.++.+...+..+|++++|+|++++.+...+ ....+.+ ..+++++|+||+|+.+.. . .+++.++++..+
T Consensus 97 ~f~~~~~~~~~~aD~~ilVvDa~~~~~~~~~~t~~~~~~~~~~~~~~iIVviNK~Dl~~~~~~~~~~~~~ei~~~~~~~g 176 (426)
T TIGR00483 97 DFIKNMITGASQADAAVLVVAVGDGEFEVQPQTREHAFLARTLGINQLIVAINKMDSVNYDEEEFEAIKKEVSNLIKKVG 176 (426)
T ss_pred HHHHHHHhhhhhCCEEEEEEECCCCCcccCCchHHHHHHHHHcCCCeEEEEEEChhccCccHHHHHHHHHHHHHHHHHcC
Confidence 3455666677899999999999987322222 1112222 335788999999998522 1 233444444444
Q ss_pred CC--CCcEEEeecCCCCCCCHHH
Q psy15351 72 SH--ISEVIFTNCRNPNCKGVQK 92 (352)
Q Consensus 72 ~~--~~~v~~iSa~~~~~~gi~~ 92 (352)
.. ..+++.+||+++ .|+.+
T Consensus 177 ~~~~~~~~i~iSA~~g--~ni~~ 197 (426)
T TIGR00483 177 YNPDTVPFIPISAWNG--DNVIK 197 (426)
T ss_pred CCcccceEEEeecccc--ccccc
Confidence 32 125899999999 99875
No 314
>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=98.01 E-value=1.4e-05 Score=67.76 Aligned_cols=60 Identities=22% Similarity=0.308 Sum_probs=35.3
Q ss_pred ceEEEEeCCCCCChHHHHHHHhCCCCCCCCceecCCCCCceeEeeeeEEecCC-CcEEEEeCCCCC
Q psy15351 168 NTTVMVVGVPNVGKSSIINALRSSHMKKGKAVPVGPKAGVTRSVMSQVKISEK-PLIYILDTPGIS 232 (352)
Q Consensus 168 ~~~v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~~~pg~T~~~~~~~~~~~~-~~~~l~DtPGi~ 232 (352)
.++|+++|.+|||||||++++..... .....+..|..... ..+...+. -.+.++||||..
T Consensus 2 ~~ki~vvG~~~vGKTsli~~~~~~~~----~~~~~~t~~~~~~~-~~~~~~~~~~~~~i~Dt~G~~ 62 (170)
T cd04115 2 IFKIIVIGDSNVGKTCLTYRFCAGRF----PERTEATIGVDFRE-RTVEIDGERIKVQLWDTAGQE 62 (170)
T ss_pred ceEEEEECCCCCCHHHHHHHHHhCCC----CCccccceeEEEEE-EEEEECCeEEEEEEEeCCChH
Confidence 36899999999999999999986311 11112222211111 12222221 257899999954
No 315
>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=98.01 E-value=1.2e-05 Score=69.47 Aligned_cols=59 Identities=27% Similarity=0.370 Sum_probs=35.6
Q ss_pred eEEEEeCCCCCChHHHHHHHhCCCCCCCCceecCCCCCceeEeeeeEEecCC-CcEEEEeCCCCC
Q psy15351 169 TTVMVVGVPNVGKSSIINALRSSHMKKGKAVPVGPKAGVTRSVMSQVKISEK-PLIYILDTPGIS 232 (352)
Q Consensus 169 ~~v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~~~pg~T~~~~~~~~~~~~-~~~~l~DtPGi~ 232 (352)
++|+++|.+|||||||+|++.+... .....+..|.+.... .+...+. -.+.++||||..
T Consensus 1 ~ki~v~G~~~vGKSsli~~~~~~~~----~~~~~~t~~~~~~~~-~~~~~~~~~~~~i~Dt~g~~ 60 (188)
T cd04125 1 FKVVIIGDYGVGKSSLLKRFTEDEF----SESTKSTIGVDFKIK-TVYIENKIIKLQIWDTNGQE 60 (188)
T ss_pred CEEEEECCCCCCHHHHHHHHhcCCC----CCCCCCceeeEEEEE-EEEECCEEEEEEEEECCCcH
Confidence 4799999999999999999986311 111233333332221 2222221 146789999954
No 316
>PLN03127 Elongation factor Tu; Provisional
Probab=98.00 E-value=1.3e-05 Score=78.67 Aligned_cols=68 Identities=19% Similarity=0.212 Sum_probs=47.1
Q ss_pred cCcceEEEEeCCCCCChHHHHHHHhCCCC--CCC--------CceecCCCCCceeEeeeeEEecCCCcEEEEeCCCCC
Q psy15351 165 EVYNTTVMVVGVPNVGKSSIINALRSSHM--KKG--------KAVPVGPKAGVTRSVMSQVKISEKPLIYILDTPGIS 232 (352)
Q Consensus 165 ~~~~~~v~i~G~pnvGKStliN~l~~~~~--~~~--------~~~~~~~~pg~T~~~~~~~~~~~~~~~~l~DtPGi~ 232 (352)
..+.++|+++|.+++|||||+++|.+... +.. ........+|+|++.........+.++.|+||||..
T Consensus 58 ~k~~~ni~iiGhvd~GKSTL~~~L~~~~~~~g~~~~~~~~~~D~~~~E~~rGiTi~~~~~~~~~~~~~i~~iDtPGh~ 135 (447)
T PLN03127 58 TKPHVNVGTIGHVDHGKTTLTAAITKVLAEEGKAKAVAFDEIDKAPEEKARGITIATAHVEYETAKRHYAHVDCPGHA 135 (447)
T ss_pred CCceEEEEEECcCCCCHHHHHHHHHhHHHHhhcccceeeccccCChhHhhcCceeeeeEEEEcCCCeEEEEEECCCcc
Confidence 45779999999999999999999973210 000 001122348999997654444445679999999985
No 317
>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=98.00 E-value=3.8e-05 Score=74.43 Aligned_cols=97 Identities=11% Similarity=0.062 Sum_probs=62.0
Q ss_pred hHHHHHHHHhhccCEEEEEEcCCCCCCCcCHHHHHHHh-CCCCEE-EEEEcccCCCccch-----HHHHHHHHhhcCCC-
Q psy15351 3 RGLKDIEKHLKNVDIVIEVHDSRMPFTGRNHLLQQSVQ-NIRPMV-LVLNKRDLINSKHE-----SLIEEKVRKEQSHI- 74 (352)
Q Consensus 3 ~~~~~~~~~i~~aD~vl~VvDar~p~~~~~~~l~~~l~-~~k~~i-lVlNK~Dl~~~~~~-----~~~~~~~~~~~~~~- 74 (352)
+.+..+...+..+|++++|+|++.+......+...++. .+.|.+ +++||+|+++++.. .+..++++..+...
T Consensus 87 ~f~~~~~~~~~~~D~~ilVvda~~g~~~qt~e~l~~~~~~gi~~iIvvvNK~Dl~~~~~~~~~~~~~i~~~l~~~~~~~~ 166 (394)
T TIGR00485 87 DYVKNMITGAAQMDGAILVVSATDGPMPQTREHILLARQVGVPYIVVFLNKCDMVDDEELLELVEMEVRELLSEYDFPGD 166 (394)
T ss_pred HHHHHHHHHHhhCCEEEEEEECCCCCcHHHHHHHHHHHHcCCCEEEEEEEecccCCHHHHHHHHHHHHHHHHHhcCCCcc
Confidence 45567777888999999999999876554444444444 567765 68999999875432 12334444434211
Q ss_pred -CcEEEeecCCCCCC--------CHHHHHHHHHHHh
Q psy15351 75 -SEVIFTNCRNPNCK--------GVQKILPTLQHIS 101 (352)
Q Consensus 75 -~~v~~iSa~~~~~~--------gi~~L~~~i~~~~ 101 (352)
.+++++||.++ . ++..|++.+.+..
T Consensus 167 ~~~ii~vSa~~g--~~g~~~~~~~~~~ll~~l~~~~ 200 (394)
T TIGR00485 167 DTPIIRGSALKA--LEGDAEWEAKILELMDAVDEYI 200 (394)
T ss_pred CccEEECccccc--cccCCchhHhHHHHHHHHHhcC
Confidence 25899999876 3 3345555555443
No 318
>PLN03118 Rab family protein; Provisional
Probab=98.00 E-value=4.8e-05 Score=67.05 Aligned_cols=90 Identities=16% Similarity=0.047 Sum_probs=60.4
Q ss_pred HHHhhccCEEEEEEcCCCCCCCcCH--HHHHHHh-----CCCCEEEEEEcccCCCccc--hHHHHHHHHhhcCCCCcEEE
Q psy15351 9 EKHLKNVDIVIEVHDSRMPFTGRNH--LLQQSVQ-----NIRPMVLVLNKRDLINSKH--ESLIEEKVRKEQSHISEVIF 79 (352)
Q Consensus 9 ~~~i~~aD~vl~VvDar~p~~~~~~--~l~~~l~-----~~k~~ilVlNK~Dl~~~~~--~~~~~~~~~~~~~~~~~v~~ 79 (352)
...+..+|++|+|+|+.++.+..+. .+...+. .+.|+++|.||+|+..... .....++..+.+.. ++.
T Consensus 80 ~~~~~~~d~~vlv~D~~~~~sf~~~~~~~~~~~~~~~~~~~~~~ilv~NK~Dl~~~~~i~~~~~~~~~~~~~~~---~~e 156 (211)
T PLN03118 80 SSYYRNAQGIILVYDVTRRETFTNLSDVWGKEVELYSTNQDCVKMLVGNKVDRESERDVSREEGMALAKEHGCL---FLE 156 (211)
T ss_pred HHHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccccccCccCHHHHHHHHHHcCCE---EEE
Confidence 4567899999999999875332211 1111121 2468999999999975433 22333333334443 889
Q ss_pred eecCCCCCCCHHHHHHHHHHHhhh
Q psy15351 80 TNCRNPNCKGVQKILPTLQHISDN 103 (352)
Q Consensus 80 iSa~~~~~~gi~~L~~~i~~~~~~ 103 (352)
+||+++ .|+++++++|.+.+.+
T Consensus 157 ~SAk~~--~~v~~l~~~l~~~~~~ 178 (211)
T PLN03118 157 CSAKTR--ENVEQCFEELALKIME 178 (211)
T ss_pred EeCCCC--CCHHHHHHHHHHHHHh
Confidence 999999 9999999999876654
No 319
>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=98.00 E-value=2.5e-05 Score=66.46 Aligned_cols=83 Identities=17% Similarity=0.187 Sum_probs=55.8
Q ss_pred HhhccCEEEEEEcCCCCCCCcC--HHHHHHHh---CCCCEEEEEEcccCCCccc--------------hHHHHHHHHhhc
Q psy15351 11 HLKNVDIVIEVHDSRMPFTGRN--HLLQQSVQ---NIRPMVLVLNKRDLINSKH--------------ESLIEEKVRKEQ 71 (352)
Q Consensus 11 ~i~~aD~vl~VvDar~p~~~~~--~~l~~~l~---~~k~~ilVlNK~Dl~~~~~--------------~~~~~~~~~~~~ 71 (352)
.+..+|++++|.|..++.+... ..+...+. .+.|+++|.||+|+.+... .++..++.++.+
T Consensus 68 ~~~~a~~~i~v~d~~~~~sf~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~a~~~~ 147 (173)
T cd04130 68 CYPDTDVFLLCFSVVNPSSFQNISEKWIPEIRKHNPKAPIILVGTQADLRTDVNVLIQLARYGEKPVSQSRAKALAEKIG 147 (173)
T ss_pred ccCCCcEEEEEEECCCHHHHHHHHHHHHHHHHhhCCCCCEEEEeeChhhccChhHHHHHhhcCCCCcCHHHHHHHHHHhC
Confidence 5678999999999987644322 12222222 4689999999999975321 122333333334
Q ss_pred CCCCcEEEeecCCCCCCCHHHHHHHH
Q psy15351 72 SHISEVIFTNCRNPNCKGVQKILPTL 97 (352)
Q Consensus 72 ~~~~~v~~iSa~~~~~~gi~~L~~~i 97 (352)
.. .++.+||+++ .|++++++.+
T Consensus 148 ~~--~~~e~Sa~~~--~~v~~lf~~~ 169 (173)
T cd04130 148 AC--EYIECSALTQ--KNLKEVFDTA 169 (173)
T ss_pred CC--eEEEEeCCCC--CCHHHHHHHH
Confidence 42 5899999999 9999998765
No 320
>PRK05124 cysN sulfate adenylyltransferase subunit 1; Provisional
Probab=98.00 E-value=3.2e-05 Score=76.52 Aligned_cols=89 Identities=15% Similarity=0.139 Sum_probs=58.8
Q ss_pred hHHHHHHHHhhccCEEEEEEcCCCCCCCcCHHHHHHHh--CCCCEEEEEEcccCCCccc--hHHHHHHH----Hhhc-CC
Q psy15351 3 RGLKDIEKHLKNVDIVIEVHDSRMPFTGRNHLLQQSVQ--NIRPMVLVLNKRDLINSKH--ESLIEEKV----RKEQ-SH 73 (352)
Q Consensus 3 ~~~~~~~~~i~~aD~vl~VvDar~p~~~~~~~l~~~l~--~~k~~ilVlNK~Dl~~~~~--~~~~~~~~----~~~~-~~ 73 (352)
+..+.+...+..+|++++|+|++.++.........++. ..+++++++||+|+++.+. ..+..+.+ ...+ ..
T Consensus 119 ~f~~~~~~~l~~aD~allVVDa~~G~~~qt~~~~~l~~~lg~~~iIvvvNKiD~~~~~~~~~~~i~~~l~~~~~~~~~~~ 198 (474)
T PRK05124 119 QYTRNMATGASTCDLAILLIDARKGVLDQTRRHSFIATLLGIKHLVVAVNKMDLVDYSEEVFERIREDYLTFAEQLPGNL 198 (474)
T ss_pred HHHHHHHHHHhhCCEEEEEEECCCCccccchHHHHHHHHhCCCceEEEEEeeccccchhHHHHHHHHHHHHHHHhcCCCC
Confidence 34566777789999999999999877654443333332 3467889999999985322 23333333 2222 22
Q ss_pred CCcEEEeecCCCCCCCHHHH
Q psy15351 74 ISEVIFTNCRNPNCKGVQKI 93 (352)
Q Consensus 74 ~~~v~~iSa~~~~~~gi~~L 93 (352)
..+++++||+++ .|+.++
T Consensus 199 ~~~iipvSA~~g--~ni~~~ 216 (474)
T PRK05124 199 DIRFVPLSALEG--DNVVSQ 216 (474)
T ss_pred CceEEEEEeecC--CCcccc
Confidence 246999999999 888653
No 321
>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=97.99 E-value=3.8e-05 Score=68.27 Aligned_cols=91 Identities=12% Similarity=0.000 Sum_probs=58.6
Q ss_pred HHhhccCEEEEEEcCCCCCCCcC--HHHHHHHh---CCCCEEEEEEcccCCCc-------------------cc--hHHH
Q psy15351 10 KHLKNVDIVIEVHDSRMPFTGRN--HLLQQSVQ---NIRPMVLVLNKRDLINS-------------------KH--ESLI 63 (352)
Q Consensus 10 ~~i~~aD~vl~VvDar~p~~~~~--~~l~~~l~---~~k~~ilVlNK~Dl~~~-------------------~~--~~~~ 63 (352)
.....+|++|+|+|++++.+..+ ..+..+.+ .+.|+++|.||+||... .. .++.
T Consensus 63 ~~~~~ad~~IlV~Dvt~~~Sf~~l~~~~~~l~~~~~~~~piIlVgNK~DL~~~~~~~~~~~~~~~~~~~~~~r~v~~~e~ 142 (220)
T cd04126 63 MYCRGAAAVILTYDVSNVQSLEELEDRFLGLTDTANEDCLFAVVGNKLDLTEEGALAGQEKDAGDRVSPEDQRQVTLEDA 142 (220)
T ss_pred HHhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECcccccccccccccccccccccccccccCCHHHH
Confidence 35789999999999987643322 11222222 35789999999999751 11 2334
Q ss_pred HHHHHhhcCC-----------CCcEEEeecCCCCCCCHHHHHHHHHHHhh
Q psy15351 64 EEKVRKEQSH-----------ISEVIFTNCRNPNCKGVQKILPTLQHISD 102 (352)
Q Consensus 64 ~~~~~~~~~~-----------~~~v~~iSa~~~~~~gi~~L~~~i~~~~~ 102 (352)
.++.++.+.. -.+++.+||+++ .|+++++..+.+.+.
T Consensus 143 ~~~a~~~~~~~~~~~~~~~~~~~~~~E~SA~tg--~~V~elf~~i~~~~~ 190 (220)
T cd04126 143 KAFYKRINKYKMLDEDLSPAAEKMCFETSAKTG--YNVDELFEYLFNLVL 190 (220)
T ss_pred HHHHHHhCccccccccccccccceEEEeeCCCC--CCHHHHHHHHHHHHH
Confidence 4443333200 014789999999 999999988875443
No 322
>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=97.99 E-value=1.9e-05 Score=67.93 Aligned_cols=22 Identities=23% Similarity=0.433 Sum_probs=20.5
Q ss_pred eEEEEeCCCCCChHHHHHHHhC
Q psy15351 169 TTVMVVGVPNVGKSSIINALRS 190 (352)
Q Consensus 169 ~~v~i~G~pnvGKStliN~l~~ 190 (352)
++|+++|.+|||||||+|++.+
T Consensus 1 ~ki~vvG~~~vGKTsli~~l~~ 22 (187)
T cd04132 1 KKIVVVGDGGCGKTCLLIVYSQ 22 (187)
T ss_pred CeEEEECCCCCCHHHHHHHHHh
Confidence 4799999999999999999986
No 323
>CHL00189 infB translation initiation factor 2; Provisional
Probab=97.99 E-value=5.2e-05 Score=78.19 Aligned_cols=91 Identities=16% Similarity=0.181 Sum_probs=62.0
Q ss_pred HHHHhhccCEEEEEEcCCCCCCCcCHHHHHHHh-CCCCEEEEEEcccCCCccchHHHHHHHHhhcC------CCCcEEEe
Q psy15351 8 IEKHLKNVDIVIEVHDSRMPFTGRNHLLQQSVQ-NIRPMVLVLNKRDLINSKHESLIEEKVRKEQS------HISEVIFT 80 (352)
Q Consensus 8 ~~~~i~~aD~vl~VvDar~p~~~~~~~l~~~l~-~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~------~~~~v~~i 80 (352)
....+..+|++|+|+|+.++......+....+. .+.|+++++||+|+.... .....+.+...+. ...+++++
T Consensus 312 r~rg~~~aDiaILVVDA~dGv~~QT~E~I~~~k~~~iPiIVViNKiDl~~~~-~e~v~~eL~~~~ll~e~~g~~vpvv~V 390 (742)
T CHL00189 312 RSRGANVTDIAILIIAADDGVKPQTIEAINYIQAANVPIIVAINKIDKANAN-TERIKQQLAKYNLIPEKWGGDTPMIPI 390 (742)
T ss_pred HHHHHHHCCEEEEEEECcCCCChhhHHHHHHHHhcCceEEEEEECCCccccC-HHHHHHHHHHhccchHhhCCCceEEEE
Confidence 345789999999999998865544333333343 678999999999997543 1222222221110 01258999
Q ss_pred ecCCCCCCCHHHHHHHHHHHh
Q psy15351 81 NCRNPNCKGVQKILPTLQHIS 101 (352)
Q Consensus 81 Sa~~~~~~gi~~L~~~i~~~~ 101 (352)
||+++ .|+.+|+++|..+.
T Consensus 391 SAktG--~GIdeLle~I~~l~ 409 (742)
T CHL00189 391 SASQG--TNIDKLLETILLLA 409 (742)
T ss_pred ECCCC--CCHHHHHHhhhhhh
Confidence 99999 99999999887654
No 324
>PLN03071 GTP-binding nuclear protein Ran; Provisional
Probab=97.98 E-value=1.7e-05 Score=70.43 Aligned_cols=63 Identities=19% Similarity=0.211 Sum_probs=41.2
Q ss_pred CcceEEEEeCCCCCChHHHHHHHhCCCCCCCCceecCCCCCceeEeeeeEEecC-CCcEEEEeCCCCCC
Q psy15351 166 VYNTTVMVVGVPNVGKSSIINALRSSHMKKGKAVPVGPKAGVTRSVMSQVKISE-KPLIYILDTPGISL 233 (352)
Q Consensus 166 ~~~~~v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~~~pg~T~~~~~~~~~~~-~~~~~l~DtPGi~~ 233 (352)
...++|+++|.+|||||||++++... .......++.|.+..... +.... .-.+.++||||...
T Consensus 11 ~~~~Ki~vvG~~gvGKTsli~~~~~~----~f~~~~~~tig~~~~~~~-~~~~~~~~~l~i~Dt~G~~~ 74 (219)
T PLN03071 11 YPSFKLVIVGDGGTGKTTFVKRHLTG----EFEKKYEPTIGVEVHPLD-FFTNCGKIRFYCWDTAGQEK 74 (219)
T ss_pred CCceEEEEECcCCCCHHHHHHHHhhC----CCCCccCCccceeEEEEE-EEECCeEEEEEEEECCCchh
Confidence 45689999999999999999998752 122234455555544322 21221 22688999999754
No 325
>PTZ00133 ADP-ribosylation factor; Provisional
Probab=97.98 E-value=1.7e-05 Score=68.26 Aligned_cols=57 Identities=21% Similarity=0.363 Sum_probs=36.9
Q ss_pred cceEEEEeCCCCCChHHHHHHHhCCCCCCCCceecCCCCCceeEeeeeEEecCCCcEEEEeCCCCC
Q psy15351 167 YNTTVMVVGVPNVGKSSIINALRSSHMKKGKAVPVGPKAGVTRSVMSQVKISEKPLIYILDTPGIS 232 (352)
Q Consensus 167 ~~~~v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~~~pg~T~~~~~~~~~~~~~~~~l~DtPGi~ 232 (352)
..++|+++|.+|||||||++++... ......++.|.... .+. ..+-.+.++||||..
T Consensus 16 ~~~kv~lvG~~~vGKTsli~~~~~~-----~~~~~~~T~~~~~~---~~~-~~~~~~~l~D~~G~~ 72 (182)
T PTZ00133 16 KEVRILMVGLDAAGKTTILYKLKLG-----EVVTTIPTIGFNVE---TVE-YKNLKFTMWDVGGQD 72 (182)
T ss_pred CccEEEEEcCCCCCHHHHHHHHhcC-----CccccCCccccceE---EEE-ECCEEEEEEECCCCH
Confidence 4589999999999999999999641 21222223332221 122 233468999999974
No 326
>PLN03127 Elongation factor Tu; Provisional
Probab=97.98 E-value=5.2e-05 Score=74.46 Aligned_cols=98 Identities=13% Similarity=0.030 Sum_probs=64.9
Q ss_pred hHHHHHHHHhhccCEEEEEEcCCCCCCCcCHHHHHHHh-CCCCE-EEEEEcccCCCccchHH-----HHHHHHhhcCC--
Q psy15351 3 RGLKDIEKHLKNVDIVIEVHDSRMPFTGRNHLLQQSVQ-NIRPM-VLVLNKRDLINSKHESL-----IEEKVRKEQSH-- 73 (352)
Q Consensus 3 ~~~~~~~~~i~~aD~vl~VvDar~p~~~~~~~l~~~l~-~~k~~-ilVlNK~Dl~~~~~~~~-----~~~~~~~~~~~-- 73 (352)
+.+.++...+..+|++++|+|++.+......++..++. .+.|. ++++||+|+++.+...+ +.+.+...++.
T Consensus 136 ~f~~~~~~g~~~aD~allVVda~~g~~~qt~e~l~~~~~~gip~iIvviNKiDlv~~~~~~~~i~~~i~~~l~~~~~~~~ 215 (447)
T PLN03127 136 DYVKNMITGAAQMDGGILVVSAPDGPMPQTKEHILLARQVGVPSLVVFLNKVDVVDDEELLELVEMELRELLSFYKFPGD 215 (447)
T ss_pred chHHHHHHHHhhCCEEEEEEECCCCCchhHHHHHHHHHHcCCCeEEEEEEeeccCCHHHHHHHHHHHHHHHHHHhCCCCC
Confidence 45677778888999999999999887666656655555 57784 68899999986433222 22223222221
Q ss_pred CCcEEEeecC---CCCCCC-------HHHHHHHHHHHhh
Q psy15351 74 ISEVIFTNCR---NPNCKG-------VQKILPTLQHISD 102 (352)
Q Consensus 74 ~~~v~~iSa~---~~~~~g-------i~~L~~~i~~~~~ 102 (352)
..+++++|+. ++ .| +..|++.+.+.++
T Consensus 216 ~vpiip~Sa~sa~~g--~n~~~~~~~i~~Ll~~l~~~lp 252 (447)
T PLN03127 216 EIPIIRGSALSALQG--TNDEIGKNAILKLMDAVDEYIP 252 (447)
T ss_pred cceEEEeccceeecC--CCcccccchHHHHHHHHHHhCC
Confidence 1247777775 34 44 6788888887765
No 327
>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=97.98 E-value=2.2e-05 Score=66.16 Aligned_cols=85 Identities=15% Similarity=0.171 Sum_probs=56.6
Q ss_pred HhhccCEEEEEEcCCCCCCCcC--HHHHHHHh---CCCCEEEEEEcccCCCccch-------------HHHHHHHHhhcC
Q psy15351 11 HLKNVDIVIEVHDSRMPFTGRN--HLLQQSVQ---NIRPMVLVLNKRDLINSKHE-------------SLIEEKVRKEQS 72 (352)
Q Consensus 11 ~i~~aD~vl~VvDar~p~~~~~--~~l~~~l~---~~k~~ilVlNK~Dl~~~~~~-------------~~~~~~~~~~~~ 72 (352)
.+..+|++++|+|+.++.+... ..+...+. .+.|+++|+||+|+.+.... ....++....+.
T Consensus 68 ~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~ 147 (171)
T cd00157 68 SYPNTDVFLICFSVDSPSSFENVKTKWIPEIRHYCPNVPIILVGTKIDLRDDENTLKKLEKGKEPITPEEGEKLAKEIGA 147 (171)
T ss_pred hcCCCCEEEEEEECCCHHHHHHHHHHHHHHHHhhCCCCCEEEEEccHHhhhchhhhhhcccCCCccCHHHHHHHHHHhCC
Confidence 4578999999999987533221 11222221 46999999999999866532 122233333343
Q ss_pred CCCcEEEeecCCCCCCCHHHHHHHHHH
Q psy15351 73 HISEVIFTNCRNPNCKGVQKILPTLQH 99 (352)
Q Consensus 73 ~~~~v~~iSa~~~~~~gi~~L~~~i~~ 99 (352)
. +++.+||+++ .|++++++.|.+
T Consensus 148 ~--~~~~~Sa~~~--~gi~~l~~~i~~ 170 (171)
T cd00157 148 I--GYMECSALTQ--EGVKEVFEEAIR 170 (171)
T ss_pred e--EEEEeecCCC--CCHHHHHHHHhh
Confidence 2 5899999999 999999988753
No 328
>PRK12735 elongation factor Tu; Reviewed
Probab=97.98 E-value=4.9e-05 Score=73.65 Aligned_cols=100 Identities=12% Similarity=0.047 Sum_probs=65.6
Q ss_pred hHHHHHHHHhhccCEEEEEEcCCCCCCCcCHHHHHHHh-CCCCEE-EEEEcccCCCccchH-----HHHHHHHhhcCC--
Q psy15351 3 RGLKDIEKHLKNVDIVIEVHDSRMPFTGRNHLLQQSVQ-NIRPMV-LVLNKRDLINSKHES-----LIEEKVRKEQSH-- 73 (352)
Q Consensus 3 ~~~~~~~~~i~~aD~vl~VvDar~p~~~~~~~l~~~l~-~~k~~i-lVlNK~Dl~~~~~~~-----~~~~~~~~~~~~-- 73 (352)
+.++.+...+..+|++++|+|+..++.....++..++. .+.|.+ +++||+|+++.+... +..++++..+..
T Consensus 87 ~f~~~~~~~~~~aD~~llVvda~~g~~~qt~e~l~~~~~~gi~~iivvvNK~Dl~~~~~~~~~~~~ei~~~l~~~~~~~~ 166 (396)
T PRK12735 87 DYVKNMITGAAQMDGAILVVSAADGPMPQTREHILLARQVGVPYIVVFLNKCDMVDDEELLELVEMEVRELLSKYDFPGD 166 (396)
T ss_pred HHHHHHHhhhccCCEEEEEEECCCCCchhHHHHHHHHHHcCCCeEEEEEEecCCcchHHHHHHHHHHHHHHHHHcCCCcC
Confidence 44677888899999999999999866544444444443 577866 579999998643221 233334333321
Q ss_pred CCcEEEeecCCCC--------CCCHHHHHHHHHHHhh
Q psy15351 74 ISEVIFTNCRNPN--------CKGVQKILPTLQHISD 102 (352)
Q Consensus 74 ~~~v~~iSa~~~~--------~~gi~~L~~~i~~~~~ 102 (352)
..+++++||.++. ..++..|++.|.+.++
T Consensus 167 ~~~ii~~Sa~~g~n~~~~~~w~~~~~~Ll~~l~~~~~ 203 (396)
T PRK12735 167 DTPIIRGSALKALEGDDDEEWEAKILELMDAVDSYIP 203 (396)
T ss_pred ceeEEecchhccccCCCCCcccccHHHHHHHHHhcCC
Confidence 1258999998871 0257788888877665
No 329
>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=97.97 E-value=2.3e-05 Score=65.77 Aligned_cols=22 Identities=36% Similarity=0.611 Sum_probs=20.2
Q ss_pred eEEEEeCCCCCChHHHHHHHhC
Q psy15351 169 TTVMVVGVPNVGKSSIINALRS 190 (352)
Q Consensus 169 ~~v~i~G~pnvGKStliN~l~~ 190 (352)
++|+++|.+|||||||++++..
T Consensus 1 ~ki~vvG~~~~GKtsl~~~l~~ 22 (164)
T cd04101 1 LRCAVVGDPAVGKTAFVQMFHS 22 (164)
T ss_pred CEEEEECCCCCCHHHHHHHHhc
Confidence 4799999999999999999984
No 330
>PLN03071 GTP-binding nuclear protein Ran; Provisional
Probab=97.97 E-value=2.7e-05 Score=69.14 Aligned_cols=87 Identities=17% Similarity=0.087 Sum_probs=58.5
Q ss_pred HhhccCEEEEEEcCCCCCCCcC-HHHHHHHh---CCCCEEEEEEcccCCCccchHHHHHHHHhhcCCCCcEEEeecCCCC
Q psy15351 11 HLKNVDIVIEVHDSRMPFTGRN-HLLQQSVQ---NIRPMVLVLNKRDLINSKHESLIEEKVRKEQSHISEVIFTNCRNPN 86 (352)
Q Consensus 11 ~i~~aD~vl~VvDar~p~~~~~-~~l~~~l~---~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~v~~iSa~~~~ 86 (352)
....+|++|+|+|..++.+..+ ..+...+. .+.|+++|.||+|+........-.++.++.+.. ++.+||+++
T Consensus 82 ~~~~~~~~ilvfD~~~~~s~~~i~~w~~~i~~~~~~~piilvgNK~Dl~~~~v~~~~~~~~~~~~~~---~~e~SAk~~- 157 (219)
T PLN03071 82 YYIHGQCAIIMFDVTARLTYKNVPTWHRDLCRVCENIPIVLCGNKVDVKNRQVKAKQVTFHRKKNLQ---YYEISAKSN- 157 (219)
T ss_pred HcccccEEEEEEeCCCHHHHHHHHHHHHHHHHhCCCCcEEEEEEchhhhhccCCHHHHHHHHhcCCE---EEEcCCCCC-
Confidence 4689999999999987643321 11111121 468999999999996543212222333333444 889999999
Q ss_pred CCCHHHHHHHHHHHhh
Q psy15351 87 CKGVQKILPTLQHISD 102 (352)
Q Consensus 87 ~~gi~~L~~~i~~~~~ 102 (352)
.|+++++.+|.+.+.
T Consensus 158 -~~i~~~f~~l~~~~~ 172 (219)
T PLN03071 158 -YNFEKPFLYLARKLA 172 (219)
T ss_pred -CCHHHHHHHHHHHHH
Confidence 999999999876554
No 331
>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=97.97 E-value=4.2e-05 Score=77.58 Aligned_cols=99 Identities=11% Similarity=0.044 Sum_probs=68.6
Q ss_pred HHHHHHHHhhccCEEEEEEcCCCCCCCcCHHHHHHHh-CCCCEEEEEEcccCCCccc---hHHHHHHHHhhcCC----CC
Q psy15351 4 GLKDIEKHLKNVDIVIEVHDSRMPFTGRNHLLQQSVQ-NIRPMVLVLNKRDLINSKH---ESLIEEKVRKEQSH----IS 75 (352)
Q Consensus 4 ~~~~~~~~i~~aD~vl~VvDar~p~~~~~~~l~~~l~-~~k~~ilVlNK~Dl~~~~~---~~~~~~~~~~~~~~----~~ 75 (352)
....+...+..+|.+++|+|+..+.......+...+. .+.|.++|+||+|+..... .++..+.+...+.. ..
T Consensus 77 F~~ev~~~l~~aD~alLVVDa~~G~~~qT~~~l~~a~~~~ip~IVviNKiD~~~a~~~~v~~ei~~l~~~~g~~~e~l~~ 156 (594)
T TIGR01394 77 FGGEVERVLGMVDGVLLLVDASEGPMPQTRFVLKKALELGLKPIVVINKIDRPSARPDEVVDEVFDLFAELGADDEQLDF 156 (594)
T ss_pred HHHHHHHHHHhCCEEEEEEeCCCCCcHHHHHHHHHHHHCCCCEEEEEECCCCCCcCHHHHHHHHHHHHHhhccccccccC
Confidence 3456778899999999999998765444444444333 6789999999999865421 34444444322211 11
Q ss_pred cEEEeecCCCCCC----------CHHHHHHHHHHHhhhc
Q psy15351 76 EVIFTNCRNPNCK----------GVQKILPTLQHISDNM 104 (352)
Q Consensus 76 ~v~~iSa~~~~~~----------gi~~L~~~i~~~~~~~ 104 (352)
+++++||+++ . |+..|++.+.+.++..
T Consensus 157 pvl~~SA~~g--~~~~~~~~~~~gi~~Lld~Iv~~lP~P 193 (594)
T TIGR01394 157 PIVYASGRAG--WASLDLDDPSDNMAPLFDAIVRHVPAP 193 (594)
T ss_pred cEEechhhcC--cccccCcccccCHHHHHHHHHHhCCCC
Confidence 4899999998 5 7999999998888753
No 332
>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=97.96 E-value=3.5e-05 Score=65.34 Aligned_cols=86 Identities=16% Similarity=0.167 Sum_probs=56.6
Q ss_pred HhhccCEEEEEEcCCCCCCCcCH--HHHHHHh---CCCCEEEEEEcccCCCccc--------------hHHHHHHHHhhc
Q psy15351 11 HLKNVDIVIEVHDSRMPFTGRNH--LLQQSVQ---NIRPMVLVLNKRDLINSKH--------------ESLIEEKVRKEQ 71 (352)
Q Consensus 11 ~i~~aD~vl~VvDar~p~~~~~~--~l~~~l~---~~k~~ilVlNK~Dl~~~~~--------------~~~~~~~~~~~~ 71 (352)
.+..+|++|+|.|..++-+..+- .+...+. .+.|+++|.||+|+.+... ..+..++.++.+
T Consensus 66 ~~~~~d~~ilv~d~~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~ 145 (174)
T smart00174 66 SYPDTDVFLICFSVDSPASFENVKEKWYPEVKHFCPNTPIILVGTKLDLREDKSTLRELSKQKQEPVTYEQGEALAKRIG 145 (174)
T ss_pred hcCCCCEEEEEEECCCHHHHHHHHHHHHHHHHhhCCCCCEEEEecChhhhhChhhhhhhhcccCCCccHHHHHHHHHHcC
Confidence 56789999999999876332211 1222222 4789999999999975321 111122233334
Q ss_pred CCCCcEEEeecCCCCCCCHHHHHHHHHHH
Q psy15351 72 SHISEVIFTNCRNPNCKGVQKILPTLQHI 100 (352)
Q Consensus 72 ~~~~~v~~iSa~~~~~~gi~~L~~~i~~~ 100 (352)
.. .++.+||+++ .|++++++.+.+.
T Consensus 146 ~~--~~~e~Sa~~~--~~v~~lf~~l~~~ 170 (174)
T smart00174 146 AV--KYLECSALTQ--EGVREVFEEAIRA 170 (174)
T ss_pred Cc--EEEEecCCCC--CCHHHHHHHHHHH
Confidence 32 4889999999 9999999887654
No 333
>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=97.96 E-value=5e-05 Score=65.50 Aligned_cols=88 Identities=16% Similarity=0.061 Sum_probs=59.2
Q ss_pred HHHHhhccCEEEEEEcCCCCCCCcCHHHHHHH----h---CCCCEEEEEEcccCCCccch--HHHHHHHHhhcCCCCcEE
Q psy15351 8 IEKHLKNVDIVIEVHDSRMPFTGRNHLLQQSV----Q---NIRPMVLVLNKRDLINSKHE--SLIEEKVRKEQSHISEVI 78 (352)
Q Consensus 8 ~~~~i~~aD~vl~VvDar~p~~~~~~~l~~~l----~---~~k~~ilVlNK~Dl~~~~~~--~~~~~~~~~~~~~~~~v~ 78 (352)
....+..+|++++|+|+.++.+. ..+..++ . ...|+++|.||+|+.+.... .....+.+..+.+ ++
T Consensus 66 ~~~~~~~~d~iilv~d~~~~~s~--~~i~~~~~~i~~~~~~~~~~ivv~nK~Dl~~~~~v~~~~~~~~~~~~~~~---~~ 140 (188)
T cd04125 66 NNSYYRGAHGYLLVYDVTDQESF--ENLKFWINEINRYARENVIKVIVANKSDLVNNKVVDSNIAKSFCDSLNIP---FF 140 (188)
T ss_pred HHHHccCCCEEEEEEECcCHHHH--HHHHHHHHHHHHhCCCCCeEEEEEECCCCcccccCCHHHHHHHHHHcCCe---EE
Confidence 34567899999999999875322 1222222 1 34789999999999854321 2222222333444 89
Q ss_pred EeecCCCCCCCHHHHHHHHHHHhh
Q psy15351 79 FTNCRNPNCKGVQKILPTLQHISD 102 (352)
Q Consensus 79 ~iSa~~~~~~gi~~L~~~i~~~~~ 102 (352)
.+||+++ .|+++++.++.+.+.
T Consensus 141 evSa~~~--~~i~~~f~~l~~~~~ 162 (188)
T cd04125 141 ETSAKQS--INVEEAFILLVKLII 162 (188)
T ss_pred EEeCCCC--CCHHHHHHHHHHHHH
Confidence 9999999 999999988876554
No 334
>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=97.96 E-value=2.6e-05 Score=69.02 Aligned_cols=58 Identities=21% Similarity=0.277 Sum_probs=35.8
Q ss_pred eEEEEeCCCCCChHHHHHHHhCCCCCCCCceecCCCCCceeEeee-eEEecCC--CcEEEEeCCCCC
Q psy15351 169 TTVMVVGVPNVGKSSIINALRSSHMKKGKAVPVGPKAGVTRSVMS-QVKISEK--PLIYILDTPGIS 232 (352)
Q Consensus 169 ~~v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~~~pg~T~~~~~-~~~~~~~--~~~~l~DtPGi~ 232 (352)
++|+++|.+|||||||+|++.+... .....|..+.+... .+.+.++ -.+.++||||-.
T Consensus 1 ~Ki~ivG~~~vGKSsLi~~l~~~~~------~~~~~~T~~~d~~~~~i~~~~~~~~~~~i~Dt~G~~ 61 (215)
T cd04109 1 FKIVVLGDGAVGKTSLCRRFAKEGF------GKSYKQTIGLDFFSKRVTLPGNLNVTLQVWDIGGQS 61 (215)
T ss_pred CEEEEECcCCCCHHHHHHHHhcCCC------CCCCCCceeEEEEEEEEEeCCCCEEEEEEEECCCcH
Confidence 4799999999999999999986321 11222333323221 2223222 257899999953
No 335
>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=97.95 E-value=5.8e-05 Score=62.65 Aligned_cols=87 Identities=18% Similarity=0.120 Sum_probs=58.8
Q ss_pred HHHHhhccCEEEEEEcCCCCCCCcC-HHH-HHHHh----CCCCEEEEEEcccCCCccc--hHHHHHHHHhhcCCCCcEEE
Q psy15351 8 IEKHLKNVDIVIEVHDSRMPFTGRN-HLL-QQSVQ----NIRPMVLVLNKRDLINSKH--ESLIEEKVRKEQSHISEVIF 79 (352)
Q Consensus 8 ~~~~i~~aD~vl~VvDar~p~~~~~-~~l-~~~l~----~~k~~ilVlNK~Dl~~~~~--~~~~~~~~~~~~~~~~~v~~ 79 (352)
....+..+|++++|+|..++.+..+ ..+ ..+.. ...|+++|+||+|+.+... .+.......+.+.+ ++.
T Consensus 64 ~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~---~~~ 140 (160)
T cd00876 64 RDLYIRQGDGFILVYSITDRESFEEIKGYREQILRVKDDEDIPIVLVGNKCDLENERQVSKEEGKALAKEWGCP---FIE 140 (160)
T ss_pred HHHHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEECCcccccceecHHHHHHHHHHcCCc---EEE
Confidence 3456789999999999876532211 111 12221 3689999999999986332 23333444444444 899
Q ss_pred eecCCCCCCCHHHHHHHHHH
Q psy15351 80 TNCRNPNCKGVQKILPTLQH 99 (352)
Q Consensus 80 iSa~~~~~~gi~~L~~~i~~ 99 (352)
+||+++ .|+++++++|.+
T Consensus 141 ~S~~~~--~~i~~l~~~l~~ 158 (160)
T cd00876 141 TSAKDN--INIDEVFKLLVR 158 (160)
T ss_pred eccCCC--CCHHHHHHHHHh
Confidence 999999 999999998864
No 336
>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=97.95 E-value=1.2e-05 Score=69.55 Aligned_cols=21 Identities=29% Similarity=0.412 Sum_probs=19.5
Q ss_pred EEEEeCCCCCChHHHHHHHhC
Q psy15351 170 TVMVVGVPNVGKSSIINALRS 190 (352)
Q Consensus 170 ~v~i~G~pnvGKStliN~l~~ 190 (352)
+|+++|.+|||||||+|++..
T Consensus 1 ki~ivG~~~vGKTsli~~l~~ 21 (190)
T cd04144 1 KLVVLGDGGVGKTALTIQLCL 21 (190)
T ss_pred CEEEECCCCCCHHHHHHHHHh
Confidence 489999999999999999985
No 337
>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=97.95 E-value=4e-05 Score=77.80 Aligned_cols=83 Identities=25% Similarity=0.295 Sum_probs=57.6
Q ss_pred hhccCEEEEEEcCCCCCCCcCHHH-HHHHhCCCCEEEEEEcccCCCccchHHHHHHHHh-hcCCCCcEEEeecCCCCCCC
Q psy15351 12 LKNVDIVIEVHDSRMPFTGRNHLL-QQSVQNIRPMVLVLNKRDLINSKHESLIEEKVRK-EQSHISEVIFTNCRNPNCKG 89 (352)
Q Consensus 12 i~~aD~vl~VvDar~p~~~~~~~l-~~~l~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~-~~~~~~~v~~iSa~~~~~~g 89 (352)
.+.+|+++.|+|+++. .++..+ .+..+.++|+++|+||+|+..+.....-.+.+.+ .+.+ ++.+||+++ +|
T Consensus 70 ~~~aDvvI~VvDat~l--er~l~l~~ql~~~~~PiIIVlNK~Dl~~~~~i~~d~~~L~~~lg~p---vv~tSA~tg--~G 142 (591)
T TIGR00437 70 NEKPDLVVNVVDASNL--ERNLYLTLQLLELGIPMILALNLVDEAEKKGIRIDEEKLEERLGVP---VVPTSATEG--RG 142 (591)
T ss_pred hcCCCEEEEEecCCcc--hhhHHHHHHHHhcCCCEEEEEehhHHHHhCCChhhHHHHHHHcCCC---EEEEECCCC--CC
Confidence 3579999999999863 222222 2333368999999999999754432222233333 3554 999999999 99
Q ss_pred HHHHHHHHHHHh
Q psy15351 90 VQKILPTLQHIS 101 (352)
Q Consensus 90 i~~L~~~i~~~~ 101 (352)
++++++.+.+..
T Consensus 143 i~eL~~~i~~~~ 154 (591)
T TIGR00437 143 IERLKDAIRKAI 154 (591)
T ss_pred HHHHHHHHHHHh
Confidence 999999987654
No 338
>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=97.95 E-value=2.5e-05 Score=66.69 Aligned_cols=24 Identities=21% Similarity=0.364 Sum_probs=21.9
Q ss_pred ceEEEEeCCCCCChHHHHHHHhCC
Q psy15351 168 NTTVMVVGVPNVGKSSIINALRSS 191 (352)
Q Consensus 168 ~~~v~i~G~pnvGKStliN~l~~~ 191 (352)
.++|+++|.+|||||||+|++.+.
T Consensus 4 ~~ki~ivG~~~vGKTsli~~~~~~ 27 (180)
T cd04127 4 LIKFLALGDSGVGKTSFLYQYTDN 27 (180)
T ss_pred eEEEEEECCCCCCHHHHHHHHhcC
Confidence 478999999999999999999863
No 339
>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=97.95 E-value=6.4e-05 Score=76.02 Aligned_cols=91 Identities=19% Similarity=0.208 Sum_probs=60.6
Q ss_pred HHHhhccCEEEEEEcCCCCCCCcCHHHHHHHh-CCCCEEEEEEcccCCCccc--------------h----HHH------
Q psy15351 9 EKHLKNVDIVIEVHDSRMPFTGRNHLLQQSVQ-NIRPMVLVLNKRDLINSKH--------------E----SLI------ 63 (352)
Q Consensus 9 ~~~i~~aD~vl~VvDar~p~~~~~~~l~~~l~-~~k~~ilVlNK~Dl~~~~~--------------~----~~~------ 63 (352)
......+|++++|+|+++.......+...+++ .+.|+++++||+|+.+... . ..+
T Consensus 87 ~~~~~~aD~~IlVvD~~~g~~~qt~e~i~~l~~~~vpiIVv~NK~Dl~~~~~~~~~~~f~e~sak~~~~v~~~~~~~~~~ 166 (590)
T TIGR00491 87 KRGGALADLAILIVDINEGFKPQTQEALNILRMYKTPFVVAANKIDRIPGWRSHEGRPFMESFSKQEIQVQQNLDTKVYN 166 (590)
T ss_pred HHHHhhCCEEEEEEECCcCCCHhHHHHHHHHHHcCCCEEEEEECCCccchhhhccCchHHHHHHhhhHHHHHHHHHHHHH
Confidence 34668999999999999866554444444444 6789999999999975210 0 000
Q ss_pred -HHHHHhhcCC------------CCcEEEeecCCCCCCCHHHHHHHHHHHh
Q psy15351 64 -EEKVRKEQSH------------ISEVIFTNCRNPNCKGVQKILPTLQHIS 101 (352)
Q Consensus 64 -~~~~~~~~~~------------~~~v~~iSa~~~~~~gi~~L~~~i~~~~ 101 (352)
...+.+.++. ..+++++||+++ +|+++|+.++..+.
T Consensus 167 lv~~l~~~G~~~e~~~~i~~~~~~v~iVpVSA~tG--eGideLl~~l~~l~ 215 (590)
T TIGR00491 167 LVIKLHEEGFEAERFDRVTDFTKTVAIIPISAITG--EGIPELLTMLAGLA 215 (590)
T ss_pred HHHHHHhcCccHHhhhhhhhcCCCceEEEeecCCC--CChhHHHHHHHHHH
Confidence 1112222221 126899999999 99999999886543
No 340
>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=97.95 E-value=5e-05 Score=67.06 Aligned_cols=90 Identities=18% Similarity=0.115 Sum_probs=58.9
Q ss_pred HHHhhccCEEEEEEcCCCCCCCcC--HHHHHHHh----CCCCEEEEEEcccCCCccc--hHHHHHHHHhhcCCCCcEEEe
Q psy15351 9 EKHLKNVDIVIEVHDSRMPFTGRN--HLLQQSVQ----NIRPMVLVLNKRDLINSKH--ESLIEEKVRKEQSHISEVIFT 80 (352)
Q Consensus 9 ~~~i~~aD~vl~VvDar~p~~~~~--~~l~~~l~----~~k~~ilVlNK~Dl~~~~~--~~~~~~~~~~~~~~~~~v~~i 80 (352)
...+.++|++++|.|..++-+..+ ..+.++.+ ...|+++|.||+|+.+... .++..++.+..+.. ++.+
T Consensus 70 ~~~~~~~d~iilv~D~~~~~Sf~~l~~~~~~i~~~~~~~~~~iilvgNK~Dl~~~~~v~~~~~~~~~~~~~~~---~~e~ 146 (211)
T cd04111 70 RSYYRNSVGVLLVFDITNRESFEHVHDWLEEARSHIQPHRPVFILVGHKCDLESQRQVTREEAEKLAKDLGMK---YIET 146 (211)
T ss_pred HHHhcCCcEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEccccccccccCHHHHHHHHHHhCCE---EEEE
Confidence 356789999999999987633221 11112211 2356788999999976432 22222333334544 8999
Q ss_pred ecCCCCCCCHHHHHHHHHHHhhh
Q psy15351 81 NCRNPNCKGVQKILPTLQHISDN 103 (352)
Q Consensus 81 Sa~~~~~~gi~~L~~~i~~~~~~ 103 (352)
||+++ .|+++++++|.+.+..
T Consensus 147 Sak~g--~~v~e~f~~l~~~~~~ 167 (211)
T cd04111 147 SARTG--DNVEEAFELLTQEIYE 167 (211)
T ss_pred eCCCC--CCHHHHHHHHHHHHHH
Confidence 99999 9999999998875543
No 341
>PRK05306 infB translation initiation factor IF-2; Validated
Probab=97.95 E-value=1.6e-05 Score=82.54 Aligned_cols=62 Identities=27% Similarity=0.421 Sum_probs=46.0
Q ss_pred CcceEEEEeCCCCCChHHHHHHHhCCCCCCCCceecCCCCCceeEeeeeEEecCCCcEEEEeCCCCCC
Q psy15351 166 VYNTTVMVVGVPNVGKSSIINALRSSHMKKGKAVPVGPKAGVTRSVMSQVKISEKPLIYILDTPGISL 233 (352)
Q Consensus 166 ~~~~~v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~~~pg~T~~~~~~~~~~~~~~~~l~DtPGi~~ 233 (352)
.++..|+++|.+|+|||||+++|++. ....+..+|.|.+.........+..+.|+||||...
T Consensus 288 ~R~pvV~ImGhvd~GKTSLl~~Lr~~------~v~~~e~~GIT~~iga~~v~~~~~~ItfiDTPGhe~ 349 (787)
T PRK05306 288 PRPPVVTIMGHVDHGKTSLLDAIRKT------NVAAGEAGGITQHIGAYQVETNGGKITFLDTPGHEA 349 (787)
T ss_pred cCCCEEEEECCCCCCHHHHHHHHHhC------CccccccCceeeeccEEEEEECCEEEEEEECCCCcc
Confidence 57789999999999999999999852 233455678887764322223345799999999754
No 342
>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=97.95 E-value=4.7e-05 Score=61.68 Aligned_cols=85 Identities=21% Similarity=0.125 Sum_probs=58.0
Q ss_pred HHHhhccCEEEEEEcCCCCCCCcCHHHH-----HHHh-CCCCEEEEEEcccCCCccchHHH--HHHHHh-hcCCCCcEEE
Q psy15351 9 EKHLKNVDIVIEVHDSRMPFTGRNHLLQ-----QSVQ-NIRPMVLVLNKRDLINSKHESLI--EEKVRK-EQSHISEVIF 79 (352)
Q Consensus 9 ~~~i~~aD~vl~VvDar~p~~~~~~~l~-----~~l~-~~k~~ilVlNK~Dl~~~~~~~~~--~~~~~~-~~~~~~~v~~ 79 (352)
...+..+|.+++|+|+..+......... .... .++|+++|+||+|+.+....... ...... ... +++.
T Consensus 63 ~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~ivv~nk~D~~~~~~~~~~~~~~~~~~~~~~---~~~~ 139 (157)
T cd00882 63 RLYYRGADGIILVYDVTDRESFENVKEWLLLILINKEGENIPIILVGNKIDLPEERVVSEEELAEQLAKELGV---PYFE 139 (157)
T ss_pred HHHhcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhhccCCCcEEEEEeccccccccchHHHHHHHHHHhhcCC---cEEE
Confidence 4567899999999999876443322211 1111 57899999999999876543332 112212 233 5999
Q ss_pred eecCCCCCCCHHHHHHHHH
Q psy15351 80 TNCRNPNCKGVQKILPTLQ 98 (352)
Q Consensus 80 iSa~~~~~~gi~~L~~~i~ 98 (352)
+|+.++ .|+++++++|.
T Consensus 140 ~s~~~~--~~i~~~~~~l~ 156 (157)
T cd00882 140 TSAKTG--ENVEELFEELA 156 (157)
T ss_pred EecCCC--CChHHHHHHHh
Confidence 999999 99999998874
No 343
>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=97.94 E-value=1.4e-05 Score=65.63 Aligned_cols=53 Identities=21% Similarity=0.251 Sum_probs=39.3
Q ss_pred CCCEEEEEEcccCCCccchHHHHHHHHhhcCCCCcEEEeecCCCCCCCHHHHHHHHH
Q psy15351 42 IRPMVLVLNKRDLINSKHESLIEEKVRKEQSHISEVIFTNCRNPNCKGVQKILPTLQ 98 (352)
Q Consensus 42 ~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~v~~iSa~~~~~~gi~~L~~~i~ 98 (352)
+.|+++|+||+|+............+...+.. +++.+||.++ .|+.+++++|.
T Consensus 108 ~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~--~~~~~sa~~~--~gv~~~~~~l~ 160 (161)
T TIGR00231 108 NVPIILVGNKIDLRDAKLKTHVAFLFAKLNGE--PIIPLSAETG--KNIDSAFKIVE 160 (161)
T ss_pred CCcEEEEEEcccCCcchhhHHHHHHHhhccCC--ceEEeecCCC--CCHHHHHHHhh
Confidence 78999999999998754333444444333332 5899999999 99999988764
No 344
>KOG2486|consensus
Probab=97.94 E-value=1.7e-05 Score=71.05 Aligned_cols=63 Identities=25% Similarity=0.347 Sum_probs=47.5
Q ss_pred CcceEEEEeCCCCCChHHHHHHHhCCCCCCCCceecC-CCCCceeEeeeeEEecCCCcEEEEeCCCCCCCC
Q psy15351 166 VYNTTVMVVGVPNVGKSSIINALRSSHMKKGKAVPVG-PKAGVTRSVMSQVKISEKPLIYILDTPGISLPR 235 (352)
Q Consensus 166 ~~~~~v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~-~~pg~T~~~~~~~~~~~~~~~~l~DtPGi~~~~ 235 (352)
...+.++++|.+|||||+|||.+.+. .....++ +.+|.|+..+ .+.+ +.+++++|.||+....
T Consensus 134 ~~~pe~~~~g~SNVGKSSLln~~~r~----k~~~~t~k~K~g~Tq~in-~f~v--~~~~~~vDlPG~~~a~ 197 (320)
T KOG2486|consen 134 DKRPELAFYGRSNVGKSSLLNDLVRV----KNIADTSKSKNGKTQAIN-HFHV--GKSWYEVDLPGYGRAG 197 (320)
T ss_pred CCCceeeeecCCcccHHHHHhhhhhh----hhhhhhcCCCCccceeee-eeec--cceEEEEecCCccccc
Confidence 45689999999999999999999974 2233333 4999999865 3443 3479999999976643
No 345
>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=97.94 E-value=1.9e-05 Score=66.28 Aligned_cols=22 Identities=36% Similarity=0.475 Sum_probs=20.6
Q ss_pred eEEEEeCCCCCChHHHHHHHhC
Q psy15351 169 TTVMVVGVPNVGKSSIINALRS 190 (352)
Q Consensus 169 ~~v~i~G~pnvGKStliN~l~~ 190 (352)
++|+++|.||||||||++++..
T Consensus 2 ~ki~i~G~~~vGKTsl~~~~~~ 23 (163)
T cd04176 2 YKVVVLGSGGVGKSALTVQFVS 23 (163)
T ss_pred eEEEEECCCCCCHHHHHHHHHc
Confidence 6899999999999999999986
No 346
>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=97.94 E-value=3.2e-05 Score=67.63 Aligned_cols=22 Identities=41% Similarity=0.549 Sum_probs=20.5
Q ss_pred eEEEEeCCCCCChHHHHHHHhC
Q psy15351 169 TTVMVVGVPNVGKSSIINALRS 190 (352)
Q Consensus 169 ~~v~i~G~pnvGKStliN~l~~ 190 (352)
++|+++|.+|||||||+|++.+
T Consensus 1 ~KivivG~~~vGKTsli~~l~~ 22 (201)
T cd04107 1 LKVLVIGDLGVGKTSIIKRYVH 22 (201)
T ss_pred CEEEEECCCCCCHHHHHHHHHc
Confidence 4799999999999999999986
No 347
>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=97.93 E-value=5e-05 Score=67.77 Aligned_cols=80 Identities=16% Similarity=0.169 Sum_probs=55.1
Q ss_pred HHHHHHhhccCEEEEEEcCCCCCCCcCHHHHHHHh-CCCCEE-EEEEcccCCCccc-hHHHHHHHHh----hcCCCCcEE
Q psy15351 6 KDIEKHLKNVDIVIEVHDSRMPFTGRNHLLQQSVQ-NIRPMV-LVLNKRDLINSKH-ESLIEEKVRK----EQSHISEVI 78 (352)
Q Consensus 6 ~~~~~~i~~aD~vl~VvDar~p~~~~~~~l~~~l~-~~k~~i-lVlNK~Dl~~~~~-~~~~~~~~~~----~~~~~~~v~ 78 (352)
..+...++.+|++++|+|++.++...+..+..++. .+.|.+ +|+||+|++++.. .....+.+++ ......+++
T Consensus 95 ~~~l~~ak~aDvVllviDa~~~~~~~~~~i~~~l~~~g~p~vi~VvnK~D~~~~~~~~~~~~~~l~~~~~~~~~~~~ki~ 174 (225)
T cd01882 95 NAMIDIAKVADLVLLLIDASFGFEMETFEFLNILQVHGFPRVMGVLTHLDLFKKNKTLRKTKKRLKHRFWTEVYQGAKLF 174 (225)
T ss_pred HHHHHHHHhcCEEEEEEecCcCCCHHHHHHHHHHHHcCCCeEEEEEeccccCCcHHHHHHHHHHHHHHHHHhhCCCCcEE
Confidence 45667789999999999999877666666666664 567854 4999999985432 2333333322 223445899
Q ss_pred EeecCCC
Q psy15351 79 FTNCRNP 85 (352)
Q Consensus 79 ~iSa~~~ 85 (352)
++||+++
T Consensus 175 ~iSa~~~ 181 (225)
T cd01882 175 YLSGIVH 181 (225)
T ss_pred EEeeccC
Confidence 9999987
No 348
>cd01873 RhoBTB RhoBTB subfamily. Members of the RhoBTB subfamily of Rho GTPases are present in vertebrates, Drosophila, and Dictyostelium. RhoBTB proteins are characterized by a modular organization, consisting of a GTPase domain, a proline rich region, a tandem of two BTB (Broad-Complex, Tramtrack, and Bric a brac) domains, and a C-terminal region of unknown function. RhoBTB proteins may act as docking points for multiple components participating in signal transduction cascades. RhoBTB genes appeared upregulated in some cancer cell lines, suggesting a participation of RhoBTB proteins in the pathogenesis of particular tumors. Note that the Dictyostelium RacA GTPase domain is more closely related to Rac proteins than to RhoBTB proteins, where RacA actually belongs. Thus, the Dictyostelium RacA is not included here. Most Rho proteins contain a lipid modification site at the C-terminus; however, RhoBTB is one of few Rho subfamilies that lack this feature.
Probab=97.93 E-value=4.4e-05 Score=66.59 Aligned_cols=84 Identities=17% Similarity=0.121 Sum_probs=57.4
Q ss_pred HhhccCEEEEEEcCCCCCCCcCH--HHHHHHh---CCCCEEEEEEcccCCCc-------------------c--chHHHH
Q psy15351 11 HLKNVDIVIEVHDSRMPFTGRNH--LLQQSVQ---NIRPMVLVLNKRDLINS-------------------K--HESLIE 64 (352)
Q Consensus 11 ~i~~aD~vl~VvDar~p~~~~~~--~l~~~l~---~~k~~ilVlNK~Dl~~~-------------------~--~~~~~~ 64 (352)
....+|++++|.|..++.+..+. .+...++ .+.|+++|.||+||... . ..++..
T Consensus 84 ~~~~ad~iilv~d~t~~~Sf~~~~~~w~~~i~~~~~~~piilvgNK~DL~~~~~~~~~~~~~~~~~~~~~~~~V~~~e~~ 163 (195)
T cd01873 84 AYGRSDVVLLCFSIASPNSLRNVKTMWYPEIRHFCPRVPVILVGCKLDLRYADLDEVNRARRPLARPIKNADILPPETGR 163 (195)
T ss_pred cCCCCCEEEEEEECCChhHHHHHHHHHHHHHHHhCCCCCEEEEEEchhccccccchhhhcccccccccccCCccCHHHHH
Confidence 56899999999999876543321 1222222 46799999999999641 1 123333
Q ss_pred HHHHhhcCCCCcEEEeecCCCCCCCHHHHHHHHHH
Q psy15351 65 EKVRKEQSHISEVIFTNCRNPNCKGVQKILPTLQH 99 (352)
Q Consensus 65 ~~~~~~~~~~~~v~~iSa~~~~~~gi~~L~~~i~~ 99 (352)
++.++.+.. ++.+||+++ .|++++++.+.+
T Consensus 164 ~~a~~~~~~---~~E~SAkt~--~~V~e~F~~~~~ 193 (195)
T cd01873 164 AVAKELGIP---YYETSVVTQ--FGVKDVFDNAIR 193 (195)
T ss_pred HHHHHhCCE---EEEcCCCCC--CCHHHHHHHHHH
Confidence 444445554 889999999 999999887754
No 349
>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=97.93 E-value=8.9e-05 Score=62.60 Aligned_cols=86 Identities=12% Similarity=0.100 Sum_probs=57.1
Q ss_pred HHhhccCEEEEEEcCCCCCCCcC--HHHHHHHh-------CCCCEEEEEEcccCCCccc-hHHHHHHHHhhcCCCCcEEE
Q psy15351 10 KHLKNVDIVIEVHDSRMPFTGRN--HLLQQSVQ-------NIRPMVLVLNKRDLINSKH-ESLIEEKVRKEQSHISEVIF 79 (352)
Q Consensus 10 ~~i~~aD~vl~VvDar~p~~~~~--~~l~~~l~-------~~k~~ilVlNK~Dl~~~~~-~~~~~~~~~~~~~~~~~v~~ 79 (352)
..+..+|++++|.|..++.+... ..+.+++. .+.|+++|.||+|+..... .++..++.++.+.. +++.
T Consensus 73 ~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~--~~~e 150 (170)
T cd04116 73 PFYRGSDCCLLTFAVDDSQSFQNLSNWKKEFIYYADVKEPESFPFVVLGNKNDIPERQVSTEEAQAWCRENGDY--PYFE 150 (170)
T ss_pred HHhcCCCEEEEEEECCCHHHHHhHHHHHHHHHHhcccccCCCCcEEEEEECccccccccCHHHHHHHHHHCCCC--eEEE
Confidence 46788999999999876532221 11222221 2469999999999974332 23444444444432 5889
Q ss_pred eecCCCCCCCHHHHHHHHHH
Q psy15351 80 TNCRNPNCKGVQKILPTLQH 99 (352)
Q Consensus 80 iSa~~~~~~gi~~L~~~i~~ 99 (352)
+||+++ .|+.++++.+.+
T Consensus 151 ~Sa~~~--~~v~~~~~~~~~ 168 (170)
T cd04116 151 TSAKDA--TNVAAAFEEAVR 168 (170)
T ss_pred EECCCC--CCHHHHHHHHHh
Confidence 999999 999999888754
No 350
>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=97.93 E-value=4.2e-05 Score=64.31 Aligned_cols=89 Identities=18% Similarity=0.159 Sum_probs=58.1
Q ss_pred HHHHhhccCEEEEEEcCCCCCCCcC-HHHHHHHh------CCCCEEEEEEcccCCCccc--hHHHHHHHHhhcCCCCcEE
Q psy15351 8 IEKHLKNVDIVIEVHDSRMPFTGRN-HLLQQSVQ------NIRPMVLVLNKRDLINSKH--ESLIEEKVRKEQSHISEVI 78 (352)
Q Consensus 8 ~~~~i~~aD~vl~VvDar~p~~~~~-~~l~~~l~------~~k~~ilVlNK~Dl~~~~~--~~~~~~~~~~~~~~~~~v~ 78 (352)
....+..+|++++|+|+.++.+... ..+...+. .+.|+++|.||+|+..... ..+..++.+..+. +++
T Consensus 65 ~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~v~~~~~~~~~~~~~~---~~~ 141 (165)
T cd04146 65 LERSIRWADGFVLVYSITDRSSFDEISQLKQLIREIKKRDREIPVILVGNKADLLHYRQVSTEEGEKLASELGC---LFF 141 (165)
T ss_pred HHHHHHhCCEEEEEEECCCHHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECCchHHhCccCHHHHHHHHHHcCC---EEE
Confidence 4567789999999999987633221 11122221 2689999999999864432 2222333333344 488
Q ss_pred EeecCCCCCC-CHHHHHHHHHHHh
Q psy15351 79 FTNCRNPNCK-GVQKILPTLQHIS 101 (352)
Q Consensus 79 ~iSa~~~~~~-gi~~L~~~i~~~~ 101 (352)
.+||+++ . |+++++..+.+.+
T Consensus 142 e~Sa~~~--~~~v~~~f~~l~~~~ 163 (165)
T cd04146 142 EVSAAED--YDGVHSVFHELCREV 163 (165)
T ss_pred EeCCCCC--chhHHHHHHHHHHHH
Confidence 9999998 6 8999998886543
No 351
>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=97.93 E-value=5.3e-05 Score=64.92 Aligned_cols=88 Identities=16% Similarity=0.137 Sum_probs=59.1
Q ss_pred HHhhccCEEEEEEcCCCCCCCcCH--HHHHHHh---CCCCEEEEEEcccCCCcc------------chHHHHHHHHhhcC
Q psy15351 10 KHLKNVDIVIEVHDSRMPFTGRNH--LLQQSVQ---NIRPMVLVLNKRDLINSK------------HESLIEEKVRKEQS 72 (352)
Q Consensus 10 ~~i~~aD~vl~VvDar~p~~~~~~--~l~~~l~---~~k~~ilVlNK~Dl~~~~------------~~~~~~~~~~~~~~ 72 (352)
..+..+|.+|+|.|..++.+..+- .+...++ .+.|+++|.||+||.+.. ..++..++.++.+.
T Consensus 68 ~~~~~a~~~ilvyd~~~~~Sf~~~~~~w~~~i~~~~~~~piilvgnK~Dl~~~~~~~~~~~~~~~v~~~~~~~~a~~~~~ 147 (176)
T cd04133 68 LSYRGADVFVLAFSLISRASYENVLKKWVPELRHYAPNVPIVLVGTKLDLRDDKQYLADHPGASPITTAQGEELRKQIGA 147 (176)
T ss_pred hhcCCCcEEEEEEEcCCHHHHHHHHHHHHHHHHHhCCCCCEEEEEeChhhccChhhhhhccCCCCCCHHHHHHHHHHcCC
Confidence 367899999999999876554331 1222222 467999999999996532 12222333333343
Q ss_pred CCCcEEEeecCCCCCCCHHHHHHHHHHHh
Q psy15351 73 HISEVIFTNCRNPNCKGVQKILPTLQHIS 101 (352)
Q Consensus 73 ~~~~v~~iSa~~~~~~gi~~L~~~i~~~~ 101 (352)
. .++.+||+++ .|++++++.+.+.+
T Consensus 148 ~--~~~E~SAk~~--~nV~~~F~~~~~~~ 172 (176)
T cd04133 148 A--AYIECSSKTQ--QNVKAVFDAAIKVV 172 (176)
T ss_pred C--EEEECCCCcc--cCHHHHHHHHHHHH
Confidence 2 3789999999 99999999887654
No 352
>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=97.93 E-value=1.9e-05 Score=65.20 Aligned_cols=54 Identities=19% Similarity=0.340 Sum_probs=33.6
Q ss_pred EEEeCCCCCChHHHHHHHhCCCCCCCCceecCCCCCceeEeeeeEEecCCCcEEEEeCCCCC
Q psy15351 171 VMVVGVPNVGKSSIINALRSSHMKKGKAVPVGPKAGVTRSVMSQVKISEKPLIYILDTPGIS 232 (352)
Q Consensus 171 v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~~~pg~T~~~~~~~~~~~~~~~~l~DtPGi~ 232 (352)
|+++|.+|||||||+|+|.+... .....|.+..... .+. .+...+.++||||..
T Consensus 2 i~i~G~~~~GKssl~~~l~~~~~------~~~~~~t~~~~~~-~~~-~~~~~~~~~D~~g~~ 55 (159)
T cd04159 2 ITLVGLQNSGKTTLVNVIAGGQF------SEDTIPTVGFNMR-KVT-KGNVTLKVWDLGGQP 55 (159)
T ss_pred EEEEcCCCCCHHHHHHHHccCCC------CcCccCCCCcceE-EEE-ECCEEEEEEECCCCH
Confidence 78999999999999999997321 1111222222111 111 223458899999964
No 353
>PLN03108 Rab family protein; Provisional
Probab=97.92 E-value=8e-05 Score=65.65 Aligned_cols=89 Identities=13% Similarity=0.064 Sum_probs=59.3
Q ss_pred HHHHhhccCEEEEEEcCCCCCCCcC--HHHHHHHh---CCCCEEEEEEcccCCCccc--hHHHHHHHHhhcCCCCcEEEe
Q psy15351 8 IEKHLKNVDIVIEVHDSRMPFTGRN--HLLQQSVQ---NIRPMVLVLNKRDLINSKH--ESLIEEKVRKEQSHISEVIFT 80 (352)
Q Consensus 8 ~~~~i~~aD~vl~VvDar~p~~~~~--~~l~~~l~---~~k~~ilVlNK~Dl~~~~~--~~~~~~~~~~~~~~~~~v~~i 80 (352)
....+..+|.+++|+|+.++.+... ..+..... ...|+++|.||+|+..... ..+..++.++.+.. ++.+
T Consensus 72 ~~~~~~~ad~~vlv~D~~~~~s~~~l~~~~~~~~~~~~~~~piiiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~---~~e~ 148 (210)
T PLN03108 72 TRSYYRGAAGALLVYDITRRETFNHLASWLEDARQHANANMTIMLIGNKCDLAHRRAVSTEEGEQFAKEHGLI---FMEA 148 (210)
T ss_pred HHHHhccCCEEEEEEECCcHHHHHHHHHHHHHHHHhcCCCCcEEEEEECccCccccCCCHHHHHHHHHHcCCE---EEEE
Confidence 3456778999999999987543222 11212221 3679999999999975432 23333444444554 8999
Q ss_pred ecCCCCCCCHHHHHHHHHHHh
Q psy15351 81 NCRNPNCKGVQKILPTLQHIS 101 (352)
Q Consensus 81 Sa~~~~~~gi~~L~~~i~~~~ 101 (352)
||+++ .|+++++.++.+.+
T Consensus 149 Sa~~~--~~v~e~f~~l~~~~ 167 (210)
T PLN03108 149 SAKTA--QNVEEAFIKTAAKI 167 (210)
T ss_pred eCCCC--CCHHHHHHHHHHHH
Confidence 99999 99999887775443
No 354
>KOG0462|consensus
Probab=97.92 E-value=4.1e-05 Score=74.41 Aligned_cols=94 Identities=17% Similarity=0.191 Sum_probs=67.0
Q ss_pred HHHHhhccCEEEEEEcCCCCCCCcCH-HHHHHHhCCCCEEEEEEcccCCCccchHHHHHHHHh-hcCCCCcEEEeecCCC
Q psy15351 8 IEKHLKNVDIVIEVHDSRMPFTGRNH-LLQQSVQNIRPMVLVLNKRDLINSKHESLIEEKVRK-EQSHISEVIFTNCRNP 85 (352)
Q Consensus 8 ~~~~i~~aD~vl~VvDar~p~~~~~~-~l~~~l~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~-~~~~~~~v~~iSa~~~ 85 (352)
+.+.+..||-+|+||||..+....-- .+...++.+-.+|.|+||+|+...+. +.....+.+ .+.+..+++.+||++|
T Consensus 142 VsRslaac~G~lLvVDA~qGvqAQT~anf~lAfe~~L~iIpVlNKIDlp~adp-e~V~~q~~~lF~~~~~~~i~vSAK~G 220 (650)
T KOG0462|consen 142 VSRSLAACDGALLVVDASQGVQAQTVANFYLAFEAGLAIIPVLNKIDLPSADP-ERVENQLFELFDIPPAEVIYVSAKTG 220 (650)
T ss_pred ehehhhhcCceEEEEEcCcCchHHHHHHHHHHHHcCCeEEEeeeccCCCCCCH-HHHHHHHHHHhcCCccceEEEEeccC
Confidence 45678899999999999977654322 22222336777899999999976553 233333322 2444457999999999
Q ss_pred CCCCHHHHHHHHHHHhhhc
Q psy15351 86 NCKGVQKILPTLQHISDNM 104 (352)
Q Consensus 86 ~~~gi~~L~~~i~~~~~~~ 104 (352)
.|+++++++|.+.+|..
T Consensus 221 --~~v~~lL~AII~rVPpP 237 (650)
T KOG0462|consen 221 --LNVEELLEAIIRRVPPP 237 (650)
T ss_pred --ccHHHHHHHHHhhCCCC
Confidence 99999999999887754
No 355
>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=97.92 E-value=4.9e-05 Score=64.89 Aligned_cols=86 Identities=15% Similarity=0.127 Sum_probs=55.9
Q ss_pred HHhhccCEEEEEEcCCCCCCCcCH--HHHHHHh---CCCCEEEEEEcccCCCccc--------------hHHHHHHHHhh
Q psy15351 10 KHLKNVDIVIEVHDSRMPFTGRNH--LLQQSVQ---NIRPMVLVLNKRDLINSKH--------------ESLIEEKVRKE 70 (352)
Q Consensus 10 ~~i~~aD~vl~VvDar~p~~~~~~--~l~~~l~---~~k~~ilVlNK~Dl~~~~~--------------~~~~~~~~~~~ 70 (352)
..+..+|++|+|.|..++.+..+- .+...+. .+.|+++|.||+||.+... ..+..++.++.
T Consensus 68 ~~~~~~d~~ilv~d~~~~~sf~~~~~~~~~~~~~~~~~~piilvgnK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~ 147 (174)
T cd01871 68 LSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHCPNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEI 147 (174)
T ss_pred hhcCCCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCCEEEEeeChhhccChhhHHHHhhccCCCCCHHHHHHHHHHc
Confidence 357889999999999876433221 1222222 4679999999999964321 11112222223
Q ss_pred cCCCCcEEEeecCCCCCCCHHHHHHHHHH
Q psy15351 71 QSHISEVIFTNCRNPNCKGVQKILPTLQH 99 (352)
Q Consensus 71 ~~~~~~v~~iSa~~~~~~gi~~L~~~i~~ 99 (352)
+. .+++.+||+++ .|++++++.+.+
T Consensus 148 ~~--~~~~e~Sa~~~--~~i~~~f~~l~~ 172 (174)
T cd01871 148 GA--VKYLECSALTQ--KGLKTVFDEAIR 172 (174)
T ss_pred CC--cEEEEeccccc--CCHHHHHHHHHH
Confidence 32 14789999999 999999987754
No 356
>PRK00049 elongation factor Tu; Reviewed
Probab=97.91 E-value=1.7e-05 Score=76.91 Aligned_cols=67 Identities=24% Similarity=0.281 Sum_probs=45.9
Q ss_pred CcceEEEEeCCCCCChHHHHHHHhCCCCCC-CCce---------ecCCCCCceeEeeeeEEecCCCcEEEEeCCCCC
Q psy15351 166 VYNTTVMVVGVPNVGKSSIINALRSSHMKK-GKAV---------PVGPKAGVTRSVMSQVKISEKPLIYILDTPGIS 232 (352)
Q Consensus 166 ~~~~~v~i~G~pnvGKStliN~l~~~~~~~-~~~~---------~~~~~pg~T~~~~~~~~~~~~~~~~l~DtPGi~ 232 (352)
.+.++|+++|.+++|||||+++|++..... +... .-...+|+|.+.........+.++.|+||||..
T Consensus 10 ~~~~ni~iiGhvd~GKSTL~~~L~~~~~~~g~~~~~~~~~~d~~~~E~~rg~Ti~~~~~~~~~~~~~i~~iDtPG~~ 86 (396)
T PRK00049 10 KPHVNVGTIGHVDHGKTTLTAAITKVLAKKGGAEAKAYDQIDKAPEEKARGITINTAHVEYETEKRHYAHVDCPGHA 86 (396)
T ss_pred CCEEEEEEEeECCCCHHHHHHHHHHhhhhccCCcccchhhccCChHHHhcCeEEeeeEEEEcCCCeEEEEEECCCHH
Confidence 567999999999999999999998621100 0111 112268999987543333345579999999974
No 357
>COG0532 InfB Translation initiation factor 2 (IF-2; GTPase) [Translation, ribosomal structure and biogenesis]
Probab=97.91 E-value=7e-05 Score=72.98 Aligned_cols=94 Identities=12% Similarity=0.135 Sum_probs=67.0
Q ss_pred HHHHHHH-HhhccCEEEEEEcCCCCCCCcCHHHHHHHh-CCCCEEEEEEcccCCCccchHHHHHHHHhhcCCC------C
Q psy15351 4 GLKDIEK-HLKNVDIVIEVHDSRMPFTGRNHLLQQSVQ-NIRPMVLVLNKRDLINSKHESLIEEKVRKEQSHI------S 75 (352)
Q Consensus 4 ~~~~~~~-~i~~aD~vl~VvDar~p~~~~~~~l~~~l~-~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~------~ 75 (352)
|+-.|+. -.+-+|++++|+|+.+....+-.+-...++ .+.|+++.+||+|..+... ......+.+.|+.. .
T Consensus 67 AFt~mRaRGa~vtDIaILVVa~dDGv~pQTiEAI~hak~a~vP~iVAiNKiDk~~~np-~~v~~el~~~gl~~E~~gg~v 145 (509)
T COG0532 67 AFTAMRARGASVTDIAILVVAADDGVMPQTIEAINHAKAAGVPIVVAINKIDKPEANP-DKVKQELQEYGLVPEEWGGDV 145 (509)
T ss_pred HHHHHHhcCCccccEEEEEEEccCCcchhHHHHHHHHHHCCCCEEEEEecccCCCCCH-HHHHHHHHHcCCCHhhcCCce
Confidence 3444442 457789999999999988776655555555 7899999999999985443 23333343444321 2
Q ss_pred cEEEeecCCCCCCCHHHHHHHHHHH
Q psy15351 76 EVIFTNCRNPNCKGVQKILPTLQHI 100 (352)
Q Consensus 76 ~v~~iSa~~~~~~gi~~L~~~i~~~ 100 (352)
.++++||+++ +|+.+|+..+.-.
T Consensus 146 ~~VpvSA~tg--~Gi~eLL~~ill~ 168 (509)
T COG0532 146 IFVPVSAKTG--EGIDELLELILLL 168 (509)
T ss_pred EEEEeeccCC--CCHHHHHHHHHHH
Confidence 4788999999 9999999887643
No 358
>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=97.91 E-value=6.6e-05 Score=76.00 Aligned_cols=88 Identities=13% Similarity=0.131 Sum_probs=60.2
Q ss_pred HHHhhccCEEEEEEcCCCCCCCcCHHHHHHHh-CCCCEEEEEEcccCCCccchHHHHHHHHhhcCC------CCcEEEee
Q psy15351 9 EKHLKNVDIVIEVHDSRMPFTGRNHLLQQSVQ-NIRPMVLVLNKRDLINSKHESLIEEKVRKEQSH------ISEVIFTN 81 (352)
Q Consensus 9 ~~~i~~aD~vl~VvDar~p~~~~~~~l~~~l~-~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~------~~~v~~iS 81 (352)
.+.+..+|++++|+|+.++......+.....+ .+.|+++++||+|+.+.. .+...+.+.+.+.. ..+++.+|
T Consensus 153 ~rga~~aDiaILVVda~dgv~~qT~e~i~~~~~~~vPiIVviNKiDl~~~~-~e~v~~~L~~~g~~~~~~~~~~~~v~iS 231 (587)
T TIGR00487 153 ARGAKVTDIVVLVVAADDGVMPQTIEAISHAKAANVPIIVAINKIDKPEAN-PDRVKQELSEYGLVPEDWGGDTIFVPVS 231 (587)
T ss_pred HhhhccCCEEEEEEECCCCCCHhHHHHHHHHHHcCCCEEEEEECcccccCC-HHHHHHHHHHhhhhHHhcCCCceEEEEE
Confidence 35678899999999998776544433333333 578999999999996432 12233333332210 11488999
Q ss_pred cCCCCCCCHHHHHHHHHH
Q psy15351 82 CRNPNCKGVQKILPTLQH 99 (352)
Q Consensus 82 a~~~~~~gi~~L~~~i~~ 99 (352)
|+++ +|+.+|++++..
T Consensus 232 AktG--eGI~eLl~~I~~ 247 (587)
T TIGR00487 232 ALTG--DGIDELLDMILL 247 (587)
T ss_pred CCCC--CChHHHHHhhhh
Confidence 9999 999999998853
No 359
>PLN03126 Elongation factor Tu; Provisional
Probab=97.91 E-value=7.7e-05 Score=73.73 Aligned_cols=84 Identities=15% Similarity=0.035 Sum_probs=57.7
Q ss_pred hhHHHHHHHHhhccCEEEEEEcCCCCCCCcCHHHHHHHh-CCCC-EEEEEEcccCCCccch-----HHHHHHHHhhcCC-
Q psy15351 2 GRGLKDIEKHLKNVDIVIEVHDSRMPFTGRNHLLQQSVQ-NIRP-MVLVLNKRDLINSKHE-----SLIEEKVRKEQSH- 73 (352)
Q Consensus 2 ~~~~~~~~~~i~~aD~vl~VvDar~p~~~~~~~l~~~l~-~~k~-~ilVlNK~Dl~~~~~~-----~~~~~~~~~~~~~- 73 (352)
.+.++++...+..+|++++|+|+..+......+...++. .+.| +++++||+|+++.+.. ++..+++++.+++
T Consensus 155 ~~f~~~~~~g~~~aD~ailVVda~~G~~~qt~e~~~~~~~~gi~~iIvvvNK~Dl~~~~~~~~~i~~~i~~~l~~~g~~~ 234 (478)
T PLN03126 155 ADYVKNMITGAAQMDGAILVVSGADGPMPQTKEHILLAKQVGVPNMVVFLNKQDQVDDEELLELVELEVRELLSSYEFPG 234 (478)
T ss_pred HHHHHHHHHHHhhCCEEEEEEECCCCCcHHHHHHHHHHHHcCCCeEEEEEecccccCHHHHHHHHHHHHHHHHHhcCCCc
Confidence 356778888899999999999999876655544444444 5777 6788999999875432 1333444443332
Q ss_pred -CCcEEEeecCCC
Q psy15351 74 -ISEVIFTNCRNP 85 (352)
Q Consensus 74 -~~~v~~iSa~~~ 85 (352)
..+++++|+.++
T Consensus 235 ~~~~~vp~Sa~~g 247 (478)
T PLN03126 235 DDIPIISGSALLA 247 (478)
T ss_pred CcceEEEEEcccc
Confidence 235888998876
No 360
>PF08477 Miro: Miro-like protein; InterPro: IPR013684 Mitochondrial Rho proteins (Miro-1, Q8IXI2 from SWISSPROT and Miro-2, Q8IXI1 from SWISSPROT) are atypical Rho GTPases. They have a unique domain organisation, with tandem GTP-binding domains and two EF hand domains (IPR002048 from INTERPRO), that may bind calcium. They are also larger than classical small GTPases. It has been proposed that they are involved in mitochondrial homeostasis and apoptosis []. ; GO: 0005525 GTP binding, 0007264 small GTPase mediated signal transduction, 0005622 intracellular; PDB: 2IWR_A 2BMJ_A 3IHW_A 2ZEJ_A 3D6T_B 3DPU_A.
Probab=97.91 E-value=1.7e-05 Score=62.92 Aligned_cols=62 Identities=21% Similarity=0.236 Sum_probs=34.8
Q ss_pred EEEEeCCCCCChHHHHHHHhCCCCCCCCceecCCCCCceeEeeeeEEecCCCcEEEEeCCCCCC
Q psy15351 170 TVMVVGVPNVGKSSIINALRSSHMKKGKAVPVGPKAGVTRSVMSQVKISEKPLIYILDTPGISL 233 (352)
Q Consensus 170 ~v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~~~pg~T~~~~~~~~~~~~~~~~l~DtPGi~~ 233 (352)
+|.++|.+|||||||+++|.+.... .........+.+..............+.++|++|-..
T Consensus 1 kI~V~G~~g~GKTsLi~~l~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~g~~~ 62 (119)
T PF08477_consen 1 KIVVLGDSGVGKTSLIRRLCGGEFP--DNSVPEETSEITIGVDVIVVDGDRQSLQFWDFGGQEE 62 (119)
T ss_dssp EEEEECSTTSSHHHHHHHHHHSS----------SSTTSCEEEEEEEETTEEEEEEEEEESSSHC
T ss_pred CEEEECcCCCCHHHHHHHHhcCCCc--ccccccccCCCcEEEEEEEecCCceEEEEEecCccce
Confidence 5899999999999999999973211 0011223333333321111111122478999999843
No 361
>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=97.90 E-value=1.5e-05 Score=67.13 Aligned_cols=56 Identities=30% Similarity=0.425 Sum_probs=34.6
Q ss_pred EEEEeCCCCCChHHHHHHHhCCCCCCCCceecCCCCCceeEeee-eEEecCCC--cEEEEeCCCCCC
Q psy15351 170 TVMVVGVPNVGKSSIINALRSSHMKKGKAVPVGPKAGVTRSVMS-QVKISEKP--LIYILDTPGISL 233 (352)
Q Consensus 170 ~v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~~~pg~T~~~~~-~~~~~~~~--~~~l~DtPGi~~ 233 (352)
+|+++|.+|||||||++++... . ..+..+.++..... .... ++. .+.++||||...
T Consensus 1 ki~vvG~~~~GKtsli~~~~~~-----~--~~~~~~~t~~~~~~~~~~~-~~~~~~~~i~D~~g~~~ 59 (165)
T cd04146 1 KIAVLGASGVGKSALVVRFLTK-----R--FIGEYDPNLESLYSRQVTI-DGEQVSLEILDTAGQQQ 59 (165)
T ss_pred CEEEECCCCCcHHHHHHHHHhC-----c--cccccCCChHHhceEEEEE-CCEEEEEEEEECCCCcc
Confidence 4899999999999999999852 1 12223333321111 1222 222 467999999874
No 362
>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=97.90 E-value=3.7e-05 Score=67.91 Aligned_cols=58 Identities=24% Similarity=0.357 Sum_probs=35.8
Q ss_pred eEEEEeCCCCCChHHHHHHHhCCCCCCCCceecCCCCCceeEeee-eEEecCCC--cEEEEeCCCCC
Q psy15351 169 TTVMVVGVPNVGKSSIINALRSSHMKKGKAVPVGPKAGVTRSVMS-QVKISEKP--LIYILDTPGIS 232 (352)
Q Consensus 169 ~~v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~~~pg~T~~~~~-~~~~~~~~--~~~l~DtPGi~ 232 (352)
++|+++|.+|||||||+|++.+.. .... ..|.++.+... .+.+..+. .+.++||||..
T Consensus 3 ~KIvvvG~~~vGKTsLi~~l~~~~-----~~~~-~~~ti~~d~~~~~i~~~~~~~~~l~i~Dt~G~~ 63 (211)
T cd04111 3 FRLIVIGDSTVGKSSLLKRFTEGR-----FAEV-SDPTVGVDFFSRLIEIEPGVRIKLQLWDTAGQE 63 (211)
T ss_pred eEEEEECCCCCCHHHHHHHHHcCC-----CCCC-CCceeceEEEEEEEEECCCCEEEEEEEeCCcch
Confidence 789999999999999999999632 1111 11222222221 12222222 57899999954
No 363
>PLN03110 Rab GTPase; Provisional
Probab=97.90 E-value=2.9e-05 Score=68.81 Aligned_cols=61 Identities=23% Similarity=0.357 Sum_probs=37.3
Q ss_pred cceEEEEeCCCCCChHHHHHHHhCCCCCCCCceecCCCCCceeEeeeeEEecCC-CcEEEEeCCCCC
Q psy15351 167 YNTTVMVVGVPNVGKSSIINALRSSHMKKGKAVPVGPKAGVTRSVMSQVKISEK-PLIYILDTPGIS 232 (352)
Q Consensus 167 ~~~~v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~~~pg~T~~~~~~~~~~~~-~~~~l~DtPGi~ 232 (352)
..++|+++|.+|||||||++++.+.. ......+..|.+... ..+...+. -.+.++||||-.
T Consensus 11 ~~~Ki~ivG~~~vGKStLi~~l~~~~----~~~~~~~t~g~~~~~-~~v~~~~~~~~l~l~Dt~G~~ 72 (216)
T PLN03110 11 YLFKIVLIGDSGVGKSNILSRFTRNE----FCLESKSTIGVEFAT-RTLQVEGKTVKAQIWDTAGQE 72 (216)
T ss_pred ceeEEEEECCCCCCHHHHHHHHhcCC----CCCCCCCceeEEEEE-EEEEECCEEEEEEEEECCCcH
Confidence 45899999999999999999998631 111222333332211 12222221 157889999953
No 364
>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=97.90 E-value=3.1e-05 Score=65.06 Aligned_cols=55 Identities=22% Similarity=0.376 Sum_probs=34.3
Q ss_pred eEEEEeCCCCCChHHHHHHHhCCCCCCCCceecCCCCCceeEeeeeEEecCCCcEEEEeCCCCC
Q psy15351 169 TTVMVVGVPNVGKSSIINALRSSHMKKGKAVPVGPKAGVTRSVMSQVKISEKPLIYILDTPGIS 232 (352)
Q Consensus 169 ~~v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~~~pg~T~~~~~~~~~~~~~~~~l~DtPGi~ 232 (352)
++|+++|.+|||||||++++... ......++-|.... .+. ...-.+.++||||..
T Consensus 1 ~kv~~~G~~~~GKTsli~~l~~~-----~~~~~~pt~g~~~~---~~~-~~~~~~~l~D~~G~~ 55 (159)
T cd04150 1 MRILMVGLDAAGKTTILYKLKLG-----EIVTTIPTIGFNVE---TVE-YKNISFTVWDVGGQD 55 (159)
T ss_pred CEEEEECCCCCCHHHHHHHHhcC-----CCcccCCCCCcceE---EEE-ECCEEEEEEECCCCH
Confidence 47999999999999999999642 11111122222111 111 223468999999974
No 365
>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=97.89 E-value=3.1e-05 Score=65.69 Aligned_cols=22 Identities=27% Similarity=0.434 Sum_probs=20.4
Q ss_pred eEEEEeCCCCCChHHHHHHHhC
Q psy15351 169 TTVMVVGVPNVGKSSIINALRS 190 (352)
Q Consensus 169 ~~v~i~G~pnvGKStliN~l~~ 190 (352)
++|+++|.+|+|||||++++..
T Consensus 1 ~ki~i~G~~~~GKTsl~~~~~~ 22 (174)
T cd04135 1 LKCVVVGDGAVGKTCLLMSYAN 22 (174)
T ss_pred CEEEEECCCCCCHHHHHHHHHh
Confidence 4799999999999999999986
No 366
>PRK05306 infB translation initiation factor IF-2; Validated
Probab=97.89 E-value=7.1e-05 Score=77.84 Aligned_cols=88 Identities=11% Similarity=0.147 Sum_probs=60.0
Q ss_pred HHHhhccCEEEEEEcCCCCCCCcCHHHHHHHh-CCCCEEEEEEcccCCCccchHHHHHHHHhhcC------CCCcEEEee
Q psy15351 9 EKHLKNVDIVIEVHDSRMPFTGRNHLLQQSVQ-NIRPMVLVLNKRDLINSKHESLIEEKVRKEQS------HISEVIFTN 81 (352)
Q Consensus 9 ~~~i~~aD~vl~VvDar~p~~~~~~~l~~~l~-~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~------~~~~v~~iS 81 (352)
...+..+|++|+|+|++++......+...+.. .+.|+++++||+|+...+ .......+.+.+. ...+++++|
T Consensus 355 ~rga~~aDiaILVVdAddGv~~qT~e~i~~a~~~~vPiIVviNKiDl~~a~-~e~V~~eL~~~~~~~e~~g~~vp~vpvS 433 (787)
T PRK05306 355 ARGAQVTDIVVLVVAADDGVMPQTIEAINHAKAAGVPIIVAINKIDKPGAN-PDRVKQELSEYGLVPEEWGGDTIFVPVS 433 (787)
T ss_pred HhhhhhCCEEEEEEECCCCCCHhHHHHHHHHHhcCCcEEEEEECccccccC-HHHHHHHHHHhcccHHHhCCCceEEEEe
Confidence 35678899999999999876544434334443 678999999999996532 1222222222111 012489999
Q ss_pred cCCCCCCCHHHHHHHHHH
Q psy15351 82 CRNPNCKGVQKILPTLQH 99 (352)
Q Consensus 82 a~~~~~~gi~~L~~~i~~ 99 (352)
|+++ .|+++|+++|..
T Consensus 434 AktG--~GI~eLle~I~~ 449 (787)
T PRK05306 434 AKTG--EGIDELLEAILL 449 (787)
T ss_pred CCCC--CCchHHHHhhhh
Confidence 9999 999999998864
No 367
>KOG1191|consensus
Probab=97.89 E-value=2.8e-05 Score=74.80 Aligned_cols=98 Identities=19% Similarity=0.298 Sum_probs=69.1
Q ss_pred hHHHHHHHHhhccCEEEEEEcCCCCCCCcCHHHHHHHh-------C------CCCEEEEEEcccCCCccchHHH--HHHH
Q psy15351 3 RGLKDIEKHLKNVDIVIEVHDSRMPFTGRNHLLQQSVQ-------N------IRPMVLVLNKRDLINSKHESLI--EEKV 67 (352)
Q Consensus 3 ~~~~~~~~~i~~aD~vl~VvDar~p~~~~~~~l~~~l~-------~------~k~~ilVlNK~Dl~~~~~~~~~--~~~~ 67 (352)
-|++++++.+++||+|++|+|+....++.+-.+.+.+. . .+|.+++.||+|+.++-....| +.|.
T Consensus 337 ~gI~rA~k~~~~advi~~vvda~~~~t~sd~~i~~~l~~~~~g~~~~~~~~~~~~~i~~~nk~D~~s~~~~~~~~~~~~~ 416 (531)
T KOG1191|consen 337 LGIERARKRIERADVILLVVDAEESDTESDLKIARILETEGVGLVVIVNKMEKQRIILVANKSDLVSKIPEMTKIPVVYP 416 (531)
T ss_pred HhHHHHHHHHhhcCEEEEEecccccccccchHHHHHHHHhccceEEEeccccccceEEEechhhccCccccccCCceecc
Confidence 47899999999999999999997666666666555553 1 2788999999999977321222 2222
Q ss_pred HhhcCC-CCcEEEeecCCCCCCCHHHHHHHHHHHhh
Q psy15351 68 RKEQSH-ISEVIFTNCRNPNCKGVQKILPTLQHISD 102 (352)
Q Consensus 68 ~~~~~~-~~~v~~iSa~~~~~~gi~~L~~~i~~~~~ 102 (352)
...+.. +..+.++||.++ +|++.|...+.+.+.
T Consensus 417 ~~~~~~~~~i~~~vs~~tk--eg~~~L~~all~~~~ 450 (531)
T KOG1191|consen 417 SAEGRSVFPIVVEVSCTTK--EGCERLSTALLNIVE 450 (531)
T ss_pred ccccCcccceEEEeeechh--hhHHHHHHHHHHHHH
Confidence 222221 123455999999 999999998876554
No 368
>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=97.88 E-value=3.9e-05 Score=66.33 Aligned_cols=65 Identities=22% Similarity=0.295 Sum_probs=40.7
Q ss_pred ceEEEEeCCCCCChHHHHHHHhCCCCCCCC------------ceecCCCCCceeEeeeeEEe--cCCCcEEEEeCCCCC
Q psy15351 168 NTTVMVVGVPNVGKSSIINALRSSHMKKGK------------AVPVGPKAGVTRSVMSQVKI--SEKPLIYILDTPGIS 232 (352)
Q Consensus 168 ~~~v~i~G~pnvGKStliN~l~~~~~~~~~------------~~~~~~~pg~T~~~~~~~~~--~~~~~~~l~DtPGi~ 232 (352)
-.+|+++|..++|||||+++|......... ........|.|......... .....+.++||||..
T Consensus 3 ~~~I~i~G~~~sGKTTL~~~L~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~ti~~~~~~~~~~~~~~~i~~iDtPG~~ 81 (188)
T PF00009_consen 3 IRNIAIIGHVDSGKTTLLGALLGKAGAIDKRGIEETKNAFLDKHPEERERGITIDLSFISFEKNENNRKITLIDTPGHE 81 (188)
T ss_dssp EEEEEEEESTTSSHHHHHHHHHHHHTSSSSHHHHHHHHCHHHSSHHHHHCTSSSSSEEEEEEBTESSEEEEEEEESSSH
T ss_pred EEEEEEECCCCCCcEeechhhhhhccccccccccccccccccccchhhhcccccccccccccccccccceeeccccccc
Confidence 468999999999999999999853210000 00111234555554333333 445679999999963
No 369
>PRK09554 feoB ferrous iron transport protein B; Reviewed
Probab=97.88 E-value=7.9e-05 Score=77.73 Aligned_cols=84 Identities=18% Similarity=0.207 Sum_probs=60.1
Q ss_pred hhccCEEEEEEcCCCCCCCcCHHHH-HHHhCCCCEEEEEEcccCCCccchHHHHHHHHh-hcCCCCcEEEeecCCCCCCC
Q psy15351 12 LKNVDIVIEVHDSRMPFTGRNHLLQ-QSVQNIRPMVLVLNKRDLINSKHESLIEEKVRK-EQSHISEVIFTNCRNPNCKG 89 (352)
Q Consensus 12 i~~aD~vl~VvDar~p~~~~~~~l~-~~l~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~-~~~~~~~v~~iSa~~~~~~g 89 (352)
.+.+|+++.|+|+++. .++..+. +..+.++|+++|+||+|+..+.......+.+++ .+.+ ++.+||+++ +|
T Consensus 83 ~~~aD~vI~VvDat~l--er~l~l~~ql~e~giPvIvVlNK~Dl~~~~~i~id~~~L~~~LG~p---VvpiSA~~g--~G 155 (772)
T PRK09554 83 SGDADLLINVVDASNL--ERNLYLTLQLLELGIPCIVALNMLDIAEKQNIRIDIDALSARLGCP---VIPLVSTRG--RG 155 (772)
T ss_pred ccCCCEEEEEecCCcc--hhhHHHHHHHHHcCCCEEEEEEchhhhhccCcHHHHHHHHHHhCCC---EEEEEeecC--CC
Confidence 3589999999999863 2233333 222368999999999999755433333344433 4665 999999999 99
Q ss_pred HHHHHHHHHHHhh
Q psy15351 90 VQKILPTLQHISD 102 (352)
Q Consensus 90 i~~L~~~i~~~~~ 102 (352)
++++++.+.+..+
T Consensus 156 IdeL~~~I~~~~~ 168 (772)
T PRK09554 156 IEALKLAIDRHQA 168 (772)
T ss_pred HHHHHHHHHHhhh
Confidence 9999999887653
No 370
>PRK14845 translation initiation factor IF-2; Provisional
Probab=97.88 E-value=9.5e-05 Score=78.79 Aligned_cols=91 Identities=15% Similarity=0.173 Sum_probs=61.0
Q ss_pred HHhhccCEEEEEEcCCCCCCCcCHHHHHHHh-CCCCEEEEEEcccCCCccc------------------hHHH-------
Q psy15351 10 KHLKNVDIVIEVHDSRMPFTGRNHLLQQSVQ-NIRPMVLVLNKRDLINSKH------------------ESLI------- 63 (352)
Q Consensus 10 ~~i~~aD~vl~VvDar~p~~~~~~~l~~~l~-~~k~~ilVlNK~Dl~~~~~------------------~~~~------- 63 (352)
.....+|++++|+|+.+++.....+....++ .+.|+++|+||+|+.+... ..+.
T Consensus 545 ~g~~~aDivlLVVDa~~Gi~~qT~e~I~~lk~~~iPiIVViNKiDL~~~~~~~~~~~~~~~~~~q~~~~~~el~~~l~~v 624 (1049)
T PRK14845 545 RGGSLADLAVLVVDINEGFKPQTIEAINILRQYKTPFVVAANKIDLIPGWNISEDEPFLLNFNEQDQHALTELEIKLYEL 624 (1049)
T ss_pred hhcccCCEEEEEEECcccCCHhHHHHHHHHHHcCCCEEEEEECCCCccccccccchhhhhhhhhhHHHHHHHHHHHHHHH
Confidence 3567799999999999876555544444444 6789999999999975321 0011
Q ss_pred HHHHHhhcCC------------CCcEEEeecCCCCCCCHHHHHHHHHHHhh
Q psy15351 64 EEKVRKEQSH------------ISEVIFTNCRNPNCKGVQKILPTLQHISD 102 (352)
Q Consensus 64 ~~~~~~~~~~------------~~~v~~iSa~~~~~~gi~~L~~~i~~~~~ 102 (352)
...+.+.|+. ..+++++||++| +|+++|+.+|..+.+
T Consensus 625 ~~~L~~~G~~~e~~~~~~d~~~~v~iVpVSA~tG--eGId~Ll~~l~~l~~ 673 (1049)
T PRK14845 625 IGKLYELGFDADRFDRVQDFTRTVAIVPVSAKTG--EGIPELLMMVAGLAQ 673 (1049)
T ss_pred hhHHHhcCcchhhhhhhhhcCCCceEEEEEcCCC--CCHHHHHHHHHHhhH
Confidence 1112222221 126899999999 999999988865433
No 371
>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=97.86 E-value=1.6e-05 Score=65.16 Aligned_cols=21 Identities=29% Similarity=0.613 Sum_probs=20.0
Q ss_pred EEEEeCCCCCChHHHHHHHhC
Q psy15351 170 TVMVVGVPNVGKSSIINALRS 190 (352)
Q Consensus 170 ~v~i~G~pnvGKStliN~l~~ 190 (352)
+|+++|.||||||||+|++.+
T Consensus 2 kv~liG~~~vGKSsL~~~l~~ 22 (142)
T TIGR02528 2 RIMFIGSVGCGKTTLTQALQG 22 (142)
T ss_pred eEEEECCCCCCHHHHHHHHcC
Confidence 689999999999999999986
No 372
>PLN03110 Rab GTPase; Provisional
Probab=97.86 E-value=0.00011 Score=65.06 Aligned_cols=88 Identities=16% Similarity=0.033 Sum_probs=59.5
Q ss_pred HHHhhccCEEEEEEcCCCCCCCcCHHHHHHH---h----CCCCEEEEEEcccCCCccch-HHHHHHHH-hhcCCCCcEEE
Q psy15351 9 EKHLKNVDIVIEVHDSRMPFTGRNHLLQQSV---Q----NIRPMVLVLNKRDLINSKHE-SLIEEKVR-KEQSHISEVIF 79 (352)
Q Consensus 9 ~~~i~~aD~vl~VvDar~p~~~~~~~l~~~l---~----~~k~~ilVlNK~Dl~~~~~~-~~~~~~~~-~~~~~~~~v~~ 79 (352)
...+..+|.+|+|+|.+++.+.. .+..++ . .+.|+++|.||+|+...... .+....+. ..+. +++.
T Consensus 79 ~~~~~~~~~~ilv~d~~~~~s~~--~~~~~~~~~~~~~~~~~piiiv~nK~Dl~~~~~~~~~~~~~l~~~~~~---~~~e 153 (216)
T PLN03110 79 SAYYRGAVGALLVYDITKRQTFD--NVQRWLRELRDHADSNIVIMMAGNKSDLNHLRSVAEEDGQALAEKEGL---SFLE 153 (216)
T ss_pred HHHhCCCCEEEEEEECCChHHHH--HHHHHHHHHHHhCCCCCeEEEEEEChhcccccCCCHHHHHHHHHHcCC---EEEE
Confidence 34678999999999998764322 222222 1 36899999999999654321 22222332 2344 4999
Q ss_pred eecCCCCCCCHHHHHHHHHHHhhh
Q psy15351 80 TNCRNPNCKGVQKILPTLQHISDN 103 (352)
Q Consensus 80 iSa~~~~~~gi~~L~~~i~~~~~~ 103 (352)
+||+++ .|++++++.+.+.+..
T Consensus 154 ~SA~~g--~~v~~lf~~l~~~i~~ 175 (216)
T PLN03110 154 TSALEA--TNVEKAFQTILLEIYH 175 (216)
T ss_pred EeCCCC--CCHHHHHHHHHHHHHH
Confidence 999999 9999999988765543
No 373
>PRK10218 GTP-binding protein; Provisional
Probab=97.86 E-value=9.4e-05 Score=75.07 Aligned_cols=99 Identities=11% Similarity=0.049 Sum_probs=68.6
Q ss_pred HHHHHHHHhhccCEEEEEEcCCCCCCCcCHHHHHHHh-CCCCEEEEEEcccCCCcc---chHHHHHHHHhhcCC----CC
Q psy15351 4 GLKDIEKHLKNVDIVIEVHDSRMPFTGRNHLLQQSVQ-NIRPMVLVLNKRDLINSK---HESLIEEKVRKEQSH----IS 75 (352)
Q Consensus 4 ~~~~~~~~i~~aD~vl~VvDar~p~~~~~~~l~~~l~-~~k~~ilVlNK~Dl~~~~---~~~~~~~~~~~~~~~----~~ 75 (352)
....+...+..+|.+++|+|+..........+...+. .+.|.++++||+|+.... ..++..+.|...+.. -.
T Consensus 81 f~~~v~~~l~~aDg~ILVVDa~~G~~~qt~~~l~~a~~~gip~IVviNKiD~~~a~~~~vl~ei~~l~~~l~~~~~~~~~ 160 (607)
T PRK10218 81 FGGEVERVMSMVDSVLLVVDAFDGPMPQTRFVTKKAFAYGLKPIVVINKVDRPGARPDWVVDQVFDLFVNLDATDEQLDF 160 (607)
T ss_pred hHHHHHHHHHhCCEEEEEEecccCccHHHHHHHHHHHHcCCCEEEEEECcCCCCCchhHHHHHHHHHHhccCccccccCC
Confidence 3455677899999999999998765544444443333 678999999999986533 234445554331111 12
Q ss_pred cEEEeecCCCCCC----------CHHHHHHHHHHHhhhc
Q psy15351 76 EVIFTNCRNPNCK----------GVQKILPTLQHISDNM 104 (352)
Q Consensus 76 ~v~~iSa~~~~~~----------gi~~L~~~i~~~~~~~ 104 (352)
+++++||.++ . |+..|++.|.+.++..
T Consensus 161 PVi~~SA~~G--~~~~~~~~~~~~i~~Lld~Ii~~iP~P 197 (607)
T PRK10218 161 PIVYASALNG--IAGLDHEDMAEDMTPLYQAIVDHVPAP 197 (607)
T ss_pred CEEEeEhhcC--cccCCccccccchHHHHHHHHHhCCCC
Confidence 4899999999 6 6889999988888743
No 374
>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=97.86 E-value=3e-05 Score=65.70 Aligned_cols=57 Identities=23% Similarity=0.301 Sum_probs=33.0
Q ss_pred EEEeCCCCCChHHHHHHHhCCCCCCCCceecCCCCCceeEeeeeEEecCC-CcEEEEeCCCCCC
Q psy15351 171 VMVVGVPNVGKSSIINALRSSHMKKGKAVPVGPKAGVTRSVMSQVKISEK-PLIYILDTPGISL 233 (352)
Q Consensus 171 v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~~~pg~T~~~~~~~~~~~~-~~~~l~DtPGi~~ 233 (352)
|+++|.+|||||||++++.+... .....|.........+...+. -.+.++||||...
T Consensus 1 i~i~G~~~vGKTsli~~~~~~~~------~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~ 58 (174)
T smart00174 1 LVVVGDGAVGKTCLLISYTTNAF------PEDYVPTVFENYSADVEVDGKPVELGLWDTAGQED 58 (174)
T ss_pred CEEECCCCCCHHHHHHHHHhCCC------CCCCCCcEEeeeeEEEEECCEEEEEEEEECCCCcc
Confidence 57999999999999999986321 111112211111112222221 1478999999653
No 375
>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=97.86 E-value=3.3e-05 Score=65.67 Aligned_cols=57 Identities=26% Similarity=0.332 Sum_probs=34.3
Q ss_pred EEEEeCCCCCChHHHHHHHhCCCCCCCCceecCCCCCceeEee-eeEEecC-CCcEEEEeCCCCC
Q psy15351 170 TVMVVGVPNVGKSSIINALRSSHMKKGKAVPVGPKAGVTRSVM-SQVKISE-KPLIYILDTPGIS 232 (352)
Q Consensus 170 ~v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~~~pg~T~~~~-~~~~~~~-~~~~~l~DtPGi~ 232 (352)
+|+++|.+|||||||++++.+..... ...++.| .+.. ..+...+ ...+.++||||..
T Consensus 2 ki~ivG~~~vGKTsli~~~~~~~f~~----~~~~t~~--~~~~~~~~~~~~~~~~l~i~Dt~G~~ 60 (170)
T cd04108 2 KVIVVGDLSVGKTCLINRFCKDVFDK----NYKATIG--VDFEMERFEILGVPFSLQLWDTAGQE 60 (170)
T ss_pred EEEEECCCCCCHHHHHHHHhcCCCCC----CCCCcee--eEEEEEEEEECCEEEEEEEEeCCChH
Confidence 58999999999999999999632211 1112222 2221 1122221 1258899999964
No 376
>KOG0075|consensus
Probab=97.86 E-value=0.00018 Score=58.36 Aligned_cols=93 Identities=16% Similarity=0.174 Sum_probs=65.1
Q ss_pred HHHHHH-HhhccCEEEEEEcCCCCC--CCcCHHHHHHHh----CCCCEEEEEEcccCCCccchHHHHHHHHhhcCC---C
Q psy15351 5 LKDIEK-HLKNVDIVIEVHDSRMPF--TGRNHLLQQSVQ----NIRPMVLVLNKRDLINSKHESLIEEKVRKEQSH---I 74 (352)
Q Consensus 5 ~~~~~~-~i~~aD~vl~VvDar~p~--~~~~~~l~~~l~----~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~---~ 74 (352)
.+.+|+ ....++++++++||.+|- +..-.++..++. .+.|++++-||.|+.+.-...+..+.+ |.. -
T Consensus 78 frsmWerycR~v~aivY~VDaad~~k~~~sr~EL~~LL~k~~l~gip~LVLGnK~d~~~AL~~~~li~rm---gL~sitd 154 (186)
T KOG0075|consen 78 FRSMWERYCRGVSAIVYVVDAADPDKLEASRSELHDLLDKPSLTGIPLLVLGNKIDLPGALSKIALIERM---GLSSITD 154 (186)
T ss_pred HHHHHHHHhhcCcEEEEEeecCCcccchhhHHHHHHHhcchhhcCCcEEEecccccCcccccHHHHHHHh---Ccccccc
Confidence 345554 568899999999999863 222245555553 579999999999997654434444433 321 1
Q ss_pred C--cEEEeecCCCCCCCHHHHHHHHHHHhh
Q psy15351 75 S--EVIFTNCRNPNCKGVQKILPTLQHISD 102 (352)
Q Consensus 75 ~--~v~~iSa~~~~~~gi~~L~~~i~~~~~ 102 (352)
. .++.+||++. .+++.+++||.++..
T Consensus 155 REvcC~siScke~--~Nid~~~~Wli~hsk 182 (186)
T KOG0075|consen 155 REVCCFSISCKEK--VNIDITLDWLIEHSK 182 (186)
T ss_pred ceEEEEEEEEcCC--ccHHHHHHHHHHHhh
Confidence 1 3678999999 999999999987654
No 377
>PTZ00369 Ras-like protein; Provisional
Probab=97.85 E-value=3.5e-05 Score=66.62 Aligned_cols=60 Identities=30% Similarity=0.345 Sum_probs=36.1
Q ss_pred ceEEEEeCCCCCChHHHHHHHhCCCCCCCCceecCCCCCceeEeeeeEEecCC-CcEEEEeCCCCCC
Q psy15351 168 NTTVMVVGVPNVGKSSIINALRSSHMKKGKAVPVGPKAGVTRSVMSQVKISEK-PLIYILDTPGISL 233 (352)
Q Consensus 168 ~~~v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~~~pg~T~~~~~~~~~~~~-~~~~l~DtPGi~~ 233 (352)
.++|+++|.+|||||||++++.+... .....++.|.+.. ..+..... -.+.++||||...
T Consensus 5 ~~Ki~iiG~~~~GKTsLi~~~~~~~~----~~~~~~t~~~~~~--~~~~~~~~~~~l~i~Dt~G~~~ 65 (189)
T PTZ00369 5 EYKLVVVGGGGVGKSALTIQFIQNHF----IDEYDPTIEDSYR--KQCVIDEETCLLDILDTAGQEE 65 (189)
T ss_pred ceEEEEECCCCCCHHHHHHHHhcCCC----CcCcCCchhhEEE--EEEEECCEEEEEEEEeCCCCcc
Confidence 58999999999999999999986321 1112222222221 11112211 1367899999754
No 378
>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=97.85 E-value=0.00014 Score=65.22 Aligned_cols=88 Identities=11% Similarity=0.069 Sum_probs=59.2
Q ss_pred HHhhccCEEEEEEcCCCCCCCcC--HHHHHHHh---CCCCEEEEEEcccCCCc------------c--chHHHHHHHHhh
Q psy15351 10 KHLKNVDIVIEVHDSRMPFTGRN--HLLQQSVQ---NIRPMVLVLNKRDLINS------------K--HESLIEEKVRKE 70 (352)
Q Consensus 10 ~~i~~aD~vl~VvDar~p~~~~~--~~l~~~l~---~~k~~ilVlNK~Dl~~~------------~--~~~~~~~~~~~~ 70 (352)
.....+|++|+|.|..++.+..+ ..+...+. .+.|+++|.||+||... . ..++..++.++.
T Consensus 80 ~~~~~ad~vIlVyDit~~~Sf~~~~~~w~~~i~~~~~~~piilVgNK~DL~~~~~~~~~l~~~~~~~Vs~~e~~~~a~~~ 159 (232)
T cd04174 80 LCYSDSDAVLLCFDISRPETVDSALKKWKAEIMDYCPSTRILLIGCKTDLRTDLSTLMELSNQKQAPISYEQGCALAKQL 159 (232)
T ss_pred HHcCCCcEEEEEEECCChHHHHHHHHHHHHHHHHhCCCCCEEEEEECcccccccchhhhhccccCCcCCHHHHHHHHHHc
Confidence 36789999999999987654432 12222222 46799999999998531 1 123444444445
Q ss_pred cCCCCcEEEeecCCCCCC-CHHHHHHHHHHHh
Q psy15351 71 QSHISEVIFTNCRNPNCK-GVQKILPTLQHIS 101 (352)
Q Consensus 71 ~~~~~~v~~iSa~~~~~~-gi~~L~~~i~~~~ 101 (352)
+.. .++.+||+++ + |+++++..+....
T Consensus 160 ~~~--~~~EtSAktg--~~~V~e~F~~~~~~~ 187 (232)
T cd04174 160 GAE--VYLECSAFTS--EKSIHSIFRSASLLC 187 (232)
T ss_pred CCC--EEEEccCCcC--CcCHHHHHHHHHHHH
Confidence 542 3788999999 8 7999998876543
No 379
>PRK05506 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional
Probab=97.85 E-value=1.5e-05 Score=81.91 Aligned_cols=25 Identities=24% Similarity=0.236 Sum_probs=22.7
Q ss_pred CcceEEEEeCCCCCChHHHHHHHhC
Q psy15351 166 VYNTTVMVVGVPNVGKSSIINALRS 190 (352)
Q Consensus 166 ~~~~~v~i~G~pnvGKStliN~l~~ 190 (352)
+..++|+++|.+|+|||||+|+|+.
T Consensus 22 ~~~~~i~iiGh~~~GKSTL~~~Ll~ 46 (632)
T PRK05506 22 KSLLRFITCGSVDDGKSTLIGRLLY 46 (632)
T ss_pred CCeeEEEEECCCCCChHHHHHHHHH
Confidence 4568999999999999999999985
No 380
>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=97.85 E-value=0.00011 Score=62.25 Aligned_cols=86 Identities=22% Similarity=0.196 Sum_probs=55.0
Q ss_pred HHhhccCEEEEEEcCCCCCCCcCH-HHHHHHh-----CCCCEEEEEEcccCCCccch-HHHHHHH-HhhcCCCCcEEEee
Q psy15351 10 KHLKNVDIVIEVHDSRMPFTGRNH-LLQQSVQ-----NIRPMVLVLNKRDLINSKHE-SLIEEKV-RKEQSHISEVIFTN 81 (352)
Q Consensus 10 ~~i~~aD~vl~VvDar~p~~~~~~-~l~~~l~-----~~k~~ilVlNK~Dl~~~~~~-~~~~~~~-~~~~~~~~~v~~iS 81 (352)
..+.++|++++|+|+.++.+..+. .+...+. .+.|+++|.||+|+...... ....+.+ +..... ++.+|
T Consensus 71 ~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~---~~e~S 147 (170)
T cd04115 71 HYYRNVHAVVFVYDVTNMASFHSLPSWIEECEQHSLPNEVPRILVGNKCDLREQIQVPTDLAQRFADAHSMP---LFETS 147 (170)
T ss_pred HhhcCCCEEEEEEECCCHHHHHhHHHHHHHHHHhcCCCCCCEEEEEECccchhhcCCCHHHHHHHHHHcCCc---EEEEe
Confidence 456889999999999876433221 1211111 35799999999998754331 2222222 223343 88999
Q ss_pred cCC---CCCCCHHHHHHHHHHH
Q psy15351 82 CRN---PNCKGVQKILPTLQHI 100 (352)
Q Consensus 82 a~~---~~~~gi~~L~~~i~~~ 100 (352)
|++ + .++++++..+.+.
T Consensus 148 a~~~~~~--~~i~~~f~~l~~~ 167 (170)
T cd04115 148 AKDPSEN--DHVEAIFMTLAHK 167 (170)
T ss_pred ccCCcCC--CCHHHHHHHHHHH
Confidence 998 6 7888888776543
No 381
>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=97.85 E-value=3e-05 Score=68.98 Aligned_cols=22 Identities=41% Similarity=0.670 Sum_probs=20.2
Q ss_pred eEEEEeCCCCCChHHHHHHHhC
Q psy15351 169 TTVMVVGVPNVGKSSIINALRS 190 (352)
Q Consensus 169 ~~v~i~G~pnvGKStliN~l~~ 190 (352)
++|+++|.+|||||||++++..
T Consensus 1 ~KI~lvG~~gvGKTsLi~~~~~ 22 (221)
T cd04148 1 YRVVMLGSPGVGKSSLASQFTS 22 (221)
T ss_pred CEEEEECCCCCcHHHHHHHHhc
Confidence 4799999999999999999975
No 382
>cd04117 Rab15 Rab15 subfamily. Rab15 colocalizes with the transferrin receptor in early endosome compartments, but not with late endosomal markers. It codistributes with Rab4 and Rab5 on early/sorting endosomes, and with Rab11 on pericentriolar recycling endosomes. It is believed to function as an inhibitory GTPase that regulates distinct steps in early endocytic 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 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
Probab=97.84 E-value=0.00013 Score=61.30 Aligned_cols=84 Identities=11% Similarity=0.053 Sum_probs=56.5
Q ss_pred HHHhhccCEEEEEEcCCCCCCCcCHHHHHHHh-------CCCCEEEEEEcccCCCccch--HHHHHHHHhhcCCCCcEEE
Q psy15351 9 EKHLKNVDIVIEVHDSRMPFTGRNHLLQQSVQ-------NIRPMVLVLNKRDLINSKHE--SLIEEKVRKEQSHISEVIF 79 (352)
Q Consensus 9 ~~~i~~aD~vl~VvDar~p~~~~~~~l~~~l~-------~~k~~ilVlNK~Dl~~~~~~--~~~~~~~~~~~~~~~~v~~ 79 (352)
......+|++++|.|..++-+.. .+..++. ...|+++|.||+|+.....+ ++...+.+..+. +++.
T Consensus 67 ~~~~~~~~~~i~v~d~~~~~sf~--~~~~~~~~~~~~~~~~~~iilvgnK~Dl~~~~~v~~~~~~~~~~~~~~---~~~e 141 (161)
T cd04117 67 KQYYRRAQGIFLVYDISSERSYQ--HIMKWVSDVDEYAPEGVQKILIGNKADEEQKRQVGDEQGNKLAKEYGM---DFFE 141 (161)
T ss_pred HHHhcCCcEEEEEEECCCHHHHH--HHHHHHHHHHHhCCCCCeEEEEEECcccccccCCCHHHHHHHHHHcCC---EEEE
Confidence 34678899999999988753221 2222221 25789999999999754421 222222223344 4899
Q ss_pred eecCCCCCCCHHHHHHHHHH
Q psy15351 80 TNCRNPNCKGVQKILPTLQH 99 (352)
Q Consensus 80 iSa~~~~~~gi~~L~~~i~~ 99 (352)
+||+++ .|+++++.+|.+
T Consensus 142 ~Sa~~~--~~v~~~f~~l~~ 159 (161)
T cd04117 142 TSACTN--SNIKESFTRLTE 159 (161)
T ss_pred EeCCCC--CCHHHHHHHHHh
Confidence 999999 999999988864
No 383
>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=97.84 E-value=6.2e-05 Score=65.10 Aligned_cols=88 Identities=14% Similarity=0.129 Sum_probs=57.1
Q ss_pred HhhccCEEEEEEcCCCCCCCcCH--HHHHHHh---CCCCEEEEEEcccCCCccchH--------------HHHHHHHhhc
Q psy15351 11 HLKNVDIVIEVHDSRMPFTGRNH--LLQQSVQ---NIRPMVLVLNKRDLINSKHES--------------LIEEKVRKEQ 71 (352)
Q Consensus 11 ~i~~aD~vl~VvDar~p~~~~~~--~l~~~l~---~~k~~ilVlNK~Dl~~~~~~~--------------~~~~~~~~~~ 71 (352)
....+|++++|.|..++-+..+. .+...+. .+.|+++|.||+||....... +..+..++.+
T Consensus 68 ~~~~a~~~ilv~dv~~~~sf~~~~~~~~~~i~~~~~~~piilvgNK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~ 147 (189)
T cd04134 68 SYADTDVIMLCFSVDSPDSLENVESKWLGEIREHCPGVKLVLVALKCDLREARNERDDLQRYGKHTISYEEGLAVAKRIN 147 (189)
T ss_pred cccCCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCCEEEEEEChhhccChhhHHHHhhccCCCCCHHHHHHHHHHcC
Confidence 45789999999998876433221 1222222 468999999999997543211 1122222223
Q ss_pred CCCCcEEEeecCCCCCCCHHHHHHHHHHHhh
Q psy15351 72 SHISEVIFTNCRNPNCKGVQKILPTLQHISD 102 (352)
Q Consensus 72 ~~~~~v~~iSa~~~~~~gi~~L~~~i~~~~~ 102 (352)
. ..++.+||+++ .|+++++.++.+.+-
T Consensus 148 ~--~~~~e~SAk~~--~~v~e~f~~l~~~~~ 174 (189)
T cd04134 148 A--LRYLECSAKLN--RGVNEAFTEAARVAL 174 (189)
T ss_pred C--CEEEEccCCcC--CCHHHHHHHHHHHHh
Confidence 1 13889999999 999999998876543
No 384
>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=97.84 E-value=7e-05 Score=63.38 Aligned_cols=91 Identities=15% Similarity=0.068 Sum_probs=57.1
Q ss_pred HHHhhccCEEEEEEcCCCCCCCcC--HHHHHHHh----CCCCEEEEEEcccCCCccchHHHHHHHHhhcC----CC-CcE
Q psy15351 9 EKHLKNVDIVIEVHDSRMPFTGRN--HLLQQSVQ----NIRPMVLVLNKRDLINSKHESLIEEKVRKEQS----HI-SEV 77 (352)
Q Consensus 9 ~~~i~~aD~vl~VvDar~p~~~~~--~~l~~~l~----~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~----~~-~~v 77 (352)
...+..+|++++|+|+.++.+..+ ..+..+++ .++|+++|+||+|+.......+..+.+.-... .. -.+
T Consensus 61 ~~~~~~a~~ii~V~D~s~~~s~~~~~~~l~~l~~~~~~~~~piliv~NK~Dl~~~~~~~~i~~~~~l~~~~~~~~~~~~~ 140 (167)
T cd04161 61 VNYYAEAHGLVFVVDSSDDDRVQEVKEILRELLQHPRVSGKPILVLANKQDKKNALLGADVIEYLSLEKLVNENKSLCHI 140 (167)
T ss_pred HHHHcCCCEEEEEEECCchhHHHHHHHHHHHHHcCccccCCcEEEEEeCCCCcCCCCHHHHHHhcCcccccCCCCceEEE
Confidence 467899999999999987642211 12223332 36899999999999765544444443311111 00 135
Q ss_pred EEeecCCCCC----CCHHHHHHHHHH
Q psy15351 78 IFTNCRNPNC----KGVQKILPTLQH 99 (352)
Q Consensus 78 ~~iSa~~~~~----~gi~~L~~~i~~ 99 (352)
+.+||+++.+ .|+.+-++||.+
T Consensus 141 ~~~Sa~~g~~~~~~~g~~~~~~wl~~ 166 (167)
T cd04161 141 EPCSAIEGLGKKIDPSIVEGLRWLLA 166 (167)
T ss_pred EEeEceeCCCCccccCHHHHHHHHhc
Confidence 6689988521 679999988853
No 385
>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=97.84 E-value=7e-05 Score=64.00 Aligned_cols=86 Identities=14% Similarity=0.137 Sum_probs=55.8
Q ss_pred HHhhccCEEEEEEcCCCCCCCcCH--HHHHHHh---CCCCEEEEEEcccCCCccch--------------HHHHHHHHhh
Q psy15351 10 KHLKNVDIVIEVHDSRMPFTGRNH--LLQQSVQ---NIRPMVLVLNKRDLINSKHE--------------SLIEEKVRKE 70 (352)
Q Consensus 10 ~~i~~aD~vl~VvDar~p~~~~~~--~l~~~l~---~~k~~ilVlNK~Dl~~~~~~--------------~~~~~~~~~~ 70 (352)
..+..+|++++|.|..++.+..+. .+...+. .+.|+++|.||+|+.+.... ++..++.++.
T Consensus 68 ~~~~~a~~~ilv~d~~~~~s~~~~~~~w~~~i~~~~~~~piilvgnK~Dl~~~~~~~~~l~~~~~~~v~~~~~~~~a~~~ 147 (175)
T cd01874 68 LSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKTPFLLVGTQIDLRDDPSTIEKLAKNKQKPITPETGEKLARDL 147 (175)
T ss_pred hhcccCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCCEEEEEECHhhhhChhhHHHhhhccCCCcCHHHHHHHHHHh
Confidence 367799999999999876433221 1222222 46799999999998654211 1111122222
Q ss_pred cCCCCcEEEeecCCCCCCCHHHHHHHHHH
Q psy15351 71 QSHISEVIFTNCRNPNCKGVQKILPTLQH 99 (352)
Q Consensus 71 ~~~~~~v~~iSa~~~~~~gi~~L~~~i~~ 99 (352)
+.. .++.+||+++ .|++++++.+..
T Consensus 148 ~~~--~~~e~SA~tg--~~v~~~f~~~~~ 172 (175)
T cd01874 148 KAV--KYVECSALTQ--KGLKNVFDEAIL 172 (175)
T ss_pred CCc--EEEEecCCCC--CCHHHHHHHHHH
Confidence 311 4889999999 999999987754
No 386
>KOG1487|consensus
Probab=97.83 E-value=2.4e-05 Score=69.30 Aligned_cols=60 Identities=30% Similarity=0.346 Sum_probs=50.3
Q ss_pred eEEEEeCCCCCChHHHHHHHhCCCCCCCCceecCCCCCceeEeeeeEEecCCCcEEEEeCCCCCCC
Q psy15351 169 TTVMVVGVPNVGKSSIINALRSSHMKKGKAVPVGPKAGVTRSVMSQVKISEKPLIYILDTPGISLP 234 (352)
Q Consensus 169 ~~v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~~~pg~T~~~~~~~~~~~~~~~~l~DtPGi~~~ 234 (352)
-+|+++|+|.|||||++..|++ ....+...-|||-..+.++....+..+.+.|.||++..
T Consensus 60 a~vg~vgFPSvGksTl~~~l~g------~~s~vasyefttl~~vpG~~~y~gaKiqlldlpgiieg 119 (358)
T KOG1487|consen 60 ARVGFVGFPSVGKSTLLSKLTG------TFSEVAAYEFTTLTTVPGVIRYKGAKIQLLDLPGIIEG 119 (358)
T ss_pred eeeeEEecCccchhhhhhhhcC------CCCccccccceeEEEecceEeccccceeeecCcchhcc
Confidence 4899999999999999999985 45567777888777666666667788999999999975
No 387
>cd04117 Rab15 Rab15 subfamily. Rab15 colocalizes with the transferrin receptor in early endosome compartments, but not with late endosomal markers. It codistributes with Rab4 and Rab5 on early/sorting endosomes, and with Rab11 on pericentriolar recycling endosomes. It is believed to function as an inhibitory GTPase that regulates distinct steps in early endocytic 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 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
Probab=97.82 E-value=4e-05 Score=64.38 Aligned_cols=22 Identities=18% Similarity=0.484 Sum_probs=20.2
Q ss_pred eEEEEeCCCCCChHHHHHHHhC
Q psy15351 169 TTVMVVGVPNVGKSSIINALRS 190 (352)
Q Consensus 169 ~~v~i~G~pnvGKStliN~l~~ 190 (352)
++|+++|.+|||||||++.+..
T Consensus 1 ~ki~vvG~~~~GKTsli~~~~~ 22 (161)
T cd04117 1 FRLLLIGDSGVGKTCLLCRFTD 22 (161)
T ss_pred CEEEEECcCCCCHHHHHHHHhc
Confidence 3699999999999999999986
No 388
>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=97.82 E-value=5.1e-05 Score=64.77 Aligned_cols=58 Identities=19% Similarity=0.288 Sum_probs=36.3
Q ss_pred cceEEEEeCCCCCChHHHHHHHhCCCCCCCCceecCCCCCceeEeeeeEEecCCCcEEEEeCCCCCC
Q psy15351 167 YNTTVMVVGVPNVGKSSIINALRSSHMKKGKAVPVGPKAGVTRSVMSQVKISEKPLIYILDTPGISL 233 (352)
Q Consensus 167 ~~~~v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~~~pg~T~~~~~~~~~~~~~~~~l~DtPGi~~ 233 (352)
..++|+++|.+|||||||++.+... ..... .|.+..+.. .+. ...-.+.++||||...
T Consensus 12 ~~~ki~l~G~~~~GKTsL~~~~~~~-----~~~~~--~~t~~~~~~-~~~-~~~~~l~l~D~~G~~~ 69 (175)
T smart00177 12 KEMRILMVGLDAAGKTTILYKLKLG-----ESVTT--IPTIGFNVE-TVT-YKNISFTVWDVGGQDK 69 (175)
T ss_pred CccEEEEEcCCCCCHHHHHHHHhcC-----CCCCc--CCccccceE-EEE-ECCEEEEEEECCCChh
Confidence 3589999999999999999999641 11111 222211111 121 2334688999999643
No 389
>COG3276 SelB Selenocysteine-specific translation elongation factor [Translation, ribosomal structure and biogenesis]
Probab=97.82 E-value=0.00017 Score=68.73 Aligned_cols=99 Identities=11% Similarity=0.166 Sum_probs=73.0
Q ss_pred hhHHHHHHHHhhccCEEEEEEcCCCCCCCcCHHHHHHHh--CCCCEEEEEEcccCCCccchHHHHHHHHhh-cCCCCcEE
Q psy15351 2 GRGLKDIEKHLKNVDIVIEVHDSRMPFTGRNHLLQQSVQ--NIRPMVLVLNKRDLINSKHESLIEEKVRKE-QSHISEVI 78 (352)
Q Consensus 2 ~~~~~~~~~~i~~aD~vl~VvDar~p~~~~~~~l~~~l~--~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~-~~~~~~v~ 78 (352)
.+.+..+...+..+|..++|||+.+.+....-+....+. ..+..++|+||+|.+++...++..+.+.+. .+.-.+++
T Consensus 61 ~~~i~~miag~~~~d~alLvV~~deGl~~qtgEhL~iLdllgi~~giivltk~D~~d~~r~e~~i~~Il~~l~l~~~~i~ 140 (447)
T COG3276 61 PDFISNLLAGLGGIDYALLVVAADEGLMAQTGEHLLILDLLGIKNGIIVLTKADRVDEARIEQKIKQILADLSLANAKIF 140 (447)
T ss_pred HHHHHHHHhhhcCCceEEEEEeCccCcchhhHHHHHHHHhcCCCceEEEEeccccccHHHHHHHHHHHHhhccccccccc
Confidence 356777888889999999999998887766554444444 445569999999999876554444433221 12223589
Q ss_pred EeecCCCCCCCHHHHHHHHHHHhh
Q psy15351 79 FTNCRNPNCKGVQKILPTLQHISD 102 (352)
Q Consensus 79 ~iSa~~~~~~gi~~L~~~i~~~~~ 102 (352)
.+|+.++ +|+++|.+.|.++..
T Consensus 141 ~~s~~~g--~GI~~Lk~~l~~L~~ 162 (447)
T COG3276 141 KTSAKTG--RGIEELKNELIDLLE 162 (447)
T ss_pred ccccccC--CCHHHHHHHHHHhhh
Confidence 9999999 999999999998873
No 390
>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=97.82 E-value=9.4e-05 Score=62.66 Aligned_cols=85 Identities=13% Similarity=0.102 Sum_probs=55.4
Q ss_pred HhhccCEEEEEEcCCCCCCCcCH--HHHHHHh---CCCCEEEEEEcccCCCccc--------------hHHHHHHHHhhc
Q psy15351 11 HLKNVDIVIEVHDSRMPFTGRNH--LLQQSVQ---NIRPMVLVLNKRDLINSKH--------------ESLIEEKVRKEQ 71 (352)
Q Consensus 11 ~i~~aD~vl~VvDar~p~~~~~~--~l~~~l~---~~k~~ilVlNK~Dl~~~~~--------------~~~~~~~~~~~~ 71 (352)
....+|++++|+|..++-+..+. .+...+. .+.|+++|.||+|+.+... .++..++.++.+
T Consensus 68 ~~~~~~~~ilv~~~~~~~s~~~~~~~~~~~l~~~~~~~piivv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~ 147 (174)
T cd04135 68 SYPMTDVFLICFSVVNPASFQNVKEEWVPELKEYAPNVPYLLVGTQIDLRDDPKTLARLNDMKEKPVTVEQGQKLAKEIG 147 (174)
T ss_pred cCCCCCEEEEEEECCCHHHHHHHHHHHHHHHHhhCCCCCEEEEeEchhhhcChhhHHHHhhccCCCCCHHHHHHHHHHcC
Confidence 45788999999999876432211 1222222 5789999999999865421 111222223334
Q ss_pred CCCCcEEEeecCCCCCCCHHHHHHHHHH
Q psy15351 72 SHISEVIFTNCRNPNCKGVQKILPTLQH 99 (352)
Q Consensus 72 ~~~~~v~~iSa~~~~~~gi~~L~~~i~~ 99 (352)
.. +++.+||+++ .|++++++.+.+
T Consensus 148 ~~--~~~e~Sa~~~--~gi~~~f~~~~~ 171 (174)
T cd04135 148 AH--CYVECSALTQ--KGLKTVFDEAIL 171 (174)
T ss_pred CC--EEEEecCCcC--CCHHHHHHHHHH
Confidence 32 5889999999 999999987754
No 391
>PRK12736 elongation factor Tu; Reviewed
Probab=97.81 E-value=3.9e-05 Score=74.28 Aligned_cols=68 Identities=19% Similarity=0.277 Sum_probs=46.0
Q ss_pred cCcceEEEEeCCCCCChHHHHHHHhCCCCCCC-Cce---------ecCCCCCceeEeeeeEEecCCCcEEEEeCCCCC
Q psy15351 165 EVYNTTVMVVGVPNVGKSSIINALRSSHMKKG-KAV---------PVGPKAGVTRSVMSQVKISEKPLIYILDTPGIS 232 (352)
Q Consensus 165 ~~~~~~v~i~G~pnvGKStliN~l~~~~~~~~-~~~---------~~~~~pg~T~~~~~~~~~~~~~~~~l~DtPGi~ 232 (352)
.++.++|+++|.+++|||||+++|++...... ... ......|+|.+.........+.++.|+||||..
T Consensus 9 ~k~~~ni~i~Ghvd~GKSTL~~~L~~~~~~~g~~~~~~~~~~d~~~~E~~rg~T~~~~~~~~~~~~~~i~~iDtPGh~ 86 (394)
T PRK12736 9 SKPHVNIGTIGHVDHGKTTLTAAITKVLAERGLNQAKDYDSIDAAPEEKERGITINTAHVEYETEKRHYAHVDCPGHA 86 (394)
T ss_pred CCCeeEEEEEccCCCcHHHHHHHHHhhhhhhccccccchhhhcCCHHHHhcCccEEEEeeEecCCCcEEEEEECCCHH
Confidence 45679999999999999999999986311000 011 111267899887543333345578999999953
No 392
>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=97.81 E-value=9.3e-05 Score=62.74 Aligned_cols=86 Identities=19% Similarity=0.260 Sum_probs=54.5
Q ss_pred HhhccCEEEEEEcCCCCCCCcC--HHHHHHHh---CCCCEEEEEEcccCCCccchH--------------HHHHHHHhhc
Q psy15351 11 HLKNVDIVIEVHDSRMPFTGRN--HLLQQSVQ---NIRPMVLVLNKRDLINSKHES--------------LIEEKVRKEQ 71 (352)
Q Consensus 11 ~i~~aD~vl~VvDar~p~~~~~--~~l~~~l~---~~k~~ilVlNK~Dl~~~~~~~--------------~~~~~~~~~~ 71 (352)
.+.++|++++|.|..++-+..+ ..+...++ .+.|+++|.||+|+.+..... +..+..+..+
T Consensus 69 ~~~~~d~~i~v~~~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~i~~~~~~~v~~~~~~~~~~~~~ 148 (175)
T cd01870 69 SYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFCPNVPIILVGNKKDLRNDEHTRRELAKMKQEPVKPEEGRDMANKIG 148 (175)
T ss_pred ccCCCCEEEEEEECCCHHHHHHHHHHHHHHHHhhCCCCCEEEEeeChhcccChhhhhhhhhccCCCccHHHHHHHHHHcC
Confidence 5678999999999876532111 11112122 478999999999987543211 1111111222
Q ss_pred CCCCcEEEeecCCCCCCCHHHHHHHHHHH
Q psy15351 72 SHISEVIFTNCRNPNCKGVQKILPTLQHI 100 (352)
Q Consensus 72 ~~~~~v~~iSa~~~~~~gi~~L~~~i~~~ 100 (352)
.. +++.+||+++ .|+++++++|.+.
T Consensus 149 ~~--~~~~~Sa~~~--~~v~~lf~~l~~~ 173 (175)
T cd01870 149 AF--GYMECSAKTK--EGVREVFEMATRA 173 (175)
T ss_pred Cc--EEEEeccccC--cCHHHHHHHHHHH
Confidence 22 5899999999 9999999988653
No 393
>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=97.81 E-value=3.9e-05 Score=77.80 Aligned_cols=60 Identities=20% Similarity=0.248 Sum_probs=41.6
Q ss_pred eEEEEeCCCCCChHHHHHHHhCCCCCCCCceecCCCCCceeEeeeeEEecCCCcEEEEeCCCC
Q psy15351 169 TTVMVVGVPNVGKSSIINALRSSHMKKGKAVPVGPKAGVTRSVMSQVKISEKPLIYILDTPGI 231 (352)
Q Consensus 169 ~~v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~~~pg~T~~~~~~~~~~~~~~~~l~DtPGi 231 (352)
+.|+++|.+|+|||||+|+|++... ........+|+|.+.........+..+.++||||.
T Consensus 1 ~~I~iiG~~d~GKTTLi~aLtg~~~---d~~~eE~~rGiTid~~~~~~~~~~~~v~~iDtPGh 60 (581)
T TIGR00475 1 MIIATAGHVDHGKTTLLKALTGIAA---DRLPEEKKRGMTIDLGFAYFPLPDYRLGFIDVPGH 60 (581)
T ss_pred CEEEEECCCCCCHHHHHHHHhCccC---cCChhHhcCCceEEeEEEEEEeCCEEEEEEECCCH
Confidence 4689999999999999999996321 11112235788887654333333457899999995
No 394
>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=97.80 E-value=5.4e-05 Score=64.47 Aligned_cols=23 Identities=26% Similarity=0.452 Sum_probs=21.1
Q ss_pred ceEEEEeCCCCCChHHHHHHHhC
Q psy15351 168 NTTVMVVGVPNVGKSSIINALRS 190 (352)
Q Consensus 168 ~~~v~i~G~pnvGKStliN~l~~ 190 (352)
.++|+++|.+|||||||++++..
T Consensus 2 ~~ki~vvG~~~vGKTsL~~~~~~ 24 (172)
T cd04141 2 EYKIVMLGAGGVGKSAVTMQFIS 24 (172)
T ss_pred ceEEEEECCCCCcHHHHHHHHHh
Confidence 36899999999999999999986
No 395
>PLN00223 ADP-ribosylation factor; Provisional
Probab=97.80 E-value=5.9e-05 Score=64.87 Aligned_cols=56 Identities=21% Similarity=0.360 Sum_probs=36.7
Q ss_pred cceEEEEeCCCCCChHHHHHHHhCCCCCCCCceecCCCCCceeEeeeeEEecCCCcEEEEeCCCC
Q psy15351 167 YNTTVMVVGVPNVGKSSIINALRSSHMKKGKAVPVGPKAGVTRSVMSQVKISEKPLIYILDTPGI 231 (352)
Q Consensus 167 ~~~~v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~~~pg~T~~~~~~~~~~~~~~~~l~DtPGi 231 (352)
..++|+++|.+|||||||++++... ......++.|.+.. .+. ..+-.+.++||||-
T Consensus 16 ~~~ki~ivG~~~~GKTsl~~~l~~~-----~~~~~~pt~g~~~~---~~~-~~~~~~~i~D~~Gq 71 (181)
T PLN00223 16 KEMRILMVGLDAAGKTTILYKLKLG-----EIVTTIPTIGFNVE---TVE-YKNISFTVWDVGGQ 71 (181)
T ss_pred CccEEEEECCCCCCHHHHHHHHccC-----CCccccCCcceeEE---EEE-ECCEEEEEEECCCC
Confidence 4579999999999999999999752 22222333333221 121 22346899999995
No 396
>PLN03108 Rab family protein; Provisional
Probab=97.80 E-value=4.7e-05 Score=67.14 Aligned_cols=60 Identities=22% Similarity=0.273 Sum_probs=36.2
Q ss_pred ceEEEEeCCCCCChHHHHHHHhCCCCCCCCceecCCCCCceeEeeeeEEecCC-CcEEEEeCCCCC
Q psy15351 168 NTTVMVVGVPNVGKSSIINALRSSHMKKGKAVPVGPKAGVTRSVMSQVKISEK-PLIYILDTPGIS 232 (352)
Q Consensus 168 ~~~v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~~~pg~T~~~~~~~~~~~~-~~~~l~DtPGi~ 232 (352)
.++|+++|.+|||||||+|++.+... .....+..|.+.... .+.+.+. -.+.++||||..
T Consensus 6 ~~kivivG~~gvGKStLi~~l~~~~~----~~~~~~ti~~~~~~~-~i~~~~~~i~l~l~Dt~G~~ 66 (210)
T PLN03108 6 LFKYIIIGDTGVGKSCLLLQFTDKRF----QPVHDLTIGVEFGAR-MITIDNKPIKLQIWDTAGQE 66 (210)
T ss_pred ceEEEEECCCCCCHHHHHHHHHhCCC----CCCCCCCccceEEEE-EEEECCEEEEEEEEeCCCcH
Confidence 48899999999999999999986321 111122233332211 1222211 147799999964
No 397
>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=97.80 E-value=5e-05 Score=64.42 Aligned_cols=22 Identities=18% Similarity=0.427 Sum_probs=20.5
Q ss_pred eEEEEeCCCCCChHHHHHHHhC
Q psy15351 169 TTVMVVGVPNVGKSSIINALRS 190 (352)
Q Consensus 169 ~~v~i~G~pnvGKStliN~l~~ 190 (352)
.+|+++|.+|||||||++++.+
T Consensus 2 ~ki~iiG~~~~GKTsl~~~~~~ 23 (175)
T cd01870 2 KKLVIVGDGACGKTCLLIVFSK 23 (175)
T ss_pred cEEEEECCCCCCHHHHHHHHhc
Confidence 4799999999999999999986
No 398
>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=97.79 E-value=4.2e-05 Score=74.07 Aligned_cols=67 Identities=21% Similarity=0.265 Sum_probs=44.8
Q ss_pred CcceEEEEeCCCCCChHHHHHHHhCCCCC-CCCce---------ecCCCCCceeEeeeeEEecCCCcEEEEeCCCCC
Q psy15351 166 VYNTTVMVVGVPNVGKSSIINALRSSHMK-KGKAV---------PVGPKAGVTRSVMSQVKISEKPLIYILDTPGIS 232 (352)
Q Consensus 166 ~~~~~v~i~G~pnvGKStliN~l~~~~~~-~~~~~---------~~~~~pg~T~~~~~~~~~~~~~~~~l~DtPGi~ 232 (352)
.+.++|+++|.+++|||||+++|++.-.. .+... ......|+|.+.........+.++.|+||||..
T Consensus 10 ~~~~~i~i~Ghvd~GKStL~~~L~~~~~~~g~~~~~~~~~~d~~~~E~~rG~Ti~~~~~~~~~~~~~~~liDtpGh~ 86 (394)
T TIGR00485 10 KPHVNIGTIGHVDHGKTTLTAAITTVLAKEGGAAARAYDQIDNAPEEKARGITINTAHVEYETENRHYAHVDCPGHA 86 (394)
T ss_pred CceEEEEEEeecCCCHHHHHHHHHhhHHHhhcccccccccccCCHHHHhcCcceeeEEEEEcCCCEEEEEEECCchH
Confidence 56799999999999999999999742000 00001 112248899887543332334568999999975
No 399
>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=97.79 E-value=9.7e-05 Score=63.66 Aligned_cols=86 Identities=17% Similarity=0.096 Sum_probs=57.1
Q ss_pred HHhhccCEEEEEEcCCCCCCCcC--HHHHHHHh---CCCCEEEEEEcccCCCc--------------cchHHHHHHHHhh
Q psy15351 10 KHLKNVDIVIEVHDSRMPFTGRN--HLLQQSVQ---NIRPMVLVLNKRDLINS--------------KHESLIEEKVRKE 70 (352)
Q Consensus 10 ~~i~~aD~vl~VvDar~p~~~~~--~~l~~~l~---~~k~~ilVlNK~Dl~~~--------------~~~~~~~~~~~~~ 70 (352)
.....+|++|+|.|..++.+..+ ..+.+.++ ...|+++|.||+||.+. -..++..++.++.
T Consensus 72 ~~~~~ad~~ilvyDit~~~Sf~~~~~~w~~~i~~~~~~~piilVgNK~DL~~~~~~~~~~~~~~~~~v~~~~~~~~a~~~ 151 (182)
T cd04172 72 LSYPDSDAVLICFDISRPETLDSVLKKWKGEIQEFCPNTKMLLVGCKSDLRTDLTTLVELSNHRQTPVSYDQGANMAKQI 151 (182)
T ss_pred hhcCCCCEEEEEEECCCHHHHHHHHHHHHHHHHHHCCCCCEEEEeEChhhhcChhhHHHHHhcCCCCCCHHHHHHHHHHc
Confidence 35688999999999987744322 12222222 46899999999998541 1123334444444
Q ss_pred cCCCCcEEEeecCCCCCCC-HHHHHHHHHH
Q psy15351 71 QSHISEVIFTNCRNPNCKG-VQKILPTLQH 99 (352)
Q Consensus 71 ~~~~~~v~~iSa~~~~~~g-i~~L~~~i~~ 99 (352)
+.. +++.+||+++ .| +++++..+.+
T Consensus 152 ~~~--~~~E~SAk~~--~n~v~~~F~~~~~ 177 (182)
T cd04172 152 GAA--TYIECSALQS--ENSVRDIFHVATL 177 (182)
T ss_pred CCC--EEEECCcCCC--CCCHHHHHHHHHH
Confidence 531 3889999999 98 9999887654
No 400
>CHL00189 infB translation initiation factor 2; Provisional
Probab=97.78 E-value=4e-05 Score=78.99 Aligned_cols=61 Identities=25% Similarity=0.453 Sum_probs=42.4
Q ss_pred CcceEEEEeCCCCCChHHHHHHHhCCCCCCCCceecCCCCCceeEeeee-EEec---CCCcEEEEeCCCCC
Q psy15351 166 VYNTTVMVVGVPNVGKSSIINALRSSHMKKGKAVPVGPKAGVTRSVMSQ-VKIS---EKPLIYILDTPGIS 232 (352)
Q Consensus 166 ~~~~~v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~~~pg~T~~~~~~-~~~~---~~~~~~l~DtPGi~ 232 (352)
++...|+++|.+|+|||||+++|+.. ....+..+|.|.+.... +.+. .+..+.|+||||..
T Consensus 242 ~r~p~V~IvGhvdvGKTSLld~L~~~------~~~~~e~~GiTq~i~~~~v~~~~~~~~~kItfiDTPGhe 306 (742)
T CHL00189 242 NRPPIVTILGHVDHGKTTLLDKIRKT------QIAQKEAGGITQKIGAYEVEFEYKDENQKIVFLDTPGHE 306 (742)
T ss_pred ccCCEEEEECCCCCCHHHHHHHHHhc------cCccccCCccccccceEEEEEEecCCceEEEEEECCcHH
Confidence 46789999999999999999999852 22334456777654321 1111 23579999999963
No 401
>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=97.77 E-value=0.00011 Score=63.82 Aligned_cols=87 Identities=16% Similarity=0.162 Sum_probs=56.8
Q ss_pred HhhccCEEEEEEcCCCCCCCcCH--HHHHHHh---CCCCEEEEEEcccCCCccc--------------hHHHHHHHHhhc
Q psy15351 11 HLKNVDIVIEVHDSRMPFTGRNH--LLQQSVQ---NIRPMVLVLNKRDLINSKH--------------ESLIEEKVRKEQ 71 (352)
Q Consensus 11 ~i~~aD~vl~VvDar~p~~~~~~--~l~~~l~---~~k~~ilVlNK~Dl~~~~~--------------~~~~~~~~~~~~ 71 (352)
....+|++|+|.|..++.+..+- .+...+. .+.|+++|.||.||.+... ..+..++.++.+
T Consensus 71 ~~~~a~~~ilvydit~~~Sf~~~~~~w~~~i~~~~~~~piilvgNK~DL~~~~~~~~~~~~~~~~~v~~~~~~~~a~~~~ 150 (191)
T cd01875 71 SYPQTNVFIICFSIASPSSYENVRHKWHPEVCHHCPNVPILLVGTKKDLRNDADTLKKLKEQGQAPITPQQGGALAKQIH 150 (191)
T ss_pred hccCCCEEEEEEECCCHHHHHHHHHHHHHHHHhhCCCCCEEEEEeChhhhcChhhHHHHhhccCCCCCHHHHHHHHHHcC
Confidence 56789999999999876543221 1222121 4689999999999964321 011122222233
Q ss_pred CCCCcEEEeecCCCCCCCHHHHHHHHHHHh
Q psy15351 72 SHISEVIFTNCRNPNCKGVQKILPTLQHIS 101 (352)
Q Consensus 72 ~~~~~v~~iSa~~~~~~gi~~L~~~i~~~~ 101 (352)
.. +++.+||+++ .|+++++.++.+.+
T Consensus 151 ~~--~~~e~SAk~g--~~v~e~f~~l~~~~ 176 (191)
T cd01875 151 AV--KYLECSALNQ--DGVKEVFAEAVRAV 176 (191)
T ss_pred Cc--EEEEeCCCCC--CCHHHHHHHHHHHH
Confidence 21 4889999999 99999999887654
No 402
>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=97.76 E-value=0.00027 Score=63.54 Aligned_cols=54 Identities=19% Similarity=0.223 Sum_probs=41.6
Q ss_pred HHHHHHHHhhccCEEEEEEcCCCCCCCcCHHHHHHHh-CCCCEEEEEEcccCCCc
Q psy15351 4 GLKDIEKHLKNVDIVIEVHDSRMPFTGRNHLLQQSVQ-NIRPMVLVLNKRDLINS 57 (352)
Q Consensus 4 ~~~~~~~~i~~aD~vl~VvDar~p~~~~~~~l~~~l~-~~k~~ilVlNK~Dl~~~ 57 (352)
....+...+..+|.+++|+|+..+.......+.+++. .+.|+++++||+|+...
T Consensus 77 f~~~~~~~l~~aD~~IlVvd~~~g~~~~~~~~~~~~~~~~~P~iivvNK~D~~~a 131 (237)
T cd04168 77 FIAEVERSLSVLDGAILVISAVEGVQAQTRILWRLLRKLNIPTIIFVNKIDRAGA 131 (237)
T ss_pred hHHHHHHHHHHhCeEEEEEeCCCCCCHHHHHHHHHHHHcCCCEEEEEECccccCC
Confidence 3456778899999999999999876544444445444 68999999999998753
No 403
>COG2895 CysN GTPases - Sulfate adenylate transferase subunit 1 [Inorganic ion transport and metabolism]
Probab=97.76 E-value=5.9e-05 Score=69.77 Aligned_cols=83 Identities=18% Similarity=0.186 Sum_probs=58.0
Q ss_pred HHHHHHhhccCEEEEEEcCCCCCCC---cCHHHHHHHhCCCCEEEEEEcccCCCccc--hHHH----HHHHHhhcCCCCc
Q psy15351 6 KDIEKHLKNVDIVIEVHDSRMPFTG---RNHLLQQSVQNIRPMVLVLNKRDLINSKH--ESLI----EEKVRKEQSHISE 76 (352)
Q Consensus 6 ~~~~~~i~~aD~vl~VvDar~p~~~---~~~~l~~~l~~~k~~ilVlNK~Dl~~~~~--~~~~----~~~~~~~~~~~~~ 76 (352)
|.|-.-++.||+.|+++|||..+.. +...+..++ .-+.+++.+||+||++-++ .+++ ..+..+.+.....
T Consensus 101 RNMaTGASTadlAIlLVDAR~Gvl~QTrRHs~I~sLL-GIrhvvvAVNKmDLvdy~e~~F~~I~~dy~~fa~~L~~~~~~ 179 (431)
T COG2895 101 RNMATGASTADLAILLVDARKGVLEQTRRHSFIASLL-GIRHVVVAVNKMDLVDYSEEVFEAIVADYLAFAAQLGLKDVR 179 (431)
T ss_pred hhhhcccccccEEEEEEecchhhHHHhHHHHHHHHHh-CCcEEEEEEeeecccccCHHHHHHHHHHHHHHHHHcCCCcce
Confidence 4555667889999999999987644 334555555 6678899999999998654 2333 3333344555446
Q ss_pred EEEeecCCCCCCCHH
Q psy15351 77 VIFTNCRNPNCKGVQ 91 (352)
Q Consensus 77 v~~iSa~~~~~~gi~ 91 (352)
++++||..| .|+-
T Consensus 180 ~IPiSAl~G--DNV~ 192 (431)
T COG2895 180 FIPISALLG--DNVV 192 (431)
T ss_pred EEechhccC--Cccc
Confidence 889999998 6643
No 404
>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=97.75 E-value=0.00029 Score=63.81 Aligned_cols=87 Identities=16% Similarity=0.171 Sum_probs=57.8
Q ss_pred HhhccCEEEEEEcCCCCCCCcC--HHHHHHHh------------CCCCEEEEEEcccCCCcc--chHHHHHHHHhh-cCC
Q psy15351 11 HLKNVDIVIEVHDSRMPFTGRN--HLLQQSVQ------------NIRPMVLVLNKRDLINSK--HESLIEEKVRKE-QSH 73 (352)
Q Consensus 11 ~i~~aD~vl~VvDar~p~~~~~--~~l~~~l~------------~~k~~ilVlNK~Dl~~~~--~~~~~~~~~~~~-~~~ 73 (352)
.+..+|++|+|.|..++.+..+ ..+.++.. .+.|+++|.||+|+.... ..++..+++... +.
T Consensus 68 ~~~~ad~iIlVfdv~~~~Sf~~i~~~~~~I~~~k~~~~~~~~~~~~~piIivgNK~Dl~~~~~v~~~ei~~~~~~~~~~- 146 (247)
T cd04143 68 SILTGDVFILVFSLDNRESFEEVCRLREQILETKSCLKNKTKENVKIPMVICGNKADRDFPREVQRDEVEQLVGGDENC- 146 (247)
T ss_pred HhccCCEEEEEEeCCCHHHHHHHHHHHHHHHHhhcccccccccCCCCcEEEEEECccchhccccCHHHHHHHHHhcCCC-
Confidence 4678999999999986532211 11112211 257999999999997522 233333443321 23
Q ss_pred CCcEEEeecCCCCCCCHHHHHHHHHHHhh
Q psy15351 74 ISEVIFTNCRNPNCKGVQKILPTLQHISD 102 (352)
Q Consensus 74 ~~~v~~iSa~~~~~~gi~~L~~~i~~~~~ 102 (352)
.++.+||+++ .|+++++++|.++..
T Consensus 147 --~~~evSAktg--~gI~elf~~L~~~~~ 171 (247)
T cd04143 147 --AYFEVSAKKN--SNLDEMFRALFSLAK 171 (247)
T ss_pred --EEEEEeCCCC--CCHHHHHHHHHHHhc
Confidence 4899999999 999999999987653
No 405
>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=97.75 E-value=6.9e-05 Score=66.87 Aligned_cols=59 Identities=25% Similarity=0.330 Sum_probs=40.5
Q ss_pred cCcceEEEEeCCCCCChHHHHHHHhCCCCCCCCceecCCCCCceeEeeeeEEecCCCcEEEEeCCCCC
Q psy15351 165 EVYNTTVMVVGVPNVGKSSIINALRSSHMKKGKAVPVGPKAGVTRSVMSQVKISEKPLIYILDTPGIS 232 (352)
Q Consensus 165 ~~~~~~v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~~~pg~T~~~~~~~~~~~~~~~~l~DtPGi~ 232 (352)
..++..|+++|.||+|||||+|+|.+. .....++...|+. . +....+.++.++||||..
T Consensus 36 ~~~~~~i~ivG~~~~GKstl~~~l~~~----~~~~~~~~~~g~i-~----i~~~~~~~i~~vDtPg~~ 94 (225)
T cd01882 36 EPPPLVVAVVGPPGVGKTTLIKSLVKN----YTKQNISDIKGPI-T----VVTGKKRRLTFIECPNDI 94 (225)
T ss_pred cCCCCEEEEECCCCCCHHHHHHHHHhh----cccCccccccccE-E----EEecCCceEEEEeCCchH
Confidence 467788999999999999999999863 1222334445531 1 112245679999999843
No 406
>PRK04004 translation initiation factor IF-2; Validated
Probab=97.74 E-value=0.00025 Score=71.91 Aligned_cols=88 Identities=17% Similarity=0.156 Sum_probs=58.8
Q ss_pred HHhhccCEEEEEEcCCCCCCCcCHHHHHHHh-CCCCEEEEEEcccCCCccc------------------h-------HHH
Q psy15351 10 KHLKNVDIVIEVHDSRMPFTGRNHLLQQSVQ-NIRPMVLVLNKRDLINSKH------------------E-------SLI 63 (352)
Q Consensus 10 ~~i~~aD~vl~VvDar~p~~~~~~~l~~~l~-~~k~~ilVlNK~Dl~~~~~------------------~-------~~~ 63 (352)
..+..+|++++|+|+++.+.........++. .+.|+++++||+|+.+... . .+.
T Consensus 90 ~~~~~aD~~IlVvDa~~g~~~qt~e~i~~~~~~~vpiIvviNK~D~~~~~~~~~~~~~~e~~~~~~~~v~~~f~~~l~ev 169 (586)
T PRK04004 90 RGGALADIAILVVDINEGFQPQTIEAINILKRRKTPFVVAANKIDRIPGWKSTEDAPFLESIEKQSQRVQQELEEKLYEL 169 (586)
T ss_pred HhHhhCCEEEEEEECCCCCCHhHHHHHHHHHHcCCCEEEEEECcCCchhhhhhcCchHHHHHhhhhHHHHHHHHHHHHHH
Confidence 4567899999999999865444433334444 6789999999999863210 0 011
Q ss_pred HHHHHhhcCC------------CCcEEEeecCCCCCCCHHHHHHHHHH
Q psy15351 64 EEKVRKEQSH------------ISEVIFTNCRNPNCKGVQKILPTLQH 99 (352)
Q Consensus 64 ~~~~~~~~~~------------~~~v~~iSa~~~~~~gi~~L~~~i~~ 99 (352)
..++.+.++. ..+++++||.++ +|+.+|++.+..
T Consensus 170 ~~~L~~~g~~~e~~~~~~~~~~~v~ivpiSA~tG--eGi~dLl~~i~~ 215 (586)
T PRK04004 170 IGQLSELGFSADRFDRVKDFTKTVAIVPVSAKTG--EGIPDLLMVLAG 215 (586)
T ss_pred HHHHHhcCCChhhhhhhhccCCCceEeeccCCCC--CChHHHHHHHHH
Confidence 2233333321 125899999999 999999888754
No 407
>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=97.74 E-value=0.00016 Score=61.99 Aligned_cols=85 Identities=15% Similarity=0.052 Sum_probs=56.2
Q ss_pred HhhccCEEEEEEcCCCCCCCcC--HHHHHHHh---CCCCEEEEEEcccCCCc--------------cchHHHHHHHHhhc
Q psy15351 11 HLKNVDIVIEVHDSRMPFTGRN--HLLQQSVQ---NIRPMVLVLNKRDLINS--------------KHESLIEEKVRKEQ 71 (352)
Q Consensus 11 ~i~~aD~vl~VvDar~p~~~~~--~~l~~~l~---~~k~~ilVlNK~Dl~~~--------------~~~~~~~~~~~~~~ 71 (352)
....+|++|+|.|..++.+..+ ..+...++ ...|+++|.||+||.+. -..++..++-++.+
T Consensus 69 ~~~~a~~~ilvfdit~~~Sf~~~~~~w~~~i~~~~~~~~iilVgnK~DL~~~~~~~~~~~~~~~~~v~~~e~~~~a~~~~ 148 (178)
T cd04131 69 CYPDSDAVLICFDISRPETLDSVLKKWRGEIQEFCPNTKVLLVGCKTDLRTDLSTLMELSHQRQAPVSYEQGCAIAKQLG 148 (178)
T ss_pred hcCCCCEEEEEEECCChhhHHHHHHHHHHHHHHHCCCCCEEEEEEChhhhcChhHHHHHHhcCCCCCCHHHHHHHHHHhC
Confidence 5678999999999987654332 12222222 46799999999999641 01223333333445
Q ss_pred CCCCcEEEeecCCCCCCC-HHHHHHHHHH
Q psy15351 72 SHISEVIFTNCRNPNCKG-VQKILPTLQH 99 (352)
Q Consensus 72 ~~~~~v~~iSa~~~~~~g-i~~L~~~i~~ 99 (352)
.. .++.+||+++ +| +++++..+.+
T Consensus 149 ~~--~~~E~SA~~~--~~~v~~~F~~~~~ 173 (178)
T cd04131 149 AE--IYLECSAFTS--EKSVRDIFHVATM 173 (178)
T ss_pred CC--EEEECccCcC--CcCHHHHHHHHHH
Confidence 32 3789999999 95 9999887765
No 408
>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=97.73 E-value=7.7e-05 Score=63.68 Aligned_cols=22 Identities=27% Similarity=0.451 Sum_probs=20.5
Q ss_pred eEEEEeCCCCCChHHHHHHHhC
Q psy15351 169 TTVMVVGVPNVGKSSIINALRS 190 (352)
Q Consensus 169 ~~v~i~G~pnvGKStliN~l~~ 190 (352)
++++++|.+|||||||+.++..
T Consensus 2 ~ki~iiG~~~vGKSsli~~~~~ 23 (174)
T cd01871 2 IKCVVVGDGAVGKTCLLISYTT 23 (174)
T ss_pred eEEEEECCCCCCHHHHHHHHhc
Confidence 6799999999999999999986
No 409
>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=97.73 E-value=8.9e-05 Score=62.99 Aligned_cols=58 Identities=21% Similarity=0.177 Sum_probs=35.5
Q ss_pred eEEEEeCCCCCChHHHHHHHhCCCCCCCCceecCCCCCceeEeee-eEEecC-CCcEEEEeCCCCCC
Q psy15351 169 TTVMVVGVPNVGKSSIINALRSSHMKKGKAVPVGPKAGVTRSVMS-QVKISE-KPLIYILDTPGISL 233 (352)
Q Consensus 169 ~~v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~~~pg~T~~~~~-~~~~~~-~~~~~l~DtPGi~~ 233 (352)
++++++|.+|||||||++++.+.. -....+.|+.+... .+.+.+ ...+.++||||...
T Consensus 1 ~k~~i~G~~~~GKtsl~~~~~~~~-------~~~~~~~t~~~~~~~~~~~~~~~~~~~i~Dt~G~~~ 60 (173)
T cd04130 1 LKCVLVGDGAVGKTSLIVSYTTNG-------YPTEYVPTAFDNFSVVVLVDGKPVRLQLCDTAGQDE 60 (173)
T ss_pred CEEEEECCCCCCHHHHHHHHHhCC-------CCCCCCCceeeeeeEEEEECCEEEEEEEEECCCChh
Confidence 478999999999999999997521 12223333332211 122221 12578899999743
No 410
>COG5257 GCD11 Translation initiation factor 2, gamma subunit (eIF-2gamma; GTPase) [Translation, ribosomal structure and biogenesis]
Probab=97.73 E-value=9.5e-05 Score=67.61 Aligned_cols=97 Identities=14% Similarity=0.212 Sum_probs=66.3
Q ss_pred HHHHHHhhccCEEEEEEcCCCCCC--CcCHHHH--HHHhCCCCEEEEEEcccCCCccchH----HHHHHHHhhcCCCCcE
Q psy15351 6 KDIEKHLKNVDIVIEVHDSRMPFT--GRNHLLQ--QSVQNIRPMVLVLNKRDLINSKHES----LIEEKVRKEQSHISEV 77 (352)
Q Consensus 6 ~~~~~~i~~aD~vl~VvDar~p~~--~~~~~l~--~~l~~~k~~ilVlNK~Dl~~~~~~~----~~~~~~~~~~~~~~~v 77 (352)
..|..-.+-.|..++|++|..|-- ...+.+. +++ .-+.+++|=||+||++++... ++.++++..-..-.++
T Consensus 101 ATMLsGAAlMDgAlLvIaANEpcPQPQT~EHl~AleIi-gik~iiIvQNKIDlV~~E~AlE~y~qIk~FvkGt~Ae~aPI 179 (415)
T COG5257 101 ATMLSGAALMDGALLVIAANEPCPQPQTREHLMALEII-GIKNIIIVQNKIDLVSRERALENYEQIKEFVKGTVAENAPI 179 (415)
T ss_pred HHHhcchhhhcceEEEEecCCCCCCCchHHHHHHHhhh-ccceEEEEecccceecHHHHHHHHHHHHHHhcccccCCCce
Confidence 345555667799999999986521 1112222 333 568899999999999987532 3333332222223469
Q ss_pred EEeecCCCCCCCHHHHHHHHHHHhhhcc
Q psy15351 78 IFTNCRNPNCKGVQKILPTLQHISDNMT 105 (352)
Q Consensus 78 ~~iSa~~~~~~gi~~L~~~i~~~~~~~~ 105 (352)
+++||.++ .|++.|+++|.+.++...
T Consensus 180 IPiSA~~~--~NIDal~e~i~~~IptP~ 205 (415)
T COG5257 180 IPISAQHK--ANIDALIEAIEKYIPTPE 205 (415)
T ss_pred eeehhhhc--cCHHHHHHHHHHhCCCCc
Confidence 99999999 999999999999887543
No 411
>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=97.72 E-value=0.00023 Score=63.31 Aligned_cols=52 Identities=19% Similarity=0.121 Sum_probs=40.4
Q ss_pred HHHHHHHHhhccCEEEEEEcCCCCCCCcCHHHHHHHh-CCCCEEEEEEcccCC
Q psy15351 4 GLKDIEKHLKNVDIVIEVHDSRMPFTGRNHLLQQSVQ-NIRPMVLVLNKRDLI 55 (352)
Q Consensus 4 ~~~~~~~~i~~aD~vl~VvDar~p~~~~~~~l~~~l~-~~k~~ilVlNK~Dl~ 55 (352)
....+...+..+|.+++|+|+..+.......+.+... .+.|+++|+||+|+.
T Consensus 86 f~~~~~~~l~~aD~~ilVvD~~~g~~~~t~~~l~~~~~~~~p~ilviNKiD~~ 138 (222)
T cd01885 86 FSSEVTAALRLCDGALVVVDAVEGVCVQTETVLRQALKERVKPVLVINKIDRL 138 (222)
T ss_pred cHHHHHHHHHhcCeeEEEEECCCCCCHHHHHHHHHHHHcCCCEEEEEECCCcc
Confidence 4567788999999999999999876655444444332 578999999999986
No 412
>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=97.72 E-value=0.00018 Score=60.72 Aligned_cols=86 Identities=19% Similarity=0.120 Sum_probs=55.6
Q ss_pred HHhhccCEEEEEEcCCCCCCCcC-HHHHH-HHh----CCCCEEEEEEcccCCCccc--hHHHHHHHHhhcCCCCcEEEee
Q psy15351 10 KHLKNVDIVIEVHDSRMPFTGRN-HLLQQ-SVQ----NIRPMVLVLNKRDLINSKH--ESLIEEKVRKEQSHISEVIFTN 81 (352)
Q Consensus 10 ~~i~~aD~vl~VvDar~p~~~~~-~~l~~-~l~----~~k~~ilVlNK~Dl~~~~~--~~~~~~~~~~~~~~~~~v~~iS 81 (352)
..+..+|.+++|+|..++-+... ..+.. +.+ .+.|+++|.||+|+.+... .+...+..++.+. .+++.+|
T Consensus 68 ~~~~~~~~~vlv~~~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~D~~~~~~~~~~~~~~~~~~~~~--~~~~~~S 145 (168)
T cd04177 68 LYIKSGQGFLLVYSVTSEASLNELGELREQVLRIKDSDNVPMVLVGNKADLEDDRQVSREDGVSLSQQWGN--VPFYETS 145 (168)
T ss_pred HHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHHhhCCCCCCEEEEEEChhccccCccCHHHHHHHHHHcCC--ceEEEee
Confidence 45678999999999876532211 11111 211 4689999999999976432 1222222223331 1489999
Q ss_pred cCCCCCCCHHHHHHHHHH
Q psy15351 82 CRNPNCKGVQKILPTLQH 99 (352)
Q Consensus 82 a~~~~~~gi~~L~~~i~~ 99 (352)
|+++ .|++++++++..
T Consensus 146 A~~~--~~i~~~f~~i~~ 161 (168)
T cd04177 146 ARKR--TNVDEVFIDLVR 161 (168)
T ss_pred CCCC--CCHHHHHHHHHH
Confidence 9999 999999988864
No 413
>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=97.70 E-value=0.00011 Score=65.36 Aligned_cols=56 Identities=25% Similarity=0.247 Sum_probs=34.2
Q ss_pred eEEEEeCCCCCChHHHHHHHhCCCCCCCCceecCCCCCceeEeeeeEEecCCCcEEEEeCCCCCC
Q psy15351 169 TTVMVVGVPNVGKSSIINALRSSHMKKGKAVPVGPKAGVTRSVMSQVKISEKPLIYILDTPGISL 233 (352)
Q Consensus 169 ~~v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~~~pg~T~~~~~~~~~~~~~~~~l~DtPGi~~ 233 (352)
++|+++|.+|||||||++++..... ....++.|.. . .......-.+.++||||-..
T Consensus 1 ~KIvivG~~~vGKTSLi~r~~~~~f-----~~~~~Tig~~--~--~~~~~~~~~l~iwDt~G~e~ 56 (220)
T cd04126 1 LKVVLLGDMNVGKTSLLHRYMERRF-----KDTVSTVGGA--F--YLKQWGPYNISIWDTAGREQ 56 (220)
T ss_pred CEEEEECCCCCcHHHHHHHHhcCCC-----CCCCCccceE--E--EEEEeeEEEEEEEeCCCccc
Confidence 4799999999999999999986322 1111111111 1 11111222588999999753
No 414
>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=97.70 E-value=0.00011 Score=62.80 Aligned_cols=22 Identities=27% Similarity=0.451 Sum_probs=20.7
Q ss_pred eEEEEeCCCCCChHHHHHHHhC
Q psy15351 169 TTVMVVGVPNVGKSSIINALRS 190 (352)
Q Consensus 169 ~~v~i~G~pnvGKStliN~l~~ 190 (352)
++|+++|.+|||||||++++..
T Consensus 2 ~ki~vvG~~~vGKTsl~~~~~~ 23 (175)
T cd01874 2 IKCVVVGDGAVGKTCLLISYTT 23 (175)
T ss_pred eEEEEECCCCCCHHHHHHHHHc
Confidence 6799999999999999999986
No 415
>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=97.69 E-value=6.2e-05 Score=65.61 Aligned_cols=57 Identities=18% Similarity=0.191 Sum_probs=34.2
Q ss_pred EEEEeCCCCCChHHHHHHHhCCCCCCCCceecCCCCCceeEeeeeEEecCC--CcEEEEeCCCCCC
Q psy15351 170 TVMVVGVPNVGKSSIINALRSSHMKKGKAVPVGPKAGVTRSVMSQVKISEK--PLIYILDTPGISL 233 (352)
Q Consensus 170 ~v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~~~pg~T~~~~~~~~~~~~--~~~~l~DtPGi~~ 233 (352)
+|+++|.+|||||||++++.+... ....+.++...........+ -.+.++||||...
T Consensus 1 kv~vvG~~~vGKTsll~~~~~~~~-------~~~~~~t~~~~~~~~~~~~~~~~~l~i~D~~G~~~ 59 (198)
T cd04147 1 RLVFMGAAGVGKTALIQRFLYDTF-------EPKYRRTVEEMHRKEYEVGGVSLTLDILDTSGSYS 59 (198)
T ss_pred CEEEECCCCCCHHHHHHHHHhCCC-------CccCCCchhhheeEEEEECCEEEEEEEEECCCchh
Confidence 489999999999999999986321 11122222221111111122 2578999999654
No 416
>COG2229 Predicted GTPase [General function prediction only]
Probab=97.69 E-value=0.0005 Score=58.09 Aligned_cols=86 Identities=22% Similarity=0.220 Sum_probs=66.7
Q ss_pred HHhhccCEEEEEEcCCCCCCCcCHHHHHHHh-CC-CCEEEEEEcccCCCccchHHHHHHHHhh--cCCCCcEEEeecCCC
Q psy15351 10 KHLKNVDIVIEVHDSRMPFTGRNHLLQQSVQ-NI-RPMVLVLNKRDLINSKHESLIEEKVRKE--QSHISEVIFTNCRNP 85 (352)
Q Consensus 10 ~~i~~aD~vl~VvDar~p~~~~~~~l~~~l~-~~-k~~ilVlNK~Dl~~~~~~~~~~~~~~~~--~~~~~~v~~iSa~~~ 85 (352)
-..+.++-+++++|++.|.......+.+++. .. .|+++.+||.||.+....+.+.+++... .. +++.++|.++
T Consensus 87 ~l~~ga~gaivlVDss~~~~~~a~~ii~f~~~~~~ip~vVa~NK~DL~~a~ppe~i~e~l~~~~~~~---~vi~~~a~e~ 163 (187)
T COG2229 87 ILSRGAVGAIVLVDSSRPITFHAEEIIDFLTSRNPIPVVVAINKQDLFDALPPEKIREALKLELLSV---PVIEIDATEG 163 (187)
T ss_pred HHhCCcceEEEEEecCCCcchHHHHHHHHHhhccCCCEEEEeeccccCCCCCHHHHHHHHHhccCCC---ceeeeecccc
Confidence 4567899999999999988775566666665 34 7999999999998876666676776544 34 4999999999
Q ss_pred CCCCHHHHHHHHHHH
Q psy15351 86 NCKGVQKILPTLQHI 100 (352)
Q Consensus 86 ~~~gi~~L~~~i~~~ 100 (352)
+|..+.+..+...
T Consensus 164 --~~~~~~L~~ll~~ 176 (187)
T COG2229 164 --EGARDQLDVLLLK 176 (187)
T ss_pred --hhHHHHHHHHHhh
Confidence 9988877776543
No 417
>PLN03126 Elongation factor Tu; Provisional
Probab=97.69 E-value=7e-05 Score=74.02 Aligned_cols=69 Identities=20% Similarity=0.231 Sum_probs=46.5
Q ss_pred cCcceEEEEeCCCCCChHHHHHHHhCCC--CCCC--------CceecCCCCCceeEeeeeEEecCCCcEEEEeCCCCCC
Q psy15351 165 EVYNTTVMVVGVPNVGKSSIINALRSSH--MKKG--------KAVPVGPKAGVTRSVMSQVKISEKPLIYILDTPGISL 233 (352)
Q Consensus 165 ~~~~~~v~i~G~pnvGKStliN~l~~~~--~~~~--------~~~~~~~~pg~T~~~~~~~~~~~~~~~~l~DtPGi~~ 233 (352)
.++.++++++|.+++|||||+++|+... +... ....-....|.|.+.........+..+.|+||||...
T Consensus 78 ~k~~~ni~iiGhvd~GKSTLi~~Ll~~~~~i~~~~~~~~~~~D~~~~Er~rGiTi~~~~~~~~~~~~~i~liDtPGh~~ 156 (478)
T PLN03126 78 KKPHVNIGTIGHVDHGKTTLTAALTMALASMGGSAPKKYDEIDAAPEERARGITINTATVEYETENRHYAHVDCPGHAD 156 (478)
T ss_pred cCCeeEEEEECCCCCCHHHHHHHHHHhhhhhccccccccccccCChhHHhCCeeEEEEEEEEecCCcEEEEEECCCHHH
Confidence 3567999999999999999999998521 0000 0012234578888765433334566899999999643
No 418
>PTZ00141 elongation factor 1- alpha; Provisional
Probab=97.69 E-value=0.00023 Score=69.92 Aligned_cols=97 Identities=15% Similarity=0.077 Sum_probs=62.7
Q ss_pred hhHHHHHHHHhhccCEEEEEEcCCCCCC-------CcCHHHHHHHh-CCCC-EEEEEEcccCC--C--ccch----HHHH
Q psy15351 2 GRGLKDIEKHLKNVDIVIEVHDSRMPFT-------GRNHLLQQSVQ-NIRP-MVLVLNKRDLI--N--SKHE----SLIE 64 (352)
Q Consensus 2 ~~~~~~~~~~i~~aD~vl~VvDar~p~~-------~~~~~l~~~l~-~~k~-~ilVlNK~Dl~--~--~~~~----~~~~ 64 (352)
.+.++++...+..+|++++|+|+..+.. ....+...++. .+.| +++++||+|.. + ++.. ++..
T Consensus 96 ~~f~~~~~~g~~~aD~ailVVda~~G~~e~~~~~~~qT~eh~~~~~~~gi~~iiv~vNKmD~~~~~~~~~~~~~i~~~i~ 175 (446)
T PTZ00141 96 RDFIKNMITGTSQADVAILVVASTAGEFEAGISKDGQTREHALLAFTLGVKQMIVCINKMDDKTVNYSQERYDEIKKEVS 175 (446)
T ss_pred HHHHHHHHHhhhhcCEEEEEEEcCCCceecccCCCccHHHHHHHHHHcCCCeEEEEEEccccccchhhHHHHHHHHHHHH
Confidence 3567888899999999999999997652 22223333333 4655 57899999943 2 2222 3333
Q ss_pred HHHHhhcCC--CCcEEEeecCCCCCCCHHH------------HHHHHHHH
Q psy15351 65 EKVRKEQSH--ISEVIFTNCRNPNCKGVQK------------ILPTLQHI 100 (352)
Q Consensus 65 ~~~~~~~~~--~~~v~~iSa~~~~~~gi~~------------L~~~i~~~ 100 (352)
+.+...++. ..+++++|+.++ +|+.+ |++.|.++
T Consensus 176 ~~l~~~g~~~~~~~~ipiSa~~g--~ni~~~~~~~~Wy~G~tL~~~l~~~ 223 (446)
T PTZ00141 176 AYLKKVGYNPEKVPFIPISGWQG--DNMIEKSDNMPWYKGPTLLEALDTL 223 (446)
T ss_pred HHHHhcCCCcccceEEEeecccC--CCcccCCCCCcccchHHHHHHHhCC
Confidence 444444432 135899999999 88853 67776554
No 419
>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=97.68 E-value=7.6e-05 Score=75.48 Aligned_cols=23 Identities=26% Similarity=0.562 Sum_probs=21.2
Q ss_pred ceEEEEeCCCCCChHHHHHHHhC
Q psy15351 168 NTTVMVVGVPNVGKSSIINALRS 190 (352)
Q Consensus 168 ~~~v~i~G~pnvGKStliN~l~~ 190 (352)
...|+++|.+|+|||||+|+|++
T Consensus 4 ~piV~IiG~~d~GKTSLln~l~~ 26 (590)
T TIGR00491 4 SPIVSVLGHVDHGKTTLLDKIRG 26 (590)
T ss_pred CCEEEEECCCCCCHHHHHHHHhc
Confidence 45799999999999999999996
No 420
>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=97.67 E-value=0.00026 Score=62.55 Aligned_cols=52 Identities=27% Similarity=0.259 Sum_probs=38.6
Q ss_pred HHHHHHHHhhccCEEEEEEcCCCCCCCcCHHHHHHHh-CCCCEEEEEEcccCC
Q psy15351 4 GLKDIEKHLKNVDIVIEVHDSRMPFTGRNHLLQQSVQ-NIRPMVLVLNKRDLI 55 (352)
Q Consensus 4 ~~~~~~~~i~~aD~vl~VvDar~p~~~~~~~l~~~l~-~~k~~ilVlNK~Dl~ 55 (352)
....+...+..+|++++|+|+..+.......+.+... .++|+++|+||+|++
T Consensus 84 f~~~~~~~~~~aD~~llVvD~~~~~~~~~~~~~~~~~~~~~p~iiviNK~D~~ 136 (213)
T cd04167 84 FMDEVAAALRLSDGVVLVVDVVEGVTSNTERLIRHAILEGLPIVLVINKIDRL 136 (213)
T ss_pred hHHHHHHHHHhCCEEEEEEECCCCCCHHHHHHHHHHHHcCCCEEEEEECcccC
Confidence 3456677889999999999998766543333333332 568999999999986
No 421
>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=97.66 E-value=0.00022 Score=59.91 Aligned_cols=84 Identities=14% Similarity=0.078 Sum_probs=54.5
Q ss_pred HhhccCEEEEEEcCCCCCCCcC-HHHH-HHHh----CCCCEEEEEEcccCCC--ccc-hHHHHHHHH-hh-cCCCCcEEE
Q psy15351 11 HLKNVDIVIEVHDSRMPFTGRN-HLLQ-QSVQ----NIRPMVLVLNKRDLIN--SKH-ESLIEEKVR-KE-QSHISEVIF 79 (352)
Q Consensus 11 ~i~~aD~vl~VvDar~p~~~~~-~~l~-~~l~----~~k~~ilVlNK~Dl~~--~~~-~~~~~~~~~-~~-~~~~~~v~~ 79 (352)
....+|++++|.|..++-+..+ ..+. ++.. .+.|+++|.||.||.. +.. ..+..+.+. +. ... ++.
T Consensus 62 ~~~~~~~~ilv~d~~~~~sf~~~~~~~~~i~~~~~~~~~piilvgnK~Dl~~~~~~~v~~~~~~~~~~~~~~~~---~~e 138 (158)
T cd04103 62 FASWVDAVIFVFSLENEASFQTVYNLYHQLSSYRNISEIPLILVGTQDAISESNPRVIDDARARQLCADMKRCS---YYE 138 (158)
T ss_pred HHhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEeeHHHhhhcCCcccCHHHHHHHHHHhCCCc---EEE
Confidence 4578999999999987654433 1222 2222 3469999999999853 221 122222232 22 244 889
Q ss_pred eecCCCCCCCHHHHHHHHHH
Q psy15351 80 TNCRNPNCKGVQKILPTLQH 99 (352)
Q Consensus 80 iSa~~~~~~gi~~L~~~i~~ 99 (352)
+||+++ .|+++++..+.+
T Consensus 139 ~SAk~~--~~i~~~f~~~~~ 156 (158)
T cd04103 139 TCATYG--LNVERVFQEAAQ 156 (158)
T ss_pred EecCCC--CCHHHHHHHHHh
Confidence 999999 999999987753
No 422
>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=97.65 E-value=4.7e-05 Score=61.67 Aligned_cols=55 Identities=29% Similarity=0.360 Sum_probs=31.6
Q ss_pred EeCCCCCChHHHHHHHhCCCCCCCCceecCCCCCcee-Eeeee-EEe-cCCCcEEEEeCCCCCCC
Q psy15351 173 VVGVPNVGKSSIINALRSSHMKKGKAVPVGPKAGVTR-SVMSQ-VKI-SEKPLIYILDTPGISLP 234 (352)
Q Consensus 173 i~G~pnvGKStliN~l~~~~~~~~~~~~~~~~pg~T~-~~~~~-~~~-~~~~~~~l~DtPGi~~~ 234 (352)
++|.+|+|||||+|++.+.... . .....|. +.... ... .....+.++||||....
T Consensus 1 iiG~~~~GKStl~~~l~~~~~~------~-~~~~~t~~~~~~~~~~~~~~~~~~~l~D~~g~~~~ 58 (157)
T cd00882 1 VVGDSGVGKTSLLNRLLGGEFV------P-EEYETTIIDFYSKTIEVDGKKVKLQIWDTAGQERF 58 (157)
T ss_pred CCCcCCCcHHHHHHHHHhCCcC------C-cccccchhheeeEEEEECCEEEEEEEEecCChHHH
Confidence 5799999999999999963210 1 1111121 11111 111 11336899999997653
No 423
>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=97.65 E-value=0.00028 Score=60.14 Aligned_cols=89 Identities=17% Similarity=0.121 Sum_probs=58.1
Q ss_pred HHhhccCEEEEEEcCCCCCCCc--CHHHHHHHh----CCCCEEEEEEcccCCCccc--hHHHHHHHHhhcCCCCcEEEee
Q psy15351 10 KHLKNVDIVIEVHDSRMPFTGR--NHLLQQSVQ----NIRPMVLVLNKRDLINSKH--ESLIEEKVRKEQSHISEVIFTN 81 (352)
Q Consensus 10 ~~i~~aD~vl~VvDar~p~~~~--~~~l~~~l~----~~k~~ilVlNK~Dl~~~~~--~~~~~~~~~~~~~~~~~v~~iS 81 (352)
.....+|.+++|+|..+..+.. ...+..+++ .+.|+++|+||+|+..... ...+....+..+. +++.+|
T Consensus 68 ~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~---~~~~~S 144 (180)
T cd04137 68 KYSIGIHGYILVYSVTSRKSFEVVKVIYDKILDMLGKESVPIVLVGNKSDLHTQRQVSTEEGKELAESWGA---AFLESS 144 (180)
T ss_pred HHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEEchhhhhcCccCHHHHHHHHHHcCC---eEEEEe
Confidence 4567899999999987642111 111122222 3579999999999975332 2223333333344 489999
Q ss_pred cCCCCCCCHHHHHHHHHHHhhh
Q psy15351 82 CRNPNCKGVQKILPTLQHISDN 103 (352)
Q Consensus 82 a~~~~~~gi~~L~~~i~~~~~~ 103 (352)
|+++ .|+.+++.++.+.+..
T Consensus 145 a~~~--~gv~~l~~~l~~~~~~ 164 (180)
T cd04137 145 AREN--ENVEEAFELLIEEIEK 164 (180)
T ss_pred CCCC--CCHHHHHHHHHHHHHH
Confidence 9999 9999999999876654
No 424
>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=97.65 E-value=0.00012 Score=63.27 Aligned_cols=21 Identities=33% Similarity=0.583 Sum_probs=19.9
Q ss_pred EEEEeCCCCCChHHHHHHHhC
Q psy15351 170 TVMVVGVPNVGKSSIINALRS 190 (352)
Q Consensus 170 ~v~i~G~pnvGKStliN~l~~ 190 (352)
+|+++|.+|||||||++++.+
T Consensus 2 kivivG~~~vGKTsli~~~~~ 22 (189)
T cd04134 2 KVVVLGDGACGKTSLLNVFTR 22 (189)
T ss_pred EEEEECCCCCCHHHHHHHHhc
Confidence 689999999999999999986
No 425
>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=97.64 E-value=0.00015 Score=62.19 Aligned_cols=22 Identities=23% Similarity=0.516 Sum_probs=20.6
Q ss_pred eEEEEeCCCCCChHHHHHHHhC
Q psy15351 169 TTVMVVGVPNVGKSSIINALRS 190 (352)
Q Consensus 169 ~~v~i~G~pnvGKStliN~l~~ 190 (352)
++|+++|.+|||||||++++.+
T Consensus 2 ~Kiv~vG~~~vGKTsli~~~~~ 23 (178)
T cd04131 2 CKIVVVGDVQCGKTALLQVFAK 23 (178)
T ss_pred eEEEEECCCCCCHHHHHHHHHh
Confidence 5799999999999999999986
No 426
>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=97.63 E-value=0.00018 Score=65.91 Aligned_cols=81 Identities=14% Similarity=0.163 Sum_probs=54.8
Q ss_pred HHHHHHHHhhccCEEEEEEcCCCCCCCcCHHHHHHHh-CCCCEEEEEEcccCCCccchHHHHHHHHhh-cC-CCCcEEEe
Q psy15351 4 GLKDIEKHLKNVDIVIEVHDSRMPFTGRNHLLQQSVQ-NIRPMVLVLNKRDLINSKHESLIEEKVRKE-QS-HISEVIFT 80 (352)
Q Consensus 4 ~~~~~~~~i~~aD~vl~VvDar~p~~~~~~~l~~~l~-~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~-~~-~~~~v~~i 80 (352)
...++...+..+|++++|+|+..........+.+.+. .++|+++++||+|+...+. +...+.+++. +. .+..++++
T Consensus 77 f~~~~~~~l~~aD~ailVVDa~~g~~~~t~~~~~~~~~~~~p~ivviNK~D~~~a~~-~~~~~~l~~~l~~~~~~~~~Pi 155 (270)
T cd01886 77 FTIEVERSLRVLDGAVAVFDAVAGVEPQTETVWRQADRYNVPRIAFVNKMDRTGADF-FRVVEQIREKLGANPVPLQLPI 155 (270)
T ss_pred HHHHHHHHHHHcCEEEEEEECCCCCCHHHHHHHHHHHHcCCCEEEEEECCCCCCCCH-HHHHHHHHHHhCCCceEEEecc
Confidence 3456788999999999999999877655555555554 6889999999999975432 2333333322 21 22246788
Q ss_pred ecCCC
Q psy15351 81 NCRNP 85 (352)
Q Consensus 81 Sa~~~ 85 (352)
|+..+
T Consensus 156 sa~~~ 160 (270)
T cd01886 156 GEEDD 160 (270)
T ss_pred ccCCC
Confidence 88654
No 427
>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=97.63 E-value=0.00035 Score=60.89 Aligned_cols=89 Identities=15% Similarity=0.134 Sum_probs=60.3
Q ss_pred hhccCEEEEEEcCCCCCCCcCHHHHHHHh-CCCCEEEEEEcccCCCccc---------hHHHHHH--------HHhhcCC
Q psy15351 12 LKNVDIVIEVHDSRMPFTGRNHLLQQSVQ-NIRPMVLVLNKRDLINSKH---------ESLIEEK--------VRKEQSH 73 (352)
Q Consensus 12 i~~aD~vl~VvDar~p~~~~~~~l~~~l~-~~k~~ilVlNK~Dl~~~~~---------~~~~~~~--------~~~~~~~ 73 (352)
+..+|++++|.|. +++..+..+.+.++ .++|+++|+||+|+..+.. .++.++. +...+..
T Consensus 78 ~~~~d~~l~v~~~--~~~~~d~~~~~~l~~~~~~~ilV~nK~D~~~~~~~~~~~~~~~~~~~l~~i~~~~~~~~~~~~~~ 155 (197)
T cd04104 78 FSEYDFFIIISST--RFSSNDVKLAKAIQCMGKKFYFVRTKVDRDLSNEQRSKPRSFNREQVLQEIRDNCLENLQEAGVS 155 (197)
T ss_pred ccCcCEEEEEeCC--CCCHHHHHHHHHHHHhCCCEEEEEecccchhhhhhccccccccHHHHHHHHHHHHHHHHHHcCCC
Confidence 5678999998654 35555666666555 5789999999999964321 1222222 2222334
Q ss_pred CCcEEEeecC--CCCCCCHHHHHHHHHHHhhhc
Q psy15351 74 ISEVIFTNCR--NPNCKGVQKILPTLQHISDNM 104 (352)
Q Consensus 74 ~~~v~~iSa~--~~~~~gi~~L~~~i~~~~~~~ 104 (352)
..+|+.+|+. .+ .++..|.+.+...+++.
T Consensus 156 ~p~v~~vS~~~~~~--~~~~~l~~~~~~~l~~~ 186 (197)
T cd04104 156 EPPVFLVSNFDPSD--YDFPKLRETLLKDLPAH 186 (197)
T ss_pred CCCEEEEeCCChhh--cChHHHHHHHHHHhhHH
Confidence 4479999998 45 89999999998877754
No 428
>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=97.62 E-value=0.00013 Score=61.49 Aligned_cols=55 Identities=22% Similarity=0.477 Sum_probs=34.5
Q ss_pred EEEeCCCCCChHHHHHHHhCCCCCCCCceecCCCCCceeEeeeeEEecCCCcEEEEeCCCCCC
Q psy15351 171 VMVVGVPNVGKSSIINALRSSHMKKGKAVPVGPKAGVTRSVMSQVKISEKPLIYILDTPGISL 233 (352)
Q Consensus 171 v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~~~pg~T~~~~~~~~~~~~~~~~l~DtPGi~~ 233 (352)
|+++|.+|||||||++++.+... .....++.|... . .+. ..+..+.++||||-..
T Consensus 2 i~ivG~~~vGKTsli~~~~~~~~----~~~~~pt~g~~~--~-~i~-~~~~~l~i~Dt~G~~~ 56 (164)
T cd04162 2 ILVLGLDGAGKTSLLHSLSSERS----LESVVPTTGFNS--V-AIP-TQDAIMELLEIGGSQN 56 (164)
T ss_pred EEEECCCCCCHHHHHHHHhcCCC----cccccccCCcce--E-EEe-eCCeEEEEEECCCCcc
Confidence 78999999999999999986321 112222333221 1 111 2234689999999653
No 429
>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=97.62 E-value=0.00013 Score=65.41 Aligned_cols=25 Identities=28% Similarity=0.424 Sum_probs=22.2
Q ss_pred ceEEEEeCCCCCChHHHHHHHhCCC
Q psy15351 168 NTTVMVVGVPNVGKSSIINALRSSH 192 (352)
Q Consensus 168 ~~~v~i~G~pnvGKStliN~l~~~~ 192 (352)
...++++|..|+||||++++|.+..
T Consensus 26 ~p~i~vvG~~~~GKSt~l~~i~g~~ 50 (240)
T smart00053 26 LPQIAVVGGQSAGKSSVLENFVGRD 50 (240)
T ss_pred CCeEEEEcCCCccHHHHHHHHhCCC
Confidence 4579999999999999999999853
No 430
>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=97.61 E-value=0.00024 Score=63.68 Aligned_cols=50 Identities=18% Similarity=0.257 Sum_probs=38.2
Q ss_pred CCEEEEEEcccCCCccchHHHHHHHHhhcCCCCcEEEeecCCCCCCCHHHHHHHHHHHhh
Q psy15351 43 RPMVLVLNKRDLINSKHESLIEEKVRKEQSHISEVIFTNCRNPNCKGVQKILPTLQHISD 102 (352)
Q Consensus 43 k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~v~~iSa~~~~~~gi~~L~~~i~~~~~ 102 (352)
.|+++|+||+|+++.+.... +.+ .. +++++||+++ .|++++++.+.+.+.
T Consensus 177 ~p~iiV~NK~Dl~~~~~~~~----~~~-~~---~~~~~SA~~g--~gi~~l~~~i~~~L~ 226 (233)
T cd01896 177 IPCLYVYNKIDLISIEELDL----LAR-QP---NSVVISAEKG--LNLDELKERIWDKLG 226 (233)
T ss_pred eeEEEEEECccCCCHHHHHH----Hhc-CC---CEEEEcCCCC--CCHHHHHHHHHHHhC
Confidence 58999999999987654332 222 22 3889999999 999999999877554
No 431
>KOG0078|consensus
Probab=97.60 E-value=0.00058 Score=58.93 Aligned_cols=94 Identities=15% Similarity=0.017 Sum_probs=66.4
Q ss_pred hHHHHHHHHhhccCEEEEEEcCCCCCCCcCH-HHHHHHh----CCCCEEEEEEcccCCCccc--hHHHHHHHHhhcCCCC
Q psy15351 3 RGLKDIEKHLKNVDIVIEVHDSRMPFTGRNH-LLQQSVQ----NIRPMVLVLNKRDLINSKH--ESLIEEKVRKEQSHIS 75 (352)
Q Consensus 3 ~~~~~~~~~i~~aD~vl~VvDar~p~~~~~~-~l~~~l~----~~k~~ilVlNK~Dl~~~~~--~~~~~~~~~~~~~~~~ 75 (352)
++-.-+..+...|+.+++|.|..+..+..+. .+.+.++ .+.|.++|-||+|+..+.. .+.-.++..+.|..
T Consensus 73 rf~ti~~sYyrgA~gi~LvyDitne~Sfeni~~W~~~I~e~a~~~v~~~LvGNK~D~~~~R~V~~e~ge~lA~e~G~~-- 150 (207)
T KOG0078|consen 73 RFRTITTAYYRGAMGILLVYDITNEKSFENIRNWIKNIDEHASDDVVKILVGNKCDLEEKRQVSKERGEALAREYGIK-- 150 (207)
T ss_pred hHHHHHHHHHhhcCeeEEEEEccchHHHHHHHHHHHHHHhhCCCCCcEEEeeccccccccccccHHHHHHHHHHhCCe--
Confidence 4445567788999999999999876544331 1223333 3678999999999987443 23444444566877
Q ss_pred cEEEeecCCCCCCCHHHHHHHHHHHh
Q psy15351 76 EVIFTNCRNPNCKGVQKILPTLQHIS 101 (352)
Q Consensus 76 ~v~~iSa~~~~~~gi~~L~~~i~~~~ 101 (352)
++.+||+++ .|+.+.+-.+...+
T Consensus 151 -F~EtSAk~~--~NI~eaF~~La~~i 173 (207)
T KOG0078|consen 151 -FFETSAKTN--FNIEEAFLSLARDI 173 (207)
T ss_pred -EEEccccCC--CCHHHHHHHHHHHH
Confidence 899999999 99998876665443
No 432
>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=97.59 E-value=0.0003 Score=60.65 Aligned_cols=87 Identities=13% Similarity=0.128 Sum_probs=55.6
Q ss_pred HhhccCEEEEEEcCCCCCCCcC--HHHHHHHh---CCCCEEEEEEcccCCCccc------------hHHHHHHHHhhcCC
Q psy15351 11 HLKNVDIVIEVHDSRMPFTGRN--HLLQQSVQ---NIRPMVLVLNKRDLINSKH------------ESLIEEKVRKEQSH 73 (352)
Q Consensus 11 ~i~~aD~vl~VvDar~p~~~~~--~~l~~~l~---~~k~~ilVlNK~Dl~~~~~------------~~~~~~~~~~~~~~ 73 (352)
.+..+|+++++.|..++-+... ..+...++ ...|+++|.||+|+.+... ......+.++.+..
T Consensus 69 ~~~~a~~~llv~~i~~~~s~~~~~~~~~~~i~~~~~~~piilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 148 (187)
T cd04129 69 SYSKAHVILIGFAVDTPDSLENVRTKWIEEVRRYCPNVPVILVGLKKDLRQDAVAKEEYRTQRFVPIQQGKRVAKEIGAK 148 (187)
T ss_pred hcCCCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCCEEEEeeChhhhhCcccccccccCCcCCHHHHHHHHHHhCCc
Confidence 4578999999999876532211 11222222 4689999999999864211 11222222233432
Q ss_pred CCcEEEeecCCCCCCCHHHHHHHHHHHh
Q psy15351 74 ISEVIFTNCRNPNCKGVQKILPTLQHIS 101 (352)
Q Consensus 74 ~~~v~~iSa~~~~~~gi~~L~~~i~~~~ 101 (352)
+++.+||+++ .|++++++.+.+.+
T Consensus 149 --~~~e~Sa~~~--~~v~~~f~~l~~~~ 172 (187)
T cd04129 149 --KYMECSALTG--EGVDDVFEAATRAA 172 (187)
T ss_pred --EEEEccCCCC--CCHHHHHHHHHHHH
Confidence 4889999999 99999999987544
No 433
>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=97.59 E-value=9.4e-05 Score=60.64 Aligned_cols=22 Identities=27% Similarity=0.598 Sum_probs=20.4
Q ss_pred eEEEEeCCCCCChHHHHHHHhC
Q psy15351 169 TTVMVVGVPNVGKSSIINALRS 190 (352)
Q Consensus 169 ~~v~i~G~pnvGKStliN~l~~ 190 (352)
.+|+++|.+++|||||+++|.+
T Consensus 2 krimliG~~g~GKTTL~q~L~~ 23 (143)
T PF10662_consen 2 KRIMLIGPSGSGKTTLAQALNG 23 (143)
T ss_pred ceEEEECCCCCCHHHHHHHHcC
Confidence 3699999999999999999986
No 434
>PTZ00132 GTP-binding nuclear protein Ran; Provisional
Probab=97.59 E-value=0.00018 Score=63.59 Aligned_cols=62 Identities=19% Similarity=0.216 Sum_probs=36.6
Q ss_pred CcceEEEEeCCCCCChHHHHHHHhCCCCCCCCceecCCCCCceeEeeeeEEec-CCCcEEEEeCCCCC
Q psy15351 166 VYNTTVMVVGVPNVGKSSIINALRSSHMKKGKAVPVGPKAGVTRSVMSQVKIS-EKPLIYILDTPGIS 232 (352)
Q Consensus 166 ~~~~~v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~~~pg~T~~~~~~~~~~-~~~~~~l~DtPGi~ 232 (352)
...++++++|.+|||||||++.+... .......++.|....... +... ..-.+.++||||-.
T Consensus 7 ~~~~kv~liG~~g~GKTtLi~~~~~~----~~~~~~~~t~~~~~~~~~-~~~~~~~i~i~~~Dt~g~~ 69 (215)
T PTZ00132 7 VPEFKLILVGDGGVGKTTFVKRHLTG----EFEKKYIPTLGVEVHPLK-FYTNCGPICFNVWDTAGQE 69 (215)
T ss_pred CCCceEEEECCCCCCHHHHHHHHHhC----CCCCCCCCccceEEEEEE-EEECCeEEEEEEEECCCch
Confidence 35689999999999999999866531 111222333443332211 1111 11257889999954
No 435
>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=97.58 E-value=0.00015 Score=63.53 Aligned_cols=56 Identities=20% Similarity=0.373 Sum_probs=34.4
Q ss_pred EEEEeCCCCCChHHHHHHHhCCCCCCCCceecCCCCCceeEeeeeEEe---cCCCcEEEEeCCCCCC
Q psy15351 170 TVMVVGVPNVGKSSIINALRSSHMKKGKAVPVGPKAGVTRSVMSQVKI---SEKPLIYILDTPGISL 233 (352)
Q Consensus 170 ~v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~~~pg~T~~~~~~~~~---~~~~~~~l~DtPGi~~ 233 (352)
+|+++|.+|||||||++.|... ....+ .+.++.... .+.. ..+..+.++||||...
T Consensus 2 ~vll~G~~~sGKTsL~~~l~~~-----~~~~t--~~s~~~~~~-~~~~~~~~~~~~~~l~D~pG~~~ 60 (203)
T cd04105 2 TVLLLGPSDSGKTALFTKLTTG-----KYRST--VTSIEPNVA-TFILNSEGKGKKFRLVDVPGHPK 60 (203)
T ss_pred eEEEEcCCCCCHHHHHHHHhcC-----CCCCc--cCcEeecce-EEEeecCCCCceEEEEECCCCHH
Confidence 5899999999999999999862 11111 121221111 1111 1234689999999764
No 436
>PRK12739 elongation factor G; Reviewed
Probab=97.56 E-value=0.00053 Score=71.25 Aligned_cols=54 Identities=19% Similarity=0.230 Sum_probs=43.8
Q ss_pred HHHHHHHHhhccCEEEEEEcCCCCCCCcCHHHHHHHh-CCCCEEEEEEcccCCCc
Q psy15351 4 GLKDIEKHLKNVDIVIEVHDSRMPFTGRNHLLQQSVQ-NIRPMVLVLNKRDLINS 57 (352)
Q Consensus 4 ~~~~~~~~i~~aD~vl~VvDar~p~~~~~~~l~~~l~-~~k~~ilVlNK~Dl~~~ 57 (352)
...++...+..+|++++|+|+..+.......+..++. .++|+++++||+|+.+.
T Consensus 86 f~~e~~~al~~~D~~ilVvDa~~g~~~qt~~i~~~~~~~~~p~iv~iNK~D~~~~ 140 (691)
T PRK12739 86 FTIEVERSLRVLDGAVAVFDAVSGVEPQSETVWRQADKYGVPRIVFVNKMDRIGA 140 (691)
T ss_pred HHHHHHHHHHHhCeEEEEEeCCCCCCHHHHHHHHHHHHcCCCEEEEEECCCCCCC
Confidence 3456788999999999999999887666666665554 68999999999999854
No 437
>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=97.55 E-value=0.00015 Score=65.69 Aligned_cols=58 Identities=21% Similarity=0.279 Sum_probs=34.8
Q ss_pred eEEEEeCCCCCChHHHHHHHhCCCCCCCCceecCCCCCceeEeee-eEEecCC-CcEEEEeCCCCCC
Q psy15351 169 TTVMVVGVPNVGKSSIINALRSSHMKKGKAVPVGPKAGVTRSVMS-QVKISEK-PLIYILDTPGISL 233 (352)
Q Consensus 169 ~~v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~~~pg~T~~~~~-~~~~~~~-~~~~l~DtPGi~~ 233 (352)
++|+++|.+|||||||++++.+... . .....|+.+... .+.+.+. -.+.++||+|...
T Consensus 1 ~KVvvlG~~gvGKTSLi~r~~~~~f------~-~~y~pTi~d~~~k~~~i~~~~~~l~I~Dt~G~~~ 60 (247)
T cd04143 1 YRMVVLGASKVGKTAIVSRFLGGRF------E-EQYTPTIEDFHRKLYSIRGEVYQLDILDTSGNHP 60 (247)
T ss_pred CEEEEECcCCCCHHHHHHHHHcCCC------C-CCCCCChhHhEEEEEEECCEEEEEEEEECCCChh
Confidence 3699999999999999999985211 1 122223222211 2222221 1467999999653
No 438
>PRK05124 cysN sulfate adenylyltransferase subunit 1; Provisional
Probab=97.55 E-value=0.00012 Score=72.51 Aligned_cols=66 Identities=24% Similarity=0.266 Sum_probs=42.2
Q ss_pred CcceEEEEeCCCCCChHHHHHHHhCCC--CCCCC----------cee---------------cCCCCCceeEeeeeEEec
Q psy15351 166 VYNTTVMVVGVPNVGKSSIINALRSSH--MKKGK----------AVP---------------VGPKAGVTRSVMSQVKIS 218 (352)
Q Consensus 166 ~~~~~v~i~G~pnvGKStliN~l~~~~--~~~~~----------~~~---------------~~~~pg~T~~~~~~~~~~ 218 (352)
...++++++|.+++|||||+++|+... +..+. ... .....|.|.+........
T Consensus 25 ~~~~~i~iiGhvdaGKSTL~~~LL~~~g~i~~~~~~~~~~~~~~~g~~~~~~~~a~~~D~~~eEr~rgiTid~~~~~~~~ 104 (474)
T PRK05124 25 KSLLRFLTCGSVDDGKSTLIGRLLHDTKQIYEDQLASLHNDSKRHGTQGEKLDLALLVDGLQAEREQGITIDVAYRYFST 104 (474)
T ss_pred cCceEEEEECCCCCChHHHHHHHHHhcCCCcHHHHHHHHHHHHhcCCCccccchhhhccCChHHhhcCCCeEeeEEEecc
Confidence 567999999999999999999997531 00000 000 011345666654333334
Q ss_pred CCCcEEEEeCCCC
Q psy15351 219 EKPLIYILDTPGI 231 (352)
Q Consensus 219 ~~~~~~l~DtPGi 231 (352)
.+.++.|+||||.
T Consensus 105 ~~~~i~~iDTPGh 117 (474)
T PRK05124 105 EKRKFIIADTPGH 117 (474)
T ss_pred CCcEEEEEECCCc
Confidence 5568999999994
No 439
>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=97.55 E-value=0.00024 Score=60.25 Aligned_cols=61 Identities=11% Similarity=0.184 Sum_probs=36.7
Q ss_pred cceEEEEeCCCCCChHHHHHHHhCCCCCCCCceecCCCCCceeE-ee-eeEEecCC-CcEEEEeCCCCCC
Q psy15351 167 YNTTVMVVGVPNVGKSSIINALRSSHMKKGKAVPVGPKAGVTRS-VM-SQVKISEK-PLIYILDTPGISL 233 (352)
Q Consensus 167 ~~~~v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~~~pg~T~~-~~-~~~~~~~~-~~~~l~DtPGi~~ 233 (352)
+.++|+++|.+|||||||++++.+. .. .+....+|+.. .. ..+...+. ..+.++||+|-..
T Consensus 3 ~~~kv~~vG~~~vGKTsli~~~~~~-----~f-~~~~~~~T~~~~~~~~~~~~~~~~~~l~~~d~~g~~~ 66 (169)
T cd01892 3 NVFLCFVLGAKGSGKSALLRAFLGR-----SF-SLNAYSPTIKPRYAVNTVEVYGQEKYLILREVGEDEV 66 (169)
T ss_pred eEEEEEEECCCCCcHHHHHHHHhCC-----CC-CcccCCCccCcceEEEEEEECCeEEEEEEEecCCccc
Confidence 4588999999999999999999863 11 11222333221 11 12222221 2467889998654
No 440
>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=97.54 E-value=0.0002 Score=71.66 Aligned_cols=66 Identities=20% Similarity=0.286 Sum_probs=38.8
Q ss_pred cceEEEEeCCCCCChHHHHHHHhCC--CCCCCCc--------eecC------CCCCceeEeeeeEEecCCCcEEEEeCCC
Q psy15351 167 YNTTVMVVGVPNVGKSSIINALRSS--HMKKGKA--------VPVG------PKAGVTRSVMSQVKISEKPLIYILDTPG 230 (352)
Q Consensus 167 ~~~~v~i~G~pnvGKStliN~l~~~--~~~~~~~--------~~~~------~~pg~T~~~~~~~~~~~~~~~~l~DtPG 230 (352)
+..+++++|.+++|||||+++|... .+..... ..++ ...|.|...........+..+.++||||
T Consensus 10 ~~RniaiiGh~~aGKTTL~e~Ll~~~g~i~~~g~v~~~g~~~~t~~D~~~~E~~rgisi~~~~~~~~~~~~~inliDTPG 89 (527)
T TIGR00503 10 KRRTFAIISHPDAGKTTITEKVLLYGGAIQTAGAVKGRGSQRHAKSDWMEMEKQRGISITTSVMQFPYRDCLVNLLDTPG 89 (527)
T ss_pred cCCEEEEEcCCCCCHHHHHHHHHHhCCCccccceeccccccccccCCCCHHHHhcCCcEEEEEEEEeeCCeEEEEEECCC
Confidence 4568999999999999999998631 1110000 0011 1224443332222233456789999999
Q ss_pred CC
Q psy15351 231 IS 232 (352)
Q Consensus 231 i~ 232 (352)
..
T Consensus 90 ~~ 91 (527)
T TIGR00503 90 HE 91 (527)
T ss_pred hh
Confidence 85
No 441
>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=97.54 E-value=0.0001 Score=65.50 Aligned_cols=63 Identities=29% Similarity=0.290 Sum_probs=43.2
Q ss_pred EEEEeCCCCCChHHHHHHHhCCC--CCC--------------C---------CceecCCCCCceeEeeeeEEecCCCcEE
Q psy15351 170 TVMVVGVPNVGKSSIINALRSSH--MKK--------------G---------KAVPVGPKAGVTRSVMSQVKISEKPLIY 224 (352)
Q Consensus 170 ~v~i~G~pnvGKStliN~l~~~~--~~~--------------~---------~~~~~~~~pg~T~~~~~~~~~~~~~~~~ 224 (352)
+|+++|.+++|||||+.+|.... +.. . .........|+|++.........+..+.
T Consensus 1 nv~i~Gh~~~GKttL~~~ll~~~g~i~~~~~~~~~~~~~~~g~~~~~~~~~~d~~~~E~~rg~T~d~~~~~~~~~~~~i~ 80 (219)
T cd01883 1 NLVVIGHVDAGKSTTTGHLLYLLGGVDKRTIEKYEKEAKEMGKGSFKYAWVLDTLKEERERGVTIDVGLAKFETEKYRFT 80 (219)
T ss_pred CEEEecCCCCChHHHHHHHHHHhcCcCHHHHHHHHHHHHhcCCcchhHHhhhcCCHHHhhCccCeecceEEEeeCCeEEE
Confidence 48999999999999999996320 000 0 0111223678898876655545667899
Q ss_pred EEeCCCCC
Q psy15351 225 ILDTPGIS 232 (352)
Q Consensus 225 l~DtPGi~ 232 (352)
++||||..
T Consensus 81 liDtpG~~ 88 (219)
T cd01883 81 ILDAPGHR 88 (219)
T ss_pred EEECCChH
Confidence 99999974
No 442
>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=97.52 E-value=0.00015 Score=71.02 Aligned_cols=66 Identities=23% Similarity=0.250 Sum_probs=44.8
Q ss_pred CcceEEEEeCCCCCChHHHHHHHhCC--CCCCC-----------------------CceecCCCCCceeEeeeeEEecCC
Q psy15351 166 VYNTTVMVVGVPNVGKSSIINALRSS--HMKKG-----------------------KAVPVGPKAGVTRSVMSQVKISEK 220 (352)
Q Consensus 166 ~~~~~v~i~G~pnvGKStliN~l~~~--~~~~~-----------------------~~~~~~~~pg~T~~~~~~~~~~~~ 220 (352)
.+.++|+++|.+++|||||+++|+.. .+... .........|+|.+.........+
T Consensus 5 ~~~~~v~i~Ghvd~GKSTL~~~ll~~~g~i~~~~~~~~~~~~~~~g~~~~~~~~~~d~~~~e~~rg~Tid~~~~~~~~~~ 84 (426)
T TIGR00483 5 KEHINVAFIGHVDHGKSTTVGHLLYKCGAIDEQTIEKFEKEAQEKGKASFEFAWVMDRLKEERERGVTIDVAHWKFETDK 84 (426)
T ss_pred CceeEEEEEeccCCcHHHHHHHHHHHhCCcCHHHHHHHHhHHHhcCCcccchhhhhccCHHHhhcCceEEEEEEEEccCC
Confidence 46689999999999999999999842 01000 000112356889887654444445
Q ss_pred CcEEEEeCCCC
Q psy15351 221 PLIYILDTPGI 231 (352)
Q Consensus 221 ~~~~l~DtPGi 231 (352)
..+.++||||.
T Consensus 85 ~~i~iiDtpGh 95 (426)
T TIGR00483 85 YEVTIVDCPGH 95 (426)
T ss_pred eEEEEEECCCH
Confidence 57899999994
No 443
>PRK09435 membrane ATPase/protein kinase; Provisional
Probab=97.52 E-value=0.00037 Score=65.54 Aligned_cols=86 Identities=14% Similarity=0.125 Sum_probs=54.4
Q ss_pred HhhccCEEEEEEcCCCCCCCcCH-HHHH-HHhCCCCEEEEEEcccCCCccchHHHHHHHHhh-cC------CC-CcEEEe
Q psy15351 11 HLKNVDIVIEVHDSRMPFTGRNH-LLQQ-SVQNIRPMVLVLNKRDLINSKHESLIEEKVRKE-QS------HI-SEVIFT 80 (352)
Q Consensus 11 ~i~~aD~vl~VvDar~p~~~~~~-~l~~-~l~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~-~~------~~-~~v~~i 80 (352)
++..||++++|++. .+..+. .+.. .+ ...-++|+||+|+.+....+.....+++. .. .+ .+++++
T Consensus 166 i~~~aD~vlvv~~p---~~gd~iq~~k~gi~--E~aDIiVVNKaDl~~~~~a~~~~~el~~~L~l~~~~~~~w~~pVi~v 240 (332)
T PRK09435 166 VAGMVDFFLLLQLP---GAGDELQGIKKGIM--ELADLIVINKADGDNKTAARRAAAEYRSALRLLRPKDPGWQPPVLTC 240 (332)
T ss_pred HHHhCCEEEEEecC---CchHHHHHHHhhhh--hhhheEEeehhcccchhHHHHHHHHHHHHHhcccccccCCCCCEEEE
Confidence 57889999999752 222111 1111 12 23348999999998765433333333221 10 01 369999
Q ss_pred ecCCCCCCCHHHHHHHHHHHhhh
Q psy15351 81 NCRNPNCKGVQKILPTLQHISDN 103 (352)
Q Consensus 81 Sa~~~~~~gi~~L~~~i~~~~~~ 103 (352)
||.++ .|+++|++.|.++++.
T Consensus 241 SA~~g--~GIdeL~~~I~~~~~~ 261 (332)
T PRK09435 241 SALEG--EGIDEIWQAIEDHRAA 261 (332)
T ss_pred ECCCC--CCHHHHHHHHHHHHHH
Confidence 99999 9999999999987763
No 444
>KOG1145|consensus
Probab=97.52 E-value=0.00078 Score=65.82 Aligned_cols=94 Identities=12% Similarity=0.112 Sum_probs=66.4
Q ss_pred hHHHHHHH-HhhccCEEEEEEcCCCCCCCcCHHHHHHHh-CCCCEEEEEEcccCCCccchHHHHHHHHhhcCCC------
Q psy15351 3 RGLKDIEK-HLKNVDIVIEVHDSRMPFTGRNHLLQQSVQ-NIRPMVLVLNKRDLINSKHESLIEEKVRKEQSHI------ 74 (352)
Q Consensus 3 ~~~~~~~~-~i~~aD~vl~VvDar~p~~~~~~~l~~~l~-~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~------ 74 (352)
.|+..|+. -+.-+|+|++|+-+.+.....-.+..+..+ .+.|+++.+||+|....+. +...+.+...|+..
T Consensus 212 aAF~aMRaRGA~vtDIvVLVVAadDGVmpQT~EaIkhAk~A~VpiVvAinKiDkp~a~p-ekv~~eL~~~gi~~E~~GGd 290 (683)
T KOG1145|consen 212 AAFSAMRARGANVTDIVVLVVAADDGVMPQTLEAIKHAKSANVPIVVAINKIDKPGANP-EKVKRELLSQGIVVEDLGGD 290 (683)
T ss_pred HHHHHHHhccCccccEEEEEEEccCCccHhHHHHHHHHHhcCCCEEEEEeccCCCCCCH-HHHHHHHHHcCccHHHcCCc
Confidence 35556664 466789999999999887765555555555 7899999999999764433 33334343443321
Q ss_pred CcEEEeecCCCCCCCHHHHHHHHHH
Q psy15351 75 SEVIFTNCRNPNCKGVQKILPTLQH 99 (352)
Q Consensus 75 ~~v~~iSa~~~~~~gi~~L~~~i~~ 99 (352)
..++++||+++ +|++.|.+++.-
T Consensus 291 VQvipiSAl~g--~nl~~L~eaill 313 (683)
T KOG1145|consen 291 VQVIPISALTG--ENLDLLEEAILL 313 (683)
T ss_pred eeEEEeecccC--CChHHHHHHHHH
Confidence 25899999999 999999888753
No 445
>PRK00007 elongation factor G; Reviewed
Probab=97.51 E-value=0.00075 Score=70.12 Aligned_cols=54 Identities=17% Similarity=0.185 Sum_probs=44.4
Q ss_pred HHHHHHHHhhccCEEEEEEcCCCCCCCcCHHHHHHHh-CCCCEEEEEEcccCCCc
Q psy15351 4 GLKDIEKHLKNVDIVIEVHDSRMPFTGRNHLLQQSVQ-NIRPMVLVLNKRDLINS 57 (352)
Q Consensus 4 ~~~~~~~~i~~aD~vl~VvDar~p~~~~~~~l~~~l~-~~k~~ilVlNK~Dl~~~ 57 (352)
...++...+..+|++++|+|+..++...+..+..++. .++|+++++||+|+.+.
T Consensus 88 f~~ev~~al~~~D~~vlVvda~~g~~~qt~~~~~~~~~~~~p~iv~vNK~D~~~~ 142 (693)
T PRK00007 88 FTIEVERSLRVLDGAVAVFDAVGGVEPQSETVWRQADKYKVPRIAFVNKMDRTGA 142 (693)
T ss_pred HHHHHHHHHHHcCEEEEEEECCCCcchhhHHHHHHHHHcCCCEEEEEECCCCCCC
Confidence 3456788899999999999999888777766666655 68899999999998754
No 446
>COG1100 GTPase SAR1 and related small G proteins [General function prediction only]
Probab=97.51 E-value=0.00021 Score=63.00 Aligned_cols=60 Identities=20% Similarity=0.262 Sum_probs=36.4
Q ss_pred eEEEEeCCCCCChHHHHHHHhCCCCCCCCcee-cCCCCCceeEeeeeEEecCCCcEEEEeCCCCCC
Q psy15351 169 TTVMVVGVPNVGKSSIINALRSSHMKKGKAVP-VGPKAGVTRSVMSQVKISEKPLIYILDTPGISL 233 (352)
Q Consensus 169 ~~v~i~G~pnvGKStliN~l~~~~~~~~~~~~-~~~~pg~T~~~~~~~~~~~~~~~~l~DtPGi~~ 233 (352)
++|+++|.+|||||||+|++.+.......... +...|+.+...... .-.+.++||+|...
T Consensus 6 ~kivv~G~~g~GKTtl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~-----~~~~~~~Dt~gq~~ 66 (219)
T COG1100 6 FKIVVLGDGGVGKTTLLNRLVGDEFPEGYPPTIGNLDPAKTIEPYRR-----NIKLQLWDTAGQEE 66 (219)
T ss_pred EEEEEEcCCCccHHHHHHHHhcCcCcccCCCceeeeeEEEEEEeCCC-----EEEEEeecCCCHHH
Confidence 89999999999999999999974322111111 22222222221100 12378999999764
No 447
>PRK10512 selenocysteinyl-tRNA-specific translation factor; Provisional
Probab=97.50 E-value=0.00023 Score=72.54 Aligned_cols=60 Identities=18% Similarity=0.321 Sum_probs=41.3
Q ss_pred eEEEEeCCCCCChHHHHHHHhCCCCCCCCceecCCCCCceeEeeeeEE-ecCCCcEEEEeCCCC
Q psy15351 169 TTVMVVGVPNVGKSSIINALRSSHMKKGKAVPVGPKAGVTRSVMSQVK-ISEKPLIYILDTPGI 231 (352)
Q Consensus 169 ~~v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~~~pg~T~~~~~~~~-~~~~~~~~l~DtPGi 231 (352)
+.|+++|.+++|||||+|+|++... .........|.|.+...... ...+..+.++||||.
T Consensus 1 ~ii~~~GhvdhGKTtLi~aLtg~~~---dr~~eE~~rGiTI~l~~~~~~~~~g~~i~~IDtPGh 61 (614)
T PRK10512 1 MIIATAGHVDHGKTTLLQAITGVNA---DRLPEEKKRGMTIDLGYAYWPQPDGRVLGFIDVPGH 61 (614)
T ss_pred CEEEEECCCCCCHHHHHHHHhCCCC---ccchhcccCCceEEeeeEEEecCCCcEEEEEECCCH
Confidence 3589999999999999999996321 11223345688887643222 223456889999996
No 448
>KOG0073|consensus
Probab=97.50 E-value=0.00021 Score=59.02 Aligned_cols=147 Identities=18% Similarity=0.251 Sum_probs=78.8
Q ss_pred CcceEEEEeCCCCCChHHHHHHHhCCCCCCCCceecCCCCCceeEeeeeEEecCCCcEEEEeCCCCCCCC------CC--
Q psy15351 166 VYNTTVMVVGVPNVGKSSIINALRSSHMKKGKAVPVGPKAGVTRSVMSQVKISEKPLIYILDTPGISLPR------ID-- 237 (352)
Q Consensus 166 ~~~~~v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~~~pg~T~~~~~~~~~~~~~~~~l~DtPGi~~~~------~~-- 237 (352)
.+.++|.++|..|+||||+++.+.+ .....++++-|.-.... ...+-++.++|.-|=...+ ++
T Consensus 14 erE~riLiLGLdNsGKTti~~kl~~-----~~~~~i~pt~gf~Iktl----~~~~~~L~iwDvGGq~~lr~~W~nYfest 84 (185)
T KOG0073|consen 14 EREVRILILGLDNSGKTTIVKKLLG-----EDTDTISPTLGFQIKTL----EYKGYTLNIWDVGGQKTLRSYWKNYFEST 84 (185)
T ss_pred hheeEEEEEecCCCCchhHHHHhcC-----CCccccCCccceeeEEE----EecceEEEEEEcCCcchhHHHHHHhhhcc
Confidence 3579999999999999999999997 44556677666544332 1223346667766633211 00
Q ss_pred -------CHHHHHHHHHHhhhhhhccchhhhhH-hHHhhhcCCCCCcccccccCCCCCccHH--HHHHHHHHHhc-cccc
Q psy15351 238 -------NLECGMRLAACATLQDHLVGEINIAD-YILFYLNRTGNYRYVDFFNLDEPSDDIV--MLLAKAAIKKK-WFKR 306 (352)
Q Consensus 238 -------~~~~~~~l~~~~~i~~~~~~~~~~~~-~il~~~~~~~~~~~~~~~~l~~~~~~~~--~~l~~~a~~~g-~~~~ 306 (352)
+....+++.-|..........+.+|- .++.+.|+.+...-... +++. --|+.++...- ++.+
T Consensus 85 dglIwvvDssD~~r~~e~~~~L~~lL~eerlaG~~~Lvlank~dl~~~l~~-------~~i~~~~~L~~l~ks~~~~l~~ 157 (185)
T KOG0073|consen 85 DGLIWVVDSSDRMRMQECKQELTELLVEERLAGAPLLVLANKQDLPGALSL-------EEISKALDLEELAKSHHWRLVK 157 (185)
T ss_pred CeEEEEEECchHHHHHHHHHHHHHHHhhhhhcCCceEEEEecCcCccccCH-------HHHHHhhCHHHhccccCceEEE
Confidence 11112233323322222222344443 34445555543211111 1122 12344433332 4667
Q ss_pred cccccCCcccCCCCHHHHHHHHHHHHhC
Q psy15351 307 AFDVSSNSVRMFPDTGEVARIFIEHFRK 334 (352)
Q Consensus 307 ~~~~~~g~~~~~~d~~~a~~~~l~~~~~ 334 (352)
+++++ |. |+.++-.++..++..
T Consensus 158 cs~~t-ge-----~l~~gidWL~~~l~~ 179 (185)
T KOG0073|consen 158 CSAVT-GE-----DLLEGIDWLCDDLMS 179 (185)
T ss_pred Eeccc-cc-----cHHHHHHHHHHHHHH
Confidence 77777 53 788888888888776
No 449
>KOG0094|consensus
Probab=97.49 E-value=0.00056 Score=58.30 Aligned_cols=90 Identities=17% Similarity=0.181 Sum_probs=62.3
Q ss_pred HHhhccCEEEEEEcCCCCCCCcC--HHHHHHHh-C---CCCEEEEEEcccCCCccch--HHHHHHHHhhcCCCCcEEEee
Q psy15351 10 KHLKNVDIVIEVHDSRMPFTGRN--HLLQQSVQ-N---IRPMVLVLNKRDLINSKHE--SLIEEKVRKEQSHISEVIFTN 81 (352)
Q Consensus 10 ~~i~~aD~vl~VvDar~p~~~~~--~~l~~~l~-~---~k~~ilVlNK~Dl~~~~~~--~~~~~~~~~~~~~~~~v~~iS 81 (352)
..+.+++++|.|.|..+--+..+ ..+.+..+ . ..-+++|.||.||+++.+. ++-...-++.+.. ++.+|
T Consensus 90 sY~Rds~vaviVyDit~~~Sfe~t~kWi~dv~~e~gs~~viI~LVGnKtDL~dkrqvs~eEg~~kAkel~a~---f~ets 166 (221)
T KOG0094|consen 90 SYIRDSSVAVIVYDITDRNSFENTSKWIEDVRRERGSDDVIIFLVGNKTDLSDKRQVSIEEGERKAKELNAE---FIETS 166 (221)
T ss_pred hhccCCeEEEEEEeccccchHHHHHHHHHHHHhccCCCceEEEEEcccccccchhhhhHHHHHHHHHHhCcE---EEEec
Confidence 46789999999999986544322 33444433 2 2346788999999988652 2222333344544 78899
Q ss_pred cCCCCCCCHHHHHHHHHHHhhhc
Q psy15351 82 CRNPNCKGVQKILPTLQHISDNM 104 (352)
Q Consensus 82 a~~~~~~gi~~L~~~i~~~~~~~ 104 (352)
|+.| .|+++++..|...+++.
T Consensus 167 ak~g--~NVk~lFrrIaa~l~~~ 187 (221)
T KOG0094|consen 167 AKAG--ENVKQLFRRIAAALPGM 187 (221)
T ss_pred ccCC--CCHHHHHHHHHHhccCc
Confidence 9999 99999999998877754
No 450
>COG5256 TEF1 Translation elongation factor EF-1alpha (GTPase) [Translation, ribosomal structure and biogenesis]
Probab=97.48 E-value=0.00058 Score=64.71 Aligned_cols=88 Identities=15% Similarity=0.152 Sum_probs=56.9
Q ss_pred hHHHHHHHHhhccCEEEEEEcCCCC-------CCCcCHHHHHHHh--CCCCEEEEEEcccCCCccc--hH----HHHHHH
Q psy15351 3 RGLKDIEKHLKNVDIVIEVHDSRMP-------FTGRNHLLQQSVQ--NIRPMVLVLNKRDLINSKH--ES----LIEEKV 67 (352)
Q Consensus 3 ~~~~~~~~~i~~aD~vl~VvDar~p-------~~~~~~~l~~~l~--~~k~~ilVlNK~Dl~~~~~--~~----~~~~~~ 67 (352)
..++.+..-+.+||+.++|+||+.+ ......+..-+.+ .-+.+|+++||+|+++-++ .+ +....+
T Consensus 97 dFvknmItGasqAD~aVLVV~a~~~efE~g~~~~gQtrEH~~La~tlGi~~lIVavNKMD~v~wde~rf~ei~~~v~~l~ 176 (428)
T COG5256 97 DFVKNMITGASQADVAVLVVDARDGEFEAGFGVGGQTREHAFLARTLGIKQLIVAVNKMDLVSWDEERFEEIVSEVSKLL 176 (428)
T ss_pred HHHHHhhcchhhccEEEEEEECCCCccccccccCCchhHHHHHHHhcCCceEEEEEEcccccccCHHHHHHHHHHHHHHH
Confidence 3566777888999999999999987 3222222222222 5567899999999997432 12 222322
Q ss_pred HhhcCCC--CcEEEeecCCCCCCCHHH
Q psy15351 68 RKEQSHI--SEVIFTNCRNPNCKGVQK 92 (352)
Q Consensus 68 ~~~~~~~--~~v~~iSa~~~~~~gi~~ 92 (352)
+..|+.. .+++++|+.+| .|+.+
T Consensus 177 k~~G~~~~~v~FIPiSg~~G--~Nl~~ 201 (428)
T COG5256 177 KMVGYNPKDVPFIPISGFKG--DNLTK 201 (428)
T ss_pred HHcCCCccCCeEEecccccC--Ccccc
Confidence 3335442 25889999999 77653
No 451
>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=97.47 E-value=0.00023 Score=60.88 Aligned_cols=58 Identities=21% Similarity=0.381 Sum_probs=40.3
Q ss_pred CcceEEEEeCCCCCChHHHHHHHhCCCCCCCCceecCCCCCceeEeeeeEEecCCCcEEEEeCCCCC
Q psy15351 166 VYNTTVMVVGVPNVGKSSIINALRSSHMKKGKAVPVGPKAGVTRSVMSQVKISEKPLIYILDTPGIS 232 (352)
Q Consensus 166 ~~~~~v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~~~pg~T~~~~~~~~~~~~~~~~l~DtPGi~ 232 (352)
.+..+|.++|.+|+||||+++.|.. .....+.++-|..... +.. .+..+.++|.+|=.
T Consensus 12 ~~~~~ililGl~~sGKTtll~~l~~-----~~~~~~~pT~g~~~~~---i~~-~~~~~~~~d~gG~~ 69 (175)
T PF00025_consen 12 KKEIKILILGLDGSGKTTLLNRLKN-----GEISETIPTIGFNIEE---IKY-KGYSLTIWDLGGQE 69 (175)
T ss_dssp TSEEEEEEEESTTSSHHHHHHHHHS-----SSEEEEEEESSEEEEE---EEE-TTEEEEEEEESSSG
T ss_pred CcEEEEEEECCCccchHHHHHHhhh-----ccccccCcccccccce---eee-CcEEEEEEeccccc
Confidence 4678999999999999999999986 3333444444443322 222 34578999999853
No 452
>PLN00043 elongation factor 1-alpha; Provisional
Probab=97.47 E-value=0.00072 Score=66.50 Aligned_cols=87 Identities=11% Similarity=-0.000 Sum_probs=56.1
Q ss_pred hHHHHHHHHhhccCEEEEEEcCCCCCCC----cCHHHHH---HHh-CCC-CEEEEEEcccCCCcc----c----hHHHHH
Q psy15351 3 RGLKDIEKHLKNVDIVIEVHDSRMPFTG----RNHLLQQ---SVQ-NIR-PMVLVLNKRDLINSK----H----ESLIEE 65 (352)
Q Consensus 3 ~~~~~~~~~i~~aD~vl~VvDar~p~~~----~~~~l~~---~l~-~~k-~~ilVlNK~Dl~~~~----~----~~~~~~ 65 (352)
+.++.+...+..+|.+|+|+|++..... ......+ ++. .+. ++++++||+|+.+.+ . .++..+
T Consensus 97 df~~~~~~g~~~aD~aIlVVda~~G~~e~g~~~~~qT~eh~~~~~~~gi~~iIV~vNKmD~~~~~~~~~~~~~i~~ei~~ 176 (447)
T PLN00043 97 DFIKNMITGTSQADCAVLIIDSTTGGFEAGISKDGQTREHALLAFTLGVKQMICCCNKMDATTPKYSKARYDEIVKEVSS 176 (447)
T ss_pred HHHHHHHhhhhhccEEEEEEEcccCceecccCCCchHHHHHHHHHHcCCCcEEEEEEcccCCchhhhHHHHHHHHHHHHH
Confidence 5677888899999999999999875211 1122222 222 455 468889999987321 1 234445
Q ss_pred HHHhhcCCC--CcEEEeecCCCCCCCHH
Q psy15351 66 KVRKEQSHI--SEVIFTNCRNPNCKGVQ 91 (352)
Q Consensus 66 ~~~~~~~~~--~~v~~iSa~~~~~~gi~ 91 (352)
++++.|+.. .+++++||.++ +|+.
T Consensus 177 ~l~~~g~~~~~~~~ipiSa~~G--~ni~ 202 (447)
T PLN00043 177 YLKKVGYNPDKIPFVPISGFEG--DNMI 202 (447)
T ss_pred HHHHcCCCcccceEEEEecccc--cccc
Confidence 555555431 25899999999 8874
No 453
>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=97.46 E-value=0.00049 Score=59.65 Aligned_cols=61 Identities=23% Similarity=0.404 Sum_probs=36.5
Q ss_pred cceEEEEeCCCCCChHHHHHHHhCCCCCCCCceecCCCCCceeEeee-eEEecCC-CcEEEEeCCCCCC
Q psy15351 167 YNTTVMVVGVPNVGKSSIINALRSSHMKKGKAVPVGPKAGVTRSVMS-QVKISEK-PLIYILDTPGISL 233 (352)
Q Consensus 167 ~~~~v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~~~pg~T~~~~~-~~~~~~~-~~~~l~DtPGi~~ 233 (352)
..++|+++|.+|||||||++++..... .....+.+| .+... .+...+. -.+.++||||-..
T Consensus 5 ~~~KivviG~~~vGKTsll~~~~~~~~----~~~~~~t~~--~~~~~~~i~~~~~~~~l~iwDt~G~~~ 67 (189)
T cd04121 5 YLLKFLLVGDSDVGKGEILASLQDGST----ESPYGYNMG--IDYKTTTILLDGRRVKLQLWDTSGQGR 67 (189)
T ss_pred ceeEEEEECCCCCCHHHHHHHHHcCCC----CCCCCCcce--eEEEEEEEEECCEEEEEEEEeCCCcHH
Confidence 458999999999999999999985211 111112222 22211 1222211 2477899999753
No 454
>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=97.45 E-value=0.00031 Score=60.62 Aligned_cols=22 Identities=23% Similarity=0.477 Sum_probs=20.2
Q ss_pred eEEEEeCCCCCChHHHHHHHhC
Q psy15351 169 TTVMVVGVPNVGKSSIINALRS 190 (352)
Q Consensus 169 ~~v~i~G~pnvGKStliN~l~~ 190 (352)
.+++++|.+|+|||||++.+..
T Consensus 2 ~Ki~ivG~~g~GKStLl~~l~~ 23 (187)
T cd04129 2 RKLVIVGDGACGKTSLLSVFTL 23 (187)
T ss_pred eEEEEECCCCCCHHHHHHHHHh
Confidence 4799999999999999999974
No 455
>PRK13351 elongation factor G; Reviewed
Probab=97.45 E-value=0.00023 Score=73.96 Aligned_cols=66 Identities=18% Similarity=0.149 Sum_probs=39.5
Q ss_pred ceEEEEeCCCCCChHHHHHHHhCCCCCCCCce------ecCC------CCCceeEeeeeEEecCCCcEEEEeCCCCCC
Q psy15351 168 NTTVMVVGVPNVGKSSIINALRSSHMKKGKAV------PVGP------KAGVTRSVMSQVKISEKPLIYILDTPGISL 233 (352)
Q Consensus 168 ~~~v~i~G~pnvGKStliN~l~~~~~~~~~~~------~~~~------~pg~T~~~~~~~~~~~~~~~~l~DtPGi~~ 233 (352)
..+|+++|..|+|||||+++|....-...... ...+ ..|.|...........+..+.++||||..+
T Consensus 8 irni~iiG~~~~GKTtL~~~ll~~~g~~~~~~~v~~~~~~~d~~~~e~~r~~ti~~~~~~~~~~~~~i~liDtPG~~d 85 (687)
T PRK13351 8 IRNIGILAHIDAGKTTLTERILFYTGKIHKMGEVEDGTTVTDWMPQEQERGITIESAATSCDWDNHRINLIDTPGHID 85 (687)
T ss_pred ccEEEEECCCCCcchhHHHHHHHhcCCccccccccCCcccCCCCHHHHhcCCCcccceEEEEECCEEEEEEECCCcHH
Confidence 46899999999999999999984210000000 0111 234444432222223455799999999864
No 456
>KOG0072|consensus
Probab=97.44 E-value=0.00058 Score=55.28 Aligned_cols=88 Identities=19% Similarity=0.177 Sum_probs=60.7
Q ss_pred HhhccCEEEEEEcCCC--CCCCcCHHHHHHHh----CCCCEEEEEEcccCCCccchHHH-----HHHHHhhcCCCCcEEE
Q psy15351 11 HLKNVDIVIEVHDSRM--PFTGRNHLLQQSVQ----NIRPMVLVLNKRDLINSKHESLI-----EEKVRKEQSHISEVIF 79 (352)
Q Consensus 11 ~i~~aD~vl~VvDar~--p~~~~~~~l~~~l~----~~k~~ilVlNK~Dl~~~~~~~~~-----~~~~~~~~~~~~~v~~ 79 (352)
..++.|.+|+|||..+ .++....++...++ .+..+++++||.|....-...+. ++.++++.+. ++-
T Consensus 82 Yy~dt~avIyVVDssd~dris~a~~el~~mL~E~eLq~a~llv~anKqD~~~~~t~~E~~~~L~l~~Lk~r~~~---Iv~ 158 (182)
T KOG0072|consen 82 YYADTDAVIYVVDSSDRDRISIAGVELYSMLQEEELQHAKLLVFANKQDYSGALTRSEVLKMLGLQKLKDRIWQ---IVK 158 (182)
T ss_pred HhcccceEEEEEeccchhhhhhhHHHHHHHhccHhhcCceEEEEeccccchhhhhHHHHHHHhChHHHhhheeE---EEe
Confidence 5688999999999864 33433344444443 45678899999998654322332 2334444444 888
Q ss_pred eecCCCCCCCHHHHHHHHHHHhhh
Q psy15351 80 TNCRNPNCKGVQKILPTLQHISDN 103 (352)
Q Consensus 80 iSa~~~~~~gi~~L~~~i~~~~~~ 103 (352)
.||.++ +|++...+|+.+-+++
T Consensus 159 tSA~kg--~Gld~~~DWL~~~l~~ 180 (182)
T KOG0072|consen 159 TSAVKG--EGLDPAMDWLQRPLKS 180 (182)
T ss_pred eccccc--cCCcHHHHHHHHHHhc
Confidence 999999 9999999999876653
No 457
>PRK00741 prfC peptide chain release factor 3; Provisional
Probab=97.44 E-value=0.0004 Score=69.54 Aligned_cols=24 Identities=21% Similarity=0.412 Sum_probs=21.2
Q ss_pred cceEEEEeCCCCCChHHHHHHHhC
Q psy15351 167 YNTTVMVVGVPNVGKSSIINALRS 190 (352)
Q Consensus 167 ~~~~v~i~G~pnvGKStliN~l~~ 190 (352)
...+|+++|.+|+|||||+++|+.
T Consensus 9 ~~Rni~IiGh~daGKTTL~e~Ll~ 32 (526)
T PRK00741 9 KRRTFAIISHPDAGKTTLTEKLLL 32 (526)
T ss_pred cCCEEEEECCCCCCHHHHHHHHHH
Confidence 346899999999999999999973
No 458
>PRK04004 translation initiation factor IF-2; Validated
Probab=97.44 E-value=0.00021 Score=72.47 Aligned_cols=24 Identities=25% Similarity=0.552 Sum_probs=22.0
Q ss_pred cceEEEEeCCCCCChHHHHHHHhC
Q psy15351 167 YNTTVMVVGVPNVGKSSIINALRS 190 (352)
Q Consensus 167 ~~~~v~i~G~pnvGKStliN~l~~ 190 (352)
++..|+++|.+|+|||||+|+|++
T Consensus 5 R~p~V~i~Gh~~~GKTSLl~~l~~ 28 (586)
T PRK04004 5 RQPIVVVLGHVDHGKTTLLDKIRG 28 (586)
T ss_pred CCcEEEEECCCCCCHHHHHHHHhC
Confidence 566899999999999999999986
No 459
>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=97.43 E-value=0.00043 Score=59.61 Aligned_cols=25 Identities=20% Similarity=0.493 Sum_probs=22.4
Q ss_pred cceEEEEeCCCCCChHHHHHHHhCC
Q psy15351 167 YNTTVMVVGVPNVGKSSIINALRSS 191 (352)
Q Consensus 167 ~~~~v~i~G~pnvGKStliN~l~~~ 191 (352)
..++|+++|.++||||||++++...
T Consensus 4 ~~~KivvvGd~~vGKTsli~~~~~~ 28 (182)
T cd04172 4 VKCKIVVVGDSQCGKTALLHVFAKD 28 (182)
T ss_pred ceEEEEEECCCCCCHHHHHHHHHhC
Confidence 4578999999999999999999863
No 460
>cd04173 Rnd2_Rho7 Rnd2/Rho7 subfamily. Rnd2/Rho7 is a member of the novel Rho subfamily Rnd, together with Rnd1/Rho6 and Rnd3/RhoE/Rho8. Rnd2/Rho7 is transiently expressed in radially migrating cells in the brain while they are within the subventricular zone of the hippocampus and cerebral cortex. These migrating cells typically develop into pyramidal neurons. Cells that exogenously expressed Rnd2/Rho7 failed to migrate to upper layers of the brain, suggesting that Rnd2/Rho7 plays a role in the radial migration and morphological changes of developing pyramidal neurons, and that Rnd2/Rho7 degradation is necessary for proper cellular migration. The Rnd2/Rho7 GEF Rapostlin is found primarily in the brain and together with Rnd2/Rho7 induces dendrite branching. Unlike Rnd1/Rho6 and Rnd3/RhoE/Rho8, which are RhoA antagonists, Rnd2/Rho7 binds the GEF Pragmin and significantly stimulates RhoA activity and Rho-A mediated cell contraction. Rnd2/Rho7 is also found to be expressed in sperma
Probab=97.43 E-value=0.00033 Score=62.34 Aligned_cols=22 Identities=23% Similarity=0.551 Sum_probs=20.7
Q ss_pred eEEEEeCCCCCChHHHHHHHhC
Q psy15351 169 TTVMVVGVPNVGKSSIINALRS 190 (352)
Q Consensus 169 ~~v~i~G~pnvGKStliN~l~~ 190 (352)
++|+++|.+|||||+|++++..
T Consensus 2 ~KIvvvGd~~vGKTsLi~~~~~ 23 (222)
T cd04173 2 CKIVVVGDAECGKTALLQVFAK 23 (222)
T ss_pred eEEEEECCCCCCHHHHHHHHHc
Confidence 5799999999999999999986
No 461
>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=97.42 E-value=0.00035 Score=60.09 Aligned_cols=59 Identities=17% Similarity=0.183 Sum_probs=34.5
Q ss_pred eEEEEeCCCCCChHHHHHHHhCCCCCCCCceecCCCCCceeEeeeeEEecCC-CcEEEEeCCCCC
Q psy15351 169 TTVMVVGVPNVGKSSIINALRSSHMKKGKAVPVGPKAGVTRSVMSQVKISEK-PLIYILDTPGIS 232 (352)
Q Consensus 169 ~~v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~~~pg~T~~~~~~~~~~~~-~~~~l~DtPGi~ 232 (352)
++|+++|.+|||||||++++..... .....++-|..-.. ..+...+. -.+.++||+|-.
T Consensus 1 ~Ki~vlG~~~vGKTsLi~~~~~~~f----~~~~~~T~g~~~~~-~~i~~~~~~~~l~iwDt~G~~ 60 (182)
T cd04128 1 LKIGLLGDAQIGKTSLMVKYVEGEF----DEDYIQTLGVNFME-KTISIRGTEITFSIWDLGGQR 60 (182)
T ss_pred CEEEEECCCCCCHHHHHHHHHhCCC----CCCCCCccceEEEE-EEEEECCEEEEEEEEeCCCch
Confidence 4799999999999999999986321 11122222221111 11222221 247899999964
No 462
>KOG0092|consensus
Probab=97.41 E-value=0.00044 Score=58.76 Aligned_cols=87 Identities=15% Similarity=0.074 Sum_probs=62.3
Q ss_pred HhhccCEEEEEEcCCCCCCCcCHHHHHHHh-----C--CCCEEEEEEcccCCCccc--hHHHHHHHHhhcCCCCcEEEee
Q psy15351 11 HLKNVDIVIEVHDSRMPFTGRNHLLQQSVQ-----N--IRPMVLVLNKRDLINSKH--ESLIEEKVRKEQSHISEVIFTN 81 (352)
Q Consensus 11 ~i~~aD~vl~VvDar~p~~~~~~~l~~~l~-----~--~k~~ilVlNK~Dl~~~~~--~~~~~~~~~~~~~~~~~v~~iS 81 (352)
...+|+.+|.|.|.++.-+. ..+..|++ . +.-+.+|.||+||..... ..+...|..+.|.. ++-+|
T Consensus 74 YyRgA~AAivvYDit~~~SF--~~aK~WvkeL~~~~~~~~vialvGNK~DL~~~R~V~~~ea~~yAe~~gll---~~ETS 148 (200)
T KOG0092|consen 74 YYRGANAAIVVYDITDEESF--EKAKNWVKELQRQASPNIVIALVGNKADLLERREVEFEEAQAYAESQGLL---FFETS 148 (200)
T ss_pred eecCCcEEEEEEecccHHHH--HHHHHHHHHHHhhCCCCeEEEEecchhhhhhcccccHHHHHHHHHhcCCE---EEEEe
Confidence 45789999999999875332 22223332 1 223455899999998432 45566666666776 88999
Q ss_pred cCCCCCCCHHHHHHHHHHHhhhc
Q psy15351 82 CRNPNCKGVQKILPTLQHISDNM 104 (352)
Q Consensus 82 a~~~~~~gi~~L~~~i~~~~~~~ 104 (352)
|+++ .|+++|+..|.+.++..
T Consensus 149 AKTg--~Nv~~if~~Ia~~lp~~ 169 (200)
T KOG0092|consen 149 AKTG--ENVNEIFQAIAEKLPCS 169 (200)
T ss_pred cccc--cCHHHHHHHHHHhccCc
Confidence 9999 99999999998877754
No 463
>COG0370 FeoB Fe2+ transport system protein B [Inorganic ion transport and metabolism]
Probab=97.41 E-value=0.00025 Score=71.12 Aligned_cols=85 Identities=21% Similarity=0.248 Sum_probs=60.5
Q ss_pred hccCEEEEEEcCCCCCCCcCHHH-HHHHhCCCCEEEEEEcccCCCccchHHHHHHHH-hhcCCCCcEEEeecCCCCCCCH
Q psy15351 13 KNVDIVIEVHDSRMPFTGRNHLL-QQSVQNIRPMVLVLNKRDLINSKHESLIEEKVR-KEQSHISEVIFTNCRNPNCKGV 90 (352)
Q Consensus 13 ~~aD~vl~VvDar~p~~~~~~~l-~~~l~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~-~~~~~~~~v~~iSa~~~~~~gi 90 (352)
+..|+|+.|+||.+- .++-.+ .++++.++|+++++|++|...+....--.+.+. ..|.+ |+++||+++ +|+
T Consensus 80 ~~~D~ivnVvDAtnL--eRnLyltlQLlE~g~p~ilaLNm~D~A~~~Gi~ID~~~L~~~LGvP---Vv~tvA~~g--~G~ 152 (653)
T COG0370 80 GKPDLIVNVVDATNL--ERNLYLTLQLLELGIPMILALNMIDEAKKRGIRIDIEKLSKLLGVP---VVPTVAKRG--EGL 152 (653)
T ss_pred CCCCEEEEEcccchH--HHHHHHHHHHHHcCCCeEEEeccHhhHHhcCCcccHHHHHHHhCCC---EEEEEeecC--CCH
Confidence 567999999999863 233222 244447899999999999876643221122232 34776 999999999 999
Q ss_pred HHHHHHHHHHhhhc
Q psy15351 91 QKILPTLQHISDNM 104 (352)
Q Consensus 91 ~~L~~~i~~~~~~~ 104 (352)
+++++.+.+..+..
T Consensus 153 ~~l~~~i~~~~~~~ 166 (653)
T COG0370 153 EELKRAIIELAESK 166 (653)
T ss_pred HHHHHHHHHhcccc
Confidence 99999987665543
No 464
>PF00071 Ras: Ras family; InterPro: IPR001806 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. ; GO: 0005525 GTP binding, 0007264 small GTPase mediated signal transduction; PDB: 1M7B_A 2V55_B 3EG5_C 3LAW_A 1YHN_A 1T91_B 1HE8_B 3SEA_B 3T5G_A 1XTS_A ....
Probab=97.41 E-value=0.0002 Score=59.74 Aligned_cols=58 Identities=31% Similarity=0.411 Sum_probs=34.4
Q ss_pred EEEEeCCCCCChHHHHHHHhCCCCCCCCceecCCCCCceeEeeeeEEecC-CCcEEEEeCCCCC
Q psy15351 170 TVMVVGVPNVGKSSIINALRSSHMKKGKAVPVGPKAGVTRSVMSQVKISE-KPLIYILDTPGIS 232 (352)
Q Consensus 170 ~v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~~~pg~T~~~~~~~~~~~-~~~~~l~DtPGi~ 232 (352)
+|+++|.++||||||++++.+... .....+..|...... .+...+ .-.+.++||+|-.
T Consensus 1 Ki~vvG~~~vGKtsl~~~~~~~~~----~~~~~~t~~~~~~~~-~~~~~~~~~~l~i~D~~g~~ 59 (162)
T PF00071_consen 1 KIVVVGDSGVGKTSLINRLINGEF----PENYIPTIGIDSYSK-EVSIDGKPVNLEIWDTSGQE 59 (162)
T ss_dssp EEEEEESTTSSHHHHHHHHHHSST----TSSSETTSSEEEEEE-EEEETTEEEEEEEEEETTSG
T ss_pred CEEEECCCCCCHHHHHHHHHhhcc----ccccccccccccccc-cccccccccccccccccccc
Confidence 589999999999999999986321 111222223222211 122211 1158899999953
No 465
>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=97.41 E-value=0.00054 Score=69.73 Aligned_cols=65 Identities=17% Similarity=0.228 Sum_probs=39.7
Q ss_pred EEEEeCCCCCChHHHHHHHhCCC--CCCC-CceecC------CCCCceeEeeee-EEec--CC--CcEEEEeCCCCCCC
Q psy15351 170 TVMVVGVPNVGKSSIINALRSSH--MKKG-KAVPVG------PKAGVTRSVMSQ-VKIS--EK--PLIYILDTPGISLP 234 (352)
Q Consensus 170 ~v~i~G~pnvGKStliN~l~~~~--~~~~-~~~~~~------~~pg~T~~~~~~-~~~~--~~--~~~~l~DtPGi~~~ 234 (352)
+++++|.+++|||||+++|.... +... ....+. ...|.|...... +.+. ++ -.+.|+||||....
T Consensus 5 Ni~IIGh~d~GKTTL~~rLl~~~g~i~~~~~~~~~~D~~~~ErerGiTi~~~~v~~~~~~~~g~~~~l~liDTPG~~dF 83 (595)
T TIGR01393 5 NFSIIAHIDHGKSTLADRLLEYTGAISEREMREQVLDSMDLERERGITIKAQAVRLNYKAKDGETYVLNLIDTPGHVDF 83 (595)
T ss_pred EEEEECCCCCCHHHHHHHHHHHcCCCccccccccccCCChHHHhcCCCeeeeEEEEEEEcCCCCEEEEEEEECCCcHHH
Confidence 69999999999999999998521 0000 011111 234777765431 1111 22 25789999999753
No 466
>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=97.39 E-value=0.0005 Score=60.25 Aligned_cols=57 Identities=23% Similarity=0.356 Sum_probs=33.8
Q ss_pred EEEEeCCCCCChHHHHHHHhCCCCCCCCceecCCCCCceeEeee-eEEecC-CCcEEEEeCCCCC
Q psy15351 170 TVMVVGVPNVGKSSIINALRSSHMKKGKAVPVGPKAGVTRSVMS-QVKISE-KPLIYILDTPGIS 232 (352)
Q Consensus 170 ~v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~~~pg~T~~~~~-~~~~~~-~~~~~l~DtPGi~ 232 (352)
.|+++|.+|||||||++++...... ....++.| .+... .+...+ .-.+.++||+|-.
T Consensus 2 ~vvvlG~~gVGKTSli~r~~~~~f~----~~~~~Ti~--~~~~~~~i~~~~~~v~l~iwDtaGqe 60 (202)
T cd04120 2 QVIIIGSRGVGKTSLMRRFTDDTFC----EACKSGVG--VDFKIKTVELRGKKIRLQIWDTAGQE 60 (202)
T ss_pred EEEEECcCCCCHHHHHHHHHhCCCC----CcCCCcce--eEEEEEEEEECCEEEEEEEEeCCCch
Confidence 5899999999999999999853211 11112222 22211 222221 1257899999964
No 467
>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=97.39 E-value=0.00049 Score=58.94 Aligned_cols=59 Identities=19% Similarity=0.175 Sum_probs=35.0
Q ss_pred eEEEEeCCCCCChHHHHHHHhCCCCCCCCceecCCCCCceeEeeeeEEecC-CCcEEEEeCCCCCC
Q psy15351 169 TTVMVVGVPNVGKSSIINALRSSHMKKGKAVPVGPKAGVTRSVMSQVKISE-KPLIYILDTPGISL 233 (352)
Q Consensus 169 ~~v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~~~pg~T~~~~~~~~~~~-~~~~~l~DtPGi~~ 233 (352)
++++++|.++||||||+.++....... ...++-|.+- ...+...+ .-.+.++||+|-..
T Consensus 2 ~kivv~G~~~vGKTsli~~~~~~~f~~----~~~~Ti~~~~--~~~~~~~~~~v~l~i~Dt~G~~~ 61 (176)
T cd04133 2 IKCVTVGDGAVGKTCMLICYTSNKFPT----DYIPTVFDNF--SANVSVDGNTVNLGLWDTAGQED 61 (176)
T ss_pred eEEEEECCCCCcHHHHHHHHhcCCCCC----CCCCcceeee--EEEEEECCEEEEEEEEECCCCcc
Confidence 579999999999999999998632211 1112222111 11122221 12578999999654
No 468
>COG0481 LepA Membrane GTPase LepA [Cell envelope biogenesis, outer membrane]
Probab=97.39 E-value=0.00068 Score=65.20 Aligned_cols=93 Identities=14% Similarity=0.208 Sum_probs=65.5
Q ss_pred HHHhhccCEEEEEEcCCCCCCCcC-HHHHHHHhCCCCEEEEEEcccCCCccchHHHHHHHHh-hcCCCCcEEEeecCCCC
Q psy15351 9 EKHLKNVDIVIEVHDSRMPFTGRN-HLLQQSVQNIRPMVLVLNKRDLINSKHESLIEEKVRK-EQSHISEVIFTNCRNPN 86 (352)
Q Consensus 9 ~~~i~~aD~vl~VvDar~p~~~~~-~~l~~~l~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~-~~~~~~~v~~iSa~~~~ 86 (352)
.+.++.|.-.|+|+||..+..... ..+...+..+-.++-|+||+||...+. +...+.+.. .|++....+.+||++|
T Consensus 94 SRSLAACEGalLvVDAsQGveAQTlAN~YlAle~~LeIiPViNKIDLP~Adp-ervk~eIe~~iGid~~dav~~SAKtG- 171 (603)
T COG0481 94 SRSLAACEGALLVVDASQGVEAQTLANVYLALENNLEIIPVLNKIDLPAADP-ERVKQEIEDIIGIDASDAVLVSAKTG- 171 (603)
T ss_pred hhhHhhCCCcEEEEECccchHHHHHHHHHHHHHcCcEEEEeeecccCCCCCH-HHHHHHHHHHhCCCcchheeEecccC-
Confidence 456778888999999987654321 112222225677899999999976543 333333322 3666667899999999
Q ss_pred CCCHHHHHHHHHHHhhhc
Q psy15351 87 CKGVQKILPTLQHISDNM 104 (352)
Q Consensus 87 ~~gi~~L~~~i~~~~~~~ 104 (352)
.|++++++.|.+.+|..
T Consensus 172 -~gI~~iLe~Iv~~iP~P 188 (603)
T COG0481 172 -IGIEDVLEAIVEKIPPP 188 (603)
T ss_pred -CCHHHHHHHHHhhCCCC
Confidence 99999999999888754
No 469
>KOG0076|consensus
Probab=97.36 E-value=0.00041 Score=57.94 Aligned_cols=100 Identities=15% Similarity=0.099 Sum_probs=67.9
Q ss_pred hHHHHHHH-HhhccCEEEEEEcCCCCCCCc--CHHHHHHHh----CCCCEEEEEEcccCCCccchHHHHHHHH--hh-cC
Q psy15351 3 RGLKDIEK-HLKNVDIVIEVHDSRMPFTGR--NHLLQQSVQ----NIRPMVLVLNKRDLINSKHESLIEEKVR--KE-QS 72 (352)
Q Consensus 3 ~~~~~~~~-~i~~aD~vl~VvDar~p~~~~--~~~l~~~l~----~~k~~ilVlNK~Dl~~~~~~~~~~~~~~--~~-~~ 72 (352)
+.++.+|+ .-..++.|++|+||.++--.. ...+...+. .+.|+++.+||-|+-+.-...+....+. +. +-
T Consensus 80 e~lrSlw~~yY~~~H~ii~viDa~~~eR~~~~~t~~~~v~~~E~leg~p~L~lankqd~q~~~~~~El~~~~~~~e~~~~ 159 (197)
T KOG0076|consen 80 ESLRSLWKKYYWLAHGIIYVIDATDRERFEESKTAFEKVVENEKLEGAPVLVLANKQDLQNAMEAAELDGVFGLAELIPR 159 (197)
T ss_pred HHHHHHHHHHHHHhceeEEeecCCCHHHHHHHHHHHHHHHHHHHhcCCchhhhcchhhhhhhhhHHHHHHHhhhhhhcCC
Confidence 45667775 458899999999998742111 122323222 6899999999999977655555544443 11 11
Q ss_pred CCCcEEEeecCCCCCCCHHHHHHHHHHHhhhc
Q psy15351 73 HISEVIFTNCRNPNCKGVQKILPTLQHISDNM 104 (352)
Q Consensus 73 ~~~~v~~iSa~~~~~~gi~~L~~~i~~~~~~~ 104 (352)
+..++.++||.++ +|+++-+.|+...++.+
T Consensus 160 rd~~~~pvSal~g--egv~egi~w~v~~~~kn 189 (197)
T KOG0076|consen 160 RDNPFQPVSALTG--EGVKEGIEWLVKKLEKN 189 (197)
T ss_pred ccCccccchhhhc--ccHHHHHHHHHHHHhhc
Confidence 1125789999999 99999999988777654
No 470
>PRK10218 GTP-binding protein; Provisional
Probab=97.36 E-value=0.00059 Score=69.35 Aligned_cols=66 Identities=17% Similarity=0.224 Sum_probs=42.6
Q ss_pred eEEEEeCCCCCChHHHHHHHhCCC--CCCCCc--------eecCCCCCceeEeeeeEEecCCCcEEEEeCCCCCCC
Q psy15351 169 TTVMVVGVPNVGKSSIINALRSSH--MKKGKA--------VPVGPKAGVTRSVMSQVKISEKPLIYILDTPGISLP 234 (352)
Q Consensus 169 ~~v~i~G~pnvGKStliN~l~~~~--~~~~~~--------~~~~~~pg~T~~~~~~~~~~~~~~~~l~DtPGi~~~ 234 (352)
-+|+++|..++|||||+++|.... +..... .......|.|...........+..+.++||||....
T Consensus 6 RnIaIiGh~d~GKTTLv~~Ll~~~g~~~~~~~~~~~v~D~~~~E~erGiTi~~~~~~i~~~~~~inliDTPG~~df 81 (607)
T PRK10218 6 RNIAIIAHVDHGKTTLVDKLLQQSGTFDSRAETQERVMDSNDLEKERGITILAKNTAIKWNDYRINIVDTPGHADF 81 (607)
T ss_pred eEEEEECCCCCcHHHHHHHHHHhcCCcccccccceeeeccccccccCceEEEEEEEEEecCCEEEEEEECCCcchh
Confidence 469999999999999999998521 100000 011234677766543333344567999999997653
No 471
>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=97.34 E-value=0.00054 Score=61.35 Aligned_cols=25 Identities=20% Similarity=0.446 Sum_probs=22.4
Q ss_pred cceEEEEeCCCCCChHHHHHHHhCC
Q psy15351 167 YNTTVMVVGVPNVGKSSIINALRSS 191 (352)
Q Consensus 167 ~~~~v~i~G~pnvGKStliN~l~~~ 191 (352)
..++|+++|.+|||||+|++.+...
T Consensus 12 ~~~KIvvvGd~~VGKTsLi~r~~~~ 36 (232)
T cd04174 12 MRCKLVLVGDVQCGKTAMLQVLAKD 36 (232)
T ss_pred eeEEEEEECCCCCcHHHHHHHHhcC
Confidence 4589999999999999999999863
No 472
>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=97.32 E-value=0.00051 Score=61.11 Aligned_cols=21 Identities=14% Similarity=0.411 Sum_probs=19.5
Q ss_pred EEEEeCCCCCChHHHHHHHhC
Q psy15351 170 TVMVVGVPNVGKSSIINALRS 190 (352)
Q Consensus 170 ~v~i~G~pnvGKStliN~l~~ 190 (352)
+|+++|..+.|||||+++|..
T Consensus 2 NvaiiGhvd~GKTTL~d~Ll~ 22 (222)
T cd01885 2 NICIIAHVDHGKTTLSDSLLA 22 (222)
T ss_pred eEEEECCCCCCHHHHHHHHHH
Confidence 589999999999999999975
No 473
>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=97.32 E-value=0.00068 Score=58.72 Aligned_cols=23 Identities=26% Similarity=0.436 Sum_probs=21.2
Q ss_pred ceEEEEeCCCCCChHHHHHHHhC
Q psy15351 168 NTTVMVVGVPNVGKSSIINALRS 190 (352)
Q Consensus 168 ~~~v~i~G~pnvGKStliN~l~~ 190 (352)
.++|+++|.+|||||||++.+..
T Consensus 3 ~~ki~~vG~~~vGKTsli~~~~~ 25 (191)
T cd01875 3 SIKCVVVGDGAVGKTCLLICYTT 25 (191)
T ss_pred cEEEEEECCCCCCHHHHHHHHHh
Confidence 37899999999999999999985
No 474
>KOG0073|consensus
Probab=97.31 E-value=0.0015 Score=54.19 Aligned_cols=94 Identities=17% Similarity=0.126 Sum_probs=62.4
Q ss_pred hHHHHHHH-HhhccCEEEEEEcCCCCCCCcC--HHHHHHHh----CCCCEEEEEEcccCCCccchHHHH------HHHHh
Q psy15351 3 RGLKDIEK-HLKNVDIVIEVHDSRMPFTGRN--HLLQQSVQ----NIRPMVLVLNKRDLINSKHESLIE------EKVRK 69 (352)
Q Consensus 3 ~~~~~~~~-~i~~aD~vl~VvDar~p~~~~~--~~l~~~l~----~~k~~ilVlNK~Dl~~~~~~~~~~------~~~~~ 69 (352)
+.++..|+ +.+.+|.+|+|+|..++..-.+ .++.+++. .+.|++++.||.|+.+.-...++. +.++.
T Consensus 71 ~~lr~~W~nYfestdglIwvvDssD~~r~~e~~~~L~~lL~eerlaG~~~Lvlank~dl~~~l~~~~i~~~~~L~~l~ks 150 (185)
T KOG0073|consen 71 KTLRSYWKNYFESTDGLIWVVDSSDRMRMQECKQELTELLVEERLAGAPLLVLANKQDLPGALSLEEISKALDLEELAKS 150 (185)
T ss_pred chhHHHHHHhhhccCeEEEEEECchHHHHHHHHHHHHHHHhhhhhcCCceEEEEecCcCccccCHHHHHHhhCHHHhccc
Confidence 44566664 7799999999999977643222 23333332 578999999999997543322222 22233
Q ss_pred hcCCCCcEEEeecCCCCCCCHHHHHHHHHHHh
Q psy15351 70 EQSHISEVIFTNCRNPNCKGVQKILPTLQHIS 101 (352)
Q Consensus 70 ~~~~~~~v~~iSa~~~~~~gi~~L~~~i~~~~ 101 (352)
...+ ++-+|+.++ +++.+=++|+..-+
T Consensus 151 ~~~~---l~~cs~~tg--e~l~~gidWL~~~l 177 (185)
T KOG0073|consen 151 HHWR---LVKCSAVTG--EDLLEGIDWLCDDL 177 (185)
T ss_pred cCce---EEEEecccc--ccHHHHHHHHHHHH
Confidence 3444 888999999 88888888876543
No 475
>cd04173 Rnd2_Rho7 Rnd2/Rho7 subfamily. Rnd2/Rho7 is a member of the novel Rho subfamily Rnd, together with Rnd1/Rho6 and Rnd3/RhoE/Rho8. Rnd2/Rho7 is transiently expressed in radially migrating cells in the brain while they are within the subventricular zone of the hippocampus and cerebral cortex. These migrating cells typically develop into pyramidal neurons. Cells that exogenously expressed Rnd2/Rho7 failed to migrate to upper layers of the brain, suggesting that Rnd2/Rho7 plays a role in the radial migration and morphological changes of developing pyramidal neurons, and that Rnd2/Rho7 degradation is necessary for proper cellular migration. The Rnd2/Rho7 GEF Rapostlin is found primarily in the brain and together with Rnd2/Rho7 induces dendrite branching. Unlike Rnd1/Rho6 and Rnd3/RhoE/Rho8, which are RhoA antagonists, Rnd2/Rho7 binds the GEF Pragmin and significantly stimulates RhoA activity and Rho-A mediated cell contraction. Rnd2/Rho7 is also found to be expressed in sperma
Probab=97.29 E-value=0.0013 Score=58.51 Aligned_cols=85 Identities=16% Similarity=0.078 Sum_probs=53.8
Q ss_pred HhhccCEEEEEEcCCCCCCCcCH--HHHHHHh---CCCCEEEEEEcccCCCccc--------------hHHHHHHHHhhc
Q psy15351 11 HLKNVDIVIEVHDSRMPFTGRNH--LLQQSVQ---NIRPMVLVLNKRDLINSKH--------------ESLIEEKVRKEQ 71 (352)
Q Consensus 11 ~i~~aD~vl~VvDar~p~~~~~~--~l~~~l~---~~k~~ilVlNK~Dl~~~~~--------------~~~~~~~~~~~~ 71 (352)
....+|++|+|.|..++.+..+- .+...+. .+.|+++|.||+||.+... .++-.++-++.+
T Consensus 69 ~~~~~d~illvfdis~~~Sf~~i~~~w~~~~~~~~~~~piiLVgnK~DL~~~~~~~~~~~~~~~~pIs~e~g~~~ak~~~ 148 (222)
T cd04173 69 AYPDSDAVLICFDISRPETLDSVLKKWQGETQEFCPNAKVVLVGCKLDMRTDLATLRELSKQRLIPVTHEQGTVLAKQVG 148 (222)
T ss_pred hccCCCEEEEEEECCCHHHHHHHHHHHHHHHHhhCCCCCEEEEEECcccccchhhhhhhhhccCCccCHHHHHHHHHHcC
Confidence 46899999999999887433221 1222222 4689999999999965310 111122222334
Q ss_pred CCCCcEEEeecCCCCCC-CHHHHHHHHHH
Q psy15351 72 SHISEVIFTNCRNPNCK-GVQKILPTLQH 99 (352)
Q Consensus 72 ~~~~~v~~iSa~~~~~~-gi~~L~~~i~~ 99 (352)
.. .++.+||+++ . |+++++..+..
T Consensus 149 ~~--~y~E~SAk~~--~~~V~~~F~~~~~ 173 (222)
T cd04173 149 AV--SYVECSSRSS--ERSVRDVFHVATV 173 (222)
T ss_pred CC--EEEEcCCCcC--CcCHHHHHHHHHH
Confidence 21 4888999988 7 59999887654
No 476
>PRK00741 prfC peptide chain release factor 3; Provisional
Probab=97.29 E-value=0.0021 Score=64.47 Aligned_cols=52 Identities=21% Similarity=0.216 Sum_probs=39.9
Q ss_pred HHHHHHHhhccCEEEEEEcCCCCCCCcCHHHHHHHh-CCCCEEEEEEcccCCC
Q psy15351 5 LKDIEKHLKNVDIVIEVHDSRMPFTGRNHLLQQSVQ-NIRPMVLVLNKRDLIN 56 (352)
Q Consensus 5 ~~~~~~~i~~aD~vl~VvDar~p~~~~~~~l~~~l~-~~k~~ilVlNK~Dl~~ 56 (352)
...++..+..+|.+++|+|+..........+.+... .+.|+++++||+|+..
T Consensus 93 ~~~~~~~l~~aD~aIlVvDa~~gv~~~t~~l~~~~~~~~iPiiv~iNK~D~~~ 145 (526)
T PRK00741 93 SEDTYRTLTAVDSALMVIDAAKGVEPQTRKLMEVCRLRDTPIFTFINKLDRDG 145 (526)
T ss_pred HHHHHHHHHHCCEEEEEEecCCCCCHHHHHHHHHHHhcCCCEEEEEECCcccc
Confidence 455778899999999999998776444344444443 6899999999999864
No 477
>TIGR00073 hypB hydrogenase accessory protein HypB. HypB is implicated in insertion of nickel into the large subunit of NiFe hydrogenases.
Probab=97.28 E-value=0.0013 Score=57.73 Aligned_cols=56 Identities=20% Similarity=0.298 Sum_probs=41.3
Q ss_pred CCCEEEEEEcccCCCcc--chHHHHHHHHhhcCCCCcEEEeecCCCCCCCHHHHHHHHHHH
Q psy15351 42 IRPMVLVLNKRDLINSK--HESLIEEKVRKEQSHISEVIFTNCRNPNCKGVQKILPTLQHI 100 (352)
Q Consensus 42 ~k~~ilVlNK~Dl~~~~--~~~~~~~~~~~~~~~~~~v~~iSa~~~~~~gi~~L~~~i~~~ 100 (352)
.++.++|+||+|+.+.. ......+.+++.+ +..+++.+||+++ .|++++++++.+.
T Consensus 148 ~~a~iiv~NK~Dl~~~~~~~~~~~~~~l~~~~-~~~~i~~~Sa~~g--~gv~~l~~~i~~~ 205 (207)
T TIGR00073 148 KEADLIVINKADLAEAVGFDVEKMKADAKKIN-PEAEIILMSLKTG--EGLDEWLEFLEGQ 205 (207)
T ss_pred hhCCEEEEEHHHccccchhhHHHHHHHHHHhC-CCCCEEEEECCCC--CCHHHHHHHHHHh
Confidence 56789999999998642 2344555554433 2236999999999 9999999998754
No 478
>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=97.26 E-value=0.00027 Score=68.78 Aligned_cols=64 Identities=22% Similarity=0.325 Sum_probs=40.9
Q ss_pred eEEEEeCCCCCChHHHHHHHhCCC--CCCC-------------C------------ceecCCCCCceeEeeeeEEecCCC
Q psy15351 169 TTVMVVGVPNVGKSSIINALRSSH--MKKG-------------K------------AVPVGPKAGVTRSVMSQVKISEKP 221 (352)
Q Consensus 169 ~~v~i~G~pnvGKStliN~l~~~~--~~~~-------------~------------~~~~~~~pg~T~~~~~~~~~~~~~ 221 (352)
++++++|.+++|||||+++|+... +..+ . ........|.|.+.........+.
T Consensus 1 ~~~~~vGhvd~GKSTL~~~ll~~~g~i~~~~~~~~~~~~~~~g~~~~~~~~~~~~D~~~eE~~rgiTid~~~~~~~~~~~ 80 (406)
T TIGR02034 1 LRFLTCGSVDDGKSTLIGRLLHDTKQIYEDQLAALERDSKKHGTQGGEIDLALLVDGLQAEREQGITIDVAYRYFSTDKR 80 (406)
T ss_pred CeEEEECCCCCCchhhhHHHHHHcCCcCHHHHHHHHHHHHhhCCCcCceeeeeeccCChHHhcCCcCeEeeeEEEccCCe
Confidence 468999999999999999997421 0000 0 000112346677765444444566
Q ss_pred cEEEEeCCCCC
Q psy15351 222 LIYILDTPGIS 232 (352)
Q Consensus 222 ~~~l~DtPGi~ 232 (352)
++.|+||||..
T Consensus 81 ~~~liDtPGh~ 91 (406)
T TIGR02034 81 KFIVADTPGHE 91 (406)
T ss_pred EEEEEeCCCHH
Confidence 89999999953
No 479
>KOG3859|consensus
Probab=97.26 E-value=0.00039 Score=62.38 Aligned_cols=66 Identities=18% Similarity=0.294 Sum_probs=43.2
Q ss_pred CcceEEEEeCCCCCChHHHHHHHhCCCCCCCCceecCCCCCceeEeeeeEEecCC---CcEEEEeCCCCCCC
Q psy15351 166 VYNTTVMVVGVPNVGKSSIINALRSSHMKKGKAVPVGPKAGVTRSVMSQVKISEK---PLIYILDTPGISLP 234 (352)
Q Consensus 166 ~~~~~v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~~~pg~T~~~~~~~~~~~~---~~~~l~DtPGi~~~ 234 (352)
+-.++|+-||.+|.|||||+++|.+..+. .....+..|++-...++ +.+-.+ -.++++||.|+++-
T Consensus 40 GF~FNilCvGETg~GKsTLmdtLFNt~f~--~~p~~H~~~~V~L~~~T-yelqEsnvrlKLtiv~tvGfGDQ 108 (406)
T KOG3859|consen 40 GFCFNILCVGETGLGKSTLMDTLFNTKFE--SEPSTHTLPNVKLQANT-YELQESNVRLKLTIVDTVGFGDQ 108 (406)
T ss_pred CceEEEEEeccCCccHHHHHHHHhccccC--CCCCccCCCCceeecch-hhhhhcCeeEEEEEEeecccccc
Confidence 45689999999999999999999985432 22334455554332221 111111 14789999999974
No 480
>PF00071 Ras: Ras family; InterPro: IPR001806 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. ; GO: 0005525 GTP binding, 0007264 small GTPase mediated signal transduction; PDB: 1M7B_A 2V55_B 3EG5_C 3LAW_A 1YHN_A 1T91_B 1HE8_B 3SEA_B 3T5G_A 1XTS_A ....
Probab=97.25 E-value=0.0011 Score=55.23 Aligned_cols=86 Identities=21% Similarity=0.208 Sum_probs=59.0
Q ss_pred HHhhccCEEEEEEcCCCCCCCcC-HHHHHHHh---C-CCCEEEEEEcccCCCccc--hHHHHHHHHhhcCCCCcEEEeec
Q psy15351 10 KHLKNVDIVIEVHDSRMPFTGRN-HLLQQSVQ---N-IRPMVLVLNKRDLINSKH--ESLIEEKVRKEQSHISEVIFTNC 82 (352)
Q Consensus 10 ~~i~~aD~vl~VvDar~p~~~~~-~~l~~~l~---~-~k~~ilVlNK~Dl~~~~~--~~~~~~~~~~~~~~~~~v~~iSa 82 (352)
..+.++|++++|.|..++-+... ..+...+. . ..|+++|.||.|+..... .++..++.++.+. +++.+||
T Consensus 67 ~~~~~~~~~ii~fd~~~~~S~~~~~~~~~~i~~~~~~~~~iivvg~K~D~~~~~~v~~~~~~~~~~~~~~---~~~e~Sa 143 (162)
T PF00071_consen 67 IFYRNSDAIIIVFDVTDEESFENLKKWLEEIQKYKPEDIPIIVVGNKSDLSDEREVSVEEAQEFAKELGV---PYFEVSA 143 (162)
T ss_dssp HHHTTESEEEEEEETTBHHHHHTHHHHHHHHHHHSTTTSEEEEEEETTTGGGGSSSCHHHHHHHHHHTTS---EEEEEBT
T ss_pred ccccccccccccccccccccccccccccccccccccccccceeeeccccccccccchhhHHHHHHHHhCC---EEEEEEC
Confidence 46789999999999886533222 11222222 3 579999999999986332 3444555555554 4899999
Q ss_pred CCCCCCCHHHHHHHHHHH
Q psy15351 83 RNPNCKGVQKILPTLQHI 100 (352)
Q Consensus 83 ~~~~~~gi~~L~~~i~~~ 100 (352)
+++ .|+.+++..+.+.
T Consensus 144 ~~~--~~v~~~f~~~i~~ 159 (162)
T PF00071_consen 144 KNG--ENVKEIFQELIRK 159 (162)
T ss_dssp TTT--TTHHHHHHHHHHH
T ss_pred CCC--CCHHHHHHHHHHH
Confidence 999 9999988777543
No 481
>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=97.24 E-value=0.00033 Score=61.86 Aligned_cols=21 Identities=29% Similarity=0.482 Sum_probs=19.5
Q ss_pred EEEEeCCCCCChHHHHHHHhC
Q psy15351 170 TVMVVGVPNVGKSSIINALRS 190 (352)
Q Consensus 170 ~v~i~G~pnvGKStliN~l~~ 190 (352)
+|+++|.+++|||||+++|+.
T Consensus 2 nv~iiG~~~~GKTtL~~~l~~ 22 (213)
T cd04167 2 NVAIAGHLHHGKTSLLDMLIE 22 (213)
T ss_pred cEEEEcCCCCCHHHHHHHHHH
Confidence 489999999999999999985
No 482
>KOG0084|consensus
Probab=97.24 E-value=0.0021 Score=54.88 Aligned_cols=90 Identities=19% Similarity=0.122 Sum_probs=60.9
Q ss_pred HHHHhhccCEEEEEEcCCCCCCCcCHHHHHHHh-------CCCCEEEEEEcccCCCccch--HHHHHHHHhhcCCCCcEE
Q psy15351 8 IEKHLKNVDIVIEVHDSRMPFTGRNHLLQQSVQ-------NIRPMVLVLNKRDLINSKHE--SLIEEKVRKEQSHISEVI 78 (352)
Q Consensus 8 ~~~~i~~aD~vl~VvDar~p~~~~~~~l~~~l~-------~~k~~ilVlNK~Dl~~~~~~--~~~~~~~~~~~~~~~~v~ 78 (352)
+...-..|+.||+|.|.++-.+..+ +.+|+. .+.|.++|.||+|+.+...+ ++..++..+.+.+ .++
T Consensus 75 t~syYR~ahGii~vyDiT~~~SF~~--v~~Wi~Ei~~~~~~~v~~lLVGNK~Dl~~~~~v~~~~a~~fa~~~~~~--~f~ 150 (205)
T KOG0084|consen 75 TSSYYRGAHGIIFVYDITKQESFNN--VKRWIQEIDRYASENVPKLLVGNKCDLTEKRVVSTEEAQEFADELGIP--IFL 150 (205)
T ss_pred hHhhccCCCeEEEEEEcccHHHhhh--HHHHHHHhhhhccCCCCeEEEeeccccHhheecCHHHHHHHHHhcCCc--cee
Confidence 4456688999999999987543322 222221 45689999999999876542 2333333333443 378
Q ss_pred EeecCCCCCCCHHHHHHHHHHHhhh
Q psy15351 79 FTNCRNPNCKGVQKILPTLQHISDN 103 (352)
Q Consensus 79 ~iSa~~~~~~gi~~L~~~i~~~~~~ 103 (352)
.+||+++ .++++.+..+...+..
T Consensus 151 ETSAK~~--~NVe~~F~~la~~lk~ 173 (205)
T KOG0084|consen 151 ETSAKDS--TNVEDAFLTLAKELKQ 173 (205)
T ss_pred ecccCCc--cCHHHHHHHHHHHHHH
Confidence 8999999 9999988877655543
No 483
>PRK12740 elongation factor G; Reviewed
Probab=97.22 E-value=0.0021 Score=66.67 Aligned_cols=53 Identities=15% Similarity=0.161 Sum_probs=39.7
Q ss_pred HHHHHHHhhccCEEEEEEcCCCCCCCcCHHHHHHHh-CCCCEEEEEEcccCCCc
Q psy15351 5 LKDIEKHLKNVDIVIEVHDSRMPFTGRNHLLQQSVQ-NIRPMVLVLNKRDLINS 57 (352)
Q Consensus 5 ~~~~~~~i~~aD~vl~VvDar~p~~~~~~~l~~~l~-~~k~~ilVlNK~Dl~~~ 57 (352)
...+...+..+|++++|+|+..+.......+...+. .+.|+++|+||+|+...
T Consensus 74 ~~~~~~~l~~aD~vllvvd~~~~~~~~~~~~~~~~~~~~~p~iiv~NK~D~~~~ 127 (668)
T PRK12740 74 TGEVERALRVLDGAVVVVCAVGGVEPQTETVWRQAEKYGVPRIIFVNKMDRAGA 127 (668)
T ss_pred HHHHHHHHHHhCeEEEEEeCCCCcCHHHHHHHHHHHHcCCCEEEEEECCCCCCC
Confidence 356677889999999999998766544433333333 67899999999998753
No 484
>cd04102 RabL3 RabL3 (Rab-like3) subfamily. RabL3s 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, RabL3 lacks a prenylation site at the C-terminus. The specific function of RabL3 remains unknown.
Probab=97.22 E-value=0.00085 Score=58.81 Aligned_cols=23 Identities=39% Similarity=0.615 Sum_probs=20.8
Q ss_pred eEEEEeCCCCCChHHHHHHHhCC
Q psy15351 169 TTVMVVGVPNVGKSSIINALRSS 191 (352)
Q Consensus 169 ~~v~i~G~pnvGKStliN~l~~~ 191 (352)
++|+++|.++||||||++.+.+.
T Consensus 1 vKIvlvGd~gVGKTSLi~~~~~~ 23 (202)
T cd04102 1 VRVLVVGDSGVGKSSLVHLICKN 23 (202)
T ss_pred CEEEEECCCCCCHHHHHHHHHcC
Confidence 47999999999999999999963
No 485
>PTZ00132 GTP-binding nuclear protein Ran; Provisional
Probab=97.21 E-value=0.0019 Score=57.02 Aligned_cols=88 Identities=19% Similarity=0.091 Sum_probs=57.9
Q ss_pred HhhccCEEEEEEcCCCCCCCcC-HHHH-HHHh--CCCCEEEEEEcccCCCccchHHHHHHHHhhcCCCCcEEEeecCCCC
Q psy15351 11 HLKNVDIVIEVHDSRMPFTGRN-HLLQ-QSVQ--NIRPMVLVLNKRDLINSKHESLIEEKVRKEQSHISEVIFTNCRNPN 86 (352)
Q Consensus 11 ~i~~aD~vl~VvDar~p~~~~~-~~l~-~~l~--~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~v~~iSa~~~~ 86 (352)
....+|.+++|.|.....+... ..+. .+.+ .+.|+++|.||+|+.+........++.+..+.. ++.+||+++
T Consensus 78 ~~~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~i~lv~nK~Dl~~~~~~~~~~~~~~~~~~~---~~e~Sa~~~- 153 (215)
T PTZ00132 78 YYIKGQCAIIMFDVTSRITYKNVPNWHRDIVRVCENIPIVLVGNKVDVKDRQVKARQITFHRKKNLQ---YYDISAKSN- 153 (215)
T ss_pred HhccCCEEEEEEECcCHHHHHHHHHHHHHHHHhCCCCCEEEEEECccCccccCCHHHHHHHHHcCCE---EEEEeCCCC-
Confidence 4568999999999986543211 1111 1111 467899999999997543323333444444444 889999999
Q ss_pred CCCHHHHHHHHHHHhhh
Q psy15351 87 CKGVQKILPTLQHISDN 103 (352)
Q Consensus 87 ~~gi~~L~~~i~~~~~~ 103 (352)
.|+++.+.+|.+.+..
T Consensus 154 -~~v~~~f~~ia~~l~~ 169 (215)
T PTZ00132 154 -YNFEKPFLWLARRLTN 169 (215)
T ss_pred -CCHHHHHHHHHHHHhh
Confidence 9999988887765543
No 486
>COG1217 TypA Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]
Probab=97.21 E-value=0.0028 Score=60.89 Aligned_cols=98 Identities=13% Similarity=0.138 Sum_probs=70.2
Q ss_pred HHHHHhhccCEEEEEEcCCCCCCCcCHHHH-HHHhCCCCEEEEEEcccCCCcc---chHHHHHHHHhhcCC----CCcEE
Q psy15351 7 DIEKHLKNVDIVIEVHDSRMPFTGRNHLLQ-QSVQNIRPMVLVLNKRDLINSK---HESLIEEKVRKEQSH----ISEVI 78 (352)
Q Consensus 7 ~~~~~i~~aD~vl~VvDar~p~~~~~~~l~-~~l~~~k~~ilVlNK~Dl~~~~---~~~~~~~~~~~~~~~----~~~v~ 78 (352)
+..+.++.+|-|++|+||...+...-.+.. +.+..+-+-|+|+||+|..... .+++..+.|-+.+.. -.+++
T Consensus 84 EVERvl~MVDgvlLlVDA~EGpMPQTrFVlkKAl~~gL~PIVVvNKiDrp~Arp~~Vvd~vfDLf~~L~A~deQLdFPiv 163 (603)
T COG1217 84 EVERVLSMVDGVLLLVDASEGPMPQTRFVLKKALALGLKPIVVINKIDRPDARPDEVVDEVFDLFVELGATDEQLDFPIV 163 (603)
T ss_pred hhhhhhhhcceEEEEEEcccCCCCchhhhHHHHHHcCCCcEEEEeCCCCCCCCHHHHHHHHHHHHHHhCCChhhCCCcEE
Confidence 467889999999999999988777666554 4455444448999999987543 356666666554322 01588
Q ss_pred EeecCCCC--------CCCHHHHHHHHHHHhhhc
Q psy15351 79 FTNCRNPN--------CKGVQKILPTLQHISDNM 104 (352)
Q Consensus 79 ~iSa~~~~--------~~gi~~L~~~i~~~~~~~ 104 (352)
+.|++.|. ...+.-|++.|.+++|..
T Consensus 164 YAS~~~G~a~~~~~~~~~~m~pLfe~I~~hvp~P 197 (603)
T COG1217 164 YASARNGTASLDPEDEADDMAPLFETILDHVPAP 197 (603)
T ss_pred EeeccCceeccCccccccchhHHHHHHHHhCCCC
Confidence 99998872 356788999999988754
No 487
>COG1163 DRG Predicted GTPase [General function prediction only]
Probab=97.20 E-value=0.00075 Score=62.04 Aligned_cols=51 Identities=14% Similarity=0.196 Sum_probs=40.2
Q ss_pred CCEEEEEEcccCCCccchHHHHHHHHhhcCCCCcEEEeecCCCCCCCHHHHHHHHHHHhhh
Q psy15351 43 RPMVLVLNKRDLINSKHESLIEEKVRKEQSHISEVIFTNCRNPNCKGVQKILPTLQHISDN 103 (352)
Q Consensus 43 k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~v~~iSa~~~~~~gi~~L~~~i~~~~~~ 103 (352)
+|.++|+||+|+.+.+......+.+ +.+++||+.+ .|+++|++.|-..+.-
T Consensus 240 ~p~l~v~NKiD~~~~e~~~~l~~~~--------~~v~isa~~~--~nld~L~e~i~~~L~l 290 (365)
T COG1163 240 KPALYVVNKIDLPGLEELERLARKP--------NSVPISAKKG--INLDELKERIWDVLGL 290 (365)
T ss_pred eeeEEEEecccccCHHHHHHHHhcc--------ceEEEecccC--CCHHHHHHHHHHhhCe
Confidence 7999999999999865444333322 4899999999 9999999998876654
No 488
>PRK13351 elongation factor G; Reviewed
Probab=97.19 E-value=0.0026 Score=66.13 Aligned_cols=54 Identities=17% Similarity=0.223 Sum_probs=41.0
Q ss_pred HHHHHHHHhhccCEEEEEEcCCCCCCCcCHHHHHHHh-CCCCEEEEEEcccCCCc
Q psy15351 4 GLKDIEKHLKNVDIVIEVHDSRMPFTGRNHLLQQSVQ-NIRPMVLVLNKRDLINS 57 (352)
Q Consensus 4 ~~~~~~~~i~~aD~vl~VvDar~p~~~~~~~l~~~l~-~~k~~ilVlNK~Dl~~~ 57 (352)
....+...+..+|.+++|+|+..+.......+...+. .+.|+++|+||+|+...
T Consensus 86 f~~~~~~~l~~aD~~ilVvd~~~~~~~~~~~~~~~~~~~~~p~iiviNK~D~~~~ 140 (687)
T PRK13351 86 FTGEVERSLRVLDGAVVVFDAVTGVQPQTETVWRQADRYGIPRLIFINKMDRVGA 140 (687)
T ss_pred HHHHHHHHHHhCCEEEEEEeCCCCCCHHHHHHHHHHHhcCCCEEEEEECCCCCCC
Confidence 3456778899999999999998876544444444443 67899999999998754
No 489
>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=97.15 E-value=0.0019 Score=56.47 Aligned_cols=81 Identities=23% Similarity=0.292 Sum_probs=51.0
Q ss_pred cCEEEEEEcCCCCCCCcCHHHHHHHhCCCCEEEEEEcccCCCc--cchHHHHHHHHhhcCCCCcEEEeecCCCCCCCHHH
Q psy15351 15 VDIVIEVHDSRMPFTGRNHLLQQSVQNIRPMVLVLNKRDLINS--KHESLIEEKVRKEQSHISEVIFTNCRNPNCKGVQK 92 (352)
Q Consensus 15 aD~vl~VvDar~p~~~~~~~l~~~l~~~k~~ilVlNK~Dl~~~--~~~~~~~~~~~~~~~~~~~v~~iSa~~~~~~gi~~ 92 (352)
+|.++.|+|+........ .....+ ...-++|+||+|+.+. ...+...+.++.... ..+++.+||+++ +|+++
T Consensus 113 ~~~~i~vvD~~~~~~~~~-~~~~qi--~~ad~~~~~k~d~~~~~~~~~~~~~~~~~~~~~-~~~i~~~Sa~~g--~gi~e 186 (199)
T TIGR00101 113 ADLTIFVIDVAAGDKIPR-KGGPGI--TRSDLLVINKIDLAPMVGADLGVMERDAKKMRG-EKPFIFTNLKTK--EGLDT 186 (199)
T ss_pred hCcEEEEEEcchhhhhhh-hhHhHh--hhccEEEEEhhhccccccccHHHHHHHHHHhCC-CCCEEEEECCCC--CCHHH
Confidence 577888999875433111 101111 1223899999999863 334444444444321 236999999999 99999
Q ss_pred HHHHHHHHh
Q psy15351 93 ILPTLQHIS 101 (352)
Q Consensus 93 L~~~i~~~~ 101 (352)
+++++.+..
T Consensus 187 l~~~i~~~~ 195 (199)
T TIGR00101 187 VIDWIEHYA 195 (199)
T ss_pred HHHHHHhhc
Confidence 999987643
No 490
>KOG0461|consensus
Probab=97.13 E-value=0.0056 Score=56.79 Aligned_cols=95 Identities=16% Similarity=0.169 Sum_probs=60.3
Q ss_pred HHHHHHHhhccCEEEEEEcCCCCCCCcCHH---HHHHHhCCCCEEEEEEcccCCCccchHHHHHHHH--------hhcCC
Q psy15351 5 LKDIEKHLKNVDIVIEVHDSRMPFTGRNHL---LQQSVQNIRPMVLVLNKRDLINSKHESLIEEKVR--------KEQSH 73 (352)
Q Consensus 5 ~~~~~~~i~~aD~vl~VvDar~p~~~~~~~---l~~~l~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~--------~~~~~ 73 (352)
+|.+.-...-.|+.++|+|+..+......+ +-+++ .+++++|+||+|+.++..+...++... ..++.
T Consensus 84 IRtiiggaqiiDlm~lviDv~kG~QtQtAEcLiig~~~--c~klvvvinkid~lpE~qr~ski~k~~kk~~KtLe~t~f~ 161 (522)
T KOG0461|consen 84 IRTIIGGAQIIDLMILVIDVQKGKQTQTAECLIIGELL--CKKLVVVINKIDVLPENQRASKIEKSAKKVRKTLESTGFD 161 (522)
T ss_pred HHHHHhhhheeeeeeEEEehhcccccccchhhhhhhhh--ccceEEEEeccccccchhhhhHHHHHHHHHHHHHHhcCcC
Confidence 444555566779999999998765443322 22333 567899999999999876544443322 22222
Q ss_pred -CCcEEEeecCCCC--CCCHHHHHHHHHHHh
Q psy15351 74 -ISEVIFTNCRNPN--CKGVQKILPTLQHIS 101 (352)
Q Consensus 74 -~~~v~~iSa~~~~--~~gi~~L~~~i~~~~ 101 (352)
-.+++.+||..|- .+++.+|++.+.+.+
T Consensus 162 g~~PI~~vsa~~G~~~~~~i~eL~e~l~s~i 192 (522)
T KOG0461|consen 162 GNSPIVEVSAADGYFKEEMIQELKEALESRI 192 (522)
T ss_pred CCCceeEEecCCCccchhHHHHHHHHHHHhh
Confidence 1369999999872 355666666665443
No 491
>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=97.11 E-value=0.0008 Score=68.40 Aligned_cols=64 Identities=22% Similarity=0.345 Sum_probs=40.6
Q ss_pred EEEEeCCCCCChHHHHHHHhCCC--CCCCCce--------ecCCCCCceeEeeeeEEecCCCcEEEEeCCCCCC
Q psy15351 170 TVMVVGVPNVGKSSIINALRSSH--MKKGKAV--------PVGPKAGVTRSVMSQVKISEKPLIYILDTPGISL 233 (352)
Q Consensus 170 ~v~i~G~pnvGKStliN~l~~~~--~~~~~~~--------~~~~~pg~T~~~~~~~~~~~~~~~~l~DtPGi~~ 233 (352)
+|+++|..++|||||+++|+... +...... ......|.|...........+..+.++||||..+
T Consensus 3 NIaIiGHvd~GKTTLv~~LL~~sg~~~~~~~v~~~~~D~~~~ErerGiTI~~~~~~v~~~~~kinlIDTPGh~D 76 (594)
T TIGR01394 3 NIAIIAHVDHGKTTLVDALLKQSGTFRANEAVAERVMDSNDLERERGITILAKNTAIRYNGTKINIVDTPGHAD 76 (594)
T ss_pred EEEEEcCCCCCHHHHHHHHHHhcCCCcccccceeecccCchHHHhCCccEEeeeEEEEECCEEEEEEECCCHHH
Confidence 58999999999999999998521 1000000 0112456666654333334556799999999754
No 492
>PRK09866 hypothetical protein; Provisional
Probab=97.10 E-value=0.0008 Score=67.61 Aligned_cols=59 Identities=17% Similarity=0.213 Sum_probs=41.4
Q ss_pred ceEEEEeCCCCCChHHHHHHHhCCCCCCCCceecCCCCCceeEeeeeEEec--CCCcEEEEeCCCCCC
Q psy15351 168 NTTVMVVGVPNVGKSSIINALRSSHMKKGKAVPVGPKAGVTRSVMSQVKIS--EKPLIYILDTPGISL 233 (352)
Q Consensus 168 ~~~v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~~~pg~T~~~~~~~~~~--~~~~~~l~DtPGi~~ 233 (352)
.+.++++|.+|+|||||+|+|.| .....+++.|.+|. +. .+... ......+.||-|++.
T Consensus 69 ~~~valvG~sgaGKSTLiNaL~G-----~~Vlpt~~~~~t~l-pT-~i~~~pg~re~~L~~dtvgfI~ 129 (741)
T PRK09866 69 EMVLAIVGTMKAGKSTTINAIVG-----TEVLPNRNRPMTAL-PT-LIRHTPGQKEPVLHFSHVAPID 129 (741)
T ss_pred ceEEEEECCCCCCHHHHHHHHhC-----CccccCCCcccccc-cE-EEEecCCcCceeeecCCccchH
Confidence 48999999999999999999998 45666777777765 22 22211 122355677877775
No 493
>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=97.10 E-value=0.0042 Score=62.33 Aligned_cols=51 Identities=24% Similarity=0.234 Sum_probs=39.4
Q ss_pred HHHHHHHhhccCEEEEEEcCCCCCCCcCHHHHHHHh-CCCCEEEEEEcccCC
Q psy15351 5 LKDIEKHLKNVDIVIEVHDSRMPFTGRNHLLQQSVQ-NIRPMVLVLNKRDLI 55 (352)
Q Consensus 5 ~~~~~~~i~~aD~vl~VvDar~p~~~~~~~l~~~l~-~~k~~ilVlNK~Dl~ 55 (352)
...++..+..+|.+|+|+|+...+......+.+.++ .+.|+++++||+|+.
T Consensus 94 ~~~~~~~l~~aD~aIlVvDa~~gv~~~t~~l~~~~~~~~~PiivviNKiD~~ 145 (527)
T TIGR00503 94 SEDTYRTLTAVDNCLMVIDAAKGVETRTRKLMEVTRLRDTPIFTFMNKLDRD 145 (527)
T ss_pred HHHHHHHHHhCCEEEEEEECCCCCCHHHHHHHHHHHhcCCCEEEEEECcccc
Confidence 456788899999999999998765444344444444 678999999999985
No 494
>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=97.06 E-value=0.001 Score=58.33 Aligned_cols=23 Identities=26% Similarity=0.420 Sum_probs=20.7
Q ss_pred eEEEEeCCCCCChHHHHHHHhCC
Q psy15351 169 TTVMVVGVPNVGKSSIINALRSS 191 (352)
Q Consensus 169 ~~v~i~G~pnvGKStliN~l~~~ 191 (352)
++|+++|..++|||||+.+|.+.
T Consensus 1 ~~i~~~g~~~~GKttL~~~l~~~ 23 (203)
T cd01888 1 INIGTIGHVAHGKSTLVKALSGV 23 (203)
T ss_pred CEEEEECCCCCCHHHHHHHHhCC
Confidence 46999999999999999999864
No 495
>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=97.05 E-value=0.0042 Score=56.89 Aligned_cols=54 Identities=20% Similarity=0.209 Sum_probs=40.5
Q ss_pred HHHHHHHhhccCEEEEEEcCCCCCCCcCHHHHHHHh-CCCCEEEEEEcccCCCcc
Q psy15351 5 LKDIEKHLKNVDIVIEVHDSRMPFTGRNHLLQQSVQ-NIRPMVLVLNKRDLINSK 58 (352)
Q Consensus 5 ~~~~~~~i~~aD~vl~VvDar~p~~~~~~~l~~~l~-~~k~~ilVlNK~Dl~~~~ 58 (352)
...++..+..+|.+++|+|+..+.......+.++.. .+.|+++++||+|+....
T Consensus 85 ~~~~~~~l~~aD~~IlVvda~~g~~~~~~~i~~~~~~~~~P~iivvNK~D~~~a~ 139 (267)
T cd04169 85 SEDTYRTLTAVDSAVMVIDAAKGVEPQTRKLFEVCRLRGIPIITFINKLDREGRD 139 (267)
T ss_pred HHHHHHHHHHCCEEEEEEECCCCccHHHHHHHHHHHhcCCCEEEEEECCccCCCC
Confidence 445778889999999999998765443334444443 578999999999986654
No 496
>KOG1532|consensus
Probab=97.05 E-value=0.0039 Score=56.16 Aligned_cols=87 Identities=17% Similarity=0.213 Sum_probs=58.3
Q ss_pred CEEEEEEcCC---CCCCCcCHHHH--HHH-hCCCCEEEEEEcccCCCccchHHHHHHHHhhc------------------
Q psy15351 16 DIVIEVHDSR---MPFTGRNHLLQ--QSV-QNIRPMVLVLNKRDLINSKHESLIEEKVRKEQ------------------ 71 (352)
Q Consensus 16 D~vl~VvDar---~p~~~~~~~l~--~~l-~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~------------------ 71 (352)
-+|++|+|.- .|.+.....+. .++ +..-|+|+|+||+|+.+.+-..+|..-|....
T Consensus 149 tvv~YvvDt~rs~~p~tFMSNMlYAcSilyktklp~ivvfNK~Dv~d~~fa~eWm~DfE~FqeAl~~~~~~y~s~l~~Sm 228 (366)
T KOG1532|consen 149 TVVVYVVDTPRSTSPTTFMSNMLYACSILYKTKLPFIVVFNKTDVSDSEFALEWMTDFEAFQEALNEAESSYMSNLTRSM 228 (366)
T ss_pred eEEEEEecCCcCCCchhHHHHHHHHHHHHHhccCCeEEEEecccccccHHHHHHHHHHHHHHHHHHhhccchhHHhhhhH
Confidence 3788999963 33333222222 122 25679999999999999887778865543210
Q ss_pred -------CCCCcEEEeecCCCCCCCHHHHHHHHHHHhhhc
Q psy15351 72 -------SHISEVIFTNCRNPNCKGVQKILPTLQHISDNM 104 (352)
Q Consensus 72 -------~~~~~v~~iSa~~~~~~gi~~L~~~i~~~~~~~ 104 (352)
+....++-+|+.+| .|+++++.++.+.+.+.
T Consensus 229 SL~leeFY~~lrtv~VSs~tG--~G~ddf~~av~~~vdEy 266 (366)
T KOG1532|consen 229 SLMLEEFYRSLRTVGVSSVTG--EGFDDFFTAVDESVDEY 266 (366)
T ss_pred HHHHHHHHhhCceEEEecccC--CcHHHHHHHHHHHHHHH
Confidence 00123678999999 99999999998777654
No 497
>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=97.03 E-value=0.0019 Score=67.15 Aligned_cols=54 Identities=17% Similarity=0.209 Sum_probs=42.8
Q ss_pred HHHHHHHhhccCEEEEEEcCCCCCCCcCHHHHHHHh-CCCCEEEEEEcccCCCcc
Q psy15351 5 LKDIEKHLKNVDIVIEVHDSRMPFTGRNHLLQQSVQ-NIRPMVLVLNKRDLINSK 58 (352)
Q Consensus 5 ~~~~~~~i~~aD~vl~VvDar~p~~~~~~~l~~~l~-~~k~~ilVlNK~Dl~~~~ 58 (352)
...+...+..+|++++|+|+..+.......+..++. .+.|+++++||+|+...+
T Consensus 89 ~~~~~~~l~~~D~~ilVvda~~g~~~~~~~~~~~~~~~~~p~ivviNK~D~~~~~ 143 (689)
T TIGR00484 89 TVEVERSLRVLDGAVAVLDAVGGVQPQSETVWRQANRYEVPRIAFVNKMDKTGAN 143 (689)
T ss_pred hHHHHHHHHHhCEEEEEEeCCCCCChhHHHHHHHHHHcCCCEEEEEECCCCCCCC
Confidence 345678899999999999999877665555555554 678999999999998654
No 498
>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=97.02 E-value=0.0046 Score=55.55 Aligned_cols=63 Identities=13% Similarity=0.229 Sum_probs=47.1
Q ss_pred HHHHHHhh-ccCEEEEEEcCCCCCCCcC-HHHHHHHh-CCCCEEEEEEcccCCCccchHHHHHHHHhh
Q psy15351 6 KDIEKHLK-NVDIVIEVHDSRMPFTGRN-HLLQQSVQ-NIRPMVLVLNKRDLINSKHESLIEEKVRKE 70 (352)
Q Consensus 6 ~~~~~~i~-~aD~vl~VvDar~p~~~~~-~~l~~~l~-~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~ 70 (352)
+++..+++ ..++|++|+|++..+...+ ..+.+.+. .+++.++|+||+|..++. .+|.+.++..
T Consensus 153 ~lv~~yi~~~~~IIL~Vvda~~d~~~~d~l~ia~~ld~~~~rti~ViTK~D~~~~~--~~~~~~~~~~ 218 (240)
T smart00053 153 DMIKQFISKEECLILAVTPANVDLANSDALKLAKEVDPQGERTIGVITKLDLMDEG--TDARDILENK 218 (240)
T ss_pred HHHHHHHhCccCeEEEEEECCCCCCchhHHHHHHHHHHcCCcEEEEEECCCCCCcc--HHHHHHHhCC
Confidence 34777888 4569999999998776655 35666655 678999999999998765 3477777543
No 499
>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=97.01 E-value=0.0017 Score=54.49 Aligned_cols=22 Identities=23% Similarity=0.369 Sum_probs=19.7
Q ss_pred eEEEEeCCCCCChHHHHHHHhC
Q psy15351 169 TTVMVVGVPNVGKSSIINALRS 190 (352)
Q Consensus 169 ~~v~i~G~pnvGKStliN~l~~ 190 (352)
++|+++|.+|||||||++.+..
T Consensus 1 ~ki~vvG~~gvGKTsli~~~~~ 22 (158)
T cd04103 1 LKLGIVGNLQSGKSALVHRYLT 22 (158)
T ss_pred CEEEEECCCCCcHHHHHHHHHh
Confidence 3699999999999999998875
No 500
>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=97.00 E-value=0.0005 Score=58.87 Aligned_cols=59 Identities=24% Similarity=0.360 Sum_probs=33.3
Q ss_pred eEEEEeCCCCCChHHHHHHHhCCCCCCCCceecCCC-CCceeEeeeeEEecCCCcEEEEeCCCCCCCC
Q psy15351 169 TTVMVVGVPNVGKSSIINALRSSHMKKGKAVPVGPK-AGVTRSVMSQVKISEKPLIYILDTPGISLPR 235 (352)
Q Consensus 169 ~~v~i~G~pnvGKStliN~l~~~~~~~~~~~~~~~~-pg~T~~~~~~~~~~~~~~~~l~DtPGi~~~~ 235 (352)
-.|.++|.+|+||++|+..|... ....++.+. |..+. .+....+..+.++|+||-...+
T Consensus 4 ~~vlL~Gps~SGKTaLf~~L~~~----~~~~T~tS~e~n~~~----~~~~~~~~~~~lvD~PGH~rlr 63 (181)
T PF09439_consen 4 PTVLLVGPSGSGKTALFSQLVNG----KTVPTVTSMENNIAY----NVNNSKGKKLRLVDIPGHPRLR 63 (181)
T ss_dssp -EEEEE-STTSSHHHHHHHHHHS----S---B---SSEEEEC----CGSSTCGTCECEEEETT-HCCC
T ss_pred ceEEEEcCCCCCHHHHHHHHhcC----CcCCeeccccCCceE----EeecCCCCEEEEEECCCcHHHH
Confidence 46899999999999999999862 111111111 11110 0111234579999999987653
Done!