Query 035388
Match_columns 66
No_of_seqs 178 out of 1225
Neff 10.2
Searched_HMMs 46136
Date Fri Mar 29 02:39:39 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/035388.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/035388hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0092 GTPase Rab5/YPT51 and 99.6 9.2E-16 2E-20 82.1 4.9 66 1-66 133-200 (200)
2 KOG0091 GTPase Rab39, small G 99.6 7.7E-15 1.7E-19 77.4 6.3 40 1-40 139-178 (213)
3 KOG0078 GTP-binding protein SE 99.6 1.2E-14 2.6E-19 78.6 6.0 39 1-39 140-178 (207)
4 KOG0084 GTPase Rab1/YPT1, smal 99.5 7.3E-14 1.6E-18 75.1 6.8 66 1-66 137-205 (205)
5 cd04126 Rab20 Rab20 subfamily. 99.5 5E-14 1.1E-18 77.3 5.4 63 2-65 143-220 (220)
6 KOG0098 GTPase Rab2, small G p 99.4 1.8E-13 3.8E-18 73.4 4.5 39 1-39 134-172 (216)
7 KOG0083 GTPase Rab26/Rab37, sm 99.4 4.9E-13 1.1E-17 68.8 5.4 38 1-38 126-163 (192)
8 KOG0394 Ras-related GTPase [Ge 99.4 4.2E-13 9.1E-18 71.8 4.8 39 1-39 143-182 (210)
9 KOG0080 GTPase Rab18, small G 99.3 3.6E-12 7.8E-17 67.3 5.2 37 1-37 140-176 (209)
10 KOG0097 GTPase Rab14, small G 99.3 1.4E-11 3.1E-16 64.1 6.0 39 1-39 139-177 (215)
11 KOG0088 GTPase Rab21, small G 99.3 1.8E-11 4E-16 64.6 5.8 39 1-39 141-179 (218)
12 KOG0079 GTP-binding protein H- 99.3 4.8E-12 1E-16 66.1 3.3 64 1-65 135-198 (198)
13 KOG0094 GTPase Rab6/YPT6/Ryh1, 99.2 4E-11 8.7E-16 64.8 4.8 38 1-38 151-188 (221)
14 cd04107 Rab32_Rab38 Rab38/Rab3 99.2 4.6E-11 1E-15 64.4 5.1 37 2-38 134-171 (201)
15 cd01873 RhoBTB RhoBTB subfamil 99.2 1.6E-11 3.4E-16 66.4 3.3 33 1-33 162-194 (195)
16 cd04174 Rnd1_Rho6 Rnd1/Rho6 su 99.2 1E-10 2.2E-15 64.8 6.1 38 1-38 152-191 (232)
17 cd04144 Ras2 Ras2 subfamily. 99.2 1.4E-10 3E-15 62.1 6.0 37 2-38 130-166 (190)
18 cd04121 Rab40 Rab40 subfamily. 99.2 9.3E-11 2E-15 63.1 5.4 38 2-39 134-171 (189)
19 PLN03110 Rab GTPase; Provision 99.1 3.2E-10 7E-15 61.9 6.6 37 2-38 141-177 (216)
20 cd04110 Rab35 Rab35 subfamily. 99.1 3.1E-10 6.7E-15 61.2 5.9 38 2-39 134-171 (199)
21 cd04112 Rab26 Rab26 subfamily. 99.1 3.4E-10 7.3E-15 60.6 5.9 37 2-38 130-166 (191)
22 cd04120 Rab12 Rab12 subfamily. 99.1 5.5E-10 1.2E-14 60.7 6.5 36 2-37 129-165 (202)
23 cd04172 Rnd3_RhoE_Rho8 Rnd3/Rh 99.1 1E-10 2.2E-15 62.6 3.6 35 1-35 144-180 (182)
24 cd04111 Rab39 Rab39 subfamily. 99.1 8.9E-10 1.9E-14 60.1 6.8 37 2-38 133-169 (211)
25 KOG0093 GTPase Rab3, small G p 99.1 1.5E-10 3.3E-15 60.5 2.8 39 1-39 149-187 (193)
26 cd04118 Rab24 Rab24 subfamily. 99.1 1.3E-09 2.8E-14 58.2 6.5 36 3-38 134-169 (193)
27 cd04131 Rnd Rnd subfamily. Th 99.1 2.5E-10 5.5E-15 60.8 3.7 35 1-35 140-176 (178)
28 cd04141 Rit_Rin_Ric Rit/Rin/Ri 99.0 6.2E-10 1.4E-14 58.9 4.6 37 2-38 131-167 (172)
29 cd04125 RabA_like RabA-like su 99.0 1.4E-09 3.1E-14 58.0 5.9 38 2-39 129-166 (188)
30 cd04133 Rop_like Rop subfamily 99.0 3.9E-10 8.5E-15 60.1 3.7 34 2-35 139-173 (176)
31 PLN03108 Rab family protein; P 99.0 2.5E-09 5.5E-14 58.2 6.4 37 2-38 135-171 (210)
32 cd01875 RhoG RhoG subfamily. 99.0 7E-10 1.5E-14 59.5 4.0 35 2-36 143-178 (191)
33 cd04173 Rnd2_Rho7 Rnd2/Rho7 su 99.0 2.5E-09 5.4E-14 59.0 5.9 38 1-38 140-179 (222)
34 KOG0087 GTPase Rab11/YPT3, sma 99.0 2.8E-09 6.1E-14 58.2 5.9 39 1-39 142-180 (222)
35 cd04103 Centaurin_gamma Centau 99.0 6.3E-10 1.4E-14 58.2 3.3 32 2-33 125-157 (158)
36 KOG0081 GTPase Rab27, small G 99.0 1.2E-09 2.5E-14 57.9 4.0 39 2-40 148-186 (219)
37 cd04132 Rho4_like Rho4-like su 98.9 4.2E-09 9.2E-14 56.0 5.3 37 2-38 133-170 (187)
38 cd04128 Spg1 Spg1p. Spg1p (se 98.9 2.1E-09 4.6E-14 57.4 4.1 35 2-36 133-167 (182)
39 PTZ00099 rab6; Provisional 98.9 4.1E-09 8.8E-14 56.2 5.1 37 2-38 109-145 (176)
40 PLN03118 Rab family protein; P 98.9 6.8E-09 1.5E-13 56.4 6.0 35 3-37 145-179 (211)
41 cd04134 Rho3 Rho3 subfamily. 98.9 2.7E-09 5.8E-14 57.1 4.3 35 2-36 140-175 (189)
42 cd04122 Rab14 Rab14 subfamily. 98.9 3E-09 6.6E-14 55.6 4.0 35 2-36 131-165 (166)
43 KOG0086 GTPase Rab4, small G p 98.9 2.4E-09 5.3E-14 56.4 3.3 38 2-39 138-175 (214)
44 PF00071 Ras: Ras family; Int 98.9 4.7E-09 1E-13 54.5 4.0 34 2-35 128-161 (162)
45 cd01874 Cdc42 Cdc42 subfamily. 98.9 3.5E-09 7.5E-14 56.2 3.4 33 2-34 141-174 (175)
46 cd04127 Rab27A Rab27a subfamil 98.8 6.6E-09 1.4E-13 54.8 4.3 36 2-37 144-179 (180)
47 cd01871 Rac1_like Rac1-like su 98.8 3.4E-09 7.4E-14 56.2 3.1 32 2-33 141-173 (174)
48 cd04117 Rab15 Rab15 subfamily. 98.8 4.1E-09 9E-14 55.0 3.1 32 2-33 129-160 (161)
49 cd04129 Rho2 Rho2 subfamily. 98.8 9.9E-09 2.1E-13 54.8 4.5 35 2-36 139-174 (187)
50 PTZ00369 Ras-like protein; Pro 98.8 8.8E-09 1.9E-13 55.1 4.2 37 2-38 134-170 (189)
51 smart00176 RAN Ran (Ras-relate 98.8 9.9E-09 2.2E-13 55.8 4.2 35 3-37 122-156 (200)
52 smart00174 RHO Rho (Ras homolo 98.8 7.5E-09 1.6E-13 54.3 3.2 34 2-35 138-172 (174)
53 cd04135 Tc10 TC10 subfamily. 98.7 1.3E-08 2.8E-13 53.4 3.4 33 2-34 140-173 (174)
54 KOG0395 Ras-related GTPase [Ge 98.7 1.8E-08 3.8E-13 54.8 3.9 36 1-36 131-166 (196)
55 PLN03071 GTP-binding nuclear p 98.7 2.1E-08 4.5E-13 55.0 4.2 35 3-37 140-174 (219)
56 cd00877 Ran Ran (Ras-related n 98.7 2.5E-08 5.4E-13 52.4 4.3 34 3-36 127-160 (166)
57 KOG0095 GTPase Rab30, small G 98.7 1.6E-08 3.6E-13 53.2 3.5 38 1-38 135-172 (213)
58 cd04142 RRP22 RRP22 subfamily. 98.7 2.7E-08 5.8E-13 53.9 4.1 36 3-38 141-177 (198)
59 cd04109 Rab28 Rab28 subfamily. 98.7 3.1E-08 6.6E-13 54.1 4.0 36 2-37 133-168 (215)
60 cd01867 Rab8_Rab10_Rab13_like 98.7 3.3E-08 7.1E-13 51.8 3.9 35 2-36 132-166 (167)
61 cd04108 Rab36_Rab34 Rab34/Rab3 98.7 3.9E-08 8.4E-13 51.9 4.1 34 3-36 133-166 (170)
62 cd01869 Rab1_Ypt1 Rab1/Ypt1 su 98.7 3.9E-08 8.5E-13 51.3 3.8 34 2-35 131-164 (166)
63 cd04119 RJL RJL (RabJ-Like) su 98.7 3.7E-08 7.9E-13 51.1 3.5 34 2-35 134-167 (168)
64 cd01865 Rab3 Rab3 subfamily. 98.6 4.8E-08 1E-12 51.0 3.8 35 2-36 130-164 (165)
65 cd04124 RabL2 RabL2 subfamily. 98.6 5.6E-08 1.2E-12 50.7 4.0 35 3-37 126-160 (161)
66 cd04138 H_N_K_Ras_like H-Ras/N 98.6 5.9E-08 1.3E-12 50.0 4.0 32 3-34 130-161 (162)
67 cd04146 RERG_RasL11_like RERG/ 98.6 5.8E-08 1.3E-12 50.6 3.8 34 2-35 130-164 (165)
68 cd04140 ARHI_like ARHI subfami 98.6 5.9E-08 1.3E-12 50.7 3.6 31 2-32 132-162 (165)
69 smart00173 RAS Ras subfamily o 98.6 7.3E-08 1.6E-12 50.1 3.8 34 2-35 129-162 (164)
70 cd04175 Rap1 Rap1 subgroup. T 98.6 7.8E-08 1.7E-12 50.1 3.9 33 2-34 130-162 (164)
71 cd04136 Rap_like Rap-like subf 98.6 5.3E-08 1.2E-12 50.4 3.2 32 3-34 131-162 (163)
72 cd04145 M_R_Ras_like M-Ras/R-R 98.6 9.4E-08 2E-12 49.5 3.9 33 2-34 131-163 (164)
73 cd04130 Wrch_1 Wrch-1 subfamil 98.6 1E-07 2.2E-12 50.2 3.5 31 2-32 140-171 (173)
74 cd04148 RGK RGK subfamily. Th 98.6 2E-07 4.4E-12 51.2 4.8 35 2-36 130-164 (221)
75 cd04177 RSR1 RSR1 subgroup. R 98.5 1.5E-07 3.3E-12 49.3 4.0 34 3-36 131-165 (168)
76 cd04176 Rap2 Rap2 subgroup. T 98.5 1.6E-07 3.4E-12 48.8 3.5 33 2-34 130-162 (163)
77 cd04139 RalA_RalB RalA/RalB su 98.5 3.1E-07 6.6E-12 47.5 4.4 33 3-35 130-162 (164)
78 cd01870 RhoA_like RhoA-like su 98.5 1.7E-07 3.7E-12 49.2 3.3 33 2-34 141-174 (175)
79 cd01866 Rab2 Rab2 subfamily. 98.5 2.4E-07 5.2E-12 48.6 3.8 35 2-36 133-167 (168)
80 cd04116 Rab9 Rab9 subfamily. 98.5 1.5E-07 3.2E-12 49.2 3.0 32 2-33 137-169 (170)
81 cd04115 Rab33B_Rab33A Rab33B/R 98.5 2.6E-07 5.6E-12 48.6 3.8 33 2-34 133-168 (170)
82 cd01868 Rab11_like Rab11-like. 98.5 1.9E-07 4.1E-12 48.6 3.2 33 2-34 132-164 (165)
83 cd04106 Rab23_lke Rab23-like s 98.4 3.8E-07 8.1E-12 47.2 3.6 32 2-33 130-161 (162)
84 smart00175 RAB Rab subfamily o 98.4 4.9E-07 1.1E-11 46.8 3.9 35 2-36 129-163 (164)
85 cd04113 Rab4 Rab4 subfamily. 98.4 3.5E-07 7.7E-12 47.4 3.1 33 2-34 129-161 (161)
86 cd04101 RabL4 RabL4 (Rab-like4 98.4 5.7E-07 1.2E-11 46.7 3.3 32 3-34 132-163 (164)
87 cd01897 NOG NOG1 is a nucleola 98.3 5.7E-07 1.2E-11 46.9 3.1 32 3-34 136-167 (168)
88 PRK15467 ethanolamine utilizat 98.3 1.3E-06 2.8E-11 45.8 4.2 35 3-37 113-149 (158)
89 TIGR02528 EutP ethanolamine ut 98.3 9.3E-07 2E-11 45.1 3.4 30 2-31 111-141 (142)
90 KOG4423 GTP-binding protein-li 98.3 3.3E-06 7.1E-11 46.0 5.5 37 2-38 160-197 (229)
91 cd01860 Rab5_related Rab5-rela 98.3 1.2E-06 2.6E-11 45.4 3.6 32 3-34 131-162 (163)
92 KOG0393 Ras-related small GTPa 98.3 6.4E-07 1.4E-11 48.8 2.6 37 1-37 144-181 (198)
93 PTZ00132 GTP-binding nuclear p 98.3 2E-06 4.3E-11 46.9 4.1 35 3-37 136-170 (215)
94 cd01864 Rab19 Rab19 subfamily. 98.2 1.3E-06 2.8E-11 45.6 3.1 32 2-33 132-164 (165)
95 cd01863 Rab18 Rab18 subfamily. 98.2 1.4E-06 3E-11 45.1 3.2 32 2-33 129-160 (161)
96 PLN00223 ADP-ribosylation fact 98.2 2.6E-06 5.7E-11 45.5 4.2 25 12-36 155-179 (181)
97 cd01892 Miro2 Miro2 subfamily. 98.2 2E-06 4.3E-11 45.4 3.7 34 2-35 132-166 (169)
98 cd04137 RheB Rheb (Ras Homolog 98.2 6.4E-06 1.4E-10 43.5 5.2 36 3-38 131-166 (180)
99 cd04158 ARD1 ARD1 subfamily. 98.2 2.1E-06 4.5E-11 45.2 3.0 27 11-37 137-163 (169)
100 cd04156 ARLTS1 ARLTS1 subfamil 98.2 6.7E-07 1.4E-11 46.3 1.1 24 9-32 136-159 (160)
101 cd04114 Rab30 Rab30 subfamily. 98.2 2.8E-06 6.1E-11 44.3 3.4 32 3-34 137-168 (169)
102 cd00876 Ras Ras family. The R 98.2 3.1E-06 6.8E-11 43.5 3.3 33 2-34 128-160 (160)
103 PTZ00133 ADP-ribosylation fact 98.1 1.8E-06 4E-11 46.1 2.4 28 11-38 154-181 (182)
104 cd00157 Rho Rho (Ras homology) 98.1 4.2E-06 9.2E-11 43.6 3.4 30 3-32 140-170 (171)
105 cd04123 Rab21 Rab21 subfamily. 98.1 6E-06 1.3E-10 42.5 3.7 32 3-34 130-161 (162)
106 cd01890 LepA LepA subfamily. 98.1 6.1E-06 1.3E-10 43.4 3.8 32 3-34 142-176 (179)
107 cd01862 Rab7 Rab7 subfamily. 98.1 9.6E-06 2.1E-10 42.3 4.4 35 3-37 134-169 (172)
108 cd04162 Arl9_Arfrp2_like Arl9/ 98.0 1.6E-06 3.5E-11 45.5 1.0 30 2-31 127-162 (164)
109 cd01893 Miro1 Miro1 subfamily. 98.0 8.3E-06 1.8E-10 42.7 3.2 26 11-36 140-165 (166)
110 cd01861 Rab6 Rab6 subfamily. 98.0 1.1E-05 2.3E-10 41.7 3.6 31 3-33 130-160 (161)
111 cd04149 Arf6 Arf6 subfamily. 98.0 4.6E-06 1E-10 43.9 2.2 23 10-32 145-167 (168)
112 cd04152 Arl4_Arl7 Arl4/Arl7 su 98.0 9.5E-06 2.1E-10 43.2 3.4 29 10-38 145-173 (183)
113 TIGR00101 ureG urease accessor 98.0 1.2E-05 2.6E-10 43.8 3.6 26 9-34 170-195 (199)
114 cd04154 Arl2 Arl2 subfamily. 98.0 4.9E-06 1.1E-10 43.8 1.9 24 9-32 149-172 (173)
115 cd00879 Sar1 Sar1 subfamily. 98.0 4.5E-06 9.7E-11 44.5 1.7 24 10-33 166-189 (190)
116 cd04143 Rhes_like Rhes_like su 97.9 1.6E-05 3.6E-10 44.5 3.8 26 9-34 145-170 (247)
117 PRK04213 GTP-binding protein; 97.9 1.6E-05 3.5E-10 42.7 3.6 24 11-35 169-192 (201)
118 cd04150 Arf1_5_like Arf1-Arf5- 97.9 6.4E-06 1.4E-10 43.0 1.9 23 10-32 136-158 (159)
119 cd04151 Arl1 Arl1 subfamily. 97.9 4.7E-06 1E-10 43.2 1.2 23 10-32 135-157 (158)
120 cd04153 Arl5_Arl8 Arl5/Arl8 su 97.9 6.9E-06 1.5E-10 43.4 1.5 24 9-32 150-173 (174)
121 cd04147 Ras_dva Ras-dva subfam 97.9 3.5E-05 7.6E-10 41.5 4.2 28 8-35 136-163 (198)
122 smart00177 ARF ARF-like small 97.8 4.4E-05 9.5E-10 40.4 4.3 24 11-34 150-173 (175)
123 cd00154 Rab Rab family. Rab G 97.8 2.5E-05 5.5E-10 39.7 3.2 30 2-31 129-158 (159)
124 cd04157 Arl6 Arl6 subfamily. 97.8 1.5E-05 3.3E-10 41.1 1.8 22 11-32 140-161 (162)
125 cd01879 FeoB Ferrous iron tran 97.7 9.1E-05 2E-09 38.0 4.3 31 3-33 125-155 (158)
126 PRK12299 obgE GTPase CgtA; Rev 97.7 0.00011 2.5E-09 42.9 5.0 32 5-36 298-329 (335)
127 TIGR00437 feoB ferrous iron tr 97.7 9.2E-05 2E-09 46.1 4.2 32 2-33 122-153 (591)
128 TIGR02729 Obg_CgtA Obg family 97.7 0.0001 2.2E-09 43.1 4.1 32 3-34 297-328 (329)
129 TIGR00157 ribosome small subun 97.6 5.8E-05 1.3E-09 42.3 2.7 27 7-33 95-121 (245)
130 cd04155 Arl3 Arl3 subfamily. 97.6 0.00013 2.7E-09 38.2 3.6 21 12-32 152-172 (173)
131 cd01878 HflX HflX subfamily. 97.6 8.9E-05 1.9E-09 40.0 3.0 28 6-33 176-203 (204)
132 cd04171 SelB SelB subfamily. 97.6 0.00015 3.4E-09 37.3 3.8 25 8-32 139-163 (164)
133 cd01894 EngA1 EngA1 subfamily. 97.6 0.00014 3E-09 37.2 3.5 26 8-33 130-156 (157)
134 cd04160 Arfrp1 Arfrp1 subfamil 97.6 6.4E-05 1.4E-09 39.1 2.2 24 9-32 143-166 (167)
135 cd01898 Obg Obg subfamily. Th 97.5 0.00015 3.2E-09 37.7 3.4 25 9-33 145-169 (170)
136 cd01888 eIF2_gamma eIF2-gamma 97.5 0.00015 3.3E-09 39.4 3.5 26 9-34 173-198 (203)
137 KOG4252 GTP-binding protein [S 97.5 0.00012 2.7E-09 39.9 2.8 38 2-39 148-185 (246)
138 cd00878 Arf_Arl Arf (ADP-ribos 97.5 0.00011 2.4E-09 37.9 2.4 24 9-32 134-157 (158)
139 PRK03003 GTP-binding protein D 97.4 0.00019 4.2E-09 43.5 3.2 26 10-35 357-382 (472)
140 cd01889 SelB_euk SelB subfamil 97.3 0.00026 5.6E-09 38.0 2.7 27 9-35 160-186 (192)
141 PRK12297 obgE GTPase CgtA; Rev 97.3 0.00075 1.6E-08 40.8 4.8 35 3-37 295-329 (424)
142 cd00881 GTP_translation_factor 97.3 0.00019 4.2E-09 37.7 2.0 27 8-34 160-186 (189)
143 TIGR00073 hypB hydrogenase acc 97.3 0.00081 1.8E-08 36.7 4.3 24 10-33 182-205 (207)
144 PRK00454 engB GTP-binding prot 97.2 0.00077 1.7E-08 35.9 3.7 26 9-34 168-193 (196)
145 cd01887 IF2_eIF5B IF2/eIF5B (i 97.2 0.00059 1.3E-08 35.3 3.2 25 10-34 141-165 (168)
146 cd04159 Arl10_like Arl10-like 97.2 0.00039 8.4E-09 35.4 2.3 23 10-32 136-158 (159)
147 TIGR03594 GTPase_EngA ribosome 97.1 0.00069 1.5E-08 40.4 3.4 27 9-35 318-344 (429)
148 cd04164 trmE TrmE (MnmE, ThdF, 97.1 0.00075 1.6E-08 34.4 3.0 27 8-34 130-156 (157)
149 cd01881 Obg_like The Obg-like 97.1 0.00041 8.9E-09 36.2 2.0 26 8-33 150-175 (176)
150 PRK15494 era GTPase Era; Provi 97.1 0.00066 1.4E-08 39.8 2.9 27 10-36 191-217 (339)
151 PF02421 FeoB_N: Ferrous iron 97.1 0.0015 3.3E-08 34.6 3.9 29 2-30 128-156 (156)
152 cd01896 DRG The developmentall 97.0 0.001 2.2E-08 37.1 3.3 25 10-34 201-225 (233)
153 cd01895 EngA2 EngA2 subfamily. 97.0 0.0018 3.8E-08 33.4 3.9 24 10-33 150-173 (174)
154 TIGR01393 lepA GTP-binding pro 96.9 0.0018 3.8E-08 40.7 4.0 33 3-35 145-180 (595)
155 TIGR00436 era GTP-binding prot 96.9 0.0019 4E-08 36.6 3.6 25 11-35 140-164 (270)
156 cd01855 YqeH YqeH. YqeH is an 96.8 0.0036 7.7E-08 33.6 4.2 25 11-35 101-125 (190)
157 cd00880 Era_like Era (E. coli 96.8 0.0013 2.9E-08 33.1 2.3 26 8-33 137-162 (163)
158 cd00882 Ras_like_GTPase Ras-li 96.8 0.0024 5.2E-08 31.7 3.2 27 5-31 130-156 (157)
159 TIGR03597 GTPase_YqeH ribosome 96.8 0.0034 7.4E-08 37.1 4.2 30 4-33 119-151 (360)
160 cd01859 MJ1464 MJ1464. This f 96.8 0.0038 8.2E-08 32.4 3.9 28 8-35 69-96 (156)
161 TIGR00231 small_GTP small GTP- 96.7 0.0027 5.8E-08 31.9 3.1 22 9-30 138-159 (161)
162 TIGR00450 mnmE_trmE_thdF tRNA 96.7 0.0036 7.8E-08 38.1 3.9 35 3-38 329-363 (442)
163 PRK12296 obgE GTPase CgtA; Rev 96.6 0.0053 1.2E-07 38.0 4.3 30 8-37 313-342 (500)
164 cd04163 Era Era subfamily. Er 96.4 0.0058 1.3E-07 31.2 3.1 24 10-33 144-167 (168)
165 TIGR03156 GTP_HflX GTP-binding 96.3 0.0037 8.1E-08 36.9 2.5 24 10-33 327-350 (351)
166 PRK00093 GTP-binding protein D 96.3 0.0078 1.7E-07 36.1 3.7 27 9-35 318-344 (435)
167 smart00178 SAR Sar1p-like memb 96.3 0.0042 9.2E-08 33.1 2.3 23 11-33 161-183 (184)
168 TIGR00475 selB selenocysteine- 96.3 0.0086 1.9E-07 37.6 3.8 28 9-36 140-167 (581)
169 PRK04000 translation initiatio 96.2 0.0052 1.1E-07 37.0 2.7 27 9-35 175-201 (411)
170 PRK05306 infB translation init 96.2 0.0049 1.1E-07 40.0 2.7 24 10-33 427-450 (787)
171 PRK00098 GTPase RsgA; Reviewed 96.2 0.0069 1.5E-07 35.0 3.0 28 5-32 137-164 (298)
172 PF10662 PduV-EutP: Ethanolami 96.2 0.0094 2E-07 31.3 3.2 28 3-30 113-141 (143)
173 PRK05291 trmE tRNA modificatio 96.2 0.007 1.5E-07 36.8 3.1 28 9-36 344-371 (449)
174 PRK03003 GTP-binding protein D 96.1 0.0045 9.8E-08 37.8 2.2 25 12-36 176-200 (472)
175 PRK12288 GTPase RsgA; Reviewed 96.1 0.0079 1.7E-07 35.6 3.0 27 7-33 180-206 (347)
176 KOG1673 Ras GTPases [General f 96.1 0.015 3.3E-07 31.3 3.8 35 2-36 153-187 (205)
177 PRK11058 GTPase HflX; Provisio 96.1 0.0092 2E-07 36.2 3.3 28 9-36 335-363 (426)
178 cd01876 YihA_EngB The YihA (En 96.1 0.0078 1.7E-07 30.8 2.7 25 9-33 145-169 (170)
179 PF00025 Arf: ADP-ribosylation 96.0 0.013 2.9E-07 31.1 3.4 25 10-34 151-175 (175)
180 PRK05433 GTP-binding protein L 96.0 0.015 3.3E-07 36.7 4.0 32 4-35 150-184 (600)
181 CHL00189 infB translation init 96.0 0.0091 2E-07 38.6 3.0 24 10-33 385-408 (742)
182 PRK12298 obgE GTPase CgtA; Rev 95.9 0.024 5.1E-07 34.1 4.5 27 10-36 308-334 (390)
183 TIGR00487 IF-2 translation ini 95.9 0.0078 1.7E-07 37.9 2.4 23 10-32 225-247 (587)
184 TIGR03680 eif2g_arch translati 95.9 0.0099 2.1E-07 35.7 2.7 27 9-35 170-196 (406)
185 COG0481 LepA Membrane GTPase L 95.9 0.0072 1.6E-07 37.5 2.1 24 12-35 163-186 (603)
186 PRK00089 era GTPase Era; Revie 95.9 0.019 4E-07 32.8 3.7 26 10-35 146-171 (292)
187 PRK13796 GTPase YqeH; Provisio 95.8 0.021 4.5E-07 34.0 4.0 29 5-33 126-157 (365)
188 PF00009 GTP_EFTU: Elongation 95.8 0.0083 1.8E-07 32.1 2.1 25 10-34 162-186 (188)
189 cd01854 YjeQ_engC YjeQ/EngC. 95.6 0.02 4.4E-07 32.9 3.1 27 6-32 135-161 (287)
190 PRK09518 bifunctional cytidyla 95.5 0.026 5.6E-07 36.2 3.7 27 10-36 596-622 (712)
191 PRK10512 selenocysteinyl-tRNA- 95.5 0.027 5.8E-07 35.7 3.7 25 10-34 141-165 (614)
192 KOG3905 Dynein light intermedi 95.5 0.03 6.5E-07 33.6 3.6 36 2-37 257-292 (473)
193 KOG0096 GTPase Ran/TC4/GSP1 (n 95.5 0.0049 1.1E-07 34.0 0.4 31 6-36 140-170 (216)
194 COG0378 HypB Ni2+-binding GTPa 95.4 0.04 8.7E-07 30.5 3.7 25 9-33 175-199 (202)
195 PRK12289 GTPase RsgA; Reviewed 95.3 0.026 5.7E-07 33.5 3.0 28 7-34 147-174 (352)
196 TIGR03594 GTPase_EngA ribosome 95.1 0.038 8.2E-07 33.1 3.4 30 7-36 131-161 (429)
197 PRK00093 GTP-binding protein D 95.1 0.031 6.6E-07 33.6 3.0 26 8-33 134-160 (435)
198 TIGR00750 lao LAO/AO transport 95.1 0.043 9.2E-07 31.8 3.5 25 10-34 213-237 (300)
199 COG0532 InfB Translation initi 95.0 0.031 6.8E-07 34.8 2.8 23 10-32 145-167 (509)
200 PRK09554 feoB ferrous iron tra 94.9 0.052 1.1E-06 35.4 3.9 33 2-34 135-167 (772)
201 COG1100 GTPase SAR1 and relate 94.8 0.057 1.2E-06 29.2 3.3 28 11-38 159-188 (219)
202 cd04165 GTPBP1_like GTPBP1-lik 94.8 0.047 1E-06 30.4 3.0 22 10-31 198-219 (224)
203 PRK09518 bifunctional cytidyla 94.6 0.033 7.1E-07 35.8 2.4 25 12-36 413-437 (712)
204 cd04161 Arl2l1_Arl13_like Arl2 94.6 0.027 5.7E-07 29.6 1.7 23 10-32 138-166 (167)
205 TIGR00483 EF-1_alpha translati 94.4 0.022 4.7E-07 34.4 1.2 19 10-28 182-200 (426)
206 PRK09435 membrane ATPase/prote 94.2 0.098 2.1E-06 31.0 3.5 26 10-35 235-260 (332)
207 COG4917 EutP Ethanolamine util 93.9 0.17 3.7E-06 26.4 3.7 30 3-32 113-143 (148)
208 COG0370 FeoB Fe2+ transport sy 93.8 0.14 3.1E-06 32.9 3.9 33 2-34 131-163 (653)
209 KOG0073 GTP-binding ADP-ribosy 93.7 0.16 3.5E-06 27.6 3.5 35 3-37 146-180 (185)
210 KOG0462 Elongation factor-type 93.7 0.079 1.7E-06 33.6 2.6 26 10-35 210-235 (650)
211 TIGR00491 aIF-2 translation in 93.6 0.11 2.4E-06 33.0 3.2 23 10-32 191-213 (590)
212 cd01849 YlqF_related_GTPase Yl 93.1 0.3 6.5E-06 25.4 4.0 26 9-34 59-84 (155)
213 TIGR03598 GTPase_YsxC ribosome 92.9 0.044 9.6E-07 29.0 0.7 15 10-24 165-179 (179)
214 PRK14845 translation initiatio 92.7 0.15 3.2E-06 34.5 2.9 23 10-32 648-670 (1049)
215 PRK10463 hydrogenase nickel in 92.7 0.22 4.9E-06 29.1 3.3 24 9-32 263-286 (290)
216 PTZ00327 eukaryotic translatio 92.5 0.16 3.4E-06 31.4 2.7 26 9-34 207-232 (460)
217 PRK13768 GTPase; Provisional 92.4 0.34 7.5E-06 27.5 3.8 25 10-34 222-246 (253)
218 PF07764 Omega_Repress: Omega 92.1 0.19 4E-06 22.8 2.0 22 16-37 44-65 (71)
219 cd01891 TypA_BipA TypA (tyrosi 91.9 0.14 3E-06 27.5 1.8 19 8-26 155-173 (194)
220 PRK04004 translation initiatio 91.8 0.28 6E-06 31.2 3.2 23 10-32 193-215 (586)
221 KOG3883 Ras family small GTPas 91.8 0.22 4.8E-06 26.9 2.4 35 2-36 142-176 (198)
222 KOG0705 GTPase-activating prot 91.8 0.55 1.2E-05 30.2 4.4 29 9-37 163-191 (749)
223 PF03193 DUF258: Protein of un 91.6 0.51 1.1E-05 25.3 3.7 28 5-32 8-35 (161)
224 COG1703 ArgK Putative periplas 91.4 0.31 6.7E-06 28.9 2.9 27 8-34 227-253 (323)
225 PF03308 ArgK: ArgK protein; 91.2 0.3 6.5E-06 28.3 2.7 25 9-33 204-228 (266)
226 cd01856 YlqF YlqF. Proteins o 91.0 0.67 1.5E-05 24.5 3.8 25 10-34 76-100 (171)
227 KOG4271 Rho-GTPase activating 90.5 0.47 1E-05 32.0 3.4 30 9-38 3-32 (1100)
228 cd01883 EF1_alpha Eukaryotic e 90.5 0.099 2.1E-06 28.8 0.4 15 10-24 180-194 (219)
229 KOG0072 GTP-binding ADP-ribosy 90.2 0.27 5.8E-06 26.4 1.8 26 10-35 154-179 (182)
230 PRK12317 elongation factor 1-a 90.1 0.16 3.4E-06 30.8 1.1 19 10-28 180-198 (425)
231 cd04166 CysN_ATPS CysN_ATPS su 89.9 0.25 5.5E-06 27.0 1.7 16 11-26 170-185 (208)
232 smart00010 small_GTPase Small 89.4 0.022 4.9E-07 27.9 -2.5 20 5-24 96-115 (124)
233 cd04170 EF-G_bact Elongation f 89.0 0.49 1.1E-05 26.8 2.4 25 10-34 241-265 (268)
234 COG1160 Predicted GTPases [Gen 88.6 0.56 1.2E-05 29.1 2.6 24 10-33 326-349 (444)
235 PF05783 DLIC: Dynein light in 88.0 1.2 2.7E-05 27.8 3.8 36 2-37 231-266 (472)
236 TIGR01394 TypA_BipA GTP-bindin 87.7 0.55 1.2E-05 30.0 2.3 28 8-35 154-191 (594)
237 COG2262 HflX GTPases [General 87.5 0.92 2E-05 27.9 3.0 26 11-36 332-357 (411)
238 COG3276 SelB Selenocysteine-sp 87.3 0.69 1.5E-05 28.7 2.4 25 10-34 137-161 (447)
239 KOG1532 GTPase XAB1, interacts 86.6 1.7 3.7E-05 25.9 3.7 26 9-34 238-263 (366)
240 PLN00043 elongation factor 1-a 86.3 0.51 1.1E-05 29.0 1.6 16 10-25 188-203 (447)
241 COG1162 Predicted GTPases [Gen 86.1 1.5 3.2E-05 26.0 3.3 31 4-34 136-166 (301)
242 KOG1423 Ras-like GTPase ERA [C 85.9 0.94 2E-05 27.2 2.4 23 12-34 248-270 (379)
243 PRK04004 translation initiatio 85.6 0.42 9E-06 30.4 1.0 35 3-37 138-172 (586)
244 COG4359 Uncharacterized conser 85.6 1.4 3.1E-05 24.6 2.9 30 3-32 83-112 (220)
245 TIGR00491 aIF-2 translation in 85.3 0.31 6.7E-06 31.1 0.3 33 3-35 136-172 (590)
246 TIGR03596 GTPase_YlqF ribosome 84.9 3.4 7.4E-05 23.7 4.4 28 9-36 77-104 (276)
247 KOG0076 GTP-binding ADP-ribosy 84.1 1.3 2.8E-05 24.5 2.3 28 10-37 162-189 (197)
248 PHA02436 hypothetical protein 82.8 1.6 3.5E-05 18.5 1.9 18 20-37 17-34 (52)
249 KOG1489 Predicted GTP-binding 82.5 2.7 5.8E-05 25.4 3.3 28 3-30 334-362 (366)
250 cd01858 NGP_1 NGP-1. Autoanti 82.5 2.4 5.2E-05 22.0 2.9 22 12-33 72-93 (157)
251 PRK12740 elongation factor G; 82.4 1.3 2.9E-05 28.4 2.2 26 10-35 237-262 (668)
252 PRK09563 rbgA GTPase YlqF; Rev 82.1 5.5 0.00012 23.0 4.5 28 9-36 80-107 (287)
253 COG0703 AroK Shikimate kinase 81.4 2.3 4.9E-05 23.2 2.6 36 1-36 19-58 (172)
254 KOG4273 Uncharacterized conser 81.2 2 4.3E-05 25.3 2.4 32 2-33 177-220 (418)
255 COG0486 ThdF Predicted GTPase 80.9 3.2 6.9E-05 26.0 3.3 28 10-37 351-378 (454)
256 KOG1145 Mitochondrial translat 78.8 4 8.6E-05 26.6 3.3 26 6-31 285-312 (683)
257 cd01886 EF-G Elongation factor 77.6 2.7 5.9E-05 24.2 2.3 25 10-34 243-267 (270)
258 cd04168 TetM_like Tet(M)-like 76.3 4.3 9.3E-05 22.9 2.8 25 10-34 210-234 (237)
259 PRK13351 elongation factor G; 75.9 2.7 5.8E-05 27.3 2.1 26 10-35 253-278 (687)
260 COG1908 FrhD Coenzyme F420-red 74.8 10 0.00022 19.7 4.1 36 3-38 85-125 (132)
261 PRK00741 prfC peptide chain re 74.3 3.5 7.7E-05 26.1 2.3 26 10-35 249-274 (526)
262 COG1159 Era GTPase [General fu 74.2 3.8 8.2E-05 24.3 2.3 25 11-35 148-172 (298)
263 cd04169 RF3 RF3 subfamily. Pe 73.6 3.8 8.3E-05 23.5 2.2 25 10-34 240-264 (267)
264 PRK01889 GTPase RsgA; Reviewed 72.6 5.3 0.00011 24.0 2.7 23 9-31 171-193 (356)
265 KOG1707 Predicted Ras related/ 71.6 0.84 1.8E-05 29.4 -0.8 25 12-36 152-176 (625)
266 TIGR00503 prfC peptide chain r 70.6 5.3 0.00011 25.4 2.5 26 10-35 250-275 (527)
267 PRK09866 hypothetical protein; 70.2 6.8 0.00015 26.1 2.9 22 11-32 329-350 (741)
268 COG0536 Obg Predicted GTPase [ 69.8 13 0.00028 22.8 3.8 24 15-38 313-336 (369)
269 TIGR02034 CysN sulfate adenyly 69.8 2.1 4.7E-05 26.0 0.7 17 10-26 172-188 (406)
270 PRK05124 cysN sulfate adenylyl 69.7 2.6 5.7E-05 26.2 1.0 17 10-26 200-216 (474)
271 PRK12736 elongation factor Tu; 68.8 11 0.00025 22.8 3.6 24 10-33 168-199 (394)
272 PF12651 RHH_3: Ribbon-helix-h 67.2 7.3 0.00016 16.2 1.9 24 14-37 19-42 (44)
273 KOG0090 Signal recognition par 66.2 6.5 0.00014 22.5 2.0 23 9-32 214-236 (238)
274 PF12683 DUF3798: Protein of u 66.0 11 0.00024 22.1 3.0 36 2-37 156-194 (275)
275 cd01884 EF_Tu EF-Tu subfamily. 65.7 9 0.00019 20.9 2.5 15 10-24 158-172 (195)
276 cd01857 HSR1_MMR1 HSR1/MMR1. 65.5 7 0.00015 19.9 2.0 18 5-22 67-84 (141)
277 PRK10218 GTP-binding protein; 64.3 7.8 0.00017 25.2 2.4 27 9-35 159-195 (607)
278 COG5257 GCD11 Translation init 62.4 8.8 0.00019 23.5 2.2 27 9-35 176-202 (415)
279 PRK00007 elongation factor G; 59.0 10 0.00022 24.9 2.2 26 10-35 255-280 (693)
280 TIGR00484 EF-G translation elo 58.9 9.9 0.00022 24.9 2.2 26 10-35 254-279 (689)
281 PRK12735 elongation factor Tu; 58.8 18 0.00038 22.1 3.1 24 10-33 168-201 (396)
282 KOG0070 GTP-binding ADP-ribosy 58.6 18 0.00039 20.0 2.8 25 12-36 155-179 (181)
283 TIGR00485 EF-Tu translation el 57.5 25 0.00054 21.4 3.6 13 10-22 168-180 (394)
284 PF03029 ATP_bind_1: Conserved 57.0 24 0.00052 20.0 3.3 23 11-33 213-235 (238)
285 PF08103 Antimicrobial_8: Uper 56.9 9.2 0.0002 12.7 2.0 14 22-35 1-14 (17)
286 PTZ00141 elongation factor 1- 56.7 7.1 0.00015 24.2 1.2 17 9-25 187-203 (446)
287 COG1163 DRG Predicted GTPase [ 54.8 22 0.00048 21.8 3.0 24 11-34 265-288 (365)
288 COG5258 GTPBP1 GTPase [General 53.0 17 0.00036 23.0 2.3 19 10-28 314-332 (527)
289 cd00824 PTBI IRS-like phosphot 51.8 31 0.00067 17.3 3.0 29 10-38 60-98 (104)
290 PRK05506 bifunctional sulfate 49.0 14 0.0003 24.0 1.7 16 10-25 196-211 (632)
291 cd01899 Ygr210 Ygr210 subfamil 48.6 20 0.00043 21.4 2.1 26 10-35 243-269 (318)
292 PRK00407 hypothetical protein; 48.1 28 0.0006 18.2 2.5 20 20-39 19-38 (139)
293 smart00310 PTBI Phosphotyrosin 46.9 37 0.00081 16.8 2.9 26 10-35 59-94 (98)
294 TIGR03884 sel_bind_Methan sele 46.2 34 0.00074 16.1 2.9 26 12-37 16-41 (74)
295 COG2895 CysN GTPases - Sulfate 46.2 21 0.00046 22.2 2.0 23 3-25 168-193 (431)
296 cd04104 p47_IIGP_like p47 (47- 45.3 47 0.001 17.9 3.2 27 11-37 158-186 (197)
297 PRK12739 elongation factor G; 43.7 26 0.00055 23.1 2.3 26 10-35 253-278 (691)
298 KOG1144 Translation initiation 43.6 36 0.00078 23.5 2.9 22 13-34 665-686 (1064)
299 PRK04220 2-phosphoglycerate ki 42.6 75 0.0016 19.1 4.3 31 3-38 262-292 (301)
300 KOG4102 Uncharacterized conser 42.4 8.7 0.00019 19.7 0.1 9 58-66 58-66 (121)
301 PF07905 PucR: Purine cataboli 41.5 49 0.0011 16.6 4.1 29 2-32 92-120 (123)
302 PLN03199 delta6-acyl-lipid des 40.1 23 0.00051 22.3 1.7 27 2-30 441-467 (485)
303 KOG0461 Selenocysteine-specifi 39.9 97 0.0021 19.6 4.2 26 10-35 164-193 (522)
304 PRK00625 shikimate kinase; Pro 39.8 63 0.0014 17.4 3.1 30 2-31 18-55 (173)
305 KOG1249 Predicted GTPases [Gen 39.2 19 0.00041 23.4 1.2 23 12-34 188-210 (572)
306 PF01202 SKI: Shikimate kinase 38.7 28 0.00061 18.1 1.7 32 1-32 9-44 (158)
307 PF01951 Archease: Archease pr 38.6 28 0.00061 18.0 1.6 20 20-39 16-35 (137)
308 PF10881 DUF2726: Protein of u 37.6 58 0.0012 16.3 3.8 29 3-31 95-123 (126)
309 PF15307 SPACA7: Sperm acrosom 37.4 46 0.001 16.8 2.1 19 20-38 25-44 (108)
310 COG4108 PrfC Peptide chain rel 36.6 42 0.00091 21.6 2.3 26 10-35 251-276 (528)
311 PF02197 RIIa: Regulatory subu 36.2 36 0.00079 13.6 2.9 18 21-38 1-18 (38)
312 PF07491 PPI_Ypi1: Protein pho 36.0 22 0.00048 16.1 0.8 8 59-66 33-40 (60)
313 PF10087 DUF2325: Uncharacteri 35.9 32 0.00069 16.5 1.5 15 2-16 68-82 (97)
314 PF07846 Metallothio_Cad: Meta 35.7 24 0.00053 12.3 0.8 6 61-66 15-20 (21)
315 PHA00673 acetyltransferase dom 35.2 58 0.0013 17.5 2.5 18 18-35 97-114 (154)
316 cd08366 APC10 APC10 subunit of 34.1 20 0.00044 18.8 0.7 17 12-28 9-25 (139)
317 PF14769 CLAMP: Flagellar C1a 33.0 66 0.0014 15.6 2.4 36 3-38 5-53 (101)
318 PF12221 HflK_N: Bacterial mem 32.8 46 0.001 13.8 2.1 14 22-35 22-35 (42)
319 KOG1490 GTP-binding protein CR 32.6 77 0.0017 20.9 3.0 32 5-36 311-342 (620)
320 KOG3839 Lectin VIP36, involved 32.3 64 0.0014 19.8 2.5 29 11-40 250-278 (351)
321 PTZ00463 histone H2B; Provisio 32.0 68 0.0015 16.5 2.3 16 21-36 57-72 (117)
322 PRK05773 3,4-dihydroxy-2-butan 31.7 29 0.00062 19.8 1.0 13 2-14 197-209 (219)
323 KOG0075 GTP-binding ADP-ribosy 31.6 77 0.0017 17.4 2.6 21 12-32 159-179 (186)
324 PF07957 DUF3294: Protein of u 31.5 49 0.0011 18.9 1.9 16 19-34 190-205 (216)
325 PRK14021 bifunctional shikimat 31.3 55 0.0012 21.1 2.3 35 1-35 23-61 (542)
326 PF09261 Alpha-mann_mid: Alpha 31.3 63 0.0014 14.9 2.5 18 16-33 62-79 (80)
327 COG0218 Predicted GTPase [Gene 30.8 99 0.0022 17.5 3.0 24 12-35 174-197 (200)
328 cd01203 DOK_PTB Downstream of 30.8 80 0.0017 15.9 2.7 29 10-38 60-98 (104)
329 COG2710 NifD Nitrogenase molyb 30.8 1.2E+02 0.0026 19.1 3.6 32 2-33 249-281 (456)
330 KOG2486 Predicted GTPase [Gene 30.2 15 0.00033 22.0 -0.2 25 9-33 290-314 (320)
331 COG0108 RibB 3,4-dihydroxy-2-b 30.0 41 0.00089 19.0 1.4 13 2-14 178-190 (203)
332 KOG1191 Mitochondrial GTPase [ 30.0 1.2E+02 0.0027 19.8 3.6 27 12-38 427-453 (531)
333 PLN00158 histone H2B; Provisio 30.0 76 0.0016 16.3 2.3 16 21-36 56-71 (116)
334 KOG3347 Predicted nucleotide k 29.5 39 0.00085 18.5 1.3 17 2-18 25-41 (176)
335 PF12238 MSA-2c: Merozoite sur 29.1 72 0.0016 18.1 2.3 23 14-36 37-59 (205)
336 PF09023 Staphostatin_B: Staph 28.9 36 0.00079 17.0 1.0 13 11-23 87-99 (107)
337 KOG2284 E3 ubiquitin ligase, C 28.8 54 0.0012 21.1 1.9 25 13-37 341-365 (728)
338 COG3623 SgaU Putative L-xylulo 28.6 55 0.0012 19.3 1.8 16 3-18 25-40 (287)
339 KOG1342 Histone deacetylase co 28.2 83 0.0018 19.8 2.6 29 4-32 161-190 (425)
340 cd03067 PDI_b_PDIR_N PDIb fami 27.8 68 0.0015 16.3 1.8 28 10-37 23-50 (112)
341 COG5256 TEF1 Translation elong 27.6 35 0.00075 21.5 1.0 17 10-26 186-202 (428)
342 PF10678 DUF2492: Protein of u 27.6 82 0.0018 15.0 3.7 28 4-32 29-58 (78)
343 smart00427 H2B Histone H2B. 27.2 89 0.0019 15.3 2.3 16 21-36 30-45 (89)
344 TIGR03436 acidobact_VWFA VWFA- 26.4 1.4E+02 0.003 17.3 3.4 34 2-38 225-258 (296)
345 cd01777 SNX27_RA Ubiquitin dom 25.8 90 0.002 15.2 2.0 23 12-34 13-35 (87)
346 COG4858 Uncharacterized membra 25.7 68 0.0015 18.2 1.8 21 17-37 35-55 (226)
347 PF13263 PHP_C: PHP-associated 25.7 52 0.0011 14.1 1.1 15 2-16 8-22 (56)
348 PF10657 RC-P840_PscD: Photosy 25.4 42 0.00091 17.5 0.9 12 10-21 32-43 (144)
349 cd01996 Alpha_ANH_like_III Thi 25.3 66 0.0014 16.5 1.7 22 3-28 96-117 (154)
350 cd08666 APC10-HECTD3 APC10-lik 25.1 42 0.00091 17.7 0.9 15 14-28 12-26 (134)
351 KOG0410 Predicted GTP binding 25.0 99 0.0021 19.3 2.5 25 12-36 318-342 (410)
352 COG4939 Major membrane immunog 24.9 1.1E+02 0.0025 16.1 2.4 23 17-39 86-108 (147)
353 TIGR00506 ribB 3,4-dihydroxy-2 24.8 46 0.00099 18.7 1.0 13 2-14 179-191 (199)
354 smart00872 Alpha-mann_mid Alph 24.7 73 0.0016 14.6 1.6 16 17-32 62-77 (79)
355 KOG3354 Gluconate kinase [Carb 24.1 1.4E+02 0.0031 16.6 2.9 24 11-35 164-187 (191)
356 PRK00049 elongation factor Tu; 23.9 1.3E+02 0.0029 18.4 3.0 14 9-22 167-180 (396)
357 COG2058 RPP1A Ribosomal protei 23.8 43 0.00093 17.0 0.7 20 14-33 41-60 (109)
358 PRK10310 PTS system galactitol 23.7 1E+02 0.0022 14.8 2.3 25 10-34 67-92 (94)
359 TIGR01860 VNFD nitrogenase van 23.6 1.1E+02 0.0023 19.4 2.5 16 2-17 265-280 (461)
360 COG2428 Uncharacterized conser 23.3 77 0.0017 17.7 1.7 17 3-19 22-38 (196)
361 PRK12337 2-phosphoglycerate ki 23.3 2.2E+02 0.0048 18.5 4.2 31 3-38 433-463 (475)
362 PF09303 KcnmB2_inactiv: KCNMB 23.2 25 0.00055 13.7 -0.1 9 12-20 2-10 (32)
363 cd04105 SR_beta Signal recogni 22.9 71 0.0015 17.4 1.6 22 9-30 178-200 (203)
364 KOG0733 Nuclear AAA ATPase (VC 22.4 54 0.0012 22.2 1.2 31 2-32 241-280 (802)
365 PF03523 Macscav_rec: Macropha 22.4 69 0.0015 13.7 1.1 23 12-34 21-43 (49)
366 PF15447 NTS: N-terminal segme 22.4 75 0.0016 12.8 2.4 15 24-38 3-17 (37)
367 TIGR01283 nifE nitrogenase mol 22.3 1.3E+02 0.0029 18.8 2.8 15 2-16 261-275 (456)
368 KOG0811 SNARE protein PEP12/VA 22.2 1.2E+02 0.0026 18.0 2.4 17 22-38 191-207 (269)
369 KOG2760 Vacuolar sorting prote 22.1 83 0.0018 19.9 1.8 18 17-34 212-229 (432)
370 cd00066 G-alpha G protein alph 22.1 1.1E+02 0.0024 18.1 2.4 28 10-37 286-313 (317)
371 PRK00014 ribB 3,4-dihydroxy-2- 22.0 55 0.0012 18.9 1.0 13 2-14 194-206 (230)
372 PF07476 MAAL_C: Methylasparta 22.0 1.1E+02 0.0025 17.8 2.2 23 14-36 219-241 (248)
373 PRK12702 mannosyl-3-phosphogly 21.9 84 0.0018 18.9 1.8 28 4-31 29-56 (302)
374 COG1219 ClpX ATP-dependent pro 21.8 2.2E+02 0.0047 17.9 3.5 32 2-33 115-153 (408)
375 smart00426 TEA TEA domain. 21.8 96 0.0021 14.4 1.6 16 21-36 8-23 (68)
376 TIGR00629 uvde UV damage endon 21.7 2E+02 0.0044 17.4 3.7 35 2-36 58-101 (312)
377 TIGR03853 matur_matur probable 21.7 1.1E+02 0.0024 14.5 3.5 28 4-32 27-56 (77)
378 PF04670 Gtr1_RagA: Gtr1/RagA 21.6 73 0.0016 18.2 1.5 28 10-38 152-179 (232)
379 smart00394 RIIa RIIalpha, Regu 21.5 75 0.0016 12.4 2.9 17 22-38 2-18 (38)
380 PF00148 Oxidored_nitro: Nitro 21.4 92 0.002 18.8 2.0 33 2-34 209-242 (398)
381 KOG4456 Inner centromere prote 21.3 98 0.0021 16.3 1.7 25 12-37 92-116 (134)
382 PRK09602 translation-associate 21.3 1.1E+02 0.0024 18.9 2.3 17 10-26 245-261 (396)
383 KOG0466 Translation initiation 21.3 91 0.002 19.3 1.9 27 9-35 215-241 (466)
384 PF13519 VWA_2: von Willebrand 21.2 70 0.0015 16.1 1.3 26 4-30 147-172 (172)
385 COG0623 FabI Enoyl-[acyl-carri 21.2 1.7E+02 0.0036 17.3 2.8 33 2-34 49-82 (259)
386 PRK01792 ribB 3,4-dihydroxy-2- 21.2 59 0.0013 18.5 1.0 13 2-14 189-201 (214)
387 TIGR01284 alt_nitrog_alph nitr 21.1 1.5E+02 0.0032 18.7 2.8 20 2-24 263-282 (457)
388 PF00205 TPP_enzyme_M: Thiamin 21.0 86 0.0019 15.7 1.6 15 2-16 32-46 (137)
389 PF10686 DUF2493: Protein of u 20.6 91 0.002 14.3 1.5 16 2-17 50-65 (71)
390 PF08471 Ribonuc_red_2_N: Clas 20.2 1.3E+02 0.0029 14.8 2.2 14 23-36 52-65 (93)
No 1
>KOG0092 consensus GTPase Rab5/YPT51 and related small G protein superfamily GTPases [Intracellular trafficking, secretion, and vesicular transport]
Probab=99.62 E-value=9.2e-16 Score=82.05 Aligned_cols=66 Identities=27% Similarity=0.428 Sum_probs=46.0
Q ss_pred CHHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHHHhcCCCCCCC-CCCcccCCCC-CCCCCCCCCC
Q 035388 1 MQAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKMGNQPTANK-SSGTVQMKGQ-PIQQNSNCCG 66 (66)
Q Consensus 1 ~~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~~~~~~~~~~~-~~~~~~~~~~-~~~~~~~CC~ 66 (66)
+..||++.++.|||||||||.||+++|..|++.++........... ....+.+... +.....+||+
T Consensus 133 a~~yAe~~gll~~ETSAKTg~Nv~~if~~Ia~~lp~~~~~~~~~~~~~~~g~~l~~~~~~~~~~~~C~ 200 (200)
T KOG0092|consen 133 AQAYAESQGLLFFETSAKTGENVNEIFQAIAEKLPCSDPQERQGLPNRRQGVDLNSNQEPARPSGCCA 200 (200)
T ss_pred HHHHHHhcCCEEEEEecccccCHHHHHHHHHHhccCccccccccccccccceecccCCCCcCcCCcCC
Confidence 3679999999999999999999999999999999865433322111 1123333322 3445667885
No 2
>KOG0091 consensus GTPase Rab39, small G protein superfamily [General function prediction only]
Probab=99.59 E-value=7.7e-15 Score=77.41 Aligned_cols=40 Identities=40% Similarity=0.549 Sum_probs=36.2
Q ss_pred CHHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHHHhcC
Q 035388 1 MQAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKMGN 40 (66)
Q Consensus 1 ~~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~~~~~ 40 (66)
|+.||..+|+.|+|||||+|.||+++|..|+++|+....+
T Consensus 139 aEklAa~hgM~FVETSak~g~NVeEAF~mlaqeIf~~i~q 178 (213)
T KOG0091|consen 139 AEKLAASHGMAFVETSAKNGCNVEEAFDMLAQEIFQAIQQ 178 (213)
T ss_pred HHHHHHhcCceEEEecccCCCcHHHHHHHHHHHHHHHHhc
Confidence 4689999999999999999999999999999999876543
No 3
>KOG0078 consensus GTP-binding protein SEC4, small G protein superfamily, and related Ras family GTP-binding proteins [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]
Probab=99.57 E-value=1.2e-14 Score=78.61 Aligned_cols=39 Identities=49% Similarity=0.722 Sum_probs=36.0
Q ss_pred CHHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHHHhc
Q 035388 1 MQAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKMG 39 (66)
Q Consensus 1 ~~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~~~~ 39 (66)
|+++|.++|+.|+|||||+|.||+++|..||+.|+.+..
T Consensus 140 ge~lA~e~G~~F~EtSAk~~~NI~eaF~~La~~i~~k~~ 178 (207)
T KOG0078|consen 140 GEALAREYGIKFFETSAKTNFNIEEAFLSLARDILQKLE 178 (207)
T ss_pred HHHHHHHhCCeEEEccccCCCCHHHHHHHHHHHHHhhcc
Confidence 578999999999999999999999999999999997543
No 4
>KOG0084 consensus GTPase Rab1/YPT1, small G protein superfamily, and related GTP-binding proteins [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]
Probab=99.53 E-value=7.3e-14 Score=75.08 Aligned_cols=66 Identities=55% Similarity=0.808 Sum_probs=47.5
Q ss_pred CHHHHHHhCCC-eEEcccCCCCCHHHHHHHHHHHHHHHhcCCCCCC-CCCCcccCCC-CCCCCCCCCCC
Q 035388 1 MQAFADELGIP-FLETSAKDAINVEQAFLTMAGEIKKKMGNQPTAN-KSSGTVQMKG-QPIQQNSNCCG 66 (66)
Q Consensus 1 ~~~~a~~~~~~-~~etSAkt~~~v~~~F~~l~~~i~~~~~~~~~~~-~~~~~~~~~~-~~~~~~~~CC~ 66 (66)
++.||..++++ |+|||||++.||+++|..|+..+..++....... .....+++.. +.....++||+
T Consensus 137 a~~fa~~~~~~~f~ETSAK~~~NVe~~F~~la~~lk~~~~~~~~~~~~~~~~~ql~~~p~~~~~~~~C~ 205 (205)
T KOG0084|consen 137 AQEFADELGIPIFLETSAKDSTNVEDAFLTLAKELKQRKGLHVKWSTASLESVQLKGTPVKKSNGGCCE 205 (205)
T ss_pred HHHHHHhcCCcceeecccCCccCHHHHHHHHHHHHHHhcccCCCCCcCCCCceeeCCCCcccccCCCCC
Confidence 35799999999 9999999999999999999999998765544333 2233344444 22334555875
No 5
>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=99.51 E-value=5e-14 Score=77.31 Aligned_cols=63 Identities=29% Similarity=0.439 Sum_probs=42.7
Q ss_pred HHHHHHhC--------------CCeEEcccCCCCCHHHHHHHHHHHHHHHhcCCCCCCCC-CCcccCCCCCCCCCCCCC
Q 035388 2 QAFADELG--------------IPFLETSAKDAINVEQAFLTMAGEIKKKMGNQPTANKS-SGTVQMKGQPIQQNSNCC 65 (66)
Q Consensus 2 ~~~a~~~~--------------~~~~etSAkt~~~v~~~F~~l~~~i~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~CC 65 (66)
..||++++ ++||||||++|.||+++|..+++.++..........+. ..++.+.. +..++++||
T Consensus 143 ~~~a~~~~~~~~~~~~~~~~~~~~~~E~SA~tg~~V~elf~~i~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~ 220 (220)
T cd04126 143 KAFYKRINKYKMLDEDLSPAAEKMCFETSAKTGYNVDELFEYLFNLVLPLILAQRAEANRTQGTVNLPN-PKRSKSKCC 220 (220)
T ss_pred HHHHHHhCccccccccccccccceEEEeeCCCCCCHHHHHHHHHHHHHHHHHhhhhhhhhhhccccCCC-cccCCCCCC
Confidence 46788776 67999999999999999999999988654333222221 22333333 445567787
No 6
>KOG0098 consensus GTPase Rab2, small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]
Probab=99.45 E-value=1.8e-13 Score=73.39 Aligned_cols=39 Identities=54% Similarity=0.687 Sum_probs=36.1
Q ss_pred CHHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHHHhc
Q 035388 1 MQAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKMG 39 (66)
Q Consensus 1 ~~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~~~~ 39 (66)
|++||+++++.|+||||||+.||+++|...+.+|++...
T Consensus 134 GeaFA~ehgLifmETSakt~~~VEEaF~nta~~Iy~~~q 172 (216)
T KOG0098|consen 134 GEAFAREHGLIFMETSAKTAENVEEAFINTAKEIYRKIQ 172 (216)
T ss_pred HHHHHHHcCceeehhhhhhhhhHHHHHHHHHHHHHHHHH
Confidence 578999999999999999999999999999999998643
No 7
>KOG0083 consensus GTPase Rab26/Rab37, small G protein superfamily [General function prediction only]
Probab=99.43 E-value=4.9e-13 Score=68.83 Aligned_cols=38 Identities=50% Similarity=0.737 Sum_probs=35.0
Q ss_pred CHHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHHHh
Q 035388 1 MQAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKM 38 (66)
Q Consensus 1 ~~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~~~ 38 (66)
|+.+|+.+++||+|||||||.||+-+|..|++++.+..
T Consensus 126 g~kla~~y~ipfmetsaktg~nvd~af~~ia~~l~k~~ 163 (192)
T KOG0083|consen 126 GEKLAEAYGIPFMETSAKTGFNVDLAFLAIAEELKKLK 163 (192)
T ss_pred HHHHHHHHCCCceeccccccccHhHHHHHHHHHHHHhc
Confidence 46799999999999999999999999999999998754
No 8
>KOG0394 consensus Ras-related GTPase [General function prediction only]
Probab=99.42 E-value=4.2e-13 Score=71.81 Aligned_cols=39 Identities=38% Similarity=0.573 Sum_probs=34.5
Q ss_pred CHHHHHHhC-CCeEEcccCCCCCHHHHHHHHHHHHHHHhc
Q 035388 1 MQAFADELG-IPFLETSAKDAINVEQAFLTMAGEIKKKMG 39 (66)
Q Consensus 1 ~~~~a~~~~-~~~~etSAkt~~~v~~~F~~l~~~i~~~~~ 39 (66)
+++||.+.+ ++|||||||.+.||+++|..+++..+....
T Consensus 143 Aq~WC~s~gnipyfEtSAK~~~NV~~AFe~ia~~aL~~E~ 182 (210)
T KOG0394|consen 143 AQTWCKSKGNIPYFETSAKEATNVDEAFEEIARRALANED 182 (210)
T ss_pred HHHHHHhcCCceeEEecccccccHHHHHHHHHHHHHhccc
Confidence 357888875 999999999999999999999999997653
No 9
>KOG0080 consensus GTPase Rab18, small G protein superfamily [General function prediction only]
Probab=99.34 E-value=3.6e-12 Score=67.30 Aligned_cols=37 Identities=30% Similarity=0.303 Sum_probs=34.8
Q ss_pred CHHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHHH
Q 035388 1 MQAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKK 37 (66)
Q Consensus 1 ~~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~~ 37 (66)
|..||+.|++.|+|+||||.+||...|++|+.+|++.
T Consensus 140 G~kfAr~h~~LFiE~SAkt~~~V~~~FeelveKIi~t 176 (209)
T KOG0080|consen 140 GLKFARKHRCLFIECSAKTRENVQCCFEELVEKIIET 176 (209)
T ss_pred HHHHHHhhCcEEEEcchhhhccHHHHHHHHHHHHhcC
Confidence 4679999999999999999999999999999999875
No 10
>KOG0097 consensus GTPase Rab14, small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]
Probab=99.30 E-value=1.4e-11 Score=64.09 Aligned_cols=39 Identities=46% Similarity=0.639 Sum_probs=35.7
Q ss_pred CHHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHHHhc
Q 035388 1 MQAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKMG 39 (66)
Q Consensus 1 ~~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~~~~ 39 (66)
+++||+++|+.|+|+|||||.||+++|.+.++.|+....
T Consensus 139 ak~faeengl~fle~saktg~nvedafle~akkiyqniq 177 (215)
T KOG0097|consen 139 AKEFAEENGLMFLEASAKTGQNVEDAFLETAKKIYQNIQ 177 (215)
T ss_pred HHHHHhhcCeEEEEecccccCcHHHHHHHHHHHHHHhhh
Confidence 367999999999999999999999999999999998653
No 11
>KOG0088 consensus GTPase Rab21, small G protein superfamily [General function prediction only]
Probab=99.28 E-value=1.8e-11 Score=64.61 Aligned_cols=39 Identities=26% Similarity=0.553 Sum_probs=35.4
Q ss_pred CHHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHHHhc
Q 035388 1 MQAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKMG 39 (66)
Q Consensus 1 ~~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~~~~ 39 (66)
++.||+..|+.|+|||||.+.||.++|..|...+++...
T Consensus 141 Ae~YAesvGA~y~eTSAk~N~Gi~elFe~Lt~~MiE~~s 179 (218)
T KOG0088|consen 141 AEAYAESVGALYMETSAKDNVGISELFESLTAKMIEHSS 179 (218)
T ss_pred HHHHHHhhchhheecccccccCHHHHHHHHHHHHHHHhh
Confidence 367999999999999999999999999999999988653
No 12
>KOG0079 consensus GTP-binding protein H-ray, small G protein superfamily [General function prediction only]
Probab=99.27 E-value=4.8e-12 Score=66.12 Aligned_cols=64 Identities=28% Similarity=0.513 Sum_probs=44.8
Q ss_pred CHHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHHHhcCCCCCCCCCCcccCCCCCCCCCCCCC
Q 035388 1 MQAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKMGNQPTANKSSGTVQMKGQPIQQNSNCC 65 (66)
Q Consensus 1 ~~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~CC 65 (66)
++.||.+.++.+||||||++.||+..|..|++.++..+........+...+.+..+. ...+.||
T Consensus 135 Ar~~A~~mgie~FETSaKe~~NvE~mF~cit~qvl~~k~r~~~~~~r~~~~~l~~n~-~~~~k~c 198 (198)
T KOG0079|consen 135 ARAFALQMGIELFETSAKENENVEAMFHCITKQVLQAKLRESVEQQRADAVSLKDNS-KSTKKCC 198 (198)
T ss_pred HHHHHHhcCchheehhhhhcccchHHHHHHHHHHHHHHHhhcHHHHhhcceEeccCC-CccccCC
Confidence 357999999999999999999999999999999987652222222224445554433 3334566
No 13
>KOG0094 consensus GTPase Rab6/YPT6/Ryh1, small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]
Probab=99.20 E-value=4e-11 Score=64.83 Aligned_cols=38 Identities=37% Similarity=0.376 Sum_probs=33.7
Q ss_pred CHHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHHHh
Q 035388 1 MQAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKM 38 (66)
Q Consensus 1 ~~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~~~ 38 (66)
|+..|+++++.|+|||||+|.||.++|..|+..+....
T Consensus 151 g~~kAkel~a~f~etsak~g~NVk~lFrrIaa~l~~~~ 188 (221)
T KOG0094|consen 151 GERKAKELNAEFIETSAKAGENVKQLFRRIAAALPGME 188 (221)
T ss_pred HHHHHHHhCcEEEEecccCCCCHHHHHHHHHHhccCcc
Confidence 35678999999999999999999999999999887654
No 14
>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=99.20 E-value=4.6e-11 Score=64.39 Aligned_cols=37 Identities=38% Similarity=0.530 Sum_probs=32.7
Q ss_pred HHHHHHhC-CCeEEcccCCCCCHHHHHHHHHHHHHHHh
Q 035388 2 QAFADELG-IPFLETSAKDAINVEQAFLTMAGEIKKKM 38 (66)
Q Consensus 2 ~~~a~~~~-~~~~etSAkt~~~v~~~F~~l~~~i~~~~ 38 (66)
.++++.++ ..||||||++|.||+++|..|++.+++..
T Consensus 134 ~~~~~~~~~~~~~e~Sak~~~~v~e~f~~l~~~l~~~~ 171 (201)
T cd04107 134 DQFCKENGFIGWFETSAKEGINIEEAMRFLVKNILAND 171 (201)
T ss_pred HHHHHHcCCceEEEEeCCCCCCHHHHHHHHHHHHHHhc
Confidence 46788888 68999999999999999999999998754
No 15
>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=99.20 E-value=1.6e-11 Score=66.35 Aligned_cols=33 Identities=36% Similarity=0.494 Sum_probs=30.1
Q ss_pred CHHHHHHhCCCeEEcccCCCCCHHHHHHHHHHH
Q 035388 1 MQAFADELGIPFLETSAKDAINVEQAFLTMAGE 33 (66)
Q Consensus 1 ~~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~ 33 (66)
|++||++++++|||||||+|.||+++|..+++.
T Consensus 162 ~~~~a~~~~~~~~E~SAkt~~~V~e~F~~~~~~ 194 (195)
T cd01873 162 GRAVAKELGIPYYETSVVTQFGVKDVFDNAIRA 194 (195)
T ss_pred HHHHHHHhCCEEEEcCCCCCCCHHHHHHHHHHh
Confidence 467899999999999999999999999999864
No 16
>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=99.19 E-value=1e-10 Score=64.81 Aligned_cols=38 Identities=26% Similarity=0.264 Sum_probs=33.7
Q ss_pred CHHHHHHhCC-CeEEcccCCCC-CHHHHHHHHHHHHHHHh
Q 035388 1 MQAFADELGI-PFLETSAKDAI-NVEQAFLTMAGEIKKKM 38 (66)
Q Consensus 1 ~~~~a~~~~~-~~~etSAkt~~-~v~~~F~~l~~~i~~~~ 38 (66)
|++||+++++ .|||||||+|. ||+++|..+++.+++..
T Consensus 152 ~~~~a~~~~~~~~~EtSAktg~~~V~e~F~~~~~~~~~~~ 191 (232)
T cd04174 152 GCALAKQLGAEVYLECSAFTSEKSIHSIFRSASLLCLNKL 191 (232)
T ss_pred HHHHHHHcCCCEEEEccCCcCCcCHHHHHHHHHHHHHHhc
Confidence 4679999998 59999999998 89999999999988753
No 17
>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=99.17 E-value=1.4e-10 Score=62.09 Aligned_cols=37 Identities=41% Similarity=0.660 Sum_probs=32.5
Q ss_pred HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHHHh
Q 035388 2 QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKM 38 (66)
Q Consensus 2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~~~ 38 (66)
.++++.++++|+|+||++|.||+++|..+++.+....
T Consensus 130 ~~~~~~~~~~~~e~SAk~~~~v~~l~~~l~~~l~~~~ 166 (190)
T cd04144 130 AALARRLGCEFIEASAKTNVNVERAFYTLVRALRQQR 166 (190)
T ss_pred HHHHHHhCCEEEEecCCCCCCHHHHHHHHHHHHHHhh
Confidence 4577788899999999999999999999999887654
No 18
>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=99.17 E-value=9.3e-11 Score=63.13 Aligned_cols=38 Identities=29% Similarity=0.498 Sum_probs=34.1
Q ss_pred HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHHHhc
Q 035388 2 QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKMG 39 (66)
Q Consensus 2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~~~~ 39 (66)
+.||+.+++.||||||++|.||+++|..|++.++.+..
T Consensus 134 ~~~a~~~~~~~~e~SAk~g~~V~~~F~~l~~~i~~~~~ 171 (189)
T cd04121 134 QAYAERNGMTFFEVSPLCNFNITESFTELARIVLMRHG 171 (189)
T ss_pred HHHHHHcCCEEEEecCCCCCCHHHHHHHHHHHHHHhcC
Confidence 57888899999999999999999999999998886543
No 19
>PLN03110 Rab GTPase; Provisional
Probab=99.14 E-value=3.2e-10 Score=61.95 Aligned_cols=37 Identities=51% Similarity=0.636 Sum_probs=32.2
Q ss_pred HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHHHh
Q 035388 2 QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKM 38 (66)
Q Consensus 2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~~~ 38 (66)
..++..++++|+|+||++|.||+++|..|+..+.+..
T Consensus 141 ~~l~~~~~~~~~e~SA~~g~~v~~lf~~l~~~i~~~~ 177 (216)
T PLN03110 141 QALAEKEGLSFLETSALEATNVEKAFQTILLEIYHII 177 (216)
T ss_pred HHHHHHcCCEEEEEeCCCCCCHHHHHHHHHHHHHHHh
Confidence 3567778899999999999999999999999987643
No 20
>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=99.12 E-value=3.1e-10 Score=61.20 Aligned_cols=38 Identities=37% Similarity=0.552 Sum_probs=32.8
Q ss_pred HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHHHhc
Q 035388 2 QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKMG 39 (66)
Q Consensus 2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~~~~ 39 (66)
..+++.++..||++||++|.||+++|..|++.++....
T Consensus 134 ~~~~~~~~~~~~e~Sa~~~~gi~~lf~~l~~~~~~~~~ 171 (199)
T cd04110 134 YKFAGQMGISLFETSAKENINVEEMFNCITELVLRAKK 171 (199)
T ss_pred HHHHHHcCCEEEEEECCCCcCHHHHHHHHHHHHHHhhh
Confidence 34677778899999999999999999999999987543
No 21
>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=99.11 E-value=3.4e-10 Score=60.63 Aligned_cols=37 Identities=49% Similarity=0.776 Sum_probs=32.5
Q ss_pred HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHHHh
Q 035388 2 QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKM 38 (66)
Q Consensus 2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~~~ 38 (66)
+.+++.++.+|+|+||++|.||+++|..|++.+....
T Consensus 130 ~~l~~~~~~~~~e~Sa~~~~~v~~l~~~l~~~~~~~~ 166 (191)
T cd04112 130 ERLAKEYGVPFMETSAKTGLNVELAFTAVAKELKHRK 166 (191)
T ss_pred HHHHHHcCCeEEEEeCCCCCCHHHHHHHHHHHHHHhc
Confidence 3567777889999999999999999999999998653
No 22
>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=99.11 E-value=5.5e-10 Score=60.73 Aligned_cols=36 Identities=44% Similarity=0.769 Sum_probs=31.7
Q ss_pred HHHHHHh-CCCeEEcccCCCCCHHHHHHHHHHHHHHH
Q 035388 2 QAFADEL-GIPFLETSAKDAINVEQAFLTMAGEIKKK 37 (66)
Q Consensus 2 ~~~a~~~-~~~~~etSAkt~~~v~~~F~~l~~~i~~~ 37 (66)
++||+++ ++.|||||||+|.||+++|..|++.+...
T Consensus 129 ~~~a~~~~~~~~~etSAktg~gV~e~F~~l~~~~~~~ 165 (202)
T cd04120 129 EKFAQQITGMRFCEASAKDNFNVDEIFLKLVDDILKK 165 (202)
T ss_pred HHHHHhcCCCEEEEecCCCCCCHHHHHHHHHHHHHHh
Confidence 4577775 78899999999999999999999998765
No 23
>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=99.11 E-value=1e-10 Score=62.59 Aligned_cols=35 Identities=23% Similarity=0.280 Sum_probs=31.0
Q ss_pred CHHHHHHhCC-CeEEcccCCCCC-HHHHHHHHHHHHH
Q 035388 1 MQAFADELGI-PFLETSAKDAIN-VEQAFLTMAGEIK 35 (66)
Q Consensus 1 ~~~~a~~~~~-~~~etSAkt~~~-v~~~F~~l~~~i~ 35 (66)
|++||+++++ +|+|||||+|.| |+++|..+++.++
T Consensus 144 ~~~~a~~~~~~~~~E~SAk~~~n~v~~~F~~~~~~~~ 180 (182)
T cd04172 144 GANMAKQIGAATYIECSALQSENSVRDIFHVATLACV 180 (182)
T ss_pred HHHHHHHcCCCEEEECCcCCCCCCHHHHHHHHHHHHh
Confidence 4678999995 899999999999 9999999998654
No 24
>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=99.08 E-value=8.9e-10 Score=60.06 Aligned_cols=37 Identities=38% Similarity=0.645 Sum_probs=33.3
Q ss_pred HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHHHh
Q 035388 2 QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKM 38 (66)
Q Consensus 2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~~~ 38 (66)
..+++.++++|+|+||++|.||+++|..|++.+++..
T Consensus 133 ~~~~~~~~~~~~e~Sak~g~~v~e~f~~l~~~~~~~~ 169 (211)
T cd04111 133 EKLAKDLGMKYIETSARTGDNVEEAFELLTQEIYERI 169 (211)
T ss_pred HHHHHHhCCEEEEEeCCCCCCHHHHHHHHHHHHHHHh
Confidence 4678888899999999999999999999999988764
No 25
>KOG0093 consensus GTPase Rab3, small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]
Probab=99.05 E-value=1.5e-10 Score=60.49 Aligned_cols=39 Identities=46% Similarity=0.634 Sum_probs=35.4
Q ss_pred CHHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHHHhc
Q 035388 1 MQAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKMG 39 (66)
Q Consensus 1 ~~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~~~~ 39 (66)
|+.+++++|..|||||||.+.||+++|..|+..|.+.+.
T Consensus 149 g~~l~~~LGfefFEtSaK~NinVk~~Fe~lv~~Ic~kms 187 (193)
T KOG0093|consen 149 GRQLADQLGFEFFETSAKENINVKQVFERLVDIICDKMS 187 (193)
T ss_pred HHHHHHHhChHHhhhcccccccHHHHHHHHHHHHHHHhh
Confidence 467999999999999999999999999999999987654
No 26
>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=99.05 E-value=1.3e-09 Score=58.21 Aligned_cols=36 Identities=33% Similarity=0.505 Sum_probs=31.4
Q ss_pred HHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHHHh
Q 035388 3 AFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKM 38 (66)
Q Consensus 3 ~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~~~ 38 (66)
.|+..++++++++||++|.||+++|..+++.+.+..
T Consensus 134 ~~~~~~~~~~~~~Sa~~~~gv~~l~~~i~~~~~~~~ 169 (193)
T cd04118 134 DFADEIKAQHFETSSKTGQNVDELFQKVAEDFVSRA 169 (193)
T ss_pred HHHHHcCCeEEEEeCCCCCCHHHHHHHHHHHHHHhc
Confidence 466677888999999999999999999999998653
No 27
>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=99.05 E-value=2.5e-10 Score=60.81 Aligned_cols=35 Identities=29% Similarity=0.232 Sum_probs=30.6
Q ss_pred CHHHHHHhCC-CeEEcccCCCCC-HHHHHHHHHHHHH
Q 035388 1 MQAFADELGI-PFLETSAKDAIN-VEQAFLTMAGEIK 35 (66)
Q Consensus 1 ~~~~a~~~~~-~~~etSAkt~~~-v~~~F~~l~~~i~ 35 (66)
|++||+++++ +|||||||+|.| |+++|..+++..+
T Consensus 140 ~~~~a~~~~~~~~~E~SA~~~~~~v~~~F~~~~~~~~ 176 (178)
T cd04131 140 GCAIAKQLGAEIYLECSAFTSEKSVRDIFHVATMACL 176 (178)
T ss_pred HHHHHHHhCCCEEEECccCcCCcCHHHHHHHHHHHHh
Confidence 3578999996 799999999995 9999999998655
No 28
>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=99.03 E-value=6.2e-10 Score=58.85 Aligned_cols=37 Identities=35% Similarity=0.524 Sum_probs=33.1
Q ss_pred HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHHHh
Q 035388 2 QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKM 38 (66)
Q Consensus 2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~~~ 38 (66)
+.+++.++++|+||||++|.||+++|..|++.+.+..
T Consensus 131 ~~~a~~~~~~~~e~Sa~~~~~v~~~f~~l~~~~~~~~ 167 (172)
T cd04141 131 RNLAREFNCPFFETSAALRHYIDDAFHGLVREIRRKE 167 (172)
T ss_pred HHHHHHhCCEEEEEecCCCCCHHHHHHHHHHHHHHhc
Confidence 4678888999999999999999999999999988643
No 29
>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=99.03 E-value=1.4e-09 Score=57.98 Aligned_cols=38 Identities=50% Similarity=0.808 Sum_probs=33.0
Q ss_pred HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHHHhc
Q 035388 2 QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKMG 39 (66)
Q Consensus 2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~~~~ 39 (66)
..+++..+++|+|+||++|.||+++|..|++.++....
T Consensus 129 ~~~~~~~~~~~~evSa~~~~~i~~~f~~l~~~~~~~~~ 166 (188)
T cd04125 129 KSFCDSLNIPFFETSAKQSINVEEAFILLVKLIIKRLE 166 (188)
T ss_pred HHHHHHcCCeEEEEeCCCCCCHHHHHHHHHHHHHHHhh
Confidence 35677778899999999999999999999999987543
No 30
>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=99.02 E-value=3.9e-10 Score=60.11 Aligned_cols=34 Identities=21% Similarity=0.374 Sum_probs=30.3
Q ss_pred HHHHHHhCC-CeEEcccCCCCCHHHHHHHHHHHHH
Q 035388 2 QAFADELGI-PFLETSAKDAINVEQAFLTMAGEIK 35 (66)
Q Consensus 2 ~~~a~~~~~-~~~etSAkt~~~v~~~F~~l~~~i~ 35 (66)
..||+.+++ .|+|||||+|.||+++|..+++.++
T Consensus 139 ~~~a~~~~~~~~~E~SAk~~~nV~~~F~~~~~~~~ 173 (176)
T cd04133 139 EELRKQIGAAAYIECSSKTQQNVKAVFDAAIKVVL 173 (176)
T ss_pred HHHHHHcCCCEEEECCCCcccCHHHHHHHHHHHHh
Confidence 568888887 5999999999999999999998764
No 31
>PLN03108 Rab family protein; Provisional
Probab=99.00 E-value=2.5e-09 Score=58.18 Aligned_cols=37 Identities=51% Similarity=0.732 Sum_probs=33.3
Q ss_pred HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHHHh
Q 035388 2 QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKM 38 (66)
Q Consensus 2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~~~ 38 (66)
+++++.++++|+|+||+++.||+++|..+++.+++..
T Consensus 135 ~~~~~~~~~~~~e~Sa~~~~~v~e~f~~l~~~~~~~~ 171 (210)
T PLN03108 135 EQFAKEHGLIFMEASAKTAQNVEEAFIKTAAKIYKKI 171 (210)
T ss_pred HHHHHHcCCEEEEEeCCCCCCHHHHHHHHHHHHHHHh
Confidence 4678888999999999999999999999999998753
No 32
>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=98.99 E-value=7e-10 Score=59.54 Aligned_cols=35 Identities=23% Similarity=0.359 Sum_probs=31.1
Q ss_pred HHHHHHhC-CCeEEcccCCCCCHHHHHHHHHHHHHH
Q 035388 2 QAFADELG-IPFLETSAKDAINVEQAFLTMAGEIKK 36 (66)
Q Consensus 2 ~~~a~~~~-~~~~etSAkt~~~v~~~F~~l~~~i~~ 36 (66)
++||+.++ .+|||||||+|.||+++|..|++.++.
T Consensus 143 ~~~a~~~~~~~~~e~SAk~g~~v~e~f~~l~~~~~~ 178 (191)
T cd01875 143 GALAKQIHAVKYLECSALNQDGVKEVFAEAVRAVLN 178 (191)
T ss_pred HHHHHHcCCcEEEEeCCCCCCCHHHHHHHHHHHHhc
Confidence 46888888 589999999999999999999998864
No 33
>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=98.98 E-value=2.5e-09 Score=58.96 Aligned_cols=38 Identities=16% Similarity=0.239 Sum_probs=32.5
Q ss_pred CHHHHHHhCC-CeEEcccCCCCC-HHHHHHHHHHHHHHHh
Q 035388 1 MQAFADELGI-PFLETSAKDAIN-VEQAFLTMAGEIKKKM 38 (66)
Q Consensus 1 ~~~~a~~~~~-~~~etSAkt~~~-v~~~F~~l~~~i~~~~ 38 (66)
|..+|+.+++ .||||||+++.| |+++|..+++..+...
T Consensus 140 g~~~ak~~~~~~y~E~SAk~~~~~V~~~F~~~~~~~~~~~ 179 (222)
T cd04173 140 GTVLAKQVGAVSYVECSSRSSERSVRDVFHVATVASLGRG 179 (222)
T ss_pred HHHHHHHcCCCEEEEcCCCcCCcCHHHHHHHHHHHHHhcc
Confidence 3578999995 899999999985 9999999999887643
No 34
>KOG0087 consensus GTPase Rab11/YPT3, small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]
Probab=98.98 E-value=2.8e-09 Score=58.20 Aligned_cols=39 Identities=51% Similarity=0.592 Sum_probs=35.2
Q ss_pred CHHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHHHhc
Q 035388 1 MQAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKMG 39 (66)
Q Consensus 1 ~~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~~~~ 39 (66)
|..||+..++.|+||||..+.||+.+|..+..+|+....
T Consensus 142 ~k~~Ae~~~l~f~EtSAl~~tNVe~aF~~~l~~I~~~vs 180 (222)
T KOG0087|consen 142 GKAFAEKEGLFFLETSALDATNVEKAFERVLTEIYKIVS 180 (222)
T ss_pred hHhHHHhcCceEEEecccccccHHHHHHHHHHHHHHHHH
Confidence 467899999999999999999999999999999987543
No 35
>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=98.97 E-value=6.3e-10 Score=58.24 Aligned_cols=32 Identities=25% Similarity=0.430 Sum_probs=28.0
Q ss_pred HHHHHHh-CCCeEEcccCCCCCHHHHHHHHHHH
Q 035388 2 QAFADEL-GIPFLETSAKDAINVEQAFLTMAGE 33 (66)
Q Consensus 2 ~~~a~~~-~~~~~etSAkt~~~v~~~F~~l~~~ 33 (66)
++|++++ ++.|||||||+|.||+++|..+++.
T Consensus 125 ~~~~~~~~~~~~~e~SAk~~~~i~~~f~~~~~~ 157 (158)
T cd04103 125 RQLCADMKRCSYYETCATYGLNVERVFQEAAQK 157 (158)
T ss_pred HHHHHHhCCCcEEEEecCCCCCHHHHHHHHHhh
Confidence 4678776 4899999999999999999999865
No 36
>KOG0081 consensus GTPase Rab27, small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]
Probab=98.97 E-value=1.2e-09 Score=57.91 Aligned_cols=39 Identities=36% Similarity=0.548 Sum_probs=34.9
Q ss_pred HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHHHhcC
Q 035388 2 QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKMGN 40 (66)
Q Consensus 2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~~~~~ 40 (66)
.++|.++++|||||||-||.||+++.+.|...|+++..+
T Consensus 148 ~~La~kyglPYfETSA~tg~Nv~kave~LldlvM~Rie~ 186 (219)
T KOG0081|consen 148 AALADKYGLPYFETSACTGTNVEKAVELLLDLVMKRIEQ 186 (219)
T ss_pred HHHHHHhCCCeeeeccccCcCHHHHHHHHHHHHHHHHHH
Confidence 568999999999999999999999999999999876543
No 37
>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=98.92 E-value=4.2e-09 Score=55.95 Aligned_cols=37 Identities=41% Similarity=0.443 Sum_probs=32.6
Q ss_pred HHHHHHhCC-CeEEcccCCCCCHHHHHHHHHHHHHHHh
Q 035388 2 QAFADELGI-PFLETSAKDAINVEQAFLTMAGEIKKKM 38 (66)
Q Consensus 2 ~~~a~~~~~-~~~etSAkt~~~v~~~F~~l~~~i~~~~ 38 (66)
.+++..+++ +|||+||++|.||+++|..+++.++...
T Consensus 133 ~~~~~~~~~~~~~e~Sa~~~~~v~~~f~~l~~~~~~~~ 170 (187)
T cd04132 133 ESVAKKQGAFAYLECSAKTMENVEEVFDTAIEEALKKE 170 (187)
T ss_pred HHHHHHcCCcEEEEccCCCCCCHHHHHHHHHHHHHhhh
Confidence 457788887 8999999999999999999999998654
No 38
>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=98.92 E-value=2.1e-09 Score=57.43 Aligned_cols=35 Identities=20% Similarity=0.371 Sum_probs=31.8
Q ss_pred HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHH
Q 035388 2 QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKK 36 (66)
Q Consensus 2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~ 36 (66)
++|++.++++|++||||+|.||+++|..+++.+++
T Consensus 133 ~~~a~~~~~~~~e~SAk~g~~v~~lf~~l~~~l~~ 167 (182)
T cd04128 133 RKYAKAMKAPLIFCSTSHSINVQKIFKIVLAKAFD 167 (182)
T ss_pred HHHHHHcCCEEEEEeCCCCCCHHHHHHHHHHHHHh
Confidence 45788888999999999999999999999999875
No 39
>PTZ00099 rab6; Provisional
Probab=98.92 E-value=4.1e-09 Score=56.22 Aligned_cols=37 Identities=30% Similarity=0.287 Sum_probs=31.9
Q ss_pred HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHHHh
Q 035388 2 QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKM 38 (66)
Q Consensus 2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~~~ 38 (66)
..+++.++..|+|||||+|.||+++|..|++.+.+..
T Consensus 109 ~~~~~~~~~~~~e~SAk~g~nV~~lf~~l~~~l~~~~ 145 (176)
T PTZ00099 109 MQKAQEYNTMFHETSAKAGHNIKVLFKKIAAKLPNLD 145 (176)
T ss_pred HHHHHHcCCEEEEEECCCCCCHHHHHHHHHHHHHhcc
Confidence 3567777888999999999999999999999987643
No 40
>PLN03118 Rab family protein; Provisional
Probab=98.91 E-value=6.8e-09 Score=56.38 Aligned_cols=35 Identities=49% Similarity=0.506 Sum_probs=31.4
Q ss_pred HHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHHH
Q 035388 3 AFADELGIPFLETSAKDAINVEQAFLTMAGEIKKK 37 (66)
Q Consensus 3 ~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~~ 37 (66)
.++..+++.|||+||++|.||+++|..|+..++..
T Consensus 145 ~~~~~~~~~~~e~SAk~~~~v~~l~~~l~~~~~~~ 179 (211)
T PLN03118 145 ALAKEHGCLFLECSAKTRENVEQCFEELALKIMEV 179 (211)
T ss_pred HHHHHcCCEEEEEeCCCCCCHHHHHHHHHHHHHhh
Confidence 56777888999999999999999999999999764
No 41
>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=98.91 E-value=2.7e-09 Score=57.12 Aligned_cols=35 Identities=31% Similarity=0.322 Sum_probs=30.1
Q ss_pred HHHHHHhC-CCeEEcccCCCCCHHHHHHHHHHHHHH
Q 035388 2 QAFADELG-IPFLETSAKDAINVEQAFLTMAGEIKK 36 (66)
Q Consensus 2 ~~~a~~~~-~~~~etSAkt~~~v~~~F~~l~~~i~~ 36 (66)
.++++..+ +.|||||||+|.||+++|..|++.++.
T Consensus 140 ~~~~~~~~~~~~~e~SAk~~~~v~e~f~~l~~~~~~ 175 (189)
T cd04134 140 LAVAKRINALRYLECSAKLNRGVNEAFTEAARVALN 175 (189)
T ss_pred HHHHHHcCCCEEEEccCCcCCCHHHHHHHHHHHHhc
Confidence 35666766 689999999999999999999998873
No 42
>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=98.89 E-value=3e-09 Score=55.58 Aligned_cols=35 Identities=54% Similarity=0.696 Sum_probs=31.5
Q ss_pred HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHH
Q 035388 2 QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKK 36 (66)
Q Consensus 2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~ 36 (66)
.++++.++++|+|+||++|.||+++|..+++.+++
T Consensus 131 ~~~~~~~~~~~~e~Sa~~~~~i~e~f~~l~~~~~~ 165 (166)
T cd04122 131 KQFADENGLLFLECSAKTGENVEDAFLETAKKIYQ 165 (166)
T ss_pred HHHHHHcCCEEEEEECCCCCCHHHHHHHHHHHHhh
Confidence 46788888999999999999999999999998864
No 43
>KOG0086 consensus GTPase Rab4, small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]
Probab=98.88 E-value=2.4e-09 Score=56.42 Aligned_cols=38 Identities=47% Similarity=0.540 Sum_probs=34.1
Q ss_pred HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHHHhc
Q 035388 2 QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKMG 39 (66)
Q Consensus 2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~~~~ 39 (66)
..||.++.+.|.||||+||.||+++|...++.|+.+..
T Consensus 138 s~FaqEnel~flETSa~TGeNVEEaFl~c~~tIl~kIE 175 (214)
T KOG0086|consen 138 SRFAQENELMFLETSALTGENVEEAFLKCARTILNKIE 175 (214)
T ss_pred HhhhcccceeeeeecccccccHHHHHHHHHHHHHHHHh
Confidence 46888888999999999999999999999999987654
No 44
>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=98.86 E-value=4.7e-09 Score=54.47 Aligned_cols=34 Identities=44% Similarity=0.732 Sum_probs=31.7
Q ss_pred HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHH
Q 035388 2 QAFADELGIPFLETSAKDAINVEQAFLTMAGEIK 35 (66)
Q Consensus 2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~ 35 (66)
+.++++++.+|+|+||+++.||.++|..+++.++
T Consensus 128 ~~~~~~~~~~~~e~Sa~~~~~v~~~f~~~i~~i~ 161 (162)
T PF00071_consen 128 QEFAKELGVPYFEVSAKNGENVKEIFQELIRKIL 161 (162)
T ss_dssp HHHHHHTTSEEEEEBTTTTTTHHHHHHHHHHHHH
T ss_pred HHHHHHhCCEEEEEECCCCCCHHHHHHHHHHHHh
Confidence 5689999999999999999999999999999885
No 45
>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=98.85 E-value=3.5e-09 Score=56.18 Aligned_cols=33 Identities=18% Similarity=0.245 Sum_probs=28.4
Q ss_pred HHHHHHhC-CCeEEcccCCCCCHHHHHHHHHHHH
Q 035388 2 QAFADELG-IPFLETSAKDAINVEQAFLTMAGEI 34 (66)
Q Consensus 2 ~~~a~~~~-~~~~etSAkt~~~v~~~F~~l~~~i 34 (66)
++++++.+ ..|||+||++|.||+++|..+++..
T Consensus 141 ~~~a~~~~~~~~~e~SA~tg~~v~~~f~~~~~~~ 174 (175)
T cd01874 141 EKLARDLKAVKYVECSALTQKGLKNVFDEAILAA 174 (175)
T ss_pred HHHHHHhCCcEEEEecCCCCCCHHHHHHHHHHHh
Confidence 45777777 6899999999999999999998753
No 46
>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=98.84 E-value=6.6e-09 Score=54.83 Aligned_cols=36 Identities=42% Similarity=0.630 Sum_probs=32.3
Q ss_pred HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHHH
Q 035388 2 QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKK 37 (66)
Q Consensus 2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~~ 37 (66)
.+|++.++++|+|+||++|.||+++|..|++.++++
T Consensus 144 ~~~~~~~~~~~~e~Sak~~~~v~~l~~~l~~~~~~~ 179 (180)
T cd04127 144 KALADKYGIPYFETSAATGTNVEKAVERLLDLVMKR 179 (180)
T ss_pred HHHHHHcCCeEEEEeCCCCCCHHHHHHHHHHHHHhh
Confidence 467888899999999999999999999999988753
No 47
>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=98.84 E-value=3.4e-09 Score=56.16 Aligned_cols=32 Identities=28% Similarity=0.388 Sum_probs=28.1
Q ss_pred HHHHHHhC-CCeEEcccCCCCCHHHHHHHHHHH
Q 035388 2 QAFADELG-IPFLETSAKDAINVEQAFLTMAGE 33 (66)
Q Consensus 2 ~~~a~~~~-~~~~etSAkt~~~v~~~F~~l~~~ 33 (66)
.+++++++ +.|+|+||++|.||+++|..+++.
T Consensus 141 ~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~ 173 (174)
T cd01871 141 LAMAKEIGAVKYLECSALTQKGLKTVFDEAIRA 173 (174)
T ss_pred HHHHHHcCCcEEEEecccccCCHHHHHHHHHHh
Confidence 45788888 589999999999999999999864
No 48
>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=98.83 E-value=4.1e-09 Score=55.03 Aligned_cols=32 Identities=31% Similarity=0.503 Sum_probs=28.6
Q ss_pred HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHH
Q 035388 2 QAFADELGIPFLETSAKDAINVEQAFLTMAGE 33 (66)
Q Consensus 2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~ 33 (66)
..+++.++.+|+|||||+|.||+++|..|++.
T Consensus 129 ~~~~~~~~~~~~e~Sa~~~~~v~~~f~~l~~~ 160 (161)
T cd04117 129 NKLAKEYGMDFFETSACTNSNIKESFTRLTEL 160 (161)
T ss_pred HHHHHHcCCEEEEEeCCCCCCHHHHHHHHHhh
Confidence 45778888999999999999999999999875
No 49
>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=98.82 E-value=9.9e-09 Score=54.83 Aligned_cols=35 Identities=23% Similarity=0.316 Sum_probs=30.4
Q ss_pred HHHHHHhCC-CeEEcccCCCCCHHHHHHHHHHHHHH
Q 035388 2 QAFADELGI-PFLETSAKDAINVEQAFLTMAGEIKK 36 (66)
Q Consensus 2 ~~~a~~~~~-~~~etSAkt~~~v~~~F~~l~~~i~~ 36 (66)
..+++.++. .||||||++|.||+++|..+++.++.
T Consensus 139 ~~~~~~~~~~~~~e~Sa~~~~~v~~~f~~l~~~~~~ 174 (187)
T cd04129 139 KRVAKEIGAKKYMECSALTGEGVDDVFEAATRAALL 174 (187)
T ss_pred HHHHHHhCCcEEEEccCCCCCCHHHHHHHHHHHHhc
Confidence 357788884 79999999999999999999988864
No 50
>PTZ00369 Ras-like protein; Provisional
Probab=98.81 E-value=8.8e-09 Score=55.09 Aligned_cols=37 Identities=51% Similarity=0.840 Sum_probs=32.1
Q ss_pred HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHHHh
Q 035388 2 QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKM 38 (66)
Q Consensus 2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~~~ 38 (66)
..+++.++.+|++|||++|.||+++|..|++.+.+..
T Consensus 134 ~~~~~~~~~~~~e~Sak~~~gi~~~~~~l~~~l~~~~ 170 (189)
T PTZ00369 134 QELAKSFGIPFLETSAKQRVNVDEAFYELVREIRKYL 170 (189)
T ss_pred HHHHHHhCCEEEEeeCCCCCCHHHHHHHHHHHHHHHh
Confidence 3567777889999999999999999999999987653
No 51
>smart00176 RAN Ran (Ras-related nuclear proteins) /TC4 subfamily of small GTPases. Ran is involved in the active transport of proteins through nuclear pores.
Probab=98.80 E-value=9.9e-09 Score=55.76 Aligned_cols=35 Identities=26% Similarity=0.433 Sum_probs=31.5
Q ss_pred HHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHHH
Q 035388 3 AFADELGIPFLETSAKDAINVEQAFLTMAGEIKKK 37 (66)
Q Consensus 3 ~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~~ 37 (66)
.+++..++.||||||++|.||+++|..|++.++..
T Consensus 122 ~~~~~~~~~~~e~SAk~~~~v~~~F~~l~~~i~~~ 156 (200)
T smart00176 122 TFHRKKNLQYYDISAKSNYNFEKPFLWLARKLIGD 156 (200)
T ss_pred HHHHHcCCEEEEEeCCCCCCHHHHHHHHHHHHHhc
Confidence 46777889999999999999999999999999764
No 52
>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=98.78 E-value=7.5e-09 Score=54.29 Aligned_cols=34 Identities=26% Similarity=0.334 Sum_probs=30.2
Q ss_pred HHHHHHhCC-CeEEcccCCCCCHHHHHHHHHHHHH
Q 035388 2 QAFADELGI-PFLETSAKDAINVEQAFLTMAGEIK 35 (66)
Q Consensus 2 ~~~a~~~~~-~~~etSAkt~~~v~~~F~~l~~~i~ 35 (66)
.++++.++. .|+|+||++|.||+++|..+++.++
T Consensus 138 ~~~~~~~~~~~~~e~Sa~~~~~v~~lf~~l~~~~~ 172 (174)
T smart00174 138 EALAKRIGAVKYLECSALTQEGVREVFEEAIRAAL 172 (174)
T ss_pred HHHHHHcCCcEEEEecCCCCCCHHHHHHHHHHHhc
Confidence 358888885 8999999999999999999998875
No 53
>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=98.74 E-value=1.3e-08 Score=53.41 Aligned_cols=33 Identities=27% Similarity=0.315 Sum_probs=28.6
Q ss_pred HHHHHHhCC-CeEEcccCCCCCHHHHHHHHHHHH
Q 035388 2 QAFADELGI-PFLETSAKDAINVEQAFLTMAGEI 34 (66)
Q Consensus 2 ~~~a~~~~~-~~~etSAkt~~~v~~~F~~l~~~i 34 (66)
..+++..+. .|||+||++|.||+++|..+++.+
T Consensus 140 ~~~~~~~~~~~~~e~Sa~~~~gi~~~f~~~~~~~ 173 (174)
T cd04135 140 QKLAKEIGAHCYVECSALTQKGLKTVFDEAILAI 173 (174)
T ss_pred HHHHHHcCCCEEEEecCCcCCCHHHHHHHHHHHh
Confidence 456777774 699999999999999999999876
No 54
>KOG0395 consensus Ras-related GTPase [General function prediction only]
Probab=98.74 E-value=1.8e-08 Score=54.77 Aligned_cols=36 Identities=39% Similarity=0.530 Sum_probs=33.0
Q ss_pred CHHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHH
Q 035388 1 MQAFADELGIPFLETSAKDAINVEQAFLTMAGEIKK 36 (66)
Q Consensus 1 ~~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~ 36 (66)
|+.+|..++++|+|||||.+.||+++|..|.+.+-.
T Consensus 131 g~~la~~~~~~f~E~Sak~~~~v~~~F~~L~r~~~~ 166 (196)
T KOG0395|consen 131 GKALARSWGCAFIETSAKLNYNVDEVFYELVREIRL 166 (196)
T ss_pred HHHHHHhcCCcEEEeeccCCcCHHHHHHHHHHHHHh
Confidence 356889999999999999999999999999999876
No 55
>PLN03071 GTP-binding nuclear protein Ran; Provisional
Probab=98.74 E-value=2.1e-08 Score=55.02 Aligned_cols=35 Identities=29% Similarity=0.473 Sum_probs=31.1
Q ss_pred HHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHHH
Q 035388 3 AFADELGIPFLETSAKDAINVEQAFLTMAGEIKKK 37 (66)
Q Consensus 3 ~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~~ 37 (66)
.+++..++.|||||||+|.||+++|..|++.+++.
T Consensus 140 ~~~~~~~~~~~e~SAk~~~~i~~~f~~l~~~~~~~ 174 (219)
T PLN03071 140 TFHRKKNLQYYEISAKSNYNFEKPFLYLARKLAGD 174 (219)
T ss_pred HHHHhcCCEEEEcCCCCCCCHHHHHHHHHHHHHcC
Confidence 46667788999999999999999999999999764
No 56
>cd00877 Ran Ran (Ras-related nuclear proteins) /TC4 subfamily of small GTPases. Ran GTPase is involved in diverse biological functions, such as nuclear transport, spindle formation during mitosis, DNA replication, and cell division. Among the Ras superfamily, Ran is a unique small G protein. It does not have a lipid modification motif at the C-terminus to bind to the membrane, which is often observed within the Ras superfamily. Ran may therefore interact with a wide range of proteins in various intracellular locations. Like other GTPases, Ran exists in GTP- and GDP-bound conformations that interact differently with effectors. Conversion between these forms and the assembly or disassembly of effector complexes requires the interaction of regulator proteins. The intrinsic GTPase activity of Ran is very low, but it is greatly stimulated by a GTPase-activating protein (RanGAP1) located in the cytoplasm. By contrast, RCC1, a guanine nucleotide exchange factor that generates RanGTP, is
Probab=98.73 E-value=2.5e-08 Score=52.42 Aligned_cols=34 Identities=29% Similarity=0.450 Sum_probs=30.0
Q ss_pred HHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHH
Q 035388 3 AFADELGIPFLETSAKDAINVEQAFLTMAGEIKK 36 (66)
Q Consensus 3 ~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~ 36 (66)
++++..+..||||||++|.||+++|..|++.+++
T Consensus 127 ~~~~~~~~~~~e~Sa~~~~~v~~~f~~l~~~~~~ 160 (166)
T cd00877 127 TFHRKKNLQYYEISAKSNYNFEKPFLWLARKLLG 160 (166)
T ss_pred HHHHHcCCEEEEEeCCCCCChHHHHHHHHHHHHh
Confidence 4566667889999999999999999999999875
No 57
>KOG0095 consensus GTPase Rab30, small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]
Probab=98.73 E-value=1.6e-08 Score=53.18 Aligned_cols=38 Identities=39% Similarity=0.528 Sum_probs=33.3
Q ss_pred CHHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHHHh
Q 035388 1 MQAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKM 38 (66)
Q Consensus 1 ~~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~~~ 38 (66)
|++|++.+.+.|+|||||+..||+.+|.++|..++...
T Consensus 135 geefs~~qdmyfletsakea~nve~lf~~~a~rli~~a 172 (213)
T KOG0095|consen 135 GEEFSEAQDMYFLETSAKEADNVEKLFLDLACRLISEA 172 (213)
T ss_pred HHHHHHhhhhhhhhhcccchhhHHHHHHHHHHHHHHHH
Confidence 46788888889999999999999999999998877543
No 58
>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=98.71 E-value=2.7e-08 Score=53.89 Aligned_cols=36 Identities=17% Similarity=0.114 Sum_probs=30.3
Q ss_pred HHHH-HhCCCeEEcccCCCCCHHHHHHHHHHHHHHHh
Q 035388 3 AFAD-ELGIPFLETSAKDAINVEQAFLTMAGEIKKKM 38 (66)
Q Consensus 3 ~~a~-~~~~~~~etSAkt~~~v~~~F~~l~~~i~~~~ 38 (66)
.++. .++++|||||||+|.||+++|..+++.++...
T Consensus 141 ~~~~~~~~~~~~e~Sak~g~~v~~lf~~i~~~~~~~~ 177 (198)
T cd04142 141 VLVRKSWKCGYLECSAKYNWHILLLFKELLISATTRG 177 (198)
T ss_pred HHHHHhcCCcEEEecCCCCCCHHHHHHHHHHHhhccC
Confidence 3443 46899999999999999999999999988543
No 59
>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=98.69 E-value=3.1e-08 Score=54.05 Aligned_cols=36 Identities=28% Similarity=0.251 Sum_probs=32.3
Q ss_pred HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHHH
Q 035388 2 QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKK 37 (66)
Q Consensus 2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~~ 37 (66)
..+++.++++|+++||++|.||+++|..|++.+...
T Consensus 133 ~~~~~~~~~~~~~iSAktg~gv~~lf~~l~~~l~~~ 168 (215)
T cd04109 133 ARFAQANGMESCLVSAKTGDRVNLLFQQLAAELLGV 168 (215)
T ss_pred HHHHHHcCCEEEEEECCCCCCHHHHHHHHHHHHHhc
Confidence 467888889999999999999999999999998764
No 60
>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=98.69 E-value=3.3e-08 Score=51.76 Aligned_cols=35 Identities=69% Similarity=0.939 Sum_probs=31.2
Q ss_pred HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHH
Q 035388 2 QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKK 36 (66)
Q Consensus 2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~ 36 (66)
..+++.++.+|+|+||++|.||+++|..+++.++.
T Consensus 132 ~~~~~~~~~~~~~~Sa~~~~~v~~~~~~i~~~~~~ 166 (167)
T cd01867 132 EALADEYGIKFLETSAKANINVEEAFFTLAKDIKK 166 (167)
T ss_pred HHHHHHcCCEEEEEeCCCCCCHHHHHHHHHHHHHh
Confidence 35777888999999999999999999999998864
No 61
>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=98.68 E-value=3.9e-08 Score=51.92 Aligned_cols=34 Identities=24% Similarity=0.276 Sum_probs=30.3
Q ss_pred HHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHH
Q 035388 3 AFADELGIPFLETSAKDAINVEQAFLTMAGEIKK 36 (66)
Q Consensus 3 ~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~ 36 (66)
.++++++.+|+++||++|.||+++|..|++.+.+
T Consensus 133 ~~~~~~~~~~~e~Sa~~g~~v~~lf~~l~~~~~~ 166 (170)
T cd04108 133 KLAAEMQAEYWSVSALSGENVREFFFRVAALTFE 166 (170)
T ss_pred HHHHHcCCeEEEEECCCCCCHHHHHHHHHHHHHH
Confidence 5677778899999999999999999999988754
No 62
>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=98.67 E-value=3.9e-08 Score=51.28 Aligned_cols=34 Identities=85% Similarity=1.138 Sum_probs=30.5
Q ss_pred HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHH
Q 035388 2 QAFADELGIPFLETSAKDAINVEQAFLTMAGEIK 35 (66)
Q Consensus 2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~ 35 (66)
..+++.++++|+++||++|.||+++|..|++.+.
T Consensus 131 ~~~~~~~~~~~~~~Sa~~~~~v~~~~~~i~~~~~ 164 (166)
T cd01869 131 QEFADELGIPFLETSAKNATNVEQAFMTMAREIK 164 (166)
T ss_pred HHHHHHcCCeEEEEECCCCcCHHHHHHHHHHHHH
Confidence 4577778899999999999999999999998875
No 63
>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=98.66 E-value=3.7e-08 Score=51.07 Aligned_cols=34 Identities=29% Similarity=0.432 Sum_probs=30.3
Q ss_pred HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHH
Q 035388 2 QAFADELGIPFLETSAKDAINVEQAFLTMAGEIK 35 (66)
Q Consensus 2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~ 35 (66)
..+++.++++||++||++|.||+++|..|++.++
T Consensus 134 ~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~l~ 167 (168)
T cd04119 134 RLWAESKGFKYFETSACTGEGVNEMFQTLFSSIV 167 (168)
T ss_pred HHHHHHcCCeEEEEECCCCCCHHHHHHHHHHHHh
Confidence 3577778889999999999999999999998875
No 64
>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=98.65 E-value=4.8e-08 Score=51.04 Aligned_cols=35 Identities=43% Similarity=0.646 Sum_probs=30.3
Q ss_pred HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHH
Q 035388 2 QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKK 36 (66)
Q Consensus 2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~ 36 (66)
.++++.++++||++||++|.||+++|..|+..+.+
T Consensus 130 ~~~~~~~~~~~~~~Sa~~~~gv~~l~~~l~~~~~~ 164 (165)
T cd01865 130 RQLADQLGFEFFEASAKENINVKQVFERLVDIICD 164 (165)
T ss_pred HHHHHHcCCEEEEEECCCCCCHHHHHHHHHHHHHh
Confidence 35677778899999999999999999999987654
No 65
>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=98.65 E-value=5.6e-08 Score=50.72 Aligned_cols=35 Identities=26% Similarity=0.298 Sum_probs=30.8
Q ss_pred HHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHHH
Q 035388 3 AFADELGIPFLETSAKDAINVEQAFLTMAGEIKKK 37 (66)
Q Consensus 3 ~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~~ 37 (66)
.+++.++++++++||++|.||+++|..+++.++++
T Consensus 126 ~~~~~~~~~~~~~Sa~~~~gv~~l~~~l~~~~~~~ 160 (161)
T cd04124 126 NFAEKHNLPLYYVSAADGTNVVKLFQDAIKLAVSY 160 (161)
T ss_pred HHHHHcCCeEEEEeCCCCCCHHHHHHHHHHHHHhc
Confidence 46667788999999999999999999999988764
No 66
>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=98.64 E-value=5.9e-08 Score=50.03 Aligned_cols=32 Identities=50% Similarity=0.758 Sum_probs=28.1
Q ss_pred HHHHHhCCCeEEcccCCCCCHHHHHHHHHHHH
Q 035388 3 AFADELGIPFLETSAKDAINVEQAFLTMAGEI 34 (66)
Q Consensus 3 ~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i 34 (66)
.+++..+++|+++||++|.||+++|..+++.+
T Consensus 130 ~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~~ 161 (162)
T cd04138 130 DLAKSYGIPYIETSAKTRQGVEEAFYTLVREI 161 (162)
T ss_pred HHHHHhCCeEEEecCCCCCCHHHHHHHHHHHh
Confidence 46677788999999999999999999998754
No 67
>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=98.63 E-value=5.8e-08 Score=50.64 Aligned_cols=34 Identities=32% Similarity=0.526 Sum_probs=29.7
Q ss_pred HHHHHHhCCCeEEcccCCC-CCHHHHHHHHHHHHH
Q 035388 2 QAFADELGIPFLETSAKDA-INVEQAFLTMAGEIK 35 (66)
Q Consensus 2 ~~~a~~~~~~~~etSAkt~-~~v~~~F~~l~~~i~ 35 (66)
..+++..+.+|+|+||++| .||+++|..|++.+.
T Consensus 130 ~~~~~~~~~~~~e~Sa~~~~~~v~~~f~~l~~~~~ 164 (165)
T cd04146 130 EKLASELGCLFFEVSAAEDYDGVHSVFHELCREVR 164 (165)
T ss_pred HHHHHHcCCEEEEeCCCCCchhHHHHHHHHHHHHh
Confidence 4577888899999999999 599999999998764
No 68
>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=98.62 E-value=5.9e-08 Score=50.70 Aligned_cols=31 Identities=39% Similarity=0.476 Sum_probs=27.1
Q ss_pred HHHHHHhCCCeEEcccCCCCCHHHHHHHHHH
Q 035388 2 QAFADELGIPFLETSAKDAINVEQAFLTMAG 32 (66)
Q Consensus 2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~ 32 (66)
..++..+++.|+|+||++|.||+++|..|+.
T Consensus 132 ~~~~~~~~~~~~e~SA~~g~~v~~~f~~l~~ 162 (165)
T cd04140 132 AACATEWNCAFMETSAKTNHNVQELFQELLN 162 (165)
T ss_pred HHHHHHhCCcEEEeecCCCCCHHHHHHHHHh
Confidence 3467777889999999999999999998874
No 69
>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=98.61 E-value=7.3e-08 Score=50.06 Aligned_cols=34 Identities=47% Similarity=0.814 Sum_probs=29.7
Q ss_pred HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHH
Q 035388 2 QAFADELGIPFLETSAKDAINVEQAFLTMAGEIK 35 (66)
Q Consensus 2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~ 35 (66)
..+++..+++|+++||++|.||+++|..|++.+.
T Consensus 129 ~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l~~~~~ 162 (164)
T smart00173 129 KELARQWGCPFLETSAKERVNVDEAFYDLVREIR 162 (164)
T ss_pred HHHHHHcCCEEEEeecCCCCCHHHHHHHHHHHHh
Confidence 3567778899999999999999999999988764
No 70
>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=98.61 E-value=7.8e-08 Score=50.05 Aligned_cols=33 Identities=45% Similarity=0.658 Sum_probs=29.3
Q ss_pred HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHH
Q 035388 2 QAFADELGIPFLETSAKDAINVEQAFLTMAGEI 34 (66)
Q Consensus 2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i 34 (66)
..+++.++.+|+++||++|.||+++|..+++.+
T Consensus 130 ~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~l 162 (164)
T cd04175 130 QNLARQWGCAFLETSAKAKINVNEIFYDLVRQI 162 (164)
T ss_pred HHHHHHhCCEEEEeeCCCCCCHHHHHHHHHHHh
Confidence 357778889999999999999999999998765
No 71
>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=98.60 E-value=5.3e-08 Score=50.42 Aligned_cols=32 Identities=47% Similarity=0.737 Sum_probs=28.3
Q ss_pred HHHHHhCCCeEEcccCCCCCHHHHHHHHHHHH
Q 035388 3 AFADELGIPFLETSAKDAINVEQAFLTMAGEI 34 (66)
Q Consensus 3 ~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i 34 (66)
.+++.++.+|+++||++|.||+++|..+++.+
T Consensus 131 ~~~~~~~~~~~~~Sa~~~~~v~~l~~~l~~~~ 162 (163)
T cd04136 131 ALARQWGCPFYETSAKSKINVDEVFADLVRQI 162 (163)
T ss_pred HHHHHcCCeEEEecCCCCCCHHHHHHHHHHhc
Confidence 46777788999999999999999999998765
No 72
>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=98.59 E-value=9.4e-08 Score=49.53 Aligned_cols=33 Identities=48% Similarity=0.748 Sum_probs=28.5
Q ss_pred HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHH
Q 035388 2 QAFADELGIPFLETSAKDAINVEQAFLTMAGEI 34 (66)
Q Consensus 2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i 34 (66)
.++++.++.+|+++||++|.||+++|..|++.+
T Consensus 131 ~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l~~~~ 163 (164)
T cd04145 131 QELARKLKIPYIETSAKDRLNVDKAFHDLVRVI 163 (164)
T ss_pred HHHHHHcCCcEEEeeCCCCCCHHHHHHHHHHhh
Confidence 356777788999999999999999999998754
No 73
>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=98.56 E-value=1e-07 Score=50.18 Aligned_cols=31 Identities=29% Similarity=0.428 Sum_probs=26.9
Q ss_pred HHHHHHhCC-CeEEcccCCCCCHHHHHHHHHH
Q 035388 2 QAFADELGI-PFLETSAKDAINVEQAFLTMAG 32 (66)
Q Consensus 2 ~~~a~~~~~-~~~etSAkt~~~v~~~F~~l~~ 32 (66)
..|++..+. .|+|+||++|.||+++|..++.
T Consensus 140 ~~~a~~~~~~~~~e~Sa~~~~~v~~lf~~~~~ 171 (173)
T cd04130 140 KALAEKIGACEYIECSALTQKNLKEVFDTAIL 171 (173)
T ss_pred HHHHHHhCCCeEEEEeCCCCCCHHHHHHHHHh
Confidence 457888887 8999999999999999988764
No 74
>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=98.56 E-value=2e-07 Score=51.18 Aligned_cols=35 Identities=29% Similarity=0.292 Sum_probs=30.9
Q ss_pred HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHH
Q 035388 2 QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKK 36 (66)
Q Consensus 2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~ 36 (66)
.+++...+++|+|+||++|.||+++|..+++.+..
T Consensus 130 ~~~a~~~~~~~~e~SA~~~~gv~~l~~~l~~~~~~ 164 (221)
T cd04148 130 RACAVVFDCKFIETSAGLQHNVDELLEGIVRQIRL 164 (221)
T ss_pred HHHHHHcCCeEEEecCCCCCCHHHHHHHHHHHHHh
Confidence 35677778899999999999999999999998864
No 75
>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=98.55 E-value=1.5e-07 Score=49.29 Aligned_cols=34 Identities=32% Similarity=0.660 Sum_probs=29.5
Q ss_pred HHHHHhC-CCeEEcccCCCCCHHHHHHHHHHHHHH
Q 035388 3 AFADELG-IPFLETSAKDAINVEQAFLTMAGEIKK 36 (66)
Q Consensus 3 ~~a~~~~-~~~~etSAkt~~~v~~~F~~l~~~i~~ 36 (66)
.+++.++ ++|+++||++|.||+++|..++..++-
T Consensus 131 ~~~~~~~~~~~~~~SA~~~~~i~~~f~~i~~~~~~ 165 (168)
T cd04177 131 SLSQQWGNVPFYETSARKRTNVDEVFIDLVRQIIC 165 (168)
T ss_pred HHHHHcCCceEEEeeCCCCCCHHHHHHHHHHHHhh
Confidence 4666777 889999999999999999999988763
No 76
>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=98.51 E-value=1.6e-07 Score=48.79 Aligned_cols=33 Identities=39% Similarity=0.650 Sum_probs=28.2
Q ss_pred HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHH
Q 035388 2 QAFADELGIPFLETSAKDAINVEQAFLTMAGEI 34 (66)
Q Consensus 2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i 34 (66)
..+++..+++|+++||++|.||+++|..+++.+
T Consensus 130 ~~~~~~~~~~~~~~Sa~~~~~v~~l~~~l~~~l 162 (163)
T cd04176 130 RALAEEWGCPFMETSAKSKTMVNELFAEIVRQM 162 (163)
T ss_pred HHHHHHhCCEEEEecCCCCCCHHHHHHHHHHhc
Confidence 346667788999999999999999999998754
No 77
>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=98.51 E-value=3.1e-07 Score=47.48 Aligned_cols=33 Identities=45% Similarity=0.750 Sum_probs=29.2
Q ss_pred HHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHH
Q 035388 3 AFADELGIPFLETSAKDAINVEQAFLTMAGEIK 35 (66)
Q Consensus 3 ~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~ 35 (66)
.+++.++++++++||++|.||+++|..+++.+.
T Consensus 130 ~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~~~ 162 (164)
T cd04139 130 NLARQWGVPYVETSAKTRQNVEKAFYDLVREIR 162 (164)
T ss_pred HHHHHhCCeEEEeeCCCCCCHHHHHHHHHHHHH
Confidence 566777899999999999999999999988765
No 78
>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=98.49 E-value=1.7e-07 Score=49.17 Aligned_cols=33 Identities=24% Similarity=0.413 Sum_probs=27.3
Q ss_pred HHHHHHhC-CCeEEcccCCCCCHHHHHHHHHHHH
Q 035388 2 QAFADELG-IPFLETSAKDAINVEQAFLTMAGEI 34 (66)
Q Consensus 2 ~~~a~~~~-~~~~etSAkt~~~v~~~F~~l~~~i 34 (66)
+++++..+ ..|++|||++|.||+++|..|++..
T Consensus 141 ~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~~ 174 (175)
T cd01870 141 RDMANKIGAFGYMECSAKTKEGVREVFEMATRAA 174 (175)
T ss_pred HHHHHHcCCcEEEEeccccCcCHHHHHHHHHHHh
Confidence 45666666 4799999999999999999998754
No 79
>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=98.49 E-value=2.4e-07 Score=48.57 Aligned_cols=35 Identities=57% Similarity=0.756 Sum_probs=30.9
Q ss_pred HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHH
Q 035388 2 QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKK 36 (66)
Q Consensus 2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~ 36 (66)
+.++..+++.|+|+||+++.||+++|..+++.+++
T Consensus 133 ~~~~~~~~~~~~e~Sa~~~~~i~~~~~~~~~~~~~ 167 (168)
T cd01866 133 EAFAKEHGLIFMETSAKTASNVEEAFINTAKEIYE 167 (168)
T ss_pred HHHHHHcCCEEEEEeCCCCCCHHHHHHHHHHHHHh
Confidence 35677788999999999999999999999988864
No 80
>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=1.5e-07 Score=49.25 Aligned_cols=32 Identities=50% Similarity=0.654 Sum_probs=27.8
Q ss_pred HHHHHHhC-CCeEEcccCCCCCHHHHHHHHHHH
Q 035388 2 QAFADELG-IPFLETSAKDAINVEQAFLTMAGE 33 (66)
Q Consensus 2 ~~~a~~~~-~~~~etSAkt~~~v~~~F~~l~~~ 33 (66)
++++++++ .+|+|+||++|.||+++|..+++.
T Consensus 137 ~~~~~~~~~~~~~e~Sa~~~~~v~~~~~~~~~~ 169 (170)
T cd04116 137 QAWCRENGDYPYFETSAKDATNVAAAFEEAVRR 169 (170)
T ss_pred HHHHHHCCCCeEEEEECCCCCCHHHHHHHHHhh
Confidence 45777777 479999999999999999999875
No 81
>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=98.48 E-value=2.6e-07 Score=48.55 Aligned_cols=33 Identities=48% Similarity=0.713 Sum_probs=29.2
Q ss_pred HHHHHHhCCCeEEcccCC---CCCHHHHHHHHHHHH
Q 035388 2 QAFADELGIPFLETSAKD---AINVEQAFLTMAGEI 34 (66)
Q Consensus 2 ~~~a~~~~~~~~etSAkt---~~~v~~~F~~l~~~i 34 (66)
..+++.++++|+||||++ +.||+++|..|++.+
T Consensus 133 ~~~~~~~~~~~~e~Sa~~~~~~~~i~~~f~~l~~~~ 168 (170)
T cd04115 133 QRFADAHSMPLFETSAKDPSENDHVEAIFMTLAHKL 168 (170)
T ss_pred HHHHHHcCCcEEEEeccCCcCCCCHHHHHHHHHHHh
Confidence 457778889999999999 999999999998765
No 82
>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=98.48 E-value=1.9e-07 Score=48.61 Aligned_cols=33 Identities=52% Similarity=0.757 Sum_probs=28.8
Q ss_pred HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHH
Q 035388 2 QAFADELGIPFLETSAKDAINVEQAFLTMAGEI 34 (66)
Q Consensus 2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i 34 (66)
..++..++++|+|+||++|.||+++|..++..+
T Consensus 132 ~~~~~~~~~~~~~~Sa~~~~~v~~l~~~l~~~i 164 (165)
T cd01868 132 KAFAEKNGLSFIETSALDGTNVEEAFKQLLTEI 164 (165)
T ss_pred HHHHHHcCCEEEEEECCCCCCHHHHHHHHHHHh
Confidence 356777788999999999999999999998775
No 83
>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=98.43 E-value=3.8e-07 Score=47.24 Aligned_cols=32 Identities=38% Similarity=0.585 Sum_probs=28.2
Q ss_pred HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHH
Q 035388 2 QAFADELGIPFLETSAKDAINVEQAFLTMAGE 33 (66)
Q Consensus 2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~ 33 (66)
..+++.++++||++||++|.||+++|..|+..
T Consensus 130 ~~~~~~~~~~~~~~Sa~~~~~v~~l~~~l~~~ 161 (162)
T cd04106 130 EALAKRLQLPLFRTSVKDDFNVTELFEYLAEK 161 (162)
T ss_pred HHHHHHcCCeEEEEECCCCCCHHHHHHHHHHh
Confidence 35788888999999999999999999998754
No 84
>smart00175 RAB Rab subfamily of small GTPases. Rab GTPases are implicated in vesicle trafficking.
Probab=98.42 E-value=4.9e-07 Score=46.78 Aligned_cols=35 Identities=60% Similarity=0.845 Sum_probs=31.0
Q ss_pred HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHH
Q 035388 2 QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKK 36 (66)
Q Consensus 2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~ 36 (66)
+.+++.+++.++|+||++|.|++++|..+++.+++
T Consensus 129 ~~~~~~~~~~~~e~Sa~~~~~i~~l~~~i~~~~~~ 163 (164)
T smart00175 129 EAFAEEHGLPFFETSAKTNTNVEEAFEELAREILK 163 (164)
T ss_pred HHHHHHcCCeEEEEeCCCCCCHHHHHHHHHHHHhh
Confidence 35677788999999999999999999999998864
No 85
>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=98.40 E-value=3.5e-07 Score=47.40 Aligned_cols=33 Identities=55% Similarity=0.664 Sum_probs=28.7
Q ss_pred HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHH
Q 035388 2 QAFADELGIPFLETSAKDAINVEQAFLTMAGEI 34 (66)
Q Consensus 2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i 34 (66)
..+++..++.|+++||+++.||+++|..+++.+
T Consensus 129 ~~~~~~~~~~~~~~Sa~~~~~i~~~~~~~~~~~ 161 (161)
T cd04113 129 SRFAQENGLLFLETSALTGENVEEAFLKCARSI 161 (161)
T ss_pred HHHHHHcCCEEEEEECCCCCCHHHHHHHHHHhC
Confidence 356777888999999999999999999998753
No 86
>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=98.36 E-value=5.7e-07 Score=46.70 Aligned_cols=32 Identities=31% Similarity=0.472 Sum_probs=27.8
Q ss_pred HHHHHhCCCeEEcccCCCCCHHHHHHHHHHHH
Q 035388 3 AFADELGIPFLETSAKDAINVEQAFLTMAGEI 34 (66)
Q Consensus 3 ~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i 34 (66)
.++..++++|+++||++|.||+++|..|++.+
T Consensus 132 ~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~~ 163 (164)
T cd04101 132 AFAQANQLKFFKTSALRGVGYEEPFESLARAF 163 (164)
T ss_pred HHHHHcCCeEEEEeCCCCCChHHHHHHHHHHh
Confidence 45666678899999999999999999998865
No 87
>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=98.35 E-value=5.7e-07 Score=46.86 Aligned_cols=32 Identities=13% Similarity=0.007 Sum_probs=26.7
Q ss_pred HHHHHhCCCeEEcccCCCCCHHHHHHHHHHHH
Q 035388 3 AFADELGIPFLETSAKDAINVEQAFLTMAGEI 34 (66)
Q Consensus 3 ~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i 34 (66)
++++..+.+++++||++|.||+++|..+++.+
T Consensus 136 ~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~~ 167 (168)
T cd01897 136 EEEELEGEEVLKISTLTEEGVDEVKNKACELL 167 (168)
T ss_pred HhhhhccCceEEEEecccCCHHHHHHHHHHHh
Confidence 34444567899999999999999999998876
No 88
>PRK15467 ethanolamine utilization protein EutP; Provisional
Probab=98.33 E-value=1.3e-06 Score=45.80 Aligned_cols=35 Identities=26% Similarity=0.332 Sum_probs=29.2
Q ss_pred HHHHHhCC--CeEEcccCCCCCHHHHHHHHHHHHHHH
Q 035388 3 AFADELGI--PFLETSAKDAINVEQAFLTMAGEIKKK 37 (66)
Q Consensus 3 ~~a~~~~~--~~~etSAkt~~~v~~~F~~l~~~i~~~ 37 (66)
++++..+. ++|++||++|.||+++|..+++.+.+.
T Consensus 113 ~~~~~~~~~~p~~~~Sa~~g~gi~~l~~~l~~~~~~~ 149 (158)
T PRK15467 113 KLLLETGFEEPIFELNSHDPQSVQQLVDYLASLTKQE 149 (158)
T ss_pred HHHHHcCCCCCEEEEECCCccCHHHHHHHHHHhchhh
Confidence 45666664 899999999999999999998887654
No 89
>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=98.31 E-value=9.3e-07 Score=45.07 Aligned_cols=30 Identities=20% Similarity=0.319 Sum_probs=25.1
Q ss_pred HHHHHHhCC-CeEEcccCCCCCHHHHHHHHH
Q 035388 2 QAFADELGI-PFLETSAKDAINVEQAFLTMA 31 (66)
Q Consensus 2 ~~~a~~~~~-~~~etSAkt~~~v~~~F~~l~ 31 (66)
+++++.++. ++|++||++|.||+++|..++
T Consensus 111 ~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~ 141 (142)
T TIGR02528 111 KELLETAGAEPIFEISSVDEQGLEALVDYLN 141 (142)
T ss_pred HHHHHHcCCCcEEEEecCCCCCHHHHHHHHh
Confidence 356667775 799999999999999998875
No 90
>KOG4423 consensus GTP-binding protein-like, RAS superfamily [Signal transduction mechanisms]
Probab=98.31 E-value=3.3e-06 Score=45.98 Aligned_cols=37 Identities=30% Similarity=0.308 Sum_probs=32.3
Q ss_pred HHHHHHhC-CCeEEcccCCCCCHHHHHHHHHHHHHHHh
Q 035388 2 QAFADELG-IPFLETSAKDAINVEQAFLTMAGEIKKKM 38 (66)
Q Consensus 2 ~~~a~~~~-~~~~etSAkt~~~v~~~F~~l~~~i~~~~ 38 (66)
..|.++++ ..|+|||||.+.||+|+-..|++.++.+.
T Consensus 160 d~f~kengf~gwtets~Kenkni~Ea~r~lVe~~lvnd 197 (229)
T KOG4423|consen 160 DNFKKENGFEGWTETSAKENKNIPEAQRELVEKILVND 197 (229)
T ss_pred HHHHhccCccceeeeccccccChhHHHHHHHHHHHhhc
Confidence 35777888 56999999999999999999999998764
No 91
>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=1.2e-06 Score=45.35 Aligned_cols=32 Identities=44% Similarity=0.652 Sum_probs=28.4
Q ss_pred HHHHHhCCCeEEcccCCCCCHHHHHHHHHHHH
Q 035388 3 AFADELGIPFLETSAKDAINVEQAFLTMAGEI 34 (66)
Q Consensus 3 ~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i 34 (66)
.++..+++.++++||++|.||+++|..|++.+
T Consensus 131 ~~~~~~~~~~~~~Sa~~~~~v~~l~~~l~~~l 162 (163)
T cd01860 131 EYADENGLLFFETSAKTGENVNELFTEIAKKL 162 (163)
T ss_pred HHHHHcCCEEEEEECCCCCCHHHHHHHHHHHh
Confidence 46677788899999999999999999998875
No 92
>KOG0393 consensus Ras-related small GTPase, Rho type [General function prediction only]
Probab=98.29 E-value=6.4e-07 Score=48.81 Aligned_cols=37 Identities=24% Similarity=0.309 Sum_probs=33.1
Q ss_pred CHHHHHHhC-CCeEEcccCCCCCHHHHHHHHHHHHHHH
Q 035388 1 MQAFADELG-IPFLETSAKDAINVEQAFLTMAGEIKKK 37 (66)
Q Consensus 1 ~~~~a~~~~-~~~~etSAkt~~~v~~~F~~l~~~i~~~ 37 (66)
|+.+|+++| +.|+|+||++..||.++|+..++..+..
T Consensus 144 g~~lA~~iga~~y~EcSa~tq~~v~~vF~~a~~~~l~~ 181 (198)
T KOG0393|consen 144 GLELAKEIGAVKYLECSALTQKGVKEVFDEAIRAALRP 181 (198)
T ss_pred HHHHHHHhCcceeeeehhhhhCCcHHHHHHHHHHHhcc
Confidence 467899999 6799999999999999999999998864
No 93
>PTZ00132 GTP-binding nuclear protein Ran; Provisional
Probab=98.26 E-value=2e-06 Score=46.86 Aligned_cols=35 Identities=26% Similarity=0.465 Sum_probs=30.7
Q ss_pred HHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHHH
Q 035388 3 AFADELGIPFLETSAKDAINVEQAFLTMAGEIKKK 37 (66)
Q Consensus 3 ~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~~ 37 (66)
.+++..++.|+++||++|.||+++|..|++.++..
T Consensus 136 ~~~~~~~~~~~e~Sa~~~~~v~~~f~~ia~~l~~~ 170 (215)
T PTZ00132 136 TFHRKKNLQYYDISAKSNYNFEKPFLWLARRLTND 170 (215)
T ss_pred HHHHHcCCEEEEEeCCCCCCHHHHHHHHHHHHhhc
Confidence 45666778899999999999999999999998864
No 94
>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=98.25 E-value=1.3e-06 Score=45.56 Aligned_cols=32 Identities=53% Similarity=0.694 Sum_probs=27.0
Q ss_pred HHHHHHhCC-CeEEcccCCCCCHHHHHHHHHHH
Q 035388 2 QAFADELGI-PFLETSAKDAINVEQAFLTMAGE 33 (66)
Q Consensus 2 ~~~a~~~~~-~~~etSAkt~~~v~~~F~~l~~~ 33 (66)
.++++..+. .++|+||++|.||+++|..+++.
T Consensus 132 ~~~~~~~~~~~~~e~Sa~~~~~v~~~~~~l~~~ 164 (165)
T cd01864 132 CTLAEKNGMLAVLETSAKESQNVEEAFLLMATE 164 (165)
T ss_pred HHHHHHcCCcEEEEEECCCCCCHHHHHHHHHHh
Confidence 356777775 58999999999999999999875
No 95
>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=98.25 E-value=1.4e-06 Score=45.14 Aligned_cols=32 Identities=38% Similarity=0.462 Sum_probs=28.1
Q ss_pred HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHH
Q 035388 2 QAFADELGIPFLETSAKDAINVEQAFLTMAGE 33 (66)
Q Consensus 2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~ 33 (66)
..+++..+++|+++||++|.||+++|..+.+.
T Consensus 129 ~~~~~~~~~~~~~~Sa~~~~gi~~~~~~~~~~ 160 (161)
T cd01863 129 LKFARKHNMLFIETSAKTRDGVQQAFEELVEK 160 (161)
T ss_pred HHHHHHcCCEEEEEecCCCCCHHHHHHHHHHh
Confidence 35677788999999999999999999988765
No 96
>PLN00223 ADP-ribosylation factor; Provisional
Probab=98.24 E-value=2.6e-06 Score=45.45 Aligned_cols=25 Identities=12% Similarity=0.120 Sum_probs=22.4
Q ss_pred eEEcccCCCCCHHHHHHHHHHHHHH
Q 035388 12 FLETSAKDAINVEQAFLTMAGEIKK 36 (66)
Q Consensus 12 ~~etSAkt~~~v~~~F~~l~~~i~~ 36 (66)
++++||++|+||+++|..|+..+.+
T Consensus 155 ~~~~Sa~~g~gv~e~~~~l~~~~~~ 179 (181)
T PLN00223 155 IQSTCATSGEGLYEGLDWLSNNIAN 179 (181)
T ss_pred EEeccCCCCCCHHHHHHHHHHHHhh
Confidence 5689999999999999999988764
No 97
>cd01892 Miro2 Miro2 subfamily. Miro (mitochondrial Rho) proteins have tandem GTP-binding domains separated by a linker region containing putative calcium-binding EF hand motifs. Genes encoding Miro-like proteins were found in several eukaryotic organisms. This CD represents the putative GTPase domain in the C terminus of Miro proteins. These atypical Rho GTPases have roles in mitochondrial homeostasis and apoptosis. Most Rho proteins contain a lipid modification site at the C-terminus; however, Miro is one of few Rho subfamilies that lack this feature.
Probab=98.24 E-value=2e-06 Score=45.35 Aligned_cols=34 Identities=26% Similarity=0.391 Sum_probs=29.3
Q ss_pred HHHHHHhCC-CeEEcccCCCCCHHHHHHHHHHHHH
Q 035388 2 QAFADELGI-PFLETSAKDAINVEQAFLTMAGEIK 35 (66)
Q Consensus 2 ~~~a~~~~~-~~~etSAkt~~~v~~~F~~l~~~i~ 35 (66)
+++++.+++ .++++||++|.||+++|..|++.++
T Consensus 132 ~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~~~ 166 (169)
T cd01892 132 DEFCRKLGLPPPLHFSSKLGDSSNELFTKLATAAQ 166 (169)
T ss_pred HHHHHHcCCCCCEEEEeccCccHHHHHHHHHHHhh
Confidence 457777776 4799999999999999999999876
No 98
>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=98.21 E-value=6.4e-06 Score=43.46 Aligned_cols=36 Identities=42% Similarity=0.585 Sum_probs=31.0
Q ss_pred HHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHHHh
Q 035388 3 AFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKM 38 (66)
Q Consensus 3 ~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~~~ 38 (66)
.+++.++.+++++||++|.||+++|..+++.+....
T Consensus 131 ~~~~~~~~~~~~~Sa~~~~gv~~l~~~l~~~~~~~~ 166 (180)
T cd04137 131 ELAESWGAAFLESSARENENVEEAFELLIEEIEKVE 166 (180)
T ss_pred HHHHHcCCeEEEEeCCCCCCHHHHHHHHHHHHHHhc
Confidence 456677788999999999999999999999887653
No 99
>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=98.18 E-value=2.1e-06 Score=45.16 Aligned_cols=27 Identities=4% Similarity=0.067 Sum_probs=24.1
Q ss_pred CeEEcccCCCCCHHHHHHHHHHHHHHH
Q 035388 11 PFLETSAKDAINVEQAFLTMAGEIKKK 37 (66)
Q Consensus 11 ~~~etSAkt~~~v~~~F~~l~~~i~~~ 37 (66)
.+++||||+|.||+++|..|++.++..
T Consensus 137 ~~~~~Sa~~g~gv~~~f~~l~~~~~~~ 163 (169)
T cd04158 137 YIQGCDARSGMGLYEGLDWLSRQLVAA 163 (169)
T ss_pred EEEeCcCCCCCCHHHHHHHHHHHHhhc
Confidence 578999999999999999999887653
No 100
>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=98.17 E-value=6.7e-07 Score=46.26 Aligned_cols=24 Identities=21% Similarity=0.144 Sum_probs=21.1
Q ss_pred CCCeEEcccCCCCCHHHHHHHHHH
Q 035388 9 GIPFLETSAKDAINVEQAFLTMAG 32 (66)
Q Consensus 9 ~~~~~etSAkt~~~v~~~F~~l~~ 32 (66)
+.++++|||++|.||+++|..|++
T Consensus 136 ~~~~~~~Sa~~~~gv~~~~~~i~~ 159 (160)
T cd04156 136 DWYVQPCSAVTGEGLAEAFRKLAS 159 (160)
T ss_pred cEEEEecccccCCChHHHHHHHhc
Confidence 346899999999999999998864
No 101
>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=98.17 E-value=2.8e-06 Score=44.26 Aligned_cols=32 Identities=44% Similarity=0.648 Sum_probs=26.7
Q ss_pred HHHHHhCCCeEEcccCCCCCHHHHHHHHHHHH
Q 035388 3 AFADELGIPFLETSAKDAINVEQAFLTMAGEI 34 (66)
Q Consensus 3 ~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i 34 (66)
.+.+.....++++||++|.||+++|..+++.+
T Consensus 137 ~~~~~~~~~~~~~Sa~~~~gv~~l~~~i~~~~ 168 (169)
T cd04114 137 EFSDAQDMYYLETSAKESDNVEKLFLDLACRL 168 (169)
T ss_pred HHHHHcCCeEEEeeCCCCCCHHHHHHHHHHHh
Confidence 34455557799999999999999999999765
No 102
>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=98.15 E-value=3.1e-06 Score=43.47 Aligned_cols=33 Identities=52% Similarity=0.822 Sum_probs=28.2
Q ss_pred HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHH
Q 035388 2 QAFADELGIPFLETSAKDAINVEQAFLTMAGEI 34 (66)
Q Consensus 2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i 34 (66)
..+++.++.+|+++||+++.||+++|..|++.+
T Consensus 128 ~~~~~~~~~~~~~~S~~~~~~i~~l~~~l~~~i 160 (160)
T cd00876 128 KALAKEWGCPFIETSAKDNINIDEVFKLLVREI 160 (160)
T ss_pred HHHHHHcCCcEEEeccCCCCCHHHHHHHHHhhC
Confidence 356677778999999999999999999998753
No 103
>PTZ00133 ADP-ribosylation factor; Provisional
Probab=98.15 E-value=1.8e-06 Score=46.06 Aligned_cols=28 Identities=21% Similarity=0.173 Sum_probs=24.2
Q ss_pred CeEEcccCCCCCHHHHHHHHHHHHHHHh
Q 035388 11 PFLETSAKDAINVEQAFLTMAGEIKKKM 38 (66)
Q Consensus 11 ~~~etSAkt~~~v~~~F~~l~~~i~~~~ 38 (66)
.++++||++|.||+++|..|++.+.+.+
T Consensus 154 ~~~~~Sa~tg~gv~e~~~~l~~~i~~~~ 181 (182)
T PTZ00133 154 YIQGCCATTAQGLYEGLDWLSANIKKSM 181 (182)
T ss_pred EEEeeeCCCCCCHHHHHHHHHHHHHHhc
Confidence 4669999999999999999998887643
No 104
>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=98.12 E-value=4.2e-06 Score=43.57 Aligned_cols=30 Identities=27% Similarity=0.380 Sum_probs=25.7
Q ss_pred HHHHHhCC-CeEEcccCCCCCHHHHHHHHHH
Q 035388 3 AFADELGI-PFLETSAKDAINVEQAFLTMAG 32 (66)
Q Consensus 3 ~~a~~~~~-~~~etSAkt~~~v~~~F~~l~~ 32 (66)
.++..++. .|+++||++|.||+++|..|++
T Consensus 140 ~~~~~~~~~~~~~~Sa~~~~gi~~l~~~i~~ 170 (171)
T cd00157 140 KLAKEIGAIGYMECSALTQEGVKEVFEEAIR 170 (171)
T ss_pred HHHHHhCCeEEEEeecCCCCCHHHHHHHHhh
Confidence 45667776 8999999999999999998865
No 105
>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=98.10 E-value=6e-06 Score=42.48 Aligned_cols=32 Identities=34% Similarity=0.589 Sum_probs=28.0
Q ss_pred HHHHHhCCCeEEcccCCCCCHHHHHHHHHHHH
Q 035388 3 AFADELGIPFLETSAKDAINVEQAFLTMAGEI 34 (66)
Q Consensus 3 ~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i 34 (66)
++++..+..++++||+++.||+++|..+++.+
T Consensus 130 ~~~~~~~~~~~~~s~~~~~gi~~~~~~l~~~~ 161 (162)
T cd04123 130 EYAKSVGAKHFETSAKTGKGIEELFLSLAKRM 161 (162)
T ss_pred HHHHHcCCEEEEEeCCCCCCHHHHHHHHHHHh
Confidence 45666788899999999999999999998765
No 106
>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=98.10 E-value=6.1e-06 Score=43.40 Aligned_cols=32 Identities=28% Similarity=0.399 Sum_probs=26.4
Q ss_pred HHHHHhCCC---eEEcccCCCCCHHHHHHHHHHHH
Q 035388 3 AFADELGIP---FLETSAKDAINVEQAFLTMAGEI 34 (66)
Q Consensus 3 ~~a~~~~~~---~~etSAkt~~~v~~~F~~l~~~i 34 (66)
++++.++++ +|++||++|.||+++|..|++.+
T Consensus 142 ~~~~~~~~~~~~~~~~Sa~~g~gi~~l~~~l~~~~ 176 (179)
T cd01890 142 QIEDVLGLDPSEAILVSAKTGLGVEDLLEAIVERI 176 (179)
T ss_pred HHHHHhCCCcccEEEeeccCCCCHHHHHHHHHhhC
Confidence 456666654 89999999999999999998764
No 107
>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=98.09 E-value=9.6e-06 Score=42.26 Aligned_cols=35 Identities=51% Similarity=0.741 Sum_probs=30.2
Q ss_pred HHHHHhC-CCeEEcccCCCCCHHHHHHHHHHHHHHH
Q 035388 3 AFADELG-IPFLETSAKDAINVEQAFLTMAGEIKKK 37 (66)
Q Consensus 3 ~~a~~~~-~~~~etSAkt~~~v~~~F~~l~~~i~~~ 37 (66)
.+.+..+ ..+|++||++|.||+++|..+++.+++.
T Consensus 134 ~~~~~~~~~~~~~~Sa~~~~gv~~l~~~i~~~~~~~ 169 (172)
T cd01862 134 QWCQSNGNIPYFETSAKEAINVEQAFETIARKALEQ 169 (172)
T ss_pred HHHHHcCCceEEEEECCCCCCHHHHHHHHHHHHHhc
Confidence 4566666 7899999999999999999999988765
No 108
>cd04162 Arl9_Arfrp2_like Arl9/Arfrp2-like subfamily. Arl9 (Arf-like 9) was first identified as part of the Human Cancer Genome Project. It maps to chromosome 4q12 and is sometimes referred to as Arfrp2 (Arf-related protein 2). This is a novel subfamily identified in human cancers that is uncharacterized to date.
Probab=98.05 E-value=1.6e-06 Score=45.47 Aligned_cols=30 Identities=17% Similarity=0.086 Sum_probs=24.9
Q ss_pred HHHHHHhCCCeEEcccCC------CCCHHHHHHHHH
Q 035388 2 QAFADELGIPFLETSAKD------AINVEQAFLTMA 31 (66)
Q Consensus 2 ~~~a~~~~~~~~etSAkt------~~~v~~~F~~l~ 31 (66)
..++++.++.||+|||++ ++||+++|..+.
T Consensus 127 ~~~~~~~~~~~~~~Sa~~~~s~~~~~~v~~~~~~~~ 162 (164)
T cd04162 127 EPIARGRRWILQGTSLDDDGSPSRMEAVKDLLSQLI 162 (164)
T ss_pred hhhcCCCceEEEEeeecCCCChhHHHHHHHHHHHHh
Confidence 345666678899999999 999999999875
No 109
>cd01893 Miro1 Miro1 subfamily. Miro (mitochondrial Rho) proteins have tandem GTP-binding domains separated by a linker region containing putative calcium-binding EF hand motifs. Genes encoding Miro-like proteins were found in several eukaryotic organisms. This CD represents the N-terminal GTPase domain of Miro proteins. These atypical Rho GTPases have roles in mitochondrial homeostasis and apoptosis. Most Rho proteins contain a lipid modification site at the C-terminus; however, Miro is one of few Rho subfamilies that lack this feature.
Probab=98.01 E-value=8.3e-06 Score=42.66 Aligned_cols=26 Identities=31% Similarity=0.369 Sum_probs=23.7
Q ss_pred CeEEcccCCCCCHHHHHHHHHHHHHH
Q 035388 11 PFLETSAKDAINVEQAFLTMAGEIKK 36 (66)
Q Consensus 11 ~~~etSAkt~~~v~~~F~~l~~~i~~ 36 (66)
.|+|+||++|.||+++|..+++.+++
T Consensus 140 ~~~e~Sa~~~~~v~~lf~~~~~~~~~ 165 (166)
T cd01893 140 TCVECSAKTLINVSEVFYYAQKAVLH 165 (166)
T ss_pred EEEEeccccccCHHHHHHHHHHHhcC
Confidence 79999999999999999999887753
No 110
>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=98.00 E-value=1.1e-05 Score=41.71 Aligned_cols=31 Identities=42% Similarity=0.483 Sum_probs=27.0
Q ss_pred HHHHHhCCCeEEcccCCCCCHHHHHHHHHHH
Q 035388 3 AFADELGIPFLETSAKDAINVEQAFLTMAGE 33 (66)
Q Consensus 3 ~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~ 33 (66)
.+++..++.++++||++|.||+++|..+++.
T Consensus 130 ~~~~~~~~~~~~~Sa~~~~~v~~l~~~i~~~ 160 (161)
T cd01861 130 KKAKELNAMFIETSAKAGHNVKELFRKIASA 160 (161)
T ss_pred HHHHHhCCEEEEEeCCCCCCHHHHHHHHHHh
Confidence 4566778899999999999999999998764
No 111
>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=98.00 E-value=4.6e-06 Score=43.94 Aligned_cols=23 Identities=4% Similarity=-0.032 Sum_probs=20.3
Q ss_pred CCeEEcccCCCCCHHHHHHHHHH
Q 035388 10 IPFLETSAKDAINVEQAFLTMAG 32 (66)
Q Consensus 10 ~~~~etSAkt~~~v~~~F~~l~~ 32 (66)
..++++|||+|.||+++|..|++
T Consensus 145 ~~~~~~SAk~g~gv~~~~~~l~~ 167 (168)
T cd04149 145 WYVQPSCATSGDGLYEGLTWLSS 167 (168)
T ss_pred EEEEEeeCCCCCChHHHHHHHhc
Confidence 35899999999999999998864
No 112
>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=98.00 E-value=9.5e-06 Score=43.25 Aligned_cols=29 Identities=10% Similarity=-0.004 Sum_probs=25.4
Q ss_pred CCeEEcccCCCCCHHHHHHHHHHHHHHHh
Q 035388 10 IPFLETSAKDAINVEQAFLTMAGEIKKKM 38 (66)
Q Consensus 10 ~~~~etSAkt~~~v~~~F~~l~~~i~~~~ 38 (66)
.+++++||++|.||+++|..|++.+.+..
T Consensus 145 ~~~~~~SA~~~~gi~~l~~~l~~~l~~~~ 173 (183)
T cd04152 145 WHVQPACAIIGEGLQEGLEKLYEMILKRR 173 (183)
T ss_pred eEEEEeecccCCCHHHHHHHHHHHHHHHH
Confidence 35789999999999999999999997643
No 113
>TIGR00101 ureG urease accessory protein UreG. This model represents UreG, a GTP hydrolase that acts in the assembly of the nickel metallocenter of urease. It is found only in urease-positive species, although some urease-positive species (e.g. Bacillus subtilis) lack this protein. A similar protein, hypB, is an accessory protein for expression of hydrogenase, which also uses nickel.
Probab=97.99 E-value=1.2e-05 Score=43.83 Aligned_cols=26 Identities=15% Similarity=0.118 Sum_probs=23.3
Q ss_pred CCCeEEcccCCCCCHHHHHHHHHHHH
Q 035388 9 GIPFLETSAKDAINVEQAFLTMAGEI 34 (66)
Q Consensus 9 ~~~~~etSAkt~~~v~~~F~~l~~~i 34 (66)
++++|+||||+|+||+++|..+.+..
T Consensus 170 ~~~i~~~Sa~~g~gi~el~~~i~~~~ 195 (199)
T TIGR00101 170 EKPFIFTNLKTKEGLDTVIDWIEHYA 195 (199)
T ss_pred CCCEEEEECCCCCCHHHHHHHHHhhc
Confidence 47899999999999999999988654
No 114
>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=97.97 E-value=4.9e-06 Score=43.78 Aligned_cols=24 Identities=13% Similarity=-0.079 Sum_probs=21.3
Q ss_pred CCCeEEcccCCCCCHHHHHHHHHH
Q 035388 9 GIPFLETSAKDAINVEQAFLTMAG 32 (66)
Q Consensus 9 ~~~~~etSAkt~~~v~~~F~~l~~ 32 (66)
+++||++||++|.||+++|..++.
T Consensus 149 ~~~~~~~Sa~~g~gi~~l~~~l~~ 172 (173)
T cd04154 149 HWRIQPCSAVTGEGLLQGIDWLVD 172 (173)
T ss_pred ceEEEeccCCCCcCHHHHHHHHhc
Confidence 467999999999999999998764
No 115
>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=97.97 E-value=4.5e-06 Score=44.45 Aligned_cols=24 Identities=17% Similarity=0.083 Sum_probs=21.7
Q ss_pred CCeEEcccCCCCCHHHHHHHHHHH
Q 035388 10 IPFLETSAKDAINVEQAFLTMAGE 33 (66)
Q Consensus 10 ~~~~etSAkt~~~v~~~F~~l~~~ 33 (66)
+.+++|||++|.||+++|..|++.
T Consensus 166 ~~~~~~Sa~~~~gv~e~~~~l~~~ 189 (190)
T cd00879 166 IEVFMCSVVKRQGYGEAFRWLSQY 189 (190)
T ss_pred EEEEEeEecCCCChHHHHHHHHhh
Confidence 468999999999999999999865
No 116
>cd04143 Rhes_like Rhes_like subfamily. This subfamily includes Rhes (Ras homolog enriched in striatum) and Dexras1/AGS1 (activator of G-protein signaling 1). These proteins are homologous, but exhibit significant differences in tissue distribution and subcellular localization. Rhes is found primarily in the striatum of the brain, but is also expressed in other areas of the brain, such as the cerebral cortex, hippocampus, inferior colliculus, and cerebellum. Rhes expression is controlled by thyroid hormones. In rat PC12 cells, Rhes is farnesylated and localizes to the plasma membrane. Rhes binds and activates PI3K, and plays a role in coupling serpentine membrane receptors with heterotrimeric G-protein signaling. Rhes has recently been shown to be reduced under conditions of dopamine supersensitivity and may play a role in determining dopamine receptor sensitivity. Dexras1/AGS1 is a dexamethasone-induced Ras protein that is expressed primarily in the brain, with low expression l
Probab=97.94 E-value=1.6e-05 Score=44.53 Aligned_cols=26 Identities=23% Similarity=0.367 Sum_probs=23.7
Q ss_pred CCCeEEcccCCCCCHHHHHHHHHHHH
Q 035388 9 GIPFLETSAKDAINVEQAFLTMAGEI 34 (66)
Q Consensus 9 ~~~~~etSAkt~~~v~~~F~~l~~~i 34 (66)
++.|+++||++|.||+++|..|++..
T Consensus 145 ~~~~~evSAktg~gI~elf~~L~~~~ 170 (247)
T cd04143 145 NCAYFEVSAKKNSNLDEMFRALFSLA 170 (247)
T ss_pred CCEEEEEeCCCCCCHHHHHHHHHHHh
Confidence 46799999999999999999999865
No 117
>PRK04213 GTP-binding protein; Provisional
Probab=97.94 E-value=1.6e-05 Score=42.72 Aligned_cols=24 Identities=17% Similarity=0.163 Sum_probs=21.5
Q ss_pred CeEEcccCCCCCHHHHHHHHHHHHH
Q 035388 11 PFLETSAKDAINVEQAFLTMAGEIK 35 (66)
Q Consensus 11 ~~~etSAkt~~~v~~~F~~l~~~i~ 35 (66)
+++++||++| ||+++|..|++.+.
T Consensus 169 ~~~~~SA~~g-gi~~l~~~l~~~~~ 192 (201)
T PRK04213 169 IIAPISAKKG-GIEELKEAIRKRLH 192 (201)
T ss_pred cEEEEecccC-CHHHHHHHHHHhhc
Confidence 4799999999 99999999988764
No 118
>cd04150 Arf1_5_like Arf1-Arf5-like subfamily. This subfamily contains Arf1, Arf2, Arf3, Arf4, Arf5, and related proteins. Arfs1-5 are soluble proteins that are crucial for assembling coat proteins during vesicle formation. Each contains an N-terminal myristoylated amphipathic helix that is folded into the protein in the GDP-bound state. GDP/GTP exchange exposes the helix, which anchors to the membrane. Following GTP hydrolysis, the helix dissociates from the membrane and folds back into the protein. A general feature of Arf1-5 signaling may be the cooperation of two Arfs at the same site. Arfs1-5 are generally considered to be interchangeable in function and location, but some specific functions have been assigned. Arf1 localizes to the early/cis-Golgi, where it is activated by GBF1 and recruits the coat protein COPI. It also localizes to the trans-Golgi network (TGN), where it is activated by BIG1/BIG2 and recruits the AP1, AP3, AP4, and GGA proteins. Humans, but not rodents
Probab=97.93 E-value=6.4e-06 Score=42.98 Aligned_cols=23 Identities=9% Similarity=-0.036 Sum_probs=19.9
Q ss_pred CCeEEcccCCCCCHHHHHHHHHH
Q 035388 10 IPFLETSAKDAINVEQAFLTMAG 32 (66)
Q Consensus 10 ~~~~etSAkt~~~v~~~F~~l~~ 32 (66)
..++++|||+|.||+++|..|+.
T Consensus 136 ~~~~~~Sak~g~gv~~~~~~l~~ 158 (159)
T cd04150 136 WYIQATCATSGDGLYEGLDWLSN 158 (159)
T ss_pred EEEEEeeCCCCCCHHHHHHHHhc
Confidence 35789999999999999998763
No 119
>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=97.91 E-value=4.7e-06 Score=43.20 Aligned_cols=23 Identities=13% Similarity=0.156 Sum_probs=20.8
Q ss_pred CCeEEcccCCCCCHHHHHHHHHH
Q 035388 10 IPFLETSAKDAINVEQAFLTMAG 32 (66)
Q Consensus 10 ~~~~etSAkt~~~v~~~F~~l~~ 32 (66)
.+++++||++|.||+++|..|++
T Consensus 135 ~~~~~~Sa~~~~gi~~l~~~l~~ 157 (158)
T cd04151 135 WSIFKTSAIKGEGLDEGMDWLVN 157 (158)
T ss_pred EEEEEeeccCCCCHHHHHHHHhc
Confidence 45999999999999999999875
No 120
>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=97.88 E-value=6.9e-06 Score=43.38 Aligned_cols=24 Identities=8% Similarity=-0.053 Sum_probs=21.2
Q ss_pred CCCeEEcccCCCCCHHHHHHHHHH
Q 035388 9 GIPFLETSAKDAINVEQAFLTMAG 32 (66)
Q Consensus 9 ~~~~~etSAkt~~~v~~~F~~l~~ 32 (66)
+++++++||++|.||+++|..|++
T Consensus 150 ~~~~~~~SA~~g~gi~e~~~~l~~ 173 (174)
T cd04153 150 TWHIQGCCALTGEGLPEGLDWIAS 173 (174)
T ss_pred ceEEEecccCCCCCHHHHHHHHhc
Confidence 346899999999999999998875
No 121
>cd04147 Ras_dva Ras-dva subfamily. Ras-dva (Ras - dorsal-ventral anterior localization) subfamily consists of a set of proteins characterized only in Xenopus leavis, to date. In Xenopus Ras-dva expression is activated by the transcription factor Otx2 and begins during gastrulation throughout the anterior ectoderm. Ras-dva expression is inhibited in the anterior neural plate by factor Xanf1. Downregulation of Ras-dva results in head development abnormalities through the inhibition of several regulators of the anterior neural plate and folds patterning, including Otx2, BF-1, Xag2, Pax6, Slug, and Sox9. Downregulation of Ras-dva also interferes with the FGF-8a signaling within the anterior ectoderm. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Ras proteins.
Probab=97.88 E-value=3.5e-05 Score=41.54 Aligned_cols=28 Identities=36% Similarity=0.414 Sum_probs=25.3
Q ss_pred hCCCeEEcccCCCCCHHHHHHHHHHHHH
Q 035388 8 LGIPFLETSAKDAINVEQAFLTMAGEIK 35 (66)
Q Consensus 8 ~~~~~~etSAkt~~~v~~~F~~l~~~i~ 35 (66)
++++|+++||++|.||+++|..+++.+.
T Consensus 136 ~~~~~~~~Sa~~g~gv~~l~~~l~~~~~ 163 (198)
T cd04147 136 WNCGFVETSAKDNENVLEVFKELLRQAN 163 (198)
T ss_pred cCCcEEEecCCCCCCHHHHHHHHHHHhh
Confidence 4578999999999999999999998775
No 122
>smart00177 ARF ARF-like small GTPases; ARF, ADP-ribosylation factor. Ras homologues involved in vesicular transport. Activator of phospholipase D isoforms. Unlike Ras proteins they lack cysteine residues at their C-termini and therefore are unlikely to be prenylated. ARFs are N-terminally myristoylated. Contains ATP/GTP-binding motif (P-loop).
Probab=97.85 E-value=4.4e-05 Score=40.44 Aligned_cols=24 Identities=8% Similarity=0.072 Sum_probs=20.9
Q ss_pred CeEEcccCCCCCHHHHHHHHHHHH
Q 035388 11 PFLETSAKDAINVEQAFLTMAGEI 34 (66)
Q Consensus 11 ~~~etSAkt~~~v~~~F~~l~~~i 34 (66)
.|+++||++|.||+++|..|++.+
T Consensus 150 ~~~~~Sa~~g~gv~e~~~~l~~~~ 173 (175)
T smart00177 150 YIQPTCATSGDGLYEGLTWLSNNL 173 (175)
T ss_pred EEEEeeCCCCCCHHHHHHHHHHHh
Confidence 467899999999999999887764
No 123
>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=97.84 E-value=2.5e-05 Score=39.74 Aligned_cols=30 Identities=53% Similarity=0.713 Sum_probs=26.1
Q ss_pred HHHHHHhCCCeEEcccCCCCCHHHHHHHHH
Q 035388 2 QAFADELGIPFLETSAKDAINVEQAFLTMA 31 (66)
Q Consensus 2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~ 31 (66)
..++..++.+++++||+++.||+++|..|+
T Consensus 129 ~~~~~~~~~~~~~~sa~~~~~i~~~~~~i~ 158 (159)
T cd00154 129 QQFAKENGLLFFETSAKTGENVEELFQSLA 158 (159)
T ss_pred HHHHHHcCCeEEEEecCCCCCHHHHHHHHh
Confidence 346677789999999999999999999876
No 124
>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=97.78 E-value=1.5e-05 Score=41.14 Aligned_cols=22 Identities=5% Similarity=0.117 Sum_probs=19.9
Q ss_pred CeEEcccCCCCCHHHHHHHHHH
Q 035388 11 PFLETSAKDAINVEQAFLTMAG 32 (66)
Q Consensus 11 ~~~etSAkt~~~v~~~F~~l~~ 32 (66)
.+|++||++|.||+++|..|++
T Consensus 140 ~~~~~Sa~~g~gv~~~~~~l~~ 161 (162)
T cd04157 140 HIFASNALTGEGLDEGVQWLQA 161 (162)
T ss_pred EEEEeeCCCCCchHHHHHHHhc
Confidence 4899999999999999998864
No 125
>cd01879 FeoB Ferrous iron transport protein B (FeoB) subfamily. E. coli has an iron(II) transport system, known as feo, which may make an important contribution to the iron supply of the cell under anaerobic conditions. FeoB has been identified as part of this transport system. FeoB is a large 700-800 amino acid integral membrane protein. The N terminus contains a P-loop motif suggesting that iron transport may be ATP dependent.
Probab=97.73 E-value=9.1e-05 Score=38.01 Aligned_cols=31 Identities=23% Similarity=0.374 Sum_probs=26.6
Q ss_pred HHHHHhCCCeEEcccCCCCCHHHHHHHHHHH
Q 035388 3 AFADELGIPFLETSAKDAINVEQAFLTMAGE 33 (66)
Q Consensus 3 ~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~ 33 (66)
.+++.++.+++++||++|.||+++|..|.+.
T Consensus 125 ~~~~~~~~~~~~iSa~~~~~~~~l~~~l~~~ 155 (158)
T cd01879 125 KLSELLGVPVVPTSARKGEGIDELKDAIAEL 155 (158)
T ss_pred HHHHhhCCCeEEEEccCCCCHHHHHHHHHHH
Confidence 4556678899999999999999999988765
No 126
>PRK12299 obgE GTPase CgtA; Reviewed
Probab=97.73 E-value=0.00011 Score=42.93 Aligned_cols=32 Identities=16% Similarity=0.191 Sum_probs=27.2
Q ss_pred HHHhCCCeEEcccCCCCCHHHHHHHHHHHHHH
Q 035388 5 ADELGIPFLETSAKDAINVEQAFLTMAGEIKK 36 (66)
Q Consensus 5 a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~ 36 (66)
++..+.++|++||+++.||+++|..|++.+.+
T Consensus 298 ~~~~~~~i~~iSAktg~GI~eL~~~L~~~l~~ 329 (335)
T PRK12299 298 LAALGGPVFLISAVTGEGLDELLRALWELLEE 329 (335)
T ss_pred HHhcCCCEEEEEcCCCCCHHHHHHHHHHHHHh
Confidence 34456789999999999999999999888764
No 127
>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=97.67 E-value=9.2e-05 Score=46.13 Aligned_cols=32 Identities=22% Similarity=0.403 Sum_probs=28.2
Q ss_pred HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHH
Q 035388 2 QAFADELGIPFLETSAKDAINVEQAFLTMAGE 33 (66)
Q Consensus 2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~ 33 (66)
+.+++..++++++|||++|.||+++|+.+++.
T Consensus 122 ~~L~~~lg~pvv~tSA~tg~Gi~eL~~~i~~~ 153 (591)
T TIGR00437 122 EKLEERLGVPVVPTSATEGRGIERLKDAIRKA 153 (591)
T ss_pred HHHHHHcCCCEEEEECCCCCCHHHHHHHHHHH
Confidence 35677788999999999999999999999875
No 128
>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=97.66 E-value=0.0001 Score=43.05 Aligned_cols=32 Identities=19% Similarity=0.334 Sum_probs=26.8
Q ss_pred HHHHHhCCCeEEcccCCCCCHHHHHHHHHHHH
Q 035388 3 AFADELGIPFLETSAKDAINVEQAFLTMAGEI 34 (66)
Q Consensus 3 ~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i 34 (66)
.+++.++.+++++||+++.||+++|..|++.+
T Consensus 297 ~l~~~~~~~vi~iSAktg~GI~eL~~~I~~~l 328 (329)
T TIGR02729 297 ELKKALGKPVFPISALTGEGLDELLYALAELL 328 (329)
T ss_pred HHHHHcCCcEEEEEccCCcCHHHHHHHHHHHh
Confidence 35556677899999999999999999998754
No 129
>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=97.62 E-value=5.8e-05 Score=42.32 Aligned_cols=27 Identities=19% Similarity=0.308 Sum_probs=23.6
Q ss_pred HhCCCeEEcccCCCCCHHHHHHHHHHH
Q 035388 7 ELGIPFLETSAKDAINVEQAFLTMAGE 33 (66)
Q Consensus 7 ~~~~~~~etSAkt~~~v~~~F~~l~~~ 33 (66)
.+++.+|++||++|.||+++|..++..
T Consensus 95 ~~g~~v~~~SAktg~gi~eLf~~l~~~ 121 (245)
T TIGR00157 95 NIGYQVLMTSSKNQDGLKELIEALQNR 121 (245)
T ss_pred HCCCeEEEEecCCchhHHHHHhhhcCC
Confidence 467889999999999999999988753
No 130
>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=97.59 E-value=0.00013 Score=38.21 Aligned_cols=21 Identities=14% Similarity=0.109 Sum_probs=19.3
Q ss_pred eEEcccCCCCCHHHHHHHHHH
Q 035388 12 FLETSAKDAINVEQAFLTMAG 32 (66)
Q Consensus 12 ~~etSAkt~~~v~~~F~~l~~ 32 (66)
++++||++|.||+++|..|++
T Consensus 152 ~~~~Sa~~~~gi~~~~~~l~~ 172 (173)
T cd04155 152 IQACSAKTGEGLQEGMNWVCK 172 (173)
T ss_pred EEEeECCCCCCHHHHHHHHhc
Confidence 679999999999999998875
No 131
>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=97.59 E-value=8.9e-05 Score=39.99 Aligned_cols=28 Identities=11% Similarity=-0.013 Sum_probs=23.7
Q ss_pred HHhCCCeEEcccCCCCCHHHHHHHHHHH
Q 035388 6 DELGIPFLETSAKDAINVEQAFLTMAGE 33 (66)
Q Consensus 6 ~~~~~~~~etSAkt~~~v~~~F~~l~~~ 33 (66)
...+.+++++||++|.||+++|..|+..
T Consensus 176 ~~~~~~~~~~Sa~~~~gi~~l~~~L~~~ 203 (204)
T cd01878 176 EAGRPDAVFISAKTGEGLDELLEAIEEL 203 (204)
T ss_pred hcCCCceEEEEcCCCCCHHHHHHHHHhh
Confidence 3345789999999999999999988764
No 132
>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=97.58 E-value=0.00015 Score=37.31 Aligned_cols=25 Identities=16% Similarity=0.138 Sum_probs=21.9
Q ss_pred hCCCeEEcccCCCCCHHHHHHHHHH
Q 035388 8 LGIPFLETSAKDAINVEQAFLTMAG 32 (66)
Q Consensus 8 ~~~~~~etSAkt~~~v~~~F~~l~~ 32 (66)
.+.+++++||++|.||+++|..+..
T Consensus 139 ~~~~~~~~Sa~~~~~v~~l~~~l~~ 163 (164)
T cd04171 139 ADAPIFPVSAVTGEGIEELKEYLDE 163 (164)
T ss_pred CCCcEEEEeCCCCcCHHHHHHHHhh
Confidence 3578999999999999999988754
No 133
>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=97.57 E-value=0.00014 Score=37.16 Aligned_cols=26 Identities=15% Similarity=0.156 Sum_probs=22.7
Q ss_pred hCC-CeEEcccCCCCCHHHHHHHHHHH
Q 035388 8 LGI-PFLETSAKDAINVEQAFLTMAGE 33 (66)
Q Consensus 8 ~~~-~~~etSAkt~~~v~~~F~~l~~~ 33 (66)
.++ .++++||++|.||+++|..+++.
T Consensus 130 ~~~~~~~~~Sa~~~~gv~~l~~~l~~~ 156 (157)
T cd01894 130 LGFGEPIPISAEHGRGIGDLLDAILEL 156 (157)
T ss_pred cCCCCeEEEecccCCCHHHHHHHHHhh
Confidence 454 68999999999999999999865
No 134
>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=97.56 E-value=6.4e-05 Score=39.05 Aligned_cols=24 Identities=17% Similarity=0.122 Sum_probs=21.2
Q ss_pred CCCeEEcccCCCCCHHHHHHHHHH
Q 035388 9 GIPFLETSAKDAINVEQAFLTMAG 32 (66)
Q Consensus 9 ~~~~~etSAkt~~~v~~~F~~l~~ 32 (66)
+++++++||++|.||+++|..|++
T Consensus 143 ~~~~~~~Sa~~g~gv~e~~~~l~~ 166 (167)
T cd04160 143 DCLVLPVSALEGTGVREGIEWLVE 166 (167)
T ss_pred ceEEEEeeCCCCcCHHHHHHHHhc
Confidence 357999999999999999998875
No 135
>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=97.54 E-value=0.00015 Score=37.72 Aligned_cols=25 Identities=20% Similarity=0.272 Sum_probs=22.6
Q ss_pred CCCeEEcccCCCCCHHHHHHHHHHH
Q 035388 9 GIPFLETSAKDAINVEQAFLTMAGE 33 (66)
Q Consensus 9 ~~~~~etSAkt~~~v~~~F~~l~~~ 33 (66)
+.+++++||+++.||+++|..+++.
T Consensus 145 ~~~~~~~Sa~~~~gi~~l~~~i~~~ 169 (170)
T cd01898 145 GKPVFPISALTGEGLDELLRKLAEL 169 (170)
T ss_pred CCCEEEEecCCCCCHHHHHHHHHhh
Confidence 6789999999999999999988764
No 136
>cd01888 eIF2_gamma eIF2-gamma (gamma subunit of initiation factor 2). eIF2 is a heterotrimeric translation initiation factor that consists of alpha, beta, and gamma subunits. The GTP-bound gamma subunit also binds initiator methionyl-tRNA and delivers it to the 40S ribosomal subunit. Following hydrolysis of GTP to GDP, eIF2:GDP is released from the ribosome. The gamma subunit has no intrinsic GTPase activity, but is stimulated by the GTPase activating protein (GAP) eIF5, and GDP/GTP exchange is stimulated by the guanine nucleotide exchange factor (GEF) eIF2B. eIF2B is a heteropentamer, and the epsilon chain binds eIF2. Both eIF5 and eIF2B-epsilon are known to bind strongly to eIF2-beta, but have also been shown to bind directly to eIF2-gamma. It is possible that eIF2-beta serves simply as a high-affinity docking site for eIF5 and eIF2B-epsilon, or that eIF2-beta serves a regulatory role. eIF2-gamma is found only in eukaryotes and archaea. It is closely related to SelB, the sel
Probab=97.54 E-value=0.00015 Score=39.38 Aligned_cols=26 Identities=19% Similarity=0.281 Sum_probs=23.0
Q ss_pred CCCeEEcccCCCCCHHHHHHHHHHHH
Q 035388 9 GIPFLETSAKDAINVEQAFLTMAGEI 34 (66)
Q Consensus 9 ~~~~~etSAkt~~~v~~~F~~l~~~i 34 (66)
+.+++.+||++|.||+++|..|++.+
T Consensus 173 ~~~i~~vSA~~g~gi~~L~~~l~~~l 198 (203)
T cd01888 173 NAPIIPISAQLKYNIDVLLEYIVKKI 198 (203)
T ss_pred CCcEEEEeCCCCCCHHHHHHHHHHhC
Confidence 46799999999999999999988655
No 137
>KOG4252 consensus GTP-binding protein [Signal transduction mechanisms]
Probab=97.50 E-value=0.00012 Score=39.87 Aligned_cols=38 Identities=24% Similarity=0.362 Sum_probs=33.7
Q ss_pred HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHHHhc
Q 035388 2 QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKMG 39 (66)
Q Consensus 2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~~~~ 39 (66)
+.+|+.++..++.||+|...||..+|..|++...++..
T Consensus 148 E~lak~l~~RlyRtSvked~NV~~vF~YLaeK~~q~~k 185 (246)
T KOG4252|consen 148 EGLAKKLHKRLYRTSVKEDFNVMHVFAYLAEKLTQQKK 185 (246)
T ss_pred HHHHHHhhhhhhhhhhhhhhhhHHHHHHHHHHHHHHHH
Confidence 45788889999999999999999999999999877543
No 138
>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=97.47 E-value=0.00011 Score=37.90 Aligned_cols=24 Identities=8% Similarity=-0.048 Sum_probs=21.2
Q ss_pred CCCeEEcccCCCCCHHHHHHHHHH
Q 035388 9 GIPFLETSAKDAINVEQAFLTMAG 32 (66)
Q Consensus 9 ~~~~~etSAkt~~~v~~~F~~l~~ 32 (66)
..+++++||++|.||+++|..|+.
T Consensus 134 ~~~~~~~Sa~~~~gv~~~~~~l~~ 157 (158)
T cd00878 134 RWHIQPCSAVTGDGLDEGLDWLLQ 157 (158)
T ss_pred cEEEEEeeCCCCCCHHHHHHHHhh
Confidence 356999999999999999998864
No 139
>PRK03003 GTP-binding protein Der; Reviewed
Probab=97.41 E-value=0.00019 Score=43.54 Aligned_cols=26 Identities=19% Similarity=0.281 Sum_probs=23.5
Q ss_pred CCeEEcccCCCCCHHHHHHHHHHHHH
Q 035388 10 IPFLETSAKDAINVEQAFLTMAGEIK 35 (66)
Q Consensus 10 ~~~~etSAkt~~~v~~~F~~l~~~i~ 35 (66)
.+++++||++|.||+++|..+++.+.
T Consensus 357 ~~~~~~SAk~g~gv~~lf~~i~~~~~ 382 (472)
T PRK03003 357 APRVNISAKTGRAVDKLVPALETALE 382 (472)
T ss_pred CCEEEEECCCCCCHHHHHHHHHHHHH
Confidence 67899999999999999999988764
No 140
>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=97.32 E-value=0.00026 Score=37.97 Aligned_cols=27 Identities=19% Similarity=0.085 Sum_probs=24.4
Q ss_pred CCCeEEcccCCCCCHHHHHHHHHHHHH
Q 035388 9 GIPFLETSAKDAINVEQAFLTMAGEIK 35 (66)
Q Consensus 9 ~~~~~etSAkt~~~v~~~F~~l~~~i~ 35 (66)
+++++.+||++|.||++++..|...|.
T Consensus 160 ~~~vi~iSa~~g~gi~~L~~~l~~~~~ 186 (192)
T cd01889 160 NSPIIPVSAKPGGGEAELGKDLNNLIV 186 (192)
T ss_pred CCCEEEEeccCCCCHHHHHHHHHhccc
Confidence 578999999999999999999988774
No 141
>PRK12297 obgE GTPase CgtA; Reviewed
Probab=97.31 E-value=0.00075 Score=40.79 Aligned_cols=35 Identities=17% Similarity=0.322 Sum_probs=29.0
Q ss_pred HHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHHH
Q 035388 3 AFADELGIPFLETSAKDAINVEQAFLTMAGEIKKK 37 (66)
Q Consensus 3 ~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~~ 37 (66)
.+.+..+.++|.+||+++.||+++|..|++.+...
T Consensus 295 ~l~~~l~~~i~~iSA~tgeGI~eL~~~L~~~l~~~ 329 (424)
T PRK12297 295 EFKEKLGPKVFPISALTGQGLDELLYAVAELLEET 329 (424)
T ss_pred HHHHHhCCcEEEEeCCCCCCHHHHHHHHHHHHHhC
Confidence 45556667899999999999999999998877653
No 142
>cd00881 GTP_translation_factor GTP translation factor family. This family consists primarily of translation initiation, elongation, and release factors, which play specific roles in protein translation. In addition, the family includes Snu114p, a component of the U5 small nuclear riboprotein particle which is a component of the spliceosome and is involved in excision of introns, TetM, a tetracycline resistance gene that protects the ribosome from tetracycline binding, and the unusual subfamily CysN/ATPS, which has an unrelated function (ATP sulfurylase) acquired through lateral transfer of the EF1-alpha gene and development of a new function.
Probab=97.28 E-value=0.00019 Score=37.75 Aligned_cols=27 Identities=26% Similarity=0.386 Sum_probs=23.6
Q ss_pred hCCCeEEcccCCCCCHHHHHHHHHHHH
Q 035388 8 LGIPFLETSAKDAINVEQAFLTMAGEI 34 (66)
Q Consensus 8 ~~~~~~etSAkt~~~v~~~F~~l~~~i 34 (66)
...+++++||++|.||+++|..|.+.+
T Consensus 160 ~~~~v~~~Sa~~g~gi~~l~~~l~~~l 186 (189)
T cd00881 160 LLVPIVPGSALTGIGVEELLEAIVEHL 186 (189)
T ss_pred CcceEEEEecccCcCHHHHHHHHHhhC
Confidence 357799999999999999999888765
No 143
>TIGR00073 hypB hydrogenase accessory protein HypB. HypB is implicated in insertion of nickel into the large subunit of NiFe hydrogenases.
Probab=97.26 E-value=0.00081 Score=36.68 Aligned_cols=24 Identities=13% Similarity=0.171 Sum_probs=22.0
Q ss_pred CCeEEcccCCCCCHHHHHHHHHHH
Q 035388 10 IPFLETSAKDAINVEQAFLTMAGE 33 (66)
Q Consensus 10 ~~~~etSAkt~~~v~~~F~~l~~~ 33 (66)
.+++++||++|.||+++|..+.+.
T Consensus 182 ~~i~~~Sa~~g~gv~~l~~~i~~~ 205 (207)
T TIGR00073 182 AEIILMSLKTGEGLDEWLEFLEGQ 205 (207)
T ss_pred CCEEEEECCCCCCHHHHHHHHHHh
Confidence 789999999999999999988764
No 144
>PRK00454 engB GTP-binding protein YsxC; Reviewed
Probab=97.20 E-value=0.00077 Score=35.93 Aligned_cols=26 Identities=8% Similarity=-0.019 Sum_probs=22.9
Q ss_pred CCCeEEcccCCCCCHHHHHHHHHHHH
Q 035388 9 GIPFLETSAKDAINVEQAFLTMAGEI 34 (66)
Q Consensus 9 ~~~~~etSAkt~~~v~~~F~~l~~~i 34 (66)
...++++||+++.|++++|..|+..+
T Consensus 168 ~~~~~~~Sa~~~~gi~~l~~~i~~~~ 193 (196)
T PRK00454 168 DDEVILFSSLKKQGIDELRAAIAKWL 193 (196)
T ss_pred CCceEEEEcCCCCCHHHHHHHHHHHh
Confidence 57899999999999999999887654
No 145
>cd01887 IF2_eIF5B IF2/eIF5B (initiation factors 2/ eukaryotic initiation factor 5B) subfamily. IF2/eIF5B contribute to ribosomal subunit joining and function as GTPases that are maximally activated by the presence of both ribosomal subunits. As seen in other GTPases, IF2/IF5B undergoes conformational changes between its GTP- and GDP-bound states. Eukaryotic IF2/eIF5Bs possess three characteristic segments, including a divergent N-terminal region followed by conserved central and C-terminal segments. This core region is conserved among all known eukaryotic and archaeal IF2/eIF5Bs and eubacterial IF2s.
Probab=97.19 E-value=0.00059 Score=35.34 Aligned_cols=25 Identities=16% Similarity=0.166 Sum_probs=22.2
Q ss_pred CCeEEcccCCCCCHHHHHHHHHHHH
Q 035388 10 IPFLETSAKDAINVEQAFLTMAGEI 34 (66)
Q Consensus 10 ~~~~etSAkt~~~v~~~F~~l~~~i 34 (66)
.+++++||++|.||+++|..|++..
T Consensus 141 ~~~~~~Sa~~~~gi~~l~~~l~~~~ 165 (168)
T cd01887 141 VQIVPTSAKTGEGIDDLLEAILLLA 165 (168)
T ss_pred CcEEEeecccCCCHHHHHHHHHHhh
Confidence 5799999999999999999887653
No 146
>cd04159 Arl10_like Arl10-like subfamily. Arl9/Arl10 was identified from a human cancer-derived EST dataset. No functional information about the subfamily is available at the current time, but crystal structures of human Arl10b and Arl10c have been solved.
Probab=97.17 E-value=0.00039 Score=35.37 Aligned_cols=23 Identities=13% Similarity=0.192 Sum_probs=20.8
Q ss_pred CCeEEcccCCCCCHHHHHHHHHH
Q 035388 10 IPFLETSAKDAINVEQAFLTMAG 32 (66)
Q Consensus 10 ~~~~etSAkt~~~v~~~F~~l~~ 32 (66)
.+++++||++|.||+++|..|++
T Consensus 136 ~~~~~~Sa~~~~gi~~l~~~l~~ 158 (159)
T cd04159 136 VSCYSISCKEKTNIDIVLDWLIK 158 (159)
T ss_pred eEEEEEEeccCCChHHHHHHHhh
Confidence 56899999999999999998865
No 147
>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=97.14 E-value=0.00069 Score=40.40 Aligned_cols=27 Identities=15% Similarity=0.081 Sum_probs=23.6
Q ss_pred CCCeEEcccCCCCCHHHHHHHHHHHHH
Q 035388 9 GIPFLETSAKDAINVEQAFLTMAGEIK 35 (66)
Q Consensus 9 ~~~~~etSAkt~~~v~~~F~~l~~~i~ 35 (66)
.++++++||++|.||+++|..+.+...
T Consensus 318 ~~~vi~~SA~~g~~v~~l~~~i~~~~~ 344 (429)
T TIGR03594 318 FAPIVFISALTGQGVDKLLDAIDEVYE 344 (429)
T ss_pred CCceEEEeCCCCCCHHHHHHHHHHHHH
Confidence 368999999999999999999887654
No 148
>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=97.11 E-value=0.00075 Score=34.39 Aligned_cols=27 Identities=19% Similarity=0.209 Sum_probs=23.2
Q ss_pred hCCCeEEcccCCCCCHHHHHHHHHHHH
Q 035388 8 LGIPFLETSAKDAINVEQAFLTMAGEI 34 (66)
Q Consensus 8 ~~~~~~etSAkt~~~v~~~F~~l~~~i 34 (66)
.+.+++++||+++.||++++..|...+
T Consensus 130 ~~~~~~~~Sa~~~~~v~~l~~~l~~~~ 156 (157)
T cd04164 130 AGKPIIAISAKTGEGLDELKEALLELA 156 (157)
T ss_pred CCCceEEEECCCCCCHHHHHHHHHHhh
Confidence 356899999999999999999887653
No 149
>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=97.09 E-value=0.00041 Score=36.16 Aligned_cols=26 Identities=15% Similarity=0.129 Sum_probs=22.6
Q ss_pred hCCCeEEcccCCCCCHHHHHHHHHHH
Q 035388 8 LGIPFLETSAKDAINVEQAFLTMAGE 33 (66)
Q Consensus 8 ~~~~~~etSAkt~~~v~~~F~~l~~~ 33 (66)
.+..++++||+++.||+++|..+++.
T Consensus 150 ~~~~~~~~Sa~~~~gl~~l~~~l~~~ 175 (176)
T cd01881 150 EGAEVVPISAKTEEGLDELIRAIYEL 175 (176)
T ss_pred CCCCEEEEehhhhcCHHHHHHHHHhh
Confidence 45679999999999999999988754
No 150
>PRK15494 era GTPase Era; Provisional
Probab=97.07 E-value=0.00066 Score=39.76 Aligned_cols=27 Identities=15% Similarity=0.124 Sum_probs=23.5
Q ss_pred CCeEEcccCCCCCHHHHHHHHHHHHHH
Q 035388 10 IPFLETSAKDAINVEQAFLTMAGEIKK 36 (66)
Q Consensus 10 ~~~~etSAkt~~~v~~~F~~l~~~i~~ 36 (66)
..+|++||++|.||+++|..|+..+..
T Consensus 191 ~~i~~iSAktg~gv~eL~~~L~~~l~~ 217 (339)
T PRK15494 191 SLLFPISALSGKNIDGLLEYITSKAKI 217 (339)
T ss_pred cEEEEEeccCccCHHHHHHHHHHhCCC
Confidence 468999999999999999999877653
No 151
>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=97.07 E-value=0.0015 Score=34.61 Aligned_cols=29 Identities=17% Similarity=0.447 Sum_probs=24.7
Q ss_pred HHHHHHhCCCeEEcccCCCCCHHHHHHHH
Q 035388 2 QAFADELGIPFLETSAKDAINVEQAFLTM 30 (66)
Q Consensus 2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l 30 (66)
+.+++..+++.+.+||+++.|+++++..+
T Consensus 128 ~~Ls~~Lg~pvi~~sa~~~~g~~~L~~~I 156 (156)
T PF02421_consen 128 EKLSERLGVPVIPVSARTGEGIDELKDAI 156 (156)
T ss_dssp HHHHHHHTS-EEEEBTTTTBTHHHHHHHH
T ss_pred HHHHHHhCCCEEEEEeCCCcCHHHHHhhC
Confidence 46788899999999999999999998764
No 152
>cd01896 DRG The developmentally regulated GTP-binding protein (DRG) subfamily is an uncharacterized member of the Obg family, an evolutionary branch of GTPase superfamily proteins. GTPases act as molecular switches regulating diverse cellular processes. DRG2 and DRG1 comprise the DRG subfamily in eukaryotes. In view of their widespread expression in various tissues and high conservation among distantly related species in eukaryotes and archaea, DRG proteins may regulate fundamental cellular processes. It is proposed that the DRG subfamily proteins play their physiological roles through RNA binding.
Probab=97.04 E-value=0.001 Score=37.06 Aligned_cols=25 Identities=12% Similarity=0.110 Sum_probs=22.2
Q ss_pred CCeEEcccCCCCCHHHHHHHHHHHH
Q 035388 10 IPFLETSAKDAINVEQAFLTMAGEI 34 (66)
Q Consensus 10 ~~~~etSAkt~~~v~~~F~~l~~~i 34 (66)
..++++||++|.||+++|..+.+.+
T Consensus 201 ~~~~~~SA~~g~gi~~l~~~i~~~L 225 (233)
T cd01896 201 PNSVVISAEKGLNLDELKERIWDKL 225 (233)
T ss_pred CCEEEEcCCCCCCHHHHHHHHHHHh
Confidence 4589999999999999999998754
No 153
>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=97.00 E-value=0.0018 Score=33.44 Aligned_cols=24 Identities=21% Similarity=0.225 Sum_probs=21.4
Q ss_pred CCeEEcccCCCCCHHHHHHHHHHH
Q 035388 10 IPFLETSAKDAINVEQAFLTMAGE 33 (66)
Q Consensus 10 ~~~~etSAkt~~~v~~~F~~l~~~ 33 (66)
.+++++||+++.||+++|..+.+.
T Consensus 150 ~~~~~~Sa~~~~~i~~~~~~l~~~ 173 (174)
T cd01895 150 APIVFISALTGQGVDKLFDAIDEV 173 (174)
T ss_pred CceEEEeccCCCCHHHHHHHHHHh
Confidence 679999999999999999988753
No 154
>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=96.93 E-value=0.0018 Score=40.66 Aligned_cols=33 Identities=18% Similarity=0.366 Sum_probs=26.6
Q ss_pred HHHHHhCCC---eEEcccCCCCCHHHHHHHHHHHHH
Q 035388 3 AFADELGIP---FLETSAKDAINVEQAFLTMAGEIK 35 (66)
Q Consensus 3 ~~a~~~~~~---~~etSAkt~~~v~~~F~~l~~~i~ 35 (66)
++++.+++. ++++||++|.||+++|..|++.+.
T Consensus 145 el~~~lg~~~~~vi~vSAktG~GI~~Lle~I~~~lp 180 (595)
T TIGR01393 145 EIEEVIGLDASEAILASAKTGIGIEEILEAIVKRVP 180 (595)
T ss_pred HHHHHhCCCcceEEEeeccCCCCHHHHHHHHHHhCC
Confidence 455556653 799999999999999999988764
No 155
>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=96.89 E-value=0.0019 Score=36.64 Aligned_cols=25 Identities=12% Similarity=-0.044 Sum_probs=22.2
Q ss_pred CeEEcccCCCCCHHHHHHHHHHHHH
Q 035388 11 PFLETSAKDAINVEQAFLTMAGEIK 35 (66)
Q Consensus 11 ~~~etSAkt~~~v~~~F~~l~~~i~ 35 (66)
.+|.+||++|.||++++..|.+.+.
T Consensus 140 ~v~~iSA~~g~gi~~L~~~l~~~l~ 164 (270)
T TIGR00436 140 DIVPISALTGDNTSFLAAFIEVHLP 164 (270)
T ss_pred ceEEEecCCCCCHHHHHHHHHHhCC
Confidence 6899999999999999998877653
No 156
>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=96.83 E-value=0.0036 Score=33.59 Aligned_cols=25 Identities=24% Similarity=0.174 Sum_probs=22.2
Q ss_pred CeEEcccCCCCCHHHHHHHHHHHHH
Q 035388 11 PFLETSAKDAINVEQAFLTMAGEIK 35 (66)
Q Consensus 11 ~~~etSAkt~~~v~~~F~~l~~~i~ 35 (66)
.+|.+||++|.||+++|..|.+.+.
T Consensus 101 ~i~~vSA~~~~gi~eL~~~l~~~l~ 125 (190)
T cd01855 101 DVILISAKKGWGVEELINAIKKLAK 125 (190)
T ss_pred cEEEEECCCCCCHHHHHHHHHHHhh
Confidence 5899999999999999999987653
No 157
>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=96.79 E-value=0.0013 Score=33.08 Aligned_cols=26 Identities=19% Similarity=0.344 Sum_probs=22.7
Q ss_pred hCCCeEEcccCCCCCHHHHHHHHHHH
Q 035388 8 LGIPFLETSAKDAINVEQAFLTMAGE 33 (66)
Q Consensus 8 ~~~~~~etSAkt~~~v~~~F~~l~~~ 33 (66)
.+.+++++||+++.||++++..+.+.
T Consensus 137 ~~~~~~~~sa~~~~~v~~l~~~l~~~ 162 (163)
T cd00880 137 LGLPVIAVSALTGEGIDELREALIEA 162 (163)
T ss_pred cCCceEEEeeeccCCHHHHHHHHHhh
Confidence 35789999999999999999988764
No 158
>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=96.78 E-value=0.0024 Score=31.69 Aligned_cols=27 Identities=56% Similarity=0.829 Sum_probs=22.8
Q ss_pred HHHhCCCeEEcccCCCCCHHHHHHHHH
Q 035388 5 ADELGIPFLETSAKDAINVEQAFLTMA 31 (66)
Q Consensus 5 a~~~~~~~~etSAkt~~~v~~~F~~l~ 31 (66)
......+++++||+++.|++++|..|+
T Consensus 130 ~~~~~~~~~~~s~~~~~~i~~~~~~l~ 156 (157)
T cd00882 130 AKELGVPYFETSAKTGENVEELFEELA 156 (157)
T ss_pred HhhcCCcEEEEecCCCCChHHHHHHHh
Confidence 334468899999999999999998875
No 159
>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=96.77 E-value=0.0034 Score=37.15 Aligned_cols=30 Identities=23% Similarity=0.321 Sum_probs=24.6
Q ss_pred HHHHhCC---CeEEcccCCCCCHHHHHHHHHHH
Q 035388 4 FADELGI---PFLETSAKDAINVEQAFLTMAGE 33 (66)
Q Consensus 4 ~a~~~~~---~~~etSAkt~~~v~~~F~~l~~~ 33 (66)
+++.+++ .++++||++|.||+++|..|.+.
T Consensus 119 ~~k~~g~~~~~i~~vSAk~g~gv~eL~~~l~~~ 151 (360)
T TIGR03597 119 RAKELGLKPVDIILVSAKKGNGIDELLDKIKKA 151 (360)
T ss_pred HHHHcCCCcCcEEEecCCCCCCHHHHHHHHHHH
Confidence 4566676 48999999999999999988653
No 160
>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=96.75 E-value=0.0038 Score=32.41 Aligned_cols=28 Identities=29% Similarity=0.285 Sum_probs=24.1
Q ss_pred hCCCeEEcccCCCCCHHHHHHHHHHHHH
Q 035388 8 LGIPFLETSAKDAINVEQAFLTMAGEIK 35 (66)
Q Consensus 8 ~~~~~~etSAkt~~~v~~~F~~l~~~i~ 35 (66)
.+.+++.+||+++.|+++++..+.+.+.
T Consensus 69 ~~~~~~~iSa~~~~gi~~L~~~l~~~~~ 96 (156)
T cd01859 69 EGIPVVYVSAKERLGTKILRRTIKELAK 96 (156)
T ss_pred CCCcEEEEEccccccHHHHHHHHHHHHh
Confidence 4567899999999999999999887664
No 161
>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=96.71 E-value=0.0027 Score=31.95 Aligned_cols=22 Identities=32% Similarity=0.543 Sum_probs=19.6
Q ss_pred CCCeEEcccCCCCCHHHHHHHH
Q 035388 9 GIPFLETSAKDAINVEQAFLTM 30 (66)
Q Consensus 9 ~~~~~etSAkt~~~v~~~F~~l 30 (66)
..+++++||++|.||+++|..|
T Consensus 138 ~~~~~~~sa~~~~gv~~~~~~l 159 (161)
T TIGR00231 138 GEPIIPLSAETGKNIDSAFKIV 159 (161)
T ss_pred CCceEEeecCCCCCHHHHHHHh
Confidence 4679999999999999999865
No 162
>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=96.68 E-value=0.0036 Score=38.05 Aligned_cols=35 Identities=14% Similarity=0.109 Sum_probs=29.1
Q ss_pred HHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHHHh
Q 035388 3 AFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKM 38 (66)
Q Consensus 3 ~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~~~ 38 (66)
.+++.++.+++++|||+ .||+++|..|.+.+.+..
T Consensus 329 ~~~~~~~~~~~~vSak~-~gI~~~~~~L~~~i~~~~ 363 (442)
T TIGR00450 329 FFVSSKVLNSSNLSAKQ-LKIKALVDLLTQKINAFY 363 (442)
T ss_pred hhhhhcCCceEEEEEec-CCHHHHHHHHHHHHHHHh
Confidence 45666778899999998 699999999999887643
No 163
>PRK12296 obgE GTPase CgtA; Reviewed
Probab=96.62 E-value=0.0053 Score=37.96 Aligned_cols=30 Identities=20% Similarity=0.300 Sum_probs=26.1
Q ss_pred hCCCeEEcccCCCCCHHHHHHHHHHHHHHH
Q 035388 8 LGIPFLETSAKDAINVEQAFLTMAGEIKKK 37 (66)
Q Consensus 8 ~~~~~~etSAkt~~~v~~~F~~l~~~i~~~ 37 (66)
.+.++|++||+++.||++++..|++.+...
T Consensus 313 ~g~~Vf~ISA~tgeGLdEL~~~L~ell~~~ 342 (500)
T PRK12296 313 RGWPVFEVSAASREGLRELSFALAELVEEA 342 (500)
T ss_pred cCCeEEEEECCCCCCHHHHHHHHHHHHHhh
Confidence 467899999999999999999998887553
No 164
>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=96.37 E-value=0.0058 Score=31.15 Aligned_cols=24 Identities=17% Similarity=0.137 Sum_probs=21.6
Q ss_pred CCeEEcccCCCCCHHHHHHHHHHH
Q 035388 10 IPFLETSAKDAINVEQAFLTMAGE 33 (66)
Q Consensus 10 ~~~~etSAkt~~~v~~~F~~l~~~ 33 (66)
.+++++|++++.+++++|..|.+.
T Consensus 144 ~~~~~~s~~~~~~~~~l~~~l~~~ 167 (168)
T cd04163 144 AEIFPISALKGENVDELLEEIVKY 167 (168)
T ss_pred CceEEEEeccCCChHHHHHHHHhh
Confidence 678999999999999999988764
No 165
>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=96.35 E-value=0.0037 Score=36.92 Aligned_cols=24 Identities=17% Similarity=0.065 Sum_probs=20.9
Q ss_pred CCeEEcccCCCCCHHHHHHHHHHH
Q 035388 10 IPFLETSAKDAINVEQAFLTMAGE 33 (66)
Q Consensus 10 ~~~~etSAkt~~~v~~~F~~l~~~ 33 (66)
.+++++||++|.||+++|..|.+.
T Consensus 327 ~~~i~iSAktg~GI~eL~~~I~~~ 350 (351)
T TIGR03156 327 PEAVFVSAKTGEGLDLLLEAIAER 350 (351)
T ss_pred CCEEEEEccCCCCHHHHHHHHHhh
Confidence 458999999999999999988654
No 166
>PRK00093 GTP-binding protein Der; Reviewed
Probab=96.30 E-value=0.0078 Score=36.14 Aligned_cols=27 Identities=15% Similarity=0.134 Sum_probs=23.0
Q ss_pred CCCeEEcccCCCCCHHHHHHHHHHHHH
Q 035388 9 GIPFLETSAKDAINVEQAFLTMAGEIK 35 (66)
Q Consensus 9 ~~~~~etSAkt~~~v~~~F~~l~~~i~ 35 (66)
.++++++||++|.||+++|..+.+...
T Consensus 318 ~~~i~~~SA~~~~gv~~l~~~i~~~~~ 344 (435)
T PRK00093 318 YAPIVFISALTGQGVDKLLEAIDEAYE 344 (435)
T ss_pred CCCEEEEeCCCCCCHHHHHHHHHHHHH
Confidence 368999999999999999998876543
No 167
>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=96.28 E-value=0.0042 Score=33.14 Aligned_cols=23 Identities=9% Similarity=0.055 Sum_probs=20.4
Q ss_pred CeEEcccCCCCCHHHHHHHHHHH
Q 035388 11 PFLETSAKDAINVEQAFLTMAGE 33 (66)
Q Consensus 11 ~~~etSAkt~~~v~~~F~~l~~~ 33 (66)
.++++||++|.|++++|.-|...
T Consensus 161 ~i~~~Sa~~~~g~~~~~~wl~~~ 183 (184)
T smart00178 161 EVFMCSVVRRMGYGEGFKWLSQY 183 (184)
T ss_pred EEEEeecccCCChHHHHHHHHhh
Confidence 48999999999999999988654
No 168
>TIGR00475 selB selenocysteine-specific elongation factor SelB. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several elements: SelC is the tRNA itself, SelD acts as a donor of reduced selenium, SelA modifies a serine residue on SelC into selenocysteine, and SelB is a selenocysteine-specific translation elongation factor. 3-prime or 5-prime non-coding elements of mRNA have been found as probable structures for directing selenocysteine incorporation. This model describes the elongation factor SelB, a close homolog rf EF-Tu. It may function by replacing EF-Tu. A C-terminal domain not found in EF-Tu is in all SelB sequences in the seed alignment except that from Methanococcus jannaschii. This model does not find an equivalent protein for eukaryotes.
Probab=96.25 E-value=0.0086 Score=37.59 Aligned_cols=28 Identities=14% Similarity=0.167 Sum_probs=23.8
Q ss_pred CCCeEEcccCCCCCHHHHHHHHHHHHHH
Q 035388 9 GIPFLETSAKDAINVEQAFLTMAGEIKK 36 (66)
Q Consensus 9 ~~~~~etSAkt~~~v~~~F~~l~~~i~~ 36 (66)
+.+++++||++|.||+++|..+...+-.
T Consensus 140 ~~~ii~vSA~tG~GI~eL~~~L~~l~~~ 167 (581)
T TIGR00475 140 NAKIFKTSAKTGQGIGELKKELKNLLES 167 (581)
T ss_pred CCcEEEEeCCCCCCchhHHHHHHHHHHh
Confidence 4789999999999999999988766543
No 169
>PRK04000 translation initiation factor IF-2 subunit gamma; Validated
Probab=96.23 E-value=0.0052 Score=36.97 Aligned_cols=27 Identities=22% Similarity=0.394 Sum_probs=23.4
Q ss_pred CCCeEEcccCCCCCHHHHHHHHHHHHH
Q 035388 9 GIPFLETSAKDAINVEQAFLTMAGEIK 35 (66)
Q Consensus 9 ~~~~~etSAkt~~~v~~~F~~l~~~i~ 35 (66)
+.+++.+||++|.||+++|..|...+.
T Consensus 175 ~~~ii~vSA~~g~gI~~L~~~L~~~l~ 201 (411)
T PRK04000 175 NAPIIPVSALHKVNIDALIEAIEEEIP 201 (411)
T ss_pred CCeEEEEECCCCcCHHHHHHHHHHhCC
Confidence 467999999999999999999887653
No 170
>PRK05306 infB translation initiation factor IF-2; Validated
Probab=96.21 E-value=0.0049 Score=39.97 Aligned_cols=24 Identities=17% Similarity=0.221 Sum_probs=21.5
Q ss_pred CCeEEcccCCCCCHHHHHHHHHHH
Q 035388 10 IPFLETSAKDAINVEQAFLTMAGE 33 (66)
Q Consensus 10 ~~~~etSAkt~~~v~~~F~~l~~~ 33 (66)
++|+++||++|.||+++|..|...
T Consensus 427 vp~vpvSAktG~GI~eLle~I~~~ 450 (787)
T PRK05306 427 TIFVPVSAKTGEGIDELLEAILLQ 450 (787)
T ss_pred ceEEEEeCCCCCCchHHHHhhhhh
Confidence 679999999999999999988753
No 171
>PRK00098 GTPase RsgA; Reviewed
Probab=96.20 E-value=0.0069 Score=34.99 Aligned_cols=28 Identities=29% Similarity=0.364 Sum_probs=23.3
Q ss_pred HHHhCCCeEEcccCCCCCHHHHHHHHHH
Q 035388 5 ADELGIPFLETSAKDAINVEQAFLTMAG 32 (66)
Q Consensus 5 a~~~~~~~~etSAkt~~~v~~~F~~l~~ 32 (66)
.+..+++++.+||+++.||+++|..+..
T Consensus 137 ~~~~g~~v~~vSA~~g~gi~~L~~~l~g 164 (298)
T PRK00098 137 YRAIGYDVLELSAKEGEGLDELKPLLAG 164 (298)
T ss_pred HHHCCCeEEEEeCCCCccHHHHHhhccC
Confidence 3455788999999999999999987754
No 172
>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=96.19 E-value=0.0094 Score=31.25 Aligned_cols=28 Identities=18% Similarity=0.237 Sum_probs=21.8
Q ss_pred HHHHHhCCC-eEEcccCCCCCHHHHHHHH
Q 035388 3 AFADELGIP-FLETSAKDAINVEQAFLTM 30 (66)
Q Consensus 3 ~~a~~~~~~-~~etSAkt~~~v~~~F~~l 30 (66)
+|-+..|+. .|++||.+|+||+++...|
T Consensus 113 ~~L~~aG~~~if~vS~~~~eGi~eL~~~L 141 (143)
T PF10662_consen 113 KWLKNAGVKEIFEVSAVTGEGIEELKDYL 141 (143)
T ss_pred HHHHHcCCCCeEEEECCCCcCHHHHHHHH
Confidence 344555643 6999999999999998766
No 173
>PRK05291 trmE tRNA modification GTPase TrmE; Reviewed
Probab=96.17 E-value=0.007 Score=36.83 Aligned_cols=28 Identities=18% Similarity=0.181 Sum_probs=24.6
Q ss_pred CCCeEEcccCCCCCHHHHHHHHHHHHHH
Q 035388 9 GIPFLETSAKDAINVEQAFLTMAGEIKK 36 (66)
Q Consensus 9 ~~~~~etSAkt~~~v~~~F~~l~~~i~~ 36 (66)
+.+++++||++|.||+++|..|.+.+..
T Consensus 344 ~~~~i~iSAktg~GI~~L~~~L~~~l~~ 371 (449)
T PRK05291 344 GKPVIRISAKTGEGIDELREAIKELAFG 371 (449)
T ss_pred CCceEEEEeeCCCCHHHHHHHHHHHHhh
Confidence 4578999999999999999999888754
No 174
>PRK03003 GTP-binding protein Der; Reviewed
Probab=96.14 E-value=0.0045 Score=37.75 Aligned_cols=25 Identities=12% Similarity=0.008 Sum_probs=22.6
Q ss_pred eEEcccCCCCCHHHHHHHHHHHHHH
Q 035388 12 FLETSAKDAINVEQAFLTMAGEIKK 36 (66)
Q Consensus 12 ~~etSAkt~~~v~~~F~~l~~~i~~ 36 (66)
.+++||++|.||+++|..|+..+.+
T Consensus 176 ~~~iSA~~g~gi~eL~~~i~~~l~~ 200 (472)
T PRK03003 176 PHPVSALHGRGVGDLLDAVLAALPE 200 (472)
T ss_pred eEEEEcCCCCCcHHHHHHHHhhccc
Confidence 5799999999999999999988754
No 175
>PRK12288 GTPase RsgA; Reviewed
Probab=96.11 E-value=0.0079 Score=35.60 Aligned_cols=27 Identities=19% Similarity=0.306 Sum_probs=23.5
Q ss_pred HhCCCeEEcccCCCCCHHHHHHHHHHH
Q 035388 7 ELGIPFLETSAKDAINVEQAFLTMAGE 33 (66)
Q Consensus 7 ~~~~~~~etSAkt~~~v~~~F~~l~~~ 33 (66)
..+.++|++||+++.||+++|..|...
T Consensus 180 ~~g~~v~~vSA~tg~GideL~~~L~~k 206 (347)
T PRK12288 180 NIGYRVLMVSSHTGEGLEELEAALTGR 206 (347)
T ss_pred hCCCeEEEEeCCCCcCHHHHHHHHhhC
Confidence 456889999999999999999888754
No 176
>KOG1673 consensus Ras GTPases [General function prediction only]
Probab=96.11 E-value=0.015 Score=31.30 Aligned_cols=35 Identities=17% Similarity=0.328 Sum_probs=31.6
Q ss_pred HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHH
Q 035388 2 QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKK 36 (66)
Q Consensus 2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~ 36 (66)
+.||+-.++..|.+|+--+.||..+|..+.-+++.
T Consensus 153 r~YAk~mnAsL~F~Sts~sINv~KIFK~vlAklFn 187 (205)
T KOG1673|consen 153 RKYAKVMNASLFFCSTSHSINVQKIFKIVLAKLFN 187 (205)
T ss_pred HHHHHHhCCcEEEeeccccccHHHHHHHHHHHHhC
Confidence 56899999999999999999999999988888765
No 177
>PRK11058 GTPase HflX; Provisional
Probab=96.10 E-value=0.0092 Score=36.20 Aligned_cols=28 Identities=14% Similarity=0.189 Sum_probs=24.0
Q ss_pred CCC-eEEcccCCCCCHHHHHHHHHHHHHH
Q 035388 9 GIP-FLETSAKDAINVEQAFLTMAGEIKK 36 (66)
Q Consensus 9 ~~~-~~etSAkt~~~v~~~F~~l~~~i~~ 36 (66)
+.+ ++++||++|.||+++|..|...+..
T Consensus 335 ~~~~~v~ISAktG~GIdeL~e~I~~~l~~ 363 (426)
T PRK11058 335 NKPIRVWLSAQTGAGIPLLFQALTERLSG 363 (426)
T ss_pred CCCceEEEeCCCCCCHHHHHHHHHHHhhh
Confidence 445 4899999999999999999988754
No 178
>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=96.10 E-value=0.0078 Score=30.78 Aligned_cols=25 Identities=8% Similarity=0.033 Sum_probs=22.0
Q ss_pred CCCeEEcccCCCCCHHHHHHHHHHH
Q 035388 9 GIPFLETSAKDAINVEQAFLTMAGE 33 (66)
Q Consensus 9 ~~~~~etSAkt~~~v~~~F~~l~~~ 33 (66)
..+++.+||+++.++++++..|.+.
T Consensus 145 ~~~~~~~Sa~~~~~~~~l~~~l~~~ 169 (170)
T cd01876 145 DPPIILFSSLKGQGIDELRALIEKW 169 (170)
T ss_pred CCceEEEecCCCCCHHHHHHHHHHh
Confidence 3578999999999999999988764
No 179
>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=96.02 E-value=0.013 Score=31.14 Aligned_cols=25 Identities=20% Similarity=0.233 Sum_probs=21.9
Q ss_pred CCeEEcccCCCCCHHHHHHHHHHHH
Q 035388 10 IPFLETSAKDAINVEQAFLTMAGEI 34 (66)
Q Consensus 10 ~~~~etSAkt~~~v~~~F~~l~~~i 34 (66)
...+.+||++|.||.+.|.-|.+.|
T Consensus 151 ~~v~~~sa~~g~Gv~e~l~WL~~~~ 175 (175)
T PF00025_consen 151 WSVFSCSAKTGEGVDEGLEWLIEQI 175 (175)
T ss_dssp EEEEEEBTTTTBTHHHHHHHHHHHH
T ss_pred eEEEeeeccCCcCHHHHHHHHHhcC
Confidence 4578999999999999999988765
No 180
>PRK05433 GTP-binding protein LepA; Provisional
Probab=96.00 E-value=0.015 Score=36.70 Aligned_cols=32 Identities=28% Similarity=0.416 Sum_probs=25.7
Q ss_pred HHHHhCCC---eEEcccCCCCCHHHHHHHHHHHHH
Q 035388 4 FADELGIP---FLETSAKDAINVEQAFLTMAGEIK 35 (66)
Q Consensus 4 ~a~~~~~~---~~etSAkt~~~v~~~F~~l~~~i~ 35 (66)
+.+..++. ++.+||++|.||+++|..|++.+.
T Consensus 150 i~~~lg~~~~~vi~iSAktG~GI~~Ll~~I~~~lp 184 (600)
T PRK05433 150 IEDVIGIDASDAVLVSAKTGIGIEEVLEAIVERIP 184 (600)
T ss_pred HHHHhCCCcceEEEEecCCCCCHHHHHHHHHHhCc
Confidence 34444554 899999999999999999988765
No 181
>CHL00189 infB translation initiation factor 2; Provisional
Probab=95.99 E-value=0.0091 Score=38.58 Aligned_cols=24 Identities=21% Similarity=0.300 Sum_probs=21.8
Q ss_pred CCeEEcccCCCCCHHHHHHHHHHH
Q 035388 10 IPFLETSAKDAINVEQAFLTMAGE 33 (66)
Q Consensus 10 ~~~~etSAkt~~~v~~~F~~l~~~ 33 (66)
++++++||++|.||+++|..|+..
T Consensus 385 vpvv~VSAktG~GIdeLle~I~~l 408 (742)
T CHL00189 385 TPMIPISASQGTNIDKLLETILLL 408 (742)
T ss_pred ceEEEEECCCCCCHHHHHHhhhhh
Confidence 679999999999999999988765
No 182
>PRK12298 obgE GTPase CgtA; Reviewed
Probab=95.95 E-value=0.024 Score=34.11 Aligned_cols=27 Identities=19% Similarity=0.191 Sum_probs=24.1
Q ss_pred CCeEEcccCCCCCHHHHHHHHHHHHHH
Q 035388 10 IPFLETSAKDAINVEQAFLTMAGEIKK 36 (66)
Q Consensus 10 ~~~~etSAkt~~~v~~~F~~l~~~i~~ 36 (66)
..++.+||+++.||++++..|++.+.+
T Consensus 308 ~~Vi~ISA~tg~GIdeLl~~I~~~L~~ 334 (390)
T PRK12298 308 GPVYLISAASGLGVKELCWDLMTFIEE 334 (390)
T ss_pred CCEEEEECCCCcCHHHHHHHHHHHhhh
Confidence 368999999999999999999988765
No 183
>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=95.88 E-value=0.0078 Score=37.88 Aligned_cols=23 Identities=13% Similarity=0.079 Sum_probs=20.6
Q ss_pred CCeEEcccCCCCCHHHHHHHHHH
Q 035388 10 IPFLETSAKDAINVEQAFLTMAG 32 (66)
Q Consensus 10 ~~~~etSAkt~~~v~~~F~~l~~ 32 (66)
.+|+++||++|.||+++|..++.
T Consensus 225 ~~~v~iSAktGeGI~eLl~~I~~ 247 (587)
T TIGR00487 225 TIFVPVSALTGDGIDELLDMILL 247 (587)
T ss_pred ceEEEEECCCCCChHHHHHhhhh
Confidence 46999999999999999998864
No 184
>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=95.87 E-value=0.0099 Score=35.70 Aligned_cols=27 Identities=19% Similarity=0.263 Sum_probs=23.4
Q ss_pred CCCeEEcccCCCCCHHHHHHHHHHHHH
Q 035388 9 GIPFLETSAKDAINVEQAFLTMAGEIK 35 (66)
Q Consensus 9 ~~~~~etSAkt~~~v~~~F~~l~~~i~ 35 (66)
+++++.+||++|.||++++..|...+.
T Consensus 170 ~~~ii~vSA~~g~gi~~L~e~L~~~l~ 196 (406)
T TIGR03680 170 NAPIIPVSALHNANIDALLEAIEKFIP 196 (406)
T ss_pred CCeEEEEECCCCCChHHHHHHHHHhCC
Confidence 467999999999999999999887653
No 185
>COG0481 LepA Membrane GTPase LepA [Cell envelope biogenesis, outer membrane]
Probab=95.86 E-value=0.0072 Score=37.54 Aligned_cols=24 Identities=25% Similarity=0.325 Sum_probs=21.6
Q ss_pred eEEcccCCCCCHHHHHHHHHHHHH
Q 035388 12 FLETSAKDAINVEQAFLTMAGEIK 35 (66)
Q Consensus 12 ~~etSAkt~~~v~~~F~~l~~~i~ 35 (66)
-+.+|||||.||+++...+++.|.
T Consensus 163 av~~SAKtG~gI~~iLe~Iv~~iP 186 (603)
T COG0481 163 AVLVSAKTGIGIEDVLEAIVEKIP 186 (603)
T ss_pred heeEecccCCCHHHHHHHHHhhCC
Confidence 688999999999999998888875
No 186
>PRK00089 era GTPase Era; Reviewed
Probab=95.86 E-value=0.019 Score=32.83 Aligned_cols=26 Identities=19% Similarity=0.153 Sum_probs=23.2
Q ss_pred CCeEEcccCCCCCHHHHHHHHHHHHH
Q 035388 10 IPFLETSAKDAINVEQAFLTMAGEIK 35 (66)
Q Consensus 10 ~~~~etSAkt~~~v~~~F~~l~~~i~ 35 (66)
..++.+||+++.|+++++..|.+.+.
T Consensus 146 ~~i~~iSA~~~~gv~~L~~~L~~~l~ 171 (292)
T PRK00089 146 AEIVPISALKGDNVDELLDVIAKYLP 171 (292)
T ss_pred CeEEEecCCCCCCHHHHHHHHHHhCC
Confidence 56899999999999999999888764
No 187
>PRK13796 GTPase YqeH; Provisional
Probab=95.84 E-value=0.021 Score=33.99 Aligned_cols=29 Identities=21% Similarity=0.321 Sum_probs=23.8
Q ss_pred HHHhCC---CeEEcccCCCCCHHHHHHHHHHH
Q 035388 5 ADELGI---PFLETSAKDAINVEQAFLTMAGE 33 (66)
Q Consensus 5 a~~~~~---~~~etSAkt~~~v~~~F~~l~~~ 33 (66)
++.+++ .++.+||+++.||+++|..+.+.
T Consensus 126 ~k~~g~~~~~v~~vSAk~g~gI~eL~~~I~~~ 157 (365)
T PRK13796 126 AKELGLRPVDVVLISAQKGHGIDELLEAIEKY 157 (365)
T ss_pred HHhcCCCcCcEEEEECCCCCCHHHHHHHHHHh
Confidence 455565 57999999999999999998654
No 188
>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=95.81 E-value=0.0083 Score=32.13 Aligned_cols=25 Identities=12% Similarity=0.272 Sum_probs=22.2
Q ss_pred CCeEEcccCCCCCHHHHHHHHHHHH
Q 035388 10 IPFLETSAKDAINVEQAFLTMAGEI 34 (66)
Q Consensus 10 ~~~~etSAkt~~~v~~~F~~l~~~i 34 (66)
.+++.+||++|.||++++..|++.+
T Consensus 162 ~~vi~~Sa~~g~gi~~Ll~~l~~~~ 186 (188)
T PF00009_consen 162 VPVIPISALTGDGIDELLEALVELL 186 (188)
T ss_dssp EEEEEEBTTTTBTHHHHHHHHHHHS
T ss_pred ceEEEEecCCCCCHHHHHHHHHHhC
Confidence 4699999999999999999888765
No 189
>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=95.55 E-value=0.02 Score=32.91 Aligned_cols=27 Identities=30% Similarity=0.368 Sum_probs=23.2
Q ss_pred HHhCCCeEEcccCCCCCHHHHHHHHHH
Q 035388 6 DELGIPFLETSAKDAINVEQAFLTMAG 32 (66)
Q Consensus 6 ~~~~~~~~etSAkt~~~v~~~F~~l~~ 32 (66)
...+.+++.+||+++.|+++++..|..
T Consensus 135 ~~~g~~v~~vSA~~g~gi~~L~~~L~~ 161 (287)
T cd01854 135 LALGYPVLAVSAKTGEGLDELREYLKG 161 (287)
T ss_pred HhCCCeEEEEECCCCccHHHHHhhhcc
Confidence 446788999999999999999988765
No 190
>PRK09518 bifunctional cytidylate kinase/GTPase Der; Reviewed
Probab=95.51 E-value=0.026 Score=36.23 Aligned_cols=27 Identities=15% Similarity=0.111 Sum_probs=23.1
Q ss_pred CCeEEcccCCCCCHHHHHHHHHHHHHH
Q 035388 10 IPFLETSAKDAINVEQAFLTMAGEIKK 36 (66)
Q Consensus 10 ~~~~etSAkt~~~v~~~F~~l~~~i~~ 36 (66)
.+.+.+||++|.||+++|..+++.+..
T Consensus 596 ~~ii~iSAktg~gv~~L~~~i~~~~~~ 622 (712)
T PRK09518 596 ARRVNLSAKTGWHTNRLAPAMQEALES 622 (712)
T ss_pred CCEEEEECCCCCCHHHHHHHHHHHHHH
Confidence 345899999999999999999887654
No 191
>PRK10512 selenocysteinyl-tRNA-specific translation factor; Provisional
Probab=95.48 E-value=0.027 Score=35.73 Aligned_cols=25 Identities=8% Similarity=0.020 Sum_probs=22.2
Q ss_pred CCeEEcccCCCCCHHHHHHHHHHHH
Q 035388 10 IPFLETSAKDAINVEQAFLTMAGEI 34 (66)
Q Consensus 10 ~~~~etSAkt~~~v~~~F~~l~~~i 34 (66)
.+++.+||++|.||++++..|....
T Consensus 141 ~~ii~VSA~tG~gI~~L~~~L~~~~ 165 (614)
T PRK10512 141 AKLFVTAATEGRGIDALREHLLQLP 165 (614)
T ss_pred CcEEEEeCCCCCCCHHHHHHHHHhh
Confidence 6799999999999999999887654
No 192
>KOG3905 consensus Dynein light intermediate chain [Cell motility]
Probab=95.45 E-value=0.03 Score=33.57 Aligned_cols=36 Identities=17% Similarity=0.220 Sum_probs=32.6
Q ss_pred HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHHH
Q 035388 2 QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKK 37 (66)
Q Consensus 2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~~ 37 (66)
+.||-++|...|.||+|+..||+-++..|+..++..
T Consensus 257 RkFCLr~GaaLiyTSvKE~KNidllyKYivhr~yG~ 292 (473)
T KOG3905|consen 257 RKFCLRYGAALIYTSVKETKNIDLLYKYIVHRSYGF 292 (473)
T ss_pred HHHHHHcCceeEEeecccccchHHHHHHHHHHhcCc
Confidence 568889999999999999999999999999988753
No 193
>KOG0096 consensus GTPase Ran/TC4/GSP1 (nuclear protein transport pathway), small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]
Probab=95.45 E-value=0.0049 Score=33.95 Aligned_cols=31 Identities=29% Similarity=0.444 Sum_probs=27.2
Q ss_pred HHhCCCeEEcccCCCCCHHHHHHHHHHHHHH
Q 035388 6 DELGIPFLETSAKDAINVEQAFLTMAGEIKK 36 (66)
Q Consensus 6 ~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~ 36 (66)
+..++.|+|.|||++.|++.-|.-+++.+..
T Consensus 140 rkknl~y~~iSaksn~NfekPFl~LarKl~G 170 (216)
T KOG0096|consen 140 RKKNLQYYEISAKSNYNFERPFLWLARKLTG 170 (216)
T ss_pred ecccceeEEeecccccccccchHHHhhhhcC
Confidence 3456789999999999999999999999864
No 194
>COG0378 HypB Ni2+-binding GTPase involved in regulation of expression and maturation of urease and hydrogenase [Posttranslational modification, protein turnover, chaperones / Transcription]
Probab=95.37 E-value=0.04 Score=30.48 Aligned_cols=25 Identities=12% Similarity=0.166 Sum_probs=21.0
Q ss_pred CCCeEEcccCCCCCHHHHHHHHHHH
Q 035388 9 GIPFLETSAKDAINVEQAFLTMAGE 33 (66)
Q Consensus 9 ~~~~~etSAkt~~~v~~~F~~l~~~ 33 (66)
+.++++||+|||.|++++...+...
T Consensus 175 ~~~ii~~n~ktg~G~~~~~~~i~~~ 199 (202)
T COG0378 175 EAPIIFTNLKTGEGLDEWLRFIEPQ 199 (202)
T ss_pred CCCEEEEeCCCCcCHHHHHHHHHhh
Confidence 3789999999999999997766543
No 195
>PRK12289 GTPase RsgA; Reviewed
Probab=95.29 E-value=0.026 Score=33.55 Aligned_cols=28 Identities=21% Similarity=0.261 Sum_probs=23.9
Q ss_pred HhCCCeEEcccCCCCCHHHHHHHHHHHH
Q 035388 7 ELGIPFLETSAKDAINVEQAFLTMAGEI 34 (66)
Q Consensus 7 ~~~~~~~etSAkt~~~v~~~F~~l~~~i 34 (66)
.+++.++.+||+++.||++++..|...+
T Consensus 147 ~~g~~v~~iSA~tg~GI~eL~~~L~~ki 174 (352)
T PRK12289 147 QWGYQPLFISVETGIGLEALLEQLRNKI 174 (352)
T ss_pred hcCCeEEEEEcCCCCCHHHHhhhhccce
Confidence 5678899999999999999998887543
No 196
>TIGR03594 GTPase_EngA ribosome-associated GTPase EngA. EngA (YfgK, Der) is a ribosome-associated essential GTPase with a duplication of its GTP-binding domain. It is broadly to universally distributed among bacteria. It appears to function in ribosome biogenesis or stability.
Probab=95.11 E-value=0.038 Score=33.14 Aligned_cols=30 Identities=13% Similarity=0.175 Sum_probs=25.0
Q ss_pred HhCC-CeEEcccCCCCCHHHHHHHHHHHHHH
Q 035388 7 ELGI-PFLETSAKDAINVEQAFLTMAGEIKK 36 (66)
Q Consensus 7 ~~~~-~~~etSAkt~~~v~~~F~~l~~~i~~ 36 (66)
.+++ .+|++||++|.||+++|..+.+.+..
T Consensus 131 ~lg~~~~~~vSa~~g~gv~~ll~~i~~~l~~ 161 (429)
T TIGR03594 131 SLGFGEPIPISAEHGRGIGDLLDAILELLPE 161 (429)
T ss_pred hcCCCCeEEEeCCcCCChHHHHHHHHHhcCc
Confidence 4555 68999999999999999998877643
No 197
>PRK00093 GTP-binding protein Der; Reviewed
Probab=95.10 E-value=0.031 Score=33.64 Aligned_cols=26 Identities=19% Similarity=0.211 Sum_probs=22.1
Q ss_pred hCCC-eEEcccCCCCCHHHHHHHHHHH
Q 035388 8 LGIP-FLETSAKDAINVEQAFLTMAGE 33 (66)
Q Consensus 8 ~~~~-~~etSAkt~~~v~~~F~~l~~~ 33 (66)
.++. ++++||++|.||+++|..++..
T Consensus 134 lg~~~~~~iSa~~g~gv~~l~~~I~~~ 160 (435)
T PRK00093 134 LGLGEPYPISAEHGRGIGDLLDAILEE 160 (435)
T ss_pred cCCCCCEEEEeeCCCCHHHHHHHHHhh
Confidence 4553 8999999999999999998873
No 198
>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=95.09 E-value=0.043 Score=31.76 Aligned_cols=25 Identities=20% Similarity=0.296 Sum_probs=22.1
Q ss_pred CCeEEcccCCCCCHHHHHHHHHHHH
Q 035388 10 IPFLETSAKDAINVEQAFLTMAGEI 34 (66)
Q Consensus 10 ~~~~etSAkt~~~v~~~F~~l~~~i 34 (66)
.+++.+||+++.||++++..+.+..
T Consensus 213 ~~v~~iSA~~g~Gi~~L~~~i~~~~ 237 (300)
T TIGR00750 213 PPVLTTSAVEGRGIDELWDAIEEHK 237 (300)
T ss_pred CCEEEEEccCCCCHHHHHHHHHHHH
Confidence 4689999999999999999998764
No 199
>COG0532 InfB Translation initiation factor 2 (IF-2; GTPase) [Translation, ribosomal structure and biogenesis]
Probab=94.96 E-value=0.031 Score=34.76 Aligned_cols=23 Identities=17% Similarity=0.232 Sum_probs=19.9
Q ss_pred CCeEEcccCCCCCHHHHHHHHHH
Q 035388 10 IPFLETSAKDAINVEQAFLTMAG 32 (66)
Q Consensus 10 ~~~~etSAkt~~~v~~~F~~l~~ 32 (66)
..|..+|||+|+||+++...++-
T Consensus 145 v~~VpvSA~tg~Gi~eLL~~ill 167 (509)
T COG0532 145 VIFVPVSAKTGEGIDELLELILL 167 (509)
T ss_pred eEEEEeeccCCCCHHHHHHHHHH
Confidence 56899999999999999877653
No 200
>PRK09554 feoB ferrous iron transport protein B; Reviewed
Probab=94.94 E-value=0.052 Score=35.37 Aligned_cols=33 Identities=18% Similarity=0.299 Sum_probs=27.7
Q ss_pred HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHH
Q 035388 2 QAFADELGIPFLETSAKDAINVEQAFLTMAGEI 34 (66)
Q Consensus 2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i 34 (66)
+++++..+++++.+||++|.||+++...+.+..
T Consensus 135 ~~L~~~LG~pVvpiSA~~g~GIdeL~~~I~~~~ 167 (772)
T PRK09554 135 DALSARLGCPVIPLVSTRGRGIEALKLAIDRHQ 167 (772)
T ss_pred HHHHHHhCCCEEEEEeecCCCHHHHHHHHHHhh
Confidence 356778899999999999999999988776543
No 201
>COG1100 GTPase SAR1 and related small G proteins [General function prediction only]
Probab=94.79 E-value=0.057 Score=29.25 Aligned_cols=28 Identities=32% Similarity=0.464 Sum_probs=25.0
Q ss_pred CeEEcccC--CCCCHHHHHHHHHHHHHHHh
Q 035388 11 PFLETSAK--DAINVEQAFLTMAGEIKKKM 38 (66)
Q Consensus 11 ~~~etSAk--t~~~v~~~F~~l~~~i~~~~ 38 (66)
.++++||+ ++.+|+++|..+++.+....
T Consensus 159 ~~~~~s~~~~~~~~v~~~~~~~~~~~~~~~ 188 (219)
T COG1100 159 ALLETSAKSLTGPNVNELFKELLRKLLEEI 188 (219)
T ss_pred ceeEeecccCCCcCHHHHHHHHHHHHHHhh
Confidence 38999999 99999999999999997543
No 202
>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=94.77 E-value=0.047 Score=30.41 Aligned_cols=22 Identities=9% Similarity=0.221 Sum_probs=19.3
Q ss_pred CCeEEcccCCCCCHHHHHHHHH
Q 035388 10 IPFLETSAKDAINVEQAFLTMA 31 (66)
Q Consensus 10 ~~~~etSAkt~~~v~~~F~~l~ 31 (66)
+++|.+||.+|.|++++...|.
T Consensus 198 ~pi~~vSavtg~Gi~~L~~~L~ 219 (224)
T cd04165 198 VPIFQVSNVTGEGLDLLHAFLN 219 (224)
T ss_pred CcEEEeeCCCccCHHHHHHHHH
Confidence 5899999999999999987664
No 203
>PRK09518 bifunctional cytidylate kinase/GTPase Der; Reviewed
Probab=94.61 E-value=0.033 Score=35.79 Aligned_cols=25 Identities=16% Similarity=0.004 Sum_probs=22.4
Q ss_pred eEEcccCCCCCHHHHHHHHHHHHHH
Q 035388 12 FLETSAKDAINVEQAFLTMAGEIKK 36 (66)
Q Consensus 12 ~~etSAkt~~~v~~~F~~l~~~i~~ 36 (66)
.|++||++|.||+++|..|+..+..
T Consensus 413 ~~~iSA~~g~GI~eLl~~i~~~l~~ 437 (712)
T PRK09518 413 PYPISAMHGRGVGDLLDEALDSLKV 437 (712)
T ss_pred eEEEECCCCCCchHHHHHHHHhccc
Confidence 5789999999999999999988754
No 204
>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=94.58 E-value=0.027 Score=29.56 Aligned_cols=23 Identities=9% Similarity=0.014 Sum_probs=19.0
Q ss_pred CCeEEcccCCC------CCHHHHHHHHHH
Q 035388 10 IPFLETSAKDA------INVEQAFLTMAG 32 (66)
Q Consensus 10 ~~~~etSAkt~------~~v~~~F~~l~~ 32 (66)
..++++||++| .||.+.|.=|+.
T Consensus 138 ~~~~~~Sa~~g~~~~~~~g~~~~~~wl~~ 166 (167)
T cd04161 138 CHIEPCSAIEGLGKKIDPSIVEGLRWLLA 166 (167)
T ss_pred EEEEEeEceeCCCCccccCHHHHHHHHhc
Confidence 45778999998 899999987753
No 205
>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=94.43 E-value=0.022 Score=34.38 Aligned_cols=19 Identities=32% Similarity=0.342 Sum_probs=16.6
Q ss_pred CCeEEcccCCCCCHHHHHH
Q 035388 10 IPFLETSAKDAINVEQAFL 28 (66)
Q Consensus 10 ~~~~etSAkt~~~v~~~F~ 28 (66)
++|+++||++|.||++++.
T Consensus 182 ~~~i~iSA~~g~ni~~~~~ 200 (426)
T TIGR00483 182 VPFIPISAWNGDNVIKKSE 200 (426)
T ss_pred ceEEEeecccccccccccc
Confidence 5699999999999998664
No 206
>PRK09435 membrane ATPase/protein kinase; Provisional
Probab=94.17 E-value=0.098 Score=30.99 Aligned_cols=26 Identities=15% Similarity=0.276 Sum_probs=22.8
Q ss_pred CCeEEcccCCCCCHHHHHHHHHHHHH
Q 035388 10 IPFLETSAKDAINVEQAFLTMAGEIK 35 (66)
Q Consensus 10 ~~~~etSAkt~~~v~~~F~~l~~~i~ 35 (66)
.+++.+||+++.||++++..|.+.+.
T Consensus 235 ~pVi~vSA~~g~GIdeL~~~I~~~~~ 260 (332)
T PRK09435 235 PPVLTCSALEGEGIDEIWQAIEDHRA 260 (332)
T ss_pred CCEEEEECCCCCCHHHHHHHHHHHHH
Confidence 57899999999999999999887653
No 207
>COG4917 EutP Ethanolamine utilization protein [Amino acid transport and metabolism]
Probab=93.89 E-value=0.17 Score=26.45 Aligned_cols=30 Identities=37% Similarity=0.440 Sum_probs=24.1
Q ss_pred HHHHHhCC-CeEEcccCCCCCHHHHHHHHHH
Q 035388 3 AFADELGI-PFLETSAKDAINVEQAFLTMAG 32 (66)
Q Consensus 3 ~~a~~~~~-~~~etSAkt~~~v~~~F~~l~~ 32 (66)
.|-.+-|. +.|++||.++.+|++++..|+.
T Consensus 113 ~~L~eaGa~~IF~~s~~d~~gv~~l~~~L~~ 143 (148)
T COG4917 113 RWLREAGAEPIFETSAVDNQGVEELVDYLAS 143 (148)
T ss_pred HHHHHcCCcceEEEeccCcccHHHHHHHHHh
Confidence 34455564 5899999999999999998864
No 208
>COG0370 FeoB Fe2+ transport system protein B [Inorganic ion transport and metabolism]
Probab=93.85 E-value=0.14 Score=32.91 Aligned_cols=33 Identities=21% Similarity=0.285 Sum_probs=28.0
Q ss_pred HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHH
Q 035388 2 QAFADELGIPFLETSAKDAINVEQAFLTMAGEI 34 (66)
Q Consensus 2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i 34 (66)
+++.+..|++.+.|||++|.|++++-..+.+..
T Consensus 131 ~~L~~~LGvPVv~tvA~~g~G~~~l~~~i~~~~ 163 (653)
T COG0370 131 EKLSKLLGVPVVPTVAKRGEGLEELKRAIIELA 163 (653)
T ss_pred HHHHHHhCCCEEEEEeecCCCHHHHHHHHHHhc
Confidence 457788999999999999999999988776543
No 209
>KOG0073 consensus GTP-binding ADP-ribosylation factor-like protein ARL2 [Intracellular trafficking, secretion, and vesicular transport; Cytoskeleton]
Probab=93.74 E-value=0.16 Score=27.58 Aligned_cols=35 Identities=9% Similarity=0.112 Sum_probs=30.1
Q ss_pred HHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHHH
Q 035388 3 AFADELGIPFLETSAKDAINVEQAFLTMAGEIKKK 37 (66)
Q Consensus 3 ~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~~ 37 (66)
++++.+..+.+-+||.||.++.+.|.-|+..+.++
T Consensus 146 ~l~ks~~~~l~~cs~~tge~l~~gidWL~~~l~~r 180 (185)
T KOG0073|consen 146 ELAKSHHWRLVKCSAVTGEDLLEGIDWLCDDLMSR 180 (185)
T ss_pred HhccccCceEEEEeccccccHHHHHHHHHHHHHHH
Confidence 45677778899999999999999999999888764
No 210
>KOG0462 consensus Elongation factor-type GTP-binding protein [Translation, ribosomal structure and biogenesis]
Probab=93.70 E-value=0.079 Score=33.63 Aligned_cols=26 Identities=23% Similarity=0.318 Sum_probs=22.1
Q ss_pred CCeEEcccCCCCCHHHHHHHHHHHHH
Q 035388 10 IPFLETSAKDAINVEQAFLTMAGEIK 35 (66)
Q Consensus 10 ~~~~etSAkt~~~v~~~F~~l~~~i~ 35 (66)
...+.+|||+|.||++++..+++.|.
T Consensus 210 ~~~i~vSAK~G~~v~~lL~AII~rVP 235 (650)
T KOG0462|consen 210 AEVIYVSAKTGLNVEELLEAIIRRVP 235 (650)
T ss_pred cceEEEEeccCccHHHHHHHHHhhCC
Confidence 35789999999999998888887764
No 211
>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=93.59 E-value=0.11 Score=32.98 Aligned_cols=23 Identities=17% Similarity=0.317 Sum_probs=20.2
Q ss_pred CCeEEcccCCCCCHHHHHHHHHH
Q 035388 10 IPFLETSAKDAINVEQAFLTMAG 32 (66)
Q Consensus 10 ~~~~etSAkt~~~v~~~F~~l~~ 32 (66)
++++.+||+||+|++++...|..
T Consensus 191 v~iVpVSA~tGeGideLl~~l~~ 213 (590)
T TIGR00491 191 VAIIPISAITGEGIPELLTMLAG 213 (590)
T ss_pred ceEEEeecCCCCChhHHHHHHHH
Confidence 67999999999999999877654
No 212
>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=93.09 E-value=0.3 Score=25.36 Aligned_cols=26 Identities=12% Similarity=0.060 Sum_probs=21.4
Q ss_pred CCCeEEcccCCCCCHHHHHHHHHHHH
Q 035388 9 GIPFLETSAKDAINVEQAFLTMAGEI 34 (66)
Q Consensus 9 ~~~~~etSAkt~~~v~~~F~~l~~~i 34 (66)
....+.+||++|.|++++...+.+..
T Consensus 59 ~~~ii~vSa~~~~gi~~L~~~i~~~~ 84 (155)
T cd01849 59 PTIPFKISATNGQGIEKKESAFTKQT 84 (155)
T ss_pred CceEEEEeccCCcChhhHHHHHHHHh
Confidence 34578899999999999998887653
No 213
>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=92.90 E-value=0.044 Score=29.03 Aligned_cols=15 Identities=7% Similarity=-0.037 Sum_probs=13.2
Q ss_pred CCeEEcccCCCCCHH
Q 035388 10 IPFLETSAKDAINVE 24 (66)
Q Consensus 10 ~~~~etSAkt~~~v~ 24 (66)
..+|++||++|.||+
T Consensus 165 ~~v~~~Sa~~g~gi~ 179 (179)
T TIGR03598 165 PSVQLFSSLKKTGID 179 (179)
T ss_pred CceEEEECCCCCCCC
Confidence 479999999999984
No 214
>PRK14845 translation initiation factor IF-2; Provisional
Probab=92.68 E-value=0.15 Score=34.51 Aligned_cols=23 Identities=22% Similarity=0.430 Sum_probs=19.8
Q ss_pred CCeEEcccCCCCCHHHHHHHHHH
Q 035388 10 IPFLETSAKDAINVEQAFLTMAG 32 (66)
Q Consensus 10 ~~~~etSAkt~~~v~~~F~~l~~ 32 (66)
++++.+||+||.||+++...|..
T Consensus 648 v~iVpVSA~tGeGId~Ll~~l~~ 670 (1049)
T PRK14845 648 VAIVPVSAKTGEGIPELLMMVAG 670 (1049)
T ss_pred ceEEEEEcCCCCCHHHHHHHHHH
Confidence 67899999999999999876643
No 215
>PRK10463 hydrogenase nickel incorporation protein HypB; Provisional
Probab=92.66 E-value=0.22 Score=29.06 Aligned_cols=24 Identities=17% Similarity=0.101 Sum_probs=20.9
Q ss_pred CCCeEEcccCCCCCHHHHHHHHHH
Q 035388 9 GIPFLETSAKDAINVEQAFLTMAG 32 (66)
Q Consensus 9 ~~~~~etSAkt~~~v~~~F~~l~~ 32 (66)
.+..|.+||++|.|++++...|..
T Consensus 263 ~a~I~~vSA~tGeGld~L~~~L~~ 286 (290)
T PRK10463 263 EIEIILISATSGEGMDQWLNWLET 286 (290)
T ss_pred CCcEEEEECCCCCCHHHHHHHHHH
Confidence 377999999999999999887754
No 216
>PTZ00327 eukaryotic translation initiation factor 2 gamma subunit; Provisional
Probab=92.52 E-value=0.16 Score=31.39 Aligned_cols=26 Identities=19% Similarity=0.309 Sum_probs=22.1
Q ss_pred CCCeEEcccCCCCCHHHHHHHHHHHH
Q 035388 9 GIPFLETSAKDAINVEQAFLTMAGEI 34 (66)
Q Consensus 9 ~~~~~etSAkt~~~v~~~F~~l~~~i 34 (66)
+.+++.+||++|.||+.+...|...+
T Consensus 207 ~~~iipVSA~~G~nI~~Ll~~L~~~l 232 (460)
T PTZ00327 207 NAPIIPISAQLKYNIDVVLEYICTQI 232 (460)
T ss_pred CCeEEEeeCCCCCCHHHHHHHHHhhC
Confidence 46799999999999999988887644
No 217
>PRK13768 GTPase; Provisional
Probab=92.37 E-value=0.34 Score=27.46 Aligned_cols=25 Identities=12% Similarity=0.255 Sum_probs=22.1
Q ss_pred CCeEEcccCCCCCHHHHHHHHHHHH
Q 035388 10 IPFLETSAKDAINVEQAFLTMAGEI 34 (66)
Q Consensus 10 ~~~~etSAkt~~~v~~~F~~l~~~i 34 (66)
..++.+||+++.|++++...|.+.+
T Consensus 222 ~~vi~iSa~~~~gl~~L~~~I~~~l 246 (253)
T PRK13768 222 VRVIPVSAKTGEGFDELYAAIQEVF 246 (253)
T ss_pred CcEEEEECCCCcCHHHHHHHHHHHc
Confidence 5789999999999999998887665
No 218
>PF07764 Omega_Repress: Omega Transcriptional Repressor; InterPro: IPR011686 The omega transcriptional repressor regulates expression of genes involved in copy number control and stable maintenance of plasmids. The omega protein belongs to the structural superfamily of MetJ/Arc repressors featuring a ribbon-helix-helix DNA-binding motif with the beta-ribbon located in and recognising the major groove of operator DNA [].; PDB: 2BNW_D 1IRQ_A 2CAX_B 2BNZ_A.
Probab=92.05 E-value=0.19 Score=22.78 Aligned_cols=22 Identities=27% Similarity=0.216 Sum_probs=17.9
Q ss_pred ccCCCCCHHHHHHHHHHHHHHH
Q 035388 16 SAKDAINVEQAFLTMAGEIKKK 37 (66)
Q Consensus 16 SAkt~~~v~~~F~~l~~~i~~~ 37 (66)
|||+|-||.++.+...+.-++.
T Consensus 44 tAknGgNvKEvme~~lr~~l~~ 65 (71)
T PF07764_consen 44 TAKNGGNVKEVMEQALREKLKS 65 (71)
T ss_dssp HHHSSS-HHHHHHHHHHHHHHH
T ss_pred ecccCCCHHHHHHHHHHHHHHH
Confidence 7999999999998888877654
No 219
>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=91.94 E-value=0.14 Score=27.50 Aligned_cols=19 Identities=32% Similarity=0.331 Sum_probs=15.3
Q ss_pred hCCCeEEcccCCCCCHHHH
Q 035388 8 LGIPFLETSAKDAINVEQA 26 (66)
Q Consensus 8 ~~~~~~etSAkt~~~v~~~ 26 (66)
.+++++++||++|.|+.+.
T Consensus 155 ~~~~iv~~Sa~~g~~~~~~ 173 (194)
T cd01891 155 LDFPVLYASAKNGWASLNL 173 (194)
T ss_pred CccCEEEeehhcccccccc
Confidence 3678999999999888433
No 220
>PRK04004 translation initiation factor IF-2; Validated
Probab=91.76 E-value=0.28 Score=31.21 Aligned_cols=23 Identities=22% Similarity=0.444 Sum_probs=20.1
Q ss_pred CCeEEcccCCCCCHHHHHHHHHH
Q 035388 10 IPFLETSAKDAINVEQAFLTMAG 32 (66)
Q Consensus 10 ~~~~etSAkt~~~v~~~F~~l~~ 32 (66)
++++.+||++|.|++++...+..
T Consensus 193 v~ivpiSA~tGeGi~dLl~~i~~ 215 (586)
T PRK04004 193 VAIVPVSAKTGEGIPDLLMVLAG 215 (586)
T ss_pred ceEeeccCCCCCChHHHHHHHHH
Confidence 67999999999999999877754
No 221
>KOG3883 consensus Ras family small GTPase [Signal transduction mechanisms]
Probab=91.76 E-value=0.22 Score=26.93 Aligned_cols=35 Identities=20% Similarity=0.316 Sum_probs=31.2
Q ss_pred HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHH
Q 035388 2 QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKK 36 (66)
Q Consensus 2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~ 36 (66)
..||+.-.+..+|++|++...+-+-|..|+..+..
T Consensus 142 ~~Wa~rEkvkl~eVta~dR~sL~epf~~l~~rl~~ 176 (198)
T KOG3883|consen 142 QIWAKREKVKLWEVTAMDRPSLYEPFTYLASRLHQ 176 (198)
T ss_pred HHHHhhhheeEEEEEeccchhhhhHHHHHHHhccC
Confidence 46888888999999999999999999999888753
No 222
>KOG0705 consensus GTPase-activating protein Centaurin gamma (contains Ras-like GTPase, PH and ankyrin repeat domains) [Signal transduction mechanisms]
Probab=91.75 E-value=0.55 Score=30.22 Aligned_cols=29 Identities=31% Similarity=0.417 Sum_probs=25.7
Q ss_pred CCCeEEcccCCCCCHHHHHHHHHHHHHHH
Q 035388 9 GIPFLETSAKDAINVEQAFLTMAGEIKKK 37 (66)
Q Consensus 9 ~~~~~etSAkt~~~v~~~F~~l~~~i~~~ 37 (66)
-..|||+.|-+|.||+..|.+++..++..
T Consensus 163 rcsy~et~atyGlnv~rvf~~~~~k~i~~ 191 (749)
T KOG0705|consen 163 RCSYYETCATYGLNVERVFQEVAQKIVQL 191 (749)
T ss_pred ccceeecchhhhhhHHHHHHHHHHHHHHH
Confidence 47799999999999999999999887653
No 223
>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=91.62 E-value=0.51 Score=25.29 Aligned_cols=28 Identities=29% Similarity=0.377 Sum_probs=22.1
Q ss_pred HHHhCCCeEEcccCCCCCHHHHHHHHHH
Q 035388 5 ADELGIPFLETSAKDAINVEQAFLTMAG 32 (66)
Q Consensus 5 a~~~~~~~~etSAkt~~~v~~~F~~l~~ 32 (66)
-+..+.+.+.+|++++.+++++...+..
T Consensus 8 y~~~gy~v~~~S~~~~~g~~~l~~~l~~ 35 (161)
T PF03193_consen 8 YEKLGYPVFFISAKTGEGIEELKELLKG 35 (161)
T ss_dssp HHHTTSEEEE-BTTTTTTHHHHHHHHTT
T ss_pred HHHcCCcEEEEeCCCCcCHHHHHHHhcC
Confidence 4556888999999999999998876544
No 224
>COG1703 ArgK Putative periplasmic protein kinase ArgK and related GTPases of G3E family [Amino acid transport and metabolism]
Probab=91.38 E-value=0.31 Score=28.87 Aligned_cols=27 Identities=15% Similarity=0.225 Sum_probs=22.9
Q ss_pred hCCCeEEcccCCCCCHHHHHHHHHHHH
Q 035388 8 LGIPFLETSAKDAINVEQAFLTMAGEI 34 (66)
Q Consensus 8 ~~~~~~etSAkt~~~v~~~F~~l~~~i 34 (66)
|..+.+.|||.+|+||++++..+.+..
T Consensus 227 W~ppv~~t~A~~g~Gi~~L~~ai~~h~ 253 (323)
T COG1703 227 WRPPVVTTSALEGEGIDELWDAIEDHR 253 (323)
T ss_pred CCCceeEeeeccCCCHHHHHHHHHHHH
Confidence 456789999999999999998887654
No 225
>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=91.24 E-value=0.3 Score=28.26 Aligned_cols=25 Identities=20% Similarity=0.331 Sum_probs=20.6
Q ss_pred CCCeEEcccCCCCCHHHHHHHHHHH
Q 035388 9 GIPFLETSAKDAINVEQAFLTMAGE 33 (66)
Q Consensus 9 ~~~~~etSAkt~~~v~~~F~~l~~~ 33 (66)
..+.+.|||.++.||++++..|.+.
T Consensus 204 ~ppV~~tsA~~~~Gi~eL~~~i~~~ 228 (266)
T PF03308_consen 204 RPPVLKTSALEGEGIDELWEAIDEH 228 (266)
T ss_dssp --EEEEEBTTTTBSHHHHHHHHHHH
T ss_pred CCCEEEEEeCCCCCHHHHHHHHHHH
Confidence 3578999999999999999888664
No 226
>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=91.01 E-value=0.67 Score=24.49 Aligned_cols=25 Identities=16% Similarity=0.081 Sum_probs=21.4
Q ss_pred CCeEEcccCCCCCHHHHHHHHHHHH
Q 035388 10 IPFLETSAKDAINVEQAFLTMAGEI 34 (66)
Q Consensus 10 ~~~~etSAkt~~~v~~~F~~l~~~i 34 (66)
..++.+||+++.|++++...+...+
T Consensus 76 ~~vi~iSa~~~~gi~~L~~~l~~~l 100 (171)
T cd01856 76 EKVLFVNAKSGKGVKKLLKAAKKLL 100 (171)
T ss_pred CeEEEEECCCcccHHHHHHHHHHHH
Confidence 4578999999999999998887765
No 227
>KOG4271 consensus Rho-GTPase activating protein [Signal transduction mechanisms]
Probab=90.54 E-value=0.47 Score=31.97 Aligned_cols=30 Identities=33% Similarity=0.410 Sum_probs=27.0
Q ss_pred CCCeEEcccCCCCCHHHHHHHHHHHHHHHh
Q 035388 9 GIPFLETSAKDAINVEQAFLTMAGEIKKKM 38 (66)
Q Consensus 9 ~~~~~etSAkt~~~v~~~F~~l~~~i~~~~ 38 (66)
+++.+|||+..+.||+-+|-.|+..+.+..
T Consensus 3 ~l~~vetss~~nvnve~~f~tl~~l~~ksr 32 (1100)
T KOG4271|consen 3 NLPVVETSSVKNVNVEYLFGTLVQLCDKSR 32 (1100)
T ss_pred CCCceeecccccccHHHHHHHHHHHHHhhc
Confidence 678999999999999999999999987643
No 228
>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=90.50 E-value=0.099 Score=28.80 Aligned_cols=15 Identities=27% Similarity=0.437 Sum_probs=13.6
Q ss_pred CCeEEcccCCCCCHH
Q 035388 10 IPFLETSAKDAINVE 24 (66)
Q Consensus 10 ~~~~etSAkt~~~v~ 24 (66)
.+++.+||++|.||+
T Consensus 180 ~~ii~iSA~tg~gi~ 194 (219)
T cd01883 180 VPFIPISGLTGDNLI 194 (219)
T ss_pred ceEEEeecCcCCCCC
Confidence 569999999999997
No 229
>KOG0072 consensus GTP-binding ADP-ribosylation factor-like protein ARL1 [Intracellular trafficking, secretion, and vesicular transport]
Probab=90.19 E-value=0.27 Score=26.36 Aligned_cols=26 Identities=19% Similarity=0.182 Sum_probs=22.4
Q ss_pred CCeEEcccCCCCCHHHHHHHHHHHHH
Q 035388 10 IPFLETSAKDAINVEQAFLTMAGEIK 35 (66)
Q Consensus 10 ~~~~etSAkt~~~v~~~F~~l~~~i~ 35 (66)
...|++||-+|+|++.+++=|.+-+-
T Consensus 154 ~~Iv~tSA~kg~Gld~~~DWL~~~l~ 179 (182)
T KOG0072|consen 154 WQIVKTSAVKGEGLDPAMDWLQRPLK 179 (182)
T ss_pred eEEEeeccccccCCcHHHHHHHHHHh
Confidence 45799999999999999998887664
No 230
>PRK12317 elongation factor 1-alpha; Reviewed
Probab=90.12 E-value=0.16 Score=30.75 Aligned_cols=19 Identities=37% Similarity=0.394 Sum_probs=16.4
Q ss_pred CCeEEcccCCCCCHHHHHH
Q 035388 10 IPFLETSAKDAINVEQAFL 28 (66)
Q Consensus 10 ~~~~etSAkt~~~v~~~F~ 28 (66)
.+++.+||++|.||++.+.
T Consensus 180 ~~ii~iSA~~g~gi~~~~~ 198 (425)
T PRK12317 180 IPFIPVSAFEGDNVVKKSE 198 (425)
T ss_pred ceEEEeecccCCCcccccc
Confidence 4689999999999998664
No 231
>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=89.86 E-value=0.25 Score=26.96 Aligned_cols=16 Identities=38% Similarity=0.368 Sum_probs=13.8
Q ss_pred CeEEcccCCCCCHHHH
Q 035388 11 PFLETSAKDAINVEQA 26 (66)
Q Consensus 11 ~~~etSAkt~~~v~~~ 26 (66)
+++.+||++|.||++.
T Consensus 170 ~ii~iSA~~g~ni~~~ 185 (208)
T cd04166 170 TFIPISALDGDNVVSR 185 (208)
T ss_pred eEEEEeCCCCCCCccC
Confidence 4899999999999853
No 232
>smart00010 small_GTPase Small GTPase of the Ras superfamily; ill-defined subfamily. SMART predicts Ras-like small GTPases of the ARF, RAB, RAN, RAS, and SAR subfamilies. Others that could not be classified in this way are predicted to be members of the small GTPase superfamily without predictions of the subfamily.
Probab=89.37 E-value=0.022 Score=27.91 Aligned_cols=20 Identities=50% Similarity=0.511 Sum_probs=15.6
Q ss_pred HHHhCCCeEEcccCCCCCHH
Q 035388 5 ADELGIPFLETSAKDAINVE 24 (66)
Q Consensus 5 a~~~~~~~~etSAkt~~~v~ 24 (66)
+++.+..|+++||++|.||.
T Consensus 96 ~~~~~~~~~~~s~~~~~~~~ 115 (124)
T smart00010 96 ATEEGLEFAETSAKTPEEGE 115 (124)
T ss_pred CHHHHHHHHHHhCCCcchhh
Confidence 44445678999999999984
No 233
>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=88.97 E-value=0.49 Score=26.84 Aligned_cols=25 Identities=24% Similarity=0.291 Sum_probs=21.6
Q ss_pred CCeEEcccCCCCCHHHHHHHHHHHH
Q 035388 10 IPFLETSAKDAINVEQAFLTMAGEI 34 (66)
Q Consensus 10 ~~~~etSAkt~~~v~~~F~~l~~~i 34 (66)
++.|-.||+++.||+.++..+...+
T Consensus 241 ~pv~~gSa~~~~G~~~ll~~~~~~~ 265 (268)
T cd04170 241 VPVLCGSALTNIGVRELLDALVHLL 265 (268)
T ss_pred EEEEEeeCCCCcCHHHHHHHHHHhC
Confidence 5789999999999999998887654
No 234
>COG1160 Predicted GTPases [General function prediction only]
Probab=88.64 E-value=0.56 Score=29.06 Aligned_cols=24 Identities=17% Similarity=0.207 Sum_probs=20.6
Q ss_pred CCeEEcccCCCCCHHHHHHHHHHH
Q 035388 10 IPFLETSAKDAINVEQAFLTMAGE 33 (66)
Q Consensus 10 ~~~~etSAkt~~~v~~~F~~l~~~ 33 (66)
++.+.+||++|.+|+++|..+...
T Consensus 326 a~i~~iSA~~~~~i~~l~~~i~~~ 349 (444)
T COG1160 326 APIVFISALTGQGLDKLFEAIKEI 349 (444)
T ss_pred CeEEEEEecCCCChHHHHHHHHHH
Confidence 567899999999999999877554
No 235
>PF05783 DLIC: Dynein light intermediate chain (DLIC); InterPro: IPR022780 This entry consists of several eukaryotic dynein light intermediate chain proteins. The light intermediate chains (LICs) of cytoplasmic dynein consist of multiple isoforms, which undergo post-translational modification to produce a large number of species. DLIC1 is known to be involved in assembly, organisation, and function of centrosomes and mitotic spindles when bound to pericentrin [, ]. DLIC2 is a subunit of cytoplasmic dynein 2 that may play a role in maintaining Golgi organisation by binding cytoplasmic dynein 2 to its Golgi-associated cargo [].
Probab=87.98 E-value=1.2 Score=27.80 Aligned_cols=36 Identities=17% Similarity=0.251 Sum_probs=31.0
Q ss_pred HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHHH
Q 035388 2 QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKK 37 (66)
Q Consensus 2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~~ 37 (66)
+.||-.+|+-+|.||+|...|++-++..|...++..
T Consensus 231 R~~cL~yGAsL~yts~~~~~n~~~L~~yi~h~l~~~ 266 (472)
T PF05783_consen 231 RTFCLKYGASLIYTSVKEEKNLDLLYKYILHRLYGF 266 (472)
T ss_pred HHHHHhcCCeEEEeeccccccHHHHHHHHHHHhccC
Confidence 467888999999999999999999998888877654
No 236
>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=87.71 E-value=0.55 Score=29.98 Aligned_cols=28 Identities=18% Similarity=0.350 Sum_probs=23.3
Q ss_pred hCCCeEEcccCCCC----------CHHHHHHHHHHHHH
Q 035388 8 LGIPFLETSAKDAI----------NVEQAFLTMAGEIK 35 (66)
Q Consensus 8 ~~~~~~etSAkt~~----------~v~~~F~~l~~~i~ 35 (66)
..++++.+||++|. ||+.+|..++..+.
T Consensus 154 l~~pvl~~SA~~g~~~~~~~~~~~gi~~Lld~Iv~~lP 191 (594)
T TIGR01394 154 LDFPIVYASGRAGWASLDLDDPSDNMAPLFDAIVRHVP 191 (594)
T ss_pred ccCcEEechhhcCcccccCcccccCHHHHHHHHHHhCC
Confidence 35789999999996 79999988887764
No 237
>COG2262 HflX GTPases [General function prediction only]
Probab=87.52 E-value=0.92 Score=27.87 Aligned_cols=26 Identities=12% Similarity=-0.074 Sum_probs=22.9
Q ss_pred CeEEcccCCCCCHHHHHHHHHHHHHH
Q 035388 11 PFLETSAKDAINVEQAFLTMAGEIKK 36 (66)
Q Consensus 11 ~~~etSAkt~~~v~~~F~~l~~~i~~ 36 (66)
..+.+||++|.|++.+...|...+..
T Consensus 332 ~~v~iSA~~~~gl~~L~~~i~~~l~~ 357 (411)
T COG2262 332 NPVFISAKTGEGLDLLRERIIELLSG 357 (411)
T ss_pred CeEEEEeccCcCHHHHHHHHHHHhhh
Confidence 47899999999999999999888764
No 238
>COG3276 SelB Selenocysteine-specific translation elongation factor [Translation, ribosomal structure and biogenesis]
Probab=87.34 E-value=0.69 Score=28.66 Aligned_cols=25 Identities=20% Similarity=0.195 Sum_probs=22.6
Q ss_pred CCeEEcccCCCCCHHHHHHHHHHHH
Q 035388 10 IPFLETSAKDAINVEQAFLTMAGEI 34 (66)
Q Consensus 10 ~~~~etSAkt~~~v~~~F~~l~~~i 34 (66)
+++|-+||++|+||+++-..|....
T Consensus 137 ~~i~~~s~~~g~GI~~Lk~~l~~L~ 161 (447)
T COG3276 137 AKIFKTSAKTGRGIEELKNELIDLL 161 (447)
T ss_pred ccccccccccCCCHHHHHHHHHHhh
Confidence 5679999999999999999998877
No 239
>KOG1532 consensus GTPase XAB1, interacts with DNA repair protein XPA [Replication, recombination and repair]
Probab=86.57 E-value=1.7 Score=25.86 Aligned_cols=26 Identities=8% Similarity=0.161 Sum_probs=22.4
Q ss_pred CCCeEEcccCCCCCHHHHHHHHHHHH
Q 035388 9 GIPFLETSAKDAINVEQAFLTMAGEI 34 (66)
Q Consensus 9 ~~~~~etSAkt~~~v~~~F~~l~~~i 34 (66)
++...-+||.||.|.++.|..+-..+
T Consensus 238 ~lrtv~VSs~tG~G~ddf~~av~~~v 263 (366)
T KOG1532|consen 238 SLRTVGVSSVTGEGFDDFFTAVDESV 263 (366)
T ss_pred hCceEEEecccCCcHHHHHHHHHHHH
Confidence 46788999999999999998886655
No 240
>PLN00043 elongation factor 1-alpha; Provisional
Probab=86.34 E-value=0.51 Score=29.05 Aligned_cols=16 Identities=31% Similarity=0.470 Sum_probs=14.2
Q ss_pred CCeEEcccCCCCCHHH
Q 035388 10 IPFLETSAKDAINVEQ 25 (66)
Q Consensus 10 ~~~~etSAkt~~~v~~ 25 (66)
++|+.+||++|.||.+
T Consensus 188 ~~~ipiSa~~G~ni~~ 203 (447)
T PLN00043 188 IPFVPISGFEGDNMIE 203 (447)
T ss_pred ceEEEEeccccccccc
Confidence 6799999999999964
No 241
>COG1162 Predicted GTPases [General function prediction only]
Probab=86.14 E-value=1.5 Score=25.95 Aligned_cols=31 Identities=32% Similarity=0.425 Sum_probs=25.4
Q ss_pred HHHHhCCCeEEcccCCCCCHHHHHHHHHHHH
Q 035388 4 FADELGIPFLETSAKDAINVEQAFLTMAGEI 34 (66)
Q Consensus 4 ~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i 34 (66)
+...+++..+.+||+++.+++++...+...+
T Consensus 136 ~y~~~gy~v~~~s~~~~~~~~~l~~~l~~~~ 166 (301)
T COG1162 136 EYEDIGYPVLFVSAKNGDGLEELAELLAGKI 166 (301)
T ss_pred HHHhCCeeEEEecCcCcccHHHHHHHhcCCe
Confidence 3455788899999999999999988876653
No 242
>KOG1423 consensus Ras-like GTPase ERA [Cell cycle control, cell division, chromosome partitioning; Signal transduction mechanisms]
Probab=85.91 E-value=0.94 Score=27.22 Aligned_cols=23 Identities=9% Similarity=-0.018 Sum_probs=19.6
Q ss_pred eEEcccCCCCCHHHHHHHHHHHH
Q 035388 12 FLETSAKDAINVEQAFLTMAGEI 34 (66)
Q Consensus 12 ~~etSAkt~~~v~~~F~~l~~~i 34 (66)
+|.+||++|.||+++=..|....
T Consensus 248 vF~vSaL~G~GikdlkqyLmsqa 270 (379)
T KOG1423|consen 248 VFMVSALYGEGIKDLKQYLMSQA 270 (379)
T ss_pred EEEEecccccCHHHHHHHHHhcC
Confidence 79999999999999887776554
No 243
>PRK04004 translation initiation factor IF-2; Validated
Probab=85.64 E-value=0.42 Score=30.44 Aligned_cols=35 Identities=23% Similarity=0.298 Sum_probs=28.8
Q ss_pred HHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHHH
Q 035388 3 AFADELGIPFLETSAKDAINVEQAFLTMAGEIKKK 37 (66)
Q Consensus 3 ~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~~ 37 (66)
.|+...+.+|+++|++++.++.+.|..+...+...
T Consensus 138 ~~~~~~~~~~~e~~~~~~~~v~~~f~~~l~ev~~~ 172 (586)
T PRK04004 138 GWKSTEDAPFLESIEKQSQRVQQELEEKLYELIGQ 172 (586)
T ss_pred hhhhhcCchHHHHHhhhhHHHHHHHHHHHHHHHHH
Confidence 35566678999999999999999998888777543
No 244
>COG4359 Uncharacterized conserved protein [Function unknown]
Probab=85.63 E-value=1.4 Score=24.56 Aligned_cols=30 Identities=23% Similarity=0.325 Sum_probs=26.4
Q ss_pred HHHHHhCCCeEEcccCCCCCHHHHHHHHHH
Q 035388 3 AFADELGIPFLETSAKDAINVEQAFLTMAG 32 (66)
Q Consensus 3 ~~a~~~~~~~~etSAkt~~~v~~~F~~l~~ 32 (66)
+|+++++++|+-+|+=+.-=|.-+|+.++.
T Consensus 83 e~ike~di~fiVvSsGm~~fI~~lfe~ivg 112 (220)
T COG4359 83 EWIKEHDIPFIVVSSGMDPFIYPLFEGIVG 112 (220)
T ss_pred HHHHHcCCCEEEEeCCCchHHHHHHHhhcc
Confidence 689999999999999888889999988873
No 245
>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=85.32 E-value=0.31 Score=31.06 Aligned_cols=33 Identities=24% Similarity=0.470 Sum_probs=23.4
Q ss_pred HHHHHhCCCeEEcccCCCCCHHH----HHHHHHHHHH
Q 035388 3 AFADELGIPFLETSAKDAINVEQ----AFLTMAGEIK 35 (66)
Q Consensus 3 ~~a~~~~~~~~etSAkt~~~v~~----~F~~l~~~i~ 35 (66)
.|+...+.+|+|+||+++.+|.+ .|..++..+.
T Consensus 136 ~~~~~~~~~f~e~sak~~~~v~~~~~~~~~~lv~~l~ 172 (590)
T TIGR00491 136 GWRSHEGRPFMESFSKQEIQVQQNLDTKVYNLVIKLH 172 (590)
T ss_pred hhhhccCchHHHHHHhhhHHHHHHHHHHHHHHHHHHH
Confidence 46677788999999999987654 4555544443
No 246
>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=84.90 E-value=3.4 Score=23.74 Aligned_cols=28 Identities=25% Similarity=0.286 Sum_probs=22.6
Q ss_pred CCCeEEcccCCCCCHHHHHHHHHHHHHH
Q 035388 9 GIPFLETSAKDAINVEQAFLTMAGEIKK 36 (66)
Q Consensus 9 ~~~~~etSAkt~~~v~~~F~~l~~~i~~ 36 (66)
+...+.+||+++.+++++...+.+.+..
T Consensus 77 ~~~vi~iSa~~~~gi~~L~~~i~~~~~~ 104 (276)
T TIGR03596 77 GIKALAINAKKGKGVKKIIKAAKKLLKE 104 (276)
T ss_pred CCeEEEEECCCcccHHHHHHHHHHHHHH
Confidence 4567899999999999998877766543
No 247
>KOG0076 consensus GTP-binding ADP-ribosylation factor-like protein yARL3 [Intracellular trafficking, secretion, and vesicular transport]
Probab=84.15 E-value=1.3 Score=24.47 Aligned_cols=28 Identities=21% Similarity=0.274 Sum_probs=24.8
Q ss_pred CCeEEcccCCCCCHHHHHHHHHHHHHHH
Q 035388 10 IPFLETSAKDAINVEQAFLTMAGEIKKK 37 (66)
Q Consensus 10 ~~~~etSAkt~~~v~~~F~~l~~~i~~~ 37 (66)
.+|.-+||.+|.||++...-+++.+.++
T Consensus 162 ~~~~pvSal~gegv~egi~w~v~~~~kn 189 (197)
T KOG0076|consen 162 NPFQPVSALTGEGVKEGIEWLVKKLEKN 189 (197)
T ss_pred CccccchhhhcccHHHHHHHHHHHHhhc
Confidence 5688999999999999999999888765
No 248
>PHA02436 hypothetical protein
Probab=82.84 E-value=1.6 Score=18.50 Aligned_cols=18 Identities=17% Similarity=0.137 Sum_probs=14.7
Q ss_pred CCCHHHHHHHHHHHHHHH
Q 035388 20 AINVEQAFLTMAGEIKKK 37 (66)
Q Consensus 20 ~~~v~~~F~~l~~~i~~~ 37 (66)
-.+|+++|.++.+.++..
T Consensus 17 eRkIEEVFeE~YE~~YG~ 34 (52)
T PHA02436 17 ERNIEEVFKEAYESFYGV 34 (52)
T ss_pred hhhHHHHHHHHHHHhcCe
Confidence 357999999999998753
No 249
>KOG1489 consensus Predicted GTP-binding protein (ODN superfamily) [General function prediction only]
Probab=82.54 E-value=2.7 Score=25.43 Aligned_cols=28 Identities=21% Similarity=0.242 Sum_probs=21.6
Q ss_pred HHHHHhC-CCeEEcccCCCCCHHHHHHHH
Q 035388 3 AFADELG-IPFLETSAKDAINVEQAFLTM 30 (66)
Q Consensus 3 ~~a~~~~-~~~~etSAkt~~~v~~~F~~l 30 (66)
++++... -..+..||+++++++++...|
T Consensus 334 ~L~~~lq~~~V~pvsA~~~egl~~ll~~l 362 (366)
T KOG1489|consen 334 SLAKRLQNPHVVPVSAKSGEGLEELLNGL 362 (366)
T ss_pred HHHHHcCCCcEEEeeeccccchHHHHHHH
Confidence 4555554 348999999999999987655
No 250
>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=82.50 E-value=2.4 Score=22.00 Aligned_cols=22 Identities=5% Similarity=-0.017 Sum_probs=17.9
Q ss_pred eEEcccCCCCCHHHHHHHHHHH
Q 035388 12 FLETSAKDAINVEQAFLTMAGE 33 (66)
Q Consensus 12 ~~etSAkt~~~v~~~F~~l~~~ 33 (66)
.+.+||+.+.|++++...+...
T Consensus 72 ~~~iSa~~~~~~~~L~~~l~~~ 93 (157)
T cd01858 72 AFHASINNPFGKGSLIQLLRQF 93 (157)
T ss_pred EEEeeccccccHHHHHHHHHHH
Confidence 3678999999999988877543
No 251
>PRK12740 elongation factor G; Reviewed
Probab=82.41 E-value=1.3 Score=28.44 Aligned_cols=26 Identities=15% Similarity=0.194 Sum_probs=22.8
Q ss_pred CCeEEcccCCCCCHHHHHHHHHHHHH
Q 035388 10 IPFLETSAKDAINVEQAFLTMAGEIK 35 (66)
Q Consensus 10 ~~~~etSAkt~~~v~~~F~~l~~~i~ 35 (66)
++.|..||++|.||+.+++.+...+.
T Consensus 237 ~Pv~~gSA~~~~Gv~~LLd~i~~~lP 262 (668)
T PRK12740 237 VPVFCGSALKNKGVQRLLDAVVDYLP 262 (668)
T ss_pred EEEEeccccCCccHHHHHHHHHHHCC
Confidence 56789999999999999998888764
No 252
>PRK09563 rbgA GTPase YlqF; Reviewed
Probab=82.12 E-value=5.5 Score=23.04 Aligned_cols=28 Identities=25% Similarity=0.300 Sum_probs=22.5
Q ss_pred CCCeEEcccCCCCCHHHHHHHHHHHHHH
Q 035388 9 GIPFLETSAKDAINVEQAFLTMAGEIKK 36 (66)
Q Consensus 9 ~~~~~etSAkt~~~v~~~F~~l~~~i~~ 36 (66)
+..++.+||+++.|++++...+...+..
T Consensus 80 ~~~vi~vSa~~~~gi~~L~~~l~~~l~~ 107 (287)
T PRK09563 80 GIKALAINAKKGQGVKKILKAAKKLLKE 107 (287)
T ss_pred CCeEEEEECCCcccHHHHHHHHHHHHHH
Confidence 4567899999999999998877666543
No 253
>COG0703 AroK Shikimate kinase [Amino acid transport and metabolism]
Probab=81.45 E-value=2.3 Score=23.17 Aligned_cols=36 Identities=22% Similarity=0.425 Sum_probs=28.1
Q ss_pred CHHHHHHhCCCeEEc----ccCCCCCHHHHHHHHHHHHHH
Q 035388 1 MQAFADELGIPFLET----SAKDAINVEQAFLTMAGEIKK 36 (66)
Q Consensus 1 ~~~~a~~~~~~~~et----SAkt~~~v~~~F~~l~~~i~~ 36 (66)
|+.+|+.++++|+.+ .+.+|..|.++|..--+.-++
T Consensus 19 Gr~LAk~L~~~F~D~D~~Ie~~~g~sI~eIF~~~GE~~FR 58 (172)
T COG0703 19 GRALAKALNLPFIDTDQEIEKRTGMSIAEIFEEEGEEGFR 58 (172)
T ss_pred HHHHHHHcCCCcccchHHHHHHHCcCHHHHHHHHhHHHHH
Confidence 467899999999865 677899999998876655443
No 254
>KOG4273 consensus Uncharacterized conserved protein [Function unknown]
Probab=81.17 E-value=2 Score=25.28 Aligned_cols=32 Identities=28% Similarity=0.444 Sum_probs=25.9
Q ss_pred HHHHHHhCCCeEEcccC------------CCCCHHHHHHHHHHH
Q 035388 2 QAFADELGIPFLETSAK------------DAINVEQAFLTMAGE 33 (66)
Q Consensus 2 ~~~a~~~~~~~~etSAk------------t~~~v~~~F~~l~~~ 33 (66)
.+|+-++|+.|+|.+|- ..+||+.+|-.|...
T Consensus 177 lewc~e~~~efieacasn~dfd~c~~~dgdsqgverifgal~ah 220 (418)
T KOG4273|consen 177 LEWCLEHGFEFIEACASNEDFDECDDDDGDSQGVERIFGALNAH 220 (418)
T ss_pred HHHHHhcCceeeeecCCccccchhhccCcchhhHHHHHHHhhhc
Confidence 57999999999999993 357889999877544
No 255
>COG0486 ThdF Predicted GTPase [General function prediction only]
Probab=80.86 E-value=3.2 Score=25.99 Aligned_cols=28 Identities=14% Similarity=0.049 Sum_probs=23.5
Q ss_pred CCeEEcccCCCCCHHHHHHHHHHHHHHH
Q 035388 10 IPFLETSAKDAINVEQAFLTMAGEIKKK 37 (66)
Q Consensus 10 ~~~~etSAkt~~~v~~~F~~l~~~i~~~ 37 (66)
.+++.+|||+|.|++.+-..|...+...
T Consensus 351 ~~~i~iSa~t~~Gl~~L~~~i~~~~~~~ 378 (454)
T COG0486 351 DAIISISAKTGEGLDALREAIKQLFGKG 378 (454)
T ss_pred CceEEEEecCccCHHHHHHHHHHHHhhc
Confidence 4689999999999999988887776644
No 256
>KOG1145 consensus Mitochondrial translation initiation factor 2 (IF-2; GTPase) [Translation, ribosomal structure and biogenesis]
Probab=78.79 E-value=4 Score=26.56 Aligned_cols=26 Identities=19% Similarity=0.280 Sum_probs=20.6
Q ss_pred HHhC--CCeEEcccCCCCCHHHHHHHHH
Q 035388 6 DELG--IPFLETSAKDAINVEQAFLTMA 31 (66)
Q Consensus 6 ~~~~--~~~~etSAkt~~~v~~~F~~l~ 31 (66)
+++| +..+..||++|.|++.+-..+.
T Consensus 285 E~~GGdVQvipiSAl~g~nl~~L~eail 312 (683)
T KOG1145|consen 285 EDLGGDVQVIPISALTGENLDLLEEAIL 312 (683)
T ss_pred HHcCCceeEEEeecccCCChHHHHHHHH
Confidence 4554 6789999999999998876654
No 257
>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=77.61 E-value=2.7 Score=24.19 Aligned_cols=25 Identities=20% Similarity=0.198 Sum_probs=21.8
Q ss_pred CCeEEcccCCCCCHHHHHHHHHHHH
Q 035388 10 IPFLETSAKDAINVEQAFLTMAGEI 34 (66)
Q Consensus 10 ~~~~etSAkt~~~v~~~F~~l~~~i 34 (66)
+|.|-.||.++.||..++..++..+
T Consensus 243 ~PV~~gSa~~~~Gi~~lld~i~~~~ 267 (270)
T cd01886 243 VPVLCGSAFKNKGVQPLLDAVVDYL 267 (270)
T ss_pred EEEEeCcCCCCcCHHHHHHHHHHhc
Confidence 6789999999999999998887654
No 258
>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=76.29 E-value=4.3 Score=22.87 Aligned_cols=25 Identities=20% Similarity=0.287 Sum_probs=21.7
Q ss_pred CCeEEcccCCCCCHHHHHHHHHHHH
Q 035388 10 IPFLETSAKDAINVEQAFLTMAGEI 34 (66)
Q Consensus 10 ~~~~etSAkt~~~v~~~F~~l~~~i 34 (66)
+|.|-.||.++.||..+...+.+.+
T Consensus 210 ~Pv~~gsa~~~~Gv~~ll~~~~~~~ 234 (237)
T cd04168 210 FPVYHGSALKGIGIEELLEGITKLF 234 (237)
T ss_pred EEEEEccccCCcCHHHHHHHHHHhc
Confidence 6789999999999999998887654
No 259
>PRK13351 elongation factor G; Reviewed
Probab=75.90 E-value=2.7 Score=27.28 Aligned_cols=26 Identities=23% Similarity=0.285 Sum_probs=22.8
Q ss_pred CCeEEcccCCCCCHHHHHHHHHHHHH
Q 035388 10 IPFLETSAKDAINVEQAFLTMAGEIK 35 (66)
Q Consensus 10 ~~~~etSAkt~~~v~~~F~~l~~~i~ 35 (66)
++.|-.||++|.||+.+++.++..+.
T Consensus 253 ~PV~~gSA~~~~Gv~~LLd~I~~~lP 278 (687)
T PRK13351 253 VPVLFGSALKNIGIEPLLDAVVDYLP 278 (687)
T ss_pred EEEEecccCcCccHHHHHHHHHHHCC
Confidence 56788999999999999999988774
No 260
>COG1908 FrhD Coenzyme F420-reducing hydrogenase, delta subunit [Energy production and conversion]
Probab=74.84 E-value=10 Score=19.74 Aligned_cols=36 Identities=25% Similarity=0.258 Sum_probs=28.5
Q ss_pred HHHHHhCC-----CeEEcccCCCCCHHHHHHHHHHHHHHHh
Q 035388 3 AFADELGI-----PFLETSAKDAINVEQAFLTMAGEIKKKM 38 (66)
Q Consensus 3 ~~a~~~~~-----~~~etSAkt~~~v~~~F~~l~~~i~~~~ 38 (66)
++.+++++ .++..||-+++.+.+.+.+.+..|.+-.
T Consensus 85 e~l~elgie~eRv~~~wiSa~E~ekf~e~~~efv~~i~~lG 125 (132)
T COG1908 85 ELLKELGIEPERVRVLWISAAEGEKFAETINEFVERIKELG 125 (132)
T ss_pred HHHHHhCCCcceEEEEEEehhhHHHHHHHHHHHHHHHHHhC
Confidence 34455554 4899999999999999999999987643
No 261
>PRK00741 prfC peptide chain release factor 3; Provisional
Probab=74.35 E-value=3.5 Score=26.11 Aligned_cols=26 Identities=15% Similarity=0.107 Sum_probs=23.4
Q ss_pred CCeEEcccCCCCCHHHHHHHHHHHHH
Q 035388 10 IPFLETSAKDAINVEQAFLTMAGEIK 35 (66)
Q Consensus 10 ~~~~etSAkt~~~v~~~F~~l~~~i~ 35 (66)
.|.|-.||++|.||..+++.++..+.
T Consensus 249 ~PV~~GSA~~n~Gv~~LLd~i~~~~P 274 (526)
T PRK00741 249 TPVFFGSALNNFGVQEFLDAFVEWAP 274 (526)
T ss_pred EEEEEeecccCcCHHHHHHHHHHHCC
Confidence 57899999999999999999988875
No 262
>COG1159 Era GTPase [General function prediction only]
Probab=74.16 E-value=3.8 Score=24.29 Aligned_cols=25 Identities=16% Similarity=0.122 Sum_probs=20.9
Q ss_pred CeEEcccCCCCCHHHHHHHHHHHHH
Q 035388 11 PFLETSAKDAINVEQAFLTMAGEIK 35 (66)
Q Consensus 11 ~~~etSAkt~~~v~~~F~~l~~~i~ 35 (66)
..+..||++|.||+.+-..+...+.
T Consensus 148 ~ivpiSA~~g~n~~~L~~~i~~~Lp 172 (298)
T COG1159 148 EIVPISALKGDNVDTLLEIIKEYLP 172 (298)
T ss_pred eEEEeeccccCCHHHHHHHHHHhCC
Confidence 4689999999999999887776654
No 263
>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=73.59 E-value=3.8 Score=23.54 Aligned_cols=25 Identities=16% Similarity=0.182 Sum_probs=21.7
Q ss_pred CCeEEcccCCCCCHHHHHHHHHHHH
Q 035388 10 IPFLETSAKDAINVEQAFLTMAGEI 34 (66)
Q Consensus 10 ~~~~etSAkt~~~v~~~F~~l~~~i 34 (66)
+|.|-.||.++.||..+...|+..+
T Consensus 240 ~Pv~~gsa~~~~Gv~~Lld~i~~~~ 264 (267)
T cd04169 240 TPVFFGSALNNFGVQELLDALVDLA 264 (267)
T ss_pred EEEEecccccCcCHHHHHHHHHHHC
Confidence 6789999999999999998887654
No 264
>PRK01889 GTPase RsgA; Reviewed
Probab=72.57 E-value=5.3 Score=24.00 Aligned_cols=23 Identities=26% Similarity=0.371 Sum_probs=19.5
Q ss_pred CCCeEEcccCCCCCHHHHHHHHH
Q 035388 9 GIPFLETSAKDAINVEQAFLTMA 31 (66)
Q Consensus 9 ~~~~~etSAkt~~~v~~~F~~l~ 31 (66)
+.+.|.+||+++.|++++-..|.
T Consensus 171 g~~Vi~vSa~~g~gl~~L~~~L~ 193 (356)
T PRK01889 171 GVPVLAVSALDGEGLDVLAAWLS 193 (356)
T ss_pred CCcEEEEECCCCccHHHHHHHhh
Confidence 56789999999999999877664
No 265
>KOG1707 consensus Predicted Ras related/Rac-GTP binding protein [Defense mechanisms]
Probab=71.56 E-value=0.84 Score=29.35 Aligned_cols=25 Identities=24% Similarity=0.244 Sum_probs=21.6
Q ss_pred eEEcccCCCCCHHHHHHHHHHHHHH
Q 035388 12 FLETSAKDAINVEQAFLTMAGEIKK 36 (66)
Q Consensus 12 ~~etSAkt~~~v~~~F~~l~~~i~~ 36 (66)
-+|+||++-.||.++|...-+.|+.
T Consensus 152 ciecSA~~~~n~~e~fYyaqKaVih 176 (625)
T KOG1707|consen 152 CIECSALTLANVSELFYYAQKAVIH 176 (625)
T ss_pred HHhhhhhhhhhhHhhhhhhhheeec
Confidence 5899999999999999987777664
No 266
>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=70.62 E-value=5.3 Score=25.38 Aligned_cols=26 Identities=12% Similarity=0.052 Sum_probs=23.3
Q ss_pred CCeEEcccCCCCCHHHHHHHHHHHHH
Q 035388 10 IPFLETSAKDAINVEQAFLTMAGEIK 35 (66)
Q Consensus 10 ~~~~etSAkt~~~v~~~F~~l~~~i~ 35 (66)
.|.|--||.++.||..+++.++..+.
T Consensus 250 ~PV~~GSA~~n~Gv~~LLd~i~~~~P 275 (527)
T TIGR00503 250 TPVFFGTALGNFGVDHFLDGLLQWAP 275 (527)
T ss_pred eEEEEeecccCccHHHHHHHHHHHCC
Confidence 57899999999999999999988875
No 267
>PRK09866 hypothetical protein; Provisional
Probab=70.16 E-value=6.8 Score=26.07 Aligned_cols=22 Identities=14% Similarity=0.019 Sum_probs=19.6
Q ss_pred CeEEcccCCCCCHHHHHHHHHH
Q 035388 11 PFLETSAKDAINVEQAFLTMAG 32 (66)
Q Consensus 11 ~~~etSAkt~~~v~~~F~~l~~ 32 (66)
..|.+||+.|.|++++...|..
T Consensus 329 eIfPVSAlkG~nid~LLdeI~~ 350 (741)
T PRK09866 329 QIFPVSSMWGYLANRARHELAN 350 (741)
T ss_pred eEEEEeCCCCCCHHHHHHHHHh
Confidence 4789999999999999988866
No 268
>COG0536 Obg Predicted GTPase [General function prediction only]
Probab=69.84 E-value=13 Score=22.76 Aligned_cols=24 Identities=13% Similarity=0.140 Sum_probs=20.7
Q ss_pred cccCCCCCHHHHHHHHHHHHHHHh
Q 035388 15 TSAKDAINVEQAFLTMAGEIKKKM 38 (66)
Q Consensus 15 tSAkt~~~v~~~F~~l~~~i~~~~ 38 (66)
.||.++.|++++...+.+.+....
T Consensus 313 ISa~t~~g~~~L~~~~~~~l~~~~ 336 (369)
T COG0536 313 ISALTREGLDELLRALAELLEETK 336 (369)
T ss_pred eehhcccCHHHHHHHHHHHHHHhh
Confidence 999999999999988888776543
No 269
>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=69.80 E-value=2.1 Score=25.98 Aligned_cols=17 Identities=29% Similarity=0.311 Sum_probs=14.7
Q ss_pred CCeEEcccCCCCCHHHH
Q 035388 10 IPFLETSAKDAINVEQA 26 (66)
Q Consensus 10 ~~~~etSAkt~~~v~~~ 26 (66)
++++.+||++|.|+++.
T Consensus 172 ~~iipiSA~~g~ni~~~ 188 (406)
T TIGR02034 172 VTFIPLSALKGDNVVSR 188 (406)
T ss_pred ccEEEeecccCCCCccc
Confidence 46999999999999863
No 270
>PRK05124 cysN sulfate adenylyltransferase subunit 1; Provisional
Probab=69.69 E-value=2.6 Score=26.25 Aligned_cols=17 Identities=35% Similarity=0.341 Sum_probs=15.1
Q ss_pred CCeEEcccCCCCCHHHH
Q 035388 10 IPFLETSAKDAINVEQA 26 (66)
Q Consensus 10 ~~~~etSAkt~~~v~~~ 26 (66)
.+++.+||++|.||+++
T Consensus 200 ~~iipvSA~~g~ni~~~ 216 (474)
T PRK05124 200 IRFVPLSALEGDNVVSQ 216 (474)
T ss_pred ceEEEEEeecCCCcccc
Confidence 66899999999999865
No 271
>PRK12736 elongation factor Tu; Reviewed
Probab=68.81 E-value=11 Score=22.82 Aligned_cols=24 Identities=21% Similarity=0.270 Sum_probs=16.4
Q ss_pred CCeEEcccCCCC--------CHHHHHHHHHHH
Q 035388 10 IPFLETSAKDAI--------NVEQAFLTMAGE 33 (66)
Q Consensus 10 ~~~~etSAkt~~--------~v~~~F~~l~~~ 33 (66)
++++.+||++|. ++.+++..+.+.
T Consensus 168 ~~ii~vSa~~g~~~~~~~~~~i~~Ll~~l~~~ 199 (394)
T PRK12736 168 IPVIRGSALKALEGDPKWEDAIMELMDAVDEY 199 (394)
T ss_pred ccEEEeeccccccCCCcchhhHHHHHHHHHHh
Confidence 579999999984 355555554443
No 272
>PF12651 RHH_3: Ribbon-helix-helix domain
Probab=67.23 E-value=7.3 Score=16.18 Aligned_cols=24 Identities=17% Similarity=0.133 Sum_probs=18.9
Q ss_pred EcccCCCCCHHHHHHHHHHHHHHH
Q 035388 14 ETSAKDAINVEQAFLTMAGEIKKK 37 (66)
Q Consensus 14 etSAkt~~~v~~~F~~l~~~i~~~ 37 (66)
+.|..+|.....++...++..++.
T Consensus 19 ~ls~~t~i~~S~Ll~eAle~~l~k 42 (44)
T PF12651_consen 19 ELSEETGIPKSKLLREALEDYLEK 42 (44)
T ss_pred HHHHHHCCCHHHHHHHHHHHHHHh
Confidence 446778888889998888887764
No 273
>KOG0090 consensus Signal recognition particle receptor, beta subunit (small G protein superfamily) [Intracellular trafficking, secretion, and vesicular transport]
Probab=66.20 E-value=6.5 Score=22.51 Aligned_cols=23 Identities=26% Similarity=0.260 Sum_probs=17.8
Q ss_pred CCCeEEcccCCCCCHHHHHHHHHH
Q 035388 9 GIPFLETSAKDAINVEQAFLTMAG 32 (66)
Q Consensus 9 ~~~~~etSAkt~~~v~~~F~~l~~ 32 (66)
.+.|.|+|+|++ +|++.-.-+.+
T Consensus 214 ~V~F~e~S~~~~-~i~~~~~wi~~ 236 (238)
T KOG0090|consen 214 KVTFAEASAKTG-EIDQWESWIRE 236 (238)
T ss_pred eeEEeecccCcC-ChHHHHHHHHH
Confidence 467999999999 88887655543
No 274
>PF12683 DUF3798: Protein of unknown function (DUF3798); InterPro: IPR024258 This entry represents functionally uncharacterised proteins that are found in bacteria. They are typically between 247 and 417 amino acids in length. Most of the proteins in this entry have an N-terminal lipoprotein attachment site. These proteins have distant similarity to periplasmic ligand binding families suggesting that this family has a similar role.; PDB: 3QI7_A.
Probab=66.04 E-value=11 Score=22.14 Aligned_cols=36 Identities=28% Similarity=0.413 Sum_probs=25.7
Q ss_pred HHHHHHhCCCeEEcccCC---CCCHHHHHHHHHHHHHHH
Q 035388 2 QAFADELGIPFLETSAKD---AINVEQAFLTMAGEIKKK 37 (66)
Q Consensus 2 ~~~a~~~~~~~~etSAkt---~~~v~~~F~~l~~~i~~~ 37 (66)
++-|+.+|+.|.+..|-. +.+|.-+=..|.+.+.+.
T Consensus 156 ~~~C~~lGi~fv~~taPDP~sd~gv~gaqqfIlE~vp~~ 194 (275)
T PF12683_consen 156 EEACKDLGIKFVEVTAPDPTSDVGVAGAQQFILEDVPKW 194 (275)
T ss_dssp HHHHHHCT--EEEEEE---SSTCHHHHHHHHHHHHHHHH
T ss_pred HHHHHHcCCeEEEEeCCCCCCCCCcHHHHHHHHHHHHHH
Confidence 467889999999998886 888888877777777654
No 275
>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=65.69 E-value=9 Score=20.93 Aligned_cols=15 Identities=27% Similarity=0.392 Sum_probs=13.0
Q ss_pred CCeEEcccCCCCCHH
Q 035388 10 IPFLETSAKDAINVE 24 (66)
Q Consensus 10 ~~~~etSAkt~~~v~ 24 (66)
++++-+||++|.|+.
T Consensus 158 v~iipiSa~~g~n~~ 172 (195)
T cd01884 158 TPIVRGSALKALEGD 172 (195)
T ss_pred CeEEEeeCccccCCC
Confidence 679999999999863
No 276
>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=65.52 E-value=7 Score=19.90 Aligned_cols=18 Identities=22% Similarity=0.023 Sum_probs=13.6
Q ss_pred HHHhCCCeEEcccCCCCC
Q 035388 5 ADELGIPFLETSAKDAIN 22 (66)
Q Consensus 5 a~~~~~~~~etSAkt~~~ 22 (66)
.+..+..++.+||+++.+
T Consensus 67 ~~~~~~~ii~iSa~~~~~ 84 (141)
T cd01857 67 FKKEGIVVVFFSALKENA 84 (141)
T ss_pred HHhcCCeEEEEEecCCCc
Confidence 344567789999999875
No 277
>PRK10218 GTP-binding protein; Provisional
Probab=64.27 E-value=7.8 Score=25.15 Aligned_cols=27 Identities=15% Similarity=0.379 Sum_probs=20.5
Q ss_pred CCCeEEcccCCCC----------CHHHHHHHHHHHHH
Q 035388 9 GIPFLETSAKDAI----------NVEQAFLTMAGEIK 35 (66)
Q Consensus 9 ~~~~~etSAkt~~----------~v~~~F~~l~~~i~ 35 (66)
.++++.+||++|. ++..+|+.+...+.
T Consensus 159 ~~PVi~~SA~~G~~~~~~~~~~~~i~~Lld~Ii~~iP 195 (607)
T PRK10218 159 DFPIVYASALNGIAGLDHEDMAEDMTPLYQAIVDHVP 195 (607)
T ss_pred CCCEEEeEhhcCcccCCccccccchHHHHHHHHHhCC
Confidence 4678999999998 47777776665553
No 278
>COG5257 GCD11 Translation initiation factor 2, gamma subunit (eIF-2gamma; GTPase) [Translation, ribosomal structure and biogenesis]
Probab=62.42 E-value=8.8 Score=23.53 Aligned_cols=27 Identities=19% Similarity=0.302 Sum_probs=24.3
Q ss_pred CCCeEEcccCCCCCHHHHHHHHHHHHH
Q 035388 9 GIPFLETSAKDAINVEQAFLTMAGEIK 35 (66)
Q Consensus 9 ~~~~~etSAkt~~~v~~~F~~l~~~i~ 35 (66)
+.+.+-+||.-+.||+-+++.|.+.|.
T Consensus 176 ~aPIIPiSA~~~~NIDal~e~i~~~Ip 202 (415)
T COG5257 176 NAPIIPISAQHKANIDALIEAIEKYIP 202 (415)
T ss_pred CCceeeehhhhccCHHHHHHHHHHhCC
Confidence 468899999999999999999988875
No 279
>PRK00007 elongation factor G; Reviewed
Probab=59.02 E-value=10 Score=24.87 Aligned_cols=26 Identities=19% Similarity=0.183 Sum_probs=22.7
Q ss_pred CCeEEcccCCCCCHHHHHHHHHHHHH
Q 035388 10 IPFLETSAKDAINVEQAFLTMAGEIK 35 (66)
Q Consensus 10 ~~~~etSAkt~~~v~~~F~~l~~~i~ 35 (66)
++.+-.||+++.||..+++.|++.+.
T Consensus 255 ~Pv~~gSa~~~~Gv~~LLd~I~~~lP 280 (693)
T PRK00007 255 VPVLCGSAFKNKGVQPLLDAVVDYLP 280 (693)
T ss_pred EEEEecccccCcCHHHHHHHHHHHCC
Confidence 56788999999999999998888775
No 280
>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=58.89 E-value=9.9 Score=24.88 Aligned_cols=26 Identities=19% Similarity=0.138 Sum_probs=22.9
Q ss_pred CCeEEcccCCCCCHHHHHHHHHHHHH
Q 035388 10 IPFLETSAKDAINVEQAFLTMAGEIK 35 (66)
Q Consensus 10 ~~~~etSAkt~~~v~~~F~~l~~~i~ 35 (66)
++.+-.||++|.||..+++.|+..+.
T Consensus 254 ~PV~~gSa~~~~Gv~~LLd~I~~~lP 279 (689)
T TIGR00484 254 FPVLCGSAFKNKGVQLLLDAVVDYLP 279 (689)
T ss_pred EEEEeccccCCccHHHHHHHHHHHCC
Confidence 56788999999999999999988775
No 281
>PRK12735 elongation factor Tu; Reviewed
Probab=58.84 E-value=18 Score=22.07 Aligned_cols=24 Identities=17% Similarity=0.239 Sum_probs=16.9
Q ss_pred CCeEEcccCCCC----------CHHHHHHHHHHH
Q 035388 10 IPFLETSAKDAI----------NVEQAFLTMAGE 33 (66)
Q Consensus 10 ~~~~etSAkt~~----------~v~~~F~~l~~~ 33 (66)
++++.+||++|. ++.+++..|...
T Consensus 168 ~~ii~~Sa~~g~n~~~~~~w~~~~~~Ll~~l~~~ 201 (396)
T PRK12735 168 TPIIRGSALKALEGDDDEEWEAKILELMDAVDSY 201 (396)
T ss_pred eeEEecchhccccCCCCCcccccHHHHHHHHHhc
Confidence 679999999995 455555555443
No 282
>KOG0070 consensus GTP-binding ADP-ribosylation factor Arf1 [Intracellular trafficking, secretion, and vesicular transport]
Probab=58.64 E-value=18 Score=20.00 Aligned_cols=25 Identities=16% Similarity=0.154 Sum_probs=21.2
Q ss_pred eEEcccCCCCCHHHHHHHHHHHHHH
Q 035388 12 FLETSAKDAINVEQAFLTMAGEIKK 36 (66)
Q Consensus 12 ~~etSAkt~~~v~~~F~~l~~~i~~ 36 (66)
+..|+|.+|.|+.+.++-+...+..
T Consensus 155 iq~~~a~~G~GL~egl~wl~~~~~~ 179 (181)
T KOG0070|consen 155 IQSTCAISGEGLYEGLDWLSNNLKK 179 (181)
T ss_pred EeeccccccccHHHHHHHHHHHHhc
Confidence 4589999999999999998887753
No 283
>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=57.50 E-value=25 Score=21.37 Aligned_cols=13 Identities=31% Similarity=0.493 Sum_probs=11.1
Q ss_pred CCeEEcccCCCCC
Q 035388 10 IPFLETSAKDAIN 22 (66)
Q Consensus 10 ~~~~etSAkt~~~ 22 (66)
++++.+||++|.+
T Consensus 168 ~~ii~vSa~~g~~ 180 (394)
T TIGR00485 168 TPIIRGSALKALE 180 (394)
T ss_pred ccEEECccccccc
Confidence 6899999999863
No 284
>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=57.00 E-value=24 Score=20.05 Aligned_cols=23 Identities=22% Similarity=0.359 Sum_probs=17.3
Q ss_pred CeEEcccCCCCCHHHHHHHHHHH
Q 035388 11 PFLETSAKDAINVEQAFLTMAGE 33 (66)
Q Consensus 11 ~~~etSAkt~~~v~~~F~~l~~~ 33 (66)
.|+-.|++++.++++++..+-+.
T Consensus 213 ~f~pls~~~~~~~~~L~~~id~a 235 (238)
T PF03029_consen 213 RFIPLSSKDGEGMEELLAAIDKA 235 (238)
T ss_dssp --EE-BTTTTTTHHHHHHHHHHH
T ss_pred eEEEEECCChHHHHHHHHHHHHH
Confidence 68999999999999999876543
No 285
>PF08103 Antimicrobial_8: Uperin family; InterPro: IPR012527 This family consists of the uperin family of antimicrobial peptides. Uperin is a wide-spectrum antibiotic peptide isolated from the Australian toadlet, Uperoleia mjobergii. Being only 17 amino acid residues long, it is smaller than most other wide-spectrum antibiotic peptides isolated from amphibians. Uperin adopts a well-defined amphipathic alpha-helix with distinct hydrophilic and hydrophobic faces [].; GO: 0005576 extracellular region
Probab=56.92 E-value=9.2 Score=12.72 Aligned_cols=14 Identities=29% Similarity=0.323 Sum_probs=9.8
Q ss_pred CHHHHHHHHHHHHH
Q 035388 22 NVEQAFLTMAGEIK 35 (66)
Q Consensus 22 ~v~~~F~~l~~~i~ 35 (66)
||-++|..++..|.
T Consensus 1 GVgd~~rKivs~iK 14 (17)
T PF08103_consen 1 GVGDAIRKIVSVIK 14 (17)
T ss_pred ChHHHHHHHHHHHH
Confidence 56778888776653
No 286
>PTZ00141 elongation factor 1- alpha; Provisional
Probab=56.70 E-value=7.1 Score=24.23 Aligned_cols=17 Identities=24% Similarity=0.384 Sum_probs=14.5
Q ss_pred CCCeEEcccCCCCCHHH
Q 035388 9 GIPFLETSAKDAINVEQ 25 (66)
Q Consensus 9 ~~~~~etSAkt~~~v~~ 25 (66)
+++|+-+||.+|.||.+
T Consensus 187 ~~~~ipiSa~~g~ni~~ 203 (446)
T PTZ00141 187 KVPFIPISGWQGDNMIE 203 (446)
T ss_pred cceEEEeecccCCCccc
Confidence 36799999999999964
No 287
>COG1163 DRG Predicted GTPase [General function prediction only]
Probab=54.76 E-value=22 Score=21.76 Aligned_cols=24 Identities=21% Similarity=0.171 Sum_probs=20.6
Q ss_pred CeEEcccCCCCCHHHHHHHHHHHH
Q 035388 11 PFLETSAKDAINVEQAFLTMAGEI 34 (66)
Q Consensus 11 ~~~etSAkt~~~v~~~F~~l~~~i 34 (66)
.++-.||+.+.|++++-..|-+.+
T Consensus 265 ~~v~isa~~~~nld~L~e~i~~~L 288 (365)
T COG1163 265 NSVPISAKKGINLDELKERIWDVL 288 (365)
T ss_pred ceEEEecccCCCHHHHHHHHHHhh
Confidence 688899999999999888877664
No 288
>COG5258 GTPBP1 GTPase [General function prediction only]
Probab=53.02 E-value=17 Score=23.00 Aligned_cols=19 Identities=16% Similarity=0.137 Sum_probs=15.6
Q ss_pred CCeEEcccCCCCCHHHHHH
Q 035388 10 IPFLETSAKDAINVEQAFL 28 (66)
Q Consensus 10 ~~~~etSAkt~~~v~~~F~ 28 (66)
+|.|.||+-||.|++-+-.
T Consensus 314 vPi~~tSsVTg~GldlL~e 332 (527)
T COG5258 314 VPIFYTSSVTGEGLDLLDE 332 (527)
T ss_pred EEEEEEecccCccHHHHHH
Confidence 6899999999999875543
No 289
>cd00824 PTBI IRS-like phosphotyrosine-binding domain. IRS-like phosphotyrosine-binding domain (PTBi); This domain has a PH-like fold and is found in insulin receptor substrate molecules and in other eukaryotic signaling molecules such as FRS2 and Dok. IRS and Dok molecules have an N-terminal PH domain, which is followed by an IRS-like PTB domain. FRS2 just has an N-terminal PTBi domain. This PTBi domain is shorter than the PTB domain which is found in SHC, Numb and other proteins. The PTBi domain binds to phosphotyrosines which are in NPXpY motifs.
Probab=51.83 E-value=31 Score=17.26 Aligned_cols=29 Identities=17% Similarity=0.209 Sum_probs=19.0
Q ss_pred CCeEEc--ccCCCCCH--------HHHHHHHHHHHHHHh
Q 035388 10 IPFLET--SAKDAINV--------EQAFLTMAGEIKKKM 38 (66)
Q Consensus 10 ~~~~et--SAkt~~~v--------~~~F~~l~~~i~~~~ 38 (66)
+.+||. ++.+|.|+ +++|..+-..|...+
T Consensus 60 ~FsfEaGRrc~tG~G~f~f~t~~~~~I~~~v~~~i~~~~ 98 (104)
T cd00824 60 LFSFEAGRRCVTGEGIFTFQTDRAEEIFQNVHETILAAM 98 (104)
T ss_pred EEEEEccCcCCCCCCEEEEEcCCHHHHHHHHHHHHHHHH
Confidence 345665 55667665 677887777776654
No 290
>PRK05506 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional
Probab=49.01 E-value=14 Score=23.97 Aligned_cols=16 Identities=31% Similarity=0.353 Sum_probs=13.9
Q ss_pred CCeEEcccCCCCCHHH
Q 035388 10 IPFLETSAKDAINVEQ 25 (66)
Q Consensus 10 ~~~~etSAkt~~~v~~ 25 (66)
.+++.+||++|.||++
T Consensus 196 ~~iipiSA~~g~ni~~ 211 (632)
T PRK05506 196 VTFIPISALKGDNVVT 211 (632)
T ss_pred ccEEEEecccCCCccc
Confidence 4589999999999984
No 291
>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=48.55 E-value=20 Score=21.39 Aligned_cols=26 Identities=15% Similarity=0.015 Sum_probs=21.4
Q ss_pred CCeEEcccCCCCCHHHHHH-HHHHHHH
Q 035388 10 IPFLETSAKDAINVEQAFL-TMAGEIK 35 (66)
Q Consensus 10 ~~~~etSAkt~~~v~~~F~-~l~~~i~ 35 (66)
...+.+||+.+.+++++.. .+++.+.
T Consensus 243 ~~iI~iSA~~e~~L~~L~~~~i~~~lP 269 (318)
T cd01899 243 EIVVPTSAEAELALRRAAKQGLIKYDP 269 (318)
T ss_pred CeEEEEeCcccccHHHHHHhhHHHhCC
Confidence 5689999999999999887 4776664
No 292
>PRK00407 hypothetical protein; Provisional
Probab=48.07 E-value=28 Score=18.21 Aligned_cols=20 Identities=20% Similarity=0.170 Sum_probs=17.0
Q ss_pred CCCHHHHHHHHHHHHHHHhc
Q 035388 20 AINVEQAFLTMAGEIKKKMG 39 (66)
Q Consensus 20 ~~~v~~~F~~l~~~i~~~~~ 39 (66)
|.+++++|..++..++....
T Consensus 19 g~tleE~F~~aa~a~~~~m~ 38 (139)
T PRK00407 19 GRTLEEAFENAALAVFDVIT 38 (139)
T ss_pred ECCHHHHHHHHHHHHHHhhc
Confidence 67899999999999887653
No 293
>smart00310 PTBI Phosphotyrosine-binding domain (IRS1-like).
Probab=46.92 E-value=37 Score=16.81 Aligned_cols=26 Identities=12% Similarity=0.209 Sum_probs=15.5
Q ss_pred CCeEEc--ccCCCCCH--------HHHHHHHHHHHH
Q 035388 10 IPFLET--SAKDAINV--------EQAFLTMAGEIK 35 (66)
Q Consensus 10 ~~~~et--SAkt~~~v--------~~~F~~l~~~i~ 35 (66)
+.+||+ +|.+|.|+ +++|..+...|.
T Consensus 59 ~FsfEaGRrc~tG~G~f~f~t~~a~~i~~~v~~a~~ 94 (98)
T smart00310 59 FFFFEAGRRCVSGPGEFTFQTVVAQEIFQLVLEAMQ 94 (98)
T ss_pred EEEEEccCcCCCCCCEEEEEcCcHHHHHHHHHHHHH
Confidence 445665 55566665 677766655554
No 294
>TIGR03884 sel_bind_Methan selenium-binding protein. This model describes a homopentameric selenium-binding protein with a suggested role in selenium transport and delivery to selenophosphate synthase, the SelD protein. This protein family is closely related to pfam01906, but is shorter because of several deleted regions. It is restricted to the archaeal genus Methanococcus.
Probab=46.22 E-value=34 Score=16.14 Aligned_cols=26 Identities=19% Similarity=0.363 Sum_probs=19.5
Q ss_pred eEEcccCCCCCHHHHHHHHHHHHHHH
Q 035388 12 FLETSAKDAINVEQAFLTMAGEIKKK 37 (66)
Q Consensus 12 ~~etSAkt~~~v~~~F~~l~~~i~~~ 37 (66)
|+..-.-.+.++++++.+|.+...+.
T Consensus 16 yl~iv~~~~~d~d~Al~eM~e~A~~l 41 (74)
T TIGR03884 16 YLGIVSTESDNVDEIVENLREKVKAK 41 (74)
T ss_pred EEEEEEEecCCHHHHHHHHHHHHHHc
Confidence 45444457889999999998887653
No 295
>COG2895 CysN GTPases - Sulfate adenylate transferase subunit 1 [Inorganic ion transport and metabolism]
Probab=46.18 E-value=21 Score=22.22 Aligned_cols=23 Identities=43% Similarity=0.509 Sum_probs=18.8
Q ss_pred HHHHHhCC---CeEEcccCCCCCHHH
Q 035388 3 AFADELGI---PFLETSAKDAINVEQ 25 (66)
Q Consensus 3 ~~a~~~~~---~~~etSAkt~~~v~~ 25 (66)
.||.++++ .|+-.||..|.||-.
T Consensus 168 ~fa~~L~~~~~~~IPiSAl~GDNV~~ 193 (431)
T COG2895 168 AFAAQLGLKDVRFIPISALLGDNVVS 193 (431)
T ss_pred HHHHHcCCCcceEEechhccCCcccc
Confidence 57888874 489999999999953
No 296
>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=45.29 E-value=47 Score=17.92 Aligned_cols=27 Identities=11% Similarity=0.116 Sum_probs=22.8
Q ss_pred CeEEcccC--CCCCHHHHHHHHHHHHHHH
Q 035388 11 PFLETSAK--DAINVEQAFLTMAGEIKKK 37 (66)
Q Consensus 11 ~~~etSAk--t~~~v~~~F~~l~~~i~~~ 37 (66)
++|-+|+. .+.++..+...|...+.+.
T Consensus 158 ~v~~vS~~~~~~~~~~~l~~~~~~~l~~~ 186 (197)
T cd04104 158 PVFLVSNFDPSDYDFPKLRETLLKDLPAH 186 (197)
T ss_pred CEEEEeCCChhhcChHHHHHHHHHHhhHH
Confidence 58999998 6899999999888888754
No 297
>PRK12739 elongation factor G; Reviewed
Probab=43.67 E-value=26 Score=23.12 Aligned_cols=26 Identities=19% Similarity=0.156 Sum_probs=22.5
Q ss_pred CCeEEcccCCCCCHHHHHHHHHHHHH
Q 035388 10 IPFLETSAKDAINVEQAFLTMAGEIK 35 (66)
Q Consensus 10 ~~~~etSAkt~~~v~~~F~~l~~~i~ 35 (66)
++.+-.||.++.||+.+.+.|+..+.
T Consensus 253 ~Pv~~gSa~~~~Gv~~LLd~I~~~lP 278 (691)
T PRK12739 253 FPVLCGSAFKNKGVQPLLDAVVDYLP 278 (691)
T ss_pred EEEEeccccCCccHHHHHHHHHHHCC
Confidence 46788899999999999999888774
No 298
>KOG1144 consensus Translation initiation factor 5B (eIF-5B) [Translation, ribosomal structure and biogenesis]
Probab=43.63 E-value=36 Score=23.50 Aligned_cols=22 Identities=18% Similarity=0.161 Sum_probs=18.5
Q ss_pred EEcccCCCCCHHHHHHHHHHHH
Q 035388 13 LETSAKDAINVEQAFLTMAGEI 34 (66)
Q Consensus 13 ~etSAkt~~~v~~~F~~l~~~i 34 (66)
+-|||-+|.||.++...|++.-
T Consensus 665 VPTSA~sGeGipdLl~llv~lt 686 (1064)
T KOG1144|consen 665 VPTSAISGEGIPDLLLLLVQLT 686 (1064)
T ss_pred eecccccCCCcHHHHHHHHHHH
Confidence 5689999999999988777654
No 299
>PRK04220 2-phosphoglycerate kinase; Provisional
Probab=42.63 E-value=75 Score=19.06 Aligned_cols=31 Identities=19% Similarity=0.433 Sum_probs=25.4
Q ss_pred HHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHHHh
Q 035388 3 AFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKM 38 (66)
Q Consensus 3 ~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~~~ 38 (66)
+.|+.++++++ .+.+|++....+.+.|.+..
T Consensus 262 ~~a~~~~ip~I-----~n~~i~~s~~~~~~~i~~~~ 292 (301)
T PRK04220 262 EKAKKHGVPVI-----ENISIEETVDKILEIITERL 292 (301)
T ss_pred HHHHHhCCCee-----cCccHHHHHHHHHHHHHHHH
Confidence 45888999998 48899999999888887654
No 300
>KOG4102 consensus Uncharacterized conserved protein [Function unknown]
Probab=42.44 E-value=8.7 Score=19.74 Aligned_cols=9 Identities=33% Similarity=0.863 Sum_probs=5.3
Q ss_pred CCCCCCCCC
Q 035388 58 IQQNSNCCG 66 (66)
Q Consensus 58 ~~~~~~CC~ 66 (66)
..+++.|||
T Consensus 58 grkKSKcCC 66 (121)
T KOG4102|consen 58 GRKKSKCCC 66 (121)
T ss_pred cccccceeE
Confidence 445566775
No 301
>PF07905 PucR: Purine catabolism regulatory protein-like family; InterPro: IPR012914 This domain is found in the purine catabolism regulatory protein expressed by Bacillus subtilis (PucR, O32138 from SWISSPROT). PucR is thought to be a transcriptional regulator of genes involved in the purine degradation pathway, and may contain a LysR-like DNA-binding domain. It is similar to LysR-type regulators in that it represses its own expression []. The other members of this family are also putative regulatory proteins.
Probab=41.54 E-value=49 Score=16.63 Aligned_cols=29 Identities=24% Similarity=0.397 Sum_probs=18.4
Q ss_pred HHHHHHhCCCeEEcccCCCCCHHHHHHHHHH
Q 035388 2 QAFADELGIPFLETSAKDAINVEQAFLTMAG 32 (66)
Q Consensus 2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~ 32 (66)
.++|+++++|.|+... .....++...+.+
T Consensus 92 i~~A~~~~lPli~ip~--~~~f~~I~~~v~~ 120 (123)
T PF07905_consen 92 IELADELGLPLIEIPW--EVPFSDITREVMR 120 (123)
T ss_pred HHHHHHcCCCEEEeCC--CCCHHHHHHHHHH
Confidence 3578889999888877 3444444444433
No 302
>PLN03199 delta6-acyl-lipid desaturase-like protein; Provisional
Probab=40.13 E-value=23 Score=22.35 Aligned_cols=27 Identities=15% Similarity=0.320 Sum_probs=18.8
Q ss_pred HHHHHHhCCCeEEcccCCCCCHHHHHHHH
Q 035388 2 QAFADELGIPFLETSAKDAINVEQAFLTM 30 (66)
Q Consensus 2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l 30 (66)
+++|+++|++|-+++ --.++.+.|..|
T Consensus 441 k~~C~k~glpY~~~~--~~~a~~~~~~~L 467 (485)
T PLN03199 441 ESFCKEWGVKYHEAD--LVDGTMEVLHHL 467 (485)
T ss_pred HHHHHHhCCCccccC--HHHHHHHHHHHH
Confidence 579999999999887 333345555444
No 303
>KOG0461 consensus Selenocysteine-specific elongation factor [Translation, ribosomal structure and biogenesis]
Probab=39.89 E-value=97 Score=19.58 Aligned_cols=26 Identities=23% Similarity=0.268 Sum_probs=17.5
Q ss_pred CCeEEcccCCC----CCHHHHHHHHHHHHH
Q 035388 10 IPFLETSAKDA----INVEQAFLTMAGEIK 35 (66)
Q Consensus 10 ~~~~etSAkt~----~~v~~~F~~l~~~i~ 35 (66)
.+.+++||+.| ++|.++-+.|-..+.
T Consensus 164 ~PI~~vsa~~G~~~~~~i~eL~e~l~s~if 193 (522)
T KOG0461|consen 164 SPIVEVSAADGYFKEEMIQELKEALESRIF 193 (522)
T ss_pred CceeEEecCCCccchhHHHHHHHHHHHhhc
Confidence 67899999999 555555544444443
No 304
>PRK00625 shikimate kinase; Provisional
Probab=39.82 E-value=63 Score=17.40 Aligned_cols=30 Identities=20% Similarity=0.329 Sum_probs=20.6
Q ss_pred HHHHHHhCCCeEEcccC----CCC----CHHHHHHHHH
Q 035388 2 QAFADELGIPFLETSAK----DAI----NVEQAFLTMA 31 (66)
Q Consensus 2 ~~~a~~~~~~~~etSAk----t~~----~v~~~F~~l~ 31 (66)
+.+|+..+++|+.++.. .|. .+.++|..--
T Consensus 18 k~La~~l~~~~id~D~~I~~~~g~~~~~~i~eif~~~G 55 (173)
T PRK00625 18 KALAKFLSLPFFDTDDLIVSNYHGALYSSPKEIYQAYG 55 (173)
T ss_pred HHHHHHhCCCEEEhhHHHHHHhCCCCCCCHHHHHHHHC
Confidence 56788889999988752 344 6777765543
No 305
>KOG1249 consensus Predicted GTPases [General function prediction only]
Probab=39.20 E-value=19 Score=23.38 Aligned_cols=23 Identities=13% Similarity=0.163 Sum_probs=19.0
Q ss_pred eEEcccCCCCCHHHHHHHHHHHH
Q 035388 12 FLETSAKDAINVEQAFLTMAGEI 34 (66)
Q Consensus 12 ~~etSAkt~~~v~~~F~~l~~~i 34 (66)
...+|||+|.+++++...|+...
T Consensus 188 ~~~~r~ktgyg~eeLI~~lvd~~ 210 (572)
T KOG1249|consen 188 VDLIRAKTGYGIEELIVMLVDIV 210 (572)
T ss_pred hhhhhhhhcccHHHHHHHhhhee
Confidence 35789999999999988887653
No 306
>PF01202 SKI: Shikimate kinase; InterPro: IPR000623 Shikimate kinase (2.7.1.71 from EC) catalyses the fifth step in the biosynthesis of aromatic amino acids from chorismate (the so-called shikimate pathway) []. The enzyme catalyses the following reaction: ATP + shikimate = ADP + shikimate-3-phosphate The protein is found in bacteria (gene aroK or aroL), plants and fungi (where it is part of a multifunctional enzyme that catalyses five consecutive steps in this pathway). In 1994, the 3D structure of shikimate kinase was predicted to be very close to that of adenylate kinase, suggesting a functional similarity as well as an evolutionary relationship []. This prediction has since been confirmed experimentally. The protein is reported to possess an alpha/beta fold, consisting of a central sheet of five parallel beta-strands flanked by alpha-helices. Such a topology is very similar to that of adenylate kinase [].; GO: 0004765 shikimate kinase activity, 0005524 ATP binding; PDB: 3VAA_C 1KO8_B 1KO4_B 1KO1_A 1KOF_A 1KNQ_A 1KO5_A 1KAG_A 2PT5_D 1SHK_A ....
Probab=38.75 E-value=28 Score=18.13 Aligned_cols=32 Identities=19% Similarity=0.454 Sum_probs=22.0
Q ss_pred CHHHHHHhCCCeEEc----ccCCCCCHHHHHHHHHH
Q 035388 1 MQAFADELGIPFLET----SAKDAINVEQAFLTMAG 32 (66)
Q Consensus 1 ~~~~a~~~~~~~~et----SAkt~~~v~~~F~~l~~ 32 (66)
|..+|+.++.+|+.+ ...+|.-+.++|..--.
T Consensus 9 g~~lA~~L~~~fiD~D~~i~~~~g~si~~i~~~~G~ 44 (158)
T PF01202_consen 9 GKLLAKRLGRPFIDLDDEIEERTGMSISEIFAEEGE 44 (158)
T ss_dssp HHHHHHHHTSEEEEHHHHHHHHHTSHHHHHHHHHHH
T ss_pred HHHHHHHhCCCccccCHHHHHHhCCcHHHHHHcCCh
Confidence 356888999998865 55667777776654433
No 307
>PF01951 Archease: Archease protein family (MTH1598/TM1083); InterPro: IPR023572 The archease superfamily of proteins are represented in all three domains of life. Archease genes are generally located adjacent to genes encoding proteins involved in DNA or RNA processing and therefore been predicted to be modulators or chaperones involved in DNA or RNA metabolism. Many of the roles of archeases remain to be established experimentally. The function of one of the archeases from the hyperthermophile Pyrococcus abyssi has been determined. The gene encoding the archease (PAB1946) is located in a bicistronic operon immediately upstream from a second open reading frame (PAB1947), which encodes a tRNA m5C methyltransferase. The methyl transferase catalyses m5C formation at several cytosine's within tRNAs with preference for C49; the specificity of the methyltransferase reaction being increased by the archease. The archease exists in monomeric and oligomeric states, with only the oligomeric forms able to bind the methyltransferase. Binding prevents aggregation and hinders dimerisation of the methyltransferase-tRNA complex []. The function of this family of archeases as chaperones is supported by structural analysis of O27635 from SWISSPROT from Methanobacterium thermoautotrophicum, which shows homology to heat shock protein 33, which is a chaperone protein that inhibits the aggregation of partially denatured proteins []. Structurally, the archeases are composed of a single three layer beta-alpha-beta sandwich domain similar to those found in other chaperones.; PDB: 1J5U_A 1JW3_A.
Probab=38.61 E-value=28 Score=18.00 Aligned_cols=20 Identities=20% Similarity=0.087 Sum_probs=16.9
Q ss_pred CCCHHHHHHHHHHHHHHHhc
Q 035388 20 AINVEQAFLTMAGEIKKKMG 39 (66)
Q Consensus 20 ~~~v~~~F~~l~~~i~~~~~ 39 (66)
|.+++++|..++..++....
T Consensus 16 G~sleelf~~aa~al~~~~~ 35 (137)
T PF01951_consen 16 GDSLEELFENAALALFELMV 35 (137)
T ss_dssp ESSCHHHHHHHHHHHHHHHT
T ss_pred ECCHHHHHHHHHHHHHHHhc
Confidence 56889999999999988654
No 308
>PF10881 DUF2726: Protein of unknown function (DUF2726); InterPro: IPR024402 This domain found in bacterial proteins has no known function.
Probab=37.62 E-value=58 Score=16.31 Aligned_cols=29 Identities=28% Similarity=0.433 Sum_probs=21.7
Q ss_pred HHHHHhCCCeEEcccCCCCCHHHHHHHHH
Q 035388 3 AFADELGIPFLETSAKDAINVEQAFLTMA 31 (66)
Q Consensus 3 ~~a~~~~~~~~etSAkt~~~v~~~F~~l~ 31 (66)
...+..|++++..+.+....++.+=..|-
T Consensus 95 ~~l~~agiplir~~~~~~~~~~~l~~~l~ 123 (126)
T PF10881_consen 95 RVLKKAGIPLIRISPKDSYSVEELRRDLR 123 (126)
T ss_pred HHHHHCCCCEEEEeCCCCCCHHHHHHHHH
Confidence 35566788999998888888887765553
No 309
>PF15307 SPACA7: Sperm acrosome-associated protein 7
Probab=37.41 E-value=46 Score=16.79 Aligned_cols=19 Identities=11% Similarity=0.099 Sum_probs=14.0
Q ss_pred CCCHHHHHHHH-HHHHHHHh
Q 035388 20 AINVEQAFLTM-AGEIKKKM 38 (66)
Q Consensus 20 ~~~v~~~F~~l-~~~i~~~~ 38 (66)
..+|.++|++| +++|++..
T Consensus 25 ~edi~e~lDEILvqeILd~~ 44 (108)
T PF15307_consen 25 DEDIAELLDEILVQEILDPN 44 (108)
T ss_pred cccHHHHHHHHHHHHHHccc
Confidence 56788888665 78898753
No 310
>COG4108 PrfC Peptide chain release factor RF-3 [Translation, ribosomal structure and biogenesis]
Probab=36.59 E-value=42 Score=21.59 Aligned_cols=26 Identities=15% Similarity=0.114 Sum_probs=21.7
Q ss_pred CCeEEcccCCCCCHHHHHHHHHHHHH
Q 035388 10 IPFLETSAKDAINVEQAFLTMAGEIK 35 (66)
Q Consensus 10 ~~~~etSAkt~~~v~~~F~~l~~~i~ 35 (66)
-|.|.=||.++.||+.+...++.-..
T Consensus 251 TPVFFGSAl~NFGV~~~L~~~~~~AP 276 (528)
T COG4108 251 TPVFFGSALGNFGVDHFLDALVDWAP 276 (528)
T ss_pred cceEehhhhhccCHHHHHHHHHhhCC
Confidence 46899999999999999888776553
No 311
>PF02197 RIIa: Regulatory subunit of type II PKA R-subunit; InterPro: IPR003117 Protein phosphorylation, which plays a key role in most cellular activities, is a reversible process mediated by protein kinases and phosphoprotein phosphatases. Protein kinases catalyse the transfer of the gamma phosphate from nucleotide triphosphates (often ATP) to one or more amino acid residues in a protein substrate side chain, resulting in a conformational change affecting protein function. Phosphoprotein phosphatases catalyse the reverse process. Protein kinases fall into three broad classes, characterised with respect to substrate specificity []: Serine/threonine-protein kinases Tyrosine-protein kinases Dual specific protein kinases (e.g. MEK - phosphorylates both Thr and Tyr on target proteins) Protein kinase function has been evolutionarily conserved from Escherichia coli to human []. Protein kinases play a role in a multitude of cellular processes, including division, proliferation, apoptosis, and differentiation []. Phosphorylation usually results in a functional change of the target protein by changing enzyme activity, cellular location, or association with other proteins. The catalytic subunits of protein kinases are highly conserved, and several structures have been solved [], leading to large screens to develop kinase-specific inhibitors for the treatments of a number of diseases []. In the absence of cAMP, Protein Kinase A (PKA) exists as an equimolar tetramer of regulatory (R) and catalytic (C) subunits []. In addition to its role as an inhibitor of the C subunit, the R subunit anchors the holoenzyme to specific intracellular locations and prevents the C subunit from entering the nucleus. All R subunits have a conserved domain structure consisting of the N-terminal dimerization domain, inhibitory region, cAMP-binding domain A and cAMP-binding domain B. R subunits interact with C subunits primarily through the inhibitory site. The cAMP-binding domains show extensive sequence similarity and bind cAMP cooperatively. Two types of regulatory (R) subunits exist - types I and I - which differ in molecular weight, sequence, autophosphorylation cabaility, cellular location and tissue distribution. Types I and II were further sub-divided into alpha and beta subtypes, based mainly on sequence similarity. This entry represents types I-alpha, I-beta, II-alpha and II-beta regulatory subunits of PKA proteins. These subunits contain the dimerisation interface and binding site for A-kinase-anchoring proteins (AKAPs).; GO: 0008603 cAMP-dependent protein kinase regulator activity, 0007165 signal transduction; PDB: 2IZY_E 1R2A_A 1L6E_A 2IZX_B 2KYG_A 2EZW_B 3IM4_B 3IM3_A 4F9K_C 2HWN_B ....
Probab=36.21 E-value=36 Score=13.60 Aligned_cols=18 Identities=6% Similarity=0.200 Sum_probs=13.7
Q ss_pred CCHHHHHHHHHHHHHHHh
Q 035388 21 INVEQAFLTMAGEIKKKM 38 (66)
Q Consensus 21 ~~v~~~F~~l~~~i~~~~ 38 (66)
.|+.++...+++.+++..
T Consensus 1 ~~l~~lL~~~~~~vl~~q 18 (38)
T PF02197_consen 1 HGLQELLKEFTREVLREQ 18 (38)
T ss_dssp TTHHHHHHHHHHHHHHH-
T ss_pred CcHHHHHHHHHHHHHHHC
Confidence 367888888988888764
No 312
>PF07491 PPI_Ypi1: Protein phosphatase inhibitor ; InterPro: IPR011107 These proteins include Ypi1, a novel Saccharomyces cerevisiae type 1 protein phosphatase inhibitor [] and ppp1r11/hcgv (O60927 from SWISSPROT), annotated as having protein phosphatase inhibitor activity [].
Probab=36.01 E-value=22 Score=16.05 Aligned_cols=8 Identities=38% Similarity=1.157 Sum_probs=3.8
Q ss_pred CCCCCCCC
Q 035388 59 QQNSNCCG 66 (66)
Q Consensus 59 ~~~~~CC~ 66 (66)
.+++.|||
T Consensus 33 kkkSK~CC 40 (60)
T PF07491_consen 33 KKKSKCCC 40 (60)
T ss_pred cccCceee
Confidence 34444554
No 313
>PF10087 DUF2325: Uncharacterized protein conserved in bacteria (DUF2325); InterPro: IPR016772 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=35.86 E-value=32 Score=16.49 Aligned_cols=15 Identities=27% Similarity=0.523 Sum_probs=10.1
Q ss_pred HHHHHHhCCCeEEcc
Q 035388 2 QAFADELGIPFLETS 16 (66)
Q Consensus 2 ~~~a~~~~~~~~etS 16 (66)
++.|+..++|++.+.
T Consensus 68 k~~akk~~ip~~~~~ 82 (97)
T PF10087_consen 68 KKAAKKYGIPIIYSR 82 (97)
T ss_pred HHHHHHcCCcEEEEC
Confidence 456777788776654
No 314
>PF07846 Metallothio_Cad: Metallothionein family; InterPro: IPR012484 The sequence making up family 7 of the metallothionein superfamily are found repeated in metallothionein proteins expressed by two Tetrahymena species. Metallothioneins are low molecular mass, cysteine-rich metal-binding proteins that are thought to be involved in the regulation of levels of trace metals, and detoxification of these metals when present in excess []. Some of the metallothioneins found in this family (for example, Q8T6B3 from SWISSPROT) are known to be induced by cadmium and are thought to be involved in the cellular sequestration of toxic metal ions. The high proportion of cysteine residues allows the metal ions to be bound by the formation of clusters of metal-thiolate complexes []. Tetrahymena spp. metallothioneins differ from other eukaryotic metallothioneins mainly in the length of their sequences and in the cysteine-containing motifs they exhibit. ; GO: 0046870 cadmium ion binding
Probab=35.73 E-value=24 Score=12.29 Aligned_cols=6 Identities=67% Similarity=1.520 Sum_probs=2.7
Q ss_pred CCCCCC
Q 035388 61 NSNCCG 66 (66)
Q Consensus 61 ~~~CC~ 66 (66)
.++|||
T Consensus 15 nsG~~C 20 (21)
T PF07846_consen 15 NSGCCC 20 (21)
T ss_pred CCcccc
Confidence 345543
No 315
>PHA00673 acetyltransferase domain containing protein
Probab=35.19 E-value=58 Score=17.48 Aligned_cols=18 Identities=11% Similarity=0.086 Sum_probs=8.4
Q ss_pred CCCCCHHHHHHHHHHHHH
Q 035388 18 KDAINVEQAFLTMAGEIK 35 (66)
Q Consensus 18 kt~~~v~~~F~~l~~~i~ 35 (66)
.-|.||-......+....
T Consensus 97 ~RGqGIG~~Ll~~A~~~A 114 (154)
T PHA00673 97 HRPGGAGMALLRATEALA 114 (154)
T ss_pred ccCCCHHHHHHHHHHHHH
Confidence 345555544444444443
No 316
>cd08366 APC10 APC10 subunit of the anaphase-promoting complex (APC) that mediates substrate ubiquitination. This model represents the single domain protein APC10, a subunit of the anaphase-promoting complex (APC), which is a multi-subunit E3 ubiquitin ligase. E3 ubiquitin ligases mediate substrate ubiquitination (or ubiquitylation), a vital component of the ubiquitin-26S proteasome pathway for selective proteolytic degradation. The APC (also known as the cyclosome), is a cell cycle-regulated E3 ubiquitin ligase that controls important transitions in mitosis and the G1 phase by ubiquitinating regulatory proteins, thereby targeting them for degradation. In mitosis, the APC initiates sister chromatid separation by ubiquitinating the anaphase inhibitor securin and triggers exit from mitosis by ubiquitinating cyclin B. The C-terminus of APC10 binds to CDC27/APC3, an APC subunit that contains multiple tetratrico peptide repeats. APC10 domains are homologous to the DOC1 domains present in the
Probab=34.09 E-value=20 Score=18.80 Aligned_cols=17 Identities=29% Similarity=0.116 Sum_probs=13.8
Q ss_pred eEEcccCCCCCHHHHHH
Q 035388 12 FLETSAKDAINVEQAFL 28 (66)
Q Consensus 12 ~~etSAkt~~~v~~~F~ 28 (66)
|---|+|.|.||+++..
T Consensus 9 w~vSS~k~g~gv~~L~D 25 (139)
T cd08366 9 WSLSSAKPGNGVDQLRD 25 (139)
T ss_pred EEEEeCCCCCCHHHhcC
Confidence 55668999999998875
No 317
>PF14769 CLAMP: Flagellar C1a complex subunit C1a-32
Probab=32.95 E-value=66 Score=15.64 Aligned_cols=36 Identities=25% Similarity=0.413 Sum_probs=21.2
Q ss_pred HHHHHhCCCeEEccc-------------CCCCCHHHHHHHHHHHHHHHh
Q 035388 3 AFADELGIPFLETSA-------------KDAINVEQAFLTMAGEIKKKM 38 (66)
Q Consensus 3 ~~a~~~~~~~~etSA-------------kt~~~v~~~F~~l~~~i~~~~ 38 (66)
.||++.+.++..+|+ ..+.++++.|..+-+.+++..
T Consensus 5 ~Fa~~~~fs~~q~s~~~~i~~~ll~~~i~~~~~~~~~~~~fk~~l~~~s 53 (101)
T PF14769_consen 5 LFAKEQGFSWEQTSAFLSILKELLEKNIEKGMSLEDSFKYFKELLLRHS 53 (101)
T ss_pred HhHhhCCCCHHHHHHHHHHHHHHHHHHHHccCCHHHHHHHHHHHHHHhc
Confidence 466666665544443 256677777766666665543
No 318
>PF12221 HflK_N: Bacterial membrane protein N terminal; InterPro: IPR020980 HflK is a bacterial membrane protein which is thought, together with the HflC protein, to form a membrane protease complex whose activity is modulated by the GTPase HflX []. This entry represents the N-terminal, membrane-spanning, region of of HflK responsible for anchoring the protein in the bacterial membrane. It is often found in association with PF01145 from PFAM.
Probab=32.84 E-value=46 Score=13.81 Aligned_cols=14 Identities=7% Similarity=0.423 Sum_probs=10.9
Q ss_pred CHHHHHHHHHHHHH
Q 035388 22 NVEQAFLTMAGEIK 35 (66)
Q Consensus 22 ~v~~~F~~l~~~i~ 35 (66)
.++++|..+-+.+-
T Consensus 22 DLdel~r~l~~kl~ 35 (42)
T PF12221_consen 22 DLDELFRKLQDKLG 35 (42)
T ss_pred CHHHHHHHHHHHHh
Confidence 58899988877764
No 319
>KOG1490 consensus GTP-binding protein CRFG/NOG1 (ODN superfamily) [General function prediction only]
Probab=32.55 E-value=77 Score=20.91 Aligned_cols=32 Identities=16% Similarity=0.112 Sum_probs=24.5
Q ss_pred HHHhCCCeEEcccCCCCCHHHHHHHHHHHHHH
Q 035388 5 ADELGIPFLETSAKDAINVEQAFLTMAGEIKK 36 (66)
Q Consensus 5 a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~ 36 (66)
....++++++||..+-+||-++=....+.++.
T Consensus 311 ~~~~~v~v~~tS~~~eegVm~Vrt~ACe~LLa 342 (620)
T KOG1490|consen 311 IDDGNVKVVQTSCVQEEGVMDVRTTACEALLA 342 (620)
T ss_pred HhccCceEEEecccchhceeeHHHHHHHHHHH
Confidence 34455889999999999998877666666554
No 320
>KOG3839 consensus Lectin VIP36, involved in the transport of glycoproteins carrying high mannose-type glycans [Intracellular trafficking, secretion, and vesicular transport]
Probab=32.34 E-value=64 Score=19.81 Aligned_cols=29 Identities=10% Similarity=0.078 Sum_probs=23.9
Q ss_pred CeEEcccCCCCCHHHHHHHHHHHHHHHhcC
Q 035388 11 PFLETSAKDAINVEQAFLTMAGEIKKKMGN 40 (66)
Q Consensus 11 ~~~etSAkt~~~v~~~F~~l~~~i~~~~~~ 40 (66)
.||-+||-|| ...+.++.+.-++++....
T Consensus 250 ~~fg~SasTG-dlSd~HdivS~kl~~L~d~ 278 (351)
T KOG3839|consen 250 YFFGVSASTG-DLSDSHDIVSLKLFELTDI 278 (351)
T ss_pred eEEeeeeccC-ccchhhHHHHhhhhhhhcc
Confidence 3899999999 8899999888888765443
No 321
>PTZ00463 histone H2B; Provisional
Probab=31.98 E-value=68 Score=16.54 Aligned_cols=16 Identities=19% Similarity=0.214 Sum_probs=12.2
Q ss_pred CCHHHHHHHHHHHHHH
Q 035388 21 INVEQAFLTMAGEIKK 36 (66)
Q Consensus 21 ~~v~~~F~~l~~~i~~ 36 (66)
.-|+++|+.|+.+.-+
T Consensus 57 SfvnDifErIA~EAs~ 72 (117)
T PTZ00463 57 SFLVDTFEKIATEASR 72 (117)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 3478999999887654
No 322
>PRK05773 3,4-dihydroxy-2-butanone 4-phosphate synthase; Validated
Probab=31.72 E-value=29 Score=19.80 Aligned_cols=13 Identities=38% Similarity=0.833 Sum_probs=11.4
Q ss_pred HHHHHHhCCCeEE
Q 035388 2 QAFADELGIPFLE 14 (66)
Q Consensus 2 ~~~a~~~~~~~~e 14 (66)
.+||++|++++++
T Consensus 197 ~~fA~~~~l~~is 209 (219)
T PRK05773 197 KKIAKNLGFPLVE 209 (219)
T ss_pred HHHHHHcCCcEEE
Confidence 5799999999986
No 323
>KOG0075 consensus GTP-binding ADP-ribosylation factor-like protein [General function prediction only]
Probab=31.62 E-value=77 Score=17.39 Aligned_cols=21 Identities=14% Similarity=0.257 Sum_probs=17.0
Q ss_pred eEEcccCCCCCHHHHHHHHHH
Q 035388 12 FLETSAKDAINVEQAFLTMAG 32 (66)
Q Consensus 12 ~~etSAkt~~~v~~~F~~l~~ 32 (66)
.|-.|+|+..||+.+-.=|.+
T Consensus 159 C~siScke~~Nid~~~~Wli~ 179 (186)
T KOG0075|consen 159 CFSISCKEKVNIDITLDWLIE 179 (186)
T ss_pred EEEEEEcCCccHHHHHHHHHH
Confidence 588999999999987765544
No 324
>PF07957 DUF3294: Protein of unknown function (DUF3294); InterPro: IPR012917 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This is a family of mitochondrial ribosomal proteins, which appears to be fungal specific [].
Probab=31.55 E-value=49 Score=18.92 Aligned_cols=16 Identities=13% Similarity=0.229 Sum_probs=12.3
Q ss_pred CCCCHHHHHHHHHHHH
Q 035388 19 DAINVEQAFLTMAGEI 34 (66)
Q Consensus 19 t~~~v~~~F~~l~~~i 34 (66)
+-.-++++|..|||.+
T Consensus 190 s~~eld~ifdelARyl 205 (216)
T PF07957_consen 190 SKEELDEIFDELARYL 205 (216)
T ss_pred CHHHHHHHHHHHHHHh
Confidence 3445789999999976
No 325
>PRK14021 bifunctional shikimate kinase/3-dehydroquinate synthase; Provisional
Probab=31.29 E-value=55 Score=21.05 Aligned_cols=35 Identities=11% Similarity=0.204 Sum_probs=25.3
Q ss_pred CHHHHHHhCCCeEEc----ccCCCCCHHHHHHHHHHHHH
Q 035388 1 MQAFADELGIPFLET----SAKDAINVEQAFLTMAGEIK 35 (66)
Q Consensus 1 ~~~~a~~~~~~~~et----SAkt~~~v~~~F~~l~~~i~ 35 (66)
|+.+|+..+.+|+.+ ..++|..|.++|..-.+.-+
T Consensus 23 g~~LA~~L~~~fiD~D~~ie~~~g~si~eif~~~Ge~~F 61 (542)
T PRK14021 23 GKEVAQMMRLPFADADVEIEREIGMSIPSYFEEYGEPAF 61 (542)
T ss_pred HHHHHHHhCCCEEEchHHHHHHHCcCHHHHHHHHHHHHH
Confidence 356888899998854 56678889988866554443
No 326
>PF09261 Alpha-mann_mid: Alpha mannosidase, middle domain; InterPro: IPR015341 Members of this entry belong to the glycosyl hydrolase family 38, This domain, which is found in the central region adopts a structure consisting of three alpha helices, in an immunoglobulin/albumin-binding domain-like fold. The domain is predominantly found in the enzyme alpha-mannosidase []. ; GO: 0004553 hydrolase activity, hydrolyzing O-glycosyl compounds, 0008270 zinc ion binding; PDB: 1O7D_C 3LVT_A 3CZN_A 2FYV_A 3D50_A 3EJU_A 3EJS_A 3DX3_A 3BVX_A 3BUQ_A ....
Probab=31.26 E-value=63 Score=14.88 Aligned_cols=18 Identities=6% Similarity=0.128 Sum_probs=11.7
Q ss_pred ccCCCCCHHHHHHHHHHH
Q 035388 16 SAKDAINVEQAFLTMAGE 33 (66)
Q Consensus 16 SAkt~~~v~~~F~~l~~~ 33 (66)
=+.+|..++.++.++.+.
T Consensus 62 D~i~GT~~~~V~~d~~~r 79 (80)
T PF09261_consen 62 DAITGTSIDSVYDDYLRR 79 (80)
T ss_dssp TTTTS-S-HHHHHHHHHH
T ss_pred CCCCCcChHHHHHHHHHh
Confidence 356788888888877654
No 327
>COG0218 Predicted GTPase [General function prediction only]
Probab=30.84 E-value=99 Score=17.48 Aligned_cols=24 Identities=8% Similarity=0.011 Sum_probs=19.5
Q ss_pred eEEcccCCCCCHHHHHHHHHHHHH
Q 035388 12 FLETSAKDAINVEQAFLTMAGEIK 35 (66)
Q Consensus 12 ~~etSAkt~~~v~~~F~~l~~~i~ 35 (66)
.+-+|+.++.||+++-..|.+.+.
T Consensus 174 ~~~~ss~~k~Gi~~l~~~i~~~~~ 197 (200)
T COG0218 174 VVLFSSLKKKGIDELKAKILEWLK 197 (200)
T ss_pred EEEEecccccCHHHHHHHHHHHhh
Confidence 567899999999999888877654
No 328
>cd01203 DOK_PTB Downstream of tyrosine kinase (DOK) Phosphotyrosine-binding domain. Downstream of tyrosine kinase (DOK) Phosphotyrosine-binding domain. This domain has a PH-like fold and is similiar to the PTB domain that is found in insulin receptor substrate molecules The DOK family of eukaryotic signaling molecules have an N-terminal PH domain, followed by an IRS-like PTB domain. This PTBi domain is shorter than the PTB domain which is found in SHC, Numb and other proteins. The PTBi domain binds to phosphotyrosines which are in NPXpY motifs.
Probab=30.78 E-value=80 Score=15.92 Aligned_cols=29 Identities=17% Similarity=0.201 Sum_probs=18.8
Q ss_pred CCeEEcc--cCCCCCH--------HHHHHHHHHHHHHHh
Q 035388 10 IPFLETS--AKDAINV--------EQAFLTMAGEIKKKM 38 (66)
Q Consensus 10 ~~~~etS--Akt~~~v--------~~~F~~l~~~i~~~~ 38 (66)
...||.- +.+|.|+ +++|..+...|-.++
T Consensus 60 ~FsFEAGRrC~tGeG~f~F~t~~~~~if~~v~~~i~~q~ 98 (104)
T cd01203 60 KFSFEAGRRCTSGEGVFTFDTTQGNEIFRAVEAAIKSQK 98 (104)
T ss_pred EEEEEecCcCCCCCcEEEEecCCHHHHHHHHHHHHHHHH
Confidence 3355553 4466665 789988877776554
No 329
>COG2710 NifD Nitrogenase molybdenum-iron protein, alpha and beta chains [Energy production and conversion]
Probab=30.77 E-value=1.2e+02 Score=19.14 Aligned_cols=32 Identities=22% Similarity=0.452 Sum_probs=20.4
Q ss_pred HHHHHHhCCCeEEcccCCCC-CHHHHHHHHHHH
Q 035388 2 QAFADELGIPFLETSAKDAI-NVEQAFLTMAGE 33 (66)
Q Consensus 2 ~~~a~~~~~~~~etSAkt~~-~v~~~F~~l~~~ 33 (66)
+.+.+.+|++|++.+...|. +.+..+..++..
T Consensus 249 ~~~~~~~gip~~~~~~~~G~~~t~~~l~~la~~ 281 (456)
T COG2710 249 RYLEERFGIPWIEVPSPLGIENTDRFLRNLAKL 281 (456)
T ss_pred HHHHHHhCCCeEecCCCcCchHHHHHHHHHHHH
Confidence 34567789999999644454 555555555443
No 330
>KOG2486 consensus Predicted GTPase [General function prediction only]
Probab=30.15 E-value=15 Score=21.97 Aligned_cols=25 Identities=16% Similarity=0.332 Sum_probs=20.0
Q ss_pred CCCeEEcccCCCCCHHHHHHHHHHH
Q 035388 9 GIPFLETSAKDAINVEQAFLTMAGE 33 (66)
Q Consensus 9 ~~~~~etSAkt~~~v~~~F~~l~~~ 33 (66)
..+|+-+|+.|+.|++++-..++..
T Consensus 290 ~~Pw~~~Ssvt~~Grd~Ll~~i~q~ 314 (320)
T KOG2486|consen 290 DLPWIYVSSVTSLGRDLLLLHIAQL 314 (320)
T ss_pred cCCceeeecccccCceeeeeehhhh
Confidence 3578899999999999887766543
No 331
>COG0108 RibB 3,4-dihydroxy-2-butanone 4-phosphate synthase [Coenzyme metabolism]
Probab=30.04 E-value=41 Score=19.03 Aligned_cols=13 Identities=38% Similarity=0.848 Sum_probs=11.4
Q ss_pred HHHHHHhCCCeEE
Q 035388 2 QAFADELGIPFLE 14 (66)
Q Consensus 2 ~~~a~~~~~~~~e 14 (66)
..||++|+++++.
T Consensus 178 ~~fa~~h~l~~it 190 (203)
T COG0108 178 EEFAKEHGLPVIT 190 (203)
T ss_pred HHHHHHcCCcEEE
Confidence 5799999999985
No 332
>KOG1191 consensus Mitochondrial GTPase [Translation, ribosomal structure and biogenesis]
Probab=30.04 E-value=1.2e+02 Score=19.78 Aligned_cols=27 Identities=11% Similarity=0.148 Sum_probs=22.6
Q ss_pred eEEcccCCCCCHHHHHHHHHHHHHHHh
Q 035388 12 FLETSAKDAINVEQAFLTMAGEIKKKM 38 (66)
Q Consensus 12 ~~etSAkt~~~v~~~F~~l~~~i~~~~ 38 (66)
..++|++|+++++.+-..+...+....
T Consensus 427 ~~~vs~~tkeg~~~L~~all~~~~~~~ 453 (531)
T KOG1191|consen 427 VVEVSCTTKEGCERLSTALLNIVERLV 453 (531)
T ss_pred EEEeeechhhhHHHHHHHHHHHHHHhh
Confidence 567999999999999998888776543
No 333
>PLN00158 histone H2B; Provisional
Probab=29.99 E-value=76 Score=16.35 Aligned_cols=16 Identities=25% Similarity=0.256 Sum_probs=12.3
Q ss_pred CCHHHHHHHHHHHHHH
Q 035388 21 INVEQAFLTMAGEIKK 36 (66)
Q Consensus 21 ~~v~~~F~~l~~~i~~ 36 (66)
.-|+++|+.|+.+.-+
T Consensus 56 SfvnDiferIA~EAs~ 71 (116)
T PLN00158 56 SFINDIFEKIATEAGK 71 (116)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 3578999999887654
No 334
>KOG3347 consensus Predicted nucleotide kinase/nuclear protein involved oxidative stress response [Nucleotide transport and metabolism]
Probab=29.55 E-value=39 Score=18.52 Aligned_cols=17 Identities=24% Similarity=0.544 Sum_probs=12.3
Q ss_pred HHHHHHhCCCeEEcccC
Q 035388 2 QAFADELGIPFLETSAK 18 (66)
Q Consensus 2 ~~~a~~~~~~~~etSAk 18 (66)
+.+|+..++.|+++|-.
T Consensus 25 ~~lae~~~~~~i~isd~ 41 (176)
T KOG3347|consen 25 ERLAEKTGLEYIEISDL 41 (176)
T ss_pred HHHHHHhCCceEehhhH
Confidence 45677778888888743
No 335
>PF12238 MSA-2c: Merozoite surface antigen 2c; InterPro: IPR021060 This family of proteins are restricted to the apicomplexan Babesia bovis. Proteins in this entry are typically between 263 and 318 amino acids in length and plasma membrane glycoproteins. These antigens present on the merozoite surface (MSA) and are involved in the parasite invasion of the bovine erythrocyte. MSA-2c has been suggested as a possible antigen for a vaccine candidate [].
Probab=29.10 E-value=72 Score=18.10 Aligned_cols=23 Identities=13% Similarity=0.092 Sum_probs=18.6
Q ss_pred EcccCCCCCHHHHHHHHHHHHHH
Q 035388 14 ETSAKDAINVEQAFLTMAGEIKK 36 (66)
Q Consensus 14 etSAkt~~~v~~~F~~l~~~i~~ 36 (66)
.+|...+...+++|..|...|+.
T Consensus 37 ~~~~~s~q~~ee~F~~l~~sV~~ 59 (205)
T PF12238_consen 37 VLSNLSGQSDEEKFKSLFDSVPL 59 (205)
T ss_pred HHHhcccCCHHHHHHHHHHHHHH
Confidence 55777899999999999887754
No 336
>PF09023 Staphostatin_B: Staphostatin B; InterPro: IPR015113 Staphostatin B inhibits the cysteine protease Staphopain B, produced by Staphylococcus aureus, by blocking the active site of the enzyme. The domain adopts an eight-stranded mixed beta-barrel structure, with a deviation from the up-down topology of canonical beta-barrels in the amino-terminal part of the molecule []. ; PDB: 1QWX_B 1NYC_B 1Y4H_D 1PXV_D.
Probab=28.88 E-value=36 Score=16.96 Aligned_cols=13 Identities=31% Similarity=0.526 Sum_probs=10.1
Q ss_pred CeEEcccCCCCCH
Q 035388 11 PFLETSAKDAINV 23 (66)
Q Consensus 11 ~~~etSAkt~~~v 23 (66)
.+++||.+.|.|-
T Consensus 87 I~~qts~~~giGt 99 (107)
T PF09023_consen 87 ILMQTSSKEGIGT 99 (107)
T ss_dssp EEEEEEETTSCSB
T ss_pred EEEEeeccccccc
Confidence 3688999988774
No 337
>KOG2284 consensus E3 ubiquitin ligase, Cullin 2 component [Posttranslational modification, protein turnover, chaperones]
Probab=28.78 E-value=54 Score=21.06 Aligned_cols=25 Identities=24% Similarity=0.153 Sum_probs=20.2
Q ss_pred EEcccCCCCCHHHHHHHHHHHHHHH
Q 035388 13 LETSAKDAINVEQAFLTMAGEIKKK 37 (66)
Q Consensus 13 ~etSAkt~~~v~~~F~~l~~~i~~~ 37 (66)
--||-.||+|+...|.+-+-.++.+
T Consensus 341 ~a~s~lt~en~p~~fve~vl~v~~k 365 (728)
T KOG2284|consen 341 EAVSRLTGENVPQQFVENVLRVYNK 365 (728)
T ss_pred HHHhhhccccchHHHHHHHHHHHHH
Confidence 3589999999999998877776653
No 338
>COG3623 SgaU Putative L-xylulose-5-phosphate 3-epimerase [Carbohydrate transport and metabolism]
Probab=28.60 E-value=55 Score=19.27 Aligned_cols=16 Identities=50% Similarity=0.758 Sum_probs=13.4
Q ss_pred HHHHHhCCCeEEcccC
Q 035388 3 AFADELGIPFLETSAK 18 (66)
Q Consensus 3 ~~a~~~~~~~~etSAk 18 (66)
.+|++.|..|+|.|-=
T Consensus 25 ~~AK~~GFDFvEmSvD 40 (287)
T COG3623 25 ALAKELGFDFVEMSVD 40 (287)
T ss_pred HHHHHcCCCeEEEecc
Confidence 5788999999999863
No 339
>KOG1342 consensus Histone deacetylase complex, catalytic component RPD3 [Chromatin structure and dynamics]
Probab=28.20 E-value=83 Score=19.82 Aligned_cols=29 Identities=17% Similarity=0.276 Sum_probs=21.4
Q ss_pred HHHHh-CCCeEEcccCCCCCHHHHHHHHHH
Q 035388 4 FADEL-GIPFLETSAKDAINVEQAFLTMAG 32 (66)
Q Consensus 4 ~a~~~-~~~~~etSAkt~~~v~~~F~~l~~ 32 (66)
+-+.+ .+.|+..----|.||+++|..--|
T Consensus 161 LlK~h~RVLYIDIDvHHGDGVEeAFy~TDR 190 (425)
T KOG1342|consen 161 LLKYHKRVLYIDIDVHHGDGVEEAFYTTDR 190 (425)
T ss_pred HHHhCCceEEEEecccCCccHHHHHhccce
Confidence 33444 377888888899999999975543
No 340
>cd03067 PDI_b_PDIR_N PDIb family, PDIR subfamily, N-terminal TRX-like b domain; composed of proteins similar to human PDIR (for Protein Disulfide Isomerase Related). PDIR is composed of three redox active TRX (a) domains and an N-terminal redox inactive TRX-like (b) domain. Similar to PDI, it is involved in oxidative protein folding in the endoplasmic reticulum (ER) through its isomerase and chaperone activities. These activities are lower compared to PDI, probably due to PDIR acting only on a subset of proteins. PDIR is preferentially expressed in cells actively secreting proteins and its expression is induced by stress. Similar to PDI, the isomerase and chaperone activities of PDIR are independent; CXXC mutants lacking isomerase activity retain chaperone activity. The TRX-like b domain of PDIR is critical for its chaperone activity.
Probab=27.76 E-value=68 Score=16.31 Aligned_cols=28 Identities=21% Similarity=0.239 Sum_probs=23.2
Q ss_pred CCeEEcccCCCCCHHHHHHHHHHHHHHH
Q 035388 10 IPFLETSAKDAINVEQAFLTMAGEIKKK 37 (66)
Q Consensus 10 ~~~~etSAkt~~~v~~~F~~l~~~i~~~ 37 (66)
+-.|-.||+.....=.+|.++|+.|..+
T Consensus 23 LvLy~ks~k~a~~~Lk~~~~~A~~vkG~ 50 (112)
T cd03067 23 LVLYSKSAKSAEALLKLLSDVAQAVKGQ 50 (112)
T ss_pred EEEEecchhhHHHHHHHHHHHHHHhcCc
Confidence 3478889999988889999999988653
No 341
>COG5256 TEF1 Translation elongation factor EF-1alpha (GTPase) [Translation, ribosomal structure and biogenesis]
Probab=27.59 E-value=35 Score=21.51 Aligned_cols=17 Identities=24% Similarity=0.444 Sum_probs=14.7
Q ss_pred CCeEEcccCCCCCHHHH
Q 035388 10 IPFLETSAKDAINVEQA 26 (66)
Q Consensus 10 ~~~~etSAkt~~~v~~~ 26 (66)
++|+-+||..|.||.+.
T Consensus 186 v~FIPiSg~~G~Nl~~~ 202 (428)
T COG5256 186 VPFIPISGFKGDNLTKK 202 (428)
T ss_pred CeEEecccccCCccccc
Confidence 56999999999999654
No 342
>PF10678 DUF2492: Protein of unknown function (DUF2492); InterPro: IPR019620 This entry describes a family of small cytosolic proteins, about 80 amino acids in length, in which the eight invariant residues include three His residues and two Cys residues. Two pairs of these invariant residues occur in motifs HxH (where x is A or G) and CxH, both of which suggest metal-binding activity. This protein family was identified by searching with a phylogenetic profile based on an anaerobic sulphatase-maturase enzyme, which contains multiple 4Fe-4S clusters. The linkages by phylogenetic profiling and by iron-sulphur cluster-related motifs together suggest this protein may be an accessory protein to certain maturases in sulphatase/maturase systems.
Probab=27.58 E-value=82 Score=15.01 Aligned_cols=28 Identities=14% Similarity=0.305 Sum_probs=19.1
Q ss_pred HHHHhC--CCeEEcccCCCCCHHHHHHHHHH
Q 035388 4 FADELG--IPFLETSAKDAINVEQAFLTMAG 32 (66)
Q Consensus 4 ~a~~~~--~~~~etSAkt~~~v~~~F~~l~~ 32 (66)
...+.| ..|.-+|| ++...+++...|..
T Consensus 29 i~~~FG~~arFhTCSa-e~m~a~eLv~FL~~ 58 (78)
T PF10678_consen 29 IIEKFGEDARFHTCSA-EGMTADELVDFLEE 58 (78)
T ss_pred HHHHhCCCceEEecCC-CCCCHHHHHHHHHH
Confidence 355666 45777777 58888888766654
No 343
>smart00427 H2B Histone H2B.
Probab=27.18 E-value=89 Score=15.29 Aligned_cols=16 Identities=31% Similarity=0.314 Sum_probs=12.2
Q ss_pred CCHHHHHHHHHHHHHH
Q 035388 21 INVEQAFLTMAGEIKK 36 (66)
Q Consensus 21 ~~v~~~F~~l~~~i~~ 36 (66)
.-|.++|+.|+.+.-+
T Consensus 30 SfvnDiferIa~EAs~ 45 (89)
T smart00427 30 SFVNDIFERIAAEASK 45 (89)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 3478999999887654
No 344
>TIGR03436 acidobact_VWFA VWFA-related Acidobacterial domain. Members of this family are bacterial domains that include a region related to the von Willebrand factor type A (VWFA) domain (pfam00092). These domains are restricted to, and have undergone a large paralogous family expansion in, the Acidobacteria, including Solibacter usitatus and Acidobacterium capsulatum ATCC 51196.
Probab=26.44 E-value=1.4e+02 Score=17.25 Aligned_cols=34 Identities=21% Similarity=0.371 Sum_probs=23.9
Q ss_pred HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHHHh
Q 035388 2 QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKM 38 (66)
Q Consensus 2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~~~ 38 (66)
+++|+.-|-.+|.. +..++.++|..+++.+..+.
T Consensus 225 ~~iA~~TGG~~~~~---~~~~l~~~f~~i~~~~~~~Y 258 (296)
T TIGR03436 225 ERLAEETGGRAFYV---NSNDLDGAFAQIAEELRSQY 258 (296)
T ss_pred HHHHHHhCCeEecc---cCccHHHHHHHHHHHHhheE
Confidence 34566655455544 56789999999999887653
No 345
>cd01777 SNX27_RA Ubiquitin domain of SNX27 (sorting nexin protein 27). SNX27_RA SNX27 (sorting nexin protein 27) belongs to a large family of endosome-localized proteins related to sorting nexin1 which is implicated in regulating membrane traffic. The domain architecture of SNX27 includes an amino-terminal PDZ domain, a PX (PhoX homologous) domain, and a carboxy-terminal RA (RAS-associated) domain.
Probab=25.78 E-value=90 Score=15.21 Aligned_cols=23 Identities=4% Similarity=0.225 Sum_probs=19.1
Q ss_pred eEEcccCCCCCHHHHHHHHHHHH
Q 035388 12 FLETSAKDAINVEQAFLTMAGEI 34 (66)
Q Consensus 12 ~~etSAkt~~~v~~~F~~l~~~i 34 (66)
-+.++.++..+.+++++.+++++
T Consensus 13 ~i~V~v~~s~~a~~Vleav~~kl 35 (87)
T cd01777 13 TVTVRVRKNATTDQVYQALVAKA 35 (87)
T ss_pred EEEEEEEEcccHHHHHHHHHHHh
Confidence 35677788899999999998886
No 346
>COG4858 Uncharacterized membrane-bound protein conserved in bacteria [Function unknown]
Probab=25.72 E-value=68 Score=18.19 Aligned_cols=21 Identities=14% Similarity=0.172 Sum_probs=17.3
Q ss_pred cCCCCCHHHHHHHHHHHHHHH
Q 035388 17 AKDAINVEQAFLTMAGEIKKK 37 (66)
Q Consensus 17 Akt~~~v~~~F~~l~~~i~~~ 37 (66)
-|+.+.|+.+|+++..+|++.
T Consensus 35 gksdeeik~Il~e~ipqIlee 55 (226)
T COG4858 35 GKSDEEIKIILEEMIPQILEE 55 (226)
T ss_pred CCCHHHHHHHHHHHHHHHHHh
Confidence 366778999999999999864
No 347
>PF13263 PHP_C: PHP-associated; PDB: 2Z4G_B 2YXO_B 2YZ5_A 3DCP_B.
Probab=25.65 E-value=52 Score=14.12 Aligned_cols=15 Identities=33% Similarity=0.691 Sum_probs=8.2
Q ss_pred HHHHHHhCCCeEEcc
Q 035388 2 QAFADELGIPFLETS 16 (66)
Q Consensus 2 ~~~a~~~~~~~~etS 16 (66)
.+||+.++++++--|
T Consensus 8 ~~~A~~~~lp~~~gS 22 (56)
T PF13263_consen 8 AELAEKYGLPFTGGS 22 (56)
T ss_dssp HHHHHHTT--EEEE-
T ss_pred HHHHHHcCCCeEeEE
Confidence 467788887766444
No 348
>PF10657 RC-P840_PscD: Photosystem P840 reaction centre protein PscD; InterPro: IPR019608 Oxygenic photosynthesis uses two multi-subunit photosystems (I and II) located in the cell membranes of cyanobacteria and in the thylakoid membranes of chloroplasts in plants and algae. Photosystem II (PSII) has a P680 reaction centre containing chlorophyll 'a' that uses light energy to carry out the oxidation (splitting) of water molecules, and to produce ATP via a proton pump. Photosystem I (PSI) has a P700 reaction centre containing chlorophyll that takes the electron and associated hydrogen donated from PSII to reduce NADP+ to NADPH. Both ATP and NADPH are subsequently used in the light-independent reactions to convert carbon dioxide to glucose using the hydrogen atom extracted from water by PSII, releasing oxygen as a by-product. The photosynthetic reaction centres (RCs) of aerotolerant organisms contain a heterodimeric core, built up of two strongly homologous polypeptides each of which contributes five transmembrane peptide helices to hold a pseudo-symmetric double set of redox components. Two molecules of PscD are housed within a subunit. PscD may be involved in stabilising the PscB component since it is found to co-precipitate with FMO (Fenna-Mathews-Olson BChl a-protein) and PscB. It may also be involved in the interaction with ferredoxin [].
Probab=25.37 E-value=42 Score=17.53 Aligned_cols=12 Identities=33% Similarity=0.235 Sum_probs=9.1
Q ss_pred CCeEEcccCCCC
Q 035388 10 IPFLETSAKDAI 21 (66)
Q Consensus 10 ~~~~etSAkt~~ 21 (66)
-.||-||||...
T Consensus 32 eKYfITsAkRD~ 43 (144)
T PF10657_consen 32 EKYFITSAKRDR 43 (144)
T ss_pred heeEEeeeeccc
Confidence 359999999654
No 349
>cd01996 Alpha_ANH_like_III This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily of proteins is predicted to bind ATP. This domain has a strongly conserved motif SGGKD at the N terminus.
Probab=25.34 E-value=66 Score=16.46 Aligned_cols=22 Identities=32% Similarity=0.415 Sum_probs=15.2
Q ss_pred HHHHHhCCCeEEcccCCCCCHHHHHH
Q 035388 3 AFADELGIPFLETSAKDAINVEQAFL 28 (66)
Q Consensus 3 ~~a~~~~~~~~etSAkt~~~v~~~F~ 28 (66)
++|.+.|+.++ .+|.+.++.|.
T Consensus 96 ~~A~~~g~~~i----l~G~~~de~~~ 117 (154)
T cd01996 96 KVALKFGIPLI----ITGENPAQEFG 117 (154)
T ss_pred HHHHHhCcCEE----EeCcCHHHhcc
Confidence 45677777766 56888887763
No 350
>cd08666 APC10-HECTD3 APC10-like DOC1 domain of HECTD3, a HECT E3 ubiquitin ligase protein that mediates substrate ubiquitination. This model represents the APC10/DOC1 domain present in HECTD3, a HECT (Homologous to the E6-AP Carboxyl Terminus) E3 ubiquitin ligase protein. HECT E3 ubiquitin ligases mediate substrate ubiquitination (or ubiquitylation), and are a component of the ubiquitin-26S proteasome pathway for selective proteolytic degradation. They also regulate the trafficking of many receptors, channels, transporters and viral proteins. HECTD3 (HECT domain-containing protein3) contains a C-terminal HECT domain with the active site for ubiquitin transfer onto substrates, and an N-terminal APC10/DOC1 domain, which is responsible for substrate recognition and binding. HECTD3 specifically recognizes the Trio-binding protein, Tara (Trio-associated repeat on actin), implicated in regulating actin cytoskeletal, cell motility and cell growth. Tara also binds to TRF1 and may participate i
Probab=25.14 E-value=42 Score=17.66 Aligned_cols=15 Identities=27% Similarity=0.062 Sum_probs=11.8
Q ss_pred EcccCCCCCHHHHHH
Q 035388 14 ETSAKDAINVEQAFL 28 (66)
Q Consensus 14 etSAkt~~~v~~~F~ 28 (66)
--|+|.|.+|+++..
T Consensus 12 vSS~k~g~gv~~L~D 26 (134)
T cd08666 12 VSSYTDDFNVSCLTD 26 (134)
T ss_pred EEcCCCCCCHHHhcc
Confidence 347888999998874
No 351
>KOG0410 consensus Predicted GTP binding protein [General function prediction only]
Probab=25.01 E-value=99 Score=19.31 Aligned_cols=25 Identities=12% Similarity=0.040 Sum_probs=19.4
Q ss_pred eEEcccCCCCCHHHHHHHHHHHHHH
Q 035388 12 FLETSAKDAINVEQAFLTMAGEIKK 36 (66)
Q Consensus 12 ~~etSAkt~~~v~~~F~~l~~~i~~ 36 (66)
-+-.||++|.|.+++...+-..+..
T Consensus 318 ~v~isaltgdgl~el~~a~~~kv~~ 342 (410)
T KOG0410|consen 318 DVGISALTGDGLEELLKAEETKVAS 342 (410)
T ss_pred ccccccccCccHHHHHHHHHHHhhh
Confidence 4567999999999988777665543
No 352
>COG4939 Major membrane immunogen, membrane-anchored lipoprotein [Function unknown]
Probab=24.93 E-value=1.1e+02 Score=16.13 Aligned_cols=23 Identities=17% Similarity=0.133 Sum_probs=19.2
Q ss_pred cCCCCCHHHHHHHHHHHHHHHhc
Q 035388 17 AKDAINVEQAFLTMAGEIKKKMG 39 (66)
Q Consensus 17 Akt~~~v~~~F~~l~~~i~~~~~ 39 (66)
++.|++-.+.|..++..+++...
T Consensus 86 ~~~g~gp~~~f~~laD~Lve~q~ 108 (147)
T COG4939 86 YMKGQGPVQGFSTLADKLVEVQD 108 (147)
T ss_pred HhcccCHHHHHHHHHHHHHhcCC
Confidence 46789999999999999987543
No 353
>TIGR00506 ribB 3,4-dihydroxy-2-butanone 4-phosphate synthase. Several members of the family are bifunctional, involving both ribA and ribB function. In these cases, ribA tends to be on the C-terminal end of the protein and ribB tends to be on the N-terminal.
Probab=24.75 E-value=46 Score=18.69 Aligned_cols=13 Identities=8% Similarity=0.358 Sum_probs=11.2
Q ss_pred HHHHHHhCCCeEE
Q 035388 2 QAFADELGIPFLE 14 (66)
Q Consensus 2 ~~~a~~~~~~~~e 14 (66)
.+||++|+++++.
T Consensus 179 ~~fA~~~~l~~is 191 (199)
T TIGR00506 179 MEYAKKHNLKLIS 191 (199)
T ss_pred HHHHHHcCCcEEE
Confidence 5799999999975
No 354
>smart00872 Alpha-mann_mid Alpha mannosidase, middle domain. Members of this entry belong to the glycosyl hydrolase family 38, This domain, which is found in the central region adopts a structure consisting of three alpha helices, in an immunoglobulin/albumin-binding domain-like fold. The domain is predominantly found in the enzyme alpha-mannosidase PUBMED:12634058.
Probab=24.68 E-value=73 Score=14.63 Aligned_cols=16 Identities=6% Similarity=0.179 Sum_probs=9.9
Q ss_pred cCCCCCHHHHHHHHHH
Q 035388 17 AKDAINVEQAFLTMAG 32 (66)
Q Consensus 17 Akt~~~v~~~F~~l~~ 32 (66)
+.+|..+++++.++..
T Consensus 62 ~i~Gt~~~~V~~d~~~ 77 (79)
T smart00872 62 AITGTSIDEVYDDYET 77 (79)
T ss_pred cCCccCcHHHHHHHHH
Confidence 4467777777666543
No 355
>KOG3354 consensus Gluconate kinase [Carbohydrate transport and metabolism]
Probab=24.10 E-value=1.4e+02 Score=16.59 Aligned_cols=24 Identities=21% Similarity=0.221 Sum_probs=19.6
Q ss_pred CeEEcccCCCCCHHHHHHHHHHHHH
Q 035388 11 PFLETSAKDAINVEQAFLTMAGEIK 35 (66)
Q Consensus 11 ~~~etSAkt~~~v~~~F~~l~~~i~ 35 (66)
.++-.|+++ .+|+++...+.+.+.
T Consensus 164 div~isv~~-~~~e~iv~tI~k~~~ 187 (191)
T KOG3354|consen 164 DIVTISVKT-YSVEEIVDTIVKMVA 187 (191)
T ss_pred ceEEEeecc-CCHHHHHHHHHHHHH
Confidence 377888887 999999988887764
No 356
>PRK00049 elongation factor Tu; Reviewed
Probab=23.91 E-value=1.3e+02 Score=18.42 Aligned_cols=14 Identities=29% Similarity=0.461 Sum_probs=11.3
Q ss_pred CCCeEEcccCCCCC
Q 035388 9 GIPFLETSAKDAIN 22 (66)
Q Consensus 9 ~~~~~etSAkt~~~ 22 (66)
+++++.+||++|.+
T Consensus 167 ~~~iv~iSa~~g~~ 180 (396)
T PRK00049 167 DTPIIRGSALKALE 180 (396)
T ss_pred CCcEEEeecccccC
Confidence 36789999999864
No 357
>COG2058 RPP1A Ribosomal protein L12E/L44/L45/RPP1/RPP2 [Translation, ribosomal structure and biogenesis]
Probab=23.82 E-value=43 Score=17.03 Aligned_cols=20 Identities=10% Similarity=0.252 Sum_probs=15.1
Q ss_pred EcccCCCCCHHHHHHHHHHH
Q 035388 14 ETSAKDAINVEQAFLTMAGE 33 (66)
Q Consensus 14 etSAkt~~~v~~~F~~l~~~ 33 (66)
.+|+..|.||+++.......
T Consensus 41 lvaaLeg~~idE~i~~~~~~ 60 (109)
T COG2058 41 LVAALEGVDIDEVIKNAAEA 60 (109)
T ss_pred HHHHhcCCCHHHHHHHhccc
Confidence 35788899999888766554
No 358
>PRK10310 PTS system galactitol-specific transporter subunit IIB; Provisional
Probab=23.68 E-value=1e+02 Score=14.79 Aligned_cols=25 Identities=12% Similarity=0.202 Sum_probs=17.3
Q ss_pred CCeE-EcccCCCCCHHHHHHHHHHHH
Q 035388 10 IPFL-ETSAKDAINVEQAFLTMAGEI 34 (66)
Q Consensus 10 ~~~~-etSAkt~~~v~~~F~~l~~~i 34 (66)
++.+ -..-.++.+.++++..+...+
T Consensus 67 ip~~~~~~llt~~~~~~~~e~i~~~l 92 (94)
T PRK10310 67 IPLVHGMPFVSGVGIEALQNKILTIL 92 (94)
T ss_pred CCEEEEeecccccCHHHHHHHHHHHH
Confidence 5533 334458889999998887655
No 359
>TIGR01860 VNFD nitrogenase vanadium-iron protein, alpha chain. This model represents the alpha chain of the vanadium-containing component of the vanadium-iron nitrogenase compound I. The complex also includes a second alpha chain, two beta chains and two delta chains. Compount I interacts with compound II also known as the iron-protein which transfers electrons to compound I where the catalysis occurs.
Probab=23.58 E-value=1.1e+02 Score=19.37 Aligned_cols=16 Identities=25% Similarity=0.542 Sum_probs=12.3
Q ss_pred HHHHHHhCCCeEEccc
Q 035388 2 QAFADELGIPFLETSA 17 (66)
Q Consensus 2 ~~~a~~~~~~~~etSA 17 (66)
+.+.+.+|++|+..+-
T Consensus 265 ~~Leer~GiP~~~~~p 280 (461)
T TIGR01860 265 NELKKRYGIPRLDVDT 280 (461)
T ss_pred HHHHHHhCCCeecCCc
Confidence 4466788999998873
No 360
>COG2428 Uncharacterized conserved protein [Function unknown]
Probab=23.29 E-value=77 Score=17.67 Aligned_cols=17 Identities=35% Similarity=0.310 Sum_probs=15.2
Q ss_pred HHHHHhCCCeEEcccCC
Q 035388 3 AFADELGIPFLETSAKD 19 (66)
Q Consensus 3 ~~a~~~~~~~~etSAkt 19 (66)
++|+.+|..|+-|+|+.
T Consensus 22 e~a~~~G~~~~vtna~p 38 (196)
T COG2428 22 EVARWWGDEFIVTNAKP 38 (196)
T ss_pred HHHHHhchheeeecCCc
Confidence 57899999999999986
No 361
>PRK12337 2-phosphoglycerate kinase; Provisional
Probab=23.25 E-value=2.2e+02 Score=18.47 Aligned_cols=31 Identities=13% Similarity=0.334 Sum_probs=24.7
Q ss_pred HHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHHHh
Q 035388 3 AFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKM 38 (66)
Q Consensus 3 ~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~~~ 38 (66)
..|+.++++.+ ++.||++....+.+.|++..
T Consensus 433 ~~A~~~~ipvI-----~n~nid~tv~~~l~~i~~~~ 463 (475)
T PRK12337 433 RLARQEGVPVL-----PGEDLDESIDKALEVVLRRV 463 (475)
T ss_pred HHHHHcCCCee-----cCccHHHHHHHHHHHHHHHH
Confidence 35778888887 68999999988888887653
No 362
>PF09303 KcnmB2_inactiv: KCNMB2, ball and chain domain; InterPro: IPR015382 This domain is found in the cytoplasmic N terminus of KCNMB2, the beta-2 subunit of large conductance calcium and voltage-activated potassium channels. It is responsible for the fast inactivation of these channels []. 11517232; PDB: 1JO6_A.
Probab=23.23 E-value=25 Score=13.70 Aligned_cols=9 Identities=11% Similarity=0.331 Sum_probs=1.2
Q ss_pred eEEcccCCC
Q 035388 12 FLETSAKDA 20 (66)
Q Consensus 12 ~~etSAkt~ 20 (66)
|+.+|+++.
T Consensus 2 f~~~g~rtt 10 (32)
T PF09303_consen 2 FFWVGGRTT 10 (32)
T ss_dssp --SS-----
T ss_pred eEEEeceec
Confidence 455666543
No 363
>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=22.88 E-value=71 Score=17.42 Aligned_cols=22 Identities=23% Similarity=0.104 Sum_probs=15.9
Q ss_pred CCCeEEcccCCCC-CHHHHHHHH
Q 035388 9 GIPFLETSAKDAI-NVEQAFLTM 30 (66)
Q Consensus 9 ~~~~~etSAkt~~-~v~~~F~~l 30 (66)
.+.|.++|++.+. +|+....-|
T Consensus 178 ~v~~~~~s~~~~~~~~~~~~~w~ 200 (203)
T cd04105 178 KVEFLEGSVKVDGGGIDGWEEWI 200 (203)
T ss_pred eEEEEEeEEecCCCChHhHHHHH
Confidence 4678999999876 577765544
No 364
>KOG0733 consensus Nuclear AAA ATPase (VCP subfamily) [Posttranslational modification, protein turnover, chaperones]
Probab=22.45 E-value=54 Score=22.18 Aligned_cols=31 Identities=35% Similarity=0.584 Sum_probs=22.2
Q ss_pred HHHHHHhCCCeEEcccCC------C---CCHHHHHHHHHH
Q 035388 2 QAFADELGIPFLETSAKD------A---INVEQAFLTMAG 32 (66)
Q Consensus 2 ~~~a~~~~~~~~etSAkt------~---~~v~~~F~~l~~ 32 (66)
..+|.+.+++|+..||-+ | ..|.++|.....
T Consensus 241 ~AiAgel~vPf~~isApeivSGvSGESEkkiRelF~~A~~ 280 (802)
T KOG0733|consen 241 NAIAGELGVPFLSISAPEIVSGVSGESEKKIRELFDQAKS 280 (802)
T ss_pred HHHhhhcCCceEeecchhhhcccCcccHHHHHHHHHHHhc
Confidence 467888999999998864 2 246777766543
No 365
>PF03523 Macscav_rec: Macrophage scavenger receptor; InterPro: IPR003543 The egg peptide speract receptor is a transmembrane glycoprotein of about 500 amino acids []. Topologically, it comprises a large extracellular domain of about 450 residues, followed by a transmembrane domain and a short cytoplasmic region of about 12 amino acids. The extracellular domain contains 4 repeats of a well-conserved region, which spans 115 amino acids and contains 6 conserved cysteines. A similar domain is also found towards the C terminus of macrophage scavenger receptor type I [], a membrane glycoprotein implicated in the pathologic deposition of cholesterol in arterial walls during artherogenesis, and in the CD5 glycoprotein, which acts as a receptor in regulating T-cell proliferation. The type I and type II human scavenger receptors are similar to their bovine, rabbit and murine counterparts. They consist of 6 domains: cytoplasmic (I); membrane-spanning (II); spacer (III); alpha-helical coiled- coil (IV); collagen-like (V); and a type-specific C-terminal (VI) []. Immunohistochemical studies have indicated the presence of scavenger receptors in the macrophages of lipid-rich atherosclerotic lesions, suggesting the involvement of these receptors in atherogenesis []. The macrophage scavenger receptor is trimeric and has unusual ligand-binding properties []. The trimeric structure of the bovine type I scavenger receptor contains 3 extracellular C-terminal cysteine-rich domains connected to the transmembrane domain by a long fibrous stalk. The stalk structure, which consists of an alpha-helical coiled coil and a collagen-like triple helix, has not previously been observed in an integral membrane protein []. ; GO: 0005044 scavenger receptor activity, 0006898 receptor-mediated endocytosis, 0016020 membrane
Probab=22.42 E-value=69 Score=13.73 Aligned_cols=23 Identities=13% Similarity=0.219 Sum_probs=17.8
Q ss_pred eEEcccCCCCCHHHHHHHHHHHH
Q 035388 12 FLETSAKDAINVEQAFLTMAGEI 34 (66)
Q Consensus 12 ~~etSAkt~~~v~~~F~~l~~~i 34 (66)
|-..|..|.+-++++|..|-..+
T Consensus 21 FqNfS~~TDQRfnDvllQl~sl~ 43 (49)
T PF03523_consen 21 FQNFSMTTDQRFNDVLLQLNSLV 43 (49)
T ss_pred hcccchhhHHHHHHHHHHHHHHH
Confidence 55678888888888888776655
No 366
>PF15447 NTS: N-terminal segments of PfEMP1; PDB: 2XU0_A 2YK0_A.
Probab=22.41 E-value=75 Score=12.79 Aligned_cols=15 Identities=27% Similarity=0.339 Sum_probs=12.6
Q ss_pred HHHHHHHHHHHHHHh
Q 035388 24 EQAFLTMAGEIKKKM 38 (66)
Q Consensus 24 ~~~F~~l~~~i~~~~ 38 (66)
.++|+.|.+.|..+.
T Consensus 3 k~vLd~IG~~I~~~v 17 (37)
T PF15447_consen 3 KNVLDRIGKEIYKKV 17 (37)
T ss_dssp HHHHHHHHHHHHHHC
T ss_pred HHHHHHHHHHHHHHH
Confidence 578999999998764
No 367
>TIGR01283 nifE nitrogenase molybdenum-iron cofactor biosynthesis protein NifE. This protein is part of the NifEN complex involved in biosynthesis of the molybdenum-iron cofactor used by the homologous NifDK complex of nitrogenase. In a few species, the protein is found as a NifEN fusion protein.
Probab=22.34 E-value=1.3e+02 Score=18.83 Aligned_cols=15 Identities=33% Similarity=0.813 Sum_probs=11.0
Q ss_pred HHHHHHhCCCeEEcc
Q 035388 2 QAFADELGIPFLETS 16 (66)
Q Consensus 2 ~~~a~~~~~~~~etS 16 (66)
+.+.+.+|++|+..+
T Consensus 261 ~~L~e~~GiP~~~~~ 275 (456)
T TIGR01283 261 RKMEEKYGIPYFEGS 275 (456)
T ss_pred HHHHHHcCCCEEecC
Confidence 345677899999854
No 368
>KOG0811 consensus SNARE protein PEP12/VAM3/Syntaxin 7/Syntaxin 17 [Intracellular trafficking, secretion, and vesicular transport]
Probab=22.18 E-value=1.2e+02 Score=17.98 Aligned_cols=17 Identities=12% Similarity=0.317 Sum_probs=14.0
Q ss_pred CHHHHHHHHHHHHHHHh
Q 035388 22 NVEQAFLTMAGEIKKKM 38 (66)
Q Consensus 22 ~v~~~F~~l~~~i~~~~ 38 (66)
.|+++|.+|+..+.++.
T Consensus 191 dvN~IFkdL~~lV~eQG 207 (269)
T KOG0811|consen 191 DVNEIFKDLGSLVHEQG 207 (269)
T ss_pred HHHHHHHHHHHHHHHhh
Confidence 47899999999988754
No 369
>KOG2760 consensus Vacuolar sorting protein VPS36 [Intracellular trafficking, secretion, and vesicular transport]
Probab=22.14 E-value=83 Score=19.89 Aligned_cols=18 Identities=17% Similarity=0.296 Sum_probs=14.2
Q ss_pred cCCCCCHHHHHHHHHHHH
Q 035388 17 AKDAINVEQAFLTMAGEI 34 (66)
Q Consensus 17 Akt~~~v~~~F~~l~~~i 34 (66)
++|+.+|.++|.+|-..+
T Consensus 212 ~~td~~i~~AFqDLskLM 229 (432)
T KOG2760|consen 212 KKTDKTINNAFQDLSKLM 229 (432)
T ss_pred HhcchhHHHHHHHHHHHH
Confidence 578999999998875543
No 370
>cd00066 G-alpha G protein alpha subunit. The alpha subunit of G proteins contains the guanine nucleotide binding site. The heterotrimeric GNP-binding proteins are signal transducers that communicate signals from many hormones, neurotransmitters, chemokines, and autocrine and paracrine factors. Extracellular signals are received by receptors, which activate the G proteins, which in turn route the signals to several distinct intracellular signaling pathways. The alpha subunit of G proteins is a weak GTPase. In the resting state, heterotrimeric G proteins are associated at the cytosolic face of the plasma membrane and the alpha subunit binds to GDP. Upon activation by a receptor GDP is replaced with GTP, and the G-alpha/GTP complex dissociates from the beta and gamma subunits. This results in activation of downstream signaling pathways, such as cAMP synthesis by adenylyl cyclase, which is terminated when GTP is hydrolized and the heterotrimers reconstitute.
Probab=22.09 E-value=1.1e+02 Score=18.12 Aligned_cols=28 Identities=25% Similarity=0.124 Sum_probs=23.6
Q ss_pred CCeEEcccCCCCCHHHHHHHHHHHHHHH
Q 035388 10 IPFLETSAKDAINVEQAFLTMAGEIKKK 37 (66)
Q Consensus 10 ~~~~etSAkt~~~v~~~F~~l~~~i~~~ 37 (66)
+....|+|-.-.+|..+|..+-..|+..
T Consensus 286 ~~~~~t~a~Dt~~i~~vf~~v~~~i~~~ 313 (317)
T cd00066 286 IYPHFTCATDTENIRFVFDAVKDIILQN 313 (317)
T ss_pred EEEEeccccchHHHHHHHHHHHHHHHHH
Confidence 4456899999999999999998888764
No 371
>PRK00014 ribB 3,4-dihydroxy-2-butanone 4-phosphate synthase; Provisional
Probab=22.02 E-value=55 Score=18.89 Aligned_cols=13 Identities=23% Similarity=0.411 Sum_probs=11.3
Q ss_pred HHHHHHhCCCeEE
Q 035388 2 QAFADELGIPFLE 14 (66)
Q Consensus 2 ~~~a~~~~~~~~e 14 (66)
.+||++|+++++.
T Consensus 194 ~~fA~~~~l~iis 206 (230)
T PRK00014 194 ERYAAKEGLVALA 206 (230)
T ss_pred HHHHHHcCCcEEE
Confidence 5799999999985
No 372
>PF07476 MAAL_C: Methylaspartate ammonia-lyase C-terminus; InterPro: IPR022662 Methylaspartate ammonia-lyase 4.3.1.2 from EC catalyses the second step of fermentation of glutamate. It is a homodimer. This domain represents the C-terminal region of methylaspartate ammonia-lyase and contains a TIM barrel fold similar to the PF01188 from PFAM. This domain represents the catalytic domain and contains a metal binding site []. ; PDB: 1KKO_B 1KKR_A 3ZVI_A 1KD0_B 1KCZ_B 3ZVH_A.
Probab=21.98 E-value=1.1e+02 Score=17.83 Aligned_cols=23 Identities=17% Similarity=0.510 Sum_probs=16.0
Q ss_pred EcccCCCCCHHHHHHHHHHHHHH
Q 035388 14 ETSAKDAINVEQAFLTMAGEIKK 36 (66)
Q Consensus 14 etSAkt~~~v~~~F~~l~~~i~~ 36 (66)
..-||.|.||+|=|..+..++.+
T Consensus 219 q~LaKPGMG~DEG~mIV~NEM~R 241 (248)
T PF07476_consen 219 QMLAKPGMGVDEGYMIVTNEMNR 241 (248)
T ss_dssp EEE--SSSSSHHHHHHHHHHHHH
T ss_pred HHhcCCCCCccchHHHHHHHHHH
Confidence 44589999999988877766654
No 373
>PRK12702 mannosyl-3-phosphoglycerate phosphatase; Reviewed
Probab=21.90 E-value=84 Score=18.94 Aligned_cols=28 Identities=14% Similarity=0.193 Sum_probs=22.2
Q ss_pred HHHHhCCCeEEcccCCCCCHHHHHHHHH
Q 035388 4 FADELGIPFLETSAKDAINVEQAFLTMA 31 (66)
Q Consensus 4 ~a~~~~~~~~etSAkt~~~v~~~F~~l~ 31 (66)
..++.+++++-+|.|+-..+..++..+.
T Consensus 29 ~Lk~~GI~vVlaTGRt~~ev~~l~~~Lg 56 (302)
T PRK12702 29 ALERRSIPLVLYSLRTRAQLEHLCRQLR 56 (302)
T ss_pred HHHHCCCEEEEEcCCCHHHHHHHHHHhC
Confidence 3456789999999999988888776653
No 374
>COG1219 ClpX ATP-dependent protease Clp, ATPase subunit [Posttranslational modification, protein turnover, chaperones]
Probab=21.83 E-value=2.2e+02 Score=17.90 Aligned_cols=32 Identities=28% Similarity=0.427 Sum_probs=24.3
Q ss_pred HHHHHHhCCCeEEcccCC-------CCCHHHHHHHHHHH
Q 035388 2 QAFADELGIPFLETSAKD-------AINVEQAFLTMAGE 33 (66)
Q Consensus 2 ~~~a~~~~~~~~etSAkt-------~~~v~~~F~~l~~~ 33 (66)
+.+|+-+++||--+-|-| |+.|+++...|.+.
T Consensus 115 qTLAk~LnVPFaiADATtLTEAGYVGEDVENillkLlqa 153 (408)
T COG1219 115 QTLAKILNVPFAIADATTLTEAGYVGEDVENILLKLLQA 153 (408)
T ss_pred HHHHHHhCCCeeeccccchhhccccchhHHHHHHHHHHH
Confidence 567888999987666654 77888888777665
No 375
>smart00426 TEA TEA domain.
Probab=21.81 E-value=96 Score=14.40 Aligned_cols=16 Identities=25% Similarity=0.225 Sum_probs=12.0
Q ss_pred CCHHHHHHHHHHHHHH
Q 035388 21 INVEQAFLTMAGEIKK 36 (66)
Q Consensus 21 ~~v~~~F~~l~~~i~~ 36 (66)
..|+++|.+....+..
T Consensus 8 ~~lE~Af~~aL~~~~~ 23 (68)
T smart00426 8 PDIEQAFQEALAIYPP 23 (68)
T ss_pred HHHHHHHHHHHHHcCc
Confidence 3579999888877753
No 376
>TIGR00629 uvde UV damage endonuclease UvdE. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=21.71 E-value=2e+02 Score=17.44 Aligned_cols=35 Identities=20% Similarity=0.161 Sum_probs=24.2
Q ss_pred HHHHHHhCCCeEEcccCC---------CCCHHHHHHHHHHHHHH
Q 035388 2 QAFADELGIPFLETSAKD---------AINVEQAFLTMAGEIKK 36 (66)
Q Consensus 2 ~~~a~~~~~~~~etSAkt---------~~~v~~~F~~l~~~i~~ 36 (66)
..|...+++.||..|+.- |..+.+.|...++.+-+
T Consensus 58 L~~n~~~~I~f~RisS~l~P~ash~~~~~~~~~~~~~~l~~iG~ 101 (312)
T TIGR00629 58 LHWNIGHGIPFYRFSSSIFPFASHPDVGYDLVTFAQKELREIGE 101 (312)
T ss_pred HHHHHHcCCcEEecCccccCcCcCchhhhhHHHHHHHHHHHHHH
Confidence 357788899999988753 56666666666666543
No 377
>TIGR03853 matur_matur probable metal-binding protein. This protein family was identified by searching with a phylogenetic profile based on an anaerobic sulfatase-maturase enzyme, which contains multiple 4Fe-4S clusters. The linkages by phylogenetic profiling and by iron-sulfur cluster-related motifs together suggest this protein may be an accessory protein to certain maturases in sulfatase/maturase systems.
Probab=21.67 E-value=1.1e+02 Score=14.53 Aligned_cols=28 Identities=14% Similarity=0.326 Sum_probs=18.7
Q ss_pred HHHHhC--CCeEEcccCCCCCHHHHHHHHHH
Q 035388 4 FADELG--IPFLETSAKDAINVEQAFLTMAG 32 (66)
Q Consensus 4 ~a~~~~--~~~~etSAkt~~~v~~~F~~l~~ 32 (66)
..+.+| ..|.-+|| .+...+++...|.+
T Consensus 27 i~~~FG~~arFhTCSa-~~m~a~~Li~FL~~ 56 (77)
T TIGR03853 27 IEQKFGEDARFHTCSA-EGMTADELLQFLLK 56 (77)
T ss_pred HHHHhCCCceEeeccc-ccCCHHHHHHHHHH
Confidence 455666 45777777 57788887766644
No 378
>PF04670 Gtr1_RagA: Gtr1/RagA G protein conserved region; InterPro: IPR006762 GTR1 was first identified in Saccharomyces cerevisiae (Baker's yeast) as a suppressor of a mutation in RCC1. RCC1 catalyzes guanine nucleotide exchange on Ran, a well characterised nuclear Ras-like small G protein that plays an essential role in the import and export of proteins and RNAs across the nuclear membrane through the nuclear pore complex. RCC1 is located inside the nucleus, bound to chromatin. The concentration of GTP within the cell is ~30 times higher than the concentration of GDP, thus resulting in the preferential production of the GTP form of Ran by RCC1 within the nucleus. Gtr1p is located within both the cytoplasm and the nucleus and has been reported to play a role in cell growth. Biochemical analysis revealed that Gtr1 is in fact a G protein of the Ras family. The RagA/B proteins are the human homologues of Gtr1 and Rag A and Gtr1p belong to the sixth subfamily of the Ras-like small GTPase superfamily []. ; GO: 0005525 GTP binding, 0005634 nucleus, 0005737 cytoplasm; PDB: 3R7W_B 2Q3F_B 3LLU_A.
Probab=21.61 E-value=73 Score=18.21 Aligned_cols=28 Identities=21% Similarity=0.298 Sum_probs=22.4
Q ss_pred CCeEEcccCCCCCHHHHHHHHHHHHHHHh
Q 035388 10 IPFLETSAKDAINVEQAFLTMAGEIKKKM 38 (66)
Q Consensus 10 ~~~~etSAkt~~~v~~~F~~l~~~i~~~~ 38 (66)
+.|+.||--+ .-|-++|..++..++.+.
T Consensus 152 ~~~~~TSI~D-~Sly~A~S~Ivq~LiP~~ 179 (232)
T PF04670_consen 152 ITFFLTSIWD-ESLYEAWSKIVQKLIPNL 179 (232)
T ss_dssp EEEEEE-TTS-THHHHHHHHHHHTTSTTH
T ss_pred eEEEeccCcC-cHHHHHHHHHHHHHcccH
Confidence 6799999997 689999999998887543
No 379
>smart00394 RIIa RIIalpha, Regulatory subunit portion of type II PKA R-subunit. RIIalpha, Regulatory subunit portion of type II PKA R-subunit. Contains dimerisation interface and binding site for A-kinase-anchoring proteins (AKAPs).
Probab=21.52 E-value=75 Score=12.43 Aligned_cols=17 Identities=6% Similarity=0.153 Sum_probs=13.1
Q ss_pred CHHHHHHHHHHHHHHHh
Q 035388 22 NVEQAFLTMAGEIKKKM 38 (66)
Q Consensus 22 ~v~~~F~~l~~~i~~~~ 38 (66)
++..++..++..++...
T Consensus 2 ~~~~~L~~~~~~vl~~q 18 (38)
T smart00394 2 GLQALLEDLTVEVLRAQ 18 (38)
T ss_pred cHHHHHHHHHHHHHHHC
Confidence 67888888888887654
No 380
>PF00148 Oxidored_nitro: Nitrogenase component 1 type Oxidoreductase; InterPro: IPR000510 Enzymes belonging to this family include cofactor-requiring nitrogenases and protochlorophyllide reductase. The key enzymatic reactions in nitrogen fixation are catalysed by the nitrogenase complex, which has two components, the iron protein (component 2), and a component (component 1) which is either a molybdenum-iron, vanadium-iron or iron-iron protein. The enzyme (1.18.6.1 from EC) forms a hexamer of two alpha, two beta and two delta chains. Protochlorophyllide reductase (1.3.1.33 from EC) is involved in the light-dependent accumulation of chlorophyll, probably at the step of reduction of protochlorophyllide to chlorophyllide.; GO: 0016491 oxidoreductase activity, 0055114 oxidation-reduction process; PDB: 1QH1_C 1QH8_A 1H1L_C 1QGU_A 3AEK_C 3AET_C 3AER_C 3AEU_A 3AES_C 3AEQ_C ....
Probab=21.43 E-value=92 Score=18.81 Aligned_cols=33 Identities=15% Similarity=0.306 Sum_probs=18.7
Q ss_pred HHHHHHhCCCeEEcccCCC-CCHHHHHHHHHHHH
Q 035388 2 QAFADELGIPFLETSAKDA-INVEQAFLTMAGEI 34 (66)
Q Consensus 2 ~~~a~~~~~~~~etSAkt~-~~v~~~F~~l~~~i 34 (66)
+.+.+++|++|+....--| .+++..+..|++.+
T Consensus 209 ~~L~e~~giP~~~~~~p~G~~~t~~~l~~i~~~l 242 (398)
T PF00148_consen 209 EWLEERFGIPYLYFPSPYGIEGTDAWLRAIAEAL 242 (398)
T ss_dssp HHHHHHHT-EEEEEC-SBSHHHHHHHHHHHHHHH
T ss_pred HHHHHHhCCCeeeccccccHHHHHHHHHHHHHHh
Confidence 4456678999998554444 44555555555543
No 381
>KOG4456 consensus Inner centromere protein (INCENP), C-terminal domain [Cell cycle control, cell division, chromosome partitioning]
Probab=21.30 E-value=98 Score=16.28 Aligned_cols=25 Identities=20% Similarity=0.165 Sum_probs=18.6
Q ss_pred eEEcccCCCCCHHHHHHHHHHHHHHH
Q 035388 12 FLETSAKDAINVEQAFLTMAGEIKKK 37 (66)
Q Consensus 12 ~~etSAkt~~~v~~~F~~l~~~i~~~ 37 (66)
.|..|+-+ -++.++|-.+.....++
T Consensus 92 ~Ff~~~pk-pdLkeIF~~~~p~~~KR 116 (134)
T KOG4456|consen 92 TFFGSMPK-PDLKEIFGEMVPSKKKR 116 (134)
T ss_pred HHhcccCC-cCHHHHHHhhhhhhhhc
Confidence 46667766 89999999888766544
No 382
>PRK09602 translation-associated GTPase; Reviewed
Probab=21.30 E-value=1.1e+02 Score=18.92 Aligned_cols=17 Identities=24% Similarity=0.290 Sum_probs=14.6
Q ss_pred CCeEEcccCCCCCHHHH
Q 035388 10 IPFLETSAKDAINVEQA 26 (66)
Q Consensus 10 ~~~~etSAkt~~~v~~~ 26 (66)
..++.+||+.+.+++++
T Consensus 245 ~~vvpISA~~e~~l~~~ 261 (396)
T PRK09602 245 YIVVPTSAEAELALRRA 261 (396)
T ss_pred CcEEEEcchhhhhHHHH
Confidence 45899999999999884
No 383
>KOG0466 consensus Translation initiation factor 2, gamma subunit (eIF-2gamma; GTPase) [Translation, ribosomal structure and biogenesis]
Probab=21.26 E-value=91 Score=19.33 Aligned_cols=27 Identities=22% Similarity=0.321 Sum_probs=23.8
Q ss_pred CCCeEEcccCCCCCHHHHHHHHHHHHH
Q 035388 9 GIPFLETSAKDAINVEQAFLTMAGEIK 35 (66)
Q Consensus 9 ~~~~~etSAkt~~~v~~~F~~l~~~i~ 35 (66)
+.+.+-+||.-..||+-+-+.++..|.
T Consensus 215 ~aPiiPisAQlkyNId~v~eyivkkIP 241 (466)
T KOG0466|consen 215 GAPIIPISAQLKYNIDVVCEYIVKKIP 241 (466)
T ss_pred CCceeeehhhhccChHHHHHHHHhcCC
Confidence 468899999999999999999988874
No 384
>PF13519 VWA_2: von Willebrand factor type A domain; PDB: 3IBS_B 3RAG_B 2X5N_A.
Probab=21.24 E-value=70 Score=16.13 Aligned_cols=26 Identities=19% Similarity=0.463 Sum_probs=12.4
Q ss_pred HHHHhCCCeEEcccCCCCCHHHHHHHH
Q 035388 4 FADELGIPFLETSAKDAINVEQAFLTM 30 (66)
Q Consensus 4 ~a~~~~~~~~etSAkt~~~v~~~F~~l 30 (66)
+++.-+-.|+... .+...+.++|..|
T Consensus 147 la~~tgG~~~~~~-~~~~~l~~~~~~I 172 (172)
T PF13519_consen 147 LAEATGGRYFHVD-NDPEDLDDAFQQI 172 (172)
T ss_dssp HHHHTEEEEEEE--SSSHHHHHHHHH-
T ss_pred HHHhcCCEEEEec-CCHHHHHHHHhcC
Confidence 4444444455542 2345666666543
No 385
>COG0623 FabI Enoyl-[acyl-carrier-protein]
Probab=21.18 E-value=1.7e+02 Score=17.32 Aligned_cols=33 Identities=21% Similarity=0.380 Sum_probs=25.8
Q ss_pred HHHHHHhCCC-eEEcccCCCCCHHHHHHHHHHHH
Q 035388 2 QAFADELGIP-FLETSAKDAINVEQAFLTMAGEI 34 (66)
Q Consensus 2 ~~~a~~~~~~-~~etSAkt~~~v~~~F~~l~~~i 34 (66)
++++++++.. .+++-.-+...|+.+|..|-+..
T Consensus 49 ~~la~~~~s~~v~~cDV~~d~~i~~~f~~i~~~~ 82 (259)
T COG0623 49 EELAEELGSDLVLPCDVTNDESIDALFATIKKKW 82 (259)
T ss_pred HHHHhhccCCeEEecCCCCHHHHHHHHHHHHHhh
Confidence 4577888754 57888888889999999887765
No 386
>PRK01792 ribB 3,4-dihydroxy-2-butanone 4-phosphate synthase; Provisional
Probab=21.17 E-value=59 Score=18.53 Aligned_cols=13 Identities=23% Similarity=0.503 Sum_probs=11.2
Q ss_pred HHHHHHhCCCeEE
Q 035388 2 QAFADELGIPFLE 14 (66)
Q Consensus 2 ~~~a~~~~~~~~e 14 (66)
.+||++|+++++.
T Consensus 189 ~~fA~~~~l~~is 201 (214)
T PRK01792 189 VEFAKKFGYAVVT 201 (214)
T ss_pred HHHHHHcCCcEEE
Confidence 5799999999975
No 387
>TIGR01284 alt_nitrog_alph nitrogenase alpha chain. This model represents the alpha chains of various forms of the nitrogen-fixing enzyme nitrogenase: vanadium-iron, iron-iron, and molybdenum-iron. Most examples of NifD, the molybdenum-iron type nitrogenase alpha chain, are excluded from this model and described instead by equivalog model TIGR01282. It appears by phylogenetic and UPGMA trees that this model represents a distinct clade of NifD homologs, in which arose several molybdenum-independent forms.
Probab=21.12 E-value=1.5e+02 Score=18.72 Aligned_cols=20 Identities=25% Similarity=0.504 Sum_probs=14.2
Q ss_pred HHHHHHhCCCeEEcccCCCCCHH
Q 035388 2 QAFADELGIPFLETSAKDAINVE 24 (66)
Q Consensus 2 ~~~a~~~~~~~~etSAkt~~~v~ 24 (66)
+.+.+.+|++|+..+. .|++
T Consensus 263 ~~Le~~~GiP~~~~~~---~G~~ 282 (457)
T TIGR01284 263 NELEERYGIPRLDIDF---FGFE 282 (457)
T ss_pred HHHHHHhCCCeEeccc---CCHH
Confidence 4466778999998873 5554
No 388
>PF00205 TPP_enzyme_M: Thiamine pyrophosphate enzyme, central domain; InterPro: IPR012000 A number of enzymes require thiamine pyrophosphate (TPP) (vitamin B1) as a cofactor. It has been shown [] that some of these enzymes are structurally related. This central domain of TPP enzymes contains a 2-fold Rossman fold. ; GO: 0000287 magnesium ion binding, 0030976 thiamine pyrophosphate binding; PDB: 1OZH_C 1OZF_B 1OZG_B 2Q29_B 2Q28_A 2Q27_B 1OVM_B 1PVD_A 1PYD_B 2VK1_C ....
Probab=21.00 E-value=86 Score=15.75 Aligned_cols=15 Identities=40% Similarity=0.749 Sum_probs=11.5
Q ss_pred HHHHHHhCCCeEEcc
Q 035388 2 QAFADELGIPFLETS 16 (66)
Q Consensus 2 ~~~a~~~~~~~~etS 16 (66)
.+|++.++++++.+-
T Consensus 32 ~~lae~~~~Pv~~t~ 46 (137)
T PF00205_consen 32 RELAEKLGIPVATTP 46 (137)
T ss_dssp HHHHHHHTSEEEEEG
T ss_pred HHHHHHHCCCEEecC
Confidence 468888999887653
No 389
>PF10686 DUF2493: Protein of unknown function (DUF2493); InterPro: IPR019627 This entry is represented by Mycobacteriophage D29, Gp61. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. Members of this family are mainly Proteobacteria. The function is not known.
Probab=20.62 E-value=91 Score=14.30 Aligned_cols=16 Identities=31% Similarity=0.573 Sum_probs=10.6
Q ss_pred HHHHHHhCCCeEEccc
Q 035388 2 QAFADELGIPFLETSA 17 (66)
Q Consensus 2 ~~~a~~~~~~~~etSA 17 (66)
..||++.+++.....|
T Consensus 50 ~~wA~~~gv~~~~~~a 65 (71)
T PF10686_consen 50 ARWARERGVPVIRFPA 65 (71)
T ss_pred HHHHHHCCCeeEEeCc
Confidence 5677777777665444
No 390
>PF08471 Ribonuc_red_2_N: Class II vitamin B12-dependent ribonucleotide reductase; InterPro: IPR013678 This domain is found to the N terminus of the ribonucleotide reductase barrel domain (IPR000788 from INTERPRO). It occurs in bacterial class II ribonucleotide reductase proteins which depend upon coenzyme B12 (deoxyadenosylcobalamine) []. ; GO: 0004748 ribonucleoside-diphosphate reductase activity, 0050897 cobalt ion binding, 0055114 oxidation-reduction process
Probab=20.24 E-value=1.3e+02 Score=14.84 Aligned_cols=14 Identities=36% Similarity=0.413 Sum_probs=10.4
Q ss_pred HHHHHHHHHHHHHH
Q 035388 23 VEQAFLTMAGEIKK 36 (66)
Q Consensus 23 v~~~F~~l~~~i~~ 36 (66)
+.++|.+|+.-+..
T Consensus 52 ~rQv~~Rla~tw~~ 65 (93)
T PF08471_consen 52 VRQVFDRLAGTWTY 65 (93)
T ss_pred HHHHHHHHHHHHHH
Confidence 36888888887654
Done!