Query psy5059
Match_columns 1036
No_of_seqs 402 out of 1544
Neff 6.4
Searched_HMMs 46136
Date Sat Aug 17 00:40:43 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy5059.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/5059hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0446|consensus 100.0 3E-101 6E-106 925.1 38.7 528 59-1035 4-637 (657)
2 KOG0446|consensus 100.0 5.6E-54 1.2E-58 516.6 35.1 468 2-767 24-639 (657)
3 smart00053 DYNc Dynamin, GTPas 100.0 1.3E-46 2.7E-51 405.2 23.0 180 60-298 2-182 (240)
4 PF01031 Dynamin_M: Dynamin ce 100.0 6.4E-42 1.4E-46 382.4 17.9 179 767-945 48-231 (295)
5 COG1160 Predicted GTPases [Gen 100.0 5.2E-31 1.1E-35 298.7 15.6 252 7-470 3-358 (444)
6 KOG0447|consensus 100.0 2.5E-29 5.4E-34 282.1 24.0 289 57-556 279-577 (980)
7 smart00053 DYNc Dynamin, GTPas 99.9 2.2E-23 4.8E-28 225.1 13.5 204 4-425 23-238 (240)
8 PF01031 Dynamin_M: Dynamin ce 99.9 2.3E-21 5E-26 217.0 13.5 179 494-672 11-288 (295)
9 TIGR03594 GTPase_EngA ribosome 99.8 4.2E-19 9.2E-24 208.5 19.3 78 369-469 273-350 (429)
10 PRK03003 GTP-binding protein D 99.8 7.7E-19 1.7E-23 208.8 20.6 78 369-470 312-389 (472)
11 smart00302 GED Dynamin GTPase 99.8 7.5E-20 1.6E-24 169.6 9.0 75 961-1035 2-76 (92)
12 PRK09518 bifunctional cytidyla 99.8 6.5E-19 1.4E-23 218.8 19.9 78 369-470 551-628 (712)
13 smart00302 GED Dynamin GTPase 99.8 1.4E-19 3E-24 167.8 9.0 78 691-768 2-79 (92)
14 PRK00093 GTP-binding protein D 99.8 1.5E-18 3.3E-23 204.4 18.8 77 369-469 274-350 (435)
15 PF00350 Dynamin_N: Dynamin fa 99.8 9.9E-18 2.1E-22 171.1 14.7 166 86-316 1-166 (168)
16 PF02212 GED: Dynamin GTPase e 99.7 1.7E-16 3.6E-21 147.5 7.6 76 960-1035 1-76 (92)
17 PF02212 GED: Dynamin GTPase e 99.6 4.6E-16 9.9E-21 144.5 7.5 78 690-767 1-78 (92)
18 PRK09866 hypothetical protein; 99.5 1.5E-10 3.3E-15 137.4 35.4 65 59-126 48-112 (741)
19 COG0218 Predicted GTPase [Gene 99.4 1.8E-12 4E-17 134.6 12.4 108 321-458 81-192 (200)
20 KOG0447|consensus 99.2 5E-11 1.1E-15 135.9 11.5 53 260-316 435-487 (980)
21 TIGR00436 era GTP-binding prot 99.1 5.3E-10 1.1E-14 124.0 14.0 71 373-470 101-171 (270)
22 COG0486 ThdF Predicted GTPase 99.1 5.5E-10 1.2E-14 128.7 14.3 130 217-463 246-376 (454)
23 cd01895 EngA2 EngA2 subfamily. 99.1 1.1E-09 2.5E-14 110.5 14.8 70 370-461 104-173 (174)
24 COG0699 Predicted GTPases (dyn 99.1 3.2E-09 7E-14 128.2 19.5 235 766-1034 171-530 (546)
25 COG1160 Predicted GTPases [Gen 99.1 6E-10 1.3E-14 128.1 12.0 141 227-476 38-188 (444)
26 PF02421 FeoB_N: Ferrous iron 99.1 6.2E-10 1.3E-14 113.2 10.4 62 368-457 94-155 (156)
27 TIGR03598 GTPase_YsxC ribosome 99.0 1.1E-09 2.3E-14 113.7 11.3 28 81-108 16-43 (179)
28 PRK00454 engB GTP-binding prot 99.0 3.8E-09 8.3E-14 110.3 15.2 66 371-461 127-192 (196)
29 COG1159 Era GTPase [General fu 99.0 2.6E-09 5.5E-14 117.1 13.9 74 371-470 106-179 (298)
30 PRK00089 era GTPase Era; Revie 99.0 5.9E-09 1.3E-13 116.8 16.6 69 373-467 107-175 (292)
31 cd01876 YihA_EngB The YihA (En 99.0 5.5E-09 1.2E-13 104.8 13.6 68 369-460 100-168 (170)
32 PRK12298 obgE GTPase CgtA; Rev 98.9 5.5E-09 1.2E-13 121.5 13.3 25 83-107 159-183 (390)
33 cd04171 SelB SelB subfamily. 98.9 1.2E-08 2.7E-13 102.6 12.9 56 380-459 105-162 (164)
34 TIGR03156 GTP_HflX GTP-binding 98.9 2.3E-08 5.1E-13 114.9 16.6 28 81-108 187-214 (351)
35 TIGR03594 GTPase_EngA ribosome 98.9 1.1E-08 2.3E-13 120.7 13.5 112 241-461 47-158 (429)
36 cd04163 Era Era subfamily. Er 98.9 1.9E-08 4.2E-13 100.4 13.1 63 371-459 103-165 (168)
37 KOG1191|consensus 98.9 1.1E-09 2.4E-14 125.7 4.2 64 227-296 303-366 (531)
38 PRK04213 GTP-binding protein; 98.8 4E-08 8.6E-13 103.5 14.7 27 82-108 8-34 (201)
39 cd04165 GTPBP1_like GTPBP1-lik 98.8 2.8E-08 6E-13 107.4 13.5 89 369-461 128-221 (224)
40 PRK03003 GTP-binding protein D 98.8 3.4E-08 7.4E-13 118.1 15.0 26 82-107 37-62 (472)
41 cd01887 IF2_eIF5B IF2/eIF5B (i 98.8 4.4E-08 9.6E-13 99.2 13.0 25 84-108 1-25 (168)
42 cd01898 Obg Obg subfamily. Th 98.8 4.9E-08 1.1E-12 99.2 13.1 55 378-459 113-167 (170)
43 PF00009 GTP_EFTU: Elongation 98.8 3E-08 6.5E-13 103.8 11.2 73 369-462 112-186 (188)
44 PRK11058 GTPase HflX; Provisio 98.8 6.2E-08 1.4E-12 114.0 15.1 28 81-108 195-222 (426)
45 PRK12299 obgE GTPase CgtA; Rev 98.8 4.3E-08 9.2E-13 112.0 13.1 25 83-107 158-182 (335)
46 PRK15494 era GTPase Era; Provi 98.8 9.1E-08 2E-12 109.7 15.7 69 374-470 155-223 (339)
47 cd01878 HflX HflX subfamily. 98.8 1.3E-07 2.9E-12 99.9 15.5 28 81-108 39-66 (204)
48 PRK00093 GTP-binding protein D 98.7 5E-08 1.1E-12 115.4 12.7 25 83-107 1-25 (435)
49 cd01897 NOG NOG1 is a nucleola 98.7 1.9E-07 4E-12 94.9 14.7 25 84-108 1-25 (168)
50 cd01894 EngA1 EngA1 subfamily. 98.7 1.2E-07 2.6E-12 94.5 13.0 57 371-458 97-153 (157)
51 PRK09518 bifunctional cytidyla 98.7 5.8E-08 1.3E-12 121.6 13.1 25 83-107 275-299 (712)
52 PRK12296 obgE GTPase CgtA; Rev 98.7 8.8E-08 1.9E-12 113.8 13.0 25 83-107 159-183 (500)
53 PRK12297 obgE GTPase CgtA; Rev 98.7 1.4E-07 2.9E-12 110.7 14.2 24 84-107 159-182 (424)
54 COG1084 Predicted GTPase [Gene 98.7 5.4E-07 1.2E-11 99.9 17.2 47 61-107 146-192 (346)
55 cd04152 Arl4_Arl7 Arl4/Arl7 su 98.7 2.4E-07 5.2E-12 96.5 13.3 24 85-108 5-28 (183)
56 cd01879 FeoB Ferrous iron tran 98.7 1.8E-07 3.9E-12 93.6 11.8 62 371-460 93-154 (158)
57 cd04166 CysN_ATPS CysN_ATPS su 98.7 2.6E-07 5.6E-12 98.6 13.6 23 85-107 1-23 (208)
58 cd00881 GTP_translation_factor 98.7 4.5E-07 9.7E-12 93.4 15.0 24 85-108 1-24 (189)
59 cd01884 EF_Tu EF-Tu subfamily. 98.6 1.6E-07 3.4E-12 99.5 11.5 60 369-451 107-171 (195)
60 TIGR02729 Obg_CgtA Obg family 98.6 1.9E-07 4.2E-12 106.5 12.9 25 83-107 157-181 (329)
61 cd00880 Era_like Era (E. coli 98.6 4.2E-07 9E-12 89.4 13.6 65 372-460 97-161 (163)
62 cd01890 LepA LepA subfamily. 98.6 3.5E-07 7.6E-12 94.0 13.5 58 377-460 117-174 (179)
63 cd00878 Arf_Arl Arf (ADP-ribos 98.6 5E-07 1.1E-11 90.9 14.3 61 375-459 96-156 (158)
64 cd01852 AIG1 AIG1 (avrRpt2-ind 98.6 2.2E-07 4.8E-12 98.0 11.8 24 85-108 2-25 (196)
65 TIGR02528 EutP ethanolamine ut 98.6 2.8E-07 6E-12 91.3 11.4 23 85-107 2-24 (142)
66 cd01868 Rab11_like Rab11-like. 98.6 3.9E-07 8.5E-12 92.4 12.3 25 84-108 4-28 (165)
67 cd04159 Arl10_like Arl10-like 98.6 8E-07 1.7E-11 88.2 14.4 24 85-108 1-24 (159)
68 cd04154 Arl2 Arl2 subfamily. 98.6 5E-07 1.1E-11 92.8 13.2 26 82-107 13-38 (173)
69 cd00154 Rab Rab family. Rab G 98.6 3.4E-07 7.3E-12 90.7 11.6 25 84-108 1-25 (159)
70 cd01896 DRG The developmentall 98.6 1.5E-06 3.3E-11 94.6 17.6 171 241-459 47-222 (233)
71 PRK05291 trmE tRNA modificatio 98.6 4.4E-07 9.5E-12 107.9 14.4 26 82-107 214-239 (449)
72 PRK15467 ethanolamine utilizat 98.6 5.3E-07 1.1E-11 92.1 12.9 54 379-461 91-145 (158)
73 PF01926 MMR_HSR1: 50S ribosom 98.6 3.6E-07 7.9E-12 87.8 10.8 23 85-107 1-23 (116)
74 cd04160 Arfrp1 Arfrp1 subfamil 98.6 5E-07 1.1E-11 91.6 12.3 58 377-458 105-164 (167)
75 cd01889 SelB_euk SelB subfamil 98.6 4.6E-07 1E-11 95.1 12.2 62 379-460 120-183 (192)
76 cd04157 Arl6 Arl6 subfamily. 98.6 1.2E-06 2.5E-11 88.2 14.7 23 85-107 1-23 (162)
77 cd04164 trmE TrmE (MnmE, ThdF, 98.6 1.1E-06 2.4E-11 87.4 14.2 24 85-108 3-26 (157)
78 cd01861 Rab6 Rab6 subfamily. 98.6 9.8E-07 2.1E-11 88.8 13.8 24 85-108 2-25 (161)
79 TIGR00450 mnmE_trmE_thdF tRNA 98.5 5.5E-07 1.2E-11 106.6 13.3 26 82-107 202-227 (442)
80 cd04151 Arl1 Arl1 subfamily. 98.5 1.3E-06 2.8E-11 88.2 14.3 23 85-107 1-23 (158)
81 cd04119 RJL RJL (RabJ-Like) su 98.5 8.8E-07 1.9E-11 89.3 13.0 24 85-108 2-25 (168)
82 cd04145 M_R_Ras_like M-Ras/R-R 98.5 3.9E-07 8.5E-12 91.9 10.4 24 85-108 4-27 (164)
83 cd01862 Rab7 Rab7 subfamily. 98.5 1.6E-06 3.4E-11 88.2 14.7 59 376-460 106-164 (172)
84 cd01864 Rab19 Rab19 subfamily. 98.5 1.6E-06 3.4E-11 88.2 14.4 26 83-108 3-28 (165)
85 cd01867 Rab8_Rab10_Rab13_like 98.5 1.2E-06 2.5E-11 89.5 13.3 26 83-108 3-28 (167)
86 cd04142 RRP22 RRP22 subfamily. 98.5 9.6E-07 2.1E-11 93.6 13.0 24 85-108 2-25 (198)
87 cd04114 Rab30 Rab30 subfamily. 98.5 7.3E-07 1.6E-11 90.6 11.6 26 83-108 7-32 (169)
88 cd04104 p47_IIGP_like p47 (47- 98.5 4E-07 8.7E-12 96.3 9.8 25 84-108 2-26 (197)
89 cd04138 H_N_K_Ras_like H-Ras/N 98.5 1E-06 2.2E-11 88.4 12.0 25 84-108 2-26 (162)
90 cd01891 TypA_BipA TypA (tyrosi 98.5 9.2E-07 2E-11 93.0 12.2 21 85-105 4-24 (194)
91 PF10662 PduV-EutP: Ethanolami 98.5 5.6E-07 1.2E-11 90.1 9.9 54 379-459 89-142 (143)
92 cd04116 Rab9 Rab9 subfamily. 98.5 1.3E-06 2.8E-11 89.1 12.7 26 83-108 5-30 (170)
93 cd04136 Rap_like Rap-like subf 98.5 1E-06 2.2E-11 88.8 11.7 25 84-108 2-26 (163)
94 cd04112 Rab26 Rab26 subfamily. 98.5 6.8E-07 1.5E-11 93.7 10.6 24 85-108 2-25 (191)
95 cd01853 Toc34_like Toc34-like 98.5 7.3E-07 1.6E-11 97.9 11.1 42 60-108 15-56 (249)
96 cd01869 Rab1_Ypt1 Rab1/Ypt1 su 98.5 7.8E-07 1.7E-11 90.4 10.1 25 84-108 3-27 (166)
97 CHL00071 tufA elongation facto 98.5 6.4E-07 1.4E-11 105.3 10.8 59 369-450 117-180 (409)
98 cd04109 Rab28 Rab28 subfamily. 98.5 1.4E-06 3E-11 93.3 12.5 24 85-108 2-25 (215)
99 cd01866 Rab2 Rab2 subfamily. 98.4 8.9E-07 1.9E-11 90.6 10.3 26 83-108 4-29 (168)
100 cd04168 TetM_like Tet(M)-like 98.4 1.6E-06 3.6E-11 94.5 12.8 93 371-463 108-235 (237)
101 cd04156 ARLTS1 ARLTS1 subfamil 98.4 2.1E-06 4.6E-11 86.4 12.8 24 85-108 1-24 (160)
102 smart00173 RAS Ras subfamily o 98.4 1.7E-06 3.7E-11 87.5 12.0 24 85-108 2-25 (164)
103 cd00879 Sar1 Sar1 subfamily. 98.4 3E-06 6.5E-11 88.3 14.2 27 82-108 18-44 (190)
104 cd04122 Rab14 Rab14 subfamily. 98.4 3E-06 6.4E-11 86.3 13.7 24 85-108 4-27 (166)
105 cd01863 Rab18 Rab18 subfamily. 98.4 3.3E-06 7.2E-11 85.1 13.6 24 85-108 2-25 (161)
106 cd04149 Arf6 Arf6 subfamily. 98.4 3.6E-06 7.7E-11 86.6 13.9 26 83-108 9-34 (168)
107 PRK09554 feoB ferrous iron tra 98.4 1.4E-06 3.1E-11 109.3 13.0 65 370-462 103-167 (772)
108 cd04113 Rab4 Rab4 subfamily. 98.4 3.8E-06 8.3E-11 84.8 13.8 24 85-108 2-25 (161)
109 cd01881 Obg_like The Obg-like 98.4 1.3E-06 2.7E-11 89.1 10.3 54 378-458 119-172 (176)
110 cd01865 Rab3 Rab3 subfamily. 98.4 4.3E-06 9.2E-11 85.2 14.0 24 85-108 3-26 (165)
111 cd04155 Arl3 Arl3 subfamily. 98.4 4.3E-06 9.2E-11 85.5 13.9 26 83-108 14-39 (173)
112 PRK12317 elongation factor 1-a 98.4 2.8E-06 6E-11 100.5 14.1 24 84-107 7-30 (425)
113 cd00876 Ras Ras family. The R 98.4 4.4E-06 9.5E-11 83.5 13.5 24 85-108 1-24 (160)
114 cd01893 Miro1 Miro1 subfamily. 98.4 3E-06 6.4E-11 86.5 12.3 24 85-108 2-25 (166)
115 cd01899 Ygr210 Ygr210 subfamil 98.4 1.2E-05 2.5E-10 91.5 18.1 37 86-122 1-37 (318)
116 PRK10512 selenocysteinyl-tRNA- 98.4 2.3E-06 4.9E-11 105.3 12.9 59 379-461 103-164 (614)
117 PRK12736 elongation factor Tu; 98.4 3E-06 6.4E-11 99.3 13.3 24 84-107 13-36 (394)
118 TIGR00991 3a0901s02IAP34 GTP-b 98.4 2.8E-06 6E-11 95.3 12.3 42 59-107 21-62 (313)
119 cd04139 RalA_RalB RalA/RalB su 98.4 5E-06 1.1E-10 83.6 13.2 24 85-108 2-25 (164)
120 TIGR00475 selB selenocysteine- 98.4 1.8E-06 3.9E-11 105.7 11.8 22 86-107 3-24 (581)
121 cd04175 Rap1 Rap1 subgroup. T 98.4 1.9E-06 4E-11 87.4 9.9 24 84-107 2-25 (164)
122 cd04170 EF-G_bact Elongation f 98.3 6.9E-06 1.5E-10 91.1 15.2 40 424-463 227-266 (268)
123 cd04106 Rab23_lke Rab23-like s 98.3 5.1E-06 1.1E-10 83.7 12.8 24 85-108 2-25 (162)
124 smart00178 SAR Sar1p-like memb 98.3 8.2E-06 1.8E-10 85.2 14.6 26 83-108 17-42 (184)
125 TIGR00487 IF-2 translation ini 98.3 4.5E-06 9.7E-11 102.0 14.3 27 82-108 86-112 (587)
126 cd04101 RabL4 RabL4 (Rab-like4 98.3 3.5E-06 7.5E-11 85.2 11.3 21 85-105 2-22 (164)
127 cd04153 Arl5_Arl8 Arl5/Arl8 su 98.3 8.1E-06 1.8E-10 84.2 14.2 26 83-108 15-40 (174)
128 cd04124 RabL2 RabL2 subfamily. 98.3 1.7E-06 3.8E-11 87.9 9.1 24 85-108 2-25 (161)
129 PLN03118 Rab family protein; P 98.3 3.1E-06 6.7E-11 90.3 11.3 25 84-108 15-39 (211)
130 KOG1423|consensus 98.3 7.1E-06 1.5E-10 90.0 13.9 145 235-466 114-274 (379)
131 cd01886 EF-G Elongation factor 98.3 6.8E-06 1.5E-10 91.4 14.3 40 424-463 229-268 (270)
132 cd01888 eIF2_gamma eIF2-gamma 98.3 3.2E-06 6.9E-11 89.9 11.1 60 380-463 138-199 (203)
133 cd04118 Rab24 Rab24 subfamily. 98.3 1.4E-06 3.1E-11 91.1 8.3 24 85-108 2-25 (193)
134 CHL00189 infB translation init 98.3 4.3E-06 9.3E-11 103.9 13.8 27 82-108 243-269 (742)
135 cd04143 Rhes_like Rhes_like su 98.3 5.3E-06 1.1E-10 91.1 13.1 24 85-108 2-25 (247)
136 PF00350 Dynamin_N: Dynamin fa 98.3 5.7E-07 1.2E-11 91.8 5.2 45 10-54 1-45 (168)
137 cd04161 Arl2l1_Arl13_like Arl2 98.3 8E-06 1.7E-10 83.8 13.6 22 85-106 1-22 (167)
138 smart00177 ARF ARF-like small 98.3 9E-06 2E-10 84.1 14.1 22 83-104 13-34 (175)
139 TIGR00491 aIF-2 translation in 98.3 2.7E-06 5.9E-11 103.8 11.8 36 82-117 3-38 (590)
140 PLN03127 Elongation factor Tu; 98.3 3.8E-06 8.2E-11 99.7 12.7 25 82-106 60-84 (447)
141 cd04107 Rab32_Rab38 Rab38/Rab3 98.3 8.8E-06 1.9E-10 86.0 14.3 24 85-108 2-25 (201)
142 cd04176 Rap2 Rap2 subgroup. T 98.3 1.1E-06 2.4E-11 88.8 6.9 24 85-108 3-26 (163)
143 cd01860 Rab5_related Rab5-rela 98.3 9.1E-06 2E-10 82.0 13.5 24 85-108 3-26 (163)
144 TIGR00231 small_GTP small GTP- 98.3 1.2E-05 2.6E-10 79.0 13.9 53 379-459 108-160 (161)
145 PRK05124 cysN sulfate adenylyl 98.3 5.7E-06 1.2E-10 99.0 13.6 27 81-107 25-51 (474)
146 cd04144 Ras2 Ras2 subfamily. 98.3 2.8E-06 6.1E-11 89.0 9.7 24 85-108 1-24 (190)
147 cd04158 ARD1 ARD1 subfamily. 98.3 1.1E-05 2.4E-10 82.7 13.9 24 85-108 1-24 (169)
148 cd04123 Rab21 Rab21 subfamily. 98.3 6.8E-06 1.5E-10 82.3 12.0 24 85-108 2-25 (162)
149 cd01883 EF1_alpha Eukaryotic e 98.3 7.6E-06 1.6E-10 88.1 13.1 21 86-106 2-22 (219)
150 cd04177 RSR1 RSR1 subgroup. R 98.3 6.3E-06 1.4E-10 84.2 11.8 24 85-108 3-26 (168)
151 COG1163 DRG Predicted GTPase [ 98.3 9.4E-06 2E-10 90.0 13.5 166 240-458 109-284 (365)
152 cd04127 Rab27A Rab27a subfamil 98.3 7.1E-06 1.5E-10 84.5 12.0 26 83-108 4-29 (180)
153 cd04120 Rab12 Rab12 subfamily. 98.3 1.1E-05 2.3E-10 86.1 13.7 24 85-108 2-25 (202)
154 cd04169 RF3 RF3 subfamily. Pe 98.3 1.3E-05 2.8E-10 89.0 14.8 38 426-463 228-265 (267)
155 cd01850 CDC_Septin CDC/Septin. 98.3 1.4E-05 3E-10 89.3 14.7 25 85-109 6-30 (276)
156 cd04125 RabA_like RabA-like su 98.2 3.6E-06 7.7E-11 87.8 9.2 25 84-108 1-25 (188)
157 cd04147 Ras_dva Ras-dva subfam 98.2 9.6E-06 2.1E-10 85.6 12.5 24 85-108 1-24 (198)
158 smart00175 RAB Rab subfamily o 98.2 3.5E-06 7.7E-11 84.8 8.8 24 85-108 2-25 (164)
159 TIGR02034 CysN sulfate adenyly 98.2 5.3E-06 1.2E-10 97.5 11.6 23 85-107 2-24 (406)
160 cd04111 Rab39 Rab39 subfamily. 98.2 7.7E-06 1.7E-10 87.5 11.6 25 84-108 3-27 (211)
161 cd04140 ARHI_like ARHI subfami 98.2 6E-06 1.3E-10 84.1 10.2 24 85-108 3-26 (165)
162 cd04141 Rit_Rin_Ric Rit/Rin/Ri 98.2 7.3E-06 1.6E-10 84.6 10.9 24 85-108 4-27 (172)
163 cd04150 Arf1_5_like Arf1-Arf5- 98.2 2.1E-05 4.6E-10 80.0 14.0 37 240-289 43-79 (159)
164 cd00157 Rho Rho (Ras homology) 98.2 7.9E-06 1.7E-10 83.0 10.8 66 379-459 104-169 (171)
165 PLN00223 ADP-ribosylation fact 98.2 2E-05 4.3E-10 82.3 14.0 24 84-107 18-41 (181)
166 PLN03110 Rab GTPase; Provision 98.2 8.9E-06 1.9E-10 87.3 11.7 26 83-108 12-37 (216)
167 PRK00049 elongation factor Tu; 98.2 1.1E-05 2.3E-10 94.7 13.3 23 84-106 13-35 (396)
168 PTZ00133 ADP-ribosylation fact 98.2 2E-05 4.3E-10 82.3 13.9 24 84-107 18-41 (182)
169 PRK12735 elongation factor Tu; 98.2 1.1E-05 2.4E-10 94.5 13.4 23 84-106 13-35 (396)
170 TIGR01393 lepA GTP-binding pro 98.2 1.1E-05 2.3E-10 99.2 13.6 58 378-461 121-178 (595)
171 PRK05306 infB translation init 98.2 8.6E-06 1.9E-10 102.0 13.0 26 82-107 289-314 (787)
172 cd04110 Rab35 Rab35 subfamily. 98.2 7.7E-06 1.7E-10 86.5 10.7 26 83-108 6-31 (199)
173 cd04115 Rab33B_Rab33A Rab33B/R 98.2 7.7E-06 1.7E-10 83.8 10.4 25 84-108 3-27 (170)
174 cd04108 Rab36_Rab34 Rab34/Rab3 98.2 9.4E-06 2E-10 83.6 10.9 24 85-108 2-25 (170)
175 cd04132 Rho4_like Rho4-like su 98.2 1.7E-05 3.7E-10 82.4 12.7 24 85-108 2-25 (187)
176 PF04548 AIG1: AIG1 family; I 98.2 1.1E-05 2.4E-10 86.6 11.2 27 85-111 2-28 (212)
177 PRK05506 bifunctional sulfate 98.2 2.1E-05 4.5E-10 97.6 14.9 25 83-107 24-48 (632)
178 smart00174 RHO Rho (Ras homolo 98.1 2.5E-05 5.4E-10 79.9 12.7 23 86-108 1-23 (174)
179 COG3596 Predicted GTPase [Gene 98.1 1.6E-05 3.5E-10 86.6 11.6 139 239-464 85-223 (296)
180 cd01882 BMS1 Bms1. Bms1 is an 98.1 1.6E-05 3.4E-10 86.2 11.6 57 370-449 123-182 (225)
181 TIGR00485 EF-Tu translation el 98.1 1.9E-05 4.2E-10 92.5 13.1 23 84-106 13-35 (394)
182 PTZ00369 Ras-like protein; Pro 98.1 1.3E-05 2.8E-10 83.9 10.4 26 83-108 5-30 (189)
183 cd01870 RhoA_like RhoA-like su 98.1 3.9E-05 8.5E-10 78.5 13.4 25 84-108 2-26 (175)
184 PLN03126 Elongation factor Tu; 98.1 1.5E-05 3.4E-10 95.2 11.8 24 84-107 82-105 (478)
185 cd04162 Arl9_Arfrp2_like Arl9/ 98.1 3.2E-05 6.9E-10 79.2 12.5 24 85-108 1-24 (164)
186 PLN03108 Rab family protein; P 98.1 1.7E-05 3.6E-10 84.8 10.8 25 84-108 7-31 (210)
187 cd04135 Tc10 TC10 subfamily. 98.1 1.6E-05 3.6E-10 81.2 10.2 24 85-108 2-25 (174)
188 cd04146 RERG_RasL11_like RERG/ 98.1 1E-05 2.2E-10 82.3 8.4 24 85-108 1-24 (165)
189 cd04137 RheB Rheb (Ras Homolog 98.1 4.9E-05 1.1E-09 78.3 13.7 24 85-108 3-26 (180)
190 cd04117 Rab15 Rab15 subfamily. 98.1 2.9E-05 6.3E-10 79.0 11.7 24 85-108 2-25 (161)
191 cd04134 Rho3 Rho3 subfamily. 98.0 3.9E-05 8.4E-10 80.4 12.3 24 85-108 2-25 (189)
192 cd04130 Wrch_1 Wrch-1 subfamil 98.0 2.1E-05 4.5E-10 80.8 10.0 24 85-108 2-25 (173)
193 cd04148 RGK RGK subfamily. Th 98.0 1.6E-05 3.4E-10 85.8 9.4 24 85-108 2-25 (221)
194 cd04128 Spg1 Spg1p. Spg1p (se 98.0 7.3E-05 1.6E-09 78.1 14.2 24 85-108 2-25 (182)
195 PRK00007 elongation factor G; 98.0 2.1E-05 4.5E-10 98.5 11.7 55 369-448 117-171 (693)
196 PLN03071 GTP-binding nuclear p 98.0 1.4E-05 3E-10 86.2 8.8 26 83-108 13-38 (219)
197 cd04173 Rnd2_Rho7 Rnd2/Rho7 su 98.0 8.5E-05 1.8E-09 80.4 14.9 24 85-108 3-26 (222)
198 PRK04004 translation initiatio 98.0 2.6E-05 5.6E-10 95.6 12.2 27 81-107 4-30 (586)
199 PRK12739 elongation factor G; 98.0 2.3E-05 4.9E-10 98.2 11.0 37 426-462 241-277 (691)
200 cd00877 Ran Ran (Ras-related n 98.0 2.4E-05 5.3E-10 80.1 9.3 24 85-108 2-25 (166)
201 TIGR00437 feoB ferrous iron tr 98.0 2.7E-05 5.8E-10 95.6 11.0 65 369-461 89-153 (591)
202 cd04126 Rab20 Rab20 subfamily. 98.0 0.0001 2.2E-09 79.6 14.1 24 85-108 2-25 (220)
203 PRK09602 translation-associate 98.0 8.7E-05 1.9E-09 86.9 14.1 39 84-122 2-40 (396)
204 cd04121 Rab40 Rab40 subfamily. 97.9 2.9E-05 6.2E-10 81.9 9.0 26 83-108 6-31 (189)
205 TIGR00993 3a0901s04IAP86 chlor 97.9 5.5E-05 1.2E-09 91.4 12.3 25 84-108 119-143 (763)
206 cd01874 Cdc42 Cdc42 subfamily. 97.9 9.5E-05 2.1E-09 76.6 12.3 24 85-108 3-26 (175)
207 cd01892 Miro2 Miro2 subfamily. 97.9 3.6E-05 7.7E-10 79.2 9.1 25 84-108 5-29 (169)
208 PRK05433 GTP-binding protein L 97.9 9.5E-05 2.1E-09 91.0 14.2 23 84-106 8-30 (600)
209 cd00882 Ras_like_GTPase Ras-li 97.9 6E-05 1.3E-09 72.8 10.2 61 372-458 95-155 (157)
210 TIGR00483 EF-1_alpha translati 97.9 0.00012 2.6E-09 86.8 14.7 23 84-106 8-30 (426)
211 COG0370 FeoB Fe2+ transport sy 97.9 3.7E-05 8.1E-10 92.9 10.3 68 369-464 98-165 (653)
212 cd01871 Rac1_like Rac1-like su 97.9 0.00011 2.4E-09 76.0 12.6 24 85-108 3-26 (174)
213 cd04172 Rnd3_RhoE_Rho8 Rnd3/Rh 97.9 0.0002 4.3E-09 75.0 14.5 25 84-108 6-30 (182)
214 cd04174 Rnd1_Rho6 Rnd1/Rho6 su 97.9 6.5E-05 1.4E-09 81.8 10.8 26 83-108 13-38 (232)
215 TIGR01394 TypA_BipA GTP-bindin 97.9 6.4E-05 1.4E-09 92.3 11.8 21 85-105 3-23 (594)
216 KOG1489|consensus 97.9 8.8E-05 1.9E-09 82.1 11.5 51 381-460 314-364 (366)
217 TIGR00484 EF-G translation elo 97.9 0.0001 2.3E-09 92.4 13.6 35 428-462 244-278 (689)
218 cd01875 RhoG RhoG subfamily. 97.8 0.00024 5.2E-09 74.7 14.0 25 84-108 4-28 (191)
219 cd04131 Rnd Rnd subfamily. Th 97.8 0.00019 4.1E-09 74.8 13.0 24 85-108 3-26 (178)
220 PF02421 FeoB_N: Ferrous iron 97.8 2.2E-05 4.7E-10 80.2 5.7 23 9-31 2-24 (156)
221 cd04105 SR_beta Signal recogni 97.8 0.00018 3.8E-09 76.7 13.0 25 84-108 1-25 (203)
222 PRK00741 prfC peptide chain re 97.8 0.00017 3.7E-09 87.4 14.4 94 370-463 122-274 (526)
223 PRK09435 membrane ATPase/prote 97.8 0.00013 2.7E-09 83.4 12.5 57 383-463 198-260 (332)
224 PRK10218 GTP-binding protein; 97.8 6E-05 1.3E-09 92.5 10.5 24 83-106 5-28 (607)
225 TIGR03680 eif2g_arch translati 97.8 0.00011 2.4E-09 86.5 12.1 58 380-461 135-194 (406)
226 PTZ00141 elongation factor 1- 97.8 9.6E-05 2.1E-09 88.0 11.5 60 371-452 136-202 (446)
227 PRK04000 translation initiatio 97.8 0.00018 4E-09 84.8 13.2 58 380-461 140-199 (411)
228 cd04167 Snu114p Snu114p subfam 97.8 9.7E-05 2.1E-09 79.1 9.8 24 85-108 2-25 (213)
229 PRK13351 elongation factor G; 97.8 0.00035 7.6E-09 87.7 15.9 30 433-462 248-277 (687)
230 COG2262 HflX GTPases [General 97.7 0.00037 8E-09 80.0 14.0 62 368-461 293-354 (411)
231 KOG0094|consensus 97.7 0.00032 7E-09 72.9 11.2 63 374-463 123-185 (221)
232 cd01885 EF2 EF2 (for archaea a 97.7 0.00027 6E-09 76.5 11.4 21 86-106 3-23 (222)
233 cd04133 Rop_like Rop subfamily 97.7 0.00027 5.8E-09 73.7 10.6 24 85-108 3-26 (176)
234 KOG0448|consensus 97.7 0.00021 4.5E-09 85.8 10.7 42 83-124 109-150 (749)
235 smart00176 RAN Ran (Ras-relate 97.6 0.00019 4.1E-09 76.5 9.0 37 240-289 43-79 (200)
236 cd01858 NGP_1 NGP-1. Autoanti 97.6 7.1E-05 1.5E-09 76.1 5.5 23 85-107 104-126 (157)
237 PRK12740 elongation factor G; 97.6 0.0005 1.1E-08 86.1 13.6 34 429-462 228-261 (668)
238 COG1100 GTPase SAR1 and relate 97.6 0.0011 2.3E-08 70.6 14.1 25 84-108 6-30 (219)
239 PF00071 Ras: Ras family; Int 97.6 0.00064 1.4E-08 68.5 11.5 24 85-108 1-24 (162)
240 PTZ00327 eukaryotic translatio 97.6 0.00066 1.4E-08 81.0 13.2 57 380-460 172-230 (460)
241 PF00025 Arf: ADP-ribosylation 97.5 0.00024 5.2E-09 73.8 8.4 58 377-458 113-171 (175)
242 COG4917 EutP Ethanolamine util 97.5 0.00024 5.2E-09 68.9 7.3 28 85-112 3-30 (148)
243 PF05049 IIGP: Interferon-indu 97.5 0.00013 2.8E-09 84.1 6.7 44 61-107 16-59 (376)
244 COG0218 Predicted GTPase [Gene 97.5 7.8E-05 1.7E-09 78.3 4.3 36 6-41 23-58 (200)
245 cd01857 HSR1_MMR1 HSR1/MMR1. 97.4 0.00027 5.9E-09 70.7 6.7 60 43-108 43-108 (141)
246 KOG2486|consensus 97.4 0.00044 9.5E-09 75.5 8.6 60 336-396 204-265 (320)
247 COG0536 Obg Predicted GTPase [ 97.4 0.0015 3.3E-08 73.4 12.3 57 379-461 275-331 (369)
248 cd04129 Rho2 Rho2 subfamily. 97.4 0.0013 2.8E-08 68.7 11.3 24 85-108 3-26 (187)
249 TIGR00073 hypB hydrogenase acc 97.3 0.0029 6.3E-08 67.5 13.5 57 379-460 148-204 (207)
250 COG1159 Era GTPase [General fu 97.3 0.00035 7.6E-09 77.4 6.4 83 9-95 8-100 (298)
251 TIGR00503 prfC peptide chain r 97.3 0.0022 4.9E-08 77.9 13.8 32 432-463 244-275 (527)
252 KOG0078|consensus 97.3 0.0012 2.7E-08 69.6 9.8 65 371-462 109-174 (207)
253 cd04103 Centaurin_gamma Centau 97.3 0.0017 3.7E-08 66.2 10.7 24 85-108 2-25 (158)
254 COG2229 Predicted GTPase [Gene 97.3 0.0047 1E-07 64.0 13.6 77 353-458 95-173 (187)
255 cd01900 YchF YchF subfamily. 97.2 0.00061 1.3E-08 76.0 7.0 37 86-122 1-37 (274)
256 PLN00043 elongation factor 1-a 97.1 0.0024 5.2E-08 76.2 11.0 21 85-105 9-29 (447)
257 KOG1490|consensus 97.1 0.0029 6.4E-08 73.9 11.0 40 66-105 151-190 (620)
258 cd04102 RabL3 RabL3 (Rab-like3 97.1 0.0022 4.8E-08 68.5 9.5 24 85-108 2-25 (202)
259 cd01873 RhoBTB RhoBTB subfamil 97.1 0.0025 5.3E-08 67.6 9.6 23 85-107 4-27 (195)
260 TIGR03596 GTPase_YlqF ribosome 97.0 0.0011 2.4E-08 74.1 7.0 24 84-107 119-142 (276)
261 PTZ00258 GTP-binding protein; 97.0 0.0013 2.7E-08 76.8 7.6 42 82-123 20-61 (390)
262 PF08477 Miro: Miro-like prote 97.0 0.00032 7E-09 67.2 2.1 24 85-108 1-24 (119)
263 cd01855 YqeH YqeH. YqeH is an 97.0 0.00077 1.7E-08 70.7 4.9 24 84-107 128-151 (190)
264 PRK12289 GTPase RsgA; Reviewed 96.9 0.0021 4.5E-08 74.3 8.0 23 85-107 174-196 (352)
265 PF01926 MMR_HSR1: 50S ribosom 96.9 0.00098 2.1E-08 64.0 4.3 36 9-44 1-37 (116)
266 cd01856 YlqF YlqF. Proteins o 96.9 0.0017 3.7E-08 67.1 6.3 25 84-108 116-140 (171)
267 PRK09601 GTP-binding protein Y 96.9 0.0023 4.9E-08 73.9 7.7 38 84-121 3-40 (364)
268 cd04178 Nucleostemin_like Nucl 96.8 0.00072 1.6E-08 70.3 3.2 24 84-107 118-141 (172)
269 PRK09563 rbgA GTPase YlqF; Rev 96.8 0.0018 3.8E-08 72.9 6.5 24 84-107 122-145 (287)
270 PLN00116 translation elongatio 96.8 0.0076 1.6E-07 77.4 13.0 26 82-107 18-43 (843)
271 KOG0084|consensus 96.8 0.0059 1.3E-07 63.9 9.6 119 233-461 51-171 (205)
272 TIGR00490 aEF-2 translation el 96.8 0.0045 9.7E-08 78.2 10.1 24 82-105 18-41 (720)
273 TIGR03156 GTP_HflX GTP-binding 96.8 0.0014 3.1E-08 75.7 5.1 44 6-49 188-231 (351)
274 PTZ00416 elongation factor 2; 96.7 0.0068 1.5E-07 77.7 11.4 25 83-107 19-43 (836)
275 cd04104 p47_IIGP_like p47 (47- 96.6 0.0048 1E-07 65.3 7.6 23 9-31 3-25 (197)
276 PRK00454 engB GTP-binding prot 96.6 0.0016 3.5E-08 67.9 3.9 32 6-37 23-54 (196)
277 cd01878 HflX HflX subfamily. 96.6 0.002 4.3E-08 68.1 4.5 39 6-44 40-78 (204)
278 PRK07560 elongation factor EF- 96.6 0.0085 1.8E-07 75.9 10.8 25 82-106 19-43 (731)
279 PLN00023 GTP-binding protein; 96.6 0.0081 1.8E-07 68.3 9.5 29 80-108 18-46 (334)
280 PRK11058 GTPase HflX; Provisio 96.6 0.002 4.4E-08 76.3 4.9 41 6-46 196-236 (426)
281 TIGR00157 ribosome small subun 96.6 0.0072 1.6E-07 66.5 8.7 24 84-107 121-144 (245)
282 TIGR02836 spore_IV_A stage IV 96.6 0.037 8E-07 64.5 14.4 51 342-392 137-193 (492)
283 PRK12288 GTPase RsgA; Reviewed 96.6 0.0082 1.8E-07 69.3 9.3 24 84-107 206-229 (347)
284 KOG1191|consensus 96.5 0.0018 3.9E-08 75.7 3.8 42 8-50 269-312 (531)
285 PRK04213 GTP-binding protein; 96.5 0.003 6.5E-08 66.5 4.9 40 6-45 8-47 (201)
286 COG0486 ThdF Predicted GTPase 96.5 0.0015 3.3E-08 76.3 2.9 23 9-31 219-241 (454)
287 cd01858 NGP_1 NGP-1. Autoanti 96.5 0.0018 4E-08 65.8 3.1 26 9-34 104-129 (157)
288 TIGR00101 ureG urease accessor 96.4 0.044 9.5E-07 58.4 13.5 53 383-460 141-193 (199)
289 KOG1423|consensus 96.4 0.0042 9.1E-08 68.9 5.7 66 9-74 74-151 (379)
290 cd01859 MJ1464 MJ1464. This f 96.4 0.0073 1.6E-07 61.2 7.1 96 337-463 1-96 (156)
291 PF09439 SRPRB: Signal recogni 96.4 0.0041 8.8E-08 65.2 5.3 25 83-107 3-27 (181)
292 cd01852 AIG1 AIG1 (avrRpt2-ind 96.4 0.0024 5.3E-08 67.4 3.6 28 9-36 2-29 (196)
293 cd01898 Obg Obg subfamily. Th 96.4 0.0029 6.2E-08 64.2 3.7 24 9-32 2-25 (170)
294 cd01859 MJ1464 MJ1464. This f 96.4 0.0064 1.4E-07 61.6 6.2 25 83-107 101-125 (156)
295 TIGR00750 lao LAO/AO transport 96.3 0.046 1E-06 62.0 13.6 25 82-106 33-57 (300)
296 cd01897 NOG NOG1 is a nucleola 96.3 0.0036 7.9E-08 63.4 4.3 25 8-32 1-25 (168)
297 cd01900 YchF YchF subfamily. 96.3 0.0026 5.7E-08 71.0 3.2 37 10-46 1-37 (274)
298 cd01861 Rab6 Rab6 subfamily. 96.3 0.0044 9.6E-08 62.2 4.4 28 9-36 2-29 (161)
299 TIGR02528 EutP ethanolamine ut 96.3 0.003 6.6E-08 62.4 3.2 24 9-32 2-25 (142)
300 PTZ00258 GTP-binding protein; 96.3 0.0036 7.8E-08 73.0 4.2 43 8-50 22-64 (390)
301 PTZ00132 GTP-binding nuclear p 96.2 0.04 8.6E-07 58.9 11.6 152 85-460 11-165 (215)
302 cd01849 YlqF_related_GTPase Yl 96.2 0.0052 1.1E-07 62.4 4.6 44 6-49 99-143 (155)
303 PRK12298 obgE GTPase CgtA; Rev 96.2 0.0048 1E-07 72.4 4.9 45 7-51 159-203 (390)
304 cd01887 IF2_eIF5B IF2/eIF5B (i 96.2 0.0033 7.1E-08 63.5 3.1 27 8-34 1-27 (168)
305 cd04178 Nucleostemin_like Nucl 96.2 0.0034 7.3E-08 65.4 3.1 27 8-34 118-144 (172)
306 KOG0091|consensus 96.2 0.13 2.8E-06 52.5 13.9 24 85-108 10-33 (213)
307 PRK09601 GTP-binding protein Y 96.1 0.0046 9.9E-08 71.4 4.2 39 8-46 3-41 (364)
308 KOG0092|consensus 96.1 0.0082 1.8E-07 62.6 5.3 25 84-108 6-30 (200)
309 cd04159 Arl10_like Arl10-like 96.0 0.0041 9E-08 61.4 2.9 24 9-32 1-24 (159)
310 cd01868 Rab11_like Rab11-like. 96.0 0.0072 1.6E-07 61.1 4.6 29 8-36 4-32 (165)
311 PRK09602 translation-associate 96.0 0.0054 1.2E-07 72.0 4.1 41 8-48 2-42 (396)
312 PRK09866 hypothetical protein; 96.0 0.0064 1.4E-07 73.9 4.5 43 8-50 70-112 (741)
313 TIGR00436 era GTP-binding prot 95.9 0.0048 1E-07 68.7 2.9 24 9-32 2-25 (270)
314 COG1084 Predicted GTPase [Gene 95.9 0.0054 1.2E-07 68.9 3.0 27 5-31 166-192 (346)
315 COG0378 HypB Ni2+-binding GTPa 95.8 0.039 8.5E-07 58.1 8.8 52 383-459 146-197 (202)
316 PRK00089 era GTPase Era; Revie 95.8 0.0098 2.1E-07 66.8 4.8 25 9-33 7-31 (292)
317 cd01854 YjeQ_engC YjeQ/EngC. 95.8 0.022 4.7E-07 64.2 7.6 109 41-270 108-243 (287)
318 cd04163 Era Era subfamily. Er 95.8 0.011 2.4E-07 58.7 4.7 29 7-35 3-31 (168)
319 PRK11889 flhF flagellar biosyn 95.8 0.06 1.3E-06 62.8 11.0 23 84-106 242-264 (436)
320 cd01866 Rab2 Rab2 subfamily. 95.8 0.01 2.3E-07 60.5 4.5 30 8-37 5-34 (168)
321 KOG0090|consensus 95.7 0.074 1.6E-06 56.6 10.6 23 376-398 142-164 (238)
322 cd04119 RJL RJL (RabJ-Like) su 95.7 0.0072 1.6E-07 60.7 3.2 25 9-33 2-26 (168)
323 cd01876 YihA_EngB The YihA (En 95.7 0.0075 1.6E-07 60.2 3.3 31 9-39 1-31 (170)
324 KOG1707|consensus 95.7 0.017 3.8E-07 68.9 6.6 159 85-461 11-173 (625)
325 PF08477 Miro: Miro-like prote 95.7 0.0068 1.5E-07 57.9 2.8 25 9-33 1-25 (119)
326 COG5256 TEF1 Translation elong 95.7 0.019 4.1E-07 66.4 6.7 20 85-104 9-28 (428)
327 COG0532 InfB Translation initi 95.7 0.086 1.9E-06 62.9 12.3 69 365-459 96-166 (509)
328 cd00154 Rab Rab family. Rab G 95.7 0.012 2.6E-07 58.0 4.5 27 9-35 2-28 (159)
329 PRK15467 ethanolamine utilizat 95.7 0.0078 1.7E-07 61.4 3.1 23 9-31 3-25 (158)
330 PRK10416 signal recognition pa 95.7 0.066 1.4E-06 61.2 10.8 22 9-30 116-137 (318)
331 cd01899 Ygr210 Ygr210 subfamil 95.6 0.0085 1.8E-07 68.4 3.5 37 10-46 1-37 (318)
332 cd04138 H_N_K_Ras_like H-Ras/N 95.6 0.0082 1.8E-07 59.9 3.1 26 8-33 2-27 (162)
333 COG1161 Predicted GTPases [Gen 95.6 0.0077 1.7E-07 68.9 3.1 23 10-32 135-157 (322)
334 PF00448 SRP54: SRP54-type pro 95.6 0.1 2.2E-06 55.5 11.2 23 9-31 3-25 (196)
335 cd01862 Rab7 Rab7 subfamily. 95.5 0.014 2.9E-07 59.3 4.4 28 9-36 2-29 (172)
336 cd04171 SelB SelB subfamily. 95.5 0.0079 1.7E-07 60.3 2.5 22 9-30 2-23 (164)
337 cd01895 EngA2 EngA2 subfamily. 95.5 0.013 2.9E-07 58.9 4.1 28 7-34 2-29 (174)
338 cd01867 Rab8_Rab10_Rab13_like 95.5 0.0096 2.1E-07 60.7 3.1 27 7-33 3-29 (167)
339 cd01855 YqeH YqeH. YqeH is an 95.5 0.012 2.6E-07 61.7 3.8 25 8-32 128-152 (190)
340 cd01857 HSR1_MMR1 HSR1/MMR1. 95.5 0.017 3.6E-07 57.8 4.6 26 9-34 85-110 (141)
341 PF03029 ATP_bind_1: Conserved 95.5 0.038 8.1E-07 60.6 7.7 72 378-460 155-234 (238)
342 COG0541 Ffh Signal recognition 95.4 0.18 4E-06 59.0 13.4 43 239-288 181-223 (451)
343 KOG0075|consensus 95.4 0.056 1.2E-06 54.2 7.9 37 242-291 66-102 (186)
344 TIGR01425 SRP54_euk signal rec 95.4 0.081 1.8E-06 62.6 10.8 32 379-410 239-270 (429)
345 TIGR03598 GTPase_YsxC ribosome 95.4 0.014 3E-07 60.6 3.9 30 6-35 17-46 (179)
346 COG1161 Predicted GTPases [Gen 95.4 0.013 2.7E-07 67.2 3.9 23 85-107 134-156 (322)
347 TIGR03596 GTPase_YlqF ribosome 95.4 0.016 3.4E-07 64.9 4.6 42 8-49 119-161 (276)
348 COG1163 DRG Predicted GTPase [ 95.4 0.015 3.2E-07 65.3 4.2 23 9-31 65-87 (365)
349 cd04114 Rab30 Rab30 subfamily. 95.4 0.016 3.5E-07 58.7 4.2 29 7-35 7-35 (169)
350 cd01860 Rab5_related Rab5-rela 95.4 0.012 2.6E-07 59.2 3.2 26 9-34 3-28 (163)
351 smart00173 RAS Ras subfamily o 95.4 0.012 2.5E-07 59.4 3.1 25 9-33 2-26 (164)
352 PRK12296 obgE GTPase CgtA; Rev 95.3 0.016 3.4E-07 69.8 4.6 25 7-31 159-183 (500)
353 cd01863 Rab18 Rab18 subfamily. 95.3 0.015 3.2E-07 58.5 3.7 26 9-34 2-27 (161)
354 smart00175 RAB Rab subfamily o 95.3 0.018 4E-07 57.7 4.3 27 9-35 2-28 (164)
355 cd01851 GBP Guanylate-binding 95.2 0.014 3.1E-07 63.2 3.6 24 7-30 7-30 (224)
356 cd01865 Rab3 Rab3 subfamily. 95.2 0.014 3E-07 59.3 3.2 25 9-33 3-27 (165)
357 PF00009 GTP_EFTU: Elongation 95.2 0.043 9.4E-07 57.4 6.9 61 42-105 122-184 (188)
358 PRK12299 obgE GTPase CgtA; Rev 95.2 0.021 4.5E-07 65.8 4.7 44 7-50 158-201 (335)
359 PF00735 Septin: Septin; Inte 95.2 0.022 4.8E-07 63.9 4.9 25 85-109 6-30 (281)
360 KOG0094|consensus 95.2 0.036 7.8E-07 58.1 5.9 51 5-56 20-82 (221)
361 PRK14974 cell division protein 95.2 0.33 7.1E-06 56.0 14.4 21 9-29 142-162 (336)
362 TIGR02729 Obg_CgtA Obg family 95.1 0.019 4E-07 66.0 4.2 25 7-31 157-181 (329)
363 PRK09563 rbgA GTPase YlqF; Rev 95.1 0.02 4.4E-07 64.4 4.4 39 8-46 122-161 (287)
364 PF03193 DUF258: Protein of un 95.1 0.019 4.2E-07 59.1 3.7 27 8-34 36-62 (161)
365 cd01849 YlqF_related_GTPase Yl 95.1 0.022 4.7E-07 57.8 4.1 44 82-125 99-143 (155)
366 cd04157 Arl6 Arl6 subfamily. 95.1 0.015 3.3E-07 58.3 2.9 23 9-31 1-23 (162)
367 cd04140 ARHI_like ARHI subfami 95.1 0.016 3.5E-07 58.8 3.2 24 9-32 3-26 (165)
368 cd01853 Toc34_like Toc34-like 95.0 0.018 4E-07 63.5 3.7 29 7-35 31-59 (249)
369 PRK12297 obgE GTPase CgtA; Rev 95.0 0.02 4.3E-07 67.8 4.1 25 7-31 158-182 (424)
370 cd04136 Rap_like Rap-like subf 95.0 0.016 3.6E-07 58.1 3.0 25 8-32 2-26 (163)
371 cd04156 ARLTS1 ARLTS1 subfamil 95.0 0.016 3.5E-07 58.1 2.9 24 9-32 1-24 (160)
372 cd04154 Arl2 Arl2 subfamily. 95.0 0.017 3.8E-07 59.2 3.1 25 7-31 14-38 (173)
373 cd04142 RRP22 RRP22 subfamily. 95.0 0.017 3.7E-07 61.3 3.1 24 9-32 2-25 (198)
374 TIGR00231 small_GTP small GTP- 95.0 0.03 6.6E-07 54.6 4.7 25 8-32 2-26 (161)
375 cd01896 DRG The developmentall 94.9 0.023 5E-07 62.0 4.1 23 9-31 2-24 (233)
376 cd01884 EF_Tu EF-Tu subfamily. 94.9 0.098 2.1E-06 55.6 8.7 22 8-29 3-24 (195)
377 cd04123 Rab21 Rab21 subfamily. 94.9 0.022 4.9E-07 56.8 3.6 26 9-34 2-27 (162)
378 KOG0080|consensus 94.9 0.097 2.1E-06 53.2 7.9 26 83-108 11-36 (209)
379 cd01869 Rab1_Ypt1 Rab1/Ypt1 su 94.9 0.02 4.3E-07 58.1 3.2 25 8-32 3-27 (166)
380 COG2262 HflX GTPases [General 94.8 0.016 3.5E-07 66.9 2.7 27 5-31 190-216 (411)
381 cd04106 Rab23_lke Rab23-like s 94.8 0.021 4.5E-07 57.4 3.2 25 9-33 2-26 (162)
382 cd00879 Sar1 Sar1 subfamily. 94.8 0.031 6.8E-07 58.1 4.5 27 6-32 18-44 (190)
383 COG3276 SelB Selenocysteine-sp 94.8 0.16 3.6E-06 59.3 10.6 57 375-456 98-155 (447)
384 KOG1145|consensus 94.8 0.22 4.9E-06 59.3 11.8 64 366-457 243-310 (683)
385 cd04122 Rab14 Rab14 subfamily. 94.8 0.022 4.7E-07 57.9 3.2 26 9-34 4-29 (166)
386 cd04118 Rab24 Rab24 subfamily. 94.8 0.02 4.3E-07 59.8 3.0 25 9-33 2-26 (193)
387 cd04116 Rab9 Rab9 subfamily. 94.8 0.022 4.7E-07 58.0 3.2 28 7-34 5-32 (170)
388 PRK12288 GTPase RsgA; Reviewed 94.8 0.021 4.6E-07 66.0 3.5 25 9-33 207-231 (347)
389 cd04113 Rab4 Rab4 subfamily. 94.8 0.025 5.4E-07 57.0 3.6 28 9-36 2-29 (161)
390 KOG1424|consensus 94.8 0.018 3.9E-07 67.9 2.7 22 8-29 315-336 (562)
391 PRK10463 hydrogenase nickel in 94.8 0.38 8.2E-06 54.2 13.1 189 64-460 90-286 (290)
392 cd04162 Arl9_Arfrp2_like Arl9/ 94.7 0.022 4.7E-07 58.3 3.0 24 9-32 1-24 (164)
393 cd00881 GTP_translation_factor 94.7 0.02 4.4E-07 58.7 2.8 27 9-35 1-27 (189)
394 cd01856 YlqF YlqF. Proteins o 94.7 0.032 6.9E-07 57.7 4.3 27 8-34 116-142 (171)
395 cd00878 Arf_Arl Arf (ADP-ribos 94.7 0.021 4.5E-07 57.3 2.9 23 9-31 1-23 (158)
396 PRK13768 GTPase; Provisional 94.7 0.091 2E-06 58.1 8.0 137 313-463 98-247 (253)
397 cd01851 GBP Guanylate-binding 94.6 0.022 4.7E-07 61.9 2.9 35 83-118 7-45 (224)
398 cd04117 Rab15 Rab15 subfamily. 94.6 0.025 5.5E-07 57.4 3.2 26 9-34 2-27 (161)
399 cd00876 Ras Ras family. The R 94.6 0.023 5.1E-07 56.5 2.9 24 9-32 1-24 (160)
400 cd04139 RalA_RalB RalA/RalB su 94.6 0.025 5.4E-07 56.7 3.1 25 9-33 2-26 (164)
401 cd04145 M_R_Ras_like M-Ras/R-R 94.6 0.024 5.2E-07 57.0 3.0 24 9-32 4-27 (164)
402 cd01864 Rab19 Rab19 subfamily. 94.6 0.025 5.5E-07 57.3 3.2 26 7-32 3-28 (165)
403 cd04155 Arl3 Arl3 subfamily. 94.6 0.025 5.5E-07 57.6 3.2 26 7-32 14-39 (173)
404 cd04124 RabL2 RabL2 subfamily. 94.6 0.026 5.6E-07 57.2 3.1 26 9-34 2-27 (161)
405 PRK15494 era GTPase Era; Provi 94.6 0.022 4.7E-07 65.7 2.9 24 9-32 54-77 (339)
406 cd04160 Arfrp1 Arfrp1 subfamil 94.6 0.021 4.6E-07 57.7 2.5 21 10-30 2-22 (167)
407 cd01881 Obg_like The Obg-like 94.5 0.021 4.5E-07 58.1 2.2 21 12-32 1-21 (176)
408 PRK12289 GTPase RsgA; Reviewed 94.5 0.034 7.5E-07 64.3 4.2 26 9-34 174-199 (352)
409 TIGR00157 ribosome small subun 94.5 0.036 7.7E-07 61.1 4.2 25 8-32 121-145 (245)
410 COG0370 FeoB Fe2+ transport sy 94.5 0.068 1.5E-06 65.5 6.7 34 900-936 589-622 (653)
411 KOG0410|consensus 94.5 0.027 5.9E-07 63.0 3.1 35 2-36 173-207 (410)
412 cd04177 RSR1 RSR1 subgroup. R 94.4 0.027 5.9E-07 57.4 3.0 25 9-33 3-27 (168)
413 smart00178 SAR Sar1p-like memb 94.4 0.029 6.4E-07 58.5 3.2 25 8-32 18-42 (184)
414 TIGR00991 3a0901s02IAP34 GTP-b 94.4 0.029 6.3E-07 63.5 3.3 27 5-31 36-62 (313)
415 PRK14845 translation initiatio 94.4 0.17 3.6E-06 66.0 10.4 24 435-458 645-668 (1049)
416 KOG2203|consensus 94.4 0.025 5.4E-07 66.8 2.7 30 5-34 35-64 (772)
417 cd01892 Miro2 Miro2 subfamily. 94.4 0.03 6.6E-07 57.5 3.1 26 8-33 5-30 (169)
418 PF04548 AIG1: AIG1 family; I 94.3 0.038 8.2E-07 59.4 3.9 29 9-37 2-30 (212)
419 PRK05291 trmE tRNA modificatio 94.3 0.046 1E-06 65.4 5.0 25 8-32 216-240 (449)
420 cd00157 Rho Rho (Ras homology) 94.3 0.03 6.5E-07 56.7 2.9 24 9-32 2-25 (171)
421 cd04108 Rab36_Rab34 Rab34/Rab3 94.3 0.033 7.1E-07 57.3 3.2 25 9-33 2-26 (170)
422 smart00174 RHO Rho (Ras homolo 94.3 0.027 5.8E-07 57.5 2.5 23 10-32 1-23 (174)
423 cd04115 Rab33B_Rab33A Rab33B/R 94.3 0.033 7.1E-07 57.0 3.2 25 8-32 3-27 (170)
424 cd04112 Rab26 Rab26 subfamily. 94.3 0.033 7.1E-07 58.4 3.2 25 9-33 2-26 (191)
425 TIGR00450 mnmE_trmE_thdF tRNA 94.3 0.043 9.3E-07 65.5 4.5 26 7-32 203-228 (442)
426 cd04152 Arl4_Arl7 Arl4/Arl7 su 94.3 0.033 7.2E-07 58.0 3.2 25 9-33 5-29 (183)
427 cd04176 Rap2 Rap2 subgroup. T 94.2 0.034 7.5E-07 56.0 3.2 25 9-33 3-27 (163)
428 cd04107 Rab32_Rab38 Rab38/Rab3 94.2 0.034 7.4E-07 58.7 3.2 25 9-33 2-26 (201)
429 cd04127 Rab27A Rab27a subfamil 94.2 0.035 7.6E-07 57.0 3.2 27 8-34 5-31 (180)
430 cd04175 Rap1 Rap1 subgroup. T 94.2 0.035 7.6E-07 56.1 3.1 24 9-32 3-26 (164)
431 PRK12317 elongation factor 1-a 94.2 0.18 4E-06 59.9 9.6 20 9-28 8-27 (425)
432 KOG0395|consensus 94.1 0.12 2.7E-06 55.0 7.2 26 83-108 3-28 (196)
433 cd04146 RERG_RasL11_like RERG/ 94.1 0.036 7.7E-07 56.2 2.9 24 9-32 1-24 (165)
434 TIGR03597 GTPase_YqeH ribosome 94.1 0.035 7.7E-07 64.5 3.2 23 9-31 156-178 (360)
435 PRK13796 GTPase YqeH; Provisio 94.1 0.032 7E-07 65.0 2.9 35 10-44 163-197 (365)
436 cd04109 Rab28 Rab28 subfamily. 94.0 0.037 8.1E-07 59.3 3.1 24 9-32 2-25 (215)
437 cd00877 Ran Ran (Ras-related n 94.0 0.038 8.3E-07 56.5 3.0 24 9-32 2-25 (166)
438 cd04125 RabA_like RabA-like su 94.0 0.042 9E-07 57.2 3.4 25 9-33 2-26 (188)
439 PRK14723 flhF flagellar biosyn 94.0 0.21 4.6E-06 62.9 9.9 28 384-411 328-355 (767)
440 COG3840 ThiQ ABC-type thiamine 93.9 0.05 1.1E-06 56.8 3.4 25 9-34 27-51 (231)
441 cd01893 Miro1 Miro1 subfamily. 93.9 0.042 9.1E-07 55.9 3.0 24 9-32 2-25 (166)
442 cd04110 Rab35 Rab35 subfamily. 93.8 0.043 9.3E-07 58.0 3.0 26 7-32 6-31 (199)
443 cd04137 RheB Rheb (Ras Homolog 93.8 0.042 9.1E-07 56.5 2.9 24 9-32 3-26 (180)
444 cd04158 ARD1 ARD1 subfamily. 93.8 0.045 9.8E-07 56.0 3.0 24 9-32 1-24 (169)
445 PRK12726 flagellar biosynthesi 93.7 0.32 6.9E-06 56.7 9.9 23 84-106 207-229 (407)
446 cd04149 Arf6 Arf6 subfamily. 93.7 0.048 1E-06 56.0 3.0 27 6-32 8-34 (168)
447 cd04132 Rho4_like Rho4-like su 93.7 0.046 9.9E-07 56.7 2.9 24 9-32 2-25 (187)
448 COG3596 Predicted GTPase [Gene 93.7 0.051 1.1E-06 60.0 3.2 41 8-48 39-81 (296)
449 cd04135 Tc10 TC10 subfamily. 93.6 0.051 1.1E-06 55.4 3.2 25 9-33 2-26 (174)
450 cd04111 Rab39 Rab39 subfamily. 93.6 0.05 1.1E-06 58.3 3.2 26 8-33 3-28 (211)
451 PRK06731 flhF flagellar biosyn 93.6 0.27 5.9E-06 54.9 9.1 25 82-106 74-98 (270)
452 cd04164 trmE TrmE (MnmE, ThdF, 93.6 0.069 1.5E-06 52.8 4.0 25 9-33 3-27 (157)
453 cd01870 RhoA_like RhoA-like su 93.6 0.055 1.2E-06 55.2 3.3 25 8-32 2-26 (175)
454 cd04147 Ras_dva Ras-dva subfam 93.6 0.05 1.1E-06 57.4 3.0 24 9-32 1-24 (198)
455 COG0481 LepA Membrane GTPase L 93.5 0.22 4.8E-06 58.6 8.2 58 377-460 126-183 (603)
456 cd04153 Arl5_Arl8 Arl5/Arl8 su 93.5 0.055 1.2E-06 55.7 3.1 26 7-32 15-40 (174)
457 TIGR03597 GTPase_YqeH ribosome 93.5 0.29 6.3E-06 57.0 9.4 99 336-461 51-151 (360)
458 PRK12723 flagellar biosynthesi 93.5 0.2 4.4E-06 58.8 8.0 28 384-411 317-344 (388)
459 cd04144 Ras2 Ras2 subfamily. 93.4 0.053 1.2E-06 56.7 2.9 24 9-32 1-24 (190)
460 TIGR00993 3a0901s04IAP86 chlor 93.3 0.089 1.9E-06 64.6 4.8 27 9-35 120-146 (763)
461 COG1162 Predicted GTPases [Gen 93.3 0.14 3.1E-06 57.6 6.0 77 87-270 168-246 (301)
462 PLN03108 Rab family protein; P 93.2 0.063 1.4E-06 57.4 3.1 27 8-34 7-33 (210)
463 cd04151 Arl1 Arl1 subfamily. 93.2 0.062 1.3E-06 54.1 2.8 23 9-31 1-23 (158)
464 KOG1954|consensus 93.2 0.43 9.3E-06 54.5 9.5 27 82-108 57-83 (532)
465 cd04101 RabL4 RabL4 (Rab-like4 93.1 0.064 1.4E-06 54.0 2.8 21 9-29 2-22 (164)
466 cd04141 Rit_Rin_Ric Rit/Rin/Ri 93.1 0.066 1.4E-06 55.2 3.0 24 9-32 4-27 (172)
467 PTZ00369 Ras-like protein; Pro 93.1 0.067 1.5E-06 55.9 3.1 26 7-32 5-30 (189)
468 cd04134 Rho3 Rho3 subfamily. 93.1 0.069 1.5E-06 55.9 3.1 24 9-32 2-25 (189)
469 TIGR00491 aIF-2 translation in 93.1 0.071 1.5E-06 65.8 3.6 34 6-39 3-36 (590)
470 KOG0093|consensus 93.1 0.3 6.5E-06 49.1 7.2 42 241-295 70-111 (193)
471 cd01890 LepA LepA subfamily. 93.1 0.053 1.1E-06 55.6 2.1 22 9-30 2-23 (179)
472 cd00880 Era_like Era (E. coli 93.0 0.081 1.8E-06 51.6 3.3 22 12-33 1-22 (163)
473 KOG1489|consensus 93.0 0.11 2.4E-06 58.3 4.5 22 8-29 197-218 (366)
474 TIGR00064 ftsY signal recognit 93.0 0.61 1.3E-05 52.3 10.6 22 85-106 74-95 (272)
475 cd04161 Arl2l1_Arl13_like Arl2 93.0 0.065 1.4E-06 54.8 2.7 22 9-30 1-22 (167)
476 COG0480 FusA Translation elong 92.9 0.56 1.2E-05 58.9 11.2 27 369-395 118-144 (697)
477 PRK14721 flhF flagellar biosyn 92.9 0.27 5.8E-06 58.3 7.8 23 84-106 192-214 (420)
478 PF00005 ABC_tran: ABC transpo 92.8 0.07 1.5E-06 52.5 2.6 23 9-31 13-35 (137)
479 PLN03110 Rab GTPase; Provision 92.8 0.074 1.6E-06 57.1 3.0 25 8-32 13-37 (216)
480 KOG0462|consensus 92.8 0.36 7.8E-06 57.7 8.7 82 353-461 152-233 (650)
481 KOG2486|consensus 92.8 0.029 6.3E-07 61.8 -0.3 98 7-106 136-261 (320)
482 cd04148 RGK RGK subfamily. Th 92.8 0.079 1.7E-06 57.2 3.1 24 9-32 2-25 (221)
483 cd01894 EngA1 EngA1 subfamily. 92.7 0.052 1.1E-06 53.8 1.5 20 11-30 1-20 (157)
484 PLN03118 Rab family protein; P 92.7 0.08 1.7E-06 56.4 3.0 24 9-32 16-39 (211)
485 PF03205 MobB: Molybdopterin g 92.7 0.077 1.7E-06 53.4 2.7 23 8-30 1-23 (140)
486 PRK09554 feoB ferrous iron tra 92.7 0.12 2.5E-06 65.9 4.9 33 900-935 655-688 (772)
487 cd04120 Rab12 Rab12 subfamily. 92.7 0.085 1.8E-06 56.3 3.2 25 9-33 2-26 (202)
488 PRK00098 GTPase RsgA; Reviewed 92.7 0.086 1.9E-06 59.7 3.3 29 9-37 166-194 (298)
489 TIGR01360 aden_kin_iso1 adenyl 92.6 0.084 1.8E-06 54.7 3.0 23 6-28 2-24 (188)
490 PTZ00141 elongation factor 1- 92.6 0.4 8.8E-06 57.4 9.0 79 43-121 146-238 (446)
491 cd04103 Centaurin_gamma Centau 92.6 0.091 2E-06 53.5 3.1 26 9-34 2-27 (158)
492 COG0699 Predicted GTPases (dyn 92.5 1.7 3.7E-05 52.8 14.6 147 618-765 321-531 (546)
493 cd00882 Ras_like_GTPase Ras-li 92.5 0.058 1.3E-06 51.8 1.5 21 12-32 1-21 (157)
494 cd01879 FeoB Ferrous iron tran 92.5 0.097 2.1E-06 52.1 3.2 22 12-33 1-22 (158)
495 PF00071 Ras: Ras family; Int 92.5 0.088 1.9E-06 52.9 2.9 24 9-32 1-24 (162)
496 KOG2655|consensus 92.5 0.66 1.4E-05 53.6 10.1 214 86-510 24-256 (366)
497 cd01874 Cdc42 Cdc42 subfamily. 92.5 0.096 2.1E-06 54.2 3.2 24 9-32 3-26 (175)
498 PF03308 ArgK: ArgK protein; 92.5 0.81 1.7E-05 50.6 10.3 186 70-461 16-228 (266)
499 COG0012 Predicted GTPase, prob 92.5 0.11 2.3E-06 59.9 3.7 24 8-31 3-26 (372)
500 COG1100 GTPase SAR1 and relate 92.5 0.088 1.9E-06 55.9 2.9 25 9-33 7-31 (219)
No 1
>KOG0446|consensus
Probab=100.00 E-value=3e-101 Score=925.09 Aligned_cols=528 Identities=47% Similarity=0.699 Sum_probs=473.7
Q ss_pred hhhhHHHHHHHHHhhhhcC-CCCCCCCceEEeCcCCCChhhHHhhhcCCCcCcccccccccCceEEEEeeCCCCchhhhh
Q psy5059 59 KRTAAAVINKLQDVFNTVG-TDAIQLPQIVVVGTQSSGKSSVIESLVGKSFLPRGIGIVTRRPLILQLYYCPKDDREKRT 137 (1036)
Q Consensus 59 ~~~~~~l~~kL~~~~~~~g-~~~i~lPqIvVvG~QSsGKSSlLEal~G~~flPrg~G~cTR~Pl~l~l~~~~~~~~~~~~ 137 (1036)
++.+++++|++|+.|..+| ...+++|+|||||+||||||||||+++|++|||||+|+|||||+++||.+.....
T Consensus 4 ~~~li~~vn~lqd~~~~l~~~~~i~lP~I~vvG~QSsGKSSvLE~lvG~~flpRg~givTRrPlvlqL~~~~~~~----- 78 (657)
T KOG0446|consen 4 MRLLIPLSNPLQDKLEILGSSSFIPLPQIVVVGGQSSGKSSVLESLVGFVFLPRGVGIVTRRPLILQLSIVAGGD----- 78 (657)
T ss_pred hhhccccchHHHHHHHHhcCCCcccCCceEEecCCCCcchhHHHHhhccccccccccceecccceeecccccCCc-----
Confidence 5678899999999999999 6789999999999999999999999999999999999999999999999864321
Q ss_pred hccCCCCcccccccc-ccccccccchhhhhhhhhHHHHHhhccCCCcccccccccccccccCCcccCChhHHHHHHHHHH
Q psy5059 138 AAAGTMDLDAWGQFL-HTKDKVFRDFDDIRREIEDETERLAGKNKGICTMDLDAWGQFLHTKDKVFRDFDDIRREIEDET 216 (1036)
Q Consensus 138 ~~~~~~~~~~w~~~~-~~~~~~~~df~~~r~ei~~e~~r~~~~~~~i~~~~~~~~~~f~~~~~~~~~~~~~I~~~I~~~~ 216 (1036)
.+|++|+ |++.+.|.||+ +++++|+.++
T Consensus 79 --------~e~~~f~~h~~~~~~~D~~-------------------------------------------~vrkeI~~et 107 (657)
T KOG0446|consen 79 --------EEEASFLTHDKKKRFTDFE-------------------------------------------EVRKEIRSET 107 (657)
T ss_pred --------ccchhccccccccccCCHH-------------------------------------------HHHHHHHhhH
Confidence 2566666 65555555554 4555556667
Q ss_pred HHhcCCCCCcCCCcEEEEEeecCcccceeecCCCccccCCCCCchhHHHHHHHHHHHhhcCCCcEEEEEeccccccccch
Q psy5059 217 ERLAGKNKGICSEPIILKIYSTSVLNLTLVDLPGITKVPVGDQPDDIEAQIKQLVLHYISNPNSIILAVVTANTDMATSE 296 (1036)
Q Consensus 217 ~~~~g~~~~~S~d~I~L~I~~P~~~~LtlVDLPGi~~~~~~~q~~di~~~ir~lv~~yI~~~n~IIL~V~~An~D~~~s~ 296 (1036)
+++.|.++|+|+.+|.|+|++|++++||+|||||++++|+++||+|++.+|++|++.||++++||||+|.+||+|+++|+
T Consensus 108 ~~~~g~~kgiS~~pI~L~i~s~~v~~lTLvDlPG~tkvpv~dqp~di~~qI~~mi~~yi~~~~~iILav~~an~d~ats~ 187 (657)
T KOG0446|consen 108 DRITGSNKGISPVPITLKIFSALVANLTLVDLPGLTKVPVADQPDDIEEEIKSMIEEYIEKPNRIILAVTPANSDIATSP 187 (657)
T ss_pred HHhcCCCCCcCCCCceeeecCCCCchhhhcCCCCCcccccCCCCccHHHHHHHHHHHhccccchhhhhccchhhhhhcCH
Confidence 77777888999999999999999999999999999999999999999999999999999999999999999999999987
Q ss_pred hhhhhhhcCCCCCcccceeccCCCCcccccCCCCCchHHHHHHHHHHhhhcCCCceEEEEEecCccccchHHHHHhhhcc
Q psy5059 297 SLKLAKETDVDGRRTLDLLDIDLPGITKVPVGDQPDDIEAQIKQLVLHYISNPNSIILAVVTANTDMATSESLKLAKETD 376 (1036)
Q Consensus 297 al~l~r~~Dp~g~RTigvl~~~~~g~~~~~~~~~~~~~~~~~~~~~~~y~~~~~~~~~~~v~~~~d~~~~~~~~la~~~d 376 (1036)
| +++|++||
T Consensus 188 a-----------------------------------------------------------------------lkiarevD 196 (657)
T KOG0446|consen 188 A-----------------------------------------------------------------------LVVAREVD 196 (657)
T ss_pred H-----------------------------------------------------------------------HHHHHhhC
Confidence 5 45555555
Q ss_pred ccCCceEEEEecccccCCCchhhhhhcCcccccccccccccchHHHHHHHHHHhhccCCCcceeeeecccchhhhHHHHH
Q psy5059 377 VDGRRTLAVVTKIDLMDAGTDAIDILCGRVIPVKLDVDGRRTYIEAQIKQLVLHYISNPNSIILAVVTANTDMATSESLK 456 (1036)
Q Consensus 377 ~~g~rti~VitK~Dl~~~g~~~~~~l~~~~~~~~~~~~~~~~~~~~~l~~~v~~~i~~~~~ipla~ISA~td~~~qeil~ 456 (1036)
|.|.|||||+||||+||+||+++++|.|++||+++
T Consensus 197 p~g~RTigvitK~DlmdkGt~~~~~L~g~~~~l~~--------------------------------------------- 231 (657)
T KOG0446|consen 197 PGGSRTLEVITKFDFMDKGTNAVTRLVGRPITLKV--------------------------------------------- 231 (657)
T ss_pred CCccchhHHhhhHHhhhcCCcceeeecCCcccccc---------------------------------------------
Confidence 55666666888999999999988777777777664
Q ss_pred HhhhcCcCCCceeeeecccccccccchHHHHhcCcceeeeecEEEEEcCChhhhhhccCHHHHHHHHHHHhhcccccccc
Q psy5059 457 LAKETDVDGRRTLAVVTKIDLMDAGTDAIDILCGRVIPVKLGIIGVVNRSQQDIIDNKSIKDAIKDEAAFLQRKYPTLAS 536 (1036)
Q Consensus 457 la~~vd~~g~RtIgVlTK~Dlmd~gt~~~~il~g~~~~L~LG~~~V~NRs~~di~~~~s~~~al~~E~~fF~~~~~~l~~ 536 (1036)
||++|+||+|+|+..++++.+++.+|..||.
T Consensus 232 -----------------------------------------g~v~vvnR~q~di~~~k~~~~al~~e~~~f~-------- 262 (657)
T KOG0446|consen 232 -----------------------------------------GYVGVVNRSQSIIDFKKSILEALNDEVPSFE-------- 262 (657)
T ss_pred -----------------------------------------ceeeeeccchhhhhhhhhHHHHHHhhhhhhh--------
Confidence 6777899999999999999999999988874
Q ss_pred ccChHHHHHHHHHHHHHHHHhhchhHHHHHHHHHHHHHHHHHhcCCCCchhHHHHHHHHHHHHHHhhhhccccchhHHHh
Q psy5059 537 RNGTLYLAKTLNRLLMHHIRDCLPDLKTRVNVMISQFQTLLNSYGEDVSDKSQTLLQIITKFASAYCSTVEENGIFKFIE 616 (1036)
Q Consensus 537 ~~G~~~L~~~L~~iL~~hIr~~LP~l~~~I~~~l~~~e~~L~~lG~~~~~~~~~L~~~~~~F~~~~~~~le~~~i~~~~e 616 (1036)
T Consensus 263 -------------------------------------------------------------------------------- 262 (657)
T KOG0446|consen 263 -------------------------------------------------------------------------------- 262 (657)
T ss_pred --------------------------------------------------------------------------------
Confidence
Q ss_pred hccChhHHHHHHHHHHHHHHhhcchhHHHHHHHHHHHHhhhccCCCCccchhchhhhhhhhhhHHhhhhcchhhhhhhHH
Q psy5059 617 SKKNPALHERIVEVVTQLLRRRLPATNTMVENLLAIELAYINTKHPDFHKDAALVPSLIKSAEEDYQRRTLSEKEKRDCD 696 (1036)
Q Consensus 617 ~~r~p~L~~rI~evv~~lL~~~~~~~~~~i~~li~~E~~yint~hpdf~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 696 (1036)
T Consensus 263 -------------------------------------------------------------------------------- 262 (657)
T KOG0446|consen 263 -------------------------------------------------------------------------------- 262 (657)
T ss_pred --------------------------------------------------------------------------------
Confidence
Q ss_pred HHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHhhcccchHHhhhcCHHHHHhhhhhhccCCcchhhcc
Q psy5059 697 VIERLIKSYFYIIRKSIQDTVPKAIMHFLVNYVKDNLQSELVTHLYKADSASELLNESEWVAQRRKEASDTKYPTLASRN 776 (1036)
Q Consensus 697 ~i~~~~~sYf~iv~k~~~d~vPk~i~~~lv~~~~~~l~~~l~~~l~~~~~~~~ll~E~~~ia~rR~~~~~~~y~~~~~r~ 776 (1036)
+||.|++++++|
T Consensus 263 --------------------------------------------------------------------~~p~y~~~~~~~ 274 (657)
T KOG0446|consen 263 --------------------------------------------------------------------SVPSYPILLTIS 274 (657)
T ss_pred --------------------------------------------------------------------cccccccccccc
Confidence 356899999999
Q ss_pred chHHHHHHHHHHHHHHHHhhchhhHHHHHHHHHHHHHHHhhcC--CCCcchHHHHHHHHHHHHHhhcccccccccccccc
Q psy5059 777 GTLYLAKTLNRLLMHHIRDCLPDLKTRVNVMISQFQTLLNSYG--EDVSDKSQTLLQIITKFASAYCSTVEGTARNIETT 854 (1036)
Q Consensus 777 G~~~L~~~Ln~~L~~hi~~~LP~l~~~i~~~l~~~~~~l~~~~--d~~~~~~~~lL~~i~~F~~~f~~~I~G~~~~~~~~ 854 (1036)
|+|||++.||++|.+||+++||+|+++|+.++.+++++|+.|| ++...+...++++++.|+.+|+..++|.++.+.+.
T Consensus 275 g~p~La~~L~~~l~~hi~~~lP~l~~~i~~~~~~~~~el~~~g~~~~~~~~~~~ll~~i~~~~~~~~~~v~g~~~~~~~~ 354 (657)
T KOG0446|consen 275 GVPYLALLLPGYLQSHIRDQLPELKTKINKLLEKYQDELNRIGAVDVDLANSAALLAIIREDPRGLRTGVIGKLDLVPTK 354 (657)
T ss_pred CcchHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHHHHhcccCCccchhhHHHHHHHHHHHHHHHhhcccccccchh
Confidence 9999999999999999999999999999999999999999999 77778999999999999999999999998876699
Q ss_pred ccccceeehhhhhhhhhhhccccCCCCCCCHHHHHHHHHhccCCCCCCCCChhHHHHHHHHHHHHhhccHHHHHHHHHHH
Q psy5059 855 ELCGGARICYIFHEIFGKVLDGINPLDGLTKMDILTAIRNATGPRPALFVPEVSFELLVKRQIRRLEEPSQRCVELVHEE 934 (1036)
Q Consensus 855 el~GGAri~~iF~~~F~~~i~~~~p~~~l~~~dIr~aI~n~~G~~~~lfvp~~aFe~Lvk~qI~~l~~Psl~cvdlV~~E 934 (1036)
+++|||||+|+||++|+..+.+++|++++++.+|+++|.|++|++++||+|+.|||.+|++||+++++||++||++|++|
T Consensus 355 elsggari~~~F~~~f~~~i~~i~~~~~~~~~~i~~~i~~~~G~~~~lf~p~~afe~lvk~~i~~l~~p~l~~v~~v~~e 434 (657)
T KOG0446|consen 355 ALSGGARINYPFHGGFPGVIKKLPPDRKLLGQNIEKLVSEASGIRPSLFVPESSFESLVKGQIQSLRDPSLKCVEEVHRE 434 (657)
T ss_pred cccchhhhhhhhhhccchhhhcCCcchhhhHHHHHHHHHhccCCCccccCChHHHHHHHHHHHHHHhhhHHHHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHhccC--C-CC-----------------------------------------C--------------------
Q psy5059 935 MQRIIQHCEKEG--N-IP-----------------------------------------A-------------------- 950 (1036)
Q Consensus 935 L~~i~~~~~~~~--~-~p-----------------------------------------~-------------------- 950 (1036)
|.+++++|.... . || .
T Consensus 435 l~~~~~~~~~~~~l~rfp~l~~~~~~~~~~~~~~~~~~t~~~v~~~i~~e~~yinT~h~df~~~~~~al~~~~~~~~~~~ 514 (657)
T KOG0446|consen 435 LVRIVADSIRATELKRFPVLYSELVEIASSLIAEGLDETKKAVKNLIDLEQSYLNTDHPDFRSLTDSALSSVTSPSIAAM 514 (657)
T ss_pred HHHHHHHHhhhHHHHHhHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHhcCcChhhhhhHHHHHHHhhccccccc
Confidence 999999999852 1 10 0
Q ss_pred --------CC---------------C--------------CCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHH
Q psy5059 951 --------TT---------------S--------------SRTLSEKEKRDCDVIERLIKSYFYIIRKSIQDTVPKAIMH 993 (1036)
Q Consensus 951 --------~~---------------~--------------~~~~~~~e~~q~~~i~~lv~sYf~Iv~k~i~D~VPK~Im~ 993 (1036)
.+ . ...+++++..+++.|+.++.|||+||+++|+|.|||+|||
T Consensus 515 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~sY~~iv~~~i~d~vpk~i~~ 594 (657)
T KOG0446|consen 515 KLISAQLLKEELGECNSALKAIKNAVGSIRLDPSDIVLSRALVLKKRECKETEEISSCPESYLNIVSDKLVDTVPKALNH 594 (657)
T ss_pred ccccccccccccccccchhhhhcchhhhhhhcccchhhhhhhhcchhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 00 0 0235888889999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHhcC-ccchhHHhcCCHHHHHHhhhhc
Q psy5059 994 FLVNYVKDNLQSELVTHLYK-ADSASELLNESEWVAQRRKEST 1035 (1036)
Q Consensus 994 ~lVn~~~~~l~~~L~~~Ly~-~~~~~~Ll~E~~~i~~~R~~~~ 1035 (1036)
+|||.+++.|+++|+++||. .+.++.||+|+|.++++|++|+
T Consensus 595 ~lv~~~k~~l~~~l~~~L~~~~~~~~~ll~E~~~i~~~R~~~~ 637 (657)
T KOG0446|consen 595 ELLNEFKDDLPNELDQRLYAGDEQLESLLKEDPRIKRRRELQQ 637 (657)
T ss_pred HHHHHHHHHHHHHHHHHHHhchhHHHHHHccCHHHHHHHHHHH
Confidence 99999999999999999999 9999999999999999999985
No 2
>KOG0446|consensus
Probab=100.00 E-value=5.6e-54 Score=516.56 Aligned_cols=468 Identities=35% Similarity=0.508 Sum_probs=336.8
Q ss_pred CCCCCCCeEEEeccCCCchHHHHHhhhcCCcccccCCccccccEEEeeccCCCchhhhhhhHHHHHHHHHhhhhcCCCCC
Q psy5059 2 TDAIQLPQIVVVGTQSSGKSSVIESLVGKSFLPRGIGIVTRRPLILQLYYCPKDDREKRTAAAVINKLQDVFNTVGTDAI 81 (1036)
Q Consensus 2 ~~~~~lp~i~vvg~~~~gkss~~~~~~g~~~~pr~~~~~trrpl~l~l~~~~~~~~~~~~~~~l~~kL~~~~~~~g~~~i 81 (1036)
++.++||+|||||+||||||||+|++||++|+|||+|+|||||+||||.+....+.+...
T Consensus 24 ~~~i~lP~I~vvG~QSsGKSSvLE~lvG~~flpRg~givTRrPlvlqL~~~~~~~~e~~~-------------------- 83 (657)
T KOG0446|consen 24 SSFIPLPQIVVVGGQSSGKSSVLESLVGFVFLPRGVGIVTRRPLILQLSIVAGGDEEEAS-------------------- 83 (657)
T ss_pred CCcccCCceEEecCCCCcchhHHHHhhccccccccccceecccceeecccccCCcccchh--------------------
Confidence 467999999999999999999999999999999999999999999999998653211000
Q ss_pred CCCceEEeCcCCCChhhHHhhhcCCCcCcccccccccCceEEEEeeCCCCchhhhhhccCCCCccccccccccccccccc
Q psy5059 82 QLPQIVVVGTQSSGKSSVIESLVGKSFLPRGIGIVTRRPLILQLYYCPKDDREKRTAAAGTMDLDAWGQFLHTKDKVFRD 161 (1036)
Q Consensus 82 ~lPqIvVvG~QSsGKSSlLEal~G~~flPrg~G~cTR~Pl~l~l~~~~~~~~~~~~~~~~~~~~~~w~~~~~~~~~~~~d 161 (1036)
|+ | |.+... ..+++ .
T Consensus 84 --------------------------f~-------~---------h~~~~~---------~~D~~--------------~ 98 (657)
T KOG0446|consen 84 --------------------------FL-------T---------HDKKKR---------FTDFE--------------E 98 (657)
T ss_pred --------------------------cc-------c---------cccccc---------cCCHH--------------H
Confidence 00 0 000000 00000 0
Q ss_pred hhhhhhhhhHHHHHhhccCCCcccccc--ccccccc----------ccCCcccCChhHHHHHHHHHHHHhcCCCCCcCCC
Q psy5059 162 FDDIRREIEDETERLAGKNKGICTMDL--DAWGQFL----------HTKDKVFRDFDDIRREIEDETERLAGKNKGICSE 229 (1036)
Q Consensus 162 f~~~r~ei~~e~~r~~~~~~~i~~~~~--~~~~~f~----------~~~~~~~~~~~~I~~~I~~~~~~~~g~~~~~S~d 229 (1036)
.. +||++|+++++|.++|+++.++ ..++.-+ .++.++.+++.+|..+|+.+...+... ++
T Consensus 99 vr---keI~~et~~~~g~~kgiS~~pI~L~i~s~~v~~lTLvDlPG~tkvpv~dqp~di~~qI~~mi~~yi~~-----~~ 170 (657)
T KOG0446|consen 99 VR---KEIRSETDRITGSNKGISPVPITLKIFSALVANLTLVDLPGLTKVPVADQPDDIEEEIKSMIEEYIEK-----PN 170 (657)
T ss_pred HH---HHHHhhHHHhcCCCCCcCCCCceeeecCCCCchhhhcCCCCCcccccCCCCccHHHHHHHHHHHhccc-----cc
Confidence 11 4789999999999999998775 3443332 355688999999999999988887665 56
Q ss_pred cEEEEEeecCcccceeecCCCccccCCCCCchhHHHHHHHHHHHhhcCCCcEEEEEeccccccccchhhhhhhhcCCCCC
Q psy5059 230 PIILKIYSTSVLNLTLVDLPGITKVPVGDQPDDIEAQIKQLVLHYISNPNSIILAVVTANTDMATSESLKLAKETDVDGR 309 (1036)
Q Consensus 230 ~I~L~I~~P~~~~LtlVDLPGi~~~~~~~q~~di~~~ir~lv~~yI~~~n~IIL~V~~An~D~~~s~al~l~r~~Dp~g~ 309 (1036)
+|.+.|.. - | +.-|++|+..- |+++||+|.
T Consensus 171 ~iILav~~------------a----------------------------n-----~d~ats~alki-----arevDp~g~ 200 (657)
T KOG0446|consen 171 RIILAVTP------------A----------------------------N-----SDIATSPALVV-----AREVDPGGS 200 (657)
T ss_pred hhhhhccc------------h----------------------------h-----hhhhcCHHHHH-----HHhhCCCcc
Confidence 66666632 1 1 23355555443 589999999
Q ss_pred cccceeccCCCCcccccCCCCCchHHHHHHHHHHhhhcCCCceEEEEEecCccccchHHHHHhhhccccCCceEEEEecc
Q psy5059 310 RTLDLLDIDLPGITKVPVGDQPDDIEAQIKQLVLHYISNPNSIILAVVTANTDMATSESLKLAKETDVDGRRTLAVVTKI 389 (1036)
Q Consensus 310 RTigvl~~~~~g~~~~~~~~~~~~~~~~~~~~~~~y~~~~~~~~~~~v~~~~d~~~~~~~~la~~~d~~g~rti~VitK~ 389 (1036)
|||||++ |.=..+++.. ..-.|.+...+.-.+-+||+|+.
T Consensus 201 RTigvit----K~DlmdkGt~------------------------------------~~~~L~g~~~~l~~g~v~vvnR~ 240 (657)
T KOG0446|consen 201 RTLEVIT----KFDFMDKGTN------------------------------------AVTRLVGRPITLKVGYVGVVNRS 240 (657)
T ss_pred chhHHhh----hHHhhhcCCc------------------------------------ceeeecCCccccccceeeeeccc
Confidence 9999985 1111111111 00114555566666667766552
Q ss_pred cccCCCchhhhhhcCcccccccccccccchHHHHHHHHHHhhccCCCcceeeeecccchhhhHHHHHHhhhcCcCCCcee
Q psy5059 390 DLMDAGTDAIDILCGRVIPVKLDVDGRRTYIEAQIKQLVLHYISNPNSIILAVVTANTDMATSESLKLAKETDVDGRRTL 469 (1036)
Q Consensus 390 Dl~~~g~~~~~~l~~~~~~~~~~~~~~~~~~~~~l~~~v~~~i~~~~~ipla~ISA~td~~~qeil~la~~vd~~g~RtI 469 (1036)
=.- +.+.+ -...|..
T Consensus 241 q~d--------------------i~~~k------------------------------------~~~~al~--------- 255 (657)
T KOG0446|consen 241 QSI--------------------IDFKK------------------------------------SILEALN--------- 255 (657)
T ss_pred hhh--------------------hhhhh------------------------------------hHHHHHH---------
Confidence 110 00000 0000000
Q ss_pred eeecccccccccchHHHHhcCcceeeeecEEEEEcCChhhhhhccCHHHHHHHHHHHhhccccccccccChHHHHHHHHH
Q psy5059 470 AVVTKIDLMDAGTDAIDILCGRVIPVKLGIIGVVNRSQQDIIDNKSIKDAIKDEAAFLQRKYPTLASRNGTLYLAKTLNR 549 (1036)
Q Consensus 470 gVlTK~Dlmd~gt~~~~il~g~~~~L~LG~~~V~NRs~~di~~~~s~~~al~~E~~fF~~~~~~l~~~~G~~~L~~~L~~ 549 (1036)
++. ........ |+.+..++|+++|++.|+.
T Consensus 256 -------------~e~--------------------------------~~f~~~p~-----y~~~~~~~g~p~La~~L~~ 285 (657)
T KOG0446|consen 256 -------------DEV--------------------------------PSFESVPS-----YPILLTISGVPYLALLLPG 285 (657)
T ss_pred -------------hhh--------------------------------hhhhcccc-----ccccccccCcchHHHHHHH
Confidence 000 00001111 2456667999999999999
Q ss_pred HHHHHHHhhchhHHHHHHHHHHHHHHHHHhcC--CCCchhHHHHHHHHHHHHHHhhhhcccc----------------ch
Q psy5059 550 LLMHHIRDCLPDLKTRVNVMISQFQTLLNSYG--EDVSDKSQTLLQIITKFASAYCSTVEEN----------------GI 611 (1036)
Q Consensus 550 iL~~hIr~~LP~l~~~I~~~l~~~e~~L~~lG--~~~~~~~~~L~~~~~~F~~~~~~~le~~----------------~i 611 (1036)
.|..||++++|.+++.|+..+.+++++|+++| ++.......|++++++|...+|..+++. ++
T Consensus 286 ~l~~hi~~~lP~l~~~i~~~~~~~~~el~~~g~~~~~~~~~~~ll~~i~~~~~~~~~~v~g~~~~~~~~elsggari~~~ 365 (657)
T KOG0446|consen 286 YLQSHIRDQLPELKTKINKLLEKYQDELNRIGAVDVDLANSAALLAIIREDPRGLRTGVIGKLDLVPTKALSGGARINYP 365 (657)
T ss_pred HHHHHHHhcCcHHHHHHHHHHHHHHHHHHHhcccCCccchhhHHHHHHHHHHHHHHHhhcccccccchhcccchhhhhhh
Confidence 99999999999999999999999999999999 4445556788999999988887765321 11
Q ss_pred hH-----------------------------------------H--------------------------------H---
Q psy5059 612 FK-----------------------------------------F--------------------------------I--- 615 (1036)
Q Consensus 612 ~~-----------------------------------------~--------------------------------~--- 615 (1036)
|+ | +
T Consensus 366 F~~~f~~~i~~i~~~~~~~~~~i~~~i~~~~G~~~~lf~p~~afe~lvk~~i~~l~~p~l~~v~~v~~el~~~~~~~~~~ 445 (657)
T KOG0446|consen 366 FHGGFPGVIKKLPPDRKLLGQNIEKLVSEASGIRPSLFVPESSFESLVKGQIQSLRDPSLKCVEEVHRELVRIVADSIRA 445 (657)
T ss_pred hhhccchhhhcCCcchhhhHHHHHHHHHhccCCCccccCChHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHhhh
Confidence 10 0 0
Q ss_pred -hhccChhHHHHHHHHHHHHHHhhcchhHHHHHHHHHHHHhhhccCCCCccchhc-hhhhhhh---------------hh
Q psy5059 616 -ESKKNPALHERIVEVVTQLLRRRLPATNTMVENLLAIELAYINTKHPDFHKDAA-LVPSLIK---------------SA 678 (1036)
Q Consensus 616 -e~~r~p~L~~rI~evv~~lL~~~~~~~~~~i~~li~~E~~yint~hpdf~~~~~-~~~~~~~---------------~~ 678 (1036)
+..|||.|++++.+++.+++++++.++++||.++|+||.+||||.||||.++.+ ++..... ..
T Consensus 446 ~~l~rfp~l~~~~~~~~~~~~~~~~~~t~~~v~~~i~~e~~yinT~h~df~~~~~~al~~~~~~~~~~~~~~~~~~~~~~ 525 (657)
T KOG0446|consen 446 TELKRFPVLYSELVEIASSLIAEGLDETKKAVKNLIDLEQSYLNTDHPDFRSLTDSALSSVTSPSIAAMKLISAQLLKEE 525 (657)
T ss_pred HHHHHhHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHhcCcChhhhhhHHHHHHHhhcccccccccccccccccc
Confidence 125899999999999999999999999999999999999999999999999885 3322211 00
Q ss_pred ---h----HHhh-----------------hhcchhhhhhhHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHH
Q psy5059 679 ---E----EDYQ-----------------RRTLSEKEKRDCDVIERLIKSYFYIIRKSIQDTVPKAIMHFLVNYVKDNLQ 734 (1036)
Q Consensus 679 ---~----~~~~-----------------~~~~~~~~~~~~~~i~~~~~sYf~iv~k~~~d~vPk~i~~~lv~~~~~~l~ 734 (1036)
. ..+. ...+++++..+++.|+.++.|||+||+|+|.|+|||+|||+|||+++++||
T Consensus 526 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~sY~~iv~~~i~d~vpk~i~~~lv~~~k~~l~ 605 (657)
T KOG0446|consen 526 LGECNSALKAIKNAVGSIRLDPSDIVLSRALVLKKRECKETEEISSCPESYLNIVSDKLVDTVPKALNHELLNEFKDDLP 605 (657)
T ss_pred cccccchhhhhcchhhhhhhcccchhhhhhhhcchhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 0 0000 124567778899999999999999999999999999999999999999999
Q ss_pred HHHHHHhhc-ccchHHhhhcCHHHHHhhhhhhcc
Q psy5059 735 SELVTHLYK-ADSASELLNESEWVAQRRKEASDT 767 (1036)
Q Consensus 735 ~~l~~~l~~-~~~~~~ll~E~~~ia~rR~~~~~~ 767 (1036)
++|+++||+ .+.+++||+|+|.+++||+.+..+
T Consensus 606 ~~l~~~L~~~~~~~~~ll~E~~~i~~~R~~~~~~ 639 (657)
T KOG0446|consen 606 NELDQRLYAGDEQLESLLKEDPRIKRRRELQQKR 639 (657)
T ss_pred HHHHHHHHhchhHHHHHHccCHHHHHHHHHHHHH
Confidence 999999999 999999999999999999988765
No 3
>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=100.00 E-value=1.3e-46 Score=405.19 Aligned_cols=180 Identities=58% Similarity=0.940 Sum_probs=157.9
Q ss_pred hhhHHHHHHHHHhhhhcCC-CCCCCCceEEeCcCCCChhhHHhhhcCCCcCcccccccccCceEEEEeeCCCCchhhhhh
Q psy5059 60 RTAAAVINKLQDVFNTVGT-DAIQLPQIVVVGTQSSGKSSVIESLVGKSFLPRGIGIVTRRPLILQLYYCPKDDREKRTA 138 (1036)
Q Consensus 60 ~~~~~l~~kL~~~~~~~g~-~~i~lPqIvVvG~QSsGKSSlLEal~G~~flPrg~G~cTR~Pl~l~l~~~~~~~~~~~~~ 138 (1036)
..+++++|+|+++++.+|. +.+++|+|||||+||||||||||+|+|.+|+|++.|+|||||++|+|++.+.
T Consensus 2 ~~~~~l~~~i~~l~~~~G~~~~i~~p~i~vvG~~~~GKSt~l~~i~g~~~~~~~~g~~t~~p~~i~l~~~~~-------- 73 (240)
T smart00053 2 EKLIPLVNKLQDAFSALGQEKDLDLPQIAVVGGQSAGKSSVLENFVGRDFLPRGSGIVTRRPLILQLINSST-------- 73 (240)
T ss_pred ccHHHHHHHHHHHHHHcCCCCCCCCCeEEEEcCCCccHHHHHHHHhCCCccccCCCcccccceEEEccCCCC--------
Confidence 4688999999999878885 6799999999999999999999999999999999999999999999987432
Q ss_pred ccCCCCccccccccccccccccchhhhhhhhhHHHHHhhccCCCcccccccccccccccCCcccCChhHHHHHHHHHHHH
Q psy5059 139 AAGTMDLDAWGQFLHTKDKVFRDFDDIRREIEDETERLAGKNKGICTMDLDAWGQFLHTKDKVFRDFDDIRREIEDETER 218 (1036)
Q Consensus 139 ~~~~~~~~~w~~~~~~~~~~~~df~~~r~ei~~e~~r~~~~~~~i~~~~~~~~~~f~~~~~~~~~~~~~I~~~I~~~~~~ 218 (1036)
+|++|++. ++..+.+|+++++.|+.+++.
T Consensus 74 --------~~~~~~~~-------------------------------------------~~~~~~~~~~v~~~i~~~~~~ 102 (240)
T smart00053 74 --------EYAEFLHC-------------------------------------------KGKKFTDFDEVRNEIEAETDR 102 (240)
T ss_pred --------cceEEEec-------------------------------------------CCcccCCHHHHHHHHHHHHHH
Confidence 35555443 334456777888888888888
Q ss_pred hcCCCCCcCCCcEEEEEeecCcccceeecCCCccccCCCCCchhHHHHHHHHHHHhhcCCCcEEEEEeccccccccchhh
Q psy5059 219 LAGKNKGICSEPIILKIYSTSVLNLTLVDLPGITKVPVGDQPDDIEAQIKQLVLHYISNPNSIILAVVTANTDMATSESL 298 (1036)
Q Consensus 219 ~~g~~~~~S~d~I~L~I~~P~~~~LtlVDLPGi~~~~~~~q~~di~~~ir~lv~~yI~~~n~IIL~V~~An~D~~~s~al 298 (1036)
+.|.+++||+++|.|+|+||++|+|+||||||+++.+.++|+.++.+++++|++.||+++++|||+|++|++|+++++++
T Consensus 103 ~~~~~~~~s~~~i~l~i~~p~~~~ltLIDlPGl~~~~~~~~~~~~~~~i~~lv~~yi~~~~~IIL~Vvda~~d~~~~d~l 182 (240)
T smart00053 103 VTGTNKGISPVPINLRVYSPHVLNLTLIDLPGITKVAVGDQPPDIEEQIKDMIKQFISKEECLILAVTPANVDLANSDAL 182 (240)
T ss_pred hcCCCCcccCcceEEEEeCCCCCceEEEeCCCccccccCCccHHHHHHHHHHHHHHHhCccCeEEEEEECCCCCCchhHH
Confidence 88999999999999999999999999999999998888888888999999999999999999999999999998887633
No 4
>PF01031 Dynamin_M: Dynamin central region; InterPro: IPR000375 Dynamin is a microtubule-associated force-producing protein of 100 Kd which is involved in the production of microtubule bundles. At the N terminus of dynamin is a GTPase domain (see IPR001401 from INTERPRO), and at the C terminus is a PH domain (see IPR001849 from INTERPRO). Between these two domains lies a central region of unknown function, which this entry represents.; GO: 0005525 GTP binding; PDB: 3ZVR_A 2AKA_B 2X2F_D 2X2E_D 3SNH_A 3ZYS_D 3ZYC_D 1JWY_B 1JX2_B 3SZR_A ....
Probab=100.00 E-value=6.4e-42 Score=382.38 Aligned_cols=179 Identities=42% Similarity=0.687 Sum_probs=160.2
Q ss_pred cCCcchhhccchHHHHHHHHHHHHHHHHhhchhhHHHHHHHHHHHHHHHhhcCCCCc----chHHHHHHHHHHHHHhhcc
Q psy5059 767 TKYPTLASRNGTLYLAKTLNRLLMHHIRDCLPDLKTRVNVMISQFQTLLNSYGEDVS----DKSQTLLQIITKFASAYCS 842 (1036)
Q Consensus 767 ~~y~~~~~r~G~~~L~~~Ln~~L~~hi~~~LP~l~~~i~~~l~~~~~~l~~~~d~~~----~~~~~lL~~i~~F~~~f~~ 842 (1036)
|.|..+++||||++|+++||+.|++||+++||+|+.+|+.+|++++++|+.||++++ ++...|++++++|+..|.+
T Consensus 48 ~~~~~~~~~~G~~~L~~~L~~~L~~~I~~~LP~l~~~I~~~l~~~~~eL~~lG~~~~~~~~~~~~~l~~~~~~f~~~~~~ 127 (295)
T PF01031_consen 48 PWYSSPADRCGTPALRKRLSELLVEHIRKSLPSLKSEIQKKLQEAEKELKRLGPPRPETPEEQRAYLLQIISKFSRIFKD 127 (295)
T ss_dssp TTTGGGGGGSSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTHHHCSSSCHHHHHHHHHHHHHHHHHHHHH
T ss_pred cccCCcccccchHHHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHHHHHHHHHH
Confidence 356667889999999999999999999999999999999999999999999998775 7899999999999999999
Q ss_pred ccccccc-cccccccccceeehhhhhhhhhhhccccCCCCCCCHHHHHHHHHhccCCCCCCCCChhHHHHHHHHHHHHhh
Q psy5059 843 TVEGTAR-NIETTELCGGARICYIFHEIFGKVLDGINPLDGLTKMDILTAIRNATGPRPALFVPEVSFELLVKRQIRRLE 921 (1036)
Q Consensus 843 ~I~G~~~-~~~~~el~GGAri~~iF~~~F~~~i~~~~p~~~l~~~dIr~aI~n~~G~~~~lfvp~~aFe~Lvk~qI~~l~ 921 (1036)
.|+|... ...+.++.|||||+++|+++|...+.+++|+++++++||+++|+|++|+++|+|+|+.|||.||++||++|+
T Consensus 128 ~i~G~~~~~~~~~~l~~~ari~~~f~~~~~~~~~~~~~~~~~~~~eI~~~i~~~~G~elp~f~p~~afe~Li~~~i~~l~ 207 (295)
T PF01031_consen 128 AIDGEYSDEFSTNELRGGARIRYIFNEWFDKFLEKIDPFEDLSDEEIRTAIRNSRGRELPGFVPESAFESLIRKQIEKLE 207 (295)
T ss_dssp HHTT-------TTS--HHHHHHHHHHHHHHHHHHHTSHHHHHHHHHHHHHHHH--S-SSS-SCCHHHHHHHHHHHHHTTH
T ss_pred HhcCCccccccccccchhhHHHHHHHhhhhhhhhhhccccchhHHHHHHHHHhhcccccccchhHHHHHHHHHHHHHHHH
Confidence 9999887 589999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ccHHHHHHHHHHHHHHHHHHHhcc
Q psy5059 922 EPSQRCVELVHEEMQRIIQHCEKE 945 (1036)
Q Consensus 922 ~Psl~cvdlV~~EL~~i~~~~~~~ 945 (1036)
+||++||+.|+++|.+++.+|..+
T Consensus 208 ~Pa~~cv~~V~~~l~~i~~~~~~~ 231 (295)
T PF01031_consen 208 EPALQCVEEVHEELQRIVEQVLEK 231 (295)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHCH
T ss_pred hHHHHHHHHHHHHHHHHHHhhcch
Confidence 999999999999999999998753
No 5
>COG1160 Predicted GTPases [General function prediction only]
Probab=99.97 E-value=5.2e-31 Score=298.74 Aligned_cols=252 Identities=20% Similarity=0.311 Sum_probs=214.2
Q ss_pred CCeEEEeccCCCchHHHHHhhhc-----CCccc-----------------------------------------------
Q psy5059 7 LPQIVVVGTQSSGKSSVIESLVG-----KSFLP----------------------------------------------- 34 (1036)
Q Consensus 7 lp~i~vvg~~~~gkss~~~~~~g-----~~~~p----------------------------------------------- 34 (1036)
.|.||+||+||||||||||+|+| +++.|
T Consensus 3 ~~~VAIVGRPNVGKSTLFNRL~g~r~AIV~D~pGvTRDr~y~~~~~~~~~f~lIDTgGl~~~~~~~l~~~i~~Qa~~Ai~ 82 (444)
T COG1160 3 TPVVAIVGRPNVGKSTLFNRLTGRRIAIVSDTPGVTRDRIYGDAEWLGREFILIDTGGLDDGDEDELQELIREQALIAIE 82 (444)
T ss_pred CCEEEEECCCCCcHHHHHHHHhCCeeeEeecCCCCccCCccceeEEcCceEEEEECCCCCcCCchHHHHHHHHHHHHHHH
Confidence 39999999999999999999999 77778
Q ss_pred --------------------------ccCCccccccEEEeeccCCCch---------------------hhhhhhHHHHH
Q psy5059 35 --------------------------RGIGIVTRRPLILQLYYCPKDD---------------------REKRTAAAVIN 67 (1036)
Q Consensus 35 --------------------------r~~~~~trrpl~l~l~~~~~~~---------------------~~~~~~~~l~~ 67 (1036)
|..+ +|++|++||+++.. .|++++.+|+|
T Consensus 83 eADvilfvVD~~~Git~~D~~ia~~Lr~~~----kpviLvvNK~D~~~~e~~~~efyslG~g~~~~ISA~Hg~Gi~dLld 158 (444)
T COG1160 83 EADVILFVVDGREGITPADEEIAKILRRSK----KPVILVVNKIDNLKAEELAYEFYSLGFGEPVPISAEHGRGIGDLLD 158 (444)
T ss_pred hCCEEEEEEeCCCCCCHHHHHHHHHHHhcC----CCEEEEEEcccCchhhhhHHHHHhcCCCCceEeehhhccCHHHHHH
Confidence 4333 59999999999843 67889999999
Q ss_pred HHHHhhhhcCC--CC---CCCCceEEeCcCCCChhhHHhhhcCCCcCcccccccccCceEEEEeeCCCCchhhhhhccCC
Q psy5059 68 KLQDVFNTVGT--DA---IQLPQIVVVGTQSSGKSSVIESLVGKSFLPRGIGIVTRRPLILQLYYCPKDDREKRTAAAGT 142 (1036)
Q Consensus 68 kL~~~~~~~g~--~~---i~lPqIvVvG~QSsGKSSlLEal~G~~flPrg~G~cTR~Pl~l~l~~~~~~~~~~~~~~~~~ 142 (1036)
.+-..++ ... .. .+..+|+++|.+++|||||+++|+|.+-
T Consensus 159 ~v~~~l~-~~e~~~~~~~~~~ikiaiiGrPNvGKSsLiN~ilgeeR---------------------------------- 203 (444)
T COG1160 159 AVLELLP-PDEEEEEEEETDPIKIAIIGRPNVGKSSLINAILGEER---------------------------------- 203 (444)
T ss_pred HHHhhcC-CcccccccccCCceEEEEEeCCCCCchHHHHHhccCce----------------------------------
Confidence 9999874 221 11 2468999999999999999999998871
Q ss_pred CCccccccccccccccccchhhhhhhhhHHHHHhhccCCCcccccccccccccccCCcccCChhHHHHHHHHHHHHhcCC
Q psy5059 143 MDLDAWGQFLHTKDKVFRDFDDIRREIEDETERLAGKNKGICTMDLDAWGQFLHTKDKVFRDFDDIRREIEDETERLAGK 222 (1036)
Q Consensus 143 ~~~~~w~~~~~~~~~~~~df~~~r~ei~~e~~r~~~~~~~i~~~~~~~~~~f~~~~~~~~~~~~~I~~~I~~~~~~~~g~ 222 (1036)
..++..+|+
T Consensus 204 -----------------------------------------------------------------------~Iv~~~aGT 212 (444)
T COG1160 204 -----------------------------------------------------------------------VIVSDIAGT 212 (444)
T ss_pred -----------------------------------------------------------------------EEecCCCCc
Confidence 002234455
Q ss_pred CCCcCCCcEEEEEeecCcccceeecCCCccccCCCCCchhHHHHHHHHHHHhhcCCCcEEEEEeccccccccchhhhhhh
Q psy5059 223 NKGICSEPIILKIYSTSVLNLTLVDLPGITKVPVGDQPDDIEAQIKQLVLHYISNPNSIILAVVTANTDMATSESLKLAK 302 (1036)
Q Consensus 223 ~~~~S~d~I~L~I~~P~~~~LtlVDLPGi~~~~~~~q~~di~~~ir~lv~~yI~~~n~IIL~V~~An~D~~~s~al~l~r 302 (1036)
|.|+|...+.. +.-.+.||||.|+.+..+-.+..+..+.+|.+ +.|...+ ++++|.+|...+..||
T Consensus 213 ----TRD~I~~~~e~-~~~~~~liDTAGiRrk~ki~e~~E~~Sv~rt~--~aI~~a~-vvllviDa~~~~~~qD------ 278 (444)
T COG1160 213 ----TRDSIDIEFER-DGRKYVLIDTAGIRRKGKITESVEKYSVARTL--KAIERAD-VVLLVIDATEGISEQD------ 278 (444)
T ss_pred ----cccceeeeEEE-CCeEEEEEECCCCCcccccccceEEEeehhhH--hHHhhcC-EEEEEEECCCCchHHH------
Confidence 78999999986 67889999999999988877777777777777 7888888 7888888998888887
Q ss_pred hcCCCCCcccceeccCCCCcccccCCCCCchHHHHHHHHHHhhhcCCCceEEEEEecCccccchHHHHHhhhccccCCce
Q psy5059 303 ETDVDGRRTLDLLDIDLPGITKVPVGDQPDDIEAQIKQLVLHYISNPNSIILAVVTANTDMATSESLKLAKETDVDGRRT 382 (1036)
Q Consensus 303 ~~Dp~g~RTigvl~~~~~g~~~~~~~~~~~~~~~~~~~~~~~y~~~~~~~~~~~v~~~~d~~~~~~~~la~~~d~~g~rt 382 (1036)
+++|+.+...|+..
T Consensus 279 ------------------------------------------------------------------~~ia~~i~~~g~~~ 292 (444)
T COG1160 279 ------------------------------------------------------------------LRIAGLIEEAGRGI 292 (444)
T ss_pred ------------------------------------------------------------------HHHHHHHHHcCCCe
Confidence 88999999999999
Q ss_pred EEEEecccccCCCchhhhhhcCcccccccccccccchHHHHHHHHHHhhccCCCcceeeeecccchhhhHHHHHHhhhcC
Q psy5059 383 LAVVTKIDLMDAGTDAIDILCGRVIPVKLDVDGRRTYIEAQIKQLVLHYISNPNSIILAVVTANTDMATSESLKLAKETD 462 (1036)
Q Consensus 383 i~VitK~Dl~~~g~~~~~~l~~~~~~~~~~~~~~~~~~~~~l~~~v~~~i~~~~~ipla~ISA~td~~~qeil~la~~vd 462 (1036)
|+|+||||++++.+..+ +.++..++.+++|+.|+|+++|||+++++.+++++.+.+++
T Consensus 293 vIvvNKWDl~~~~~~~~----------------------~~~k~~i~~~l~~l~~a~i~~iSA~~~~~i~~l~~~i~~~~ 350 (444)
T COG1160 293 VIVVNKWDLVEEDEATM----------------------EEFKKKLRRKLPFLDFAPIVFISALTGQGLDKLFEAIKEIY 350 (444)
T ss_pred EEEEEccccCCchhhHH----------------------HHHHHHHHHHhccccCCeEEEEEecCCCChHHHHHHHHHHH
Confidence 99999999999866665 88999999999999999999999999999999999999999
Q ss_pred cCCCceee
Q psy5059 463 VDGRRTLA 470 (1036)
Q Consensus 463 ~~g~RtIg 470 (1036)
....++++
T Consensus 351 ~~~~~ri~ 358 (444)
T COG1160 351 ECATRRIS 358 (444)
T ss_pred HHhccccC
Confidence 88887775
No 6
>KOG0447|consensus
Probab=99.97 E-value=2.5e-29 Score=282.06 Aligned_cols=289 Identities=29% Similarity=0.446 Sum_probs=200.6
Q ss_pred hhhhhhHHHHHHHHHhhhhcCC---CCCCCCceEEeCcCCCChhhHHhhhcCCCcCccccc-ccccCceEEEEeeCCCCc
Q psy5059 57 REKRTAAAVINKLQDVFNTVGT---DAIQLPQIVVVGTQSSGKSSVIESLVGKSFLPRGIG-IVTRRPLILQLYYCPKDD 132 (1036)
Q Consensus 57 ~~~~~~~~l~~kL~~~~~~~g~---~~i~lPqIvVvG~QSsGKSSlLEal~G~~flPrg~G-~cTR~Pl~l~l~~~~~~~ 132 (1036)
.-.+.++++....-|+++.-.. ..-.||++|||||||+||+||||.|+.-.++|||+| +.||.|..+.|...|-..
T Consensus 279 klKkSLIDMYSEVLD~Ls~YD~sYnt~DhLPRVVVVGDQSaGKTSVLEmiAqARIFPRGSGEMMTRaPVKVTLsEGPyHV 358 (980)
T KOG0447|consen 279 KLKKSLIDMYSEVLDVLSDYDASYNTQDHLPRVVVVGDQSAGKTSVLEMIAQARIFPRGSGEMMTRSPVKVTLSEGPHHV 358 (980)
T ss_pred HHHHHHHHHHHHHHHHHhcccccccccccCceEEEEcCccccchHHHHHHHHhccCcCCCcceeccCCeEEEeccCcchh
Confidence 3445777888888777774332 234599999999999999999999999999999999 999999999998754311
Q ss_pred hhhhhhccCCCCccccccccccccccccchhhhhhhhhHHHHHhhccCCCcccccccccccccccCCcccCChhHHHHHH
Q psy5059 133 REKRTAAAGTMDLDAWGQFLHTKDKVFRDFDDIRREIEDETERLAGKNKGICTMDLDAWGQFLHTKDKVFRDFDDIRREI 212 (1036)
Q Consensus 133 ~~~~~~~~~~~~~~~w~~~~~~~~~~~~df~~~r~ei~~e~~r~~~~~~~i~~~~~~~~~~f~~~~~~~~~~~~~I~~~I 212 (1036)
. -|+|.+ .+|-.+ +..|+.+++.++
T Consensus 359 A------------------------qFrDSs----------------------------REfDLT---KE~DLq~LR~e~ 383 (980)
T KOG0447|consen 359 A------------------------LFKDSS----------------------------REFDLT---KEEDLAALRHEI 383 (980)
T ss_pred h------------------------hhcccc----------------------------cccccc---chhHHHHHHHHH
Confidence 0 011110 112222 346778888888
Q ss_pred HHHHHHhcCCCCCcCCCcEEEEEeecCcccceeecCCCccccCCCCCchhHHHHHHHHHHHhhcCCCcEEEEEecccccc
Q psy5059 213 EDETERLAGKNKGICSEPIILKIYSTSVLNLTLVDLPGITKVPVGDQPDDIEAQIKQLVLHYISNPNSIILAVVTANTDM 292 (1036)
Q Consensus 213 ~~~~~~~~g~~~~~S~d~I~L~I~~P~~~~LtlVDLPGi~~~~~~~q~~di~~~ir~lv~~yI~~~n~IIL~V~~An~D~ 292 (1036)
+-.+..-...++.+|+.+|.+.+.||+.+.+.||||||++..-+.+-..|..+-|-.|
T Consensus 384 E~RMr~sVr~GkTVSnEvIsltVKGPgLqRMVLVDLPGvIsTvT~dMA~dTKd~I~~m---------------------- 441 (980)
T KOG0447|consen 384 ELRMRKNVKEGCTVSPETISLNVKGPGLQRMVLVDLPGVINTVTSGMAPDTKETIFSI---------------------- 441 (980)
T ss_pred HHHHHhcccCCcccccceEEEeecCCCcceeEEecCCchhhhhcccccccchHHHHHH----------------------
Confidence 8777766777899999999999999999999999999997644433333333344444
Q ss_pred ccchhhhhhhhcCCCCCcccceeccCCCCcccccCCCCCchHHHHHHHHHHhhhcCCCceEEEEEecCccccchHHHHHh
Q psy5059 293 ATSESLKLAKETDVDGRRTLDLLDIDLPGITKVPVGDQPDDIEAQIKQLVLHYISNPNSIILAVVTANTDMATSESLKLA 372 (1036)
Q Consensus 293 ~~s~al~l~r~~Dp~g~RTigvl~~~~~g~~~~~~~~~~~~~~~~~~~~~~~y~~~~~~~~~~~v~~~~d~~~~~~~~la 372 (1036)
.+.|+.||||||||+-++.+|+|.|-..-|.
T Consensus 442 -------------------------------------------------sKayM~NPNAIILCIQDGSVDAERSnVTDLV 472 (980)
T KOG0447|consen 442 -------------------------------------------------SKAYMQNPNAIILCIQDGSVDAERSIVTDLV 472 (980)
T ss_pred -------------------------------------------------HHHHhcCCCeEEEEeccCCcchhhhhHHHHH
Confidence 4555555555555555555556666667788
Q ss_pred hhccccCCceEEEEecccccCCCchhhhhhcCcccccccccccccchHHHHHHHHHHhhccCCCcceeeeecccchhhhH
Q psy5059 373 KETDVDGRRTLAVVTKIDLMDAGTDAIDILCGRVIPVKLDVDGRRTYIEAQIKQLVLHYISNPNSIILAVVTANTDMATS 452 (1036)
Q Consensus 373 ~~~d~~g~rti~VitK~Dl~~~g~~~~~~l~~~~~~~~~~~~~~~~~~~~~l~~~v~~~i~~~~~ipla~ISA~td~~~q 452 (1036)
-..||.|+|||.|+||.|+.++.-.
T Consensus 473 sq~DP~GrRTIfVLTKVDlAEknlA------------------------------------------------------- 497 (980)
T KOG0447|consen 473 SQMDPHGRRTIFVLTKVDLAEKNVA------------------------------------------------------- 497 (980)
T ss_pred HhcCCCCCeeEEEEeecchhhhccC-------------------------------------------------------
Confidence 8888888889999999998754210
Q ss_pred HHHHHhhhcCcCCCceeeeecccccccccchHHHHhcCcceeee-ecEEEEEcCChhhhhhccCHHHHHHHHHHHhhcc-
Q psy5059 453 ESLKLAKETDVDGRRTLAVVTKIDLMDAGTDAIDILCGRVIPVK-LGIIGVVNRSQQDIIDNKSIKDAIKDEAAFLQRK- 530 (1036)
Q Consensus 453 eil~la~~vd~~g~RtIgVlTK~Dlmd~gt~~~~il~g~~~~L~-LG~~~V~NRs~~di~~~~s~~~al~~E~~fF~~~- 530 (1036)
-|| ....++.|+..|++ ||||+|+.-.. +.+.++..-.+-|+.||.+.
T Consensus 498 ---------------------~Pd------RI~kIleGKLFPMKALGYfaVVTGrG---nssdSIdaIR~YEE~FF~nSk 547 (980)
T KOG0447|consen 498 ---------------------SPS------RIQQIIEGKLFPMKALGYFAVVTGKG---NSSESIEAIREYEEEFFQNSK 547 (980)
T ss_pred ---------------------CHH------HHHHHHhcCccchhhcceeEEEecCC---CcchhHHHHHHHHHHHhhhhH
Confidence 111 23568899999996 79999987422 22345666678899999862
Q ss_pred -cc-c-c-ccccChHHHHHHHHHHHHHHHH
Q psy5059 531 -YP-T-L-ASRNGTLYLAKTLNRLLMHHIR 556 (1036)
Q Consensus 531 -~~-~-l-~~~~G~~~L~~~L~~iL~~hIr 556 (1036)
+. . + ++.+.+.+|.-..+..+-..+|
T Consensus 548 Ll~~~vlkphQvTtRNlSLAVSDcFWkMVR 577 (980)
T KOG0447|consen 548 LLKTSMLKAHQVTTRNLSLAVSDCFWKMVR 577 (980)
T ss_pred HHHhhccchhhhcccchhHHHHHHHHHHHH
Confidence 21 1 2 4555666666666666655555
No 7
>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=99.90 E-value=2.2e-23 Score=225.10 Aligned_cols=204 Identities=42% Similarity=0.650 Sum_probs=144.1
Q ss_pred CCCCCeEEEeccCCCchHHHHHhhhcCCcccccCCccccccEEEeeccCCCchhhhhhhHHHHHHHHHhhhhcCCCCCCC
Q psy5059 4 AIQLPQIVVVGTQSSGKSSVIESLVGKSFLPRGIGIVTRRPLILQLYYCPKDDREKRTAAAVINKLQDVFNTVGTDAIQL 83 (1036)
Q Consensus 4 ~~~lp~i~vvg~~~~gkss~~~~~~g~~~~pr~~~~~trrpl~l~l~~~~~~~~~~~~~~~l~~kL~~~~~~~g~~~i~l 83 (1036)
.+++|+|||||.||+|||||+|+|.|.+|+|++.|.|||+|+.+++.+.......
T Consensus 23 ~i~~p~i~vvG~~~~GKSt~l~~i~g~~~~~~~~g~~t~~p~~i~l~~~~~~~~~------------------------- 77 (240)
T smart00053 23 DLDLPQIAVVGGQSAGKSSVLENFVGRDFLPRGSGIVTRRPLILQLINSSTEYAE------------------------- 77 (240)
T ss_pred CCCCCeEEEEcCCCccHHHHHHHHhCCCccccCCCcccccceEEEccCCCCcceE-------------------------
Confidence 4899999999999999999999999999999999999999999999875331100
Q ss_pred CceEEeCcCCCChhhHHhhhcCCCcCcccccccccCceEEEEeeCCCCchhhhhhccCCCCccccccccccccccccchh
Q psy5059 84 PQIVVVGTQSSGKSSVIESLVGKSFLPRGIGIVTRRPLILQLYYCPKDDREKRTAAAGTMDLDAWGQFLHTKDKVFRDFD 163 (1036)
Q Consensus 84 PqIvVvG~QSsGKSSlLEal~G~~flPrg~G~cTR~Pl~l~l~~~~~~~~~~~~~~~~~~~~~~w~~~~~~~~~~~~df~ 163 (1036)
|+ .. +.. .+.+|.
T Consensus 78 ------------------------~~--------------~~---~~~--------------------------~~~~~~ 90 (240)
T smart00053 78 ------------------------FL--------------HC---KGK--------------------------KFTDFD 90 (240)
T ss_pred ------------------------EE--------------ec---CCc--------------------------ccCCHH
Confidence 00 00 000 124788
Q ss_pred hhhhhhhHHHHHhhccCCCcccccc--cccccc------cccCCccc----CChhHHHHHHHHHHHHhcCCCCCcCCCcE
Q psy5059 164 DIRREIEDETERLAGKNKGICTMDL--DAWGQF------LHTKDKVF----RDFDDIRREIEDETERLAGKNKGICSEPI 231 (1036)
Q Consensus 164 ~~r~ei~~e~~r~~~~~~~i~~~~~--~~~~~f------~~~~~~~~----~~~~~I~~~I~~~~~~~~g~~~~~S~d~I 231 (1036)
+++.+|+.+++++++.++++++..+ +.+++. ..+||... .+..++.+.+++.+..+... ++.|
T Consensus 91 ~v~~~i~~~~~~~~~~~~~~s~~~i~l~i~~p~~~~ltLIDlPGl~~~~~~~~~~~~~~~i~~lv~~yi~~-----~~~I 165 (240)
T smart00053 91 EVRNEIEAETDRVTGTNKGISPVPINLRVYSPHVLNLTLIDLPGITKVAVGDQPPDIEEQIKDMIKQFISK-----EECL 165 (240)
T ss_pred HHHHHHHHHHHHhcCCCCcccCcceEEEEeCCCCCceEEEeCCCccccccCCccHHHHHHHHHHHHHHHhC-----ccCe
Confidence 9999999999999998888876543 233322 12444321 22355667777777666554 4446
Q ss_pred EEEEeecCcccceeecCCCccccCCCCCchhHHHHHHHHHHHhhcCCCcEEEEEeccccccccchhhhhhhhcCCCCCcc
Q psy5059 232 ILKIYSTSVLNLTLVDLPGITKVPVGDQPDDIEAQIKQLVLHYISNPNSIILAVVTANTDMATSESLKLAKETDVDGRRT 311 (1036)
Q Consensus 232 ~L~I~~P~~~~LtlVDLPGi~~~~~~~q~~di~~~ir~lv~~yI~~~n~IIL~V~~An~D~~~s~al~l~r~~Dp~g~RT 311 (1036)
.|-+.... -|+ .+.|..+.++
T Consensus 166 IL~Vvda~---------~d~-------~~~d~l~ia~------------------------------------------- 186 (240)
T smart00053 166 ILAVTPAN---------VDL-------ANSDALKLAK------------------------------------------- 186 (240)
T ss_pred EEEEEECC---------CCC-------CchhHHHHHH-------------------------------------------
Confidence 66664211 011 1122211111
Q ss_pred cceeccCCCCcccccCCCCCchHHHHHHHHHHhhhcCCCceEEEEEecCccccchHHHHHhhhccccCCceEEEEecccc
Q psy5059 312 LDLLDIDLPGITKVPVGDQPDDIEAQIKQLVLHYISNPNSIILAVVTANTDMATSESLKLAKETDVDGRRTLAVVTKIDL 391 (1036)
Q Consensus 312 igvl~~~~~g~~~~~~~~~~~~~~~~~~~~~~~y~~~~~~~~~~~v~~~~d~~~~~~~~la~~~d~~g~rti~VitK~Dl 391 (1036)
++|+.|+|||||+||+|.
T Consensus 187 --------------------------------------------------------------~ld~~~~rti~ViTK~D~ 204 (240)
T smart00053 187 --------------------------------------------------------------EVDPQGERTIGVITKLDL 204 (240)
T ss_pred --------------------------------------------------------------HHHHcCCcEEEEEECCCC
Confidence 246789999999999999
Q ss_pred cCCCchhhhhhcCcccccccccccccchHHHHHH
Q psy5059 392 MDAGTDAIDILCGRVIPVKLDVDGRRTYIEAQIK 425 (1036)
Q Consensus 392 ~~~g~~~~~~l~~~~~~~~~~~~~~~~~~~~~l~ 425 (1036)
+++|+++.++|.|+.+||+|||++++++.+++++
T Consensus 205 ~~~~~~~~~~~~~~~~~l~~g~~~v~nr~~~d~~ 238 (240)
T smart00053 205 MDEGTDARDILENKLLPLRRGYIGVVNRSQKDIE 238 (240)
T ss_pred CCccHHHHHHHhCCccccCCCEEEEECCChHHhh
Confidence 9999999999999999999999999997776553
No 8
>PF01031 Dynamin_M: Dynamin central region; InterPro: IPR000375 Dynamin is a microtubule-associated force-producing protein of 100 Kd which is involved in the production of microtubule bundles. At the N terminus of dynamin is a GTPase domain (see IPR001401 from INTERPRO), and at the C terminus is a PH domain (see IPR001849 from INTERPRO). Between these two domains lies a central region of unknown function, which this entry represents.; GO: 0005525 GTP binding; PDB: 3ZVR_A 2AKA_B 2X2F_D 2X2E_D 3SNH_A 3ZYS_D 3ZYC_D 1JWY_B 1JX2_B 3SZR_A ....
Probab=99.85 E-value=2.3e-21 Score=216.99 Aligned_cols=179 Identities=41% Similarity=0.636 Sum_probs=147.2
Q ss_pred eeeecEEEEEcCChhhhhhccCHHHHHHHHHHHhhcc--ccccccccChHHHHHHHHHHHHHHHHhhchhHHHHHHHHHH
Q psy5059 494 PVKLGIIGVVNRSQQDIIDNKSIKDAIKDEAAFLQRK--YPTLASRNGTLYLAKTLNRLLMHHIRDCLPDLKTRVNVMIS 571 (1036)
Q Consensus 494 ~L~LG~~~V~NRs~~di~~~~s~~~al~~E~~fF~~~--~~~l~~~~G~~~L~~~L~~iL~~hIr~~LP~l~~~I~~~l~ 571 (1036)
||+||||+|+||||+|+.++.|+.+++.+|..||.++ |+..++++||++|+.+|+++|.+||+++||.|+.+|+..+.
T Consensus 11 pLklGy~~V~nrsq~di~~~~s~~~a~~~E~~fF~~~~~~~~~~~~~G~~~L~~~L~~~L~~~I~~~LP~l~~~I~~~l~ 90 (295)
T PF01031_consen 11 PLKLGYVGVKNRSQQDINDGKSIEEARQKEKEFFSNHPWYSSPADRCGTPALRKRLSELLVEHIRKSLPSLKSEIQKKLQ 90 (295)
T ss_dssp --TT-EEEE--S-HHHHHTTEEHHHHHHHHHHHHHHSTTTGGGGGGSSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred ccCCCeEEEecCCccccccCCCHHHHHHHHHHHHhcccccCCcccccchHHHHHHHHHHHHHHHHHhCcHHHHHHHHHHH
Confidence 3445899999999999999999999999999999886 88888999999999999999999999999999999999999
Q ss_pred HHHHHHHhcCCCCc----hhHHHHHHHHHHHHHHhhhhccccch-----------------hH-----------------
Q psy5059 572 QFQTLLNSYGEDVS----DKSQTLLQIITKFASAYCSTVEENGI-----------------FK----------------- 613 (1036)
Q Consensus 572 ~~e~~L~~lG~~~~----~~~~~L~~~~~~F~~~~~~~le~~~i-----------------~~----------------- 613 (1036)
+++.+|++||++++ +.+.+|++++++|++.+...++|.+- |+
T Consensus 91 ~~~~eL~~lG~~~~~~~~~~~~~l~~~~~~f~~~~~~~i~G~~~~~~~~~~l~~~ari~~~f~~~~~~~~~~~~~~~~~~ 170 (295)
T PF01031_consen 91 EAEKELKRLGPPRPETPEEQRAYLLQIISKFSRIFKDAIDGEYSDEFSTNELRGGARIRYIFNEWFDKFLEKIDPFEDLS 170 (295)
T ss_dssp HHHHHHHTHHHCSSSCHHHHHHHHHHHHHHHHHHHHHHHTT-------TTS--HHHHHHHHHHHHHHHHHHHTSHHHHHH
T ss_pred HHHHHHHHhCCCCCCCHHHHHHHHHHHHHHHHHHHHHHhcCCccccccccccchhhHHHHHHHhhhhhhhhhhccccchh
Confidence 99999999999988 45679999999999888777654321 10
Q ss_pred ------------------------H-------H----------------------------hhccChhHHHHHHHHHHHH
Q psy5059 614 ------------------------F-------I----------------------------ESKKNPALHERIVEVVTQL 634 (1036)
Q Consensus 614 ------------------------~-------~----------------------------e~~r~p~L~~rI~evv~~l 634 (1036)
| + +..+||.|++++.+++.++
T Consensus 171 ~~eI~~~i~~~~G~elp~f~p~~afe~Li~~~i~~l~~Pa~~cv~~V~~~l~~i~~~~~~~~~~~fp~L~~~i~~~v~~~ 250 (295)
T PF01031_consen 171 DEEIRTAIRNSRGRELPGFVPESAFESLIRKQIEKLEEPALQCVEEVHEELQRIVEQVLEKEFERFPNLKEAIKEAVQQL 250 (295)
T ss_dssp HHHHHHHHHH--S-SSS-SCCHHHHHHHHHHHHHTTHHHHHHHHHHHHHHHHHHHHHHHCHHHTTSHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHhhcccccccchhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHhhcchhcCCchHHHHHHHHHHHHH
Confidence 0 0 1258999999999999999
Q ss_pred HHhhcchhHHHHHHHHHHHHhhhccCCCCccchhchhh
Q psy5059 635 LRRRLPATNTMVENLLAIELAYINTKHPDFHKDAALVP 672 (1036)
Q Consensus 635 L~~~~~~~~~~i~~li~~E~~yint~hpdf~~~~~~~~ 672 (1036)
+.++..+|.+||+++|+||.+||||+||||.++.....
T Consensus 251 l~~~~~~a~~~i~~li~~E~~~i~T~~~~f~~~~~~~~ 288 (295)
T PF01031_consen 251 LEECREPAKEMIENLIDMELSYINTQHPDFLGELQAIR 288 (295)
T ss_dssp HHHHHHHHHHHHHHHHHHHTTS--TTSTT--TTS----
T ss_pred HHHHHHHHHHHHHHHHHHhcccCCCCCHHHHHHHHHHH
Confidence 99999999999999999999999999999999865554
No 9
>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=99.81 E-value=4.2e-19 Score=208.53 Aligned_cols=78 Identities=18% Similarity=0.195 Sum_probs=61.7
Q ss_pred HHHhhhccccCCceEEEEecccccCCCchhhhhhcCcccccccccccccchHHHHHHHHHHhhccCCCcceeeeecccch
Q psy5059 369 LKLAKETDVDGRRTLAVVTKIDLMDAGTDAIDILCGRVIPVKLDVDGRRTYIEAQIKQLVLHYISNPNSIILAVVTANTD 448 (1036)
Q Consensus 369 ~~la~~~d~~g~rti~VitK~Dl~~~g~~~~~~l~~~~~~~~~~~~~~~~~~~~~l~~~v~~~i~~~~~ipla~ISA~td 448 (1036)
.++++.+...|.+.|.|+||||+.+ ..+.. +.+.+.+...+.+..++++.++||+++
T Consensus 273 ~~~~~~~~~~~~~iiiv~NK~Dl~~-~~~~~----------------------~~~~~~~~~~~~~~~~~~vi~~SA~~g 329 (429)
T TIGR03594 273 LRIAGLILEAGKALVIVVNKWDLVK-DEKTR----------------------EEFKKELRRKLPFLDFAPIVFISALTG 329 (429)
T ss_pred HHHHHHHHHcCCcEEEEEECcccCC-CHHHH----------------------HHHHHHHHHhcccCCCCceEEEeCCCC
Confidence 4566777778999999999999983 22222 566777888888899999999999999
Q ss_pred hhhHHHHHHhhhcCcCCCcee
Q psy5059 449 MATSESLKLAKETDVDGRRTL 469 (1036)
Q Consensus 449 ~~~qeil~la~~vd~~g~RtI 469 (1036)
.++.++++.+........+++
T Consensus 330 ~~v~~l~~~i~~~~~~~~~~i 350 (429)
T TIGR03594 330 QGVDKLLDAIDEVYENANRRI 350 (429)
T ss_pred CCHHHHHHHHHHHHHHhcCcC
Confidence 999999998877765554444
No 10
>PRK03003 GTP-binding protein Der; Reviewed
Probab=99.81 E-value=7.7e-19 Score=208.77 Aligned_cols=78 Identities=12% Similarity=0.051 Sum_probs=61.0
Q ss_pred HHHhhhccccCCceEEEEecccccCCCchhhhhhcCcccccccccccccchHHHHHHHHHHhhccCCCcceeeeecccch
Q psy5059 369 LKLAKETDVDGRRTLAVVTKIDLMDAGTDAIDILCGRVIPVKLDVDGRRTYIEAQIKQLVLHYISNPNSIILAVVTANTD 448 (1036)
Q Consensus 369 ~~la~~~d~~g~rti~VitK~Dl~~~g~~~~~~l~~~~~~~~~~~~~~~~~~~~~l~~~v~~~i~~~~~ipla~ISA~td 448 (1036)
++++..+...|.++|.|+||||+.++... ..+...+...+.+..++|...+||+++
T Consensus 312 ~~~~~~~~~~~~piIiV~NK~Dl~~~~~~------------------------~~~~~~i~~~l~~~~~~~~~~~SAk~g 367 (472)
T PRK03003 312 QRVLSMVIEAGRALVLAFNKWDLVDEDRR------------------------YYLEREIDRELAQVPWAPRVNISAKTG 367 (472)
T ss_pred HHHHHHHHHcCCCEEEEEECcccCChhHH------------------------HHHHHHHHHhcccCCCCCEEEEECCCC
Confidence 34566666689999999999999753211 345566777788888899999999999
Q ss_pred hhhHHHHHHhhhcCcCCCceee
Q psy5059 449 MATSESLKLAKETDVDGRRTLA 470 (1036)
Q Consensus 449 ~~~qeil~la~~vd~~g~RtIg 470 (1036)
.++.+++..+.+..+...++++
T Consensus 368 ~gv~~lf~~i~~~~~~~~~~i~ 389 (472)
T PRK03003 368 RAVDKLVPALETALESWDTRIP 389 (472)
T ss_pred CCHHHHHHHHHHHHHHhcccCC
Confidence 9999999998888776666654
No 11
>smart00302 GED Dynamin GTPase effector domain.
Probab=99.80 E-value=7.5e-20 Score=169.61 Aligned_cols=75 Identities=48% Similarity=0.696 Sum_probs=73.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHhcCccchhHHhcCCHHHHHHhhhhc
Q psy5059 961 EKRDCDVIERLIKSYFYIIRKSIQDTVPKAIMHFLVNYVKDNLQSELVTHLYKADSASELLNESEWVAQRRKEST 1035 (1036)
Q Consensus 961 e~~q~~~i~~lv~sYf~Iv~k~i~D~VPK~Im~~lVn~~~~~l~~~L~~~Ly~~~~~~~Ll~E~~~i~~~R~~~~ 1035 (1036)
|..+++.|++++.|||+||+|+++|+|||+|||||||++++.++++|+++||+++.+++||+|||+|++||++|.
T Consensus 2 e~~~~~~i~~lv~sYf~iv~k~i~D~VPKaI~~~lv~~~~~~lq~~L~~~L~~~~~~~~LL~E~~~i~~kR~~~~ 76 (92)
T smart00302 2 EDSELEEIKSLVKSYFTIVSKTLADQVPKAIMYLLVNESKDSLQNELLALLYKEELLDELLEEDPEIASKRKELK 76 (92)
T ss_pred chhHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHhCcccHHHHHcCCHHHHHHHHHHH
Confidence 567899999999999999999999999999999999999999999999999999999999999999999999985
No 12
>PRK09518 bifunctional cytidylate kinase/GTPase Der; Reviewed
Probab=99.80 E-value=6.5e-19 Score=218.78 Aligned_cols=78 Identities=19% Similarity=0.108 Sum_probs=62.6
Q ss_pred HHHhhhccccCCceEEEEecccccCCCchhhhhhcCcccccccccccccchHHHHHHHHHHhhccCCCcceeeeecccch
Q psy5059 369 LKLAKETDVDGRRTLAVVTKIDLMDAGTDAIDILCGRVIPVKLDVDGRRTYIEAQIKQLVLHYISNPNSIILAVVTANTD 448 (1036)
Q Consensus 369 ~~la~~~d~~g~rti~VitK~Dl~~~g~~~~~~l~~~~~~~~~~~~~~~~~~~~~l~~~v~~~i~~~~~ipla~ISA~td 448 (1036)
.++++.+...|.+.|.|+||||++++.. . +.+++.+...+.+..+.++.++||+++
T Consensus 551 ~~i~~~~~~~~~piIiV~NK~DL~~~~~--~----------------------~~~~~~~~~~l~~~~~~~ii~iSAktg 606 (712)
T PRK09518 551 LKVMSMAVDAGRALVLVFNKWDLMDEFR--R----------------------QRLERLWKTEFDRVTWARRVNLSAKTG 606 (712)
T ss_pred HHHHHHHHHcCCCEEEEEEchhcCChhH--H----------------------HHHHHHHHHhccCCCCCCEEEEECCCC
Confidence 4566667778999999999999986421 1 346666777788889999999999999
Q ss_pred hhhHHHHHHhhhcCcCCCceee
Q psy5059 449 MATSESLKLAKETDVDGRRTLA 470 (1036)
Q Consensus 449 ~~~qeil~la~~vd~~g~RtIg 470 (1036)
.++.++++.+.+..+...++++
T Consensus 607 ~gv~~L~~~i~~~~~~~~~~i~ 628 (712)
T PRK09518 607 WHTNRLAPAMQEALESWDQRIP 628 (712)
T ss_pred CCHHHHHHHHHHHHHHhcccCC
Confidence 9999999999888776666554
No 13
>smart00302 GED Dynamin GTPase effector domain.
Probab=99.80 E-value=1.4e-19 Score=167.85 Aligned_cols=78 Identities=46% Similarity=0.665 Sum_probs=74.1
Q ss_pred hhhhHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHhhcccchHHhhhcCHHHHHhhhhhhccC
Q psy5059 691 EKRDCDVIERLIKSYFYIIRKSIQDTVPKAIMHFLVNYVKDNLQSELVTHLYKADSASELLNESEWVAQRRKEASDTK 768 (1036)
Q Consensus 691 ~~~~~~~i~~~~~sYf~iv~k~~~d~vPk~i~~~lv~~~~~~l~~~l~~~l~~~~~~~~ll~E~~~ia~rR~~~~~~~ 768 (1036)
|..++++|+.++.|||+||+|+++|+|||+|||||||.+++.||++|+++||+++.+++||+|+|++++||++|.+..
T Consensus 2 e~~~~~~i~~lv~sYf~iv~k~i~D~VPKaI~~~lv~~~~~~lq~~L~~~L~~~~~~~~LL~E~~~i~~kR~~~~~~l 79 (92)
T smart00302 2 EDSELEEIKSLVKSYFTIVSKTLADQVPKAIMYLLVNESKDSLQNELLALLYKEELLDELLEEDPEIASKRKELKKRL 79 (92)
T ss_pred chhHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHhCcccHHHHHcCCHHHHHHHHHHHHHH
Confidence 456788999999999999999999999999999999999999999999999999999999999999999999887654
No 14
>PRK00093 GTP-binding protein Der; Reviewed
Probab=99.79 E-value=1.5e-18 Score=204.36 Aligned_cols=77 Identities=21% Similarity=0.235 Sum_probs=61.3
Q ss_pred HHHhhhccccCCceEEEEecccccCCCchhhhhhcCcccccccccccccchHHHHHHHHHHhhccCCCcceeeeecccch
Q psy5059 369 LKLAKETDVDGRRTLAVVTKIDLMDAGTDAIDILCGRVIPVKLDVDGRRTYIEAQIKQLVLHYISNPNSIILAVVTANTD 448 (1036)
Q Consensus 369 ~~la~~~d~~g~rti~VitK~Dl~~~g~~~~~~l~~~~~~~~~~~~~~~~~~~~~l~~~v~~~i~~~~~ipla~ISA~td 448 (1036)
.++++.+...|.+.|.|+||||+.+.. . ...+...+...+.+..++|+.++||+++
T Consensus 274 ~~i~~~~~~~~~~~ivv~NK~Dl~~~~--~----------------------~~~~~~~~~~~l~~~~~~~i~~~SA~~~ 329 (435)
T PRK00093 274 LRIAGLALEAGRALVIVVNKWDLVDEK--T----------------------MEEFKKELRRRLPFLDYAPIVFISALTG 329 (435)
T ss_pred HHHHHHHHHcCCcEEEEEECccCCCHH--H----------------------HHHHHHHHHHhcccccCCCEEEEeCCCC
Confidence 567777778899999999999998432 1 1456667778888889999999999999
Q ss_pred hhhHHHHHHhhhcCcCCCcee
Q psy5059 449 MATSESLKLAKETDVDGRRTL 469 (1036)
Q Consensus 449 ~~~qeil~la~~vd~~g~RtI 469 (1036)
.++.++++.+.+......+++
T Consensus 330 ~gv~~l~~~i~~~~~~~~~~i 350 (435)
T PRK00093 330 QGVDKLLEAIDEAYENANRRI 350 (435)
T ss_pred CCHHHHHHHHHHHHHHHcCcC
Confidence 999999998877765544444
No 15
>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=99.75 E-value=9.9e-18 Score=171.09 Aligned_cols=166 Identities=31% Similarity=0.489 Sum_probs=129.2
Q ss_pred eEEeCcCCCChhhHHhhhcCCCcCcccccccccCceEEEEeeCCCCchhhhhhccCCCCccccccccccccccccchhhh
Q psy5059 86 IVVVGTQSSGKSSVIESLVGKSFLPRGIGIVTRRPLILQLYYCPKDDREKRTAAAGTMDLDAWGQFLHTKDKVFRDFDDI 165 (1036)
Q Consensus 86 IvVvG~QSsGKSSlLEal~G~~flPrg~G~cTR~Pl~l~l~~~~~~~~~~~~~~~~~~~~~~w~~~~~~~~~~~~df~~~ 165 (1036)
|+|+|.+|||||||+|||+|.+++|.+.+.||++|++++....+..... .|..
T Consensus 1 V~v~G~~ssGKSTliNaLlG~~ilp~~~~~~T~~~~~i~~~~~~~~~~~------------~~~~--------------- 53 (168)
T PF00350_consen 1 VAVVGQFSSGKSTLINALLGRPILPSGVGPCTAVPTEISYGDEPEIEHE------------EAII--------------- 53 (168)
T ss_dssp EEEEEBTTSSHHHHHHHHHTSS-SSSSSSSTTSSEEEEEEEESSSCCTS------------EEEE---------------
T ss_pred CEEEcCCCCCHHHHHHHHHhcccCcccccccccceeEEEecccCccccc------------cccc---------------
Confidence 7899999999999999999999999999999999999998765431100 0000
Q ss_pred hhhhhHHHHHhhccCCCcccccccccccccccCCcccCChhHHHHHHHHHHHHhcCCCCCcCCCcEEEEEeecCccccee
Q psy5059 166 RREIEDETERLAGKNKGICTMDLDAWGQFLHTKDKVFRDFDDIRREIEDETERLAGKNKGICSEPIILKIYSTSVLNLTL 245 (1036)
Q Consensus 166 r~ei~~e~~r~~~~~~~i~~~~~~~~~~f~~~~~~~~~~~~~I~~~I~~~~~~~~g~~~~~S~d~I~L~I~~P~~~~Ltl 245 (1036)
.|. .....+.++.++.+.+........+....+++..+.+....+...+++|
T Consensus 54 ------------------------~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l 105 (168)
T PF00350_consen 54 ------------------------EFK----DGSEEFEELNELREQIDEEFDSIEGKLEQISSKVIVISISSPLLRNLTL 105 (168)
T ss_dssp ------------------------CEE----EETEEBCCHHHHHHHHHHHHHHHHTSSS-S-SSEEEEEEEETTSCSEEE
T ss_pred ------------------------ccc----ccccchhhHHHHHHhhhcccccccccccccccceeEEeeccccccceEE
Confidence 000 0123456677888888777766666667788889999999999999999
Q ss_pred ecCCCccccCCCCCchhHHHHHHHHHHHhhcCCCcEEEEEeccccccccchhhhhhhhcCCCCCcccceec
Q psy5059 246 VDLPGITKVPVGDQPDDIEAQIKQLVLHYISNPNSIILAVVTANTDMATSESLKLAKETDVDGRRTLDLLD 316 (1036)
Q Consensus 246 VDLPGi~~~~~~~q~~di~~~ir~lv~~yI~~~n~IIL~V~~An~D~~~s~al~l~r~~Dp~g~RTigvl~ 316 (1036)
||+||+.......+ +++.+|+ +...++|+|.+++.++.+++...+.+..++.+.|+++|+.
T Consensus 106 vDtPG~~~~~~~~~---------~~~~~~~-~~~d~vi~V~~~~~~~~~~~~~~l~~~~~~~~~~~i~V~n 166 (168)
T PF00350_consen 106 VDTPGLNSTNSEHT---------EITEEYL-PKADVVIFVVDANQDLTESDMEFLKQMLDPDKSRTIFVLN 166 (168)
T ss_dssp EEEEEBHSSHTTTS---------HHHHHHH-STTEEEEEEEETTSTGGGHHHHHHHHHHTTTCSSEEEEEE
T ss_pred EeCCccccchhhhH---------HHHHHhh-ccCCEEEEEeccCcccchHHHHHHHHHhcCCCCeEEEEEc
Confidence 99999854322221 6888999 6777999999999999999999999999999999999884
No 16
>PF02212 GED: Dynamin GTPase effector domain; InterPro: IPR003130 Dynamin GTPase effector domain found in proteins related to dynamin. Dynamin is a GTP-hydrolysing protein that is an essential participant in clathrin-mediated endocytosis by cells. It self-assembles into 'collars' in vivo at the necks of invaginated coated pits; the self-assembly of dynamin being coordinated by the GTPase domain. Mutation studies indicate that dynamin functions as a molecular regulator of receptor-mediated endocytosis [].; GO: 0003924 GTPase activity, 0005525 GTP binding; PDB: 3ZYS_B 3SZR_A 3LJB_B 3T35_C 3T34_A 2X2F_D 2X2E_D 3SNH_A 3ZYC_D 3ZVR_A.
Probab=99.65 E-value=1.7e-16 Score=147.46 Aligned_cols=76 Identities=47% Similarity=0.767 Sum_probs=71.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHhcCccchhHHhcCCHHHHHHhhhhc
Q psy5059 960 KEKRDCDVIERLIKSYFYIIRKSIQDTVPKAIMHFLVNYVKDNLQSELVTHLYKADSASELLNESEWVAQRRKEST 1035 (1036)
Q Consensus 960 ~e~~q~~~i~~lv~sYf~Iv~k~i~D~VPK~Im~~lVn~~~~~l~~~L~~~Ly~~~~~~~Ll~E~~~i~~~R~~~~ 1035 (1036)
+|..+++.|+++++|||+||+|+|.|.|||+|||+||+++++.|+.+|+.+||..+.+++||.|||+++++|++|.
T Consensus 1 ~e~~~~~~i~~~l~aY~~ia~kr~~D~Vpk~I~~~lv~~~~~~L~~~l~~~l~~~~~~~~Ll~Ed~~i~~kR~~l~ 76 (92)
T PF02212_consen 1 REQREVEEIKALLRAYFEIARKRFIDSVPKAIMHFLVNKSKEQLQSELLNELYDEEDLEELLQEDPEIAEKREELK 76 (92)
T ss_dssp -HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCGGCCCCT--GHHHHHHHHHHH
T ss_pred ChhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHhHHHHHHHHhccchHHHHHHHCCCHHHHHHHHHHH
Confidence 5788999999999999999999999999999999999999999999999999999999999999999999999985
No 17
>PF02212 GED: Dynamin GTPase effector domain; InterPro: IPR003130 Dynamin GTPase effector domain found in proteins related to dynamin. Dynamin is a GTP-hydrolysing protein that is an essential participant in clathrin-mediated endocytosis by cells. It self-assembles into 'collars' in vivo at the necks of invaginated coated pits; the self-assembly of dynamin being coordinated by the GTPase domain. Mutation studies indicate that dynamin functions as a molecular regulator of receptor-mediated endocytosis [].; GO: 0003924 GTPase activity, 0005525 GTP binding; PDB: 3ZYS_B 3SZR_A 3LJB_B 3T35_C 3T34_A 2X2F_D 2X2E_D 3SNH_A 3ZYC_D 3ZVR_A.
Probab=99.63 E-value=4.6e-16 Score=144.54 Aligned_cols=78 Identities=46% Similarity=0.753 Sum_probs=71.7
Q ss_pred hhhhhHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHhhcccchHHhhhcCHHHHHhhhhhhcc
Q psy5059 690 KEKRDCDVIERLIKSYFYIIRKSIQDTVPKAIMHFLVNYVKDNLQSELVTHLYKADSASELLNESEWVAQRRKEASDT 767 (1036)
Q Consensus 690 ~~~~~~~~i~~~~~sYf~iv~k~~~d~vPk~i~~~lv~~~~~~l~~~l~~~l~~~~~~~~ll~E~~~ia~rR~~~~~~ 767 (1036)
+|..+++.|+.++.|||+||+|++.|+|||+|+||||+.+++.|+.+|++.||..+.+.+||.|+|+++++|+.|.+.
T Consensus 1 ~e~~~~~~i~~~l~aY~~ia~kr~~D~Vpk~I~~~lv~~~~~~L~~~l~~~l~~~~~~~~Ll~Ed~~i~~kR~~l~~~ 78 (92)
T PF02212_consen 1 REQREVEEIKALLRAYFEIARKRFIDSVPKAIMHFLVNKSKEQLQSELLNELYDEEDLEELLQEDPEIAEKREELKKK 78 (92)
T ss_dssp -HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCGGCCCCT--GHHHHHHHHHHHHH
T ss_pred ChhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHhHHHHHHHHhccchHHHHHHHCCCHHHHHHHHHHHHH
Confidence 467789999999999999999999999999999999999999999999999999999999999999999999977654
No 18
>PRK09866 hypothetical protein; Provisional
Probab=99.46 E-value=1.5e-10 Score=137.41 Aligned_cols=65 Identities=23% Similarity=0.328 Sum_probs=48.5
Q ss_pred hhhhHHHHHHHHHhhhhcCCCCCCCCceEEeCcCCCChhhHHhhhcCCCcCcccccccccCceEEEEe
Q psy5059 59 KRTAAAVINKLQDVFNTVGTDAIQLPQIVVVGTQSSGKSSVIESLVGKSFLPRGIGIVTRRPLILQLY 126 (1036)
Q Consensus 59 ~~~~~~l~~kL~~~~~~~g~~~i~lPqIvVvG~QSsGKSSlLEal~G~~flPrg~G~cTR~Pl~l~l~ 126 (1036)
+|.+.+-+..|+.-+..+-.. -|.++|+|..|+||||++++|.|...+|.+.+.+|.+|+.++..
T Consensus 48 rR~i~~ri~~L~~~L~Kv~~~---~~~valvG~sgaGKSTLiNaL~G~~Vlpt~~~~~t~lpT~i~~~ 112 (741)
T PRK09866 48 QPNIAERHAMLNNELRKISRL---EMVLAIVGTMKAGKSTTINAIVGTEVLPNRNRPMTALPTLIRHT 112 (741)
T ss_pred HHHHHHHHHHHHHHHHHHhcc---ceEEEEECCCCCCHHHHHHHHhCCccccCCCcccccccEEEEec
Confidence 344444444454433322211 29999999999999999999999999999999999999965543
No 19
>COG0218 Predicted GTPase [General function prediction only]
Probab=99.40 E-value=1.8e-12 Score=134.63 Aligned_cols=108 Identities=15% Similarity=0.189 Sum_probs=81.3
Q ss_pred CcccccCCCCCchHHHHHHHHHHhhhcCCCce--EEEEEecCccccchHHHHHhhhccccCCceEEEEecccccCCCchh
Q psy5059 321 GITKVPVGDQPDDIEAQIKQLVLHYISNPNSI--ILAVVTANTDMATSESLKLAKETDVDGRRTLAVVTKIDLMDAGTDA 398 (1036)
Q Consensus 321 g~~~~~~~~~~~~~~~~~~~~~~~y~~~~~~~--~~~~v~~~~d~~~~~~~~la~~~d~~g~rti~VitK~Dl~~~g~~~ 398 (1036)
||+++++. ..+.|++++.+||..+..| ++.++|+++.++..+ ..+...+...|.+++.|+||.|....+...
T Consensus 81 GyAkv~k~-----~~e~w~~~i~~YL~~R~~L~~vvlliD~r~~~~~~D-~em~~~l~~~~i~~~vv~tK~DKi~~~~~~ 154 (200)
T COG0218 81 GYAKVPKE-----VKEKWKKLIEEYLEKRANLKGVVLLIDARHPPKDLD-REMIEFLLELGIPVIVVLTKADKLKKSERN 154 (200)
T ss_pred ccccCCHH-----HHHHHHHHHHHHHhhchhheEEEEEEECCCCCcHHH-HHHHHHHHHcCCCeEEEEEccccCChhHHH
Confidence 77777773 3478999999999998888 888999999988877 489999999999999999999999865432
Q ss_pred hhhhcCcccccccccccccchHHHHHHHHHHhhccCCCcce--eeeecccchhhhHHHHHHh
Q psy5059 399 IDILCGRVIPVKLDVDGRRTYIEAQIKQLVLHYISNPNSII--LAVVTANTDMATSESLKLA 458 (1036)
Q Consensus 399 ~~~l~~~~~~~~~~~~~~~~~~~~~l~~~v~~~i~~~~~ip--la~ISA~td~~~qeil~la 458 (1036)
.....+...+.+....- +.+.|+.++...+++....
T Consensus 155 ------------------------k~l~~v~~~l~~~~~~~~~~~~~ss~~k~Gi~~l~~~i 192 (200)
T COG0218 155 ------------------------KQLNKVAEELKKPPPDDQWVVLFSSLKKKGIDELKAKI 192 (200)
T ss_pred ------------------------HHHHHHHHHhcCCCCccceEEEEecccccCHHHHHHHH
Confidence 22344555553333322 6777777777777665554
No 20
>KOG0447|consensus
Probab=99.21 E-value=5e-11 Score=135.95 Aligned_cols=53 Identities=34% Similarity=0.489 Sum_probs=48.1
Q ss_pred chhHHHHHHHHHHHhhcCCCcEEEEEeccccccccchhhhhhhhcCCCCCcccceec
Q psy5059 260 PDDIEAQIKQLVLHYISNPNSIILAVVTANTDMATSESLKLAKETDVDGRRTLDLLD 316 (1036)
Q Consensus 260 ~~di~~~ir~lv~~yI~~~n~IIL~V~~An~D~~~s~al~l~r~~Dp~g~RTigvl~ 316 (1036)
.++|..+-+. ||++||+||||+.+.+.|+..|..-.|+-.+||.|+|||.||+
T Consensus 435 Kd~I~~msKa----yM~NPNAIILCIQDGSVDAERSnVTDLVsq~DP~GrRTIfVLT 487 (980)
T KOG0447|consen 435 KETIFSISKA----YMQNPNAIILCIQDGSVDAERSIVTDLVSQMDPHGRRTIFVLT 487 (980)
T ss_pred hHHHHHHHHH----HhcCCCeEEEEeccCCcchhhhhHHHHHHhcCCCCCeeEEEEe
Confidence 3566666666 8999999999999999999999999999999999999999995
No 21
>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=99.12 E-value=5.3e-10 Score=123.99 Aligned_cols=71 Identities=14% Similarity=0.003 Sum_probs=47.9
Q ss_pred hhccccCCceEEEEecccccCCCchhhhhhcCcccccccccccccchHHHHHHHHHHhhccCCCcceeeeecccchhhhH
Q psy5059 373 KETDVDGRRTLAVVTKIDLMDAGTDAIDILCGRVIPVKLDVDGRRTYIEAQIKQLVLHYISNPNSIILAVVTANTDMATS 452 (1036)
Q Consensus 373 ~~~d~~g~rti~VitK~Dl~~~g~~~~~~l~~~~~~~~~~~~~~~~~~~~~l~~~v~~~i~~~~~ipla~ISA~td~~~q 452 (1036)
..+...+.++|.|+||+|+.++. .+......+.....+.+...+||+++.++.
T Consensus 101 ~~l~~~~~p~ilV~NK~Dl~~~~---------------------------~~~~~~~~~~~~~~~~~v~~iSA~~g~gi~ 153 (270)
T TIGR00436 101 TKLQNLKRPVVLTRNKLDNKFKD---------------------------KLLPLIDKYAILEDFKDIVPISALTGDNTS 153 (270)
T ss_pred HHHHhcCCCEEEEEECeeCCCHH---------------------------HHHHHHHHHHhhcCCCceEEEecCCCCCHH
Confidence 33344578999999999997431 112222233333344578899999999999
Q ss_pred HHHHHhhhcCcCCCceee
Q psy5059 453 ESLKLAKETDVDGRRTLA 470 (1036)
Q Consensus 453 eil~la~~vd~~g~RtIg 470 (1036)
++++...+.-+.+....+
T Consensus 154 ~L~~~l~~~l~~~~~~~~ 171 (270)
T TIGR00436 154 FLAAFIEVHLPEGPFRYP 171 (270)
T ss_pred HHHHHHHHhCCCCCCCCC
Confidence 999998887776665443
No 22
>COG0486 ThdF Predicted GTPase [General function prediction only]
Probab=99.12 E-value=5.5e-10 Score=128.66 Aligned_cols=130 Identities=20% Similarity=0.207 Sum_probs=83.6
Q ss_pred HHhcCCCCCcCCCcEEEEEeecCcccceeecCCCccccCCCCCchhHHHHH-HHHHHHhhcCCCcEEEEEeccccccccc
Q psy5059 217 ERLAGKNKGICSEPIILKIYSTSVLNLTLVDLPGITKVPVGDQPDDIEAQI-KQLVLHYISNPNSIILAVVTANTDMATS 295 (1036)
Q Consensus 217 ~~~~g~~~~~S~d~I~L~I~~P~~~~LtlVDLPGi~~~~~~~q~~di~~~i-r~lv~~yI~~~n~IIL~V~~An~D~~~s 295 (1036)
.+++|+ |+|.|.-.+.= +..++.++||.||+.. +|..+.+ =.-.++.++..+ +||.|.+++..+...
T Consensus 246 TdI~GT----TRDviee~i~i-~G~pv~l~DTAGiRet------~d~VE~iGIeRs~~~i~~AD-lvL~v~D~~~~~~~~ 313 (454)
T COG0486 246 TDIAGT----TRDVIEEDINL-NGIPVRLVDTAGIRET------DDVVERIGIERAKKAIEEAD-LVLFVLDASQPLDKE 313 (454)
T ss_pred cCCCCC----ccceEEEEEEE-CCEEEEEEecCCcccC------ccHHHHHHHHHHHHHHHhCC-EEEEEEeCCCCCchh
Confidence 356777 88888877765 6788999999999742 2222211 122335556666 555566665543332
Q ss_pred hhhhhhhhcCCCCCcccceeccCCCCcccccCCCCCchHHHHHHHHHHhhhcCCCceEEEEEecCccccchHHHHHhhhc
Q psy5059 296 ESLKLAKETDVDGRRTLDLLDIDLPGITKVPVGDQPDDIEAQIKQLVLHYISNPNSIILAVVTANTDMATSESLKLAKET 375 (1036)
Q Consensus 296 ~al~l~r~~Dp~g~RTigvl~~~~~g~~~~~~~~~~~~~~~~~~~~~~~y~~~~~~~~~~~v~~~~d~~~~~~~~la~~~ 375 (1036)
+ .++.. .
T Consensus 314 d------------------------------------------------------------------------~~~~~-~ 320 (454)
T COG0486 314 D------------------------------------------------------------------------LALIE-L 320 (454)
T ss_pred h------------------------------------------------------------------------HHHHH-h
Confidence 2 22333 5
Q ss_pred cccCCceEEEEecccccCCCchhhhhhcCcccccccccccccchHHHHHHHHHHhhccCCCcceeeeecccchhhhHHHH
Q psy5059 376 DVDGRRTLAVVTKIDLMDAGTDAIDILCGRVIPVKLDVDGRRTYIEAQIKQLVLHYISNPNSIILAVVTANTDMATSESL 455 (1036)
Q Consensus 376 d~~g~rti~VitK~Dl~~~g~~~~~~l~~~~~~~~~~~~~~~~~~~~~l~~~v~~~i~~~~~ipla~ISA~td~~~qeil 455 (1036)
-+.+++++.|+||.||..+..... ++-..-.+...+||+++.....+.
T Consensus 321 ~~~~~~~i~v~NK~DL~~~~~~~~--------------------------------~~~~~~~~~i~iSa~t~~Gl~~L~ 368 (454)
T COG0486 321 LPKKKPIIVVLNKADLVSKIELES--------------------------------EKLANGDAIISISAKTGEGLDALR 368 (454)
T ss_pred cccCCCEEEEEechhcccccccch--------------------------------hhccCCCceEEEEecCccCHHHHH
Confidence 678899999999999998754321 011223367889999999998888
Q ss_pred HHhhhcCc
Q psy5059 456 KLAKETDV 463 (1036)
Q Consensus 456 ~la~~vd~ 463 (1036)
+.......
T Consensus 369 ~~i~~~~~ 376 (454)
T COG0486 369 EAIKQLFG 376 (454)
T ss_pred HHHHHHHh
Confidence 77665543
No 23
>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=99.11 E-value=1.1e-09 Score=110.55 Aligned_cols=70 Identities=16% Similarity=0.224 Sum_probs=52.1
Q ss_pred HHhhhccccCCceEEEEecccccCCCchhhhhhcCcccccccccccccchHHHHHHHHHHhhccCCCcceeeeecccchh
Q psy5059 370 KLAKETDVDGRRTLAVVTKIDLMDAGTDAIDILCGRVIPVKLDVDGRRTYIEAQIKQLVLHYISNPNSIILAVVTANTDM 449 (1036)
Q Consensus 370 ~la~~~d~~g~rti~VitK~Dl~~~g~~~~~~l~~~~~~~~~~~~~~~~~~~~~l~~~v~~~i~~~~~ipla~ISA~td~ 449 (1036)
.+.+.+...+.+.+.|+||+|+++...... +.+.+.+.++++...+.+...+||+++.
T Consensus 104 ~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~----------------------~~~~~~~~~~~~~~~~~~~~~~Sa~~~~ 161 (174)
T cd01895 104 RIAGLILEEGKALVIVVNKWDLVEKDSKTM----------------------KEFKKEIRRKLPFLDYAPIVFISALTGQ 161 (174)
T ss_pred HHHHHHHhcCCCEEEEEeccccCCccHHHH----------------------HHHHHHHHhhcccccCCceEEEeccCCC
Confidence 344555556789999999999987642222 4455666777776677889999999999
Q ss_pred hhHHHHHHhhhc
Q psy5059 450 ATSESLKLAKET 461 (1036)
Q Consensus 450 ~~qeil~la~~v 461 (1036)
+..++++...++
T Consensus 162 ~i~~~~~~l~~~ 173 (174)
T cd01895 162 GVDKLFDAIDEV 173 (174)
T ss_pred CHHHHHHHHHHh
Confidence 999998876553
No 24
>COG0699 Predicted GTPases (dynamin-related) [General function prediction only]
Probab=99.08 E-value=3.2e-09 Score=128.23 Aligned_cols=235 Identities=23% Similarity=0.271 Sum_probs=180.5
Q ss_pred ccCCcchhhccchHHHHHHHHHHHHHHHHhhchhhHHHHHHHHHHHHHHHhhcCCCCcchHHHHHHHHHHHHHhhccccc
Q psy5059 766 DTKYPTLASRNGTLYLAKTLNRLLMHHIRDCLPDLKTRVNVMISQFQTLLNSYGEDVSDKSQTLLQIITKFASAYCSTVE 845 (1036)
Q Consensus 766 ~~~y~~~~~r~G~~~L~~~Ln~~L~~hi~~~LP~l~~~i~~~l~~~~~~l~~~~d~~~~~~~~lL~~i~~F~~~f~~~I~ 845 (1036)
++.|.....-||++++..-+++.+..|++...|..+-+......+ .+++. .++..++.|...+.
T Consensus 171 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~------~~~~~------~~~~~~~~~~~~~~---- 234 (546)
T COG0699 171 HPLLEDNEKLVLLPYLKKLLSKILELHLRLLPKYDKLQDVIQLSQ------DLFEN------EVLAVIQTLLKRLS---- 234 (546)
T ss_pred CccccccccccCChhhhhhhhhhHHHHHHhcChhhhhHhhhcccc------cccch------HHHHHHHHHHHHHH----
Confidence 445566666789999999999999999999999887666655443 22222 77778888888776
Q ss_pred cccccccccccccceeehhhhhhhhhhhccccCCCCCCCHHHHHHHHHhccCCCCCCCCChhHHHHHHHHHHHHhhccHH
Q psy5059 846 GTARNIETTELCGGARICYIFHEIFGKVLDGINPLDGLTKMDILTAIRNATGPRPALFVPEVSFELLVKRQIRRLEEPSQ 925 (1036)
Q Consensus 846 G~~~~~~~~el~GGAri~~iF~~~F~~~i~~~~p~~~l~~~dIr~aI~n~~G~~~~lfvp~~aFe~Lvk~qI~~l~~Psl 925 (1036)
++.+|+|+... +..+.+++.+.+..++.+..+..|.++..|....+|..++..++..+..++.
T Consensus 235 ---------~~~~~~~~~~~--------~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~ 297 (546)
T COG0699 235 ---------ELVRGARIRLN--------IILFSDLEEVSDSPVLLKELASKGERPSLLSGLTLLDTLVETPIGQFDTQIN 297 (546)
T ss_pred ---------HHhccchhhhh--------hcccchHHHhhhhhhHHHHHcccCCCccccccccchhhhhHHHHHHHHHHHH
Confidence 67777788776 5667888888999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHhccCC---C------------------------------------------------------
Q psy5059 926 RCVELVHEEMQRIIQHCEKEGN---I------------------------------------------------------ 948 (1036)
Q Consensus 926 ~cvdlV~~EL~~i~~~~~~~~~---~------------------------------------------------------ 948 (1036)
+|+..++++|.++......... +
T Consensus 298 ~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l 377 (546)
T COG0699 298 QLLRKLISELVRILLKELESASSSPFPKLSEALEEVVNQLKNKVDSGLESGLLAIIDIEERYINTKHPLFLSLRQAAAIL 377 (546)
T ss_pred HHHHHHHHHHHHHHHhhhcccccccchhhHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHhhcCcchHHHHHHHHHH
Confidence 9999999999998544332210 0
Q ss_pred --------------CCC---C------C---------------------------------------------CCCCCHH
Q psy5059 949 --------------PAT---T------S---------------------------------------------SRTLSEK 960 (1036)
Q Consensus 949 --------------p~~---~------~---------------------------------------------~~~~~~~ 960 (1036)
+.. . . ...+.+.
T Consensus 378 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 457 (546)
T COG0699 378 SKVLDNLEALLRSLDDSRLRELSDMGLNSLLSNNLEEHLLGSDFSLYKFLNEFLELKKLDALLATLGEALRRLTGLLPER 457 (546)
T ss_pred HHHHHHHHHHHHhhccccccchhhcccchhHHHHHHHHhhcchhhHHHHHHHHhhhccchhhhccchHHHHHhhcccchh
Confidence 000 0 0 0011222
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHhcCccchhHHhcCCHHHHHHhhhh
Q psy5059 961 EKRDCDVIERLIKSYFYIIRKSIQDTVPKAIMHFLVNYVKDNLQSELVTHLYKADSASELLNESEWVAQRRKES 1034 (1036)
Q Consensus 961 e~~q~~~i~~lv~sYf~Iv~k~i~D~VPK~Im~~lVn~~~~~l~~~L~~~Ly~~~~~~~Ll~E~~~i~~~R~~~ 1034 (1036)
...+...+..++++| .++...+.|.+++++++++.+.-+..........+|.....++|..+.+...+.|..+
T Consensus 458 ~~~~~~~i~~l~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~ 530 (546)
T COG0699 458 KTLEKQLIKSLLESL-LILAQKIRDSVLKAIFELLKNKRKRLAQKQRLKRLYLEQLEDELLRTAEEILELRLLL 530 (546)
T ss_pred hhhhhHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHH
Confidence 333346679999999 9999999999999999999888877777777788888888888888888877776554
No 25
>COG1160 Predicted GTPases [General function prediction only]
Probab=99.07 E-value=6e-10 Score=128.05 Aligned_cols=141 Identities=18% Similarity=0.172 Sum_probs=95.4
Q ss_pred CCCcEEEEEeecCcccceeecCCCccccCCCCCchhHHHHHHHHHHHhhcCCCcEEEEEeccccccccchhhhhhhhcCC
Q psy5059 227 CSEPIILKIYSTSVLNLTLVDLPGITKVPVGDQPDDIEAQIKQLVLHYISNPNSIILAVVTANTDMATSESLKLAKETDV 306 (1036)
Q Consensus 227 S~d~I~L~I~~P~~~~LtlVDLPGi~~~~~~~q~~di~~~ir~lv~~yI~~~n~IIL~V~~An~D~~~s~al~l~r~~Dp 306 (1036)
|+|.+.=....-+ ..+.+|||+|+... .++.+..+++.-+...|+..++ ||+|+++...++..|
T Consensus 38 TRDr~y~~~~~~~-~~f~lIDTgGl~~~----~~~~l~~~i~~Qa~~Ai~eADv-ilfvVD~~~Git~~D---------- 101 (444)
T COG1160 38 TRDRIYGDAEWLG-REFILIDTGGLDDG----DEDELQELIREQALIAIEEADV-ILFVVDGREGITPAD---------- 101 (444)
T ss_pred ccCCccceeEEcC-ceEEEEECCCCCcC----CchHHHHHHHHHHHHHHHhCCE-EEEEEeCCCCCCHHH----------
Confidence 5565554554433 34899999999532 2246888888888899999984 455555665555544
Q ss_pred CCCcccceeccCCCCcccccCCCCCchHHHHHHHHHHhhhcCCCceEEEEEecCccccchHHHHHhhhccccCCceEEEE
Q psy5059 307 DGRRTLDLLDIDLPGITKVPVGDQPDDIEAQIKQLVLHYISNPNSIILAVVTANTDMATSESLKLAKETDVDGRRTLAVV 386 (1036)
Q Consensus 307 ~g~RTigvl~~~~~g~~~~~~~~~~~~~~~~~~~~~~~y~~~~~~~~~~~v~~~~d~~~~~~~~la~~~d~~g~rti~Vi 386 (1036)
..+|+.+-+.++++|.|+
T Consensus 102 --------------------------------------------------------------~~ia~~Lr~~~kpviLvv 119 (444)
T COG1160 102 --------------------------------------------------------------EEIAKILRRSKKPVILVV 119 (444)
T ss_pred --------------------------------------------------------------HHHHHHHHhcCCCEEEEE
Confidence 568888888889999999
Q ss_pred ecccccCCCchhhhhhcCcccccccccccccchHHHHHHHHHHhhccCCCcceeeeecccchhhhHHHHHHhhhcC----
Q psy5059 387 TKIDLMDAGTDAIDILCGRVIPVKLDVDGRRTYIEAQIKQLVLHYISNPNSIILAVVTANTDMATSESLKLAKETD---- 462 (1036)
Q Consensus 387 tK~Dl~~~g~~~~~~l~~~~~~~~~~~~~~~~~~~~~l~~~v~~~i~~~~~ipla~ISA~td~~~qeil~la~~vd---- 462 (1036)
||+|-.+....+. .+..+-.....-|||..|++...+++...+.-
T Consensus 120 NK~D~~~~e~~~~-------------------------------efyslG~g~~~~ISA~Hg~Gi~dLld~v~~~l~~~e 168 (444)
T COG1160 120 NKIDNLKAEELAY-------------------------------EFYSLGFGEPVPISAEHGRGIGDLLDAVLELLPPDE 168 (444)
T ss_pred EcccCchhhhhHH-------------------------------HHHhcCCCCceEeehhhccCHHHHHHHHHhhcCCcc
Confidence 9999884433321 22333344456689999999988887765552
Q ss_pred ---cCC---Cceeeeecccc
Q psy5059 463 ---VDG---RRTLAVVTKID 476 (1036)
Q Consensus 463 ---~~g---~RtIgVlTK~D 476 (1036)
... ..+++++=+|-
T Consensus 169 ~~~~~~~~~~ikiaiiGrPN 188 (444)
T COG1160 169 EEEEEEETDPIKIAIIGRPN 188 (444)
T ss_pred cccccccCCceEEEEEeCCC
Confidence 112 36777777764
No 26
>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=99.06 E-value=6.2e-10 Score=113.21 Aligned_cols=62 Identities=18% Similarity=0.126 Sum_probs=44.6
Q ss_pred HHHHhhhccccCCceEEEEecccccCCCchhhhhhcCcccccccccccccchHHHHHHHHHHhhccCCCcceeeeecccc
Q psy5059 368 SLKLAKETDVDGRRTLAVVTKIDLMDAGTDAIDILCGRVIPVKLDVDGRRTYIEAQIKQLVLHYISNPNSIILAVVTANT 447 (1036)
Q Consensus 368 ~~~la~~~d~~g~rti~VitK~Dl~~~g~~~~~~l~~~~~~~~~~~~~~~~~~~~~l~~~v~~~i~~~~~ipla~ISA~t 447 (1036)
.+.|..++-.-|.++|.|+||+|+..+..-.+ ..+.+.+.+ -.|++.+||.+
T Consensus 94 ~l~l~~ql~e~g~P~vvvlN~~D~a~~~g~~i--------------------d~~~Ls~~L--------g~pvi~~sa~~ 145 (156)
T PF02421_consen 94 NLYLTLQLLELGIPVVVVLNKMDEAERKGIEI--------------------DAEKLSERL--------GVPVIPVSART 145 (156)
T ss_dssp HHHHHHHHHHTTSSEEEEEETHHHHHHTTEEE---------------------HHHHHHHH--------TS-EEEEBTTT
T ss_pred HHHHHHHHHHcCCCEEEEEeCHHHHHHcCCEE--------------------CHHHHHHHh--------CCCEEEEEeCC
Confidence 36788888899999999999999987532211 112333332 36899999999
Q ss_pred hhhhHHHHHH
Q psy5059 448 DMATSESLKL 457 (1036)
Q Consensus 448 d~~~qeil~l 457 (1036)
+....++.+.
T Consensus 146 ~~g~~~L~~~ 155 (156)
T PF02421_consen 146 GEGIDELKDA 155 (156)
T ss_dssp TBTHHHHHHH
T ss_pred CcCHHHHHhh
Confidence 9999998765
No 27
>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=99.04 E-value=1.1e-09 Score=113.69 Aligned_cols=28 Identities=32% Similarity=0.462 Sum_probs=24.9
Q ss_pred CCCCceEEeCcCCCChhhHHhhhcCCCc
Q psy5059 81 IQLPQIVVVGTQSSGKSSVIESLVGKSF 108 (1036)
Q Consensus 81 i~lPqIvVvG~QSsGKSSlLEal~G~~f 108 (1036)
-..|.|+++|..++||||++++|.|..|
T Consensus 16 ~~~~~i~ivG~~~~GKStlin~l~~~~~ 43 (179)
T TIGR03598 16 DDGPEIAFAGRSNVGKSSLINALTNRKK 43 (179)
T ss_pred CCCCEEEEEcCCCCCHHHHHHHHhCCCC
Confidence 3578999999999999999999998764
No 28
>PRK00454 engB GTP-binding protein YsxC; Reviewed
Probab=99.03 E-value=3.8e-09 Score=110.32 Aligned_cols=66 Identities=14% Similarity=0.036 Sum_probs=43.5
Q ss_pred HhhhccccCCceEEEEecccccCCCchhhhhhcCcccccccccccccchHHHHHHHHHHhhccCCCcceeeeecccchhh
Q psy5059 371 LAKETDVDGRRTLAVVTKIDLMDAGTDAIDILCGRVIPVKLDVDGRRTYIEAQIKQLVLHYISNPNSIILAVVTANTDMA 450 (1036)
Q Consensus 371 la~~~d~~g~rti~VitK~Dl~~~g~~~~~~l~~~~~~~~~~~~~~~~~~~~~l~~~v~~~i~~~~~ipla~ISA~td~~ 450 (1036)
+.+.+...|.+++.|+||+|+.+.+... .....+...+... ..+...+||+.+.+
T Consensus 127 i~~~l~~~~~~~iiv~nK~Dl~~~~~~~------------------------~~~~~i~~~l~~~-~~~~~~~Sa~~~~g 181 (196)
T PRK00454 127 MIEWLKEYGIPVLIVLTKADKLKKGERK------------------------KQLKKVRKALKFG-DDEVILFSSLKKQG 181 (196)
T ss_pred HHHHHHHcCCcEEEEEECcccCCHHHHH------------------------HHHHHHHHHHHhc-CCceEEEEcCCCCC
Confidence 4444556688899999999998654321 1222233333322 45666899999999
Q ss_pred hHHHHHHhhhc
Q psy5059 451 TSESLKLAKET 461 (1036)
Q Consensus 451 ~qeil~la~~v 461 (1036)
+.++++.....
T Consensus 182 i~~l~~~i~~~ 192 (196)
T PRK00454 182 IDELRAAIAKW 192 (196)
T ss_pred HHHHHHHHHHH
Confidence 99999886554
No 29
>COG1159 Era GTPase [General function prediction only]
Probab=99.03 E-value=2.6e-09 Score=117.10 Aligned_cols=74 Identities=16% Similarity=0.108 Sum_probs=54.6
Q ss_pred HhhhccccCCceEEEEecccccCCCchhhhhhcCcccccccccccccchHHHHHHHHHHhhccCCCcceeeeecccchhh
Q psy5059 371 LAKETDVDGRRTLAVVTKIDLMDAGTDAIDILCGRVIPVKLDVDGRRTYIEAQIKQLVLHYISNPNSIILAVVTANTDMA 450 (1036)
Q Consensus 371 la~~~d~~g~rti~VitK~Dl~~~g~~~~~~l~~~~~~~~~~~~~~~~~~~~~l~~~v~~~i~~~~~ipla~ISA~td~~ 450 (1036)
+...+-....+.|.++||+|...+.+. +...+..+-....+..++-|||+++.+
T Consensus 106 il~~lk~~~~pvil~iNKID~~~~~~~--------------------------l~~~~~~~~~~~~f~~ivpiSA~~g~n 159 (298)
T COG1159 106 ILEQLKKTKTPVILVVNKIDKVKPKTV--------------------------LLKLIAFLKKLLPFKEIVPISALKGDN 159 (298)
T ss_pred HHHHHhhcCCCeEEEEEccccCCcHHH--------------------------HHHHHHHHHhhCCcceEEEeeccccCC
Confidence 333333356799999999999987543 223344444455555888899999999
Q ss_pred hHHHHHHhhhcCcCCCceee
Q psy5059 451 TSESLKLAKETDVDGRRTLA 470 (1036)
Q Consensus 451 ~qeil~la~~vd~~g~RtIg 470 (1036)
+..+++.....-|+|....+
T Consensus 160 ~~~L~~~i~~~Lpeg~~~yp 179 (298)
T COG1159 160 VDTLLEIIKEYLPEGPWYYP 179 (298)
T ss_pred HHHHHHHHHHhCCCCCCcCC
Confidence 99999999999888887765
No 30
>PRK00089 era GTPase Era; Reviewed
Probab=99.01 E-value=5.9e-09 Score=116.76 Aligned_cols=69 Identities=14% Similarity=0.115 Sum_probs=45.1
Q ss_pred hhccccCCceEEEEecccccCCCchhhhhhcCcccccccccccccchHHHHHHHHHHhhccCCCcceeeeecccchhhhH
Q psy5059 373 KETDVDGRRTLAVVTKIDLMDAGTDAIDILCGRVIPVKLDVDGRRTYIEAQIKQLVLHYISNPNSIILAVVTANTDMATS 452 (1036)
Q Consensus 373 ~~~d~~g~rti~VitK~Dl~~~g~~~~~~l~~~~~~~~~~~~~~~~~~~~~l~~~v~~~i~~~~~ipla~ISA~td~~~q 452 (1036)
..+...+.+.+.|+||+|+.... ..+...+..+-.......+..+||+++.+..
T Consensus 107 ~~l~~~~~pvilVlNKiDl~~~~--------------------------~~l~~~~~~l~~~~~~~~i~~iSA~~~~gv~ 160 (292)
T PRK00089 107 EKLKKVKTPVILVLNKIDLVKDK--------------------------EELLPLLEELSELMDFAEIVPISALKGDNVD 160 (292)
T ss_pred HHHhhcCCCEEEEEECCcCCCCH--------------------------HHHHHHHHHHHhhCCCCeEEEecCCCCCCHH
Confidence 33334468999999999998421 1122222222222345677889999999999
Q ss_pred HHHHHhhhcCcCCCc
Q psy5059 453 ESLKLAKETDVDGRR 467 (1036)
Q Consensus 453 eil~la~~vd~~g~R 467 (1036)
++++...+.-+.+..
T Consensus 161 ~L~~~L~~~l~~~~~ 175 (292)
T PRK00089 161 ELLDVIAKYLPEGPP 175 (292)
T ss_pred HHHHHHHHhCCCCCC
Confidence 999888777655543
No 31
>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=98.99 E-value=5.5e-09 Score=104.78 Aligned_cols=68 Identities=15% Similarity=0.069 Sum_probs=46.5
Q ss_pred HHHhhhccccCCceEEEEecccccCCCchhhhhhcCcccccccccccccchHHHHHHHHHHhhcc-CCCcceeeeecccc
Q psy5059 369 LKLAKETDVDGRRTLAVVTKIDLMDAGTDAIDILCGRVIPVKLDVDGRRTYIEAQIKQLVLHYIS-NPNSIILAVVTANT 447 (1036)
Q Consensus 369 ~~la~~~d~~g~rti~VitK~Dl~~~g~~~~~~l~~~~~~~~~~~~~~~~~~~~~l~~~v~~~i~-~~~~ipla~ISA~t 447 (1036)
..+.+.++..+.+.+.|+||+|++.++... .....+...++ .....++..+||++
T Consensus 100 ~~~~~~l~~~~~~vi~v~nK~D~~~~~~~~------------------------~~~~~~~~~l~~~~~~~~~~~~Sa~~ 155 (170)
T cd01876 100 LEMLDWLEELGIPFLVVLTKADKLKKSELA------------------------KALKEIKKELKLFEIDPPIILFSSLK 155 (170)
T ss_pred HHHHHHHHHcCCCEEEEEEchhcCChHHHH------------------------HHHHHHHHHHHhccCCCceEEEecCC
Confidence 345666666678999999999998665332 12223333343 44556777999999
Q ss_pred hhhhHHHHHHhhh
Q psy5059 448 DMATSESLKLAKE 460 (1036)
Q Consensus 448 d~~~qeil~la~~ 460 (1036)
+....++++...+
T Consensus 156 ~~~~~~l~~~l~~ 168 (170)
T cd01876 156 GQGIDELRALIEK 168 (170)
T ss_pred CCCHHHHHHHHHH
Confidence 9999998877543
No 32
>PRK12298 obgE GTPase CgtA; Reviewed
Probab=98.94 E-value=5.5e-09 Score=121.51 Aligned_cols=25 Identities=24% Similarity=0.478 Sum_probs=22.7
Q ss_pred CCceEEeCcCCCChhhHHhhhcCCC
Q psy5059 83 LPQIVVVGTQSSGKSSVIESLVGKS 107 (1036)
Q Consensus 83 lPqIvVvG~QSsGKSSlLEal~G~~ 107 (1036)
+..|++||.+||||||||++|++..
T Consensus 159 iadValVG~PNaGKSTLln~Lt~~k 183 (390)
T PRK12298 159 LADVGLLGLPNAGKSTFIRAVSAAK 183 (390)
T ss_pred cccEEEEcCCCCCHHHHHHHHhCCc
Confidence 3599999999999999999999765
No 33
>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=98.91 E-value=1.2e-08 Score=102.58 Aligned_cols=56 Identities=21% Similarity=0.220 Sum_probs=37.3
Q ss_pred CceEEEEecccccCCCchhhhhhcCcccccccccccccchHHHHHHHHHHhhccCC--CcceeeeecccchhhhHHHHHH
Q psy5059 380 RRTLAVVTKIDLMDAGTDAIDILCGRVIPVKLDVDGRRTYIEAQIKQLVLHYISNP--NSIILAVVTANTDMATSESLKL 457 (1036)
Q Consensus 380 ~rti~VitK~Dl~~~g~~~~~~l~~~~~~~~~~~~~~~~~~~~~l~~~v~~~i~~~--~~ipla~ISA~td~~~qeil~l 457 (1036)
++.|.|+||+|+.++... ......+...++.. ...++..+||+++.+..+++..
T Consensus 105 ~~~ilv~NK~Dl~~~~~~------------------------~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~l~~~ 160 (164)
T cd04171 105 KRGLVVLTKADLVDEDWL------------------------ELVEEEIRELLAGTFLADAPIFPVSAVTGEGIEELKEY 160 (164)
T ss_pred CcEEEEEECccccCHHHH------------------------HHHHHHHHHHHHhcCcCCCcEEEEeCCCCcCHHHHHHH
Confidence 389999999999754211 11222333333332 3567889999999999999877
Q ss_pred hh
Q psy5059 458 AK 459 (1036)
Q Consensus 458 a~ 459 (1036)
..
T Consensus 161 l~ 162 (164)
T cd04171 161 LD 162 (164)
T ss_pred Hh
Confidence 54
No 34
>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=98.91 E-value=2.3e-08 Score=114.90 Aligned_cols=28 Identities=29% Similarity=0.640 Sum_probs=25.3
Q ss_pred CCCCceEEeCcCCCChhhHHhhhcCCCc
Q psy5059 81 IQLPQIVVVGTQSSGKSSVIESLVGKSF 108 (1036)
Q Consensus 81 i~lPqIvVvG~QSsGKSSlLEal~G~~f 108 (1036)
-..|+|+++|.+|+|||||+++|+|..+
T Consensus 187 ~~~~~ValvG~~NvGKSSLln~L~~~~~ 214 (351)
T TIGR03156 187 ADVPTVALVGYTNAGKSTLFNALTGADV 214 (351)
T ss_pred cCCcEEEEECCCCCCHHHHHHHHhCCce
Confidence 3579999999999999999999998763
No 35
>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=98.89 E-value=1.1e-08 Score=120.72 Aligned_cols=112 Identities=21% Similarity=0.224 Sum_probs=74.4
Q ss_pred ccceeecCCCccccCCCCCchhHHHHHHHHHHHhhcCCCcEEEEEeccccccccchhhhhhhhcCCCCCcccceeccCCC
Q psy5059 241 LNLTLVDLPGITKVPVGDQPDDIEAQIKQLVLHYISNPNSIILAVVTANTDMATSESLKLAKETDVDGRRTLDLLDIDLP 320 (1036)
Q Consensus 241 ~~LtlVDLPGi~~~~~~~q~~di~~~ir~lv~~yI~~~n~IIL~V~~An~D~~~s~al~l~r~~Dp~g~RTigvl~~~~~ 320 (1036)
..+.++||||+.. ....+.+.+...+..+++..+. +|+|+++.......+
T Consensus 47 ~~~~liDTpG~~~-----~~~~~~~~~~~~~~~~~~~ad~-vl~vvD~~~~~~~~d------------------------ 96 (429)
T TIGR03594 47 REFILIDTGGIEE-----DDDGLDKQIREQAEIAIEEADV-ILFVVDGREGLTPED------------------------ 96 (429)
T ss_pred eEEEEEECCCCCC-----cchhHHHHHHHHHHHHHhhCCE-EEEEEeCCCCCCHHH------------------------
Confidence 3588999999842 2344666778888888888884 444445544333222
Q ss_pred CcccccCCCCCchHHHHHHHHHHhhhcCCCceEEEEEecCccccchHHHHHhhhccccCCceEEEEecccccCCCchhhh
Q psy5059 321 GITKVPVGDQPDDIEAQIKQLVLHYISNPNSIILAVVTANTDMATSESLKLAKETDVDGRRTLAVVTKIDLMDAGTDAID 400 (1036)
Q Consensus 321 g~~~~~~~~~~~~~~~~~~~~~~~y~~~~~~~~~~~v~~~~d~~~~~~~~la~~~d~~g~rti~VitK~Dl~~~g~~~~~ 400 (1036)
..+++.+...++++|.|+||+|+.+......+
T Consensus 97 ------------------------------------------------~~i~~~l~~~~~piilVvNK~D~~~~~~~~~~ 128 (429)
T TIGR03594 97 ------------------------------------------------EEIAKWLRKSGKPVILVANKIDGKKEDAVAAE 128 (429)
T ss_pred ------------------------------------------------HHHHHHHHHhCCCEEEEEECccCCcccccHHH
Confidence 34566666678999999999999865432210
Q ss_pred hhcCcccccccccccccchHHHHHHHHHHhhccCCCcceeeeecccchhhhHHHHHHhhhc
Q psy5059 401 ILCGRVIPVKLDVDGRRTYIEAQIKQLVLHYISNPNSIILAVVTANTDMATSESLKLAKET 461 (1036)
Q Consensus 401 ~l~~~~~~~~~~~~~~~~~~~~~l~~~v~~~i~~~~~ipla~ISA~td~~~qeil~la~~v 461 (1036)
+..+.......+||.++..+.++++.....
T Consensus 129 -------------------------------~~~lg~~~~~~vSa~~g~gv~~ll~~i~~~ 158 (429)
T TIGR03594 129 -------------------------------FYSLGFGEPIPISAEHGRGIGDLLDAILEL 158 (429)
T ss_pred -------------------------------HHhcCCCCeEEEeCCcCCChHHHHHHHHHh
Confidence 112233346789999999999998876554
No 36
>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=98.88 E-value=1.9e-08 Score=100.44 Aligned_cols=63 Identities=14% Similarity=0.073 Sum_probs=40.8
Q ss_pred HhhhccccCCceEEEEecccccCCCchhhhhhcCcccccccccccccchHHHHHHHHHHhhccCCCcceeeeecccchhh
Q psy5059 371 LAKETDVDGRRTLAVVTKIDLMDAGTDAIDILCGRVIPVKLDVDGRRTYIEAQIKQLVLHYISNPNSIILAVVTANTDMA 450 (1036)
Q Consensus 371 la~~~d~~g~rti~VitK~Dl~~~g~~~~~~l~~~~~~~~~~~~~~~~~~~~~l~~~v~~~i~~~~~ipla~ISA~td~~ 450 (1036)
+.+.+...+.+.+.|+||+|+.+... ................++..+|++++..
T Consensus 103 ~~~~~~~~~~~~iiv~nK~Dl~~~~~--------------------------~~~~~~~~~~~~~~~~~~~~~s~~~~~~ 156 (168)
T cd04163 103 ILELLKKSKTPVILVLNKIDLVKDKE--------------------------DLLPLLEKLKELGPFAEIFPISALKGEN 156 (168)
T ss_pred HHHHHHHhCCCEEEEEEchhccccHH--------------------------HHHHHHHHHHhccCCCceEEEEeccCCC
Confidence 33444444788999999999984211 1122222222334466788899999999
Q ss_pred hHHHHHHhh
Q psy5059 451 TSESLKLAK 459 (1036)
Q Consensus 451 ~qeil~la~ 459 (1036)
..+++....
T Consensus 157 ~~~l~~~l~ 165 (168)
T cd04163 157 VDELLEEIV 165 (168)
T ss_pred hHHHHHHHH
Confidence 999887754
No 37
>KOG1191|consensus
Probab=98.87 E-value=1.1e-09 Score=125.70 Aligned_cols=64 Identities=23% Similarity=0.269 Sum_probs=43.8
Q ss_pred CCCcEEEEEeecCcccceeecCCCccccCCCCCchhHHHHHHHHHHHhhcCCCcEEEEEeccccccccch
Q psy5059 227 CSEPIILKIYSTSVLNLTLVDLPGITKVPVGDQPDDIEAQIKQLVLHYISNPNSIILAVVTANTDMATSE 296 (1036)
Q Consensus 227 S~d~I~L~I~~P~~~~LtlVDLPGi~~~~~~~q~~di~~~ir~lv~~yI~~~n~IIL~V~~An~D~~~s~ 296 (1036)
|+|.|...+. ++.....|+||+|+.+ ..++. ++++==+-.++-+...+ +|++|++|+.-+..|+
T Consensus 303 TRDaiea~v~-~~G~~v~L~DTAGiRe--~~~~~--iE~~gI~rA~k~~~~ad-vi~~vvda~~~~t~sd 366 (531)
T KOG1191|consen 303 TRDAIEAQVT-VNGVPVRLSDTAGIRE--ESNDG--IEALGIERARKRIERAD-VILLVVDAEESDTESD 366 (531)
T ss_pred chhhheeEee-cCCeEEEEEecccccc--ccCCh--hHHHhHHHHHHHHhhcC-EEEEEecccccccccc
Confidence 7899999988 7889999999999988 22222 22222233456677777 7778887765555554
No 38
>PRK04213 GTP-binding protein; Provisional
Probab=98.85 E-value=4e-08 Score=103.54 Aligned_cols=27 Identities=41% Similarity=0.730 Sum_probs=24.2
Q ss_pred CCCceEEeCcCCCChhhHHhhhcCCCc
Q psy5059 82 QLPQIVVVGTQSSGKSSVIESLVGKSF 108 (1036)
Q Consensus 82 ~lPqIvVvG~QSsGKSSlLEal~G~~f 108 (1036)
..++|+++|..++||||++++|+|..|
T Consensus 8 ~~~~i~i~G~~~~GKSsLin~l~~~~~ 34 (201)
T PRK04213 8 RKPEIVFVGRSNVGKSTLVRELTGKKV 34 (201)
T ss_pred CCCEEEEECCCCCCHHHHHHHHhCCCC
Confidence 468999999999999999999998764
No 39
>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=98.84 E-value=2.8e-08 Score=107.43 Aligned_cols=89 Identities=18% Similarity=-0.000 Sum_probs=48.2
Q ss_pred HHHhhhccccCCceEEEEecccccCCCch--hhhhhc---CcccccccccccccchHHHHHHHHHHhhccCCCcceeeee
Q psy5059 369 LKLAKETDVDGRRTLAVVTKIDLMDAGTD--AIDILC---GRVIPVKLDVDGRRTYIEAQIKQLVLHYISNPNSIILAVV 443 (1036)
Q Consensus 369 ~~la~~~d~~g~rti~VitK~Dl~~~g~~--~~~~l~---~~~~~~~~~~~~~~~~~~~~l~~~v~~~i~~~~~ipla~I 443 (1036)
..++..+...|.+.|+|+||+|+.++..- ..+-+. ...-.-+.++.- ++. +.+. .....+......|+..+
T Consensus 128 ~~~l~~l~~~~ip~ivvvNK~D~~~~~~~~~~~~~l~~~L~~~g~~~~p~~~-~~~--~~~~-~~~~~~~~~~~~pi~~v 203 (224)
T cd04165 128 KEHLGLALALNIPVFVVVTKIDLAPANILQETLKDLKRILKVPGVRKLPVPV-KSD--DDVV-LAASNFSSERIVPIFQV 203 (224)
T ss_pred HHHHHHHHHcCCCEEEEEECccccCHHHHHHHHHHHHHHhcCCCccccceee-ecc--ccee-ehhhcCCccccCcEEEe
Confidence 55777778889999999999999764311 110000 000000000000 000 0000 00122344556699999
Q ss_pred cccchhhhHHHHHHhhhc
Q psy5059 444 TANTDMATSESLKLAKET 461 (1036)
Q Consensus 444 SA~td~~~qeil~la~~v 461 (1036)
||.++.+...+.+....+
T Consensus 204 Savtg~Gi~~L~~~L~~l 221 (224)
T cd04165 204 SNVTGEGLDLLHAFLNLL 221 (224)
T ss_pred eCCCccCHHHHHHHHHhc
Confidence 999999999988776543
No 40
>PRK03003 GTP-binding protein Der; Reviewed
Probab=98.83 E-value=3.4e-08 Score=118.10 Aligned_cols=26 Identities=35% Similarity=0.754 Sum_probs=24.1
Q ss_pred CCCceEEeCcCCCChhhHHhhhcCCC
Q psy5059 82 QLPQIVVVGTQSSGKSSVIESLVGKS 107 (1036)
Q Consensus 82 ~lPqIvVvG~QSsGKSSlLEal~G~~ 107 (1036)
..|.|++||.+++|||||+++|+|..
T Consensus 37 ~~~~V~IvG~~nvGKSSL~nrl~~~~ 62 (472)
T PRK03003 37 PLPVVAVVGRPNVGKSTLVNRILGRR 62 (472)
T ss_pred CCCEEEEEcCCCCCHHHHHHHHhCcC
Confidence 56999999999999999999999865
No 41
>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=98.81 E-value=4.4e-08 Score=99.21 Aligned_cols=25 Identities=20% Similarity=0.538 Sum_probs=22.9
Q ss_pred CceEEeCcCCCChhhHHhhhcCCCc
Q psy5059 84 PQIVVVGTQSSGKSSVIESLVGKSF 108 (1036)
Q Consensus 84 PqIvVvG~QSsGKSSlLEal~G~~f 108 (1036)
|.|+++|..++||||++++|.+-.|
T Consensus 1 ~~i~iiG~~~~GKtsli~~l~~~~~ 25 (168)
T cd01887 1 PVVTVMGHVDHGKTTLLDKIRKTNV 25 (168)
T ss_pred CEEEEEecCCCCHHHHHHHHHhccc
Confidence 7799999999999999999987764
No 42
>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=98.80 E-value=4.9e-08 Score=99.22 Aligned_cols=55 Identities=20% Similarity=0.163 Sum_probs=37.3
Q ss_pred cCCceEEEEecccccCCCchhhhhhcCcccccccccccccchHHHHHHHHHHhhccCCCcceeeeecccchhhhHHHHHH
Q psy5059 378 DGRRTLAVVTKIDLMDAGTDAIDILCGRVIPVKLDVDGRRTYIEAQIKQLVLHYISNPNSIILAVVTANTDMATSESLKL 457 (1036)
Q Consensus 378 ~g~rti~VitK~Dl~~~g~~~~~~l~~~~~~~~~~~~~~~~~~~~~l~~~v~~~i~~~~~ipla~ISA~td~~~qeil~l 457 (1036)
.+.+.+.|+||+|+.++... ...+..........+...+||+++.+..++++.
T Consensus 113 ~~~p~ivv~NK~Dl~~~~~~---------------------------~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~ 165 (170)
T cd01898 113 LEKPRIVVLNKIDLLDEEEL---------------------------FELLKELLKELWGKPVFPISALTGEGLDELLRK 165 (170)
T ss_pred cccccEEEEEchhcCCchhh---------------------------HHHHHHHHhhCCCCCEEEEecCCCCCHHHHHHH
Confidence 46789999999999765322 112222223223456778999999999999877
Q ss_pred hh
Q psy5059 458 AK 459 (1036)
Q Consensus 458 a~ 459 (1036)
..
T Consensus 166 i~ 167 (170)
T cd01898 166 LA 167 (170)
T ss_pred HH
Confidence 54
No 43
>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=98.79 E-value=3e-08 Score=103.85 Aligned_cols=73 Identities=21% Similarity=0.168 Sum_probs=47.4
Q ss_pred HHHhhhccccCCceEEEEecccccCCCchhhhhhcCcccccccccccccchHHHHHHHHHHhhccCC--Ccceeeeeccc
Q psy5059 369 LKLAKETDVDGRRTLAVVTKIDLMDAGTDAIDILCGRVIPVKLDVDGRRTYIEAQIKQLVLHYISNP--NSIILAVVTAN 446 (1036)
Q Consensus 369 ~~la~~~d~~g~rti~VitK~Dl~~~g~~~~~~l~~~~~~~~~~~~~~~~~~~~~l~~~v~~~i~~~--~~ipla~ISA~ 446 (1036)
....+.+...+.+.|+|+||+|+....-.. ..+++...+.+..... ...|++.+||+
T Consensus 112 ~~~l~~~~~~~~p~ivvlNK~D~~~~~~~~---------------------~~~~~~~~l~~~~~~~~~~~~~vi~~Sa~ 170 (188)
T PF00009_consen 112 EEHLKILRELGIPIIVVLNKMDLIEKELEE---------------------IIEEIKEKLLKEYGENGEEIVPVIPISAL 170 (188)
T ss_dssp HHHHHHHHHTT-SEEEEEETCTSSHHHHHH---------------------HHHHHHHHHHHHTTSTTTSTEEEEEEBTT
T ss_pred ccccccccccccceEEeeeeccchhhhHHH---------------------HHHHHHHHhccccccCccccceEEEEecC
Confidence 446666677788899999999999221111 1122332222222333 47899999999
Q ss_pred chhhhHHHHHHhhhcC
Q psy5059 447 TDMATSESLKLAKETD 462 (1036)
Q Consensus 447 td~~~qeil~la~~vd 462 (1036)
+|.+..++++...+.-
T Consensus 171 ~g~gi~~Ll~~l~~~~ 186 (188)
T PF00009_consen 171 TGDGIDELLEALVELL 186 (188)
T ss_dssp TTBTHHHHHHHHHHHS
T ss_pred CCCCHHHHHHHHHHhC
Confidence 9999999998876543
No 44
>PRK11058 GTPase HflX; Provisional
Probab=98.79 E-value=6.2e-08 Score=114.00 Aligned_cols=28 Identities=21% Similarity=0.501 Sum_probs=25.2
Q ss_pred CCCCceEEeCcCCCChhhHHhhhcCCCc
Q psy5059 81 IQLPQIVVVGTQSSGKSSVIESLVGKSF 108 (1036)
Q Consensus 81 i~lPqIvVvG~QSsGKSSlLEal~G~~f 108 (1036)
-.+|.|++||.+|+|||||+++|+|..+
T Consensus 195 ~~~p~ValVG~~NaGKSSLlN~Lt~~~~ 222 (426)
T PRK11058 195 ADVPTVSLVGYTNAGKSTLFNRITEARV 222 (426)
T ss_pred cCCCEEEEECCCCCCHHHHHHHHhCCce
Confidence 3579999999999999999999998764
No 45
>PRK12299 obgE GTPase CgtA; Reviewed
Probab=98.78 E-value=4.3e-08 Score=112.00 Aligned_cols=25 Identities=28% Similarity=0.520 Sum_probs=22.9
Q ss_pred CCceEEeCcCCCChhhHHhhhcCCC
Q psy5059 83 LPQIVVVGTQSSGKSSVIESLVGKS 107 (1036)
Q Consensus 83 lPqIvVvG~QSsGKSSlLEal~G~~ 107 (1036)
++.|++||-+||||||||++|++..
T Consensus 158 ~adVglVG~PNaGKSTLln~ls~a~ 182 (335)
T PRK12299 158 LADVGLVGLPNAGKSTLISAVSAAK 182 (335)
T ss_pred cCCEEEEcCCCCCHHHHHHHHHcCC
Confidence 4899999999999999999998754
No 46
>PRK15494 era GTPase Era; Provisional
Probab=98.78 E-value=9.1e-08 Score=109.70 Aligned_cols=69 Identities=14% Similarity=0.096 Sum_probs=45.8
Q ss_pred hccccCCceEEEEecccccCCCchhhhhhcCcccccccccccccchHHHHHHHHHHhhccCCCcceeeeecccchhhhHH
Q psy5059 374 ETDVDGRRTLAVVTKIDLMDAGTDAIDILCGRVIPVKLDVDGRRTYIEAQIKQLVLHYISNPNSIILAVVTANTDMATSE 453 (1036)
Q Consensus 374 ~~d~~g~rti~VitK~Dl~~~g~~~~~~l~~~~~~~~~~~~~~~~~~~~~l~~~v~~~i~~~~~ipla~ISA~td~~~qe 453 (1036)
.+...+.+.|.|+||+|+.++. . ..+.+.+.. ......+..+||+++.++.+
T Consensus 155 ~l~~~~~p~IlViNKiDl~~~~---~----------------------~~~~~~l~~---~~~~~~i~~iSAktg~gv~e 206 (339)
T PRK15494 155 KLRSLNIVPIFLLNKIDIESKY---L----------------------NDIKAFLTE---NHPDSLLFPISALSGKNIDG 206 (339)
T ss_pred HHHhcCCCEEEEEEhhcCcccc---H----------------------HHHHHHHHh---cCCCcEEEEEeccCccCHHH
Confidence 3334456789999999996431 1 112222221 12235678899999999999
Q ss_pred HHHHhhhcCcCCCceee
Q psy5059 454 SLKLAKETDVDGRRTLA 470 (1036)
Q Consensus 454 il~la~~vd~~g~RtIg 470 (1036)
++......-+.|....+
T Consensus 207 L~~~L~~~l~~~~~~~~ 223 (339)
T PRK15494 207 LLEYITSKAKISPWLYA 223 (339)
T ss_pred HHHHHHHhCCCCCCCCC
Confidence 99998888777776554
No 47
>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=98.77 E-value=1.3e-07 Score=99.86 Aligned_cols=28 Identities=29% Similarity=0.617 Sum_probs=25.2
Q ss_pred CCCCceEEeCcCCCChhhHHhhhcCCCc
Q psy5059 81 IQLPQIVVVGTQSSGKSSVIESLVGKSF 108 (1036)
Q Consensus 81 i~lPqIvVvG~QSsGKSSlLEal~G~~f 108 (1036)
-..|.|+++|.++|||||++++|+|..+
T Consensus 39 ~~~~~I~iiG~~g~GKStLl~~l~~~~~ 66 (204)
T cd01878 39 SGIPTVALVGYTNAGKSTLFNALTGADV 66 (204)
T ss_pred cCCCeEEEECCCCCCHHHHHHHHhcchh
Confidence 4579999999999999999999998764
No 48
>PRK00093 GTP-binding protein Der; Reviewed
Probab=98.74 E-value=5e-08 Score=115.36 Aligned_cols=25 Identities=36% Similarity=0.672 Sum_probs=23.1
Q ss_pred CCceEEeCcCCCChhhHHhhhcCCC
Q psy5059 83 LPQIVVVGTQSSGKSSVIESLVGKS 107 (1036)
Q Consensus 83 lPqIvVvG~QSsGKSSlLEal~G~~ 107 (1036)
+|.|+++|.+++|||||+++|+|..
T Consensus 1 ~~~I~ivG~~~vGKStL~n~l~~~~ 25 (435)
T PRK00093 1 KPVVAIVGRPNVGKSTLFNRLTGKR 25 (435)
T ss_pred CCEEEEECCCCCCHHHHHHHHhCCC
Confidence 3789999999999999999999876
No 49
>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=98.73 E-value=1.9e-07 Score=94.91 Aligned_cols=25 Identities=32% Similarity=0.539 Sum_probs=23.1
Q ss_pred CceEEeCcCCCChhhHHhhhcCCCc
Q psy5059 84 PQIVVVGTQSSGKSSVIESLVGKSF 108 (1036)
Q Consensus 84 PqIvVvG~QSsGKSSlLEal~G~~f 108 (1036)
|.|+++|.+++||||++++|+|..+
T Consensus 1 ~~i~~~G~~~~GKssli~~l~~~~~ 25 (168)
T cd01897 1 PTLVIAGYPNVGKSSLVNKLTRAKP 25 (168)
T ss_pred CeEEEEcCCCCCHHHHHHHHhcCCC
Confidence 7899999999999999999998764
No 50
>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=98.73 E-value=1.2e-07 Score=94.48 Aligned_cols=57 Identities=14% Similarity=0.080 Sum_probs=37.6
Q ss_pred HhhhccccCCceEEEEecccccCCCchhhhhhcCcccccccccccccchHHHHHHHHHHhhccCCCcceeeeecccchhh
Q psy5059 371 LAKETDVDGRRTLAVVTKIDLMDAGTDAIDILCGRVIPVKLDVDGRRTYIEAQIKQLVLHYISNPNSIILAVVTANTDMA 450 (1036)
Q Consensus 371 la~~~d~~g~rti~VitK~Dl~~~g~~~~~~l~~~~~~~~~~~~~~~~~~~~~l~~~v~~~i~~~~~ipla~ISA~td~~ 450 (1036)
+.+.+...+.+.|+|+||+|+.++... ...+......+...+||+++..
T Consensus 97 ~~~~~~~~~~piiiv~nK~D~~~~~~~-------------------------------~~~~~~~~~~~~~~~Sa~~~~g 145 (157)
T cd01894 97 IAKYLRKSKKPVILVVNKVDNIKEEDE-------------------------------AAEFYSLGFGEPIPISAEHGRG 145 (157)
T ss_pred HHHHHHhcCCCEEEEEECcccCChHHH-------------------------------HHHHHhcCCCCeEEEecccCCC
Confidence 344444457899999999999764211 0111122233567899999999
Q ss_pred hHHHHHHh
Q psy5059 451 TSESLKLA 458 (1036)
Q Consensus 451 ~qeil~la 458 (1036)
+.+++...
T Consensus 146 v~~l~~~l 153 (157)
T cd01894 146 IGDLLDAI 153 (157)
T ss_pred HHHHHHHH
Confidence 99988765
No 51
>PRK09518 bifunctional cytidylate kinase/GTPase Der; Reviewed
Probab=98.73 E-value=5.8e-08 Score=121.57 Aligned_cols=25 Identities=24% Similarity=0.631 Sum_probs=23.3
Q ss_pred CCceEEeCcCCCChhhHHhhhcCCC
Q psy5059 83 LPQIVVVGTQSSGKSSVIESLVGKS 107 (1036)
Q Consensus 83 lPqIvVvG~QSsGKSSlLEal~G~~ 107 (1036)
+|.|+++|.+++|||||+++|+|..
T Consensus 275 ~~~V~IvG~~nvGKSSL~n~l~~~~ 299 (712)
T PRK09518 275 VGVVAIVGRPNVGKSTLVNRILGRR 299 (712)
T ss_pred CcEEEEECCCCCCHHHHHHHHhCCC
Confidence 5899999999999999999999875
No 52
>PRK12296 obgE GTPase CgtA; Reviewed
Probab=98.71 E-value=8.8e-08 Score=113.82 Aligned_cols=25 Identities=36% Similarity=0.534 Sum_probs=23.0
Q ss_pred CCceEEeCcCCCChhhHHhhhcCCC
Q psy5059 83 LPQIVVVGTQSSGKSSVIESLVGKS 107 (1036)
Q Consensus 83 lPqIvVvG~QSsGKSSlLEal~G~~ 107 (1036)
++.|++||.+||||||||++|++..
T Consensus 159 ~adV~LVG~PNAGKSTLln~Ls~ak 183 (500)
T PRK12296 159 VADVGLVGFPSAGKSSLISALSAAK 183 (500)
T ss_pred cceEEEEEcCCCCHHHHHHHHhcCC
Confidence 4899999999999999999999765
No 53
>PRK12297 obgE GTPase CgtA; Reviewed
Probab=98.70 E-value=1.4e-07 Score=110.74 Aligned_cols=24 Identities=21% Similarity=0.397 Sum_probs=22.3
Q ss_pred CceEEeCcCCCChhhHHhhhcCCC
Q psy5059 84 PQIVVVGTQSSGKSSVIESLVGKS 107 (1036)
Q Consensus 84 PqIvVvG~QSsGKSSlLEal~G~~ 107 (1036)
+.|++||.+||||||||++|++..
T Consensus 159 adVglVG~pNaGKSTLLn~Lt~ak 182 (424)
T PRK12297 159 ADVGLVGFPNVGKSTLLSVVSNAK 182 (424)
T ss_pred CcEEEEcCCCCCHHHHHHHHHcCC
Confidence 599999999999999999999765
No 54
>COG1084 Predicted GTPase [General function prediction only]
Probab=98.68 E-value=5.4e-07 Score=99.92 Aligned_cols=47 Identities=28% Similarity=0.391 Sum_probs=37.2
Q ss_pred hhHHHHHHHHHhhhhcCCCCCCCCceEEeCcCCCChhhHHhhhcCCC
Q psy5059 61 TAAAVINKLQDVFNTVGTDAIQLPQIVVVGTQSSGKSSVIESLVGKS 107 (1036)
Q Consensus 61 ~~~~l~~kL~~~~~~~g~~~i~lPqIvVvG~QSsGKSSlLEal~G~~ 107 (1036)
.-++.+++.++.+..+-.-+.++|.|||.|-+|+||||++.+|++-+
T Consensus 146 ~~L~fL~~~r~~l~~LP~Idp~~pTivVaG~PNVGKSSlv~~lT~Ak 192 (346)
T COG1084 146 DDLEFLRKARDHLKKLPAIDPDLPTIVVAGYPNVGKSSLVRKLTTAK 192 (346)
T ss_pred HHHHHHHHHHHHHhcCCCCCCCCCeEEEecCCCCcHHHHHHHHhcCC
Confidence 33455556666555555567889999999999999999999999876
No 55
>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=98.66 E-value=2.4e-07 Score=96.52 Aligned_cols=24 Identities=38% Similarity=0.594 Sum_probs=21.9
Q ss_pred ceEEeCcCCCChhhHHhhhcCCCc
Q psy5059 85 QIVVVGTQSSGKSSVIESLVGKSF 108 (1036)
Q Consensus 85 qIvVvG~QSsGKSSlLEal~G~~f 108 (1036)
+|+++|+++|||||+++++.+..|
T Consensus 5 kv~~vG~~~~GKTsli~~~~~~~~ 28 (183)
T cd04152 5 HIVMLGLDSAGKTTVLYRLKFNEF 28 (183)
T ss_pred EEEEECCCCCCHHHHHHHHhcCCc
Confidence 699999999999999999987664
No 56
>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=98.66 E-value=1.8e-07 Score=93.61 Aligned_cols=62 Identities=11% Similarity=0.057 Sum_probs=39.7
Q ss_pred HhhhccccCCceEEEEecccccCCCchhhhhhcCcccccccccccccchHHHHHHHHHHhhccCCCcceeeeecccchhh
Q psy5059 371 LAKETDVDGRRTLAVVTKIDLMDAGTDAIDILCGRVIPVKLDVDGRRTYIEAQIKQLVLHYISNPNSIILAVVTANTDMA 450 (1036)
Q Consensus 371 la~~~d~~g~rti~VitK~Dl~~~g~~~~~~l~~~~~~~~~~~~~~~~~~~~~l~~~v~~~i~~~~~ipla~ISA~td~~ 450 (1036)
+..++...+.+.|+|+||+|+.+..... ... ..+...+ ..+...+||.++.+
T Consensus 93 ~~~~~~~~~~~~iiv~NK~Dl~~~~~~~-----------------------~~~-~~~~~~~----~~~~~~iSa~~~~~ 144 (158)
T cd01879 93 LTLQLLELGLPVVVALNMIDEAEKRGIK-----------------------IDL-DKLSELL----GVPVVPTSARKGEG 144 (158)
T ss_pred HHHHHHHcCCCEEEEEehhhhcccccch-----------------------hhH-HHHHHhh----CCCeEEEEccCCCC
Confidence 3334444688999999999997653111 111 1122222 24678899999999
Q ss_pred hHHHHHHhhh
Q psy5059 451 TSESLKLAKE 460 (1036)
Q Consensus 451 ~qeil~la~~ 460 (1036)
..+++.....
T Consensus 145 ~~~l~~~l~~ 154 (158)
T cd01879 145 IDELKDAIAE 154 (158)
T ss_pred HHHHHHHHHH
Confidence 9998877544
No 57
>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=98.66 E-value=2.6e-07 Score=98.60 Aligned_cols=23 Identities=30% Similarity=0.504 Sum_probs=20.9
Q ss_pred ceEEeCcCCCChhhHHhhhcCCC
Q psy5059 85 QIVVVGTQSSGKSSVIESLVGKS 107 (1036)
Q Consensus 85 qIvVvG~QSsGKSSlLEal~G~~ 107 (1036)
+|+++|..++|||||+++|++..
T Consensus 1 ~i~iiG~~~~GKStL~~~Ll~~~ 23 (208)
T cd04166 1 RFLTCGSVDDGKSTLIGRLLYDS 23 (208)
T ss_pred CEEEEECCCCCHHHHHHHHHHHc
Confidence 58999999999999999998754
No 58
>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=98.65 E-value=4.5e-07 Score=93.45 Aligned_cols=24 Identities=21% Similarity=0.315 Sum_probs=22.0
Q ss_pred ceEEeCcCCCChhhHHhhhcCCCc
Q psy5059 85 QIVVVGTQSSGKSSVIESLVGKSF 108 (1036)
Q Consensus 85 qIvVvG~QSsGKSSlLEal~G~~f 108 (1036)
.|+|+|+.+|||||++++|.+..+
T Consensus 1 ~v~v~G~~~~GKStlln~l~~~~~ 24 (189)
T cd00881 1 NVGIAGHVDHGKTTLTERLLYVTG 24 (189)
T ss_pred CEEEEeCCCCCHHHHHHHHHHhcC
Confidence 379999999999999999999874
No 59
>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=98.65 E-value=1.6e-07 Score=99.46 Aligned_cols=60 Identities=12% Similarity=0.096 Sum_probs=40.9
Q ss_pred HHHhhhccccCCc-eEEEEecccccCCCchhhhhhcCcccccccccccccchHHHHHHHHHHhhccCC----Ccceeeee
Q psy5059 369 LKLAKETDVDGRR-TLAVVTKIDLMDAGTDAIDILCGRVIPVKLDVDGRRTYIEAQIKQLVLHYISNP----NSIILAVV 443 (1036)
Q Consensus 369 ~~la~~~d~~g~r-ti~VitK~Dl~~~g~~~~~~l~~~~~~~~~~~~~~~~~~~~~l~~~v~~~i~~~----~~ipla~I 443 (1036)
..+++.+...|.+ .|+|+||+|++++. +.. +.+.+.+..++++. ..+|+++|
T Consensus 107 ~~~~~~~~~~~~~~iIvviNK~D~~~~~-~~~----------------------~~~~~~i~~~l~~~g~~~~~v~iipi 163 (195)
T cd01884 107 REHLLLARQVGVPYIVVFLNKADMVDDE-ELL----------------------ELVEMEVRELLSKYGFDGDNTPIVRG 163 (195)
T ss_pred HHHHHHHHHcCCCcEEEEEeCCCCCCcH-HHH----------------------HHHHHHHHHHHHHhcccccCCeEEEe
Confidence 4466666777876 67999999997432 111 33445566666544 45999999
Q ss_pred cccchhhh
Q psy5059 444 TANTDMAT 451 (1036)
Q Consensus 444 SA~td~~~ 451 (1036)
||++|.+.
T Consensus 164 Sa~~g~n~ 171 (195)
T cd01884 164 SALKALEG 171 (195)
T ss_pred eCccccCC
Confidence 99998874
No 60
>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=98.64 E-value=1.9e-07 Score=106.47 Aligned_cols=25 Identities=28% Similarity=0.520 Sum_probs=22.8
Q ss_pred CCceEEeCcCCCChhhHHhhhcCCC
Q psy5059 83 LPQIVVVGTQSSGKSSVIESLVGKS 107 (1036)
Q Consensus 83 lPqIvVvG~QSsGKSSlLEal~G~~ 107 (1036)
++.|++||.+||||||||++|++..
T Consensus 157 ~adV~lvG~pnaGKSTLl~~lt~~~ 181 (329)
T TIGR02729 157 LADVGLVGLPNAGKSTLISAVSAAK 181 (329)
T ss_pred cccEEEEcCCCCCHHHHHHHHhcCC
Confidence 4899999999999999999998764
No 61
>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=98.64 E-value=4.2e-07 Score=89.41 Aligned_cols=65 Identities=22% Similarity=0.167 Sum_probs=43.3
Q ss_pred hhhccccCCceEEEEecccccCCCchhhhhhcCcccccccccccccchHHHHHHHHHHhhccCCCcceeeeecccchhhh
Q psy5059 372 AKETDVDGRRTLAVVTKIDLMDAGTDAIDILCGRVIPVKLDVDGRRTYIEAQIKQLVLHYISNPNSIILAVVTANTDMAT 451 (1036)
Q Consensus 372 a~~~d~~g~rti~VitK~Dl~~~g~~~~~~l~~~~~~~~~~~~~~~~~~~~~l~~~v~~~i~~~~~ipla~ISA~td~~~ 451 (1036)
.......+.+.++|+||+|++....... ...............+...+||.++..+
T Consensus 97 ~~~~~~~~~~~ivv~nK~D~~~~~~~~~------------------------~~~~~~~~~~~~~~~~~~~~sa~~~~~v 152 (163)
T cd00880 97 LELLRERGKPVLLVLNKIDLLPEEEEEE------------------------LLELRLLILLLLLGLPVIAVSALTGEGI 152 (163)
T ss_pred HHHHHhcCCeEEEEEEccccCChhhHHH------------------------HHHHHHhhcccccCCceEEEeeeccCCH
Confidence 3344456788999999999987543321 1111223344556678888999999999
Q ss_pred HHHHHHhhh
Q psy5059 452 SESLKLAKE 460 (1036)
Q Consensus 452 qeil~la~~ 460 (1036)
.+++.....
T Consensus 153 ~~l~~~l~~ 161 (163)
T cd00880 153 DELREALIE 161 (163)
T ss_pred HHHHHHHHh
Confidence 998877643
No 62
>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=98.64 E-value=3.5e-07 Score=93.99 Aligned_cols=58 Identities=22% Similarity=0.317 Sum_probs=37.6
Q ss_pred ccCCceEEEEecccccCCCchhhhhhcCcccccccccccccchHHHHHHHHHHhhccCCCcceeeeecccchhhhHHHHH
Q psy5059 377 VDGRRTLAVVTKIDLMDAGTDAIDILCGRVIPVKLDVDGRRTYIEAQIKQLVLHYISNPNSIILAVVTANTDMATSESLK 456 (1036)
Q Consensus 377 ~~g~rti~VitK~Dl~~~g~~~~~~l~~~~~~~~~~~~~~~~~~~~~l~~~v~~~i~~~~~ipla~ISA~td~~~qeil~ 456 (1036)
..+.+.|.|+||+|+.+.... .....+...+. ..+.....+||+++.++.++++
T Consensus 117 ~~~~~iiiv~NK~Dl~~~~~~-------------------------~~~~~~~~~~~-~~~~~~~~~Sa~~g~gi~~l~~ 170 (179)
T cd01890 117 ENNLEIIPVINKIDLPSADPE-------------------------RVKQQIEDVLG-LDPSEAILVSAKTGLGVEDLLE 170 (179)
T ss_pred HcCCCEEEEEECCCCCcCCHH-------------------------HHHHHHHHHhC-CCcccEEEeeccCCCCHHHHHH
Confidence 357789999999999753211 11122222222 2234567899999999999988
Q ss_pred Hhhh
Q psy5059 457 LAKE 460 (1036)
Q Consensus 457 la~~ 460 (1036)
....
T Consensus 171 ~l~~ 174 (179)
T cd01890 171 AIVE 174 (179)
T ss_pred HHHh
Confidence 7643
No 63
>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=98.63 E-value=5e-07 Score=90.94 Aligned_cols=61 Identities=16% Similarity=0.031 Sum_probs=41.4
Q ss_pred ccccCCceEEEEecccccCCCchhhhhhcCcccccccccccccchHHHHHHHHHHhhccCCCcceeeeecccchhhhHHH
Q psy5059 375 TDVDGRRTLAVVTKIDLMDAGTDAIDILCGRVIPVKLDVDGRRTYIEAQIKQLVLHYISNPNSIILAVVTANTDMATSES 454 (1036)
Q Consensus 375 ~d~~g~rti~VitK~Dl~~~g~~~~~~l~~~~~~~~~~~~~~~~~~~~~l~~~v~~~i~~~~~ipla~ISA~td~~~qei 454 (1036)
....+.+.+.|.||+|+....+. +.+.+.+..........+...+||+++.++.++
T Consensus 96 ~~~~~~piiiv~nK~D~~~~~~~------------------------~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~~ 151 (158)
T cd00878 96 EELKGVPLLIFANKQDLPGALSV------------------------SELIEKLGLEKILGRRWHIQPCSAVTGDGLDEG 151 (158)
T ss_pred cccCCCcEEEEeeccCCccccCH------------------------HHHHHhhChhhccCCcEEEEEeeCCCCCCHHHH
Confidence 33567899999999999764311 223333332223445678889999999999999
Q ss_pred HHHhh
Q psy5059 455 LKLAK 459 (1036)
Q Consensus 455 l~la~ 459 (1036)
+....
T Consensus 152 ~~~l~ 156 (158)
T cd00878 152 LDWLL 156 (158)
T ss_pred HHHHh
Confidence 87653
No 64
>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=98.62 E-value=2.2e-07 Score=98.02 Aligned_cols=24 Identities=29% Similarity=0.643 Sum_probs=22.2
Q ss_pred ceEEeCcCCCChhhHHhhhcCCCc
Q psy5059 85 QIVVVGTQSSGKSSVIESLVGKSF 108 (1036)
Q Consensus 85 qIvVvG~QSsGKSSlLEal~G~~f 108 (1036)
+|+++|.+++||||++|+|+|...
T Consensus 2 ~i~lvG~~g~GKSsl~N~ilg~~~ 25 (196)
T cd01852 2 RLVLVGKTGAGKSATGNTILGREV 25 (196)
T ss_pred EEEEECCCCCCHHHHHHHhhCCCc
Confidence 589999999999999999999873
No 65
>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=98.61 E-value=2.8e-07 Score=91.34 Aligned_cols=23 Identities=26% Similarity=0.648 Sum_probs=21.1
Q ss_pred ceEEeCcCCCChhhHHhhhcCCC
Q psy5059 85 QIVVVGTQSSGKSSVIESLVGKS 107 (1036)
Q Consensus 85 qIvVvG~QSsGKSSlLEal~G~~ 107 (1036)
+|+++|++++|||||+++++|..
T Consensus 2 kv~liG~~~vGKSsL~~~l~~~~ 24 (142)
T TIGR02528 2 RIMFIGSVGCGKTTLTQALQGEE 24 (142)
T ss_pred eEEEECCCCCCHHHHHHHHcCCc
Confidence 68999999999999999998765
No 66
>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=98.60 E-value=3.9e-07 Score=92.38 Aligned_cols=25 Identities=28% Similarity=0.570 Sum_probs=23.2
Q ss_pred CceEEeCcCCCChhhHHhhhcCCCc
Q psy5059 84 PQIVVVGTQSSGKSSVIESLVGKSF 108 (1036)
Q Consensus 84 PqIvVvG~QSsGKSSlLEal~G~~f 108 (1036)
.+|+|+|+++|||||+++++.+..|
T Consensus 4 ~ki~vvG~~~~GKSsli~~l~~~~~ 28 (165)
T cd01868 4 FKIVLIGDSGVGKSNLLSRFTRNEF 28 (165)
T ss_pred eEEEEECCCCCCHHHHHHHHhcCCC
Confidence 5899999999999999999998875
No 67
>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=98.60 E-value=8e-07 Score=88.18 Aligned_cols=24 Identities=38% Similarity=0.767 Sum_probs=22.3
Q ss_pred ceEEeCcCCCChhhHHhhhcCCCc
Q psy5059 85 QIVVVGTQSSGKSSVIESLVGKSF 108 (1036)
Q Consensus 85 qIvVvG~QSsGKSSlLEal~G~~f 108 (1036)
+|+++|.+++||||++++|.|..|
T Consensus 1 ~i~i~G~~~~GKssl~~~l~~~~~ 24 (159)
T cd04159 1 EITLVGLQNSGKTTLVNVIAGGQF 24 (159)
T ss_pred CEEEEcCCCCCHHHHHHHHccCCC
Confidence 589999999999999999999875
No 68
>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=98.59 E-value=5e-07 Score=92.85 Aligned_cols=26 Identities=23% Similarity=0.652 Sum_probs=23.2
Q ss_pred CCCceEEeCcCCCChhhHHhhhcCCC
Q psy5059 82 QLPQIVVVGTQSSGKSSVIESLVGKS 107 (1036)
Q Consensus 82 ~lPqIvVvG~QSsGKSSlLEal~G~~ 107 (1036)
.-++|+++|.++||||||+++++|..
T Consensus 13 ~~~kv~ivG~~~~GKTsL~~~l~~~~ 38 (173)
T cd04154 13 REMRILILGLDNAGKTTILKKLLGED 38 (173)
T ss_pred CccEEEEECCCCCCHHHHHHHHccCC
Confidence 34789999999999999999999875
No 69
>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=98.59 E-value=3.4e-07 Score=90.71 Aligned_cols=25 Identities=32% Similarity=0.571 Sum_probs=22.6
Q ss_pred CceEEeCcCCCChhhHHhhhcCCCc
Q psy5059 84 PQIVVVGTQSSGKSSVIESLVGKSF 108 (1036)
Q Consensus 84 PqIvVvG~QSsGKSSlLEal~G~~f 108 (1036)
.+|+++|.++|||||+++++.+..+
T Consensus 1 ~~i~~~G~~~~GKStl~~~l~~~~~ 25 (159)
T cd00154 1 FKIVLIGDSGVGKTSLLLRFVDGKF 25 (159)
T ss_pred CeEEEECCCCCCHHHHHHHHHhCcC
Confidence 3689999999999999999998875
No 70
>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=98.59 E-value=1.5e-06 Score=94.56 Aligned_cols=171 Identities=16% Similarity=0.158 Sum_probs=88.5
Q ss_pred ccceeecCCCccccCCCCCchhHHHHHHHHHHHhhcCCCcEEEEEeccccccccchhhhhhhhcCCCCCcccceeccC--
Q psy5059 241 LNLTLVDLPGITKVPVGDQPDDIEAQIKQLVLHYISNPNSIILAVVTANTDMATSESLKLAKETDVDGRRTLDLLDID-- 318 (1036)
Q Consensus 241 ~~LtlVDLPGi~~~~~~~q~~di~~~ir~lv~~yI~~~n~IIL~V~~An~D~~~s~al~l~r~~Dp~g~RTigvl~~~-- 318 (1036)
..+.++|+||+...+.... . ..+. +..++++.+.+++++...+.+..-..+...+++.+-...+.-+...+.
T Consensus 47 ~~i~l~DtpG~~~~~~~~~--~---~~~~-~l~~~~~ad~il~V~D~t~~~~~~~~~~~~l~~~gi~l~~~~~~v~~~~~ 120 (233)
T cd01896 47 AKIQLLDLPGIIEGAADGK--G---RGRQ-VIAVARTADLILMVLDATKPEGHREILERELEGVGIRLNKRPPNITIKKK 120 (233)
T ss_pred eEEEEEECCCcccccccch--h---HHHH-HHHhhccCCEEEEEecCCcchhHHHHHHHHHHHcCceecCCCCeEEEEEE
Confidence 4678999999865432111 1 1222 246778888555554433322222233334443333223333333333
Q ss_pred CC-CcccccCCCCCchHHHHHHHHHHhhhcCCCceEEEEEecCccccchHHHHHhhhcc--ccCCceEEEEecccccCCC
Q psy5059 319 LP-GITKVPVGDQPDDIEAQIKQLVLHYISNPNSIILAVVTANTDMATSESLKLAKETD--VDGRRTLAVVTKIDLMDAG 395 (1036)
Q Consensus 319 ~~-g~~~~~~~~~~~~~~~~~~~~~~~y~~~~~~~~~~~v~~~~d~~~~~~~~la~~~d--~~g~rti~VitK~Dl~~~g 395 (1036)
.+ |+.-+.....++--++.++.+.++|=-.+. .|-...+.+-++ +...+. ..-.+++.|.||.|+.+..
T Consensus 121 ~~ggi~~~~~~~~~~~~~~~v~~~l~~~~i~~~-----~v~~~~~~~~~~---~~~~~~~~~~y~p~iiV~NK~Dl~~~~ 192 (233)
T cd01896 121 KKGGINITSTVPLTKLDEKTIKAILREYKIHNA-----DVLIREDITVDD---LIDVIEGNRVYIPCLYVYNKIDLISIE 192 (233)
T ss_pred ecCCEEEeccCCCCCCCHHHHHHHHHHhCeeeE-----EEEEccCCCHHH---HHHHHhCCceEeeEEEEEECccCCCHH
Confidence 22 222222233333346778888888832222 223333333333 444443 2346899999999996431
Q ss_pred chhhhhhcCcccccccccccccchHHHHHHHHHHhhccCCCcceeeeecccchhhhHHHHHHhh
Q psy5059 396 TDAIDILCGRVIPVKLDVDGRRTYIEAQIKQLVLHYISNPNSIILAVVTANTDMATSESLKLAK 459 (1036)
Q Consensus 396 ~~~~~~l~~~~~~~~~~~~~~~~~~~~~l~~~v~~~i~~~~~ipla~ISA~td~~~qeil~la~ 459 (1036)
+.. .... ..+...+||+++.+..++++...
T Consensus 193 ---------------------------~~~----~~~~---~~~~~~~SA~~g~gi~~l~~~i~ 222 (233)
T cd01896 193 ---------------------------ELD----LLAR---QPNSVVISAEKGLNLDELKERIW 222 (233)
T ss_pred ---------------------------HHH----HHhc---CCCEEEEcCCCCCCHHHHHHHHH
Confidence 111 1111 12467789999999999987753
No 71
>PRK05291 trmE tRNA modification GTPase TrmE; Reviewed
Probab=98.59 E-value=4.4e-07 Score=107.85 Aligned_cols=26 Identities=31% Similarity=0.602 Sum_probs=23.5
Q ss_pred CCCceEEeCcCCCChhhHHhhhcCCC
Q psy5059 82 QLPQIVVVGTQSSGKSSVIESLVGKS 107 (1036)
Q Consensus 82 ~lPqIvVvG~QSsGKSSlLEal~G~~ 107 (1036)
+-++|+++|.+++|||||+++|+|.+
T Consensus 214 ~~~kV~ivG~~nvGKSSLln~L~~~~ 239 (449)
T PRK05291 214 EGLKVVIAGRPNVGKSSLLNALLGEE 239 (449)
T ss_pred cCCEEEEECCCCCCHHHHHHHHhCCC
Confidence 34799999999999999999999876
No 72
>PRK15467 ethanolamine utilization protein EutP; Provisional
Probab=98.58 E-value=5.3e-07 Score=92.06 Aligned_cols=54 Identities=15% Similarity=0.229 Sum_probs=37.5
Q ss_pred CCceEEEEecccccCCCchhhhhhcCcccccccccccccchHHHHHHHHHHhhccCCCc-ceeeeecccchhhhHHHHHH
Q psy5059 379 GRRTLAVVTKIDLMDAGTDAIDILCGRVIPVKLDVDGRRTYIEAQIKQLVLHYISNPNS-IILAVVTANTDMATSESLKL 457 (1036)
Q Consensus 379 g~rti~VitK~Dl~~~g~~~~~~l~~~~~~~~~~~~~~~~~~~~~l~~~v~~~i~~~~~-ipla~ISA~td~~~qeil~l 457 (1036)
+.+.++|+||+|+.+... ..+. +.+..... .|+..+||+++.+++++++.
T Consensus 91 ~~~ii~v~nK~Dl~~~~~-------------------------~~~~----~~~~~~~~~~p~~~~Sa~~g~gi~~l~~~ 141 (158)
T PRK15467 91 SKRQIAVISKTDMPDADV-------------------------AATR----KLLLETGFEEPIFELNSHDPQSVQQLVDY 141 (158)
T ss_pred CCCeEEEEEccccCcccH-------------------------HHHH----HHHHHcCCCCCEEEEECCCccCHHHHHHH
Confidence 567999999999864321 1122 22222222 68999999999999999988
Q ss_pred hhhc
Q psy5059 458 AKET 461 (1036)
Q Consensus 458 a~~v 461 (1036)
..+.
T Consensus 142 l~~~ 145 (158)
T PRK15467 142 LASL 145 (158)
T ss_pred HHHh
Confidence 7655
No 73
>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=98.57 E-value=3.6e-07 Score=87.82 Aligned_cols=23 Identities=35% Similarity=0.757 Sum_probs=21.3
Q ss_pred ceEEeCcCCCChhhHHhhhcCCC
Q psy5059 85 QIVVVGTQSSGKSSVIESLVGKS 107 (1036)
Q Consensus 85 qIvVvG~QSsGKSSlLEal~G~~ 107 (1036)
+|+|+|..++|||||+++|+|..
T Consensus 1 ~V~iiG~~~~GKSTlin~l~~~~ 23 (116)
T PF01926_consen 1 RVAIIGRPNVGKSTLINALTGKK 23 (116)
T ss_dssp EEEEEESTTSSHHHHHHHHHTST
T ss_pred CEEEECCCCCCHHHHHHHHhccc
Confidence 58999999999999999999865
No 74
>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=98.57 E-value=5e-07 Score=91.65 Aligned_cols=58 Identities=21% Similarity=0.237 Sum_probs=37.4
Q ss_pred ccCCceEEEEecccccCCCchhhhhhcCcccccccccccccchHHHHHHHHHHhhcc--CCCcceeeeecccchhhhHHH
Q psy5059 377 VDGRRTLAVVTKIDLMDAGTDAIDILCGRVIPVKLDVDGRRTYIEAQIKQLVLHYIS--NPNSIILAVVTANTDMATSES 454 (1036)
Q Consensus 377 ~~g~rti~VitK~Dl~~~g~~~~~~l~~~~~~~~~~~~~~~~~~~~~l~~~v~~~i~--~~~~ipla~ISA~td~~~qei 454 (1036)
..+.++|.|+||.|+.+.-+. +.....+..+.. .....+..-+||+++.++.++
T Consensus 105 ~~~~p~ilv~NK~D~~~~~~~------------------------~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gv~e~ 160 (167)
T cd04160 105 LEGVPLLILANKQDLPDALSV------------------------EEIKEVFQDKAEEIGRRDCLVLPVSALEGTGVREG 160 (167)
T ss_pred hcCCCEEEEEEccccccCCCH------------------------HHHHHHhccccccccCCceEEEEeeCCCCcCHHHH
Confidence 457899999999998654221 122222222221 123457888999999999999
Q ss_pred HHHh
Q psy5059 455 LKLA 458 (1036)
Q Consensus 455 l~la 458 (1036)
+...
T Consensus 161 ~~~l 164 (167)
T cd04160 161 IEWL 164 (167)
T ss_pred HHHH
Confidence 8764
No 75
>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=98.57 E-value=4.6e-07 Score=95.08 Aligned_cols=62 Identities=16% Similarity=0.140 Sum_probs=40.7
Q ss_pred CCceEEEEecccccCCCchhhhhhcCcccccccccccccchHHHHHHHHHHhhcc--CCCcceeeeecccchhhhHHHHH
Q psy5059 379 GRRTLAVVTKIDLMDAGTDAIDILCGRVIPVKLDVDGRRTYIEAQIKQLVLHYIS--NPNSIILAVVTANTDMATSESLK 456 (1036)
Q Consensus 379 g~rti~VitK~Dl~~~g~~~~~~l~~~~~~~~~~~~~~~~~~~~~l~~~v~~~i~--~~~~ipla~ISA~td~~~qeil~ 456 (1036)
|.+.++|+||+|+++...... ..+.+.+.+..++. .....++..+||+++.+..+++.
T Consensus 120 ~~~~iiv~NK~Dl~~~~~~~~--------------------~~~~~~~~l~~~~~~~~~~~~~vi~iSa~~g~gi~~L~~ 179 (192)
T cd01889 120 CKKLIVVLNKIDLIPEEERER--------------------KIEKMKKKLQKTLEKTRFKNSPIIPVSAKPGGGEAELGK 179 (192)
T ss_pred CCCEEEEEECcccCCHHHHHH--------------------HHHHHHHHHHHHHHhcCcCCCCEEEEeccCCCCHHHHHH
Confidence 678999999999985432110 11233333333332 12457889999999999999988
Q ss_pred Hhhh
Q psy5059 457 LAKE 460 (1036)
Q Consensus 457 la~~ 460 (1036)
....
T Consensus 180 ~l~~ 183 (192)
T cd01889 180 DLNN 183 (192)
T ss_pred HHHh
Confidence 7643
No 76
>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=98.57 E-value=1.2e-06 Score=88.25 Aligned_cols=23 Identities=39% Similarity=0.673 Sum_probs=21.2
Q ss_pred ceEEeCcCCCChhhHHhhhcCCC
Q psy5059 85 QIVVVGTQSSGKSSVIESLVGKS 107 (1036)
Q Consensus 85 qIvVvG~QSsGKSSlLEal~G~~ 107 (1036)
+|+++|++++||||++.++++..
T Consensus 1 ~i~~vG~~~~GKTsl~~~l~~~~ 23 (162)
T cd04157 1 NILVVGLDNSGKTTIINQLKPEN 23 (162)
T ss_pred CEEEECCCCCCHHHHHHHHcccC
Confidence 68999999999999999998865
No 77
>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=98.56 E-value=1.1e-06 Score=87.39 Aligned_cols=24 Identities=38% Similarity=0.728 Sum_probs=22.0
Q ss_pred ceEEeCcCCCChhhHHhhhcCCCc
Q psy5059 85 QIVVVGTQSSGKSSVIESLVGKSF 108 (1036)
Q Consensus 85 qIvVvG~QSsGKSSlLEal~G~~f 108 (1036)
+|+++|+.++||||++++|.|..+
T Consensus 3 ~i~l~G~~~~GKstli~~l~~~~~ 26 (157)
T cd04164 3 KVVIVGKPNVGKSSLLNALAGRDR 26 (157)
T ss_pred EEEEECCCCCCHHHHHHHHHCCce
Confidence 689999999999999999998763
No 78
>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=98.55 E-value=9.8e-07 Score=88.83 Aligned_cols=24 Identities=38% Similarity=0.681 Sum_probs=22.2
Q ss_pred ceEEeCcCCCChhhHHhhhcCCCc
Q psy5059 85 QIVVVGTQSSGKSSVIESLVGKSF 108 (1036)
Q Consensus 85 qIvVvG~QSsGKSSlLEal~G~~f 108 (1036)
+|+++|+++|||||+++++.|..|
T Consensus 2 ki~liG~~~~GKSsli~~l~~~~~ 25 (161)
T cd01861 2 KLVFLGDQSVGKTSIITRFMYDTF 25 (161)
T ss_pred EEEEECCCCCCHHHHHHHHHcCCC
Confidence 589999999999999999998875
No 79
>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=98.54 E-value=5.5e-07 Score=106.63 Aligned_cols=26 Identities=27% Similarity=0.500 Sum_probs=23.7
Q ss_pred CCCceEEeCcCCCChhhHHhhhcCCC
Q psy5059 82 QLPQIVVVGTQSSGKSSVIESLVGKS 107 (1036)
Q Consensus 82 ~lPqIvVvG~QSsGKSSlLEal~G~~ 107 (1036)
+-++|+++|.+++|||||+++|+|.+
T Consensus 202 ~g~kVvIvG~~nvGKSSLiN~L~~~~ 227 (442)
T TIGR00450 202 DGFKLAIVGSPNVGKSSLLNALLKQD 227 (442)
T ss_pred cCCEEEEECCCCCcHHHHHHHHhCCC
Confidence 45799999999999999999999875
No 80
>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=98.54 E-value=1.3e-06 Score=88.22 Aligned_cols=23 Identities=22% Similarity=0.485 Sum_probs=20.4
Q ss_pred ceEEeCcCCCChhhHHhhhcCCC
Q psy5059 85 QIVVVGTQSSGKSSVIESLVGKS 107 (1036)
Q Consensus 85 qIvVvG~QSsGKSSlLEal~G~~ 107 (1036)
+|+++|++++||||+++++.+..
T Consensus 1 kv~lvG~~~~GKTsl~~~l~~~~ 23 (158)
T cd04151 1 RILILGLDNAGKTTILYRLQLGE 23 (158)
T ss_pred CEEEECCCCCCHHHHHHHHccCC
Confidence 58999999999999999996554
No 81
>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=98.54 E-value=8.8e-07 Score=89.30 Aligned_cols=24 Identities=25% Similarity=0.558 Sum_probs=22.5
Q ss_pred ceEEeCcCCCChhhHHhhhcCCCc
Q psy5059 85 QIVVVGTQSSGKSSVIESLVGKSF 108 (1036)
Q Consensus 85 qIvVvG~QSsGKSSlLEal~G~~f 108 (1036)
+|+++|++++||||+++++.+..|
T Consensus 2 ki~~vG~~~vGKTsli~~l~~~~~ 25 (168)
T cd04119 2 KVISMGNSGVGKSCIIKRYCEGRF 25 (168)
T ss_pred EEEEECCCCCCHHHHHHHHHhCCC
Confidence 689999999999999999998875
No 82
>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=98.54 E-value=3.9e-07 Score=91.90 Aligned_cols=24 Identities=33% Similarity=0.549 Sum_probs=21.9
Q ss_pred ceEEeCcCCCChhhHHhhhcCCCc
Q psy5059 85 QIVVVGTQSSGKSSVIESLVGKSF 108 (1036)
Q Consensus 85 qIvVvG~QSsGKSSlLEal~G~~f 108 (1036)
+|+++|+.++||||+++++.+..|
T Consensus 4 ki~i~G~~~~GKtsl~~~~~~~~~ 27 (164)
T cd04145 4 KLVVVGGGGVGKSALTIQFIQSYF 27 (164)
T ss_pred EEEEECCCCCcHHHHHHHHHhCCC
Confidence 799999999999999999988764
No 83
>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=98.53 E-value=1.6e-06 Score=88.23 Aligned_cols=59 Identities=12% Similarity=0.152 Sum_probs=39.1
Q ss_pred cccCCceEEEEecccccCCCchhhhhhcCcccccccccccccchHHHHHHHHHHhhccCCCcceeeeecccchhhhHHHH
Q psy5059 376 DVDGRRTLAVVTKIDLMDAGTDAIDILCGRVIPVKLDVDGRRTYIEAQIKQLVLHYISNPNSIILAVVTANTDMATSESL 455 (1036)
Q Consensus 376 d~~g~rti~VitK~Dl~~~g~~~~~~l~~~~~~~~~~~~~~~~~~~~~l~~~v~~~i~~~~~ipla~ISA~td~~~qeil 455 (1036)
.+.+.+.+.|+||.|+.++..... +. +...+......++..+||+++.++.+++
T Consensus 106 ~~~~~p~ilv~nK~Dl~~~~~~~~----------------------~~----~~~~~~~~~~~~~~~~Sa~~~~gv~~l~ 159 (172)
T cd01862 106 DPENFPFVVLGNKIDLEEKRQVST----------------------KK----AQQWCQSNGNIPYFETSAKEAINVEQAF 159 (172)
T ss_pred CCCCceEEEEEECcccccccccCH----------------------HH----HHHHHHHcCCceEEEEECCCCCCHHHHH
Confidence 355788999999999985321110 11 2223333334677889999999999998
Q ss_pred HHhhh
Q psy5059 456 KLAKE 460 (1036)
Q Consensus 456 ~la~~ 460 (1036)
..+.+
T Consensus 160 ~~i~~ 164 (172)
T cd01862 160 ETIAR 164 (172)
T ss_pred HHHHH
Confidence 77543
No 84
>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=98.52 E-value=1.6e-06 Score=88.16 Aligned_cols=26 Identities=27% Similarity=0.614 Sum_probs=22.6
Q ss_pred CCceEEeCcCCCChhhHHhhhcCCCc
Q psy5059 83 LPQIVVVGTQSSGKSSVIESLVGKSF 108 (1036)
Q Consensus 83 lPqIvVvG~QSsGKSSlLEal~G~~f 108 (1036)
..+|+|+|++++||||+++++.+-.|
T Consensus 3 ~~kv~vvG~~~~GKTsli~~l~~~~~ 28 (165)
T cd01864 3 LFKIILIGDSNVGKTCVVQRFKSGTF 28 (165)
T ss_pred eeEEEEECCCCCCHHHHHHHHhhCCC
Confidence 36899999999999999999976654
No 85
>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=98.52 E-value=1.2e-06 Score=89.52 Aligned_cols=26 Identities=27% Similarity=0.526 Sum_probs=23.8
Q ss_pred CCceEEeCcCCCChhhHHhhhcCCCc
Q psy5059 83 LPQIVVVGTQSSGKSSVIESLVGKSF 108 (1036)
Q Consensus 83 lPqIvVvG~QSsGKSSlLEal~G~~f 108 (1036)
..+|+++|++++||||+++++++.+|
T Consensus 3 ~~ki~vvG~~~~GKSsl~~~~~~~~f 28 (167)
T cd01867 3 LFKLLLIGDSGVGKSCLLLRFSEDSF 28 (167)
T ss_pred ceEEEEECCCCCCHHHHHHHHhhCcC
Confidence 46899999999999999999998876
No 86
>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=98.51 E-value=9.6e-07 Score=93.61 Aligned_cols=24 Identities=21% Similarity=0.674 Sum_probs=22.2
Q ss_pred ceEEeCcCCCChhhHHhhhcCCCc
Q psy5059 85 QIVVVGTQSSGKSSVIESLVGKSF 108 (1036)
Q Consensus 85 qIvVvG~QSsGKSSlLEal~G~~f 108 (1036)
+|+|+|++++||||+++++++..|
T Consensus 2 kI~ivG~~~vGKTsLi~~~~~~~f 25 (198)
T cd04142 2 RVAVLGAPGVGKTAIVRQFLAQEF 25 (198)
T ss_pred EEEEECCCCCcHHHHHHHHHcCCC
Confidence 589999999999999999998775
No 87
>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=98.51 E-value=7.3e-07 Score=90.65 Aligned_cols=26 Identities=27% Similarity=0.534 Sum_probs=23.4
Q ss_pred CCceEEeCcCCCChhhHHhhhcCCCc
Q psy5059 83 LPQIVVVGTQSSGKSSVIESLVGKSF 108 (1036)
Q Consensus 83 lPqIvVvG~QSsGKSSlLEal~G~~f 108 (1036)
+++|+++|.+++||||+++++++..+
T Consensus 7 ~~~v~v~G~~~~GKSsli~~l~~~~~ 32 (169)
T cd04114 7 LFKIVLIGNAGVGKTCLVRRFTQGLF 32 (169)
T ss_pred eeEEEEECCCCCCHHHHHHHHHhCCC
Confidence 58999999999999999999986654
No 88
>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=98.50 E-value=4e-07 Score=96.29 Aligned_cols=25 Identities=40% Similarity=0.555 Sum_probs=22.7
Q ss_pred CceEEeCcCCCChhhHHhhhcCCCc
Q psy5059 84 PQIVVVGTQSSGKSSVIESLVGKSF 108 (1036)
Q Consensus 84 PqIvVvG~QSsGKSSlLEal~G~~f 108 (1036)
.+|+++|+.++||||++++|.|..+
T Consensus 2 ~kI~i~G~~g~GKSSLin~L~g~~~ 26 (197)
T cd04104 2 LNIAVTGESGAGKSSFINALRGVGH 26 (197)
T ss_pred eEEEEECCCCCCHHHHHHHHhccCC
Confidence 4799999999999999999999763
No 89
>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=98.49 E-value=1e-06 Score=88.35 Aligned_cols=25 Identities=36% Similarity=0.567 Sum_probs=22.7
Q ss_pred CceEEeCcCCCChhhHHhhhcCCCc
Q psy5059 84 PQIVVVGTQSSGKSSVIESLVGKSF 108 (1036)
Q Consensus 84 PqIvVvG~QSsGKSSlLEal~G~~f 108 (1036)
.+|+++|++++||||+++++++..|
T Consensus 2 ~ki~iiG~~~vGKTsl~~~~~~~~~ 26 (162)
T cd04138 2 YKLVVVGAGGVGKSALTIQLIQNHF 26 (162)
T ss_pred eEEEEECCCCCCHHHHHHHHHhCCC
Confidence 4799999999999999999998775
No 90
>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=98.49 E-value=9.2e-07 Score=92.97 Aligned_cols=21 Identities=19% Similarity=0.575 Sum_probs=19.9
Q ss_pred ceEEeCcCCCChhhHHhhhcC
Q psy5059 85 QIVVVGTQSSGKSSVIESLVG 105 (1036)
Q Consensus 85 qIvVvG~QSsGKSSlLEal~G 105 (1036)
.|+++|+.++|||||++++.+
T Consensus 4 ~i~ivG~~~~GKTsL~~~l~~ 24 (194)
T cd01891 4 NIAIIAHVDHGKTTLVDALLK 24 (194)
T ss_pred EEEEEecCCCCHHHHHHHHHH
Confidence 689999999999999999986
No 91
>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=98.49 E-value=5.6e-07 Score=90.11 Aligned_cols=54 Identities=20% Similarity=0.239 Sum_probs=37.7
Q ss_pred CCceEEEEecccccCCCchhhhhhcCcccccccccccccchHHHHHHHHHHhhccCCCcceeeeecccchhhhHHHHHHh
Q psy5059 379 GRRTLAVVTKIDLMDAGTDAIDILCGRVIPVKLDVDGRRTYIEAQIKQLVLHYISNPNSIILAVVTANTDMATSESLKLA 458 (1036)
Q Consensus 379 g~rti~VitK~Dl~~~g~~~~~~l~~~~~~~~~~~~~~~~~~~~~l~~~v~~~i~~~~~ipla~ISA~td~~~qeil~la 458 (1036)
.+++||||||+|+.....+. +..+++++..-.-.+..||+.++..+.++.++.
T Consensus 89 ~~pvIGVITK~Dl~~~~~~i---------------------------~~a~~~L~~aG~~~if~vS~~~~eGi~eL~~~L 141 (143)
T PF10662_consen 89 NKPVIGVITKIDLPSDDANI---------------------------ERAKKWLKNAGVKEIFEVSAVTGEGIEELKDYL 141 (143)
T ss_pred CCCEEEEEECccCccchhhH---------------------------HHHHHHHHHcCCCCeEEEECCCCcCHHHHHHHH
Confidence 37899999999999433221 123344444444456889999999999998875
Q ss_pred h
Q psy5059 459 K 459 (1036)
Q Consensus 459 ~ 459 (1036)
+
T Consensus 142 ~ 142 (143)
T PF10662_consen 142 E 142 (143)
T ss_pred h
Confidence 4
No 92
>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=98.49 E-value=1.3e-06 Score=89.15 Aligned_cols=26 Identities=31% Similarity=0.608 Sum_probs=23.2
Q ss_pred CCceEEeCcCCCChhhHHhhhcCCCc
Q psy5059 83 LPQIVVVGTQSSGKSSVIESLVGKSF 108 (1036)
Q Consensus 83 lPqIvVvG~QSsGKSSlLEal~G~~f 108 (1036)
.-+|+|+|++++||||++.++.+..|
T Consensus 5 ~~ki~vvG~~~~GKTsli~~~~~~~~ 30 (170)
T cd04116 5 LLKVILLGDGGVGKSSLMNRYVTNKF 30 (170)
T ss_pred EEEEEEECCCCCCHHHHHHHHHcCCC
Confidence 45899999999999999999987765
No 93
>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=98.48 E-value=1e-06 Score=88.80 Aligned_cols=25 Identities=32% Similarity=0.503 Sum_probs=22.3
Q ss_pred CceEEeCcCCCChhhHHhhhcCCCc
Q psy5059 84 PQIVVVGTQSSGKSSVIESLVGKSF 108 (1036)
Q Consensus 84 PqIvVvG~QSsGKSSlLEal~G~~f 108 (1036)
.+|+++|++++||||+++++++-.|
T Consensus 2 ~ki~i~G~~~vGKTsl~~~~~~~~~ 26 (163)
T cd04136 2 YKVVVLGSGGVGKSALTVQFVQGIF 26 (163)
T ss_pred eEEEEECCCCCCHHHHHHHHHhCCC
Confidence 4799999999999999999987664
No 94
>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=98.47 E-value=6.8e-07 Score=93.73 Aligned_cols=24 Identities=17% Similarity=0.519 Sum_probs=21.9
Q ss_pred ceEEeCcCCCChhhHHhhhcCCCc
Q psy5059 85 QIVVVGTQSSGKSSVIESLVGKSF 108 (1036)
Q Consensus 85 qIvVvG~QSsGKSSlLEal~G~~f 108 (1036)
+|+++|+++|||||++..+.+..|
T Consensus 2 Ki~vvG~~~vGKTSli~~~~~~~~ 25 (191)
T cd04112 2 KVMLLGDSGVGKTCLLVRFKDGAF 25 (191)
T ss_pred EEEEECCCCCCHHHHHHHHhcCCC
Confidence 589999999999999999987765
No 95
>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=98.47 E-value=7.3e-07 Score=97.90 Aligned_cols=42 Identities=29% Similarity=0.313 Sum_probs=31.4
Q ss_pred hhhHHHHHHHHHhhhhcCCCCCCCCceEEeCcCCCChhhHHhhhcCCCc
Q psy5059 60 RTAAAVINKLQDVFNTVGTDAIQLPQIVVVGTQSSGKSSVIESLVGKSF 108 (1036)
Q Consensus 60 ~~~~~l~~kL~~~~~~~g~~~i~lPqIvVvG~QSsGKSSlLEal~G~~f 108 (1036)
..+.++..++++ ....-..|+|+|..++||||++|+|.|...
T Consensus 15 ~~~~~~~~~~~~-------~~~~~~~IllvG~tGvGKSSliNaLlg~~~ 56 (249)
T cd01853 15 TKALELEAKGKE-------ELDFSLTILVLGKTGVGKSSTINSIFGERK 56 (249)
T ss_pred HHHHHHHHHhhh-------hccCCeEEEEECCCCCcHHHHHHHHhCCCC
Confidence 344455555544 233567999999999999999999999873
No 96
>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=98.46 E-value=7.8e-07 Score=90.40 Aligned_cols=25 Identities=16% Similarity=0.486 Sum_probs=22.7
Q ss_pred CceEEeCcCCCChhhHHhhhcCCCc
Q psy5059 84 PQIVVVGTQSSGKSSVIESLVGKSF 108 (1036)
Q Consensus 84 PqIvVvG~QSsGKSSlLEal~G~~f 108 (1036)
.+|+++|++++||||+++++++..|
T Consensus 3 ~ki~i~G~~~vGKSsli~~~~~~~~ 27 (166)
T cd01869 3 FKLLLIGDSGVGKSCLLLRFADDTY 27 (166)
T ss_pred EEEEEECCCCCCHHHHHHHHhcCCC
Confidence 5799999999999999999988765
No 97
>CHL00071 tufA elongation factor Tu
Probab=98.45 E-value=6.4e-07 Score=105.35 Aligned_cols=59 Identities=14% Similarity=0.046 Sum_probs=39.3
Q ss_pred HHHhhhccccCCc-eEEEEecccccCCCchhhhhhcCcccccccccccccchHHHHHHHHHHhhccCCC----cceeeee
Q psy5059 369 LKLAKETDVDGRR-TLAVVTKIDLMDAGTDAIDILCGRVIPVKLDVDGRRTYIEAQIKQLVLHYISNPN----SIILAVV 443 (1036)
Q Consensus 369 ~~la~~~d~~g~r-ti~VitK~Dl~~~g~~~~~~l~~~~~~~~~~~~~~~~~~~~~l~~~v~~~i~~~~----~ipla~I 443 (1036)
..++..++..|.+ .|+|+||||+.+... . .+.+...+..+++... .+|++.+
T Consensus 117 ~~~~~~~~~~g~~~iIvvvNK~D~~~~~~-~----------------------~~~~~~~l~~~l~~~~~~~~~~~ii~~ 173 (409)
T CHL00071 117 KEHILLAKQVGVPNIVVFLNKEDQVDDEE-L----------------------LELVELEVRELLSKYDFPGDDIPIVSG 173 (409)
T ss_pred HHHHHHHHHcCCCEEEEEEEccCCCCHHH-H----------------------HHHHHHHHHHHHHHhCCCCCcceEEEc
Confidence 4456666677887 668999999986421 1 1334455556665544 3899999
Q ss_pred cccchhh
Q psy5059 444 TANTDMA 450 (1036)
Q Consensus 444 SA~td~~ 450 (1036)
||+++.+
T Consensus 174 Sa~~g~n 180 (409)
T CHL00071 174 SALLALE 180 (409)
T ss_pred chhhccc
Confidence 9988863
No 98
>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=98.45 E-value=1.4e-06 Score=93.34 Aligned_cols=24 Identities=33% Similarity=0.609 Sum_probs=22.0
Q ss_pred ceEEeCcCCCChhhHHhhhcCCCc
Q psy5059 85 QIVVVGTQSSGKSSVIESLVGKSF 108 (1036)
Q Consensus 85 qIvVvG~QSsGKSSlLEal~G~~f 108 (1036)
+|+++|+.++||||+++++++..|
T Consensus 2 Ki~ivG~~~vGKSsLi~~l~~~~~ 25 (215)
T cd04109 2 KIVVLGDGAVGKTSLCRRFAKEGF 25 (215)
T ss_pred EEEEECcCCCCHHHHHHHHhcCCC
Confidence 589999999999999999998765
No 99
>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=98.44 E-value=8.9e-07 Score=90.56 Aligned_cols=26 Identities=27% Similarity=0.545 Sum_probs=23.4
Q ss_pred CCceEEeCcCCCChhhHHhhhcCCCc
Q psy5059 83 LPQIVVVGTQSSGKSSVIESLVGKSF 108 (1036)
Q Consensus 83 lPqIvVvG~QSsGKSSlLEal~G~~f 108 (1036)
.-+|+|+|++++||||+++++.+..|
T Consensus 4 ~~ki~vvG~~~vGKSsLl~~l~~~~~ 29 (168)
T cd01866 4 LFKYIIIGDTGVGKSCLLLQFTDKRF 29 (168)
T ss_pred ceEEEEECCCCCCHHHHHHHHHcCCC
Confidence 35899999999999999999998775
No 100
>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=98.44 E-value=1.6e-06 Score=94.52 Aligned_cols=93 Identities=15% Similarity=0.052 Sum_probs=64.9
Q ss_pred HhhhccccCCceEEEEecccccCCCchh-----hhhhcCcccccccccccc-----c---c-------------------
Q psy5059 371 LAKETDVDGRRTLAVVTKIDLMDAGTDA-----IDILCGRVIPVKLDVDGR-----R---T------------------- 418 (1036)
Q Consensus 371 la~~~d~~g~rti~VitK~Dl~~~g~~~-----~~~l~~~~~~~~~~~~~~-----~---~------------------- 418 (1036)
+.+.++..|.+.|+|+||+|+.....+. .+.|..+++|+.+++.+- . .
T Consensus 108 ~~~~~~~~~~P~iivvNK~D~~~a~~~~~~~~i~~~~~~~~~~~~~p~~~~~~~~~~~~~~~l~e~vae~dd~l~e~yl~ 187 (237)
T cd04168 108 LWRLLRKLNIPTIIFVNKIDRAGADLEKVYQEIKEKLSSDIVPMQKVGLAPNICETNEIDDEFWETLAEGDDELLEKYLE 187 (237)
T ss_pred HHHHHHHcCCCEEEEEECccccCCCHHHHHHHHHHHHCCCeEEEECCcEeeeeeeeeeccHHHHHHHhcCCHHHHHHHhC
Confidence 4445555688999999999998654332 256677888988764321 0 0
Q ss_pred ---hHHHHHHHHHHhhccCCCcceeeeecccchhhhHHHHHHhhhcCc
Q psy5059 419 ---YIEAQIKQLVLHYISNPNSIILAVVTANTDMATSESLKLAKETDV 463 (1036)
Q Consensus 419 ---~~~~~l~~~v~~~i~~~~~ipla~ISA~td~~~qeil~la~~vd~ 463 (1036)
...+++.+-++.-+..-..+|+.+.||.++..++++++.....-|
T Consensus 188 ~~~~~~~el~~~l~~~~~~~~~~Pv~~gsa~~~~Gv~~ll~~~~~~~p 235 (237)
T cd04168 188 GGPIEELELDNELSARIAKRKVFPVYHGSALKGIGIEELLEGITKLFP 235 (237)
T ss_pred CCCCCHHHHHHHHHHHHHhCCeEEEEEccccCCcCHHHHHHHHHHhcC
Confidence 122344455666666778899999999999999999988766543
No 101
>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=98.44 E-value=2.1e-06 Score=86.44 Aligned_cols=24 Identities=29% Similarity=0.541 Sum_probs=22.0
Q ss_pred ceEEeCcCCCChhhHHhhhcCCCc
Q psy5059 85 QIVVVGTQSSGKSSVIESLVGKSF 108 (1036)
Q Consensus 85 qIvVvG~QSsGKSSlLEal~G~~f 108 (1036)
+|+++|.+++||||+++++++..|
T Consensus 1 ~i~i~G~~~~GKTsl~~~~~~~~~ 24 (160)
T cd04156 1 QVLLLGLDSAGKSTLLYKLKHAEL 24 (160)
T ss_pred CEEEEcCCCCCHHHHHHHHhcCCc
Confidence 589999999999999999998774
No 102
>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=98.44 E-value=1.7e-06 Score=87.50 Aligned_cols=24 Identities=33% Similarity=0.574 Sum_probs=22.2
Q ss_pred ceEEeCcCCCChhhHHhhhcCCCc
Q psy5059 85 QIVVVGTQSSGKSSVIESLVGKSF 108 (1036)
Q Consensus 85 qIvVvG~QSsGKSSlLEal~G~~f 108 (1036)
+|+|+|+.+|||||+++++.+..|
T Consensus 2 ki~v~G~~~~GKTsli~~~~~~~~ 25 (164)
T smart00173 2 KLVVLGSGGVGKSALTIQFVQGHF 25 (164)
T ss_pred EEEEECCCCCCHHHHHHHHHhCcC
Confidence 689999999999999999998775
No 103
>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=98.44 E-value=3e-06 Score=88.28 Aligned_cols=27 Identities=19% Similarity=0.464 Sum_probs=24.0
Q ss_pred CCCceEEeCcCCCChhhHHhhhcCCCc
Q psy5059 82 QLPQIVVVGTQSSGKSSVIESLVGKSF 108 (1036)
Q Consensus 82 ~lPqIvVvG~QSsGKSSlLEal~G~~f 108 (1036)
.-++|+++|.++|||||++++++|..+
T Consensus 18 ~~~ki~ilG~~~~GKStLi~~l~~~~~ 44 (190)
T cd00879 18 KEAKILFLGLDNAGKTTLLHMLKDDRL 44 (190)
T ss_pred CCCEEEEECCCCCCHHHHHHHHhcCCC
Confidence 468999999999999999999987663
No 104
>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=98.43 E-value=3e-06 Score=86.34 Aligned_cols=24 Identities=25% Similarity=0.610 Sum_probs=22.4
Q ss_pred ceEEeCcCCCChhhHHhhhcCCCc
Q psy5059 85 QIVVVGTQSSGKSSVIESLVGKSF 108 (1036)
Q Consensus 85 qIvVvG~QSsGKSSlLEal~G~~f 108 (1036)
+|+++|+.++||||+++++.+..|
T Consensus 4 ki~iiG~~~vGKTsli~~~~~~~~ 27 (166)
T cd04122 4 KYIIIGDMGVGKSCLLHQFTEKKF 27 (166)
T ss_pred EEEEECCCCCCHHHHHHHHhcCCC
Confidence 689999999999999999998776
No 105
>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=98.42 E-value=3.3e-06 Score=85.12 Aligned_cols=24 Identities=29% Similarity=0.630 Sum_probs=22.1
Q ss_pred ceEEeCcCCCChhhHHhhhcCCCc
Q psy5059 85 QIVVVGTQSSGKSSVIESLVGKSF 108 (1036)
Q Consensus 85 qIvVvG~QSsGKSSlLEal~G~~f 108 (1036)
+|+|+|++++||||+++++.+..|
T Consensus 2 ki~v~G~~~~GKSsli~~l~~~~~ 25 (161)
T cd01863 2 KILLIGDSGVGKSSLLLRFTDDTF 25 (161)
T ss_pred EEEEECCCCCCHHHHHHHHHcCCC
Confidence 589999999999999999998775
No 106
>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=98.41 E-value=3.6e-06 Score=86.59 Aligned_cols=26 Identities=19% Similarity=0.312 Sum_probs=22.6
Q ss_pred CCceEEeCcCCCChhhHHhhhcCCCc
Q psy5059 83 LPQIVVVGTQSSGKSSVIESLVGKSF 108 (1036)
Q Consensus 83 lPqIvVvG~QSsGKSSlLEal~G~~f 108 (1036)
..+|+++|.+++||||++.++++..|
T Consensus 9 ~~kv~i~G~~~~GKTsli~~l~~~~~ 34 (168)
T cd04149 9 EMRILMLGLDAAGKTTILYKLKLGQS 34 (168)
T ss_pred ccEEEEECcCCCCHHHHHHHHccCCC
Confidence 46899999999999999999976553
No 107
>PRK09554 feoB ferrous iron transport protein B; Reviewed
Probab=98.41 E-value=1.4e-06 Score=109.26 Aligned_cols=65 Identities=6% Similarity=-0.002 Sum_probs=44.0
Q ss_pred HHhhhccccCCceEEEEecccccCCCchhhhhhcCcccccccccccccchHHHHHHHHHHhhccCCCcceeeeecccchh
Q psy5059 370 KLAKETDVDGRRTLAVVTKIDLMDAGTDAIDILCGRVIPVKLDVDGRRTYIEAQIKQLVLHYISNPNSIILAVVTANTDM 449 (1036)
Q Consensus 370 ~la~~~d~~g~rti~VitK~Dl~~~g~~~~~~l~~~~~~~~~~~~~~~~~~~~~l~~~v~~~i~~~~~ipla~ISA~td~ 449 (1036)
.+..++...|.++|.|+||+|+.++.... ..+ +.+.+.+ -.|.+.+||.++.
T Consensus 103 ~l~~ql~e~giPvIvVlNK~Dl~~~~~i~-----------------------id~-~~L~~~L----G~pVvpiSA~~g~ 154 (772)
T PRK09554 103 YLTLQLLELGIPCIVALNMLDIAEKQNIR-----------------------IDI-DALSARL----GCPVIPLVSTRGR 154 (772)
T ss_pred HHHHHHHHcCCCEEEEEEchhhhhccCcH-----------------------HHH-HHHHHHh----CCCEEEEEeecCC
Confidence 35556667799999999999987532111 111 1222222 3578889999999
Q ss_pred hhHHHHHHhhhcC
Q psy5059 450 ATSESLKLAKETD 462 (1036)
Q Consensus 450 ~~qeil~la~~vd 462 (1036)
+..++.+.+.+..
T Consensus 155 GIdeL~~~I~~~~ 167 (772)
T PRK09554 155 GIEALKLAIDRHQ 167 (772)
T ss_pred CHHHHHHHHHHhh
Confidence 9999988877664
No 108
>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=98.41 E-value=3.8e-06 Score=84.76 Aligned_cols=24 Identities=25% Similarity=0.714 Sum_probs=22.1
Q ss_pred ceEEeCcCCCChhhHHhhhcCCCc
Q psy5059 85 QIVVVGTQSSGKSSVIESLVGKSF 108 (1036)
Q Consensus 85 qIvVvG~QSsGKSSlLEal~G~~f 108 (1036)
+|+|+|+.++||||+++++.+..|
T Consensus 2 ki~v~G~~~vGKTsli~~l~~~~~ 25 (161)
T cd04113 2 KFIIIGSSGTGKSCLLHRFVENKF 25 (161)
T ss_pred EEEEECCCCCCHHHHHHHHHhCCC
Confidence 589999999999999999998775
No 109
>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=98.41 E-value=1.3e-06 Score=89.14 Aligned_cols=54 Identities=19% Similarity=0.210 Sum_probs=35.6
Q ss_pred cCCceEEEEecccccCCCchhhhhhcCcccccccccccccchHHHHHHHHHHhhccCCCcceeeeecccchhhhHHHHHH
Q psy5059 378 DGRRTLAVVTKIDLMDAGTDAIDILCGRVIPVKLDVDGRRTYIEAQIKQLVLHYISNPNSIILAVVTANTDMATSESLKL 457 (1036)
Q Consensus 378 ~g~rti~VitK~Dl~~~g~~~~~~l~~~~~~~~~~~~~~~~~~~~~l~~~v~~~i~~~~~ipla~ISA~td~~~qeil~l 457 (1036)
.+.+.+.|+||+|+.+...... .......+....+...+||+++....++++.
T Consensus 119 ~~~p~ivv~NK~Dl~~~~~~~~---------------------------~~~~~~~~~~~~~~~~~Sa~~~~gl~~l~~~ 171 (176)
T cd01881 119 TAKPVIYVLNKIDLDDAEELEE---------------------------ELVRELALEEGAEVVPISAKTEEGLDELIRA 171 (176)
T ss_pred hhCCeEEEEEchhcCchhHHHH---------------------------HHHHHHhcCCCCCEEEEehhhhcCHHHHHHH
Confidence 3689999999999976532211 0011122223456778899999999998875
Q ss_pred h
Q psy5059 458 A 458 (1036)
Q Consensus 458 a 458 (1036)
.
T Consensus 172 l 172 (176)
T cd01881 172 I 172 (176)
T ss_pred H
Confidence 4
No 110
>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=98.40 E-value=4.3e-06 Score=85.19 Aligned_cols=24 Identities=29% Similarity=0.598 Sum_probs=22.4
Q ss_pred ceEEeCcCCCChhhHHhhhcCCCc
Q psy5059 85 QIVVVGTQSSGKSSVIESLVGKSF 108 (1036)
Q Consensus 85 qIvVvG~QSsGKSSlLEal~G~~f 108 (1036)
+|+++|++++||||+++++++..|
T Consensus 3 ki~i~G~~~~GKSsli~~l~~~~~ 26 (165)
T cd01865 3 KLLIIGNSSVGKTSFLFRYADDSF 26 (165)
T ss_pred EEEEECCCCCCHHHHHHHHhcCCC
Confidence 699999999999999999998775
No 111
>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=98.39 E-value=4.3e-06 Score=85.46 Aligned_cols=26 Identities=23% Similarity=0.673 Sum_probs=23.5
Q ss_pred CCceEEeCcCCCChhhHHhhhcCCCc
Q psy5059 83 LPQIVVVGTQSSGKSSVIESLVGKSF 108 (1036)
Q Consensus 83 lPqIvVvG~QSsGKSSlLEal~G~~f 108 (1036)
-.+|+++|.++|||||++++|.|..+
T Consensus 14 ~~~v~i~G~~g~GKStLl~~l~~~~~ 39 (173)
T cd04155 14 EPRILILGLDNAGKTTILKQLASEDI 39 (173)
T ss_pred ccEEEEEccCCCCHHHHHHHHhcCCC
Confidence 57899999999999999999998753
No 112
>PRK12317 elongation factor 1-alpha; Reviewed
Probab=98.39 E-value=2.8e-06 Score=100.49 Aligned_cols=24 Identities=25% Similarity=0.484 Sum_probs=21.4
Q ss_pred CceEEeCcCCCChhhHHhhhcCCC
Q psy5059 84 PQIVVVGTQSSGKSSVIESLVGKS 107 (1036)
Q Consensus 84 PqIvVvG~QSsGKSSlLEal~G~~ 107 (1036)
-.|+++|..++|||||+++|++..
T Consensus 7 ~~v~iiGh~d~GKSTL~~~Ll~~~ 30 (425)
T PRK12317 7 LNLAVIGHVDHGKSTLVGRLLYET 30 (425)
T ss_pred EEEEEECCCCCChHHHHHHHHHHc
Confidence 468999999999999999998654
No 113
>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=98.39 E-value=4.4e-06 Score=83.52 Aligned_cols=24 Identities=33% Similarity=0.606 Sum_probs=21.7
Q ss_pred ceEEeCcCCCChhhHHhhhcCCCc
Q psy5059 85 QIVVVGTQSSGKSSVIESLVGKSF 108 (1036)
Q Consensus 85 qIvVvG~QSsGKSSlLEal~G~~f 108 (1036)
+|+++|+++|||||+++++.+..|
T Consensus 1 ki~i~G~~~~GKTsli~~l~~~~~ 24 (160)
T cd00876 1 KVVVLGAGGVGKSAITIQFVKGTF 24 (160)
T ss_pred CEEEECCCCCCHHHHHHHHHhCCC
Confidence 589999999999999999987764
No 114
>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=98.38 E-value=3e-06 Score=86.52 Aligned_cols=24 Identities=50% Similarity=0.804 Sum_probs=21.9
Q ss_pred ceEEeCcCCCChhhHHhhhcCCCc
Q psy5059 85 QIVVVGTQSSGKSSVIESLVGKSF 108 (1036)
Q Consensus 85 qIvVvG~QSsGKSSlLEal~G~~f 108 (1036)
+|+++|+.++||||+++++.+-.|
T Consensus 2 kv~ivG~~~vGKTsl~~~l~~~~~ 25 (166)
T cd01893 2 RIVLIGDEGVGKSSLIMSLVSEEF 25 (166)
T ss_pred EEEEECCCCCCHHHHHHHHHhCcC
Confidence 689999999999999999988765
No 115
>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=98.38 E-value=1.2e-05 Score=91.45 Aligned_cols=37 Identities=22% Similarity=0.238 Sum_probs=28.4
Q ss_pred eEEeCcCCCChhhHHhhhcCCCcCcccccccccCceE
Q psy5059 86 IVVVGTQSSGKSSVIESLVGKSFLPRGIGIVTRRPLI 122 (1036)
Q Consensus 86 IvVvG~QSsGKSSlLEal~G~~flPrg~G~cTR~Pl~ 122 (1036)
|++||.+|+||||++++|++..+-+..---||+-|..
T Consensus 1 i~ivG~pnvGKStLfn~lt~~~~~~~~~pftT~~p~~ 37 (318)
T cd01899 1 IGLVGKPNAGKSTFFNAATLADVEIANYPFTTIDPNV 37 (318)
T ss_pred CEEECCCCCCHHHHHHHHhCCCCcccCCCCcccccee
Confidence 5799999999999999999988533232347777764
No 116
>PRK10512 selenocysteinyl-tRNA-specific translation factor; Provisional
Probab=98.36 E-value=2.3e-06 Score=105.25 Aligned_cols=59 Identities=19% Similarity=0.168 Sum_probs=40.0
Q ss_pred CCc-eEEEEecccccCCCchhhhhhcCcccccccccccccchHHHHHHHHHHhhccCC--CcceeeeecccchhhhHHHH
Q psy5059 379 GRR-TLAVVTKIDLMDAGTDAIDILCGRVIPVKLDVDGRRTYIEAQIKQLVLHYISNP--NSIILAVVTANTDMATSESL 455 (1036)
Q Consensus 379 g~r-ti~VitK~Dl~~~g~~~~~~l~~~~~~~~~~~~~~~~~~~~~l~~~v~~~i~~~--~~ipla~ISA~td~~~qeil 455 (1036)
|.+ .|.|+||+|+.++.. . ..+...+...+... ...++..+||+++.+...++
T Consensus 103 gi~~iIVVlNKiDlv~~~~--~----------------------~~v~~ei~~~l~~~~~~~~~ii~VSA~tG~gI~~L~ 158 (614)
T PRK10512 103 GNPMLTVALTKADRVDEAR--I----------------------AEVRRQVKAVLREYGFAEAKLFVTAATEGRGIDALR 158 (614)
T ss_pred CCCeEEEEEECCccCCHHH--H----------------------HHHHHHHHHHHHhcCCCCCcEEEEeCCCCCCCHHHH
Confidence 444 579999999975421 1 22333444444332 34788899999999999999
Q ss_pred HHhhhc
Q psy5059 456 KLAKET 461 (1036)
Q Consensus 456 ~la~~v 461 (1036)
+...+.
T Consensus 159 ~~L~~~ 164 (614)
T PRK10512 159 EHLLQL 164 (614)
T ss_pred HHHHHh
Confidence 887665
No 117
>PRK12736 elongation factor Tu; Reviewed
Probab=98.36 E-value=3e-06 Score=99.30 Aligned_cols=24 Identities=17% Similarity=0.291 Sum_probs=21.1
Q ss_pred CceEEeCcCCCChhhHHhhhcCCC
Q psy5059 84 PQIVVVGTQSSGKSSVIESLVGKS 107 (1036)
Q Consensus 84 PqIvVvG~QSsGKSSlLEal~G~~ 107 (1036)
-.|+++|.-.+|||||+++|+|..
T Consensus 13 ~ni~i~Ghvd~GKSTL~~~L~~~~ 36 (394)
T PRK12736 13 VNIGTIGHVDHGKTTLTAAITKVL 36 (394)
T ss_pred eEEEEEccCCCcHHHHHHHHHhhh
Confidence 358999999999999999998653
No 118
>TIGR00991 3a0901s02IAP34 GTP-binding protein (Chloroplast Envelope Protein Translocase).
Probab=98.36 E-value=2.8e-06 Score=95.29 Aligned_cols=42 Identities=26% Similarity=0.529 Sum_probs=34.3
Q ss_pred hhhhHHHHHHHHHhhhhcCCCCCCCCceEEeCcCCCChhhHHhhhcCCC
Q psy5059 59 KRTAAAVINKLQDVFNTVGTDAIQLPQIVVVGTQSSGKSSVIESLVGKS 107 (1036)
Q Consensus 59 ~~~~~~l~~kL~~~~~~~g~~~i~lPqIvVvG~QSsGKSSlLEal~G~~ 107 (1036)
...+++++.+|.+ .+.+...|+++|..++||||++++|.|..
T Consensus 21 q~~l~~~l~~l~~-------~~~~~~rIllvGktGVGKSSliNsIlG~~ 62 (313)
T TIGR00991 21 QTKLLELLGKLKE-------EDVSSLTILVMGKGGVGKSSTVNSIIGER 62 (313)
T ss_pred HHHHHHHHHhccc-------ccccceEEEEECCCCCCHHHHHHHHhCCC
Confidence 3456666666665 45678899999999999999999999986
No 119
>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=98.36 E-value=5e-06 Score=83.58 Aligned_cols=24 Identities=29% Similarity=0.544 Sum_probs=22.0
Q ss_pred ceEEeCcCCCChhhHHhhhcCCCc
Q psy5059 85 QIVVVGTQSSGKSSVIESLVGKSF 108 (1036)
Q Consensus 85 qIvVvG~QSsGKSSlLEal~G~~f 108 (1036)
+|+++|..++||||++.++++..|
T Consensus 2 ki~~~G~~~~GKTsl~~~l~~~~~ 25 (164)
T cd04139 2 KVIVVGAGGVGKSALTLQFMYDEF 25 (164)
T ss_pred EEEEECCCCCCHHHHHHHHHhCCC
Confidence 589999999999999999998775
No 120
>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=98.36 E-value=1.8e-06 Score=105.69 Aligned_cols=22 Identities=27% Similarity=0.585 Sum_probs=20.4
Q ss_pred eEEeCcCCCChhhHHhhhcCCC
Q psy5059 86 IVVVGTQSSGKSSVIESLVGKS 107 (1036)
Q Consensus 86 IvVvG~QSsGKSSlLEal~G~~ 107 (1036)
|+++|..++|||||+++|+|..
T Consensus 3 I~iiG~~d~GKTTLi~aLtg~~ 24 (581)
T TIGR00475 3 IATAGHVDHGKTTLLKALTGIA 24 (581)
T ss_pred EEEECCCCCCHHHHHHHHhCcc
Confidence 7899999999999999999864
No 121
>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=98.35 E-value=1.9e-06 Score=87.44 Aligned_cols=24 Identities=29% Similarity=0.423 Sum_probs=20.9
Q ss_pred CceEEeCcCCCChhhHHhhhcCCC
Q psy5059 84 PQIVVVGTQSSGKSSVIESLVGKS 107 (1036)
Q Consensus 84 PqIvVvG~QSsGKSSlLEal~G~~ 107 (1036)
.+|+++|++++||||++.++..-.
T Consensus 2 ~ki~~~G~~~~GKTsli~~~~~~~ 25 (164)
T cd04175 2 YKLVVLGSGGVGKSALTVQFVQGI 25 (164)
T ss_pred cEEEEECCCCCCHHHHHHHHHhCC
Confidence 379999999999999999987544
No 122
>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=98.35 E-value=6.9e-06 Score=91.10 Aligned_cols=40 Identities=10% Similarity=-0.049 Sum_probs=32.1
Q ss_pred HHHHHHhhccCCCcceeeeecccchhhhHHHHHHhhhcCc
Q psy5059 424 IKQLVLHYISNPNSIILAVVTANTDMATSESLKLAKETDV 463 (1036)
Q Consensus 424 l~~~v~~~i~~~~~ipla~ISA~td~~~qeil~la~~vd~ 463 (1036)
+.+.++..+..-...|+.+.||+++..++.+++.....-|
T Consensus 227 l~~~l~~~~~~~~~~pv~~gSa~~~~G~~~ll~~~~~~~p 266 (268)
T cd04170 227 LHAGLRRALRAGLLVPVLCGSALTNIGVRELLDALVHLLP 266 (268)
T ss_pred HHHHHHHHHHhCCEEEEEEeeCCCCcCHHHHHHHHHHhCC
Confidence 3334666777888899999999999999999998776544
No 123
>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=98.34 E-value=5.1e-06 Score=83.70 Aligned_cols=24 Identities=42% Similarity=0.697 Sum_probs=22.1
Q ss_pred ceEEeCcCCCChhhHHhhhcCCCc
Q psy5059 85 QIVVVGTQSSGKSSVIESLVGKSF 108 (1036)
Q Consensus 85 qIvVvG~QSsGKSSlLEal~G~~f 108 (1036)
+|+++|++++||||+++++.+..|
T Consensus 2 kv~~vG~~~~GKTsl~~~~~~~~~ 25 (162)
T cd04106 2 KVIVVGNGNVGKSSMIQRFVKGIF 25 (162)
T ss_pred EEEEECCCCCCHHHHHHHHhcCCC
Confidence 589999999999999999998765
No 124
>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=98.34 E-value=8.2e-06 Score=85.19 Aligned_cols=26 Identities=19% Similarity=0.478 Sum_probs=23.5
Q ss_pred CCceEEeCcCCCChhhHHhhhcCCCc
Q psy5059 83 LPQIVVVGTQSSGKSSVIESLVGKSF 108 (1036)
Q Consensus 83 lPqIvVvG~QSsGKSSlLEal~G~~f 108 (1036)
-++|+++|.+++||||++++++|..|
T Consensus 17 ~~~i~ivG~~~~GKTsli~~l~~~~~ 42 (184)
T smart00178 17 HAKILFLGLDNAGKTTLLHMLKNDRL 42 (184)
T ss_pred cCEEEEECCCCCCHHHHHHHHhcCCC
Confidence 38999999999999999999998764
No 125
>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=98.33 E-value=4.5e-06 Score=102.04 Aligned_cols=27 Identities=22% Similarity=0.509 Sum_probs=24.2
Q ss_pred CCCceEEeCcCCCChhhHHhhhcCCCc
Q psy5059 82 QLPQIVVVGTQSSGKSSVIESLVGKSF 108 (1036)
Q Consensus 82 ~lPqIvVvG~QSsGKSSlLEal~G~~f 108 (1036)
..|.|+++|..++|||||+++|.+..|
T Consensus 86 r~p~V~I~Ghvd~GKTSLl~~l~~~~v 112 (587)
T TIGR00487 86 RPPVVTIMGHVDHGKTSLLDSIRKTKV 112 (587)
T ss_pred CCCEEEEECCCCCCHHHHHHHHHhCCc
Confidence 459999999999999999999987664
No 126
>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=98.33 E-value=3.5e-06 Score=85.23 Aligned_cols=21 Identities=24% Similarity=0.479 Sum_probs=19.6
Q ss_pred ceEEeCcCCCChhhHHhhhcC
Q psy5059 85 QIVVVGTQSSGKSSVIESLVG 105 (1036)
Q Consensus 85 qIvVvG~QSsGKSSlLEal~G 105 (1036)
+|+|+|+.+|||||++.++.+
T Consensus 2 ki~vvG~~~~GKtsl~~~l~~ 22 (164)
T cd04101 2 RCAVVGDPAVGKTAFVQMFHS 22 (164)
T ss_pred EEEEECCCCCCHHHHHHHHhc
Confidence 689999999999999999974
No 127
>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=98.33 E-value=8.1e-06 Score=84.22 Aligned_cols=26 Identities=15% Similarity=0.402 Sum_probs=22.8
Q ss_pred CCceEEeCcCCCChhhHHhhhcCCCc
Q psy5059 83 LPQIVVVGTQSSGKSSVIESLVGKSF 108 (1036)
Q Consensus 83 lPqIvVvG~QSsGKSSlLEal~G~~f 108 (1036)
-.+|+++|.+++||||+++++.+-.|
T Consensus 15 ~~kv~~~G~~~~GKTsl~~~l~~~~~ 40 (174)
T cd04153 15 EYKVIIVGLDNAGKTTILYQFLLGEV 40 (174)
T ss_pred ccEEEEECCCCCCHHHHHHHHccCCC
Confidence 35899999999999999999987654
No 128
>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=98.33 E-value=1.7e-06 Score=87.88 Aligned_cols=24 Identities=25% Similarity=0.636 Sum_probs=22.0
Q ss_pred ceEEeCcCCCChhhHHhhhcCCCc
Q psy5059 85 QIVVVGTQSSGKSSVIESLVGKSF 108 (1036)
Q Consensus 85 qIvVvG~QSsGKSSlLEal~G~~f 108 (1036)
+|+++|+.++||||+++++.+..|
T Consensus 2 ki~vvG~~~vGKTsli~~~~~~~~ 25 (161)
T cd04124 2 KIILLGDSAVGKSKLVERFLMDGY 25 (161)
T ss_pred EEEEECCCCCCHHHHHHHHHhCCC
Confidence 689999999999999999987765
No 129
>PLN03118 Rab family protein; Provisional
Probab=98.32 E-value=3.1e-06 Score=90.27 Aligned_cols=25 Identities=32% Similarity=0.555 Sum_probs=22.7
Q ss_pred CceEEeCcCCCChhhHHhhhcCCCc
Q psy5059 84 PQIVVVGTQSSGKSSVIESLVGKSF 108 (1036)
Q Consensus 84 PqIvVvG~QSsGKSSlLEal~G~~f 108 (1036)
.+|+++|+.++||||++.++.+..|
T Consensus 15 ~kv~ivG~~~vGKTsli~~l~~~~~ 39 (211)
T PLN03118 15 FKILLIGDSGVGKSSLLVSFISSSV 39 (211)
T ss_pred eEEEEECcCCCCHHHHHHHHHhCCC
Confidence 5899999999999999999987663
No 130
>KOG1423|consensus
Probab=98.32 E-value=7.1e-06 Score=90.01 Aligned_cols=145 Identities=14% Similarity=0.162 Sum_probs=84.2
Q ss_pred EeecCcccceeecCCCccccCCCCCchhHHHHHHHHHHHhhcCCCcEEEEEeccccccccchhhhhhhhcCCCCCcccce
Q psy5059 235 IYSTSVLNLTLVDLPGITKVPVGDQPDDIEAQIKQLVLHYISNPNSIILAVVTANTDMATSESLKLAKETDVDGRRTLDL 314 (1036)
Q Consensus 235 I~~P~~~~LtlVDLPGi~~~~~~~q~~di~~~ir~lv~~yI~~~n~IIL~V~~An~D~~~s~al~l~r~~Dp~g~RTigv 314 (1036)
|...+-..|.|+|+||++.....-+...+.+. ..=....+.+.+|++++++.+++.-.-+
T Consensus 114 i~ts~eTQlvf~DTPGlvs~~~~r~~~l~~s~-lq~~~~a~q~AD~vvVv~Das~tr~~l~------------------- 173 (379)
T KOG1423|consen 114 IITSGETQLVFYDTPGLVSKKMHRRHHLMMSV-LQNPRDAAQNADCVVVVVDASATRTPLH------------------- 173 (379)
T ss_pred EEecCceEEEEecCCcccccchhhhHHHHHHh-hhCHHHHHhhCCEEEEEEeccCCcCccC-------------------
Confidence 44446678999999999764443333233222 2234567888898888877665322221
Q ss_pred eccCCCCcccccCCCCCchHHHHHHHHHHhhhcCCCceEEEEEecCccccchHHHHHhhhccccCCceEEEEecccccCC
Q psy5059 315 LDIDLPGITKVPVGDQPDDIEAQIKQLVLHYISNPNSIILAVVTANTDMATSESLKLAKETDVDGRRTLAVVTKIDLMDA 394 (1036)
Q Consensus 315 l~~~~~g~~~~~~~~~~~~~~~~~~~~~~~y~~~~~~~~~~~v~~~~d~~~~~~~~la~~~d~~g~rti~VitK~Dl~~~ 394 (1036)
-++=.+.++|-+- +.|.|.||+|....
T Consensus 174 ---------------------p~vl~~l~~ys~i--------------------------------ps~lvmnkid~~k~ 200 (379)
T KOG1423|consen 174 ---------------------PRVLHMLEEYSKI--------------------------------PSILVMNKIDKLKQ 200 (379)
T ss_pred ---------------------hHHHHHHHHHhcC--------------------------------Cceeeccchhcchh
Confidence 1233344455333 34778899987765
Q ss_pred Cchhh---hhhcCcccccccccccccchHHHHHHHHHHhhccCCC-------------cceeeeecccchhhhHHHHHHh
Q psy5059 395 GTDAI---DILCGRVIPVKLDVDGRRTYIEAQIKQLVLHYISNPN-------------SIILAVVTANTDMATSESLKLA 458 (1036)
Q Consensus 395 g~~~~---~~l~~~~~~~~~~~~~~~~~~~~~l~~~v~~~i~~~~-------------~ipla~ISA~td~~~qeil~la 458 (1036)
...-+ +.|.+..+- ....++.+.+.+.. +--+..|||++|-.++++-++.
T Consensus 201 k~~Ll~l~~~Lt~g~l~--------------~~kl~v~~~f~~~p~~~~~~~~~gwshfe~vF~vSaL~G~GikdlkqyL 266 (379)
T KOG1423|consen 201 KRLLLNLKDLLTNGELA--------------KLKLEVQEKFTDVPSDEKWRTICGWSHFERVFMVSALYGEGIKDLKQYL 266 (379)
T ss_pred hhHHhhhHHhccccccc--------------hhhhhHHHHhccCCcccccccccCcccceeEEEEecccccCHHHHHHHH
Confidence 44322 333322222 12334455555544 3446679999999999998887
Q ss_pred hhcCcCCC
Q psy5059 459 KETDVDGR 466 (1036)
Q Consensus 459 ~~vd~~g~ 466 (1036)
..-.+.|.
T Consensus 267 msqa~~gp 274 (379)
T KOG1423|consen 267 MSQAPPGP 274 (379)
T ss_pred HhcCCCCC
Confidence 66555444
No 131
>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=98.32 E-value=6.8e-06 Score=91.41 Aligned_cols=40 Identities=10% Similarity=-0.056 Sum_probs=31.8
Q ss_pred HHHHHHhhccCCCcceeeeecccchhhhHHHHHHhhhcCc
Q psy5059 424 IKQLVLHYISNPNSIILAVVTANTDMATSESLKLAKETDV 463 (1036)
Q Consensus 424 l~~~v~~~i~~~~~ipla~ISA~td~~~qeil~la~~vd~ 463 (1036)
+.+-++..+..-..+|+.+.||.++..+.++++.....-|
T Consensus 229 l~~~l~~~~~~~~~~PV~~gSa~~~~Gi~~lld~i~~~~p 268 (270)
T cd01886 229 IKAAIRKGTIANKIVPVLCGSAFKNKGVQPLLDAVVDYLP 268 (270)
T ss_pred HHHHHHHHHHcCcEEEEEeCcCCCCcCHHHHHHHHHHhcC
Confidence 3344666667788999999999999999999988766543
No 132
>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=98.32 E-value=3.2e-06 Score=89.90 Aligned_cols=60 Identities=12% Similarity=0.166 Sum_probs=39.3
Q ss_pred CceEEEEecccccCCCchhhhhhcCcccccccccccccchHHHHHHHHHHhhccC--CCcceeeeecccchhhhHHHHHH
Q psy5059 380 RRTLAVVTKIDLMDAGTDAIDILCGRVIPVKLDVDGRRTYIEAQIKQLVLHYISN--PNSIILAVVTANTDMATSESLKL 457 (1036)
Q Consensus 380 ~rti~VitK~Dl~~~g~~~~~~l~~~~~~~~~~~~~~~~~~~~~l~~~v~~~i~~--~~~ipla~ISA~td~~~qeil~l 457 (1036)
.+.|+|+||+|+.++... ....+.+...+.. ....++..+||+++.++.++++.
T Consensus 138 ~~iiivvNK~Dl~~~~~~------------------------~~~~~~i~~~~~~~~~~~~~i~~vSA~~g~gi~~L~~~ 193 (203)
T cd01888 138 KHIIIVQNKIDLVKEEQA------------------------LENYEQIKKFVKGTIAENAPIIPISAQLKYNIDVLLEY 193 (203)
T ss_pred CcEEEEEEchhccCHHHH------------------------HHHHHHHHHHHhccccCCCcEEEEeCCCCCCHHHHHHH
Confidence 468899999999753211 1112233333332 23567888999999999999988
Q ss_pred hhhcCc
Q psy5059 458 AKETDV 463 (1036)
Q Consensus 458 a~~vd~ 463 (1036)
..+.-+
T Consensus 194 l~~~l~ 199 (203)
T cd01888 194 IVKKIP 199 (203)
T ss_pred HHHhCC
Confidence 765443
No 133
>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=98.32 E-value=1.4e-06 Score=91.06 Aligned_cols=24 Identities=38% Similarity=0.725 Sum_probs=22.2
Q ss_pred ceEEeCcCCCChhhHHhhhcCCCc
Q psy5059 85 QIVVVGTQSSGKSSVIESLVGKSF 108 (1036)
Q Consensus 85 qIvVvG~QSsGKSSlLEal~G~~f 108 (1036)
+|+|+|+.++|||||++++++..|
T Consensus 2 ki~vvG~~~vGKSsLi~~~~~~~~ 25 (193)
T cd04118 2 KVVMLGKESVGKTSLVERYVHHRF 25 (193)
T ss_pred EEEEECCCCCCHHHHHHHHHhCCc
Confidence 699999999999999999998775
No 134
>CHL00189 infB translation initiation factor 2; Provisional
Probab=98.32 E-value=4.3e-06 Score=103.87 Aligned_cols=27 Identities=15% Similarity=0.485 Sum_probs=24.1
Q ss_pred CCCceEEeCcCCCChhhHHhhhcCCCc
Q psy5059 82 QLPQIVVVGTQSSGKSSVIESLVGKSF 108 (1036)
Q Consensus 82 ~lPqIvVvG~QSsGKSSlLEal~G~~f 108 (1036)
..|.|+++|..++|||||+++|.+..|
T Consensus 243 r~p~V~IvGhvdvGKTSLld~L~~~~~ 269 (742)
T CHL00189 243 RPPIVTILGHVDHGKTTLLDKIRKTQI 269 (742)
T ss_pred cCCEEEEECCCCCCHHHHHHHHHhccC
Confidence 458999999999999999999987664
No 135
>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=98.32 E-value=5.3e-06 Score=91.12 Aligned_cols=24 Identities=29% Similarity=0.747 Sum_probs=21.9
Q ss_pred ceEEeCcCCCChhhHHhhhcCCCc
Q psy5059 85 QIVVVGTQSSGKSSVIESLVGKSF 108 (1036)
Q Consensus 85 qIvVvG~QSsGKSSlLEal~G~~f 108 (1036)
+|+++|+.++||||++.++++-.|
T Consensus 2 KVvvlG~~gvGKTSLi~r~~~~~f 25 (247)
T cd04143 2 RMVVLGASKVGKTAIVSRFLGGRF 25 (247)
T ss_pred EEEEECcCCCCHHHHHHHHHcCCC
Confidence 589999999999999999987765
No 136
>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=98.32 E-value=5.7e-07 Score=91.79 Aligned_cols=45 Identities=40% Similarity=0.643 Sum_probs=40.9
Q ss_pred EEEeccCCCchHHHHHhhhcCCcccccCCccccccEEEeeccCCC
Q psy5059 10 IVVVGTQSSGKSSVIESLVGKSFLPRGIGIVTRRPLILQLYYCPK 54 (1036)
Q Consensus 10 i~vvg~~~~gkss~~~~~~g~~~~pr~~~~~trrpl~l~l~~~~~ 54 (1036)
|+|+|.+|||||||+|+|+|.+.+|.+.+.||++|+.+...+.+.
T Consensus 1 V~v~G~~ssGKSTliNaLlG~~ilp~~~~~~T~~~~~i~~~~~~~ 45 (168)
T PF00350_consen 1 VAVVGQFSSGKSTLINALLGRPILPSGVGPCTAVPTEISYGDEPE 45 (168)
T ss_dssp EEEEEBTTSSHHHHHHHHHTSS-SSSSSSSTTSSEEEEEEEESSS
T ss_pred CEEEcCCCCCHHHHHHHHHhcccCcccccccccceeEEEecccCc
Confidence 799999999999999999999999999999999999999876543
No 137
>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=98.31 E-value=8e-06 Score=83.78 Aligned_cols=22 Identities=27% Similarity=0.690 Sum_probs=20.2
Q ss_pred ceEEeCcCCCChhhHHhhhcCC
Q psy5059 85 QIVVVGTQSSGKSSVIESLVGK 106 (1036)
Q Consensus 85 qIvVvG~QSsGKSSlLEal~G~ 106 (1036)
.|+++|..+|||||++++++|.
T Consensus 1 ~i~~~G~~~~GKTsl~~~l~~~ 22 (167)
T cd04161 1 TLLTVGLDNAGKTTLVSALQGE 22 (167)
T ss_pred CEEEECCCCCCHHHHHHHHhCC
Confidence 3899999999999999999876
No 138
>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=98.31 E-value=9e-06 Score=84.09 Aligned_cols=22 Identities=27% Similarity=0.514 Sum_probs=20.3
Q ss_pred CCceEEeCcCCCChhhHHhhhc
Q psy5059 83 LPQIVVVGTQSSGKSSVIESLV 104 (1036)
Q Consensus 83 lPqIvVvG~QSsGKSSlLEal~ 104 (1036)
..+|+++|.+++||||++..+.
T Consensus 13 ~~ki~l~G~~~~GKTsL~~~~~ 34 (175)
T smart00177 13 EMRILMVGLDAAGKTTILYKLK 34 (175)
T ss_pred ccEEEEEcCCCCCHHHHHHHHh
Confidence 4789999999999999999985
No 139
>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=98.31 E-value=2.7e-06 Score=103.78 Aligned_cols=36 Identities=25% Similarity=0.514 Sum_probs=28.5
Q ss_pred CCCceEEeCcCCCChhhHHhhhcCCCcCcccccccc
Q psy5059 82 QLPQIVVVGTQSSGKSSVIESLVGKSFLPRGIGIVT 117 (1036)
Q Consensus 82 ~lPqIvVvG~QSsGKSSlLEal~G~~flPrg~G~cT 117 (1036)
..|-|+++|..++||||||++|.|..|.....|..|
T Consensus 3 r~piV~IiG~~d~GKTSLln~l~~~~v~~~e~ggiT 38 (590)
T TIGR00491 3 RSPIVSVLGHVDHGKTTLLDKIRGSAVAKREAGGIT 38 (590)
T ss_pred CCCEEEEECCCCCCHHHHHHHHhccccccccCCcee
Confidence 468999999999999999999999886443333333
No 140
>PLN03127 Elongation factor Tu; Provisional
Probab=98.31 E-value=3.8e-06 Score=99.74 Aligned_cols=25 Identities=12% Similarity=0.267 Sum_probs=21.7
Q ss_pred CCCceEEeCcCCCChhhHHhhhcCC
Q psy5059 82 QLPQIVVVGTQSSGKSSVIESLVGK 106 (1036)
Q Consensus 82 ~lPqIvVvG~QSsGKSSlLEal~G~ 106 (1036)
+-..|+++|...+|||||+++|.|.
T Consensus 60 ~~~ni~iiGhvd~GKSTL~~~L~~~ 84 (447)
T PLN03127 60 PHVNVGTIGHVDHGKTTLTAAITKV 84 (447)
T ss_pred ceEEEEEECcCCCCHHHHHHHHHhH
Confidence 3456999999999999999999764
No 141
>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=98.31 E-value=8.8e-06 Score=86.04 Aligned_cols=24 Identities=33% Similarity=0.625 Sum_probs=22.0
Q ss_pred ceEEeCcCCCChhhHHhhhcCCCc
Q psy5059 85 QIVVVGTQSSGKSSVIESLVGKSF 108 (1036)
Q Consensus 85 qIvVvG~QSsGKSSlLEal~G~~f 108 (1036)
+|+++|+.++||||++.++.+..|
T Consensus 2 KivivG~~~vGKTsli~~l~~~~~ 25 (201)
T cd04107 2 KVLVIGDLGVGKTSIIKRYVHGIF 25 (201)
T ss_pred EEEEECCCCCCHHHHHHHHHcCCC
Confidence 689999999999999999998765
No 142
>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=98.30 E-value=1.1e-06 Score=88.84 Aligned_cols=24 Identities=33% Similarity=0.632 Sum_probs=21.7
Q ss_pred ceEEeCcCCCChhhHHhhhcCCCc
Q psy5059 85 QIVVVGTQSSGKSSVIESLVGKSF 108 (1036)
Q Consensus 85 qIvVvG~QSsGKSSlLEal~G~~f 108 (1036)
+|+++|++++||||++..+.+-.|
T Consensus 3 ki~i~G~~~vGKTsl~~~~~~~~~ 26 (163)
T cd04176 3 KVVVLGSGGVGKSALTVQFVSGTF 26 (163)
T ss_pred EEEEECCCCCCHHHHHHHHHcCCC
Confidence 699999999999999999987665
No 143
>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=98.30 E-value=9.1e-06 Score=81.95 Aligned_cols=24 Identities=38% Similarity=0.663 Sum_probs=22.6
Q ss_pred ceEEeCcCCCChhhHHhhhcCCCc
Q psy5059 85 QIVVVGTQSSGKSSVIESLVGKSF 108 (1036)
Q Consensus 85 qIvVvG~QSsGKSSlLEal~G~~f 108 (1036)
+|+|+|+++|||||+++++.+..|
T Consensus 3 ki~v~G~~~~GKSsli~~l~~~~~ 26 (163)
T cd01860 3 KLVLLGDSSVGKSSLVLRFVKNEF 26 (163)
T ss_pred EEEEECCCCCCHHHHHHHHHcCCC
Confidence 689999999999999999998886
No 144
>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=98.30 E-value=1.2e-05 Score=79.03 Aligned_cols=53 Identities=25% Similarity=0.273 Sum_probs=38.9
Q ss_pred CCceEEEEecccccCCCchhhhhhcCcccccccccccccchHHHHHHHHHHhhccCCCcceeeeecccchhhhHHHHHHh
Q psy5059 379 GRRTLAVVTKIDLMDAGTDAIDILCGRVIPVKLDVDGRRTYIEAQIKQLVLHYISNPNSIILAVVTANTDMATSESLKLA 458 (1036)
Q Consensus 379 g~rti~VitK~Dl~~~g~~~~~~l~~~~~~~~~~~~~~~~~~~~~l~~~v~~~i~~~~~ipla~ISA~td~~~qeil~la 458 (1036)
+.+.+.|+||+|+.+.. +.......+......+...+||..+.++.+++...
T Consensus 108 ~~p~ivv~nK~D~~~~~----------------------------~~~~~~~~~~~~~~~~~~~~sa~~~~gv~~~~~~l 159 (161)
T TIGR00231 108 NVPIILVGNKIDLRDAK----------------------------LKTHVAFLFAKLNGEPIIPLSAETGKNIDSAFKIV 159 (161)
T ss_pred CCcEEEEEEcccCCcch----------------------------hhHHHHHHHhhccCCceEEeecCCCCCHHHHHHHh
Confidence 77899999999997542 12233444555556678899999999999988765
Q ss_pred h
Q psy5059 459 K 459 (1036)
Q Consensus 459 ~ 459 (1036)
+
T Consensus 160 ~ 160 (161)
T TIGR00231 160 E 160 (161)
T ss_pred h
Confidence 3
No 145
>PRK05124 cysN sulfate adenylyltransferase subunit 1; Provisional
Probab=98.29 E-value=5.7e-06 Score=99.02 Aligned_cols=27 Identities=26% Similarity=0.450 Sum_probs=23.7
Q ss_pred CCCCceEEeCcCCCChhhHHhhhcCCC
Q psy5059 81 IQLPQIVVVGTQSSGKSSVIESLVGKS 107 (1036)
Q Consensus 81 i~lPqIvVvG~QSsGKSSlLEal~G~~ 107 (1036)
-+...||++|..++|||||+++|....
T Consensus 25 ~~~~~i~iiGhvdaGKSTL~~~LL~~~ 51 (474)
T PRK05124 25 KSLLRFLTCGSVDDGKSTLIGRLLHDT 51 (474)
T ss_pred cCceEEEEECCCCCChHHHHHHHHHhc
Confidence 456899999999999999999998654
No 146
>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=98.28 E-value=2.8e-06 Score=88.99 Aligned_cols=24 Identities=29% Similarity=0.504 Sum_probs=21.3
Q ss_pred ceEEeCcCCCChhhHHhhhcCCCc
Q psy5059 85 QIVVVGTQSSGKSSVIESLVGKSF 108 (1036)
Q Consensus 85 qIvVvG~QSsGKSSlLEal~G~~f 108 (1036)
+|+|+|+.++||||++.++.+-.|
T Consensus 1 ki~ivG~~~vGKTsli~~l~~~~f 24 (190)
T cd04144 1 KLVVLGDGGVGKTALTIQLCLNHF 24 (190)
T ss_pred CEEEECCCCCCHHHHHHHHHhCCC
Confidence 489999999999999999986654
No 147
>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=98.28 E-value=1.1e-05 Score=82.69 Aligned_cols=24 Identities=25% Similarity=0.576 Sum_probs=21.5
Q ss_pred ceEEeCcCCCChhhHHhhhcCCCc
Q psy5059 85 QIVVVGTQSSGKSSVIESLVGKSF 108 (1036)
Q Consensus 85 qIvVvG~QSsGKSSlLEal~G~~f 108 (1036)
+|+++|..+|||||++.++++..|
T Consensus 1 ~vvlvG~~~~GKTsl~~~l~~~~~ 24 (169)
T cd04158 1 RVVTLGLDGAGKTTILFKLKQDEF 24 (169)
T ss_pred CEEEECCCCCCHHHHHHHHhcCCC
Confidence 589999999999999999987654
No 148
>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=98.28 E-value=6.8e-06 Score=82.33 Aligned_cols=24 Identities=29% Similarity=0.581 Sum_probs=22.0
Q ss_pred ceEEeCcCCCChhhHHhhhcCCCc
Q psy5059 85 QIVVVGTQSSGKSSVIESLVGKSF 108 (1036)
Q Consensus 85 qIvVvG~QSsGKSSlLEal~G~~f 108 (1036)
+|+++|.+++||||+++++.+..|
T Consensus 2 ki~i~G~~~~GKStli~~l~~~~~ 25 (162)
T cd04123 2 KVVLLGEGRVGKTSLVLRYVENKF 25 (162)
T ss_pred EEEEECCCCCCHHHHHHHHHhCCC
Confidence 589999999999999999998775
No 149
>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=98.28 E-value=7.6e-06 Score=88.10 Aligned_cols=21 Identities=33% Similarity=0.488 Sum_probs=18.9
Q ss_pred eEEeCcCCCChhhHHhhhcCC
Q psy5059 86 IVVVGTQSSGKSSVIESLVGK 106 (1036)
Q Consensus 86 IvVvG~QSsGKSSlLEal~G~ 106 (1036)
|+++|...+|||||+++|...
T Consensus 2 v~i~Gh~~~GKttL~~~ll~~ 22 (219)
T cd01883 2 LVVIGHVDAGKSTTTGHLLYL 22 (219)
T ss_pred EEEecCCCCChHHHHHHHHHH
Confidence 789999999999999999643
No 150
>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=98.28 E-value=6.3e-06 Score=84.20 Aligned_cols=24 Identities=38% Similarity=0.605 Sum_probs=21.9
Q ss_pred ceEEeCcCCCChhhHHhhhcCCCc
Q psy5059 85 QIVVVGTQSSGKSSVIESLVGKSF 108 (1036)
Q Consensus 85 qIvVvG~QSsGKSSlLEal~G~~f 108 (1036)
+|+++|.++|||||+++++++..|
T Consensus 3 ki~liG~~~~GKTsli~~~~~~~~ 26 (168)
T cd04177 3 KIVVLGAGGVGKSALTVQFVQNVF 26 (168)
T ss_pred EEEEECCCCCCHHHHHHHHHhCCC
Confidence 689999999999999999987765
No 151
>COG1163 DRG Predicted GTPase [General function prediction only]
Probab=98.27 E-value=9.4e-06 Score=89.96 Aligned_cols=166 Identities=20% Similarity=0.231 Sum_probs=87.1
Q ss_pred cccceeecCCCccccCCCCCc--hhHHHHHHHHHHHhhcCCCcEEEEEeccccccccchhhhhhhhcCCCCCc---ccce
Q psy5059 240 VLNLTLVDLPGITKVPVGDQP--DDIEAQIKQLVLHYISNPNSIILAVVTANTDMATSESLKLAKETDVDGRR---TLDL 314 (1036)
Q Consensus 240 ~~~LtlVDLPGi~~~~~~~q~--~di~~~ir~lv~~yI~~~n~IIL~V~~An~D~~~s~al~l~r~~Dp~g~R---Tigv 314 (1036)
.....++|+|||+..+..+-. ..+ .+-+++.+ .|++|.++..|...-+ .+.+|+--.|=| +=.-
T Consensus 109 ga~IQild~Pgii~gas~g~grG~~v--------lsv~R~AD-lIiiVld~~~~~~~~~--~i~~ELe~~GIrlnk~~p~ 177 (365)
T COG1163 109 GAQIQLLDLPGIIEGASSGRGRGRQV--------LSVARNAD-LIIIVLDVFEDPHHRD--IIERELEDVGIRLNKRPPD 177 (365)
T ss_pred CceEEEEcCcccccCcccCCCCccee--------eeeeccCC-EEEEEEecCCChhHHH--HHHHHHHhcCeEecCCCCc
Confidence 366789999999987665543 222 24556667 4555555665544211 233443222211 0000
Q ss_pred ecc---CCCCcccccCCCCCchHHHHHHHHHHhhhcCCCceEEEEEecCccccchHHHHHhhhcc--ccCCceEEEEecc
Q psy5059 315 LDI---DLPGITKVPVGDQPDDIEAQIKQLVLHYISNPNSIILAVVTANTDMATSESLKLAKETD--VDGRRTLAVVTKI 389 (1036)
Q Consensus 315 l~~---~~~g~~~~~~~~~~~~~~~~~~~~~~~y~~~~~~~~~~~v~~~~d~~~~~~~~la~~~d--~~g~rti~VitK~ 389 (1036)
..| +.-||--.....-++--+..++.++++|==+ ||.++.--+.+. ++ ++..++ -...++|.|+||.
T Consensus 178 V~I~kk~~gGI~i~~t~~l~~~d~~~ir~iL~Ey~I~-nA~V~Ir~dvTl----Dd---~id~l~~nrvY~p~l~v~NKi 249 (365)
T COG1163 178 VTIKKKESGGIRINGTGPLTHLDEDTVRAILREYRIH-NADVLIREDVTL----DD---LIDALEGNRVYKPALYVVNKI 249 (365)
T ss_pred eEEEEeccCCEEEecccccccCCHHHHHHHHHHhCcc-cceEEEecCCcH----HH---HHHHHhhcceeeeeEEEEecc
Confidence 000 0112222221111222367788888888322 333333344443 33 443333 3457899999999
Q ss_pred cccCCCchhhhhhcCcccccccccccccchHHHHHHHHHHhhccCCCcceeeeecccchhhhHHHHHHh
Q psy5059 390 DLMDAGTDAIDILCGRVIPVKLDVDGRRTYIEAQIKQLVLHYISNPNSIILAVVTANTDMATSESLKLA 458 (1036)
Q Consensus 390 Dl~~~g~~~~~~l~~~~~~~~~~~~~~~~~~~~~l~~~v~~~i~~~~~ipla~ISA~td~~~qeil~la 458 (1036)
|+.... .+..+.+.. ..++|||+.+.+..++.+-.
T Consensus 250 D~~~~e---------------------------~~~~l~~~~-------~~v~isa~~~~nld~L~e~i 284 (365)
T COG1163 250 DLPGLE---------------------------ELERLARKP-------NSVPISAKKGINLDELKERI 284 (365)
T ss_pred cccCHH---------------------------HHHHHHhcc-------ceEEEecccCCCHHHHHHHH
Confidence 999731 111121111 56789999999998887654
No 152
>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=98.26 E-value=7.1e-06 Score=84.48 Aligned_cols=26 Identities=23% Similarity=0.459 Sum_probs=23.7
Q ss_pred CCceEEeCcCCCChhhHHhhhcCCCc
Q psy5059 83 LPQIVVVGTQSSGKSSVIESLVGKSF 108 (1036)
Q Consensus 83 lPqIvVvG~QSsGKSSlLEal~G~~f 108 (1036)
..+|+++|+.++|||||+.++++-.|
T Consensus 4 ~~ki~ivG~~~vGKTsli~~~~~~~~ 29 (180)
T cd04127 4 LIKFLALGDSGVGKTSFLYQYTDNKF 29 (180)
T ss_pred eEEEEEECCCCCCHHHHHHHHhcCCC
Confidence 35899999999999999999998876
No 153
>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=98.26 E-value=1.1e-05 Score=86.06 Aligned_cols=24 Identities=25% Similarity=0.739 Sum_probs=22.0
Q ss_pred ceEEeCcCCCChhhHHhhhcCCCc
Q psy5059 85 QIVVVGTQSSGKSSVIESLVGKSF 108 (1036)
Q Consensus 85 qIvVvG~QSsGKSSlLEal~G~~f 108 (1036)
||||+|+.++||||++..+.+-.|
T Consensus 2 ~vvvlG~~gVGKTSli~r~~~~~f 25 (202)
T cd04120 2 QVIIIGSRGVGKTSLMRRFTDDTF 25 (202)
T ss_pred EEEEECcCCCCHHHHHHHHHhCCC
Confidence 799999999999999999987665
No 154
>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=98.26 E-value=1.3e-05 Score=89.04 Aligned_cols=38 Identities=8% Similarity=-0.055 Sum_probs=30.7
Q ss_pred HHHHhhccCCCcceeeeecccchhhhHHHHHHhhhcCc
Q psy5059 426 QLVLHYISNPNSIILAVVTANTDMATSESLKLAKETDV 463 (1036)
Q Consensus 426 ~~v~~~i~~~~~ipla~ISA~td~~~qeil~la~~vd~ 463 (1036)
+.+..-+..-..+|+.+.||.++..++++++.....-|
T Consensus 228 ~~~~~~~~~~~~~Pv~~gsa~~~~Gv~~Lld~i~~~~P 265 (267)
T cd04169 228 EFDQEAFLAGELTPVFFGSALNNFGVQELLDALVDLAP 265 (267)
T ss_pred HHhHHHHHcCCEEEEEecccccCcCHHHHHHHHHHHCC
Confidence 34566667788899999999999999999998766543
No 155
>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=98.25 E-value=1.4e-05 Score=89.30 Aligned_cols=25 Identities=36% Similarity=0.635 Sum_probs=22.9
Q ss_pred ceEEeCcCCCChhhHHhhhcCCCcC
Q psy5059 85 QIVVVGTQSSGKSSVIESLVGKSFL 109 (1036)
Q Consensus 85 qIvVvG~QSsGKSSlLEal~G~~fl 109 (1036)
.|+|+|..++||||++++|.|..+.
T Consensus 6 ~I~vvG~sg~GKSTliN~L~~~~~~ 30 (276)
T cd01850 6 NIMVVGESGLGKSTFINTLFNTKLI 30 (276)
T ss_pred EEEEEcCCCCCHHHHHHHHHcCCCc
Confidence 6899999999999999999988863
No 156
>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=98.24 E-value=3.6e-06 Score=87.82 Aligned_cols=25 Identities=28% Similarity=0.579 Sum_probs=22.8
Q ss_pred CceEEeCcCCCChhhHHhhhcCCCc
Q psy5059 84 PQIVVVGTQSSGKSSVIESLVGKSF 108 (1036)
Q Consensus 84 PqIvVvG~QSsGKSSlLEal~G~~f 108 (1036)
.+|+|+|+.++||||++.++++..|
T Consensus 1 ~ki~v~G~~~vGKSsli~~~~~~~~ 25 (188)
T cd04125 1 FKVVIIGDYGVGKSSLLKRFTEDEF 25 (188)
T ss_pred CEEEEECCCCCCHHHHHHHHhcCCC
Confidence 3699999999999999999998875
No 157
>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=98.23 E-value=9.6e-06 Score=85.60 Aligned_cols=24 Identities=25% Similarity=0.616 Sum_probs=21.8
Q ss_pred ceEEeCcCCCChhhHHhhhcCCCc
Q psy5059 85 QIVVVGTQSSGKSSVIESLVGKSF 108 (1036)
Q Consensus 85 qIvVvG~QSsGKSSlLEal~G~~f 108 (1036)
+|+++|+.++||||+++++.+..|
T Consensus 1 kv~vvG~~~vGKTsll~~~~~~~~ 24 (198)
T cd04147 1 RLVFMGAAGVGKTALIQRFLYDTF 24 (198)
T ss_pred CEEEECCCCCCHHHHHHHHHhCCC
Confidence 589999999999999999987764
No 158
>smart00175 RAB Rab subfamily of small GTPases. Rab GTPases are implicated in vesicle trafficking.
Probab=98.23 E-value=3.5e-06 Score=84.81 Aligned_cols=24 Identities=29% Similarity=0.648 Sum_probs=22.1
Q ss_pred ceEEeCcCCCChhhHHhhhcCCCc
Q psy5059 85 QIVVVGTQSSGKSSVIESLVGKSF 108 (1036)
Q Consensus 85 qIvVvG~QSsGKSSlLEal~G~~f 108 (1036)
+|+++|+++|||||+++++.+..|
T Consensus 2 kv~v~G~~~~GKTtli~~l~~~~~ 25 (164)
T smart00175 2 KIILIGDSGVGKSSLLSRFTDGKF 25 (164)
T ss_pred EEEEECCCCCCHHHHHHHHhcCCC
Confidence 589999999999999999998875
No 159
>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=98.23 E-value=5.3e-06 Score=97.51 Aligned_cols=23 Identities=26% Similarity=0.531 Sum_probs=20.6
Q ss_pred ceEEeCcCCCChhhHHhhhcCCC
Q psy5059 85 QIVVVGTQSSGKSSVIESLVGKS 107 (1036)
Q Consensus 85 qIvVvG~QSsGKSSlLEal~G~~ 107 (1036)
+||++|..+||||||+++|....
T Consensus 2 ~~~~vGhvd~GKSTL~~~ll~~~ 24 (406)
T TIGR02034 2 RFLTCGSVDDGKSTLIGRLLHDT 24 (406)
T ss_pred eEEEECCCCCCchhhhHHHHHHc
Confidence 58999999999999999997554
No 160
>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=98.22 E-value=7.7e-06 Score=87.53 Aligned_cols=25 Identities=28% Similarity=0.588 Sum_probs=22.8
Q ss_pred CceEEeCcCCCChhhHHhhhcCCCc
Q psy5059 84 PQIVVVGTQSSGKSSVIESLVGKSF 108 (1036)
Q Consensus 84 PqIvVvG~QSsGKSSlLEal~G~~f 108 (1036)
.+|+|+|++++||||+++++++..|
T Consensus 3 ~KIvvvG~~~vGKTsLi~~l~~~~~ 27 (211)
T cd04111 3 FRLIVIGDSTVGKSSLLKRFTEGRF 27 (211)
T ss_pred eEEEEECCCCCCHHHHHHHHHcCCC
Confidence 4799999999999999999998775
No 161
>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=98.22 E-value=6e-06 Score=84.11 Aligned_cols=24 Identities=38% Similarity=0.624 Sum_probs=22.2
Q ss_pred ceEEeCcCCCChhhHHhhhcCCCc
Q psy5059 85 QIVVVGTQSSGKSSVIESLVGKSF 108 (1036)
Q Consensus 85 qIvVvG~QSsGKSSlLEal~G~~f 108 (1036)
+|+++|++++||||+++++++-.|
T Consensus 3 kv~~vG~~~vGKTsli~~~~~~~f 26 (165)
T cd04140 3 RVVVFGAGGVGKSSLVLRFVKGTF 26 (165)
T ss_pred EEEEECCCCCCHHHHHHHHHhCCC
Confidence 689999999999999999988775
No 162
>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=98.22 E-value=7.3e-06 Score=84.60 Aligned_cols=24 Identities=38% Similarity=0.657 Sum_probs=22.0
Q ss_pred ceEEeCcCCCChhhHHhhhcCCCc
Q psy5059 85 QIVVVGTQSSGKSSVIESLVGKSF 108 (1036)
Q Consensus 85 qIvVvG~QSsGKSSlLEal~G~~f 108 (1036)
+|+|+|++++||||++..+.+..|
T Consensus 4 ki~vvG~~~vGKTsL~~~~~~~~f 27 (172)
T cd04141 4 KIVMLGAGGVGKSAVTMQFISHSF 27 (172)
T ss_pred EEEEECCCCCcHHHHHHHHHhCCC
Confidence 689999999999999999987775
No 163
>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=98.21 E-value=2.1e-05 Score=79.96 Aligned_cols=37 Identities=27% Similarity=0.495 Sum_probs=27.5
Q ss_pred cccceeecCCCccccCCCCCchhHHHHHHHHHHHhhcCCCcEEEEEeccc
Q psy5059 240 VLNLTLVDLPGITKVPVGDQPDDIEAQIKQLVLHYISNPNSIILAVVTAN 289 (1036)
Q Consensus 240 ~~~LtlVDLPGi~~~~~~~q~~di~~~ir~lv~~yI~~~n~IIL~V~~An 289 (1036)
...+.+.|+||.. ..+.+...|++..+++|++++..+
T Consensus 43 ~~~~~l~D~~G~~-------------~~~~~~~~~~~~ad~~i~v~D~~~ 79 (159)
T cd04150 43 NISFTVWDVGGQD-------------KIRPLWRHYFQNTQGLIFVVDSND 79 (159)
T ss_pred CEEEEEEECCCCH-------------hHHHHHHHHhcCCCEEEEEEeCCC
Confidence 3568899999952 245677789999998887777654
No 164
>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=98.21 E-value=7.9e-06 Score=82.97 Aligned_cols=66 Identities=21% Similarity=0.095 Sum_probs=40.9
Q ss_pred CCceEEEEecccccCCCchhhhhhcCcccccccccccccchHHHHHHHHHHhhccCCCcceeeeecccchhhhHHHHHHh
Q psy5059 379 GRRTLAVVTKIDLMDAGTDAIDILCGRVIPVKLDVDGRRTYIEAQIKQLVLHYISNPNSIILAVVTANTDMATSESLKLA 458 (1036)
Q Consensus 379 g~rti~VitK~Dl~~~g~~~~~~l~~~~~~~~~~~~~~~~~~~~~l~~~v~~~i~~~~~ipla~ISA~td~~~qeil~la 458 (1036)
+.+.++|+||+|+.++.........+ ...+ -.........+....+..-+||+++.+..+++..+
T Consensus 104 ~~p~ivv~nK~Dl~~~~~~~~~~~~~------------~~~v---~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~i 168 (171)
T cd00157 104 NVPIILVGTKIDLRDDENTLKKLEKG------------KEPI---TPEEGEKLAKEIGAIGYMECSALTQEGVKEVFEEA 168 (171)
T ss_pred CCCEEEEEccHHhhhchhhhhhcccC------------CCcc---CHHHHHHHHHHhCCeEEEEeecCCCCCHHHHHHHH
Confidence 68899999999998765332110000 0000 01223334444555588899999999999998775
Q ss_pred h
Q psy5059 459 K 459 (1036)
Q Consensus 459 ~ 459 (1036)
.
T Consensus 169 ~ 169 (171)
T cd00157 169 I 169 (171)
T ss_pred h
Confidence 4
No 165
>PLN00223 ADP-ribosylation factor; Provisional
Probab=98.21 E-value=2e-05 Score=82.28 Aligned_cols=24 Identities=25% Similarity=0.437 Sum_probs=21.2
Q ss_pred CceEEeCcCCCChhhHHhhhcCCC
Q psy5059 84 PQIVVVGTQSSGKSSVIESLVGKS 107 (1036)
Q Consensus 84 PqIvVvG~QSsGKSSlLEal~G~~ 107 (1036)
.+|+++|+++|||||++..+..-.
T Consensus 18 ~ki~ivG~~~~GKTsl~~~l~~~~ 41 (181)
T PLN00223 18 MRILMVGLDAAGKTTILYKLKLGE 41 (181)
T ss_pred cEEEEECCCCCCHHHHHHHHccCC
Confidence 589999999999999999987444
No 166
>PLN03110 Rab GTPase; Provisional
Probab=98.21 E-value=8.9e-06 Score=87.32 Aligned_cols=26 Identities=31% Similarity=0.616 Sum_probs=23.3
Q ss_pred CCceEEeCcCCCChhhHHhhhcCCCc
Q psy5059 83 LPQIVVVGTQSSGKSSVIESLVGKSF 108 (1036)
Q Consensus 83 lPqIvVvG~QSsGKSSlLEal~G~~f 108 (1036)
.-+|+++|++++|||||++++++..|
T Consensus 12 ~~Ki~ivG~~~vGKStLi~~l~~~~~ 37 (216)
T PLN03110 12 LFKIVLIGDSGVGKSNILSRFTRNEF 37 (216)
T ss_pred eeEEEEECCCCCCHHHHHHHHhcCCC
Confidence 35899999999999999999998775
No 167
>PRK00049 elongation factor Tu; Reviewed
Probab=98.20 E-value=1.1e-05 Score=94.65 Aligned_cols=23 Identities=13% Similarity=0.320 Sum_probs=20.8
Q ss_pred CceEEeCcCCCChhhHHhhhcCC
Q psy5059 84 PQIVVVGTQSSGKSSVIESLVGK 106 (1036)
Q Consensus 84 PqIvVvG~QSsGKSSlLEal~G~ 106 (1036)
-.|+++|...+|||||+++|++.
T Consensus 13 ~ni~iiGhvd~GKSTL~~~L~~~ 35 (396)
T PRK00049 13 VNVGTIGHVDHGKTTLTAAITKV 35 (396)
T ss_pred EEEEEEeECCCCHHHHHHHHHHh
Confidence 35899999999999999999874
No 168
>PTZ00133 ADP-ribosylation factor; Provisional
Probab=98.20 E-value=2e-05 Score=82.30 Aligned_cols=24 Identities=25% Similarity=0.446 Sum_probs=21.1
Q ss_pred CceEEeCcCCCChhhHHhhhcCCC
Q psy5059 84 PQIVVVGTQSSGKSSVIESLVGKS 107 (1036)
Q Consensus 84 PqIvVvG~QSsGKSSlLEal~G~~ 107 (1036)
.+|+++|++++||||++..+..-.
T Consensus 18 ~kv~lvG~~~vGKTsli~~~~~~~ 41 (182)
T PTZ00133 18 VRILMVGLDAAGKTTILYKLKLGE 41 (182)
T ss_pred cEEEEEcCCCCCHHHHHHHHhcCC
Confidence 589999999999999999986444
No 169
>PRK12735 elongation factor Tu; Reviewed
Probab=98.20 E-value=1.1e-05 Score=94.51 Aligned_cols=23 Identities=13% Similarity=0.320 Sum_probs=20.7
Q ss_pred CceEEeCcCCCChhhHHhhhcCC
Q psy5059 84 PQIVVVGTQSSGKSSVIESLVGK 106 (1036)
Q Consensus 84 PqIvVvG~QSsGKSSlLEal~G~ 106 (1036)
-.|+++|..++|||||+++|++.
T Consensus 13 ~~i~iiGhvd~GKSTL~~~L~~~ 35 (396)
T PRK12735 13 VNVGTIGHVDHGKTTLTAAITKV 35 (396)
T ss_pred EEEEEECcCCCCHHHHHHHHHHh
Confidence 35899999999999999999874
No 170
>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=98.20 E-value=1.1e-05 Score=99.18 Aligned_cols=58 Identities=21% Similarity=0.291 Sum_probs=37.7
Q ss_pred cCCceEEEEecccccCCCchhhhhhcCcccccccccccccchHHHHHHHHHHhhccCCCcceeeeecccchhhhHHHHHH
Q psy5059 378 DGRRTLAVVTKIDLMDAGTDAIDILCGRVIPVKLDVDGRRTYIEAQIKQLVLHYISNPNSIILAVVTANTDMATSESLKL 457 (1036)
Q Consensus 378 ~g~rti~VitK~Dl~~~g~~~~~~l~~~~~~~~~~~~~~~~~~~~~l~~~v~~~i~~~~~ipla~ISA~td~~~qeil~l 457 (1036)
.+.+.|.|+||+|+.+...+ .....+...+. ..+.....+||+++.++.++++.
T Consensus 121 ~~ipiIiViNKiDl~~~~~~-------------------------~~~~el~~~lg-~~~~~vi~vSAktG~GI~~Lle~ 174 (595)
T TIGR01393 121 NDLEIIPVINKIDLPSADPE-------------------------RVKKEIEEVIG-LDASEAILASAKTGIGIEEILEA 174 (595)
T ss_pred cCCCEEEEEECcCCCccCHH-------------------------HHHHHHHHHhC-CCcceEEEeeccCCCCHHHHHHH
Confidence 46789999999998643211 11222333322 22234678999999999999988
Q ss_pred hhhc
Q psy5059 458 AKET 461 (1036)
Q Consensus 458 a~~v 461 (1036)
..+.
T Consensus 175 I~~~ 178 (595)
T TIGR01393 175 IVKR 178 (595)
T ss_pred HHHh
Confidence 6544
No 171
>PRK05306 infB translation initiation factor IF-2; Validated
Probab=98.20 E-value=8.6e-06 Score=102.03 Aligned_cols=26 Identities=19% Similarity=0.524 Sum_probs=23.2
Q ss_pred CCCceEEeCcCCCChhhHHhhhcCCC
Q psy5059 82 QLPQIVVVGTQSSGKSSVIESLVGKS 107 (1036)
Q Consensus 82 ~lPqIvVvG~QSsGKSSlLEal~G~~ 107 (1036)
..|-|+++|..++|||||+++|.+..
T Consensus 289 R~pvV~ImGhvd~GKTSLl~~Lr~~~ 314 (787)
T PRK05306 289 RPPVVTIMGHVDHGKTSLLDAIRKTN 314 (787)
T ss_pred CCCEEEEECCCCCCHHHHHHHHHhCC
Confidence 45999999999999999999997655
No 172
>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=98.19 E-value=7.7e-06 Score=86.46 Aligned_cols=26 Identities=27% Similarity=0.590 Sum_probs=23.6
Q ss_pred CCceEEeCcCCCChhhHHhhhcCCCc
Q psy5059 83 LPQIVVVGTQSSGKSSVIESLVGKSF 108 (1036)
Q Consensus 83 lPqIvVvG~QSsGKSSlLEal~G~~f 108 (1036)
..+|+++|+.++||||+++++.+..|
T Consensus 6 ~~kivvvG~~~vGKTsli~~l~~~~~ 31 (199)
T cd04110 6 LFKLLIIGDSGVGKSSLLLRFADNTF 31 (199)
T ss_pred eeEEEEECCCCCCHHHHHHHHhcCCC
Confidence 46899999999999999999988765
No 173
>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=98.19 E-value=7.7e-06 Score=83.82 Aligned_cols=25 Identities=24% Similarity=0.480 Sum_probs=22.5
Q ss_pred CceEEeCcCCCChhhHHhhhcCCCc
Q psy5059 84 PQIVVVGTQSSGKSSVIESLVGKSF 108 (1036)
Q Consensus 84 PqIvVvG~QSsGKSSlLEal~G~~f 108 (1036)
.+|+++|++++||||+++++.+..|
T Consensus 3 ~ki~vvG~~~vGKTsli~~~~~~~~ 27 (170)
T cd04115 3 FKIIVIGDSNVGKTCLTYRFCAGRF 27 (170)
T ss_pred eEEEEECCCCCCHHHHHHHHHhCCC
Confidence 5799999999999999999987664
No 174
>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=98.19 E-value=9.4e-06 Score=83.62 Aligned_cols=24 Identities=33% Similarity=0.639 Sum_probs=22.3
Q ss_pred ceEEeCcCCCChhhHHhhhcCCCc
Q psy5059 85 QIVVVGTQSSGKSSVIESLVGKSF 108 (1036)
Q Consensus 85 qIvVvG~QSsGKSSlLEal~G~~f 108 (1036)
+|+++|++++||||++.++++..|
T Consensus 2 ki~ivG~~~vGKTsli~~~~~~~f 25 (170)
T cd04108 2 KVIVVGDLSVGKTCLINRFCKDVF 25 (170)
T ss_pred EEEEECCCCCCHHHHHHHHhcCCC
Confidence 689999999999999999998775
No 175
>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=98.18 E-value=1.7e-05 Score=82.39 Aligned_cols=24 Identities=33% Similarity=0.530 Sum_probs=22.1
Q ss_pred ceEEeCcCCCChhhHHhhhcCCCc
Q psy5059 85 QIVVVGTQSSGKSSVIESLVGKSF 108 (1036)
Q Consensus 85 qIvVvG~QSsGKSSlLEal~G~~f 108 (1036)
+|+|+|+.++||||+++++.+..|
T Consensus 2 ki~vvG~~~vGKTsli~~l~~~~~ 25 (187)
T cd04132 2 KIVVVGDGGCGKTCLLIVYSQGKF 25 (187)
T ss_pred eEEEECCCCCCHHHHHHHHHhCcC
Confidence 689999999999999999998775
No 176
>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=98.17 E-value=1.1e-05 Score=86.56 Aligned_cols=27 Identities=37% Similarity=0.626 Sum_probs=22.8
Q ss_pred ceEEeCcCCCChhhHHhhhcCCCcCcc
Q psy5059 85 QIVVVGTQSSGKSSVIESLVGKSFLPR 111 (1036)
Q Consensus 85 qIvVvG~QSsGKSSlLEal~G~~flPr 111 (1036)
+|+++|..+|||||+.++|.|.+.++.
T Consensus 2 ~IlllG~tGsGKSs~~N~ilg~~~f~~ 28 (212)
T PF04548_consen 2 RILLLGKTGSGKSSLGNSILGKEVFKS 28 (212)
T ss_dssp EEEEECSTTSSHHHHHHHHHTSS-SS-
T ss_pred EEEEECCCCCCHHHHHHHHhcccceee
Confidence 589999999999999999999885433
No 177
>PRK05506 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional
Probab=98.15 E-value=2.1e-05 Score=97.64 Aligned_cols=25 Identities=32% Similarity=0.503 Sum_probs=22.2
Q ss_pred CCceEEeCcCCCChhhHHhhhcCCC
Q psy5059 83 LPQIVVVGTQSSGKSSVIESLVGKS 107 (1036)
Q Consensus 83 lPqIvVvG~QSsGKSSlLEal~G~~ 107 (1036)
...||++|..++|||||+++|++..
T Consensus 24 ~~~i~iiGh~~~GKSTL~~~Ll~~~ 48 (632)
T PRK05506 24 LLRFITCGSVDDGKSTLIGRLLYDS 48 (632)
T ss_pred eeEEEEECCCCCChHHHHHHHHHHh
Confidence 4579999999999999999998764
No 178
>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=98.13 E-value=2.5e-05 Score=79.85 Aligned_cols=23 Identities=35% Similarity=0.609 Sum_probs=21.2
Q ss_pred eEEeCcCCCChhhHHhhhcCCCc
Q psy5059 86 IVVVGTQSSGKSSVIESLVGKSF 108 (1036)
Q Consensus 86 IvVvG~QSsGKSSlLEal~G~~f 108 (1036)
|+|+|+.++||||++.++.+..|
T Consensus 1 i~i~G~~~vGKTsli~~~~~~~~ 23 (174)
T smart00174 1 LVVVGDGAVGKTCLLISYTTNAF 23 (174)
T ss_pred CEEECCCCCCHHHHHHHHHhCCC
Confidence 68999999999999999998775
No 179
>COG3596 Predicted GTPase [General function prediction only]
Probab=98.13 E-value=1.6e-05 Score=86.62 Aligned_cols=139 Identities=19% Similarity=0.272 Sum_probs=80.2
Q ss_pred CcccceeecCCCccccCCCCCchhHHHHHHHHHHHhhcCCCcEEEEEeccccccccchhhhhhhhcCCCCCcccceeccC
Q psy5059 239 SVLNLTLVDLPGITKVPVGDQPDDIEAQIKQLVLHYISNPNSIILAVVTANTDMATSESLKLAKETDVDGRRTLDLLDID 318 (1036)
Q Consensus 239 ~~~~LtlVDLPGi~~~~~~~q~~di~~~ir~lv~~yI~~~n~IIL~V~~An~D~~~s~al~l~r~~Dp~g~RTigvl~~~ 318 (1036)
+.-+|+|-|+||+=. ..+-...-+.+++.|+.+-+ ++|.+.+|.+-...-| ..+++++
T Consensus 85 ~~~~l~lwDtPG~gd------g~~~D~~~r~~~~d~l~~~D-LvL~l~~~~draL~~d-~~f~~dV-------------- 142 (296)
T COG3596 85 DGENLVLWDTPGLGD------GKDKDAEHRQLYRDYLPKLD-LVLWLIKADDRALGTD-EDFLRDV-------------- 142 (296)
T ss_pred cccceEEecCCCccc------chhhhHHHHHHHHHHhhhcc-EEEEeccCCCccccCC-HHHHHHH--------------
Confidence 346799999999833 22222345778888888888 8888888876444322 1111111
Q ss_pred CCCcccccCCCCCchHHHHHHHHHHhhhcCCCceEEEEEecCccccchHHHHHhhhccccCCceEEEEecccccCCCchh
Q psy5059 319 LPGITKVPVGDQPDDIEAQIKQLVLHYISNPNSIILAVVTANTDMATSESLKLAKETDVDGRRTLAVVTKIDLMDAGTDA 398 (1036)
Q Consensus 319 ~~g~~~~~~~~~~~~~~~~~~~~~~~y~~~~~~~~~~~v~~~~d~~~~~~~~la~~~d~~g~rti~VitK~Dl~~~g~~~ 398 (1036)
++.-+| +|+|.|||..|...+|.+
T Consensus 143 ----------------------------------------------------i~~~~~---~~~i~~VtQ~D~a~p~~~- 166 (296)
T COG3596 143 ----------------------------------------------------IILGLD---KRVLFVVTQADRAEPGRE- 166 (296)
T ss_pred ----------------------------------------------------HHhccC---ceeEEEEehhhhhccccc-
Confidence 122222 899999999999888722
Q ss_pred hhhhcCcccccccccccccchHHHHHHHHHHhhccCCCcceeeeecccchhhhHHHHHHhhhcCcC
Q psy5059 399 IDILCGRVIPVKLDVDGRRTYIEAQIKQLVLHYISNPNSIILAVVTANTDMATSESLKLAKETDVD 464 (1036)
Q Consensus 399 ~~~l~~~~~~~~~~~~~~~~~~~~~l~~~v~~~i~~~~~ipla~ISA~td~~~qeil~la~~vd~~ 464 (1036)
||.=.+.-.| ..+..++.+.+. +..+++. --|++++++....+..++....-++-|.
T Consensus 167 W~~~~~~p~~------a~~qfi~~k~~~-~~~~~q~--V~pV~~~~~r~~wgl~~l~~ali~~lp~ 223 (296)
T COG3596 167 WDSAGHQPSP------AIKQFIEEKAEA-LGRLFQE--VKPVVAVSGRLPWGLKELVRALITALPV 223 (296)
T ss_pred cccccCCCCH------HHHHHHHHHHHH-HHHHHhh--cCCeEEeccccCccHHHHHHHHHHhCcc
Confidence 1111111110 011122222211 2333333 6778888888889988888777666553
No 180
>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=98.13 E-value=1.6e-05 Score=86.17 Aligned_cols=57 Identities=16% Similarity=0.177 Sum_probs=37.4
Q ss_pred HHhhhccccCCc-eEEEEecccccCCCchhhhhhcCcccccccccccccchHHHHHHHHHHhhcc--CCCcceeeeeccc
Q psy5059 370 KLAKETDVDGRR-TLAVVTKIDLMDAGTDAIDILCGRVIPVKLDVDGRRTYIEAQIKQLVLHYIS--NPNSIILAVVTAN 446 (1036)
Q Consensus 370 ~la~~~d~~g~r-ti~VitK~Dl~~~g~~~~~~l~~~~~~~~~~~~~~~~~~~~~l~~~v~~~i~--~~~~ipla~ISA~ 446 (1036)
.+...+...|.+ .|+|+||||++++..+ + ..+.+.+..++. +..+.++.++||+
T Consensus 123 ~i~~~l~~~g~p~vi~VvnK~D~~~~~~~-~----------------------~~~~~~l~~~~~~~~~~~~ki~~iSa~ 179 (225)
T cd01882 123 EFLNILQVHGFPRVMGVLTHLDLFKKNKT-L----------------------RKTKKRLKHRFWTEVYQGAKLFYLSGI 179 (225)
T ss_pred HHHHHHHHcCCCeEEEEEeccccCCcHHH-H----------------------HHHHHHHHHHHHHhhCCCCcEEEEeec
Confidence 455555556776 4669999999854222 1 344555555443 5678999999987
Q ss_pred chh
Q psy5059 447 TDM 449 (1036)
Q Consensus 447 td~ 449 (1036)
+..
T Consensus 180 ~~~ 182 (225)
T cd01882 180 VHG 182 (225)
T ss_pred cCC
Confidence 763
No 181
>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=98.12 E-value=1.9e-05 Score=92.49 Aligned_cols=23 Identities=17% Similarity=0.333 Sum_probs=20.8
Q ss_pred CceEEeCcCCCChhhHHhhhcCC
Q psy5059 84 PQIVVVGTQSSGKSSVIESLVGK 106 (1036)
Q Consensus 84 PqIvVvG~QSsGKSSlLEal~G~ 106 (1036)
-.|+++|...+|||||+++|+|.
T Consensus 13 ~~i~i~Ghvd~GKStL~~~L~~~ 35 (394)
T TIGR00485 13 VNIGTIGHVDHGKTTLTAAITTV 35 (394)
T ss_pred EEEEEEeecCCCHHHHHHHHHhh
Confidence 35999999999999999999865
No 182
>PTZ00369 Ras-like protein; Provisional
Probab=98.12 E-value=1.3e-05 Score=83.88 Aligned_cols=26 Identities=31% Similarity=0.462 Sum_probs=23.3
Q ss_pred CCceEEeCcCCCChhhHHhhhcCCCc
Q psy5059 83 LPQIVVVGTQSSGKSSVIESLVGKSF 108 (1036)
Q Consensus 83 lPqIvVvG~QSsGKSSlLEal~G~~f 108 (1036)
-.+|+++|+.++||||+++++.+-.|
T Consensus 5 ~~Ki~iiG~~~~GKTsLi~~~~~~~~ 30 (189)
T PTZ00369 5 EYKLVVVGGGGVGKSALTIQFIQNHF 30 (189)
T ss_pred ceEEEEECCCCCCHHHHHHHHhcCCC
Confidence 36899999999999999999987765
No 183
>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=98.10 E-value=3.9e-05 Score=78.50 Aligned_cols=25 Identities=24% Similarity=0.538 Sum_probs=22.7
Q ss_pred CceEEeCcCCCChhhHHhhhcCCCc
Q psy5059 84 PQIVVVGTQSSGKSSVIESLVGKSF 108 (1036)
Q Consensus 84 PqIvVvG~QSsGKSSlLEal~G~~f 108 (1036)
.+|+++|+++|||||++.++.+..|
T Consensus 2 ~ki~iiG~~~~GKTsl~~~~~~~~~ 26 (175)
T cd01870 2 KKLVIVGDGACGKTCLLIVFSKDQF 26 (175)
T ss_pred cEEEEECCCCCCHHHHHHHHhcCCC
Confidence 5799999999999999999998765
No 184
>PLN03126 Elongation factor Tu; Provisional
Probab=98.10 E-value=1.5e-05 Score=95.20 Aligned_cols=24 Identities=21% Similarity=0.292 Sum_probs=21.2
Q ss_pred CceEEeCcCCCChhhHHhhhcCCC
Q psy5059 84 PQIVVVGTQSSGKSSVIESLVGKS 107 (1036)
Q Consensus 84 PqIvVvG~QSsGKSSlLEal~G~~ 107 (1036)
-.|+++|..++|||||+++|++..
T Consensus 82 ~ni~iiGhvd~GKSTLi~~Ll~~~ 105 (478)
T PLN03126 82 VNIGTIGHVDHGKTTLTAALTMAL 105 (478)
T ss_pred eEEEEECCCCCCHHHHHHHHHHhh
Confidence 458999999999999999998654
No 185
>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=98.09 E-value=3.2e-05 Score=79.18 Aligned_cols=24 Identities=38% Similarity=0.607 Sum_probs=21.8
Q ss_pred ceEEeCcCCCChhhHHhhhcCCCc
Q psy5059 85 QIVVVGTQSSGKSSVIESLVGKSF 108 (1036)
Q Consensus 85 qIvVvG~QSsGKSSlLEal~G~~f 108 (1036)
||+++|++++||||++.++.+..|
T Consensus 1 ~i~ivG~~~vGKTsli~~~~~~~~ 24 (164)
T cd04162 1 QILVLGLDGAGKTSLLHSLSSERS 24 (164)
T ss_pred CEEEECCCCCCHHHHHHHHhcCCC
Confidence 799999999999999999987654
No 186
>PLN03108 Rab family protein; Provisional
Probab=98.09 E-value=1.7e-05 Score=84.80 Aligned_cols=25 Identities=24% Similarity=0.514 Sum_probs=23.0
Q ss_pred CceEEeCcCCCChhhHHhhhcCCCc
Q psy5059 84 PQIVVVGTQSSGKSSVIESLVGKSF 108 (1036)
Q Consensus 84 PqIvVvG~QSsGKSSlLEal~G~~f 108 (1036)
-+|+++|+.++||||+++.+++..|
T Consensus 7 ~kivivG~~gvGKStLi~~l~~~~~ 31 (210)
T PLN03108 7 FKYIIIGDTGVGKSCLLLQFTDKRF 31 (210)
T ss_pred eEEEEECCCCCCHHHHHHHHHhCCC
Confidence 5799999999999999999998775
No 187
>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=98.09 E-value=1.6e-05 Score=81.21 Aligned_cols=24 Identities=33% Similarity=0.578 Sum_probs=22.0
Q ss_pred ceEEeCcCCCChhhHHhhhcCCCc
Q psy5059 85 QIVVVGTQSSGKSSVIESLVGKSF 108 (1036)
Q Consensus 85 qIvVvG~QSsGKSSlLEal~G~~f 108 (1036)
+|+++|..++||||++.++.+-.|
T Consensus 2 ki~i~G~~~~GKTsl~~~~~~~~~ 25 (174)
T cd04135 2 KCVVVGDGAVGKTCLLMSYANDAF 25 (174)
T ss_pred EEEEECCCCCCHHHHHHHHHhCCC
Confidence 589999999999999999988775
No 188
>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=98.08 E-value=1e-05 Score=82.28 Aligned_cols=24 Identities=33% Similarity=0.642 Sum_probs=21.3
Q ss_pred ceEEeCcCCCChhhHHhhhcCCCc
Q psy5059 85 QIVVVGTQSSGKSSVIESLVGKSF 108 (1036)
Q Consensus 85 qIvVvG~QSsGKSSlLEal~G~~f 108 (1036)
+|+|+|+.++|||||++++.+..|
T Consensus 1 ki~vvG~~~~GKtsli~~~~~~~~ 24 (165)
T cd04146 1 KIAVLGASGVGKSALVVRFLTKRF 24 (165)
T ss_pred CEEEECCCCCcHHHHHHHHHhCcc
Confidence 489999999999999999987664
No 189
>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=98.08 E-value=4.9e-05 Score=78.33 Aligned_cols=24 Identities=42% Similarity=0.634 Sum_probs=21.8
Q ss_pred ceEEeCcCCCChhhHHhhhcCCCc
Q psy5059 85 QIVVVGTQSSGKSSVIESLVGKSF 108 (1036)
Q Consensus 85 qIvVvG~QSsGKSSlLEal~G~~f 108 (1036)
+|+++|..++||||+++++++..|
T Consensus 3 kv~l~G~~g~GKTtl~~~~~~~~~ 26 (180)
T cd04137 3 KIAVLGSRSVGKSSLTVQFVEGHF 26 (180)
T ss_pred EEEEECCCCCCHHHHHHHHHhCCC
Confidence 589999999999999999997764
No 190
>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=98.07 E-value=2.9e-05 Score=78.98 Aligned_cols=24 Identities=17% Similarity=0.558 Sum_probs=22.1
Q ss_pred ceEEeCcCCCChhhHHhhhcCCCc
Q psy5059 85 QIVVVGTQSSGKSSVIESLVGKSF 108 (1036)
Q Consensus 85 qIvVvG~QSsGKSSlLEal~G~~f 108 (1036)
+|+++|++++||||++..+.+..|
T Consensus 2 ki~vvG~~~~GKTsli~~~~~~~~ 25 (161)
T cd04117 2 RLLLIGDSGVGKTCLLCRFTDNEF 25 (161)
T ss_pred EEEEECcCCCCHHHHHHHHhcCCC
Confidence 589999999999999999988776
No 191
>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=98.05 E-value=3.9e-05 Score=80.40 Aligned_cols=24 Identities=29% Similarity=0.598 Sum_probs=21.9
Q ss_pred ceEEeCcCCCChhhHHhhhcCCCc
Q psy5059 85 QIVVVGTQSSGKSSVIESLVGKSF 108 (1036)
Q Consensus 85 qIvVvG~QSsGKSSlLEal~G~~f 108 (1036)
+|+++|+.++||||++..+.+-.|
T Consensus 2 kivivG~~~vGKTsli~~~~~~~~ 25 (189)
T cd04134 2 KVVVLGDGACGKTSLLNVFTRGYF 25 (189)
T ss_pred EEEEECCCCCCHHHHHHHHhcCCC
Confidence 689999999999999999988765
No 192
>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=98.04 E-value=2.1e-05 Score=80.85 Aligned_cols=24 Identities=33% Similarity=0.549 Sum_probs=21.2
Q ss_pred ceEEeCcCCCChhhHHhhhcCCCc
Q psy5059 85 QIVVVGTQSSGKSSVIESLVGKSF 108 (1036)
Q Consensus 85 qIvVvG~QSsGKSSlLEal~G~~f 108 (1036)
+++++|+.++||||++.++.+-.|
T Consensus 2 k~~i~G~~~~GKtsl~~~~~~~~~ 25 (173)
T cd04130 2 KCVLVGDGAVGKTSLIVSYTTNGY 25 (173)
T ss_pred EEEEECCCCCCHHHHHHHHHhCCC
Confidence 589999999999999999877664
No 193
>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=98.04 E-value=1.6e-05 Score=85.79 Aligned_cols=24 Identities=25% Similarity=0.569 Sum_probs=21.3
Q ss_pred ceEEeCcCCCChhhHHhhhcCCCc
Q psy5059 85 QIVVVGTQSSGKSSVIESLVGKSF 108 (1036)
Q Consensus 85 qIvVvG~QSsGKSSlLEal~G~~f 108 (1036)
+|+++|++++|||||++++.+-.|
T Consensus 2 KI~lvG~~gvGKTsLi~~~~~~~~ 25 (221)
T cd04148 2 RVVMLGSPGVGKSSLASQFTSGEY 25 (221)
T ss_pred EEEEECCCCCcHHHHHHHHhcCCc
Confidence 689999999999999999976554
No 194
>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=98.04 E-value=7.3e-05 Score=78.11 Aligned_cols=24 Identities=29% Similarity=0.491 Sum_probs=21.9
Q ss_pred ceEEeCcCCCChhhHHhhhcCCCc
Q psy5059 85 QIVVVGTQSSGKSSVIESLVGKSF 108 (1036)
Q Consensus 85 qIvVvG~QSsGKSSlLEal~G~~f 108 (1036)
+|+++|+.++||||++..+.+..|
T Consensus 2 Ki~vlG~~~vGKTsLi~~~~~~~f 25 (182)
T cd04128 2 KIGLLGDAQIGKTSLMVKYVEGEF 25 (182)
T ss_pred EEEEECCCCCCHHHHHHHHHhCCC
Confidence 689999999999999999987775
No 195
>PRK00007 elongation factor G; Reviewed
Probab=98.03 E-value=2.1e-05 Score=98.54 Aligned_cols=55 Identities=16% Similarity=0.129 Sum_probs=43.0
Q ss_pred HHHhhhccccCCceEEEEecccccCCCchhhhhhcCcccccccccccccchHHHHHHHHHHhhccCCCcceeeeecccch
Q psy5059 369 LKLAKETDVDGRRTLAVVTKIDLMDAGTDAIDILCGRVIPVKLDVDGRRTYIEAQIKQLVLHYISNPNSIILAVVTANTD 448 (1036)
Q Consensus 369 ~~la~~~d~~g~rti~VitK~Dl~~~g~~~~~~l~~~~~~~~~~~~~~~~~~~~~l~~~v~~~i~~~~~ipla~ISA~td 448 (1036)
.++++.+...|.+.|.|+||||+.+..- ..+...++..+.+..+.+.+.+||..+
T Consensus 117 ~~~~~~~~~~~~p~iv~vNK~D~~~~~~-------------------------~~~~~~i~~~l~~~~~~~~ipisa~~~ 171 (693)
T PRK00007 117 ETVWRQADKYKVPRIAFVNKMDRTGADF-------------------------YRVVEQIKDRLGANPVPIQLPIGAEDD 171 (693)
T ss_pred HHHHHHHHHcCCCEEEEEECCCCCCCCH-------------------------HHHHHHHHHHhCCCeeeEEecCccCCc
Confidence 5678888889999999999999986431 345567788888887788888887655
No 196
>PLN03071 GTP-binding nuclear protein Ran; Provisional
Probab=98.03 E-value=1.4e-05 Score=86.16 Aligned_cols=26 Identities=23% Similarity=0.484 Sum_probs=22.4
Q ss_pred CCceEEeCcCCCChhhHHhhhcCCCc
Q psy5059 83 LPQIVVVGTQSSGKSSVIESLVGKSF 108 (1036)
Q Consensus 83 lPqIvVvG~QSsGKSSlLEal~G~~f 108 (1036)
.-+|+++|++++||||+++++..-.|
T Consensus 13 ~~Ki~vvG~~gvGKTsli~~~~~~~f 38 (219)
T PLN03071 13 SFKLVIVGDGGTGKTTFVKRHLTGEF 38 (219)
T ss_pred ceEEEEECcCCCCHHHHHHHHhhCCC
Confidence 45899999999999999999876554
No 197
>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=98.03 E-value=8.5e-05 Score=80.39 Aligned_cols=24 Identities=29% Similarity=0.664 Sum_probs=22.2
Q ss_pred ceEEeCcCCCChhhHHhhhcCCCc
Q psy5059 85 QIVVVGTQSSGKSSVIESLVGKSF 108 (1036)
Q Consensus 85 qIvVvG~QSsGKSSlLEal~G~~f 108 (1036)
+|||||++++|||||+.++++..|
T Consensus 3 KIvvvGd~~vGKTsLi~~~~~~~f 26 (222)
T cd04173 3 KIVVVGDAECGKTALLQVFAKDAY 26 (222)
T ss_pred EEEEECCCCCCHHHHHHHHHcCCC
Confidence 689999999999999999998775
No 198
>PRK04004 translation initiation factor IF-2; Validated
Probab=98.03 E-value=2.6e-05 Score=95.58 Aligned_cols=27 Identities=26% Similarity=0.667 Sum_probs=24.2
Q ss_pred CCCCceEEeCcCCCChhhHHhhhcCCC
Q psy5059 81 IQLPQIVVVGTQSSGKSSVIESLVGKS 107 (1036)
Q Consensus 81 i~lPqIvVvG~QSsGKSSlLEal~G~~ 107 (1036)
...|.|+++|..++||||||++|.|..
T Consensus 4 ~R~p~V~i~Gh~~~GKTSLl~~l~~~~ 30 (586)
T PRK04004 4 LRQPIVVVLGHVDHGKTTLLDKIRGTA 30 (586)
T ss_pred CCCcEEEEECCCCCCHHHHHHHHhCcc
Confidence 456999999999999999999998765
No 199
>PRK12739 elongation factor G; Reviewed
Probab=97.99 E-value=2.3e-05 Score=98.21 Aligned_cols=37 Identities=8% Similarity=-0.096 Sum_probs=28.9
Q ss_pred HHHHhhccCCCcceeeeecccchhhhHHHHHHhhhcC
Q psy5059 426 QLVLHYISNPNSIILAVVTANTDMATSESLKLAKETD 462 (1036)
Q Consensus 426 ~~v~~~i~~~~~ipla~ISA~td~~~qeil~la~~vd 462 (1036)
..+...+....+.|+.+.||.++..++.+++.....-
T Consensus 241 ~~l~~~~~~~~~~Pv~~gSa~~~~Gv~~LLd~I~~~l 277 (691)
T PRK12739 241 AAIRKATINMEFFPVLCGSAFKNKGVQPLLDAVVDYL 277 (691)
T ss_pred HHHHHHHHcCCEEEEEeccccCCccHHHHHHHHHHHC
Confidence 3444445556788999999999999999999976653
No 200
>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=97.99 E-value=2.4e-05 Score=80.10 Aligned_cols=24 Identities=25% Similarity=0.588 Sum_probs=21.2
Q ss_pred ceEEeCcCCCChhhHHhhhcCCCc
Q psy5059 85 QIVVVGTQSSGKSSVIESLVGKSF 108 (1036)
Q Consensus 85 qIvVvG~QSsGKSSlLEal~G~~f 108 (1036)
+|+++|+++|||||+++++....|
T Consensus 2 ki~vvG~~~vGKTsli~~~~~~~~ 25 (166)
T cd00877 2 KLVLVGDGGTGKTTFVKRHLTGEF 25 (166)
T ss_pred EEEEECCCCCCHHHHHHHHHhCCC
Confidence 689999999999999999986553
No 201
>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=97.98 E-value=2.7e-05 Score=95.64 Aligned_cols=65 Identities=8% Similarity=0.022 Sum_probs=43.0
Q ss_pred HHHhhhccccCCceEEEEecccccCCCchhhhhhcCcccccccccccccchHHHHHHHHHHhhccCCCcceeeeecccch
Q psy5059 369 LKLAKETDVDGRRTLAVVTKIDLMDAGTDAIDILCGRVIPVKLDVDGRRTYIEAQIKQLVLHYISNPNSIILAVVTANTD 448 (1036)
Q Consensus 369 ~~la~~~d~~g~rti~VitK~Dl~~~g~~~~~~l~~~~~~~~~~~~~~~~~~~~~l~~~v~~~i~~~~~ipla~ISA~td 448 (1036)
+.+..++...|.++|.|+||+|+.++..-. .. .+.+.+.+ ..|...+||+++
T Consensus 89 l~l~~ql~~~~~PiIIVlNK~Dl~~~~~i~-----------------------~d-~~~L~~~l----g~pvv~tSA~tg 140 (591)
T TIGR00437 89 LYLTLQLLELGIPMILALNLVDEAEKKGIR-----------------------ID-EEKLEERL----GVPVVPTSATEG 140 (591)
T ss_pred HHHHHHHHhcCCCEEEEEehhHHHHhCCCh-----------------------hh-HHHHHHHc----CCCEEEEECCCC
Confidence 345555566789999999999996432110 00 11222222 357888999999
Q ss_pred hhhHHHHHHhhhc
Q psy5059 449 MATSESLKLAKET 461 (1036)
Q Consensus 449 ~~~qeil~la~~v 461 (1036)
.+.+++++...+.
T Consensus 141 ~Gi~eL~~~i~~~ 153 (591)
T TIGR00437 141 RGIERLKDAIRKA 153 (591)
T ss_pred CCHHHHHHHHHHH
Confidence 9999999887554
No 202
>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=97.97 E-value=0.0001 Score=79.62 Aligned_cols=24 Identities=25% Similarity=0.635 Sum_probs=22.0
Q ss_pred ceEEeCcCCCChhhHHhhhcCCCc
Q psy5059 85 QIVVVGTQSSGKSSVIESLVGKSF 108 (1036)
Q Consensus 85 qIvVvG~QSsGKSSlLEal~G~~f 108 (1036)
+|+++|+.++||||++.++.+..|
T Consensus 2 KIvivG~~~vGKTSLi~r~~~~~f 25 (220)
T cd04126 2 KVVLLGDMNVGKTSLLHRYMERRF 25 (220)
T ss_pred EEEEECCCCCcHHHHHHHHhcCCC
Confidence 589999999999999999988775
No 203
>PRK09602 translation-associated GTPase; Reviewed
Probab=97.95 E-value=8.7e-05 Score=86.88 Aligned_cols=39 Identities=21% Similarity=0.186 Sum_probs=31.0
Q ss_pred CceEEeCcCCCChhhHHhhhcCCCcCcccccccccCceE
Q psy5059 84 PQIVVVGTQSSGKSSVIESLVGKSFLPRGIGIVTRRPLI 122 (1036)
Q Consensus 84 PqIvVvG~QSsGKSSlLEal~G~~flPrg~G~cTR~Pl~ 122 (1036)
.+|++||.+|+||||++++|++..+...+-.-||+-|..
T Consensus 2 ~kigivG~pnvGKSTlfn~Lt~~~~~~~~y~f~t~~p~~ 40 (396)
T PRK09602 2 ITIGLVGKPNVGKSTFFNAATLADVEIANYPFTTIDPNV 40 (396)
T ss_pred cEEEEECCCCCCHHHHHHHHhCCcccccCCCCcceeeee
Confidence 479999999999999999999988643344457777764
No 204
>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=97.94 E-value=2.9e-05 Score=81.87 Aligned_cols=26 Identities=31% Similarity=0.482 Sum_probs=22.7
Q ss_pred CCceEEeCcCCCChhhHHhhhcCCCc
Q psy5059 83 LPQIVVVGTQSSGKSSVIESLVGKSF 108 (1036)
Q Consensus 83 lPqIvVvG~QSsGKSSlLEal~G~~f 108 (1036)
+-+|+++|+.++||||+|.++.+-.|
T Consensus 6 ~~KivviG~~~vGKTsll~~~~~~~~ 31 (189)
T cd04121 6 LLKFLLVGDSDVGKGEILASLQDGST 31 (189)
T ss_pred eeEEEEECCCCCCHHHHHHHHHcCCC
Confidence 34899999999999999999987654
No 205
>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=97.94 E-value=5.5e-05 Score=91.41 Aligned_cols=25 Identities=36% Similarity=0.565 Sum_probs=22.9
Q ss_pred CceEEeCcCCCChhhHHhhhcCCCc
Q psy5059 84 PQIVVVGTQSSGKSSVIESLVGKSF 108 (1036)
Q Consensus 84 PqIvVvG~QSsGKSSlLEal~G~~f 108 (1036)
..|+++|..++||||++++|.|...
T Consensus 119 lrIvLVGKTGVGKSSLINSILGekv 143 (763)
T TIGR00993 119 LNILVLGKSGVGKSATINSIFGEVK 143 (763)
T ss_pred eEEEEECCCCCCHHHHHHHHhcccc
Confidence 4799999999999999999999873
No 206
>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=97.92 E-value=9.5e-05 Score=76.59 Aligned_cols=24 Identities=33% Similarity=0.537 Sum_probs=22.0
Q ss_pred ceEEeCcCCCChhhHHhhhcCCCc
Q psy5059 85 QIVVVGTQSSGKSSVIESLVGKSF 108 (1036)
Q Consensus 85 qIvVvG~QSsGKSSlLEal~G~~f 108 (1036)
+|+++|+.++||||++.++.+-.|
T Consensus 3 ki~vvG~~~vGKTsl~~~~~~~~f 26 (175)
T cd01874 3 KCVVVGDGAVGKTCLLISYTTNKF 26 (175)
T ss_pred EEEEECCCCCCHHHHHHHHHcCCC
Confidence 699999999999999999987765
No 207
>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=97.92 E-value=3.6e-05 Score=79.20 Aligned_cols=25 Identities=36% Similarity=0.688 Sum_probs=23.0
Q ss_pred CceEEeCcCCCChhhHHhhhcCCCc
Q psy5059 84 PQIVVVGTQSSGKSSVIESLVGKSF 108 (1036)
Q Consensus 84 PqIvVvG~QSsGKSSlLEal~G~~f 108 (1036)
-+++++|+.++||||++.++.+..|
T Consensus 5 ~kv~~vG~~~vGKTsli~~~~~~~f 29 (169)
T cd01892 5 FLCFVLGAKGSGKSALLRAFLGRSF 29 (169)
T ss_pred EEEEEECCCCCcHHHHHHHHhCCCC
Confidence 4799999999999999999998876
No 208
>PRK05433 GTP-binding protein LepA; Provisional
Probab=97.92 E-value=9.5e-05 Score=90.98 Aligned_cols=23 Identities=17% Similarity=0.375 Sum_probs=20.5
Q ss_pred CceEEeCcCCCChhhHHhhhcCC
Q psy5059 84 PQIVVVGTQSSGKSSVIESLVGK 106 (1036)
Q Consensus 84 PqIvVvG~QSsGKSSlLEal~G~ 106 (1036)
--|+++|..++|||||+++|...
T Consensus 8 RNi~IiGhvd~GKTTL~~rLl~~ 30 (600)
T PRK05433 8 RNFSIIAHIDHGKSTLADRLIEL 30 (600)
T ss_pred CEEEEECCCCCCHHHHHHHHHHh
Confidence 46899999999999999999754
No 209
>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=97.92 E-value=6e-05 Score=72.81 Aligned_cols=61 Identities=13% Similarity=0.064 Sum_probs=41.4
Q ss_pred hhhccccCCceEEEEecccccCCCchhhhhhcCcccccccccccccchHHHHHHHHHHhhccCCCcceeeeecccchhhh
Q psy5059 372 AKETDVDGRRTLAVVTKIDLMDAGTDAIDILCGRVIPVKLDVDGRRTYIEAQIKQLVLHYISNPNSIILAVVTANTDMAT 451 (1036)
Q Consensus 372 a~~~d~~g~rti~VitK~Dl~~~g~~~~~~l~~~~~~~~~~~~~~~~~~~~~l~~~v~~~i~~~~~ipla~ISA~td~~~ 451 (1036)
.......+.++|+|+||.|+.+...... . ............+...+||..+...
T Consensus 95 ~~~~~~~~~~~ivv~nk~D~~~~~~~~~-----------------------~---~~~~~~~~~~~~~~~~~s~~~~~~i 148 (157)
T cd00882 95 LINKEGENIPIILVGNKIDLPEERVVSE-----------------------E---ELAEQLAKELGVPYFETSAKTGENV 148 (157)
T ss_pred HHhhccCCCcEEEEEeccccccccchHH-----------------------H---HHHHHHHhhcCCcEEEEecCCCCCh
Confidence 3445566899999999999987543321 0 0122233445678899999999988
Q ss_pred HHHHHHh
Q psy5059 452 SESLKLA 458 (1036)
Q Consensus 452 qeil~la 458 (1036)
.+++...
T Consensus 149 ~~~~~~l 155 (157)
T cd00882 149 EELFEEL 155 (157)
T ss_pred HHHHHHH
Confidence 8887654
No 210
>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=97.92 E-value=0.00012 Score=86.76 Aligned_cols=23 Identities=26% Similarity=0.439 Sum_probs=20.4
Q ss_pred CceEEeCcCCCChhhHHhhhcCC
Q psy5059 84 PQIVVVGTQSSGKSSVIESLVGK 106 (1036)
Q Consensus 84 PqIvVvG~QSsGKSSlLEal~G~ 106 (1036)
-.|+++|..++|||||+++|+..
T Consensus 8 ~~v~i~Ghvd~GKSTL~~~ll~~ 30 (426)
T TIGR00483 8 INVAFIGHVDHGKSTTVGHLLYK 30 (426)
T ss_pred eEEEEEeccCCcHHHHHHHHHHH
Confidence 45899999999999999999853
No 211
>COG0370 FeoB Fe2+ transport system protein B [Inorganic ion transport and metabolism]
Probab=97.91 E-value=3.7e-05 Score=92.86 Aligned_cols=68 Identities=16% Similarity=0.049 Sum_probs=50.4
Q ss_pred HHHhhhccccCCceEEEEecccccCCCchhhhhhcCcccccccccccccchHHHHHHHHHHhhccCCCcceeeeecccch
Q psy5059 369 LKLAKETDVDGRRTLAVVTKIDLMDAGTDAIDILCGRVIPVKLDVDGRRTYIEAQIKQLVLHYISNPNSIILAVVTANTD 448 (1036)
Q Consensus 369 ~~la~~~d~~g~rti~VitK~Dl~~~g~~~~~~l~~~~~~~~~~~~~~~~~~~~~l~~~v~~~i~~~~~ipla~ISA~td 448 (1036)
+.|.-++-.-|.++|.++|++|...+..-.+ | .+.+....-+|++.++|+++
T Consensus 98 LyltlQLlE~g~p~ilaLNm~D~A~~~Gi~I------------D----------------~~~L~~~LGvPVv~tvA~~g 149 (653)
T COG0370 98 LYLTLQLLELGIPMILALNMIDEAKKRGIRI------------D----------------IEKLSKLLGVPVVPTVAKRG 149 (653)
T ss_pred HHHHHHHHHcCCCeEEEeccHhhHHhcCCcc------------c----------------HHHHHHHhCCCEEEEEeecC
Confidence 5677788888999999999999876521111 0 12334455789999999999
Q ss_pred hhhHHHHHHhhhcCcC
Q psy5059 449 MATSESLKLAKETDVD 464 (1036)
Q Consensus 449 ~~~qeil~la~~vd~~ 464 (1036)
...+++++.+-+..+.
T Consensus 150 ~G~~~l~~~i~~~~~~ 165 (653)
T COG0370 150 EGLEELKRAIIELAES 165 (653)
T ss_pred CCHHHHHHHHHHhccc
Confidence 9999999888766543
No 212
>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=97.91 E-value=0.00011 Score=76.00 Aligned_cols=24 Identities=33% Similarity=0.551 Sum_probs=21.7
Q ss_pred ceEEeCcCCCChhhHHhhhcCCCc
Q psy5059 85 QIVVVGTQSSGKSSVIESLVGKSF 108 (1036)
Q Consensus 85 qIvVvG~QSsGKSSlLEal~G~~f 108 (1036)
+|+++|+.++||||++.++.+-.|
T Consensus 3 ki~iiG~~~vGKSsli~~~~~~~f 26 (174)
T cd01871 3 KCVVVGDGAVGKTCLLISYTTNAF 26 (174)
T ss_pred EEEEECCCCCCHHHHHHHHhcCCC
Confidence 689999999999999999987665
No 213
>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=97.91 E-value=0.0002 Score=75.01 Aligned_cols=25 Identities=32% Similarity=0.596 Sum_probs=22.7
Q ss_pred CceEEeCcCCCChhhHHhhhcCCCc
Q psy5059 84 PQIVVVGTQSSGKSSVIESLVGKSF 108 (1036)
Q Consensus 84 PqIvVvG~QSsGKSSlLEal~G~~f 108 (1036)
.+|+++|+.++||||++..+.+-.|
T Consensus 6 ~KivvvGd~~vGKTsli~~~~~~~f 30 (182)
T cd04172 6 CKIVVVGDSQCGKTALLHVFAKDCF 30 (182)
T ss_pred EEEEEECCCCCCHHHHHHHHHhCCC
Confidence 4799999999999999999988775
No 214
>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=97.89 E-value=6.5e-05 Score=81.81 Aligned_cols=26 Identities=23% Similarity=0.503 Sum_probs=23.3
Q ss_pred CCceEEeCcCCCChhhHHhhhcCCCc
Q psy5059 83 LPQIVVVGTQSSGKSSVIESLVGKSF 108 (1036)
Q Consensus 83 lPqIvVvG~QSsGKSSlLEal~G~~f 108 (1036)
.-+|+++|+.++||||++..+++-.|
T Consensus 13 ~~KIvvvGd~~VGKTsLi~r~~~~~F 38 (232)
T cd04174 13 RCKLVLVGDVQCGKTAMLQVLAKDCY 38 (232)
T ss_pred eEEEEEECCCCCcHHHHHHHHhcCCC
Confidence 35899999999999999999988776
No 215
>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=97.88 E-value=6.4e-05 Score=92.28 Aligned_cols=21 Identities=19% Similarity=0.575 Sum_probs=19.3
Q ss_pred ceEEeCcCCCChhhHHhhhcC
Q psy5059 85 QIVVVGTQSSGKSSVIESLVG 105 (1036)
Q Consensus 85 qIvVvG~QSsGKSSlLEal~G 105 (1036)
-|+++|..++|||||+++|..
T Consensus 3 NIaIiGHvd~GKTTLv~~LL~ 23 (594)
T TIGR01394 3 NIAIIAHVDHGKTTLVDALLK 23 (594)
T ss_pred EEEEEcCCCCCHHHHHHHHHH
Confidence 389999999999999999975
No 216
>KOG1489|consensus
Probab=97.88 E-value=8.8e-05 Score=82.13 Aligned_cols=51 Identities=27% Similarity=0.326 Sum_probs=36.9
Q ss_pred ceEEEEecccccCCCchhhhhhcCcccccccccccccchHHHHHHHHHHhhccCCCcceeeeecccchhhhHHHHHHhhh
Q psy5059 381 RTLAVVTKIDLMDAGTDAIDILCGRVIPVKLDVDGRRTYIEAQIKQLVLHYISNPNSIILAVVTANTDMATSESLKLAKE 460 (1036)
Q Consensus 381 rti~VitK~Dl~~~g~~~~~~l~~~~~~~~~~~~~~~~~~~~~l~~~v~~~i~~~~~ipla~ISA~td~~~qeil~la~~ 460 (1036)
+.++|.||+|+.+.. +.+-+.+..++++. -++-+||+++....+++...++
T Consensus 314 p~liVaNKiD~~eae--------------------------~~~l~~L~~~lq~~---~V~pvsA~~~egl~~ll~~lr~ 364 (366)
T KOG1489|consen 314 PALIVANKIDLPEAE--------------------------KNLLSSLAKRLQNP---HVVPVSAKSGEGLEELLNGLRE 364 (366)
T ss_pred ceEEEEeccCchhHH--------------------------HHHHHHHHHHcCCC---cEEEeeeccccchHHHHHHHhh
Confidence 478999999997432 33445666777666 5677899999888888776554
No 217
>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=97.87 E-value=0.0001 Score=92.36 Aligned_cols=35 Identities=9% Similarity=-0.102 Sum_probs=27.8
Q ss_pred HHhhccCCCcceeeeecccchhhhHHHHHHhhhcC
Q psy5059 428 VLHYISNPNSIILAVVTANTDMATSESLKLAKETD 462 (1036)
Q Consensus 428 v~~~i~~~~~ipla~ISA~td~~~qeil~la~~vd 462 (1036)
+...+......|+.+.||.++..++.+++.....-
T Consensus 244 l~~~~~~~~~~PV~~gSa~~~~Gv~~LLd~I~~~l 278 (689)
T TIGR00484 244 IRKGVLNCEFFPVLCGSAFKNKGVQLLLDAVVDYL 278 (689)
T ss_pred HHHHHhcCCEEEEEeccccCCccHHHHHHHHHHHC
Confidence 44444556788999999999999999999986653
No 218
>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=97.85 E-value=0.00024 Score=74.67 Aligned_cols=25 Identities=28% Similarity=0.466 Sum_probs=22.4
Q ss_pred CceEEeCcCCCChhhHHhhhcCCCc
Q psy5059 84 PQIVVVGTQSSGKSSVIESLVGKSF 108 (1036)
Q Consensus 84 PqIvVvG~QSsGKSSlLEal~G~~f 108 (1036)
-+|+++|+.++||||++..+..-.|
T Consensus 4 ~ki~~vG~~~vGKTsli~~~~~~~f 28 (191)
T cd01875 4 IKCVVVGDGAVGKTCLLICYTTNAF 28 (191)
T ss_pred EEEEEECCCCCCHHHHHHHHHhCCC
Confidence 4799999999999999999987665
No 219
>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=97.85 E-value=0.00019 Score=74.82 Aligned_cols=24 Identities=29% Similarity=0.632 Sum_probs=22.2
Q ss_pred ceEEeCcCCCChhhHHhhhcCCCc
Q psy5059 85 QIVVVGTQSSGKSSVIESLVGKSF 108 (1036)
Q Consensus 85 qIvVvG~QSsGKSSlLEal~G~~f 108 (1036)
+|+++|+.++||||++.++.+-.|
T Consensus 3 Kiv~vG~~~vGKTsli~~~~~~~f 26 (178)
T cd04131 3 KIVVVGDVQCGKTALLQVFAKDCY 26 (178)
T ss_pred EEEEECCCCCCHHHHHHHHHhCcC
Confidence 699999999999999999998775
No 220
>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=97.84 E-value=2.2e-05 Score=80.25 Aligned_cols=23 Identities=35% Similarity=0.670 Sum_probs=21.4
Q ss_pred eEEEeccCCCchHHHHHhhhcCC
Q psy5059 9 QIVVVGTQSSGKSSVIESLVGKS 31 (1036)
Q Consensus 9 ~i~vvg~~~~gkss~~~~~~g~~ 31 (1036)
.||+||+||||||||||+|.|..
T Consensus 2 ~ialvG~PNvGKStLfN~Ltg~~ 24 (156)
T PF02421_consen 2 RIALVGNPNVGKSTLFNALTGAK 24 (156)
T ss_dssp EEEEEESTTSSHHHHHHHHHTTS
T ss_pred EEEEECCCCCCHHHHHHHHHCCC
Confidence 58999999999999999999954
No 221
>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=97.84 E-value=0.00018 Score=76.72 Aligned_cols=25 Identities=24% Similarity=0.639 Sum_probs=22.9
Q ss_pred CceEEeCcCCCChhhHHhhhcCCCc
Q psy5059 84 PQIVVVGTQSSGKSSVIESLVGKSF 108 (1036)
Q Consensus 84 PqIvVvG~QSsGKSSlLEal~G~~f 108 (1036)
|.|+++|..+||||||+..|.+..|
T Consensus 1 ~~vll~G~~~sGKTsL~~~l~~~~~ 25 (203)
T cd04105 1 PTVLLLGPSDSGKTALFTKLTTGKY 25 (203)
T ss_pred CeEEEEcCCCCCHHHHHHHHhcCCC
Confidence 7899999999999999999988764
No 222
>PRK00741 prfC peptide chain release factor 3; Provisional
Probab=97.84 E-value=0.00017 Score=87.37 Aligned_cols=94 Identities=14% Similarity=0.117 Sum_probs=58.9
Q ss_pred HHhhhccccCCceEEEEecccccCCCch-----hhhhhcCccccccccc------ccccc--------------------
Q psy5059 370 KLAKETDVDGRRTLAVVTKIDLMDAGTD-----AIDILCGRVIPVKLDV------DGRRT-------------------- 418 (1036)
Q Consensus 370 ~la~~~d~~g~rti~VitK~Dl~~~g~~-----~~~~l~~~~~~~~~~~------~~~~~-------------------- 418 (1036)
++.+.+...|.+.|.|+||+|+...... ..+.|.-+++|+.+++ .|+.+
T Consensus 122 ~l~~~~~~~~iPiiv~iNK~D~~~a~~~~~l~~i~~~l~~~~~p~~~Pig~~~~f~Gvvdl~~~~~~~~~~~~~~~~~~~ 201 (526)
T PRK00741 122 KLMEVCRLRDTPIFTFINKLDRDGREPLELLDEIEEVLGIACAPITWPIGMGKRFKGVYDLYNDEVELYQPGEGHTIQEV 201 (526)
T ss_pred HHHHHHHhcCCCEEEEEECCcccccCHHHHHHHHHHHhCCCCeeEEeccccCCceeEEEEeecceeeecccCCCCcceee
Confidence 3445555678999999999998765532 1244555677776532 11110
Q ss_pred ---------hHH--------HHHHHHH-----------HhhccCCCcceeeeecccchhhhHHHHHHhhhcCc
Q psy5059 419 ---------YIE--------AQIKQLV-----------LHYISNPNSIILAVVTANTDMATSESLKLAKETDV 463 (1036)
Q Consensus 419 ---------~~~--------~~l~~~v-----------~~~i~~~~~ipla~ISA~td~~~qeil~la~~vd~ 463 (1036)
.+. +++.+.+ ...+..-.-.|+.+.||+++..++.+++.....-|
T Consensus 202 e~~~~~dd~lle~~l~~~~~~~l~~~lel~~~~~~~~~~~~~~~~~~~PV~~GSA~~n~Gv~~LLd~i~~~~P 274 (526)
T PRK00741 202 EIIKGLDNPELDELLGEDLAEQLREELELVQGASNEFDLEAFLAGELTPVFFGSALNNFGVQEFLDAFVEWAP 274 (526)
T ss_pred eeccCCCHHHHHHHhcccHHHHHHHHHHhhhhcccchhHHHHhcCCeEEEEEeecccCcCHHHHHHHHHHHCC
Confidence 011 1111122 33444556789999999999999999999877744
No 223
>PRK09435 membrane ATPase/protein kinase; Provisional
Probab=97.84 E-value=0.00013 Score=83.40 Aligned_cols=57 Identities=12% Similarity=-0.011 Sum_probs=40.7
Q ss_pred EEEEecccccCCCchhhhhhcCcccccccccccccchHHHHHHHHHHhhccCC-----Cc-ceeeeecccchhhhHHHHH
Q psy5059 383 LAVVTKIDLMDAGTDAIDILCGRVIPVKLDVDGRRTYIEAQIKQLVLHYISNP-----NS-IILAVVTANTDMATSESLK 456 (1036)
Q Consensus 383 i~VitK~Dl~~~g~~~~~~l~~~~~~~~~~~~~~~~~~~~~l~~~v~~~i~~~-----~~-ipla~ISA~td~~~qeil~ 456 (1036)
|.|+||||+..... + +.....+...+... .| .|++.+||+++.++.++++
T Consensus 198 IiVVNKaDl~~~~~-a-----------------------~~~~~el~~~L~l~~~~~~~w~~pVi~vSA~~g~GIdeL~~ 253 (332)
T PRK09435 198 LIVINKADGDNKTA-A-----------------------RRAAAEYRSALRLLRPKDPGWQPPVLTCSALEGEGIDEIWQ 253 (332)
T ss_pred eEEeehhcccchhH-H-----------------------HHHHHHHHHHHhcccccccCCCCCEEEEECCCCCCHHHHHH
Confidence 89999999986531 1 23334455555443 35 7899999999999999998
Q ss_pred HhhhcCc
Q psy5059 457 LAKETDV 463 (1036)
Q Consensus 457 la~~vd~ 463 (1036)
...+..+
T Consensus 254 ~I~~~~~ 260 (332)
T PRK09435 254 AIEDHRA 260 (332)
T ss_pred HHHHHHH
Confidence 8766533
No 224
>PRK10218 GTP-binding protein; Provisional
Probab=97.84 E-value=6e-05 Score=92.53 Aligned_cols=24 Identities=21% Similarity=0.555 Sum_probs=21.4
Q ss_pred CCceEEeCcCCCChhhHHhhhcCC
Q psy5059 83 LPQIVVVGTQSSGKSSVIESLVGK 106 (1036)
Q Consensus 83 lPqIvVvG~QSsGKSSlLEal~G~ 106 (1036)
+-.|+++|..++|||||+++|.+.
T Consensus 5 iRnIaIiGh~d~GKTTLv~~Ll~~ 28 (607)
T PRK10218 5 LRNIAIIAHVDHGKTTLVDKLLQQ 28 (607)
T ss_pred ceEEEEECCCCCcHHHHHHHHHHh
Confidence 457999999999999999999863
No 225
>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=97.82 E-value=0.00011 Score=86.49 Aligned_cols=58 Identities=14% Similarity=0.183 Sum_probs=38.1
Q ss_pred CceEEEEecccccCCCchhhhhhcCcccccccccccccchHHHHHHHHHHhhcc--CCCcceeeeecccchhhhHHHHHH
Q psy5059 380 RRTLAVVTKIDLMDAGTDAIDILCGRVIPVKLDVDGRRTYIEAQIKQLVLHYIS--NPNSIILAVVTANTDMATSESLKL 457 (1036)
Q Consensus 380 ~rti~VitK~Dl~~~g~~~~~~l~~~~~~~~~~~~~~~~~~~~~l~~~v~~~i~--~~~~ipla~ISA~td~~~qeil~l 457 (1036)
++.|.|+||+|+.+..... .. ...+...+. .....++..+||+++.+..++++.
T Consensus 135 ~~iIVvvNK~Dl~~~~~~~-----------------------~~-~~~i~~~l~~~~~~~~~ii~vSA~~g~gi~~L~e~ 190 (406)
T TIGR03680 135 KNIVIVQNKIDLVSKEKAL-----------------------EN-YEEIKEFVKGTVAENAPIIPVSALHNANIDALLEA 190 (406)
T ss_pred CeEEEEEEccccCCHHHHH-----------------------HH-HHHHHhhhhhcccCCCeEEEEECCCCCChHHHHHH
Confidence 4689999999998642111 11 112222222 123568889999999999999988
Q ss_pred hhhc
Q psy5059 458 AKET 461 (1036)
Q Consensus 458 a~~v 461 (1036)
....
T Consensus 191 L~~~ 194 (406)
T TIGR03680 191 IEKF 194 (406)
T ss_pred HHHh
Confidence 8764
No 226
>PTZ00141 elongation factor 1- alpha; Provisional
Probab=97.81 E-value=9.6e-05 Score=87.96 Aligned_cols=60 Identities=13% Similarity=0.112 Sum_probs=38.1
Q ss_pred HhhhccccCCc-eEEEEecccccCCCc--hhhhhhcCcccccccccccccchHHHHHHHHHHhhccCCC----cceeeee
Q psy5059 371 LAKETDVDGRR-TLAVVTKIDLMDAGT--DAIDILCGRVIPVKLDVDGRRTYIEAQIKQLVLHYISNPN----SIILAVV 443 (1036)
Q Consensus 371 la~~~d~~g~r-ti~VitK~Dl~~~g~--~~~~~l~~~~~~~~~~~~~~~~~~~~~l~~~v~~~i~~~~----~ipla~I 443 (1036)
.+..++..|.+ .|.|+||+|+...++ +.. +.+.+.+..++.... .+|++-+
T Consensus 136 h~~~~~~~gi~~iiv~vNKmD~~~~~~~~~~~----------------------~~i~~~i~~~l~~~g~~~~~~~~ipi 193 (446)
T PTZ00141 136 HALLAFTLGVKQMIVCINKMDDKTVNYSQERY----------------------DEIKKEVSAYLKKVGYNPEKVPFIPI 193 (446)
T ss_pred HHHHHHHcCCCeEEEEEEccccccchhhHHHH----------------------HHHHHHHHHHHHhcCCCcccceEEEe
Confidence 44455566865 578999999542221 111 344555666665443 3889999
Q ss_pred cccchhhhH
Q psy5059 444 TANTDMATS 452 (1036)
Q Consensus 444 SA~td~~~q 452 (1036)
||.+|.+..
T Consensus 194 Sa~~g~ni~ 202 (446)
T PTZ00141 194 SGWQGDNMI 202 (446)
T ss_pred ecccCCCcc
Confidence 999998764
No 227
>PRK04000 translation initiation factor IF-2 subunit gamma; Validated
Probab=97.79 E-value=0.00018 Score=84.80 Aligned_cols=58 Identities=14% Similarity=0.200 Sum_probs=38.5
Q ss_pred CceEEEEecccccCCCchhhhhhcCcccccccccccccchHHHHHHHHHHhhcc--CCCcceeeeecccchhhhHHHHHH
Q psy5059 380 RRTLAVVTKIDLMDAGTDAIDILCGRVIPVKLDVDGRRTYIEAQIKQLVLHYIS--NPNSIILAVVTANTDMATSESLKL 457 (1036)
Q Consensus 380 ~rti~VitK~Dl~~~g~~~~~~l~~~~~~~~~~~~~~~~~~~~~l~~~v~~~i~--~~~~ipla~ISA~td~~~qeil~l 457 (1036)
.+.|.|+||+|+.+.... ....+.+...+. .....++..+||+++.+..++++.
T Consensus 140 ~~iiVVlNK~Dl~~~~~~------------------------~~~~~~i~~~l~~~~~~~~~ii~vSA~~g~gI~~L~~~ 195 (411)
T PRK04000 140 KNIVIVQNKIDLVSKERA------------------------LENYEQIKEFVKGTVAENAPIIPVSALHKVNIDALIEA 195 (411)
T ss_pred CcEEEEEEeeccccchhH------------------------HHHHHHHHHHhccccCCCCeEEEEECCCCcCHHHHHHH
Confidence 358999999999864221 111122233332 234578889999999999999988
Q ss_pred hhhc
Q psy5059 458 AKET 461 (1036)
Q Consensus 458 a~~v 461 (1036)
....
T Consensus 196 L~~~ 199 (411)
T PRK04000 196 IEEE 199 (411)
T ss_pred HHHh
Confidence 7664
No 228
>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=97.78 E-value=9.7e-05 Score=79.08 Aligned_cols=24 Identities=21% Similarity=0.556 Sum_probs=21.4
Q ss_pred ceEEeCcCCCChhhHHhhhcCCCc
Q psy5059 85 QIVVVGTQSSGKSSVIESLVGKSF 108 (1036)
Q Consensus 85 qIvVvG~QSsGKSSlLEal~G~~f 108 (1036)
.|+++|..++|||||+++|++..+
T Consensus 2 nv~iiG~~~~GKTtL~~~l~~~~~ 25 (213)
T cd04167 2 NVAIAGHLHHGKTSLLDMLIEQTH 25 (213)
T ss_pred cEEEEcCCCCCHHHHHHHHHHhcC
Confidence 489999999999999999998663
No 229
>PRK13351 elongation factor G; Reviewed
Probab=97.76 E-value=0.00035 Score=87.71 Aligned_cols=30 Identities=7% Similarity=-0.022 Sum_probs=25.1
Q ss_pred cCCCcceeeeecccchhhhHHHHHHhhhcC
Q psy5059 433 SNPNSIILAVVTANTDMATSESLKLAKETD 462 (1036)
Q Consensus 433 ~~~~~ipla~ISA~td~~~qeil~la~~vd 462 (1036)
..-.+.|+.+.||+++..++.+++.....-
T Consensus 248 ~~~~~~PV~~gSA~~~~Gv~~LLd~I~~~l 277 (687)
T PRK13351 248 RSGHLVPVLFGSALKNIGIEPLLDAVVDYL 277 (687)
T ss_pred HhCCEEEEEecccCcCccHHHHHHHHHHHC
Confidence 344589999999999999999998876653
No 230
>COG2262 HflX GTPases [General function prediction only]
Probab=97.74 E-value=0.00037 Score=80.04 Aligned_cols=62 Identities=18% Similarity=0.135 Sum_probs=44.0
Q ss_pred HHHHhhhccccCCceEEEEecccccCCCchhhhhhcCcccccccccccccchHHHHHHHHHHhhccCCCcceeeeecccc
Q psy5059 368 SLKLAKETDVDGRRTLAVVTKIDLMDAGTDAIDILCGRVIPVKLDVDGRRTYIEAQIKQLVLHYISNPNSIILAVVTANT 447 (1036)
Q Consensus 368 ~~~la~~~d~~g~rti~VitK~Dl~~~g~~~~~~l~~~~~~~~~~~~~~~~~~~~~l~~~v~~~i~~~~~ipla~ISA~t 447 (1036)
+..+-.++.-...++|.|+||+|++.... . ...+....+ ..++|||++
T Consensus 293 v~~vL~el~~~~~p~i~v~NKiD~~~~~~-~------------------------------~~~~~~~~~-~~v~iSA~~ 340 (411)
T COG2262 293 VEDVLAEIGADEIPIILVLNKIDLLEDEE-I------------------------------LAELERGSP-NPVFISAKT 340 (411)
T ss_pred HHHHHHHcCCCCCCEEEEEecccccCchh-h------------------------------hhhhhhcCC-CeEEEEecc
Confidence 35677888788899999999999987643 0 011111112 578999999
Q ss_pred hhhhHHHHHHhhhc
Q psy5059 448 DMATSESLKLAKET 461 (1036)
Q Consensus 448 d~~~qeil~la~~v 461 (1036)
+.+...+.+...+.
T Consensus 341 ~~gl~~L~~~i~~~ 354 (411)
T COG2262 341 GEGLDLLRERIIEL 354 (411)
T ss_pred CcCHHHHHHHHHHH
Confidence 99998888776554
No 231
>KOG0094|consensus
Probab=97.68 E-value=0.00032 Score=72.89 Aligned_cols=63 Identities=14% Similarity=0.015 Sum_probs=40.6
Q ss_pred hccccCCceEEEEecccccCCCchhhhhhcCcccccccccccccchHHHHHHHHHHhhccCCCcceeeeecccchhhhHH
Q psy5059 374 ETDVDGRRTLAVVTKIDLMDAGTDAIDILCGRVIPVKLDVDGRRTYIEAQIKQLVLHYISNPNSIILAVVTANTDMATSE 453 (1036)
Q Consensus 374 ~~d~~g~rti~VitK~Dl~~~g~~~~~~l~~~~~~~~~~~~~~~~~~~~~l~~~v~~~i~~~~~ipla~ISA~td~~~qe 453 (1036)
+=++++...+.|.||.||.++. ++..+-..+......+...-+||+.|.++.+
T Consensus 123 e~gs~~viI~LVGnKtDL~dkr---------------------------qvs~eEg~~kAkel~a~f~etsak~g~NVk~ 175 (221)
T KOG0094|consen 123 ERGSDDVIIFLVGNKTDLSDKR---------------------------QVSIEEGERKAKELNAEFIETSAKAGENVKQ 175 (221)
T ss_pred ccCCCceEEEEEcccccccchh---------------------------hhhHHHHHHHHHHhCcEEEEecccCCCCHHH
Confidence 3344556667788999999873 2222222233333444666789999999999
Q ss_pred HHHHhhhcCc
Q psy5059 454 SLKLAKETDV 463 (1036)
Q Consensus 454 il~la~~vd~ 463 (1036)
+|.-+...-+
T Consensus 176 lFrrIaa~l~ 185 (221)
T KOG0094|consen 176 LFRRIAAALP 185 (221)
T ss_pred HHHHHHHhcc
Confidence 9877555433
No 232
>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=97.68 E-value=0.00027 Score=76.46 Aligned_cols=21 Identities=24% Similarity=0.529 Sum_probs=19.3
Q ss_pred eEEeCcCCCChhhHHhhhcCC
Q psy5059 86 IVVVGTQSSGKSSVIESLVGK 106 (1036)
Q Consensus 86 IvVvG~QSsGKSSlLEal~G~ 106 (1036)
|+++|.-.+|||||+++|+..
T Consensus 3 vaiiGhvd~GKTTL~d~Ll~~ 23 (222)
T cd01885 3 ICIIAHVDHGKTTLSDSLLAS 23 (222)
T ss_pred EEEECCCCCCHHHHHHHHHHH
Confidence 799999999999999999754
No 233
>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=97.65 E-value=0.00027 Score=73.66 Aligned_cols=24 Identities=25% Similarity=0.479 Sum_probs=21.7
Q ss_pred ceEEeCcCCCChhhHHhhhcCCCc
Q psy5059 85 QIVVVGTQSSGKSSVIESLVGKSF 108 (1036)
Q Consensus 85 qIvVvG~QSsGKSSlLEal~G~~f 108 (1036)
+|+++|+.++||||++..+..-.|
T Consensus 3 kivv~G~~~vGKTsli~~~~~~~f 26 (176)
T cd04133 3 KCVTVGDGAVGKTCMLICYTSNKF 26 (176)
T ss_pred EEEEECCCCCcHHHHHHHHhcCCC
Confidence 689999999999999999987665
No 234
>KOG0448|consensus
Probab=97.65 E-value=0.00021 Score=85.84 Aligned_cols=42 Identities=36% Similarity=0.578 Sum_probs=38.6
Q ss_pred CCceEEeCcCCCChhhHHhhhcCCCcCcccccccccCceEEE
Q psy5059 83 LPQIVVVGTQSSGKSSVIESLVGKSFLPRGIGIVTRRPLILQ 124 (1036)
Q Consensus 83 lPqIvVvG~QSsGKSSlLEal~G~~flPrg~G~cTR~Pl~l~ 124 (1036)
--++++.|+-|+|||+|++|+.-.+.||-|.|.||-|=+++.
T Consensus 109 ~mKV~ifGrts~GKSt~iNAmL~~klLP~g~gh~TncF~~Ve 150 (749)
T KOG0448|consen 109 HMKVAIFGRTSAGKSTVINAMLHKKLLPSGIGHTTNCFLEVE 150 (749)
T ss_pred ccEEEEeCCCCCcHHHHHHHHHHHhhCcccccccceeeeeec
Confidence 468999999999999999999999999999999998877654
No 235
>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=97.62 E-value=0.00019 Score=76.45 Aligned_cols=37 Identities=14% Similarity=0.149 Sum_probs=26.3
Q ss_pred cccceeecCCCccccCCCCCchhHHHHHHHHHHHhhcCCCcEEEEEeccc
Q psy5059 240 VLNLTLVDLPGITKVPVGDQPDDIEAQIKQLVLHYISNPNSIILAVVTAN 289 (1036)
Q Consensus 240 ~~~LtlVDLPGi~~~~~~~q~~di~~~ir~lv~~yI~~~n~IIL~V~~An 289 (1036)
...|.|.|+||-- ..+.|...|.+..+++|++....+
T Consensus 43 ~~~l~iwDt~G~e-------------~~~~l~~~~~~~ad~~ilV~D~t~ 79 (200)
T smart00176 43 PIRFNVWDTAGQE-------------KFGGLRDGYYIQGQCAIIMFDVTA 79 (200)
T ss_pred EEEEEEEECCCch-------------hhhhhhHHHhcCCCEEEEEEECCC
Confidence 3567889999942 245677789999998777765433
No 236
>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=97.61 E-value=7.1e-05 Score=76.13 Aligned_cols=23 Identities=35% Similarity=0.537 Sum_probs=21.1
Q ss_pred ceEEeCcCCCChhhHHhhhcCCC
Q psy5059 85 QIVVVGTQSSGKSSVIESLVGKS 107 (1036)
Q Consensus 85 qIvVvG~QSsGKSSlLEal~G~~ 107 (1036)
.|+++|.+|+|||||+++|.|..
T Consensus 104 ~v~~~G~~nvGKStliN~l~~~~ 126 (157)
T cd01858 104 SVGFIGYPNVGKSSIINTLRSKK 126 (157)
T ss_pred EEEEEeCCCCChHHHHHHHhcCC
Confidence 57899999999999999999876
No 237
>PRK12740 elongation factor G; Reviewed
Probab=97.59 E-value=0.0005 Score=86.07 Aligned_cols=34 Identities=6% Similarity=-0.127 Sum_probs=27.1
Q ss_pred HhhccCCCcceeeeecccchhhhHHHHHHhhhcC
Q psy5059 429 LHYISNPNSIILAVVTANTDMATSESLKLAKETD 462 (1036)
Q Consensus 429 ~~~i~~~~~ipla~ISA~td~~~qeil~la~~vd 462 (1036)
...+..-.+.|+.+.||.++..++.+++.....-
T Consensus 228 ~~~~~~~~~~Pv~~gSA~~~~Gv~~LLd~i~~~l 261 (668)
T PRK12740 228 RKATLAGEIVPVFCGSALKNKGVQRLLDAVVDYL 261 (668)
T ss_pred HHHHHcCCEEEEEeccccCCccHHHHHHHHHHHC
Confidence 3334455789999999999999999998876653
No 238
>COG1100 GTPase SAR1 and related small G proteins [General function prediction only]
Probab=97.57 E-value=0.0011 Score=70.61 Aligned_cols=25 Identities=40% Similarity=0.735 Sum_probs=23.2
Q ss_pred CceEEeCcCCCChhhHHhhhcCCCc
Q psy5059 84 PQIVVVGTQSSGKSSVIESLVGKSF 108 (1036)
Q Consensus 84 PqIvVvG~QSsGKSSlLEal~G~~f 108 (1036)
=+|+|+|+.|+||||++.++.+..|
T Consensus 6 ~kivv~G~~g~GKTtl~~~l~~~~~ 30 (219)
T COG1100 6 FKIVVLGDGGVGKTTLLNRLVGDEF 30 (219)
T ss_pred EEEEEEcCCCccHHHHHHHHhcCcC
Confidence 3799999999999999999999886
No 239
>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=97.56 E-value=0.00064 Score=68.53 Aligned_cols=24 Identities=46% Similarity=0.771 Sum_probs=22.0
Q ss_pred ceEEeCcCCCChhhHHhhhcCCCc
Q psy5059 85 QIVVVGTQSSGKSSVIESLVGKSF 108 (1036)
Q Consensus 85 qIvVvG~QSsGKSSlLEal~G~~f 108 (1036)
+|+|+|+.++||||++..+.+..|
T Consensus 1 Ki~vvG~~~vGKtsl~~~~~~~~~ 24 (162)
T PF00071_consen 1 KIVVVGDSGVGKTSLINRLINGEF 24 (162)
T ss_dssp EEEEEESTTSSHHHHHHHHHHSST
T ss_pred CEEEECCCCCCHHHHHHHHHhhcc
Confidence 589999999999999999988775
No 240
>PTZ00327 eukaryotic translation initiation factor 2 gamma subunit; Provisional
Probab=97.55 E-value=0.00066 Score=80.96 Aligned_cols=57 Identities=11% Similarity=0.189 Sum_probs=39.0
Q ss_pred CceEEEEecccccCCCchhhhhhcCcccccccccccccchHHHHHHHHHHhhcc--CCCcceeeeecccchhhhHHHHHH
Q psy5059 380 RRTLAVVTKIDLMDAGTDAIDILCGRVIPVKLDVDGRRTYIEAQIKQLVLHYIS--NPNSIILAVVTANTDMATSESLKL 457 (1036)
Q Consensus 380 ~rti~VitK~Dl~~~g~~~~~~l~~~~~~~~~~~~~~~~~~~~~l~~~v~~~i~--~~~~ipla~ISA~td~~~qeil~l 457 (1036)
++.|.|+||+|+.+...- ......+..+++ +....+++.+||+++.+...+++.
T Consensus 172 ~~iIVvlNKiDlv~~~~~------------------------~~~~~ei~~~l~~~~~~~~~iipVSA~~G~nI~~Ll~~ 227 (460)
T PTZ00327 172 KHIIILQNKIDLVKEAQA------------------------QDQYEEIRNFVKGTIADNAPIIPISAQLKYNIDVVLEY 227 (460)
T ss_pred CcEEEEEecccccCHHHH------------------------HHHHHHHHHHHHhhccCCCeEEEeeCCCCCCHHHHHHH
Confidence 467899999999863211 112223333332 246789999999999999999988
Q ss_pred hhh
Q psy5059 458 AKE 460 (1036)
Q Consensus 458 a~~ 460 (1036)
..+
T Consensus 228 L~~ 230 (460)
T PTZ00327 228 ICT 230 (460)
T ss_pred HHh
Confidence 874
No 241
>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=97.55 E-value=0.00024 Score=73.78 Aligned_cols=58 Identities=24% Similarity=0.286 Sum_probs=40.3
Q ss_pred ccCCceEEEEecccccCCCchhhhhhcCcccccccccccccchHHHHHHHHH-HhhccCCCcceeeeecccchhhhHHHH
Q psy5059 377 VDGRRTLAVVTKIDLMDAGTDAIDILCGRVIPVKLDVDGRRTYIEAQIKQLV-LHYISNPNSIILAVVTANTDMATSESL 455 (1036)
Q Consensus 377 ~~g~rti~VitK~Dl~~~g~~~~~~l~~~~~~~~~~~~~~~~~~~~~l~~~v-~~~i~~~~~ipla~ISA~td~~~qeil 455 (1036)
-.+.+.++++||-|+.+.-.. .++...+ .+.+.+-....+.-+||.+|.++.+.+
T Consensus 113 ~~~~piLIl~NK~D~~~~~~~------------------------~~i~~~l~l~~l~~~~~~~v~~~sa~~g~Gv~e~l 168 (175)
T PF00025_consen 113 LKDIPILILANKQDLPDAMSE------------------------EEIKEYLGLEKLKNKRPWSVFSCSAKTGEGVDEGL 168 (175)
T ss_dssp GTTSEEEEEEESTTSTTSSTH------------------------HHHHHHTTGGGTTSSSCEEEEEEBTTTTBTHHHHH
T ss_pred cccceEEEEeccccccCcchh------------------------hHHHhhhhhhhcccCCceEEEeeeccCCcCHHHHH
Confidence 357899999999998765332 2233322 344454566677789999999999988
Q ss_pred HHh
Q psy5059 456 KLA 458 (1036)
Q Consensus 456 ~la 458 (1036)
+..
T Consensus 169 ~WL 171 (175)
T PF00025_consen 169 EWL 171 (175)
T ss_dssp HHH
T ss_pred HHH
Confidence 764
No 242
>COG4917 EutP Ethanolamine utilization protein [Amino acid transport and metabolism]
Probab=97.53 E-value=0.00024 Score=68.92 Aligned_cols=28 Identities=32% Similarity=0.540 Sum_probs=24.7
Q ss_pred ceEEeCcCCCChhhHHhhhcCCCcCccc
Q psy5059 85 QIVVVGTQSSGKSSVIESLVGKSFLPRG 112 (1036)
Q Consensus 85 qIvVvG~QSsGKSSlLEal~G~~flPrg 112 (1036)
+|++||.-++||++|.++|-|...+|+.
T Consensus 3 ri~~vG~~gcGKTtL~q~L~G~~~lykK 30 (148)
T COG4917 3 RIAFVGQVGCGKTTLFQSLYGNDTLYKK 30 (148)
T ss_pred eeEEecccccCchhHHHHhhcchhhhcc
Confidence 6899999999999999999998865543
No 243
>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=97.53 E-value=0.00013 Score=84.06 Aligned_cols=44 Identities=30% Similarity=0.479 Sum_probs=29.3
Q ss_pred hhHHHHHHHHHhhhhcCCCCCCCCceEEeCcCCCChhhHHhhhcCCC
Q psy5059 61 TAAAVINKLQDVFNTVGTDAIQLPQIVVVGTQSSGKSSVIESLVGKS 107 (1036)
Q Consensus 61 ~~~~l~~kL~~~~~~~g~~~i~lPqIvVvG~QSsGKSSlLEal~G~~ 107 (1036)
.+-+...++++.+...... --.|+|+|+.+|||||++|||-|..
T Consensus 16 ~~~~~~s~i~~~l~~~~~~---~l~IaV~G~sGsGKSSfINalrGl~ 59 (376)
T PF05049_consen 16 NLQEVVSKIREALKDIDNA---PLNIAVTGESGSGKSSFINALRGLG 59 (376)
T ss_dssp -HHHHHHHHHHHHHHHHH-----EEEEEEESTTSSHHHHHHHHTT--
T ss_pred CHHHHHHHHHHHHHHhhcC---ceEEEEECCCCCCHHHHHHHHhCCC
Confidence 3445566666654433221 2279999999999999999998875
No 244
>COG0218 Predicted GTPase [General function prediction only]
Probab=97.52 E-value=7.8e-05 Score=78.32 Aligned_cols=36 Identities=33% Similarity=0.477 Sum_probs=31.5
Q ss_pred CCCeEEEeccCCCchHHHHHhhhcCCcccccCCccc
Q psy5059 6 QLPQIVVVGTQSSGKSSVIESLVGKSFLPRGIGIVT 41 (1036)
Q Consensus 6 ~lp~i~vvg~~~~gkss~~~~~~g~~~~pr~~~~~t 41 (1036)
++|.||++||.||||||++|+|+|+.-|-|-+++|-
T Consensus 23 ~~~EIaF~GRSNVGKSSlIN~l~~~k~LArtSktPG 58 (200)
T COG0218 23 DLPEIAFAGRSNVGKSSLINALTNQKNLARTSKTPG 58 (200)
T ss_pred CCcEEEEEccCcccHHHHHHHHhCCcceeecCCCCC
Confidence 689999999999999999999999776777766643
No 245
>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=97.43 E-value=0.00027 Score=70.69 Aligned_cols=60 Identities=30% Similarity=0.279 Sum_probs=38.9
Q ss_pred ccEEEeeccCCCchhhhhhhHHHHHHHHHhhhhcCC------CCCCCCceEEeCcCCCChhhHHhhhcCCCc
Q psy5059 43 RPLILQLYYCPKDDREKRTAAAVINKLQDVFNTVGT------DAIQLPQIVVVGTQSSGKSSVIESLVGKSF 108 (1036)
Q Consensus 43 rpl~l~l~~~~~~~~~~~~~~~l~~kL~~~~~~~g~------~~i~lPqIvVvG~QSsGKSSlLEal~G~~f 108 (1036)
+|+++.+||+|-.... ......+.++ ..|. ..-.-..++++|.+|+||||++++|.|..+
T Consensus 43 k~~iivlNK~DL~~~~--~~~~~~~~~~----~~~~~ii~iSa~~~~~~~~~~G~~~vGKstlin~l~~~~~ 108 (141)
T cd01857 43 KKNILLLNKADLLTEE--QRKAWAEYFK----KEGIVVVFFSALKENATIGLVGYPNVGKSSLINALVGKKK 108 (141)
T ss_pred CcEEEEEechhcCCHH--HHHHHHHHHH----hcCCeEEEEEecCCCcEEEEECCCCCCHHHHHHHHhCCCc
Confidence 4999999999863221 2222333333 2221 001123899999999999999999998763
No 246
>KOG2486|consensus
Probab=97.43 E-value=0.00044 Score=75.55 Aligned_cols=60 Identities=13% Similarity=0.142 Sum_probs=46.6
Q ss_pred HHHHHHHHhhhcCCCce--EEEEEecCccccchHHHHHhhhccccCCceEEEEecccccCCCc
Q psy5059 336 AQIKQLVLHYISNPNSI--ILAVVTANTDMATSESLKLAKETDVDGRRTLAVVTKIDLMDAGT 396 (1036)
Q Consensus 336 ~~~~~~~~~y~~~~~~~--~~~~v~~~~d~~~~~~~~la~~~d~~g~rti~VitK~Dl~~~g~ 396 (1036)
+-|-++.+.|+.++.++ ++.+|++.....+-+ .-.|.++-..+.+.-.|+||+|.+-++-
T Consensus 204 ~d~~~~t~~Y~leR~nLv~~FLLvd~sv~i~~~D-~~~i~~~ge~~VP~t~vfTK~DK~k~~~ 265 (320)
T KOG2486|consen 204 ADWDKFTKSYLLERENLVRVFLLVDASVPIQPTD-NPEIAWLGENNVPMTSVFTKCDKQKKVK 265 (320)
T ss_pred chHhHhHHHHHHhhhhhheeeeeeeccCCCCCCC-hHHHHHHhhcCCCeEEeeehhhhhhhcc
Confidence 34677888999998887 777888877655555 3456778888999999999999987654
No 247
>COG0536 Obg Predicted GTPase [General function prediction only]
Probab=97.37 E-value=0.0015 Score=73.45 Aligned_cols=57 Identities=19% Similarity=0.195 Sum_probs=37.5
Q ss_pred CCceEEEEecccccCCCchhhhhhcCcccccccccccccchHHHHHHHHHHhhccCCCcceeeeecccchhhhHHHHHHh
Q psy5059 379 GRRTLAVVTKIDLMDAGTDAIDILCGRVIPVKLDVDGRRTYIEAQIKQLVLHYISNPNSIILAVVTANTDMATSESLKLA 458 (1036)
Q Consensus 379 g~rti~VitK~Dl~~~g~~~~~~l~~~~~~~~~~~~~~~~~~~~~l~~~v~~~i~~~~~ipla~ISA~td~~~qeil~la 458 (1036)
.+..|.|+||+|+...... ++...........|.+..+|||.++..++.++...
T Consensus 275 ~K~~ivv~NKiD~~~~~e~--------------------------~~~~~~~l~~~~~~~~~~~ISa~t~~g~~~L~~~~ 328 (369)
T COG0536 275 EKPRIVVLNKIDLPLDEEE--------------------------LEELKKALAEALGWEVFYLISALTREGLDELLRAL 328 (369)
T ss_pred cCceEEEEeccCCCcCHHH--------------------------HHHHHHHHHHhcCCCcceeeehhcccCHHHHHHHH
Confidence 4667899999996654322 22222233334556655559999999999988776
Q ss_pred hhc
Q psy5059 459 KET 461 (1036)
Q Consensus 459 ~~v 461 (1036)
.+.
T Consensus 329 ~~~ 331 (369)
T COG0536 329 AEL 331 (369)
T ss_pred HHH
Confidence 555
No 248
>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=97.37 E-value=0.0013 Score=68.69 Aligned_cols=24 Identities=29% Similarity=0.584 Sum_probs=21.1
Q ss_pred ceEEeCcCCCChhhHHhhhcCCCc
Q psy5059 85 QIVVVGTQSSGKSSVIESLVGKSF 108 (1036)
Q Consensus 85 qIvVvG~QSsGKSSlLEal~G~~f 108 (1036)
+|+|+|+.++|||||+.++.+-.|
T Consensus 3 Ki~ivG~~g~GKStLl~~l~~~~~ 26 (187)
T cd04129 3 KLVIVGDGACGKTSLLSVFTLGEF 26 (187)
T ss_pred EEEEECCCCCCHHHHHHHHHhCCC
Confidence 689999999999999999985553
No 249
>TIGR00073 hypB hydrogenase accessory protein HypB. HypB is implicated in insertion of nickel into the large subunit of NiFe hydrogenases.
Probab=97.32 E-value=0.0029 Score=67.54 Aligned_cols=57 Identities=18% Similarity=0.163 Sum_probs=39.4
Q ss_pred CCceEEEEecccccCCCchhhhhhcCcccccccccccccchHHHHHHHHHHhhccCCCcceeeeecccchhhhHHHHHHh
Q psy5059 379 GRRTLAVVTKIDLMDAGTDAIDILCGRVIPVKLDVDGRRTYIEAQIKQLVLHYISNPNSIILAVVTANTDMATSESLKLA 458 (1036)
Q Consensus 379 g~rti~VitK~Dl~~~g~~~~~~l~~~~~~~~~~~~~~~~~~~~~l~~~v~~~i~~~~~ipla~ISA~td~~~qeil~la 458 (1036)
+...++|+||||+.+...... +.+...+.+. ....++..+||+++.++.++++.+
T Consensus 148 ~~a~iiv~NK~Dl~~~~~~~~----------------------~~~~~~l~~~---~~~~~i~~~Sa~~g~gv~~l~~~i 202 (207)
T TIGR00073 148 KEADLIVINKADLAEAVGFDV----------------------EKMKADAKKI---NPEAEIILMSLKTGEGLDEWLEFL 202 (207)
T ss_pred hhCCEEEEEHHHccccchhhH----------------------HHHHHHHHHh---CCCCCEEEEECCCCCCHHHHHHHH
Confidence 455699999999986422211 2333334332 245789999999999999999887
Q ss_pred hh
Q psy5059 459 KE 460 (1036)
Q Consensus 459 ~~ 460 (1036)
.+
T Consensus 203 ~~ 204 (207)
T TIGR00073 203 EG 204 (207)
T ss_pred HH
Confidence 54
No 250
>COG1159 Era GTPase [General function prediction only]
Probab=97.31 E-value=0.00035 Score=77.35 Aligned_cols=83 Identities=27% Similarity=0.380 Sum_probs=54.6
Q ss_pred eEEEeccCCCchHHHHHhhhc-----CCccc-----ccCCccccccEEEeeccCCCchhhhhhhHHHHHHHHHhhhhcCC
Q psy5059 9 QIVVVGTQSSGKSSVIESLVG-----KSFLP-----RGIGIVTRRPLILQLYYCPKDDREKRTAAAVINKLQDVFNTVGT 78 (1036)
Q Consensus 9 ~i~vvg~~~~gkss~~~~~~g-----~~~~p-----r~~~~~trrpl~l~l~~~~~~~~~~~~~~~l~~kL~~~~~~~g~ 78 (1036)
-|+|||+||||||||+|+|+| ++-.| +=.|+.|...--+.+.-+|+--...+.+...+++.-. .++
T Consensus 8 fVaIiGrPNvGKSTLlN~l~G~KisIvS~k~QTTR~~I~GI~t~~~~QiIfvDTPGih~pk~~l~~~m~~~a~--~sl-- 83 (298)
T COG1159 8 FVAIIGRPNVGKSTLLNALVGQKISIVSPKPQTTRNRIRGIVTTDNAQIIFVDTPGIHKPKHALGELMNKAAR--SAL-- 83 (298)
T ss_pred EEEEEcCCCCcHHHHHHHHhcCceEeecCCcchhhhheeEEEEcCCceEEEEeCCCCCCcchHHHHHHHHHHH--HHh--
Confidence 489999999999999999999 44334 2356666666666666667644556667776665543 222
Q ss_pred CCCCCCceEEeCcCCCC
Q psy5059 79 DAIQLPQIVVVGTQSSG 95 (1036)
Q Consensus 79 ~~i~lPqIvVvG~QSsG 95 (1036)
.++++-=.+|=++++-|
T Consensus 84 ~dvDlilfvvd~~~~~~ 100 (298)
T COG1159 84 KDVDLILFVVDADEGWG 100 (298)
T ss_pred ccCcEEEEEEeccccCC
Confidence 34566556666655433
No 251
>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=97.30 E-value=0.0022 Score=77.86 Aligned_cols=32 Identities=9% Similarity=-0.119 Sum_probs=26.7
Q ss_pred ccCCCcceeeeecccchhhhHHHHHHhhhcCc
Q psy5059 432 ISNPNSIILAVVTANTDMATSESLKLAKETDV 463 (1036)
Q Consensus 432 i~~~~~ipla~ISA~td~~~qeil~la~~vd~ 463 (1036)
+..-.-.|+.+.||+++..++.+++.....-|
T Consensus 244 ~~~~~~~PV~~GSA~~n~Gv~~LLd~i~~~~P 275 (527)
T TIGR00503 244 FHGGEMTPVFFGTALGNFGVDHFLDGLLQWAP 275 (527)
T ss_pred HhcCCeeEEEEeecccCccHHHHHHHHHHHCC
Confidence 34556789999999999999999999877744
No 252
>KOG0078|consensus
Probab=97.29 E-value=0.0012 Score=69.60 Aligned_cols=65 Identities=18% Similarity=0.137 Sum_probs=43.0
Q ss_pred HhhhccccCCceEEEEecccccCCCchhhhhhcCcccccccccccccchHHHHHHHHHHhhccCCCcceeeeecccchhh
Q psy5059 371 LAKETDVDGRRTLAVVTKIDLMDAGTDAIDILCGRVIPVKLDVDGRRTYIEAQIKQLVLHYISNPNSIILAVVTANTDMA 450 (1036)
Q Consensus 371 la~~~d~~g~rti~VitK~Dl~~~g~~~~~~l~~~~~~~~~~~~~~~~~~~~~l~~~v~~~i~~~~~ipla~ISA~td~~ 450 (1036)
..++.-+++...|.|.||+|+-++..- ..+--+.+..-.-++..-+||+++.+
T Consensus 109 ~I~e~a~~~v~~~LvGNK~D~~~~R~V---------------------------~~e~ge~lA~e~G~~F~EtSAk~~~N 161 (207)
T KOG0078|consen 109 NIDEHASDDVVKILVGNKCDLEEKRQV---------------------------SKERGEALAREYGIKFFETSAKTNFN 161 (207)
T ss_pred HHHhhCCCCCcEEEeeccccccccccc---------------------------cHHHHHHHHHHhCCeEEEccccCCCC
Confidence 334445668889999999999874321 11222233333356677899999999
Q ss_pred hHHHH-HHhhhcC
Q psy5059 451 TSESL-KLAKETD 462 (1036)
Q Consensus 451 ~qeil-~la~~vd 462 (1036)
+.+.| .+|+++-
T Consensus 162 I~eaF~~La~~i~ 174 (207)
T KOG0078|consen 162 IEEAFLSLARDIL 174 (207)
T ss_pred HHHHHHHHHHHHH
Confidence 99985 6676664
No 253
>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=97.29 E-value=0.0017 Score=66.24 Aligned_cols=24 Identities=29% Similarity=0.563 Sum_probs=21.3
Q ss_pred ceEEeCcCCCChhhHHhhhcCCCc
Q psy5059 85 QIVVVGTQSSGKSSVIESLVGKSF 108 (1036)
Q Consensus 85 qIvVvG~QSsGKSSlLEal~G~~f 108 (1036)
+|+++|+.++||||++..+.+..|
T Consensus 2 ki~vvG~~gvGKTsli~~~~~~~f 25 (158)
T cd04103 2 KLGIVGNLQSGKSALVHRYLTGSY 25 (158)
T ss_pred EEEEECCCCCcHHHHHHHHHhCCC
Confidence 689999999999999998876665
No 254
>COG2229 Predicted GTPase [General function prediction only]
Probab=97.28 E-value=0.0047 Score=64.02 Aligned_cols=77 Identities=12% Similarity=0.131 Sum_probs=50.4
Q ss_pred EEEEEecCccccchHHHHHhhhccccC-CceEEEEecccccCCCchhhhhhcCcccccccccccccchHHHHHHHHHHhh
Q psy5059 353 ILAVVTANTDMATSESLKLAKETDVDG-RRTLAVVTKIDLMDAGTDAIDILCGRVIPVKLDVDGRRTYIEAQIKQLVLHY 431 (1036)
Q Consensus 353 ~~~~v~~~~d~~~~~~~~la~~~d~~g-~rti~VitK~Dl~~~g~~~~~~l~~~~~~~~~~~~~~~~~~~~~l~~~v~~~ 431 (1036)
.+.+|+++.+... .+.++........ -+.++.+||-||.+.-.-. .+.++
T Consensus 95 aivlVDss~~~~~-~a~~ii~f~~~~~~ip~vVa~NK~DL~~a~ppe----------------------------~i~e~ 145 (187)
T COG2229 95 AIVLVDSSRPITF-HAEEIIDFLTSRNPIPVVVAINKQDLFDALPPE----------------------------KIREA 145 (187)
T ss_pred EEEEEecCCCcch-HHHHHHHHHhhccCCCEEEEeeccccCCCCCHH----------------------------HHHHH
Confidence 4555565555555 6677777777777 8999999999999864321 23333
Q ss_pred ccCC-CcceeeeecccchhhhHHHHHHh
Q psy5059 432 ISNP-NSIILAVVTANTDMATSESLKLA 458 (1036)
Q Consensus 432 i~~~-~~ipla~ISA~td~~~qeil~la 458 (1036)
+... ...|.+.++|..+....+.+...
T Consensus 146 l~~~~~~~~vi~~~a~e~~~~~~~L~~l 173 (187)
T COG2229 146 LKLELLSVPVIEIDATEGEGARDQLDVL 173 (187)
T ss_pred HHhccCCCceeeeecccchhHHHHHHHH
Confidence 3333 57777778887666555555443
No 255
>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=97.21 E-value=0.00061 Score=75.98 Aligned_cols=37 Identities=24% Similarity=0.319 Sum_probs=28.1
Q ss_pred eEEeCcCCCChhhHHhhhcCCCcCcccccccccCceE
Q psy5059 86 IVVVGTQSSGKSSVIESLVGKSFLPRGIGIVTRRPLI 122 (1036)
Q Consensus 86 IvVvG~QSsGKSSlLEal~G~~flPrg~G~cTR~Pl~ 122 (1036)
|++||-+|+||||++++|+|...-+.+-.-||+-|..
T Consensus 1 igivG~PN~GKSTLfn~Lt~~~~~~~n~pftTi~p~~ 37 (274)
T cd01900 1 IGIVGLPNVGKSTLFNALTKAGAEAANYPFCTIEPNV 37 (274)
T ss_pred CeEeCCCCCcHHHHHHHHhCCCCccccccccchhcee
Confidence 5789999999999999999988533333456666643
No 256
>PLN00043 elongation factor 1-alpha; Provisional
Probab=97.10 E-value=0.0024 Score=76.19 Aligned_cols=21 Identities=43% Similarity=0.589 Sum_probs=19.0
Q ss_pred ceEEeCcCCCChhhHHhhhcC
Q psy5059 85 QIVVVGTQSSGKSSVIESLVG 105 (1036)
Q Consensus 85 qIvVvG~QSsGKSSlLEal~G 105 (1036)
-|+++|.-.+|||||+++|.-
T Consensus 9 ni~i~Ghvd~GKSTL~g~Ll~ 29 (447)
T PLN00043 9 NIVVIGHVDSGKSTTTGHLIY 29 (447)
T ss_pred EEEEEecCCCCHHHHHHHHHH
Confidence 389999999999999999973
No 257
>KOG1490|consensus
Probab=97.09 E-value=0.0029 Score=73.88 Aligned_cols=40 Identities=15% Similarity=0.238 Sum_probs=27.9
Q ss_pred HHHHHHhhhhcCCCCCCCCceEEeCcCCCChhhHHhhhcC
Q psy5059 66 INKLQDVFNTVGTDAIQLPQIVVVGTQSSGKSSVIESLVG 105 (1036)
Q Consensus 66 ~~kL~~~~~~~g~~~i~lPqIvVvG~QSsGKSSlLEal~G 105 (1036)
+..++..+..+-.-+.+.+.+.|||-+++||||+++-++-
T Consensus 151 LeqVrqhl~rlPsIDp~trTlllcG~PNVGKSSf~~~vtr 190 (620)
T KOG1490|consen 151 LEQVRQHLSRLPAIDPNTRTLLVCGYPNVGKSSFNNKVTR 190 (620)
T ss_pred HHHHHHHHhcCCCCCCCcCeEEEecCCCCCcHhhcccccc
Confidence 3333443344444566789999999999999997776653
No 258
>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=97.09 E-value=0.0022 Score=68.46 Aligned_cols=24 Identities=29% Similarity=0.551 Sum_probs=22.5
Q ss_pred ceEEeCcCCCChhhHHhhhcCCCc
Q psy5059 85 QIVVVGTQSSGKSSVIESLVGKSF 108 (1036)
Q Consensus 85 qIvVvG~QSsGKSSlLEal~G~~f 108 (1036)
+|+++|+.++||||++..+++-.|
T Consensus 2 KIvlvGd~gVGKTSLi~~~~~~~f 25 (202)
T cd04102 2 RVLVVGDSGVGKSSLVHLICKNQV 25 (202)
T ss_pred EEEEECCCCCCHHHHHHHHHcCCC
Confidence 689999999999999999998876
No 259
>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=97.07 E-value=0.0025 Score=67.61 Aligned_cols=23 Identities=35% Similarity=0.517 Sum_probs=19.2
Q ss_pred ceEEeCcCCCChhhHHh-hhcCCC
Q psy5059 85 QIVVVGTQSSGKSSVIE-SLVGKS 107 (1036)
Q Consensus 85 qIvVvG~QSsGKSSlLE-al~G~~ 107 (1036)
+|+++|+.++||||++. .+.+..
T Consensus 4 Kiv~vG~~~vGKTsLi~~~~~~~~ 27 (195)
T cd01873 4 KCVVVGDNAVGKTRLICARACNKT 27 (195)
T ss_pred EEEEECCCCcCHHHHHHHHHhCCC
Confidence 79999999999999996 555444
No 260
>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=97.04 E-value=0.0011 Score=74.09 Aligned_cols=24 Identities=38% Similarity=0.638 Sum_probs=22.1
Q ss_pred CceEEeCcCCCChhhHHhhhcCCC
Q psy5059 84 PQIVVVGTQSSGKSSVIESLVGKS 107 (1036)
Q Consensus 84 PqIvVvG~QSsGKSSlLEal~G~~ 107 (1036)
.+++|+|.+|+||||++++|.|..
T Consensus 119 ~~~~~vG~~nvGKSslin~l~~~~ 142 (276)
T TIGR03596 119 IRAMIVGIPNVGKSTLINRLAGKK 142 (276)
T ss_pred eEEEEECCCCCCHHHHHHHHhCCC
Confidence 579999999999999999998875
No 261
>PTZ00258 GTP-binding protein; Provisional
Probab=97.03 E-value=0.0013 Score=76.77 Aligned_cols=42 Identities=19% Similarity=0.245 Sum_probs=31.1
Q ss_pred CCCceEEeCcCCCChhhHHhhhcCCCcCcccccccccCceEE
Q psy5059 82 QLPQIVVVGTQSSGKSSVIESLVGKSFLPRGIGIVTRRPLIL 123 (1036)
Q Consensus 82 ~lPqIvVvG~QSsGKSSlLEal~G~~flPrg~G~cTR~Pl~l 123 (1036)
.-.+|++||-+|+|||||+++|+|.......---||+-|..-
T Consensus 20 ~~~kvgIVG~PNvGKSTLfnaLt~~~~~v~n~pftTi~p~~g 61 (390)
T PTZ00258 20 NNLKMGIVGLPNVGKSTTFNALCKQQVPAENFPFCTIDPNTA 61 (390)
T ss_pred CCcEEEEECCCCCChHHHHHHHhcCcccccCCCCCcccceEE
Confidence 346899999999999999999999874222333466666543
No 262
>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=97.02 E-value=0.00032 Score=67.16 Aligned_cols=24 Identities=46% Similarity=0.785 Sum_probs=21.9
Q ss_pred ceEEeCcCCCChhhHHhhhcCCCc
Q psy5059 85 QIVVVGTQSSGKSSVIESLVGKSF 108 (1036)
Q Consensus 85 qIvVvG~QSsGKSSlLEal~G~~f 108 (1036)
+|+|+|+.+||||||+++|.+..+
T Consensus 1 kI~V~G~~g~GKTsLi~~l~~~~~ 24 (119)
T PF08477_consen 1 KIVVLGDSGVGKTSLIRRLCGGEF 24 (119)
T ss_dssp EEEEECSTTSSHHHHHHHHHHSS-
T ss_pred CEEEECcCCCCHHHHHHHHhcCCC
Confidence 589999999999999999999885
No 263
>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=96.99 E-value=0.00077 Score=70.72 Aligned_cols=24 Identities=38% Similarity=0.624 Sum_probs=22.2
Q ss_pred CceEEeCcCCCChhhHHhhhcCCC
Q psy5059 84 PQIVVVGTQSSGKSSVIESLVGKS 107 (1036)
Q Consensus 84 PqIvVvG~QSsGKSSlLEal~G~~ 107 (1036)
..++++|.+++||||++++|.+..
T Consensus 128 ~~~~~~G~~nvGKStliN~l~~~~ 151 (190)
T cd01855 128 GDVYVVGATNVGKSTLINALLKKD 151 (190)
T ss_pred CcEEEEcCCCCCHHHHHHHHHHhc
Confidence 589999999999999999998765
No 264
>PRK12289 GTPase RsgA; Reviewed
Probab=96.92 E-value=0.0021 Score=74.30 Aligned_cols=23 Identities=39% Similarity=0.528 Sum_probs=20.9
Q ss_pred ceEEeCcCCCChhhHHhhhcCCC
Q psy5059 85 QIVVVGTQSSGKSSVIESLVGKS 107 (1036)
Q Consensus 85 qIvVvG~QSsGKSSlLEal~G~~ 107 (1036)
.++++|..++||||||++|.|..
T Consensus 174 i~v~iG~SgVGKSSLIN~L~~~~ 196 (352)
T PRK12289 174 ITVVAGPSGVGKSSLINRLIPDV 196 (352)
T ss_pred eEEEEeCCCCCHHHHHHHHcCcc
Confidence 47999999999999999998765
No 265
>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=96.90 E-value=0.00098 Score=63.99 Aligned_cols=36 Identities=33% Similarity=0.586 Sum_probs=27.0
Q ss_pred eEEEeccCCCchHHHHHhhhcCCcccc-cCCcccccc
Q psy5059 9 QIVVVGTQSSGKSSVIESLVGKSFLPR-GIGIVTRRP 44 (1036)
Q Consensus 9 ~i~vvg~~~~gkss~~~~~~g~~~~pr-~~~~~trrp 44 (1036)
.|+|+|.+|||||||+|+|.|....+. ....+|+.+
T Consensus 1 ~V~iiG~~~~GKSTlin~l~~~~~~~~~~~~~~T~~~ 37 (116)
T PF01926_consen 1 RVAIIGRPNVGKSTLINALTGKKLAKVSNIPGTTRDP 37 (116)
T ss_dssp EEEEEESTTSSHHHHHHHHHTSTSSEESSSTTSSSSE
T ss_pred CEEEECCCCCCHHHHHHHHhccccccccccccceeee
Confidence 589999999999999999999654332 233455555
No 266
>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=96.88 E-value=0.0017 Score=67.07 Aligned_cols=25 Identities=40% Similarity=0.590 Sum_probs=22.9
Q ss_pred CceEEeCcCCCChhhHHhhhcCCCc
Q psy5059 84 PQIVVVGTQSSGKSSVIESLVGKSF 108 (1036)
Q Consensus 84 PqIvVvG~QSsGKSSlLEal~G~~f 108 (1036)
+.++++|.+++||||++++|.+..+
T Consensus 116 ~~~~~~G~~~vGKstlin~l~~~~~ 140 (171)
T cd01856 116 IRAMVVGIPNVGKSTLINRLRGKKV 140 (171)
T ss_pred eEEEEECCCCCCHHHHHHHHhCCCc
Confidence 5899999999999999999998764
No 267
>PRK09601 GTP-binding protein YchF; Reviewed
Probab=96.87 E-value=0.0023 Score=73.94 Aligned_cols=38 Identities=21% Similarity=0.232 Sum_probs=28.9
Q ss_pred CceEEeCcCCCChhhHHhhhcCCCcCcccccccccCce
Q psy5059 84 PQIVVVGTQSSGKSSVIESLVGKSFLPRGIGIVTRRPL 121 (1036)
Q Consensus 84 PqIvVvG~QSsGKSSlLEal~G~~flPrg~G~cTR~Pl 121 (1036)
.+|.+||-+|+|||||+++|+|.......-.-||+-|.
T Consensus 3 ~~vgIVG~PNvGKSTLfnaLt~~~~~v~nypftTi~p~ 40 (364)
T PRK09601 3 LKCGIVGLPNVGKSTLFNALTKAGAEAANYPFCTIEPN 40 (364)
T ss_pred cEEEEECCCCCCHHHHHHHHhCCCCeecccccccccce
Confidence 57999999999999999999998732222245666664
No 268
>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=96.85 E-value=0.00072 Score=70.34 Aligned_cols=24 Identities=42% Similarity=0.451 Sum_probs=22.5
Q ss_pred CceEEeCcCCCChhhHHhhhcCCC
Q psy5059 84 PQIVVVGTQSSGKSSVIESLVGKS 107 (1036)
Q Consensus 84 PqIvVvG~QSsGKSSlLEal~G~~ 107 (1036)
.+++|+|.+|+|||||+++|+|..
T Consensus 118 ~~~~~vG~pnvGKSslin~l~~~~ 141 (172)
T cd04178 118 ITVGVVGFPNVGKSSLINSLKRSR 141 (172)
T ss_pred cEEEEEcCCCCCHHHHHHHHhCcc
Confidence 589999999999999999999876
No 269
>PRK09563 rbgA GTPase YlqF; Reviewed
Probab=96.84 E-value=0.0018 Score=72.88 Aligned_cols=24 Identities=33% Similarity=0.634 Sum_probs=22.2
Q ss_pred CceEEeCcCCCChhhHHhhhcCCC
Q psy5059 84 PQIVVVGTQSSGKSSVIESLVGKS 107 (1036)
Q Consensus 84 PqIvVvG~QSsGKSSlLEal~G~~ 107 (1036)
.+++++|.+|+||||++++|.|..
T Consensus 122 ~~~~~~G~pnvGKSsliN~l~~~~ 145 (287)
T PRK09563 122 IRAMIIGIPNVGKSTLINRLAGKK 145 (287)
T ss_pred eEEEEECCCCCCHHHHHHHHhcCC
Confidence 479999999999999999999876
No 270
>PLN00116 translation elongation factor EF-2 subunit; Provisional
Probab=96.84 E-value=0.0076 Score=77.40 Aligned_cols=26 Identities=27% Similarity=0.494 Sum_probs=22.9
Q ss_pred CCCceEEeCcCCCChhhHHhhhcCCC
Q psy5059 82 QLPQIVVVGTQSSGKSSVIESLVGKS 107 (1036)
Q Consensus 82 ~lPqIvVvG~QSsGKSSlLEal~G~~ 107 (1036)
....|+|+|...+|||||+|+|+...
T Consensus 18 ~Irni~iiGhvd~GKTTL~~~Ll~~~ 43 (843)
T PLN00116 18 NIRNMSVIAHVDHGKSTLTDSLVAAA 43 (843)
T ss_pred CccEEEEEcCCCCCHHHHHHHHHHhc
Confidence 56789999999999999999998554
No 271
>KOG0084|consensus
Probab=96.83 E-value=0.0059 Score=63.86 Aligned_cols=119 Identities=18% Similarity=0.226 Sum_probs=76.1
Q ss_pred EEEeecCcccceeecCCCccccCCCCCchhHHHHHHHHHHHhhcCCCcEEEEEeccccccccchhhhhhhhcCCCCCccc
Q psy5059 233 LKIYSTSVLNLTLVDLPGITKVPVGDQPDDIEAQIKQLVLHYISNPNSIILAVVTANTDMATSESLKLAKETDVDGRRTL 312 (1036)
Q Consensus 233 L~I~~P~~~~LtlVDLPGi~~~~~~~q~~di~~~ir~lv~~yI~~~n~IIL~V~~An~D~~~s~al~l~r~~Dp~g~RTi 312 (1036)
+++.|.. .-|.+=|+.|- +..|+++.+|-+..|.||++-+- +.+..|..
T Consensus 51 ~e~~gk~-iKlQIWDTAGQ-------------ERFrtit~syYR~ahGii~vyDi-----T~~~SF~~------------ 99 (205)
T KOG0084|consen 51 VELDGKT-IKLQIWDTAGQ-------------ERFRTITSSYYRGAHGIIFVYDI-----TKQESFNN------------ 99 (205)
T ss_pred eeecceE-EEEEeeecccc-------------HHHhhhhHhhccCCCeEEEEEEc-----ccHHHhhh------------
Confidence 3444422 36677789982 46789999999999998887653 33332222
Q ss_pred ceeccCCCCcccccCCCCCchHHHHHHHHHHhhhcCCCceEEEEEecCccccchHHHHHhhhccccCCceEEEEeccccc
Q psy5059 313 DLLDIDLPGITKVPVGDQPDDIEAQIKQLVLHYISNPNSIILAVVTANTDMATSESLKLAKETDVDGRRTLAVVTKIDLM 392 (1036)
Q Consensus 313 gvl~~~~~g~~~~~~~~~~~~~~~~~~~~~~~y~~~~~~~~~~~v~~~~d~~~~~~~~la~~~d~~g~rti~VitK~Dl~ 392 (1036)
...|-+=+++|-.++ ...+.|.||.|+.
T Consensus 100 ----------------------v~~Wi~Ei~~~~~~~------------------------------v~~lLVGNK~Dl~ 127 (205)
T KOG0084|consen 100 ----------------------VKRWIQEIDRYASEN------------------------------VPKLLVGNKCDLT 127 (205)
T ss_pred ----------------------HHHHHHHhhhhccCC------------------------------CCeEEEeeccccH
Confidence 234445555554433 3567899999998
Q ss_pred CCCchhhhhhcCcccccccccccccchHHHHHHHHHHhhccCCCcce-eeeecccchhhhHHHHH-Hhhhc
Q psy5059 393 DAGTDAIDILCGRVIPVKLDVDGRRTYIEAQIKQLVLHYISNPNSII-LAVVTANTDMATSESLK-LAKET 461 (1036)
Q Consensus 393 ~~g~~~~~~l~~~~~~~~~~~~~~~~~~~~~l~~~v~~~i~~~~~ip-la~ISA~td~~~qeil~-la~~v 461 (1036)
+.- .+..+..+.+.....+| ..-+||+...++..+|. +|...
T Consensus 128 ~~~---------------------------~v~~~~a~~fa~~~~~~~f~ETSAK~~~NVe~~F~~la~~l 171 (205)
T KOG0084|consen 128 EKR---------------------------VVSTEEAQEFADELGIPIFLETSAKDSTNVEDAFLTLAKEL 171 (205)
T ss_pred hhe---------------------------ecCHHHHHHHHHhcCCcceeecccCCccCHHHHHHHHHHHH
Confidence 752 22223334455556666 88899999999999874 44443
No 272
>TIGR00490 aEF-2 translation elongation factor aEF-2. This model represents archaeal elongation factor 2, a protein more similar to eukaryotic EF-2 than to bacterial EF-G, both in sequence similarity and in sharing with eukaryotes the property of having a diphthamide (modified His) residue at a conserved position. The diphthamide can be ADP-ribosylated by diphtheria toxin in the presence of NAD.
Probab=96.78 E-value=0.0045 Score=78.21 Aligned_cols=24 Identities=21% Similarity=0.397 Sum_probs=21.4
Q ss_pred CCCceEEeCcCCCChhhHHhhhcC
Q psy5059 82 QLPQIVVVGTQSSGKSSVIESLVG 105 (1036)
Q Consensus 82 ~lPqIvVvG~QSsGKSSlLEal~G 105 (1036)
..-.|+++|..++|||||+++|..
T Consensus 18 ~irnI~ivGh~~~GKTTL~~~ll~ 41 (720)
T TIGR00490 18 FIRNIGIVAHIDHGKTTLSDNLLA 41 (720)
T ss_pred cccEEEEEEeCCCCHHHHHHHHHH
Confidence 356899999999999999999974
No 273
>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=96.76 E-value=0.0014 Score=75.69 Aligned_cols=44 Identities=25% Similarity=0.441 Sum_probs=34.3
Q ss_pred CCCeEEEeccCCCchHHHHHhhhcCCcccccCCccccccEEEee
Q psy5059 6 QLPQIVVVGTQSSGKSSVIESLVGKSFLPRGIGIVTRRPLILQL 49 (1036)
Q Consensus 6 ~lp~i~vvg~~~~gkss~~~~~~g~~~~pr~~~~~trrpl~l~l 49 (1036)
..|.|++||.+|||||||||+|+|.++........|+-|..-.+
T Consensus 188 ~~~~ValvG~~NvGKSSLln~L~~~~~~v~~~~~tT~d~~~~~i 231 (351)
T TIGR03156 188 DVPTVALVGYTNAGKSTLFNALTGADVYAADQLFATLDPTTRRL 231 (351)
T ss_pred CCcEEEEECCCCCCHHHHHHHHhCCceeeccCCccccCCEEEEE
Confidence 46999999999999999999999987655544445666654433
No 274
>PTZ00416 elongation factor 2; Provisional
Probab=96.74 E-value=0.0068 Score=77.74 Aligned_cols=25 Identities=32% Similarity=0.519 Sum_probs=21.9
Q ss_pred CCceEEeCcCCCChhhHHhhhcCCC
Q psy5059 83 LPQIVVVGTQSSGKSSVIESLVGKS 107 (1036)
Q Consensus 83 lPqIvVvG~QSsGKSSlLEal~G~~ 107 (1036)
.--|+++|..++|||||+++|.+..
T Consensus 19 irni~iiGh~d~GKTTL~~~Ll~~~ 43 (836)
T PTZ00416 19 IRNMSVIAHVDHGKSTLTDSLVCKA 43 (836)
T ss_pred cCEEEEECCCCCCHHHHHHHHHHhc
Confidence 3479999999999999999998643
No 275
>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=96.63 E-value=0.0048 Score=65.32 Aligned_cols=23 Identities=43% Similarity=0.638 Sum_probs=21.1
Q ss_pred eEEEeccCCCchHHHHHhhhcCC
Q psy5059 9 QIVVVGTQSSGKSSVIESLVGKS 31 (1036)
Q Consensus 9 ~i~vvg~~~~gkss~~~~~~g~~ 31 (1036)
.|+++|.+|||||||+|+|.|..
T Consensus 3 kI~i~G~~g~GKSSLin~L~g~~ 25 (197)
T cd04104 3 NIAVTGESGAGKSSFINALRGVG 25 (197)
T ss_pred EEEEECCCCCCHHHHHHHHhccC
Confidence 69999999999999999999943
No 276
>PRK00454 engB GTP-binding protein YsxC; Reviewed
Probab=96.62 E-value=0.0016 Score=67.89 Aligned_cols=32 Identities=34% Similarity=0.509 Sum_probs=27.9
Q ss_pred CCCeEEEeccCCCchHHHHHhhhcCCcccccC
Q psy5059 6 QLPQIVVVGTQSSGKSSVIESLVGKSFLPRGI 37 (1036)
Q Consensus 6 ~lp~i~vvg~~~~gkss~~~~~~g~~~~pr~~ 37 (1036)
.+|.|++||.+|||||||+|+|+|..|.+.-+
T Consensus 23 ~~~~v~ivG~~~~GKSsli~~l~~~~~~~~~~ 54 (196)
T PRK00454 23 DGPEIAFAGRSNVGKSSLINALTNRKNLARTS 54 (196)
T ss_pred CCCEEEEEcCCCCCHHHHHHHHhCCCCccccc
Confidence 57899999999999999999999987665543
No 277
>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=96.62 E-value=0.002 Score=68.12 Aligned_cols=39 Identities=26% Similarity=0.486 Sum_probs=30.9
Q ss_pred CCCeEEEeccCCCchHHHHHhhhcCCcccccCCcccccc
Q psy5059 6 QLPQIVVVGTQSSGKSSVIESLVGKSFLPRGIGIVTRRP 44 (1036)
Q Consensus 6 ~lp~i~vvg~~~~gkss~~~~~~g~~~~pr~~~~~trrp 44 (1036)
..|.|+|+|.+||||||++++|+|..+.+.+....|..|
T Consensus 40 ~~~~I~iiG~~g~GKStLl~~l~~~~~~~~~~~~~t~~~ 78 (204)
T cd01878 40 GIPTVALVGYTNAGKSTLFNALTGADVYAEDQLFATLDP 78 (204)
T ss_pred CCCeEEEECCCCCCHHHHHHHHhcchhccCCccceeccc
Confidence 468999999999999999999999876555544444444
No 278
>PRK07560 elongation factor EF-2; Reviewed
Probab=96.61 E-value=0.0085 Score=75.91 Aligned_cols=25 Identities=20% Similarity=0.433 Sum_probs=21.6
Q ss_pred CCCceEEeCcCCCChhhHHhhhcCC
Q psy5059 82 QLPQIVVVGTQSSGKSSVIESLVGK 106 (1036)
Q Consensus 82 ~lPqIvVvG~QSsGKSSlLEal~G~ 106 (1036)
..--|+++|...+|||||+|+|...
T Consensus 19 ~iRni~iigh~d~GKTTL~e~ll~~ 43 (731)
T PRK07560 19 QIRNIGIIAHIDHGKTTLSDNLLAG 43 (731)
T ss_pred cccEEEEEEeCCCCHHHHHHHHHHH
Confidence 3557999999999999999999744
No 279
>PLN00023 GTP-binding protein; Provisional
Probab=96.60 E-value=0.0081 Score=68.32 Aligned_cols=29 Identities=31% Similarity=0.404 Sum_probs=25.2
Q ss_pred CCCCCceEEeCcCCCChhhHHhhhcCCCc
Q psy5059 80 AIQLPQIVVVGTQSSGKSSVIESLVGKSF 108 (1036)
Q Consensus 80 ~i~lPqIvVvG~QSsGKSSlLEal~G~~f 108 (1036)
....-+|+++|+.++||||++..+++-.|
T Consensus 18 ~~~~iKIVLLGdsGVGKTSLI~rf~~g~F 46 (334)
T PLN00023 18 PCGQVRVLVVGDSGVGKSSLVHLIVKGSS 46 (334)
T ss_pred CccceEEEEECCCCCcHHHHHHHHhcCCc
Confidence 34456899999999999999999998776
No 280
>PRK11058 GTPase HflX; Provisional
Probab=96.59 E-value=0.002 Score=76.31 Aligned_cols=41 Identities=20% Similarity=0.379 Sum_probs=30.6
Q ss_pred CCCeEEEeccCCCchHHHHHhhhcCCcccccCCccccccEE
Q psy5059 6 QLPQIVVVGTQSSGKSSVIESLVGKSFLPRGIGIVTRRPLI 46 (1036)
Q Consensus 6 ~lp~i~vvg~~~~gkss~~~~~~g~~~~pr~~~~~trrpl~ 46 (1036)
.+|.|++||.+|||||||||+|+|.++.....-..|+-|..
T Consensus 196 ~~p~ValVG~~NaGKSSLlN~Lt~~~~~v~~~~~tTld~~~ 236 (426)
T PRK11058 196 DVPTVSLVGYTNAGKSTLFNRITEARVYAADQLFATLDPTL 236 (426)
T ss_pred CCCEEEEECCCCCCHHHHHHHHhCCceeeccCCCCCcCCce
Confidence 56999999999999999999999976543222233555544
No 281
>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=96.58 E-value=0.0072 Score=66.46 Aligned_cols=24 Identities=33% Similarity=0.360 Sum_probs=21.9
Q ss_pred CceEEeCcCCCChhhHHhhhcCCC
Q psy5059 84 PQIVVVGTQSSGKSSVIESLVGKS 107 (1036)
Q Consensus 84 PqIvVvG~QSsGKSSlLEal~G~~ 107 (1036)
...+++|..++||||||++|.|..
T Consensus 121 ~~~~~~G~sgvGKStLiN~L~~~~ 144 (245)
T TIGR00157 121 RISVFAGQSGVGKSSLINALDPSV 144 (245)
T ss_pred CEEEEECCCCCCHHHHHHHHhhhh
Confidence 588999999999999999999765
No 282
>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=96.56 E-value=0.037 Score=64.47 Aligned_cols=51 Identities=8% Similarity=0.066 Sum_probs=35.5
Q ss_pred HHhhhcCCCceEEEEE-ecC-----ccccchHHHHHhhhccccCCceEEEEeccccc
Q psy5059 342 VLHYISNPNSIILAVV-TAN-----TDMATSESLKLAKETDVDGRRTLAVVTKIDLM 392 (1036)
Q Consensus 342 ~~~y~~~~~~~~~~~v-~~~-----~d~~~~~~~~la~~~d~~g~rti~VitK~Dl~ 392 (1036)
+++-|+...+|-++|. ++. .+.-..+-.++..++...|++.|+|+||.|-.
T Consensus 137 T~kVI~dhstIgivVtTDgsi~dI~Re~y~~aEe~~i~eLk~~~kPfiivlN~~dp~ 193 (492)
T TIGR02836 137 TRKVIQEHSTIGVVVTTDGTITDIPREDYVEAEERVIEELKELNKPFIILLNSTHPY 193 (492)
T ss_pred HHHHHHhcCcEEEEEEcCCCccccccccchHHHHHHHHHHHhcCCCEEEEEECcCCC
Confidence 4556666677766666 332 02223334788899999999999999999944
No 283
>PRK12288 GTPase RsgA; Reviewed
Probab=96.55 E-value=0.0082 Score=69.32 Aligned_cols=24 Identities=33% Similarity=0.511 Sum_probs=21.6
Q ss_pred CceEEeCcCCCChhhHHhhhcCCC
Q psy5059 84 PQIVVVGTQSSGKSSVIESLVGKS 107 (1036)
Q Consensus 84 PqIvVvG~QSsGKSSlLEal~G~~ 107 (1036)
..++++|..++||||||++|.|..
T Consensus 206 ki~~~vG~sgVGKSTLiN~Ll~~~ 229 (347)
T PRK12288 206 RISIFVGQSGVGKSSLINALLPEA 229 (347)
T ss_pred CCEEEECCCCCCHHHHHHHhcccc
Confidence 358999999999999999999875
No 284
>KOG1191|consensus
Probab=96.54 E-value=0.0018 Score=75.65 Aligned_cols=42 Identities=31% Similarity=0.323 Sum_probs=30.6
Q ss_pred CeEEEeccCCCchHHHHHhhhcCCcccc--cCCccccccEEEeec
Q psy5059 8 PQIVVVGTQSSGKSSVIESLVGKSFLPR--GIGIVTRRPLILQLY 50 (1036)
Q Consensus 8 p~i~vvg~~~~gkss~~~~~~g~~~~pr--~~~~~trrpl~l~l~ 50 (1036)
+|||+||+||||||||+|+|+..+---. -.|. ||--+..++.
T Consensus 269 l~iaIvGrPNvGKSSLlNaL~~~drsIVSpv~GT-TRDaiea~v~ 312 (531)
T KOG1191|consen 269 LQIAIVGRPNVGKSSLLNALSREDRSIVSPVPGT-TRDAIEAQVT 312 (531)
T ss_pred CeEEEEcCCCCCHHHHHHHHhcCCceEeCCCCCc-chhhheeEee
Confidence 6999999999999999999998542211 2333 6666666655
No 285
>PRK04213 GTP-binding protein; Provisional
Probab=96.49 E-value=0.003 Score=66.51 Aligned_cols=40 Identities=38% Similarity=0.521 Sum_probs=29.8
Q ss_pred CCCeEEEeccCCCchHHHHHhhhcCCcccccCCccccccE
Q psy5059 6 QLPQIVVVGTQSSGKSSVIESLVGKSFLPRGIGIVTRRPL 45 (1036)
Q Consensus 6 ~lp~i~vvg~~~~gkss~~~~~~g~~~~pr~~~~~trrpl 45 (1036)
..|.|+++|.+|||||||+|+|.|..+.......+|+.+.
T Consensus 8 ~~~~i~i~G~~~~GKSsLin~l~~~~~~~~~~~~~t~~~~ 47 (201)
T PRK04213 8 RKPEIVFVGRSNVGKSTLVRELTGKKVRVGKRPGVTRKPN 47 (201)
T ss_pred CCCEEEEECCCCCCHHHHHHHHhCCCCccCCCCceeeCce
Confidence 4689999999999999999999997754322223454443
No 286
>COG0486 ThdF Predicted GTPase [General function prediction only]
Probab=96.49 E-value=0.0015 Score=76.32 Aligned_cols=23 Identities=35% Similarity=0.821 Sum_probs=21.5
Q ss_pred eEEEeccCCCchHHHHHhhhcCC
Q psy5059 9 QIVVVGTQSSGKSSVIESLVGKS 31 (1036)
Q Consensus 9 ~i~vvg~~~~gkss~~~~~~g~~ 31 (1036)
.||+||+||||||||||+|.|++
T Consensus 219 kvvIiG~PNvGKSSLLNaL~~~d 241 (454)
T COG0486 219 KVVIIGRPNVGKSSLLNALLGRD 241 (454)
T ss_pred eEEEECCCCCcHHHHHHHHhcCC
Confidence 58999999999999999999966
No 287
>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=96.49 E-value=0.0018 Score=65.81 Aligned_cols=26 Identities=31% Similarity=0.450 Sum_probs=22.8
Q ss_pred eEEEeccCCCchHHHHHhhhcCCccc
Q psy5059 9 QIVVVGTQSSGKSSVIESLVGKSFLP 34 (1036)
Q Consensus 9 ~i~vvg~~~~gkss~~~~~~g~~~~p 34 (1036)
.|++||.||||||||+|+|.|....+
T Consensus 104 ~v~~~G~~nvGKStliN~l~~~~~~~ 129 (157)
T cd01858 104 SVGFIGYPNVGKSSIINTLRSKKVCK 129 (157)
T ss_pred EEEEEeCCCCChHHHHHHHhcCCcee
Confidence 57899999999999999999976544
No 288
>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=96.45 E-value=0.044 Score=58.43 Aligned_cols=53 Identities=13% Similarity=0.124 Sum_probs=37.5
Q ss_pred EEEEecccccCCCchhhhhhcCcccccccccccccchHHHHHHHHHHhhccCCCcceeeeecccchhhhHHHHHHhhh
Q psy5059 383 LAVVTKIDLMDAGTDAIDILCGRVIPVKLDVDGRRTYIEAQIKQLVLHYISNPNSIILAVVTANTDMATSESLKLAKE 460 (1036)
Q Consensus 383 i~VitK~Dl~~~g~~~~~~l~~~~~~~~~~~~~~~~~~~~~l~~~v~~~i~~~~~ipla~ISA~td~~~qeil~la~~ 460 (1036)
++|+||.|+.+.-.... +.+...++.. ....++..+||+++.++.+++.+..+
T Consensus 141 ~~~~~k~d~~~~~~~~~----------------------~~~~~~~~~~---~~~~~i~~~Sa~~g~gi~el~~~i~~ 193 (199)
T TIGR00101 141 LLVINKIDLAPMVGADL----------------------GVMERDAKKM---RGEKPFIFTNLKTKEGLDTVIDWIEH 193 (199)
T ss_pred EEEEEhhhccccccccH----------------------HHHHHHHHHh---CCCCCEEEEECCCCCCHHHHHHHHHh
Confidence 88999999985311111 3344444444 23588889999999999999988753
No 289
>KOG1423|consensus
Probab=96.44 E-value=0.0042 Score=68.85 Aligned_cols=66 Identities=24% Similarity=0.414 Sum_probs=46.4
Q ss_pred eEEEeccCCCchHHHHHhhhcCCccc----------ccCCccccccEEEeeccCCCc--hhhhhhhHHHHHHHHHhhh
Q psy5059 9 QIVVVGTQSSGKSSVIESLVGKSFLP----------RGIGIVTRRPLILQLYYCPKD--DREKRTAAAVINKLQDVFN 74 (1036)
Q Consensus 9 ~i~vvg~~~~gkss~~~~~~g~~~~p----------r~~~~~trrpl~l~l~~~~~~--~~~~~~~~~l~~kL~~~~~ 74 (1036)
.|||||.||+|||||.|.++|...-| +-.|++|..-.-|.+.-+|+- ..+.+.-....+.+++.-.
T Consensus 74 ~vavIG~PNvGKStLtN~mig~kv~~vS~K~~TTr~~ilgi~ts~eTQlvf~DTPGlvs~~~~r~~~l~~s~lq~~~~ 151 (379)
T KOG1423|consen 74 YVAVIGAPNVGKSTLTNQMIGQKVSAVSRKVHTTRHRILGIITSGETQLVFYDTPGLVSKKMHRRHHLMMSVLQNPRD 151 (379)
T ss_pred EEEEEcCCCcchhhhhhHhhCCccccccccccceeeeeeEEEecCceEEEEecCCcccccchhhhHHHHHHhhhCHHH
Confidence 79999999999999999999977777 346677777788888887762 2222333333444554333
No 290
>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=96.43 E-value=0.0073 Score=61.16 Aligned_cols=96 Identities=24% Similarity=0.260 Sum_probs=63.8
Q ss_pred HHHHHHHhhhcCCCceEEEEEecCccccchHHHHHhhhccccCCceEEEEecccccCCCchhhhhhcCcccccccccccc
Q psy5059 337 QIKQLVLHYISNPNSIILAVVTANTDMATSESLKLAKETDVDGRRTLAVVTKIDLMDAGTDAIDILCGRVIPVKLDVDGR 416 (1036)
Q Consensus 337 ~~~~~~~~y~~~~~~~~~~~v~~~~d~~~~~~~~la~~~d~~g~rti~VitK~Dl~~~g~~~~~~l~~~~~~~~~~~~~~ 416 (1036)
+|++|++.++.+- .++++|++++. +..+....+.+.+...|++.|.|+||+|+.++. ..
T Consensus 1 ~~~~~~~~i~~~a-D~vl~V~D~~~-~~~~~~~~l~~~~~~~~~p~iiv~NK~Dl~~~~--~~----------------- 59 (156)
T cd01859 1 MWKRLVRRIIKES-DVVLEVLDARD-PELTRSRKLERYVLELGKKLLIVLNKADLVPKE--VL----------------- 59 (156)
T ss_pred CHHHHHHHHHhhC-CEEEEEeeCCC-CcccCCHHHHHHHHhCCCcEEEEEEhHHhCCHH--HH-----------------
Confidence 4888988888753 57778889864 222233456666666789999999999996431 00
Q ss_pred cchHHHHHHHHHHhhccCCCcceeeeecccchhhhHHHHHHhhhcCc
Q psy5059 417 RTYIEAQIKQLVLHYISNPNSIILAVVTANTDMATSESLKLAKETDV 463 (1036)
Q Consensus 417 ~~~~~~~l~~~v~~~i~~~~~ipla~ISA~td~~~qeil~la~~vd~ 463 (1036)
.... .+.. ....+...+||+++.+..++++...+.-+
T Consensus 60 -----~~~~----~~~~-~~~~~~~~iSa~~~~gi~~L~~~l~~~~~ 96 (156)
T cd01859 60 -----EKWK----SIKE-SEGIPVVYVSAKERLGTKILRRTIKELAK 96 (156)
T ss_pred -----HHHH----HHHH-hCCCcEEEEEccccccHHHHHHHHHHHHh
Confidence 1111 1111 12356789999999999999888776644
No 291
>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=96.43 E-value=0.0041 Score=65.19 Aligned_cols=25 Identities=32% Similarity=0.632 Sum_probs=19.9
Q ss_pred CCceEEeCcCCCChhhHHhhhcCCC
Q psy5059 83 LPQIVVVGTQSSGKSSVIESLVGKS 107 (1036)
Q Consensus 83 lPqIvVvG~QSsGKSSlLEal~G~~ 107 (1036)
-|.++++|..+|||++|+..|+.-.
T Consensus 3 ~~~vlL~Gps~SGKTaLf~~L~~~~ 27 (181)
T PF09439_consen 3 RPTVLLVGPSGSGKTALFSQLVNGK 27 (181)
T ss_dssp --EEEEE-STTSSHHHHHHHHHHSS
T ss_pred CceEEEEcCCCCCHHHHHHHHhcCC
Confidence 4789999999999999999998654
No 292
>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=96.41 E-value=0.0024 Score=67.37 Aligned_cols=28 Identities=25% Similarity=0.554 Sum_probs=24.1
Q ss_pred eEEEeccCCCchHHHHHhhhcCCccccc
Q psy5059 9 QIVVVGTQSSGKSSVIESLVGKSFLPRG 36 (1036)
Q Consensus 9 ~i~vvg~~~~gkss~~~~~~g~~~~pr~ 36 (1036)
.|++||++||||||++|+|+|......+
T Consensus 2 ~i~lvG~~g~GKSsl~N~ilg~~~~~~~ 29 (196)
T cd01852 2 RLVLVGKTGAGKSATGNTILGREVFESK 29 (196)
T ss_pred EEEEECCCCCCHHHHHHHhhCCCccccc
Confidence 5899999999999999999997655444
No 293
>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=96.36 E-value=0.0029 Score=64.18 Aligned_cols=24 Identities=21% Similarity=0.425 Sum_probs=21.5
Q ss_pred eEEEeccCCCchHHHHHhhhcCCc
Q psy5059 9 QIVVVGTQSSGKSSVIESLVGKSF 32 (1036)
Q Consensus 9 ~i~vvg~~~~gkss~~~~~~g~~~ 32 (1036)
-|++||++||||||++|+|.|...
T Consensus 2 ~v~ivG~~~~GKStl~~~l~~~~~ 25 (170)
T cd01898 2 DVGLVGLPNAGKSTLLSAISNAKP 25 (170)
T ss_pred CeEEECCCCCCHHHHHHHHhcCCc
Confidence 389999999999999999998654
No 294
>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=96.35 E-value=0.0064 Score=61.60 Aligned_cols=25 Identities=40% Similarity=0.571 Sum_probs=22.0
Q ss_pred CCceEEeCcCCCChhhHHhhhcCCC
Q psy5059 83 LPQIVVVGTQSSGKSSVIESLVGKS 107 (1036)
Q Consensus 83 lPqIvVvG~QSsGKSSlLEal~G~~ 107 (1036)
..+++++|.+++||||+++++.|..
T Consensus 101 ~~~~~~ig~~~~Gkssl~~~l~~~~ 125 (156)
T cd01859 101 EGKVGVVGYPNVGKSSIINALKGRH 125 (156)
T ss_pred CcEEEEECCCCCCHHHHHHHHhCCC
Confidence 4678999999999999999998654
No 295
>TIGR00750 lao LAO/AO transport system ATPase. Mutations have also been found that do not phosphorylate the periplasmic binding proteins, yet still allow transport. The ATPase activity of this protein seems to be necessary, however.
Probab=96.34 E-value=0.046 Score=61.95 Aligned_cols=25 Identities=28% Similarity=0.460 Sum_probs=22.2
Q ss_pred CCCceEEeCcCCCChhhHHhhhcCC
Q psy5059 82 QLPQIVVVGTQSSGKSSVIESLVGK 106 (1036)
Q Consensus 82 ~lPqIvVvG~QSsGKSSlLEal~G~ 106 (1036)
.-+-|.++|.++|||||+++.|.+.
T Consensus 33 ~~~~i~i~G~~G~GKttl~~~l~~~ 57 (300)
T TIGR00750 33 NAHRVGITGTPGAGKSTLLEALGME 57 (300)
T ss_pred CceEEEEECCCCCCHHHHHHHHHHH
Confidence 4578899999999999999999875
No 296
>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=96.33 E-value=0.0036 Score=63.39 Aligned_cols=25 Identities=32% Similarity=0.539 Sum_probs=23.5
Q ss_pred CeEEEeccCCCchHHHHHhhhcCCc
Q psy5059 8 PQIVVVGTQSSGKSSVIESLVGKSF 32 (1036)
Q Consensus 8 p~i~vvg~~~~gkss~~~~~~g~~~ 32 (1036)
|.|++||.+||||||++++|.|..+
T Consensus 1 ~~i~~~G~~~~GKssli~~l~~~~~ 25 (168)
T cd01897 1 PTLVIAGYPNVGKSSLVNKLTRAKP 25 (168)
T ss_pred CeEEEEcCCCCCHHHHHHHHhcCCC
Confidence 7899999999999999999999765
No 297
>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=96.30 E-value=0.0026 Score=70.98 Aligned_cols=37 Identities=24% Similarity=0.319 Sum_probs=29.1
Q ss_pred EEEeccCCCchHHHHHhhhcCCcccccCCccccccEE
Q psy5059 10 IVVVGTQSSGKSSVIESLVGKSFLPRGIGIVTRRPLI 46 (1036)
Q Consensus 10 i~vvg~~~~gkss~~~~~~g~~~~pr~~~~~trrpl~ 46 (1036)
|++||.||||||||||+|.|....+.....+|+.|..
T Consensus 1 igivG~PN~GKSTLfn~Lt~~~~~~~n~pftTi~p~~ 37 (274)
T cd01900 1 IGIVGLPNVGKSTLFNALTKAGAEAANYPFCTIEPNV 37 (274)
T ss_pred CeEeCCCCCcHHHHHHHHhCCCCccccccccchhcee
Confidence 6899999999999999999977544444556766754
No 298
>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=96.27 E-value=0.0044 Score=62.23 Aligned_cols=28 Identities=32% Similarity=0.496 Sum_probs=24.8
Q ss_pred eEEEeccCCCchHHHHHhhhcCCccccc
Q psy5059 9 QIVVVGTQSSGKSSVIESLVGKSFLPRG 36 (1036)
Q Consensus 9 ~i~vvg~~~~gkss~~~~~~g~~~~pr~ 36 (1036)
.|+++|.+||||||++++++|.++.+..
T Consensus 2 ki~liG~~~~GKSsli~~l~~~~~~~~~ 29 (161)
T cd01861 2 KLVFLGDQSVGKTSIITRFMYDTFDNQY 29 (161)
T ss_pred EEEEECCCCCCHHHHHHHHHcCCCCccC
Confidence 4899999999999999999998886643
No 299
>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=96.26 E-value=0.003 Score=62.37 Aligned_cols=24 Identities=25% Similarity=0.635 Sum_probs=22.2
Q ss_pred eEEEeccCCCchHHHHHhhhcCCc
Q psy5059 9 QIVVVGTQSSGKSSVIESLVGKSF 32 (1036)
Q Consensus 9 ~i~vvg~~~~gkss~~~~~~g~~~ 32 (1036)
.|++||.+|||||||+|+++|..+
T Consensus 2 kv~liG~~~vGKSsL~~~l~~~~~ 25 (142)
T TIGR02528 2 RIMFIGSVGCGKTTLTQALQGEEI 25 (142)
T ss_pred eEEEECCCCCCHHHHHHHHcCCcc
Confidence 589999999999999999999765
No 300
>PTZ00258 GTP-binding protein; Provisional
Probab=96.26 E-value=0.0036 Score=73.05 Aligned_cols=43 Identities=19% Similarity=0.271 Sum_probs=32.9
Q ss_pred CeEEEeccCCCchHHHHHhhhcCCcccccCCccccccEEEeec
Q psy5059 8 PQIVVVGTQSSGKSSVIESLVGKSFLPRGIGIVTRRPLILQLY 50 (1036)
Q Consensus 8 p~i~vvg~~~~gkss~~~~~~g~~~~pr~~~~~trrpl~l~l~ 50 (1036)
.+|++||.||||||||||+|.|..-......-+|+.|..=.+.
T Consensus 22 ~kvgIVG~PNvGKSTLfnaLt~~~~~v~n~pftTi~p~~g~v~ 64 (390)
T PTZ00258 22 LKMGIVGLPNVGKSTTFNALCKQQVPAENFPFCTIDPNTARVN 64 (390)
T ss_pred cEEEEECCCCCChHHHHHHHhcCcccccCCCCCcccceEEEEe
Confidence 4899999999999999999999764334445567777765543
No 301
>PTZ00132 GTP-binding nuclear protein Ran; Provisional
Probab=96.21 E-value=0.04 Score=58.89 Aligned_cols=152 Identities=13% Similarity=0.153 Sum_probs=0.0
Q ss_pred ceEEeCcCCCChhhHHhhhcCCCcCcccccccccCceEEEEeeCCCCchhhhhhccCCCCccccccccccccccccchhh
Q psy5059 85 QIVVVGTQSSGKSSVIESLVGKSFLPRGIGIVTRRPLILQLYYCPKDDREKRTAAAGTMDLDAWGQFLHTKDKVFRDFDD 164 (1036)
Q Consensus 85 qIvVvG~QSsGKSSlLEal~G~~flPrg~G~cTR~Pl~l~l~~~~~~~~~~~~~~~~~~~~~~w~~~~~~~~~~~~df~~ 164 (1036)
+|+++|+.+|||||++..+....|
T Consensus 11 kv~liG~~g~GKTtLi~~~~~~~~-------------------------------------------------------- 34 (215)
T PTZ00132 11 KLILVGDGGVGKTTFVKRHLTGEF-------------------------------------------------------- 34 (215)
T ss_pred eEEEECCCCCCHHHHHHHHHhCCC--------------------------------------------------------
Q ss_pred hhhhhhHHHHHhhccCCCcccccccccccccccCCcccCChhHHHHHHHHHHHHhcCCCCCcCCCcEEEEEe-ecCcccc
Q psy5059 165 IRREIEDETERLAGKNKGICTMDLDAWGQFLHTKDKVFRDFDDIRREIEDETERLAGKNKGICSEPIILKIY-STSVLNL 243 (1036)
Q Consensus 165 ~r~ei~~e~~r~~~~~~~i~~~~~~~~~~f~~~~~~~~~~~~~I~~~I~~~~~~~~g~~~~~S~d~I~L~I~-~P~~~~L 243 (1036)
......++..+...+.+. ......+
T Consensus 35 ------------------------------------------------------~~~~~~t~~~~~~~~~~~~~~~~i~i 60 (215)
T PTZ00132 35 ------------------------------------------------------EKKYIPTLGVEVHPLKFYTNCGPICF 60 (215)
T ss_pred ------------------------------------------------------CCCCCCccceEEEEEEEEECCeEEEE
Q ss_pred eeecCCCccccCCCCCchhHHHHHHHHHHHhhcCCCcEEEEEeccccccccchhhhhhhhcCCCCCcccceeccCCCCcc
Q psy5059 244 TLVDLPGITKVPVGDQPDDIEAQIKQLVLHYISNPNSIILAVVTANTDMATSESLKLAKETDVDGRRTLDLLDIDLPGIT 323 (1036)
Q Consensus 244 tlVDLPGi~~~~~~~q~~di~~~ir~lv~~yI~~~n~IIL~V~~An~D~~~s~al~l~r~~Dp~g~RTigvl~~~~~g~~ 323 (1036)
.+.|+|| ....+.+...|....+++|++....+...-..-
T Consensus 61 ~~~Dt~g-------------~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~--------------------------- 100 (215)
T PTZ00132 61 NVWDTAG-------------QEKFGGLRDGYYIKGQCAIIMFDVTSRITYKNV--------------------------- 100 (215)
T ss_pred EEEECCC-------------chhhhhhhHHHhccCCEEEEEEECcCHHHHHHH---------------------------
Q ss_pred cccCCCCCchHHHHHHHHHHhhhcCCCceEEEEEecCccccchHHHHHhhhc--cccCCceEEEEecccccCCCchhhhh
Q psy5059 324 KVPVGDQPDDIEAQIKQLVLHYISNPNSIILAVVTANTDMATSESLKLAKET--DVDGRRTLAVVTKIDLMDAGTDAIDI 401 (1036)
Q Consensus 324 ~~~~~~~~~~~~~~~~~~~~~y~~~~~~~~~~~v~~~~d~~~~~~~~la~~~--d~~g~rti~VitK~Dl~~~g~~~~~~ 401 (1036)
......+ -.+..+.+.|.||+|+.+......
T Consensus 101 ---------------------------------------------~~~~~~i~~~~~~~~i~lv~nK~Dl~~~~~~~~-- 133 (215)
T PTZ00132 101 ---------------------------------------------PNWHRDIVRVCENIPIVLVGNKVDVKDRQVKAR-- 133 (215)
T ss_pred ---------------------------------------------HHHHHHHHHhCCCCCEEEEEECccCccccCCHH--
Q ss_pred hcCcccccccccccccchHHHHHHHHHHhhccCCCcceeeeecccchhhhHHHHHHhhh
Q psy5059 402 LCGRVIPVKLDVDGRRTYIEAQIKQLVLHYISNPNSIILAVVTANTDMATSESLKLAKE 460 (1036)
Q Consensus 402 l~~~~~~~~~~~~~~~~~~~~~l~~~v~~~i~~~~~ipla~ISA~td~~~qeil~la~~ 460 (1036)
...+..........+||+++..+++++....+
T Consensus 134 ---------------------------~~~~~~~~~~~~~e~Sa~~~~~v~~~f~~ia~ 165 (215)
T PTZ00132 134 ---------------------------QITFHRKKNLQYYDISAKSNYNFEKPFLWLAR 165 (215)
T ss_pred ---------------------------HHHHHHHcCCEEEEEeCCCCCCHHHHHHHHHH
No 302
>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=96.21 E-value=0.0052 Score=62.41 Aligned_cols=44 Identities=32% Similarity=0.285 Sum_probs=32.2
Q ss_pred CCCeEEEeccCCCchHHHHHhhhcCCcccccCC-ccccccEEEee
Q psy5059 6 QLPQIVVVGTQSSGKSSVIESLVGKSFLPRGIG-IVTRRPLILQL 49 (1036)
Q Consensus 6 ~lp~i~vvg~~~~gkss~~~~~~g~~~~pr~~~-~~trrpl~l~l 49 (1036)
.-+.|++||.+||||||++|+|.|..-.+.+.+ ..|+++....+
T Consensus 99 ~~~~~~~~G~~~~GKstlin~l~~~~~~~~~~~~~~t~~~~~~~~ 143 (155)
T cd01849 99 KSITVGVIGYPNVGKSSVINALLNKLKLKVGNVPGTTTSQQEVKL 143 (155)
T ss_pred cCcEEEEEccCCCCHHHHHHHHHccccccccCCCCcccceEEEEe
Confidence 457899999999999999999999654443322 34677665543
No 303
>PRK12298 obgE GTPase CgtA; Reviewed
Probab=96.21 E-value=0.0048 Score=72.36 Aligned_cols=45 Identities=18% Similarity=0.187 Sum_probs=31.6
Q ss_pred CCeEEEeccCCCchHHHHHhhhcCCcccccCCccccccEEEeecc
Q psy5059 7 LPQIVVVGTQSSGKSSVIESLVGKSFLPRGIGIVTRRPLILQLYY 51 (1036)
Q Consensus 7 lp~i~vvg~~~~gkss~~~~~~g~~~~pr~~~~~trrpl~l~l~~ 51 (1036)
++.|++||+||||||||||+|++....-...--.||.|..-.++.
T Consensus 159 iadValVG~PNaGKSTLln~Lt~~k~~vs~~p~TT~~p~~Giv~~ 203 (390)
T PRK12298 159 LADVGLLGLPNAGKSTFIRAVSAAKPKVADYPFTTLVPNLGVVRV 203 (390)
T ss_pred cccEEEEcCCCCCHHHHHHHHhCCcccccCCCCCccCcEEEEEEe
Confidence 458999999999999999999985411111122477777766543
No 304
>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=96.20 E-value=0.0033 Score=63.55 Aligned_cols=27 Identities=19% Similarity=0.487 Sum_probs=24.3
Q ss_pred CeEEEeccCCCchHHHHHhhhcCCccc
Q psy5059 8 PQIVVVGTQSSGKSSVIESLVGKSFLP 34 (1036)
Q Consensus 8 p~i~vvg~~~~gkss~~~~~~g~~~~p 34 (1036)
|.|+|||.+||||||++|+|.+..+.+
T Consensus 1 ~~i~iiG~~~~GKtsli~~l~~~~~~~ 27 (168)
T cd01887 1 PVVTVMGHVDHGKTTLLDKIRKTNVAA 27 (168)
T ss_pred CEEEEEecCCCCHHHHHHHHHhccccc
Confidence 789999999999999999999876643
No 305
>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=96.17 E-value=0.0034 Score=65.36 Aligned_cols=27 Identities=37% Similarity=0.343 Sum_probs=23.5
Q ss_pred CeEEEeccCCCchHHHHHhhhcCCccc
Q psy5059 8 PQIVVVGTQSSGKSSVIESLVGKSFLP 34 (1036)
Q Consensus 8 p~i~vvg~~~~gkss~~~~~~g~~~~p 34 (1036)
-+|+|||.||||||||+|+|.|..-.+
T Consensus 118 ~~~~~vG~pnvGKSslin~l~~~~~~~ 144 (172)
T cd04178 118 ITVGVVGFPNVGKSSLINSLKRSRACN 144 (172)
T ss_pred cEEEEEcCCCCCHHHHHHHHhCcccce
Confidence 389999999999999999999966433
No 306
>KOG0091|consensus
Probab=96.16 E-value=0.13 Score=52.51 Aligned_cols=24 Identities=29% Similarity=0.635 Sum_probs=21.1
Q ss_pred ceEEeCcCCCChhhHHhhhcCCCc
Q psy5059 85 QIVVVGTQSSGKSSVIESLVGKSF 108 (1036)
Q Consensus 85 qIvVvG~QSsGKSSlLEal~G~~f 108 (1036)
+++|+||.-+||||||...+.-.|
T Consensus 10 rlivigdstvgkssll~~ft~gkf 33 (213)
T KOG0091|consen 10 RLIVIGDSTVGKSSLLRYFTEGKF 33 (213)
T ss_pred EEEEEcCCcccHHHHHHHHhcCcc
Confidence 689999999999999999876654
No 307
>PRK09601 GTP-binding protein YchF; Reviewed
Probab=96.14 E-value=0.0046 Score=71.45 Aligned_cols=39 Identities=21% Similarity=0.253 Sum_probs=29.8
Q ss_pred CeEEEeccCCCchHHHHHhhhcCCcccccCCccccccEE
Q psy5059 8 PQIVVVGTQSSGKSSVIESLVGKSFLPRGIGIVTRRPLI 46 (1036)
Q Consensus 8 p~i~vvg~~~~gkss~~~~~~g~~~~pr~~~~~trrpl~ 46 (1036)
.+|++||.||||||||||+|.|..-.......+|+.|..
T Consensus 3 ~~vgIVG~PNvGKSTLfnaLt~~~~~v~nypftTi~p~~ 41 (364)
T PRK09601 3 LKCGIVGLPNVGKSTLFNALTKAGAEAANYPFCTIEPNV 41 (364)
T ss_pred cEEEEECCCCCCHHHHHHHHhCCCCeecccccccccceE
Confidence 589999999999999999999976332333445666754
No 308
>KOG0092|consensus
Probab=96.10 E-value=0.0082 Score=62.63 Aligned_cols=25 Identities=32% Similarity=0.562 Sum_probs=22.0
Q ss_pred CceEEeCcCCCChhhHHhhhcCCCc
Q psy5059 84 PQIVVVGTQSSGKSSVIESLVGKSF 108 (1036)
Q Consensus 84 PqIvVvG~QSsGKSSlLEal~G~~f 108 (1036)
-+||++|+-|+||||++...+--+|
T Consensus 6 ~KvvLLG~~~VGKSSlV~Rfvk~~F 30 (200)
T KOG0092|consen 6 FKVVLLGDSGVGKSSLVLRFVKDQF 30 (200)
T ss_pred EEEEEECCCCCCchhhhhhhhhCcc
Confidence 3799999999999999999887766
No 309
>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=96.05 E-value=0.0041 Score=61.44 Aligned_cols=24 Identities=38% Similarity=0.767 Sum_probs=22.4
Q ss_pred eEEEeccCCCchHHHHHhhhcCCc
Q psy5059 9 QIVVVGTQSSGKSSVIESLVGKSF 32 (1036)
Q Consensus 9 ~i~vvg~~~~gkss~~~~~~g~~~ 32 (1036)
+|++||.+|||||||+++|.|..|
T Consensus 1 ~i~i~G~~~~GKssl~~~l~~~~~ 24 (159)
T cd04159 1 EITLVGLQNSGKTTLVNVIAGGQF 24 (159)
T ss_pred CEEEEcCCCCCHHHHHHHHccCCC
Confidence 589999999999999999999876
No 310
>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=96.01 E-value=0.0072 Score=61.10 Aligned_cols=29 Identities=24% Similarity=0.432 Sum_probs=25.7
Q ss_pred CeEEEeccCCCchHHHHHhhhcCCccccc
Q psy5059 8 PQIVVVGTQSSGKSSVIESLVGKSFLPRG 36 (1036)
Q Consensus 8 p~i~vvg~~~~gkss~~~~~~g~~~~pr~ 36 (1036)
..|+|||.+||||||+++++.+..|.+..
T Consensus 4 ~ki~vvG~~~~GKSsli~~l~~~~~~~~~ 32 (165)
T cd01868 4 FKIVLIGDSGVGKSNLLSRFTRNEFNLDS 32 (165)
T ss_pred eEEEEECCCCCCHHHHHHHHhcCCCCCCC
Confidence 57999999999999999999998876543
No 311
>PRK09602 translation-associated GTPase; Reviewed
Probab=96.01 E-value=0.0054 Score=72.03 Aligned_cols=41 Identities=20% Similarity=0.129 Sum_probs=32.4
Q ss_pred CeEEEeccCCCchHHHHHhhhcCCcccccCCccccccEEEe
Q psy5059 8 PQIVVVGTQSSGKSSVIESLVGKSFLPRGIGIVTRRPLILQ 48 (1036)
Q Consensus 8 p~i~vvg~~~~gkss~~~~~~g~~~~pr~~~~~trrpl~l~ 48 (1036)
.+|++||.||||||||||+|.|..+......-+|+.|.+=.
T Consensus 2 ~kigivG~pnvGKSTlfn~Lt~~~~~~~~y~f~t~~p~~g~ 42 (396)
T PRK09602 2 ITIGLVGKPNVGKSTFFNAATLADVEIANYPFTTIDPNVGV 42 (396)
T ss_pred cEEEEECCCCCCHHHHHHHHhCCcccccCCCCcceeeeeee
Confidence 47999999999999999999998765444445677777643
No 312
>PRK09866 hypothetical protein; Provisional
Probab=95.97 E-value=0.0064 Score=73.91 Aligned_cols=43 Identities=30% Similarity=0.488 Sum_probs=38.5
Q ss_pred CeEEEeccCCCchHHHHHhhhcCCcccccCCccccccEEEeec
Q psy5059 8 PQIVVVGTQSSGKSSVIESLVGKSFLPRGIGIVTRRPLILQLY 50 (1036)
Q Consensus 8 p~i~vvg~~~~gkss~~~~~~g~~~~pr~~~~~trrpl~l~l~ 50 (1036)
|.|||||..|+|||||+|+|+|.+.+|.|.+-+|..|..+...
T Consensus 70 ~~valvG~sgaGKSTLiNaL~G~~Vlpt~~~~~t~lpT~i~~~ 112 (741)
T PRK09866 70 MVLAIVGTMKAGKSTTINAIVGTEVLPNRNRPMTALPTLIRHT 112 (741)
T ss_pred eEEEEECCCCCCHHHHHHHHhCCccccCCCcccccccEEEEec
Confidence 8999999999999999999999999999988888888865543
No 313
>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=95.89 E-value=0.0048 Score=68.66 Aligned_cols=24 Identities=25% Similarity=0.584 Sum_probs=21.8
Q ss_pred eEEEeccCCCchHHHHHhhhcCCc
Q psy5059 9 QIVVVGTQSSGKSSVIESLVGKSF 32 (1036)
Q Consensus 9 ~i~vvg~~~~gkss~~~~~~g~~~ 32 (1036)
-|++||+||||||||+|+|+|..+
T Consensus 2 ~V~liG~pnvGKSTLln~L~~~~~ 25 (270)
T TIGR00436 2 FVAILGRPNVGKSTLLNQLHGQKI 25 (270)
T ss_pred EEEEECCCCCCHHHHHHHHhCCcE
Confidence 489999999999999999999753
No 314
>COG1084 Predicted GTPase [General function prediction only]
Probab=95.86 E-value=0.0054 Score=68.88 Aligned_cols=27 Identities=41% Similarity=0.586 Sum_probs=24.5
Q ss_pred CCCCeEEEeccCCCchHHHHHhhhcCC
Q psy5059 5 IQLPQIVVVGTQSSGKSSVIESLVGKS 31 (1036)
Q Consensus 5 ~~lp~i~vvg~~~~gkss~~~~~~g~~ 31 (1036)
.++|+|+|.|.|||||||++..|.|-+
T Consensus 166 p~~pTivVaG~PNVGKSSlv~~lT~Ak 192 (346)
T COG1084 166 PDLPTIVVAGYPNVGKSSLVRKLTTAK 192 (346)
T ss_pred CCCCeEEEecCCCCcHHHHHHHHhcCC
Confidence 479999999999999999999998844
No 315
>COG0378 HypB Ni2+-binding GTPase involved in regulation of expression and maturation of urease and hydrogenase [Posttranslational modification, protein turnover, chaperones / Transcription]
Probab=95.78 E-value=0.039 Score=58.09 Aligned_cols=52 Identities=19% Similarity=0.186 Sum_probs=38.5
Q ss_pred EEEEecccccCCCchhhhhhcCcccccccccccccchHHHHHHHHHHhhccCCCcceeeeecccchhhhHHHHHHhh
Q psy5059 383 LAVVTKIDLMDAGTDAIDILCGRVIPVKLDVDGRRTYIEAQIKQLVLHYISNPNSIILAVVTANTDMATSESLKLAK 459 (1036)
Q Consensus 383 i~VitK~Dl~~~g~~~~~~l~~~~~~~~~~~~~~~~~~~~~l~~~v~~~i~~~~~ipla~ISA~td~~~qeil~la~ 459 (1036)
+.||||.||.+. +| +.++.+.+.--+--.-.|+.++|+++|+..+++++..+
T Consensus 146 llVInK~DLa~~-------------------v~------~dlevm~~da~~~np~~~ii~~n~ktg~G~~~~~~~i~ 197 (202)
T COG0378 146 LLVINKTDLAPY-------------------VG------ADLEVMARDAKEVNPEAPIIFTNLKTGEGLDEWLRFIE 197 (202)
T ss_pred EEEEehHHhHHH-------------------hC------ccHHHHHHHHHHhCCCCCEEEEeCCCCcCHHHHHHHHH
Confidence 789999999853 22 33344444445556778999999999999999987754
No 316
>PRK00089 era GTPase Era; Reviewed
Probab=95.78 E-value=0.0098 Score=66.80 Aligned_cols=25 Identities=32% Similarity=0.638 Sum_probs=22.6
Q ss_pred eEEEeccCCCchHHHHHhhhcCCcc
Q psy5059 9 QIVVVGTQSSGKSSVIESLVGKSFL 33 (1036)
Q Consensus 9 ~i~vvg~~~~gkss~~~~~~g~~~~ 33 (1036)
-|+|||.+|||||||+|+|+|..+-
T Consensus 7 ~V~iiG~pn~GKSTLin~L~g~~~~ 31 (292)
T PRK00089 7 FVAIVGRPNVGKSTLLNALVGQKIS 31 (292)
T ss_pred EEEEECCCCCCHHHHHHHHhCCcee
Confidence 5899999999999999999997653
No 317
>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=95.78 E-value=0.022 Score=64.18 Aligned_cols=109 Identities=16% Similarity=0.260 Sum_probs=0.0
Q ss_pred ccccEEEeeccCCCch-----------------------hhhhhhHHHHHHHHHhhhhcCCCCCCCCceEEeCcCCCChh
Q psy5059 41 TRRPLILQLYYCPKDD-----------------------REKRTAAAVINKLQDVFNTVGTDAIQLPQIVVVGTQSSGKS 97 (1036)
Q Consensus 41 trrpl~l~l~~~~~~~-----------------------~~~~~~~~l~~kL~~~~~~~g~~~i~lPqIvVvG~QSsGKS 97 (1036)
...|+++.+||+|-.. ....++-++.+.|.. ..++++|..++|||
T Consensus 108 ~~ip~iIVlNK~DL~~~~~~~~~~~~~~~~g~~v~~vSA~~g~gi~~L~~~L~~------------k~~~~~G~sg~GKS 175 (287)
T cd01854 108 AGIEPVIVLTKADLLDDEEEELELVEALALGYPVLAVSAKTGEGLDELREYLKG------------KTSVLVGQSGVGKS 175 (287)
T ss_pred cCCCEEEEEEHHHCCChHHHHHHHHHHHhCCCeEEEEECCCCccHHHHHhhhcc------------ceEEEECCCCCCHH
Q ss_pred hHHhhhcCCCcCcccccccccCceEEEEeeCCCCchhhhhhccCCCCccccccccccccccccchhhhhhhhhHHHHHhh
Q psy5059 98 SVIESLVGKSFLPRGIGIVTRRPLILQLYYCPKDDREKRTAAAGTMDLDAWGQFLHTKDKVFRDFDDIRREIEDETERLA 177 (1036)
Q Consensus 98 SlLEal~G~~flPrg~G~cTR~Pl~l~l~~~~~~~~~~~~~~~~~~~~~~w~~~~~~~~~~~~df~~~r~ei~~e~~r~~ 177 (1036)
||+++|+|..
T Consensus 176 Tlin~l~~~~---------------------------------------------------------------------- 185 (287)
T cd01854 176 TLINALLPDL---------------------------------------------------------------------- 185 (287)
T ss_pred HHHHHHhchh----------------------------------------------------------------------
Q ss_pred ccCCCcccccccccccccccCCcccCChhHHHHHHHHHHHHhcC---CCCCcCCCcEEEEEeecCcccceeecCCCcccc
Q psy5059 178 GKNKGICTMDLDAWGQFLHTKDKVFRDFDDIRREIEDETERLAG---KNKGICSEPIILKIYSTSVLNLTLVDLPGITKV 254 (1036)
Q Consensus 178 ~~~~~i~~~~~~~~~~f~~~~~~~~~~~~~I~~~I~~~~~~~~g---~~~~~S~d~I~L~I~~P~~~~LtlVDLPGi~~~ 254 (1036)
...+..+.. .++..+.+.-.+.+.+-. .++|+||+...
T Consensus 186 -----------------------------------~~~~g~v~~~~~~g~~tT~~~~~~~~~~~~----~liDtPG~~~~ 226 (287)
T cd01854 186 -----------------------------------DLATGEISEKLGRGRHTTTHRELFPLPGGG----LLIDTPGFREF 226 (287)
T ss_pred -----------------------------------hccccceeccCCCCCcccceEEEEEcCCCC----EEEECCCCCcc
Q ss_pred C-CCCCchhHHHHHHHH
Q psy5059 255 P-VGDQPDDIEAQIKQL 270 (1036)
Q Consensus 255 ~-~~~q~~di~~~ir~l 270 (1036)
. ....+.++.....++
T Consensus 227 ~~~~~~~~~~~~~f~~~ 243 (287)
T cd01854 227 GLLHIDPEELAHYFPEF 243 (287)
T ss_pred CCccCCHHHHHHHhHHH
No 318
>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=95.78 E-value=0.011 Score=58.69 Aligned_cols=29 Identities=28% Similarity=0.455 Sum_probs=25.0
Q ss_pred CCeEEEeccCCCchHHHHHhhhcCCcccc
Q psy5059 7 LPQIVVVGTQSSGKSSVIESLVGKSFLPR 35 (1036)
Q Consensus 7 lp~i~vvg~~~~gkss~~~~~~g~~~~pr 35 (1036)
-..|+++|.+||||||++|+|.|.++-+.
T Consensus 3 ~~~i~~~G~~g~GKttl~~~l~~~~~~~~ 31 (168)
T cd04163 3 SGFVAIVGRPNVGKSTLLNALVGQKISIV 31 (168)
T ss_pred eeEEEEECCCCCCHHHHHHHHhCCceEec
Confidence 35799999999999999999999876443
No 319
>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=95.76 E-value=0.06 Score=62.80 Aligned_cols=23 Identities=17% Similarity=0.450 Sum_probs=20.6
Q ss_pred CceEEeCcCCCChhhHHhhhcCC
Q psy5059 84 PQIVVVGTQSSGKSSVIESLVGK 106 (1036)
Q Consensus 84 PqIvVvG~QSsGKSSlLEal~G~ 106 (1036)
..|+++|..++|||+++-.|++.
T Consensus 242 ~vI~LVGptGvGKTTTiaKLA~~ 264 (436)
T PRK11889 242 QTIALIGPTGVGKTTTLAKMAWQ 264 (436)
T ss_pred cEEEEECCCCCcHHHHHHHHHHH
Confidence 47899999999999999999864
No 320
>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=95.75 E-value=0.01 Score=60.52 Aligned_cols=30 Identities=23% Similarity=0.416 Sum_probs=25.9
Q ss_pred CeEEEeccCCCchHHHHHhhhcCCcccccC
Q psy5059 8 PQIVVVGTQSSGKSSVIESLVGKSFLPRGI 37 (1036)
Q Consensus 8 p~i~vvg~~~~gkss~~~~~~g~~~~pr~~ 37 (1036)
..|+|||.+||||||+++++++..|.+..+
T Consensus 5 ~ki~vvG~~~vGKSsLl~~l~~~~~~~~~~ 34 (168)
T cd01866 5 FKYIIIGDTGVGKSCLLLQFTDKRFQPVHD 34 (168)
T ss_pred eEEEEECCCCCCHHHHHHHHHcCCCCCCCC
Confidence 579999999999999999999988765443
No 321
>KOG0090|consensus
Probab=95.74 E-value=0.074 Score=56.61 Aligned_cols=23 Identities=26% Similarity=0.248 Sum_probs=19.3
Q ss_pred cccCCceEEEEecccccCCCchh
Q psy5059 376 DVDGRRTLAVVTKIDLMDAGTDA 398 (1036)
Q Consensus 376 d~~g~rti~VitK~Dl~~~g~~~ 398 (1036)
-.++-..++..||-|+..+.+..
T Consensus 142 ~~~~~~vLIaCNKqDl~tAkt~~ 164 (238)
T KOG0090|consen 142 KKNKPPVLIACNKQDLFTAKTAE 164 (238)
T ss_pred ccCCCCEEEEecchhhhhcCcHH
Confidence 46788899999999999887764
No 322
>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=95.74 E-value=0.0072 Score=60.74 Aligned_cols=25 Identities=24% Similarity=0.559 Sum_probs=22.9
Q ss_pred eEEEeccCCCchHHHHHhhhcCCcc
Q psy5059 9 QIVVVGTQSSGKSSVIESLVGKSFL 33 (1036)
Q Consensus 9 ~i~vvg~~~~gkss~~~~~~g~~~~ 33 (1036)
.|++||.+||||||+++++.|..|.
T Consensus 2 ki~~vG~~~vGKTsli~~l~~~~~~ 26 (168)
T cd04119 2 KVISMGNSGVGKSCIIKRYCEGRFV 26 (168)
T ss_pred EEEEECCCCCCHHHHHHHHHhCCCC
Confidence 5899999999999999999998764
No 323
>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=95.74 E-value=0.0075 Score=60.17 Aligned_cols=31 Identities=32% Similarity=0.461 Sum_probs=26.4
Q ss_pred eEEEeccCCCchHHHHHhhhcCCcccccCCc
Q psy5059 9 QIVVVGTQSSGKSSVIESLVGKSFLPRGIGI 39 (1036)
Q Consensus 9 ~i~vvg~~~~gkss~~~~~~g~~~~pr~~~~ 39 (1036)
+|+++|.+|||||||+|+|+|..+.|.-++.
T Consensus 1 ~i~l~G~~g~GKTtL~~~l~~~~~~~~~~~~ 31 (170)
T cd01876 1 EIAFAGRSNVGKSSLINALTNRKKLARTSKT 31 (170)
T ss_pred CEEEEcCCCCCHHHHHHHHhcCCceeeecCC
Confidence 5899999999999999999986666766554
No 324
>KOG1707|consensus
Probab=95.73 E-value=0.017 Score=68.89 Aligned_cols=159 Identities=22% Similarity=0.277 Sum_probs=0.0
Q ss_pred ceEEeCcCCCChhhHHhhhcCCCcCcccccccccCceEEEEeeCCCCchhhhhhccCCCCccccccccccccccccchhh
Q psy5059 85 QIVVVGTQSSGKSSVIESLVGKSFLPRGIGIVTRRPLILQLYYCPKDDREKRTAAAGTMDLDAWGQFLHTKDKVFRDFDD 164 (1036)
Q Consensus 85 qIvVvG~QSsGKSSlLEal~G~~flPrg~G~cTR~Pl~l~l~~~~~~~~~~~~~~~~~~~~~~w~~~~~~~~~~~~df~~ 164 (1036)
+||+|||+++|||||+=+|++.+|
T Consensus 11 RIvliGD~G~GKtSLImSL~~eef-------------------------------------------------------- 34 (625)
T KOG1707|consen 11 RIVLIGDEGVGKTSLIMSLLEEEF-------------------------------------------------------- 34 (625)
T ss_pred EEEEECCCCccHHHHHHHHHhhhc--------------------------------------------------------
Q ss_pred hhhhhhHHHHHhhccCCCcccccccccccccccCCcccCChhHHHHHHHHHHHHhcCCCCCcCCCcEEEEEeecCcccce
Q psy5059 165 IRREIEDETERLAGKNKGICTMDLDAWGQFLHTKDKVFRDFDDIRREIEDETERLAGKNKGICSEPIILKIYSTSVLNLT 244 (1036)
Q Consensus 165 ~r~ei~~e~~r~~~~~~~i~~~~~~~~~~f~~~~~~~~~~~~~I~~~I~~~~~~~~g~~~~~S~d~I~L~I~~P~~~~Lt 244 (1036)
.+.++.. -+....=.=..|+..+.+
T Consensus 35 ---------------------------------------------------~~~VP~r----l~~i~IPadvtPe~vpt~ 59 (625)
T KOG1707|consen 35 ---------------------------------------------------VDAVPRR----LPRILIPADVTPENVPTS 59 (625)
T ss_pred ---------------------------------------------------ccccccc----CCccccCCccCcCcCceE
Q ss_pred eecCCCccccCCCCCchhHHHHHHHHHHHhhcCCCcEEEEEecccc----ccccchhhhhhhhcCCCCCcccceeccCCC
Q psy5059 245 LVDLPGITKVPVGDQPDDIEAQIKQLVLHYISNPNSIILAVVTANT----DMATSESLKLAKETDVDGRRTLDLLDIDLP 320 (1036)
Q Consensus 245 lVDLPGi~~~~~~~q~~di~~~ir~lv~~yI~~~n~IIL~V~~An~----D~~~s~al~l~r~~Dp~g~RTigvl~~~~~ 320 (1036)
+||++- ..+.+.-+.+-|++.| +|.+|-+.+. |-..+-|+-++|..-.++-||=.||
T Consensus 60 ivD~ss-------------~~~~~~~l~~EirkA~-vi~lvyavd~~~T~D~ist~WLPlir~~~~~~~~~PVIL----- 120 (625)
T KOG1707|consen 60 IVDTSS-------------DSDDRLCLRKEIRKAD-VICLVYAVDDESTVDRISTKWLPLIRQLFGDYHETPVIL----- 120 (625)
T ss_pred EEeccc-------------ccchhHHHHHHHhhcC-EEEEEEecCChHHhhhhhhhhhhhhhcccCCCccCCEEE-----
Q ss_pred CcccccCCCCCchHHHHHHHHHHhhhcCCCceEEEEEecCccccchHHHHHhhhccccCCceEEEEecccccCCCchhhh
Q psy5059 321 GITKVPVGDQPDDIEAQIKQLVLHYISNPNSIILAVVTANTDMATSESLKLAKETDVDGRRTLAVVTKIDLMDAGTDAID 400 (1036)
Q Consensus 321 g~~~~~~~~~~~~~~~~~~~~~~~y~~~~~~~~~~~v~~~~d~~~~~~~~la~~~d~~g~rti~VitK~Dl~~~g~~~~~ 400 (1036)
|-||.|+.+..+...+
T Consensus 121 ----------------------------------------------------------------vGNK~d~~~~~~~s~e 136 (625)
T KOG1707|consen 121 ----------------------------------------------------------------VGNKSDNGDNENNSDE 136 (625)
T ss_pred ----------------------------------------------------------------EeeccCCccccccchh
Q ss_pred hhcCcccccccccccccchHHHHHHHHHHhhccCCCcceeeeecccchhhhHHHHHHhhhc
Q psy5059 401 ILCGRVIPVKLDVDGRRTYIEAQIKQLVLHYISNPNSIILAVVTANTDMATSESLKLAKET 461 (1036)
Q Consensus 401 ~l~~~~~~~~~~~~~~~~~~~~~l~~~v~~~i~~~~~ipla~ISA~td~~~qeil~la~~v 461 (1036)
. .++|+-.-+-..-+-+. +||++..+..+++=+|++.
T Consensus 137 ~---~~~pim~~f~EiEtcie---------------------cSA~~~~n~~e~fYyaqKa 173 (625)
T KOG1707|consen 137 V---NTLPIMIAFAEIETCIE---------------------CSALTLANVSELFYYAQKA 173 (625)
T ss_pred H---HHHHHHHHhHHHHHHHh---------------------hhhhhhhhhHhhhhhhhhe
No 325
>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=95.72 E-value=0.0068 Score=57.94 Aligned_cols=25 Identities=44% Similarity=0.723 Sum_probs=21.8
Q ss_pred eEEEeccCCCchHHHHHhhhcCCcc
Q psy5059 9 QIVVVGTQSSGKSSVIESLVGKSFL 33 (1036)
Q Consensus 9 ~i~vvg~~~~gkss~~~~~~g~~~~ 33 (1036)
.|+|+|..|||||||+++|+|..+.
T Consensus 1 kI~V~G~~g~GKTsLi~~l~~~~~~ 25 (119)
T PF08477_consen 1 KIVVLGDSGVGKTSLIRRLCGGEFP 25 (119)
T ss_dssp EEEEECSTTSSHHHHHHHHHHSS--
T ss_pred CEEEECcCCCCHHHHHHHHhcCCCc
Confidence 4899999999999999999998864
No 326
>COG5256 TEF1 Translation elongation factor EF-1alpha (GTPase) [Translation, ribosomal structure and biogenesis]
Probab=95.71 E-value=0.019 Score=66.39 Aligned_cols=20 Identities=30% Similarity=0.662 Sum_probs=17.6
Q ss_pred ceEEeCcCCCChhhHHhhhc
Q psy5059 85 QIVVVGTQSSGKSSVIESLV 104 (1036)
Q Consensus 85 qIvVvG~QSsGKSSlLEal~ 104 (1036)
.++++|.--+|||+++=.|.
T Consensus 9 nl~~iGHVD~GKSTl~GrLl 28 (428)
T COG5256 9 NLVFIGHVDAGKSTLVGRLL 28 (428)
T ss_pred EEEEEcCCCCCchhhhhhhH
Confidence 58999999999999887764
No 327
>COG0532 InfB Translation initiation factor 2 (IF-2; GTPase) [Translation, ribosomal structure and biogenesis]
Probab=95.71 E-value=0.086 Score=62.89 Aligned_cols=69 Identities=25% Similarity=0.263 Sum_probs=43.3
Q ss_pred chHHHHHhhhccccCCceEEEEecccccCCCchhh--hhhcCcccccccccccccchHHHHHHHHHHhhccCCCcceeee
Q psy5059 365 TSESLKLAKETDVDGRRTLAVVTKIDLMDAGTDAI--DILCGRVIPVKLDVDGRRTYIEAQIKQLVLHYISNPNSIILAV 442 (1036)
Q Consensus 365 ~~~~~~la~~~d~~g~rti~VitK~Dl~~~g~~~~--~~l~~~~~~~~~~~~~~~~~~~~~l~~~v~~~i~~~~~ipla~ 442 (1036)
+-+|.+.|+.. |.++|..+||+|+.+..-+.. +...- |++. . .+-.-...+-
T Consensus 96 TiEAI~hak~a---~vP~iVAiNKiDk~~~np~~v~~el~~~-------gl~~-------------E---~~gg~v~~Vp 149 (509)
T COG0532 96 TIEAINHAKAA---GVPIVVAINKIDKPEANPDKVKQELQEY-------GLVP-------------E---EWGGDVIFVP 149 (509)
T ss_pred HHHHHHHHHHC---CCCEEEEEecccCCCCCHHHHHHHHHHc-------CCCH-------------h---hcCCceEEEE
Confidence 34556666655 899999999999996544422 00000 1110 0 1111256778
Q ss_pred ecccchhhhHHHHHHhh
Q psy5059 443 VTANTDMATSESLKLAK 459 (1036)
Q Consensus 443 ISA~td~~~qeil~la~ 459 (1036)
+||++|.+..+++.+..
T Consensus 150 vSA~tg~Gi~eLL~~il 166 (509)
T COG0532 150 VSAKTGEGIDELLELIL 166 (509)
T ss_pred eeccCCCCHHHHHHHHH
Confidence 99999999999987753
No 328
>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=95.69 E-value=0.012 Score=58.03 Aligned_cols=27 Identities=30% Similarity=0.524 Sum_probs=24.4
Q ss_pred eEEEeccCCCchHHHHHhhhcCCcccc
Q psy5059 9 QIVVVGTQSSGKSSVIESLVGKSFLPR 35 (1036)
Q Consensus 9 ~i~vvg~~~~gkss~~~~~~g~~~~pr 35 (1036)
.|++||.++|||||+++++.+..+.+.
T Consensus 2 ~i~~~G~~~~GKStl~~~l~~~~~~~~ 28 (159)
T cd00154 2 KIVLIGDSGVGKTSLLLRFVDGKFDEN 28 (159)
T ss_pred eEEEECCCCCCHHHHHHHHHhCcCCCc
Confidence 689999999999999999999887664
No 329
>PRK15467 ethanolamine utilization protein EutP; Provisional
Probab=95.66 E-value=0.0078 Score=61.45 Aligned_cols=23 Identities=30% Similarity=0.608 Sum_probs=21.4
Q ss_pred eEEEeccCCCchHHHHHhhhcCC
Q psy5059 9 QIVVVGTQSSGKSSVIESLVGKS 31 (1036)
Q Consensus 9 ~i~vvg~~~~gkss~~~~~~g~~ 31 (1036)
.|++||++|||||||||+|.|..
T Consensus 3 ~i~~iG~~~~GKstl~~~l~~~~ 25 (158)
T PRK15467 3 RIAFVGAVGAGKTTLFNALQGNY 25 (158)
T ss_pred EEEEECCCCCCHHHHHHHHcCCC
Confidence 69999999999999999999864
No 330
>PRK10416 signal recognition particle-docking protein FtsY; Provisional
Probab=95.65 E-value=0.066 Score=61.24 Aligned_cols=22 Identities=41% Similarity=0.604 Sum_probs=20.7
Q ss_pred eEEEeccCCCchHHHHHhhhcC
Q psy5059 9 QIVVVGTQSSGKSSVIESLVGK 30 (1036)
Q Consensus 9 ~i~vvg~~~~gkss~~~~~~g~ 30 (1036)
.|++||.+||||||++-.|.+.
T Consensus 116 vi~lvGpnGsGKTTt~~kLA~~ 137 (318)
T PRK10416 116 VILVVGVNGVGKTTTIGKLAHK 137 (318)
T ss_pred EEEEECCCCCcHHHHHHHHHHH
Confidence 6889999999999999999985
No 331
>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=95.63 E-value=0.0085 Score=68.42 Aligned_cols=37 Identities=22% Similarity=0.238 Sum_probs=28.6
Q ss_pred EEEeccCCCchHHHHHhhhcCCcccccCCccccccEE
Q psy5059 10 IVVVGTQSSGKSSVIESLVGKSFLPRGIGIVTRRPLI 46 (1036)
Q Consensus 10 i~vvg~~~~gkss~~~~~~g~~~~pr~~~~~trrpl~ 46 (1036)
|++||.|||||||+||+|.+..+.+....-+|+.|.+
T Consensus 1 i~ivG~pnvGKStLfn~lt~~~~~~~~~pftT~~p~~ 37 (318)
T cd01899 1 IGLVGKPNAGKSTFFNAATLADVEIANYPFTTIDPNV 37 (318)
T ss_pred CEEECCCCCCHHHHHHHHhCCCCcccCCCCcccccee
Confidence 6899999999999999999977643333346666765
No 332
>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=95.63 E-value=0.0082 Score=59.93 Aligned_cols=26 Identities=35% Similarity=0.568 Sum_probs=23.2
Q ss_pred CeEEEeccCCCchHHHHHhhhcCCcc
Q psy5059 8 PQIVVVGTQSSGKSSVIESLVGKSFL 33 (1036)
Q Consensus 8 p~i~vvg~~~~gkss~~~~~~g~~~~ 33 (1036)
..|+++|.+||||||+++++++..|.
T Consensus 2 ~ki~iiG~~~vGKTsl~~~~~~~~~~ 27 (162)
T cd04138 2 YKLVVVGAGGVGKSALTIQLIQNHFV 27 (162)
T ss_pred eEEEEECCCCCCHHHHHHHHHhCCCc
Confidence 36999999999999999999987763
No 333
>COG1161 Predicted GTPases [General function prediction only]
Probab=95.61 E-value=0.0077 Score=68.89 Aligned_cols=23 Identities=43% Similarity=0.679 Sum_probs=21.5
Q ss_pred EEEeccCCCchHHHHHhhhcCCc
Q psy5059 10 IVVVGTQSSGKSSVIESLVGKSF 32 (1036)
Q Consensus 10 i~vvg~~~~gkss~~~~~~g~~~ 32 (1036)
+.|||.|||||||++|+|+|+.-
T Consensus 135 v~vvG~PNVGKSslIN~L~~k~~ 157 (322)
T COG1161 135 VGVVGYPNVGKSTLINRLLGKKV 157 (322)
T ss_pred EEEEcCCCCcHHHHHHHHhcccc
Confidence 89999999999999999999764
No 334
>PF00448 SRP54: SRP54-type protein, GTPase domain; InterPro: IPR000897 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 []. This entry represents the GTPase domain of the 54 kDa SRP54 component, a GTP-binding protein that interacts with the signal sequence when it emerges from the ribosome. SRP54 of the signal recognition particle has a three-domain structure: an N-terminal helical bundle domain, a GTPase domain, and the M-domain that binds the 7s RNA and also binds the signal sequence. The extreme C-terminal region is glycine-rich and lower in complexity and poorly conserved between species. The GTPase domain is evolutionary related to P-loop NTPase domains found in a variety of other proteins []. These proteins include Escherichia coli and Bacillus subtilis ffh protein (P48), which seems to be the prokaryotic counterpart of SRP54; signal recognition particle receptor alpha subunit (docking protein), an integral membrane GTP-binding protein which ensures, in conjunction with SRP, the correct targeting of nascent secretory proteins to the endoplasmic reticulum membrane; bacterial FtsY protein, which is believed to play a similar role to that of the docking protein in eukaryotes; the pilA protein from Neisseria gonorrhoeae, the homologue of ftsY; and bacterial flagellar biosynthesis protein flhF.; GO: 0005525 GTP binding, 0006614 SRP-dependent cotranslational protein targeting to membrane; PDB: 2OG2_A 3B9Q_A 3DM9_B 3DMD_B 3E70_C 3DM5_B 2XXA_C 2J28_9 1ZU5_B 1ZU4_A ....
Probab=95.56 E-value=0.1 Score=55.53 Aligned_cols=23 Identities=30% Similarity=0.523 Sum_probs=19.8
Q ss_pred eEEEeccCCCchHHHHHhhhcCC
Q psy5059 9 QIVVVGTQSSGKSSVIESLVGKS 31 (1036)
Q Consensus 9 ~i~vvg~~~~gkss~~~~~~g~~ 31 (1036)
.|++||.+||||||.+=.|.-+-
T Consensus 3 vi~lvGptGvGKTTt~aKLAa~~ 25 (196)
T PF00448_consen 3 VIALVGPTGVGKTTTIAKLAARL 25 (196)
T ss_dssp EEEEEESTTSSHHHHHHHHHHHH
T ss_pred EEEEECCCCCchHhHHHHHHHHH
Confidence 47899999999999998887643
No 335
>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=95.55 E-value=0.014 Score=59.26 Aligned_cols=28 Identities=25% Similarity=0.552 Sum_probs=24.3
Q ss_pred eEEEeccCCCchHHHHHhhhcCCccccc
Q psy5059 9 QIVVVGTQSSGKSSVIESLVGKSFLPRG 36 (1036)
Q Consensus 9 ~i~vvg~~~~gkss~~~~~~g~~~~pr~ 36 (1036)
.|+|||.+||||||+++++++..+.+..
T Consensus 2 ki~viG~~~~GKSsl~~~l~~~~~~~~~ 29 (172)
T cd01862 2 KVIILGDSGVGKTSLMNQYVNKKFSNQY 29 (172)
T ss_pred EEEEECCCCCCHHHHHHHHhcCCCCcCc
Confidence 4899999999999999999998775543
No 336
>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=95.52 E-value=0.0079 Score=60.27 Aligned_cols=22 Identities=32% Similarity=0.501 Sum_probs=20.4
Q ss_pred eEEEeccCCCchHHHHHhhhcC
Q psy5059 9 QIVVVGTQSSGKSSVIESLVGK 30 (1036)
Q Consensus 9 ~i~vvg~~~~gkss~~~~~~g~ 30 (1036)
.|+|+|.+||||||++++|+|.
T Consensus 2 ~i~i~G~~~~GKssl~~~l~~~ 23 (164)
T cd04171 2 IIGTAGHIDHGKTTLIKALTGI 23 (164)
T ss_pred EEEEEecCCCCHHHHHHHHhCc
Confidence 5899999999999999999874
No 337
>cd01895 EngA2 EngA2 subfamily. This CD represents the second GTPase domain of EngA and its orthologs, which are composed of two adjacent GTPase domains. Since the sequences of the two domains are more similar to each other than to other GTPases, it is likely that an ancient gene duplication, rather than a fusion of evolutionarily distinct GTPases, gave rise to this family. Although the exact function of these proteins has not been elucidated, studies have revealed that the E. coli EngA homolog, Der, and Neisseria gonorrhoeae EngA are essential for cell viability. A recent report suggests that E. coli Der functions in ribosome assembly and stability.
Probab=95.51 E-value=0.013 Score=58.87 Aligned_cols=28 Identities=29% Similarity=0.523 Sum_probs=24.7
Q ss_pred CCeEEEeccCCCchHHHHHhhhcCCccc
Q psy5059 7 LPQIVVVGTQSSGKSSVIESLVGKSFLP 34 (1036)
Q Consensus 7 lp~i~vvg~~~~gkss~~~~~~g~~~~p 34 (1036)
.++|+++|.+||||||++|+|+|..+.+
T Consensus 2 ~~~i~i~G~~~~GKstli~~l~~~~~~~ 29 (174)
T cd01895 2 PIRIAIIGRPNVGKSSLVNALLGEERVI 29 (174)
T ss_pred CcEEEEEcCCCCCHHHHHHHHhCcccee
Confidence 5789999999999999999999976543
No 338
>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=95.50 E-value=0.0096 Score=60.66 Aligned_cols=27 Identities=26% Similarity=0.470 Sum_probs=24.2
Q ss_pred CCeEEEeccCCCchHHHHHhhhcCCcc
Q psy5059 7 LPQIVVVGTQSSGKSSVIESLVGKSFL 33 (1036)
Q Consensus 7 lp~i~vvg~~~~gkss~~~~~~g~~~~ 33 (1036)
...|++||.+||||||+++++.+..|-
T Consensus 3 ~~ki~vvG~~~~GKSsl~~~~~~~~f~ 29 (167)
T cd01867 3 LFKLLLIGDSGVGKSCLLLRFSEDSFN 29 (167)
T ss_pred ceEEEEECCCCCCHHHHHHHHhhCcCC
Confidence 367999999999999999999997763
No 339
>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=95.48 E-value=0.012 Score=61.70 Aligned_cols=25 Identities=36% Similarity=0.558 Sum_probs=22.4
Q ss_pred CeEEEeccCCCchHHHHHhhhcCCc
Q psy5059 8 PQIVVVGTQSSGKSSVIESLVGKSF 32 (1036)
Q Consensus 8 p~i~vvg~~~~gkss~~~~~~g~~~ 32 (1036)
..|++||.+|||||||+|+|.|...
T Consensus 128 ~~~~~~G~~nvGKStliN~l~~~~~ 152 (190)
T cd01855 128 GDVYVVGATNVGKSTLINALLKKDN 152 (190)
T ss_pred CcEEEEcCCCCCHHHHHHHHHHhcc
Confidence 4799999999999999999998553
No 340
>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=95.47 E-value=0.017 Score=57.78 Aligned_cols=26 Identities=46% Similarity=0.622 Sum_probs=23.4
Q ss_pred eEEEeccCCCchHHHHHhhhcCCccc
Q psy5059 9 QIVVVGTQSSGKSSVIESLVGKSFLP 34 (1036)
Q Consensus 9 ~i~vvg~~~~gkss~~~~~~g~~~~p 34 (1036)
.++++|.+|||||||+|+|.|..+.+
T Consensus 85 ~~~~~G~~~vGKstlin~l~~~~~~~ 110 (141)
T cd01857 85 TIGLVGYPNVGKSSLINALVGKKKVS 110 (141)
T ss_pred EEEEECCCCCCHHHHHHHHhCCCcee
Confidence 68999999999999999999977653
No 341
>PF03029 ATP_bind_1: Conserved hypothetical ATP binding protein; InterPro: IPR004130 Members of this family are found in a range of archaea and eukaryotes and have hypothesised ATP binding activity.; GO: 0000166 nucleotide binding; PDB: 1YR7_A 1YRA_B 1YR8_A 1YR6_A 1YR9_A 1YRB_A 2OXR_A.
Probab=95.45 E-value=0.038 Score=60.64 Aligned_cols=72 Identities=11% Similarity=0.114 Sum_probs=43.6
Q ss_pred cCCceEEEEecccccCCCchhhhhhcCcccccccccccccchH-------HHHHHHHHHhhccCCCcc-eeeeecccchh
Q psy5059 378 DGRRTLAVVTKIDLMDAGTDAIDILCGRVIPVKLDVDGRRTYI-------EAQIKQLVLHYISNPNSI-ILAVVTANTDM 449 (1036)
Q Consensus 378 ~g~rti~VitK~Dl~~~g~~~~~~l~~~~~~~~~~~~~~~~~~-------~~~l~~~v~~~i~~~~~i-pla~ISA~td~ 449 (1036)
-+-+.|-|+||+|+..+..+ ..+.|......+ .+.+...+...+...... ....+|+.++.
T Consensus 155 ~~lP~vnvlsK~Dl~~~~~~-----------~~l~~~~d~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~f~pls~~~~~ 223 (238)
T PF03029_consen 155 LELPHVNVLSKIDLLSKYLE-----------FILEWFEDPDSLEDLLESDYKKLNEEIAELLDDFGLVIRFIPLSSKDGE 223 (238)
T ss_dssp HTSEEEEEE--GGGS-HHHH-----------HHHHHHHSHHHHHHHHHT-HHHHHHHHHHHCCCCSSS---EE-BTTTTT
T ss_pred CCCCEEEeeeccCcccchhH-----------HHHHHhcChHHHHHHHHHHHHHHHHHHHHHHhhcCCCceEEEEECCChH
Confidence 47899999999999974311 011111111111 356777788888777777 88889999999
Q ss_pred hhHHHHHHhhh
Q psy5059 450 ATSESLKLAKE 460 (1036)
Q Consensus 450 ~~qeil~la~~ 460 (1036)
...+++..+.+
T Consensus 224 ~~~~L~~~id~ 234 (238)
T PF03029_consen 224 GMEELLAAIDK 234 (238)
T ss_dssp THHHHHHHHHH
T ss_pred HHHHHHHHHHH
Confidence 99998887654
No 342
>COG0541 Ffh Signal recognition particle GTPase [Intracellular trafficking and secretion]
Probab=95.45 E-value=0.18 Score=58.97 Aligned_cols=43 Identities=19% Similarity=0.385 Sum_probs=27.5
Q ss_pred CcccceeecCCCccccCCCCCchhHHHHHHHHHHHhhcCCCcEEEEEecc
Q psy5059 239 SVLNLTLVDLPGITKVPVGDQPDDIEAQIKQLVLHYISNPNSIILAVVTA 288 (1036)
Q Consensus 239 ~~~~LtlVDLPGi~~~~~~~q~~di~~~ir~lv~~yI~~~n~IIL~V~~A 288 (1036)
...|+.+|||.|=.+ ..++..+.++++ +-+-+|+-++|+++.+
T Consensus 181 ~~~DvvIvDTAGRl~-----ide~Lm~El~~I--k~~~~P~E~llVvDam 223 (451)
T COG0541 181 EGYDVVIVDTAGRLH-----IDEELMDELKEI--KEVINPDETLLVVDAM 223 (451)
T ss_pred cCCCEEEEeCCCccc-----ccHHHHHHHHHH--HhhcCCCeEEEEEecc
Confidence 346788999999432 345555555555 5566777666666544
No 343
>KOG0075|consensus
Probab=95.45 E-value=0.056 Score=54.18 Aligned_cols=37 Identities=27% Similarity=0.473 Sum_probs=28.5
Q ss_pred cceeecCCCccccCCCCCchhHHHHHHHHHHHhhcCCCcEEEEEeccccc
Q psy5059 242 NLTLVDLPGITKVPVGDQPDDIEAQIKQLVLHYISNPNSIILAVVTANTD 291 (1036)
Q Consensus 242 ~LtlVDLPGi~~~~~~~q~~di~~~ir~lv~~yI~~~n~IIL~V~~An~D 291 (1036)
...+.|+||- | ..|+|-..|-+.-+.|+-+|++|..|
T Consensus 66 tiklwD~gGq--------~-----rfrsmWerycR~v~aivY~VDaad~~ 102 (186)
T KOG0075|consen 66 TIKLWDLGGQ--------P-----RFRSMWERYCRGVSAIVYVVDAADPD 102 (186)
T ss_pred EEEEEecCCC--------c-----cHHHHHHHHhhcCcEEEEEeecCCcc
Confidence 3346789993 3 46899999999999888888877644
No 344
>TIGR01425 SRP54_euk signal recognition particle protein SRP54. This model represents examples from the eukaryotic cytosol of the signal recognition particle protein component, SRP54. This GTP-binding protein is a component of the eukaryotic signal recognition particle, along with several other protein subunits and a 7S RNA. Some species, including Arabidopsis, have several closely related forms. The extreme C-terminal region is glycine-rich and lower in complexity, poorly conserved between species, and excluded from this model.
Probab=95.43 E-value=0.081 Score=62.64 Aligned_cols=32 Identities=19% Similarity=0.236 Sum_probs=22.8
Q ss_pred CCceEEEEecccccCCCchhhhhhcCcccccc
Q psy5059 379 GRRTLAVVTKIDLMDAGTDAIDILCGRVIPVK 410 (1036)
Q Consensus 379 g~rti~VitK~Dl~~~g~~~~~~l~~~~~~~~ 410 (1036)
...+-.|+||+|-..+|..++.+..---.|++
T Consensus 239 ~~~~g~IlTKlD~~argG~aLs~~~~t~~PI~ 270 (429)
T TIGR01425 239 VDVGSVIITKLDGHAKGGGALSAVAATKSPII 270 (429)
T ss_pred cCCcEEEEECccCCCCccHHhhhHHHHCCCeE
Confidence 34567899999999888777755554445555
No 345
>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=95.41 E-value=0.014 Score=60.59 Aligned_cols=30 Identities=37% Similarity=0.573 Sum_probs=26.0
Q ss_pred CCCeEEEeccCCCchHHHHHhhhcCCcccc
Q psy5059 6 QLPQIVVVGTQSSGKSSVIESLVGKSFLPR 35 (1036)
Q Consensus 6 ~lp~i~vvg~~~~gkss~~~~~~g~~~~pr 35 (1036)
..|.|+|+|.+||||||++|+|+|..+.+.
T Consensus 17 ~~~~i~ivG~~~~GKStlin~l~~~~~~~~ 46 (179)
T TIGR03598 17 DGPEIAFAGRSNVGKSSLINALTNRKKLAR 46 (179)
T ss_pred CCCEEEEEcCCCCCHHHHHHHHhCCCCccc
Confidence 468999999999999999999999765543
No 346
>COG1161 Predicted GTPases [General function prediction only]
Probab=95.39 E-value=0.013 Score=67.20 Aligned_cols=23 Identities=43% Similarity=0.699 Sum_probs=21.6
Q ss_pred ceEEeCcCCCChhhHHhhhcCCC
Q psy5059 85 QIVVVGTQSSGKSSVIESLVGKS 107 (1036)
Q Consensus 85 qIvVvG~QSsGKSSlLEal~G~~ 107 (1036)
.+.|||-+|+||||++++|+|..
T Consensus 134 ~v~vvG~PNVGKSslIN~L~~k~ 156 (322)
T COG1161 134 RVGVVGYPNVGKSTLINRLLGKK 156 (322)
T ss_pred EEEEEcCCCCcHHHHHHHHhccc
Confidence 48999999999999999999987
No 347
>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=95.38 E-value=0.016 Score=64.86 Aligned_cols=42 Identities=31% Similarity=0.419 Sum_probs=30.0
Q ss_pred CeEEEeccCCCchHHHHHhhhcCCccccc-CCccccccEEEee
Q psy5059 8 PQIVVVGTQSSGKSSVIESLVGKSFLPRG-IGIVTRRPLILQL 49 (1036)
Q Consensus 8 p~i~vvg~~~~gkss~~~~~~g~~~~pr~-~~~~trrpl~l~l 49 (1036)
..|+|||.|||||||++|+|.|....+.+ ...+||.+-.+.+
T Consensus 119 ~~~~~vG~~nvGKSslin~l~~~~~~~~~~~~g~T~~~~~~~~ 161 (276)
T TIGR03596 119 IRAMIVGIPNVGKSTLINRLAGKKVAKVGNRPGVTKGQQWIKL 161 (276)
T ss_pred eEEEEECCCCCCHHHHHHHHhCCCccccCCCCCeecceEEEEe
Confidence 46999999999999999999996644432 2234666544433
No 348
>COG1163 DRG Predicted GTPase [General function prediction only]
Probab=95.38 E-value=0.015 Score=65.27 Aligned_cols=23 Identities=30% Similarity=0.544 Sum_probs=21.6
Q ss_pred eEEEeccCCCchHHHHHhhhcCC
Q psy5059 9 QIVVVGTQSSGKSSVIESLVGKS 31 (1036)
Q Consensus 9 ~i~vvg~~~~gkss~~~~~~g~~ 31 (1036)
|||+||.|||||||||+.|.|..
T Consensus 65 ~v~lVGfPsvGKStLL~~LTnt~ 87 (365)
T COG1163 65 TVALVGFPSVGKSTLLNKLTNTK 87 (365)
T ss_pred EEEEEcCCCccHHHHHHHHhCCC
Confidence 89999999999999999999944
No 349
>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=95.38 E-value=0.016 Score=58.72 Aligned_cols=29 Identities=28% Similarity=0.528 Sum_probs=25.7
Q ss_pred CCeEEEeccCCCchHHHHHhhhcCCcccc
Q psy5059 7 LPQIVVVGTQSSGKSSVIESLVGKSFLPR 35 (1036)
Q Consensus 7 lp~i~vvg~~~~gkss~~~~~~g~~~~pr 35 (1036)
++.|+++|.+||||||+++++++..+.|.
T Consensus 7 ~~~v~v~G~~~~GKSsli~~l~~~~~~~~ 35 (169)
T cd04114 7 LFKIVLIGNAGVGKTCLVRRFTQGLFPPG 35 (169)
T ss_pred eeEEEEECCCCCCHHHHHHHHHhCCCCCC
Confidence 58999999999999999999998776553
No 350
>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=95.36 E-value=0.012 Score=59.21 Aligned_cols=26 Identities=35% Similarity=0.579 Sum_probs=23.6
Q ss_pred eEEEeccCCCchHHHHHhhhcCCccc
Q psy5059 9 QIVVVGTQSSGKSSVIESLVGKSFLP 34 (1036)
Q Consensus 9 ~i~vvg~~~~gkss~~~~~~g~~~~p 34 (1036)
.|+|+|.+||||||++|++.+..+.+
T Consensus 3 ki~v~G~~~~GKSsli~~l~~~~~~~ 28 (163)
T cd01860 3 KLVLLGDSSVGKSSLVLRFVKNEFSE 28 (163)
T ss_pred EEEEECCCCCCHHHHHHHHHcCCCCC
Confidence 58999999999999999999988654
No 351
>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=95.35 E-value=0.012 Score=59.44 Aligned_cols=25 Identities=32% Similarity=0.575 Sum_probs=22.5
Q ss_pred eEEEeccCCCchHHHHHhhhcCCcc
Q psy5059 9 QIVVVGTQSSGKSSVIESLVGKSFL 33 (1036)
Q Consensus 9 ~i~vvg~~~~gkss~~~~~~g~~~~ 33 (1036)
.|+|+|.+||||||+++++++..|.
T Consensus 2 ki~v~G~~~~GKTsli~~~~~~~~~ 26 (164)
T smart00173 2 KLVVLGSGGVGKSALTIQFVQGHFV 26 (164)
T ss_pred EEEEECCCCCCHHHHHHHHHhCcCC
Confidence 5899999999999999999987763
No 352
>PRK12296 obgE GTPase CgtA; Reviewed
Probab=95.34 E-value=0.016 Score=69.77 Aligned_cols=25 Identities=36% Similarity=0.534 Sum_probs=22.9
Q ss_pred CCeEEEeccCCCchHHHHHhhhcCC
Q psy5059 7 LPQIVVVGTQSSGKSSVIESLVGKS 31 (1036)
Q Consensus 7 lp~i~vvg~~~~gkss~~~~~~g~~ 31 (1036)
++.|++||.||||||||||+|.+..
T Consensus 159 ~adV~LVG~PNAGKSTLln~Ls~ak 183 (500)
T PRK12296 159 VADVGLVGFPSAGKSSLISALSAAK 183 (500)
T ss_pred cceEEEEEcCCCCHHHHHHHHhcCC
Confidence 5789999999999999999999853
No 353
>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=95.31 E-value=0.015 Score=58.47 Aligned_cols=26 Identities=31% Similarity=0.627 Sum_probs=23.2
Q ss_pred eEEEeccCCCchHHHHHhhhcCCccc
Q psy5059 9 QIVVVGTQSSGKSSVIESLVGKSFLP 34 (1036)
Q Consensus 9 ~i~vvg~~~~gkss~~~~~~g~~~~p 34 (1036)
.|+|+|.+||||||+++++.+..+.+
T Consensus 2 ki~v~G~~~~GKSsli~~l~~~~~~~ 27 (161)
T cd01863 2 KILLIGDSGVGKSSLLLRFTDDTFDP 27 (161)
T ss_pred EEEEECCCCCCHHHHHHHHHcCCCCc
Confidence 48999999999999999999877644
No 354
>smart00175 RAB Rab subfamily of small GTPases. Rab GTPases are implicated in vesicle trafficking.
Probab=95.29 E-value=0.018 Score=57.71 Aligned_cols=27 Identities=26% Similarity=0.562 Sum_probs=23.8
Q ss_pred eEEEeccCCCchHHHHHhhhcCCcccc
Q psy5059 9 QIVVVGTQSSGKSSVIESLVGKSFLPR 35 (1036)
Q Consensus 9 ~i~vvg~~~~gkss~~~~~~g~~~~pr 35 (1036)
.|+|+|.+||||||+++++.+..+-+.
T Consensus 2 kv~v~G~~~~GKTtli~~l~~~~~~~~ 28 (164)
T smart00175 2 KIILIGDSGVGKSSLLSRFTDGKFSEQ 28 (164)
T ss_pred EEEEECCCCCCHHHHHHHHhcCCCCCC
Confidence 489999999999999999999887443
No 355
>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=95.24 E-value=0.014 Score=63.22 Aligned_cols=24 Identities=42% Similarity=0.630 Sum_probs=22.1
Q ss_pred CCeEEEeccCCCchHHHHHhhhcC
Q psy5059 7 LPQIVVVGTQSSGKSSVIESLVGK 30 (1036)
Q Consensus 7 lp~i~vvg~~~~gkss~~~~~~g~ 30 (1036)
+=.|+|+|.|++|||+|+|.|+|.
T Consensus 7 v~vvsv~G~~~sGKS~llN~l~~~ 30 (224)
T cd01851 7 VAVVSVFGPQSSGKSFLLNHLFGT 30 (224)
T ss_pred EEEEEEECCCCCCHHHHHHHHhCC
Confidence 347999999999999999999998
No 356
>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=95.23 E-value=0.014 Score=59.32 Aligned_cols=25 Identities=28% Similarity=0.557 Sum_probs=22.7
Q ss_pred eEEEeccCCCchHHHHHhhhcCCcc
Q psy5059 9 QIVVVGTQSSGKSSVIESLVGKSFL 33 (1036)
Q Consensus 9 ~i~vvg~~~~gkss~~~~~~g~~~~ 33 (1036)
.|++||.+||||||+++++++..|.
T Consensus 3 ki~i~G~~~~GKSsli~~l~~~~~~ 27 (165)
T cd01865 3 KLLIIGNSSVGKTSFLFRYADDSFT 27 (165)
T ss_pred EEEEECCCCCCHHHHHHHHhcCCCC
Confidence 6999999999999999999987763
No 357
>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=95.20 E-value=0.043 Score=57.43 Aligned_cols=61 Identities=18% Similarity=0.354 Sum_probs=42.9
Q ss_pred cccEEEeeccCCCchhhhhhhHHHHHHHHH-hhhhcCCCC-CCCCceEEeCcCCCChhhHHhhhcC
Q psy5059 42 RRPLILQLYYCPKDDREKRTAAAVINKLQD-VFNTVGTDA-IQLPQIVVVGTQSSGKSSVIESLVG 105 (1036)
Q Consensus 42 rrpl~l~l~~~~~~~~~~~~~~~l~~kL~~-~~~~~g~~~-i~lPqIvVvG~QSsGKSSlLEal~G 105 (1036)
+.|+++.+||+|.. ...+...++++.+ ++...+... -..|-+.+-+-.+.|--.|+++|..
T Consensus 122 ~~p~ivvlNK~D~~---~~~~~~~~~~~~~~l~~~~~~~~~~~~~vi~~Sa~~g~gi~~Ll~~l~~ 184 (188)
T PF00009_consen 122 GIPIIVVLNKMDLI---EKELEEIIEEIKEKLLKEYGENGEEIVPVIPISALTGDGIDELLEALVE 184 (188)
T ss_dssp T-SEEEEEETCTSS---HHHHHHHHHHHHHHHHHHTTSTTTSTEEEEEEBTTTTBTHHHHHHHHHH
T ss_pred ccceEEeeeeccch---hhhHHHHHHHHHHHhccccccCccccceEEEEecCCCCCHHHHHHHHHH
Confidence 34899999999886 3345566666663 334444332 3578888999999999999999864
No 358
>PRK12299 obgE GTPase CgtA; Reviewed
Probab=95.18 E-value=0.021 Score=65.80 Aligned_cols=44 Identities=20% Similarity=0.237 Sum_probs=30.5
Q ss_pred CCeEEEeccCCCchHHHHHhhhcCCcccccCCccccccEEEeec
Q psy5059 7 LPQIVVVGTQSSGKSSVIESLVGKSFLPRGIGIVTRRPLILQLY 50 (1036)
Q Consensus 7 lp~i~vvg~~~~gkss~~~~~~g~~~~pr~~~~~trrpl~l~l~ 50 (1036)
++.|++||.|||||||||++|.+...........|+.|.+=.+.
T Consensus 158 ~adVglVG~PNaGKSTLln~ls~a~~~va~ypfTT~~p~~G~v~ 201 (335)
T PRK12299 158 LADVGLVGLPNAGKSTLISAVSAAKPKIADYPFTTLHPNLGVVR 201 (335)
T ss_pred cCCEEEEcCCCCCHHHHHHHHHcCCCccCCCCCceeCceEEEEE
Confidence 57899999999999999999998431111112236667665443
No 359
>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=95.18 E-value=0.022 Score=63.95 Aligned_cols=25 Identities=32% Similarity=0.618 Sum_probs=21.4
Q ss_pred ceEEeCcCCCChhhHHhhhcCCCcC
Q psy5059 85 QIVVVGTQSSGKSSVIESLVGKSFL 109 (1036)
Q Consensus 85 qIvVvG~QSsGKSSlLEal~G~~fl 109 (1036)
.|.|+|..++||||++++|.+..+.
T Consensus 6 nImVvG~sG~GKTTFIntL~~~~~~ 30 (281)
T PF00735_consen 6 NIMVVGESGLGKTTFINTLFNSDII 30 (281)
T ss_dssp EEEEEECTTSSHHHHHHHHHTSS--
T ss_pred EEEEECCCCCCHHHHHHHHHhcccc
Confidence 4789999999999999999998753
No 360
>KOG0094|consensus
Probab=95.17 E-value=0.036 Score=58.10 Aligned_cols=51 Identities=29% Similarity=0.504 Sum_probs=36.9
Q ss_pred CCCCeEEEeccCCCchHHHHHhh------------hcCCcccccCCccccccEEEeeccCCCch
Q psy5059 5 IQLPQIVVVGTQSSGKSSVIESL------------VGKSFLPRGIGIVTRRPLILQLYYCPKDD 56 (1036)
Q Consensus 5 ~~lp~i~vvg~~~~gkss~~~~~------------~g~~~~pr~~~~~trrpl~l~l~~~~~~~ 56 (1036)
+..-.||++|.|||||+|++.+. +|.||+-.. --...||+=|||=-+.+.+
T Consensus 20 ~k~~KlVflGdqsVGKTslItRf~yd~fd~~YqATIGiDFlskt-~~l~d~~vrLQlWDTAGQE 82 (221)
T KOG0094|consen 20 LKKYKLVFLGDQSVGKTSLITRFMYDKFDNTYQATIGIDFLSKT-MYLEDRTVRLQLWDTAGQE 82 (221)
T ss_pred ceEEEEEEEccCccchHHHHHHHHHhhhcccccceeeeEEEEEE-EEEcCcEEEEEEEecccHH
Confidence 44458999999999999999987 578887532 1223458888887766533
No 361
>PRK14974 cell division protein FtsY; Provisional
Probab=95.17 E-value=0.33 Score=55.97 Aligned_cols=21 Identities=38% Similarity=0.566 Sum_probs=19.7
Q ss_pred eEEEeccCCCchHHHHHhhhc
Q psy5059 9 QIVVVGTQSSGKSSVIESLVG 29 (1036)
Q Consensus 9 ~i~vvg~~~~gkss~~~~~~g 29 (1036)
.|+++|.+||||||++..|..
T Consensus 142 vi~~~G~~GvGKTTtiakLA~ 162 (336)
T PRK14974 142 VIVFVGVNGTGKTTTIAKLAY 162 (336)
T ss_pred EEEEEcCCCCCHHHHHHHHHH
Confidence 689999999999999999986
No 362
>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=95.14 E-value=0.019 Score=66.00 Aligned_cols=25 Identities=28% Similarity=0.520 Sum_probs=22.7
Q ss_pred CCeEEEeccCCCchHHHHHhhhcCC
Q psy5059 7 LPQIVVVGTQSSGKSSVIESLVGKS 31 (1036)
Q Consensus 7 lp~i~vvg~~~~gkss~~~~~~g~~ 31 (1036)
++.|++||.|||||||||++|.+..
T Consensus 157 ~adV~lvG~pnaGKSTLl~~lt~~~ 181 (329)
T TIGR02729 157 LADVGLVGLPNAGKSTLISAVSAAK 181 (329)
T ss_pred cccEEEEcCCCCCHHHHHHHHhcCC
Confidence 5789999999999999999999854
No 363
>PRK09563 rbgA GTPase YlqF; Reviewed
Probab=95.12 E-value=0.02 Score=64.42 Aligned_cols=39 Identities=28% Similarity=0.404 Sum_probs=28.8
Q ss_pred CeEEEeccCCCchHHHHHhhhcCCccccc-CCccccccEE
Q psy5059 8 PQIVVVGTQSSGKSSVIESLVGKSFLPRG-IGIVTRRPLI 46 (1036)
Q Consensus 8 p~i~vvg~~~~gkss~~~~~~g~~~~pr~-~~~~trrpl~ 46 (1036)
..|++||.|||||||++|+|.|......+ ...+||.+-.
T Consensus 122 ~~~~~~G~pnvGKSsliN~l~~~~~~~~~~~~g~T~~~~~ 161 (287)
T PRK09563 122 IRAMIIGIPNVGKSTLINRLAGKKIAKTGNRPGVTKAQQW 161 (287)
T ss_pred eEEEEECCCCCCHHHHHHHHhcCCccccCCCCCeEEEEEE
Confidence 36999999999999999999997654332 2235666533
No 364
>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=95.08 E-value=0.019 Score=59.05 Aligned_cols=27 Identities=30% Similarity=0.418 Sum_probs=22.5
Q ss_pred CeEEEeccCCCchHHHHHhhhcCCccc
Q psy5059 8 PQIVVVGTQSSGKSSVIESLVGKSFLP 34 (1036)
Q Consensus 8 p~i~vvg~~~~gkss~~~~~~g~~~~p 34 (1036)
..+|++|..|||||||+|+|+|...++
T Consensus 36 k~~vl~G~SGvGKSSLiN~L~~~~~~~ 62 (161)
T PF03193_consen 36 KTSVLLGQSGVGKSSLINALLPEAKQK 62 (161)
T ss_dssp SEEEEECSTTSSHHHHHHHHHTSS---
T ss_pred CEEEEECCCCCCHHHHHHHHHhhcchh
Confidence 689999999999999999999975555
No 365
>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=95.08 E-value=0.022 Score=57.85 Aligned_cols=44 Identities=32% Similarity=0.285 Sum_probs=35.4
Q ss_pred CCCceEEeCcCCCChhhHHhhhcCCCcCccccc-ccccCceEEEE
Q psy5059 82 QLPQIVVVGTQSSGKSSVIESLVGKSFLPRGIG-IVTRRPLILQL 125 (1036)
Q Consensus 82 ~lPqIvVvG~QSsGKSSlLEal~G~~flPrg~G-~cTR~Pl~l~l 125 (1036)
..++++++|.+++||||++++|.|..-.+.+.+ -+||++..+.+
T Consensus 99 ~~~~~~~~G~~~~GKstlin~l~~~~~~~~~~~~~~t~~~~~~~~ 143 (155)
T cd01849 99 KSITVGVIGYPNVGKSSVINALLNKLKLKVGNVPGTTTSQQEVKL 143 (155)
T ss_pred cCcEEEEEccCCCCHHHHHHHHHccccccccCCCCcccceEEEEe
Confidence 457899999999999999999999765555554 67888876554
No 366
>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=95.07 E-value=0.015 Score=58.28 Aligned_cols=23 Identities=39% Similarity=0.673 Sum_probs=21.2
Q ss_pred eEEEeccCCCchHHHHHhhhcCC
Q psy5059 9 QIVVVGTQSSGKSSVIESLVGKS 31 (1036)
Q Consensus 9 ~i~vvg~~~~gkss~~~~~~g~~ 31 (1036)
+|++||.+||||||++++|.+..
T Consensus 1 ~i~~vG~~~~GKTsl~~~l~~~~ 23 (162)
T cd04157 1 NILVVGLDNSGKTTIINQLKPEN 23 (162)
T ss_pred CEEEECCCCCCHHHHHHHHcccC
Confidence 58999999999999999999865
No 367
>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=95.06 E-value=0.016 Score=58.84 Aligned_cols=24 Identities=38% Similarity=0.624 Sum_probs=22.3
Q ss_pred eEEEeccCCCchHHHHHhhhcCCc
Q psy5059 9 QIVVVGTQSSGKSSVIESLVGKSF 32 (1036)
Q Consensus 9 ~i~vvg~~~~gkss~~~~~~g~~~ 32 (1036)
.|++||.+||||||+++++++..|
T Consensus 3 kv~~vG~~~vGKTsli~~~~~~~f 26 (165)
T cd04140 3 RVVVFGAGGVGKSSLVLRFVKGTF 26 (165)
T ss_pred EEEEECCCCCCHHHHHHHHHhCCC
Confidence 589999999999999999998776
No 368
>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=95.04 E-value=0.018 Score=63.46 Aligned_cols=29 Identities=34% Similarity=0.462 Sum_probs=24.7
Q ss_pred CCeEEEeccCCCchHHHHHhhhcCCcccc
Q psy5059 7 LPQIVVVGTQSSGKSSVIESLVGKSFLPR 35 (1036)
Q Consensus 7 lp~i~vvg~~~~gkss~~~~~~g~~~~pr 35 (1036)
-..|+|||..||||||++|+|.|.+..+.
T Consensus 31 ~~~IllvG~tGvGKSSliNaLlg~~~~~v 59 (249)
T cd01853 31 SLTILVLGKTGVGKSSTINSIFGERKAAT 59 (249)
T ss_pred CeEEEEECCCCCcHHHHHHHHhCCCCccc
Confidence 35899999999999999999999764433
No 369
>PRK12297 obgE GTPase CgtA; Reviewed
Probab=95.02 E-value=0.02 Score=67.82 Aligned_cols=25 Identities=24% Similarity=0.434 Sum_probs=22.6
Q ss_pred CCeEEEeccCCCchHHHHHhhhcCC
Q psy5059 7 LPQIVVVGTQSSGKSSVIESLVGKS 31 (1036)
Q Consensus 7 lp~i~vvg~~~~gkss~~~~~~g~~ 31 (1036)
++.|++||.|||||||||++|.+..
T Consensus 158 ~adVglVG~pNaGKSTLLn~Lt~ak 182 (424)
T PRK12297 158 LADVGLVGFPNVGKSTLLSVVSNAK 182 (424)
T ss_pred cCcEEEEcCCCCCHHHHHHHHHcCC
Confidence 4599999999999999999999854
No 370
>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=95.02 E-value=0.016 Score=58.11 Aligned_cols=25 Identities=32% Similarity=0.503 Sum_probs=22.4
Q ss_pred CeEEEeccCCCchHHHHHhhhcCCc
Q psy5059 8 PQIVVVGTQSSGKSSVIESLVGKSF 32 (1036)
Q Consensus 8 p~i~vvg~~~~gkss~~~~~~g~~~ 32 (1036)
..|++||.+|||||||++++++..|
T Consensus 2 ~ki~i~G~~~vGKTsl~~~~~~~~~ 26 (163)
T cd04136 2 YKVVVLGSGGVGKSALTVQFVQGIF 26 (163)
T ss_pred eEEEEECCCCCCHHHHHHHHHhCCC
Confidence 4799999999999999999997655
No 371
>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=95.00 E-value=0.016 Score=58.12 Aligned_cols=24 Identities=29% Similarity=0.541 Sum_probs=22.0
Q ss_pred eEEEeccCCCchHHHHHhhhcCCc
Q psy5059 9 QIVVVGTQSSGKSSVIESLVGKSF 32 (1036)
Q Consensus 9 ~i~vvg~~~~gkss~~~~~~g~~~ 32 (1036)
.|+++|.+||||||+++++++..|
T Consensus 1 ~i~i~G~~~~GKTsl~~~~~~~~~ 24 (160)
T cd04156 1 QVLLLGLDSAGKSTLLYKLKHAEL 24 (160)
T ss_pred CEEEEcCCCCCHHHHHHHHhcCCc
Confidence 489999999999999999998765
No 372
>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=94.98 E-value=0.017 Score=59.18 Aligned_cols=25 Identities=24% Similarity=0.658 Sum_probs=22.6
Q ss_pred CCeEEEeccCCCchHHHHHhhhcCC
Q psy5059 7 LPQIVVVGTQSSGKSSVIESLVGKS 31 (1036)
Q Consensus 7 lp~i~vvg~~~~gkss~~~~~~g~~ 31 (1036)
-+.|++||.+|||||||+++|+|.+
T Consensus 14 ~~kv~ivG~~~~GKTsL~~~l~~~~ 38 (173)
T cd04154 14 EMRILILGLDNAGKTTILKKLLGED 38 (173)
T ss_pred ccEEEEECCCCCCHHHHHHHHccCC
Confidence 4689999999999999999999863
No 373
>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=94.96 E-value=0.017 Score=61.28 Aligned_cols=24 Identities=21% Similarity=0.674 Sum_probs=22.2
Q ss_pred eEEEeccCCCchHHHHHhhhcCCc
Q psy5059 9 QIVVVGTQSSGKSSVIESLVGKSF 32 (1036)
Q Consensus 9 ~i~vvg~~~~gkss~~~~~~g~~~ 32 (1036)
.|+|||.+||||||+++++++.+|
T Consensus 2 kI~ivG~~~vGKTsLi~~~~~~~f 25 (198)
T cd04142 2 RVAVLGAPGVGKTAIVRQFLAQEF 25 (198)
T ss_pred EEEEECCCCCcHHHHHHHHHcCCC
Confidence 589999999999999999998776
No 374
>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=94.95 E-value=0.03 Score=54.64 Aligned_cols=25 Identities=40% Similarity=0.776 Sum_probs=22.9
Q ss_pred CeEEEeccCCCchHHHHHhhhcCCc
Q psy5059 8 PQIVVVGTQSSGKSSVIESLVGKSF 32 (1036)
Q Consensus 8 p~i~vvg~~~~gkss~~~~~~g~~~ 32 (1036)
+.|+++|.+||||||+++++++..+
T Consensus 2 ~ki~~~G~~~~GKstl~~~l~~~~~ 26 (161)
T TIGR00231 2 IKIVIVGDPNVGKSTLLNRLLGNKF 26 (161)
T ss_pred eEEEEECCCCCCHHHHHHHHhCCCC
Confidence 4799999999999999999999773
No 375
>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=94.94 E-value=0.023 Score=62.00 Aligned_cols=23 Identities=30% Similarity=0.556 Sum_probs=21.5
Q ss_pred eEEEeccCCCchHHHHHhhhcCC
Q psy5059 9 QIVVVGTQSSGKSSVIESLVGKS 31 (1036)
Q Consensus 9 ~i~vvg~~~~gkss~~~~~~g~~ 31 (1036)
+|++||.+||||||||++|.|..
T Consensus 2 ~v~lvG~~~~GKStLl~~Ltg~~ 24 (233)
T cd01896 2 RVALVGFPSVGKSTLLSKLTNTK 24 (233)
T ss_pred EEEEECCCCCCHHHHHHHHHCCC
Confidence 68999999999999999999965
No 376
>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=94.92 E-value=0.098 Score=55.58 Aligned_cols=22 Identities=14% Similarity=0.360 Sum_probs=20.0
Q ss_pred CeEEEeccCCCchHHHHHhhhc
Q psy5059 8 PQIVVVGTQSSGKSSVIESLVG 29 (1036)
Q Consensus 8 p~i~vvg~~~~gkss~~~~~~g 29 (1036)
-.|++||..++|||||+++|.+
T Consensus 3 ~ni~iiGh~~~GKTTL~~~Ll~ 24 (195)
T cd01884 3 VNVGTIGHVDHGKTTLTAAITK 24 (195)
T ss_pred EEEEEECCCCCCHHHHHHHHHH
Confidence 3689999999999999999975
No 377
>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=94.92 E-value=0.022 Score=56.77 Aligned_cols=26 Identities=27% Similarity=0.492 Sum_probs=23.4
Q ss_pred eEEEeccCCCchHHHHHhhhcCCccc
Q psy5059 9 QIVVVGTQSSGKSSVIESLVGKSFLP 34 (1036)
Q Consensus 9 ~i~vvg~~~~gkss~~~~~~g~~~~p 34 (1036)
.|++||.++|||||+++++++..+.|
T Consensus 2 ki~i~G~~~~GKStli~~l~~~~~~~ 27 (162)
T cd04123 2 KVVLLGEGRVGKTSLVLRYVENKFNE 27 (162)
T ss_pred EEEEECCCCCCHHHHHHHHHhCCCCC
Confidence 48999999999999999999987654
No 378
>KOG0080|consensus
Probab=94.91 E-value=0.097 Score=53.20 Aligned_cols=26 Identities=31% Similarity=0.566 Sum_probs=22.4
Q ss_pred CCceEEeCcCCCChhhHHhhhcCCCc
Q psy5059 83 LPQIVVVGTQSSGKSSVIESLVGKSF 108 (1036)
Q Consensus 83 lPqIvVvG~QSsGKSSlLEal~G~~f 108 (1036)
.-+|.++|+.++||||||-+.+.-.|
T Consensus 11 t~KiLlIGeSGVGKSSLllrFv~~~f 36 (209)
T KOG0080|consen 11 TFKILLIGESGVGKSSLLLRFVSNTF 36 (209)
T ss_pred eEEEEEEccCCccHHHHHHHHHhccc
Confidence 46899999999999999998876655
No 379
>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=94.90 E-value=0.02 Score=58.07 Aligned_cols=25 Identities=16% Similarity=0.486 Sum_probs=22.6
Q ss_pred CeEEEeccCCCchHHHHHhhhcCCc
Q psy5059 8 PQIVVVGTQSSGKSSVIESLVGKSF 32 (1036)
Q Consensus 8 p~i~vvg~~~~gkss~~~~~~g~~~ 32 (1036)
..|+|||.+||||||+++++++..|
T Consensus 3 ~ki~i~G~~~vGKSsli~~~~~~~~ 27 (166)
T cd01869 3 FKLLLIGDSGVGKSCLLLRFADDTY 27 (166)
T ss_pred EEEEEECCCCCCHHHHHHHHhcCCC
Confidence 4799999999999999999997665
No 380
>COG2262 HflX GTPases [General function prediction only]
Probab=94.85 E-value=0.016 Score=66.89 Aligned_cols=27 Identities=30% Similarity=0.619 Sum_probs=24.3
Q ss_pred CCCCeEEEeccCCCchHHHHHhhhcCC
Q psy5059 5 IQLPQIVVVGTQSSGKSSVIESLVGKS 31 (1036)
Q Consensus 5 ~~lp~i~vvg~~~~gkss~~~~~~g~~ 31 (1036)
-+.|+|++||..|+|||||||+|+|-+
T Consensus 190 ~~~p~vaLvGYTNAGKSTL~N~LT~~~ 216 (411)
T COG2262 190 SGIPLVALVGYTNAGKSTLFNALTGAD 216 (411)
T ss_pred cCCCeEEEEeeccccHHHHHHHHhccC
Confidence 478999999999999999999999544
No 381
>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=94.84 E-value=0.021 Score=57.37 Aligned_cols=25 Identities=40% Similarity=0.652 Sum_probs=22.5
Q ss_pred eEEEeccCCCchHHHHHhhhcCCcc
Q psy5059 9 QIVVVGTQSSGKSSVIESLVGKSFL 33 (1036)
Q Consensus 9 ~i~vvg~~~~gkss~~~~~~g~~~~ 33 (1036)
.|++||.+||||||+++++.+..|.
T Consensus 2 kv~~vG~~~~GKTsl~~~~~~~~~~ 26 (162)
T cd04106 2 KVIVVGNGNVGKSSMIQRFVKGIFT 26 (162)
T ss_pred EEEEECCCCCCHHHHHHHHhcCCCC
Confidence 4899999999999999999987663
No 382
>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=94.82 E-value=0.031 Score=58.08 Aligned_cols=27 Identities=19% Similarity=0.464 Sum_probs=24.0
Q ss_pred CCCeEEEeccCCCchHHHHHhhhcCCc
Q psy5059 6 QLPQIVVVGTQSSGKSSVIESLVGKSF 32 (1036)
Q Consensus 6 ~lp~i~vvg~~~~gkss~~~~~~g~~~ 32 (1036)
.-+.|+++|.+||||||+++++.|..+
T Consensus 18 ~~~ki~ilG~~~~GKStLi~~l~~~~~ 44 (190)
T cd00879 18 KEAKILFLGLDNAGKTTLLHMLKDDRL 44 (190)
T ss_pred CCCEEEEECCCCCCHHHHHHHHhcCCC
Confidence 346899999999999999999999765
No 383
>COG3276 SelB Selenocysteine-specific translation elongation factor [Translation, ribosomal structure and biogenesis]
Probab=94.81 E-value=0.16 Score=59.28 Aligned_cols=57 Identities=23% Similarity=0.201 Sum_probs=38.4
Q ss_pred ccccCCce-EEEEecccccCCCchhhhhhcCcccccccccccccchHHHHHHHHHHhhccCCCcceeeeecccchhhhHH
Q psy5059 375 TDVDGRRT-LAVVTKIDLMDAGTDAIDILCGRVIPVKLDVDGRRTYIEAQIKQLVLHYISNPNSIILAVVTANTDMATSE 453 (1036)
Q Consensus 375 ~d~~g~rt-i~VitK~Dl~~~g~~~~~~l~~~~~~~~~~~~~~~~~~~~~l~~~v~~~i~~~~~ipla~ISA~td~~~qe 453 (1036)
+|--|... |+|+||.|+.|... ...+.+.+..... +.-+++..+|+.+++...+
T Consensus 98 Ldllgi~~giivltk~D~~d~~r------------------------~e~~i~~Il~~l~-l~~~~i~~~s~~~g~GI~~ 152 (447)
T COG3276 98 LDLLGIKNGIIVLTKADRVDEAR------------------------IEQKIKQILADLS-LANAKIFKTSAKTGRGIEE 152 (447)
T ss_pred HHhcCCCceEEEEeccccccHHH------------------------HHHHHHHHHhhcc-cccccccccccccCCCHHH
Confidence 34445555 99999999998631 1334445555555 6677778899999997666
Q ss_pred HHH
Q psy5059 454 SLK 456 (1036)
Q Consensus 454 il~ 456 (1036)
+-.
T Consensus 153 Lk~ 155 (447)
T COG3276 153 LKN 155 (447)
T ss_pred HHH
Confidence 543
No 384
>KOG1145|consensus
Probab=94.81 E-value=0.22 Score=59.35 Aligned_cols=64 Identities=19% Similarity=0.196 Sum_probs=38.3
Q ss_pred hHHHHHhhhccccCCceEEEEecccccCCCchhh----hhhcCcccccccccccccchHHHHHHHHHHhhccCCCcceee
Q psy5059 366 SESLKLAKETDVDGRRTLAVVTKIDLMDAGTDAI----DILCGRVIPVKLDVDGRRTYIEAQIKQLVLHYISNPNSIILA 441 (1036)
Q Consensus 366 ~~~~~la~~~d~~g~rti~VitK~Dl~~~g~~~~----~~l~~~~~~~~~~~~~~~~~~~~~l~~~v~~~i~~~~~ipla 441 (1036)
-+|.+.|+. .+.+.|..|||+|.- |.+-. +.|...+.+=.+|= -...+
T Consensus 243 ~EaIkhAk~---A~VpiVvAinKiDkp--~a~pekv~~eL~~~gi~~E~~GG-----------------------dVQvi 294 (683)
T KOG1145|consen 243 LEAIKHAKS---ANVPIVVAINKIDKP--GANPEKVKRELLSQGIVVEDLGG-----------------------DVQVI 294 (683)
T ss_pred HHHHHHHHh---cCCCEEEEEeccCCC--CCCHHHHHHHHHHcCccHHHcCC-----------------------ceeEE
Confidence 344555554 478999999999954 44432 22222222222221 23457
Q ss_pred eecccchhhhHHHHHH
Q psy5059 442 VVTANTDMATSESLKL 457 (1036)
Q Consensus 442 ~ISA~td~~~qeil~l 457 (1036)
-|||++|.+...+.+.
T Consensus 295 piSAl~g~nl~~L~ea 310 (683)
T KOG1145|consen 295 PISALTGENLDLLEEA 310 (683)
T ss_pred EeecccCCChHHHHHH
Confidence 7999999998877654
No 385
>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=94.79 E-value=0.022 Score=57.89 Aligned_cols=26 Identities=23% Similarity=0.603 Sum_probs=23.3
Q ss_pred eEEEeccCCCchHHHHHhhhcCCccc
Q psy5059 9 QIVVVGTQSSGKSSVIESLVGKSFLP 34 (1036)
Q Consensus 9 ~i~vvg~~~~gkss~~~~~~g~~~~p 34 (1036)
.|++||.+||||||+++++++..|.+
T Consensus 4 ki~iiG~~~vGKTsli~~~~~~~~~~ 29 (166)
T cd04122 4 KYIIIGDMGVGKSCLLHQFTEKKFMA 29 (166)
T ss_pred EEEEECCCCCCHHHHHHHHhcCCCCC
Confidence 58999999999999999999877644
No 386
>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=94.79 E-value=0.02 Score=59.79 Aligned_cols=25 Identities=40% Similarity=0.749 Sum_probs=22.6
Q ss_pred eEEEeccCCCchHHHHHhhhcCCcc
Q psy5059 9 QIVVVGTQSSGKSSVIESLVGKSFL 33 (1036)
Q Consensus 9 ~i~vvg~~~~gkss~~~~~~g~~~~ 33 (1036)
.|+|||.+|||||||++++++..|.
T Consensus 2 ki~vvG~~~vGKSsLi~~~~~~~~~ 26 (193)
T cd04118 2 KVVMLGKESVGKTSLVERYVHHRFL 26 (193)
T ss_pred EEEEECCCCCCHHHHHHHHHhCCcC
Confidence 5899999999999999999987764
No 387
>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=94.79 E-value=0.022 Score=57.97 Aligned_cols=28 Identities=29% Similarity=0.519 Sum_probs=24.1
Q ss_pred CCeEEEeccCCCchHHHHHhhhcCCccc
Q psy5059 7 LPQIVVVGTQSSGKSSVIESLVGKSFLP 34 (1036)
Q Consensus 7 lp~i~vvg~~~~gkss~~~~~~g~~~~p 34 (1036)
+-.|+|||.+||||||+++++++..|.|
T Consensus 5 ~~ki~vvG~~~~GKTsli~~~~~~~~~~ 32 (170)
T cd04116 5 LLKVILLGDGGVGKSSLMNRYVTNKFDT 32 (170)
T ss_pred EEEEEEECCCCCCHHHHHHHHHcCCCCc
Confidence 3579999999999999999999876643
No 388
>PRK12288 GTPase RsgA; Reviewed
Probab=94.78 E-value=0.021 Score=65.96 Aligned_cols=25 Identities=32% Similarity=0.488 Sum_probs=22.3
Q ss_pred eEEEeccCCCchHHHHHhhhcCCcc
Q psy5059 9 QIVVVGTQSSGKSSVIESLVGKSFL 33 (1036)
Q Consensus 9 ~i~vvg~~~~gkss~~~~~~g~~~~ 33 (1036)
.+|+||.+|||||||+|+|+|..-+
T Consensus 207 i~~~vG~sgVGKSTLiN~Ll~~~~~ 231 (347)
T PRK12288 207 ISIFVGQSGVGKSSLINALLPEAEI 231 (347)
T ss_pred CEEEECCCCCCHHHHHHHhccccce
Confidence 5899999999999999999996544
No 389
>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=94.78 E-value=0.025 Score=56.95 Aligned_cols=28 Identities=21% Similarity=0.583 Sum_probs=24.4
Q ss_pred eEEEeccCCCchHHHHHhhhcCCccccc
Q psy5059 9 QIVVVGTQSSGKSSVIESLVGKSFLPRG 36 (1036)
Q Consensus 9 ~i~vvg~~~~gkss~~~~~~g~~~~pr~ 36 (1036)
.|+|+|.++|||||+++++++..|.+..
T Consensus 2 ki~v~G~~~vGKTsli~~l~~~~~~~~~ 29 (161)
T cd04113 2 KFIIIGSSGTGKSCLLHRFVENKFKEDS 29 (161)
T ss_pred EEEEECCCCCCHHHHHHHHHhCCCCCCC
Confidence 4899999999999999999998775543
No 390
>KOG1424|consensus
Probab=94.76 E-value=0.018 Score=67.93 Aligned_cols=22 Identities=45% Similarity=0.608 Sum_probs=20.2
Q ss_pred CeEEEeccCCCchHHHHHhhhc
Q psy5059 8 PQIVVVGTQSSGKSSVIESLVG 29 (1036)
Q Consensus 8 p~i~vvg~~~~gkss~~~~~~g 29 (1036)
=.|-.||.|||||||++|+|+|
T Consensus 315 vtVG~VGYPNVGKSSTINaLvG 336 (562)
T KOG1424|consen 315 VTVGFVGYPNVGKSSTINALVG 336 (562)
T ss_pred eEEEeecCCCCchhHHHHHHhc
Confidence 3577899999999999999999
No 391
>PRK10463 hydrogenase nickel incorporation protein HypB; Provisional
Probab=94.76 E-value=0.38 Score=54.22 Aligned_cols=189 Identities=13% Similarity=0.141 Sum_probs=0.0
Q ss_pred HHHHHHHHhhhhcCCCCCCCCceEEeCcCCCChhhHHhhhcCCCcCcccccccccCceEEEEeeCCCCchhhhhhccCCC
Q psy5059 64 AVINKLQDVFNTVGTDAIQLPQIVVVGTQSSGKSSVIESLVGKSFLPRGIGIVTRRPLILQLYYCPKDDREKRTAAAGTM 143 (1036)
Q Consensus 64 ~l~~kL~~~~~~~g~~~i~lPqIvVvG~QSsGKSSlLEal~G~~flPrg~G~cTR~Pl~l~l~~~~~~~~~~~~~~~~~~ 143 (1036)
.+-...+..|..-| ..-|.++|.++|||||||+.+.+.-
T Consensus 90 ~~a~~~r~~~~~~~-----~~~v~l~G~pGsGKTTLl~~l~~~l------------------------------------ 128 (290)
T PRK10463 90 RLAERNRARFAARK-----QLVLNLVSSPGSGKTTLLTETLMRL------------------------------------ 128 (290)
T ss_pred HHHHHHHHHHHhcC-----CeEEEEECCCCCCHHHHHHHHHHHh------------------------------------
Q ss_pred CccccccccccccccccchhhhhhhhhHHHHHhhccCCCcccccccccccccccCCcccCChhHHHHHHHHHHHHhcCCC
Q psy5059 144 DLDAWGQFLHTKDKVFRDFDDIRREIEDETERLAGKNKGICTMDLDAWGQFLHTKDKVFRDFDDIRREIEDETERLAGKN 223 (1036)
Q Consensus 144 ~~~~w~~~~~~~~~~~~df~~~r~ei~~e~~r~~~~~~~i~~~~~~~~~~f~~~~~~~~~~~~~I~~~I~~~~~~~~g~~ 223 (1036)
T Consensus 129 -------------------------------------------------------------------------------- 128 (290)
T PRK10463 129 -------------------------------------------------------------------------------- 128 (290)
T ss_pred --------------------------------------------------------------------------------
Q ss_pred CCcCCCcEEEEEeec-----CcccceeecCCCccccCCCCCchhHHHHHHHHHHHhhcCCCcEEEEEeccc-cccccchh
Q psy5059 224 KGICSEPIILKIYST-----SVLNLTLVDLPGITKVPVGDQPDDIEAQIKQLVLHYISNPNSIILAVVTAN-TDMATSES 297 (1036)
Q Consensus 224 ~~~S~d~I~L~I~~P-----~~~~LtlVDLPGi~~~~~~~q~~di~~~ir~lv~~yI~~~n~IIL~V~~An-~D~~~s~a 297 (1036)
....-..-|.+. +.--+...+.| .+...++.----...++..-+..+-..+..+++.=...| .+.+.-+
T Consensus 129 ---~~~~~~~VI~gD~~t~~Da~rI~~~g~p-vvqi~tG~~Chl~a~mv~~Al~~L~~~~~d~liIEnvGnLvcPa~fd- 203 (290)
T PRK10463 129 ---KDSVPCAVIEGDQQTVNDAARIRATGTP-AIQVNTGKGCHLDAQMIADAAPRLPLDDNGILFIENVGNLVCPASFD- 203 (290)
T ss_pred ---ccCCCEEEECCCcCcHHHHHHHHhcCCc-EEEecCCCCCcCcHHHHHHHHHHHhhcCCcEEEEECCCCccCCCccc-
Q ss_pred hhhhhhcCCCCCcccceeccCCCCcccccCCCCCchHHHHHHHHHHhhhcCCCceEEEEEecCccccchHHHHHhhhccc
Q psy5059 298 LKLAKETDVDGRRTLDLLDIDLPGITKVPVGDQPDDIEAQIKQLVLHYISNPNSIILAVVTANTDMATSESLKLAKETDV 377 (1036)
Q Consensus 298 l~l~r~~Dp~g~RTigvl~~~~~g~~~~~~~~~~~~~~~~~~~~~~~y~~~~~~~~~~~v~~~~d~~~~~~~~la~~~d~ 377 (1036)
+.....+.+..|+...|....--..+...-
T Consensus 204 ------------------------------------------------lge~~~v~vlsV~eg~dkplKyp~~f~~AD-- 233 (290)
T PRK10463 204 ------------------------------------------------LGEKHKVAVLSVTEGEDKPLKYPHMFAAAS-- 233 (290)
T ss_pred ------------------------------------------------hhhceeEEEEECccccccchhccchhhcCc--
Q ss_pred cCCceEEEEecccccC--CCchhhhhhcCcccccccccccccchHHHHHHHHHHhhccCCCcceeeeecccchhhhHHHH
Q psy5059 378 DGRRTLAVVTKIDLMD--AGTDAIDILCGRVIPVKLDVDGRRTYIEAQIKQLVLHYISNPNSIILAVVTANTDMATSESL 455 (1036)
Q Consensus 378 ~g~rti~VitK~Dl~~--~g~~~~~~l~~~~~~~~~~~~~~~~~~~~~l~~~v~~~i~~~~~ipla~ISA~td~~~qeil 455 (1036)
++|+||+||.+ . ..+...+...-.....+++..+||+++....+++
T Consensus 234 -----IVVLNKiDLl~~~~---------------------------~dle~~~~~lr~lnp~a~I~~vSA~tGeGld~L~ 281 (290)
T PRK10463 234 -----LMLLNKVDLLPYLN---------------------------FDVEKCIACAREVNPEIEIILISATSGEGMDQWL 281 (290)
T ss_pred -----EEEEEhHHcCcccH---------------------------HHHHHHHHHHHhhCCCCcEEEEECCCCCCHHHHH
Q ss_pred HHhhh
Q psy5059 456 KLAKE 460 (1036)
Q Consensus 456 ~la~~ 460 (1036)
++..+
T Consensus 282 ~~L~~ 286 (290)
T PRK10463 282 NWLET 286 (290)
T ss_pred HHHHH
No 392
>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=94.74 E-value=0.022 Score=58.29 Aligned_cols=24 Identities=38% Similarity=0.607 Sum_probs=22.1
Q ss_pred eEEEeccCCCchHHHHHhhhcCCc
Q psy5059 9 QIVVVGTQSSGKSSVIESLVGKSF 32 (1036)
Q Consensus 9 ~i~vvg~~~~gkss~~~~~~g~~~ 32 (1036)
||++||.+||||||+++++++..|
T Consensus 1 ~i~ivG~~~vGKTsli~~~~~~~~ 24 (164)
T cd04162 1 QILVLGLDGAGKTSLLHSLSSERS 24 (164)
T ss_pred CEEEECCCCCCHHHHHHHHhcCCC
Confidence 799999999999999999998654
No 393
>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=94.73 E-value=0.02 Score=58.75 Aligned_cols=27 Identities=19% Similarity=0.204 Sum_probs=23.5
Q ss_pred eEEEeccCCCchHHHHHhhhcCCcccc
Q psy5059 9 QIVVVGTQSSGKSSVIESLVGKSFLPR 35 (1036)
Q Consensus 9 ~i~vvg~~~~gkss~~~~~~g~~~~pr 35 (1036)
.|+|+|.+||||||++|+|.|..+.+.
T Consensus 1 ~v~v~G~~~~GKStlln~l~~~~~~~~ 27 (189)
T cd00881 1 NVGIAGHVDHGKTTLTERLLYVTGDIE 27 (189)
T ss_pred CEEEEeCCCCCHHHHHHHHHHhcCCCC
Confidence 389999999999999999999875443
No 394
>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=94.73 E-value=0.032 Score=57.65 Aligned_cols=27 Identities=37% Similarity=0.524 Sum_probs=24.3
Q ss_pred CeEEEeccCCCchHHHHHhhhcCCccc
Q psy5059 8 PQIVVVGTQSSGKSSVIESLVGKSFLP 34 (1036)
Q Consensus 8 p~i~vvg~~~~gkss~~~~~~g~~~~p 34 (1036)
+.|++||.+||||||++|+|.|..+..
T Consensus 116 ~~~~~~G~~~vGKstlin~l~~~~~~~ 142 (171)
T cd01856 116 IRAMVVGIPNVGKSTLINRLRGKKVAK 142 (171)
T ss_pred eEEEEECCCCCCHHHHHHHHhCCCcee
Confidence 579999999999999999999977654
No 395
>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=94.73 E-value=0.021 Score=57.30 Aligned_cols=23 Identities=22% Similarity=0.479 Sum_probs=21.5
Q ss_pred eEEEeccCCCchHHHHHhhhcCC
Q psy5059 9 QIVVVGTQSSGKSSVIESLVGKS 31 (1036)
Q Consensus 9 ~i~vvg~~~~gkss~~~~~~g~~ 31 (1036)
.|+++|.+||||||++++++|..
T Consensus 1 ki~iiG~~~~GKssli~~~~~~~ 23 (158)
T cd00878 1 RILILGLDGAGKTTILYKLKLGE 23 (158)
T ss_pred CEEEEcCCCCCHHHHHHHHhcCC
Confidence 48999999999999999999876
No 396
>PRK13768 GTPase; Provisional
Probab=94.70 E-value=0.091 Score=58.13 Aligned_cols=137 Identities=16% Similarity=0.150 Sum_probs=78.6
Q ss_pred ceeccCCCCcccccCCCCCchHHHHHHHHHHhhhcCCCceEEEEEecCccccchHHHHHhhhc-----cccCCceEEEEe
Q psy5059 313 DLLDIDLPGITKVPVGDQPDDIEAQIKQLVLHYISNPNSIILAVVTANTDMATSESLKLAKET-----DVDGRRTLAVVT 387 (1036)
Q Consensus 313 gvl~~~~~g~~~~~~~~~~~~~~~~~~~~~~~y~~~~~~~~~~~v~~~~d~~~~~~~~la~~~-----d~~g~rti~Vit 387 (1036)
-++.+|+||........ ..++.+.+.+-...+..+++++|+.......+ ...+..+ ...+.+.|.|+|
T Consensus 98 ~~~~~d~~g~~~~~~~~------~~~~~~~~~l~~~~~~~ii~liD~~~~~~~~d-~~~~~~l~~~~~~~~~~~~i~v~n 170 (253)
T PRK13768 98 DYVLVDTPGQMELFAFR------ESGRKLVERLSGSSKSVVVFLIDAVLAKTPSD-FVSLLLLALSVQLRLGLPQIPVLN 170 (253)
T ss_pred CEEEEeCCcHHHHHhhh------HHHHHHHHHHHhcCCeEEEEEechHHhCCHHH-HHHHHHHHHHHHHHcCCCEEEEEE
Confidence 36788999977655431 22334443333333778999999976332222 2222211 145899999999
Q ss_pred cccccCCCchh--hhhhcCc-----ccccccccccccchHHHHHHHHHHhhccCCC-cceeeeecccchhhhHHHHHHhh
Q psy5059 388 KIDLMDAGTDA--IDILCGR-----VIPVKLDVDGRRTYIEAQIKQLVLHYISNPN-SIILAVVTANTDMATSESLKLAK 459 (1036)
Q Consensus 388 K~Dl~~~g~~~--~~~l~~~-----~~~~~~~~~~~~~~~~~~l~~~v~~~i~~~~-~ipla~ISA~td~~~qeil~la~ 459 (1036)
|.|+.+..... ...+... -.-..+ |.. +.++..+.+.+.... ..++..+||+++....++.....
T Consensus 171 K~D~~~~~~~~~~~~~l~~~~~~~~~l~~~~---~~~----~~~~~~~~~~i~~~~~~~~vi~iSa~~~~gl~~L~~~I~ 243 (253)
T PRK13768 171 KADLLSEEELERILKWLEDPEYLLEELKLEK---GLQ----GLLSLELLRALEETGLPVRVIPVSAKTGEGFDELYAAIQ 243 (253)
T ss_pred hHhhcCchhHHHHHHHHhCHHHHHHHHhccc---chH----HHHHHHHHHHHHHHCCCCcEEEEECCCCcCHHHHHHHHH
Confidence 99998765331 1222210 000111 111 445555545444433 34678899999999999998887
Q ss_pred hcCc
Q psy5059 460 ETDV 463 (1036)
Q Consensus 460 ~vd~ 463 (1036)
+.-+
T Consensus 244 ~~l~ 247 (253)
T PRK13768 244 EVFC 247 (253)
T ss_pred HHcC
Confidence 6643
No 397
>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=94.64 E-value=0.022 Score=61.87 Aligned_cols=35 Identities=34% Similarity=0.429 Sum_probs=27.5
Q ss_pred CCceEEeCcCCCChhhHHhhhcCC--CcCccccc--cccc
Q psy5059 83 LPQIVVVGTQSSGKSSVIESLVGK--SFLPRGIG--IVTR 118 (1036)
Q Consensus 83 lPqIvVvG~QSsGKSSlLEal~G~--~flPrg~G--~cTR 118 (1036)
.--|+|+|.|++|||+||+.|.|. .| +.+.+ -|||
T Consensus 7 v~vvsv~G~~~sGKS~llN~l~~~~~~f-~~~~~~~~~T~ 45 (224)
T cd01851 7 VAVVSVFGPQSSGKSFLLNHLFGTLSGF-DVMDTSQQTTK 45 (224)
T ss_pred EEEEEEECCCCCCHHHHHHHHhCCCCCe-EecCCCCCCcc
Confidence 346899999999999999999998 64 55554 4443
No 398
>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=94.62 E-value=0.025 Score=57.40 Aligned_cols=26 Identities=15% Similarity=0.496 Sum_probs=23.4
Q ss_pred eEEEeccCCCchHHHHHhhhcCCccc
Q psy5059 9 QIVVVGTQSSGKSSVIESLVGKSFLP 34 (1036)
Q Consensus 9 ~i~vvg~~~~gkss~~~~~~g~~~~p 34 (1036)
.|++||.+||||||+++++++..|.|
T Consensus 2 ki~vvG~~~~GKTsli~~~~~~~~~~ 27 (161)
T cd04117 2 RLLLIGDSGVGKTCLLCRFTDNEFHS 27 (161)
T ss_pred EEEEECcCCCCHHHHHHHHhcCCCCC
Confidence 58999999999999999999887743
No 399
>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=94.62 E-value=0.023 Score=56.51 Aligned_cols=24 Identities=33% Similarity=0.606 Sum_probs=21.5
Q ss_pred eEEEeccCCCchHHHHHhhhcCCc
Q psy5059 9 QIVVVGTQSSGKSSVIESLVGKSF 32 (1036)
Q Consensus 9 ~i~vvg~~~~gkss~~~~~~g~~~ 32 (1036)
.|+|+|.+||||||+++++.+..|
T Consensus 1 ki~i~G~~~~GKTsli~~l~~~~~ 24 (160)
T cd00876 1 KVVVLGAGGVGKSAITIQFVKGTF 24 (160)
T ss_pred CEEEECCCCCCHHHHHHHHHhCCC
Confidence 489999999999999999998663
No 400
>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=94.62 E-value=0.025 Score=56.65 Aligned_cols=25 Identities=28% Similarity=0.546 Sum_probs=22.5
Q ss_pred eEEEeccCCCchHHHHHhhhcCCcc
Q psy5059 9 QIVVVGTQSSGKSSVIESLVGKSFL 33 (1036)
Q Consensus 9 ~i~vvg~~~~gkss~~~~~~g~~~~ 33 (1036)
.|+++|.+||||||+++++++..|.
T Consensus 2 ki~~~G~~~~GKTsl~~~l~~~~~~ 26 (164)
T cd04139 2 KVIVVGAGGVGKSALTLQFMYDEFV 26 (164)
T ss_pred EEEEECCCCCCHHHHHHHHHhCCCc
Confidence 5899999999999999999987654
No 401
>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=94.61 E-value=0.024 Score=56.99 Aligned_cols=24 Identities=33% Similarity=0.549 Sum_probs=21.9
Q ss_pred eEEEeccCCCchHHHHHhhhcCCc
Q psy5059 9 QIVVVGTQSSGKSSVIESLVGKSF 32 (1036)
Q Consensus 9 ~i~vvg~~~~gkss~~~~~~g~~~ 32 (1036)
.|++||.+||||||+++++++..|
T Consensus 4 ki~i~G~~~~GKtsl~~~~~~~~~ 27 (164)
T cd04145 4 KLVVVGGGGVGKSALTIQFIQSYF 27 (164)
T ss_pred EEEEECCCCCcHHHHHHHHHhCCC
Confidence 689999999999999999998664
No 402
>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=94.60 E-value=0.025 Score=57.26 Aligned_cols=26 Identities=27% Similarity=0.614 Sum_probs=22.9
Q ss_pred CCeEEEeccCCCchHHHHHhhhcCCc
Q psy5059 7 LPQIVVVGTQSSGKSSVIESLVGKSF 32 (1036)
Q Consensus 7 lp~i~vvg~~~~gkss~~~~~~g~~~ 32 (1036)
...|+|||.+||||||+++++++..|
T Consensus 3 ~~kv~vvG~~~~GKTsli~~l~~~~~ 28 (165)
T cd01864 3 LFKIILIGDSNVGKTCVVQRFKSGTF 28 (165)
T ss_pred eeEEEEECCCCCCHHHHHHHHhhCCC
Confidence 45799999999999999999987654
No 403
>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=94.60 E-value=0.025 Score=57.59 Aligned_cols=26 Identities=23% Similarity=0.673 Sum_probs=22.9
Q ss_pred CCeEEEeccCCCchHHHHHhhhcCCc
Q psy5059 7 LPQIVVVGTQSSGKSSVIESLVGKSF 32 (1036)
Q Consensus 7 lp~i~vvg~~~~gkss~~~~~~g~~~ 32 (1036)
-..|+++|.+||||||++++|.|..+
T Consensus 14 ~~~v~i~G~~g~GKStLl~~l~~~~~ 39 (173)
T cd04155 14 EPRILILGLDNAGKTTILKQLASEDI 39 (173)
T ss_pred ccEEEEEccCCCCHHHHHHHHhcCCC
Confidence 35799999999999999999998743
No 404
>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=94.57 E-value=0.026 Score=57.25 Aligned_cols=26 Identities=27% Similarity=0.649 Sum_probs=23.0
Q ss_pred eEEEeccCCCchHHHHHhhhcCCccc
Q psy5059 9 QIVVVGTQSSGKSSVIESLVGKSFLP 34 (1036)
Q Consensus 9 ~i~vvg~~~~gkss~~~~~~g~~~~p 34 (1036)
.|++||.+|||||||++++++..|-|
T Consensus 2 ki~vvG~~~vGKTsli~~~~~~~~~~ 27 (161)
T cd04124 2 KIILLGDSAVGKSKLVERFLMDGYEP 27 (161)
T ss_pred EEEEECCCCCCHHHHHHHHHhCCCCC
Confidence 58999999999999999999876643
No 405
>PRK15494 era GTPase Era; Provisional
Probab=94.57 E-value=0.022 Score=65.73 Aligned_cols=24 Identities=25% Similarity=0.742 Sum_probs=22.2
Q ss_pred eEEEeccCCCchHHHHHhhhcCCc
Q psy5059 9 QIVVVGTQSSGKSSVIESLVGKSF 32 (1036)
Q Consensus 9 ~i~vvg~~~~gkss~~~~~~g~~~ 32 (1036)
.|++||++|||||||+|+|+|..+
T Consensus 54 kV~ivG~~nvGKSTLin~l~~~k~ 77 (339)
T PRK15494 54 SVCIIGRPNSGKSTLLNRIIGEKL 77 (339)
T ss_pred EEEEEcCCCCCHHHHHHHHhCCce
Confidence 799999999999999999999664
No 406
>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=94.57 E-value=0.021 Score=57.73 Aligned_cols=21 Identities=24% Similarity=0.582 Sum_probs=19.8
Q ss_pred EEEeccCCCchHHHHHhhhcC
Q psy5059 10 IVVVGTQSSGKSSVIESLVGK 30 (1036)
Q Consensus 10 i~vvg~~~~gkss~~~~~~g~ 30 (1036)
|++||.+|||||||+++|.+.
T Consensus 2 i~~vG~~~~GKstLi~~l~~~ 22 (167)
T cd04160 2 VLILGLDNAGKTTFLEQLKTL 22 (167)
T ss_pred EEEEecCCCCHHHHHHHHhhh
Confidence 899999999999999999884
No 407
>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=94.51 E-value=0.021 Score=58.07 Aligned_cols=21 Identities=29% Similarity=0.487 Sum_probs=19.3
Q ss_pred EeccCCCchHHHHHhhhcCCc
Q psy5059 12 VVGTQSSGKSSVIESLVGKSF 32 (1036)
Q Consensus 12 vvg~~~~gkss~~~~~~g~~~ 32 (1036)
++|.+||||||++++|+|..+
T Consensus 1 iiG~~~~GKStll~~l~~~~~ 21 (176)
T cd01881 1 LVGLPNVGKSTLLNALTNAKP 21 (176)
T ss_pred CCCCCCCcHHHHHHHHhcCCc
Confidence 589999999999999999865
No 408
>PRK12289 GTPase RsgA; Reviewed
Probab=94.49 E-value=0.034 Score=64.33 Aligned_cols=26 Identities=38% Similarity=0.457 Sum_probs=22.5
Q ss_pred eEEEeccCCCchHHHHHhhhcCCccc
Q psy5059 9 QIVVVGTQSSGKSSVIESLVGKSFLP 34 (1036)
Q Consensus 9 ~i~vvg~~~~gkss~~~~~~g~~~~p 34 (1036)
.+||||.+|||||||+|+|+|..-+.
T Consensus 174 i~v~iG~SgVGKSSLIN~L~~~~~~~ 199 (352)
T PRK12289 174 ITVVAGPSGVGKSSLINRLIPDVELR 199 (352)
T ss_pred eEEEEeCCCCCHHHHHHHHcCccccc
Confidence 58999999999999999999955443
No 409
>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=94.48 E-value=0.036 Score=61.05 Aligned_cols=25 Identities=32% Similarity=0.302 Sum_probs=22.2
Q ss_pred CeEEEeccCCCchHHHHHhhhcCCc
Q psy5059 8 PQIVVVGTQSSGKSSVIESLVGKSF 32 (1036)
Q Consensus 8 p~i~vvg~~~~gkss~~~~~~g~~~ 32 (1036)
..++++|.+|||||||+|+|.|...
T Consensus 121 ~~~~~~G~sgvGKStLiN~L~~~~~ 145 (245)
T TIGR00157 121 RISVFAGQSGVGKSSLINALDPSVK 145 (245)
T ss_pred CEEEEECCCCCCHHHHHHHHhhhhh
Confidence 4789999999999999999999543
No 410
>COG0370 FeoB Fe2+ transport system protein B [Inorganic ion transport and metabolism]
Probab=94.45 E-value=0.068 Score=65.46 Aligned_cols=34 Identities=21% Similarity=0.280 Sum_probs=25.9
Q ss_pred CCCCCChhHHHHHHHHHHHHhhccHHHHHHHHHHHHH
Q psy5059 900 PALFVPEVSFELLVKRQIRRLEEPSQRCVELVHEEMQ 936 (1036)
Q Consensus 900 ~~lfvp~~aFe~Lvk~qI~~l~~Psl~cvdlV~~EL~ 936 (1036)
...|+|.+||-.++= -.|-.||+.-+-.++.|.-
T Consensus 589 ~~~~tp~sa~~flvf---~llY~PCiati~~i~~E~g 622 (653)
T COG0370 589 QATLTPASAYAFLVF---VLLYVPCIATLAAIKRETG 622 (653)
T ss_pred HccCCHHHHHHHHHH---HHHHHHHHHHHHHHHHHhh
Confidence 346889998888874 4567788888888888875
No 411
>KOG0410|consensus
Probab=94.45 E-value=0.027 Score=63.03 Aligned_cols=35 Identities=31% Similarity=0.546 Sum_probs=31.0
Q ss_pred CCCCCCCeEEEeccCCCchHHHHHhhhcCCccccc
Q psy5059 2 TDAIQLPQIVVVGTQSSGKSSVIESLVGKSFLPRG 36 (1036)
Q Consensus 2 ~~~~~lp~i~vvg~~~~gkss~~~~~~g~~~~pr~ 36 (1036)
....+.|.|+|||..|+|||||++.|.|-..+|+.
T Consensus 173 r~~~s~pviavVGYTNaGKsTLikaLT~Aal~p~d 207 (410)
T KOG0410|consen 173 REGESSPVIAVVGYTNAGKSTLIKALTKAALYPND 207 (410)
T ss_pred cccCCCceEEEEeecCccHHHHHHHHHhhhcCccc
Confidence 34567899999999999999999999998888865
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=94.45 E-value=0.027 Score=57.39 Aligned_cols=25 Identities=36% Similarity=0.618 Sum_probs=22.3
Q ss_pred eEEEeccCCCchHHHHHhhhcCCcc
Q psy5059 9 QIVVVGTQSSGKSSVIESLVGKSFL 33 (1036)
Q Consensus 9 ~i~vvg~~~~gkss~~~~~~g~~~~ 33 (1036)
.|++||.+||||||+++++++..|.
T Consensus 3 ki~liG~~~~GKTsli~~~~~~~~~ 27 (168)
T cd04177 3 KIVVLGAGGVGKSALTVQFVQNVFI 27 (168)
T ss_pred EEEEECCCCCCHHHHHHHHHhCCCC
Confidence 4899999999999999999876664
No 413
>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=94.43 E-value=0.029 Score=58.48 Aligned_cols=25 Identities=20% Similarity=0.522 Sum_probs=22.9
Q ss_pred CeEEEeccCCCchHHHHHhhhcCCc
Q psy5059 8 PQIVVVGTQSSGKSSVIESLVGKSF 32 (1036)
Q Consensus 8 p~i~vvg~~~~gkss~~~~~~g~~~ 32 (1036)
+.|++||.+||||||++++++|..|
T Consensus 18 ~~i~ivG~~~~GKTsli~~l~~~~~ 42 (184)
T smart00178 18 AKILFLGLDNAGKTTLLHMLKNDRL 42 (184)
T ss_pred CEEEEECCCCCCHHHHHHHHhcCCC
Confidence 7899999999999999999998654
No 414
>TIGR00991 3a0901s02IAP34 GTP-binding protein (Chloroplast Envelope Protein Translocase).
Probab=94.41 E-value=0.029 Score=63.48 Aligned_cols=27 Identities=33% Similarity=0.602 Sum_probs=24.2
Q ss_pred CCCCeEEEeccCCCchHHHHHhhhcCC
Q psy5059 5 IQLPQIVVVGTQSSGKSSVIESLVGKS 31 (1036)
Q Consensus 5 ~~lp~i~vvg~~~~gkss~~~~~~g~~ 31 (1036)
.....|++||.+||||||++|+|+|..
T Consensus 36 ~~~~rIllvGktGVGKSSliNsIlG~~ 62 (313)
T TIGR00991 36 VSSLTILVMGKGGVGKSSTVNSIIGER 62 (313)
T ss_pred ccceEEEEECCCCCCHHHHHHHHhCCC
Confidence 355689999999999999999999975
No 415
>PRK14845 translation initiation factor IF-2; Provisional
Probab=94.40 E-value=0.17 Score=66.01 Aligned_cols=24 Identities=21% Similarity=0.297 Sum_probs=20.2
Q ss_pred CCcceeeeecccchhhhHHHHHHh
Q psy5059 435 PNSIILAVVTANTDMATSESLKLA 458 (1036)
Q Consensus 435 ~~~ipla~ISA~td~~~qeil~la 458 (1036)
-..++++-|||++|.+...++.+.
T Consensus 645 ~~~v~iVpVSA~tGeGId~Ll~~l 668 (1049)
T PRK14845 645 TRTVAIVPVSAKTGEGIPELLMMV 668 (1049)
T ss_pred CCCceEEEEEcCCCCCHHHHHHHH
Confidence 456888999999999999988664
No 416
>KOG2203|consensus
Probab=94.37 E-value=0.025 Score=66.79 Aligned_cols=30 Identities=37% Similarity=0.651 Sum_probs=26.2
Q ss_pred CCCCeEEEeccCCCchHHHHHhhhcCCccc
Q psy5059 5 IQLPQIVVVGTQSSGKSSVIESLVGKSFLP 34 (1036)
Q Consensus 5 ~~lp~i~vvg~~~~gkss~~~~~~g~~~~p 34 (1036)
++--.|+|.|+||||||||||.|.|..|.-
T Consensus 35 l~YhVVavmG~QSSGKSTLLN~LFgTnF~~ 64 (772)
T KOG2203|consen 35 LSYHVVAVMGSQSSGKSTLLNHLFGTNFRE 64 (772)
T ss_pred cceeEEEEecCcccchHHHHHHHhccChHH
Confidence 445689999999999999999999987755
No 417
>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=94.36 E-value=0.03 Score=57.49 Aligned_cols=26 Identities=35% Similarity=0.635 Sum_probs=23.5
Q ss_pred CeEEEeccCCCchHHHHHhhhcCCcc
Q psy5059 8 PQIVVVGTQSSGKSSVIESLVGKSFL 33 (1036)
Q Consensus 8 p~i~vvg~~~~gkss~~~~~~g~~~~ 33 (1036)
-.|++||.+||||||+++++++..|.
T Consensus 5 ~kv~~vG~~~vGKTsli~~~~~~~f~ 30 (169)
T cd01892 5 FLCFVLGAKGSGKSALLRAFLGRSFS 30 (169)
T ss_pred EEEEEECCCCCcHHHHHHHHhCCCCC
Confidence 46999999999999999999998764
No 418
>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=94.34 E-value=0.038 Score=59.36 Aligned_cols=29 Identities=38% Similarity=0.638 Sum_probs=23.7
Q ss_pred eEEEeccCCCchHHHHHhhhcCCcccccC
Q psy5059 9 QIVVVGTQSSGKSSVIESLVGKSFLPRGI 37 (1036)
Q Consensus 9 ~i~vvg~~~~gkss~~~~~~g~~~~pr~~ 37 (1036)
.|+++|..||||||+.|+|+|.+..+.+.
T Consensus 2 ~IlllG~tGsGKSs~~N~ilg~~~f~~~~ 30 (212)
T PF04548_consen 2 RILLLGKTGSGKSSLGNSILGKEVFKSGS 30 (212)
T ss_dssp EEEEECSTTSSHHHHHHHHHTSS-SS--T
T ss_pred EEEEECCCCCCHHHHHHHHhcccceeecc
Confidence 48999999999999999999988776653
No 419
>PRK05291 trmE tRNA modification GTPase TrmE; Reviewed
Probab=94.33 E-value=0.046 Score=65.45 Aligned_cols=25 Identities=32% Similarity=0.619 Sum_probs=23.0
Q ss_pred CeEEEeccCCCchHHHHHhhhcCCc
Q psy5059 8 PQIVVVGTQSSGKSSVIESLVGKSF 32 (1036)
Q Consensus 8 p~i~vvg~~~~gkss~~~~~~g~~~ 32 (1036)
+.|++||.+|||||||+|+|+|.+.
T Consensus 216 ~kV~ivG~~nvGKSSLln~L~~~~~ 240 (449)
T PRK05291 216 LKVVIAGRPNVGKSSLLNALLGEER 240 (449)
T ss_pred CEEEEECCCCCCHHHHHHHHhCCCC
Confidence 6899999999999999999999664
No 420
>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=94.31 E-value=0.03 Score=56.68 Aligned_cols=24 Identities=38% Similarity=0.581 Sum_probs=22.3
Q ss_pred eEEEeccCCCchHHHHHhhhcCCc
Q psy5059 9 QIVVVGTQSSGKSSVIESLVGKSF 32 (1036)
Q Consensus 9 ~i~vvg~~~~gkss~~~~~~g~~~ 32 (1036)
.|+++|.+||||||++++|++..+
T Consensus 2 ki~i~G~~~~GKSsli~~l~~~~~ 25 (171)
T cd00157 2 KIVVVGDGAVGKTCLLISYTTGKF 25 (171)
T ss_pred EEEEECCCCCCHHHHHHHHHhCCC
Confidence 489999999999999999999876
No 421
>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=94.30 E-value=0.033 Score=57.34 Aligned_cols=25 Identities=32% Similarity=0.561 Sum_probs=23.0
Q ss_pred eEEEeccCCCchHHHHHhhhcCCcc
Q psy5059 9 QIVVVGTQSSGKSSVIESLVGKSFL 33 (1036)
Q Consensus 9 ~i~vvg~~~~gkss~~~~~~g~~~~ 33 (1036)
.|++||.+||||||+++++++..|.
T Consensus 2 ki~ivG~~~vGKTsli~~~~~~~f~ 26 (170)
T cd04108 2 KVIVVGDLSVGKTCLINRFCKDVFD 26 (170)
T ss_pred EEEEECCCCCCHHHHHHHHhcCCCC
Confidence 5899999999999999999998873
No 422
>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=94.29 E-value=0.027 Score=57.50 Aligned_cols=23 Identities=35% Similarity=0.609 Sum_probs=21.3
Q ss_pred EEEeccCCCchHHHHHhhhcCCc
Q psy5059 10 IVVVGTQSSGKSSVIESLVGKSF 32 (1036)
Q Consensus 10 i~vvg~~~~gkss~~~~~~g~~~ 32 (1036)
|+|||.+||||||+++++.+..|
T Consensus 1 i~i~G~~~vGKTsli~~~~~~~~ 23 (174)
T smart00174 1 LVVVGDGAVGKTCLLISYTTNAF 23 (174)
T ss_pred CEEECCCCCCHHHHHHHHHhCCC
Confidence 68999999999999999998765
No 423
>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=94.28 E-value=0.033 Score=56.97 Aligned_cols=25 Identities=24% Similarity=0.480 Sum_probs=22.4
Q ss_pred CeEEEeccCCCchHHHHHhhhcCCc
Q psy5059 8 PQIVVVGTQSSGKSSVIESLVGKSF 32 (1036)
Q Consensus 8 p~i~vvg~~~~gkss~~~~~~g~~~ 32 (1036)
..|++||.+||||||+++++++..|
T Consensus 3 ~ki~vvG~~~vGKTsli~~~~~~~~ 27 (170)
T cd04115 3 FKIIVIGDSNVGKTCLTYRFCAGRF 27 (170)
T ss_pred eEEEEECCCCCCHHHHHHHHHhCCC
Confidence 5799999999999999999987654
No 424
>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=94.28 E-value=0.033 Score=58.39 Aligned_cols=25 Identities=20% Similarity=0.551 Sum_probs=22.5
Q ss_pred eEEEeccCCCchHHHHHhhhcCCcc
Q psy5059 9 QIVVVGTQSSGKSSVIESLVGKSFL 33 (1036)
Q Consensus 9 ~i~vvg~~~~gkss~~~~~~g~~~~ 33 (1036)
.|+|||.+||||||+++++++..|.
T Consensus 2 Ki~vvG~~~vGKTSli~~~~~~~~~ 26 (191)
T cd04112 2 KVMLLGDSGVGKTCLLVRFKDGAFL 26 (191)
T ss_pred EEEEECCCCCCHHHHHHHHhcCCCC
Confidence 4899999999999999999987764
No 425
>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=94.26 E-value=0.043 Score=65.53 Aligned_cols=26 Identities=27% Similarity=0.447 Sum_probs=23.3
Q ss_pred CCeEEEeccCCCchHHHHHhhhcCCc
Q psy5059 7 LPQIVVVGTQSSGKSSVIESLVGKSF 32 (1036)
Q Consensus 7 lp~i~vvg~~~~gkss~~~~~~g~~~ 32 (1036)
-+.||+||.+|||||||+|+|+|.++
T Consensus 203 g~kVvIvG~~nvGKSSLiN~L~~~~~ 228 (442)
T TIGR00450 203 GFKLAIVGSPNVGKSSLLNALLKQDR 228 (442)
T ss_pred CCEEEEECCCCCcHHHHHHHHhCCCC
Confidence 36899999999999999999999653
No 426
>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=94.26 E-value=0.033 Score=57.98 Aligned_cols=25 Identities=36% Similarity=0.594 Sum_probs=22.4
Q ss_pred eEEEeccCCCchHHHHHhhhcCCcc
Q psy5059 9 QIVVVGTQSSGKSSVIESLVGKSFL 33 (1036)
Q Consensus 9 ~i~vvg~~~~gkss~~~~~~g~~~~ 33 (1036)
.|++||.+||||||+++++.+..|.
T Consensus 5 kv~~vG~~~~GKTsli~~~~~~~~~ 29 (183)
T cd04152 5 HIVMLGLDSAGKTTVLYRLKFNEFV 29 (183)
T ss_pred EEEEECCCCCCHHHHHHHHhcCCcC
Confidence 5899999999999999999987653
No 427
>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=94.25 E-value=0.034 Score=56.02 Aligned_cols=25 Identities=32% Similarity=0.644 Sum_probs=22.6
Q ss_pred eEEEeccCCCchHHHHHhhhcCCcc
Q psy5059 9 QIVVVGTQSSGKSSVIESLVGKSFL 33 (1036)
Q Consensus 9 ~i~vvg~~~~gkss~~~~~~g~~~~ 33 (1036)
.|+++|.+||||||+++++++..|.
T Consensus 3 ki~i~G~~~vGKTsl~~~~~~~~~~ 27 (163)
T cd04176 3 KVVVLGSGGVGKSALTVQFVSGTFI 27 (163)
T ss_pred EEEEECCCCCCHHHHHHHHHcCCCC
Confidence 6999999999999999999987664
No 428
>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=94.23 E-value=0.034 Score=58.74 Aligned_cols=25 Identities=32% Similarity=0.573 Sum_probs=22.6
Q ss_pred eEEEeccCCCchHHHHHhhhcCCcc
Q psy5059 9 QIVVVGTQSSGKSSVIESLVGKSFL 33 (1036)
Q Consensus 9 ~i~vvg~~~~gkss~~~~~~g~~~~ 33 (1036)
.|+|||.+||||||+++++++..|.
T Consensus 2 KivivG~~~vGKTsli~~l~~~~~~ 26 (201)
T cd04107 2 KVLVIGDLGVGKTSIIKRYVHGIFS 26 (201)
T ss_pred EEEEECCCCCCHHHHHHHHHcCCCC
Confidence 5899999999999999999987663
No 429
>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=94.20 E-value=0.035 Score=57.00 Aligned_cols=27 Identities=22% Similarity=0.449 Sum_probs=24.1
Q ss_pred CeEEEeccCCCchHHHHHhhhcCCccc
Q psy5059 8 PQIVVVGTQSSGKSSVIESLVGKSFLP 34 (1036)
Q Consensus 8 p~i~vvg~~~~gkss~~~~~~g~~~~p 34 (1036)
..|++||.+|||||||++++++..|.+
T Consensus 5 ~ki~ivG~~~vGKTsli~~~~~~~~~~ 31 (180)
T cd04127 5 IKFLALGDSGVGKTSFLYQYTDNKFNP 31 (180)
T ss_pred EEEEEECCCCCCHHHHHHHHhcCCCCc
Confidence 579999999999999999999877743
No 430
>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=94.18 E-value=0.035 Score=56.10 Aligned_cols=24 Identities=33% Similarity=0.563 Sum_probs=21.2
Q ss_pred eEEEeccCCCchHHHHHhhhcCCc
Q psy5059 9 QIVVVGTQSSGKSSVIESLVGKSF 32 (1036)
Q Consensus 9 ~i~vvg~~~~gkss~~~~~~g~~~ 32 (1036)
.|++||.+||||||++++++...|
T Consensus 3 ki~~~G~~~~GKTsli~~~~~~~~ 26 (164)
T cd04175 3 KLVVLGSGGVGKSALTVQFVQGIF 26 (164)
T ss_pred EEEEECCCCCCHHHHHHHHHhCCC
Confidence 689999999999999999986544
No 431
>PRK12317 elongation factor 1-alpha; Reviewed
Probab=94.16 E-value=0.18 Score=59.86 Aligned_cols=20 Identities=30% Similarity=0.640 Sum_probs=19.2
Q ss_pred eEEEeccCCCchHHHHHhhh
Q psy5059 9 QIVVVGTQSSGKSSVIESLV 28 (1036)
Q Consensus 9 ~i~vvg~~~~gkss~~~~~~ 28 (1036)
.|++||.+++|||||+++|+
T Consensus 8 ~v~iiGh~d~GKSTL~~~Ll 27 (425)
T PRK12317 8 NLAVIGHVDHGKSTLVGRLL 27 (425)
T ss_pred EEEEECCCCCChHHHHHHHH
Confidence 58999999999999999998
No 432
>KOG0395|consensus
Probab=94.14 E-value=0.12 Score=54.97 Aligned_cols=26 Identities=27% Similarity=0.425 Sum_probs=21.4
Q ss_pred CCceEEeCcCCCChhhHHhhhcCCCc
Q psy5059 83 LPQIVVVGTQSSGKSSVIESLVGKSF 108 (1036)
Q Consensus 83 lPqIvVvG~QSsGKSSlLEal~G~~f 108 (1036)
..+++|+|..++|||++.-...+-.|
T Consensus 3 ~~kvvvlG~~gVGKSal~~qf~~~~f 28 (196)
T KOG0395|consen 3 EYKVVVLGAGGVGKSALTIQFLTGRF 28 (196)
T ss_pred ceEEEEECCCCCCcchheeeeccccc
Confidence 35799999999999998777666665
No 433
>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=94.09 E-value=0.036 Score=56.20 Aligned_cols=24 Identities=33% Similarity=0.642 Sum_probs=21.6
Q ss_pred eEEEeccCCCchHHHHHhhhcCCc
Q psy5059 9 QIVVVGTQSSGKSSVIESLVGKSF 32 (1036)
Q Consensus 9 ~i~vvg~~~~gkss~~~~~~g~~~ 32 (1036)
.|+|||.+|||||||++++++..|
T Consensus 1 ki~vvG~~~~GKtsli~~~~~~~~ 24 (165)
T cd04146 1 KIAVLGASGVGKSALVVRFLTKRF 24 (165)
T ss_pred CEEEECCCCCcHHHHHHHHHhCcc
Confidence 389999999999999999997665
No 434
>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=94.07 E-value=0.035 Score=64.54 Aligned_cols=23 Identities=39% Similarity=0.642 Sum_probs=21.4
Q ss_pred eEEEeccCCCchHHHHHhhhcCC
Q psy5059 9 QIVVVGTQSSGKSSVIESLVGKS 31 (1036)
Q Consensus 9 ~i~vvg~~~~gkss~~~~~~g~~ 31 (1036)
.|++||.+|||||||+|+|.+..
T Consensus 156 ~v~~vG~~nvGKStliN~l~~~~ 178 (360)
T TIGR03597 156 DVYVVGVTNVGKSSLINKLLKQN 178 (360)
T ss_pred eEEEECCCCCCHHHHHHHHHhhc
Confidence 69999999999999999999854
No 435
>PRK13796 GTPase YqeH; Provisional
Probab=94.07 E-value=0.032 Score=65.00 Aligned_cols=35 Identities=26% Similarity=0.418 Sum_probs=0.0
Q ss_pred EEEeccCCCchHHHHHhhhcCCcccccCCcccccc
Q psy5059 10 IVVVGTQSSGKSSVIESLVGKSFLPRGIGIVTRRP 44 (1036)
Q Consensus 10 i~vvg~~~~gkss~~~~~~g~~~~pr~~~~~trrp 44 (1036)
++|||.+|||||||+|+|++..--....-.+++.|
T Consensus 163 v~vvG~~NvGKSTLiN~L~~~~~~~~~~~~~s~~p 197 (365)
T PRK13796 163 VYVVGVTNVGKSTLINRIIKEITGEKDVITTSRFP 197 (365)
T ss_pred EEEEcCCCCcHHHHHHHHHhhccCccceEEecCCC
No 436
>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=94.03 E-value=0.037 Score=59.25 Aligned_cols=24 Identities=33% Similarity=0.609 Sum_probs=21.9
Q ss_pred eEEEeccCCCchHHHHHhhhcCCc
Q psy5059 9 QIVVVGTQSSGKSSVIESLVGKSF 32 (1036)
Q Consensus 9 ~i~vvg~~~~gkss~~~~~~g~~~ 32 (1036)
.|++||.+||||||+++++++..|
T Consensus 2 Ki~ivG~~~vGKSsLi~~l~~~~~ 25 (215)
T cd04109 2 KIVVLGDGAVGKTSLCRRFAKEGF 25 (215)
T ss_pred EEEEECcCCCCHHHHHHHHhcCCC
Confidence 589999999999999999998765
No 437
>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=94.02 E-value=0.038 Score=56.52 Aligned_cols=24 Identities=25% Similarity=0.588 Sum_probs=21.5
Q ss_pred eEEEeccCCCchHHHHHhhhcCCc
Q psy5059 9 QIVVVGTQSSGKSSVIESLVGKSF 32 (1036)
Q Consensus 9 ~i~vvg~~~~gkss~~~~~~g~~~ 32 (1036)
.|+|||.+||||||++++++...|
T Consensus 2 ki~vvG~~~vGKTsli~~~~~~~~ 25 (166)
T cd00877 2 KLVLVGDGGTGKTTFVKRHLTGEF 25 (166)
T ss_pred EEEEECCCCCCHHHHHHHHHhCCC
Confidence 589999999999999999987654
No 438
>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=94.02 E-value=0.042 Score=57.24 Aligned_cols=25 Identities=28% Similarity=0.602 Sum_probs=22.8
Q ss_pred eEEEeccCCCchHHHHHhhhcCCcc
Q psy5059 9 QIVVVGTQSSGKSSVIESLVGKSFL 33 (1036)
Q Consensus 9 ~i~vvg~~~~gkss~~~~~~g~~~~ 33 (1036)
.|+|+|.++|||||+++++++..|.
T Consensus 2 ki~v~G~~~vGKSsli~~~~~~~~~ 26 (188)
T cd04125 2 KVVIIGDYGVGKSSLLKRFTEDEFS 26 (188)
T ss_pred EEEEECCCCCCHHHHHHHHhcCCCC
Confidence 5899999999999999999987763
No 439
>PRK14723 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=94.01 E-value=0.21 Score=62.87 Aligned_cols=28 Identities=25% Similarity=0.375 Sum_probs=23.2
Q ss_pred EEEecccccCCCchhhhhhcCccccccc
Q psy5059 384 AVVTKIDLMDAGTDAIDILCGRVIPVKL 411 (1036)
Q Consensus 384 ~VitK~Dl~~~g~~~~~~l~~~~~~~~~ 411 (1036)
.|+||+|-..++...++++.---+|+++
T Consensus 328 lIlTKLDEt~~~G~iL~i~~~~~lPI~y 355 (767)
T PRK14723 328 CIITKLDEATHLGPALDTVIRHRLPVHY 355 (767)
T ss_pred EEEeccCCCCCccHHHHHHHHHCCCeEE
Confidence 5799999999998888887777777775
No 440
>COG3840 ThiQ ABC-type thiamine transport system, ATPase component [Coenzyme metabolism]
Probab=93.87 E-value=0.05 Score=56.77 Aligned_cols=25 Identities=24% Similarity=0.578 Sum_probs=23.1
Q ss_pred eEEEeccCCCchHHHHHhhhcCCccc
Q psy5059 9 QIVVVGTQSSGKSSVIESLVGKSFLP 34 (1036)
Q Consensus 9 ~i~vvg~~~~gkss~~~~~~g~~~~p 34 (1036)
++||+|..|+|||||||-|.|... |
T Consensus 27 ~vAi~GpSGaGKSTLLnLIAGF~~-P 51 (231)
T COG3840 27 IVAILGPSGAGKSTLLNLIAGFET-P 51 (231)
T ss_pred EEEEECCCCccHHHHHHHHHhccC-C
Confidence 789999999999999999999874 6
No 441
>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=93.85 E-value=0.042 Score=55.94 Aligned_cols=24 Identities=50% Similarity=0.804 Sum_probs=22.1
Q ss_pred eEEEeccCCCchHHHHHhhhcCCc
Q psy5059 9 QIVVVGTQSSGKSSVIESLVGKSF 32 (1036)
Q Consensus 9 ~i~vvg~~~~gkss~~~~~~g~~~ 32 (1036)
.|++||..|||||||++++++..|
T Consensus 2 kv~ivG~~~vGKTsl~~~l~~~~~ 25 (166)
T cd01893 2 RIVLIGDEGVGKSSLIMSLVSEEF 25 (166)
T ss_pred EEEEECCCCCCHHHHHHHHHhCcC
Confidence 589999999999999999998765
No 442
>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=93.83 E-value=0.043 Score=58.00 Aligned_cols=26 Identities=27% Similarity=0.590 Sum_probs=23.5
Q ss_pred CCeEEEeccCCCchHHHHHhhhcCCc
Q psy5059 7 LPQIVVVGTQSSGKSSVIESLVGKSF 32 (1036)
Q Consensus 7 lp~i~vvg~~~~gkss~~~~~~g~~~ 32 (1036)
...|+|||.+||||||+++++.+..|
T Consensus 6 ~~kivvvG~~~vGKTsli~~l~~~~~ 31 (199)
T cd04110 6 LFKLLIIGDSGVGKSSLLLRFADNTF 31 (199)
T ss_pred eeEEEEECCCCCCHHHHHHHHhcCCC
Confidence 46899999999999999999988765
No 443
>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=93.83 E-value=0.042 Score=56.52 Aligned_cols=24 Identities=42% Similarity=0.634 Sum_probs=21.5
Q ss_pred eEEEeccCCCchHHHHHhhhcCCc
Q psy5059 9 QIVVVGTQSSGKSSVIESLVGKSF 32 (1036)
Q Consensus 9 ~i~vvg~~~~gkss~~~~~~g~~~ 32 (1036)
.|++||.+||||||+++++.+..|
T Consensus 3 kv~l~G~~g~GKTtl~~~~~~~~~ 26 (180)
T cd04137 3 KIAVLGSRSVGKSSLTVQFVEGHF 26 (180)
T ss_pred EEEEECCCCCCHHHHHHHHHhCCC
Confidence 589999999999999999997554
No 444
>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=93.79 E-value=0.045 Score=56.03 Aligned_cols=24 Identities=25% Similarity=0.576 Sum_probs=21.5
Q ss_pred eEEEeccCCCchHHHHHhhhcCCc
Q psy5059 9 QIVVVGTQSSGKSSVIESLVGKSF 32 (1036)
Q Consensus 9 ~i~vvg~~~~gkss~~~~~~g~~~ 32 (1036)
.|++||.++|||||+++++++..|
T Consensus 1 ~vvlvG~~~~GKTsl~~~l~~~~~ 24 (169)
T cd04158 1 RVVTLGLDGAGKTTILFKLKQDEF 24 (169)
T ss_pred CEEEECCCCCCHHHHHHHHhcCCC
Confidence 389999999999999999998654
No 445
>PRK12726 flagellar biosynthesis regulator FlhF; Provisional
Probab=93.71 E-value=0.32 Score=56.74 Aligned_cols=23 Identities=22% Similarity=0.336 Sum_probs=19.9
Q ss_pred CceEEeCcCCCChhhHHhhhcCC
Q psy5059 84 PQIVVVGTQSSGKSSVIESLVGK 106 (1036)
Q Consensus 84 PqIvVvG~QSsGKSSlLEal~G~ 106 (1036)
.-|+++|.+++|||+++..|+..
T Consensus 207 ~ii~lvGptGvGKTTt~akLA~~ 229 (407)
T PRK12726 207 RIISLIGQTGVGKTTTLVKLGWQ 229 (407)
T ss_pred eEEEEECCCCCCHHHHHHHHHHH
Confidence 35679999999999999999853
No 446
>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=93.69 E-value=0.048 Score=56.02 Aligned_cols=27 Identities=19% Similarity=0.319 Sum_probs=23.0
Q ss_pred CCCeEEEeccCCCchHHHHHhhhcCCc
Q psy5059 6 QLPQIVVVGTQSSGKSSVIESLVGKSF 32 (1036)
Q Consensus 6 ~lp~i~vvg~~~~gkss~~~~~~g~~~ 32 (1036)
....|++||.+||||||+++++.+..|
T Consensus 8 ~~~kv~i~G~~~~GKTsli~~l~~~~~ 34 (168)
T cd04149 8 KEMRILMLGLDAAGKTTILYKLKLGQS 34 (168)
T ss_pred CccEEEEECcCCCCHHHHHHHHccCCC
Confidence 346899999999999999999986543
No 447
>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=93.68 E-value=0.046 Score=56.67 Aligned_cols=24 Identities=33% Similarity=0.530 Sum_probs=22.0
Q ss_pred eEEEeccCCCchHHHHHhhhcCCc
Q psy5059 9 QIVVVGTQSSGKSSVIESLVGKSF 32 (1036)
Q Consensus 9 ~i~vvg~~~~gkss~~~~~~g~~~ 32 (1036)
.|+|||.+||||||+++++++..|
T Consensus 2 ki~vvG~~~vGKTsli~~l~~~~~ 25 (187)
T cd04132 2 KIVVVGDGGCGKTCLLIVYSQGKF 25 (187)
T ss_pred eEEEECCCCCCHHHHHHHHHhCcC
Confidence 589999999999999999998665
No 448
>COG3596 Predicted GTPase [General function prediction only]
Probab=93.65 E-value=0.051 Score=60.01 Aligned_cols=41 Identities=29% Similarity=0.408 Sum_probs=28.9
Q ss_pred CeEE-EeccCCCchHHHHHhhhcCCccccc-CCccccccEEEe
Q psy5059 8 PQIV-VVGTQSSGKSSVIESLVGKSFLPRG-IGIVTRRPLILQ 48 (1036)
Q Consensus 8 p~i~-vvg~~~~gkss~~~~~~g~~~~pr~-~~~~trrpl~l~ 48 (1036)
|..+ ++|+.|+||||++|+|.+....|.. .|.||+-+..+.
T Consensus 39 pvnvLi~G~TG~GKSSliNALF~~~~~~v~~vg~~t~~~~~~~ 81 (296)
T COG3596 39 PVNVLLMGATGAGKSSLINALFQGEVKEVSKVGVGTDITTRLR 81 (296)
T ss_pred ceeEEEecCCCCcHHHHHHHHHhccCceeeecccCCCchhhHH
Confidence 5565 9999999999999999975555532 444454454443
No 449
>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=93.65 E-value=0.051 Score=55.38 Aligned_cols=25 Identities=32% Similarity=0.525 Sum_probs=22.6
Q ss_pred eEEEeccCCCchHHHHHhhhcCCcc
Q psy5059 9 QIVVVGTQSSGKSSVIESLVGKSFL 33 (1036)
Q Consensus 9 ~i~vvg~~~~gkss~~~~~~g~~~~ 33 (1036)
.|+++|.+||||||+++++++..|.
T Consensus 2 ki~i~G~~~~GKTsl~~~~~~~~~~ 26 (174)
T cd04135 2 KCVVVGDGAVGKTCLLMSYANDAFP 26 (174)
T ss_pred EEEEECCCCCCHHHHHHHHHhCCCC
Confidence 5899999999999999999987763
No 450
>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=93.64 E-value=0.05 Score=58.26 Aligned_cols=26 Identities=27% Similarity=0.551 Sum_probs=23.2
Q ss_pred CeEEEeccCCCchHHHHHhhhcCCcc
Q psy5059 8 PQIVVVGTQSSGKSSVIESLVGKSFL 33 (1036)
Q Consensus 8 p~i~vvg~~~~gkss~~~~~~g~~~~ 33 (1036)
..|+|||.+||||||+++++++..|.
T Consensus 3 ~KIvvvG~~~vGKTsLi~~l~~~~~~ 28 (211)
T cd04111 3 FRLIVIGDSTVGKSSLLKRFTEGRFA 28 (211)
T ss_pred eEEEEECCCCCCHHHHHHHHHcCCCC
Confidence 46999999999999999999987663
No 451
>PRK06731 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=93.64 E-value=0.27 Score=54.94 Aligned_cols=25 Identities=16% Similarity=0.461 Sum_probs=22.4
Q ss_pred CCCceEEeCcCCCChhhHHhhhcCC
Q psy5059 82 QLPQIVVVGTQSSGKSSVIESLVGK 106 (1036)
Q Consensus 82 ~lPqIvVvG~QSsGKSSlLEal~G~ 106 (1036)
+.+.|+++|.+++|||+++..|++.
T Consensus 74 ~~~~i~~~G~~g~GKTtl~~~l~~~ 98 (270)
T PRK06731 74 EVQTIALIGPTGVGKTTTLAKMAWQ 98 (270)
T ss_pred CCCEEEEECCCCCcHHHHHHHHHHH
Confidence 3479999999999999999999876
No 452
>cd04164 trmE TrmE (MnmE, ThdF, MSS1) is a 3-domain protein found in bacteria and eukaryotes. It controls modification of the uridine at the wobble position (U34) of tRNAs that read codons ending with A or G in the mixed codon family boxes. TrmE contains a GTPase domain that forms a canonical Ras-like fold. It functions a molecular switch GTPase, and apparently uses a conformational change associated with GTP hydrolysis to promote the tRNA modification reaction, in which the conserved cysteine in the C-terminal domain is thought to function as a catalytic residue. In bacteria that are able to survive in extremely low pH conditions, TrmE regulates glutamate-dependent acid resistance.
Probab=93.62 E-value=0.069 Score=52.82 Aligned_cols=25 Identities=36% Similarity=0.683 Sum_probs=22.7
Q ss_pred eEEEeccCCCchHHHHHhhhcCCcc
Q psy5059 9 QIVVVGTQSSGKSSVIESLVGKSFL 33 (1036)
Q Consensus 9 ~i~vvg~~~~gkss~~~~~~g~~~~ 33 (1036)
.|+++|.+||||||+++++.|..+.
T Consensus 3 ~i~l~G~~~~GKstli~~l~~~~~~ 27 (157)
T cd04164 3 KVVIVGKPNVGKSSLLNALAGRDRA 27 (157)
T ss_pred EEEEECCCCCCHHHHHHHHHCCceE
Confidence 5899999999999999999997753
No 453
>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=93.60 E-value=0.055 Score=55.23 Aligned_cols=25 Identities=24% Similarity=0.538 Sum_probs=22.8
Q ss_pred CeEEEeccCCCchHHHHHhhhcCCc
Q psy5059 8 PQIVVVGTQSSGKSSVIESLVGKSF 32 (1036)
Q Consensus 8 p~i~vvg~~~~gkss~~~~~~g~~~ 32 (1036)
..|+|+|.+||||||+++++.+..|
T Consensus 2 ~ki~iiG~~~~GKTsl~~~~~~~~~ 26 (175)
T cd01870 2 KKLVIVGDGACGKTCLLIVFSKDQF 26 (175)
T ss_pred cEEEEECCCCCCHHHHHHHHhcCCC
Confidence 5799999999999999999998665
No 454
>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=93.55 E-value=0.05 Score=57.38 Aligned_cols=24 Identities=25% Similarity=0.616 Sum_probs=21.9
Q ss_pred eEEEeccCCCchHHHHHhhhcCCc
Q psy5059 9 QIVVVGTQSSGKSSVIESLVGKSF 32 (1036)
Q Consensus 9 ~i~vvg~~~~gkss~~~~~~g~~~ 32 (1036)
.|++||.+||||||+++++++..|
T Consensus 1 kv~vvG~~~vGKTsll~~~~~~~~ 24 (198)
T cd04147 1 RLVFMGAAGVGKTALIQRFLYDTF 24 (198)
T ss_pred CEEEECCCCCCHHHHHHHHHhCCC
Confidence 489999999999999999998765
No 455
>COG0481 LepA Membrane GTPase LepA [Cell envelope biogenesis, outer membrane]
Probab=93.52 E-value=0.22 Score=58.56 Aligned_cols=58 Identities=24% Similarity=0.298 Sum_probs=39.8
Q ss_pred ccCCceEEEEecccccCCCchhhhhhcCcccccccccccccchHHHHHHHHHHhhccCCCcceeeeecccchhhhHHHHH
Q psy5059 377 VDGRRTLAVVTKIDLMDAGTDAIDILCGRVIPVKLDVDGRRTYIEAQIKQLVLHYISNPNSIILAVVTANTDMATSESLK 456 (1036)
Q Consensus 377 ~~g~rti~VitK~Dl~~~g~~~~~~l~~~~~~~~~~~~~~~~~~~~~l~~~v~~~i~~~~~ipla~ISA~td~~~qeil~ 456 (1036)
..+--.|-|+||+||-.++.+. +..++.+-+ .+...-.+-+||++|.++.++++
T Consensus 126 e~~LeIiPViNKIDLP~Adper-------------------------vk~eIe~~i-Gid~~dav~~SAKtG~gI~~iLe 179 (603)
T COG0481 126 ENNLEIIPVLNKIDLPAADPER-------------------------VKQEIEDII-GIDASDAVLVSAKTGIGIEDVLE 179 (603)
T ss_pred HcCcEEEEeeecccCCCCCHHH-------------------------HHHHHHHHh-CCCcchheeEecccCCCHHHHHH
Confidence 3455678899999998766543 344444433 33444456789999999999998
Q ss_pred Hhhh
Q psy5059 457 LAKE 460 (1036)
Q Consensus 457 la~~ 460 (1036)
..-+
T Consensus 180 ~Iv~ 183 (603)
T COG0481 180 AIVE 183 (603)
T ss_pred HHHh
Confidence 7643
No 456
>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=93.52 E-value=0.055 Score=55.72 Aligned_cols=26 Identities=15% Similarity=0.402 Sum_probs=22.9
Q ss_pred CCeEEEeccCCCchHHHHHhhhcCCc
Q psy5059 7 LPQIVVVGTQSSGKSSVIESLVGKSF 32 (1036)
Q Consensus 7 lp~i~vvg~~~~gkss~~~~~~g~~~ 32 (1036)
-..|+++|.+||||||++++|.+..|
T Consensus 15 ~~kv~~~G~~~~GKTsl~~~l~~~~~ 40 (174)
T cd04153 15 EYKVIIVGLDNAGKTTILYQFLLGEV 40 (174)
T ss_pred ccEEEEECCCCCCHHHHHHHHccCCC
Confidence 35799999999999999999987654
No 457
>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=93.50 E-value=0.29 Score=57.00 Aligned_cols=99 Identities=22% Similarity=0.234 Sum_probs=64.3
Q ss_pred HHHHHHHHhhhcCCCceEEEEEecCccccchHHHHHhhhccccCCceEEEEecccccCCCchhhhhhcCccccccccccc
Q psy5059 336 AQIKQLVLHYISNPNSIILAVVTANTDMATSESLKLAKETDVDGRRTLAVVTKIDLMDAGTDAIDILCGRVIPVKLDVDG 415 (1036)
Q Consensus 336 ~~~~~~~~~y~~~~~~~~~~~v~~~~d~~~~~~~~la~~~d~~g~rti~VitK~Dl~~~g~~~~~~l~~~~~~~~~~~~~ 415 (1036)
..+.++...|.. ..+++++|||+. |.+.+-...+.+.+. +.+.+.|+||.||.++....
T Consensus 51 e~f~~~l~~~~~-~~~~Il~VvD~~-d~~~s~~~~l~~~~~--~~piilV~NK~DLl~k~~~~----------------- 109 (360)
T TIGR03597 51 DDFLNLLNSLGD-SNALIVYVVDIF-DFEGSLIPELKRFVG--GNPVLLVGNKIDLLPKSVNL----------------- 109 (360)
T ss_pred HHHHHHHhhccc-CCcEEEEEEECc-CCCCCccHHHHHHhC--CCCEEEEEEchhhCCCCCCH-----------------
Confidence 355667777755 557899999984 444444444555442 67899999999998754321
Q ss_pred ccchHHHHHHHHHHhhccCCCc--ceeeeecccchhhhHHHHHHhhhc
Q psy5059 416 RRTYIEAQIKQLVLHYISNPNS--IILAVVTANTDMATSESLKLAKET 461 (1036)
Q Consensus 416 ~~~~~~~~l~~~v~~~i~~~~~--ipla~ISA~td~~~qeil~la~~v 461 (1036)
..+...+.++.+.... ..+..+||+++.++.+++....+.
T Consensus 110 ------~~~~~~l~~~~k~~g~~~~~i~~vSAk~g~gv~eL~~~l~~~ 151 (360)
T TIGR03597 110 ------SKIKEWMKKRAKELGLKPVDIILVSAKKGNGIDELLDKIKKA 151 (360)
T ss_pred ------HHHHHHHHHHHHHcCCCcCcEEEecCCCCCCHHHHHHHHHHH
Confidence 2223333333333222 246679999999999999888665
No 458
>PRK12723 flagellar biosynthesis regulator FlhF; Provisional
Probab=93.48 E-value=0.2 Score=58.78 Aligned_cols=28 Identities=18% Similarity=0.195 Sum_probs=22.1
Q ss_pred EEEecccccCCCchhhhhhcCccccccc
Q psy5059 384 AVVTKIDLMDAGTDAIDILCGRVIPVKL 411 (1036)
Q Consensus 384 ~VitK~Dl~~~g~~~~~~l~~~~~~~~~ 411 (1036)
.|+||+|-...+..+++++.---+|+..
T Consensus 317 ~I~TKlDet~~~G~~l~~~~~~~~Pi~y 344 (388)
T PRK12723 317 VIFTKLDETTCVGNLISLIYEMRKEVSY 344 (388)
T ss_pred EEEEeccCCCcchHHHHHHHHHCCCEEE
Confidence 5799999999998888777666666654
No 459
>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=93.41 E-value=0.053 Score=56.73 Aligned_cols=24 Identities=29% Similarity=0.504 Sum_probs=21.5
Q ss_pred eEEEeccCCCchHHHHHhhhcCCc
Q psy5059 9 QIVVVGTQSSGKSSVIESLVGKSF 32 (1036)
Q Consensus 9 ~i~vvg~~~~gkss~~~~~~g~~~ 32 (1036)
.|+|||.+||||||+++++++-.|
T Consensus 1 ki~ivG~~~vGKTsli~~l~~~~f 24 (190)
T cd04144 1 KLVVLGDGGVGKTALTIQLCLNHF 24 (190)
T ss_pred CEEEECCCCCCHHHHHHHHHhCCC
Confidence 389999999999999999987655
No 460
>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=93.29 E-value=0.089 Score=64.59 Aligned_cols=27 Identities=33% Similarity=0.578 Sum_probs=23.6
Q ss_pred eEEEeccCCCchHHHHHhhhcCCcccc
Q psy5059 9 QIVVVGTQSSGKSSVIESLVGKSFLPR 35 (1036)
Q Consensus 9 ~i~vvg~~~~gkss~~~~~~g~~~~pr 35 (1036)
.|++||.+||||||++|+|+|......
T Consensus 120 rIvLVGKTGVGKSSLINSILGekvf~v 146 (763)
T TIGR00993 120 NILVLGKSGVGKSATINSIFGEVKFST 146 (763)
T ss_pred EEEEECCCCCCHHHHHHHHhccccccc
Confidence 699999999999999999999764443
No 461
>COG1162 Predicted GTPases [General function prediction only]
Probab=93.26 E-value=0.14 Score=57.59 Aligned_cols=77 Identities=18% Similarity=0.376 Sum_probs=0.0
Q ss_pred EEeCcCCCChhhHHhhhcCCCcCcccccccccCceEEEEeeCCCCchhhhhhccCCCCccccccccccccccccchhhhh
Q psy5059 87 VVVGTQSSGKSSVIESLVGKSFLPRGIGIVTRRPLILQLYYCPKDDREKRTAAAGTMDLDAWGQFLHTKDKVFRDFDDIR 166 (1036)
Q Consensus 87 vVvG~QSsGKSSlLEal~G~~flPrg~G~cTR~Pl~l~l~~~~~~~~~~~~~~~~~~~~~~w~~~~~~~~~~~~df~~~r 166 (1036)
|++|..++|||||+|+|.+..
T Consensus 168 vl~GqSGVGKSSLiN~L~p~~----------------------------------------------------------- 188 (301)
T COG1162 168 VLLGQSGVGKSTLINALLPEL----------------------------------------------------------- 188 (301)
T ss_pred EEECCCCCcHHHHHHhhCchh-----------------------------------------------------------
Q ss_pred hhhhHHHHHhhccCCCcccccccccccccccCCcccCChhHHHHHHHHHHHHhcCCCCCcCCCcEEEEE-eecCccccee
Q psy5059 167 REIEDETERLAGKNKGICTMDLDAWGQFLHTKDKVFRDFDDIRREIEDETERLAGKNKGICSEPIILKI-YSTSVLNLTL 245 (1036)
Q Consensus 167 ~ei~~e~~r~~~~~~~i~~~~~~~~~~f~~~~~~~~~~~~~I~~~I~~~~~~~~g~~~~~S~d~I~L~I-~~P~~~~Ltl 245 (1036)
..-..+.+...|.++--|....-+.+ .|-. +
T Consensus 189 -------------------------------------------~~~t~eIS~~~~rGkHTTt~~~l~~l~~gG~-----i 220 (301)
T COG1162 189 -------------------------------------------NQKTGEISEKLGRGRHTTTHVELFPLPGGGW-----I 220 (301)
T ss_pred -------------------------------------------hhhhhhhcccCCCCCCccceEEEEEcCCCCE-----E
Q ss_pred ecCCCccccCC-CCCchhHHHHHHHH
Q psy5059 246 VDLPGITKVPV-GDQPDDIEAQIKQL 270 (1036)
Q Consensus 246 VDLPGi~~~~~-~~q~~di~~~ir~l 270 (1036)
|||||+..... ..+++++.....++
T Consensus 221 iDTPGf~~~~l~~~~~e~l~~~F~ef 246 (301)
T COG1162 221 IDTPGFRSLGLAHLEPEDLVQAFPEF 246 (301)
T ss_pred EeCCCCCccCcccCCHHHHHHHhHHH
No 462
>PLN03108 Rab family protein; Provisional
Probab=93.22 E-value=0.063 Score=57.37 Aligned_cols=27 Identities=26% Similarity=0.550 Sum_probs=23.9
Q ss_pred CeEEEeccCCCchHHHHHhhhcCCccc
Q psy5059 8 PQIVVVGTQSSGKSSVIESLVGKSFLP 34 (1036)
Q Consensus 8 p~i~vvg~~~~gkss~~~~~~g~~~~p 34 (1036)
-.|+|||.+||||||+++++++..|.|
T Consensus 7 ~kivivG~~gvGKStLi~~l~~~~~~~ 33 (210)
T PLN03108 7 FKYIIIGDTGVGKSCLLLQFTDKRFQP 33 (210)
T ss_pred eEEEEECCCCCCHHHHHHHHHhCCCCC
Confidence 469999999999999999999877643
No 463
>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=93.20 E-value=0.062 Score=54.11 Aligned_cols=23 Identities=22% Similarity=0.485 Sum_probs=20.1
Q ss_pred eEEEeccCCCchHHHHHhhhcCC
Q psy5059 9 QIVVVGTQSSGKSSVIESLVGKS 31 (1036)
Q Consensus 9 ~i~vvg~~~~gkss~~~~~~g~~ 31 (1036)
.|++||.+||||||+++++.+..
T Consensus 1 kv~lvG~~~~GKTsl~~~l~~~~ 23 (158)
T cd04151 1 RILILGLDNAGKTTILYRLQLGE 23 (158)
T ss_pred CEEEECCCCCCHHHHHHHHccCC
Confidence 48999999999999999996543
No 464
>KOG1954|consensus
Probab=93.18 E-value=0.43 Score=54.50 Aligned_cols=27 Identities=33% Similarity=0.635 Sum_probs=25.2
Q ss_pred CCCceEEeCcCCCChhhHHhhhcCCCc
Q psy5059 82 QLPQIVVVGTQSSGKSSVIESLVGKSF 108 (1036)
Q Consensus 82 ~lPqIvVvG~QSsGKSSlLEal~G~~f 108 (1036)
.-|-|.++|.=|.||||.+.-|.+-+|
T Consensus 57 ~KPmill~GqyStGKTtfi~yLle~dy 83 (532)
T KOG1954|consen 57 AKPMILLVGQYSTGKTTFIRYLLEQDY 83 (532)
T ss_pred cCceEEEEeccccchhHHHHHHHhCCC
Confidence 369999999999999999999999996
No 465
>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=93.12 E-value=0.064 Score=54.01 Aligned_cols=21 Identities=24% Similarity=0.479 Sum_probs=19.6
Q ss_pred eEEEeccCCCchHHHHHhhhc
Q psy5059 9 QIVVVGTQSSGKSSVIESLVG 29 (1036)
Q Consensus 9 ~i~vvg~~~~gkss~~~~~~g 29 (1036)
.|+|||.+|||||||++++.+
T Consensus 2 ki~vvG~~~~GKtsl~~~l~~ 22 (164)
T cd04101 2 RCAVVGDPAVGKTAFVQMFHS 22 (164)
T ss_pred EEEEECCCCCCHHHHHHHHhc
Confidence 589999999999999999985
No 466
>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=93.11 E-value=0.066 Score=55.20 Aligned_cols=24 Identities=38% Similarity=0.657 Sum_probs=22.3
Q ss_pred eEEEeccCCCchHHHHHhhhcCCc
Q psy5059 9 QIVVVGTQSSGKSSVIESLVGKSF 32 (1036)
Q Consensus 9 ~i~vvg~~~~gkss~~~~~~g~~~ 32 (1036)
.|+|||.+|||||||++++++..|
T Consensus 4 ki~vvG~~~vGKTsL~~~~~~~~f 27 (172)
T cd04141 4 KIVMLGAGGVGKSAVTMQFISHSF 27 (172)
T ss_pred EEEEECCCCCcHHHHHHHHHhCCC
Confidence 589999999999999999998776
No 467
>PTZ00369 Ras-like protein; Provisional
Probab=93.11 E-value=0.067 Score=55.93 Aligned_cols=26 Identities=31% Similarity=0.462 Sum_probs=23.4
Q ss_pred CCeEEEeccCCCchHHHHHhhhcCCc
Q psy5059 7 LPQIVVVGTQSSGKSSVIESLVGKSF 32 (1036)
Q Consensus 7 lp~i~vvg~~~~gkss~~~~~~g~~~ 32 (1036)
-..|+|||.+||||||+++++++..|
T Consensus 5 ~~Ki~iiG~~~~GKTsLi~~~~~~~~ 30 (189)
T PTZ00369 5 EYKLVVVGGGGVGKSALTIQFIQNHF 30 (189)
T ss_pred ceEEEEECCCCCCHHHHHHHHhcCCC
Confidence 36899999999999999999998665
No 468
>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=93.08 E-value=0.069 Score=55.90 Aligned_cols=24 Identities=29% Similarity=0.598 Sum_probs=22.0
Q ss_pred eEEEeccCCCchHHHHHhhhcCCc
Q psy5059 9 QIVVVGTQSSGKSSVIESLVGKSF 32 (1036)
Q Consensus 9 ~i~vvg~~~~gkss~~~~~~g~~~ 32 (1036)
.|++||.+||||||+++++++..|
T Consensus 2 kivivG~~~vGKTsli~~~~~~~~ 25 (189)
T cd04134 2 KVVVLGDGACGKTSLLNVFTRGYF 25 (189)
T ss_pred EEEEECCCCCCHHHHHHHHhcCCC
Confidence 589999999999999999998665
No 469
>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=93.07 E-value=0.071 Score=65.78 Aligned_cols=34 Identities=24% Similarity=0.489 Sum_probs=28.7
Q ss_pred CCCeEEEeccCCCchHHHHHhhhcCCcccccCCc
Q psy5059 6 QLPQIVVVGTQSSGKSSVIESLVGKSFLPRGIGI 39 (1036)
Q Consensus 6 ~lp~i~vvg~~~~gkss~~~~~~g~~~~pr~~~~ 39 (1036)
--|.|+|+|.+++|||||||+|.|..+.....|.
T Consensus 3 r~piV~IiG~~d~GKTSLln~l~~~~v~~~e~gg 36 (590)
T TIGR00491 3 RSPIVSVLGHVDHGKTTLLDKIRGSAVAKREAGG 36 (590)
T ss_pred CCCEEEEECCCCCCHHHHHHHHhccccccccCCc
Confidence 4599999999999999999999998776544444
No 470
>KOG0093|consensus
Probab=93.07 E-value=0.3 Score=49.08 Aligned_cols=42 Identities=19% Similarity=0.287 Sum_probs=31.9
Q ss_pred ccceeecCCCccccCCCCCchhHHHHHHHHHHHhhcCCCcEEEEEeccccccccc
Q psy5059 241 LNLTLVDLPGITKVPVGDQPDDIEAQIKQLVLHYISNPNSIILAVVTANTDMATS 295 (1036)
Q Consensus 241 ~~LtlVDLPGi~~~~~~~q~~di~~~ir~lv~~yI~~~n~IIL~V~~An~D~~~s 295 (1036)
.+|.+-|+.|. +..+.+...|++....+||+-+..|.+.-|+
T Consensus 70 iklQiwDTagq-------------EryrtiTTayyRgamgfiLmyDitNeeSf~s 111 (193)
T KOG0093|consen 70 IKLQIWDTAGQ-------------ERYRTITTAYYRGAMGFILMYDITNEESFNS 111 (193)
T ss_pred EEEEEEecccc-------------hhhhHHHHHHhhccceEEEEEecCCHHHHHH
Confidence 34556678884 2357788899999999999999888766554
No 471
>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=93.05 E-value=0.053 Score=55.57 Aligned_cols=22 Identities=18% Similarity=0.386 Sum_probs=20.4
Q ss_pred eEEEeccCCCchHHHHHhhhcC
Q psy5059 9 QIVVVGTQSSGKSSVIESLVGK 30 (1036)
Q Consensus 9 ~i~vvg~~~~gkss~~~~~~g~ 30 (1036)
-|++||.++||||||+++|++.
T Consensus 2 ni~~vG~~~~GKssL~~~l~~~ 23 (179)
T cd01890 2 NFSIIAHIDHGKSTLADRLLEL 23 (179)
T ss_pred cEEEEeecCCCHHHHHHHHHHH
Confidence 4899999999999999999984
No 472
>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=92.99 E-value=0.081 Score=51.59 Aligned_cols=22 Identities=32% Similarity=0.668 Sum_probs=20.1
Q ss_pred EeccCCCchHHHHHhhhcCCcc
Q psy5059 12 VVGTQSSGKSSVIESLVGKSFL 33 (1036)
Q Consensus 12 vvg~~~~gkss~~~~~~g~~~~ 33 (1036)
++|..||||||++++|+|..+.
T Consensus 1 i~G~~gsGKstl~~~l~~~~~~ 22 (163)
T cd00880 1 LFGRTNAGKSSLLNALLGQEVA 22 (163)
T ss_pred CcCCCCCCHHHHHHHHhCcccc
Confidence 5899999999999999998765
No 473
>KOG1489|consensus
Probab=92.99 E-value=0.11 Score=58.33 Aligned_cols=22 Identities=27% Similarity=0.524 Sum_probs=19.3
Q ss_pred CeEEEeccCCCchHHHHHhhhc
Q psy5059 8 PQIVVVGTQSSGKSSVIESLVG 29 (1036)
Q Consensus 8 p~i~vvg~~~~gkss~~~~~~g 29 (1036)
+-|-.||.||+||||||++|.-
T Consensus 197 advGLVG~PNAGKSTLL~als~ 218 (366)
T KOG1489|consen 197 ADVGLVGFPNAGKSTLLNALSR 218 (366)
T ss_pred cccceecCCCCcHHHHHHHhhc
Confidence 4566899999999999999976
No 474
>TIGR00064 ftsY signal recognition particle-docking protein FtsY. There is a weak division between FtsY and SRP54; both are GTPases. In E.coli, ftsY is an essential gene located in an operon with cell division genes ftsE and ftsX, but its apparent function is as the signal recognition particle docking protein.
Probab=92.99 E-value=0.61 Score=52.26 Aligned_cols=22 Identities=36% Similarity=0.593 Sum_probs=19.4
Q ss_pred ceEEeCcCCCChhhHHhhhcCC
Q psy5059 85 QIVVVGTQSSGKSSVIESLVGK 106 (1036)
Q Consensus 85 qIvVvG~QSsGKSSlLEal~G~ 106 (1036)
-|+++|.+++|||+++-.|+..
T Consensus 74 vi~l~G~~G~GKTTt~akLA~~ 95 (272)
T TIGR00064 74 VILFVGVNGVGKTTTIAKLANK 95 (272)
T ss_pred EEEEECCCCCcHHHHHHHHHHH
Confidence 5789999999999999999853
No 475
>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=92.98 E-value=0.065 Score=54.85 Aligned_cols=22 Identities=27% Similarity=0.690 Sum_probs=20.4
Q ss_pred eEEEeccCCCchHHHHHhhhcC
Q psy5059 9 QIVVVGTQSSGKSSVIESLVGK 30 (1036)
Q Consensus 9 ~i~vvg~~~~gkss~~~~~~g~ 30 (1036)
.|+++|.+||||||++++++|.
T Consensus 1 ~i~~~G~~~~GKTsl~~~l~~~ 22 (167)
T cd04161 1 TLLTVGLDNAGKTTLVSALQGE 22 (167)
T ss_pred CEEEECCCCCCHHHHHHHHhCC
Confidence 4899999999999999999875
No 476
>COG0480 FusA Translation elongation factors (GTPases) [Translation, ribosomal structure and biogenesis]
Probab=92.95 E-value=0.56 Score=58.93 Aligned_cols=27 Identities=22% Similarity=0.291 Sum_probs=23.2
Q ss_pred HHHhhhccccCCceEEEEecccccCCC
Q psy5059 369 LKLAKETDVDGRRTLAVVTKIDLMDAG 395 (1036)
Q Consensus 369 ~~la~~~d~~g~rti~VitK~Dl~~~g 395 (1036)
-.+-|.++..+.+.|.++||.|.+-..
T Consensus 118 Etv~rqa~~~~vp~i~fiNKmDR~~a~ 144 (697)
T COG0480 118 ETVWRQADKYGVPRILFVNKMDRLGAD 144 (697)
T ss_pred HHHHHHHhhcCCCeEEEEECccccccC
Confidence 457788889999999999999998765
No 477
>PRK14721 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=92.86 E-value=0.27 Score=58.28 Aligned_cols=23 Identities=17% Similarity=0.391 Sum_probs=20.9
Q ss_pred CceEEeCcCCCChhhHHhhhcCC
Q psy5059 84 PQIVVVGTQSSGKSSVIESLVGK 106 (1036)
Q Consensus 84 PqIvVvG~QSsGKSSlLEal~G~ 106 (1036)
-.|++||..++||||++-.|+|.
T Consensus 192 ~vi~lvGpnG~GKTTtlakLA~~ 214 (420)
T PRK14721 192 GVYALIGPTGVGKTTTTAKLAAR 214 (420)
T ss_pred cEEEEECCCCCCHHHHHHHHHHH
Confidence 36899999999999999999885
No 478
>PF00005 ABC_tran: ABC transporter This structure is on hold until Dec 1999; InterPro: IPR003439 ABC transporters belong to the ATP-Binding Cassette (ABC) superfamily, which uses the hydrolysis of ATP to energise diverse biological systems. ABC transporters minimally consist of two conserved regions: a highly conserved ATP binding cassette (ABC) and a less conserved transmembrane domain (TMD). These can be found on the same protein or on two different ones. Most ABC transporters function as a dimer and therefore are constituted of four domains, two ABC modules and two TMDs. ABC transporters are involved in the export or import of a wide variety of substrates ranging from small ions to macromolecules. The major function of ABC import systems is to provide essential nutrients to bacteria. They are found only in prokaryotes and their four constitutive domains are usually encoded by independent polypeptides (two ABC proteins and two TMD proteins). Prokaryotic importers require additional extracytoplasmic binding proteins (one or more per systems) for function. In contrast, export systems are involved in the extrusion of noxious substances, the export of extracellular toxins and the targeting of membrane components. They are found in all living organisms and in general the TMD is fused to the ABC module in a variety of combinations. Some eukaryotic exporters encode the four domains on the same polypeptide chain []. The ABC module (approximately two hundred amino acid residues) is known to bind and hydrolyse ATP, thereby coupling transport to ATP hydrolysis in a large number of biological processes. The cassette is duplicated in several subfamilies. Its primary sequence is highly conserved, displaying a typical phosphate-binding loop: Walker A, and a magnesium binding site: Walker B. Besides these two regions, three other conserved motifs are present in the ABC cassette: the switch region which contains a histidine loop, postulated to polarise the attaching water molecule for hydrolysis, the signature conserved motif (LSGGQ) specific to the ABC transporter, and the Q-motif (between Walker A and the signature), which interacts with the gamma phosphate through a water bond. The Walker A, Walker B, Q-loop and switch region form the nucleotide binding site [, , ]. The 3D structure of a monomeric ABC module adopts a stubby L-shape with two distinct arms. ArmI (mainly beta-strand) contains Walker A and Walker B. The important residues for ATP hydrolysis and/or binding are located in the P-loop. The ATP-binding pocket is located at the extremity of armI. The perpendicular armII contains mostly the alpha helical subdomain with the signature motif. It only seems to be required for structural integrity of the ABC module. ArmII is in direct contact with the TMD. The hinge between armI and armII contains both the histidine loop and the Q-loop, making contact with the gamma phosphate of the ATP molecule. ATP hydrolysis leads to a conformational change that could facilitate ADP release. In the dimer the two ABC cassettes contact each other through hydrophobic interactions at the antiparallel beta-sheet of armI by a two-fold axis [, , , , , ]. The ATP-Binding Cassette (ABC) superfamily forms one of the largest of all protein families with a diversity of physiological functions []. Several studies have shown that there is a correlation between the functional characterisation and the phylogenetic classification of the ABC cassette [, ]. More than 50 subfamilies have been described based on a phylogenetic and functional classification [, , ]; (for further information see http://www.tcdb.org/tcdb/index.php?tc=3.A.1). On the basis of sequence similarities a family of related ATP-binding proteins has been characterised [, , , , ]. The proteins belonging to this family also contain one or two copies of the 'A' consensus sequence [] or the 'P-loop' [] (see IPR001687 from INTERPRO).; GO: 0005524 ATP binding, 0016887 ATPase activity; PDB: 3NHB_A 3NH9_A 3NHA_A 3NH6_A 1VCI_A 1V43_A 2YZ2_B 2PMK_A 2FFA_A 1XEF_D ....
Probab=92.85 E-value=0.07 Score=52.49 Aligned_cols=23 Identities=35% Similarity=0.648 Sum_probs=21.6
Q ss_pred eEEEeccCCCchHHHHHhhhcCC
Q psy5059 9 QIVVVGTQSSGKSSVIESLVGKS 31 (1036)
Q Consensus 9 ~i~vvg~~~~gkss~~~~~~g~~ 31 (1036)
.++|+|..|||||||++.|.|..
T Consensus 13 ~~~i~G~nGsGKStLl~~l~g~~ 35 (137)
T PF00005_consen 13 IVAIVGPNGSGKSTLLKALAGLL 35 (137)
T ss_dssp EEEEEESTTSSHHHHHHHHTTSS
T ss_pred EEEEEccCCCccccceeeecccc
Confidence 58999999999999999999976
No 479
>PLN03110 Rab GTPase; Provisional
Probab=92.85 E-value=0.074 Score=57.13 Aligned_cols=25 Identities=28% Similarity=0.587 Sum_probs=22.5
Q ss_pred CeEEEeccCCCchHHHHHhhhcCCc
Q psy5059 8 PQIVVVGTQSSGKSSVIESLVGKSF 32 (1036)
Q Consensus 8 p~i~vvg~~~~gkss~~~~~~g~~~ 32 (1036)
-.|++||.+|||||||++++++..|
T Consensus 13 ~Ki~ivG~~~vGKStLi~~l~~~~~ 37 (216)
T PLN03110 13 FKIVLIGDSGVGKSNILSRFTRNEF 37 (216)
T ss_pred eEEEEECCCCCCHHHHHHHHhcCCC
Confidence 3799999999999999999998765
No 480
>KOG0462|consensus
Probab=92.83 E-value=0.36 Score=57.72 Aligned_cols=82 Identities=20% Similarity=0.233 Sum_probs=59.3
Q ss_pred EEEEEecCccccchHHHHHhhhccccCCceEEEEecccccCCCchhhhhhcCcccccccccccccchHHHHHHHHHHhhc
Q psy5059 353 ILAVVTANTDMATSESLKLAKETDVDGRRTLAVVTKIDLMDAGTDAIDILCGRVIPVKLDVDGRRTYIEAQIKQLVLHYI 432 (1036)
Q Consensus 353 ~~~~v~~~~d~~~~~~~~la~~~d~~g~rti~VitK~Dl~~~g~~~~~~l~~~~~~~~~~~~~~~~~~~~~l~~~v~~~i 432 (1036)
++.|||+++++...-...+ ..+-..|-+.|-|+||+|+-.+..+ .+...+.+-+
T Consensus 152 ~lLvVDA~qGvqAQT~anf-~lAfe~~L~iIpVlNKIDlp~adpe-------------------------~V~~q~~~lF 205 (650)
T KOG0462|consen 152 ALLVVDASQGVQAQTVANF-YLAFEAGLAIIPVLNKIDLPSADPE-------------------------RVENQLFELF 205 (650)
T ss_pred eEEEEEcCcCchHHHHHHH-HHHHHcCCeEEEeeeccCCCCCCHH-------------------------HHHHHHHHHh
Confidence 7889999998766543332 2344679999999999999766544 3444444444
Q ss_pred cCCCcceeeeecccchhhhHHHHHHhhhc
Q psy5059 433 SNPNSIILAVVTANTDMATSESLKLAKET 461 (1036)
Q Consensus 433 ~~~~~ipla~ISA~td~~~qeil~la~~v 461 (1036)
.......+++||++|.+..++++.+-+.
T Consensus 206 -~~~~~~~i~vSAK~G~~v~~lL~AII~r 233 (650)
T KOG0462|consen 206 -DIPPAEVIYVSAKTGLNVEELLEAIIRR 233 (650)
T ss_pred -cCCccceEEEEeccCccHHHHHHHHHhh
Confidence 3445588999999999999999886443
No 481
>KOG2486|consensus
Probab=92.77 E-value=0.029 Score=61.78 Aligned_cols=98 Identities=20% Similarity=0.175 Sum_probs=56.7
Q ss_pred CCeEEEeccCCCchHHHHHhhhcCCcccccCCcc----cc------ccEEEeeccCCCch------hhhhh--------h
Q psy5059 7 LPQIVVVGTQSSGKSSVIESLVGKSFLPRGIGIV----TR------RPLILQLYYCPKDD------REKRT--------A 62 (1036)
Q Consensus 7 lp~i~vvg~~~~gkss~~~~~~g~~~~pr~~~~~----tr------rpl~l~l~~~~~~~------~~~~~--------~ 62 (1036)
.|.+++.|+.|||||||||.++.+.-. +.++.. |+ -=.-+.+...++.. +-... +
T Consensus 136 ~pe~~~~g~SNVGKSSLln~~~r~k~~-~~t~k~K~g~Tq~in~f~v~~~~~~vDlPG~~~a~y~~~~~~d~~~~t~~Y~ 214 (320)
T KOG2486|consen 136 RPELAFYGRSNVGKSSLLNDLVRVKNI-ADTSKSKNGKTQAINHFHVGKSWYEVDLPGYGRAGYGFELPADWDKFTKSYL 214 (320)
T ss_pred CceeeeecCCcccHHHHHhhhhhhhhh-hhhcCCCCccceeeeeeeccceEEEEecCCcccccCCccCcchHhHhHHHHH
Confidence 469999999999999999999985532 222210 11 11112222333311 00011 1
Q ss_pred HHHHHHHHHhhh----hcCCCCCCCCceEEeCcCCCChhhHHhhhcCC
Q psy5059 63 AAVINKLQDVFN----TVGTDAIQLPQIVVVGTQSSGKSSVIESLVGK 106 (1036)
Q Consensus 63 ~~l~~kL~~~~~----~~g~~~i~lPqIvVvG~QSsGKSSlLEal~G~ 106 (1036)
++--+ |-.+|- ..+....++|.|.-+|.-++|+++|+..+--.
T Consensus 215 leR~n-Lv~~FLLvd~sv~i~~~D~~~i~~~ge~~VP~t~vfTK~DK~ 261 (320)
T KOG2486|consen 215 LEREN-LVRVFLLVDASVPIQPTDNPEIAWLGENNVPMTSVFTKCDKQ 261 (320)
T ss_pred Hhhhh-hheeeeeeeccCCCCCCChHHHHHHhhcCCCeEEeeehhhhh
Confidence 11111 112221 23346788999999999999999999887544
No 482
>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=92.75 E-value=0.079 Score=57.19 Aligned_cols=24 Identities=25% Similarity=0.569 Sum_probs=21.3
Q ss_pred eEEEeccCCCchHHHHHhhhcCCc
Q psy5059 9 QIVVVGTQSSGKSSVIESLVGKSF 32 (1036)
Q Consensus 9 ~i~vvg~~~~gkss~~~~~~g~~~ 32 (1036)
.|++||.+|||||||++++++..|
T Consensus 2 KI~lvG~~gvGKTsLi~~~~~~~~ 25 (221)
T cd04148 2 RVVMLGSPGVGKSSLASQFTSGEY 25 (221)
T ss_pred EEEEECCCCCcHHHHHHHHhcCCc
Confidence 589999999999999999986544
No 483
>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=92.71 E-value=0.052 Score=53.78 Aligned_cols=20 Identities=35% Similarity=0.717 Sum_probs=18.7
Q ss_pred EEeccCCCchHHHHHhhhcC
Q psy5059 11 VVVGTQSSGKSSVIESLVGK 30 (1036)
Q Consensus 11 ~vvg~~~~gkss~~~~~~g~ 30 (1036)
|++|.+||||||++|+|.|.
T Consensus 1 ~l~G~~~~GKssl~~~l~~~ 20 (157)
T cd01894 1 AIVGRPNVGKSTLFNRLTGR 20 (157)
T ss_pred CccCCCCCCHHHHHHHHhCC
Confidence 68999999999999999976
No 484
>PLN03118 Rab family protein; Provisional
Probab=92.70 E-value=0.08 Score=56.43 Aligned_cols=24 Identities=33% Similarity=0.631 Sum_probs=22.0
Q ss_pred eEEEeccCCCchHHHHHhhhcCCc
Q psy5059 9 QIVVVGTQSSGKSSVIESLVGKSF 32 (1036)
Q Consensus 9 ~i~vvg~~~~gkss~~~~~~g~~~ 32 (1036)
.|+|||.+||||||++++|.+..+
T Consensus 16 kv~ivG~~~vGKTsli~~l~~~~~ 39 (211)
T PLN03118 16 KILLIGDSGVGKSSLLVSFISSSV 39 (211)
T ss_pred EEEEECcCCCCHHHHHHHHHhCCC
Confidence 899999999999999999988653
No 485
>PF03205 MobB: Molybdopterin guanine dinucleotide synthesis protein B; PDB: 2F1R_B 1P9N_A 1NP6_B 2NPI_A 1XJC_A.
Probab=92.70 E-value=0.077 Score=53.43 Aligned_cols=23 Identities=39% Similarity=0.777 Sum_probs=20.8
Q ss_pred CeEEEeccCCCchHHHHHhhhcC
Q psy5059 8 PQIVVVGTQSSGKSSVIESLVGK 30 (1036)
Q Consensus 8 p~i~vvg~~~~gkss~~~~~~g~ 30 (1036)
|.|.|||..|||||||++.|+..
T Consensus 1 pvv~VvG~~~sGKTTl~~~Li~~ 23 (140)
T PF03205_consen 1 PVVQVVGPKNSGKTTLIRKLINE 23 (140)
T ss_dssp -EEEEEESTTSSHHHHHHHHHHH
T ss_pred CEEEEECCCCCCHHHHHHHHHHH
Confidence 78999999999999999999875
No 486
>PRK09554 feoB ferrous iron transport protein B; Reviewed
Probab=92.69 E-value=0.12 Score=65.85 Aligned_cols=33 Identities=15% Similarity=0.204 Sum_probs=27.7
Q ss_pred CCCC-CChhHHHHHHHHHHHHhhccHHHHHHHHHHHH
Q psy5059 900 PALF-VPEVSFELLVKRQIRRLEEPSQRCVELVHEEM 935 (1036)
Q Consensus 900 ~~lf-vp~~aFe~Lvk~qI~~l~~Psl~cvdlV~~EL 935 (1036)
...| +|-.||--|+= -.|--||+.-+--++.|.
T Consensus 655 ~~~f~~~~~a~a~l~F---~lly~PC~at~~ai~~E~ 688 (772)
T PRK09554 655 SQKFGSAAAAYSYLIF---VLLYVPCISVMGAIARES 688 (772)
T ss_pred hhccCCHHHHHHHHHH---HHHHHHHHHHHHHHHHHh
Confidence 4567 89999998886 567889999999999998
No 487
>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=92.69 E-value=0.085 Score=56.34 Aligned_cols=25 Identities=24% Similarity=0.689 Sum_probs=22.8
Q ss_pred eEEEeccCCCchHHHHHhhhcCCcc
Q psy5059 9 QIVVVGTQSSGKSSVIESLVGKSFL 33 (1036)
Q Consensus 9 ~i~vvg~~~~gkss~~~~~~g~~~~ 33 (1036)
||++||..||||||++.++++-.|.
T Consensus 2 ~vvvlG~~gVGKTSli~r~~~~~f~ 26 (202)
T cd04120 2 QVIIIGSRGVGKTSLMRRFTDDTFC 26 (202)
T ss_pred EEEEECcCCCCHHHHHHHHHhCCCC
Confidence 7999999999999999999987663
No 488
>PRK00098 GTPase RsgA; Reviewed
Probab=92.66 E-value=0.086 Score=59.74 Aligned_cols=29 Identities=28% Similarity=0.387 Sum_probs=0.0
Q ss_pred eEEEeccCCCchHHHHHhhhcCCcccccC
Q psy5059 9 QIVVVGTQSSGKSSVIESLVGKSFLPRGI 37 (1036)
Q Consensus 9 ~i~vvg~~~~gkss~~~~~~g~~~~pr~~ 37 (1036)
.+++||.+|||||||+|+|.|..-.-.|.
T Consensus 166 ~~~~~G~sgvGKStlin~l~~~~~~~~g~ 194 (298)
T PRK00098 166 VTVLAGQSGVGKSTLLNALAPDLELKTGE 194 (298)
T ss_pred eEEEECCCCCCHHHHHHHHhCCcCCCCcc
No 489
>TIGR01360 aden_kin_iso1 adenylate kinase, isozyme 1 subfamily. Members of this family are adenylate kinase, EC 2.7.4.3. This clade is found only in eukaryotes and includes human adenylate kinase isozyme 1 (myokinase). Within the adenylate kinase superfamily, this set appears specifically closely related to a subfamily of eukaryotic UMP-CMP kinases (TIGR01359), rather than to the large clade of bacterial, archaeal, and eukaryotic adenylate kinase family members in TIGR01351.
Probab=92.63 E-value=0.084 Score=54.74 Aligned_cols=23 Identities=35% Similarity=0.508 Sum_probs=21.7
Q ss_pred CCCeEEEeccCCCchHHHHHhhh
Q psy5059 6 QLPQIVVVGTQSSGKSSVIESLV 28 (1036)
Q Consensus 6 ~lp~i~vvg~~~~gkss~~~~~~ 28 (1036)
+.|.|+|+|.+||||||+.+.|.
T Consensus 2 ~~~ii~i~G~~GsGKsTl~~~l~ 24 (188)
T TIGR01360 2 KCKIIFIVGGPGSGKGTQCEKIV 24 (188)
T ss_pred CCcEEEEECCCCCCHHHHHHHHH
Confidence 46899999999999999999998
No 490
>PTZ00141 elongation factor 1- alpha; Provisional
Probab=92.61 E-value=0.4 Score=57.44 Aligned_cols=79 Identities=18% Similarity=0.253 Sum_probs=48.2
Q ss_pred ccEEEeeccCCCc--hhhhhhhHHHHHHHHHhhhhcCCCCCCCCceEEeCcCCCCh---h---------hHHhhhcCCCc
Q psy5059 43 RPLILQLYYCPKD--DREKRTAAAVINKLQDVFNTVGTDAIQLPQIVVVGTQSSGK---S---------SVIESLVGKSF 108 (1036)
Q Consensus 43 rpl~l~l~~~~~~--~~~~~~~~~l~~kL~~~~~~~g~~~i~lPqIvVvG~QSsGK---S---------SlLEal~G~~f 108 (1036)
+++++.+||+|.. +-....+..+.+++++.+...|...-+.|-|-+-|-++.|= | ||+|+|..+.-
T Consensus 146 ~~iiv~vNKmD~~~~~~~~~~~~~i~~~i~~~l~~~g~~~~~~~~ipiSa~~g~ni~~~~~~~~Wy~G~tL~~~l~~~~~ 225 (446)
T PTZ00141 146 KQMIVCINKMDDKTVNYSQERYDEIKKEVSAYLKKVGYNPEKVPFIPISGWQGDNMIEKSDNMPWYKGPTLLEALDTLEP 225 (446)
T ss_pred CeEEEEEEccccccchhhHHHHHHHHHHHHHHHHhcCCCcccceEEEeecccCCCcccCCCCCcccchHHHHHHHhCCCC
Confidence 3578999999842 22345677888899988887775333455555555444432 1 69999988763
Q ss_pred CcccccccccCce
Q psy5059 109 LPRGIGIVTRRPL 121 (1036)
Q Consensus 109 lPrg~G~cTR~Pl 121 (1036)
-.|...-.-|+|+
T Consensus 226 ~~~~~~~p~r~~I 238 (446)
T PTZ00141 226 PKRPVDKPLRLPL 238 (446)
T ss_pred CCcCCCCCeEEEE
Confidence 2233333444444
No 491
>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=92.57 E-value=0.091 Score=53.54 Aligned_cols=26 Identities=27% Similarity=0.540 Sum_probs=23.1
Q ss_pred eEEEeccCCCchHHHHHhhhcCCccc
Q psy5059 9 QIVVVGTQSSGKSSVIESLVGKSFLP 34 (1036)
Q Consensus 9 ~i~vvg~~~~gkss~~~~~~g~~~~p 34 (1036)
.|++||..||||||++.++++..|.+
T Consensus 2 ki~vvG~~gvGKTsli~~~~~~~f~~ 27 (158)
T cd04103 2 KLGIVGNLQSGKSALVHRYLTGSYVQ 27 (158)
T ss_pred EEEEECCCCCcHHHHHHHHHhCCCCC
Confidence 58999999999999999999877743
No 492
>COG0699 Predicted GTPases (dynamin-related) [General function prediction only]
Probab=92.55 E-value=1.7 Score=52.78 Aligned_cols=147 Identities=30% Similarity=0.356 Sum_probs=112.6
Q ss_pred ccChhHHHHHHHHHHHHHHhhcchhHHHHHHHHHHHHhhhccCCCCccchhchhhhhhhh------------------hh
Q psy5059 618 KKNPALHERIVEVVTQLLRRRLPATNTMVENLLAIELAYINTKHPDFHKDAALVPSLIKS------------------AE 679 (1036)
Q Consensus 618 ~r~p~L~~rI~evv~~lL~~~~~~~~~~i~~li~~E~~yint~hpdf~~~~~~~~~~~~~------------------~~ 679 (1036)
..||.+...+.+.+.++......++...+...++++..|+||.||+|.....+.....+. ..
T Consensus 321 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~ 400 (546)
T COG0699 321 SPFPKLSEALEEVVNQLKNKVDSGLESGLLAIIDIEERYINTKHPLFLSLRQAAAILSKVLDNLEALLRSLDDSRLRELS 400 (546)
T ss_pred ccchhhHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHhhcCcchHHHHHHHHHHHHHHHHHHHHHHhhccccccchh
Confidence 578999999999999988899999999999999999999999999998764443211110 00
Q ss_pred -------------HH-----h----------------------------hhhcchhhhhhhHHHHHHHHHHHHHHHHHHh
Q psy5059 680 -------------ED-----Y----------------------------QRRTLSEKEKRDCDVIERLIKSYFYIIRKSI 713 (1036)
Q Consensus 680 -------------~~-----~----------------------------~~~~~~~~~~~~~~~i~~~~~sYf~iv~k~~ 713 (1036)
.. + ....+++....+...|..++.+| .++...+
T Consensus 401 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~l~~~~-~~~~~~~ 479 (546)
T COG0699 401 DMGLNSLLSNNLEEHLLGSDFSLYKFLNEFLELKKLDALLATLGEALRRLTGLLPERKTLEKQLIKSLLESL-LILAQKI 479 (546)
T ss_pred hcccchhHHHHHHHHhhcchhhHHHHHHHHhhhccchhhhccchHHHHHhhcccchhhhhhhHHHHHHHHHH-HHHHHHH
Confidence 00 0 00112233334456679999999 9999999
Q ss_pred hhhhhHHHHHHHHHHHHHHHHHHHHHHhhcccchHHhhhcCHHHHHhhhhhh
Q psy5059 714 QDTVPKAIMHFLVNYVKDNLQSELVTHLYKADSASELLNESEWVAQRRKEAS 765 (1036)
Q Consensus 714 ~d~vPk~i~~~lv~~~~~~l~~~l~~~l~~~~~~~~ll~E~~~ia~rR~~~~ 765 (1036)
.+.++++++.++.+..+...+......+|.....+.+..+.+.+.+.+..+.
T Consensus 480 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~ 531 (546)
T COG0699 480 RDSVLKAIFELLKNKRKRLAQKQRLKRLYLEQLEDELLRTAEEILELRLLLE 531 (546)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHH
Confidence 9999999999998888888888888888888888888888877777666443
No 493
>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=92.54 E-value=0.058 Score=51.77 Aligned_cols=21 Identities=43% Similarity=0.798 Sum_probs=19.2
Q ss_pred EeccCCCchHHHHHhhhcCCc
Q psy5059 12 VVGTQSSGKSSVIESLVGKSF 32 (1036)
Q Consensus 12 vvg~~~~gkss~~~~~~g~~~ 32 (1036)
|+|.+||||||++++|.|...
T Consensus 1 iiG~~~~GKStl~~~l~~~~~ 21 (157)
T cd00882 1 VVGDSGVGKTSLLNRLLGGEF 21 (157)
T ss_pred CCCcCCCcHHHHHHHHHhCCc
Confidence 689999999999999999774
No 494
>cd01879 FeoB Ferrous iron transport protein B (FeoB) subfamily. E. coli has an iron(II) transport system, known as feo, which may make an important contribution to the iron supply of the cell under anaerobic conditions. FeoB has been identified as part of this transport system. FeoB is a large 700-800 amino acid integral membrane protein. The N terminus contains a P-loop motif suggesting that iron transport may be ATP dependent.
Probab=92.53 E-value=0.097 Score=52.11 Aligned_cols=22 Identities=27% Similarity=0.530 Sum_probs=19.7
Q ss_pred EeccCCCchHHHHHhhhcCCcc
Q psy5059 12 VVGTQSSGKSSVIESLVGKSFL 33 (1036)
Q Consensus 12 vvg~~~~gkss~~~~~~g~~~~ 33 (1036)
++|.+||||||++|++.|..+.
T Consensus 1 l~G~~~~GKssl~~~~~~~~~~ 22 (158)
T cd01879 1 LVGNPNVGKTTLFNALTGARQK 22 (158)
T ss_pred CCCCCCCCHHHHHHHHhcCccc
Confidence 5899999999999999997653
No 495
>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=92.51 E-value=0.088 Score=52.88 Aligned_cols=24 Identities=46% Similarity=0.771 Sum_probs=22.2
Q ss_pred eEEEeccCCCchHHHHHhhhcCCc
Q psy5059 9 QIVVVGTQSSGKSSVIESLVGKSF 32 (1036)
Q Consensus 9 ~i~vvg~~~~gkss~~~~~~g~~~ 32 (1036)
.|+|||.++|||||+++++++..|
T Consensus 1 Ki~vvG~~~vGKtsl~~~~~~~~~ 24 (162)
T PF00071_consen 1 KIVVVGDSGVGKTSLINRLINGEF 24 (162)
T ss_dssp EEEEEESTTSSHHHHHHHHHHSST
T ss_pred CEEEECCCCCCHHHHHHHHHhhcc
Confidence 489999999999999999998776
No 496
>KOG2655|consensus
Probab=92.51 E-value=0.66 Score=53.59 Aligned_cols=214 Identities=20% Similarity=0.246 Sum_probs=0.0
Q ss_pred eEEeCcCCCChhhHHhhhcCCCcCcccccccccCceEEEEeeCCCCchhhhhhccCCCCccccccccccccccccchhhh
Q psy5059 86 IVVVGTQSSGKSSVIESLVGKSFLPRGIGIVTRRPLILQLYYCPKDDREKRTAAAGTMDLDAWGQFLHTKDKVFRDFDDI 165 (1036)
Q Consensus 86 IvVvG~QSsGKSSlLEal~G~~flPrg~G~cTR~Pl~l~l~~~~~~~~~~~~~~~~~~~~~~w~~~~~~~~~~~~df~~~ 165 (1036)
+-|||+.+.|||+++++|.+-++
T Consensus 24 lmvvG~sGlGKsTfiNsLf~~~l--------------------------------------------------------- 46 (366)
T KOG2655|consen 24 LMVVGESGLGKSTFINSLFLTDL--------------------------------------------------------- 46 (366)
T ss_pred EEEecCCCccHHHHHHHHHhhhc---------------------------------------------------------
Q ss_pred hhhhhHHHHHhhccCCCcccccccccccccccCCcccCChhHHHHHHHHH-----HHHhcCCCCCcCCCcEEEEEeecCc
Q psy5059 166 RREIEDETERLAGKNKGICTMDLDAWGQFLHTKDKVFRDFDDIRREIEDE-----TERLAGKNKGICSEPIILKIYSTSV 240 (1036)
Q Consensus 166 r~ei~~e~~r~~~~~~~i~~~~~~~~~~f~~~~~~~~~~~~~I~~~I~~~-----~~~~~g~~~~~S~d~I~L~I~~P~~ 240 (1036)
... ...-......+-.....++=.| --
T Consensus 47 -----------------------------------------------~~~~~~~~~~~~~~~t~~i~~~~~~iee~g-~~ 78 (366)
T KOG2655|consen 47 -----------------------------------------------SGNREVPGASERIKETVEIESTKVEIEENG-VK 78 (366)
T ss_pred -----------------------------------------------cCCcccCCcccCccccceeeeeeeeecCCC-eE
Q ss_pred ccceeecCCCc-cccCCCCCchhHHHHHHHHHHHhhc-------------CCCcEEEEEeccccccccchhhhhhhhcCC
Q psy5059 241 LNLTLVDLPGI-TKVPVGDQPDDIEAQIKQLVLHYIS-------------NPNSIILAVVTANTDMATSESLKLAKETDV 306 (1036)
Q Consensus 241 ~~LtlVDLPGi-~~~~~~~q~~di~~~ir~lv~~yI~-------------~~n~IIL~V~~An~D~~~s~al~l~r~~Dp 306 (1036)
.+||+|||||+ -.+....--.-+...|.+--..|+. +-||-+-+..|....+.--|
T Consensus 79 l~LtvidtPGfGD~vdns~~w~pi~~yi~~q~~~yl~~E~~~~R~~~~D~RVH~cLYFI~P~ghgL~p~D---------- 148 (366)
T KOG2655|consen 79 LNLTVIDTPGFGDAVDNSNCWRPIVNYIDSQFDQYLDEESRLNRSKIKDNRVHCCLYFISPTGHGLKPLD---------- 148 (366)
T ss_pred EeeEEeccCCCcccccccccchhhhHHHHHHHHHHHhhhccCCcccccCCceEEEEEEeCCCCCCCcHhh----------
Q ss_pred CCCcccceeccCCCCcccccCCCCCchHHHHHHHHHHhhhcCCCceEEEEEecCccccchHHHHHhhhccccCCceEEEE
Q psy5059 307 DGRRTLDLLDIDLPGITKVPVGDQPDDIEAQIKQLVLHYISNPNSIILAVVTANTDMATSESLKLAKETDVDGRRTLAVV 386 (1036)
Q Consensus 307 ~g~RTigvl~~~~~g~~~~~~~~~~~~~~~~~~~~~~~y~~~~~~~~~~~v~~~~d~~~~~~~~la~~~d~~g~rti~Vi 386 (1036)
-....+|+..| -+|-||
T Consensus 149 ----------------------------------------------------------i~~Mk~l~~~v-----NiIPVI 165 (366)
T KOG2655|consen 149 ----------------------------------------------------------IEFMKKLSKKV-----NLIPVI 165 (366)
T ss_pred ----------------------------------------------------------HHHHHHHhccc-----ccccee
Q ss_pred ecccccCCCchhhhhhcCcccccccccccccchHHHHHHHHHHhhccCCCcceeeeecccchhhhHHHHHHhhhcCcCCC
Q psy5059 387 TKIDLMDAGTDAIDILCGRVIPVKLDVDGRRTYIEAQIKQLVLHYISNPNSIILAVVTANTDMATSESLKLAKETDVDGR 466 (1036)
Q Consensus 387 tK~Dl~~~g~~~~~~l~~~~~~~~~~~~~~~~~~~~~l~~~v~~~i~~~~~ipla~ISA~td~~~qeil~la~~vd~~g~ 466 (1036)
.|-|.+.++.. ..++..+++-+....=-+--|-..-.+....+-.+..+..-|
T Consensus 166 ~KaD~lT~~El------------------------~~~K~~I~~~i~~~nI~vf~fp~~~~d~~~~~~~~~l~~~~P--- 218 (366)
T KOG2655|consen 166 AKADTLTKDEL------------------------NQFKKRIRQDIEEHNIKVFDFPTDESDEELKEEEQDLKSSIP--- 218 (366)
T ss_pred eccccCCHHHH------------------------HHHHHHHHHHHHHcCcceecCCCCcchhhhHHHHHHHhhcCC---
Q ss_pred ceeeeecccccccccchHHHHhcCcceeeeecEEEEEcCChhhh
Q psy5059 467 RTLAVVTKIDLMDAGTDAIDILCGRVIPVKLGIIGVVNRSQQDI 510 (1036)
Q Consensus 467 RtIgVlTK~Dlmd~gt~~~~il~g~~~~L~LG~~~V~NRs~~di 510 (1036)
.+|+......+.+.... ++|+.+| .|.+.|-|...-|.
T Consensus 219 --FAIigs~~~~e~~G~~~--vrgR~Yp--WG~veien~~h~DF 256 (366)
T KOG2655|consen 219 --FAIIGSNTEIEEKGKKR--VRGRKYP--WGTVEIENPEHCDF 256 (366)
T ss_pred --eEEEecCceeecCCceE--eeceecC--CceeeccCCCcchH
No 497
>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=92.51 E-value=0.096 Score=54.20 Aligned_cols=24 Identities=33% Similarity=0.537 Sum_probs=22.4
Q ss_pred eEEEeccCCCchHHHHHhhhcCCc
Q psy5059 9 QIVVVGTQSSGKSSVIESLVGKSF 32 (1036)
Q Consensus 9 ~i~vvg~~~~gkss~~~~~~g~~~ 32 (1036)
.|++||..||||||++.++++..|
T Consensus 3 ki~vvG~~~vGKTsl~~~~~~~~f 26 (175)
T cd01874 3 KCVVVGDGAVGKTCLLISYTTNKF 26 (175)
T ss_pred EEEEECCCCCCHHHHHHHHHcCCC
Confidence 589999999999999999998776
No 498
>PF03308 ArgK: ArgK protein; InterPro: IPR005129 Bacterial periplasmic transport systems require the function of a specific substrate-binding protein, located in the periplasm, and several cytoplasmic membrane transport components. In Escherichia coli, the arginine-ornithine transport system requires an arginine-ornithine-binding protein and the lysine-arginine-ornithine (LAO) transport system includes a LAO-binding protein. Both periplasmic proteins can be phosphorylated by a single kinase, ArgK [] resulting in reduced levels of transport activity of the periplasmic transport systems that include each of the binding proteins. The ArgK protein acts as an ATPase enzyme and as a kinase.; PDB: 3MD0_A 3P32_A 2QM7_A 2QM8_A 2WWW_D 2P67_A 3NXS_A.
Probab=92.49 E-value=0.81 Score=50.63 Aligned_cols=186 Identities=16% Similarity=0.205 Sum_probs=0.0
Q ss_pred HHhhhhcCCCCCCCCceEEeCcCCCChhhHHhhhcCCCcCcccccccccCceEEEEeeCCCCchhhhhhccCCCCccccc
Q psy5059 70 QDVFNTVGTDAIQLPQIVVVGTQSSGKSSVIESLVGKSFLPRGIGIVTRRPLILQLYYCPKDDREKRTAAAGTMDLDAWG 149 (1036)
Q Consensus 70 ~~~~~~~g~~~i~lPqIvVvG~QSsGKSSlLEal~G~~flPrg~G~cTR~Pl~l~l~~~~~~~~~~~~~~~~~~~~~~w~ 149 (1036)
++++..+-.+.-.-+.|-+.|.+++|||||+++|.
T Consensus 16 ~~ll~~l~~~~g~a~~iGiTG~PGaGKSTli~~l~--------------------------------------------- 50 (266)
T PF03308_consen 16 RELLKRLYPHTGRAHVIGITGPPGAGKSTLIDALI--------------------------------------------- 50 (266)
T ss_dssp HHHHHHHGGGTT-SEEEEEEE-TTSSHHHHHHHHH---------------------------------------------
T ss_pred HHHHHHHHhhcCCceEEEeeCCCCCcHHHHHHHHH---------------------------------------------
Q ss_pred cccccccccccchhhhhhhhhHHHHHhhccCCCccccccccccccc---------------------ccCCcccCChhHH
Q psy5059 150 QFLHTKDKVFRDFDDIRREIEDETERLAGKNKGICTMDLDAWGQFL---------------------HTKDKVFRDFDDI 208 (1036)
Q Consensus 150 ~~~~~~~~~~~df~~~r~ei~~e~~r~~~~~~~i~~~~~~~~~~f~---------------------~~~~~~~~~~~~I 208 (1036)
.++....+.+.-...+.-++|. .-+-..-.....+
T Consensus 51 ------------------------~~~~~~g~~VaVlAVDPSSp~tGGAlLGDRiRM~~~~~d~~vfIRS~atRG~lGGl 106 (266)
T PF03308_consen 51 ------------------------RELRERGKRVAVLAVDPSSPFTGGALLGDRIRMQELSRDPGVFIRSMATRGSLGGL 106 (266)
T ss_dssp ------------------------HHHHHTT--EEEEEE-GGGGCC---SS--GGGCHHHHTSTTEEEEEE---SSHHHH
T ss_pred ------------------------HHHhhcCCceEEEEECCCCCCCCCcccccHHHhcCcCCCCCEEEeecCcCCCCCCc
Q ss_pred HHHHHHHHHHhcCCCCCcCCCcEEEEEeecCcccceeecCCCccccCCCCCchhHHHHHHHHHHHhhcCCCcEEEEEecc
Q psy5059 209 RREIEDETERLAGKNKGICSEPIILKIYSTSVLNLTLVDLPGITKVPVGDQPDDIEAQIKQLVLHYISNPNSIILAVVTA 288 (1036)
Q Consensus 209 ~~~I~~~~~~~~g~~~~~S~d~I~L~I~~P~~~~LtlVDLPGi~~~~~~~q~~di~~~ir~lv~~yI~~~n~IIL~V~~A 288 (1036)
.....+...-+..- --|.|.++=.|-..-..-++++. +++++++.|.
T Consensus 107 s~~t~~~v~ll~aa----G~D~IiiETVGvGQsE~~I~~~a-----------------------------D~~v~v~~Pg 153 (266)
T PF03308_consen 107 SRATRDAVRLLDAA----GFDVIIIETVGVGQSEVDIADMA-----------------------------DTVVLVLVPG 153 (266)
T ss_dssp HHHHHHHHHHHHHT----T-SEEEEEEESSSTHHHHHHTTS-----------------------------SEEEEEEESS
T ss_pred cHhHHHHHHHHHHc----CCCEEEEeCCCCCccHHHHHHhc-----------------------------CeEEEEecCC
Q ss_pred ccccccchhhhhhhhcCCCCCcccceeccCCCCcccccCCCCCchHHHHHHHHHHhhhcCCCceEEEEEecCccccchHH
Q psy5059 289 NTDMATSESLKLAKETDVDGRRTLDLLDIDLPGITKVPVGDQPDDIEAQIKQLVLHYISNPNSIILAVVTANTDMATSES 368 (1036)
Q Consensus 289 n~D~~~s~al~l~r~~Dp~g~RTigvl~~~~~g~~~~~~~~~~~~~~~~~~~~~~~y~~~~~~~~~~~v~~~~d~~~~~~ 368 (1036)
.-|-..-.=..+..-.|
T Consensus 154 ~GD~iQ~~KaGimEiaD--------------------------------------------------------------- 170 (266)
T PF03308_consen 154 LGDEIQAIKAGIMEIAD--------------------------------------------------------------- 170 (266)
T ss_dssp TCCCCCTB-TTHHHH-S---------------------------------------------------------------
T ss_pred CccHHHHHhhhhhhhcc---------------------------------------------------------------
Q ss_pred HHHhhhccccCCceEEEEecccccCCCchhhhhhcCcccccccccccccchHHHHHHHHHHhhccCCCc------ceeee
Q psy5059 369 LKLAKETDVDGRRTLAVVTKIDLMDAGTDAIDILCGRVIPVKLDVDGRRTYIEAQIKQLVLHYISNPNS------IILAV 442 (1036)
Q Consensus 369 ~~la~~~d~~g~rti~VitK~Dl~~~g~~~~~~l~~~~~~~~~~~~~~~~~~~~~l~~~v~~~i~~~~~------ipla~ 442 (1036)
|.|+||.|+-.. +.....+...+..... .|+.-
T Consensus 171 --------------i~vVNKaD~~gA---------------------------~~~~~~l~~~l~l~~~~~~~W~ppV~~ 209 (266)
T PF03308_consen 171 --------------IFVVNKADRPGA---------------------------DRTVRDLRSMLHLLREREDGWRPPVLK 209 (266)
T ss_dssp --------------EEEEE--SHHHH---------------------------HHHHHHHHHHHHHCSTSCTSB--EEEE
T ss_pred --------------EEEEeCCChHHH---------------------------HHHHHHHHHHHhhccccccCCCCCEEE
Q ss_pred ecccchhhhHHHHHHhhhc
Q psy5059 443 VTANTDMATSESLKLAKET 461 (1036)
Q Consensus 443 ISA~td~~~qeil~la~~v 461 (1036)
+||.++..+.++.+...+.
T Consensus 210 tsA~~~~Gi~eL~~~i~~~ 228 (266)
T PF03308_consen 210 TSALEGEGIDELWEAIDEH 228 (266)
T ss_dssp EBTTTTBSHHHHHHHHHHH
T ss_pred EEeCCCCCHHHHHHHHHHH
No 499
>COG0012 Predicted GTPase, probable translation factor [Translation, ribosomal structure and biogenesis]
Probab=92.47 E-value=0.11 Score=59.90 Aligned_cols=24 Identities=29% Similarity=0.454 Sum_probs=21.5
Q ss_pred CeEEEeccCCCchHHHHHhhhcCC
Q psy5059 8 PQIVVVGTQSSGKSSVIESLVGKS 31 (1036)
Q Consensus 8 p~i~vvg~~~~gkss~~~~~~g~~ 31 (1036)
.++-+||-|||||||+||+|...+
T Consensus 3 l~~GIVGlPNVGKSTlFnAlT~~~ 26 (372)
T COG0012 3 LKIGIVGLPNVGKSTLFNALTKAG 26 (372)
T ss_pred ceeEEecCCCCcHHHHHHHHHcCC
Confidence 478999999999999999998755
No 500
>COG1100 GTPase SAR1 and related small G proteins [General function prediction only]
Probab=92.46 E-value=0.088 Score=55.93 Aligned_cols=25 Identities=40% Similarity=0.755 Sum_probs=23.3
Q ss_pred eEEEeccCCCchHHHHHhhhcCCcc
Q psy5059 9 QIVVVGTQSSGKSSVIESLVGKSFL 33 (1036)
Q Consensus 9 ~i~vvg~~~~gkss~~~~~~g~~~~ 33 (1036)
.|+|+|..||||||+++++++..|.
T Consensus 7 kivv~G~~g~GKTtl~~~l~~~~~~ 31 (219)
T COG1100 7 KIVVLGDGGVGKTTLLNRLVGDEFP 31 (219)
T ss_pred EEEEEcCCCccHHHHHHHHhcCcCc
Confidence 7999999999999999999998874
Done!