Query psy17493
Match_columns 101
No_of_seqs 204 out of 1339
Neff 9.4
Searched_HMMs 46136
Date Fri Aug 16 23:54:40 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy17493.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/17493hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0078|consensus 99.8 2.2E-19 4.7E-24 114.1 8.5 63 6-68 117-179 (207)
2 KOG0092|consensus 99.8 1.1E-19 2.4E-24 113.9 6.0 60 9-68 113-172 (200)
3 KOG0091|consensus 99.8 1.8E-18 4E-23 106.5 8.0 61 10-70 120-180 (213)
4 KOG0098|consensus 99.8 9.5E-19 2.1E-23 109.6 6.4 64 7-70 112-175 (216)
5 KOG0084|consensus 99.7 6.9E-18 1.5E-22 106.3 7.6 64 8-71 116-180 (205)
6 KOG0394|consensus 99.7 9.4E-18 2E-22 104.9 7.2 59 10-68 122-183 (210)
7 KOG0080|consensus 99.7 1.6E-17 3.5E-22 102.1 6.1 59 10-68 121-179 (209)
8 KOG0097|consensus 99.7 3.7E-17 8E-22 99.0 7.3 65 7-71 117-181 (215)
9 KOG0081|consensus 99.7 4.3E-17 9.3E-22 100.2 7.6 71 6-76 124-194 (219)
10 cd04126 Rab20 Rab20 subfamily. 99.7 8.6E-17 1.9E-21 104.5 9.3 87 7-96 101-220 (220)
11 KOG0088|consensus 99.7 7.1E-17 1.5E-21 99.2 6.5 61 10-70 122-182 (218)
12 KOG0093|consensus 99.7 3.4E-17 7.3E-22 99.5 4.9 62 7-68 127-188 (193)
13 KOG0079|consensus 99.7 5.4E-17 1.2E-21 98.7 5.3 84 9-96 115-198 (198)
14 KOG0094|consensus 99.7 2.6E-16 5.6E-21 99.3 5.6 59 9-67 131-189 (221)
15 KOG0083|consensus 99.6 2.2E-16 4.7E-21 94.8 4.6 58 9-66 106-163 (192)
16 cd04174 Rnd1_Rho6 Rnd1/Rho6 su 99.6 3.1E-15 6.6E-20 97.9 9.1 62 6-67 117-192 (232)
17 cd04107 Rab32_Rab38 Rab38/Rab3 99.6 6.6E-15 1.4E-19 94.0 9.4 66 7-72 111-177 (201)
18 KOG0087|consensus 99.6 5.9E-15 1.3E-19 94.0 8.1 61 9-69 122-182 (222)
19 cd04120 Rab12 Rab12 subfamily. 99.6 1E-14 2.3E-19 93.6 9.1 60 6-65 105-165 (202)
20 cd04121 Rab40 Rab40 subfamily. 99.6 5.8E-15 1.2E-19 93.9 7.4 60 6-65 110-169 (189)
21 cd04144 Ras2 Ras2 subfamily. 99.6 1.2E-14 2.5E-19 92.1 8.6 60 7-66 107-166 (190)
22 cd01873 RhoBTB RhoBTB subfamil 99.6 4.1E-15 8.8E-20 95.0 6.4 56 6-61 120-194 (195)
23 cd04172 Rnd3_RhoE_Rho8 Rnd3/Rh 99.5 2.1E-14 4.5E-19 90.8 6.5 58 6-63 109-180 (182)
24 cd04111 Rab39 Rab39 subfamily. 99.5 9.3E-14 2E-18 89.6 9.6 60 9-68 112-171 (211)
25 cd04110 Rab35 Rab35 subfamily. 99.5 1.2E-13 2.6E-18 88.2 9.0 63 7-69 111-173 (199)
26 PLN03110 Rab GTPase; Provision 99.5 1.5E-13 3.2E-18 88.9 9.5 61 7-67 118-178 (216)
27 cd04141 Rit_Rin_Ric Rit/Rin/Ri 99.5 5E-14 1.1E-18 88.1 6.9 60 6-65 107-166 (172)
28 KOG0086|consensus 99.5 1.6E-14 3.6E-19 88.4 4.5 61 10-70 118-178 (214)
29 cd04133 Rop_like Rop subfamily 99.5 6.3E-14 1.4E-18 88.2 6.4 57 7-63 106-173 (176)
30 cd04131 Rnd Rnd subfamily. Th 99.5 7.3E-14 1.6E-18 88.0 6.6 58 6-63 105-176 (178)
31 PTZ00099 rab6; Provisional 99.5 1.5E-13 3.2E-18 86.6 7.0 57 9-65 88-144 (176)
32 KOG0395|consensus 99.5 1.3E-13 2.7E-18 88.3 6.4 58 8-65 110-167 (196)
33 cd04125 RabA_like RabA-like su 99.5 4E-13 8.8E-18 84.8 8.5 59 8-66 107-165 (188)
34 cd04173 Rnd2_Rho7 Rnd2/Rho7 su 99.5 4.3E-13 9.3E-18 87.3 8.5 61 6-66 105-179 (222)
35 PLN03118 Rab family protein; P 99.5 1.1E-12 2.4E-17 84.3 9.8 60 7-66 121-180 (211)
36 cd04112 Rab26 Rab26 subfamily. 99.5 8.2E-13 1.8E-17 83.7 9.0 59 7-65 107-165 (191)
37 cd04122 Rab14 Rab14 subfamily. 99.4 5.1E-13 1.1E-17 82.6 7.2 58 7-64 108-165 (166)
38 cd04109 Rab28 Rab28 subfamily. 99.4 5.6E-13 1.2E-17 86.0 7.6 58 8-65 111-168 (215)
39 cd04134 Rho3 Rho3 subfamily. 99.4 6.4E-13 1.4E-17 84.1 7.6 58 6-63 104-174 (189)
40 cd01875 RhoG RhoG subfamily. 99.4 5.6E-13 1.2E-17 84.6 7.0 59 6-64 107-178 (191)
41 KOG0095|consensus 99.4 1E-13 2.2E-18 84.7 2.8 60 10-69 116-175 (213)
42 cd04103 Centaurin_gamma Centau 99.4 3.7E-13 8.1E-18 83.2 5.3 55 7-61 100-157 (158)
43 cd04117 Rab15 Rab15 subfamily. 99.4 7.1E-13 1.5E-17 81.9 6.3 55 7-61 106-160 (161)
44 cd04127 Rab27A Rab27a subfamil 99.4 1.1E-12 2.5E-17 81.9 7.2 60 6-65 120-179 (180)
45 PLN03108 Rab family protein; P 99.4 4.6E-12 1E-16 81.6 10.1 61 7-67 112-172 (210)
46 cd04132 Rho4_like Rho4-like su 99.4 1.8E-12 4E-17 81.5 8.1 62 7-68 106-172 (187)
47 PF00071 Ras: Ras family; Int 99.4 1.1E-12 2.5E-17 80.5 6.6 57 7-63 105-161 (162)
48 cd01874 Cdc42 Cdc42 subfamily. 99.4 1.4E-12 3E-17 81.8 6.0 56 7-62 106-174 (175)
49 PTZ00369 Ras-like protein; Pro 99.4 4.3E-12 9.3E-17 80.3 7.6 59 7-65 111-169 (189)
50 cd04142 RRP22 RRP22 subfamily. 99.4 2.1E-12 4.6E-17 82.6 6.1 60 6-65 116-176 (198)
51 cd04129 Rho2 Rho2 subfamily. 99.3 7E-12 1.5E-16 79.2 7.6 58 7-64 106-174 (187)
52 cd01867 Rab8_Rab10_Rab13_like 99.3 7.1E-12 1.5E-16 77.6 7.0 59 6-64 108-166 (167)
53 cd01871 Rac1_like Rac1-like su 99.3 3.8E-12 8.2E-17 79.7 5.8 55 7-61 106-173 (174)
54 cd04118 Rab24 Rab24 subfamily. 99.3 2.2E-11 4.8E-16 77.0 9.3 61 6-66 105-169 (193)
55 cd01865 Rab3 Rab3 subfamily. 99.3 9E-12 2E-16 77.0 7.1 57 7-63 107-163 (165)
56 cd04146 RERG_RasL11_like RERG/ 99.3 6.1E-12 1.3E-16 77.7 6.3 58 6-63 106-164 (165)
57 smart00174 RHO Rho (Ras homolo 99.3 4.4E-12 9.4E-17 78.8 5.3 58 6-63 102-172 (174)
58 cd04140 ARHI_like ARHI subfami 99.3 1.1E-11 2.4E-16 76.6 6.5 54 7-60 109-162 (165)
59 cd04175 Rap1 Rap1 subgroup. T 99.3 1.2E-11 2.7E-16 76.1 6.3 56 7-62 107-162 (164)
60 cd01869 Rab1_Ypt1 Rab1/Ypt1 su 99.3 1.9E-11 4E-16 75.5 7.1 57 7-63 108-164 (166)
61 cd04136 Rap_like Rap-like subf 99.3 1E-11 2.3E-16 76.1 5.9 56 7-62 107-162 (163)
62 cd04148 RGK RGK subfamily. Th 99.3 1.7E-11 3.6E-16 79.6 7.0 60 6-65 106-165 (221)
63 cd04119 RJL RJL (RabJ-Like) su 99.3 1.6E-11 3.4E-16 75.4 6.4 57 7-63 111-167 (168)
64 smart00173 RAS Ras subfamily o 99.3 2.1E-11 4.6E-16 74.9 7.0 57 7-63 106-162 (164)
65 cd04145 M_R_Ras_like M-Ras/R-R 99.3 2.2E-11 4.7E-16 74.7 6.6 56 7-62 108-163 (164)
66 cd04128 Spg1 Spg1p. Spg1p (se 99.3 2.1E-11 4.6E-16 77.0 6.4 55 10-64 108-167 (182)
67 cd04135 Tc10 TC10 subfamily. 99.2 2.4E-11 5.1E-16 75.5 6.0 57 6-62 104-173 (174)
68 smart00176 RAN Ran (Ras-relate 99.2 3.9E-11 8.5E-16 77.0 7.1 58 6-65 99-156 (200)
69 cd04115 Rab33B_Rab33A Rab33B/R 99.2 3.5E-11 7.7E-16 74.7 6.3 56 7-62 110-168 (170)
70 cd04176 Rap2 Rap2 subgroup. T 99.2 4E-11 8.6E-16 73.7 6.4 56 7-62 107-162 (163)
71 cd01868 Rab11_like Rab11-like. 99.2 4.8E-11 1E-15 73.5 6.4 56 7-62 109-164 (165)
72 cd04106 Rab23_lke Rab23-like s 99.2 5.8E-11 1.3E-15 72.8 6.5 56 6-61 106-161 (162)
73 cd04177 RSR1 RSR1 subgroup. R 99.2 7.7E-11 1.7E-15 73.0 6.9 57 7-63 107-164 (168)
74 cd04138 H_N_K_Ras_like H-Ras/N 99.2 7.6E-11 1.6E-15 71.9 6.8 56 6-62 106-161 (162)
75 cd01866 Rab2 Rab2 subfamily. 99.2 1E-10 2.2E-15 72.5 7.5 59 6-64 109-167 (168)
76 PLN03071 GTP-binding nuclear p 99.2 5.5E-11 1.2E-15 77.1 6.3 58 6-65 117-174 (219)
77 cd04108 Rab36_Rab34 Rab34/Rab3 99.2 1.2E-10 2.7E-15 72.6 6.9 56 9-64 109-166 (170)
78 cd04116 Rab9 Rab9 subfamily. 99.2 9.6E-11 2.1E-15 72.5 6.2 54 7-61 115-169 (170)
79 cd04130 Wrch_1 Wrch-1 subfamil 99.2 1E-10 2.2E-15 72.8 6.2 55 6-60 104-171 (173)
80 cd04113 Rab4 Rab4 subfamily. 99.2 1.1E-10 2.3E-15 71.6 6.0 55 7-61 106-160 (161)
81 cd04101 RabL4 RabL4 (Rab-like4 99.2 1.6E-10 3.5E-15 71.0 6.6 56 7-62 108-163 (164)
82 cd00877 Ran Ran (Ras-related n 99.1 1.9E-10 4.2E-15 71.4 6.5 56 7-64 105-160 (166)
83 cd01864 Rab19 Rab19 subfamily. 99.1 2.2E-10 4.7E-15 70.7 6.4 55 7-61 109-164 (165)
84 cd04139 RalA_RalB RalA/RalB su 99.1 3.9E-10 8.5E-15 69.0 7.4 57 7-63 106-162 (164)
85 smart00175 RAB Rab subfamily o 99.1 5.5E-10 1.2E-14 68.4 6.6 58 7-64 106-163 (164)
86 cd01870 RhoA_like RhoA-like su 99.0 1.1E-09 2.4E-14 68.0 6.8 57 6-62 105-174 (175)
87 cd04143 Rhes_like Rhes_like su 99.0 1.2E-09 2.5E-14 72.3 6.9 57 6-62 113-170 (247)
88 cd01892 Miro2 Miro2 subfamily. 99.0 5.5E-10 1.2E-14 69.5 4.9 58 6-63 108-166 (169)
89 cd01860 Rab5_related Rab5-rela 99.0 1.7E-09 3.7E-14 66.3 6.9 55 8-62 108-162 (163)
90 cd00876 Ras Ras family. The R 99.0 1.2E-09 2.6E-14 66.4 6.1 56 6-61 104-159 (160)
91 TIGR02528 EutP ethanolamine ut 99.0 1.3E-09 2.9E-14 65.6 6.2 52 7-59 89-141 (142)
92 cd04114 Rab30 Rab30 subfamily. 99.0 1.6E-09 3.4E-14 66.9 6.5 56 7-62 113-168 (169)
93 cd04137 RheB Rheb (Ras Homolog 99.0 2.3E-09 4.9E-14 67.0 7.3 60 6-65 106-165 (180)
94 cd04124 RabL2 RabL2 subfamily. 99.0 1.9E-09 4E-14 66.5 6.4 55 7-64 105-159 (161)
95 cd04123 Rab21 Rab21 subfamily. 99.0 2.3E-09 5E-14 65.3 6.5 56 7-62 106-161 (162)
96 cd01862 Rab7 Rab7 subfamily. 99.0 3.4E-09 7.3E-14 65.4 7.1 59 7-65 110-169 (172)
97 cd01861 Rab6 Rab6 subfamily. 99.0 2.5E-09 5.5E-14 65.4 6.2 55 7-61 106-160 (161)
98 cd04158 ARD1 ARD1 subfamily. 99.0 2E-09 4.4E-14 66.9 5.5 57 7-65 101-163 (169)
99 cd01863 Rab18 Rab18 subfamily. 98.9 4.8E-09 1E-13 64.2 6.4 54 7-61 107-160 (161)
100 cd01897 NOG NOG1 is a nucleola 98.9 1.9E-09 4E-14 66.5 4.4 55 6-62 113-167 (168)
101 TIGR00157 ribosome small subun 98.9 1.9E-09 4.1E-14 71.2 4.3 54 6-60 67-120 (245)
102 KOG0393|consensus 98.9 2.2E-09 4.8E-14 68.6 4.2 59 7-65 110-181 (198)
103 cd01893 Miro1 Miro1 subfamily. 98.9 5.5E-09 1.2E-13 64.6 5.5 59 6-64 103-165 (166)
104 cd04147 Ras_dva Ras-dva subfam 98.9 1.2E-08 2.6E-13 65.0 6.7 58 6-63 104-163 (198)
105 cd00157 Rho Rho (Ras homology) 98.9 7.2E-09 1.6E-13 63.9 5.5 54 7-60 105-170 (171)
106 PRK15467 ethanolamine utilizat 98.8 1E-08 2.3E-13 63.4 6.0 57 6-65 91-149 (158)
107 cd04162 Arl9_Arfrp2_like Arl9/ 98.8 1.3E-09 2.9E-14 67.5 1.6 54 6-59 99-162 (164)
108 cd04149 Arf6 Arf6 subfamily. 98.8 7.4E-09 1.6E-13 64.4 4.9 53 6-60 110-167 (168)
109 cd00154 Rab Rab family. Rab G 98.8 1.8E-08 4E-13 60.7 5.8 53 7-59 106-158 (159)
110 cd04154 Arl2 Arl2 subfamily. 98.8 1.8E-08 3.8E-13 62.7 5.0 53 6-60 115-172 (173)
111 KOG4423|consensus 98.8 2.6E-08 5.7E-13 63.1 5.6 64 5-68 132-199 (229)
112 PRK04213 GTP-binding protein; 98.7 3.4E-08 7.4E-13 62.8 6.2 54 6-63 130-192 (201)
113 cd00879 Sar1 Sar1 subfamily. 98.7 1.9E-08 4E-13 63.4 4.7 54 6-61 120-189 (190)
114 PRK12299 obgE GTPase CgtA; Rev 98.7 4E-08 8.7E-13 67.6 6.6 59 6-64 271-329 (335)
115 PLN00223 ADP-ribosylation fact 98.7 5.6E-08 1.2E-12 61.3 6.2 54 6-64 118-179 (181)
116 cd01890 LepA LepA subfamily. 98.7 5.2E-08 1.1E-12 60.6 6.0 55 6-62 119-176 (179)
117 PTZ00132 GTP-binding nuclear p 98.7 7.6E-08 1.7E-12 62.0 6.8 56 8-65 115-170 (215)
118 cd01898 Obg Obg subfamily. Th 98.6 6.8E-08 1.5E-12 59.5 5.0 55 6-61 114-169 (170)
119 cd04150 Arf1_5_like Arf1-Arf5- 98.6 1.1E-08 2.4E-13 63.0 1.4 52 7-60 102-158 (159)
120 KOG4252|consensus 98.6 4.9E-08 1.1E-12 61.7 3.8 60 9-68 127-186 (246)
121 cd04156 ARLTS1 ARLTS1 subfamil 98.6 3.7E-08 8E-13 60.2 3.2 53 6-60 101-159 (160)
122 cd04152 Arl4_Arl7 Arl4/Arl7 su 98.6 2.1E-07 4.5E-12 58.6 6.6 59 6-66 109-173 (183)
123 PTZ00133 ADP-ribosylation fact 98.6 1.8E-07 4E-12 58.9 6.3 57 7-65 119-180 (182)
124 cd01879 FeoB Ferrous iron tran 98.6 1.9E-07 4.2E-12 56.7 5.9 55 6-61 101-155 (158)
125 smart00177 ARF ARF-like small 98.6 3.6E-08 7.8E-13 61.7 2.1 54 7-62 115-173 (175)
126 TIGR00101 ureG urease accessor 98.6 2.2E-07 4.8E-12 59.7 5.8 53 10-62 141-195 (199)
127 cd04157 Arl6 Arl6 subfamily. 98.5 4E-08 8.6E-13 60.0 2.1 53 6-60 104-161 (162)
128 cd04151 Arl1 Arl1 subfamily. 98.5 3.4E-08 7.4E-13 60.5 1.8 53 6-60 100-157 (158)
129 cd04160 Arfrp1 Arfrp1 subfamil 98.5 1.8E-07 3.8E-12 57.6 4.6 53 6-60 107-166 (167)
130 cd04153 Arl5_Arl8 Arl5/Arl8 su 98.5 2.4E-07 5.2E-12 57.8 4.7 52 7-60 117-173 (174)
131 TIGR00437 feoB ferrous iron tr 98.5 2.1E-07 4.5E-12 68.3 5.0 56 6-62 99-154 (591)
132 TIGR02729 Obg_CgtA Obg family 98.5 3.4E-07 7.4E-12 62.9 5.6 56 6-62 273-328 (329)
133 cd00878 Arf_Arl Arf (ADP-ribos 98.5 8.4E-08 1.8E-12 58.6 2.4 53 6-60 100-157 (158)
134 cd04171 SelB SelB subfamily. 98.4 3.3E-07 7.1E-12 55.9 4.1 53 8-60 106-163 (164)
135 cd01878 HflX HflX subfamily. 98.4 4.2E-07 9.1E-12 58.0 3.7 50 7-61 154-203 (204)
136 cd01894 EngA1 EngA1 subfamily. 98.3 8.5E-07 1.8E-11 53.7 4.4 51 6-61 105-156 (157)
137 cd01881 Obg_like The Obg-like 98.3 4.3E-07 9.4E-12 56.1 3.1 56 6-61 120-175 (176)
138 PRK03003 GTP-binding protein D 98.3 6.3E-07 1.4E-11 64.2 3.9 58 6-63 322-382 (472)
139 TIGR00073 hypB hydrogenase acc 98.3 1.9E-06 4.2E-11 55.4 5.7 53 9-61 151-205 (207)
140 cd01855 YqeH YqeH. YqeH is an 98.3 3.5E-06 7.7E-11 53.3 6.6 56 6-62 61-124 (190)
141 cd01896 DRG The developmentall 98.3 1.8E-06 3.9E-11 56.7 5.4 48 8-62 178-225 (233)
142 PRK12297 obgE GTPase CgtA; Rev 98.3 4.6E-06 1E-10 59.1 7.3 55 6-64 274-328 (424)
143 cd01888 eIF2_gamma eIF2-gamma 98.3 9.9E-07 2.1E-11 56.6 3.4 55 8-62 139-198 (203)
144 cd01895 EngA2 EngA2 subfamily. 98.3 3.8E-06 8.3E-11 51.3 5.9 56 6-61 113-173 (174)
145 PRK15494 era GTPase Era; Provi 98.2 4.1E-06 8.9E-11 57.8 5.8 54 7-63 161-216 (339)
146 cd04155 Arl3 Arl3 subfamily. 98.2 6.3E-06 1.4E-10 50.9 5.8 49 7-60 116-172 (173)
147 TIGR03597 GTPase_YqeH ribosome 98.2 5.8E-06 1.2E-10 57.5 6.1 54 6-60 90-150 (360)
148 TIGR00231 small_GTP small GTP- 98.2 6E-06 1.3E-10 49.3 5.2 52 6-58 108-159 (161)
149 TIGR03594 GTPase_EngA ribosome 98.2 5.6E-06 1.2E-10 58.4 5.7 57 6-63 283-344 (429)
150 cd04164 trmE TrmE (MnmE, ThdF, 98.1 5.7E-06 1.2E-10 49.9 4.3 49 6-61 107-155 (157)
151 cd00882 Ras_like_GTPase Ras-li 98.1 1.1E-05 2.3E-10 47.6 5.3 54 6-59 102-156 (157)
152 cd04159 Arl10_like Arl10-like 98.1 2.7E-06 5.9E-11 51.2 2.7 53 6-60 101-158 (159)
153 PRK00454 engB GTP-binding prot 98.1 7.3E-06 1.6E-10 51.7 4.6 57 6-62 135-193 (196)
154 TIGR00436 era GTP-binding prot 98.1 7.3E-06 1.6E-10 54.8 4.8 56 6-62 107-163 (270)
155 cd01889 SelB_euk SelB subfamil 98.1 5.7E-06 1.2E-10 52.4 4.0 58 6-63 120-186 (192)
156 PRK12296 obgE GTPase CgtA; Rev 98.1 8.2E-06 1.8E-10 58.9 5.2 60 5-65 283-342 (500)
157 cd00881 GTP_translation_factor 98.0 9.9E-06 2.2E-10 50.4 4.7 57 6-62 114-186 (189)
158 TIGR00450 mnmE_trmE_thdF tRNA 98.0 1.3E-05 2.7E-10 57.2 5.5 54 6-66 310-363 (442)
159 cd04163 Era Era subfamily. Er 98.0 1E-05 2.2E-10 48.9 4.4 55 7-61 112-167 (168)
160 PRK00098 GTPase RsgA; Reviewed 98.0 7.9E-06 1.7E-10 55.5 3.9 53 6-59 111-163 (298)
161 TIGR01393 lepA GTP-binding pro 98.0 2E-05 4.4E-10 58.1 6.1 56 6-63 122-180 (595)
162 PRK12289 GTPase RsgA; Reviewed 98.0 1.8E-05 3.9E-10 55.0 5.5 51 6-61 120-173 (352)
163 cd01859 MJ1464 MJ1464. This f 98.0 9.7E-06 2.1E-10 49.7 3.8 56 6-63 41-96 (156)
164 PRK12288 GTPase RsgA; Reviewed 98.0 1.8E-05 3.9E-10 54.8 5.4 55 6-60 150-205 (347)
165 cd04161 Arl2l1_Arl13_like Arl2 98.0 3.4E-06 7.3E-11 52.3 1.4 54 6-59 100-165 (167)
166 PRK00089 era GTPase Era; Revie 97.9 2.2E-05 4.7E-10 52.9 5.1 57 7-63 114-171 (292)
167 cd01887 IF2_eIF5B IF2/eIF5B (i 97.9 2.1E-05 4.5E-10 48.2 4.7 57 6-62 102-165 (168)
168 PRK12298 obgE GTPase CgtA; Rev 97.9 3.4E-05 7.4E-10 54.3 6.2 58 6-64 275-334 (390)
169 PRK05291 trmE tRNA modificatio 97.9 1.7E-05 3.7E-10 56.7 4.5 51 6-64 321-371 (449)
170 cd00880 Era_like Era (E. coli 97.9 1.4E-05 3.1E-10 47.7 3.5 55 7-61 105-162 (163)
171 PRK13796 GTPase YqeH; Provisio 97.9 3.9E-05 8.4E-10 53.5 6.0 55 6-61 96-157 (365)
172 PRK03003 GTP-binding protein D 97.9 2.4E-05 5.2E-10 56.2 4.6 55 6-64 146-200 (472)
173 TIGR00475 selB selenocysteine- 97.9 2.3E-05 4.9E-10 57.7 4.5 58 6-63 102-166 (581)
174 smart00178 SAR Sar1p-like memb 97.9 3.4E-05 7.3E-10 48.6 4.7 54 6-61 118-183 (184)
175 cd01854 YjeQ_engC YjeQ/EngC. 97.8 2.8E-05 6E-10 52.6 4.4 53 6-60 109-161 (287)
176 KOG3883|consensus 97.8 2.7E-05 5.8E-10 48.3 3.6 56 10-65 122-177 (198)
177 PRK04000 translation initiatio 97.8 2.6E-05 5.7E-10 55.1 4.0 55 8-62 141-200 (411)
178 PRK00093 GTP-binding protein D 97.8 3.7E-05 8E-10 54.4 4.1 57 6-63 284-344 (435)
179 TIGR03156 GTP_HflX GTP-binding 97.8 3.3E-05 7.1E-10 53.7 3.7 49 7-61 302-350 (351)
180 COG0378 HypB Ni2+-binding GTPa 97.8 7.3E-05 1.6E-09 47.9 5.0 50 11-60 147-198 (202)
181 COG1100 GTPase SAR1 and relate 97.7 0.00016 3.4E-09 46.4 6.6 62 7-68 112-190 (219)
182 TIGR00487 IF-2 translation ini 97.7 0.00011 2.3E-09 54.3 6.1 52 6-60 187-247 (587)
183 KOG1673|consensus 97.7 3.7E-05 8E-10 47.8 2.7 40 26-65 149-188 (205)
184 TIGR03680 eif2g_arch translati 97.6 6E-05 1.3E-09 53.2 3.7 54 9-62 137-195 (406)
185 PF02421 FeoB_N: Ferrous iron 97.6 1.9E-05 4.1E-10 49.0 1.0 52 6-58 105-156 (156)
186 cd01876 YihA_EngB The YihA (En 97.6 6.6E-05 1.4E-09 45.5 3.2 56 6-61 110-169 (170)
187 PRK11058 GTPase HflX; Provisio 97.6 0.00014 3.1E-09 51.7 5.1 53 7-64 310-363 (426)
188 PRK09554 feoB ferrous iron tra 97.6 0.00017 3.7E-09 54.7 5.8 55 6-61 112-166 (772)
189 PRK05433 GTP-binding protein L 97.6 0.00023 5E-09 52.6 6.3 57 6-64 126-185 (600)
190 PF00025 Arf: ADP-ribosylation 97.5 0.00036 7.8E-09 43.7 5.9 55 6-62 115-175 (175)
191 TIGR03594 GTPase_EngA ribosome 97.5 0.00027 5.9E-09 49.9 5.4 53 6-63 107-160 (429)
192 PRK10512 selenocysteinyl-tRNA- 97.5 0.00019 4E-09 53.3 4.5 52 10-61 108-164 (614)
193 cd01891 TypA_BipA TypA (tyrosi 97.5 7.5E-05 1.6E-09 47.3 2.2 49 6-54 117-173 (194)
194 PRK00093 GTP-binding protein D 97.5 0.00028 6E-09 50.0 5.0 50 6-60 109-159 (435)
195 PF10662 PduV-EutP: Ethanolami 97.5 0.00058 1.3E-08 41.8 5.7 46 12-58 95-141 (143)
196 PRK09518 bifunctional cytidyla 97.4 0.00026 5.7E-09 53.3 5.0 57 6-64 561-622 (712)
197 COG0481 LepA Membrane GTPase L 97.4 0.00034 7.3E-09 50.4 5.2 55 7-63 129-186 (603)
198 PRK10463 hydrogenase nickel in 97.4 0.00043 9.3E-09 47.0 5.4 51 10-60 234-286 (290)
199 TIGR00483 EF-1_alpha translati 97.4 0.00013 2.7E-09 51.8 2.5 49 8-56 143-200 (426)
200 PRK05306 infB translation init 97.4 0.00029 6.3E-09 53.6 4.5 55 6-60 389-449 (787)
201 cd01849 YlqF_related_GTPase Yl 97.4 0.00054 1.2E-08 42.0 4.9 57 6-63 29-85 (155)
202 KOG0462|consensus 97.3 0.00023 4.9E-09 51.9 3.5 58 6-63 177-235 (650)
203 cd01856 YlqF YlqF. Proteins o 97.3 0.00051 1.1E-08 42.8 4.5 55 6-62 46-100 (171)
204 PRK09518 bifunctional cytidyla 97.3 0.0006 1.3E-08 51.4 5.4 54 6-64 383-437 (712)
205 TIGR03598 GTPase_YsxC ribosome 97.3 0.00018 3.9E-09 45.0 2.1 47 6-52 129-179 (179)
206 PF00009 GTP_EFTU: Elongation 97.3 0.00046 9.9E-09 43.6 3.9 57 6-62 122-186 (188)
207 CHL00189 infB translation init 97.3 0.00096 2.1E-08 50.5 6.0 53 6-61 347-408 (742)
208 KOG0073|consensus 97.1 0.0026 5.6E-08 39.9 6.1 61 2-64 113-179 (185)
209 COG1162 Predicted GTPases [Gen 97.1 0.0013 2.8E-08 44.9 5.1 56 6-61 110-165 (301)
210 cd01858 NGP_1 NGP-1. Autoanti 97.0 0.00094 2E-08 41.0 3.7 49 7-60 40-92 (157)
211 KOG0096|consensus 96.9 0.00025 5.4E-09 45.3 0.3 56 8-65 116-171 (216)
212 TIGR03596 GTPase_YlqF ribosome 96.8 0.0032 7E-08 42.3 5.2 54 6-64 48-104 (276)
213 PRK12317 elongation factor 1-a 96.8 0.00082 1.8E-08 47.7 2.1 48 9-56 142-198 (425)
214 PRK01889 GTPase RsgA; Reviewed 96.8 0.0021 4.5E-08 44.9 3.8 51 6-59 142-193 (356)
215 COG4917 EutP Ethanolamine util 96.8 0.0066 1.4E-07 36.6 5.4 46 13-60 97-143 (148)
216 cd04102 RabL3 RabL3 (Rab-like3 96.7 0.0023 5.1E-08 41.2 3.8 43 7-49 130-176 (202)
217 cd04165 GTPBP1_like GTPBP1-lik 96.7 0.0047 1E-07 40.4 4.9 22 38-59 198-219 (224)
218 PRK09435 membrane ATPase/prote 96.7 0.0057 1.2E-07 42.4 5.5 52 10-62 198-259 (332)
219 COG1160 Predicted GTPases [Gen 96.6 0.0088 1.9E-07 42.8 6.3 56 6-61 289-349 (444)
220 KOG3905|consensus 96.6 0.0077 1.7E-07 41.9 5.4 61 6-66 222-293 (473)
221 cd01857 HSR1_MMR1 HSR1/MMR1. 96.6 0.0031 6.7E-08 38.1 3.2 43 6-50 42-84 (141)
222 PTZ00327 eukaryotic translatio 96.6 0.003 6.4E-08 45.6 3.5 54 9-62 174-232 (460)
223 TIGR00750 lao LAO/AO transport 96.5 0.0026 5.6E-08 43.3 3.0 53 9-61 175-236 (300)
224 PRK09563 rbgA GTPase YlqF; Rev 96.5 0.0097 2.1E-07 40.3 5.7 57 6-64 51-107 (287)
225 cd04166 CysN_ATPS CysN_ATPS su 96.5 0.0028 6.2E-08 40.7 2.8 46 9-54 133-185 (208)
226 TIGR01394 TypA_BipA GTP-bindin 96.4 0.005 1.1E-07 45.7 4.2 58 6-63 116-191 (594)
227 PRK09866 hypothetical protein; 96.4 0.018 3.9E-07 43.4 6.9 53 8-60 291-350 (741)
228 COG0536 Obg Predicted GTPase [ 96.4 0.0095 2.1E-07 41.4 4.9 61 5-66 274-336 (369)
229 KOG1707|consensus 96.3 0.0019 4E-08 47.5 1.2 59 6-64 115-176 (625)
230 COG0370 FeoB Fe2+ transport sy 96.2 0.0046 1E-07 46.1 2.8 55 6-61 108-162 (653)
231 PRK13768 GTPase; Provisional 96.2 0.012 2.6E-07 39.2 4.5 25 38-62 222-246 (253)
232 COG0486 ThdF Predicted GTPase 96.1 0.013 2.9E-07 42.0 4.8 55 6-65 324-378 (454)
233 PLN00023 GTP-binding protein; 96.0 0.0093 2E-07 41.3 3.4 32 7-38 152-189 (334)
234 COG0532 InfB Translation initi 95.9 0.033 7.1E-07 40.7 6.1 52 6-60 107-167 (509)
235 KOG0072|consensus 95.8 0.004 8.7E-08 38.4 1.1 59 3-63 116-179 (182)
236 TIGR00491 aIF-2 translation in 95.7 0.0044 9.6E-08 46.0 1.1 43 6-58 121-163 (590)
237 COG1159 Era GTPase [General fu 95.7 0.029 6.2E-07 38.3 4.8 57 7-63 115-172 (298)
238 cd01883 EF1_alpha Eukaryotic e 95.7 0.0045 9.7E-08 40.1 0.9 45 8-52 139-194 (219)
239 PLN00043 elongation factor 1-a 95.6 0.016 3.4E-07 41.7 3.6 44 9-53 148-203 (447)
240 KOG1489|consensus 95.6 0.03 6.4E-07 38.8 4.7 51 6-59 312-363 (366)
241 smart00010 small_GTPase Small 95.6 0.0054 1.2E-07 35.4 1.1 42 3-52 70-115 (124)
242 PRK14845 translation initiatio 95.6 0.043 9.2E-07 43.4 6.0 23 38-60 648-670 (1049)
243 COG5257 GCD11 Translation init 95.5 0.029 6.3E-07 39.1 4.3 58 7-64 141-203 (415)
244 COG2262 HflX GTPases [General 95.3 0.043 9.3E-07 39.0 4.8 53 8-65 306-358 (411)
245 PRK12736 elongation factor Tu; 95.0 0.051 1.1E-06 38.4 4.6 40 10-49 132-179 (394)
246 PRK04004 translation initiatio 95.0 0.018 3.9E-07 42.8 2.3 50 6-65 123-172 (586)
247 PRK05124 cysN sulfate adenylyl 94.5 0.032 6.9E-07 40.5 2.5 47 8-54 162-216 (474)
248 COG1703 ArgK Putative periplas 94.3 0.077 1.7E-06 36.5 3.8 26 37-62 228-253 (323)
249 TIGR00485 EF-Tu translation el 94.2 0.074 1.6E-06 37.6 3.7 39 11-49 133-179 (394)
250 COG1163 DRG Predicted GTPase [ 94.2 0.18 3.9E-06 35.1 5.4 47 9-62 242-288 (365)
251 cd01884 EF_Tu EF-Tu subfamily. 93.9 0.18 3.8E-06 32.3 4.8 44 9-52 121-172 (195)
252 PF03308 ArgK: ArgK protein; 93.7 0.037 8E-07 37.2 1.4 24 38-61 205-228 (266)
253 KOG0076|consensus 93.7 0.051 1.1E-06 34.6 1.9 64 2-65 122-189 (197)
254 TIGR02034 CysN sulfate adenyly 93.6 0.076 1.6E-06 37.7 2.9 46 9-54 136-188 (406)
255 KOG1490|consensus 93.4 0.26 5.7E-06 36.3 5.4 58 8-65 283-343 (620)
256 PRK12735 elongation factor Tu; 93.1 0.19 4.1E-06 35.6 4.2 40 11-50 133-180 (396)
257 cd01899 Ygr210 Ygr210 subfamil 92.3 0.13 2.9E-06 35.5 2.6 53 6-62 214-268 (318)
258 COG3276 SelB Selenocysteine-sp 92.1 0.24 5.1E-06 35.7 3.6 52 10-62 107-161 (447)
259 PF05783 DLIC: Dynein light in 92.0 0.66 1.4E-05 33.9 5.8 61 6-66 196-267 (472)
260 KOG0705|consensus 91.9 0.74 1.6E-05 34.5 6.0 49 20-68 145-194 (749)
261 PRK10218 GTP-binding protein; 91.9 0.45 9.9E-06 35.7 5.1 58 6-63 120-195 (607)
262 COG1160 Predicted GTPases [Gen 91.7 0.42 9.2E-06 34.5 4.6 51 7-62 113-164 (444)
263 PRK05506 bifunctional sulfate 91.6 0.18 3.9E-06 37.9 2.7 46 8-53 159-211 (632)
264 COG2895 CysN GTPases - Sulfate 90.6 0.27 5.8E-06 34.8 2.6 46 9-54 142-194 (431)
265 cd04104 p47_IIGP_like p47 (47- 90.5 0.98 2.1E-05 28.7 5.1 29 39-67 158-188 (197)
266 PRK09602 translation-associate 88.7 0.57 1.2E-05 33.4 3.2 45 6-54 217-261 (396)
267 KOG0070|consensus 88.5 0.77 1.7E-05 29.3 3.3 56 6-63 118-178 (181)
268 KOG1145|consensus 88.1 3.2 6.9E-05 31.3 6.7 50 9-61 256-314 (683)
269 KOG0075|consensus 87.4 0.37 8E-06 30.1 1.4 50 6-60 122-179 (186)
270 PF03193 DUF258: Protein of un 87.3 2.2 4.7E-05 26.7 4.8 31 29-59 4-34 (161)
271 KOG0461|consensus 85.8 1.5 3.2E-05 31.3 3.8 58 7-64 123-194 (522)
272 COG2229 Predicted GTPase [Gene 85.6 3.6 7.9E-05 26.4 5.2 48 11-60 126-175 (187)
273 KOG0466|consensus 85.3 0.92 2E-05 31.8 2.6 58 7-64 180-242 (466)
274 COG0218 Predicted GTPase [Gene 85.2 2.2 4.7E-05 27.7 4.2 57 6-63 135-197 (200)
275 CHL00071 tufA elongation facto 84.6 0.85 1.8E-05 32.5 2.3 43 9-51 131-181 (409)
276 PTZ00141 elongation factor 1- 84.0 1.6 3.5E-05 31.6 3.5 45 9-53 148-203 (446)
277 TIGR00491 aIF-2 translation in 83.4 1.7 3.8E-05 32.6 3.5 23 38-60 191-213 (590)
278 PF03029 ATP_bind_1: Conserved 81.6 0.43 9.3E-06 31.6 -0.1 22 39-60 213-234 (238)
279 PF07764 Omega_Repress: Omega 81.3 1.8 3.8E-05 22.7 2.1 23 43-65 43-65 (71)
280 KOG1423|consensus 81.2 2.2 4.8E-05 29.9 3.2 23 40-62 248-270 (379)
281 COG1161 Predicted GTPases [Gen 80.1 3.3 7.2E-05 28.7 3.8 47 8-55 63-109 (322)
282 PRK00049 elongation factor Tu; 79.8 5.2 0.00011 28.5 4.8 40 11-50 133-180 (396)
283 cd00066 G-alpha G protein alph 77.1 5.3 0.00011 27.5 4.1 63 4-66 226-314 (317)
284 cd04178 Nucleostemin_like Nucl 76.0 4.4 9.5E-05 25.4 3.2 15 6-20 30-44 (172)
285 PRK04004 translation initiatio 75.8 3.9 8.4E-05 30.8 3.3 23 38-60 193-215 (586)
286 PLN03127 Elongation factor Tu; 75.3 6.4 0.00014 28.6 4.3 51 10-60 181-249 (447)
287 KOG1707|consensus 73.7 5.2 0.00011 30.2 3.5 59 6-65 526-585 (625)
288 COG4359 Uncharacterized conser 73.6 8.1 0.00017 25.1 3.9 34 26-59 78-111 (220)
289 KOG4271|consensus 73.3 4.3 9.4E-05 32.2 3.1 29 37-65 3-31 (1100)
290 PLN03126 Elongation factor Tu; 72.7 4.5 9.8E-05 29.7 3.0 43 9-51 200-250 (478)
291 cd04167 Snu114p Snu114p subfam 71.9 3.4 7.3E-05 26.5 2.0 14 6-19 123-136 (213)
292 KOG1424|consensus 71.1 7.1 0.00015 29.1 3.6 36 7-47 206-244 (562)
293 COG1084 Predicted GTPase [Gene 68.8 7.7 0.00017 27.3 3.3 56 7-64 281-337 (346)
294 cd01850 CDC_Septin CDC/Septin. 68.7 3.9 8.5E-05 27.6 1.9 39 7-45 144-184 (276)
295 KOG2485|consensus 68.6 7.1 0.00015 27.3 3.1 55 8-63 75-131 (335)
296 cd04170 EF-G_bact Elongation f 68.3 7.3 0.00016 25.9 3.1 24 38-61 241-264 (268)
297 COG5256 TEF1 Translation elong 66.5 8.5 0.00018 27.9 3.2 47 9-55 148-203 (428)
298 PF04800 ETC_C1_NDUFA4: ETC co 65.2 8.3 0.00018 22.3 2.5 23 24-46 56-78 (101)
299 KOG4273|consensus 65.2 14 0.0003 25.4 3.9 35 27-61 174-220 (418)
300 KOG0082|consensus 64.9 33 0.00072 24.4 5.8 62 5-66 261-347 (354)
301 KOG1532|consensus 64.3 17 0.00037 25.3 4.2 26 37-62 238-263 (366)
302 cd01885 EF2 EF2 (for archaea a 63.1 8.6 0.00019 25.2 2.6 25 6-30 125-150 (222)
303 COG1908 FrhD Coenzyme F420-red 62.5 21 0.00045 21.5 3.8 36 29-64 83-123 (132)
304 PF04670 Gtr1_RagA: Gtr1/RagA 61.6 6.4 0.00014 26.1 1.8 57 6-63 111-176 (232)
305 smart00275 G_alpha G protein a 61.5 38 0.00083 23.7 5.7 64 3-66 248-337 (342)
306 PRK12740 elongation factor G; 58.3 9.8 0.00021 28.9 2.5 28 38-65 237-264 (668)
307 COG0523 Putative GTPases (G3E 57.8 26 0.00057 24.5 4.3 34 10-45 149-184 (323)
308 KOG1191|consensus 56.5 11 0.00024 28.0 2.4 57 7-64 390-451 (531)
309 PF15260 FAM219A: Protein fami 55.8 20 0.00044 21.5 3.0 39 53-96 76-114 (125)
310 PF05198 IF3_N: Translation in 55.3 20 0.00043 19.5 2.8 29 23-51 27-55 (76)
311 COG1217 TypA Predicted membran 54.4 50 0.0011 24.8 5.3 59 5-63 119-195 (603)
312 COG3545 Predicted esterase of 54.1 21 0.00045 22.9 3.1 46 10-59 121-166 (181)
313 PHA02436 hypothetical protein 52.4 16 0.00035 17.9 1.9 17 48-64 17-33 (52)
314 cd04168 TetM_like Tet(M)-like 52.4 18 0.0004 23.8 2.8 25 38-62 210-234 (237)
315 cd01886 EF-G Elongation factor 51.1 18 0.00039 24.4 2.6 24 38-61 243-266 (270)
316 PF12651 RHH_3: Ribbon-helix-h 50.9 15 0.00032 17.7 1.7 24 43-66 20-43 (44)
317 KOG2484|consensus 50.5 11 0.00024 27.3 1.6 25 7-36 178-202 (435)
318 PF06821 Ser_hydrolase: Serine 50.3 39 0.00084 21.1 3.9 41 11-55 119-159 (171)
319 PTZ00258 GTP-binding protein; 47.5 22 0.00047 25.6 2.7 44 6-49 220-266 (390)
320 cd01422 MGS Methylglyoxal synt 46.5 40 0.00086 19.6 3.3 40 5-44 67-108 (115)
321 PRK13351 elongation factor G; 45.6 21 0.00045 27.4 2.5 28 38-65 253-280 (687)
322 cd04169 RF3 RF3 subfamily. Pe 45.4 24 0.00052 23.7 2.6 24 38-61 240-263 (267)
323 TIGR00503 prfC peptide chain r 44.5 26 0.00056 26.2 2.8 27 38-64 250-276 (527)
324 COG0703 AroK Shikimate kinase 43.5 32 0.00069 21.9 2.7 43 26-68 16-62 (172)
325 PRK00741 prfC peptide chain re 43.3 29 0.00064 25.9 2.9 27 38-64 249-275 (526)
326 PF08438 MMR_HSR1_C: GTPase of 42.8 40 0.00088 19.7 2.9 31 12-46 1-32 (109)
327 PF12683 DUF3798: Protein of u 42.0 1E+02 0.0023 21.2 5.1 39 27-65 153-194 (275)
328 COG0012 Predicted GTPase, prob 40.8 44 0.00095 24.0 3.3 40 6-46 206-247 (372)
329 PF11572 DUF3234: Protein of u 40.6 34 0.00075 19.5 2.3 39 24-62 34-72 (103)
330 KOG0458|consensus 38.9 43 0.00092 25.6 3.1 46 9-54 318-373 (603)
331 PRK13505 formate--tetrahydrofo 38.9 1.4E+02 0.0031 22.7 5.8 55 6-62 372-428 (557)
332 KOG0733|consensus 38.4 26 0.00057 27.1 2.0 34 26-59 237-279 (802)
333 PF08088 Toxin_19: Conotoxin I 38.3 11 0.00025 17.8 0.1 8 93-100 16-23 (40)
334 PF10087 DUF2325: Uncharacteri 35.1 79 0.0017 17.6 3.3 19 26-44 64-82 (97)
335 cd01882 BMS1 Bms1. Bms1 is an 35.1 50 0.0011 21.4 2.8 41 11-51 138-184 (225)
336 KOG1486|consensus 34.4 1.1E+02 0.0024 21.3 4.3 46 10-62 242-287 (364)
337 PF14331 ImcF-related_N: ImcF- 34.3 32 0.00069 23.2 1.8 57 6-65 69-133 (266)
338 PRK05773 3,4-dihydroxy-2-butan 34.2 54 0.0012 21.7 2.8 22 22-43 189-210 (219)
339 COG0290 InfC Translation initi 33.9 59 0.0013 20.8 2.8 33 22-54 32-64 (176)
340 PRK10416 signal recognition pa 32.7 94 0.002 21.6 3.9 39 10-54 263-301 (318)
341 KOG0090|consensus 31.3 54 0.0012 21.9 2.4 22 37-59 214-235 (238)
342 TIGR00269 conserved hypothetic 31.2 1.1E+02 0.0023 17.5 3.6 24 23-46 9-32 (104)
343 cd04105 SR_beta Signal recogni 31.2 53 0.0011 20.9 2.4 15 6-20 109-123 (203)
344 cd00532 MGS-like MGS-like doma 30.7 96 0.0021 17.7 3.3 37 7-43 67-105 (112)
345 KOG4102|consensus 30.6 24 0.00051 21.0 0.6 8 91-100 60-67 (121)
346 TIGR00064 ftsY signal recognit 30.3 1.2E+02 0.0025 20.6 4.0 39 10-54 221-259 (272)
347 smart00851 MGS MGS-like domain 30.3 84 0.0018 17.1 2.9 12 29-40 77-88 (90)
348 cd03110 Fer4_NifH_child This p 30.1 1.3E+02 0.0028 18.4 4.0 13 28-40 162-174 (179)
349 PRK09601 GTP-binding protein Y 29.7 79 0.0017 22.6 3.2 42 6-47 199-241 (364)
350 PF13263 PHP_C: PHP-associated 28.5 82 0.0018 15.7 2.4 20 26-45 4-23 (56)
351 TIGR00484 EF-G translation elo 28.5 55 0.0012 25.2 2.4 28 38-65 254-281 (689)
352 PF14174 YycC: YycC-like prote 28.3 82 0.0018 15.8 2.2 18 22-39 4-21 (53)
353 PF06446 Hepcidin: Hepcidin; 28.1 24 0.00052 18.2 0.3 8 93-100 40-47 (57)
354 TIGR02836 spore_IV_A stage IV 28.1 1.6E+02 0.0034 22.1 4.4 52 6-59 180-233 (492)
355 PRK00007 elongation factor G; 28.0 59 0.0013 25.1 2.5 28 38-65 255-282 (693)
356 KOG0369|consensus 27.7 3E+02 0.0065 22.1 6.0 43 22-64 169-222 (1176)
357 KOG2423|consensus 27.6 1.1E+02 0.0024 22.7 3.6 35 9-44 247-281 (572)
358 KOG0071|consensus 27.3 1.7E+02 0.0036 18.5 3.9 47 12-60 124-175 (180)
359 COG0050 TufB GTPases - transla 26.6 87 0.0019 22.2 2.9 44 5-48 126-178 (394)
360 cd01424 MGS_CPS_II Methylglyox 26.1 1.3E+02 0.0029 16.9 3.5 35 6-41 65-99 (110)
361 CHL00199 infC translation init 25.7 1.9E+02 0.0042 18.6 4.9 33 22-54 38-70 (182)
362 TIGR02432 lysidine_TilS_N tRNA 25.3 1.4E+02 0.003 18.5 3.5 27 22-48 149-175 (189)
363 PF07491 PPI_Ypi1: Protein pho 25.2 38 0.00082 17.7 0.7 8 91-100 34-41 (60)
364 cd07201 cPLA2_Grp-IVB-IVD-IVE- 24.9 1.1E+02 0.0024 23.2 3.3 48 6-53 393-442 (541)
365 PF02677 DUF208: Uncharacteriz 23.9 99 0.0021 19.8 2.6 38 25-63 92-131 (176)
366 PRK00945 acetyl-CoA decarbonyl 23.9 1.8E+02 0.0039 18.5 3.7 40 5-45 32-71 (171)
367 PF07905 PucR: Purine cataboli 23.8 1.6E+02 0.0035 17.1 4.9 34 23-59 86-119 (123)
368 COG4623 Predicted soluble lyti 23.8 1.5E+02 0.0033 21.8 3.7 38 19-59 41-78 (473)
369 COG3623 SgaU Putative L-xylulo 23.6 1.3E+02 0.0028 20.5 3.2 24 22-45 16-39 (287)
370 PF08103 Antimicrobial_8: Uper 23.5 63 0.0014 12.3 2.2 14 50-63 1-14 (17)
371 PF01171 ATP_bind_3: PP-loop f 23.5 44 0.00096 20.8 1.0 23 23-45 146-168 (182)
372 PF00205 TPP_enzyme_M: Thiamin 23.2 1.3E+02 0.0029 17.6 3.0 22 24-45 26-47 (137)
373 PRK14974 cell division protein 23.0 1.7E+02 0.0037 20.6 3.8 39 11-55 284-322 (336)
374 cd01993 Alpha_ANH_like_II This 23.0 78 0.0017 19.4 2.0 23 23-45 157-179 (185)
375 PRK00407 hypothetical protein; 22.8 1E+02 0.0022 18.7 2.5 20 47-66 18-37 (139)
376 PRK05234 mgsA methylglyoxal sy 22.6 1.6E+02 0.0035 17.9 3.3 37 6-42 73-111 (142)
377 TIGR03884 sel_bind_Methan sele 22.5 1.5E+02 0.0032 16.2 3.1 26 39-64 15-40 (74)
378 COG0108 RibB 3,4-dihydroxy-2-b 22.3 2.2E+02 0.0048 18.7 4.0 23 20-42 168-190 (203)
379 PRK11537 putative GTP-binding 22.2 1.4E+02 0.0031 20.7 3.3 41 10-55 154-196 (318)
380 PF02142 MGS: MGS-like domain 22.2 15 0.00033 20.5 -1.2 37 5-41 57-94 (95)
381 COG2379 GckA Putative glycerat 21.9 2.7E+02 0.0059 20.4 4.7 44 22-65 256-302 (422)
382 PF00926 DHBP_synthase: 3,4-di 21.6 1E+02 0.0022 20.0 2.4 24 21-44 165-188 (194)
383 PF07945 Toxin_16: Janus-atrac 21.5 33 0.00071 15.4 0.1 6 94-99 12-17 (36)
384 TIGR00506 ribB 3,4-dihydroxy-2 21.4 1.3E+02 0.0029 19.6 2.9 23 21-43 170-192 (199)
385 COG5258 GTPBP1 GTPase [General 21.0 1.2E+02 0.0027 22.4 2.8 18 38-55 314-331 (527)
386 PF11111 CENP-M: Centromere pr 20.7 2.5E+02 0.0053 18.1 6.1 44 19-66 109-152 (176)
387 TIGR03436 acidobact_VWFA VWFA- 20.4 2.7E+02 0.0059 18.7 4.4 41 25-68 220-260 (296)
388 PF14043 WVELL: WVELL protein 20.0 71 0.0015 17.4 1.2 48 21-68 15-64 (75)
No 1
>KOG0078|consensus
Probab=99.81 E-value=2.2e-19 Score=114.05 Aligned_cols=63 Identities=48% Similarity=0.651 Sum_probs=57.8
Q ss_pred cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHHHHhh
Q psy17493 6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQTEK 68 (101)
Q Consensus 6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~~~~~ 68 (101)
+....|||||+|++++|+|+.++++++|.++|+.|+|||||+|.||+++|..+|+.++.+...
T Consensus 117 ~v~~~LvGNK~D~~~~R~V~~e~ge~lA~e~G~~F~EtSAk~~~NI~eaF~~La~~i~~k~~~ 179 (207)
T KOG0078|consen 117 DVVKILVGNKCDLEEKRQVSKERGEALAREYGIKFFETSAKTNFNIEEAFLSLARDILQKLED 179 (207)
T ss_pred CCcEEEeeccccccccccccHHHHHHHHHHhCCeEEEccccCCCCHHHHHHHHHHHHHhhcch
Confidence 445678999999999999999999999999999999999999999999999999999975433
No 2
>KOG0092|consensus
Probab=99.80 E-value=1.1e-19 Score=113.94 Aligned_cols=60 Identities=23% Similarity=0.274 Sum_probs=55.3
Q ss_pred CcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHHHHhh
Q psy17493 9 SKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQTEK 68 (101)
Q Consensus 9 ~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~~~~~ 68 (101)
+.|+|||.||.+.|+|..+++..||+..|+.|||||||||.||+++|..|++.+......
T Consensus 113 ialvGNK~DL~~~R~V~~~ea~~yAe~~gll~~ETSAKTg~Nv~~if~~Ia~~lp~~~~~ 172 (200)
T KOG0092|consen 113 IALVGNKADLLERREVEFEEAQAYAESQGLLFFETSAKTGENVNEIFQAIAEKLPCSDPQ 172 (200)
T ss_pred EEEecchhhhhhcccccHHHHHHHHHhcCCEEEEEecccccCHHHHHHHHHHhccCcccc
Confidence 356899999999999999999999999999999999999999999999999999875443
No 3
>KOG0091|consensus
Probab=99.77 E-value=1.8e-18 Score=106.54 Aligned_cols=61 Identities=38% Similarity=0.428 Sum_probs=56.4
Q ss_pred cEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHHHHhhhh
Q psy17493 10 KYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQTEKKL 70 (101)
Q Consensus 10 ~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~~~~~~~ 70 (101)
-|||.|+||...|+|+.++|+.||+.+|+.|+|||||+|.||+++|..+++.++...++..
T Consensus 120 lLVGhKsDL~SqRqVt~EEaEklAa~hgM~FVETSak~g~NVeEAF~mlaqeIf~~i~qGe 180 (213)
T KOG0091|consen 120 LLVGHKSDLQSQRQVTAEEAEKLAASHGMAFVETSAKNGCNVEEAFDMLAQEIFQAIQQGE 180 (213)
T ss_pred EEeccccchhhhccccHHHHHHHHHhcCceEEEecccCCCcHHHHHHHHHHHHHHHHhcCc
Confidence 3678899999999999999999999999999999999999999999999999998776643
No 4
>KOG0098|consensus
Probab=99.77 E-value=9.5e-19 Score=109.56 Aligned_cols=64 Identities=36% Similarity=0.452 Sum_probs=58.5
Q ss_pred CCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHHHHhhhh
Q psy17493 7 TKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQTEKKL 70 (101)
Q Consensus 7 ~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~~~~~~~ 70 (101)
..+.|+|||+||+..|.|+.+++++||+++|+.|+||||||+.||+++|...+..|++..+...
T Consensus 112 mvImLiGNKsDL~~rR~Vs~EEGeaFA~ehgLifmETSakt~~~VEEaF~nta~~Iy~~~q~g~ 175 (216)
T KOG0098|consen 112 MVIMLIGNKSDLEARREVSKEEGEAFAREHGLIFMETSAKTAENVEEAFINTAKEIYRKIQDGV 175 (216)
T ss_pred cEEEEEcchhhhhccccccHHHHHHHHHHcCceeehhhhhhhhhHHHHHHHHHHHHHHHHHhcc
Confidence 3457889999999999999999999999999999999999999999999999999998765543
No 5
>KOG0084|consensus
Probab=99.75 E-value=6.9e-18 Score=106.29 Aligned_cols=64 Identities=38% Similarity=0.494 Sum_probs=58.2
Q ss_pred CCcEEeecCCCCCCCCCCHHHHHHHHHHhCCe-EEEeccCCCCCHHHHHHHHHHHHHHHHhhhhh
Q psy17493 8 KSKYIEVPNFVSSMPQVSRERGEQLAIEYGIK-FMETSAKNSINVEDAFFTLARDIKAQTEKKLE 71 (101)
Q Consensus 8 ~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~-~~etSAk~~~~V~~~F~~~~~~i~~~~~~~~~ 71 (101)
...|||||+|+.+.+.|+.++|+.||.+++++ |+|||||++.||+++|..++..+..++.....
T Consensus 116 ~~lLVGNK~Dl~~~~~v~~~~a~~fa~~~~~~~f~ETSAK~~~NVe~~F~~la~~lk~~~~~~~~ 180 (205)
T KOG0084|consen 116 PKLLVGNKCDLTEKRVVSTEEAQEFADELGIPIFLETSAKDSTNVEDAFLTLAKELKQRKGLHVK 180 (205)
T ss_pred CeEEEeeccccHhheecCHHHHHHHHHhcCCcceeecccCCccCHHHHHHHHHHHHHHhcccCCC
Confidence 45789999999999999999999999999999 99999999999999999999999887655443
No 6
>KOG0394|consensus
Probab=99.74 E-value=9.4e-18 Score=104.89 Aligned_cols=59 Identities=31% Similarity=0.381 Sum_probs=53.2
Q ss_pred cEEeecCCCCC--CCCCCHHHHHHHHHHhC-CeEEEeccCCCCCHHHHHHHHHHHHHHHHhh
Q psy17493 10 KYIEVPNFVSS--MPQVSRERGEQLAIEYG-IKFMETSAKNSINVEDAFFTLARDIKAQTEK 68 (101)
Q Consensus 10 ~lv~nk~Dl~~--~~~v~~~~~~~~a~~~~-~~~~etSAk~~~~V~~~F~~~~~~i~~~~~~ 68 (101)
.|+|||+|+++ .|+|+...|++||...| ++|||||||.+.||+++|+.+++.++.....
T Consensus 122 VilGNKiD~~~~~~r~VS~~~Aq~WC~s~gnipyfEtSAK~~~NV~~AFe~ia~~aL~~E~~ 183 (210)
T KOG0394|consen 122 VILGNKIDVDGGKSRQVSEKKAQTWCKSKGNIPYFETSAKEATNVDEAFEEIARRALANEDR 183 (210)
T ss_pred EEEcccccCCCCccceeeHHHHHHHHHhcCCceeEEecccccccHHHHHHHHHHHHHhccch
Confidence 46799999975 39999999999999987 8999999999999999999999999987643
No 7
>KOG0080|consensus
Probab=99.72 E-value=1.6e-17 Score=102.12 Aligned_cols=59 Identities=27% Similarity=0.194 Sum_probs=54.8
Q ss_pred cEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHHHHhh
Q psy17493 10 KYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQTEK 68 (101)
Q Consensus 10 ~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~~~~~ 68 (101)
.+||||+|.+.+|.|+.+++..||+.|++.|+|+|||+..||+..|++++..|++...-
T Consensus 121 mlVgNKiDkes~R~V~reEG~kfAr~h~~LFiE~SAkt~~~V~~~FeelveKIi~tp~l 179 (209)
T KOG0080|consen 121 MLVGNKIDKESERVVDREEGLKFARKHRCLFIECSAKTRENVQCCFEELVEKIIETPSL 179 (209)
T ss_pred hhhcccccchhcccccHHHHHHHHHhhCcEEEEcchhhhccHHHHHHHHHHHHhcCcch
Confidence 57899999988999999999999999999999999999999999999999999876443
No 8
>KOG0097|consensus
Probab=99.71 E-value=3.7e-17 Score=98.98 Aligned_cols=65 Identities=32% Similarity=0.344 Sum_probs=59.3
Q ss_pred CCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHHHHhhhhh
Q psy17493 7 TKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQTEKKLE 71 (101)
Q Consensus 7 ~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~~~~~~~~ 71 (101)
+-+.|+|||.||+++|.|+++++.+||+++|+.|+|+|||+|.||+++|.+.++.|++..+....
T Consensus 117 t~i~lignkadle~qrdv~yeeak~faeengl~fle~saktg~nvedafle~akkiyqniqdgsl 181 (215)
T KOG0097|consen 117 TVIFLIGNKADLESQRDVTYEEAKEFAEENGLMFLEASAKTGQNVEDAFLETAKKIYQNIQDGSL 181 (215)
T ss_pred eEEEEecchhhhhhcccCcHHHHHHHHhhcCeEEEEecccccCcHHHHHHHHHHHHHHhhhcCcc
Confidence 44678999999999999999999999999999999999999999999999999999987765443
No 9
>KOG0081|consensus
Probab=99.71 E-value=4.3e-17 Score=100.23 Aligned_cols=71 Identities=28% Similarity=0.288 Sum_probs=63.8
Q ss_pred cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHHHHhhhhhcCCCC
Q psy17493 6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQTEKKLEASNPP 76 (101)
Q Consensus 6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~~~~~~~~~~~~~ 76 (101)
..++.|+|||+||++.|+|+.+++.++|..+|++||||||-+|.||+++.+.+...++++.+.-......+
T Consensus 124 ~PDivlcGNK~DL~~~R~Vs~~qa~~La~kyglPYfETSA~tg~Nv~kave~LldlvM~Rie~~v~~s~~p 194 (219)
T KOG0081|consen 124 NPDIVLCGNKADLEDQRVVSEDQAAALADKYGLPYFETSACTGTNVEKAVELLLDLVMKRIEQCVEKSEIP 194 (219)
T ss_pred CCCEEEEcCccchhhhhhhhHHHHHHHHHHhCCCeeeeccccCcCHHHHHHHHHHHHHHHHHHHHhhcccc
Confidence 45677889999999999999999999999999999999999999999999999999998887766655443
No 10
>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=99.71 E-value=8.6e-17 Score=104.46 Aligned_cols=87 Identities=20% Similarity=0.093 Sum_probs=64.5
Q ss_pred CCCcEEeecCCCCC-------------------CCCCCHHHHHHHHHHhC--------------CeEEEeccCCCCCHHH
Q psy17493 7 TKSKYIEVPNFVSS-------------------MPQVSRERGEQLAIEYG--------------IKFMETSAKNSINVED 53 (101)
Q Consensus 7 ~~~~lv~nk~Dl~~-------------------~~~v~~~~~~~~a~~~~--------------~~~~etSAk~~~~V~~ 53 (101)
..+.||+||.||.+ .+.|+.+++..||++++ ++||||||++|.||++
T Consensus 101 ~piIlVgNK~DL~~~~~~~~~~~~~~~~~~~~~~r~v~~~e~~~~a~~~~~~~~~~~~~~~~~~~~~~E~SA~tg~~V~e 180 (220)
T cd04126 101 CLFAVVGNKLDLTEEGALAGQEKDAGDRVSPEDQRQVTLEDAKAFYKRINKYKMLDEDLSPAAEKMCFETSAKTGYNVDE 180 (220)
T ss_pred CcEEEEEECcccccccccccccccccccccccccccCCHHHHHHHHHHhCccccccccccccccceEEEeeCCCCCCHHH
Confidence 34568899999865 68999999999999987 6799999999999999
Q ss_pred HHHHHHHHHHHHHhhhhhcCCCCCCCcccccCCCCCCCCCCcc
Q psy17493 54 AFFTLARDIKAQTEKKLEASNPPKGGIHVKSSEPNRKPPSWLS 96 (101)
Q Consensus 54 ~F~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~cc 96 (101)
+|..+++.++..........+.. ...+.+..++. +++.||
T Consensus 181 lf~~i~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~-~~~~~~ 220 (220)
T cd04126 181 LFEYLFNLVLPLILAQRAEANRT--QGTVNLPNPKR-SKSKCC 220 (220)
T ss_pred HHHHHHHHHHHHHHhhhhhhhhh--hccccCCCccc-CCCCCC
Confidence 99999998886544333322221 23455555555 556665
No 11
>KOG0088|consensus
Probab=99.69 E-value=7.1e-17 Score=99.20 Aligned_cols=61 Identities=23% Similarity=0.325 Sum_probs=55.9
Q ss_pred cEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHHHHhhhh
Q psy17493 10 KYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQTEKKL 70 (101)
Q Consensus 10 ~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~~~~~~~ 70 (101)
.|||||+||+.+|.|+..+|++||+..|+.|+|||||.+.||.++|+.+...+++......
T Consensus 122 ~IVGNKiDLEeeR~Vt~qeAe~YAesvGA~y~eTSAk~N~Gi~elFe~Lt~~MiE~~s~~q 182 (218)
T KOG0088|consen 122 LIVGNKIDLEEERQVTRQEAEAYAESVGALYMETSAKDNVGISELFESLTAKMIEHSSQRQ 182 (218)
T ss_pred EEecCcccHHHhhhhhHHHHHHHHHhhchhheecccccccCHHHHHHHHHHHHHHHhhhcc
Confidence 4679999999999999999999999999999999999999999999999999988764433
No 12
>KOG0093|consensus
Probab=99.69 E-value=3.4e-17 Score=99.45 Aligned_cols=62 Identities=34% Similarity=0.393 Sum_probs=57.5
Q ss_pred CCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHHHHhh
Q psy17493 7 TKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQTEK 68 (101)
Q Consensus 7 ~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~~~~~ 68 (101)
..+.|++|||||+++|.|+.+.++.++++.|..|||||||.+.||+++|+.++..|.++...
T Consensus 127 aqvilvgnKCDmd~eRvis~e~g~~l~~~LGfefFEtSaK~NinVk~~Fe~lv~~Ic~kmse 188 (193)
T KOG0093|consen 127 AQVILVGNKCDMDSERVISHERGRQLADQLGFEFFETSAKENINVKQVFERLVDIICDKMSE 188 (193)
T ss_pred ceEEEEecccCCccceeeeHHHHHHHHHHhChHHhhhcccccccHHHHHHHHHHHHHHHhhh
Confidence 46789999999999999999999999999999999999999999999999999988876543
No 13
>KOG0079|consensus
Probab=99.69 E-value=5.4e-17 Score=98.68 Aligned_cols=84 Identities=19% Similarity=0.220 Sum_probs=66.4
Q ss_pred CcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHHHHhhhhhcCCCCCCCcccccCCCC
Q psy17493 9 SKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQTEKKLEASNPPKGGIHVKSSEPN 88 (101)
Q Consensus 9 ~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~ 88 (101)
-.|||||+|+.+.|.|..++|+.||.+.|+.+||||||++.||+..|..|++++++.+..... .......+.+.++.
T Consensus 115 ~vLVGNK~d~~~RrvV~t~dAr~~A~~mgie~FETSaKe~~NvE~mF~cit~qvl~~k~r~~~---~~~r~~~~~l~~n~ 191 (198)
T KOG0079|consen 115 KVLVGNKNDDPERRVVDTEDARAFALQMGIELFETSAKENENVEAMFHCITKQVLQAKLRESV---EQQRADAVSLKDNS 191 (198)
T ss_pred ceecccCCCCccceeeehHHHHHHHHhcCchheehhhhhcccchHHHHHHHHHHHHHHHhhcH---HHHhhcceEeccCC
Confidence 468999999999999999999999999999999999999999999999999999886622211 11223556666655
Q ss_pred CCCCCCcc
Q psy17493 89 RKPPSWLS 96 (101)
Q Consensus 89 ~~~~~~cc 96 (101)
+ .++.||
T Consensus 192 ~-~~~k~c 198 (198)
T KOG0079|consen 192 K-STKKCC 198 (198)
T ss_pred C-ccccCC
Confidence 5 445554
No 14
>KOG0094|consensus
Probab=99.65 E-value=2.6e-16 Score=99.31 Aligned_cols=59 Identities=32% Similarity=0.303 Sum_probs=54.8
Q ss_pred CcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHHHHh
Q psy17493 9 SKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQTE 67 (101)
Q Consensus 9 ~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~~~~ 67 (101)
+.|||||.||.++|+++.+++...|+++++.|+|||||+|.||.++|.+++..+.....
T Consensus 131 I~LVGnKtDL~dkrqvs~eEg~~kAkel~a~f~etsak~g~NVk~lFrrIaa~l~~~~~ 189 (221)
T KOG0094|consen 131 IFLVGNKTDLSDKRQVSIEEGERKAKELNAEFIETSAKAGENVKQLFRRIAAALPGMEV 189 (221)
T ss_pred EEEEcccccccchhhhhHHHHHHHHHHhCcEEEEecccCCCCHHHHHHHHHHhccCccc
Confidence 57889999999999999999999999999999999999999999999999988876543
No 15
>KOG0083|consensus
Probab=99.64 E-value=2.2e-16 Score=94.76 Aligned_cols=58 Identities=38% Similarity=0.519 Sum_probs=54.1
Q ss_pred CcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHHHH
Q psy17493 9 SKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQT 66 (101)
Q Consensus 9 ~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~~~ 66 (101)
+-|+|||+|+..+|.|..++++.+|+.++++|+|||||||.||+-+|..+++.+.+..
T Consensus 106 l~llgnk~d~a~er~v~~ddg~kla~~y~ipfmetsaktg~nvd~af~~ia~~l~k~~ 163 (192)
T KOG0083|consen 106 LMLLGNKCDLAHERAVKRDDGEKLAEAYGIPFMETSAKTGFNVDLAFLAIAEELKKLK 163 (192)
T ss_pred HhhhccccccchhhccccchHHHHHHHHCCCceeccccccccHhHHHHHHHHHHHHhc
Confidence 4678999999999999999999999999999999999999999999999999887643
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=99.63 E-value=3.1e-15 Score=97.90 Aligned_cols=62 Identities=21% Similarity=0.203 Sum_probs=53.6
Q ss_pred cCCCcEEeecCCCCC------------CCCCCHHHHHHHHHHhCC-eEEEeccCCCC-CHHHHHHHHHHHHHHHHh
Q psy17493 6 NTKSKYIEVPNFVSS------------MPQVSRERGEQLAIEYGI-KFMETSAKNSI-NVEDAFFTLARDIKAQTE 67 (101)
Q Consensus 6 ~~~~~lv~nk~Dl~~------------~~~v~~~~~~~~a~~~~~-~~~etSAk~~~-~V~~~F~~~~~~i~~~~~ 67 (101)
+.++.|||||+||.+ .+.|+.+++++||+++|+ .|||||||+|. ||+++|..+++.+++...
T Consensus 117 ~~piilVgNK~DL~~~~~~~~~l~~~~~~~Vs~~e~~~~a~~~~~~~~~EtSAktg~~~V~e~F~~~~~~~~~~~~ 192 (232)
T cd04174 117 STRILLIGCKTDLRTDLSTLMELSNQKQAPISYEQGCALAKQLGAEVYLECSAFTSEKSIHSIFRSASLLCLNKLS 192 (232)
T ss_pred CCCEEEEEECcccccccchhhhhccccCCcCCHHHHHHHHHHcCCCEEEEccCCcCCcCHHHHHHHHHHHHHHhcc
Confidence 345678999999964 378999999999999998 69999999998 899999999999887543
No 17
>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=99.61 E-value=6.6e-15 Score=93.99 Aligned_cols=66 Identities=27% Similarity=0.293 Sum_probs=56.8
Q ss_pred CCCcEEeecCCCCCCCCCCHHHHHHHHHHhC-CeEEEeccCCCCCHHHHHHHHHHHHHHHHhhhhhc
Q psy17493 7 TKSKYIEVPNFVSSMPQVSRERGEQLAIEYG-IKFMETSAKNSINVEDAFFTLARDIKAQTEKKLEA 72 (101)
Q Consensus 7 ~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~-~~~~etSAk~~~~V~~~F~~~~~~i~~~~~~~~~~ 72 (101)
.++.||+||.|+.+.+.++.+++.++++.++ ..||++||++|.||+++|..+++.+++..+.....
T Consensus 111 ~piilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~e~Sak~~~~v~e~f~~l~~~l~~~~~~~~~~ 177 (201)
T cd04107 111 IPCLLLANKCDLKKRLAKDGEQMDQFCKENGFIGWFETSAKEGINIEEAMRFLVKNILANDKNLQQA 177 (201)
T ss_pred CcEEEEEECCCcccccccCHHHHHHHHHHcCCceEEEEeCCCCCCHHHHHHHHHHHHHHhchhhHhh
Confidence 4567889999998778899999999999999 68999999999999999999999998765444443
No 18
>KOG0087|consensus
Probab=99.60 E-value=5.9e-15 Score=94.03 Aligned_cols=61 Identities=30% Similarity=0.355 Sum_probs=56.3
Q ss_pred CcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHHHHhhh
Q psy17493 9 SKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQTEKK 69 (101)
Q Consensus 9 ~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~~~~~~ 69 (101)
+.|||||+||...|.|+.++++.||+..+..|+||||.++.||+.+|..+...|++.....
T Consensus 122 imLvGNK~DL~~lraV~te~~k~~Ae~~~l~f~EtSAl~~tNVe~aF~~~l~~I~~~vs~k 182 (222)
T KOG0087|consen 122 IMLVGNKSDLNHLRAVPTEDGKAFAEKEGLFFLETSALDATNVEKAFERVLTEIYKIVSKK 182 (222)
T ss_pred EEEeecchhhhhccccchhhhHhHHHhcCceEEEecccccccHHHHHHHHHHHHHHHHHHH
Confidence 3678999999999999999999999999999999999999999999999999998866544
No 19
>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=99.60 E-value=1e-14 Score=93.63 Aligned_cols=60 Identities=28% Similarity=0.479 Sum_probs=53.8
Q ss_pred cCCCcEEeecCCCCCCCCCCHHHHHHHHHHh-CCeEEEeccCCCCCHHHHHHHHHHHHHHH
Q psy17493 6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEY-GIKFMETSAKNSINVEDAFFTLARDIKAQ 65 (101)
Q Consensus 6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~-~~~~~etSAk~~~~V~~~F~~~~~~i~~~ 65 (101)
+..+.|||||+||.+.+.++.+++.++|+++ ++.|||||||+|.||+++|..+++.+...
T Consensus 105 ~~piilVgNK~DL~~~~~v~~~~~~~~a~~~~~~~~~etSAktg~gV~e~F~~l~~~~~~~ 165 (202)
T cd04120 105 DAELLLVGNKLDCETDREISRQQGEKFAQQITGMRFCEASAKDNFNVDEIFLKLVDDILKK 165 (202)
T ss_pred CCcEEEEEECcccccccccCHHHHHHHHHhcCCCEEEEecCCCCCCHHHHHHHHHHHHHHh
Confidence 3456788999999888999999999999886 78999999999999999999999988764
No 20
>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=99.59 E-value=5.8e-15 Score=93.91 Aligned_cols=60 Identities=22% Similarity=0.284 Sum_probs=55.0
Q ss_pred cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHHH
Q psy17493 6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQ 65 (101)
Q Consensus 6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~~ 65 (101)
+..+.|||||.||...+.++.++++.+|+.+++.||||||++|.||+++|..+++.++.+
T Consensus 110 ~~piilVGNK~DL~~~~~v~~~~~~~~a~~~~~~~~e~SAk~g~~V~~~F~~l~~~i~~~ 169 (189)
T cd04121 110 GVPKILVGNRLHLAFKRQVATEQAQAYAERNGMTFFEVSPLCNFNITESFTELARIVLMR 169 (189)
T ss_pred CCCEEEEEECccchhccCCCHHHHHHHHHHcCCEEEEecCCCCCCHHHHHHHHHHHHHHh
Confidence 456688899999988889999999999999999999999999999999999999988754
No 21
>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=99.59 E-value=1.2e-14 Score=92.14 Aligned_cols=60 Identities=35% Similarity=0.443 Sum_probs=53.4
Q ss_pred CCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHHHH
Q psy17493 7 TKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQT 66 (101)
Q Consensus 7 ~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~~~ 66 (101)
..+.||+||+|+...+.++..++..+++.+++.||++||++|.||+++|..+++.+..+.
T Consensus 107 ~piilvgNK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~SAk~~~~v~~l~~~l~~~l~~~~ 166 (190)
T cd04144 107 VPIMIVGNKCDKVYEREVSTEEGAALARRLGCEFIEASAKTNVNVERAFYTLVRALRQQR 166 (190)
T ss_pred CCEEEEEEChhccccCccCHHHHHHHHHHhCCEEEEecCCCCCCHHHHHHHHHHHHHHhh
Confidence 456678999999877889999999999999999999999999999999999998876554
No 22
>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=99.59 E-value=4.1e-15 Score=95.00 Aligned_cols=56 Identities=23% Similarity=0.257 Sum_probs=49.8
Q ss_pred cCCCcEEeecCCCCC-------------------CCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHH
Q psy17493 6 NTKSKYIEVPNFVSS-------------------MPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARD 61 (101)
Q Consensus 6 ~~~~~lv~nk~Dl~~-------------------~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~ 61 (101)
+..+.|||||+||.+ .+.|+.++++++|+++|++|||||||+|.||+++|..+++.
T Consensus 120 ~~piilvgNK~DL~~~~~~~~~~~~~~~~~~~~~~~~V~~~e~~~~a~~~~~~~~E~SAkt~~~V~e~F~~~~~~ 194 (195)
T cd01873 120 RVPVILVGCKLDLRYADLDEVNRARRPLARPIKNADILPPETGRAVAKELGIPYYETSVVTQFGVKDVFDNAIRA 194 (195)
T ss_pred CCCEEEEEEchhccccccchhhhcccccccccccCCccCHHHHHHHHHHhCCEEEEcCCCCCCCHHHHHHHHHHh
Confidence 345678899999864 47899999999999999999999999999999999999864
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=99.54 E-value=2.1e-14 Score=90.83 Aligned_cols=58 Identities=28% Similarity=0.331 Sum_probs=50.6
Q ss_pred cCCCcEEeecCCCCC------------CCCCCHHHHHHHHHHhCC-eEEEeccCCCCC-HHHHHHHHHHHHH
Q psy17493 6 NTKSKYIEVPNFVSS------------MPQVSRERGEQLAIEYGI-KFMETSAKNSIN-VEDAFFTLARDIK 63 (101)
Q Consensus 6 ~~~~~lv~nk~Dl~~------------~~~v~~~~~~~~a~~~~~-~~~etSAk~~~~-V~~~F~~~~~~i~ 63 (101)
...+.|||||+||.+ .+.|+.++++++|+++++ .|||||||+|.| |+++|..+++.++
T Consensus 109 ~~piilVgNK~DL~~~~~~~~~~~~~~~~~v~~~~~~~~a~~~~~~~~~E~SAk~~~n~v~~~F~~~~~~~~ 180 (182)
T cd04172 109 NTKMLLVGCKSDLRTDLTTLVELSNHRQTPVSYDQGANMAKQIGAATYIECSALQSENSVRDIFHVATLACV 180 (182)
T ss_pred CCCEEEEeEChhhhcChhhHHHHHhcCCCCCCHHHHHHHHHHcCCCEEEECCcCCCCCCHHHHHHHHHHHHh
Confidence 356778899999964 356999999999999995 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=99.54 E-value=9.3e-14 Score=89.58 Aligned_cols=60 Identities=35% Similarity=0.464 Sum_probs=54.2
Q ss_pred CcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHHHHhh
Q psy17493 9 SKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQTEK 68 (101)
Q Consensus 9 ~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~~~~~ 68 (101)
+.||+||.|+.+.+.++.+++..+++.+++.|+|+||++|.||+++|..+++.+++....
T Consensus 112 iilvgNK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~Sak~g~~v~e~f~~l~~~~~~~~~~ 171 (211)
T cd04111 112 FILVGHKCDLESQRQVTREEAEKLAKDLGMKYIETSARTGDNVEEAFELLTQEIYERIKR 171 (211)
T ss_pred EEEEEEccccccccccCHHHHHHHHHHhCCEEEEEeCCCCCCHHHHHHHHHHHHHHHhhc
Confidence 457899999988888999999999999999999999999999999999999998876543
No 25
>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=99.52 E-value=1.2e-13 Score=88.17 Aligned_cols=63 Identities=25% Similarity=0.258 Sum_probs=55.3
Q ss_pred CCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHHHHhhh
Q psy17493 7 TKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQTEKK 69 (101)
Q Consensus 7 ~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~~~~~~ 69 (101)
..+.+|+||.|+...+.+..+++..+++.++..||++||++|.||+++|..+++.++......
T Consensus 111 ~piivVgNK~Dl~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~gi~~lf~~l~~~~~~~~~~~ 173 (199)
T cd04110 111 VCKVLVGNKNDDPERKVVETEDAYKFAGQMGISLFETSAKENINVEEMFNCITELVLRAKKDN 173 (199)
T ss_pred CCEEEEEECcccccccccCHHHHHHHHHHcCCEEEEEECCCCcCHHHHHHHHHHHHHHhhhcc
Confidence 455788999999877788889999999999999999999999999999999999998764443
No 26
>PLN03110 Rab GTPase; Provisional
Probab=99.52 E-value=1.5e-13 Score=88.93 Aligned_cols=61 Identities=30% Similarity=0.330 Sum_probs=54.8
Q ss_pred CCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHHHHh
Q psy17493 7 TKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQTE 67 (101)
Q Consensus 7 ~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~~~~ 67 (101)
..+.+|+||+|+...+.++.+++..++..++++|+++||++|.||+++|..++..+.+...
T Consensus 118 ~piiiv~nK~Dl~~~~~~~~~~~~~l~~~~~~~~~e~SA~~g~~v~~lf~~l~~~i~~~~~ 178 (216)
T PLN03110 118 IVIMMAGNKSDLNHLRSVAEEDGQALAEKEGLSFLETSALEATNVEKAFQTILLEIYHIIS 178 (216)
T ss_pred CeEEEEEEChhcccccCCCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHHHHHHHHHhh
Confidence 4567789999998888999999999999999999999999999999999999998877543
No 27
>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=99.52 E-value=5e-14 Score=88.07 Aligned_cols=60 Identities=32% Similarity=0.405 Sum_probs=54.4
Q ss_pred cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHHH
Q psy17493 6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQ 65 (101)
Q Consensus 6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~~ 65 (101)
+.++.+|+||+|+.+.+.++.+++..+|+.++++||||||++|.||+++|..+++.+.+.
T Consensus 107 ~~piilvgNK~Dl~~~~~v~~~~~~~~a~~~~~~~~e~Sa~~~~~v~~~f~~l~~~~~~~ 166 (172)
T cd04141 107 DIPLVLVGNKVDLESQRQVTTEEGRNLAREFNCPFFETSAALRHYIDDAFHGLVREIRRK 166 (172)
T ss_pred CCCEEEEEEChhhhhcCccCHHHHHHHHHHhCCEEEEEecCCCCCHHHHHHHHHHHHHHh
Confidence 355678899999988889999999999999999999999999999999999999988764
No 28
>KOG0086|consensus
Probab=99.52 E-value=1.6e-14 Score=88.43 Aligned_cols=61 Identities=28% Similarity=0.260 Sum_probs=56.3
Q ss_pred cEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHHHHhhhh
Q psy17493 10 KYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQTEKKL 70 (101)
Q Consensus 10 ~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~~~~~~~ 70 (101)
.|+|||.||+..|+|+..+|..||.++.+.|.||||+||.||+++|...++.|+.+.....
T Consensus 118 iL~GnKkDL~~~R~VtflEAs~FaqEnel~flETSa~TGeNVEEaFl~c~~tIl~kIE~GE 178 (214)
T KOG0086|consen 118 ILCGNKKDLDPEREVTFLEASRFAQENELMFLETSALTGENVEEAFLKCARTILNKIESGE 178 (214)
T ss_pred EEeCChhhcChhhhhhHHHHHhhhcccceeeeeecccccccHHHHHHHHHHHHHHHHhhcC
Confidence 5678999999999999999999999999999999999999999999999999998766543
No 29
>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=99.50 E-value=6.3e-14 Score=88.23 Aligned_cols=57 Identities=18% Similarity=0.236 Sum_probs=49.8
Q ss_pred CCCcEEeecCCCCCCC----------CCCHHHHHHHHHHhCC-eEEEeccCCCCCHHHHHHHHHHHHH
Q psy17493 7 TKSKYIEVPNFVSSMP----------QVSRERGEQLAIEYGI-KFMETSAKNSINVEDAFFTLARDIK 63 (101)
Q Consensus 7 ~~~~lv~nk~Dl~~~~----------~v~~~~~~~~a~~~~~-~~~etSAk~~~~V~~~F~~~~~~i~ 63 (101)
..+.|||||+||.+++ .|+.+++..+|+.++. .|||||||+|.||+++|..+++.++
T Consensus 106 ~piilvgnK~Dl~~~~~~~~~~~~~~~v~~~~~~~~a~~~~~~~~~E~SAk~~~nV~~~F~~~~~~~~ 173 (176)
T cd04133 106 VPIVLVGTKLDLRDDKQYLADHPGASPITTAQGEELRKQIGAAAYIECSSKTQQNVKAVFDAAIKVVL 173 (176)
T ss_pred CCEEEEEeChhhccChhhhhhccCCCCCCHHHHHHHHHHcCCCEEEECCCCcccCHHHHHHHHHHHHh
Confidence 4567889999996543 5999999999999998 5999999999999999999998763
No 30
>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=99.50 E-value=7.3e-14 Score=87.96 Aligned_cols=58 Identities=28% Similarity=0.283 Sum_probs=49.8
Q ss_pred cCCCcEEeecCCCCC------------CCCCCHHHHHHHHHHhCC-eEEEeccCCCCC-HHHHHHHHHHHHH
Q psy17493 6 NTKSKYIEVPNFVSS------------MPQVSRERGEQLAIEYGI-KFMETSAKNSIN-VEDAFFTLARDIK 63 (101)
Q Consensus 6 ~~~~~lv~nk~Dl~~------------~~~v~~~~~~~~a~~~~~-~~~etSAk~~~~-V~~~F~~~~~~i~ 63 (101)
...+.|||||+||.+ .+.|+.+++.++|+++++ .|||||||+|.| |+++|..+++..+
T Consensus 105 ~~~iilVgnK~DL~~~~~~~~~~~~~~~~~v~~~e~~~~a~~~~~~~~~E~SA~~~~~~v~~~F~~~~~~~~ 176 (178)
T cd04131 105 NTKVLLVGCKTDLRTDLSTLMELSHQRQAPVSYEQGCAIAKQLGAEIYLECSAFTSEKSVRDIFHVATMACL 176 (178)
T ss_pred CCCEEEEEEChhhhcChhHHHHHHhcCCCCCCHHHHHHHHHHhCCCEEEECccCcCCcCHHHHHHHHHHHHh
Confidence 345678899999954 356999999999999997 799999999995 9999999998654
No 31
>PTZ00099 rab6; Provisional
Probab=99.48 E-value=1.5e-13 Score=86.58 Aligned_cols=57 Identities=28% Similarity=0.310 Sum_probs=51.9
Q ss_pred CcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHHH
Q psy17493 9 SKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQ 65 (101)
Q Consensus 9 ~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~~ 65 (101)
+.||+||+||.+.+.++.+++..++..++..|||+|||+|.||+++|..+++.+.+.
T Consensus 88 iilVgNK~DL~~~~~v~~~e~~~~~~~~~~~~~e~SAk~g~nV~~lf~~l~~~l~~~ 144 (176)
T PTZ00099 88 IALVGNKTDLGDLRKVTYEEGMQKAQEYNTMFHETSAKAGHNIKVLFKKIAAKLPNL 144 (176)
T ss_pred EEEEEECcccccccCCCHHHHHHHHHHcCCEEEEEECCCCCCHHHHHHHHHHHHHhc
Confidence 467899999987788999999999999999999999999999999999999988654
No 32
>KOG0395|consensus
Probab=99.48 E-value=1.3e-13 Score=88.29 Aligned_cols=58 Identities=34% Similarity=0.480 Sum_probs=54.0
Q ss_pred CCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHHH
Q psy17493 8 KSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQ 65 (101)
Q Consensus 8 ~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~~ 65 (101)
.+.|||||+||...|.|+.++++++|..++++|+|||||.+.||+++|..+++.+...
T Consensus 110 PivlVGNK~Dl~~~R~V~~eeg~~la~~~~~~f~E~Sak~~~~v~~~F~~L~r~~~~~ 167 (196)
T KOG0395|consen 110 PIILVGNKCDLERERQVSEEEGKALARSWGCAFIETSAKLNYNVDEVFYELVREIRLP 167 (196)
T ss_pred CEEEEEEcccchhccccCHHHHHHHHHhcCCcEEEeeccCCcCHHHHHHHHHHHHHhh
Confidence 4577899999999999999999999999999999999999999999999999988763
No 33
>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=99.47 E-value=4e-13 Score=84.78 Aligned_cols=59 Identities=29% Similarity=0.301 Sum_probs=53.2
Q ss_pred CCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHHHH
Q psy17493 8 KSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQT 66 (101)
Q Consensus 8 ~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~~~ 66 (101)
.+.+++||.|+.+.+.++.+++..++...+++|+|+||++|.||+++|..+++.++...
T Consensus 107 ~~ivv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~evSa~~~~~i~~~f~~l~~~~~~~~ 165 (188)
T cd04125 107 IKVIVANKSDLVNNKVVDSNIAKSFCDSLNIPFFETSAKQSINVEEAFILLVKLIIKRL 165 (188)
T ss_pred eEEEEEECCCCcccccCCHHHHHHHHHHcCCeEEEEeCCCCCCHHHHHHHHHHHHHHHh
Confidence 45678999999878889999999999999999999999999999999999999987653
No 34
>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=99.47 E-value=4.3e-13 Score=87.29 Aligned_cols=61 Identities=23% Similarity=0.268 Sum_probs=51.7
Q ss_pred cCCCcEEeecCCCCCC------------CCCCHHHHHHHHHHhCC-eEEEeccCCCCC-HHHHHHHHHHHHHHHH
Q psy17493 6 NTKSKYIEVPNFVSSM------------PQVSRERGEQLAIEYGI-KFMETSAKNSIN-VEDAFFTLARDIKAQT 66 (101)
Q Consensus 6 ~~~~~lv~nk~Dl~~~------------~~v~~~~~~~~a~~~~~-~~~etSAk~~~~-V~~~F~~~~~~i~~~~ 66 (101)
+.++.|||||+||.+. ..|+.+++..+|+++|+ .||||||+++.| |+++|..+++..+...
T Consensus 105 ~~piiLVgnK~DL~~~~~~~~~~~~~~~~pIs~e~g~~~ak~~~~~~y~E~SAk~~~~~V~~~F~~~~~~~~~~~ 179 (222)
T cd04173 105 NAKVVLVGCKLDMRTDLATLRELSKQRLIPVTHEQGTVLAKQVGAVSYVECSSRSSERSVRDVFHVATVASLGRG 179 (222)
T ss_pred CCCEEEEEECcccccchhhhhhhhhccCCccCHHHHHHHHHHcCCCEEEEcCCCcCCcCHHHHHHHHHHHHHhcc
Confidence 4667889999999542 24889999999999995 899999999985 9999999999877644
No 35
>PLN03118 Rab family protein; Provisional
Probab=99.46 E-value=1.1e-12 Score=84.32 Aligned_cols=60 Identities=37% Similarity=0.306 Sum_probs=53.7
Q ss_pred CCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHHHH
Q psy17493 7 TKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQT 66 (101)
Q Consensus 7 ~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~~~ 66 (101)
..+.+|+||.|+...+.++.+++..++..+++.||++||+++.||+++|..+++.+....
T Consensus 121 ~~~ilv~NK~Dl~~~~~i~~~~~~~~~~~~~~~~~e~SAk~~~~v~~l~~~l~~~~~~~~ 180 (211)
T PLN03118 121 CVKMLVGNKVDRESERDVSREEGMALAKEHGCLFLECSAKTRENVEQCFEELALKIMEVP 180 (211)
T ss_pred CCEEEEEECccccccCccCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHHHHHHHhhh
Confidence 345688999999877888899999999999999999999999999999999999987754
No 36
>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=99.45 E-value=8.2e-13 Score=83.73 Aligned_cols=59 Identities=42% Similarity=0.549 Sum_probs=53.3
Q ss_pred CCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHHH
Q psy17493 7 TKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQ 65 (101)
Q Consensus 7 ~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~~ 65 (101)
..+.+++||.|+...+.+..+++..+++.++.+|+++||++|.||+++|..+++.+...
T Consensus 107 ~piiiv~NK~Dl~~~~~~~~~~~~~l~~~~~~~~~e~Sa~~~~~v~~l~~~l~~~~~~~ 165 (191)
T cd04112 107 VVIMLLGNKADMSGERVVKREDGERLAKEYGVPFMETSAKTGLNVELAFTAVAKELKHR 165 (191)
T ss_pred CcEEEEEEcccchhccccCHHHHHHHHHHcCCeEEEEeCCCCCCHHHHHHHHHHHHHHh
Confidence 45667899999987788999999999999999999999999999999999999988765
No 37
>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=99.44 E-value=5.1e-13 Score=82.62 Aligned_cols=58 Identities=36% Similarity=0.385 Sum_probs=52.8
Q ss_pred CCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHH
Q psy17493 7 TKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKA 64 (101)
Q Consensus 7 ~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~ 64 (101)
..+.+|+||+|+...+.++.+++..+++.++++|+|+||++|.||+++|..+++.+++
T Consensus 108 ~~iiiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~e~f~~l~~~~~~ 165 (166)
T cd04122 108 TVIFLIGNKADLEAQRDVTYEEAKQFADENGLLFLECSAKTGENVEDAFLETAKKIYQ 165 (166)
T ss_pred CeEEEEEECcccccccCcCHHHHHHHHHHcCCEEEEEECCCCCCHHHHHHHHHHHHhh
Confidence 3467789999998888899999999999999999999999999999999999988764
No 38
>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=99.44 E-value=5.6e-13 Score=86.02 Aligned_cols=58 Identities=17% Similarity=0.117 Sum_probs=52.9
Q ss_pred CCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHHH
Q psy17493 8 KSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQ 65 (101)
Q Consensus 8 ~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~~ 65 (101)
.+.+|+||.|+.+.+.++.+++..+++.++++||++||++|.||+++|..+++.+...
T Consensus 111 piilVgNK~DL~~~~~v~~~~~~~~~~~~~~~~~~iSAktg~gv~~lf~~l~~~l~~~ 168 (215)
T cd04109 111 LVVLVGNKTDLEHNRTVKDDKHARFAQANGMESCLVSAKTGDRVNLLFQQLAAELLGV 168 (215)
T ss_pred eEEEEEECcccccccccCHHHHHHHHHHcCCEEEEEECCCCCCHHHHHHHHHHHHHhc
Confidence 3567899999987889999999999999999999999999999999999999988753
No 39
>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=99.44 E-value=6.4e-13 Score=84.15 Aligned_cols=58 Identities=24% Similarity=0.264 Sum_probs=49.9
Q ss_pred cCCCcEEeecCCCCCCC------------CCCHHHHHHHHHHhC-CeEEEeccCCCCCHHHHHHHHHHHHH
Q psy17493 6 NTKSKYIEVPNFVSSMP------------QVSRERGEQLAIEYG-IKFMETSAKNSINVEDAFFTLARDIK 63 (101)
Q Consensus 6 ~~~~~lv~nk~Dl~~~~------------~v~~~~~~~~a~~~~-~~~~etSAk~~~~V~~~F~~~~~~i~ 63 (101)
+.++.||+||+||.+.+ .++.+++..+++.++ +.|||+|||+|.||+++|..+++.++
T Consensus 104 ~~piilvgNK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~e~SAk~~~~v~e~f~~l~~~~~ 174 (189)
T cd04134 104 GVKLVLVALKCDLREARNERDDLQRYGKHTISYEEGLAVAKRINALRYLECSAKLNRGVNEAFTEAARVAL 174 (189)
T ss_pred CCCEEEEEEChhhccChhhHHHHhhccCCCCCHHHHHHHHHHcCCCEEEEccCCcCCCHHHHHHHHHHHHh
Confidence 45678889999996543 477889999999887 68999999999999999999998876
No 40
>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=99.43 E-value=5.6e-13 Score=84.63 Aligned_cols=59 Identities=20% Similarity=0.282 Sum_probs=50.5
Q ss_pred cCCCcEEeecCCCCCC------------CCCCHHHHHHHHHHhC-CeEEEeccCCCCCHHHHHHHHHHHHHH
Q psy17493 6 NTKSKYIEVPNFVSSM------------PQVSRERGEQLAIEYG-IKFMETSAKNSINVEDAFFTLARDIKA 64 (101)
Q Consensus 6 ~~~~~lv~nk~Dl~~~------------~~v~~~~~~~~a~~~~-~~~~etSAk~~~~V~~~F~~~~~~i~~ 64 (101)
+..+.|||||.||.+. +.++.+++..+|+.++ ..|||||||+|.||+++|..+++.++.
T Consensus 107 ~~piilvgNK~DL~~~~~~~~~~~~~~~~~v~~~~~~~~a~~~~~~~~~e~SAk~g~~v~e~f~~l~~~~~~ 178 (191)
T cd01875 107 NVPILLVGTKKDLRNDADTLKKLKEQGQAPITPQQGGALAKQIHAVKYLECSALNQDGVKEVFAEAVRAVLN 178 (191)
T ss_pred CCCEEEEEeChhhhcChhhHHHHhhccCCCCCHHHHHHHHHHcCCcEEEEeCCCCCCCHHHHHHHHHHHHhc
Confidence 3456788999999654 3588899999999999 589999999999999999999987753
No 41
>KOG0095|consensus
Probab=99.42 E-value=1e-13 Score=84.70 Aligned_cols=60 Identities=25% Similarity=0.335 Sum_probs=54.9
Q ss_pred cEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHHHHhhh
Q psy17493 10 KYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQTEKK 69 (101)
Q Consensus 10 ~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~~~~~~ 69 (101)
.|||||.|+.+.|+|+...++.|++.+.+.|+|||||+..||+.+|..++..+....+..
T Consensus 116 ilvgnk~d~~drrevp~qigeefs~~qdmyfletsakea~nve~lf~~~a~rli~~ar~~ 175 (213)
T KOG0095|consen 116 ILVGNKIDLADRREVPQQIGEEFSEAQDMYFLETSAKEADNVEKLFLDLACRLISEARQN 175 (213)
T ss_pred EeeccccchhhhhhhhHHHHHHHHHhhhhhhhhhcccchhhHHHHHHHHHHHHHHHHHhc
Confidence 678999999999999999999999999999999999999999999999998887665443
No 42
>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=99.42 E-value=3.7e-13 Score=83.23 Aligned_cols=55 Identities=22% Similarity=0.288 Sum_probs=48.1
Q ss_pred CCCcEEeecCCCC--CCCCCCHHHHHHHHHHhC-CeEEEeccCCCCCHHHHHHHHHHH
Q psy17493 7 TKSKYIEVPNFVS--SMPQVSRERGEQLAIEYG-IKFMETSAKNSINVEDAFFTLARD 61 (101)
Q Consensus 7 ~~~~lv~nk~Dl~--~~~~v~~~~~~~~a~~~~-~~~~etSAk~~~~V~~~F~~~~~~ 61 (101)
.++.|||||.||. ..+.|+.+++++++++++ +.|||||||+|.||+++|..+++.
T Consensus 100 ~piilvgnK~Dl~~~~~~~v~~~~~~~~~~~~~~~~~~e~SAk~~~~i~~~f~~~~~~ 157 (158)
T cd04103 100 IPLILVGTQDAISESNPRVIDDARARQLCADMKRCSYYETCATYGLNVERVFQEAAQK 157 (158)
T ss_pred CCEEEEeeHHHhhhcCCcccCHHHHHHHHHHhCCCcEEEEecCCCCCHHHHHHHHHhh
Confidence 4567889999985 468899999999998874 899999999999999999999864
No 43
>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=99.41 E-value=7.1e-13 Score=81.87 Aligned_cols=55 Identities=33% Similarity=0.428 Sum_probs=50.3
Q ss_pred CCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHH
Q psy17493 7 TKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARD 61 (101)
Q Consensus 7 ~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~ 61 (101)
..+.+|+||.|+...+.++.+++..+++.++.+|||||||+|.||+++|..+++.
T Consensus 106 ~~iilvgnK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~Sa~~~~~v~~~f~~l~~~ 160 (161)
T cd04117 106 VQKILIGNKADEEQKRQVGDEQGNKLAKEYGMDFFETSACTNSNIKESFTRLTEL 160 (161)
T ss_pred CeEEEEEECcccccccCCCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHHHhh
Confidence 3457789999998888999999999999999999999999999999999999864
No 44
>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=99.41 E-value=1.1e-12 Score=81.88 Aligned_cols=60 Identities=32% Similarity=0.319 Sum_probs=54.1
Q ss_pred cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHHH
Q psy17493 6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQ 65 (101)
Q Consensus 6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~~ 65 (101)
+..+.+|+||+|+.+.+.++.+++..+++.++++||++||++|.||+++|..+++.++++
T Consensus 120 ~~piiiv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~Sak~~~~v~~l~~~l~~~~~~~ 179 (180)
T cd04127 120 NPDIVLCGNKADLEDQRQVSEEQAKALADKYGIPYFETSAATGTNVEKAVERLLDLVMKR 179 (180)
T ss_pred CCcEEEEEeCccchhcCccCHHHHHHHHHHcCCeEEEEeCCCCCCHHHHHHHHHHHHHhh
Confidence 456778899999988888999999999999999999999999999999999999888653
No 45
>PLN03108 Rab family protein; Provisional
Probab=99.41 E-value=4.6e-12 Score=81.56 Aligned_cols=61 Identities=38% Similarity=0.415 Sum_probs=55.1
Q ss_pred CCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHHHHh
Q psy17493 7 TKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQTE 67 (101)
Q Consensus 7 ~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~~~~ 67 (101)
..+.+++||.|+...+.++.+++.++++.++++||++||+++.||+++|..+++.+++...
T Consensus 112 ~piiiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~v~e~f~~l~~~~~~~~~ 172 (210)
T PLN03108 112 MTIMLIGNKCDLAHRRAVSTEEGEQFAKEHGLIFMEASAKTAQNVEEAFIKTAAKIYKKIQ 172 (210)
T ss_pred CcEEEEEECccCccccCCCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHHHHHHHHHhh
Confidence 3456789999998888999999999999999999999999999999999999999987644
No 46
>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=99.40 E-value=1.8e-12 Score=81.52 Aligned_cols=62 Identities=24% Similarity=0.269 Sum_probs=53.0
Q ss_pred CCCcEEeecCCCCCC----CCCCHHHHHHHHHHhCC-eEEEeccCCCCCHHHHHHHHHHHHHHHHhh
Q psy17493 7 TKSKYIEVPNFVSSM----PQVSRERGEQLAIEYGI-KFMETSAKNSINVEDAFFTLARDIKAQTEK 68 (101)
Q Consensus 7 ~~~~lv~nk~Dl~~~----~~v~~~~~~~~a~~~~~-~~~etSAk~~~~V~~~F~~~~~~i~~~~~~ 68 (101)
.++.+++||.|+... +.++.+++.+++..+++ +||++||++|.||+++|..+++.++.....
T Consensus 106 ~piilv~nK~Dl~~~~~~~~~v~~~~~~~~~~~~~~~~~~e~Sa~~~~~v~~~f~~l~~~~~~~~~~ 172 (187)
T cd04132 106 TPIMLVGLKTDLRKDKNLDRKVTPAQAESVAKKQGAFAYLECSAKTMENVEEVFDTAIEEALKKEGK 172 (187)
T ss_pred CCEEEEEeChhhhhCccccCCcCHHHHHHHHHHcCCcEEEEccCCCCCCHHHHHHHHHHHHHhhhhh
Confidence 456778999998643 46888999999999998 899999999999999999999998875433
No 47
>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=99.40 E-value=1.1e-12 Score=80.49 Aligned_cols=57 Identities=32% Similarity=0.376 Sum_probs=52.9
Q ss_pred CCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHH
Q psy17493 7 TKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIK 63 (101)
Q Consensus 7 ~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~ 63 (101)
..+.|+|+|.|+.+.+.++.++++.+|++++.+|+|+||+++.||.++|..+++.++
T Consensus 105 ~~iivvg~K~D~~~~~~v~~~~~~~~~~~~~~~~~e~Sa~~~~~v~~~f~~~i~~i~ 161 (162)
T PF00071_consen 105 IPIIVVGNKSDLSDEREVSVEEAQEFAKELGVPYFEVSAKNGENVKEIFQELIRKIL 161 (162)
T ss_dssp SEEEEEEETTTGGGGSSSCHHHHHHHHHHTTSEEEEEBTTTTTTHHHHHHHHHHHHH
T ss_pred ccceeeeccccccccccchhhHHHHHHHHhCCEEEEEECCCCCCHHHHHHHHHHHHh
Confidence 456778999999888999999999999999999999999999999999999999875
No 48
>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=99.38 E-value=1.4e-12 Score=81.80 Aligned_cols=56 Identities=20% Similarity=0.207 Sum_probs=48.4
Q ss_pred CCCcEEeecCCCCCC------------CCCCHHHHHHHHHHhC-CeEEEeccCCCCCHHHHHHHHHHHH
Q psy17493 7 TKSKYIEVPNFVSSM------------PQVSRERGEQLAIEYG-IKFMETSAKNSINVEDAFFTLARDI 62 (101)
Q Consensus 7 ~~~~lv~nk~Dl~~~------------~~v~~~~~~~~a~~~~-~~~~etSAk~~~~V~~~F~~~~~~i 62 (101)
..+.||+||.|+.+. +.|+.+++.+++++.+ ..|||+||++|.||+++|..+++..
T Consensus 106 ~piilvgnK~Dl~~~~~~~~~l~~~~~~~v~~~~~~~~a~~~~~~~~~e~SA~tg~~v~~~f~~~~~~~ 174 (175)
T cd01874 106 TPFLLVGTQIDLRDDPSTIEKLAKNKQKPITPETGEKLARDLKAVKYVECSALTQKGLKNVFDEAILAA 174 (175)
T ss_pred CCEEEEEECHhhhhChhhHHHhhhccCCCcCHHHHHHHHHHhCCcEEEEecCCCCCCHHHHHHHHHHHh
Confidence 456778999998543 6899999999999988 6899999999999999999998754
No 49
>PTZ00369 Ras-like protein; Provisional
Probab=99.36 E-value=4.3e-12 Score=80.30 Aligned_cols=59 Identities=37% Similarity=0.557 Sum_probs=52.8
Q ss_pred CCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHHH
Q psy17493 7 TKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQ 65 (101)
Q Consensus 7 ~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~~ 65 (101)
..+.+++||.|+...+.++.+++..+++.++.+||++||++|.||+++|..+++.+.+.
T Consensus 111 ~piiiv~nK~Dl~~~~~i~~~~~~~~~~~~~~~~~e~Sak~~~gi~~~~~~l~~~l~~~ 169 (189)
T PTZ00369 111 VPMILVGNKCDLDSERQVSTGEGQELAKSFGIPFLETSAKQRVNVDEAFYELVREIRKY 169 (189)
T ss_pred CCEEEEEECcccccccccCHHHHHHHHHHhCCEEEEeeCCCCCCHHHHHHHHHHHHHHH
Confidence 35567899999987788999999999999999999999999999999999999988764
No 50
>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=99.35 E-value=2.1e-12 Score=82.60 Aligned_cols=60 Identities=13% Similarity=0.025 Sum_probs=51.7
Q ss_pred cCCCcEEeecCCCCCCCCCCHHHHHHHHH-HhCCeEEEeccCCCCCHHHHHHHHHHHHHHH
Q psy17493 6 NTKSKYIEVPNFVSSMPQVSRERGEQLAI-EYGIKFMETSAKNSINVEDAFFTLARDIKAQ 65 (101)
Q Consensus 6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~-~~~~~~~etSAk~~~~V~~~F~~~~~~i~~~ 65 (101)
+.++.+|+||.|+...+.++.+++..++. .++++||+|||++|.||+++|..+++.++.+
T Consensus 116 ~~piiivgNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~e~Sak~g~~v~~lf~~i~~~~~~~ 176 (198)
T cd04142 116 EPPIVVVGNKRDQQRHRFAPRHVLSVLVRKSWKCGYLECSAKYNWHILLLFKELLISATTR 176 (198)
T ss_pred CCCEEEEEECccccccccccHHHHHHHHHHhcCCcEEEecCCCCCCHHHHHHHHHHHhhcc
Confidence 35667889999998778888888888865 5689999999999999999999999988754
No 51
>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=99.34 E-value=7e-12 Score=79.21 Aligned_cols=58 Identities=24% Similarity=0.284 Sum_probs=49.4
Q ss_pred CCCcEEeecCCCCC----------CCCCCHHHHHHHHHHhCC-eEEEeccCCCCCHHHHHHHHHHHHHH
Q psy17493 7 TKSKYIEVPNFVSS----------MPQVSRERGEQLAIEYGI-KFMETSAKNSINVEDAFFTLARDIKA 64 (101)
Q Consensus 7 ~~~~lv~nk~Dl~~----------~~~v~~~~~~~~a~~~~~-~~~etSAk~~~~V~~~F~~~~~~i~~ 64 (101)
.++.+|+||.|+.+ .+.++.+++..+++.++. .||||||++|.||+++|+.+++.++.
T Consensus 106 ~piilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~v~~~f~~l~~~~~~ 174 (187)
T cd04129 106 VPVILVGLKKDLRQDAVAKEEYRTQRFVPIQQGKRVAKEIGAKKYMECSALTGEGVDDVFEAATRAALL 174 (187)
T ss_pred CCEEEEeeChhhhhCcccccccccCCcCCHHHHHHHHHHhCCcEEEEccCCCCCCHHHHHHHHHHHHhc
Confidence 45677899999853 467888899999999995 79999999999999999999987753
No 52
>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=99.33 E-value=7.1e-12 Score=77.61 Aligned_cols=59 Identities=53% Similarity=0.704 Sum_probs=53.2
Q ss_pred cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHH
Q psy17493 6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKA 64 (101)
Q Consensus 6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~ 64 (101)
+..+.+++||.|+.+.+.+..+++..+++.++.+|+++||++|.||+++|..+++.++.
T Consensus 108 ~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~i~~~~~~ 166 (167)
T cd01867 108 DVERMLVGNKCDMEEKRVVSKEEGEALADEYGIKFLETSAKANINVEEAFFTLAKDIKK 166 (167)
T ss_pred CCcEEEEEECcccccccCCCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHHHHHHHh
Confidence 34567889999998878889999999999999999999999999999999999998764
No 53
>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=99.32 E-value=3.8e-12 Score=79.75 Aligned_cols=55 Identities=20% Similarity=0.231 Sum_probs=47.7
Q ss_pred CCCcEEeecCCCCCC------------CCCCHHHHHHHHHHhC-CeEEEeccCCCCCHHHHHHHHHHH
Q psy17493 7 TKSKYIEVPNFVSSM------------PQVSRERGEQLAIEYG-IKFMETSAKNSINVEDAFFTLARD 61 (101)
Q Consensus 7 ~~~~lv~nk~Dl~~~------------~~v~~~~~~~~a~~~~-~~~~etSAk~~~~V~~~F~~~~~~ 61 (101)
.++.||+||+||.+. +.|+.+++..+++.++ ..|||+||++|.||+++|+.+++.
T Consensus 106 ~piilvgnK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~ 173 (174)
T cd01871 106 TPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQKGLKTVFDEAIRA 173 (174)
T ss_pred CCEEEEeeChhhccChhhHHHHhhccCCCCCHHHHHHHHHHcCCcEEEEecccccCCHHHHHHHHHHh
Confidence 466788999999542 4689999999999999 589999999999999999999863
No 54
>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=99.32 E-value=2.2e-11 Score=77.01 Aligned_cols=61 Identities=23% Similarity=0.235 Sum_probs=51.6
Q ss_pred cCCCcEEeecCCCCC----CCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHHHH
Q psy17493 6 NTKSKYIEVPNFVSS----MPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQT 66 (101)
Q Consensus 6 ~~~~~lv~nk~Dl~~----~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~~~ 66 (101)
+.++.+|+||.|+.. .+.+..+++..++..++++||++||++|.||+++|..+++.+.+..
T Consensus 105 ~~piilv~nK~Dl~~~~~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~l~~~i~~~~~~~~ 169 (193)
T cd04118 105 HCKIYLCGTKSDLIEQDRSLRQVDFHDVQDFADEIKAQHFETSSKTGQNVDELFQKVAEDFVSRA 169 (193)
T ss_pred CCCEEEEEEcccccccccccCccCHHHHHHHHHHcCCeEEEEeCCCCCCHHHHHHHHHHHHHHhc
Confidence 356778899999853 2567778889999999999999999999999999999999887643
No 55
>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=99.32 E-value=9e-12 Score=77.02 Aligned_cols=57 Identities=35% Similarity=0.390 Sum_probs=51.4
Q ss_pred CCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHH
Q psy17493 7 TKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIK 63 (101)
Q Consensus 7 ~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~ 63 (101)
.++.+++||+|+.+.+.+..+++.++++.++.+||++||++|.||+++|..++..+.
T Consensus 107 ~piivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~l~~~l~~~~~ 163 (165)
T cd01865 107 AQVILVGNKCDMEDERVVSSERGRQLADQLGFEFFEASAKENINVKQVFERLVDIIC 163 (165)
T ss_pred CCEEEEEECcccCcccccCHHHHHHHHHHcCCEEEEEECCCCCCHHHHHHHHHHHHH
Confidence 456788999999888888899999999999999999999999999999999998664
No 56
>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=99.32 E-value=6.1e-12 Score=77.66 Aligned_cols=58 Identities=31% Similarity=0.394 Sum_probs=51.5
Q ss_pred cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCC-CCHHHHHHHHHHHHH
Q psy17493 6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNS-INVEDAFFTLARDIK 63 (101)
Q Consensus 6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~-~~V~~~F~~~~~~i~ 63 (101)
+..+.+|+||.|+...+.++.+++..+++..+.+||++||++| .||+++|..+++.+.
T Consensus 106 ~~piilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~Sa~~~~~~v~~~f~~l~~~~~ 164 (165)
T cd04146 106 EIPVILVGNKADLLHYRQVSTEEGEKLASELGCLFFEVSAAEDYDGVHSVFHELCREVR 164 (165)
T ss_pred CCCEEEEEECCchHHhCccCHHHHHHHHHHcCCEEEEeCCCCCchhHHHHHHHHHHHHh
Confidence 4556788999999877889999999999999999999999999 499999999998664
No 57
>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=99.31 E-value=4.4e-12 Score=78.78 Aligned_cols=58 Identities=28% Similarity=0.268 Sum_probs=50.1
Q ss_pred cCCCcEEeecCCCCCC------------CCCCHHHHHHHHHHhCC-eEEEeccCCCCCHHHHHHHHHHHHH
Q psy17493 6 NTKSKYIEVPNFVSSM------------PQVSRERGEQLAIEYGI-KFMETSAKNSINVEDAFFTLARDIK 63 (101)
Q Consensus 6 ~~~~~lv~nk~Dl~~~------------~~v~~~~~~~~a~~~~~-~~~etSAk~~~~V~~~F~~~~~~i~ 63 (101)
+.++.||+||+|+... +.++.+++..+++.++. .|||+||++|.||+++|..+++.++
T Consensus 102 ~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~e~Sa~~~~~v~~lf~~l~~~~~ 172 (174)
T smart00174 102 NTPIILVGTKLDLREDKSTLRELSKQKQEPVTYEQGEALAKRIGAVKYLECSALTQEGVREVFEEAIRAAL 172 (174)
T ss_pred CCCEEEEecChhhhhChhhhhhhhcccCCCccHHHHHHHHHHcCCcEEEEecCCCCCCHHHHHHHHHHHhc
Confidence 4566788999998642 34889999999999996 8999999999999999999998765
No 58
>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=99.29 E-value=1.1e-11 Score=76.59 Aligned_cols=54 Identities=31% Similarity=0.313 Sum_probs=48.6
Q ss_pred CCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHH
Q psy17493 7 TKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLAR 60 (101)
Q Consensus 7 ~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~ 60 (101)
..+.+|+||.|+...+.+..+++..++..++..|||+||++|.||+++|..++.
T Consensus 109 ~piilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~SA~~g~~v~~~f~~l~~ 162 (165)
T cd04140 109 IPIMLVGNKCDESHKREVSSNEGAACATEWNCAFMETSAKTNHNVQELFQELLN 162 (165)
T ss_pred CCEEEEEECccccccCeecHHHHHHHHHHhCCcEEEeecCCCCCHHHHHHHHHh
Confidence 456788999999877889999999999999999999999999999999999874
No 59
>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=99.28 E-value=1.2e-11 Score=76.13 Aligned_cols=56 Identities=34% Similarity=0.513 Sum_probs=50.3
Q ss_pred CCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHH
Q psy17493 7 TKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDI 62 (101)
Q Consensus 7 ~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i 62 (101)
.++.+++||+|+...+.++.+++..+++.++.+|+++||++|.||+++|..+++.+
T Consensus 107 ~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~l 162 (164)
T cd04175 107 VPMILVGNKCDLEDERVVGKEQGQNLARQWGCAFLETSAKAKINVNEIFYDLVRQI 162 (164)
T ss_pred CCEEEEEECCcchhccEEcHHHHHHHHHHhCCEEEEeeCCCCCCHHHHHHHHHHHh
Confidence 45678899999988788888889999999999999999999999999999998765
No 60
>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=99.28 E-value=1.9e-11 Score=75.47 Aligned_cols=57 Identities=39% Similarity=0.503 Sum_probs=51.8
Q ss_pred CCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHH
Q psy17493 7 TKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIK 63 (101)
Q Consensus 7 ~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~ 63 (101)
..+.+++||.|+...+.++.+++..+++.++++|+++||++|.||+++|..+++.+.
T Consensus 108 ~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~i~~~~~ 164 (166)
T cd01869 108 VNKLLVGNKCDLTDKRVVDYSEAQEFADELGIPFLETSAKNATNVEQAFMTMAREIK 164 (166)
T ss_pred CcEEEEEEChhcccccCCCHHHHHHHHHHcCCeEEEEECCCCcCHHHHHHHHHHHHH
Confidence 456778999999877889999999999999999999999999999999999998775
No 61
>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=99.28 E-value=1e-11 Score=76.09 Aligned_cols=56 Identities=38% Similarity=0.486 Sum_probs=49.6
Q ss_pred CCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHH
Q psy17493 7 TKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDI 62 (101)
Q Consensus 7 ~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i 62 (101)
.++.+++||+|+.+.+.++.+++..+++.++.+||++||++|.||+++|..+++.+
T Consensus 107 ~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~l~~~l~~~~ 162 (163)
T cd04136 107 VPMVLVGNKCDLEDERVVSREEGQALARQWGCPFYETSAKSKINVDEVFADLVRQI 162 (163)
T ss_pred CCEEEEEECccccccceecHHHHHHHHHHcCCeEEEecCCCCCCHHHHHHHHHHhc
Confidence 45567899999987788888899999999999999999999999999999998754
No 62
>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=99.28 E-value=1.7e-11 Score=79.64 Aligned_cols=60 Identities=23% Similarity=0.309 Sum_probs=53.8
Q ss_pred cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHHH
Q psy17493 6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQ 65 (101)
Q Consensus 6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~~ 65 (101)
+.++.+|+||.|+...+.++.+++.+++..++++||++||++|.||+++|+.+++.+...
T Consensus 106 ~~piilV~NK~Dl~~~~~v~~~~~~~~a~~~~~~~~e~SA~~~~gv~~l~~~l~~~~~~~ 165 (221)
T cd04148 106 DRPIILVGNKSDLARSREVSVQEGRACAVVFDCKFIETSAGLQHNVDELLEGIVRQIRLR 165 (221)
T ss_pred CCCEEEEEEChhccccceecHHHHHHHHHHcCCeEEEecCCCCCCHHHHHHHHHHHHHhh
Confidence 456788899999988888999999999999999999999999999999999999988643
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=99.27 E-value=1.6e-11 Score=75.41 Aligned_cols=57 Identities=26% Similarity=0.217 Sum_probs=51.4
Q ss_pred CCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHH
Q psy17493 7 TKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIK 63 (101)
Q Consensus 7 ~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~ 63 (101)
..+.+|+||+|+.+++.++.+++..++..++++||++||++|.||+++|..+++.++
T Consensus 111 ~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~l~ 167 (168)
T cd04119 111 IVVVVCANKIDLTKHRAVSEDEGRLWAESKGFKYFETSACTGEGVNEMFQTLFSSIV 167 (168)
T ss_pred ceEEEEEEchhcccccccCHHHHHHHHHHcCCeEEEEECCCCCCHHHHHHHHHHHHh
Confidence 456788999999766788999999999999999999999999999999999998775
No 64
>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=99.27 E-value=2.1e-11 Score=74.93 Aligned_cols=57 Identities=37% Similarity=0.558 Sum_probs=50.6
Q ss_pred CCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHH
Q psy17493 7 TKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIK 63 (101)
Q Consensus 7 ~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~ 63 (101)
..+.+++||.|+.+.+.++.+++..+++.++++||++||++|.||+++|..+++.+.
T Consensus 106 ~pii~v~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l~~~~~ 162 (164)
T smart00173 106 VPIVLVGNKCDLESERVVSTEEGKELARQWGCPFLETSAKERVNVDEAFYDLVREIR 162 (164)
T ss_pred CCEEEEEECccccccceEcHHHHHHHHHHcCCEEEEeecCCCCCHHHHHHHHHHHHh
Confidence 345678999999877888889999999999999999999999999999999987654
No 65
>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=99.26 E-value=2.2e-11 Score=74.74 Aligned_cols=56 Identities=36% Similarity=0.462 Sum_probs=49.7
Q ss_pred CCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHH
Q psy17493 7 TKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDI 62 (101)
Q Consensus 7 ~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i 62 (101)
.++.+++||+|+...+.++.+++..+++.++.+||++||++|.||+++|..+++.+
T Consensus 108 ~piiiv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l~~~~ 163 (164)
T cd04145 108 FPMILVGNKADLEHQRKVSREEGQELARKLKIPYIETSAKDRLNVDKAFHDLVRVI 163 (164)
T ss_pred CCEEEEeeCccccccceecHHHHHHHHHHcCCcEEEeeCCCCCCHHHHHHHHHHhh
Confidence 45677899999987788888899999999999999999999999999999998753
No 66
>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=99.25 E-value=2.1e-11 Score=76.99 Aligned_cols=55 Identities=13% Similarity=0.065 Sum_probs=45.7
Q ss_pred cEEeecCCCCC-----CCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHH
Q psy17493 10 KYIEVPNFVSS-----MPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKA 64 (101)
Q Consensus 10 ~lv~nk~Dl~~-----~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~ 64 (101)
.||+||+||.. .+.+..++++.+|+.++++||++|||+|.||+++|..+++.+++
T Consensus 108 ilVgnK~Dl~~~~~~~~~~~~~~~~~~~a~~~~~~~~e~SAk~g~~v~~lf~~l~~~l~~ 167 (182)
T cd04128 108 ILVGTKYDLFADLPPEEQEEITKQARKYAKAMKAPLIFCSTSHSINVQKIFKIVLAKAFD 167 (182)
T ss_pred EEEEEchhccccccchhhhhhHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHHHHHHHh
Confidence 47899999841 22223578889999999999999999999999999999998875
No 67
>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=99.24 E-value=2.4e-11 Score=75.46 Aligned_cols=57 Identities=23% Similarity=0.216 Sum_probs=48.7
Q ss_pred cCCCcEEeecCCCCCC------------CCCCHHHHHHHHHHhCC-eEEEeccCCCCCHHHHHHHHHHHH
Q psy17493 6 NTKSKYIEVPNFVSSM------------PQVSRERGEQLAIEYGI-KFMETSAKNSINVEDAFFTLARDI 62 (101)
Q Consensus 6 ~~~~~lv~nk~Dl~~~------------~~v~~~~~~~~a~~~~~-~~~etSAk~~~~V~~~F~~~~~~i 62 (101)
+..+.+++||.|+.+. +.++.+++..+++..+. .|||+||++|.||+++|..+++.+
T Consensus 104 ~~piivv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~e~Sa~~~~gi~~~f~~~~~~~ 173 (174)
T cd04135 104 NVPYLLVGTQIDLRDDPKTLARLNDMKEKPVTVEQGQKLAKEIGAHCYVECSALTQKGLKTVFDEAILAI 173 (174)
T ss_pred CCCEEEEeEchhhhcChhhHHHHhhccCCCCCHHHHHHHHHHcCCCEEEEecCCcCCCHHHHHHHHHHHh
Confidence 4556778999998542 47888999999999985 799999999999999999999875
No 68
>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=99.24 E-value=3.9e-11 Score=76.99 Aligned_cols=58 Identities=21% Similarity=0.229 Sum_probs=48.5
Q ss_pred cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHHH
Q psy17493 6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQ 65 (101)
Q Consensus 6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~~ 65 (101)
+..+.||+||.|+.. +.+..+. ..+++..++.||||||++|.||+++|..+++.++..
T Consensus 99 ~~piilvgNK~Dl~~-~~v~~~~-~~~~~~~~~~~~e~SAk~~~~v~~~F~~l~~~i~~~ 156 (200)
T smart00176 99 NIPIVLCGNKVDVKD-RKVKAKS-ITFHRKKNLQYYDISAKSNYNFEKPFLWLARKLIGD 156 (200)
T ss_pred CCCEEEEEECccccc-ccCCHHH-HHHHHHcCCEEEEEeCCCCCCHHHHHHHHHHHHHhc
Confidence 456678899999964 5666554 478888899999999999999999999999988764
No 69
>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=99.23 E-value=3.5e-11 Score=74.74 Aligned_cols=56 Identities=25% Similarity=0.269 Sum_probs=50.9
Q ss_pred CCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCC---CCCHHHHHHHHHHHH
Q psy17493 7 TKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKN---SINVEDAFFTLARDI 62 (101)
Q Consensus 7 ~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~---~~~V~~~F~~~~~~i 62 (101)
.++.+|+||.|+...+.++.+++..+++.++.+||||||++ +.||+++|..+++.+
T Consensus 110 ~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~~~~i~~~f~~l~~~~ 168 (170)
T cd04115 110 VPRILVGNKCDLREQIQVPTDLAQRFADAHSMPLFETSAKDPSENDHVEAIFMTLAHKL 168 (170)
T ss_pred CCEEEEEECccchhhcCCCHHHHHHHHHHcCCcEEEEeccCCcCCCCHHHHHHHHHHHh
Confidence 45677899999988889999999999999999999999999 999999999998765
No 70
>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=99.23 E-value=4e-11 Score=73.73 Aligned_cols=56 Identities=32% Similarity=0.388 Sum_probs=49.2
Q ss_pred CCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHH
Q psy17493 7 TKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDI 62 (101)
Q Consensus 7 ~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i 62 (101)
..+.+++||+|+...+.+...++..+++.++.+||++||++|.||+++|..+++.+
T Consensus 107 ~piviv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~l~~~l~~~l 162 (163)
T cd04176 107 VPIILVGNKVDLESEREVSSAEGRALAEEWGCPFMETSAKSKTMVNELFAEIVRQM 162 (163)
T ss_pred CCEEEEEECccchhcCccCHHHHHHHHHHhCCEEEEecCCCCCCHHHHHHHHHHhc
Confidence 44567899999977778888889999998999999999999999999999998753
No 71
>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=99.21 E-value=4.8e-11 Score=73.48 Aligned_cols=56 Identities=29% Similarity=0.374 Sum_probs=50.1
Q ss_pred CCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHH
Q psy17493 7 TKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDI 62 (101)
Q Consensus 7 ~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i 62 (101)
..+.+|+||.|+...+.+..++...++..+++.|+++||++|.||+++|+.++..+
T Consensus 109 ~pi~vv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~l~~~l~~~i 164 (165)
T cd01868 109 IVIMLVGNKSDLRHLRAVPTEEAKAFAEKNGLSFIETSALDGTNVEEAFKQLLTEI 164 (165)
T ss_pred CeEEEEEECccccccccCCHHHHHHHHHHcCCEEEEEECCCCCCHHHHHHHHHHHh
Confidence 44567899999988788999999999999999999999999999999999998765
No 72
>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=99.21 E-value=5.8e-11 Score=72.78 Aligned_cols=56 Identities=21% Similarity=0.265 Sum_probs=50.1
Q ss_pred cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHH
Q psy17493 6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARD 61 (101)
Q Consensus 6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~ 61 (101)
+.++.+++||.|+..++.++.+++..+++.++++||++||++|.|++++|..++..
T Consensus 106 ~~p~iiv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~l~~~l~~~ 161 (162)
T cd04106 106 DIPMVLVQTKIDLLDQAVITNEEAEALAKRLQLPLFRTSVKDDFNVTELFEYLAEK 161 (162)
T ss_pred CCCEEEEEEChhcccccCCCHHHHHHHHHHcCCeEEEEECCCCCCHHHHHHHHHHh
Confidence 34567889999998878899999999999999999999999999999999998753
No 73
>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=99.20 E-value=7.7e-11 Score=73.02 Aligned_cols=57 Identities=33% Similarity=0.477 Sum_probs=50.7
Q ss_pred CCCcEEeecCCCCCCCCCCHHHHHHHHHHhC-CeEEEeccCCCCCHHHHHHHHHHHHH
Q psy17493 7 TKSKYIEVPNFVSSMPQVSRERGEQLAIEYG-IKFMETSAKNSINVEDAFFTLARDIK 63 (101)
Q Consensus 7 ~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~-~~~~etSAk~~~~V~~~F~~~~~~i~ 63 (101)
..+.+++||.|+...+.++.+++..+++.++ ++||++||++|.||+++|..++..++
T Consensus 107 ~piiiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~~i~~~f~~i~~~~~ 164 (168)
T cd04177 107 VPMVLVGNKADLEDDRQVSREDGVSLSQQWGNVPFYETSARKRTNVDEVFIDLVRQII 164 (168)
T ss_pred CCEEEEEEChhccccCccCHHHHHHHHHHcCCceEEEeeCCCCCCHHHHHHHHHHHHh
Confidence 4456789999998778888899999999988 88999999999999999999998765
No 74
>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=99.20 E-value=7.6e-11 Score=71.94 Aligned_cols=56 Identities=38% Similarity=0.573 Sum_probs=48.5
Q ss_pred cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHH
Q psy17493 6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDI 62 (101)
Q Consensus 6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i 62 (101)
+.++.+|+||.|+.. +.+...++..+++..+.+|+++||++|.||+++|..+++.+
T Consensus 106 ~~piivv~nK~Dl~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~~ 161 (162)
T cd04138 106 DVPMVLVGNKCDLAA-RTVSSRQGQDLAKSYGIPYIETSAKTRQGVEEAFYTLVREI 161 (162)
T ss_pred CCCEEEEEECccccc-ceecHHHHHHHHHHhCCeEEEecCCCCCCHHHHHHHHHHHh
Confidence 345677899999865 67788889999999999999999999999999999998654
No 75
>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=99.20 E-value=1e-10 Score=72.51 Aligned_cols=59 Identities=42% Similarity=0.476 Sum_probs=52.8
Q ss_pred cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHH
Q psy17493 6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKA 64 (101)
Q Consensus 6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~ 64 (101)
+..+.+|+||.|+...+.++.+++..++..+++.|||+||+++.||+++|..+++.+++
T Consensus 109 ~~pvivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~~~~~~~~~~~ 167 (168)
T cd01866 109 NMTIMLIGNKCDLESRREVSYEEGEAFAKEHGLIFMETSAKTASNVEEAFINTAKEIYE 167 (168)
T ss_pred CCcEEEEEECcccccccCCCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHHHHHHHh
Confidence 34567889999998778899999999999999999999999999999999999988764
No 76
>PLN03071 GTP-binding nuclear protein Ran; Provisional
Probab=99.20 E-value=5.5e-11 Score=77.10 Aligned_cols=58 Identities=24% Similarity=0.268 Sum_probs=48.9
Q ss_pred cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHHH
Q psy17493 6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQ 65 (101)
Q Consensus 6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~~ 65 (101)
+..+.|||||.|+.+ +.+..+++ .+++.+++.|||||||+|.||+++|..+++.+++.
T Consensus 117 ~~piilvgNK~Dl~~-~~v~~~~~-~~~~~~~~~~~e~SAk~~~~i~~~f~~l~~~~~~~ 174 (219)
T PLN03071 117 NIPIVLCGNKVDVKN-RQVKAKQV-TFHRKKNLQYYEISAKSNYNFEKPFLYLARKLAGD 174 (219)
T ss_pred CCcEEEEEEchhhhh-ccCCHHHH-HHHHhcCCEEEEcCCCCCCCHHHHHHHHHHHHHcC
Confidence 456778999999964 55666666 78888899999999999999999999999988764
No 77
>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=99.17 E-value=1.2e-10 Score=72.58 Aligned_cols=56 Identities=21% Similarity=0.176 Sum_probs=47.4
Q ss_pred CcEEeecCCCCCCC--CCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHH
Q psy17493 9 SKYIEVPNFVSSMP--QVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKA 64 (101)
Q Consensus 9 ~~lv~nk~Dl~~~~--~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~ 64 (101)
+.+|+||.|+.+.+ .+..+++..++++++.+|+++||++|.||+++|..+++.+.+
T Consensus 109 iilVgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~g~~v~~lf~~l~~~~~~ 166 (170)
T cd04108 109 LFLVGTKKDLSSPAQYALMEQDAIKLAAEMQAEYWSVSALSGENVREFFFRVAALTFE 166 (170)
T ss_pred EEEEEEChhcCccccccccHHHHHHHHHHcCCeEEEEECCCCCCHHHHHHHHHHHHHH
Confidence 46789999996543 345778889999999999999999999999999999987753
No 78
>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=99.17 E-value=9.6e-11 Score=72.54 Aligned_cols=54 Identities=31% Similarity=0.302 Sum_probs=47.4
Q ss_pred CCCcEEeecCCCCCCCCCCHHHHHHHHHHhC-CeEEEeccCCCCCHHHHHHHHHHH
Q psy17493 7 TKSKYIEVPNFVSSMPQVSRERGEQLAIEYG-IKFMETSAKNSINVEDAFFTLARD 61 (101)
Q Consensus 7 ~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~-~~~~etSAk~~~~V~~~F~~~~~~ 61 (101)
..+.+++||.|+. .+.++.+++.++++.++ ..||++||++|.||.++|..+++.
T Consensus 115 ~piilv~nK~Dl~-~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~v~~~~~~~~~~ 169 (170)
T cd04116 115 FPFVVLGNKNDIP-ERQVSTEEAQAWCRENGDYPYFETSAKDATNVAAAFEEAVRR 169 (170)
T ss_pred CcEEEEEECcccc-ccccCHHHHHHHHHHCCCCeEEEEECCCCCCHHHHHHHHHhh
Confidence 3456789999996 57888999999999998 479999999999999999999875
No 79
>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=99.16 E-value=1e-10 Score=72.85 Aligned_cols=55 Identities=22% Similarity=0.253 Sum_probs=47.3
Q ss_pred cCCCcEEeecCCCCC------------CCCCCHHHHHHHHHHhCC-eEEEeccCCCCCHHHHHHHHHH
Q psy17493 6 NTKSKYIEVPNFVSS------------MPQVSRERGEQLAIEYGI-KFMETSAKNSINVEDAFFTLAR 60 (101)
Q Consensus 6 ~~~~~lv~nk~Dl~~------------~~~v~~~~~~~~a~~~~~-~~~etSAk~~~~V~~~F~~~~~ 60 (101)
+..+.+++||.|+.. .+.|+.+++..+++.++. .|+|+||++|.||+++|..++.
T Consensus 104 ~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~a~~~~~~~~~e~Sa~~~~~v~~lf~~~~~ 171 (173)
T cd04130 104 KAPIILVGTQADLRTDVNVLIQLARYGEKPVSQSRAKALAEKIGACEYIECSALTQKNLKEVFDTAIL 171 (173)
T ss_pred CCCEEEEeeChhhccChhHHHHHhhcCCCCcCHHHHHHHHHHhCCCeEEEEeCCCCCCHHHHHHHHHh
Confidence 345677899999853 578899999999999998 8999999999999999988764
No 80
>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=99.16 E-value=1.1e-10 Score=71.65 Aligned_cols=55 Identities=29% Similarity=0.334 Sum_probs=50.0
Q ss_pred CCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHH
Q psy17493 7 TKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARD 61 (101)
Q Consensus 7 ~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~ 61 (101)
..+.+++||.|+...+.+..+++..++..++..|+++||+++.||+++|..+++.
T Consensus 106 ~~iivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~~~~~~~~~ 160 (161)
T cd04113 106 IVVILVGNKSDLADQREVTFLEASRFAQENGLLFLETSALTGENVEEAFLKCARS 160 (161)
T ss_pred CeEEEEEEchhcchhccCCHHHHHHHHHHcCCEEEEEECCCCCCHHHHHHHHHHh
Confidence 4567789999998778899999999999999999999999999999999999875
No 81
>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=99.15 E-value=1.6e-10 Score=70.98 Aligned_cols=56 Identities=21% Similarity=0.296 Sum_probs=49.6
Q ss_pred CCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHH
Q psy17493 7 TKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDI 62 (101)
Q Consensus 7 ~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i 62 (101)
..+.+|+||+|+...+.+...++..++..++++|+++||++|.||+++|..+++.+
T Consensus 108 ~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~~ 163 (164)
T cd04101 108 MPGVLVGNKMDLADKAEVTDAQAQAFAQANQLKFFKTSALRGVGYEEPFESLARAF 163 (164)
T ss_pred CCEEEEEECcccccccCCCHHHHHHHHHHcCCeEEEEeCCCCCChHHHHHHHHHHh
Confidence 45677899999987788888888889888899999999999999999999998764
No 82
>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=99.14 E-value=1.9e-10 Score=71.39 Aligned_cols=56 Identities=20% Similarity=0.196 Sum_probs=45.9
Q ss_pred CCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHH
Q psy17493 7 TKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKA 64 (101)
Q Consensus 7 ~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~ 64 (101)
..+.+|+||+|+. .+.+.. ++.++++..+..|||+||++|.||+++|..+++.+++
T Consensus 105 ~piiiv~nK~Dl~-~~~~~~-~~~~~~~~~~~~~~e~Sa~~~~~v~~~f~~l~~~~~~ 160 (166)
T cd00877 105 IPIVLCGNKVDIK-DRKVKA-KQITFHRKKNLQYYEISAKSNYNFEKPFLWLARKLLG 160 (166)
T ss_pred CcEEEEEEchhcc-cccCCH-HHHHHHHHcCCEEEEEeCCCCCChHHHHHHHHHHHHh
Confidence 4566779999997 344543 4567888888999999999999999999999998875
No 83
>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=99.13 E-value=2.2e-10 Score=70.69 Aligned_cols=55 Identities=33% Similarity=0.312 Sum_probs=48.6
Q ss_pred CCCcEEeecCCCCCCCCCCHHHHHHHHHHhCC-eEEEeccCCCCCHHHHHHHHHHH
Q psy17493 7 TKSKYIEVPNFVSSMPQVSRERGEQLAIEYGI-KFMETSAKNSINVEDAFFTLARD 61 (101)
Q Consensus 7 ~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~-~~~etSAk~~~~V~~~F~~~~~~ 61 (101)
..+.+|+||.|+...+.+..+++..+++.++. .++|+||++|.||+++|..+++.
T Consensus 109 ~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~v~~~~~~l~~~ 164 (165)
T cd01864 109 VVLLLIGNKCDLEEQREVLFEEACTLAEKNGMLAVLETSAKESQNVEEAFLLMATE 164 (165)
T ss_pred CcEEEEEECcccccccccCHHHHHHHHHHcCCcEEEEEECCCCCCHHHHHHHHHHh
Confidence 34667899999988788899999999999886 68999999999999999999864
No 84
>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=99.12 E-value=3.9e-10 Score=68.98 Aligned_cols=57 Identities=35% Similarity=0.491 Sum_probs=49.6
Q ss_pred CCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHH
Q psy17493 7 TKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIK 63 (101)
Q Consensus 7 ~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~ 63 (101)
..+.+++||.|+...+.+...+...+++.++.+|+++||++|.||+++|..+++.+.
T Consensus 106 ~piiiv~NK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~~~ 162 (164)
T cd04139 106 VPLLLVGNKCDLEDKRQVSSEEAANLARQWGVPYVETSAKTRQNVEKAFYDLVREIR 162 (164)
T ss_pred CCEEEEEEccccccccccCHHHHHHHHHHhCCeEEEeeCCCCCCHHHHHHHHHHHHH
Confidence 445678999999766677888888999999999999999999999999999987664
No 85
>smart00175 RAB Rab subfamily of small GTPases. Rab GTPases are implicated in vesicle trafficking.
Probab=99.08 E-value=5.5e-10 Score=68.41 Aligned_cols=58 Identities=41% Similarity=0.472 Sum_probs=51.7
Q ss_pred CCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHH
Q psy17493 7 TKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKA 64 (101)
Q Consensus 7 ~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~ 64 (101)
..+.+++||.|+...+.+..+.+..+++.++++|+|+||++|.|++++|..+++.+.+
T Consensus 106 ~pivvv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~l~~~i~~~~~~ 163 (164)
T smart00175 106 VVIMLVGNKSDLEDQRQVSREEAEAFAEEHGLPFFETSAKTNTNVEEAFEELAREILK 163 (164)
T ss_pred CeEEEEEEchhcccccCCCHHHHHHHHHHcCCeEEEEeCCCCCCHHHHHHHHHHHHhh
Confidence 4567789999998777888899999999999999999999999999999999988754
No 86
>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=99.03 E-value=1.1e-09 Score=67.95 Aligned_cols=57 Identities=25% Similarity=0.286 Sum_probs=46.8
Q ss_pred cCCCcEEeecCCCCC------------CCCCCHHHHHHHHHHhCC-eEEEeccCCCCCHHHHHHHHHHHH
Q psy17493 6 NTKSKYIEVPNFVSS------------MPQVSRERGEQLAIEYGI-KFMETSAKNSINVEDAFFTLARDI 62 (101)
Q Consensus 6 ~~~~~lv~nk~Dl~~------------~~~v~~~~~~~~a~~~~~-~~~etSAk~~~~V~~~F~~~~~~i 62 (101)
+.++.+++||.|+.. .+.+...+++++++..+. .|+++||++|.||+++|..+++.+
T Consensus 105 ~~piilv~nK~Dl~~~~~~~~~i~~~~~~~v~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~~ 174 (175)
T cd01870 105 NVPIILVGNKKDLRNDEHTRRELAKMKQEPVKPEEGRDMANKIGAFGYMECSAKTKEGVREVFEMATRAA 174 (175)
T ss_pred CCCEEEEeeChhcccChhhhhhhhhccCCCccHHHHHHHHHHcCCcEEEEeccccCcCHHHHHHHHHHHh
Confidence 345667899999853 245778899999998885 799999999999999999998654
No 87
>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=99.03 E-value=1.2e-09 Score=72.25 Aligned_cols=57 Identities=21% Similarity=0.114 Sum_probs=48.7
Q ss_pred cCCCcEEeecCCCCCCCCCCHHHHHHHHHH-hCCeEEEeccCCCCCHHHHHHHHHHHH
Q psy17493 6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIE-YGIKFMETSAKNSINVEDAFFTLARDI 62 (101)
Q Consensus 6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~-~~~~~~etSAk~~~~V~~~F~~~~~~i 62 (101)
...+.||+||+|+...+.+..+++.+++.. .+..||++||++|.||+++|..+++.+
T Consensus 113 ~~piIivgNK~Dl~~~~~v~~~ei~~~~~~~~~~~~~evSAktg~gI~elf~~L~~~~ 170 (247)
T cd04143 113 KIPMVICGNKADRDFPREVQRDEVEQLVGGDENCAYFEVSAKKNSNLDEMFRALFSLA 170 (247)
T ss_pred CCcEEEEEECccchhccccCHHHHHHHHHhcCCCEEEEEeCCCCCCHHHHHHHHHHHh
Confidence 456678899999987788999998888764 467899999999999999999999855
No 88
>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=99.02 E-value=5.5e-10 Score=69.55 Aligned_cols=58 Identities=12% Similarity=0.144 Sum_probs=48.4
Q ss_pred cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCe-EEEeccCCCCCHHHHHHHHHHHHH
Q psy17493 6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIK-FMETSAKNSINVEDAFFTLARDIK 63 (101)
Q Consensus 6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~-~~etSAk~~~~V~~~F~~~~~~i~ 63 (101)
+..+.+|+||+|+.+.+.+...++..+++.+++. ++++||++|.||+++|..+++.++
T Consensus 108 ~~p~iiv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~~~ 166 (169)
T cd01892 108 EIPCLFVAAKADLDEQQQRYEVQPDEFCRKLGLPPPLHFSSKLGDSSNELFTKLATAAQ 166 (169)
T ss_pred CCeEEEEEEcccccccccccccCHHHHHHHcCCCCCEEEEeccCccHHHHHHHHHHHhh
Confidence 3456788999999766666666778889998874 799999999999999999998765
No 89
>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=99.01 E-value=1.7e-09 Score=66.30 Aligned_cols=55 Identities=33% Similarity=0.381 Sum_probs=49.2
Q ss_pred CCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHH
Q psy17493 8 KSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDI 62 (101)
Q Consensus 8 ~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i 62 (101)
.+.+++||.|+...+.++.+++..++..+++.++++||++|.||+++|..+++.+
T Consensus 108 ~iivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~l~~~l~~~l 162 (163)
T cd01860 108 IIALVGNKADLESKRQVSTEEAQEYADENGLLFFETSAKTGENVNELFTEIAKKL 162 (163)
T ss_pred eEEEEEECccccccCcCCHHHHHHHHHHcCCEEEEEECCCCCCHHHHHHHHHHHh
Confidence 3566789999987788889999999999999999999999999999999998865
No 90
>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=99.01 E-value=1.2e-09 Score=66.45 Aligned_cols=56 Identities=36% Similarity=0.519 Sum_probs=50.2
Q ss_pred cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHH
Q psy17493 6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARD 61 (101)
Q Consensus 6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~ 61 (101)
+..+.+++||+|+...+.++.+++..++..++.+|+++||+++.||+++|..+++.
T Consensus 104 ~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~l~~~l~~~ 159 (160)
T cd00876 104 DIPIVLVGNKCDLENERQVSKEEGKALAKEWGCPFIETSAKDNINIDEVFKLLVRE 159 (160)
T ss_pred CCcEEEEEECCcccccceecHHHHHHHHHHcCCcEEEeccCCCCCHHHHHHHHHhh
Confidence 45667889999998778888999999999999999999999999999999999865
No 91
>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=99.01 E-value=1.3e-09 Score=65.62 Aligned_cols=52 Identities=17% Similarity=0.100 Sum_probs=43.4
Q ss_pred CCCcEEeecCCCCCCCCCCHHHHHHHHHHhCC-eEEEeccCCCCCHHHHHHHHH
Q psy17493 7 TKSKYIEVPNFVSSMPQVSRERGEQLAIEYGI-KFMETSAKNSINVEDAFFTLA 59 (101)
Q Consensus 7 ~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~-~~~etSAk~~~~V~~~F~~~~ 59 (101)
.++.+++||+|+.+ +.+..+++.++++.++. +||++||++|.||+++|..++
T Consensus 89 ~p~ilv~NK~Dl~~-~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~ 141 (142)
T TIGR02528 89 KPVIGLVTKIDLAE-ADVDIERAKELLETAGAEPIFEISSVDEQGLEALVDYLN 141 (142)
T ss_pred CCeEEEEEeeccCC-cccCHHHHHHHHHHcCCCcEEEEecCCCCCHHHHHHHHh
Confidence 45677899999864 45667788888888886 799999999999999998874
No 92
>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=99.00 E-value=1.6e-09 Score=66.89 Aligned_cols=56 Identities=29% Similarity=0.335 Sum_probs=48.9
Q ss_pred CCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHH
Q psy17493 7 TKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDI 62 (101)
Q Consensus 7 ~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i 62 (101)
..+.+++||.|+.+.+.+..+.+..+.+.....++++||++|.|++++|..+++.+
T Consensus 113 ~~~i~v~NK~D~~~~~~i~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~l~~~i~~~~ 168 (169)
T cd04114 113 VITILVGNKIDLAERREVSQQRAEEFSDAQDMYYLETSAKESDNVEKLFLDLACRL 168 (169)
T ss_pred CeEEEEEECcccccccccCHHHHHHHHHHcCCeEEEeeCCCCCCHHHHHHHHHHHh
Confidence 34577899999987788888888888888888899999999999999999998764
No 93
>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=99.00 E-value=2.3e-09 Score=66.97 Aligned_cols=60 Identities=32% Similarity=0.432 Sum_probs=52.0
Q ss_pred cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHHH
Q psy17493 6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQ 65 (101)
Q Consensus 6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~~ 65 (101)
+..+.+++||+|+...+.+..++...+++.++.+++++||+++.||+++|..+++.+...
T Consensus 106 ~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~l~~~l~~~~~~~ 165 (180)
T cd04137 106 SVPIVLVGNKSDLHTQRQVSTEEGKELAESWGAAFLESSARENENVEEAFELLIEEIEKV 165 (180)
T ss_pred CCCEEEEEEchhhhhcCccCHHHHHHHHHHcCCeEEEEeCCCCCCHHHHHHHHHHHHHHh
Confidence 345678899999987777888888889998899999999999999999999999887654
No 94
>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=98.99 E-value=1.9e-09 Score=66.49 Aligned_cols=55 Identities=13% Similarity=0.050 Sum_probs=45.4
Q ss_pred CCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHH
Q psy17493 7 TKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKA 64 (101)
Q Consensus 7 ~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~ 64 (101)
.++.+++||.|+.. .+ .+++..+++.+++++|++||++|.||+++|+.+++.+++
T Consensus 105 ~p~ivv~nK~Dl~~--~~-~~~~~~~~~~~~~~~~~~Sa~~~~gv~~l~~~l~~~~~~ 159 (161)
T cd04124 105 IPCIVVANKIDLDP--SV-TQKKFNFAEKHNLPLYYVSAADGTNVVKLFQDAIKLAVS 159 (161)
T ss_pred CcEEEEEECccCch--hH-HHHHHHHHHHcCCeEEEEeCCCCCCHHHHHHHHHHHHHh
Confidence 45678899999853 22 355677888888999999999999999999999988775
No 95
>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=98.98 E-value=2.3e-09 Score=65.33 Aligned_cols=56 Identities=27% Similarity=0.319 Sum_probs=49.4
Q ss_pred CCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHH
Q psy17493 7 TKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDI 62 (101)
Q Consensus 7 ~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i 62 (101)
..+.+++||+|+...+.+..++...+++..+..+|++||+++.|++++|..+++.+
T Consensus 106 ~piiiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~gi~~~~~~l~~~~ 161 (162)
T cd04123 106 ISLVIVGNKIDLERQRVVSKSEAEEYAKSVGAKHFETSAKTGKGIEELFLSLAKRM 161 (162)
T ss_pred CeEEEEEECcccccccCCCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHHHHHh
Confidence 34567799999987788888889999999999999999999999999999998764
No 96
>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=98.97 E-value=3.4e-09 Score=65.41 Aligned_cols=59 Identities=36% Similarity=0.360 Sum_probs=51.2
Q ss_pred CCCcEEeecCCCCCCCCCCHHHHHHHHHHhC-CeEEEeccCCCCCHHHHHHHHHHHHHHH
Q psy17493 7 TKSKYIEVPNFVSSMPQVSRERGEQLAIEYG-IKFMETSAKNSINVEDAFFTLARDIKAQ 65 (101)
Q Consensus 7 ~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~-~~~~etSAk~~~~V~~~F~~~~~~i~~~ 65 (101)
.++.+++||+|+...+.++.++...+++..+ .++|++||++|.||+++|..+++.+++.
T Consensus 110 ~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~l~~~i~~~~~~~ 169 (172)
T cd01862 110 FPFVVLGNKIDLEEKRQVSTKKAQQWCQSNGNIPYFETSAKEAINVEQAFETIARKALEQ 169 (172)
T ss_pred ceEEEEEECcccccccccCHHHHHHHHHHcCCceEEEEECCCCCCHHHHHHHHHHHHHhc
Confidence 4556789999997667788888888988888 7899999999999999999999888765
No 97
>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=98.96 E-value=2.5e-09 Score=65.41 Aligned_cols=55 Identities=35% Similarity=0.339 Sum_probs=49.4
Q ss_pred CCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHH
Q psy17493 7 TKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARD 61 (101)
Q Consensus 7 ~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~ 61 (101)
..+.+++||.|+...+.+..++...+++..+..++++||+++.||+++|..+++.
T Consensus 106 ~~iilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~l~~~i~~~ 160 (161)
T cd01861 106 VIIVLVGNKTDLSDKRQVSTEEGEKKAKELNAMFIETSAKAGHNVKELFRKIASA 160 (161)
T ss_pred CEEEEEEEChhccccCccCHHHHHHHHHHhCCEEEEEeCCCCCCHHHHHHHHHHh
Confidence 5577889999997778888999999999999999999999999999999998764
No 98
>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=98.95 E-value=2e-09 Score=66.87 Aligned_cols=57 Identities=14% Similarity=0.029 Sum_probs=45.3
Q ss_pred CCCcEEeecCCCCCCCCCCHHHHHHHHHHhC------CeEEEeccCCCCCHHHHHHHHHHHHHHH
Q psy17493 7 TKSKYIEVPNFVSSMPQVSRERGEQLAIEYG------IKFMETSAKNSINVEDAFFTLARDIKAQ 65 (101)
Q Consensus 7 ~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~------~~~~etSAk~~~~V~~~F~~~~~~i~~~ 65 (101)
.++.|++||.|+. +.++.+++..++...+ ..|+++|||+|.||+++|..+++.+...
T Consensus 101 ~piilv~NK~Dl~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gv~~~f~~l~~~~~~~ 163 (169)
T cd04158 101 ALLLIFANKQDVA--GALSVEEMTELLSLHKLCCGRSWYIQGCDARSGMGLYEGLDWLSRQLVAA 163 (169)
T ss_pred CCEEEEEeCcCcc--cCCCHHHHHHHhCCccccCCCcEEEEeCcCCCCCCHHHHHHHHHHHHhhc
Confidence 4567789999996 3577888888775432 2688999999999999999999877654
No 99
>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=98.92 E-value=4.8e-09 Score=64.22 Aligned_cols=54 Identities=28% Similarity=0.268 Sum_probs=46.7
Q ss_pred CCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHH
Q psy17493 7 TKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARD 61 (101)
Q Consensus 7 ~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~ 61 (101)
..+.+++||.|+. .+.+..+++..++..++++|+++||++|.||+++|..+.+.
T Consensus 107 ~~~~iv~nK~D~~-~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~~~~~ 160 (161)
T cd01863 107 IVKMLVGNKIDKE-NREVTREEGLKFARKHNMLFIETSAKTRDGVQQAFEELVEK 160 (161)
T ss_pred CcEEEEEECCccc-ccccCHHHHHHHHHHcCCEEEEEecCCCCCHHHHHHHHHHh
Confidence 4457789999996 45677788999999999999999999999999999998764
No 100
>cd01897 NOG NOG1 is a nucleolar GTP-binding protein present in eukaryotes ranging from trypanosomes to humans. NOG1 is functionally linked to ribosome biogenesis and found in association with the nuclear pore complexes and identified in many preribosomal complexes. Thus, defects in NOG1 can lead to defects in 60S biogenesis. The S. cerevisiae NOG1 gene is essential for cell viability, and mutations in the predicted G motifs abrogate function. It is a member of the ODN family of GTP-binding proteins that also includes the bacterial Obg and DRG proteins.
Probab=98.91 E-value=1.9e-09 Score=66.49 Aligned_cols=55 Identities=11% Similarity=-0.025 Sum_probs=43.4
Q ss_pred cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHH
Q psy17493 6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDI 62 (101)
Q Consensus 6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i 62 (101)
+.++.+++||.|+...+.+.. ...++...+.++|++||++|.||+++|..+++.+
T Consensus 113 ~~pvilv~NK~Dl~~~~~~~~--~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~~ 167 (168)
T cd01897 113 NKPVIVVLNKIDLLTFEDLSE--IEEEEELEGEEVLKISTLTEEGVDEVKNKACELL 167 (168)
T ss_pred cCCeEEEEEccccCchhhHHH--HHHhhhhccCceEEEEecccCCHHHHHHHHHHHh
Confidence 456778899999975444432 5566666678899999999999999999998765
No 101
>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=98.90 E-value=1.9e-09 Score=71.20 Aligned_cols=54 Identities=15% Similarity=0.123 Sum_probs=43.9
Q ss_pred cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHH
Q psy17493 6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLAR 60 (101)
Q Consensus 6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~ 60 (101)
+.++.||+||+||.+.+.+..+.+..|+ .+|+.+|++||++|.||+++|..++.
T Consensus 67 ~i~~vIV~NK~DL~~~~~~~~~~~~~~~-~~g~~v~~~SAktg~gi~eLf~~l~~ 120 (245)
T TIGR00157 67 NIEPIIVLNKIDLLDDEDMEKEQLDIYR-NIGYQVLMTSSKNQDGLKELIEALQN 120 (245)
T ss_pred CCCEEEEEECcccCCCHHHHHHHHHHHH-HCCCeEEEEecCCchhHHHHHhhhcC
Confidence 4567789999999766666656666665 47899999999999999999998864
No 102
>KOG0393|consensus
Probab=98.89 E-value=2.2e-09 Score=68.56 Aligned_cols=59 Identities=24% Similarity=0.292 Sum_probs=49.1
Q ss_pred CCCcEEeecCCCCC------------CCCCCHHHHHHHHHHhC-CeEEEeccCCCCCHHHHHHHHHHHHHHH
Q psy17493 7 TKSKYIEVPNFVSS------------MPQVSRERGEQLAIEYG-IKFMETSAKNSINVEDAFFTLARDIKAQ 65 (101)
Q Consensus 7 ~~~~lv~nk~Dl~~------------~~~v~~~~~~~~a~~~~-~~~~etSAk~~~~V~~~F~~~~~~i~~~ 65 (101)
.++.|||.|.||.+ ...|+.+++..+|++.| ..|+|+||++..||.++|+.+++..+..
T Consensus 110 vpiiLVGtk~DLr~d~~~~~~l~~~~~~~Vt~~~g~~lA~~iga~~y~EcSa~tq~~v~~vF~~a~~~~l~~ 181 (198)
T KOG0393|consen 110 VPIILVGTKADLRDDPSTLEKLQRQGLEPVTYEQGLELAKEIGAVKYLECSALTQKGVKEVFDEAIRAALRP 181 (198)
T ss_pred CCEEEEeehHHhhhCHHHHHHHHhccCCcccHHHHHHHHHHhCcceeeeehhhhhCCcHHHHHHHHHHHhcc
Confidence 45556666777642 24799999999999999 5799999999999999999999988864
No 103
>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=98.87 E-value=5.5e-09 Score=64.61 Aligned_cols=59 Identities=17% Similarity=0.148 Sum_probs=43.3
Q ss_pred cCCCcEEeecCCCCCCCCC--CHHHHHHHHHHhC--CeEEEeccCCCCCHHHHHHHHHHHHHH
Q psy17493 6 NTKSKYIEVPNFVSSMPQV--SRERGEQLAIEYG--IKFMETSAKNSINVEDAFFTLARDIKA 64 (101)
Q Consensus 6 ~~~~~lv~nk~Dl~~~~~v--~~~~~~~~a~~~~--~~~~etSAk~~~~V~~~F~~~~~~i~~ 64 (101)
+.++.+|+||+|+.+.+.. ..++...+++.++ ..|+++||++|.||+++|..+++.+++
T Consensus 103 ~~pviiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~v~~lf~~~~~~~~~ 165 (166)
T cd01893 103 KVPIILVGNKSDLRDGSSQAGLEEEMLPIMNEFREIETCVECSAKTLINVSEVFYYAQKAVLH 165 (166)
T ss_pred CCCEEEEEEchhcccccchhHHHHHHHHHHHHHhcccEEEEeccccccCHHHHHHHHHHHhcC
Confidence 4566778999999765443 2344444555543 379999999999999999999887653
No 104
>cd04147 Ras_dva Ras-dva subfamily. Ras-dva (Ras - dorsal-ventral anterior localization) subfamily consists of a set of proteins characterized only in Xenopus leavis, to date. In Xenopus Ras-dva expression is activated by the transcription factor Otx2 and begins during gastrulation throughout the anterior ectoderm. Ras-dva expression is inhibited in the anterior neural plate by factor Xanf1. Downregulation of Ras-dva results in head development abnormalities through the inhibition of several regulators of the anterior neural plate and folds patterning, including Otx2, BF-1, Xag2, Pax6, Slug, and Sox9. Downregulation of Ras-dva also interferes with the FGF-8a signaling within the anterior ectoderm. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Ras proteins.
Probab=98.86 E-value=1.2e-08 Score=64.98 Aligned_cols=58 Identities=22% Similarity=0.166 Sum_probs=46.5
Q ss_pred cCCCcEEeecCCCCC-CCCCCHHHHHHHHH-HhCCeEEEeccCCCCCHHHHHHHHHHHHH
Q psy17493 6 NTKSKYIEVPNFVSS-MPQVSRERGEQLAI-EYGIKFMETSAKNSINVEDAFFTLARDIK 63 (101)
Q Consensus 6 ~~~~~lv~nk~Dl~~-~~~v~~~~~~~~a~-~~~~~~~etSAk~~~~V~~~F~~~~~~i~ 63 (101)
+..+.+|+||.|+.. .+.+..+++.+.+. .++..|+++||++|.||+++|..+++.+.
T Consensus 104 ~~piilv~NK~Dl~~~~~~v~~~~~~~~~~~~~~~~~~~~Sa~~g~gv~~l~~~l~~~~~ 163 (198)
T cd04147 104 FVPIVVVGNKADSLEEERQVPAKDALSTVELDWNCGFVETSAKDNENVLEVFKELLRQAN 163 (198)
T ss_pred CCcEEEEEEccccccccccccHHHHHHHHHhhcCCcEEEecCCCCCCHHHHHHHHHHHhh
Confidence 456788899999865 46677766665554 45688999999999999999999998765
No 105
>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=98.85 E-value=7.2e-09 Score=63.88 Aligned_cols=54 Identities=26% Similarity=0.286 Sum_probs=45.6
Q ss_pred CCCcEEeecCCCCCCC-----------CCCHHHHHHHHHHhCC-eEEEeccCCCCCHHHHHHHHHH
Q psy17493 7 TKSKYIEVPNFVSSMP-----------QVSRERGEQLAIEYGI-KFMETSAKNSINVEDAFFTLAR 60 (101)
Q Consensus 7 ~~~~lv~nk~Dl~~~~-----------~v~~~~~~~~a~~~~~-~~~etSAk~~~~V~~~F~~~~~ 60 (101)
..+.+|+||+|+...+ .+..+++..++..++. .|+++||++|.||+++|..+++
T Consensus 105 ~p~ivv~nK~Dl~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~i~~ 170 (171)
T cd00157 105 VPIILVGTKIDLRDDENTLKKLEKGKEPITPEEGEKLAKEIGAIGYMECSALTQEGVKEVFEEAIR 170 (171)
T ss_pred CCEEEEEccHHhhhchhhhhhcccCCCccCHHHHHHHHHHhCCeEEEEeecCCCCCHHHHHHHHhh
Confidence 5567889999986433 4578889999999997 8999999999999999998875
No 106
>PRK15467 ethanolamine utilization protein EutP; Provisional
Probab=98.84 E-value=1e-08 Score=63.37 Aligned_cols=57 Identities=14% Similarity=0.142 Sum_probs=45.7
Q ss_pred cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCC--eEEEeccCCCCCHHHHHHHHHHHHHHH
Q psy17493 6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGI--KFMETSAKNSINVEDAFFTLARDIKAQ 65 (101)
Q Consensus 6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~--~~~etSAk~~~~V~~~F~~~~~~i~~~ 65 (101)
+.++.+++||.|+.+ ...+...++++..+. ++|++||++|.||+++|..+++.+.+.
T Consensus 91 ~~~ii~v~nK~Dl~~---~~~~~~~~~~~~~~~~~p~~~~Sa~~g~gi~~l~~~l~~~~~~~ 149 (158)
T PRK15467 91 SKRQIAVISKTDMPD---ADVAATRKLLLETGFEEPIFELNSHDPQSVQQLVDYLASLTKQE 149 (158)
T ss_pred CCCeEEEEEccccCc---ccHHHHHHHHHHcCCCCCEEEEECCCccCHHHHHHHHHHhchhh
Confidence 445677899999854 346677788888874 899999999999999999998766543
No 107
>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=98.83 E-value=1.3e-09 Score=67.52 Aligned_cols=54 Identities=15% Similarity=0.014 Sum_probs=42.7
Q ss_pred cCCCcEEeecCCCCCCCCCCH----HHHHHHHHHhCCeEEEeccCC------CCCHHHHHHHHH
Q psy17493 6 NTKSKYIEVPNFVSSMPQVSR----ERGEQLAIEYGIKFMETSAKN------SINVEDAFFTLA 59 (101)
Q Consensus 6 ~~~~~lv~nk~Dl~~~~~v~~----~~~~~~a~~~~~~~~etSAk~------~~~V~~~F~~~~ 59 (101)
+..+.+|+||.|+...+.++. .++..++++.++.||+|||++ ++||.++|..+.
T Consensus 99 ~~piilv~NK~Dl~~~~~~~~i~~~~~~~~~~~~~~~~~~~~Sa~~~~s~~~~~~v~~~~~~~~ 162 (164)
T cd04162 99 DLPLVVLANKQDLPAARSVQEIHKELELEPIARGRRWILQGTSLDDDGSPSRMEAVKDLLSQLI 162 (164)
T ss_pred CCcEEEEEeCcCCcCCCCHHHHHHHhCChhhcCCCceEEEEeeecCCCChhHHHHHHHHHHHHh
Confidence 345678899999976665543 345677777888999999999 999999999875
No 108
>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=98.83 E-value=7.4e-09 Score=64.44 Aligned_cols=53 Identities=4% Similarity=-0.117 Sum_probs=40.4
Q ss_pred cCCCcEEeecCCCCCCCCCCHHHHHHHHHH-----hCCeEEEeccCCCCCHHHHHHHHHH
Q psy17493 6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIE-----YGIKFMETSAKNSINVEDAFFTLAR 60 (101)
Q Consensus 6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~-----~~~~~~etSAk~~~~V~~~F~~~~~ 60 (101)
+.++.||+||+|+.. .++.+++..+... ....+|++|||+|.||+++|..|++
T Consensus 110 ~~piilv~NK~Dl~~--~~~~~~i~~~~~~~~~~~~~~~~~~~SAk~g~gv~~~~~~l~~ 167 (168)
T cd04149 110 DALLLVFANKQDLPD--AMKPHEIQEKLGLTRIRDRNWYVQPSCATSGDGLYEGLTWLSS 167 (168)
T ss_pred CCcEEEEEECcCCcc--CCCHHHHHHHcCCCccCCCcEEEEEeeCCCCCChHHHHHHHhc
Confidence 356778899999864 4667777766432 2246899999999999999998864
No 109
>cd00154 Rab Rab family. Rab GTPases form the largest family within the Ras superfamily. There are at least 60 Rab genes in the human genome, and a number of Rab GTPases are conserved from yeast to humans. Rab GTPases are small, monomeric proteins that function as molecular switches to regulate vesicle trafficking pathways. The different Rab GTPases are localized to the cytosolic face of specific intracellular membranes, where they regulate distinct steps in membrane traffic pathways. In the GTP-bound form, Rab GTPases recruit specific sets of effector proteins onto membranes. Through their effectors, Rab GTPases regulate vesicle formation, actin- and tubulin-dependent vesicle movement, and membrane fusion. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide di
Probab=98.79 E-value=1.8e-08 Score=60.73 Aligned_cols=53 Identities=38% Similarity=0.390 Sum_probs=46.9
Q ss_pred CCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHH
Q psy17493 7 TKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLA 59 (101)
Q Consensus 7 ~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~ 59 (101)
.++.+++||.|+.....+..++...++..++.+|+++||+++.||+++|..++
T Consensus 106 ~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~i~ 158 (159)
T cd00154 106 IPIILVGNKIDLEDQRQVSTEEAQQFAKENGLLFFETSAKTGENVEELFQSLA 158 (159)
T ss_pred CcEEEEEEcccccccccccHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHh
Confidence 56677899999975677888999999999999999999999999999998875
No 110
>cd04154 Arl2 Arl2 subfamily. Arl2 (Arf-like 2) GTPases are members of the Arf family that bind GDP and GTP with very low affinity. Unlike most Arf family proteins, Arl2 is not myristoylated at its N-terminal helix. The protein PDE-delta, first identified in photoreceptor rod cells, binds specifically to Arl2 and is structurally very similar to RhoGDI. Despite the high structural similarity between Arl2 and Rho proteins and between PDE-delta and RhoGDI, the interactions between the GTPases and their effectors are very different. In its GTP bound form, Arl2 interacts with the protein Binder of Arl2 (BART), and the complex is believed to play a role in mitochondrial adenine nucleotide transport. In its GDP bound form, Arl2 interacts with tubulin- folding Cofactor D; this interaction is believed to play a role in regulation of microtubule dynamics that impact the cytoskeleton, cell division, and cytokinesis.
Probab=98.76 E-value=1.8e-08 Score=62.75 Aligned_cols=53 Identities=9% Similarity=-0.058 Sum_probs=39.7
Q ss_pred cCCCcEEeecCCCCCCCCCCHHHHHHHHH-----HhCCeEEEeccCCCCCHHHHHHHHHH
Q psy17493 6 NTKSKYIEVPNFVSSMPQVSRERGEQLAI-----EYGIKFMETSAKNSINVEDAFFTLAR 60 (101)
Q Consensus 6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~-----~~~~~~~etSAk~~~~V~~~F~~~~~ 60 (101)
+.++.+|+||+|+... ...++...+.+ ..+++||++||++|.||+++|..++.
T Consensus 115 ~~p~iiv~nK~Dl~~~--~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~~~l~~ 172 (173)
T cd04154 115 GATLLILANKQDLPGA--LSEEEIREALELDKISSHHWRIQPCSAVTGEGLLQGIDWLVD 172 (173)
T ss_pred CCCEEEEEECcccccC--CCHHHHHHHhCccccCCCceEEEeccCCCCcCHHHHHHHHhc
Confidence 4567788999998643 35555555543 23568999999999999999988763
No 111
>KOG4423|consensus
Probab=98.75 E-value=2.6e-08 Score=63.07 Aligned_cols=64 Identities=20% Similarity=0.167 Sum_probs=49.6
Q ss_pred ccCCCcEE--eecCCCCCCCCCC-HHHHHHHHHHhCC-eEEEeccCCCCCHHHHHHHHHHHHHHHHhh
Q psy17493 5 INTKSKYI--EVPNFVSSMPQVS-RERGEQLAIEYGI-KFMETSAKNSINVEDAFFTLARDIKAQTEK 68 (101)
Q Consensus 5 ~~~~~~lv--~nk~Dl~~~~~v~-~~~~~~~a~~~~~-~~~etSAk~~~~V~~~F~~~~~~i~~~~~~ 68 (101)
.|+++++| .||||.+..-... .....+|.+++|. .|+|||||.+.||+|+-+.+++.++.+...
T Consensus 132 ng~Pv~~vllankCd~e~~a~~~~~~~~d~f~kengf~gwtets~Kenkni~Ea~r~lVe~~lvnd~q 199 (229)
T KOG4423|consen 132 NGTPVPCVLLANKCDQEKSAKNEATRQFDNFKKENGFEGWTETSAKENKNIPEAQRELVEKILVNDEQ 199 (229)
T ss_pred CCCcchheeccchhccChHhhhhhHHHHHHHHhccCccceeeeccccccChhHHHHHHHHHHHhhccC
Confidence 36666555 6899987533332 4677788999995 599999999999999999999998876533
No 112
>PRK04213 GTP-binding protein; Provisional
Probab=98.75 E-value=3.4e-08 Score=62.81 Aligned_cols=54 Identities=13% Similarity=0.048 Sum_probs=42.6
Q ss_pred cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCC---------eEEEeccCCCCCHHHHHHHHHHHHH
Q psy17493 6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGI---------KFMETSAKNSINVEDAFFTLARDIK 63 (101)
Q Consensus 6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~---------~~~etSAk~~~~V~~~F~~~~~~i~ 63 (101)
+.++.+|+||.|+.+.+ .+.+..+++.+++ ++|++||++| ||+++|..+++.+.
T Consensus 130 ~~p~iiv~NK~Dl~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~g-gi~~l~~~l~~~~~ 192 (201)
T PRK04213 130 GIPPIVAVNKMDKIKNR---DEVLDEIAERLGLYPPWRQWQDIIAPISAKKG-GIEELKEAIRKRLH 192 (201)
T ss_pred CCCeEEEEECccccCcH---HHHHHHHHHHhcCCccccccCCcEEEEecccC-CHHHHHHHHHHhhc
Confidence 55678889999986433 4466777777775 4799999999 99999999987654
No 113
>cd00879 Sar1 Sar1 subfamily. Sar1 is an essential component of COPII vesicle coats involved in export of cargo from the ER. The GTPase activity of Sar1 functions as a molecular switch to control protein-protein and protein-lipid interactions that direct vesicle budding from the ER. Activation of the GDP to the GTP-bound form of Sar1 involves the membrane-associated guanine nucleotide exchange factor (GEF) Sec12. Sar1 is unlike all Ras superfamily GTPases that use either myristoyl or prenyl groups to direct membrane association and function, in that Sar1 lacks such modification. Instead, Sar1 contains a unique nine-amino-acid N-terminal extension. This extension contains an evolutionarily conserved cluster of bulky hydrophobic amino acids, referred to as the Sar1-N-terminal activation recruitment (STAR) motif. The STAR motif mediates the recruitment of Sar1 to ER membranes and facilitates its interaction with mammalian Sec12 GEF leading to activation.
Probab=98.74 E-value=1.9e-08 Score=63.39 Aligned_cols=54 Identities=20% Similarity=0.043 Sum_probs=42.5
Q ss_pred cCCCcEEeecCCCCCCCCCCHHHHHHHHHHh----------------CCeEEEeccCCCCCHHHHHHHHHHH
Q psy17493 6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEY----------------GIKFMETSAKNSINVEDAFFTLARD 61 (101)
Q Consensus 6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~----------------~~~~~etSAk~~~~V~~~F~~~~~~ 61 (101)
+.++.+++||.|+. +.++.++.+.+...+ ...+|+|||++|.||+++|..+++.
T Consensus 120 ~~pvivv~NK~Dl~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gv~e~~~~l~~~ 189 (190)
T cd00879 120 NVPFLILGNKIDLP--GAVSEEELRQALGLYGTTTGKGVSLKVSGIRPIEVFMCSVVKRQGYGEAFRWLSQY 189 (190)
T ss_pred CCCEEEEEeCCCCC--CCcCHHHHHHHhCcccccccccccccccCceeEEEEEeEecCCCChHHHHHHHHhh
Confidence 45677789999986 367777777776531 2468999999999999999999764
No 114
>PRK12299 obgE GTPase CgtA; Reviewed
Probab=98.73 E-value=4e-08 Score=67.59 Aligned_cols=59 Identities=8% Similarity=-0.027 Sum_probs=47.0
Q ss_pred cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHH
Q psy17493 6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKA 64 (101)
Q Consensus 6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~ 64 (101)
..++.+|+||+|+.+...+..++...+++..+.++|++||+++.||+++|..+++.+.+
T Consensus 271 ~kp~IIV~NKiDL~~~~~~~~~~~~~~~~~~~~~i~~iSAktg~GI~eL~~~L~~~l~~ 329 (335)
T PRK12299 271 DKPRILVLNKIDLLDEEEEREKRAALELAALGGPVFLISAVTGEGLDELLRALWELLEE 329 (335)
T ss_pred cCCeEEEEECcccCCchhHHHHHHHHHHHhcCCCEEEEEcCCCCCHHHHHHHHHHHHHh
Confidence 34567889999997655555555666666677899999999999999999999887654
No 115
>PLN00223 ADP-ribosylation factor; Provisional
Probab=98.71 E-value=5.6e-08 Score=61.26 Aligned_cols=54 Identities=9% Similarity=0.092 Sum_probs=39.3
Q ss_pred cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCC--------eEEEeccCCCCCHHHHHHHHHHHHHH
Q psy17493 6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGI--------KFMETSAKNSINVEDAFFTLARDIKA 64 (101)
Q Consensus 6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~--------~~~etSAk~~~~V~~~F~~~~~~i~~ 64 (101)
+.++.|++||.|+.+. ++.++ +++..++ .++++||++|+||+++|+.++..+.+
T Consensus 118 ~~piilv~NK~Dl~~~--~~~~~---~~~~l~l~~~~~~~~~~~~~Sa~~g~gv~e~~~~l~~~~~~ 179 (181)
T PLN00223 118 DAVLLVFANKQDLPNA--MNAAE---ITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIAN 179 (181)
T ss_pred CCCEEEEEECCCCCCC--CCHHH---HHHHhCccccCCCceEEEeccCCCCCCHHHHHHHHHHHHhh
Confidence 3557788999998643 33333 4444432 35689999999999999999987764
No 116
>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=98.70 E-value=5.2e-08 Score=60.62 Aligned_cols=55 Identities=20% Similarity=0.154 Sum_probs=41.9
Q ss_pred cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCe---EEEeccCCCCCHHHHHHHHHHHH
Q psy17493 6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIK---FMETSAKNSINVEDAFFTLARDI 62 (101)
Q Consensus 6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~---~~etSAk~~~~V~~~F~~~~~~i 62 (101)
+.++.+++||.|+.+.+ ..+...++++.+++. +|++||++|.||+++|..+++.+
T Consensus 119 ~~~iiiv~NK~Dl~~~~--~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~~~l~~~~ 176 (179)
T cd01890 119 NLEIIPVINKIDLPSAD--PERVKQQIEDVLGLDPSEAILVSAKTGLGVEDLLEAIVERI 176 (179)
T ss_pred CCCEEEEEECCCCCcCC--HHHHHHHHHHHhCCCcccEEEeeccCCCCHHHHHHHHHhhC
Confidence 45567889999986422 233445677777763 89999999999999999998754
No 117
>PTZ00132 GTP-binding nuclear protein Ran; Provisional
Probab=98.70 E-value=7.6e-08 Score=61.98 Aligned_cols=56 Identities=21% Similarity=0.259 Sum_probs=45.0
Q ss_pred CCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHHH
Q psy17493 8 KSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQ 65 (101)
Q Consensus 8 ~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~~ 65 (101)
.+.+++||.|+.+ +.+..+. ..+++..++.|+++||++|.||+++|..+++.+...
T Consensus 115 ~i~lv~nK~Dl~~-~~~~~~~-~~~~~~~~~~~~e~Sa~~~~~v~~~f~~ia~~l~~~ 170 (215)
T PTZ00132 115 PIVLVGNKVDVKD-RQVKARQ-ITFHRKKNLQYYDISAKSNYNFEKPFLWLARRLTND 170 (215)
T ss_pred CEEEEEECccCcc-ccCCHHH-HHHHHHcCCEEEEEeCCCCCCHHHHHHHHHHHHhhc
Confidence 3456899999864 4444443 467888889999999999999999999999988764
No 118
>cd01898 Obg Obg subfamily. The Obg nucleotide binding protein subfamily has been implicated in stress response, chromosome partitioning, replication initiation, mycelium development, and sporulation. Obg proteins are among a large group of GTP binding proteins conserved from bacteria to humans. The E. coli homolog, ObgE is believed to function in ribosomal biogenesis. Members of the subfamily contain two equally and highly conserved domains, a C-terminal GTP binding domain and an N-terminal glycine-rich domain.
Probab=98.64 E-value=6.8e-08 Score=59.50 Aligned_cols=55 Identities=15% Similarity=0.044 Sum_probs=41.8
Q ss_pred cCCCcEEeecCCCCCCCCCCHHHHHHHHHH-hCCeEEEeccCCCCCHHHHHHHHHHH
Q psy17493 6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIE-YGIKFMETSAKNSINVEDAFFTLARD 61 (101)
Q Consensus 6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~-~~~~~~etSAk~~~~V~~~F~~~~~~ 61 (101)
+..+.+|+||+|+.+...+ .+....+... .+.+++++||+++.||+++|..+++.
T Consensus 114 ~~p~ivv~NK~Dl~~~~~~-~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~i~~~ 169 (170)
T cd01898 114 EKPRIVVLNKIDLLDEEEL-FELLKELLKELWGKPVFPISALTGEGLDELLRKLAEL 169 (170)
T ss_pred ccccEEEEEchhcCCchhh-HHHHHHHHhhCCCCCEEEEecCCCCCHHHHHHHHHhh
Confidence 4566788999999654444 3444455555 36789999999999999999998764
No 119
>cd04150 Arf1_5_like Arf1-Arf5-like subfamily. This subfamily contains Arf1, Arf2, Arf3, Arf4, Arf5, and related proteins. Arfs1-5 are soluble proteins that are crucial for assembling coat proteins during vesicle formation. Each contains an N-terminal myristoylated amphipathic helix that is folded into the protein in the GDP-bound state. GDP/GTP exchange exposes the helix, which anchors to the membrane. Following GTP hydrolysis, the helix dissociates from the membrane and folds back into the protein. A general feature of Arf1-5 signaling may be the cooperation of two Arfs at the same site. Arfs1-5 are generally considered to be interchangeable in function and location, but some specific functions have been assigned. Arf1 localizes to the early/cis-Golgi, where it is activated by GBF1 and recruits the coat protein COPI. It also localizes to the trans-Golgi network (TGN), where it is activated by BIG1/BIG2 and recruits the AP1, AP3, AP4, and GGA proteins. Humans, but not rodents
Probab=98.64 E-value=1.1e-08 Score=63.02 Aligned_cols=52 Identities=10% Similarity=0.033 Sum_probs=35.6
Q ss_pred CCCcEEeecCCCCCCCCCCHHH-HHHHHH----HhCCeEEEeccCCCCCHHHHHHHHHH
Q psy17493 7 TKSKYIEVPNFVSSMPQVSRER-GEQLAI----EYGIKFMETSAKNSINVEDAFFTLAR 60 (101)
Q Consensus 7 ~~~~lv~nk~Dl~~~~~v~~~~-~~~~a~----~~~~~~~etSAk~~~~V~~~F~~~~~ 60 (101)
.++.|++||.|+.+. ++.++ ...++. ..++.++++|||+|.||+++|..+++
T Consensus 102 ~piilv~NK~Dl~~~--~~~~~i~~~~~~~~~~~~~~~~~~~Sak~g~gv~~~~~~l~~ 158 (159)
T cd04150 102 AVLLVFANKQDLPNA--MSAAEVTDKLGLHSLRNRNWYIQATCATSGDGLYEGLDWLSN 158 (159)
T ss_pred CCEEEEEECCCCCCC--CCHHHHHHHhCccccCCCCEEEEEeeCCCCCCHHHHHHHHhc
Confidence 566788999999642 33333 333321 12345789999999999999998763
No 120
>KOG4252|consensus
Probab=98.62 E-value=4.9e-08 Score=61.66 Aligned_cols=60 Identities=22% Similarity=0.256 Sum_probs=54.3
Q ss_pred CcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHHHHhh
Q psy17493 9 SKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQTEK 68 (101)
Q Consensus 9 ~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~~~~~ 68 (101)
..+|.||+||.++..+...+++.+|+.....++.||+|...||..+|..++..+.+....
T Consensus 127 tV~vqNKIDlveds~~~~~evE~lak~l~~RlyRtSvked~NV~~vF~YLaeK~~q~~kq 186 (246)
T KOG4252|consen 127 TVFVQNKIDLVEDSQMDKGEVEGLAKKLHKRLYRTSVKEDFNVMHVFAYLAEKLTQQKKQ 186 (246)
T ss_pred eEEeeccchhhHhhhcchHHHHHHHHHhhhhhhhhhhhhhhhhHHHHHHHHHHHHHHHHH
Confidence 356778999998899999999999999999999999999999999999999988876544
No 121
>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=98.61 E-value=3.7e-08 Score=60.21 Aligned_cols=53 Identities=13% Similarity=0.073 Sum_probs=37.2
Q ss_pred cCCCcEEeecCCCCCCCCCCHHHHH------HHHHHhCCeEEEeccCCCCCHHHHHHHHHH
Q psy17493 6 NTKSKYIEVPNFVSSMPQVSRERGE------QLAIEYGIKFMETSAKNSINVEDAFFTLAR 60 (101)
Q Consensus 6 ~~~~~lv~nk~Dl~~~~~v~~~~~~------~~a~~~~~~~~etSAk~~~~V~~~F~~~~~ 60 (101)
+.++.+++||+|+... ...++.. .++...+.+++++||++|.||+++|+.+++
T Consensus 101 ~~piilv~nK~Dl~~~--~~~~~i~~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~~~~~i~~ 159 (160)
T cd04156 101 GVPVVLLANKQDLPGA--LTAEEITRRFKLKKYCSDRDWYVQPCSAVTGEGLAEAFRKLAS 159 (160)
T ss_pred CCCEEEEEECcccccC--cCHHHHHHHcCCcccCCCCcEEEEecccccCCChHHHHHHHhc
Confidence 5667888999998532 2233332 122223457999999999999999998864
No 122
>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=98.61 E-value=2.1e-07 Score=58.60 Aligned_cols=59 Identities=10% Similarity=-0.025 Sum_probs=43.3
Q ss_pred cCCCcEEeecCCCCCCCCCCHHHHHHHHHHh------CCeEEEeccCCCCCHHHHHHHHHHHHHHHH
Q psy17493 6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEY------GIKFMETSAKNSINVEDAFFTLARDIKAQT 66 (101)
Q Consensus 6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~------~~~~~etSAk~~~~V~~~F~~~~~~i~~~~ 66 (101)
+..+.+++||.|+.. .+..++...+.... +.+++++||++|.||+++|..+++.+.+..
T Consensus 109 ~~p~iiv~NK~D~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~l~~~l~~~l~~~~ 173 (183)
T cd04152 109 GVPVLVLANKQDLPN--ALSVSEVEKLLALHELSASTPWHVQPACAIIGEGLQEGLEKLYEMILKRR 173 (183)
T ss_pred CCcEEEEEECcCccc--cCCHHHHHHHhCccccCCCCceEEEEeecccCCCHHHHHHHHHHHHHHHH
Confidence 455678899999863 35555555554321 245889999999999999999999887543
No 123
>PTZ00133 ADP-ribosylation factor; Provisional
Probab=98.60 E-value=1.8e-07 Score=58.94 Aligned_cols=57 Identities=9% Similarity=-0.025 Sum_probs=38.7
Q ss_pred CCCcEEeecCCCCCCCCCCHHHHHHHH-----HHhCCeEEEeccCCCCCHHHHHHHHHHHHHHH
Q psy17493 7 TKSKYIEVPNFVSSMPQVSRERGEQLA-----IEYGIKFMETSAKNSINVEDAFFTLARDIKAQ 65 (101)
Q Consensus 7 ~~~~lv~nk~Dl~~~~~v~~~~~~~~a-----~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~~ 65 (101)
.++.|++||.|+.+ .+..++..... ......++++||++|.||+++|..+++.+.++
T Consensus 119 ~piilv~NK~Dl~~--~~~~~~i~~~l~~~~~~~~~~~~~~~Sa~tg~gv~e~~~~l~~~i~~~ 180 (182)
T PTZ00133 119 AVLLVFANKQDLPN--AMSTTEVTEKLGLHSVRQRNWYIQGCCATTAQGLYEGLDWLSANIKKS 180 (182)
T ss_pred CCEEEEEeCCCCCC--CCCHHHHHHHhCCCcccCCcEEEEeeeCCCCCCHHHHHHHHHHHHHHh
Confidence 45678899999853 33333322211 11123467999999999999999999877654
No 124
>cd01879 FeoB Ferrous iron transport protein B (FeoB) subfamily. E. coli has an iron(II) transport system, known as feo, which may make an important contribution to the iron supply of the cell under anaerobic conditions. FeoB has been identified as part of this transport system. FeoB is a large 700-800 amino acid integral membrane protein. The N terminus contains a P-loop motif suggesting that iron transport may be ATP dependent.
Probab=98.58 E-value=1.9e-07 Score=56.68 Aligned_cols=55 Identities=11% Similarity=-0.004 Sum_probs=44.4
Q ss_pred cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHH
Q psy17493 6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARD 61 (101)
Q Consensus 6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~ 61 (101)
+..+.+++||.|+.+...+..+ ...++..++.++|++||+++.|++++|..+.+.
T Consensus 101 ~~~~iiv~NK~Dl~~~~~~~~~-~~~~~~~~~~~~~~iSa~~~~~~~~l~~~l~~~ 155 (158)
T cd01879 101 GLPVVVALNMIDEAEKRGIKID-LDKLSELLGVPVVPTSARKGEGIDELKDAIAEL 155 (158)
T ss_pred CCCEEEEEehhhhcccccchhh-HHHHHHhhCCCeEEEEccCCCCHHHHHHHHHHH
Confidence 4567788999999765555443 457888889999999999999999999888764
No 125
>smart00177 ARF ARF-like small GTPases; ARF, ADP-ribosylation factor. Ras homologues involved in vesicular transport. Activator of phospholipase D isoforms. Unlike Ras proteins they lack cysteine residues at their C-termini and therefore are unlikely to be prenylated. ARFs are N-terminally myristoylated. Contains ATP/GTP-binding motif (P-loop).
Probab=98.56 E-value=3.6e-08 Score=61.69 Aligned_cols=54 Identities=6% Similarity=-0.059 Sum_probs=36.2
Q ss_pred CCCcEEeecCCCCCCCCCCHHHHHHHHH-----HhCCeEEEeccCCCCCHHHHHHHHHHHH
Q psy17493 7 TKSKYIEVPNFVSSMPQVSRERGEQLAI-----EYGIKFMETSAKNSINVEDAFFTLARDI 62 (101)
Q Consensus 7 ~~~~lv~nk~Dl~~~~~v~~~~~~~~a~-----~~~~~~~etSAk~~~~V~~~F~~~~~~i 62 (101)
.++.||+||.||.+. .+.++...... ...+.|+++||++|.||+++|..+++.+
T Consensus 115 ~piilv~NK~Dl~~~--~~~~~i~~~~~~~~~~~~~~~~~~~Sa~~g~gv~e~~~~l~~~~ 173 (175)
T smart00177 115 AVILVFANKQDLPDA--MKAAEITEKLGLHSIRDRNWYIQPTCATSGDGLYEGLTWLSNNL 173 (175)
T ss_pred CcEEEEEeCcCcccC--CCHHHHHHHhCccccCCCcEEEEEeeCCCCCCHHHHHHHHHHHh
Confidence 456788999999642 23333222211 1123477999999999999999887654
No 126
>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=98.56 E-value=2.2e-07 Score=59.67 Aligned_cols=53 Identities=11% Similarity=-0.080 Sum_probs=38.1
Q ss_pred cEEeecCCCCCCCCCCHHHHHHHHHH--hCCeEEEeccCCCCCHHHHHHHHHHHH
Q psy17493 10 KYIEVPNFVSSMPQVSRERGEQLAIE--YGIKFMETSAKNSINVEDAFFTLARDI 62 (101)
Q Consensus 10 ~lv~nk~Dl~~~~~v~~~~~~~~a~~--~~~~~~etSAk~~~~V~~~F~~~~~~i 62 (101)
.+++||+|+.+......+...+.++. .++++|+||||+|.||+++|+.+.+.+
T Consensus 141 ~~~~~k~d~~~~~~~~~~~~~~~~~~~~~~~~i~~~Sa~~g~gi~el~~~i~~~~ 195 (199)
T TIGR00101 141 LLVINKIDLAPMVGADLGVMERDAKKMRGEKPFIFTNLKTKEGLDTVIDWIEHYA 195 (199)
T ss_pred EEEEEhhhccccccccHHHHHHHHHHhCCCCCEEEEECCCCCCHHHHHHHHHhhc
Confidence 46789999874222233444445554 347899999999999999999998654
No 127
>cd04157 Arl6 Arl6 subfamily. Arl6 (Arf-like 6) forms a subfamily of the Arf family of small GTPases. Arl6 expression is limited to the brain and kidney in adult mice, but it is expressed in the neural plate and somites during embryogenesis, suggesting a possible role for Arl6 in early development. Arl6 is also believed to have a role in cilia or flagella function. Several proteins have been identified that bind Arl6, including Arl6 interacting protein (Arl6ip), and SEC61beta, a subunit of the heterotrimeric conducting channel SEC61p. Based on Arl6 binding to these effectors, Arl6 is also proposed to play a role in protein transport, membrane trafficking, or cell signaling during hematopoietic maturation. At least three specific homozygous Arl6 mutations in humans have been found to cause Bardet-Biedl syndrome, a disorder characterized by obesity, retinopathy, polydactyly, renal and cardiac malformations, learning disabilities, and hypogenitalism. Older literature suggests that A
Probab=98.55 E-value=4e-08 Score=60.04 Aligned_cols=53 Identities=6% Similarity=-0.022 Sum_probs=35.5
Q ss_pred cCCCcEEeecCCCCCCCCCCHHHHH---HHHH--HhCCeEEEeccCCCCCHHHHHHHHHH
Q psy17493 6 NTKSKYIEVPNFVSSMPQVSRERGE---QLAI--EYGIKFMETSAKNSINVEDAFFTLAR 60 (101)
Q Consensus 6 ~~~~~lv~nk~Dl~~~~~v~~~~~~---~~a~--~~~~~~~etSAk~~~~V~~~F~~~~~ 60 (101)
+..+.+++||.|+.... ..++.. .++. .....+|++||++|.||+++|..+++
T Consensus 104 ~~p~iiv~NK~Dl~~~~--~~~~~~~~l~~~~~~~~~~~~~~~Sa~~g~gv~~~~~~l~~ 161 (162)
T cd04157 104 RVPILFFANKMDLPDAL--TAVKITQLLGLENIKDKPWHIFASNALTGEGLDEGVQWLQA 161 (162)
T ss_pred CCCEEEEEeCccccCCC--CHHHHHHHhCCccccCceEEEEEeeCCCCCchHHHHHHHhc
Confidence 45667789999986432 222222 1221 11245899999999999999998864
No 128
>cd04151 Arl1 Arl1 subfamily. Arl1 (Arf-like 1) localizes to the Golgi complex, where it is believed to recruit effector proteins to the trans-Golgi network. Like most members of the Arf family, Arl1 is myristoylated at its N-terminal helix and mutation of the myristoylation site disrupts Golgi targeting. In humans, the Golgi-localized proteins golgin-97 and golgin-245 have been identified as Arl1 effectors. Golgins are large coiled-coil proteins found in the Golgi, and these golgins contain a C-terminal GRIP domain, which is the site of Arl1 binding. Additional Arl1 effectors include the GARP (Golgi-associated retrograde protein)/VFT (Vps53) vesicle-tethering complex and Arfaptin 2. Arl1 is not required for exocytosis, but appears necessary for trafficking from the endosomes to the Golgi. In Drosophila zygotes, mutation of Arl1 is lethal, and in the host-bloodstream form of Trypanosoma brucei, Arl1 is essential for viability.
Probab=98.55 E-value=3.4e-08 Score=60.50 Aligned_cols=53 Identities=13% Similarity=0.036 Sum_probs=36.3
Q ss_pred cCCCcEEeecCCCCCCCCCCHHHH-HHHH----HHhCCeEEEeccCCCCCHHHHHHHHHH
Q psy17493 6 NTKSKYIEVPNFVSSMPQVSRERG-EQLA----IEYGIKFMETSAKNSINVEDAFFTLAR 60 (101)
Q Consensus 6 ~~~~~lv~nk~Dl~~~~~v~~~~~-~~~a----~~~~~~~~etSAk~~~~V~~~F~~~~~ 60 (101)
+.++.+++||.|+.+.. ...+. ..+. ...+.++|++||++|.||+++|+.+++
T Consensus 100 ~~piiiv~nK~Dl~~~~--~~~~i~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~ 157 (158)
T cd04151 100 GAVLLVFANKQDMPGAL--SEAEISEKLGLSELKDRTWSIFKTSAIKGEGLDEGMDWLVN 157 (158)
T ss_pred CCcEEEEEeCCCCCCCC--CHHHHHHHhCccccCCCcEEEEEeeccCCCCHHHHHHHHhc
Confidence 45677889999986432 22222 1221 112346999999999999999999875
No 129
>cd04160 Arfrp1 Arfrp1 subfamily. Arfrp1 (Arf-related protein 1), formerly known as ARP, is a membrane-associated Arf family member that lacks the N-terminal myristoylation motif. Arfrp1 is mainly associated with the trans-Golgi compartment and the trans-Golgi network, where it regulates the targeting of Arl1 and the GRIP domain-containing proteins, golgin-97 and golgin-245, onto Golgi membranes. It is also involved in the anterograde transport of the vesicular stomatitis virus G protein from the Golgi to the plasma membrane, and in the retrograde transport of TGN38 and Shiga toxin from endosomes to the trans-Golgi network. Arfrp1 also inhibits Arf/Sec7-dependent activation of phospholipase D. Deletion of Arfrp1 in mice causes embryonic lethality at the gastrulation stage and apoptosis of mesodermal cells, indicating its importance in development.
Probab=98.53 E-value=1.8e-07 Score=57.56 Aligned_cols=53 Identities=11% Similarity=0.031 Sum_probs=40.3
Q ss_pred cCCCcEEeecCCCCCCCCCCHHHHHHHHHH-------hCCeEEEeccCCCCCHHHHHHHHHH
Q psy17493 6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIE-------YGIKFMETSAKNSINVEDAFFTLAR 60 (101)
Q Consensus 6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~-------~~~~~~etSAk~~~~V~~~F~~~~~ 60 (101)
+.++.+++||+|+.. .++.++...+.+. .+++++++||++|.||+++|..+++
T Consensus 107 ~~p~ilv~NK~D~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gv~e~~~~l~~ 166 (167)
T cd04160 107 GVPLLILANKQDLPD--ALSVEEIKEVFQDKAEEIGRRDCLVLPVSALEGTGVREGIEWLVE 166 (167)
T ss_pred CCCEEEEEEcccccc--CCCHHHHHHHhccccccccCCceEEEEeeCCCCcCHHHHHHHHhc
Confidence 567788899999864 4555555555433 2357999999999999999998875
No 130
>cd04153 Arl5_Arl8 Arl5/Arl8 subfamily. Arl5 (Arf-like 5) and Arl8, like Arl4 and Arl7, are localized to the nucleus and nucleolus. Arl5 is developmentally regulated during embryogenesis in mice. Human Arl5 interacts with the heterochromatin protein 1-alpha (HP1alpha), a nonhistone chromosomal protein that is associated with heterochromatin and telomeres, and prevents telomere fusion. Arl5 may also play a role in embryonic nuclear dynamics and/or signaling cascades. Arl8 was identified from a fetal cartilage cDNA library. It is found in brain, heart, lung, cartilage, and kidney. No function has been assigned for Arl8 to date.
Probab=98.50 E-value=2.4e-07 Score=57.82 Aligned_cols=52 Identities=8% Similarity=0.004 Sum_probs=37.2
Q ss_pred CCCcEEeecCCCCCCCCCCHHH-HHHHH----HHhCCeEEEeccCCCCCHHHHHHHHHH
Q psy17493 7 TKSKYIEVPNFVSSMPQVSRER-GEQLA----IEYGIKFMETSAKNSINVEDAFFTLAR 60 (101)
Q Consensus 7 ~~~~lv~nk~Dl~~~~~v~~~~-~~~~a----~~~~~~~~etSAk~~~~V~~~F~~~~~ 60 (101)
.++.+++||.|+.+ .++.++ ...+. +..+.+++++||++|.||+++|..+++
T Consensus 117 ~p~viv~NK~Dl~~--~~~~~~i~~~l~~~~~~~~~~~~~~~SA~~g~gi~e~~~~l~~ 173 (174)
T cd04153 117 AVLLVLANKQDLKG--AMTPAEISESLGLTSIRDHTWHIQGCCALTGEGLPEGLDWIAS 173 (174)
T ss_pred CCEEEEEECCCCCC--CCCHHHHHHHhCcccccCCceEEEecccCCCCCHHHHHHHHhc
Confidence 45677899999864 234333 23332 234467999999999999999999875
No 131
>TIGR00437 feoB ferrous iron transporter FeoB. FeoB (773 amino acids in E. coli), a cytoplasmic membrane protein required for iron(II) update, is encoded in an operon with FeoA (75 amino acids), which is also required, and is regulated by Fur. There appear to be two copies in Archaeoglobus fulgidus and Clostridium acetobutylicum.
Probab=98.49 E-value=2.1e-07 Score=68.29 Aligned_cols=56 Identities=14% Similarity=0.042 Sum_probs=46.9
Q ss_pred cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHH
Q psy17493 6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDI 62 (101)
Q Consensus 6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i 62 (101)
+.++.+++||.|+.+.+.+. .+.+.+++..|+++++|||++|.|++++|+.+++..
T Consensus 99 ~~PiIIVlNK~Dl~~~~~i~-~d~~~L~~~lg~pvv~tSA~tg~Gi~eL~~~i~~~~ 154 (591)
T TIGR00437 99 GIPMILALNLVDEAEKKGIR-IDEEKLEERLGVPVVPTSATEGRGIERLKDAIRKAI 154 (591)
T ss_pred CCCEEEEEehhHHHHhCCCh-hhHHHHHHHcCCCEEEEECCCCCCHHHHHHHHHHHh
Confidence 55677889999997655565 356788999999999999999999999999998753
No 132
>TIGR02729 Obg_CgtA Obg family GTPase CgtA. This model describes a univeral, mostly one-gene-per-genome GTP-binding protein that associates with ribosomal subunits and appears to play a role in ribosomal RNA maturation. This GTPase, related to the nucleolar protein Obg, is designated CgtA in bacteria. Mutations in this gene are pleiotropic, but it appears that effects on cellular functions such as chromosome partition may be secondary to the effect on ribosome structure. Recent work done in Vibrio cholerae shows an essential role in the stringent response, in which RelA-dependent ability to synthesize the alarmone ppGpp is required for deletion of this GTPase to be lethal.
Probab=98.49 E-value=3.4e-07 Score=62.88 Aligned_cols=56 Identities=13% Similarity=0.063 Sum_probs=43.5
Q ss_pred cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHH
Q psy17493 6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDI 62 (101)
Q Consensus 6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i 62 (101)
..+..||+||+|+..... ..+..+.+++.++..+|++||+++.||+++|..+++.+
T Consensus 273 ~kp~IIV~NK~DL~~~~~-~~~~~~~l~~~~~~~vi~iSAktg~GI~eL~~~I~~~l 328 (329)
T TIGR02729 273 EKPRIVVLNKIDLLDEEE-LAELLKELKKALGKPVFPISALTGEGLDELLYALAELL 328 (329)
T ss_pred cCCEEEEEeCccCCChHH-HHHHHHHHHHHcCCcEEEEEccCCcCHHHHHHHHHHHh
Confidence 345678899999965432 34455667777788899999999999999999998643
No 133
>cd00878 Arf_Arl Arf (ADP-ribosylation factor)/Arl (Arf-like) small GTPases. Arf proteins are activators of phospholipase D isoforms. Unlike Ras proteins they lack cysteine residues at their C-termini and therefore are unlikely to be prenylated. Arfs are N-terminally myristoylated. Members of the Arf family are regulators of vesicle formation in intracellular traffic that interact reversibly with membranes of the secretory and endocytic compartments in a GTP-dependent manner. They depart from other small GTP-binding proteins by a unique structural device, interswitch toggle, that implements front-back communication from N-terminus to the nucleotide binding site. Arf-like (Arl) proteins are close relatives of the Arf, but only Arl1 has been shown to function in membrane traffic like the Arf proteins. Arl2 has an unrelated function in the folding of native tubulin, and Arl4 may function in the nucleus. Most other Arf family proteins are so far relatively poorly characterized. Thu
Probab=98.49 E-value=8.4e-08 Score=58.56 Aligned_cols=53 Identities=8% Similarity=-0.141 Sum_probs=37.8
Q ss_pred cCCCcEEeecCCCCCCCCCCHHHHHHHHH-----HhCCeEEEeccCCCCCHHHHHHHHHH
Q psy17493 6 NTKSKYIEVPNFVSSMPQVSRERGEQLAI-----EYGIKFMETSAKNSINVEDAFFTLAR 60 (101)
Q Consensus 6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~-----~~~~~~~etSAk~~~~V~~~F~~~~~ 60 (101)
+..+.+++||+|+.... +.++..+... ....+|+++||++|.||+++|..+..
T Consensus 100 ~~piiiv~nK~D~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~~~~~l~~ 157 (158)
T cd00878 100 GVPLLIFANKQDLPGAL--SVSELIEKLGLEKILGRRWHIQPCSAVTGDGLDEGLDWLLQ 157 (158)
T ss_pred CCcEEEEeeccCCcccc--CHHHHHHhhChhhccCCcEEEEEeeCCCCCCHHHHHHHHhh
Confidence 45677889999987533 3333333322 23467999999999999999998864
No 134
>cd04171 SelB SelB subfamily. SelB is an elongation factor needed for the co-translational incorporation of selenocysteine. Selenocysteine is coded by a UGA stop codon in combination with a specific downstream mRNA hairpin. In bacteria, the C-terminal part of SelB recognizes this hairpin, while the N-terminal part binds GTP and tRNA in analogy with elongation factor Tu (EF-Tu). It specifically recognizes the selenocysteine charged tRNAsec, which has a UCA anticodon, in an EF-Tu like manner. This allows insertion of selenocysteine at in-frame UGA stop codons. In E. coli SelB binds GTP, selenocysteyl-tRNAsec, and a stem-loop structure immediately downstream of the UGA codon (the SECIS sequence). The absence of active SelB prevents the participation of selenocysteyl-tRNAsec in translation. Archaeal and animal mechanisms of selenocysteine incorporation are more complex. Although the SECIS elements have different secondary structures and conserved elements between archaea and eukaryo
Probab=98.43 E-value=3.3e-07 Score=55.93 Aligned_cols=53 Identities=11% Similarity=-0.010 Sum_probs=37.4
Q ss_pred CCcEEeecCCCCCCCC--CCHHHHHHHHHH---hCCeEEEeccCCCCCHHHHHHHHHH
Q psy17493 8 KSKYIEVPNFVSSMPQ--VSRERGEQLAIE---YGIKFMETSAKNSINVEDAFFTLAR 60 (101)
Q Consensus 8 ~~~lv~nk~Dl~~~~~--v~~~~~~~~a~~---~~~~~~etSAk~~~~V~~~F~~~~~ 60 (101)
++.+++||.|+..... ...++..++.+. .+.+++++||+++.||+++|..+..
T Consensus 106 ~~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~l~~~l~~ 163 (164)
T cd04171 106 RGLVVLTKADLVDEDWLELVEEEIRELLAGTFLADAPIFPVSAVTGEGIEELKEYLDE 163 (164)
T ss_pred cEEEEEECccccCHHHHHHHHHHHHHHHHhcCcCCCcEEEEeCCCCcCHHHHHHHHhh
Confidence 5678899999864321 122333333333 4578999999999999999988754
No 135
>cd01878 HflX HflX subfamily. A distinct conserved domain with a glycine-rich segment N-terminal of the GTPase domain characterizes the HflX subfamily. The E. coli HflX has been implicated in the control of the lambda cII repressor proteolysis, but the actual biological functions of these GTPases remain unclear. HflX is widespread, but not universally represented in all three superkingdoms.
Probab=98.38 E-value=4.2e-07 Score=57.96 Aligned_cols=50 Identities=6% Similarity=-0.134 Sum_probs=37.9
Q ss_pred CCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHH
Q psy17493 7 TKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARD 61 (101)
Q Consensus 7 ~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~ 61 (101)
.++.+|+||.|+.....+. .++...+.++|++||+++.||+++|..++..
T Consensus 154 ~~viiV~NK~Dl~~~~~~~-----~~~~~~~~~~~~~Sa~~~~gi~~l~~~L~~~ 203 (204)
T cd01878 154 IPMILVLNKIDLLDDEELE-----ERLEAGRPDAVFISAKTGEGLDELLEAIEEL 203 (204)
T ss_pred CCEEEEEEccccCChHHHH-----HHhhcCCCceEEEEcCCCCCHHHHHHHHHhh
Confidence 4567889999986433221 3444556789999999999999999988764
No 136
>cd01894 EngA1 EngA1 subfamily. This CD represents the first GTPase domain of EngA and its orthologs, which are composed of two adjacent GTPase domains. Since the sequences of the two domains are more similar to each other than to other GTPases, it is likely that an ancient gene duplication, rather than a fusion of evolutionarily distinct GTPases, gave rise to this family. Although the exact function of these proteins has not been elucidated, studies have revealed that the E. coli EngA homolog, Der, and Neisseria gonorrhoeae EngA are essential for cell viability. A recent report suggests that E. coli Der functions in ribosome assembly and stability.
Probab=98.35 E-value=8.5e-07 Score=53.65 Aligned_cols=51 Identities=8% Similarity=-0.067 Sum_probs=37.8
Q ss_pred cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCC-eEEEeccCCCCCHHHHHHHHHHH
Q psy17493 6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGI-KFMETSAKNSINVEDAFFTLARD 61 (101)
Q Consensus 6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~-~~~etSAk~~~~V~~~F~~~~~~ 61 (101)
+.++.+++||.|+.+.... .......+. .++++||+++.||+++|+.+++.
T Consensus 105 ~~piiiv~nK~D~~~~~~~-----~~~~~~~~~~~~~~~Sa~~~~gv~~l~~~l~~~ 156 (157)
T cd01894 105 KKPVILVVNKVDNIKEEDE-----AAEFYSLGFGEPIPISAEHGRGIGDLLDAILEL 156 (157)
T ss_pred CCCEEEEEECcccCChHHH-----HHHHHhcCCCCeEEEecccCCCHHHHHHHHHhh
Confidence 4566788999998653222 222334565 78999999999999999999865
No 137
>cd01881 Obg_like The Obg-like subfamily consists of five well-delimited, ancient subfamilies, namely Obg, DRG, YyaF/YchF, Ygr210, and NOG1. Four of these groups (Obg, DRG, YyaF/YchF, and Ygr210) are characterized by a distinct glycine-rich motif immediately following the Walker B motif (G3 box). Obg/CgtA is an essential gene that is involved in the initiation of sporulation and DNA replication in the bacteria Caulobacter and Bacillus, but its exact molecular role is unknown. Furthermore, several OBG family members possess a C-terminal RNA-binding domain, the TGS domain, which is also present in threonyl-tRNA synthetase and in bacterial guanosine polyphosphatase SpoT. Nog1 is a nucleolar protein that might function in ribosome assembly. The DRG and Nog1 subfamilies are ubiquitous in archaea and eukaryotes, the Ygr210 subfamily is present in archaea and fungi, and the Obg and YyaF/YchF subfamilies are ubiquitous in bacteria and eukaryotes. The Obg/Nog1 and DRG subfamilies appear to
Probab=98.34 E-value=4.3e-07 Score=56.06 Aligned_cols=56 Identities=16% Similarity=0.153 Sum_probs=41.6
Q ss_pred cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHH
Q psy17493 6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARD 61 (101)
Q Consensus 6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~ 61 (101)
+.++.+++||.|+...+.+............+..++++||+++.|++++|..+.+.
T Consensus 120 ~~p~ivv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gl~~l~~~l~~~ 175 (176)
T cd01881 120 AKPVIYVLNKIDLDDAEELEEELVRELALEEGAEVVPISAKTEEGLDELIRAIYEL 175 (176)
T ss_pred hCCeEEEEEchhcCchhHHHHHHHHHHhcCCCCCEEEEehhhhcCHHHHHHHHHhh
Confidence 45677889999997554444433334444556789999999999999999988753
No 138
>PRK03003 GTP-binding protein Der; Reviewed
Probab=98.32 E-value=6.3e-07 Score=64.18 Aligned_cols=58 Identities=16% Similarity=-0.002 Sum_probs=39.1
Q ss_pred cCCCcEEeecCCCCCCCC---CCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHH
Q psy17493 6 NTKSKYIEVPNFVSSMPQ---VSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIK 63 (101)
Q Consensus 6 ~~~~~lv~nk~Dl~~~~~---v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~ 63 (101)
+..+.+|+||+||.+... +..+....++....++++++||++|.||+++|..+++.+.
T Consensus 322 ~~piIiV~NK~Dl~~~~~~~~~~~~i~~~l~~~~~~~~~~~SAk~g~gv~~lf~~i~~~~~ 382 (472)
T PRK03003 322 GRALVLAFNKWDLVDEDRRYYLEREIDRELAQVPWAPRVNISAKTGRAVDKLVPALETALE 382 (472)
T ss_pred CCCEEEEEECcccCChhHHHHHHHHHHHhcccCCCCCEEEEECCCCCCHHHHHHHHHHHHH
Confidence 456788899999964211 1111111222223468999999999999999999987653
No 139
>TIGR00073 hypB hydrogenase accessory protein HypB. HypB is implicated in insertion of nickel into the large subunit of NiFe hydrogenases.
Probab=98.32 E-value=1.9e-06 Score=55.42 Aligned_cols=53 Identities=9% Similarity=-0.020 Sum_probs=39.3
Q ss_pred CcEEeecCCCCCCCCCCHHHHHHHHHHhC--CeEEEeccCCCCCHHHHHHHHHHH
Q psy17493 9 SKYIEVPNFVSSMPQVSRERGEQLAIEYG--IKFMETSAKNSINVEDAFFTLARD 61 (101)
Q Consensus 9 ~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~--~~~~etSAk~~~~V~~~F~~~~~~ 61 (101)
..+++||.|+.........+.....++.+ .+++++||+++.||+++|..+.+.
T Consensus 151 ~iiv~NK~Dl~~~~~~~~~~~~~~l~~~~~~~~i~~~Sa~~g~gv~~l~~~i~~~ 205 (207)
T TIGR00073 151 DLIVINKADLAEAVGFDVEKMKADAKKINPEAEIILMSLKTGEGLDEWLEFLEGQ 205 (207)
T ss_pred CEEEEEHHHccccchhhHHHHHHHHHHhCCCCCEEEEECCCCCCHHHHHHHHHHh
Confidence 35778999996533333445555555544 789999999999999999998764
No 140
>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=98.30 E-value=3.5e-06 Score=53.33 Aligned_cols=56 Identities=14% Similarity=0.067 Sum_probs=40.4
Q ss_pred cCCCcEEeecCCCCCCCCCCHHHHHHHH-----HHhCC---eEEEeccCCCCCHHHHHHHHHHHH
Q psy17493 6 NTKSKYIEVPNFVSSMPQVSRERGEQLA-----IEYGI---KFMETSAKNSINVEDAFFTLARDI 62 (101)
Q Consensus 6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a-----~~~~~---~~~etSAk~~~~V~~~F~~~~~~i 62 (101)
+.++.+|+||+|+.. ..........+. +..+. .+|.+||+++.||+++|..+...+
T Consensus 61 ~~~~ilV~NK~Dl~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~~vSA~~~~gi~eL~~~l~~~l 124 (190)
T cd01855 61 NNPVILVGNKIDLLP-KDKNLVRIKNWLRAKAAAGLGLKPKDVILISAKKGWGVEELINAIKKLA 124 (190)
T ss_pred CCcEEEEEEchhcCC-CCCCHHHHHHHHHHHHHhhcCCCcccEEEEECCCCCCHHHHHHHHHHHh
Confidence 456678999999864 333444444454 33343 589999999999999999998765
No 141
>cd01896 DRG The developmentally regulated GTP-binding protein (DRG) subfamily is an uncharacterized member of the Obg family, an evolutionary branch of GTPase superfamily proteins. GTPases act as molecular switches regulating diverse cellular processes. DRG2 and DRG1 comprise the DRG subfamily in eukaryotes. In view of their widespread expression in various tissues and high conservation among distantly related species in eukaryotes and archaea, DRG proteins may regulate fundamental cellular processes. It is proposed that the DRG subfamily proteins play their physiological roles through RNA binding.
Probab=98.30 E-value=1.8e-06 Score=56.67 Aligned_cols=48 Identities=17% Similarity=0.076 Sum_probs=38.0
Q ss_pred CCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHH
Q psy17493 8 KSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDI 62 (101)
Q Consensus 8 ~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i 62 (101)
++.+|+||+|+. +.+++..++.. ..++++||++|.|++++|+.+.+.+
T Consensus 178 p~iiV~NK~Dl~-----~~~~~~~~~~~--~~~~~~SA~~g~gi~~l~~~i~~~L 225 (233)
T cd01896 178 PCLYVYNKIDLI-----SIEELDLLARQ--PNSVVISAEKGLNLDELKERIWDKL 225 (233)
T ss_pred eEEEEEECccCC-----CHHHHHHHhcC--CCEEEEcCCCCCCHHHHHHHHHHHh
Confidence 456889999973 45666666654 3589999999999999999998743
No 142
>PRK12297 obgE GTPase CgtA; Reviewed
Probab=98.27 E-value=4.6e-06 Score=59.15 Aligned_cols=55 Identities=13% Similarity=0.169 Sum_probs=44.0
Q ss_pred cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHH
Q psy17493 6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKA 64 (101)
Q Consensus 6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~ 64 (101)
+.+..+|+||+||.. ..+....+++..+.++|.+||+++.||+++|..+++.+.+
T Consensus 274 ~kP~IVV~NK~DL~~----~~e~l~~l~~~l~~~i~~iSA~tgeGI~eL~~~L~~~l~~ 328 (424)
T PRK12297 274 ERPQIVVANKMDLPE----AEENLEEFKEKLGPKVFPISALTGQGLDELLYAVAELLEE 328 (424)
T ss_pred CCcEEEEEeCCCCcC----CHHHHHHHHHHhCCcEEEEeCCCCCCHHHHHHHHHHHHHh
Confidence 456678899999843 2345667777777889999999999999999999887654
No 143
>cd01888 eIF2_gamma eIF2-gamma (gamma subunit of initiation factor 2). eIF2 is a heterotrimeric translation initiation factor that consists of alpha, beta, and gamma subunits. The GTP-bound gamma subunit also binds initiator methionyl-tRNA and delivers it to the 40S ribosomal subunit. Following hydrolysis of GTP to GDP, eIF2:GDP is released from the ribosome. The gamma subunit has no intrinsic GTPase activity, but is stimulated by the GTPase activating protein (GAP) eIF5, and GDP/GTP exchange is stimulated by the guanine nucleotide exchange factor (GEF) eIF2B. eIF2B is a heteropentamer, and the epsilon chain binds eIF2. Both eIF5 and eIF2B-epsilon are known to bind strongly to eIF2-beta, but have also been shown to bind directly to eIF2-gamma. It is possible that eIF2-beta serves simply as a high-affinity docking site for eIF5 and eIF2B-epsilon, or that eIF2-beta serves a regulatory role. eIF2-gamma is found only in eukaryotes and archaea. It is closely related to SelB, the sel
Probab=98.26 E-value=9.9e-07 Score=56.57 Aligned_cols=55 Identities=11% Similarity=0.047 Sum_probs=37.8
Q ss_pred CCcEEeecCCCCCCCCC--CHHHHHHHHHHh---CCeEEEeccCCCCCHHHHHHHHHHHH
Q psy17493 8 KSKYIEVPNFVSSMPQV--SRERGEQLAIEY---GIKFMETSAKNSINVEDAFFTLARDI 62 (101)
Q Consensus 8 ~~~lv~nk~Dl~~~~~v--~~~~~~~~a~~~---~~~~~etSAk~~~~V~~~F~~~~~~i 62 (101)
.+.+++||.|+...... ..++...+.+.+ +.++|.+||++|.||+++|..++..+
T Consensus 139 ~iiivvNK~Dl~~~~~~~~~~~~i~~~~~~~~~~~~~i~~vSA~~g~gi~~L~~~l~~~l 198 (203)
T cd01888 139 HIIIVQNKIDLVKEEQALENYEQIKKFVKGTIAENAPIIPISAQLKYNIDVLLEYIVKKI 198 (203)
T ss_pred cEEEEEEchhccCHHHHHHHHHHHHHHHhccccCCCcEEEEeCCCCCCHHHHHHHHHHhC
Confidence 35678999998642211 123334444432 56799999999999999999987644
No 144
>cd01895 EngA2 EngA2 subfamily. This CD represents the second GTPase domain of EngA and its orthologs, which are composed of two adjacent GTPase domains. Since the sequences of the two domains are more similar to each other than to other GTPases, it is likely that an ancient gene duplication, rather than a fusion of evolutionarily distinct GTPases, gave rise to this family. Although the exact function of these proteins has not been elucidated, studies have revealed that the E. coli EngA homolog, Der, and Neisseria gonorrhoeae EngA are essential for cell viability. A recent report suggests that E. coli Der functions in ribosome assembly and stability.
Probab=98.25 E-value=3.8e-06 Score=51.35 Aligned_cols=56 Identities=7% Similarity=-0.079 Sum_probs=39.2
Q ss_pred cCCCcEEeecCCCCCCCCCCHHHHHH-HHHHh----CCeEEEeccCCCCCHHHHHHHHHHH
Q psy17493 6 NTKSKYIEVPNFVSSMPQVSRERGEQ-LAIEY----GIKFMETSAKNSINVEDAFFTLARD 61 (101)
Q Consensus 6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~-~a~~~----~~~~~etSAk~~~~V~~~F~~~~~~ 61 (101)
+.++.+++||.|+.+.+....++..+ +.+.. +.++|++||+++.|++++|..+.+.
T Consensus 113 ~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~~~~~l~~~ 173 (174)
T cd01895 113 GKALVIVVNKWDLVEKDSKTMKEFKKEIRRKLPFLDYAPIVFISALTGQGVDKLFDAIDEV 173 (174)
T ss_pred CCCEEEEEeccccCCccHHHHHHHHHHHHhhcccccCCceEEEeccCCCCHHHHHHHHHHh
Confidence 56677889999987543233333222 33333 3679999999999999999988753
No 145
>PRK15494 era GTPase Era; Provisional
Probab=98.21 E-value=4.1e-06 Score=57.78 Aligned_cols=54 Identities=11% Similarity=0.004 Sum_probs=40.9
Q ss_pred CCCcEEeecCCCCCCCCCCHHHHHHHHHHhC--CeEEEeccCCCCCHHHHHHHHHHHHH
Q psy17493 7 TKSKYIEVPNFVSSMPQVSRERGEQLAIEYG--IKFMETSAKNSINVEDAFFTLARDIK 63 (101)
Q Consensus 7 ~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~--~~~~etSAk~~~~V~~~F~~~~~~i~ 63 (101)
....+|+||+|+.+. ...++.++....+ ..+|.+||++|.||+++|..++..+.
T Consensus 161 ~p~IlViNKiDl~~~---~~~~~~~~l~~~~~~~~i~~iSAktg~gv~eL~~~L~~~l~ 216 (339)
T PRK15494 161 IVPIFLLNKIDIESK---YLNDIKAFLTENHPDSLLFPISALSGKNIDGLLEYITSKAK 216 (339)
T ss_pred CCEEEEEEhhcCccc---cHHHHHHHHHhcCCCcEEEEEeccCccCHHHHHHHHHHhCC
Confidence 345678999998642 2455666666554 57999999999999999999987553
No 146
>cd04155 Arl3 Arl3 subfamily. Arl3 (Arf-like 3) is an Arf family protein that differs from most Arf family members in the N-terminal extension. In is inactive, GDP-bound form, the N-terminal extension forms an elongated loop that is hydrophobically anchored into the membrane surface; however, it has been proposed that this region might form a helix in the GTP-bound form. The delta subunit of the rod-specific cyclic GMP phosphodiesterase type 6 (PDEdelta) is an Arl3 effector. Arl3 binds microtubules in a regulated manner to alter specific aspects of cytokinesis via interactions with retinitis pigmentosa 2 (RP2). It has been proposed that RP2 functions in concert with Arl3 to link the cell membrane and the cytoskeleton in photoreceptors as part of the cell signaling or vesicular transport machinery. In mice, the absence of Arl3 is associated with abnormal epithelial cell proliferation and cyst formation.
Probab=98.18 E-value=6.3e-06 Score=50.92 Aligned_cols=49 Identities=10% Similarity=0.129 Sum_probs=34.2
Q ss_pred CCCcEEeecCCCCCCCCCCHHHHHHHHHHhCC--------eEEEeccCCCCCHHHHHHHHHH
Q psy17493 7 TKSKYIEVPNFVSSMPQVSRERGEQLAIEYGI--------KFMETSAKNSINVEDAFFTLAR 60 (101)
Q Consensus 7 ~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~--------~~~etSAk~~~~V~~~F~~~~~ 60 (101)
..+.+++||.|+.... . ...+.+..++ .++++||++|.||+++|+.+++
T Consensus 116 ~p~ivv~nK~D~~~~~--~---~~~i~~~l~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~ 172 (173)
T cd04155 116 VPVLVFANKQDLATAA--P---AEEIAEALNLHDLRDRTWHIQACSAKTGEGLQEGMNWVCK 172 (173)
T ss_pred CCEEEEEECCCCccCC--C---HHHHHHHcCCcccCCCeEEEEEeECCCCCCHHHHHHHHhc
Confidence 4455678999985422 2 2233444442 3689999999999999999875
No 147
>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=98.18 E-value=5.8e-06 Score=57.51 Aligned_cols=54 Identities=13% Similarity=0.143 Sum_probs=41.3
Q ss_pred cCCCcEEeecCCCCCCCCCCHHHHHHH----HHHhCC---eEEEeccCCCCCHHHHHHHHHH
Q psy17493 6 NTKSKYIEVPNFVSSMPQVSRERGEQL----AIEYGI---KFMETSAKNSINVEDAFFTLAR 60 (101)
Q Consensus 6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~----a~~~~~---~~~etSAk~~~~V~~~F~~~~~ 60 (101)
+.++.+|+||+||.. +.+..++...| ++.+|+ .++.+||++|.||+++|..+.+
T Consensus 90 ~~piilV~NK~DLl~-k~~~~~~~~~~l~~~~k~~g~~~~~i~~vSAk~g~gv~eL~~~l~~ 150 (360)
T TIGR03597 90 GNPVLLVGNKIDLLP-KSVNLSKIKEWMKKRAKELGLKPVDIILVSAKKGNGIDELLDKIKK 150 (360)
T ss_pred CCCEEEEEEchhhCC-CCCCHHHHHHHHHHHHHHcCCCcCcEEEecCCCCCCHHHHHHHHHH
Confidence 456778999999864 44555555543 566776 4899999999999999998865
No 148
>TIGR00231 small_GTP small GTP-binding protein domain. This model recognizes a large number of small GTP-binding proteins and related domains in larger proteins. Note that the alpha chains of heterotrimeric G proteins are larger proteins in which the NKXD motif is separated from the GxxxxGK[ST] motif (P-loop) by a long insert and are not easily detected by this model.
Probab=98.16 E-value=6e-06 Score=49.32 Aligned_cols=52 Identities=15% Similarity=0.082 Sum_probs=38.6
Q ss_pred cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHH
Q psy17493 6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTL 58 (101)
Q Consensus 6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~ 58 (101)
+..+.+++||.|+...+ +.......+......+++++||++|.|++++|..+
T Consensus 108 ~~p~ivv~nK~D~~~~~-~~~~~~~~~~~~~~~~~~~~sa~~~~gv~~~~~~l 159 (161)
T TIGR00231 108 NVPIILVGNKIDLRDAK-LKTHVAFLFAKLNGEPIIPLSAETGKNIDSAFKIV 159 (161)
T ss_pred CCcEEEEEEcccCCcch-hhHHHHHHHhhccCCceEEeecCCCCCHHHHHHHh
Confidence 34567789999986533 44444455555556789999999999999999765
No 149
>TIGR03594 GTPase_EngA ribosome-associated GTPase EngA. EngA (YfgK, Der) is a ribosome-associated essential GTPase with a duplication of its GTP-binding domain. It is broadly to universally distributed among bacteria. It appears to function in ribosome biogenesis or stability.
Probab=98.15 E-value=5.6e-06 Score=58.36 Aligned_cols=57 Identities=11% Similarity=-0.051 Sum_probs=38.5
Q ss_pred cCCCcEEeecCCCCCCCCCCHHHHH-HHHHH----hCCeEEEeccCCCCCHHHHHHHHHHHHH
Q psy17493 6 NTKSKYIEVPNFVSSMPQVSRERGE-QLAIE----YGIKFMETSAKNSINVEDAFFTLARDIK 63 (101)
Q Consensus 6 ~~~~~lv~nk~Dl~~~~~v~~~~~~-~~a~~----~~~~~~etSAk~~~~V~~~F~~~~~~i~ 63 (101)
|..+.+|+||+|+.+ .....++.. .+... .+++++++||++|.||+++|..+.+.+.
T Consensus 283 ~~~iiiv~NK~Dl~~-~~~~~~~~~~~~~~~~~~~~~~~vi~~SA~~g~~v~~l~~~i~~~~~ 344 (429)
T TIGR03594 283 GKALVIVVNKWDLVK-DEKTREEFKKELRRKLPFLDFAPIVFISALTGQGVDKLLDAIDEVYE 344 (429)
T ss_pred CCcEEEEEECcccCC-CHHHHHHHHHHHHHhcccCCCCceEEEeCCCCCCHHHHHHHHHHHHH
Confidence 566788899999862 111122221 22222 2478999999999999999999887554
No 150
>cd04164 trmE TrmE (MnmE, ThdF, MSS1) is a 3-domain protein found in bacteria and eukaryotes. It controls modification of the uridine at the wobble position (U34) of tRNAs that read codons ending with A or G in the mixed codon family boxes. TrmE contains a GTPase domain that forms a canonical Ras-like fold. It functions a molecular switch GTPase, and apparently uses a conformational change associated with GTP hydrolysis to promote the tRNA modification reaction, in which the conserved cysteine in the C-terminal domain is thought to function as a catalytic residue. In bacteria that are able to survive in extremely low pH conditions, TrmE regulates glutamate-dependent acid resistance.
Probab=98.10 E-value=5.7e-06 Score=49.89 Aligned_cols=49 Identities=12% Similarity=0.045 Sum_probs=37.9
Q ss_pred cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHH
Q psy17493 6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARD 61 (101)
Q Consensus 6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~ 61 (101)
+..+.+++||.|+.+.... .....+.+++++||+++.|+++++..+...
T Consensus 107 ~~~vi~v~nK~D~~~~~~~-------~~~~~~~~~~~~Sa~~~~~v~~l~~~l~~~ 155 (157)
T cd04164 107 DKPIIVVLNKSDLLPDSEL-------LSLLAGKPIIAISAKTGEGLDELKEALLEL 155 (157)
T ss_pred CCCEEEEEEchhcCCcccc-------ccccCCCceEEEECCCCCCHHHHHHHHHHh
Confidence 4567888999998653332 334456789999999999999999998764
No 151
>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=98.09 E-value=1.1e-05 Score=47.59 Aligned_cols=54 Identities=39% Similarity=0.391 Sum_probs=39.7
Q ss_pred cCCCcEEeecCCCCCCCCCCHHH-HHHHHHHhCCeEEEeccCCCCCHHHHHHHHH
Q psy17493 6 NTKSKYIEVPNFVSSMPQVSRER-GEQLAIEYGIKFMETSAKNSINVEDAFFTLA 59 (101)
Q Consensus 6 ~~~~~lv~nk~Dl~~~~~v~~~~-~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~ 59 (101)
+..+.+++||+|+.......... ...+....+.+++++||+.+.|++++|..++
T Consensus 102 ~~~~ivv~nk~D~~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~~~~~l~ 156 (157)
T cd00882 102 NIPIILVGNKIDLPEERVVSEEELAEQLAKELGVPYFETSAKTGENVEELFEELA 156 (157)
T ss_pred CCcEEEEEeccccccccchHHHHHHHHHHhhcCCcEEEEecCCCCChHHHHHHHh
Confidence 45567788999986543333322 4455556678999999999999999998875
No 152
>cd04159 Arl10_like Arl10-like subfamily. Arl9/Arl10 was identified from a human cancer-derived EST dataset. No functional information about the subfamily is available at the current time, but crystal structures of human Arl10b and Arl10c have been solved.
Probab=98.09 E-value=2.7e-06 Score=51.21 Aligned_cols=53 Identities=11% Similarity=0.029 Sum_probs=35.7
Q ss_pred cCCCcEEeecCCCCCCCCCCHHHHHHH-----HHHhCCeEEEeccCCCCCHHHHHHHHHH
Q psy17493 6 NTKSKYIEVPNFVSSMPQVSRERGEQL-----AIEYGIKFMETSAKNSINVEDAFFTLAR 60 (101)
Q Consensus 6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~-----a~~~~~~~~etSAk~~~~V~~~F~~~~~ 60 (101)
+.++.+++||.|+.+...+ .+.... ......+++++||++|.||+++|..+++
T Consensus 101 ~~p~iiv~nK~D~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~ 158 (159)
T cd04159 101 GIPLLVLGNKNDLPGALSV--DELIEQMNLKSITDREVSCYSISCKEKTNIDIVLDWLIK 158 (159)
T ss_pred CCCEEEEEeCccccCCcCH--HHHHHHhCcccccCCceEEEEEEeccCCChHHHHHHHhh
Confidence 3456678999998653322 222111 1122367899999999999999998864
No 153
>PRK00454 engB GTP-binding protein YsxC; Reviewed
Probab=98.08 E-value=7.3e-06 Score=51.66 Aligned_cols=57 Identities=4% Similarity=-0.141 Sum_probs=39.6
Q ss_pred cCCCcEEeecCCCCCCCC--CCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHH
Q psy17493 6 NTKSKYIEVPNFVSSMPQ--VSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDI 62 (101)
Q Consensus 6 ~~~~~lv~nk~Dl~~~~~--v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i 62 (101)
+.++.+++||.|+..... ...++...+.......++++||+++.|++++|..+...+
T Consensus 135 ~~~~iiv~nK~Dl~~~~~~~~~~~~i~~~l~~~~~~~~~~Sa~~~~gi~~l~~~i~~~~ 193 (196)
T PRK00454 135 GIPVLIVLTKADKLKKGERKKQLKKVRKALKFGDDEVILFSSLKKQGIDELRAAIAKWL 193 (196)
T ss_pred CCcEEEEEECcccCCHHHHHHHHHHHHHHHHhcCCceEEEEcCCCCCHHHHHHHHHHHh
Confidence 455678899999854322 112233344444467899999999999999999887654
No 154
>TIGR00436 era GTP-binding protein Era. Era is an essential GTPase in Escherichia coli and many other bacteria. It plays a role in ribosome biogenesis. Few bacteria lack this protein.
Probab=98.08 E-value=7.3e-06 Score=54.75 Aligned_cols=56 Identities=9% Similarity=-0.167 Sum_probs=40.1
Q ss_pred cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCC-eEEEeccCCCCCHHHHHHHHHHHH
Q psy17493 6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGI-KFMETSAKNSINVEDAFFTLARDI 62 (101)
Q Consensus 6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~-~~~etSAk~~~~V~~~F~~~~~~i 62 (101)
+.++.+|+||+|+... ....+....++...+. ++|.+||++|.||++++..+.+.+
T Consensus 107 ~~p~ilV~NK~Dl~~~-~~~~~~~~~~~~~~~~~~v~~iSA~~g~gi~~L~~~l~~~l 163 (270)
T TIGR00436 107 KRPVVLTRNKLDNKFK-DKLLPLIDKYAILEDFKDIVPISALTGDNTSFLAAFIEVHL 163 (270)
T ss_pred CCCEEEEEECeeCCCH-HHHHHHHHHHHhhcCCCceEEEecCCCCCHHHHHHHHHHhC
Confidence 3456788999998632 2223344455555554 799999999999999999887654
No 155
>cd01889 SelB_euk SelB subfamily. SelB is an elongation factor needed for the co-translational incorporation of selenocysteine. Selenocysteine is coded by a UGA stop codon in combination with a specific downstream mRNA hairpin. In bacteria, the C-terminal part of SelB recognizes this hairpin, while the N-terminal part binds GTP and tRNA in analogy with elongation factor Tu (EF-Tu). It specifically recognizes the selenocysteine charged tRNAsec, which has a UCA anticodon, in an EF-Tu like manner. This allows insertion of selenocysteine at in-frame UGA stop codons. In E. coli SelB binds GTP, selenocysteyl-tRNAsec and a stem-loop structure immediately downstream of the UGA codon (the SECIS sequence). The absence of active SelB prevents the participation of selenocysteyl-tRNAsec in translation. Archaeal and animal mechanisms of selenocysteine incorporation are more complex. Although the SECIS elements have different secondary structures and conserved elements between archaea and euk
Probab=98.07 E-value=5.7e-06 Score=52.40 Aligned_cols=58 Identities=12% Similarity=-0.144 Sum_probs=39.2
Q ss_pred cCCCcEEeecCCCCCCCC--CCHHHHHHH-HH------HhCCeEEEeccCCCCCHHHHHHHHHHHHH
Q psy17493 6 NTKSKYIEVPNFVSSMPQ--VSRERGEQL-AI------EYGIKFMETSAKNSINVEDAFFTLARDIK 63 (101)
Q Consensus 6 ~~~~~lv~nk~Dl~~~~~--v~~~~~~~~-a~------~~~~~~~etSAk~~~~V~~~F~~~~~~i~ 63 (101)
+.++.+++||.|+..... ...++..+. .. ..+++++.+||++|.||++++..+..++.
T Consensus 120 ~~~~iiv~NK~Dl~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~vi~iSa~~g~gi~~L~~~l~~~~~ 186 (192)
T cd01889 120 CKKLIVVLNKIDLIPEEERERKIEKMKKKLQKTLEKTRFKNSPIIPVSAKPGGGEAELGKDLNNLIV 186 (192)
T ss_pred CCCEEEEEECcccCCHHHHHHHHHHHHHHHHHHHHhcCcCCCCEEEEeccCCCCHHHHHHHHHhccc
Confidence 456678899999853221 122233221 11 13578999999999999999999987764
No 156
>PRK12296 obgE GTPase CgtA; Reviewed
Probab=98.07 E-value=8.2e-06 Score=58.89 Aligned_cols=60 Identities=13% Similarity=0.039 Sum_probs=42.6
Q ss_pred ccCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHHH
Q psy17493 5 INTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQ 65 (101)
Q Consensus 5 ~~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~~ 65 (101)
.+.+..+|+||+|+.+.+.+.. .........+.++|.+||+++.||+++|..+++.+...
T Consensus 283 ~~kP~IVVlNKiDL~da~el~e-~l~~~l~~~g~~Vf~ISA~tgeGLdEL~~~L~ell~~~ 342 (500)
T PRK12296 283 AERPRLVVLNKIDVPDARELAE-FVRPELEARGWPVFEVSAASREGLRELSFALAELVEEA 342 (500)
T ss_pred cCCCEEEEEECccchhhHHHHH-HHHHHHHHcCCeEEEEECCCCCCHHHHHHHHHHHHHhh
Confidence 3456778899999864333222 22222334578899999999999999999998876543
No 157
>cd00881 GTP_translation_factor GTP translation factor family. This family consists primarily of translation initiation, elongation, and release factors, which play specific roles in protein translation. In addition, the family includes Snu114p, a component of the U5 small nuclear riboprotein particle which is a component of the spliceosome and is involved in excision of introns, TetM, a tetracycline resistance gene that protects the ribosome from tetracycline binding, and the unusual subfamily CysN/ATPS, which has an unrelated function (ATP sulfurylase) acquired through lateral transfer of the EF1-alpha gene and development of a new function.
Probab=98.04 E-value=9.9e-06 Score=50.41 Aligned_cols=57 Identities=11% Similarity=-0.051 Sum_probs=39.4
Q ss_pred cCCCcEEeecCCCCCCCCCC--HHHHHHHHHH--------------hCCeEEEeccCCCCCHHHHHHHHHHHH
Q psy17493 6 NTKSKYIEVPNFVSSMPQVS--RERGEQLAIE--------------YGIKFMETSAKNSINVEDAFFTLARDI 62 (101)
Q Consensus 6 ~~~~~lv~nk~Dl~~~~~v~--~~~~~~~a~~--------------~~~~~~etSAk~~~~V~~~F~~~~~~i 62 (101)
+.++.+++||+|+.....+. .++..+..+. ...++|++||++|.||+++|..+.+.+
T Consensus 114 ~~~i~iv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~Sa~~g~gi~~l~~~l~~~l 186 (189)
T cd00881 114 GLPIIVAINKIDRVGEEDLEEVLREIKELLGLIGFISTKEEGTRNGLLVPIVPGSALTGIGVEELLEAIVEHL 186 (189)
T ss_pred CCCeEEEEECCCCcchhcHHHHHHHHHHHHccccccchhhhhcccCCcceEEEEecccCcCHHHHHHHHHhhC
Confidence 45667889999986422221 2233333332 246799999999999999999988764
No 158
>TIGR00450 mnmE_trmE_thdF tRNA modification GTPase TrmE. TrmE, also called MnmE and previously designated ThdF (thiophene and furan oxidation protein), is a GTPase involved in tRNA modification to create 5-methylaminomethyl-2-thiouridine in the wobble position of some tRNAs. This protein and GidA form an alpha2/beta2 heterotetramer.
Probab=98.03 E-value=1.3e-05 Score=57.24 Aligned_cols=54 Identities=13% Similarity=-0.044 Sum_probs=42.4
Q ss_pred cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHHHH
Q psy17493 6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQT 66 (101)
Q Consensus 6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~~~ 66 (101)
+.++.+|+||+|+... +...+++.++.+|+++|||+ .||+++|..+.+.+.+..
T Consensus 310 ~~piIlV~NK~Dl~~~------~~~~~~~~~~~~~~~vSak~-~gI~~~~~~L~~~i~~~~ 363 (442)
T TIGR00450 310 KKPFILVLNKIDLKIN------SLEFFVSSKVLNSSNLSAKQ-LKIKALVDLLTQKINAFY 363 (442)
T ss_pred CCCEEEEEECccCCCc------chhhhhhhcCCceEEEEEec-CCHHHHHHHHHHHHHHHh
Confidence 4566788999998642 23456777888999999998 699999999999876543
No 159
>cd04163 Era Era subfamily. Era (E. coli Ras-like protein) is a multifunctional GTPase found in all bacteria except some eubacteria. It binds to the 16S ribosomal RNA (rRNA) of the 30S subunit and appears to play a role in the assembly of the 30S subunit, possibly by chaperoning the 16S rRNA. It also contacts several assembly elements of the 30S subunit. Era couples cell growth with cytokinesis and plays a role in cell division and energy metabolism. Homologs have also been found in eukaryotes. Era contains two domains: the N-terminal GTPase domain and a C-terminal domain KH domain that is critical for RNA binding. Both domains are important for Era function. Era is functionally able to compensate for deletion of RbfA, a cold-shock adaptation protein that is required for efficient processing of the 16S rRNA.
Probab=98.02 E-value=1e-05 Score=48.94 Aligned_cols=55 Identities=13% Similarity=-0.080 Sum_probs=39.9
Q ss_pred CCCcEEeecCCCCCCCCCCHHHHHHHHHHhC-CeEEEeccCCCCCHHHHHHHHHHH
Q psy17493 7 TKSKYIEVPNFVSSMPQVSRERGEQLAIEYG-IKFMETSAKNSINVEDAFFTLARD 61 (101)
Q Consensus 7 ~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~-~~~~etSAk~~~~V~~~F~~~~~~ 61 (101)
....+++||.|+........+....++...+ .+++++||+++.|++++|..+.+.
T Consensus 112 ~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~~~~l~~~l~~~ 167 (168)
T cd04163 112 TPVILVLNKIDLVKDKEDLLPLLEKLKELGPFAEIFPISALKGENVDELLEEIVKY 167 (168)
T ss_pred CCEEEEEEchhccccHHHHHHHHHHHHhccCCCceEEEEeccCCChHHHHHHHHhh
Confidence 4566789999987433333344445555553 679999999999999999988654
No 160
>PRK00098 GTPase RsgA; Reviewed
Probab=98.00 E-value=7.9e-06 Score=55.46 Aligned_cols=53 Identities=17% Similarity=0.012 Sum_probs=38.7
Q ss_pred cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHH
Q psy17493 6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLA 59 (101)
Q Consensus 6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~ 59 (101)
+.++.+|+||+||.+... ...+...+.+..+.++|.+||+++.|++++|..+.
T Consensus 111 ~ip~iIVlNK~DL~~~~~-~~~~~~~~~~~~g~~v~~vSA~~g~gi~~L~~~l~ 163 (298)
T PRK00098 111 GIKPIIVLNKIDLLDDLE-EARELLALYRAIGYDVLELSAKEGEGLDELKPLLA 163 (298)
T ss_pred CCCEEEEEEhHHcCCCHH-HHHHHHHHHHHCCCeEEEEeCCCCccHHHHHhhcc
Confidence 456778899999953222 12233444556788999999999999999998775
No 161
>TIGR01393 lepA GTP-binding protein LepA. LepA (GUF1 in Saccaromyces) is a GTP-binding membrane protein related to EF-G and EF-Tu. Two types of phylogenetic tree, rooted by other GTP-binding proteins, suggest that eukaryotic homologs (including GUF1 of yeast) originated within the bacterial LepA family. The function is unknown.
Probab=97.99 E-value=2e-05 Score=58.07 Aligned_cols=56 Identities=13% Similarity=0.126 Sum_probs=42.1
Q ss_pred cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCe---EEEeccCCCCCHHHHHHHHHHHHH
Q psy17493 6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIK---FMETSAKNSINVEDAFFTLARDIK 63 (101)
Q Consensus 6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~---~~etSAk~~~~V~~~F~~~~~~i~ 63 (101)
+.++.+++||.|+.+. ...+...++++.++.. ++++||++|.||+++|..+++.+.
T Consensus 122 ~ipiIiViNKiDl~~~--~~~~~~~el~~~lg~~~~~vi~vSAktG~GI~~Lle~I~~~lp 180 (595)
T TIGR01393 122 DLEIIPVINKIDLPSA--DPERVKKEIEEVIGLDASEAILASAKTGIGIEEILEAIVKRVP 180 (595)
T ss_pred CCCEEEEEECcCCCcc--CHHHHHHHHHHHhCCCcceEEEeeccCCCCHHHHHHHHHHhCC
Confidence 4566788999998642 2233445677777753 899999999999999999987653
No 162
>PRK12289 GTPase RsgA; Reviewed
Probab=97.99 E-value=1.8e-05 Score=54.99 Aligned_cols=51 Identities=14% Similarity=0.074 Sum_probs=38.7
Q ss_pred cCCCcEEeecCCCCCCCCCCHHHHHHHH---HHhCCeEEEeccCCCCCHHHHHHHHHHH
Q psy17493 6 NTKSKYIEVPNFVSSMPQVSRERGEQLA---IEYGIKFMETSAKNSINVEDAFFTLARD 61 (101)
Q Consensus 6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a---~~~~~~~~etSAk~~~~V~~~F~~~~~~ 61 (101)
+.++.||+||+||.+ .++...|. ..+|+.+|.+||+++.||+++|..+...
T Consensus 120 ~ip~ILVlNK~DLv~-----~~~~~~~~~~~~~~g~~v~~iSA~tg~GI~eL~~~L~~k 173 (352)
T PRK12289 120 GLEIVLCLNKADLVS-----PTEQQQWQDRLQQWGYQPLFISVETGIGLEALLEQLRNK 173 (352)
T ss_pred CCCEEEEEEchhcCC-----hHHHHHHHHHHHhcCCeEEEEEcCCCCCHHHHhhhhccc
Confidence 567788999999853 22233333 4568889999999999999999888643
No 163
>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=97.98 E-value=9.7e-06 Score=49.71 Aligned_cols=56 Identities=16% Similarity=0.039 Sum_probs=39.0
Q ss_pred cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHH
Q psy17493 6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIK 63 (101)
Q Consensus 6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~ 63 (101)
+.++.++.||.|+.+.... .....+.+..+.+++.+||+++.|+++++..+.+.+.
T Consensus 41 ~~p~iiv~NK~Dl~~~~~~--~~~~~~~~~~~~~~~~iSa~~~~gi~~L~~~l~~~~~ 96 (156)
T cd01859 41 GKKLLIVLNKADLVPKEVL--EKWKSIKESEGIPVVYVSAKERLGTKILRRTIKELAK 96 (156)
T ss_pred CCcEEEEEEhHHhCCHHHH--HHHHHHHHhCCCcEEEEEccccccHHHHHHHHHHHHh
Confidence 4567788999998532111 1111233445678999999999999999999877654
No 164
>PRK12288 GTPase RsgA; Reviewed
Probab=97.98 E-value=1.8e-05 Score=54.85 Aligned_cols=55 Identities=7% Similarity=-0.037 Sum_probs=38.8
Q ss_pred cCCCcEEeecCCCCCCCC-CCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHH
Q psy17493 6 NTKSKYIEVPNFVSSMPQ-VSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLAR 60 (101)
Q Consensus 6 ~~~~~lv~nk~Dl~~~~~-v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~ 60 (101)
+.+..||+||+||.+... ....+.....+..|.++|++||+++.|++++|..+..
T Consensus 150 ~i~~VIVlNK~DL~~~~~~~~~~~~~~~y~~~g~~v~~vSA~tg~GideL~~~L~~ 205 (347)
T PRK12288 150 GIEPLIVLNKIDLLDDEGRAFVNEQLDIYRNIGYRVLMVSSHTGEGLEELEAALTG 205 (347)
T ss_pred CCCEEEEEECccCCCcHHHHHHHHHHHHHHhCCCeEEEEeCCCCcCHHHHHHHHhh
Confidence 456678999999964321 1112222333456789999999999999999988864
No 165
>cd04161 Arl2l1_Arl13_like Arl2l1/Arl13 subfamily. Arl2l1 (Arl2-like protein 1) and Arl13 form a subfamily of the Arf family of small GTPases. Arl2l1 was identified in human cells during a search for the gene(s) responsible for Bardet-Biedl syndrome (BBS). Like Arl6, the identified BBS gene, Arl2l1 is proposed to have cilia-specific functions. Arl13 is found on the X chromosome, but its expression has not been confirmed; it may be a pseudogene.
Probab=97.96 E-value=3.4e-06 Score=52.32 Aligned_cols=54 Identities=11% Similarity=-0.101 Sum_probs=36.5
Q ss_pred cCCCcEEeecCCCCCCCCC----CHHHHHHHHHHhC--CeEEEeccCCC------CCHHHHHHHHH
Q psy17493 6 NTKSKYIEVPNFVSSMPQV----SRERGEQLAIEYG--IKFMETSAKNS------INVEDAFFTLA 59 (101)
Q Consensus 6 ~~~~~lv~nk~Dl~~~~~v----~~~~~~~~a~~~~--~~~~etSAk~~------~~V~~~F~~~~ 59 (101)
+.++.||+||.|+.+.+.. .......++++.+ ..++++||++| .||++.|+=++
T Consensus 100 ~~piliv~NK~Dl~~~~~~~~i~~~~~l~~~~~~~~~~~~~~~~Sa~~g~~~~~~~g~~~~~~wl~ 165 (167)
T cd04161 100 GKPILVLANKQDKKNALLGADVIEYLSLEKLVNENKSLCHIEPCSAIEGLGKKIDPSIVEGLRWLL 165 (167)
T ss_pred CCcEEEEEeCCCCcCCCCHHHHHHhcCcccccCCCCceEEEEEeEceeCCCCccccCHHHHHHHHh
Confidence 4567888999999764421 1112234444444 45778999998 89999998765
No 166
>PRK00089 era GTPase Era; Reviewed
Probab=97.94 E-value=2.2e-05 Score=52.88 Aligned_cols=57 Identities=14% Similarity=-0.012 Sum_probs=42.9
Q ss_pred CCCcEEeecCCCCCCCCCCHHHHHHHHHHhC-CeEEEeccCCCCCHHHHHHHHHHHHH
Q psy17493 7 TKSKYIEVPNFVSSMPQVSRERGEQLAIEYG-IKFMETSAKNSINVEDAFFTLARDIK 63 (101)
Q Consensus 7 ~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~-~~~~etSAk~~~~V~~~F~~~~~~i~ 63 (101)
.++.+|+||.|+...+.........+.+.++ ..+|.+||+++.|++++|..+...+.
T Consensus 114 ~pvilVlNKiDl~~~~~~l~~~~~~l~~~~~~~~i~~iSA~~~~gv~~L~~~L~~~l~ 171 (292)
T PRK00089 114 TPVILVLNKIDLVKDKEELLPLLEELSELMDFAEIVPISALKGDNVDELLDVIAKYLP 171 (292)
T ss_pred CCEEEEEECCcCCCCHHHHHHHHHHHHhhCCCCeEEEecCCCCCCHHHHHHHHHHhCC
Confidence 4677889999986433333445566666555 56999999999999999999887653
No 167
>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=97.94 E-value=2.1e-05 Score=48.18 Aligned_cols=57 Identities=14% Similarity=0.057 Sum_probs=36.4
Q ss_pred cCCCcEEeecCCCCCCCCCCH-HHHHHHHH----Hh--CCeEEEeccCCCCCHHHHHHHHHHHH
Q psy17493 6 NTKSKYIEVPNFVSSMPQVSR-ERGEQLAI----EY--GIKFMETSAKNSINVEDAFFTLARDI 62 (101)
Q Consensus 6 ~~~~~lv~nk~Dl~~~~~v~~-~~~~~~a~----~~--~~~~~etSAk~~~~V~~~F~~~~~~i 62 (101)
+.++.+|+||+|+.....-.. .....+.. .+ +.+++++||++|.||+++|..+++..
T Consensus 102 ~~p~ivv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~~ 165 (168)
T cd01887 102 NVPFIVALNKIDKPNANPERVKNELSELGLQGEDEWGGDVQIVPTSAKTGEGIDDLLEAILLLA 165 (168)
T ss_pred CCCEEEEEEceecccccHHHHHHHHHHhhccccccccCcCcEEEeecccCCCHHHHHHHHHHhh
Confidence 456677899999863221110 11111111 11 25799999999999999999987643
No 168
>PRK12298 obgE GTPase CgtA; Reviewed
Probab=97.93 E-value=3.4e-05 Score=54.26 Aligned_cols=58 Identities=14% Similarity=0.089 Sum_probs=42.9
Q ss_pred cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhC--CeEEEeccCCCCCHHHHHHHHHHHHHH
Q psy17493 6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYG--IKFMETSAKNSINVEDAFFTLARDIKA 64 (101)
Q Consensus 6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~--~~~~etSAk~~~~V~~~F~~~~~~i~~ 64 (101)
+.+..||+||+|+.....+ .+....+.+..+ ..+|.+||+++.||++++..+++.+.+
T Consensus 275 ~kP~IlVlNKiDl~~~~el-~~~l~~l~~~~~~~~~Vi~ISA~tg~GIdeLl~~I~~~L~~ 334 (390)
T PRK12298 275 EKPRWLVFNKIDLLDEEEA-EERAKAIVEALGWEGPVYLISAASGLGVKELCWDLMTFIEE 334 (390)
T ss_pred CCCEEEEEeCCccCChHHH-HHHHHHHHHHhCCCCCEEEEECCCCcCHHHHHHHHHHHhhh
Confidence 4566788999998643333 344455656554 468999999999999999999887754
No 169
>PRK05291 trmE tRNA modification GTPase TrmE; Reviewed
Probab=97.92 E-value=1.7e-05 Score=56.67 Aligned_cols=51 Identities=10% Similarity=0.005 Sum_probs=39.2
Q ss_pred cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHH
Q psy17493 6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKA 64 (101)
Q Consensus 6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~ 64 (101)
+.++.+|+||+|+.....+. ...+..++++||++|.||+++|..+.+.+..
T Consensus 321 ~~piiiV~NK~DL~~~~~~~--------~~~~~~~i~iSAktg~GI~~L~~~L~~~l~~ 371 (449)
T PRK05291 321 DKPVIVVLNKADLTGEIDLE--------EENGKPVIRISAKTGEGIDELREAIKELAFG 371 (449)
T ss_pred CCCcEEEEEhhhccccchhh--------hccCCceEEEEeeCCCCHHHHHHHHHHHHhh
Confidence 45677899999996433322 3345679999999999999999999887643
No 170
>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=97.91 E-value=1.4e-05 Score=47.69 Aligned_cols=55 Identities=11% Similarity=-0.017 Sum_probs=37.5
Q ss_pred CCCcEEeecCCCCCCCCCCHH---HHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHH
Q psy17493 7 TKSKYIEVPNFVSSMPQVSRE---RGEQLAIEYGIKFMETSAKNSINVEDAFFTLARD 61 (101)
Q Consensus 7 ~~~~lv~nk~Dl~~~~~v~~~---~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~ 61 (101)
....+++||.|+.....+... .........+.++|++||+++.||++++..+.+.
T Consensus 105 ~~~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~v~~l~~~l~~~ 162 (163)
T cd00880 105 KPVLLVLNKIDLLPEEEEEELLELRLLILLLLLGLPVIAVSALTGEGIDELREALIEA 162 (163)
T ss_pred CeEEEEEEccccCChhhHHHHHHHHHhhcccccCCceEEEeeeccCCHHHHHHHHHhh
Confidence 445678899998643322221 1122333345789999999999999999988764
No 171
>PRK13796 GTPase YqeH; Provisional
Probab=97.90 E-value=3.9e-05 Score=53.53 Aligned_cols=55 Identities=13% Similarity=0.178 Sum_probs=41.0
Q ss_pred cCCCcEEeecCCCCCCCCCCHHHHHHH----HHHhCC---eEEEeccCCCCCHHHHHHHHHHH
Q psy17493 6 NTKSKYIEVPNFVSSMPQVSRERGEQL----AIEYGI---KFMETSAKNSINVEDAFFTLARD 61 (101)
Q Consensus 6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~----a~~~~~---~~~etSAk~~~~V~~~F~~~~~~ 61 (101)
+.++.+|+||.||.. +.+..++...| ++.+|+ .++.+||+++.||+++|..+.+.
T Consensus 96 ~kpviLViNK~DLl~-~~~~~~~i~~~l~~~~k~~g~~~~~v~~vSAk~g~gI~eL~~~I~~~ 157 (365)
T PRK13796 96 NNPVLLVGNKADLLP-KSVKKNKVKNWLRQEAKELGLRPVDVVLISAQKGHGIDELLEAIEKY 157 (365)
T ss_pred CCCEEEEEEchhhCC-CccCHHHHHHHHHHHHHhcCCCcCcEEEEECCCCCCHHHHHHHHHHh
Confidence 456778999999964 44444454444 555675 57999999999999999998653
No 172
>PRK03003 GTP-binding protein Der; Reviewed
Probab=97.87 E-value=2.4e-05 Score=56.17 Aligned_cols=55 Identities=9% Similarity=-0.037 Sum_probs=38.5
Q ss_pred cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHH
Q psy17493 6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKA 64 (101)
Q Consensus 6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~ 64 (101)
+.++.+|+||+|+... ..+....++...+ ..|++||++|.||+++|+.++..+.+
T Consensus 146 ~~piilV~NK~Dl~~~---~~~~~~~~~~g~~-~~~~iSA~~g~gi~eL~~~i~~~l~~ 200 (472)
T PRK03003 146 GKPVILAANKVDDERG---EADAAALWSLGLG-EPHPVSALHGRGVGDLLDAVLAALPE 200 (472)
T ss_pred CCCEEEEEECccCCcc---chhhHHHHhcCCC-CeEEEEcCCCCCcHHHHHHHHhhccc
Confidence 4567888999998532 2222233322222 35799999999999999999988754
No 173
>TIGR00475 selB selenocysteine-specific elongation factor SelB. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several elements: SelC is the tRNA itself, SelD acts as a donor of reduced selenium, SelA modifies a serine residue on SelC into selenocysteine, and SelB is a selenocysteine-specific translation elongation factor. 3-prime or 5-prime non-coding elements of mRNA have been found as probable structures for directing selenocysteine incorporation. This model describes the elongation factor SelB, a close homolog rf EF-Tu. It may function by replacing EF-Tu. A C-terminal domain not found in EF-Tu is in all SelB sequences in the seed alignment except that from Methanococcus jannaschii. This model does not find an equivalent protein for eukaryotes.
Probab=97.87 E-value=2.3e-05 Score=57.66 Aligned_cols=58 Identities=14% Similarity=0.082 Sum_probs=42.0
Q ss_pred cCC-CcEEeecCCCCCCCCC--CHHHHHHHHHHh----CCeEEEeccCCCCCHHHHHHHHHHHHH
Q psy17493 6 NTK-SKYIEVPNFVSSMPQV--SRERGEQLAIEY----GIKFMETSAKNSINVEDAFFTLARDIK 63 (101)
Q Consensus 6 ~~~-~~lv~nk~Dl~~~~~v--~~~~~~~~a~~~----~~~~~etSAk~~~~V~~~F~~~~~~i~ 63 (101)
|.+ +.+++||+|+.+...+ ..++...+.+.. ++++|++||++|.||+++|..+...+-
T Consensus 102 gi~~iIVVlNK~Dlv~~~~~~~~~~ei~~~l~~~~~~~~~~ii~vSA~tG~GI~eL~~~L~~l~~ 166 (581)
T TIGR00475 102 GIPHTIVVITKADRVNEEEIKRTEMFMKQILNSYIFLKNAKIFKTSAKTGQGIGELKKELKNLLE 166 (581)
T ss_pred CCCeEEEEEECCCCCCHHHHHHHHHHHHHHHHHhCCCCCCcEEEEeCCCCCCchhHHHHHHHHHH
Confidence 444 7788999998653322 234555666554 468999999999999999988876543
No 174
>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=97.86 E-value=3.4e-05 Score=48.61 Aligned_cols=54 Identities=7% Similarity=-0.105 Sum_probs=38.8
Q ss_pred cCCCcEEeecCCCCCCCCCCHHHHHHHHHH------------hCCeEEEeccCCCCCHHHHHHHHHHH
Q psy17493 6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIE------------YGIKFMETSAKNSINVEDAFFTLARD 61 (101)
Q Consensus 6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~------------~~~~~~etSAk~~~~V~~~F~~~~~~ 61 (101)
+..+.+++||.|+. ..++.++......- ....+|++||++|.|++++|+-+...
T Consensus 118 ~~piliv~NK~Dl~--~~~~~~~i~~~l~l~~~~~~~~~~~~~~~~i~~~Sa~~~~g~~~~~~wl~~~ 183 (184)
T smart00178 118 TVPFLILGNKIDAP--YAASEDELRYALGLTNTTGSKGKVGVRPLEVFMCSVVRRMGYGEGFKWLSQY 183 (184)
T ss_pred CCCEEEEEeCcccc--CCCCHHHHHHHcCCCcccccccccCCceeEEEEeecccCCChHHHHHHHHhh
Confidence 55677889999985 35666665433211 12348999999999999999988653
No 175
>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=97.84 E-value=2.8e-05 Score=52.55 Aligned_cols=53 Identities=13% Similarity=0.028 Sum_probs=38.7
Q ss_pred cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHH
Q psy17493 6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLAR 60 (101)
Q Consensus 6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~ 60 (101)
+.++.+|+||+||.+.. .......+....+.+++.+||+++.|+++++..+..
T Consensus 109 ~ip~iIVlNK~DL~~~~--~~~~~~~~~~~~g~~v~~vSA~~g~gi~~L~~~L~~ 161 (287)
T cd01854 109 GIEPVIVLTKADLLDDE--EEELELVEALALGYPVLAVSAKTGEGLDELREYLKG 161 (287)
T ss_pred CCCEEEEEEHHHCCChH--HHHHHHHHHHhCCCeEEEEECCCCccHHHHHhhhcc
Confidence 45677889999996431 112223344557889999999999999999988764
No 176
>KOG3883|consensus
Probab=97.82 E-value=2.7e-05 Score=48.26 Aligned_cols=56 Identities=14% Similarity=0.108 Sum_probs=50.7
Q ss_pred cEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHHH
Q psy17493 10 KYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQ 65 (101)
Q Consensus 10 ~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~~ 65 (101)
.+.+||.|+.+++.+..+.|..||+.-.+..||++|++...+-+.|..++..+...
T Consensus 122 VVLaN~rdr~~p~~vd~d~A~~Wa~rEkvkl~eVta~dR~sL~epf~~l~~rl~~p 177 (198)
T KOG3883|consen 122 VVLANKRDRAEPREVDMDVAQIWAKREKVKLWEVTAMDRPSLYEPFTYLASRLHQP 177 (198)
T ss_pred EEEechhhcccchhcCHHHHHHHHhhhheeEEEEEeccchhhhhHHHHHHHhccCC
Confidence 34589999999999999999999999999999999999999999999998777643
No 177
>PRK04000 translation initiation factor IF-2 subunit gamma; Validated
Probab=97.82 E-value=2.6e-05 Score=55.12 Aligned_cols=55 Identities=11% Similarity=0.114 Sum_probs=39.0
Q ss_pred CCcEEeecCCCCCCCCC--CHHHHHHHHHHh---CCeEEEeccCCCCCHHHHHHHHHHHH
Q psy17493 8 KSKYIEVPNFVSSMPQV--SRERGEQLAIEY---GIKFMETSAKNSINVEDAFFTLARDI 62 (101)
Q Consensus 8 ~~~lv~nk~Dl~~~~~v--~~~~~~~~a~~~---~~~~~etSAk~~~~V~~~F~~~~~~i 62 (101)
.+.+++||.|+.+.... ..++...+.+.. +.++|.+||++|.||+++|..+...+
T Consensus 141 ~iiVVlNK~Dl~~~~~~~~~~~~i~~~l~~~~~~~~~ii~vSA~~g~gI~~L~~~L~~~l 200 (411)
T PRK04000 141 NIVIVQNKIDLVSKERALENYEQIKEFVKGTVAENAPIIPVSALHKVNIDALIEAIEEEI 200 (411)
T ss_pred cEEEEEEeeccccchhHHHHHHHHHHHhccccCCCCeEEEEECCCCcCHHHHHHHHHHhC
Confidence 35678899998643222 123444454432 47899999999999999999987655
No 178
>PRK00093 GTP-binding protein Der; Reviewed
Probab=97.76 E-value=3.7e-05 Score=54.41 Aligned_cols=57 Identities=9% Similarity=-0.080 Sum_probs=37.8
Q ss_pred cCCCcEEeecCCCCCCCCCCHHHHHHHHHH----hCCeEEEeccCCCCCHHHHHHHHHHHHH
Q psy17493 6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIE----YGIKFMETSAKNSINVEDAFFTLARDIK 63 (101)
Q Consensus 6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~----~~~~~~etSAk~~~~V~~~F~~~~~~i~ 63 (101)
|..+.+++||+|+.+... ..+....+... ..++++++||++|.||+++|..+.+...
T Consensus 284 ~~~~ivv~NK~Dl~~~~~-~~~~~~~~~~~l~~~~~~~i~~~SA~~~~gv~~l~~~i~~~~~ 344 (435)
T PRK00093 284 GRALVIVVNKWDLVDEKT-MEEFKKELRRRLPFLDYAPIVFISALTGQGVDKLLEAIDEAYE 344 (435)
T ss_pred CCcEEEEEECccCCCHHH-HHHHHHHHHHhcccccCCCEEEEeCCCCCCHHHHHHHHHHHHH
Confidence 566778899999863211 11111122222 2478999999999999999998876443
No 179
>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=97.76 E-value=3.3e-05 Score=53.66 Aligned_cols=49 Identities=16% Similarity=0.043 Sum_probs=34.4
Q ss_pred CCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHH
Q psy17493 7 TKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARD 61 (101)
Q Consensus 7 ~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~ 61 (101)
.++.+|+||+|+.+...+ ..+. ....+++.+||++|.||+++|..+...
T Consensus 302 ~piIlV~NK~Dl~~~~~v-----~~~~-~~~~~~i~iSAktg~GI~eL~~~I~~~ 350 (351)
T TIGR03156 302 IPQLLVYNKIDLLDEPRI-----ERLE-EGYPEAVFVSAKTGEGLDLLLEAIAER 350 (351)
T ss_pred CCEEEEEEeecCCChHhH-----HHHH-hCCCCEEEEEccCCCCHHHHHHHHHhh
Confidence 456788999998643222 1111 123468999999999999999988653
No 180
>COG0378 HypB Ni2+-binding GTPase involved in regulation of expression and maturation of urease and hydrogenase [Posttranslational modification, protein turnover, chaperones / Transcription]
Probab=97.76 E-value=7.3e-05 Score=47.90 Aligned_cols=50 Identities=10% Similarity=-0.028 Sum_probs=40.1
Q ss_pred EEeecCCCCCCCCCCHHHHHHHHHHhC--CeEEEeccCCCCCHHHHHHHHHH
Q psy17493 11 YIEVPNFVSSMPQVSRERGEQLAIEYG--IKFMETSAKNSINVEDAFFTLAR 60 (101)
Q Consensus 11 lv~nk~Dl~~~~~v~~~~~~~~a~~~~--~~~~etSAk~~~~V~~~F~~~~~ 60 (101)
+|.||.||...-....+...+-+++.+ .+|++||+|||.|++++...+..
T Consensus 147 lVInK~DLa~~v~~dlevm~~da~~~np~~~ii~~n~ktg~G~~~~~~~i~~ 198 (202)
T COG0378 147 LVINKTDLAPYVGADLEVMARDAKEVNPEAPIIFTNLKTGEGLDEWLRFIEP 198 (202)
T ss_pred EEEehHHhHHHhCccHHHHHHHHHHhCCCCCEEEEeCCCCcCHHHHHHHHHh
Confidence 468999998655566677777777765 78999999999999999766654
No 181
>COG1100 GTPase SAR1 and related small G proteins [General function prediction only]
Probab=97.75 E-value=0.00016 Score=46.35 Aligned_cols=62 Identities=23% Similarity=0.102 Sum_probs=45.4
Q ss_pred CCCcEEeecCCCCCC------------CCCCHHHHHHHHHHh---CCeEEEeccC--CCCCHHHHHHHHHHHHHHHHhh
Q psy17493 7 TKSKYIEVPNFVSSM------------PQVSRERGEQLAIEY---GIKFMETSAK--NSINVEDAFFTLARDIKAQTEK 68 (101)
Q Consensus 7 ~~~~lv~nk~Dl~~~------------~~v~~~~~~~~a~~~---~~~~~etSAk--~~~~V~~~F~~~~~~i~~~~~~ 68 (101)
..+.+++||+|+... +.+........+... ...++++||+ ++.+|+++|..+++.+......
T Consensus 112 ~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~~~v~~~~~~~~~~~~~~~~~ 190 (219)
T COG1100 112 VPILLVGNKIDLFDEQSSSEEILNQLNREVVLLVLAPKAVLPEVANPALLETSAKSLTGPNVNELFKELLRKLLEEIEK 190 (219)
T ss_pred ceEEEEecccccccchhHHHHHHhhhhcCcchhhhHhHHhhhhhcccceeEeecccCCCcCHHHHHHHHHHHHHHhhhh
Confidence 345678999999765 345555555554444 3449999999 9999999999999988765433
No 182
>TIGR00487 IF-2 translation initiation factor IF-2. This model discriminates eubacterial (and mitochondrial) translation initiation factor 2 (IF-2), encoded by the infB gene in bacteria, from similar proteins in the Archaea and Eukaryotes. In the bacteria and in organelles, the initiator tRNA is charged with N-formyl-Met instead of Met. This translation factor acts in delivering the initator tRNA to the ribosome. It is one of a number of GTP-binding translation factors recognized by the pfam model GTP_EFTU.
Probab=97.72 E-value=0.00011 Score=54.26 Aligned_cols=52 Identities=17% Similarity=0.084 Sum_probs=36.7
Q ss_pred cCCCcEEeecCCCCCCCCCCHHHHHHHHHHh-------C--CeEEEeccCCCCCHHHHHHHHHH
Q psy17493 6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEY-------G--IKFMETSAKNSINVEDAFFTLAR 60 (101)
Q Consensus 6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~-------~--~~~~etSAk~~~~V~~~F~~~~~ 60 (101)
+.++.+++||+|+.. ...++.......+ + .+|+++||++|.||+++|..+..
T Consensus 187 ~vPiIVviNKiDl~~---~~~e~v~~~L~~~g~~~~~~~~~~~~v~iSAktGeGI~eLl~~I~~ 247 (587)
T TIGR00487 187 NVPIIVAINKIDKPE---ANPDRVKQELSEYGLVPEDWGGDTIFVPVSALTGDGIDELLDMILL 247 (587)
T ss_pred CCCEEEEEECccccc---CCHHHHHHHHHHhhhhHHhcCCCceEEEEECCCCCChHHHHHhhhh
Confidence 455677899999853 2334444333332 2 46999999999999999998864
No 183
>KOG1673|consensus
Probab=97.68 E-value=3.7e-05 Score=47.79 Aligned_cols=40 Identities=18% Similarity=0.179 Sum_probs=35.6
Q ss_pred HHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHHH
Q psy17493 26 RERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQ 65 (101)
Q Consensus 26 ~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~~ 65 (101)
..+++.||+-.++..|.+|+-.+.||..+|..+...+++-
T Consensus 149 ~~qar~YAk~mnAsL~F~Sts~sINv~KIFK~vlAklFnL 188 (205)
T KOG1673|consen 149 SRQARKYAKVMNASLFFCSTSHSINVQKIFKIVLAKLFNL 188 (205)
T ss_pred HHHHHHHHHHhCCcEEEeeccccccHHHHHHHHHHHHhCC
Confidence 3578999999999999999999999999999988877653
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=97.64 E-value=6e-05 Score=53.21 Aligned_cols=54 Identities=11% Similarity=0.049 Sum_probs=38.3
Q ss_pred CcEEeecCCCCCCCC--CCHHHHHHHHHHh---CCeEEEeccCCCCCHHHHHHHHHHHH
Q psy17493 9 SKYIEVPNFVSSMPQ--VSRERGEQLAIEY---GIKFMETSAKNSINVEDAFFTLARDI 62 (101)
Q Consensus 9 ~~lv~nk~Dl~~~~~--v~~~~~~~~a~~~---~~~~~etSAk~~~~V~~~F~~~~~~i 62 (101)
+.+++||.|+.+... ...++...+.... +.++|.+||++|.||+++|+.+...+
T Consensus 137 iIVvvNK~Dl~~~~~~~~~~~~i~~~l~~~~~~~~~ii~vSA~~g~gi~~L~e~L~~~l 195 (406)
T TIGR03680 137 IVIVQNKIDLVSKEKALENYEEIKEFVKGTVAENAPIIPVSALHNANIDALLEAIEKFI 195 (406)
T ss_pred EEEEEEccccCCHHHHHHHHHHHHhhhhhcccCCCeEEEEECCCCCChHHHHHHHHHhC
Confidence 567799999864322 1234444444443 56899999999999999999987654
No 185
>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=97.63 E-value=1.9e-05 Score=49.01 Aligned_cols=52 Identities=10% Similarity=0.075 Sum_probs=41.0
Q ss_pred cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHH
Q psy17493 6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTL 58 (101)
Q Consensus 6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~ 58 (101)
|.++.++.||.|+..++.+.. ....+++..|++.+.+||+++.|+++++..+
T Consensus 105 g~P~vvvlN~~D~a~~~g~~i-d~~~Ls~~Lg~pvi~~sa~~~~g~~~L~~~I 156 (156)
T PF02421_consen 105 GIPVVVVLNKMDEAERKGIEI-DAEKLSERLGVPVIPVSARTGEGIDELKDAI 156 (156)
T ss_dssp TSSEEEEEETHHHHHHTTEEE--HHHHHHHHTS-EEEEBTTTTBTHHHHHHHH
T ss_pred CCCEEEEEeCHHHHHHcCCEE-CHHHHHHHhCCCEEEEEeCCCcCHHHHHhhC
Confidence 667788899999865555443 3667888999999999999999999998764
No 186
>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=97.62 E-value=6.6e-05 Score=45.50 Aligned_cols=56 Identities=4% Similarity=-0.119 Sum_probs=36.4
Q ss_pred cCCCcEEeecCCCCCCCCC--CHHHHHHHHH--HhCCeEEEeccCCCCCHHHHHHHHHHH
Q psy17493 6 NTKSKYIEVPNFVSSMPQV--SRERGEQLAI--EYGIKFMETSAKNSINVEDAFFTLARD 61 (101)
Q Consensus 6 ~~~~~lv~nk~Dl~~~~~v--~~~~~~~~a~--~~~~~~~etSAk~~~~V~~~F~~~~~~ 61 (101)
+..+.+++||+|+...... .........+ ....+++.+||+++.++.++++.+.+.
T Consensus 110 ~~~vi~v~nK~D~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~Sa~~~~~~~~l~~~l~~~ 169 (170)
T cd01876 110 GIPFLVVLTKADKLKKSELAKALKEIKKELKLFEIDPPIILFSSLKGQGIDELRALIEKW 169 (170)
T ss_pred CCCEEEEEEchhcCChHHHHHHHHHHHHHHHhccCCCceEEEecCCCCCHHHHHHHHHHh
Confidence 3456778999998432211 1122222222 233679999999999999999988764
No 187
>PRK11058 GTPase HflX; Provisional
Probab=97.60 E-value=0.00014 Score=51.74 Aligned_cols=53 Identities=11% Similarity=-0.062 Sum_probs=36.8
Q ss_pred CCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCe-EEEeccCCCCCHHHHHHHHHHHHHH
Q psy17493 7 TKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIK-FMETSAKNSINVEDAFFTLARDIKA 64 (101)
Q Consensus 7 ~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~-~~etSAk~~~~V~~~F~~~~~~i~~ 64 (101)
.++.+|+||+|+..... .. . . ....+.+ ++.+||++|.||+++|..+...+..
T Consensus 310 ~pvIiV~NKiDL~~~~~-~~--~-~-~~~~~~~~~v~ISAktG~GIdeL~e~I~~~l~~ 363 (426)
T PRK11058 310 IPTLLVMNKIDMLDDFE-PR--I-D-RDEENKPIRVWLSAQTGAGIPLLFQALTERLSG 363 (426)
T ss_pred CCEEEEEEcccCCCchh-HH--H-H-HHhcCCCceEEEeCCCCCCHHHHHHHHHHHhhh
Confidence 45678899999863211 11 1 1 1124555 5899999999999999999987754
No 188
>PRK09554 feoB ferrous iron transport protein B; Reviewed
Probab=97.60 E-value=0.00017 Score=54.73 Aligned_cols=55 Identities=7% Similarity=0.022 Sum_probs=46.0
Q ss_pred cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHH
Q psy17493 6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARD 61 (101)
Q Consensus 6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~ 61 (101)
|.++.++.||.|+.+.+.+. .+.+++++..|.+++.+||+++.||+++...+.+.
T Consensus 112 giPvIvVlNK~Dl~~~~~i~-id~~~L~~~LG~pVvpiSA~~g~GIdeL~~~I~~~ 166 (772)
T PRK09554 112 GIPCIVALNMLDIAEKQNIR-IDIDALSARLGCPVIPLVSTRGRGIEALKLAIDRH 166 (772)
T ss_pred CCCEEEEEEchhhhhccCcH-HHHHHHHHHhCCCEEEEEeecCCCHHHHHHHHHHh
Confidence 56778889999987656664 46678889999999999999999999999887654
No 189
>PRK05433 GTP-binding protein LepA; Provisional
Probab=97.60 E-value=0.00023 Score=52.65 Aligned_cols=57 Identities=14% Similarity=0.123 Sum_probs=41.3
Q ss_pred cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCe---EEEeccCCCCCHHHHHHHHHHHHHH
Q psy17493 6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIK---FMETSAKNSINVEDAFFTLARDIKA 64 (101)
Q Consensus 6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~---~~etSAk~~~~V~~~F~~~~~~i~~ 64 (101)
+.++.+++||.|+.... ......++.+..++. ++.+||++|.||+++|..+++.+..
T Consensus 126 ~lpiIvViNKiDl~~a~--~~~v~~ei~~~lg~~~~~vi~iSAktG~GI~~Ll~~I~~~lp~ 185 (600)
T PRK05433 126 DLEIIPVLNKIDLPAAD--PERVKQEIEDVIGIDASDAVLVSAKTGIGIEEVLEAIVERIPP 185 (600)
T ss_pred CCCEEEEEECCCCCccc--HHHHHHHHHHHhCCCcceEEEEecCCCCCHHHHHHHHHHhCcc
Confidence 45567889999986422 122334555656654 8999999999999999999876643
No 190
>PF00025 Arf: ADP-ribosylation factor family The prints entry specific to Sar1 proteins The Prosite entry specific to Sar1 proteins; InterPro: IPR006689 Small GTPases form an independent superfamily within the larger class of regulatory GTP hydrolases. This superfamily contains proteins that control a vast number of important processes and possess a common, structurally preserved GTP-binding domain [, ]. Sequence comparisons of small G proteins from various species have revealed that they are conserved in primary structures at the level of 30-55% similarity []. Crystallographic analysis of various small G proteins revealed the presence of a 20 kDa catalytic domain that is unique for the whole superfamily [, ]. The domain is built of five alpha helices (A1-A5), six beta-strands (B1-B6) and five polypeptide loops (G1-G5). A structural comparison of the GTP- and GDP-bound form, allows one to distinguish two functional loop regions: switch I and switch II that surround the gamma-phosphate group of the nucleotide. The G1 loop (also called the P-loop) that connects the B1 strand and the A1 helix is responsible for the binding of the phosphate groups. The G3 loop provides residues for Mg(2+) and phosphate binding and is located at the N terminus of the A2 helix. The G1 and G3 loops are sequentially similar to Walker A and Walker B boxes that are found in other nucleotide binding motifs. The G2 loop connects the A1 helix and the B2 strand and contains a conserved Thr residue responsible for Mg(2+) binding. The guanine base is recognised by the G4 and G5 loops. The consensus sequence NKXD of the G4 loop contains Lys and Asp residues directly interacting with the nucleotide. Part of the G5 loop located between B6 and A5 acts as a recognition site for the guanine base []. The small GTPase superfamily can be divided into at least 8 different families, including: Arf small GTPases. GTP-binding proteins involved in protein trafficking by modulating vesicle budding and uncoating within the Golgi apparatus. Ran small GTPases. GTP-binding proteins involved in nucleocytoplasmic transport. Required for the import of proteins into the nucleus and also for RNA export. Rab small GTPases. GTP-binding proteins involved in vesicular traffic. Rho small GTPases. GTP-binding proteins that control cytoskeleton reorganisation. Ras small GTPases. GTP-binding proteins involved in signalling pathways. Sar1 small GTPases. Small GTPase component of the coat protein complex II (COPII) which promotes the formation of transport vesicles from the endoplasmic reticulum (ER). Mitochondrial Rho (Miro). Small GTPase domain found in mitochondrial proteins involved in mitochondrial trafficking. Roc small GTPases domain. Small GTPase domain always found associated with the COR domain. This entry represents a branch of the small GTPase superfamily that includes the ADP ribosylation factor Arf, Arl (Arf-like), Arp (Arf-related proteins) and the remotely related Sar (Secretion-associated and Ras-related) proteins. Arf proteins are major regulators of vesicle biogenesis in intracellular traffic []. They cycle between inactive GDP-bound and active GTP-bound forms that bind selectively to effectors. The classical structural GDP/GTP switch is characterised by conformational changes at the so-called switch 1 and switch 2 regions, which bind tightly to the gamma-phosphate of GTP but poorly or not at all to the GDP nucleotide. Structural studies of Arf1 and Arf6 have revealed that although these proteins feature the switch 1 and 2 conformational changes, they depart from other small GTP-binding proteins in that they use an additional, unique switch to propagate structural information from one side of the protein to the other. The GDP/GTP structural cycles of human Arf1 and Arf6 feature a unique conformational change that affects the beta2-beta3 strands connecting switch 1 and switch 2 (interswitch) and also the amphipathic helical N terminus. In GDP-bound Arf1 and Arf6, the interswitch is retracted and forms a pocket to which the N-terminal helix binds, the latter serving as a molecular hasp to maintain the inactive conformation. In the GTP-bound form of these proteins, the interswitch undergoes a two-residue register shift that pulls switch 1 and switch 2 up, restoring an active conformation that can bind GTP. In this conformation, the interswitch projects out of the protein and extrudes the N-terminal hasp by occluding its binding pocket.; GO: 0005525 GTP binding; PDB: 2H57_B 2W83_B 3N5C_B 2J5X_A 3LVR_E 2BAO_A 3LVQ_E 2A5F_A 3PCR_B 1E0S_A ....
Probab=97.55 E-value=0.00036 Score=43.72 Aligned_cols=55 Identities=15% Similarity=0.047 Sum_probs=39.1
Q ss_pred cCCCcEEeecCCCCCCCCCCHHHHHHHHHHh------CCeEEEeccCCCCCHHHHHHHHHHHH
Q psy17493 6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEY------GIKFMETSAKNSINVEDAFFTLARDI 62 (101)
Q Consensus 6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~------~~~~~etSAk~~~~V~~~F~~~~~~i 62 (101)
+.++-+++||.|+.+ .++.++....-.-. ....+.+||++|.||.+.|.-+.+.|
T Consensus 115 ~~piLIl~NK~D~~~--~~~~~~i~~~l~l~~l~~~~~~~v~~~sa~~g~Gv~e~l~WL~~~~ 175 (175)
T PF00025_consen 115 DIPILILANKQDLPD--AMSEEEIKEYLGLEKLKNKRPWSVFSCSAKTGEGVDEGLEWLIEQI 175 (175)
T ss_dssp TSEEEEEEESTTSTT--SSTHHHHHHHTTGGGTTSSSCEEEEEEBTTTTBTHHHHHHHHHHHH
T ss_pred cceEEEEeccccccC--cchhhHHHhhhhhhhcccCCceEEEeeeccCCcCHHHHHHHHHhcC
Confidence 445556789999863 45666655443222 24588999999999999999888754
No 191
>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=97.49 E-value=0.00027 Score=49.88 Aligned_cols=53 Identities=9% Similarity=0.018 Sum_probs=39.2
Q ss_pred cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCC-eEEEeccCCCCCHHHHHHHHHHHHH
Q psy17493 6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGI-KFMETSAKNSINVEDAFFTLARDIK 63 (101)
Q Consensus 6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~-~~~etSAk~~~~V~~~F~~~~~~i~ 63 (101)
+.++.+|+||+|+...... ... ....|. .+|++||++|.||+++|..+.+.+.
T Consensus 107 ~~piilVvNK~D~~~~~~~----~~~-~~~lg~~~~~~vSa~~g~gv~~ll~~i~~~l~ 160 (429)
T TIGR03594 107 GKPVILVANKIDGKKEDAV----AAE-FYSLGFGEPIPISAEHGRGIGDLLDAILELLP 160 (429)
T ss_pred CCCEEEEEECccCCccccc----HHH-HHhcCCCCeEEEeCCcCCChHHHHHHHHHhcC
Confidence 4567888999998643321 122 245666 6999999999999999999987664
No 192
>PRK10512 selenocysteinyl-tRNA-specific translation factor; Provisional
Probab=97.48 E-value=0.00019 Score=53.30 Aligned_cols=52 Identities=15% Similarity=0.122 Sum_probs=37.2
Q ss_pred cEEeecCCCCCCCCCC--HHHHHHHHHHhC---CeEEEeccCCCCCHHHHHHHHHHH
Q psy17493 10 KYIEVPNFVSSMPQVS--RERGEQLAIEYG---IKFMETSAKNSINVEDAFFTLARD 61 (101)
Q Consensus 10 ~lv~nk~Dl~~~~~v~--~~~~~~~a~~~~---~~~~etSAk~~~~V~~~F~~~~~~ 61 (101)
.+|+||+|+.++..+. .++...+....+ .++|.+||++|.||++++..+...
T Consensus 108 IVVlNKiDlv~~~~~~~v~~ei~~~l~~~~~~~~~ii~VSA~tG~gI~~L~~~L~~~ 164 (614)
T PRK10512 108 TVALTKADRVDEARIAEVRRQVKAVLREYGFAEAKLFVTAATEGRGIDALREHLLQL 164 (614)
T ss_pred EEEEECCccCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEeCCCCCCCHHHHHHHHHh
Confidence 5789999986432221 234445555444 679999999999999999988753
No 193
>cd01891 TypA_BipA TypA (tyrosine phosphorylated protein A)/BipA subfamily. BipA is a protein belonging to the ribosome-binding family of GTPases and is widely distributed in bacteria and plants. BipA was originally described as a protein that is induced in Salmonella typhimurium after exposure to bactericidal/permeability-inducing protein (a cationic antimicrobial protein produced by neutrophils), and has since been identified in E. coli as well. The properties thus far described for BipA are related to its role in the process of pathogenesis by enteropathogenic E. coli. It appears to be involved in the regulation of several processes important for infection, including rearrangements of the cytoskeleton of the host, bacterial resistance to host defense peptides, flagellum-mediated cell motility, and expression of K5 capsular genes. It has been proposed that BipA may utilize a novel mechanism to regulate the expression of target genes. In addition, BipA from enteropathogenic E. co
Probab=97.48 E-value=7.5e-05 Score=47.33 Aligned_cols=49 Identities=14% Similarity=-0.034 Sum_probs=32.3
Q ss_pred cCCCcEEeecCCCCCCCC-CCHHHHHHHHH-------HhCCeEEEeccCCCCCHHHH
Q psy17493 6 NTKSKYIEVPNFVSSMPQ-VSRERGEQLAI-------EYGIKFMETSAKNSINVEDA 54 (101)
Q Consensus 6 ~~~~~lv~nk~Dl~~~~~-v~~~~~~~~a~-------~~~~~~~etSAk~~~~V~~~ 54 (101)
+.++.+++||+|+...+. ...++...+.. ..+++++++||++|.|+.+.
T Consensus 117 ~~p~iiv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iv~~Sa~~g~~~~~~ 173 (194)
T cd01891 117 GLKPIVVINKIDRPDARPEEVVDEVFDLFIELGATEEQLDFPVLYASAKNGWASLNL 173 (194)
T ss_pred CCCEEEEEECCCCCCCCHHHHHHHHHHHHHHhCCccccCccCEEEeehhcccccccc
Confidence 456778899999964332 12344444442 23678999999999887443
No 194
>PRK00093 GTP-binding protein Der; Reviewed
Probab=97.46 E-value=0.00028 Score=50.02 Aligned_cols=50 Identities=10% Similarity=0.033 Sum_probs=36.3
Q ss_pred cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCe-EEEeccCCCCCHHHHHHHHHH
Q psy17493 6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIK-FMETSAKNSINVEDAFFTLAR 60 (101)
Q Consensus 6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~-~~etSAk~~~~V~~~F~~~~~ 60 (101)
+.++.+++||+|+.+ . ......+ ...|.. ++++||++|.||+++|+.++.
T Consensus 109 ~~piilv~NK~D~~~-~---~~~~~~~-~~lg~~~~~~iSa~~g~gv~~l~~~I~~ 159 (435)
T PRK00093 109 NKPVILVVNKVDGPD-E---EADAYEF-YSLGLGEPYPISAEHGRGIGDLLDAILE 159 (435)
T ss_pred CCcEEEEEECccCcc-c---hhhHHHH-HhcCCCCCEEEEeeCCCCHHHHHHHHHh
Confidence 456788899999643 1 1222222 345654 899999999999999999987
No 195
>PF10662 PduV-EutP: Ethanolamine utilisation - propanediol utilisation; InterPro: IPR012381 Members of this family function in ethanolamine [] and propanediol [] degradation pathways. Both pathways require coenzyme B12 (adenosylcobalamin, AdoCbl). Bacteria that harbour these pathways can use ethanolamine as a source of carbon and nitrogen, or propanediol as a sole carbon and energy source, respectively. The exact roles of the EutP and PduV proteins in these respective pathways are not yet determined. Members of this family contain P-loop consensus motifs in the N-terminal part, and are distantly related to various GTPases and ATPases, including ATPase components of transport systems. Propanediol degradation is thought to be important for the natural Salmonella populations, since propanediol is produced by the fermentation of the common plant sugars rhamnose and fucose [, ]. More than 1% of the Salmonella enterica genome is devoted to the utilisation of propanediol and cobalamin biosynthesis. In vivo expression technology has indicated that propanediol utilisation (pdu) genes may be important for growth in host tissues, and competitive index studies with mice have shown that pdu mutations confer a virulence defect [, ]. The pdu operon is contiguous and co-regulated with the cobalamin (B12) biosynthesis cob operon, indicating that propanediol catabolism may be the primary reason for de novo B12 synthesis in Salmonella [, , ]. Please see IPR003207 from INTERPRO, IPR003208 from INTERPRO, IPR009204 from INTERPRO, IPR009191 from INTERPRO, IPR009192 from INTERPRO for more details on the propanediol utilisation pathway and the pdu operon.; GO: 0005524 ATP binding, 0006576 cellular biogenic amine metabolic process
Probab=97.45 E-value=0.00058 Score=41.82 Aligned_cols=46 Identities=22% Similarity=0.183 Sum_probs=36.7
Q ss_pred EeecCCCCCCCCCCHHHHHHHHHHhCCe-EEEeccCCCCCHHHHHHHH
Q psy17493 12 IEVPNFVSSMPQVSRERGEQLAIEYGIK-FMETSAKNSINVEDAFFTL 58 (101)
Q Consensus 12 v~nk~Dl~~~~~v~~~~~~~~a~~~~~~-~~etSAk~~~~V~~~F~~~ 58 (101)
|.+|.|+.. .....+.++++.+..|+. .|++||.+|+||+++...+
T Consensus 95 VITK~Dl~~-~~~~i~~a~~~L~~aG~~~if~vS~~~~eGi~eL~~~L 141 (143)
T PF10662_consen 95 VITKIDLPS-DDANIERAKKWLKNAGVKEIFEVSAVTGEGIEELKDYL 141 (143)
T ss_pred EEECccCcc-chhhHHHHHHHHHHcCCCCeEEEECCCCcCHHHHHHHH
Confidence 456999973 234567888888888864 7999999999999998765
No 196
>PRK09518 bifunctional cytidylate kinase/GTPase Der; Reviewed
Probab=97.44 E-value=0.00026 Score=53.26 Aligned_cols=57 Identities=12% Similarity=0.016 Sum_probs=38.0
Q ss_pred cCCCcEEeecCCCCCCCCCCHHHHH-HHHHHh----CCeEEEeccCCCCCHHHHHHHHHHHHHH
Q psy17493 6 NTKSKYIEVPNFVSSMPQVSRERGE-QLAIEY----GIKFMETSAKNSINVEDAFFTLARDIKA 64 (101)
Q Consensus 6 ~~~~~lv~nk~Dl~~~~~v~~~~~~-~~a~~~----~~~~~etSAk~~~~V~~~F~~~~~~i~~ 64 (101)
|..+.+|+||+|+.+... .+... .+.... ..+.+.+||++|.||+++|..+++.+.+
T Consensus 561 ~~piIiV~NK~DL~~~~~--~~~~~~~~~~~l~~~~~~~ii~iSAktg~gv~~L~~~i~~~~~~ 622 (712)
T PRK09518 561 GRALVLVFNKWDLMDEFR--RQRLERLWKTEFDRVTWARRVNLSAKTGWHTNRLAPAMQEALES 622 (712)
T ss_pred CCCEEEEEEchhcCChhH--HHHHHHHHHHhccCCCCCCEEEEECCCCCCHHHHHHHHHHHHHH
Confidence 566788899999854211 11111 122221 2456899999999999999999886654
No 197
>COG0481 LepA Membrane GTPase LepA [Cell envelope biogenesis, outer membrane]
Probab=97.44 E-value=0.00034 Score=50.44 Aligned_cols=55 Identities=16% Similarity=0.114 Sum_probs=40.0
Q ss_pred CCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCe---EEEeccCCCCCHHHHHHHHHHHHH
Q psy17493 7 TKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIK---FMETSAKNSINVEDAFFTLARDIK 63 (101)
Q Consensus 7 ~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~---~~etSAk~~~~V~~~F~~~~~~i~ 63 (101)
..+.-|.||.||.. .-...-..+...-.|++ -+.+|||+|.||+++++.+++.+.
T Consensus 129 LeIiPViNKIDLP~--Adpervk~eIe~~iGid~~dav~~SAKtG~gI~~iLe~Iv~~iP 186 (603)
T COG0481 129 LEIIPVLNKIDLPA--ADPERVKQEIEDIIGIDASDAVLVSAKTGIGIEDVLEAIVEKIP 186 (603)
T ss_pred cEEEEeeecccCCC--CCHHHHHHHHHHHhCCCcchheeEecccCCCHHHHHHHHHhhCC
Confidence 33455789999963 22233444555667753 789999999999999999988764
No 198
>PRK10463 hydrogenase nickel incorporation protein HypB; Provisional
Probab=97.43 E-value=0.00043 Score=47.00 Aligned_cols=51 Identities=14% Similarity=-0.020 Sum_probs=35.3
Q ss_pred cEEeecCCCCCCCCCCHHHHHHHHHHh--CCeEEEeccCCCCCHHHHHHHHHH
Q psy17493 10 KYIEVPNFVSSMPQVSRERGEQLAIEY--GIKFMETSAKNSINVEDAFFTLAR 60 (101)
Q Consensus 10 ~lv~nk~Dl~~~~~v~~~~~~~~a~~~--~~~~~etSAk~~~~V~~~F~~~~~ 60 (101)
.++.||+||........+...+..+.. +++.|.+||++|.|++++...+..
T Consensus 234 IVVLNKiDLl~~~~~dle~~~~~lr~lnp~a~I~~vSA~tGeGld~L~~~L~~ 286 (290)
T PRK10463 234 LMLLNKVDLLPYLNFDVEKCIACAREVNPEIEIILISATSGEGMDQWLNWLET 286 (290)
T ss_pred EEEEEhHHcCcccHHHHHHHHHHHHhhCCCCcEEEEECCCCCCHHHHHHHHHH
Confidence 467899998642222233444444443 478999999999999999887754
No 199
>TIGR00483 EF-1_alpha translation elongation factor EF-1 alpha. This model represents the counterpart of bacterial EF-Tu for the Archaea (aEF-1 alpha) and Eukaryotes (eEF-1 alpha). The trusted cutoff is set fairly high so that incomplete sequences will score between suggested and trusted cutoff levels.
Probab=97.38 E-value=0.00013 Score=51.82 Aligned_cols=49 Identities=16% Similarity=0.011 Sum_probs=35.1
Q ss_pred CCcEEeecCCCCCCCC----CCHHHHHHHHHHhC-----CeEEEeccCCCCCHHHHHH
Q psy17493 8 KSKYIEVPNFVSSMPQ----VSRERGEQLAIEYG-----IKFMETSAKNSINVEDAFF 56 (101)
Q Consensus 8 ~~~lv~nk~Dl~~~~~----v~~~~~~~~a~~~~-----~~~~etSAk~~~~V~~~F~ 56 (101)
.+.+++||.|+.+... ...++...+++..+ ++|+++||++|.||+++|.
T Consensus 143 ~iIVviNK~Dl~~~~~~~~~~~~~ei~~~~~~~g~~~~~~~~i~iSA~~g~ni~~~~~ 200 (426)
T TIGR00483 143 QLIVAINKMDSVNYDEEEFEAIKKEVSNLIKKVGYNPDTVPFIPISAWNGDNVIKKSE 200 (426)
T ss_pred eEEEEEEChhccCccHHHHHHHHHHHHHHHHHcCCCcccceEEEeecccccccccccc
Confidence 3556899999863211 12356666777765 5799999999999998765
No 200
>PRK05306 infB translation initiation factor IF-2; Validated
Probab=97.37 E-value=0.00029 Score=53.57 Aligned_cols=55 Identities=15% Similarity=0.085 Sum_probs=37.1
Q ss_pred cCCCcEEeecCCCCCCC--CCCHH--HHHHHHHHhC--CeEEEeccCCCCCHHHHHHHHHH
Q psy17493 6 NTKSKYIEVPNFVSSMP--QVSRE--RGEQLAIEYG--IKFMETSAKNSINVEDAFFTLAR 60 (101)
Q Consensus 6 ~~~~~lv~nk~Dl~~~~--~v~~~--~~~~~a~~~~--~~~~etSAk~~~~V~~~F~~~~~ 60 (101)
+..+.+++||+|+.... .+..+ +...+++.++ ++||++||++|.||+++|+.+..
T Consensus 389 ~vPiIVviNKiDl~~a~~e~V~~eL~~~~~~~e~~g~~vp~vpvSAktG~GI~eLle~I~~ 449 (787)
T PRK05306 389 GVPIIVAINKIDKPGANPDRVKQELSEYGLVPEEWGGDTIFVPVSAKTGEGIDELLEAILL 449 (787)
T ss_pred CCcEEEEEECccccccCHHHHHHHHHHhcccHHHhCCCceEEEEeCCCCCCchHHHHhhhh
Confidence 45667889999985421 11111 1112344454 68999999999999999998875
No 201
>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=97.36 E-value=0.00054 Score=42.04 Aligned_cols=57 Identities=14% Similarity=0.048 Sum_probs=37.2
Q ss_pred cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHH
Q psy17493 6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIK 63 (101)
Q Consensus 6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~ 63 (101)
+.++.+|.||+|+.....+ .+....+....+...+.+||+++.|+++++..+.....
T Consensus 29 ~~p~IiVlNK~Dl~~~~~~-~~~~~~~~~~~~~~ii~vSa~~~~gi~~L~~~i~~~~~ 85 (155)
T cd01849 29 GKKLILVLNKADLVPKEVL-RKWLAYLRHSYPTIPFKISATNGQGIEKKESAFTKQTN 85 (155)
T ss_pred CCCEEEEEechhcCCHHHH-HHHHHHHHhhCCceEEEEeccCCcChhhHHHHHHHHhH
Confidence 4567788999998432111 01111233333456789999999999999998876543
No 202
>KOG0462|consensus
Probab=97.35 E-value=0.00023 Score=51.94 Aligned_cols=58 Identities=16% Similarity=0.003 Sum_probs=40.1
Q ss_pred cCCCcEEeecCCCCCCCC-CCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHH
Q psy17493 6 NTKSKYIEVPNFVSSMPQ-VSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIK 63 (101)
Q Consensus 6 ~~~~~lv~nk~Dl~~~~~-v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~ 63 (101)
|..+..|.||+|+...+. --..+...+-...+.+.+-+|||+|.||++++..+++.+.
T Consensus 177 ~L~iIpVlNKIDlp~adpe~V~~q~~~lF~~~~~~~i~vSAK~G~~v~~lL~AII~rVP 235 (650)
T KOG0462|consen 177 GLAIIPVLNKIDLPSADPERVENQLFELFDIPPAEVIYVSAKTGLNVEELLEAIIRRVP 235 (650)
T ss_pred CCeEEEeeeccCCCCCCHHHHHHHHHHHhcCCccceEEEEeccCccHHHHHHHHHhhCC
Confidence 566778999999963221 1122333333333457899999999999999999988763
No 203
>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=97.32 E-value=0.00051 Score=42.85 Aligned_cols=55 Identities=11% Similarity=0.014 Sum_probs=36.4
Q ss_pred cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHH
Q psy17493 6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDI 62 (101)
Q Consensus 6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i 62 (101)
+.+..+|.||+|+.+...+ ....++-+..+..++.+||+++.|++++...+...+
T Consensus 46 ~k~~ilVlNK~Dl~~~~~~--~~~~~~~~~~~~~vi~iSa~~~~gi~~L~~~l~~~l 100 (171)
T cd01856 46 NKPRIIVLNKADLADPKKT--KKWLKYFESKGEKVLFVNAKSGKGVKKLLKAAKKLL 100 (171)
T ss_pred CCCEEEEEehhhcCChHHH--HHHHHHHHhcCCeEEEEECCCcccHHHHHHHHHHHH
Confidence 4566788999998532111 111122223345688999999999999998887665
No 204
>PRK09518 bifunctional cytidylate kinase/GTPase Der; Reviewed
Probab=97.30 E-value=0.0006 Score=51.39 Aligned_cols=54 Identities=13% Similarity=-0.014 Sum_probs=37.5
Q ss_pred cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCC-eEEEeccCCCCCHHHHHHHHHHHHHH
Q psy17493 6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGI-KFMETSAKNSINVEDAFFTLARDIKA 64 (101)
Q Consensus 6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~-~~~etSAk~~~~V~~~F~~~~~~i~~ 64 (101)
+.++.+|+||+|+.... ...+..+. .+. ..|++||++|.||+++|..++..+..
T Consensus 383 ~~pvIlV~NK~D~~~~~---~~~~~~~~--lg~~~~~~iSA~~g~GI~eLl~~i~~~l~~ 437 (712)
T PRK09518 383 GKPVVLAVNKIDDQASE---YDAAEFWK--LGLGEPYPISAMHGRGVGDLLDEALDSLKV 437 (712)
T ss_pred CCCEEEEEECcccccch---hhHHHHHH--cCCCCeEEEECCCCCCchHHHHHHHHhccc
Confidence 56678889999985321 11222222 233 35789999999999999999987754
No 205
>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=97.28 E-value=0.00018 Score=45.04 Aligned_cols=47 Identities=2% Similarity=-0.150 Sum_probs=31.1
Q ss_pred cCCCcEEeecCCCCCCC--CCCHHHHHHHHHHhC--CeEEEeccCCCCCHH
Q psy17493 6 NTKSKYIEVPNFVSSMP--QVSRERGEQLAIEYG--IKFMETSAKNSINVE 52 (101)
Q Consensus 6 ~~~~~lv~nk~Dl~~~~--~v~~~~~~~~a~~~~--~~~~etSAk~~~~V~ 52 (101)
+-++.+++||.|+.... ....++.+.+....+ ..+|++||++|.||+
T Consensus 129 ~~pviiv~nK~D~~~~~~~~~~~~~i~~~l~~~~~~~~v~~~Sa~~g~gi~ 179 (179)
T TIGR03598 129 GIPVLIVLTKADKLKKSELNKQLKKIKKALKKDADDPSVQLFSSLKKTGID 179 (179)
T ss_pred CCCEEEEEECcccCCHHHHHHHHHHHHHHHhhccCCCceEEEECCCCCCCC
Confidence 34567788999985321 122344445555544 479999999999974
No 206
>PF00009 GTP_EFTU: Elongation factor Tu GTP binding domain; InterPro: IPR000795 Elongation factors belong to a family of proteins that promote the GTP-dependent binding of aminoacyl tRNA to the A site of ribosomes during protein biosynthesis, and catalyse the translocation of the synthesised protein chain from the A to the P site. The proteins are all relatively similar in the vicinity of their C-termini, and are also highly similar to a range of proteins that includes the nodulation Q protein from Rhizobium meliloti (Sinorhizobium meliloti), bacterial tetracycline resistance proteins [] and the omnipotent suppressor protein 2 from yeast. In both prokaryotes and eukaryotes, there are three distinct types of elongation factors, EF-1alpha (EF-Tu), which binds GTP and an aminoacyl-tRNAand delivers the latter to the A site of ribosomes; EF-1beta (EF-Ts), which interacts with EF-1a/EF-Tu to displace GDP and thus allows the regeneration of GTP-EF-1a; and EF-2 (EF-G), which binds GTP and peptidyl-tRNA and translocates the latter from the A site to the P site. In EF-1-alpha, a specific region has been shown [] to be involved in a conformational change mediated by the hydrolysis of GTP to GDP. This region is conserved in both EF-1alpha/EF-Tu as well as EF-2/EF-G and thus seems typical for GTP-dependent proteins which bind non-initiator tRNAs to the ribosome. The GTP-binding protein synthesis factor family also includes the eukaryotic peptide chain release factor GTP-binding subunits [] and prokaryotic peptide chain release factor 3 (RF-3) []; the prokaryotic GTP-binding protein lepA and its homologue in yeast (GUF1) and Caenorhabditis elegans (ZK1236.1); yeast HBS1 []; rat statin S1 []; and the prokaryotic selenocysteine-specific elongation factor selB [].; GO: 0003924 GTPase activity, 0005525 GTP binding; PDB: 3IZW_C 1DG1_G 2BVN_B 3IZV_C 3MMP_C 1OB2_A 1EFU_A 3FIH_Z 3TR5_A 1TUI_C ....
Probab=97.26 E-value=0.00046 Score=43.59 Aligned_cols=57 Identities=16% Similarity=0.142 Sum_probs=36.4
Q ss_pred cCCCcEEeecCCCCCCC--CCCHHHHHHHHHHhC------CeEEEeccCCCCCHHHHHHHHHHHH
Q psy17493 6 NTKSKYIEVPNFVSSMP--QVSRERGEQLAIEYG------IKFMETSAKNSINVEDAFFTLARDI 62 (101)
Q Consensus 6 ~~~~~lv~nk~Dl~~~~--~v~~~~~~~~a~~~~------~~~~etSAk~~~~V~~~F~~~~~~i 62 (101)
+.+..++.||.|+...+ .+-.+....+.+..+ .+++.+||++|.||+++++.+++.+
T Consensus 122 ~~p~ivvlNK~D~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~vi~~Sa~~g~gi~~Ll~~l~~~~ 186 (188)
T PF00009_consen 122 GIPIIVVLNKMDLIEKELEEIIEEIKEKLLKEYGENGEEIVPVIPISALTGDGIDELLEALVELL 186 (188)
T ss_dssp T-SEEEEEETCTSSHHHHHHHHHHHHHHHHHHTTSTTTSTEEEEEEBTTTTBTHHHHHHHHHHHS
T ss_pred ccceEEeeeeccchhhhHHHHHHHHHHHhccccccCccccceEEEEecCCCCCHHHHHHHHHHhC
Confidence 45567789999986110 011111113333332 4699999999999999999888754
No 207
>CHL00189 infB translation initiation factor 2; Provisional
Probab=97.25 E-value=0.00096 Score=50.52 Aligned_cols=53 Identities=19% Similarity=0.115 Sum_probs=36.6
Q ss_pred cCCCcEEeecCCCCCCCCCCHHHHHH-H------HHHhC--CeEEEeccCCCCCHHHHHHHHHHH
Q psy17493 6 NTKSKYIEVPNFVSSMPQVSRERGEQ-L------AIEYG--IKFMETSAKNSINVEDAFFTLARD 61 (101)
Q Consensus 6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~-~------a~~~~--~~~~etSAk~~~~V~~~F~~~~~~ 61 (101)
+..+.+++||+|+... ..++... + +..++ ++|+++||++|.||+++|..+...
T Consensus 347 ~iPiIVViNKiDl~~~---~~e~v~~eL~~~~ll~e~~g~~vpvv~VSAktG~GIdeLle~I~~l 408 (742)
T CHL00189 347 NVPIIVAINKIDKANA---NTERIKQQLAKYNLIPEKWGGDTPMIPISASQGTNIDKLLETILLL 408 (742)
T ss_pred CceEEEEEECCCcccc---CHHHHHHHHHHhccchHhhCCCceEEEEECCCCCCHHHHHHhhhhh
Confidence 3456678999998642 1222221 1 23344 689999999999999999988764
No 208
>KOG0073|consensus
Probab=97.13 E-value=0.0026 Score=39.91 Aligned_cols=61 Identities=16% Similarity=0.074 Sum_probs=47.6
Q ss_pred cccccCCCcEEeecCCCCCCCCCCHHHH------HHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHH
Q psy17493 2 EIQINTKSKYIEVPNFVSSMPQVSRERG------EQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKA 64 (101)
Q Consensus 2 eil~~~~~~lv~nk~Dl~~~~~v~~~~~------~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~ 64 (101)
|-+.|+++-++.||.|+. ..++.++. ..+++.+..+.+-+||-+|+++.+.|.-+...+.+
T Consensus 113 erlaG~~~Lvlank~dl~--~~l~~~~i~~~~~L~~l~ks~~~~l~~cs~~tge~l~~gidWL~~~l~~ 179 (185)
T KOG0073|consen 113 ERLAGAPLLVLANKQDLP--GALSLEEISKALDLEELAKSHHWRLVKCSAVTGEDLLEGIDWLCDDLMS 179 (185)
T ss_pred hhhcCCceEEEEecCcCc--cccCHHHHHHhhCHHHhccccCceEEEEeccccccHHHHHHHHHHHHHH
Confidence 346688999999999986 23333332 45567777899999999999999999999888776
No 209
>COG1162 Predicted GTPases [General function prediction only]
Probab=97.13 E-value=0.0013 Score=44.85 Aligned_cols=56 Identities=14% Similarity=-0.026 Sum_probs=42.8
Q ss_pred cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHH
Q psy17493 6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARD 61 (101)
Q Consensus 6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~ 61 (101)
|....|+.||.||.+......++.......+|.+.+.+||+++.+++++...+...
T Consensus 110 gi~pvIvlnK~DL~~~~~~~~~~~~~~y~~~gy~v~~~s~~~~~~~~~l~~~l~~~ 165 (301)
T COG1162 110 GIEPVIVLNKIDLLDDEEAAVKELLREYEDIGYPVLFVSAKNGDGLEELAELLAGK 165 (301)
T ss_pred CCcEEEEEEccccCcchHHHHHHHHHHHHhCCeeEEEecCcCcccHHHHHHHhcCC
Confidence 45567789999997544333345556677789999999999999999998887643
No 210
>cd01858 NGP_1 NGP-1. Autoantigen NGP-1 (Nucleolar G-protein gene 1) has been shown to localize in the nucleolus and nucleolar organizers in all cell types analyzed, which is indicative of a function in ribosomal assembly. NGP-1 and its homologs show a circular permutation of the GTPase signature motifs so that the C-terminal strands 5, 6, and 7 (strand 6 contains the G4 box with NKXD motif) are relocated to the N terminus.
Probab=97.05 E-value=0.00094 Score=40.99 Aligned_cols=49 Identities=6% Similarity=-0.098 Sum_probs=33.1
Q ss_pred CCCcEEeecCCCCCCCCCCHHHHHHHHHHh----CCeEEEeccCCCCCHHHHHHHHHH
Q psy17493 7 TKSKYIEVPNFVSSMPQVSRERGEQLAIEY----GIKFMETSAKNSINVEDAFFTLAR 60 (101)
Q Consensus 7 ~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~----~~~~~etSAk~~~~V~~~F~~~~~ 60 (101)
.++.+|.||+|+.+ .++...+...+ ....|.+||+.+.|++++...+..
T Consensus 40 ~p~ilVlNKiDl~~-----~~~~~~~~~~~~~~~~~~~~~iSa~~~~~~~~L~~~l~~ 92 (157)
T cd01858 40 KHLIFVLNKCDLVP-----TWVTARWVKILSKEYPTIAFHASINNPFGKGSLIQLLRQ 92 (157)
T ss_pred CCEEEEEEchhcCC-----HHHHHHHHHHHhcCCcEEEEEeeccccccHHHHHHHHHH
Confidence 56788999999853 22233333333 222467999999999998887754
No 211
>KOG0096|consensus
Probab=96.92 E-value=0.00025 Score=45.34 Aligned_cols=56 Identities=20% Similarity=0.243 Sum_probs=41.5
Q ss_pred CCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHHH
Q psy17493 8 KSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQ 65 (101)
Q Consensus 8 ~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~~ 65 (101)
.+.++|||.|..+ +.+. .....|-+..++.|++.|||++.|.+.-|..+++.+...
T Consensus 116 Piv~cGNKvDi~~-r~~k-~k~v~~~rkknl~y~~iSaksn~NfekPFl~LarKl~G~ 171 (216)
T KOG0096|consen 116 PIVLCGNKVDIKA-RKVK-AKPVSFHRKKNLQYYEISAKSNYNFERPFLWLARKLTGD 171 (216)
T ss_pred Ceeeeccceeccc-cccc-cccceeeecccceeEEeecccccccccchHHHhhhhcCC
Confidence 3456799999865 3322 222335556678999999999999999999999987653
No 212
>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=96.84 E-value=0.0032 Score=42.31 Aligned_cols=54 Identities=19% Similarity=0.108 Sum_probs=37.6
Q ss_pred cCCCcEEeecCCCCCCCCCCHHHHHHHH---HHhCCeEEEeccCCCCCHHHHHHHHHHHHHH
Q psy17493 6 NTKSKYIEVPNFVSSMPQVSRERGEQLA---IEYGIKFMETSAKNSINVEDAFFTLARDIKA 64 (101)
Q Consensus 6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a---~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~ 64 (101)
+.++.+|.||+|+.+. +....|. +..+...+.+||+++.|++++...+.+.+.+
T Consensus 48 ~kp~IiVlNK~DL~~~-----~~~~~~~~~~~~~~~~vi~iSa~~~~gi~~L~~~i~~~~~~ 104 (276)
T TIGR03596 48 NKPRLIVLNKADLADP-----AVTKQWLKYFEEKGIKALAINAKKGKGVKKIIKAAKKLLKE 104 (276)
T ss_pred CCCEEEEEEccccCCH-----HHHHHHHHHHHHcCCeEEEEECCCcccHHHHHHHHHHHHHH
Confidence 4556788999998532 2222222 2345678999999999999998888766543
No 213
>PRK12317 elongation factor 1-alpha; Reviewed
Probab=96.79 E-value=0.00082 Score=47.69 Aligned_cols=48 Identities=19% Similarity=-0.006 Sum_probs=33.6
Q ss_pred CcEEeecCCCCCCCC----CCHHHHHHHHHHhC-----CeEEEeccCCCCCHHHHHH
Q psy17493 9 SKYIEVPNFVSSMPQ----VSRERGEQLAIEYG-----IKFMETSAKNSINVEDAFF 56 (101)
Q Consensus 9 ~~lv~nk~Dl~~~~~----v~~~~~~~~a~~~~-----~~~~etSAk~~~~V~~~F~ 56 (101)
+.+++||.|+.+... ...++...+.+..+ .++|.+||++|.||++++.
T Consensus 142 iivviNK~Dl~~~~~~~~~~~~~~i~~~l~~~g~~~~~~~ii~iSA~~g~gi~~~~~ 198 (425)
T PRK12317 142 LIVAINKMDAVNYDEKRYEEVKEEVSKLLKMVGYKPDDIPFIPVSAFEGDNVVKKSE 198 (425)
T ss_pred EEEEEEccccccccHHHHHHHHHHHHHHHHhhCCCcCcceEEEeecccCCCcccccc
Confidence 567899999864211 12245555666555 4699999999999998764
No 214
>PRK01889 GTPase RsgA; Reviewed
Probab=96.76 E-value=0.0021 Score=44.86 Aligned_cols=51 Identities=10% Similarity=0.063 Sum_probs=35.1
Q ss_pred cCCCcEEeecCCCCCCCCCCHHHHHHHHH-HhCCeEEEeccCCCCCHHHHHHHHH
Q psy17493 6 NTKSKYIEVPNFVSSMPQVSRERGEQLAI-EYGIKFMETSAKNSINVEDAFFTLA 59 (101)
Q Consensus 6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~-~~~~~~~etSAk~~~~V~~~F~~~~ 59 (101)
|.+..||.||+||.+. ..+....+.. ..+.+.|.+||+++.|++++-..+.
T Consensus 142 ~i~piIVLNK~DL~~~---~~~~~~~~~~~~~g~~Vi~vSa~~g~gl~~L~~~L~ 193 (356)
T PRK01889 142 GAEPVIVLTKADLCED---AEEKIAEVEALAPGVPVLAVSALDGEGLDVLAAWLS 193 (356)
T ss_pred CCCEEEEEEChhcCCC---HHHHHHHHHHhCCCCcEEEEECCCCccHHHHHHHhh
Confidence 5566788999999643 1112222222 3467889999999999999877764
No 215
>COG4917 EutP Ethanolamine utilization protein [Amino acid transport and metabolism]
Probab=96.75 E-value=0.0066 Score=36.64 Aligned_cols=46 Identities=22% Similarity=0.135 Sum_probs=35.7
Q ss_pred eecCCCCCCCCCCHHHHHHHHHHhCC-eEEEeccCCCCCHHHHHHHHHH
Q psy17493 13 EVPNFVSSMPQVSRERGEQLAIEYGI-KFMETSAKNSINVEDAFFTLAR 60 (101)
Q Consensus 13 ~nk~Dl~~~~~v~~~~~~~~a~~~~~-~~~etSAk~~~~V~~~F~~~~~ 60 (101)
..|.||.+...| +..+.|-.+-|. +.|++||-++.||+++|..++.
T Consensus 97 VTK~DLaed~dI--~~~~~~L~eaGa~~IF~~s~~d~~gv~~l~~~L~~ 143 (148)
T COG4917 97 VTKADLAEDADI--SLVKRWLREAGAEPIFETSAVDNQGVEELVDYLAS 143 (148)
T ss_pred EecccccchHhH--HHHHHHHHHcCCcceEEEeccCcccHHHHHHHHHh
Confidence 349999754444 455667777886 4999999999999999988864
No 216
>cd04102 RabL3 RabL3 (Rab-like3) subfamily. RabL3s are novel proteins that have high sequence similarity with Rab family members, but display features that are distinct from Rabs, and have been termed Rab-like. As in other Rab-like proteins, RabL3 lacks a prenylation site at the C-terminus. The specific function of RabL3 remains unknown.
Probab=96.74 E-value=0.0023 Score=41.21 Aligned_cols=43 Identities=9% Similarity=-0.146 Sum_probs=33.5
Q ss_pred CCCcEEeecCCCCCCCCCCHHH----HHHHHHHhCCeEEEeccCCCC
Q psy17493 7 TKSKYIEVPNFVSSMPQVSRER----GEQLAIEYGIKFMETSAKNSI 49 (101)
Q Consensus 7 ~~~~lv~nk~Dl~~~~~v~~~~----~~~~a~~~~~~~~etSAk~~~ 49 (101)
.++.|||||.||.++|.++.++ +..+|++.|++.++.+++...
T Consensus 130 ~PiilVGnK~Dl~~~r~~~~~~~~~~~~~ia~~~~~~~i~~~c~~~~ 176 (202)
T cd04102 130 IPLLVIGTKLDQIPEKESSGNLVLTARGFVAEQGNAEEINLNCTNGR 176 (202)
T ss_pred ceEEEEEECccchhhcccchHHHhhHhhhHHHhcCCceEEEecCCcc
Confidence 3567789999998777777664 456789999999998888553
No 217
>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=96.69 E-value=0.0047 Score=40.41 Aligned_cols=22 Identities=9% Similarity=0.063 Sum_probs=19.1
Q ss_pred CeEEEeccCCCCCHHHHHHHHH
Q psy17493 38 IKFMETSAKNSINVEDAFFTLA 59 (101)
Q Consensus 38 ~~~~etSAk~~~~V~~~F~~~~ 59 (101)
.++|.+||.+|.|++++...+.
T Consensus 198 ~pi~~vSavtg~Gi~~L~~~L~ 219 (224)
T cd04165 198 VPIFQVSNVTGEGLDLLHAFLN 219 (224)
T ss_pred CcEEEeeCCCccCHHHHHHHHH
Confidence 4799999999999999987663
No 218
>PRK09435 membrane ATPase/protein kinase; Provisional
Probab=96.69 E-value=0.0057 Score=42.40 Aligned_cols=52 Identities=6% Similarity=0.031 Sum_probs=34.0
Q ss_pred cEEeecCCCCCCCCCCHHHHHHHHHH----------hCCeEEEeccCCCCCHHHHHHHHHHHH
Q psy17493 10 KYIEVPNFVSSMPQVSRERGEQLAIE----------YGIKFMETSAKNSINVEDAFFTLARDI 62 (101)
Q Consensus 10 ~lv~nk~Dl~~~~~v~~~~~~~~a~~----------~~~~~~etSAk~~~~V~~~F~~~~~~i 62 (101)
.+|.||.|+...... ......+... +..+++.+||+++.||++++..+.+.+
T Consensus 198 IiVVNKaDl~~~~~a-~~~~~el~~~L~l~~~~~~~w~~pVi~vSA~~g~GIdeL~~~I~~~~ 259 (332)
T PRK09435 198 LIVINKADGDNKTAA-RRAAAEYRSALRLLRPKDPGWQPPVLTCSALEGEGIDEIWQAIEDHR 259 (332)
T ss_pred eEEeehhcccchhHH-HHHHHHHHHHHhcccccccCCCCCEEEEECCCCCCHHHHHHHHHHHH
Confidence 467899998643211 1111112211 225789999999999999999988754
No 219
>COG1160 Predicted GTPases [General function prediction only]
Probab=96.64 E-value=0.0088 Score=42.82 Aligned_cols=56 Identities=7% Similarity=-0.109 Sum_probs=39.8
Q ss_pred cCCCcEEeecCCCCCCCCCCHHHHHHHHHH-h----CCeEEEeccCCCCCHHHHHHHHHHH
Q psy17493 6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIE-Y----GIKFMETSAKNSINVEDAFFTLARD 61 (101)
Q Consensus 6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~-~----~~~~~etSAk~~~~V~~~F~~~~~~ 61 (101)
|.-+.++.||.|+.+....+.++.+.--+. . .++.+.+||++|.+|+++|..+...
T Consensus 289 g~~~vIvvNKWDl~~~~~~~~~~~k~~i~~~l~~l~~a~i~~iSA~~~~~i~~l~~~i~~~ 349 (444)
T COG1160 289 GRGIVIVVNKWDLVEEDEATMEEFKKKLRRKLPFLDFAPIVFISALTGQGLDKLFEAIKEI 349 (444)
T ss_pred CCCeEEEEEccccCCchhhHHHHHHHHHHHHhccccCCeEEEEEecCCCChHHHHHHHHHH
Confidence 455678899999876554555555332222 2 2678999999999999999887653
No 220
>KOG3905|consensus
Probab=96.57 E-value=0.0077 Score=41.94 Aligned_cols=61 Identities=10% Similarity=0.091 Sum_probs=45.0
Q ss_pred cCCCcEEeecCCC----CCCCCCC-------HHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHHHH
Q psy17493 6 NTKSKYIEVPNFV----SSMPQVS-------RERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQT 66 (101)
Q Consensus 6 ~~~~~lv~nk~Dl----~~~~~v~-------~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~~~ 66 (101)
|-.+-+|..|+|. +.+.... ....+.||-++|+..|.||+|...||+-++..|+.+++.-.
T Consensus 222 Gi~vlVV~TK~D~~s~leke~eyrDehfdfiq~~lRkFCLr~GaaLiyTSvKE~KNidllyKYivhr~yG~~ 293 (473)
T KOG3905|consen 222 GIPVLVVCTKCDAVSVLEKEHEYRDEHFDFIQSHLRKFCLRYGAALIYTSVKETKNIDLLYKYIVHRSYGFP 293 (473)
T ss_pred CCcEEEEEeccchhhHhhhcchhhHHHHHHHHHHHHHHHHHcCceeEEeecccccchHHHHHHHHHHhcCcc
Confidence 4445566779997 2211111 23457889999999999999999999999999998876543
No 221
>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=96.56 E-value=0.0031 Score=38.08 Aligned_cols=43 Identities=16% Similarity=-0.011 Sum_probs=29.4
Q ss_pred cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCC
Q psy17493 6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSIN 50 (101)
Q Consensus 6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~ 50 (101)
+.++.++.||+|+.++.. ..+..++.+..+..++.+||+++.+
T Consensus 42 ~k~~iivlNK~DL~~~~~--~~~~~~~~~~~~~~ii~iSa~~~~~ 84 (141)
T cd01857 42 RKKNILLLNKADLLTEEQ--RKAWAEYFKKEGIVVVFFSALKENA 84 (141)
T ss_pred CCcEEEEEechhcCCHHH--HHHHHHHHHhcCCeEEEEEecCCCc
Confidence 456778899999853222 2233445556678899999998875
No 222
>PTZ00327 eukaryotic translation initiation factor 2 gamma subunit; Provisional
Probab=96.55 E-value=0.003 Score=45.57 Aligned_cols=54 Identities=11% Similarity=0.015 Sum_probs=35.5
Q ss_pred CcEEeecCCCCCCCCCC--HHHHHHHHHH---hCCeEEEeccCCCCCHHHHHHHHHHHH
Q psy17493 9 SKYIEVPNFVSSMPQVS--RERGEQLAIE---YGIKFMETSAKNSINVEDAFFTLARDI 62 (101)
Q Consensus 9 ~~lv~nk~Dl~~~~~v~--~~~~~~~a~~---~~~~~~etSAk~~~~V~~~F~~~~~~i 62 (101)
+.++.||.|+.+...+. .++...+... .+.++|.+||++|.||+.+.+.+...+
T Consensus 174 iIVvlNKiDlv~~~~~~~~~~ei~~~l~~~~~~~~~iipVSA~~G~nI~~Ll~~L~~~l 232 (460)
T PTZ00327 174 IIILQNKIDLVKEAQAQDQYEEIRNFVKGTIADNAPIIPISAQLKYNIDVVLEYICTQI 232 (460)
T ss_pred EEEEEecccccCHHHHHHHHHHHHHHHHhhccCCCeEEEeeCCCCCCHHHHHHHHHhhC
Confidence 56789999986422111 1222333222 246899999999999999998887533
No 223
>TIGR00750 lao LAO/AO transport system ATPase. Mutations have also been found that do not phosphorylate the periplasmic binding proteins, yet still allow transport. The ATPase activity of this protein seems to be necessary, however.
Probab=96.53 E-value=0.0026 Score=43.28 Aligned_cols=53 Identities=13% Similarity=0.173 Sum_probs=33.4
Q ss_pred CcEEeecCCCCCCCCCCHHH-----H-HHHHH---HhCCeEEEeccCCCCCHHHHHHHHHHH
Q psy17493 9 SKYIEVPNFVSSMPQVSRER-----G-EQLAI---EYGIKFMETSAKNSINVEDAFFTLARD 61 (101)
Q Consensus 9 ~~lv~nk~Dl~~~~~v~~~~-----~-~~~a~---~~~~~~~etSAk~~~~V~~~F~~~~~~ 61 (101)
..++.||.|+.......... . ..+.+ .+..+++.+||+++.||++++..+...
T Consensus 175 ~ivv~NK~Dl~~~~~~~~~~~~~~~~l~~l~~~~~~~~~~v~~iSA~~g~Gi~~L~~~i~~~ 236 (300)
T TIGR00750 175 DIYVVNKADGEGATNVTIARLMLALALEEIRRREDGWRPPVLTTSAVEGRGIDELWDAIEEH 236 (300)
T ss_pred cEEEEEcccccchhHHHHHHHHHHHHHhhccccccCCCCCEEEEEccCCCCHHHHHHHHHHH
Confidence 35678999986422111000 0 11111 123468999999999999999999875
No 224
>PRK09563 rbgA GTPase YlqF; Reviewed
Probab=96.51 E-value=0.0097 Score=40.25 Aligned_cols=57 Identities=18% Similarity=0.102 Sum_probs=37.8
Q ss_pred cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHH
Q psy17493 6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKA 64 (101)
Q Consensus 6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~ 64 (101)
+.+..+|.||+||.+... .+....+-++.+..++.+||+++.|++++...+...+.+
T Consensus 51 ~kp~iiVlNK~DL~~~~~--~~~~~~~~~~~~~~vi~vSa~~~~gi~~L~~~l~~~l~~ 107 (287)
T PRK09563 51 NKPRLLILNKSDLADPEV--TKKWIEYFEEQGIKALAINAKKGQGVKKILKAAKKLLKE 107 (287)
T ss_pred CCCEEEEEEchhcCCHHH--HHHHHHHHHHcCCeEEEEECCCcccHHHHHHHHHHHHHH
Confidence 455678899999853211 111112223446678999999999999998887766544
No 225
>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=96.47 E-value=0.0028 Score=40.71 Aligned_cols=46 Identities=17% Similarity=0.036 Sum_probs=30.2
Q ss_pred CcEEeecCCCCCCCCC----CHHHHHHHHHHhCC---eEEEeccCCCCCHHHH
Q psy17493 9 SKYIEVPNFVSSMPQV----SRERGEQLAIEYGI---KFMETSAKNSINVEDA 54 (101)
Q Consensus 9 ~~lv~nk~Dl~~~~~v----~~~~~~~~a~~~~~---~~~etSAk~~~~V~~~ 54 (101)
+.++.||.|+.....- ...+...+.+.++. +++.+||++|.||++.
T Consensus 133 iIvviNK~D~~~~~~~~~~~i~~~~~~~~~~~~~~~~~ii~iSA~~g~ni~~~ 185 (208)
T cd04166 133 VVVAVNKMDLVDYSEEVFEEIVADYLAFAAKLGIEDITFIPISALDGDNVVSR 185 (208)
T ss_pred EEEEEEchhcccCCHHHHHHHHHHHHHHHHHcCCCCceEEEEeCCCCCCCccC
Confidence 4557999998642111 12344555566663 4899999999999853
No 226
>TIGR01394 TypA_BipA GTP-binding protein TypA/BipA. This bacterial (and Arabidopsis) protein, termed TypA or BipA, a GTP-binding protein, is phosphorylated on a tyrosine residue under some cellular conditions. Mutants show altered regulation of some pathways, but the precise function is unknown.
Probab=96.43 E-value=0.005 Score=45.74 Aligned_cols=58 Identities=12% Similarity=0.025 Sum_probs=38.9
Q ss_pred cCCCcEEeecCCCCCCCCC-CHHHHHHHHH-------HhCCeEEEeccCCCC----------CHHHHHHHHHHHHH
Q psy17493 6 NTKSKYIEVPNFVSSMPQV-SRERGEQLAI-------EYGIKFMETSAKNSI----------NVEDAFFTLARDIK 63 (101)
Q Consensus 6 ~~~~~lv~nk~Dl~~~~~v-~~~~~~~~a~-------~~~~~~~etSAk~~~----------~V~~~F~~~~~~i~ 63 (101)
+.+..+++||.|+.+.+.. ..++...+.. +..++++.+||++|. |++.+|..++..+.
T Consensus 116 ~ip~IVviNKiD~~~a~~~~v~~ei~~l~~~~g~~~e~l~~pvl~~SA~~g~~~~~~~~~~~gi~~Lld~Iv~~lP 191 (594)
T TIGR01394 116 GLKPIVVINKIDRPSARPDEVVDEVFDLFAELGADDEQLDFPIVYASGRAGWASLDLDDPSDNMAPLFDAIVRHVP 191 (594)
T ss_pred CCCEEEEEECCCCCCcCHHHHHHHHHHHHHhhccccccccCcEEechhhcCcccccCcccccCHHHHHHHHHHhCC
Confidence 4566788999998643321 1233333332 234679999999996 79999998887654
No 227
>PRK09866 hypothetical protein; Provisional
Probab=96.41 E-value=0.018 Score=43.40 Aligned_cols=53 Identities=9% Similarity=-0.127 Sum_probs=37.5
Q ss_pred CCcEEeecCCCCCCCCCCHHHHHHHHHHh----C---CeEEEeccCCCCCHHHHHHHHHH
Q psy17493 8 KSKYIEVPNFVSSMPQVSRERGEQLAIEY----G---IKFMETSAKNSINVEDAFFTLAR 60 (101)
Q Consensus 8 ~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~----~---~~~~etSAk~~~~V~~~F~~~~~ 60 (101)
++.+|.||+|+.+...-..+....+.+.. + ...|.+||+.|.|++.+...+..
T Consensus 291 PVILVVNKIDl~dreeddkE~Lle~V~~~L~q~~i~f~eIfPVSAlkG~nid~LLdeI~~ 350 (741)
T PRK09866 291 PLYVLVNKFDQQDRNSDDADQVRALISGTLMKGCITPQQIFPVSSMWGYLANRARHELAN 350 (741)
T ss_pred CEEEEEEcccCCCcccchHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHh
Confidence 67788999998543332245555554322 2 35899999999999999998876
No 228
>COG0536 Obg Predicted GTPase [General function prediction only]
Probab=96.35 E-value=0.0095 Score=41.44 Aligned_cols=61 Identities=13% Similarity=0.069 Sum_probs=38.1
Q ss_pred ccCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCe--EEEeccCCCCCHHHHHHHHHHHHHHHH
Q psy17493 5 INTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIK--FMETSAKNSINVEDAFFTLARDIKAQT 66 (101)
Q Consensus 5 ~~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~--~~etSAk~~~~V~~~F~~~~~~i~~~~ 66 (101)
...+..||.||+|+....+--......+++..+.. ++ .||.++.|++++...+.+.+....
T Consensus 274 ~~K~~ivv~NKiD~~~~~e~~~~~~~~l~~~~~~~~~~~-ISa~t~~g~~~L~~~~~~~l~~~~ 336 (369)
T COG0536 274 AEKPRIVVLNKIDLPLDEEELEELKKALAEALGWEVFYL-ISALTREGLDELLRALAELLEETK 336 (369)
T ss_pred ccCceEEEEeccCCCcCHHHHHHHHHHHHHhcCCCccee-eehhcccCHHHHHHHHHHHHHHhh
Confidence 34455678999996432222222233333333432 33 999999999999988887766543
No 229
>KOG1707|consensus
Probab=96.27 E-value=0.0019 Score=47.50 Aligned_cols=59 Identities=19% Similarity=0.180 Sum_probs=40.3
Q ss_pred cCCCcEEeecCCCCCCCCCCHHH-HHHHHHHhC-Ce-EEEeccCCCCCHHHHHHHHHHHHHH
Q psy17493 6 NTKSKYIEVPNFVSSMPQVSRER-GEQLAIEYG-IK-FMETSAKNSINVEDAFFTLARDIKA 64 (101)
Q Consensus 6 ~~~~~lv~nk~Dl~~~~~v~~~~-~~~~a~~~~-~~-~~etSAk~~~~V~~~F~~~~~~i~~ 64 (101)
.+.+.|||||+|+.+...-+.+. ...+-.++. +. -+|+||++-.|+.++|...-+.++.
T Consensus 115 ~~PVILvGNK~d~~~~~~~s~e~~~~pim~~f~EiEtciecSA~~~~n~~e~fYyaqKaVih 176 (625)
T KOG1707|consen 115 ETPVILVGNKSDNGDNENNSDEVNTLPIMIAFAEIETCIECSALTLANVSELFYYAQKAVIH 176 (625)
T ss_pred cCCEEEEeeccCCccccccchhHHHHHHHHHhHHHHHHHhhhhhhhhhhHhhhhhhhheeec
Confidence 35678899999986544433333 333333333 33 7999999999999999887766654
No 230
>COG0370 FeoB Fe2+ transport system protein B [Inorganic ion transport and metabolism]
Probab=96.18 E-value=0.0046 Score=46.11 Aligned_cols=55 Identities=13% Similarity=-0.043 Sum_probs=45.5
Q ss_pred cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHH
Q psy17493 6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARD 61 (101)
Q Consensus 6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~ 61 (101)
|-++.++.|..|...++.+.- +.+++.+..|++.+.|||++|.|++++-..+.+.
T Consensus 108 g~p~ilaLNm~D~A~~~Gi~I-D~~~L~~~LGvPVv~tvA~~g~G~~~l~~~i~~~ 162 (653)
T COG0370 108 GIPMILALNMIDEAKKRGIRI-DIEKLSKLLGVPVVPTVAKRGEGLEELKRAIIEL 162 (653)
T ss_pred CCCeEEEeccHhhHHhcCCcc-cHHHHHHHhCCCEEEEEeecCCCHHHHHHHHHHh
Confidence 667788899999877666643 4566889999999999999999999998888753
No 231
>PRK13768 GTPase; Provisional
Probab=96.16 E-value=0.012 Score=39.20 Aligned_cols=25 Identities=12% Similarity=0.309 Sum_probs=21.8
Q ss_pred CeEEEeccCCCCCHHHHHHHHHHHH
Q psy17493 38 IKFMETSAKNSINVEDAFFTLARDI 62 (101)
Q Consensus 38 ~~~~etSAk~~~~V~~~F~~~~~~i 62 (101)
.++|.+||+++.|++++...+.+.+
T Consensus 222 ~~vi~iSa~~~~gl~~L~~~I~~~l 246 (253)
T PRK13768 222 VRVIPVSAKTGEGFDELYAAIQEVF 246 (253)
T ss_pred CcEEEEECCCCcCHHHHHHHHHHHc
Confidence 5789999999999999998887654
No 232
>COG0486 ThdF Predicted GTPase [General function prediction only]
Probab=96.11 E-value=0.013 Score=42.03 Aligned_cols=55 Identities=11% Similarity=0.014 Sum_probs=38.4
Q ss_pred cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHHH
Q psy17493 6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQ 65 (101)
Q Consensus 6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~~ 65 (101)
+.++.+|.||.||......... .-..+.+++.+|||+|.|++.+-..+...+...
T Consensus 324 ~~~~i~v~NK~DL~~~~~~~~~-----~~~~~~~~i~iSa~t~~Gl~~L~~~i~~~~~~~ 378 (454)
T COG0486 324 KKPIIVVLNKADLVSKIELESE-----KLANGDAIISISAKTGEGLDALREAIKQLFGKG 378 (454)
T ss_pred CCCEEEEEechhcccccccchh-----hccCCCceEEEEecCccCHHHHHHHHHHHHhhc
Confidence 4567788999999754332211 112345689999999999999988887655443
No 233
>PLN00023 GTP-binding protein; Provisional
Probab=95.99 E-value=0.0093 Score=41.34 Aligned_cols=32 Identities=9% Similarity=-0.033 Sum_probs=25.2
Q ss_pred CCCcEEeecCCCCCCC---C---CCHHHHHHHHHHhCC
Q psy17493 7 TKSKYIEVPNFVSSMP---Q---VSRERGEQLAIEYGI 38 (101)
Q Consensus 7 ~~~~lv~nk~Dl~~~~---~---v~~~~~~~~a~~~~~ 38 (101)
..+.|||||+||..++ . +..+++++||+++|+
T Consensus 152 ipIILVGNK~DL~~~~~~r~~s~~~~e~a~~~A~~~g~ 189 (334)
T PLN00023 152 VPYIVIGNKADIAPKEGTRGSSGNLVDAARQWVEKQGL 189 (334)
T ss_pred CcEEEEEECccccccccccccccccHHHHHHHHHHcCC
Confidence 4567889999997542 3 468999999999984
No 234
>COG0532 InfB Translation initiation factor 2 (IF-2; GTPase) [Translation, ribosomal structure and biogenesis]
Probab=95.92 E-value=0.033 Score=40.65 Aligned_cols=52 Identities=12% Similarity=0.118 Sum_probs=34.2
Q ss_pred cCCCcEEeecCCCCCCCCCCHHHH-HH------HHHHhC--CeEEEeccCCCCCHHHHHHHHHH
Q psy17493 6 NTKSKYIEVPNFVSSMPQVSRERG-EQ------LAIEYG--IKFMETSAKNSINVEDAFFTLAR 60 (101)
Q Consensus 6 ~~~~~lv~nk~Dl~~~~~v~~~~~-~~------~a~~~~--~~~~etSAk~~~~V~~~F~~~~~ 60 (101)
++.+.+..||.|..+. ..... .+ .++.|| ..|..+|||+|+||+++...+.-
T Consensus 107 ~vP~iVAiNKiDk~~~---np~~v~~el~~~gl~~E~~gg~v~~VpvSA~tg~Gi~eLL~~ill 167 (509)
T COG0532 107 GVPIVVAINKIDKPEA---NPDKVKQELQEYGLVPEEWGGDVIFVPVSAKTGEGIDELLELILL 167 (509)
T ss_pred CCCEEEEEecccCCCC---CHHHHHHHHHHcCCCHhhcCCceEEEEeeccCCCCHHHHHHHHHH
Confidence 3444555899997632 12111 11 234454 56999999999999999988754
No 235
>KOG0072|consensus
Probab=95.83 E-value=0.004 Score=38.43 Aligned_cols=59 Identities=19% Similarity=0.060 Sum_probs=40.1
Q ss_pred ccccCCCcEEeecCCCCCCCCCCHHHHH-HH--H--HHhCCeEEEeccCCCCCHHHHHHHHHHHHH
Q psy17493 3 IQINTKSKYIEVPNFVSSMPQVSRERGE-QL--A--IEYGIKFMETSAKNSINVEDAFFTLARDIK 63 (101)
Q Consensus 3 il~~~~~~lv~nk~Dl~~~~~v~~~~~~-~~--a--~~~~~~~~etSAk~~~~V~~~F~~~~~~i~ 63 (101)
-|.+++.-+++||-|... ..+..++. .+ . +..-...|++||-+|+|++.+++=+.+.+.
T Consensus 116 eLq~a~llv~anKqD~~~--~~t~~E~~~~L~l~~Lk~r~~~Iv~tSA~kg~Gld~~~DWL~~~l~ 179 (182)
T KOG0072|consen 116 ELQHAKLLVFANKQDYSG--ALTRSEVLKMLGLQKLKDRIWQIVKTSAVKGEGLDPAMDWLQRPLK 179 (182)
T ss_pred hhcCceEEEEeccccchh--hhhHHHHHHHhChHHHhhheeEEEeeccccccCCcHHHHHHHHHHh
Confidence 356788888999999753 22333322 11 1 111256899999999999999988877654
No 236
>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=95.71 E-value=0.0044 Score=45.97 Aligned_cols=43 Identities=21% Similarity=0.057 Sum_probs=32.5
Q ss_pred cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHH
Q psy17493 6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTL 58 (101)
Q Consensus 6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~ 58 (101)
+.++.+++||+|+.. .|+...+.+|+|+||+.+.+|.+-|...
T Consensus 121 ~vpiIVv~NK~Dl~~----------~~~~~~~~~f~e~sak~~~~v~~~~~~~ 163 (590)
T TIGR00491 121 KTPFVVAANKIDRIP----------GWRSHEGRPFMESFSKQEIQVQQNLDTK 163 (590)
T ss_pred CCCEEEEEECCCccc----------hhhhccCchHHHHHHhhhHHHHHHHHHH
Confidence 455678899999853 4677788999999999998775544433
No 237
>COG1159 Era GTPase [General function prediction only]
Probab=95.71 E-value=0.029 Score=38.30 Aligned_cols=57 Identities=12% Similarity=-0.107 Sum_probs=37.7
Q ss_pred CCCcEEeecCCCCCCCCCCHHHHHHHHHHhC-CeEEEeccCCCCCHHHHHHHHHHHHH
Q psy17493 7 TKSKYIEVPNFVSSMPQVSRERGEQLAIEYG-IKFMETSAKNSINVEDAFFTLARDIK 63 (101)
Q Consensus 7 ~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~-~~~~etSAk~~~~V~~~F~~~~~~i~ 63 (101)
+++.++.||.|......+-......+..... ...+..||++|.|++.+-..+...+.
T Consensus 115 ~pvil~iNKID~~~~~~~l~~~~~~~~~~~~f~~ivpiSA~~g~n~~~L~~~i~~~Lp 172 (298)
T COG1159 115 TPVILVVNKIDKVKPKTVLLKLIAFLKKLLPFKEIVPISALKGDNVDTLLEIIKEYLP 172 (298)
T ss_pred CCeEEEEEccccCCcHHHHHHHHHHHHhhCCcceEEEeeccccCCHHHHHHHHHHhCC
Confidence 4678889999976433321222222223333 35899999999999999888876553
No 238
>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=95.70 E-value=0.0045 Score=40.13 Aligned_cols=45 Identities=9% Similarity=-0.031 Sum_probs=27.4
Q ss_pred CCcEEeecCCCCCC--CCCCH----HHHHHHHHHhC-----CeEEEeccCCCCCHH
Q psy17493 8 KSKYIEVPNFVSSM--PQVSR----ERGEQLAIEYG-----IKFMETSAKNSINVE 52 (101)
Q Consensus 8 ~~~lv~nk~Dl~~~--~~v~~----~~~~~~a~~~~-----~~~~etSAk~~~~V~ 52 (101)
.+.++.||.|+... ..-.. ++...+.+..+ .+++.+||++|.||+
T Consensus 139 ~iiivvNK~Dl~~~~~~~~~~~~i~~~l~~~l~~~~~~~~~~~ii~iSA~tg~gi~ 194 (219)
T cd01883 139 QLIVAVNKMDDVTVNWSEERYDEIKKELSPFLKKVGYNPKDVPFIPISGLTGDNLI 194 (219)
T ss_pred eEEEEEEccccccccccHHHHHHHHHHHHHHHHHcCCCcCCceEEEeecCcCCCCC
Confidence 35568999998621 11111 12222334433 569999999999987
No 239
>PLN00043 elongation factor 1-alpha; Provisional
Probab=95.64 E-value=0.016 Score=41.70 Aligned_cols=44 Identities=14% Similarity=-0.005 Sum_probs=31.0
Q ss_pred CcEEeecCCCCCCCCCC-------HHHHHHHHHHhC-----CeEEEeccCCCCCHHH
Q psy17493 9 SKYIEVPNFVSSMPQVS-------RERGEQLAIEYG-----IKFMETSAKNSINVED 53 (101)
Q Consensus 9 ~~lv~nk~Dl~~~~~v~-------~~~~~~~a~~~~-----~~~~etSAk~~~~V~~ 53 (101)
+.++.||.|+.+. ..+ .++...+.+..| ++|+.+||++|.||.+
T Consensus 148 iIV~vNKmD~~~~-~~~~~~~~~i~~ei~~~l~~~g~~~~~~~~ipiSa~~G~ni~~ 203 (447)
T PLN00043 148 MICCCNKMDATTP-KYSKARYDEIVKEVSSYLKKVGYNPDKIPFVPISGFEGDNMIE 203 (447)
T ss_pred EEEEEEcccCCch-hhhHHHHHHHHHHHHHHHHHcCCCcccceEEEEeccccccccc
Confidence 3557899997521 111 345667777766 6799999999999864
No 240
>KOG1489|consensus
Probab=95.63 E-value=0.03 Score=38.81 Aligned_cols=51 Identities=14% Similarity=0.062 Sum_probs=35.5
Q ss_pred cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCe-EEEeccCCCCCHHHHHHHHH
Q psy17493 6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIK-FMETSAKNSINVEDAFFTLA 59 (101)
Q Consensus 6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~-~~etSAk~~~~V~~~F~~~~ 59 (101)
....-+|.||.|+.+ -..+...++++...-+ .|..||++++|++++...+-
T Consensus 312 ~rp~liVaNKiD~~e---ae~~~l~~L~~~lq~~~V~pvsA~~~egl~~ll~~lr 363 (366)
T KOG1489|consen 312 DRPALIVANKIDLPE---AEKNLLSSLAKRLQNPHVVPVSAKSGEGLEELLNGLR 363 (366)
T ss_pred cCceEEEEeccCchh---HHHHHHHHHHHHcCCCcEEEeeeccccchHHHHHHHh
Confidence 344677899999841 1111235677776644 99999999999999876653
No 241
>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=95.63 E-value=0.0054 Score=35.44 Aligned_cols=42 Identities=31% Similarity=0.337 Sum_probs=26.1
Q ss_pred ccccCCCcE----EeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHH
Q psy17493 3 IQINTKSKY----IEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVE 52 (101)
Q Consensus 3 il~~~~~~l----v~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~ 52 (101)
++++++.|+ ++||.|+.+.+.+. .+.+..|+++||+++.||.
T Consensus 70 i~~~~k~dl~~~~~~nk~dl~~~~~~~--------~~~~~~~~~~s~~~~~~~~ 115 (124)
T smart00010 70 VLVGNKSDLPILVGGNRDVLEEERQVA--------TEEGLEFAETSAKTPEEGE 115 (124)
T ss_pred HHhcCCCCCcEEEEeechhhHhhCcCC--------HHHHHHHHHHhCCCcchhh
Confidence 344555543 34788875433343 3333457789999999984
No 242
>PRK14845 translation initiation factor IF-2; Provisional
Probab=95.60 E-value=0.043 Score=43.40 Aligned_cols=23 Identities=17% Similarity=0.313 Sum_probs=19.8
Q ss_pred CeEEEeccCCCCCHHHHHHHHHH
Q psy17493 38 IKFMETSAKNSINVEDAFFTLAR 60 (101)
Q Consensus 38 ~~~~etSAk~~~~V~~~F~~~~~ 60 (101)
++++.+||+||.||+++...+..
T Consensus 648 v~iVpVSA~tGeGId~Ll~~l~~ 670 (1049)
T PRK14845 648 VAIVPVSAKTGEGIPELLMMVAG 670 (1049)
T ss_pred ceEEEEEcCCCCCHHHHHHHHHH
Confidence 57899999999999999876653
No 243
>COG5257 GCD11 Translation initiation factor 2, gamma subunit (eIF-2gamma; GTPase) [Translation, ribosomal structure and biogenesis]
Probab=95.51 E-value=0.029 Score=39.07 Aligned_cols=58 Identities=10% Similarity=0.048 Sum_probs=41.0
Q ss_pred CCCcEEeecCCCCCCC--CCCHHHHHHHHHH---hCCeEEEeccCCCCCHHHHHHHHHHHHHH
Q psy17493 7 TKSKYIEVPNFVSSMP--QVSRERGEQLAIE---YGIKFMETSAKNSINVEDAFFTLARDIKA 64 (101)
Q Consensus 7 ~~~~lv~nk~Dl~~~~--~v~~~~~~~~a~~---~~~~~~etSAk~~~~V~~~F~~~~~~i~~ 64 (101)
.++.++.||.||-.+. .-.+++..+|.+- -+++.+-+||..+.||+-+++.+.+.|..
T Consensus 141 k~iiIvQNKIDlV~~E~AlE~y~qIk~FvkGt~Ae~aPIIPiSA~~~~NIDal~e~i~~~Ipt 203 (415)
T COG5257 141 KNIIIVQNKIDLVSRERALENYEQIKEFVKGTVAENAPIIPISAQHKANIDALIEAIEKYIPT 203 (415)
T ss_pred ceEEEEecccceecHHHHHHHHHHHHHHhcccccCCCceeeehhhhccCHHHHHHHHHHhCCC
Confidence 4566778999984311 1233444555443 25789999999999999999999887754
No 244
>COG2262 HflX GTPases [General function prediction only]
Probab=95.34 E-value=0.043 Score=39.01 Aligned_cols=53 Identities=8% Similarity=-0.184 Sum_probs=35.0
Q ss_pred CCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHHH
Q psy17493 8 KSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQ 65 (101)
Q Consensus 8 ~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~~ 65 (101)
.+.+|.||.|+..... .... ...... ..+.+||++|.|++.+...+...+...
T Consensus 306 p~i~v~NKiD~~~~~~-~~~~---~~~~~~-~~v~iSA~~~~gl~~L~~~i~~~l~~~ 358 (411)
T COG2262 306 PIILVLNKIDLLEDEE-ILAE---LERGSP-NPVFISAKTGEGLDLLRERIIELLSGL 358 (411)
T ss_pred CEEEEEecccccCchh-hhhh---hhhcCC-CeEEEEeccCcCHHHHHHHHHHHhhhc
Confidence 4566789999643222 1111 111112 588999999999999999998877643
No 245
>PRK12736 elongation factor Tu; Reviewed
Probab=95.04 E-value=0.051 Score=38.40 Aligned_cols=40 Identities=15% Similarity=0.066 Sum_probs=25.4
Q ss_pred cEEeecCCCCCCCCCC---HHHHHHHHHHhC-----CeEEEeccCCCC
Q psy17493 10 KYIEVPNFVSSMPQVS---RERGEQLAIEYG-----IKFMETSAKNSI 49 (101)
Q Consensus 10 ~lv~nk~Dl~~~~~v~---~~~~~~~a~~~~-----~~~~etSAk~~~ 49 (101)
.++.||.|+.+..... .++...+....+ ++++.+||++|.
T Consensus 132 IvviNK~D~~~~~~~~~~i~~~i~~~l~~~~~~~~~~~ii~vSa~~g~ 179 (394)
T PRK12736 132 VVFLNKVDLVDDEELLELVEMEVRELLSEYDFPGDDIPVIRGSALKAL 179 (394)
T ss_pred EEEEEecCCcchHHHHHHHHHHHHHHHHHhCCCcCCccEEEeeccccc
Confidence 4679999986322221 124445555554 579999999984
No 246
>PRK04004 translation initiation factor IF-2; Validated
Probab=94.99 E-value=0.018 Score=42.78 Aligned_cols=50 Identities=14% Similarity=-0.011 Sum_probs=40.1
Q ss_pred cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHHH
Q psy17493 6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQ 65 (101)
Q Consensus 6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~~ 65 (101)
+.++.+++||+|+.. .|+..++..|+++|++++.++.+.|......+...
T Consensus 123 ~vpiIvviNK~D~~~----------~~~~~~~~~~~e~~~~~~~~v~~~f~~~l~ev~~~ 172 (586)
T PRK04004 123 KTPFVVAANKIDRIP----------GWKSTEDAPFLESIEKQSQRVQQELEEKLYELIGQ 172 (586)
T ss_pred CCCEEEEEECcCCch----------hhhhhcCchHHHHHhhhhHHHHHHHHHHHHHHHHH
Confidence 445677899999741 46667789999999999999999999988776554
No 247
>PRK05124 cysN sulfate adenylyltransferase subunit 1; Provisional
Probab=94.51 E-value=0.032 Score=40.46 Aligned_cols=47 Identities=17% Similarity=-0.012 Sum_probs=29.6
Q ss_pred CCcEEeecCCCCCCCCCCHH----HHHHHHHHhC----CeEEEeccCCCCCHHHH
Q psy17493 8 KSKYIEVPNFVSSMPQVSRE----RGEQLAIEYG----IKFMETSAKNSINVEDA 54 (101)
Q Consensus 8 ~~~lv~nk~Dl~~~~~v~~~----~~~~~a~~~~----~~~~etSAk~~~~V~~~ 54 (101)
.+.++.||.|+.....-..+ +...+.+..+ .+++.+||++|.||+++
T Consensus 162 ~iIvvvNKiD~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~iipvSA~~g~ni~~~ 216 (474)
T PRK05124 162 HLVVAVNKMDLVDYSEEVFERIREDYLTFAEQLPGNLDIRFVPLSALEGDNVVSQ 216 (474)
T ss_pred ceEEEEEeeccccchhHHHHHHHHHHHHHHHhcCCCCCceEEEEEeecCCCcccc
Confidence 35668999998642221112 2223333333 67999999999999875
No 248
>COG1703 ArgK Putative periplasmic protein kinase ArgK and related GTPases of G3E family [Amino acid transport and metabolism]
Probab=94.33 E-value=0.077 Score=36.51 Aligned_cols=26 Identities=12% Similarity=0.116 Sum_probs=22.0
Q ss_pred CCeEEEeccCCCCCHHHHHHHHHHHH
Q psy17493 37 GIKFMETSAKNSINVEDAFFTLARDI 62 (101)
Q Consensus 37 ~~~~~etSAk~~~~V~~~F~~~~~~i 62 (101)
..+.+.|||.+|.||++++..+.+..
T Consensus 228 ~ppv~~t~A~~g~Gi~~L~~ai~~h~ 253 (323)
T COG1703 228 RPPVVTTSALEGEGIDELWDAIEDHR 253 (323)
T ss_pred CCceeEeeeccCCCHHHHHHHHHHHH
Confidence 35789999999999999998886543
No 249
>TIGR00485 EF-Tu translation elongation factor TU. This alignment models orthologs of translation elongation factor EF-Tu in bacteria, mitochondria, and chloroplasts, one of several GTP-binding translation factors found by the more general pfam model GTP_EFTU. The eukaryotic conterpart, eukaryotic translation elongation factor 1 (eEF-1 alpha), is excluded from this model. EF-Tu is one of the most abundant proteins in bacteria, as well as one of the most highly conserved, and in a number of species the gene is duplicated with identical function. When bound to GTP, EF-Tu can form a complex with any (correctly) aminoacylated tRNA except those for initiation and for selenocysteine, in which case EF-Tu is replaced by other factors. Transfer RNA is carried to the ribosome in these complexes for protein translation.
Probab=94.16 E-value=0.074 Score=37.57 Aligned_cols=39 Identities=13% Similarity=0.053 Sum_probs=26.4
Q ss_pred EEeecCCCCCCCCCC---HHHHHHHHHHhC-----CeEEEeccCCCC
Q psy17493 11 YIEVPNFVSSMPQVS---RERGEQLAIEYG-----IKFMETSAKNSI 49 (101)
Q Consensus 11 lv~nk~Dl~~~~~v~---~~~~~~~a~~~~-----~~~~etSAk~~~ 49 (101)
++.||.|+.+..... .++...+.+.++ ++++.+||++|.
T Consensus 133 vvvNK~Dl~~~~~~~~~~~~~i~~~l~~~~~~~~~~~ii~vSa~~g~ 179 (394)
T TIGR00485 133 VFLNKCDMVDDEELLELVEMEVRELLSEYDFPGDDTPIIRGSALKAL 179 (394)
T ss_pred EEEEecccCCHHHHHHHHHHHHHHHHHhcCCCccCccEEECcccccc
Confidence 468999986432211 235566666665 689999999986
No 250
>COG1163 DRG Predicted GTPase [General function prediction only]
Probab=94.16 E-value=0.18 Score=35.14 Aligned_cols=47 Identities=21% Similarity=0.128 Sum_probs=35.7
Q ss_pred CcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHH
Q psy17493 9 SKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDI 62 (101)
Q Consensus 9 ~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i 62 (101)
..+|.||.|+.. .++...+.+.. .++-.||+.+.|++++-+.+-+.+
T Consensus 242 ~l~v~NKiD~~~-----~e~~~~l~~~~--~~v~isa~~~~nld~L~e~i~~~L 288 (365)
T COG1163 242 ALYVVNKIDLPG-----LEELERLARKP--NSVPISAKKGINLDELKERIWDVL 288 (365)
T ss_pred eEEEEecccccC-----HHHHHHHHhcc--ceEEEecccCCCHHHHHHHHHHhh
Confidence 356789999743 55555555555 789999999999999988887654
No 251
>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=93.90 E-value=0.18 Score=32.29 Aligned_cols=44 Identities=11% Similarity=0.067 Sum_probs=27.3
Q ss_pred CcEEeecCCCCCCCCC---CHHHHHHHHHHhC-----CeEEEeccCCCCCHH
Q psy17493 9 SKYIEVPNFVSSMPQV---SRERGEQLAIEYG-----IKFMETSAKNSINVE 52 (101)
Q Consensus 9 ~~lv~nk~Dl~~~~~v---~~~~~~~~a~~~~-----~~~~etSAk~~~~V~ 52 (101)
+.++.||.|+..+... ..++...+....+ ++++-+||++|.|+.
T Consensus 121 iIvviNK~D~~~~~~~~~~~~~~i~~~l~~~g~~~~~v~iipiSa~~g~n~~ 172 (195)
T cd01884 121 IVVFLNKADMVDDEELLELVEMEVRELLSKYGFDGDNTPIVRGSALKALEGD 172 (195)
T ss_pred EEEEEeCCCCCCcHHHHHHHHHHHHHHHHHhcccccCCeEEEeeCccccCCC
Confidence 3467899998532211 1123444444443 679999999999863
No 252
>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=93.71 E-value=0.037 Score=37.22 Aligned_cols=24 Identities=13% Similarity=0.221 Sum_probs=20.7
Q ss_pred CeEEEeccCCCCCHHHHHHHHHHH
Q psy17493 38 IKFMETSAKNSINVEDAFFTLARD 61 (101)
Q Consensus 38 ~~~~etSAk~~~~V~~~F~~~~~~ 61 (101)
.+.+.|||.++.||+++++.+.+.
T Consensus 205 ppV~~tsA~~~~Gi~eL~~~i~~~ 228 (266)
T PF03308_consen 205 PPVLKTSALEGEGIDELWEAIDEH 228 (266)
T ss_dssp -EEEEEBTTTTBSHHHHHHHHHHH
T ss_pred CCEEEEEeCCCCCHHHHHHHHHHH
Confidence 579999999999999999888653
No 253
>KOG0076|consensus
Probab=93.70 E-value=0.051 Score=34.56 Aligned_cols=64 Identities=13% Similarity=0.008 Sum_probs=44.1
Q ss_pred cccccCCCcEEeecCCCCCCCCCCH-HHHHHHHHHhC---CeEEEeccCCCCCHHHHHHHHHHHHHHH
Q psy17493 2 EIQINTKSKYIEVPNFVSSMPQVSR-ERGEQLAIEYG---IKFMETSAKNSINVEDAFFTLARDIKAQ 65 (101)
Q Consensus 2 eil~~~~~~lv~nk~Dl~~~~~v~~-~~~~~~a~~~~---~~~~etSAk~~~~V~~~F~~~~~~i~~~ 65 (101)
|.+.|..+-+.+||-|+.+...+.. ......++..+ .+|.-+||.+|.||++.-.-+++.+.++
T Consensus 122 E~leg~p~L~lankqd~q~~~~~~El~~~~~~~e~~~~rd~~~~pvSal~gegv~egi~w~v~~~~kn 189 (197)
T KOG0076|consen 122 EKLEGAPVLVLANKQDLQNAMEAAELDGVFGLAELIPRRDNPFQPVSALTGEGVKEGIEWLVKKLEKN 189 (197)
T ss_pred HHhcCCchhhhcchhhhhhhhhHHHHHHHhhhhhhcCCccCccccchhhhcccHHHHHHHHHHHHhhc
Confidence 5566777778899999875333222 11222244444 5688999999999999998888876554
No 254
>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=93.56 E-value=0.076 Score=37.73 Aligned_cols=46 Identities=15% Similarity=0.052 Sum_probs=29.2
Q ss_pred CcEEeecCCCCCCCCCC----HHHHHHHHHHhC---CeEEEeccCCCCCHHHH
Q psy17493 9 SKYIEVPNFVSSMPQVS----RERGEQLAIEYG---IKFMETSAKNSINVEDA 54 (101)
Q Consensus 9 ~~lv~nk~Dl~~~~~v~----~~~~~~~a~~~~---~~~~etSAk~~~~V~~~ 54 (101)
+.++.||.|+.+...-. .++...+.+..+ ++|+.+||++|.|+++.
T Consensus 136 iivviNK~D~~~~~~~~~~~i~~~~~~~~~~~~~~~~~iipiSA~~g~ni~~~ 188 (406)
T TIGR02034 136 VVLAVNKMDLVDYDEEVFENIKKDYLAFAEQLGFRDVTFIPLSALKGDNVVSR 188 (406)
T ss_pred EEEEEEecccccchHHHHHHHHHHHHHHHHHcCCCCccEEEeecccCCCCccc
Confidence 45689999986422111 122233444444 46999999999999864
No 255
>KOG1490|consensus
Probab=93.45 E-value=0.26 Score=36.33 Aligned_cols=58 Identities=14% Similarity=0.043 Sum_probs=42.7
Q ss_pred CCcEEeecCCCCCCCCCCHHHHH---HHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHHH
Q psy17493 8 KSKYIEVPNFVSSMPQVSRERGE---QLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQ 65 (101)
Q Consensus 8 ~~~lv~nk~Dl~~~~~v~~~~~~---~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~~ 65 (101)
...+|.||+|+-....++.+... .+....++++++||..+.+||-++=..+...++..
T Consensus 283 ~~IlvlNK~D~m~~edL~~~~~~ll~~~~~~~~v~v~~tS~~~eegVm~Vrt~ACe~LLa~ 343 (620)
T KOG1490|consen 283 VTILVLNKIDAMRPEDLDQKNQELLQTIIDDGNVKVVQTSCVQEEGVMDVRTTACEALLAA 343 (620)
T ss_pred ceEEEeecccccCccccCHHHHHHHHHHHhccCceEEEecccchhceeeHHHHHHHHHHHH
Confidence 36778999998765566665543 33444458899999999999988887777766653
No 256
>PRK12735 elongation factor Tu; Reviewed
Probab=93.09 E-value=0.19 Score=35.62 Aligned_cols=40 Identities=10% Similarity=0.048 Sum_probs=25.5
Q ss_pred EEeecCCCCCCCCC---CHHHHHHHHHHhC-----CeEEEeccCCCCC
Q psy17493 11 YIEVPNFVSSMPQV---SRERGEQLAIEYG-----IKFMETSAKNSIN 50 (101)
Q Consensus 11 lv~nk~Dl~~~~~v---~~~~~~~~a~~~~-----~~~~etSAk~~~~ 50 (101)
++.||.|+.+.... ..++...+.+.++ ++|+.+||++|.|
T Consensus 133 vvvNK~Dl~~~~~~~~~~~~ei~~~l~~~~~~~~~~~ii~~Sa~~g~n 180 (396)
T PRK12735 133 VFLNKCDMVDDEELLELVEMEVRELLSKYDFPGDDTPIIRGSALKALE 180 (396)
T ss_pred EEEEecCCcchHHHHHHHHHHHHHHHHHcCCCcCceeEEecchhcccc
Confidence 35899998532211 1234555666553 6799999999954
No 257
>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=92.31 E-value=0.13 Score=35.47 Aligned_cols=53 Identities=13% Similarity=0.056 Sum_probs=35.1
Q ss_pred cCCCcEEeecCCCCCCCCCCHHHHHHHHHHh-CCeEEEeccCCCCCHHHHHH-HHHHHH
Q psy17493 6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEY-GIKFMETSAKNSINVEDAFF-TLARDI 62 (101)
Q Consensus 6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~-~~~~~etSAk~~~~V~~~F~-~~~~~i 62 (101)
..++.+++||.|+..... ....+.... ....+.+||+.+.+++++.+ .++..+
T Consensus 214 ~KPvI~VlNK~Dl~~~~~----~~~~l~~~~~~~~iI~iSA~~e~~L~~L~~~~i~~~l 268 (318)
T cd01899 214 SKPMVIAANKADIPDAEN----NISKLRLKYPDEIVVPTSAEAELALRRAAKQGLIKYD 268 (318)
T ss_pred CCcEEEEEEHHHccChHH----HHHHHHhhCCCCeEEEEeCcccccHHHHHHhhHHHhC
Confidence 446677899999742211 111222333 45699999999999999887 466654
No 258
>COG3276 SelB Selenocysteine-specific translation elongation factor [Translation, ribosomal structure and biogenesis]
Probab=92.05 E-value=0.24 Score=35.70 Aligned_cols=52 Identities=15% Similarity=0.075 Sum_probs=34.6
Q ss_pred cEEeecCCCCCCCCCCHHHHHHHHH---HhCCeEEEeccCCCCCHHHHHHHHHHHH
Q psy17493 10 KYIEVPNFVSSMPQVSRERGEQLAI---EYGIKFMETSAKNSINVEDAFFTLARDI 62 (101)
Q Consensus 10 ~lv~nk~Dl~~~~~v~~~~~~~~a~---~~~~~~~etSAk~~~~V~~~F~~~~~~i 62 (101)
.+|.+|.|..+...+.. ...+.-. --.+++|-+||++|.||+++-..+....
T Consensus 107 iivltk~D~~d~~r~e~-~i~~Il~~l~l~~~~i~~~s~~~g~GI~~Lk~~l~~L~ 161 (447)
T COG3276 107 IIVLTKADRVDEARIEQ-KIKQILADLSLANAKIFKTSAKTGRGIEELKNELIDLL 161 (447)
T ss_pred EEEEeccccccHHHHHH-HHHHHHhhcccccccccccccccCCCHHHHHHHHHHhh
Confidence 67788999765332211 1111111 1236689999999999999999998866
No 259
>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=91.97 E-value=0.66 Score=33.88 Aligned_cols=61 Identities=10% Similarity=0.079 Sum_probs=43.4
Q ss_pred cCCCcEEeecCCCC----CCCCC-----C--HHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHHHH
Q psy17493 6 NTKSKYIEVPNFVS----SMPQV-----S--RERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQT 66 (101)
Q Consensus 6 ~~~~~lv~nk~Dl~----~~~~v-----~--~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~~~ 66 (101)
|-.+.+|..|+|.- .+..- . ..-.+.||-.||+.+|.||++...|++.++..|...++...
T Consensus 196 Gipi~VV~tksD~~~~Lek~~~~~~e~~DfIqq~LR~~cL~yGAsL~yts~~~~~n~~~L~~yi~h~l~~~~ 267 (472)
T PF05783_consen 196 GIPIVVVCTKSDKIETLEKETDWKEEHFDFIQQYLRTFCLKYGASLIYTSVKEEKNLDLLYKYILHRLYGFP 267 (472)
T ss_pred CcceEEEEecccHHHHHhhhcccchhhHHHHHHHHHHHHHhcCCeEEEeeccccccHHHHHHHHHHHhccCC
Confidence 45556667799852 11111 1 12346788899999999999999999999999887776543
No 260
>KOG0705|consensus
Probab=91.92 E-value=0.74 Score=34.50 Aligned_cols=49 Identities=24% Similarity=0.341 Sum_probs=39.1
Q ss_pred CCCCCCHHHHHHHHHHhC-CeEEEeccCCCCCHHHHHHHHHHHHHHHHhh
Q psy17493 20 SMPQVSRERGEQLAIEYG-IKFMETSAKNSINVEDAFFTLARDIKAQTEK 68 (101)
Q Consensus 20 ~~~~v~~~~~~~~a~~~~-~~~~etSAk~~~~V~~~F~~~~~~i~~~~~~ 68 (101)
..+.+...++..++..+. ..||+++|-+|.||+.+|..++..+....+.
T Consensus 145 ~~rv~~da~~r~l~~~~krcsy~et~atyGlnv~rvf~~~~~k~i~~~~~ 194 (749)
T KOG0705|consen 145 RPRVITDDRARQLSAQMKRCSYYETCATYGLNVERVFQEVAQKIVQLRKY 194 (749)
T ss_pred cccccchHHHHHHHHhcCccceeecchhhhhhHHHHHHHHHHHHHHHHhh
Confidence 346777778877777665 7799999999999999999999877655433
No 261
>PRK10218 GTP-binding protein; Provisional
Probab=91.89 E-value=0.45 Score=35.75 Aligned_cols=58 Identities=10% Similarity=0.048 Sum_probs=35.8
Q ss_pred cCCCcEEeecCCCCCCCCC-CHHHHHHHHH-------HhCCeEEEeccCCCC----------CHHHHHHHHHHHHH
Q psy17493 6 NTKSKYIEVPNFVSSMPQV-SRERGEQLAI-------EYGIKFMETSAKNSI----------NVEDAFFTLARDIK 63 (101)
Q Consensus 6 ~~~~~lv~nk~Dl~~~~~v-~~~~~~~~a~-------~~~~~~~etSAk~~~----------~V~~~F~~~~~~i~ 63 (101)
+.+..++.||.|+...+.- ..++...+.. ...++++.+||++|. ++..+|+.+...+.
T Consensus 120 gip~IVviNKiD~~~a~~~~vl~ei~~l~~~l~~~~~~~~~PVi~~SA~~G~~~~~~~~~~~~i~~Lld~Ii~~iP 195 (607)
T PRK10218 120 GLKPIVVINKVDRPGARPDWVVDQVFDLFVNLDATDEQLDFPIVYASALNGIAGLDHEDMAEDMTPLYQAIVDHVP 195 (607)
T ss_pred CCCEEEEEECcCCCCCchhHHHHHHHHHHhccCccccccCCCEEEeEhhcCcccCCccccccchHHHHHHHHHhCC
Confidence 5566778999998642211 1122222221 123678999999998 57788877665543
No 262
>COG1160 Predicted GTPases [General function prediction only]
Probab=91.71 E-value=0.42 Score=34.52 Aligned_cols=51 Identities=10% Similarity=-0.065 Sum_probs=36.1
Q ss_pred CCCcEEeecCCCCCCCCCCHHHHHHHHHHhCC-eEEEeccCCCCCHHHHHHHHHHHH
Q psy17493 7 TKSKYIEVPNFVSSMPQVSRERGEQLAIEYGI-KFMETSAKNSINVEDAFFTLARDI 62 (101)
Q Consensus 7 ~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~-~~~etSAk~~~~V~~~F~~~~~~i 62 (101)
-++.||.||+|-. ..+....-.-..|+ ..+-+||-.|.|+.++.+.+...+
T Consensus 113 kpviLvvNK~D~~-----~~e~~~~efyslG~g~~~~ISA~Hg~Gi~dLld~v~~~l 164 (444)
T COG1160 113 KPVILVVNKIDNL-----KAEELAYEFYSLGFGEPVPISAEHGRGIGDLLDAVLELL 164 (444)
T ss_pred CCEEEEEEcccCc-----hhhhhHHHHHhcCCCCceEeehhhccCHHHHHHHHHhhc
Confidence 4677889999943 12222222234554 489999999999999999998876
No 263
>PRK05506 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional
Probab=91.56 E-value=0.18 Score=37.86 Aligned_cols=46 Identities=17% Similarity=0.052 Sum_probs=28.7
Q ss_pred CCcEEeecCCCCCCCCCCH----HHHHHHHHHhC---CeEEEeccCCCCCHHH
Q psy17493 8 KSKYIEVPNFVSSMPQVSR----ERGEQLAIEYG---IKFMETSAKNSINVED 53 (101)
Q Consensus 8 ~~~lv~nk~Dl~~~~~v~~----~~~~~~a~~~~---~~~~etSAk~~~~V~~ 53 (101)
.+.++.||.|+.+...-.. .+...+.+..+ .+++.+||++|.|+++
T Consensus 159 ~iivvvNK~D~~~~~~~~~~~i~~~i~~~~~~~~~~~~~iipiSA~~g~ni~~ 211 (632)
T PRK05506 159 HVVLAVNKMDLVDYDQEVFDEIVADYRAFAAKLGLHDVTFIPISALKGDNVVT 211 (632)
T ss_pred eEEEEEEecccccchhHHHHHHHHHHHHHHHHcCCCCccEEEEecccCCCccc
Confidence 3456799999853111111 22233444555 4589999999999985
No 264
>COG2895 CysN GTPases - Sulfate adenylate transferase subunit 1 [Inorganic ion transport and metabolism]
Probab=90.61 E-value=0.27 Score=34.83 Aligned_cols=46 Identities=17% Similarity=0.036 Sum_probs=33.6
Q ss_pred CcEEeecCCCCCCCCCCHH----HHHHHHHHhCC---eEEEeccCCCCCHHHH
Q psy17493 9 SKYIEVPNFVSSMPQVSRE----RGEQLAIEYGI---KFMETSAKNSINVEDA 54 (101)
Q Consensus 9 ~~lv~nk~Dl~~~~~v~~~----~~~~~a~~~~~---~~~etSAk~~~~V~~~ 54 (101)
+.+..||.||.+..+-.++ +...||++.|+ .|+-.||..|.||-.-
T Consensus 142 vvvAVNKmDLvdy~e~~F~~I~~dy~~fa~~L~~~~~~~IPiSAl~GDNV~~~ 194 (431)
T COG2895 142 VVVAVNKMDLVDYSEEVFEAIVADYLAFAAQLGLKDVRFIPISALLGDNVVSK 194 (431)
T ss_pred EEEEEeeecccccCHHHHHHHHHHHHHHHHHcCCCcceEEechhccCCccccc
Confidence 4555789999865544443 34578898884 5999999999998543
No 265
>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=90.52 E-value=0.98 Score=28.68 Aligned_cols=29 Identities=17% Similarity=0.124 Sum_probs=24.0
Q ss_pred eEEEeccC--CCCCHHHHHHHHHHHHHHHHh
Q psy17493 39 KFMETSAK--NSINVEDAFFTLARDIKAQTE 67 (101)
Q Consensus 39 ~~~etSAk--~~~~V~~~F~~~~~~i~~~~~ 67 (101)
++|-+|+. .+.++..+.+.+...+.+...
T Consensus 158 ~v~~vS~~~~~~~~~~~l~~~~~~~l~~~~~ 188 (197)
T cd04104 158 PVFLVSNFDPSDYDFPKLRETLLKDLPAHKR 188 (197)
T ss_pred CEEEEeCCChhhcChHHHHHHHHHHhhHHHH
Confidence 59999998 678999999999888876543
No 266
>PRK09602 translation-associated GTPase; Reviewed
Probab=88.71 E-value=0.57 Score=33.38 Aligned_cols=45 Identities=18% Similarity=0.046 Sum_probs=29.6
Q ss_pred cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHH
Q psy17493 6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDA 54 (101)
Q Consensus 6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~ 54 (101)
..++.+|.||.|+.... +....+.+..+..++.+||+.+.+++++
T Consensus 217 ~KPvI~VlNK~D~~~~~----~~l~~i~~~~~~~vvpISA~~e~~l~~~ 261 (396)
T PRK09602 217 SKPMVIAANKADLPPAE----ENIERLKEEKYYIVVPTSAEAELALRRA 261 (396)
T ss_pred CCCEEEEEEchhcccch----HHHHHHHhcCCCcEEEEcchhhhhHHHH
Confidence 45677889999964211 1122232223456899999999999883
No 267
>KOG0070|consensus
Probab=88.48 E-value=0.77 Score=29.31 Aligned_cols=56 Identities=11% Similarity=-0.035 Sum_probs=36.5
Q ss_pred cCCCcEEeecCCCCCCCCCCHHHHHHHHHHh-----CCeEEEeccCCCCCHHHHHHHHHHHHH
Q psy17493 6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEY-----GIKFMETSAKNSINVEDAFFTLARDIK 63 (101)
Q Consensus 6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~-----~~~~~etSAk~~~~V~~~F~~~~~~i~ 63 (101)
+..+-+.+||-|+.. ..+..+..+.-.-+ .-.+..|+|.+|.|+.+.++-+...+.
T Consensus 118 ~~~llv~aNKqD~~~--als~~ei~~~L~l~~l~~~~w~iq~~~a~~G~GL~egl~wl~~~~~ 178 (181)
T KOG0070|consen 118 NAPLLVFANKQDLPG--ALSAAEITNKLGLHSLRSRNWHIQSTCAISGEGLYEGLDWLSNNLK 178 (181)
T ss_pred CceEEEEechhhccc--cCCHHHHHhHhhhhccCCCCcEEeeccccccccHHHHHHHHHHHHh
Confidence 445556789999874 34433333222222 233568999999999999998887664
No 268
>KOG1145|consensus
Probab=88.14 E-value=3.2 Score=31.29 Aligned_cols=50 Identities=12% Similarity=-0.035 Sum_probs=32.7
Q ss_pred CcEEeecCCCCCCCCCCHHHHH-HH------HHHhC--CeEEEeccCCCCCHHHHHHHHHHH
Q psy17493 9 SKYIEVPNFVSSMPQVSRERGE-QL------AIEYG--IKFMETSAKNSINVEDAFFTLARD 61 (101)
Q Consensus 9 ~~lv~nk~Dl~~~~~v~~~~~~-~~------a~~~~--~~~~etSAk~~~~V~~~F~~~~~~ 61 (101)
+.+..||+|.. .-..+... ++ .+.+| .+.+..||++|.|++.+-+.+.-.
T Consensus 256 iVvAinKiDkp---~a~pekv~~eL~~~gi~~E~~GGdVQvipiSAl~g~nl~~L~eaill~ 314 (683)
T KOG1145|consen 256 IVVAINKIDKP---GANPEKVKRELLSQGIVVEDLGGDVQVIPISALTGENLDLLEEAILLL 314 (683)
T ss_pred EEEEEeccCCC---CCCHHHHHHHHHHcCccHHHcCCceeEEEeecccCCChHHHHHHHHHH
Confidence 34457899964 23333332 22 33444 578999999999999988777543
No 269
>KOG0075|consensus
Probab=87.42 E-value=0.37 Score=30.08 Aligned_cols=50 Identities=14% Similarity=0.096 Sum_probs=32.7
Q ss_pred cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhC--------CeEEEeccCCCCCHHHHHHHHHH
Q psy17493 6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYG--------IKFMETSAKNSINVEDAFFTLAR 60 (101)
Q Consensus 6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~--------~~~~etSAk~~~~V~~~F~~~~~ 60 (101)
|-.+-+.|||.|+.+ ..+.. .+..+.| +-.|..|+|...||+.+..=+.+
T Consensus 122 gip~LVLGnK~d~~~--AL~~~---~li~rmgL~sitdREvcC~siScke~~Nid~~~~Wli~ 179 (186)
T KOG0075|consen 122 GIPLLVLGNKIDLPG--ALSKI---ALIERMGLSSITDREVCCFSISCKEKVNIDITLDWLIE 179 (186)
T ss_pred CCcEEEecccccCcc--cccHH---HHHHHhCccccccceEEEEEEEEcCCccHHHHHHHHHH
Confidence 444556689999863 33322 2334444 35789999999999987665544
No 270
>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=87.29 E-value=2.2 Score=26.73 Aligned_cols=31 Identities=19% Similarity=0.018 Sum_probs=24.4
Q ss_pred HHHHHHHhCCeEEEeccCCCCCHHHHHHHHH
Q psy17493 29 GEQLAIEYGIKFMETSAKNSINVEDAFFTLA 59 (101)
Q Consensus 29 ~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~ 59 (101)
..+.-+..|.+.+.+|++++.+++++...+.
T Consensus 4 ~~~~y~~~gy~v~~~S~~~~~g~~~l~~~l~ 34 (161)
T PF03193_consen 4 LLEQYEKLGYPVFFISAKTGEGIEELKELLK 34 (161)
T ss_dssp HHHHHHHTTSEEEE-BTTTTTTHHHHHHHHT
T ss_pred HHHHHHHcCCcEEEEeCCCCcCHHHHHHHhc
Confidence 3445567899999999999999999887664
No 271
>KOG0461|consensus
Probab=85.83 E-value=1.5 Score=31.33 Aligned_cols=58 Identities=14% Similarity=0.006 Sum_probs=34.5
Q ss_pred CCCcEEeecCCCCC--CCCCCHH-HHHHHHHHh-------CCeEEEeccCCC----CCHHHHHHHHHHHHHH
Q psy17493 7 TKSKYIEVPNFVSS--MPQVSRE-RGEQLAIEY-------GIKFMETSAKNS----INVEDAFFTLARDIKA 64 (101)
Q Consensus 7 ~~~~lv~nk~Dl~~--~~~v~~~-~~~~~a~~~-------~~~~~etSAk~~----~~V~~~F~~~~~~i~~ 64 (101)
.|..+|.||.|+.. +|.-..+ -+..+++.. +.+..++||+.| ++|.++-+.+-..+.+
T Consensus 123 ~klvvvinkid~lpE~qr~ski~k~~kk~~KtLe~t~f~g~~PI~~vsa~~G~~~~~~i~eL~e~l~s~if~ 194 (522)
T KOG0461|consen 123 KKLVVVINKIDVLPENQRASKIEKSAKKVRKTLESTGFDGNSPIVEVSAADGYFKEEMIQELKEALESRIFE 194 (522)
T ss_pred cceEEEEeccccccchhhhhHHHHHHHHHHHHHHhcCcCCCCceeEEecCCCccchhHHHHHHHHHHHhhcC
Confidence 45677888887642 3333222 223333332 268999999999 6666666555555554
No 272
>COG2229 Predicted GTPase [General function prediction only]
Probab=85.64 E-value=3.6 Score=26.42 Aligned_cols=48 Identities=10% Similarity=-0.019 Sum_probs=34.1
Q ss_pred EEeecCCCCCCCCCCHHHHHHHHHHh--CCeEEEeccCCCCCHHHHHHHHHH
Q psy17493 11 YIEVPNFVSSMPQVSRERGEQLAIEY--GIKFMETSAKNSINVEDAFFTLAR 60 (101)
Q Consensus 11 lv~nk~Dl~~~~~v~~~~~~~~a~~~--~~~~~etSAk~~~~V~~~F~~~~~ 60 (101)
+..||-||.+ .-+.++..++-+.. ..+.++++|..+.++.+....+..
T Consensus 126 Va~NK~DL~~--a~ppe~i~e~l~~~~~~~~vi~~~a~e~~~~~~~L~~ll~ 175 (187)
T COG2229 126 VAINKQDLFD--ALPPEKIREALKLELLSVPVIEIDATEGEGARDQLDVLLL 175 (187)
T ss_pred EEeeccccCC--CCCHHHHHHHHHhccCCCceeeeecccchhHHHHHHHHHh
Confidence 3468999975 34455555544443 788999999999998887666543
No 273
>KOG0466|consensus
Probab=85.28 E-value=0.92 Score=31.76 Aligned_cols=58 Identities=12% Similarity=0.060 Sum_probs=40.2
Q ss_pred CCCcEEeecCCCCCCCC--CCHHHHHHHHHH---hCCeEEEeccCCCCCHHHHHHHHHHHHHH
Q psy17493 7 TKSKYIEVPNFVSSMPQ--VSRERGEQLAIE---YGIKFMETSAKNSINVEDAFFTLARDIKA 64 (101)
Q Consensus 7 ~~~~lv~nk~Dl~~~~~--v~~~~~~~~a~~---~~~~~~etSAk~~~~V~~~F~~~~~~i~~ 64 (101)
.++.++.||.||-.+.+ -..++.+.|... -|++.+-+||--..||+-+.+.+++.|.-
T Consensus 180 khiiilQNKiDli~e~~A~eq~e~I~kFi~~t~ae~aPiiPisAQlkyNId~v~eyivkkIPv 242 (466)
T KOG0466|consen 180 KHIIILQNKIDLIKESQALEQHEQIQKFIQGTVAEGAPIIPISAQLKYNIDVVCEYIVKKIPV 242 (466)
T ss_pred ceEEEEechhhhhhHHHHHHHHHHHHHHHhccccCCCceeeehhhhccChHHHHHHHHhcCCC
Confidence 44566789999854222 112334444443 24789999999999999999999987743
No 274
>COG0218 Predicted GTPase [General function prediction only]
Probab=85.24 E-value=2.2 Score=27.73 Aligned_cols=57 Identities=7% Similarity=-0.062 Sum_probs=34.7
Q ss_pred cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhC----Ce--EEEeccCCCCCHHHHHHHHHHHHH
Q psy17493 6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYG----IK--FMETSAKNSINVEDAFFTLARDIK 63 (101)
Q Consensus 6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~----~~--~~etSAk~~~~V~~~F~~~~~~i~ 63 (101)
|-.+.++.+|.|.-...... ......++..+ .. .+-+|+.++.|++++-..+...+.
T Consensus 135 ~i~~~vv~tK~DKi~~~~~~-k~l~~v~~~l~~~~~~~~~~~~~ss~~k~Gi~~l~~~i~~~~~ 197 (200)
T COG0218 135 GIPVIVVLTKADKLKKSERN-KQLNKVAEELKKPPPDDQWVVLFSSLKKKGIDELKAKILEWLK 197 (200)
T ss_pred CCCeEEEEEccccCChhHHH-HHHHHHHHHhcCCCCccceEEEEecccccCHHHHHHHHHHHhh
Confidence 45566788999964322221 11122333332 22 678899999999999888876553
No 275
>CHL00071 tufA elongation factor Tu
Probab=84.61 E-value=0.85 Score=32.49 Aligned_cols=43 Identities=12% Similarity=-0.001 Sum_probs=26.7
Q ss_pred CcEEeecCCCCCCCCCC---HHHHHHHHHHhC-----CeEEEeccCCCCCH
Q psy17493 9 SKYIEVPNFVSSMPQVS---RERGEQLAIEYG-----IKFMETSAKNSINV 51 (101)
Q Consensus 9 ~~lv~nk~Dl~~~~~v~---~~~~~~~a~~~~-----~~~~etSAk~~~~V 51 (101)
+.++.||.|+.+..... .++...+.+..+ ++|+..||++|.|+
T Consensus 131 iIvvvNK~D~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~ii~~Sa~~g~n~ 181 (409)
T CHL00071 131 IVVFLNKEDQVDDEELLELVELEVRELLSKYDFPGDDIPIVSGSALLALEA 181 (409)
T ss_pred EEEEEEccCCCCHHHHHHHHHHHHHHHHHHhCCCCCcceEEEcchhhcccc
Confidence 34679999986422211 124444444443 67999999999865
No 276
>PTZ00141 elongation factor 1- alpha; Provisional
Probab=84.01 E-value=1.6 Score=31.57 Aligned_cols=45 Identities=11% Similarity=-0.006 Sum_probs=26.8
Q ss_pred CcEEeecCCCCC--CCCCC----HHHHHHHHHHhC-----CeEEEeccCCCCCHHH
Q psy17493 9 SKYIEVPNFVSS--MPQVS----RERGEQLAIEYG-----IKFMETSAKNSINVED 53 (101)
Q Consensus 9 ~~lv~nk~Dl~~--~~~v~----~~~~~~~a~~~~-----~~~~etSAk~~~~V~~ 53 (101)
+.++.||.|... ...-. .++...+....+ ++|+-+||.+|.||.+
T Consensus 148 iiv~vNKmD~~~~~~~~~~~~~i~~~i~~~l~~~g~~~~~~~~ipiSa~~g~ni~~ 203 (446)
T PTZ00141 148 MIVCINKMDDKTVNYSQERYDEIKKEVSAYLKKVGYNPEKVPFIPISGWQGDNMIE 203 (446)
T ss_pred EEEEEEccccccchhhHHHHHHHHHHHHHHHHhcCCCcccceEEEeecccCCCccc
Confidence 356899999531 11111 123333333333 5799999999999864
No 277
>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=83.38 E-value=1.7 Score=32.64 Aligned_cols=23 Identities=17% Similarity=0.218 Sum_probs=20.3
Q ss_pred CeEEEeccCCCCCHHHHHHHHHH
Q psy17493 38 IKFMETSAKNSINVEDAFFTLAR 60 (101)
Q Consensus 38 ~~~~etSAk~~~~V~~~F~~~~~ 60 (101)
++++.+||++|+|++++...+..
T Consensus 191 v~iVpVSA~tGeGideLl~~l~~ 213 (590)
T TIGR00491 191 VAIIPISAITGEGIPELLTMLAG 213 (590)
T ss_pred ceEEEeecCCCCChhHHHHHHHH
Confidence 67999999999999999987754
No 278
>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=81.65 E-value=0.43 Score=31.59 Aligned_cols=22 Identities=18% Similarity=0.446 Sum_probs=16.8
Q ss_pred eEEEeccCCCCCHHHHHHHHHH
Q psy17493 39 KFMETSAKNSINVEDAFFTLAR 60 (101)
Q Consensus 39 ~~~etSAk~~~~V~~~F~~~~~ 60 (101)
.|+-.|++++.++++++..+-+
T Consensus 213 ~f~pls~~~~~~~~~L~~~id~ 234 (238)
T PF03029_consen 213 RFIPLSSKDGEGMEELLAAIDK 234 (238)
T ss_dssp --EE-BTTTTTTHHHHHHHHHH
T ss_pred eEEEEECCChHHHHHHHHHHHH
Confidence 6999999999999999977654
No 279
>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=81.25 E-value=1.8 Score=22.72 Aligned_cols=23 Identities=26% Similarity=0.237 Sum_probs=18.7
Q ss_pred eccCCCCCHHHHHHHHHHHHHHH
Q psy17493 43 TSAKNSINVEDAFFTLARDIKAQ 65 (101)
Q Consensus 43 tSAk~~~~V~~~F~~~~~~i~~~ 65 (101)
-|||+|-||.++.+...+..++.
T Consensus 43 etAknGgNvKEvme~~lr~~l~~ 65 (71)
T PF07764_consen 43 ETAKNGGNVKEVMEQALREKLKS 65 (71)
T ss_dssp HHHHSSS-HHHHHHHHHHHHHHH
T ss_pred eecccCCCHHHHHHHHHHHHHHH
Confidence 37999999999999988877764
No 280
>KOG1423|consensus
Probab=81.24 E-value=2.2 Score=29.86 Aligned_cols=23 Identities=17% Similarity=0.033 Sum_probs=19.6
Q ss_pred EEEeccCCCCCHHHHHHHHHHHH
Q psy17493 40 FMETSAKNSINVEDAFFTLARDI 62 (101)
Q Consensus 40 ~~etSAk~~~~V~~~F~~~~~~i 62 (101)
+|-+||++|.||+++=+.+..+.
T Consensus 248 vF~vSaL~G~GikdlkqyLmsqa 270 (379)
T KOG1423|consen 248 VFMVSALYGEGIKDLKQYLMSQA 270 (379)
T ss_pred EEEEecccccCHHHHHHHHHhcC
Confidence 79999999999999988776543
No 281
>COG1161 Predicted GTPases [General function prediction only]
Probab=80.12 E-value=3.3 Score=28.66 Aligned_cols=47 Identities=17% Similarity=0.077 Sum_probs=28.9
Q ss_pred CCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHH
Q psy17493 8 KSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAF 55 (101)
Q Consensus 8 ~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F 55 (101)
+..+|+||.||.+ +.+.....+.|.++.+...+..|++.+.++..+-
T Consensus 63 ~~i~vlNK~DL~~-~~~~~~W~~~~~~~~~~~~~~v~~~~~~~~~~i~ 109 (322)
T COG1161 63 PKLLVLNKADLAP-KEVTKKWKKYFKKEEGIKPIFVSAKSRQGGKKIR 109 (322)
T ss_pred CcEEEEehhhcCC-HHHHHHHHHHHHhcCCCccEEEEeecccCccchH
Confidence 3457899999965 3334444444555556666777777776655444
No 282
>PRK00049 elongation factor Tu; Reviewed
Probab=79.80 E-value=5.2 Score=28.46 Aligned_cols=40 Identities=10% Similarity=0.039 Sum_probs=22.6
Q ss_pred EEeecCCCCCCCCCC---HHHHHHHHHHh-----CCeEEEeccCCCCC
Q psy17493 11 YIEVPNFVSSMPQVS---RERGEQLAIEY-----GIKFMETSAKNSIN 50 (101)
Q Consensus 11 lv~nk~Dl~~~~~v~---~~~~~~~a~~~-----~~~~~etSAk~~~~ 50 (101)
++.||.|+......- ..+...+.... +++++.+||++|.+
T Consensus 133 VvvNK~D~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~iv~iSa~~g~~ 180 (396)
T PRK00049 133 VFLNKCDMVDDEELLELVEMEVRELLSKYDFPGDDTPIIRGSALKALE 180 (396)
T ss_pred EEEeecCCcchHHHHHHHHHHHHHHHHhcCCCccCCcEEEeecccccC
Confidence 358999985321111 11223333332 36789999999864
No 283
>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=77.10 E-value=5.3 Score=27.54 Aligned_cols=63 Identities=16% Similarity=0.004 Sum_probs=41.5
Q ss_pred cccCCCcEEeecCCCCCC----------------CCCCHHHHHHHHHH----------hCCeEEEeccCCCCCHHHHHHH
Q psy17493 4 QINTKSKYIEVPNFVSSM----------------PQVSRERGEQLAIE----------YGIKFMETSAKNSINVEDAFFT 57 (101)
Q Consensus 4 l~~~~~~lv~nk~Dl~~~----------------~~v~~~~~~~~a~~----------~~~~~~etSAk~~~~V~~~F~~ 57 (101)
+.++.+.|++||.|+-.+ ..-..+.+..|-.. ..+..+.|+|-+-.+|..+|..
T Consensus 226 ~~~~pill~~NK~D~f~~ki~~~~l~~~fp~y~g~~~~~~~~~~~i~~~F~~~~~~~~~~~~~~~t~a~Dt~~i~~vf~~ 305 (317)
T cd00066 226 FANTSIILFLNKKDLFEEKIKKSPLTDYFPDYTGPPNDYEEAAKFIRKKFLDLNRNPNKEIYPHFTCATDTENIRFVFDA 305 (317)
T ss_pred ccCCCEEEEccChHHHHHhhcCCCccccCCCCCCCCCCHHHHHHHHHHHHHHhhcCCCCeEEEEeccccchHHHHHHHHH
Confidence 345677788899985211 02234555544332 1234568999999999999999
Q ss_pred HHHHHHHHH
Q psy17493 58 LARDIKAQT 66 (101)
Q Consensus 58 ~~~~i~~~~ 66 (101)
+...|+...
T Consensus 306 v~~~i~~~~ 314 (317)
T cd00066 306 VKDIILQNN 314 (317)
T ss_pred HHHHHHHHH
Confidence 988887653
No 284
>cd04178 Nucleostemin_like Nucleostemin-like. Nucleostemin (NS) is a nucleolar protein that functions as a regulator of cell growth and proliferation in stem cells and in several types of cancer cells, but is not expressed in the differentiated cells of most mammalian adult tissues. NS shuttles between the nucleolus and nucleoplasm bidirectionally at a rate that is fast and independent of cell type. Lowering GTP levels decreases the nucleolar retention of NS, and expression of NS is abruptly down-regulated during differentiation prior to terminal cell division. Found only in eukaryotes, NS consists of an N-terminal basic domain, a coiled-coil domain, a GTP-binding domain, an intermediate domain, and a C-terminal acidic domain. Experimental evidence indicates that NS uses its GTP-binding property as a molecular switch to control the transition between the nucleolus and nucleoplasm, and this process involves interaction between the basic, GTP-binding, and intermediate domains of the
Probab=76.04 E-value=4.4 Score=25.42 Aligned_cols=15 Identities=13% Similarity=-0.115 Sum_probs=11.4
Q ss_pred cCCCcEEeecCCCCC
Q psy17493 6 NTKSKYIEVPNFVSS 20 (101)
Q Consensus 6 ~~~~~lv~nk~Dl~~ 20 (101)
+.++.+|.||+|+.+
T Consensus 30 ~kp~IlVlNK~DL~~ 44 (172)
T cd04178 30 NKKLVLVLNKIDLVP 44 (172)
T ss_pred CCCEEEEEehhhcCC
Confidence 356788899999853
No 285
>PRK04004 translation initiation factor IF-2; Validated
Probab=75.77 E-value=3.9 Score=30.77 Aligned_cols=23 Identities=26% Similarity=0.382 Sum_probs=20.2
Q ss_pred CeEEEeccCCCCCHHHHHHHHHH
Q psy17493 38 IKFMETSAKNSINVEDAFFTLAR 60 (101)
Q Consensus 38 ~~~~etSAk~~~~V~~~F~~~~~ 60 (101)
++++.+||++|.|++++...+..
T Consensus 193 v~ivpiSA~tGeGi~dLl~~i~~ 215 (586)
T PRK04004 193 VAIVPVSAKTGEGIPDLLMVLAG 215 (586)
T ss_pred ceEeeccCCCCCChHHHHHHHHH
Confidence 57999999999999999887754
No 286
>PLN03127 Elongation factor Tu; Provisional
Probab=75.27 E-value=6.4 Score=28.59 Aligned_cols=51 Identities=14% Similarity=-0.001 Sum_probs=26.1
Q ss_pred cEEeecCCCCCCCCCCH---HHHHHHHHHh-----CCeEEEeccC---CCCC-------HHHHHHHHHH
Q psy17493 10 KYIEVPNFVSSMPQVSR---ERGEQLAIEY-----GIKFMETSAK---NSIN-------VEDAFFTLAR 60 (101)
Q Consensus 10 ~lv~nk~Dl~~~~~v~~---~~~~~~a~~~-----~~~~~etSAk---~~~~-------V~~~F~~~~~ 60 (101)
.++.||.|+.+...... .+...+.... .++++..||. +|.| +..+++.+..
T Consensus 181 IvviNKiDlv~~~~~~~~i~~~i~~~l~~~~~~~~~vpiip~Sa~sa~~g~n~~~~~~~i~~Ll~~l~~ 249 (447)
T PLN03127 181 VVFLNKVDVVDDEELLELVEMELRELLSFYKFPGDEIPIIRGSALSALQGTNDEIGKNAILKLMDAVDE 249 (447)
T ss_pred EEEEEeeccCCHHHHHHHHHHHHHHHHHHhCCCCCcceEEEeccceeecCCCcccccchHHHHHHHHHH
Confidence 45689999854222111 1222333322 2578888776 5555 4555544443
No 287
>KOG1707|consensus
Probab=73.71 E-value=5.2 Score=30.20 Aligned_cols=59 Identities=14% Similarity=0.183 Sum_probs=40.0
Q ss_pred cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCe-EEEeccCCCCCHHHHHHHHHHHHHHH
Q psy17493 6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIK-FMETSAKNSINVEDAFFTLARDIKAQ 65 (101)
Q Consensus 6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~-~~etSAk~~~~V~~~F~~~~~~i~~~ 65 (101)
...+.+|+.|.||+..++...-+-.+++.+++++ -.-.|.++... .++|..++......
T Consensus 526 ~~Pc~~va~K~dlDe~~Q~~~iqpde~~~~~~i~~P~~~S~~~~~s-~~lf~kL~~~A~~P 585 (625)
T KOG1707|consen 526 KIPCLMVATKADLDEVPQRYSIQPDEFCRQLGLPPPIHISSKTLSS-NELFIKLATMAQYP 585 (625)
T ss_pred CCceEEEeeccccchhhhccCCChHHHHHhcCCCCCeeeccCCCCC-chHHHHHHHhhhCC
Confidence 4556777889999865433333337899999975 55566664333 89999999876543
No 288
>COG4359 Uncharacterized conserved protein [Function unknown]
Probab=73.59 E-value=8.1 Score=25.14 Aligned_cols=34 Identities=15% Similarity=0.003 Sum_probs=29.5
Q ss_pred HHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHH
Q psy17493 26 RERGEQLAIEYGIKFMETSAKNSINVEDAFFTLA 59 (101)
Q Consensus 26 ~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~ 59 (101)
..+-.+|+++++++|+-+|+=..-=|.-+|+.++
T Consensus 78 fKef~e~ike~di~fiVvSsGm~~fI~~lfe~iv 111 (220)
T COG4359 78 FKEFVEWIKEHDIPFIVVSSGMDPFIYPLFEGIV 111 (220)
T ss_pred HHHHHHHHHHcCCCEEEEeCCCchHHHHHHHhhc
Confidence 4566789999999999999977777999999887
No 289
>KOG4271|consensus
Probab=73.28 E-value=4.3 Score=32.25 Aligned_cols=29 Identities=31% Similarity=0.331 Sum_probs=25.8
Q ss_pred CCeEEEeccCCCCCHHHHHHHHHHHHHHH
Q psy17493 37 GIKFMETSAKNSINVEDAFFTLARDIKAQ 65 (101)
Q Consensus 37 ~~~~~etSAk~~~~V~~~F~~~~~~i~~~ 65 (101)
+++..|||+..+.||+-+|..++..+...
T Consensus 3 ~l~~vetss~~nvnve~~f~tl~~l~~ks 31 (1100)
T KOG4271|consen 3 NLPVVETSSVKNVNVEYLFGTLVQLCDKS 31 (1100)
T ss_pred CCCceeecccccccHHHHHHHHHHHHHhh
Confidence 46789999999999999999999988754
No 290
>PLN03126 Elongation factor Tu; Provisional
Probab=72.71 E-value=4.5 Score=29.66 Aligned_cols=43 Identities=12% Similarity=-0.001 Sum_probs=25.7
Q ss_pred CcEEeecCCCCCCCCCC---HHHHHHHHHHh-----CCeEEEeccCCCCCH
Q psy17493 9 SKYIEVPNFVSSMPQVS---RERGEQLAIEY-----GIKFMETSAKNSINV 51 (101)
Q Consensus 9 ~~lv~nk~Dl~~~~~v~---~~~~~~~a~~~-----~~~~~etSAk~~~~V 51 (101)
..++.||.|+.+..... .++...+.+.. +++|+-+||.+|.|+
T Consensus 200 iIvvvNK~Dl~~~~~~~~~i~~~i~~~l~~~g~~~~~~~~vp~Sa~~g~n~ 250 (478)
T PLN03126 200 MVVFLNKQDQVDDEELLELVELEVRELLSSYEFPGDDIPIISGSALLALEA 250 (478)
T ss_pred EEEEEecccccCHHHHHHHHHHHHHHHHHhcCCCcCcceEEEEEccccccc
Confidence 34679999985421111 12334444443 467999999998654
No 291
>cd04167 Snu114p Snu114p subfamily. Snu114p is one of several proteins that make up the U5 small nuclear ribonucleoprotein (snRNP) particle. U5 is a component of the spliceosome, which catalyzes the splicing of pre-mRNA to remove introns. Snu114p is homologous to EF-2, but typically contains an additional N-terminal domain not found in Ef-2. This protein is part of the GTP translation factor family and the Ras superfamily, characterized by five G-box motifs.
Probab=71.88 E-value=3.4 Score=26.49 Aligned_cols=14 Identities=0% Similarity=-0.444 Sum_probs=10.5
Q ss_pred cCCCcEEeecCCCC
Q psy17493 6 NTKSKYIEVPNFVS 19 (101)
Q Consensus 6 ~~~~~lv~nk~Dl~ 19 (101)
+..+.+++||.|+.
T Consensus 123 ~~p~iiviNK~D~~ 136 (213)
T cd04167 123 GLPIVLVINKIDRL 136 (213)
T ss_pred CCCEEEEEECcccC
Confidence 45567889999974
No 292
>KOG1424|consensus
Probab=71.14 E-value=7.1 Score=29.13 Aligned_cols=36 Identities=14% Similarity=-0.091 Sum_probs=25.3
Q ss_pred CCCcEEeecCCCCCCCCCCHHHHHHHHHH---hCCeEEEeccCC
Q psy17493 7 TKSKYIEVPNFVSSMPQVSRERGEQLAIE---YGIKFMETSAKN 47 (101)
Q Consensus 7 ~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~---~~~~~~etSAk~ 47 (101)
.+..|+.||.||. +.++...|++. ++++|+.-||..
T Consensus 206 K~~~LLvNKaDLl-----~~~qr~aWa~YF~~~ni~~vf~SA~~ 244 (562)
T KOG1424|consen 206 KANVLLVNKADLL-----PPEQRVAWAEYFRQNNIPVVFFSALA 244 (562)
T ss_pred cceEEEEehhhcC-----CHHHHHHHHHHHHhcCceEEEEeccc
Confidence 3446788999984 45555556554 568988888876
No 293
>COG1084 Predicted GTPase [General function prediction only]
Probab=68.84 E-value=7.7 Score=27.30 Aligned_cols=56 Identities=9% Similarity=0.002 Sum_probs=37.0
Q ss_pred CCCcEEeecCCCCCCCCCCHHHHHHHHHHhC-CeEEEeccCCCCCHHHHHHHHHHHHHH
Q psy17493 7 TKSKYIEVPNFVSSMPQVSRERGEQLAIEYG-IKFMETSAKNSINVEDAFFTLARDIKA 64 (101)
Q Consensus 7 ~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~-~~~~etSAk~~~~V~~~F~~~~~~i~~ 64 (101)
..+.+|.||.|+.+...+. ++..+....| ......|+..+.+++.+-..+.....+
T Consensus 281 ~p~v~V~nK~D~~~~e~~~--~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~~v~~~a~~ 337 (346)
T COG1084 281 APIVVVINKIDIADEEKLE--EIEASVLEEGGEEPLKISATKGCGLDKLREEVRKTALE 337 (346)
T ss_pred CCeEEEEecccccchhHHH--HHHHHHHhhccccccceeeeehhhHHHHHHHHHHHhhc
Confidence 4567789999986544443 3333344444 448888999999998877776665443
No 294
>cd01850 CDC_Septin CDC/Septin. Septins are a conserved family of GTP-binding proteins associated with diverse processes in dividing and non-dividing cells. They were first discovered in the budding yeast S. cerevisiae as a set of genes (CDC3, CDC10, CDC11 and CDC12) required for normal bud morphology. Septins are also present in metazoan cells, where they are required for cytokinesis in some systems, and implicated in a variety of other processes involving organization of the cell cortex and exocytosis. In humans, 12 septin genes generate dozens of polypeptides, many of which comprise heterooligomeric complexes. Since septin mutants are commonly defective in cytokinesis and formation of the neck formation of the neck filaments/septin rings, septins have been considered to be the primary constituents of the neck filaments. Septins belong to the GTPase superfamily for their conserved GTPase motifs and enzymatic activities.
Probab=68.67 E-value=3.9 Score=27.63 Aligned_cols=39 Identities=10% Similarity=-0.110 Sum_probs=27.1
Q ss_pred CCCcEEeecCCCCC--CCCCCHHHHHHHHHHhCCeEEEecc
Q psy17493 7 TKSKYIEVPNFVSS--MPQVSRERGEQLAIEYGIKFMETSA 45 (101)
Q Consensus 7 ~~~~lv~nk~Dl~~--~~~v~~~~~~~~a~~~~~~~~etSA 45 (101)
..+.+|+||+|+.. +.........+.++.+++.+|..+.
T Consensus 144 v~vi~VinK~D~l~~~e~~~~k~~i~~~l~~~~i~~~~~~~ 184 (276)
T cd01850 144 VNIIPVIAKADTLTPEELKEFKQRIMEDIEEHNIKIYKFPE 184 (276)
T ss_pred CCEEEEEECCCcCCHHHHHHHHHHHHHHHHHcCCceECCCC
Confidence 45667889999853 2333455667778888999887665
No 295
>KOG2485|consensus
Probab=68.62 E-value=7.1 Score=27.31 Aligned_cols=55 Identities=5% Similarity=-0.089 Sum_probs=33.3
Q ss_pred CCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccC--CCCCHHHHHHHHHHHHH
Q psy17493 8 KSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAK--NSINVEDAFFTLARDIK 63 (101)
Q Consensus 8 ~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk--~~~~V~~~F~~~~~~i~ 63 (101)
+-.||.||.||.+. .....-.+.++.+....|+.++.. .+..|..+|..+.....
T Consensus 75 ~riiVlNK~DLad~-~~~k~~iq~~~~~~~~~~~~~~c~~~~~~~v~~l~~il~~~~~ 131 (335)
T KOG2485|consen 75 PRIIVLNKMDLADP-KEQKKIIQYLEWQNLESYIKLDCNKDCNKQVSPLLKILTILSE 131 (335)
T ss_pred ceEEEEecccccCc-hhhhHHHHHHHhhcccchhhhhhhhhhhhccccHHHHHHHHHH
Confidence 34678999999864 334455666666655455544443 44447777766654443
No 296
>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=68.32 E-value=7.3 Score=25.93 Aligned_cols=24 Identities=21% Similarity=0.192 Sum_probs=21.0
Q ss_pred CeEEEeccCCCCCHHHHHHHHHHH
Q psy17493 38 IKFMETSAKNSINVEDAFFTLARD 61 (101)
Q Consensus 38 ~~~~etSAk~~~~V~~~F~~~~~~ 61 (101)
++.|-.||+++.||+.++..+...
T Consensus 241 ~pv~~gSa~~~~G~~~ll~~~~~~ 264 (268)
T cd04170 241 VPVLCGSALTNIGVRELLDALVHL 264 (268)
T ss_pred EEEEEeeCCCCcCHHHHHHHHHHh
Confidence 578999999999999999888654
No 297
>COG5256 TEF1 Translation elongation factor EF-1alpha (GTPase) [Translation, ribosomal structure and biogenesis]
Probab=66.48 E-value=8.5 Score=27.90 Aligned_cols=47 Identities=15% Similarity=-0.040 Sum_probs=30.8
Q ss_pred CcEEeecCCCCCCCCCCHHHHH----HHHHHhC-----CeEEEeccCCCCCHHHHH
Q psy17493 9 SKYIEVPNFVSSMPQVSRERGE----QLAIEYG-----IKFMETSAKNSINVEDAF 55 (101)
Q Consensus 9 ~~lv~nk~Dl~~~~~v~~~~~~----~~a~~~~-----~~~~etSAk~~~~V~~~F 55 (101)
..+..||.|+.+.++-.+++.. .+-+..| ++|+-+||..|.||.+.-
T Consensus 148 lIVavNKMD~v~wde~rf~ei~~~v~~l~k~~G~~~~~v~FIPiSg~~G~Nl~~~s 203 (428)
T COG5256 148 LIVAVNKMDLVSWDEERFEEIVSEVSKLLKMVGYNPKDVPFIPISGFKGDNLTKKS 203 (428)
T ss_pred EEEEEEcccccccCHHHHHHHHHHHHHHHHHcCCCccCCeEEecccccCCcccccC
Confidence 3455789998765444444332 2444444 569999999999986643
No 298
>PF04800 ETC_C1_NDUFA4: ETC complex I subunit conserved region; InterPro: IPR006885 This entry represents prokaryotic NADH-ubiquinone oxidoreductase subunits (1.6.5.3 from EC, 1.6.99.3 from EC) from complex I of the electron transport chain initially identified in Neurospora crassa as a 21 kDa protein [].; GO: 0016651 oxidoreductase activity, acting on NADH or NADPH, 0022900 electron transport chain, 0005743 mitochondrial inner membrane; PDB: 2JYA_A 2LJU_A.
Probab=65.25 E-value=8.3 Score=22.30 Aligned_cols=23 Identities=22% Similarity=0.172 Sum_probs=17.0
Q ss_pred CCHHHHHHHHHHhCCeEEEeccC
Q psy17493 24 VSRERGEQLAIEYGIKFMETSAK 46 (101)
Q Consensus 24 v~~~~~~~~a~~~~~~~~etSAk 46 (101)
-+.++|..||+.+|+.|.-.-.+
T Consensus 56 ~skE~Ai~yaer~G~~Y~V~~p~ 78 (101)
T PF04800_consen 56 DSKEDAIAYAERNGWDYEVEEPK 78 (101)
T ss_dssp SSHHHHHHHHHHCT-EEEEE-ST
T ss_pred CCHHHHHHHHHHcCCeEEEeCCC
Confidence 46799999999999998655444
No 299
>KOG4273|consensus
Probab=65.17 E-value=14 Score=25.37 Aligned_cols=35 Identities=29% Similarity=0.399 Sum_probs=27.6
Q ss_pred HHHHHHHHHhCCeEEEeccC------------CCCCHHHHHHHHHHH
Q psy17493 27 ERGEQLAIEYGIKFMETSAK------------NSINVEDAFFTLARD 61 (101)
Q Consensus 27 ~~~~~~a~~~~~~~~etSAk------------~~~~V~~~F~~~~~~ 61 (101)
..+..|+.++|+.|+|.+|- +..||+.+|..+-..
T Consensus 174 ga~lewc~e~~~efieacasn~dfd~c~~~dgdsqgverifgal~ah 220 (418)
T KOG4273|consen 174 GAALEWCLEHGFEFIEACASNEDFDECDDDDGDSQGVERIFGALNAH 220 (418)
T ss_pred HHHHHHHHhcCceeeeecCCccccchhhccCcchhhHHHHHHHhhhc
Confidence 45678999999999999993 346788888877543
No 300
>KOG0082|consensus
Probab=64.94 E-value=33 Score=24.40 Aligned_cols=62 Identities=16% Similarity=0.023 Sum_probs=42.0
Q ss_pred ccCCCcEEeecCCCCCC--------------C-CCCHHHHHHHHHH-----h-----CCeEEEeccCCCCCHHHHHHHHH
Q psy17493 5 INTKSKYIEVPNFVSSM--------------P-QVSRERGEQLAIE-----Y-----GIKFMETSAKNSINVEDAFFTLA 59 (101)
Q Consensus 5 ~~~~~~lv~nk~Dl~~~--------------~-~v~~~~~~~~a~~-----~-----~~~~~etSAk~~~~V~~~F~~~~ 59 (101)
..+.+.|..||.||-.+ . .-+.++|..|-.. + .+....|.|-+-.||..+|..+.
T Consensus 261 ~~tsiiLFLNK~DLFeEKi~~~~~~~~Fpdy~G~~~~~~a~~yI~~kF~~l~~~~~k~iy~h~T~AtDT~nv~~vf~av~ 340 (354)
T KOG0082|consen 261 ANTSIILFLNKKDLFEEKIKKVPLTDCFPDYKGVNTYEEAAKYIRKKFEELNKNKDKKIYVHFTCATDTQNVQFVFDAVT 340 (354)
T ss_pred ccCcEEEEeecHHHHHHHhccCchhhhCcCCCCCCChHHHHHHHHHHHHHHhcccCCcceEEEEeeccHHHHHHHHHHHH
Confidence 35677889999997211 1 1344556554332 1 24456889999999999999998
Q ss_pred HHHHHHH
Q psy17493 60 RDIKAQT 66 (101)
Q Consensus 60 ~~i~~~~ 66 (101)
..|....
T Consensus 341 d~Ii~~n 347 (354)
T KOG0082|consen 341 DTIIQNN 347 (354)
T ss_pred HHHHHHH
Confidence 8887654
No 301
>KOG1532|consensus
Probab=64.34 E-value=17 Score=25.35 Aligned_cols=26 Identities=12% Similarity=0.268 Sum_probs=21.7
Q ss_pred CCeEEEeccCCCCCHHHHHHHHHHHH
Q psy17493 37 GIKFMETSAKNSINVEDAFFTLARDI 62 (101)
Q Consensus 37 ~~~~~etSAk~~~~V~~~F~~~~~~i 62 (101)
++...-+||.||.|.++.|..+-..+
T Consensus 238 ~lrtv~VSs~tG~G~ddf~~av~~~v 263 (366)
T KOG1532|consen 238 SLRTVGVSSVTGEGFDDFFTAVDESV 263 (366)
T ss_pred hCceEEEecccCCcHHHHHHHHHHHH
Confidence 36678899999999999998886544
No 302
>cd01885 EF2 EF2 (for archaea and eukarya). Translocation requires hydrolysis of a molecule of GTP and is mediated by EF-G in bacteria and by eEF2 in eukaryotes. The eukaryotic elongation factor eEF2 is a GTPase involved in the translocation of the peptidyl-tRNA from the A site to the P site on the ribosome. The 95-kDa protein is highly conserved, with 60% amino acid sequence identity between the human and yeast proteins. Two major mechanisms are known to regulate protein elongation and both involve eEF2. First, eEF2 can be modulated by reversible phosphorylation. Increased levels of phosphorylated eEF2 reduce elongation rates presumably because phosphorylated eEF2 fails to bind the ribosomes. Treatment of mammalian cells with agents that raise the cytoplasmic Ca2+ and cAMP levels reduce elongation rates by activating the kinase responsible for phosphorylating eEF2. In contrast, treatment of cells with insulin increases elongation rates by promoting eEF2 dephosphorylation. Seco
Probab=63.12 E-value=8.6 Score=25.19 Aligned_cols=25 Identities=12% Similarity=-0.152 Sum_probs=17.2
Q ss_pred cCCCcEEeecCCCC-CCCCCCHHHHH
Q psy17493 6 NTKSKYIEVPNFVS-SMPQVSRERGE 30 (101)
Q Consensus 6 ~~~~~lv~nk~Dl~-~~~~v~~~~~~ 30 (101)
+.++.+++||.|+. .++.++.+++.
T Consensus 125 ~~p~ilviNKiD~~~~e~~~~~~~~~ 150 (222)
T cd01885 125 RVKPVLVINKIDRLILELKLSPEEAY 150 (222)
T ss_pred CCCEEEEEECCCcchhhhcCCHHHHH
Confidence 45678889999975 44566655543
No 303
>COG1908 FrhD Coenzyme F420-reducing hydrogenase, delta subunit [Energy production and conversion]
Probab=62.45 E-value=21 Score=21.49 Aligned_cols=36 Identities=19% Similarity=0.255 Sum_probs=28.3
Q ss_pred HHHHHHHhC-----CeEEEeccCCCCCHHHHHHHHHHHHHH
Q psy17493 29 GEQLAIEYG-----IKFMETSAKNSINVEDAFFTLARDIKA 64 (101)
Q Consensus 29 ~~~~a~~~~-----~~~~etSAk~~~~V~~~F~~~~~~i~~ 64 (101)
..++.++.| +.++..||-+++.+.+.+...+.++.+
T Consensus 83 lke~l~elgie~eRv~~~wiSa~E~ekf~e~~~efv~~i~~ 123 (132)
T COG1908 83 LKELLKELGIEPERVRVLWISAAEGEKFAETINEFVERIKE 123 (132)
T ss_pred HHHHHHHhCCCcceEEEEEEehhhHHHHHHHHHHHHHHHHH
Confidence 345566676 468999999999999888888887764
No 304
>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=61.60 E-value=6.4 Score=26.09 Aligned_cols=57 Identities=18% Similarity=0.067 Sum_probs=35.2
Q ss_pred cCCCcEEeecCCCCC--CCCCCH----HHHHHHHHHhC---CeEEEeccCCCCCHHHHHHHHHHHHH
Q psy17493 6 NTKSKYIEVPNFVSS--MPQVSR----ERGEQLAIEYG---IKFMETSAKNSINVEDAFFTLARDIK 63 (101)
Q Consensus 6 ~~~~~lv~nk~Dl~~--~~~v~~----~~~~~~a~~~~---~~~~etSAk~~~~V~~~F~~~~~~i~ 63 (101)
+.++.+..+|.|+.. .|.... +.....+...+ +.||.||--+ ..|-++|..+++.+.
T Consensus 111 ~~~v~vfiHK~D~l~~~~r~~~~~~~~~~i~~~~~~~~~~~~~~~~TSI~D-~Sly~A~S~Ivq~Li 176 (232)
T PF04670_consen 111 NIKVFVFIHKMDLLSEDEREEIFRDIQQRIRDELEDLGIEDITFFLTSIWD-ESLYEAWSKIVQKLI 176 (232)
T ss_dssp T-EEEEEEE-CCCS-HHHHHHHHHHHHHHHHHHHHHTT-TSEEEEEE-TTS-THHHHHHHHHHHTTS
T ss_pred CCeEEEEEeecccCCHHHHHHHHHHHHHHHHHHhhhccccceEEEeccCcC-cHHHHHHHHHHHHHc
Confidence 356677889999842 121111 22233344455 7899999988 589999999988765
No 305
>smart00275 G_alpha G protein alpha subunit. Subunit of G proteins that contains the guanine nucleotide binding site
Probab=61.47 E-value=38 Score=23.70 Aligned_cols=64 Identities=14% Similarity=-0.030 Sum_probs=41.1
Q ss_pred ccccCCCcEEeecCCCCCC---------------CCCCHHHHHHHHHH-----h------CCeEEEeccCCCCCHHHHHH
Q psy17493 3 IQINTKSKYIEVPNFVSSM---------------PQVSRERGEQLAIE-----Y------GIKFMETSAKNSINVEDAFF 56 (101)
Q Consensus 3 il~~~~~~lv~nk~Dl~~~---------------~~v~~~~~~~~a~~-----~------~~~~~etSAk~~~~V~~~F~ 56 (101)
.+.++.+.|+.||.|+..+ ..-..+.+..|-.. + .+..+.|+|-+-.++..+|.
T Consensus 248 ~~~~~piil~~NK~D~~~~Kl~~~~l~~~fp~y~g~~~~~~~~~yi~~~F~~~~~~~~~r~~y~h~t~a~Dt~~~~~v~~ 327 (342)
T smart00275 248 WFANTSIILFLNKIDLFEEKIKKVPLVDYFPDYKGPNDYEAAAKFIKQKFLRLNRNSSRKSIYHHFTCATDTRNIRVVFD 327 (342)
T ss_pred cccCCcEEEEEecHHhHHHHhCCCchhccCCCCCCCCCHHHHHHHHHHHHHHhccCCCCceEEEEEeeecccHHHHHHHH
Confidence 3456677788999986311 01233444444322 1 13456899999999999999
Q ss_pred HHHHHHHHHH
Q psy17493 57 TLARDIKAQT 66 (101)
Q Consensus 57 ~~~~~i~~~~ 66 (101)
.+...|++..
T Consensus 328 ~v~~~I~~~~ 337 (342)
T smart00275 328 AVKDIILQRN 337 (342)
T ss_pred HHHHHHHHHH
Confidence 9888887654
No 306
>PRK12740 elongation factor G; Reviewed
Probab=58.31 E-value=9.8 Score=28.92 Aligned_cols=28 Identities=11% Similarity=0.076 Sum_probs=23.5
Q ss_pred CeEEEeccCCCCCHHHHHHHHHHHHHHH
Q psy17493 38 IKFMETSAKNSINVEDAFFTLARDIKAQ 65 (101)
Q Consensus 38 ~~~~etSAk~~~~V~~~F~~~~~~i~~~ 65 (101)
++.|..||++|.||+.++..++..+...
T Consensus 237 ~Pv~~gSA~~~~Gv~~LLd~i~~~lPsp 264 (668)
T PRK12740 237 VPVFCGSALKNKGVQRLLDAVVDYLPSP 264 (668)
T ss_pred EEEEeccccCCccHHHHHHHHHHHCCCh
Confidence 5678899999999999999988766543
No 307
>COG0523 Putative GTPases (G3E family) [General function prediction only]
Probab=57.79 E-value=26 Score=24.46 Aligned_cols=34 Identities=15% Similarity=0.002 Sum_probs=23.2
Q ss_pred cEEeecCCCCCCCCCCHHHHHHHHHHhC--CeEEEecc
Q psy17493 10 KYIEVPNFVSSMPQVSRERGEQLAIEYG--IKFMETSA 45 (101)
Q Consensus 10 ~lv~nk~Dl~~~~~v~~~~~~~~a~~~~--~~~~etSA 45 (101)
.|+.||.|+.+... .+..+...+..+ ++.+.+|.
T Consensus 149 ~ivlNK~Dlv~~~~--l~~l~~~l~~lnp~A~i~~~~~ 184 (323)
T COG0523 149 VIVLNKTDLVDAEE--LEALEARLRKLNPRARIIETSY 184 (323)
T ss_pred EEEEecccCCCHHH--HHHHHHHHHHhCCCCeEEEccc
Confidence 45789999975432 444555666665 67888888
No 308
>KOG1191|consensus
Probab=56.51 E-value=11 Score=28.04 Aligned_cols=57 Identities=12% Similarity=0.082 Sum_probs=33.9
Q ss_pred CCCcEEeecCCCCCC-CCCCHHHHHHHHHHhC---Ce-EEEeccCCCCCHHHHHHHHHHHHHH
Q psy17493 7 TKSKYIEVPNFVSSM-PQVSRERGEQLAIEYG---IK-FMETSAKNSINVEDAFFTLARDIKA 64 (101)
Q Consensus 7 ~~~~lv~nk~Dl~~~-~~v~~~~~~~~a~~~~---~~-~~etSAk~~~~V~~~F~~~~~~i~~ 64 (101)
.++.++.||+|+... +..+.... .|-...+ .+ ..++|++|+++++.+-..+...+..
T Consensus 390 ~~~i~~~nk~D~~s~~~~~~~~~~-~~~~~~~~~~~~i~~~vs~~tkeg~~~L~~all~~~~~ 451 (531)
T KOG1191|consen 390 QRIILVANKSDLVSKIPEMTKIPV-VYPSAEGRSVFPIVVEVSCTTKEGCERLSTALLNIVER 451 (531)
T ss_pred cceEEEechhhccCccccccCCce-eccccccCcccceEEEeeechhhhHHHHHHHHHHHHHH
Confidence 345677889998643 22221111 1111122 23 5679999999999988877766544
No 309
>PF15260 FAM219A: Protein family FAM219A
Probab=55.82 E-value=20 Score=21.47 Aligned_cols=39 Identities=8% Similarity=-0.008 Sum_probs=18.3
Q ss_pred HHHHHHHHHHHHHHhhhhhcCCCCCCCcccccCCCCCCCCCCcc
Q psy17493 53 DAFFTLARDIKAQTEKKLEASNPPKGGIHVKSSEPNRKPPSWLS 96 (101)
Q Consensus 53 ~~F~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~cc 96 (101)
++-..+.+++++.-..- ...+..+.+.|.+++. -...||
T Consensus 76 q~~q~l~~QLlkDGy~L----DE~pDdEdLDLIPPk~-~~~~~~ 114 (125)
T PF15260_consen 76 QVNQDLSQQLLKDGYRL----DEIPDDEDLDLIPPKP-VSSSCC 114 (125)
T ss_pred HHhHHHHHHHHhccccc----ccCCchhccccCCCcc-cccccc
Confidence 44446666665432221 1122345666666555 334444
No 310
>PF05198 IF3_N: Translation initiation factor IF-3, N-terminal domain; InterPro: IPR019814 Initiation factor 3 (IF-3) (gene infC) is one of the three factors required for the initiation of protein biosynthesis in bacteria. IF-3 is thought to function as a fidelity factor during the assembly of the ternary initiation complex which consist of the 30S ribosomal subunit, the initiator tRNA and the messenger RNA. IF-3 is a basic protein that binds to the 30S ribosomal subunit []. The chloroplast initiation factor IF-3(chl) is a protein that enhances the poly(A,U,G)-dependent binding of the initiator tRNA to chloroplast ribosomal 30s subunits in which the central section is evolutionary related to the sequence of bacterial IF-3 []. ; GO: 0003743 translation initiation factor activity, 0006413 translational initiation; PDB: 1TIF_A.
Probab=55.34 E-value=20 Score=19.50 Aligned_cols=29 Identities=28% Similarity=0.305 Sum_probs=23.1
Q ss_pred CCCHHHHHHHHHHhCCeEEEeccCCCCCH
Q psy17493 23 QVSRERGEQLAIEYGIKFMETSAKNSINV 51 (101)
Q Consensus 23 ~v~~~~~~~~a~~~~~~~~etSAk~~~~V 51 (101)
.++..+|.+.|++.|+..+++|....--|
T Consensus 27 v~~~~eAl~~A~~~~lDLV~v~~~~~PPV 55 (76)
T PF05198_consen 27 VMSLREALRLAKEKGLDLVEVSPNADPPV 55 (76)
T ss_dssp EEEHHHHHHHHHHTT-EEEEEETTSSS-E
T ss_pred eEEHHHHHHHHHHcCCcEEEEcCCCCCCe
Confidence 68999999999999999999996655333
No 311
>COG1217 TypA Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]
Probab=54.44 E-value=50 Score=24.85 Aligned_cols=59 Identities=12% Similarity=0.052 Sum_probs=36.9
Q ss_pred ccCCCcEEeecCCCCCCCCCC-HHHHHHHHH-------HhCCeEEEeccCCC----------CCHHHHHHHHHHHHH
Q psy17493 5 INTKSKYIEVPNFVSSMPQVS-RERGEQLAI-------EYGIKFMETSAKNS----------INVEDAFFTLARDIK 63 (101)
Q Consensus 5 ~~~~~~lv~nk~Dl~~~~~v~-~~~~~~~a~-------~~~~~~~etSAk~~----------~~V~~~F~~~~~~i~ 63 (101)
.|.+..+|.||+|-.+.|.-. -++...+-- +...+.+-.||+.| .+..-+|+.+.+.+.
T Consensus 119 ~gL~PIVVvNKiDrp~Arp~~Vvd~vfDLf~~L~A~deQLdFPivYAS~~~G~a~~~~~~~~~~m~pLfe~I~~hvp 195 (603)
T COG1217 119 LGLKPIVVINKIDRPDARPDEVVDEVFDLFVELGATDEQLDFPIVYASARNGTASLDPEDEADDMAPLFETILDHVP 195 (603)
T ss_pred cCCCcEEEEeCCCCCCCCHHHHHHHHHHHHHHhCCChhhCCCcEEEeeccCceeccCccccccchhHHHHHHHHhCC
Confidence 377888999999976543211 123333322 34467888999876 346667777766554
No 312
>COG3545 Predicted esterase of the alpha/beta hydrolase fold [General function prediction only]
Probab=54.15 E-value=21 Score=22.92 Aligned_cols=46 Identities=28% Similarity=0.353 Sum_probs=35.3
Q ss_pred cEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHH
Q psy17493 10 KYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLA 59 (101)
Q Consensus 10 ~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~ 59 (101)
.+|+.++| ..++.+.++.+|+.+|..++.+=.--.+|.+.=|....
T Consensus 121 ~vvaSrnD----p~~~~~~a~~~a~~wgs~lv~~g~~GHiN~~sG~g~wp 166 (181)
T COG3545 121 VVVASRND----PYVSYEHAEDLANAWGSALVDVGEGGHINAESGFGPWP 166 (181)
T ss_pred eEEEecCC----CCCCHHHHHHHHHhccHhheecccccccchhhcCCCcH
Confidence 44556667 67999999999999998888877766677766665543
No 313
>PHA02436 hypothetical protein
Probab=52.42 E-value=16 Score=17.86 Aligned_cols=17 Identities=18% Similarity=0.229 Sum_probs=13.9
Q ss_pred CCCHHHHHHHHHHHHHH
Q psy17493 48 SINVEDAFFTLARDIKA 64 (101)
Q Consensus 48 ~~~V~~~F~~~~~~i~~ 64 (101)
..+|+++|+.+.+.++.
T Consensus 17 eRkIEEVFeE~YE~~YG 33 (52)
T PHA02436 17 ERNIEEVFKEAYESFYG 33 (52)
T ss_pred hhhHHHHHHHHHHHhcC
Confidence 45799999999887764
No 314
>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=52.39 E-value=18 Score=23.78 Aligned_cols=25 Identities=16% Similarity=0.215 Sum_probs=21.5
Q ss_pred CeEEEeccCCCCCHHHHHHHHHHHH
Q psy17493 38 IKFMETSAKNSINVEDAFFTLARDI 62 (101)
Q Consensus 38 ~~~~etSAk~~~~V~~~F~~~~~~i 62 (101)
++.|-.||.++.||..++..+++.+
T Consensus 210 ~Pv~~gsa~~~~Gv~~ll~~~~~~~ 234 (237)
T cd04168 210 FPVYHGSALKGIGIEELLEGITKLF 234 (237)
T ss_pred EEEEEccccCCcCHHHHHHHHHHhc
Confidence 6789999999999999998887643
No 315
>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=51.08 E-value=18 Score=24.39 Aligned_cols=24 Identities=13% Similarity=0.040 Sum_probs=21.1
Q ss_pred CeEEEeccCCCCCHHHHHHHHHHH
Q psy17493 38 IKFMETSAKNSINVEDAFFTLARD 61 (101)
Q Consensus 38 ~~~~etSAk~~~~V~~~F~~~~~~ 61 (101)
+|.|-.||.++.||..++..++..
T Consensus 243 ~PV~~gSa~~~~Gi~~lld~i~~~ 266 (270)
T cd01886 243 VPVLCGSAFKNKGVQPLLDAVVDY 266 (270)
T ss_pred EEEEeCcCCCCcCHHHHHHHHHHh
Confidence 578999999999999999888764
No 316
>PF12651 RHH_3: Ribbon-helix-helix domain
Probab=50.94 E-value=15 Score=17.69 Aligned_cols=24 Identities=13% Similarity=0.032 Sum_probs=18.6
Q ss_pred eccCCCCCHHHHHHHHHHHHHHHH
Q psy17493 43 TSAKNSINVEDAFFTLARDIKAQT 66 (101)
Q Consensus 43 tSAk~~~~V~~~F~~~~~~i~~~~ 66 (101)
.|..+|.....++..+++.+++.+
T Consensus 20 ls~~t~i~~S~Ll~eAle~~l~ky 43 (44)
T PF12651_consen 20 LSEETGIPKSKLLREALEDYLEKY 43 (44)
T ss_pred HHHHHCCCHHHHHHHHHHHHHHhc
Confidence 355678888999999988887653
No 317
>KOG2484|consensus
Probab=50.52 E-value=11 Score=27.29 Aligned_cols=25 Identities=20% Similarity=0.022 Sum_probs=19.2
Q ss_pred CCCcEEeecCCCCCCCCCCHHHHHHHHHHh
Q psy17493 7 TKSKYIEVPNFVSSMPQVSRERGEQLAIEY 36 (101)
Q Consensus 7 ~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~ 36 (101)
-+..||+||.|| |+.+....|...+
T Consensus 178 KkLILVLNK~DL-----VPrEv~e~Wl~YL 202 (435)
T KOG2484|consen 178 KKLILVLNKIDL-----VPREVVEKWLVYL 202 (435)
T ss_pred ceEEEEeehhcc-----CCHHHHHHHHHHH
Confidence 567899999998 6677777776654
No 318
>PF06821 Ser_hydrolase: Serine hydrolase; InterPro: IPR010662 This family contains a number of hypothetical bacterial proteins of unknown function, which may be cytosolic. The Crystal Structure Of The Yden Gene Product Swiss:P96671 from B. Subtilis has been solved. The structure shows an alpha-beta hydrolase fold suggesting an enzymatic function for these proteins [].; GO: 0016787 hydrolase activity; PDB: 3BDV_B 2QS9_A 1UXO_A.
Probab=50.26 E-value=39 Score=21.13 Aligned_cols=41 Identities=27% Similarity=0.361 Sum_probs=29.2
Q ss_pred EEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHH
Q psy17493 11 YIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAF 55 (101)
Q Consensus 11 lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F 55 (101)
++....| ..++.+.+..+|+.+|+.++.....-..|.++=|
T Consensus 119 viaS~nD----p~vp~~~a~~~A~~l~a~~~~~~~~GHf~~~~G~ 159 (171)
T PF06821_consen 119 VIASDND----PYVPFERAQRLAQRLGAELIILGGGGHFNAASGF 159 (171)
T ss_dssp EEEETTB----SSS-HHHHHHHHHHHT-EEEEETS-TTSSGGGTH
T ss_pred EEEcCCC----CccCHHHHHHHHHHcCCCeEECCCCCCcccccCC
Confidence 4444455 6799999999999999999999887777665443
No 319
>PTZ00258 GTP-binding protein; Provisional
Probab=47.46 E-value=22 Score=25.59 Aligned_cols=44 Identities=11% Similarity=-0.099 Sum_probs=28.0
Q ss_pred cCCCcEEeecC--CCCCCCCCCHHHHHHHHHHh-CCeEEEeccCCCC
Q psy17493 6 NTKSKYIEVPN--FVSSMPQVSRERGEQLAIEY-GIKFMETSAKNSI 49 (101)
Q Consensus 6 ~~~~~lv~nk~--Dl~~~~~v~~~~~~~~a~~~-~~~~~etSAk~~~ 49 (101)
.-++.++.|+. |+.....-..+....++... +..++.+||+...
T Consensus 220 ~KP~iyv~N~~E~D~~~~~~~~~~~l~~~~~~~~~~~~v~~sa~~E~ 266 (390)
T PTZ00258 220 AKPMIYLVNMSEKDFIRQKNKWLAKIKEWVGEKGGGPIIPYSAEFEE 266 (390)
T ss_pred cCCEEEEEECchhhhcccchHHHHHHHHHHHhcCCCeEEEeeHHHHH
Confidence 44556788998 76211111335556677777 4889999997654
No 320
>cd01422 MGS Methylglyoxal synthase catalyzes the enolization of dihydroxyacetone phosphate (DHAP) to produce methylglyoxal. The first part of the catalytic mechanism is believed to be similar to TIM (triosephosphate isomerase) in that both enzymes utilize DHAP to form an ene-diolate phosphate intermediate. In MGS, the second catalytic step is characterized by the elimination of phosphate and collapse of the enediolate to form methylglyoxal instead of reprotonation to form the isomer glyceraldehyde 3-phosphate, as in TIM. This is the first reaction in the methylglyoxal bypass of the Embden-Myerhoff glycolytic pathway and is believed to provide physiological benefits under non-ideal growth conditions in bacteria.
Probab=46.49 E-value=40 Score=19.65 Aligned_cols=40 Identities=10% Similarity=0.017 Sum_probs=24.0
Q ss_pred ccCCCcEEeecCCC-CCCC-CCCHHHHHHHHHHhCCeEEEec
Q psy17493 5 INTKSKYIEVPNFV-SSMP-QVSRERGEQLAIEYGIKFMETS 44 (101)
Q Consensus 5 ~~~~~~lv~nk~Dl-~~~~-~v~~~~~~~~a~~~~~~~~etS 44 (101)
...++++|.|-.|. .... ...-...+..|-.++++|+-+.
T Consensus 67 ~~g~i~~VInt~~~~~~~~~~~dg~~iRr~a~~~~Ip~~Ttl 108 (115)
T cd01422 67 AEGEIDAVIFFRDPLTAQPHEPDVKALLRLCDVYNIPLATNR 108 (115)
T ss_pred HcCceeEEEEcCCCCCCCcccccHHHHHHHHHHcCCCEEEcH
Confidence 34567777775553 2222 3334556677888888888543
No 321
>PRK13351 elongation factor G; Reviewed
Probab=45.64 E-value=21 Score=27.38 Aligned_cols=28 Identities=14% Similarity=0.166 Sum_probs=23.5
Q ss_pred CeEEEeccCCCCCHHHHHHHHHHHHHHH
Q psy17493 38 IKFMETSAKNSINVEDAFFTLARDIKAQ 65 (101)
Q Consensus 38 ~~~~etSAk~~~~V~~~F~~~~~~i~~~ 65 (101)
++.|-.||++|.||+.+++.++..+...
T Consensus 253 ~PV~~gSA~~~~Gv~~LLd~I~~~lPsP 280 (687)
T PRK13351 253 VPVLFGSALKNIGIEPLLDAVVDYLPSP 280 (687)
T ss_pred EEEEecccCcCccHHHHHHHHHHHCCCh
Confidence 4678899999999999999998876543
No 322
>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=45.40 E-value=24 Score=23.73 Aligned_cols=24 Identities=21% Similarity=0.122 Sum_probs=21.0
Q ss_pred CeEEEeccCCCCCHHHHHHHHHHH
Q psy17493 38 IKFMETSAKNSINVEDAFFTLARD 61 (101)
Q Consensus 38 ~~~~etSAk~~~~V~~~F~~~~~~ 61 (101)
++.|-.||.++.||..+...++..
T Consensus 240 ~Pv~~gsa~~~~Gv~~Lld~i~~~ 263 (267)
T cd04169 240 TPVFFGSALNNFGVQELLDALVDL 263 (267)
T ss_pred EEEEecccccCcCHHHHHHHHHHH
Confidence 578999999999999999888764
No 323
>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=44.47 E-value=26 Score=26.16 Aligned_cols=27 Identities=11% Similarity=-0.023 Sum_probs=23.5
Q ss_pred CeEEEeccCCCCCHHHHHHHHHHHHHH
Q psy17493 38 IKFMETSAKNSINVEDAFFTLARDIKA 64 (101)
Q Consensus 38 ~~~~etSAk~~~~V~~~F~~~~~~i~~ 64 (101)
.+.|-.||.++.||..+++.++..+..
T Consensus 250 ~PV~~GSA~~n~Gv~~LLd~i~~~~Ps 276 (527)
T TIGR00503 250 TPVFFGTALGNFGVDHFLDGLLQWAPK 276 (527)
T ss_pred eEEEEeecccCccHHHHHHHHHHHCCC
Confidence 478999999999999999999887654
No 324
>COG0703 AroK Shikimate kinase [Amino acid transport and metabolism]
Probab=43.48 E-value=32 Score=21.88 Aligned_cols=43 Identities=14% Similarity=0.263 Sum_probs=33.8
Q ss_pred HHHHHHHHHHhCCeEEE----eccCCCCCHHHHHHHHHHHHHHHHhh
Q psy17493 26 RERGEQLAIEYGIKFME----TSAKNSINVEDAFFTLARDIKAQTEK 68 (101)
Q Consensus 26 ~~~~~~~a~~~~~~~~e----tSAk~~~~V~~~F~~~~~~i~~~~~~ 68 (101)
.--|+.+|+..+++|+- ..+.+|..|.++|..--...++....
T Consensus 16 STIGr~LAk~L~~~F~D~D~~Ie~~~g~sI~eIF~~~GE~~FR~~E~ 62 (172)
T COG0703 16 STIGRALAKALNLPFIDTDQEIEKRTGMSIAEIFEEEGEEGFRRLET 62 (172)
T ss_pred hHHHHHHHHHcCCCcccchHHHHHHHCcCHHHHHHHHhHHHHHHHHH
Confidence 35678899999999985 46679999999999887776665443
No 325
>PRK00741 prfC peptide chain release factor 3; Provisional
Probab=43.32 E-value=29 Score=25.87 Aligned_cols=27 Identities=19% Similarity=0.076 Sum_probs=23.6
Q ss_pred CeEEEeccCCCCCHHHHHHHHHHHHHH
Q psy17493 38 IKFMETSAKNSINVEDAFFTLARDIKA 64 (101)
Q Consensus 38 ~~~~etSAk~~~~V~~~F~~~~~~i~~ 64 (101)
.+.|-.||++|.||..++..++..+..
T Consensus 249 ~PV~~GSA~~n~Gv~~LLd~i~~~~P~ 275 (526)
T PRK00741 249 TPVFFGSALNNFGVQEFLDAFVEWAPA 275 (526)
T ss_pred EEEEEeecccCcCHHHHHHHHHHHCCC
Confidence 578999999999999999999886654
No 326
>PF08438 MMR_HSR1_C: GTPase of unknown function C-terminal; InterPro: IPR013646 This domain is found at the C terminus of IPR002917 from INTERPRO in archaeal and eukaryotic GTP-binding proteins. ; PDB: 1WXQ_A.
Probab=42.76 E-value=40 Score=19.74 Aligned_cols=31 Identities=23% Similarity=0.132 Sum_probs=18.4
Q ss_pred EeecCCCCCCCCCCHHHHHHHHHHhC-CeEEEeccC
Q psy17493 12 IEVPNFVSSMPQVSRERGEQLAIEYG-IKFMETSAK 46 (101)
Q Consensus 12 v~nk~Dl~~~~~v~~~~~~~~a~~~~-~~~~etSAk 46 (101)
++||.|+. .+.+-...+.+.+. ..++-|||.
T Consensus 1 AaNK~D~~----~a~~ni~kl~~~~~~~~vVp~SA~ 32 (109)
T PF08438_consen 1 AANKADLP----AADENIEKLKEKYPDEPVVPTSAA 32 (109)
T ss_dssp EEE-GGG-----S-HHHHHHHHHHHTT-EEEEE-HH
T ss_pred CCcccccc----ccHhHHHHHHHhCCCCceeeccHH
Confidence 47999963 25566666767665 678899984
No 327
>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=41.97 E-value=1e+02 Score=21.17 Aligned_cols=39 Identities=26% Similarity=0.361 Sum_probs=26.0
Q ss_pred HHHHHHHHHhCCeEEEeccCC---CCCHHHHHHHHHHHHHHH
Q psy17493 27 ERGEQLAIEYGIKFMETSAKN---SINVEDAFFTLARDIKAQ 65 (101)
Q Consensus 27 ~~~~~~a~~~~~~~~etSAk~---~~~V~~~F~~~~~~i~~~ 65 (101)
+..++.|+.+|+.|.+..|-+ +.|+..+=+.+.+.+.+.
T Consensus 153 ~~M~~~C~~lGi~fv~~taPDP~sd~gv~gaqqfIlE~vp~~ 194 (275)
T PF12683_consen 153 DIMEEACKDLGIKFVEVTAPDPTSDVGVAGAQQFILEDVPKW 194 (275)
T ss_dssp HHHHHHHHHCT--EEEEEE---SSTCHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHcCCeEEEEeCCCCCCCCCcHHHHHHHHHHHHHH
Confidence 455677889999999998875 788877776666665443
No 328
>COG0012 Predicted GTPase, probable translation factor [Translation, ribosomal structure and biogenesis]
Probab=40.83 E-value=44 Score=23.99 Aligned_cols=40 Identities=15% Similarity=0.048 Sum_probs=28.3
Q ss_pred cCCCcEEeecCCCCCCCCCC--HHHHHHHHHHhCCeEEEeccC
Q psy17493 6 NTKSKYIEVPNFVSSMPQVS--RERGEQLAIEYGIKFMETSAK 46 (101)
Q Consensus 6 ~~~~~lv~nk~Dl~~~~~v~--~~~~~~~a~~~~~~~~etSAk 46 (101)
.-++.+++||.|.+.... . ......+++..+..++-+||+
T Consensus 206 ~KP~lyvaN~~e~~~~~~-n~~~~~i~~~~~~~~~~vV~~sA~ 247 (372)
T COG0012 206 AKPMLYVANVSEDDLANL-NEYVKRLKELAAKENAEVVPVSAA 247 (372)
T ss_pred cCCeEEEEECCcccccch-hHHHHHHHHHhhhcCCcEEEeeHH
Confidence 445667899998654222 2 456677888888889999986
No 329
>PF11572 DUF3234: Protein of unknown function (DUF3234); InterPro: IPR021628 This bacterial family of proteins has no known function. Some members in this family of proteins are annotated as TTHA0547 however this cannot be confirmed. ; PDB: 2Z0R_J.
Probab=40.58 E-value=34 Score=19.52 Aligned_cols=39 Identities=21% Similarity=0.141 Sum_probs=30.4
Q ss_pred CCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHH
Q psy17493 24 VSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDI 62 (101)
Q Consensus 24 v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i 62 (101)
.+.+.++.|...+-..-+.+|+..+--+.++|..+...+
T Consensus 34 tS~~~A~~F~~~~p~~GM~V~~Le~~aLKeafL~Al~~L 72 (103)
T PF11572_consen 34 TSRELAQAFLARHPELGMRVSPLESWALKEAFLRALGML 72 (103)
T ss_dssp SSHHHHHHHHHTSTSS--EEEEE-SHHHHHHHHHHHHHT
T ss_pred ecHHHHHHHHHhCcccCcEeecchhHHHHHHHHHHHHHh
Confidence 567889999888777789999999999999998887644
No 330
>KOG0458|consensus
Probab=38.95 E-value=43 Score=25.56 Aligned_cols=46 Identities=17% Similarity=0.019 Sum_probs=30.5
Q ss_pred CcEEeecCCCCCCCCCCHHHHH----HHH-HHhC-----CeEEEeccCCCCCHHHH
Q psy17493 9 SKYIEVPNFVSSMPQVSRERGE----QLA-IEYG-----IKFMETSAKNSINVEDA 54 (101)
Q Consensus 9 ~~lv~nk~Dl~~~~~v~~~~~~----~~a-~~~~-----~~~~etSAk~~~~V~~~ 54 (101)
+.+..||.|+-+..+-.+++.. .|- +..| +.|+-+|+.+|+|+...
T Consensus 318 livaiNKmD~V~Wsq~RF~eIk~~l~~fL~~~~gf~es~v~FIPiSGl~GeNL~k~ 373 (603)
T KOG0458|consen 318 LIVAINKMDLVSWSQDRFEEIKNKLSSFLKESCGFKESSVKFIPISGLSGENLIKI 373 (603)
T ss_pred EEEEeecccccCccHHHHHHHHHHHHHHHHHhcCcccCCcceEecccccCCccccc
Confidence 4566899998655444444443 233 3334 47999999999998665
No 331
>PRK13505 formate--tetrahydrofolate ligase; Provisional
Probab=38.87 E-value=1.4e+02 Score=22.74 Aligned_cols=55 Identities=11% Similarity=-0.042 Sum_probs=35.2
Q ss_pred cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEec--cCCCCCHHHHHHHHHHHH
Q psy17493 6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETS--AKNSINVEDAFFTLARDI 62 (101)
Q Consensus 6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etS--Ak~~~~V~~~F~~~~~~i 62 (101)
|.++.++.||.|.+.+ -..+..++||++.|+++..+. |+-|.|=-++-..+++.+
T Consensus 372 GvPvVVAINKFd~DTe--~Ei~~I~~~c~e~Gv~va~~~~~~~Gg~Gai~LA~aVveA~ 428 (557)
T PRK13505 372 GVPVVVAINKFVTDTD--AEIAALKELCEELGVEVALSEVWAKGGEGGVELAEKVVELI 428 (557)
T ss_pred CCCEEEEEeCCCCCCH--HHHHHHHHHHHHcCCCEEEecccccCCcchHHHHHHHHHHH
Confidence 5667788999997632 234567789999998876333 355566555544444433
No 332
>KOG0733|consensus
Probab=38.44 E-value=26 Score=27.14 Aligned_cols=34 Identities=21% Similarity=0.312 Sum_probs=26.6
Q ss_pred HHHHHHHHHHhCCeEEEeccCC------C---CCHHHHHHHHH
Q psy17493 26 RERGEQLAIEYGIKFMETSAKN------S---INVEDAFFTLA 59 (101)
Q Consensus 26 ~~~~~~~a~~~~~~~~etSAk~------~---~~V~~~F~~~~ 59 (101)
+.-|..+|.+.+++||..||-. | ..|.++|..+.
T Consensus 237 T~lA~AiAgel~vPf~~isApeivSGvSGESEkkiRelF~~A~ 279 (802)
T KOG0733|consen 237 TSLANAIAGELGVPFLSISAPEIVSGVSGESEKKIRELFDQAK 279 (802)
T ss_pred HHHHHHHhhhcCCceEeecchhhhcccCcccHHHHHHHHHHHh
Confidence 4567889999999999998863 2 34888888775
No 333
>PF08088 Toxin_19: Conotoxin I-superfamily; InterPro: IPR012624 This family consists of the I-superfamily of conotoxins. This is a new class of peptides in the venom of some Conus species. These toxins are characterised by four disulphide bridges and inhibit of modify ion channels of nerve cells. The I-superfamily conotoxins is found in five or six major clades of cone snails and could possible be found in many more species [].; GO: 0009405 pathogenesis, 0005576 extracellular region; PDB: 2JTU_A 2P4L_A 2JRY_A.
Probab=38.33 E-value=11 Score=17.77 Aligned_cols=8 Identities=13% Similarity=0.405 Sum_probs=5.5
Q ss_pred CCcccccc
Q psy17493 93 SWLSKCSI 100 (101)
Q Consensus 93 ~~cc~Cc~ 100 (101)
.-||.||.
T Consensus 16 adCCnCC~ 23 (40)
T PF08088_consen 16 ADCCNCCL 23 (40)
T ss_dssp TSSSSEEE
T ss_pred hhhhcccc
Confidence 45788874
No 334
>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=35.15 E-value=79 Score=17.55 Aligned_cols=19 Identities=21% Similarity=0.288 Sum_probs=15.2
Q ss_pred HHHHHHHHHHhCCeEEEec
Q psy17493 26 RERGEQLAIEYGIKFMETS 44 (101)
Q Consensus 26 ~~~~~~~a~~~~~~~~etS 44 (101)
...+.+.|+.++++++.+.
T Consensus 64 ~~~vk~~akk~~ip~~~~~ 82 (97)
T PF10087_consen 64 MWKVKKAAKKYGIPIIYSR 82 (97)
T ss_pred HHHHHHHHHHcCCcEEEEC
Confidence 4677889999999977664
No 335
>cd01882 BMS1 Bms1. Bms1 is an essential, evolutionarily conserved, nucleolar protein. Its depletion interferes with processing of the 35S pre-rRNA at sites A0, A1, and A2, and the formation of 40S subunits. Bms1, the putative endonuclease Rc11, and the essential U3 small nucleolar RNA form a stable subcomplex that is believed to control an early step in the formation of the 40S subumit. The C-terminal domain of Bms1 contains a GTPase-activating protein (GAP) that functions intramolecularly. It is believed that Rc11 activates Bms1 by acting as a guanine-nucleotide exchange factor (GEF) to promote GDP/GTP exchange, and that activated (GTP-bound) Bms1 delivers Rc11 to the preribosomes.
Probab=35.14 E-value=50 Score=21.45 Aligned_cols=41 Identities=12% Similarity=-0.028 Sum_probs=22.6
Q ss_pred EEeecCCCCCCCC-CC--HHHHH-HHHHHh--CCeEEEeccCCCCCH
Q psy17493 11 YIEVPNFVSSMPQ-VS--RERGE-QLAIEY--GIKFMETSAKNSINV 51 (101)
Q Consensus 11 lv~nk~Dl~~~~~-v~--~~~~~-~~a~~~--~~~~~etSAk~~~~V 51 (101)
++.||.|+..... .. ..+.+ .+..+. +.+++-+||++...+
T Consensus 138 ~VvnK~D~~~~~~~~~~~~~~l~~~~~~~~~~~~ki~~iSa~~~~~~ 184 (225)
T cd01882 138 GVLTHLDLFKKNKTLRKTKKRLKHRFWTEVYQGAKLFYLSGIVHGRY 184 (225)
T ss_pred EEEeccccCCcHHHHHHHHHHHHHHHHHhhCCCCcEEEEeeccCCCC
Confidence 3889999853221 10 01111 133222 367999999988654
No 336
>KOG1486|consensus
Probab=34.38 E-value=1.1e+02 Score=21.28 Aligned_cols=46 Identities=20% Similarity=0.155 Sum_probs=33.6
Q ss_pred cEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHH
Q psy17493 10 KYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDI 62 (101)
Q Consensus 10 ~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i 62 (101)
-.|-||+| +|+.++...+|++-+. ...|.--..|++.+.+.+-..+
T Consensus 242 lYvYnKID-----~vs~eevdrlAr~Pns--vViSC~m~lnld~lle~iWe~l 287 (364)
T KOG1486|consen 242 LYVYNKID-----QVSIEEVDRLARQPNS--VVISCNMKLNLDRLLERIWEEL 287 (364)
T ss_pred EEEeeccc-----eecHHHHHHHhcCCCc--EEEEeccccCHHHHHHHHHHHh
Confidence 45677888 5889999999988764 4456667788888777765543
No 337
>PF14331 ImcF-related_N: ImcF-related N-terminal domain
Probab=34.26 E-value=32 Score=23.18 Aligned_cols=57 Identities=12% Similarity=0.086 Sum_probs=33.2
Q ss_pred cCCCcEEeecCCCCCC-----CCCCHHHHHHHHHHhCCeEEEeccCCCCC---HHHHHHHHHHHHHHH
Q psy17493 6 NTKSKYIEVPNFVSSM-----PQVSRERGEQLAIEYGIKFMETSAKNSIN---VEDAFFTLARDIKAQ 65 (101)
Q Consensus 6 ~~~~~lv~nk~Dl~~~-----~~v~~~~~~~~a~~~~~~~~etSAk~~~~---V~~~F~~~~~~i~~~ 65 (101)
...|.+|.+|+|+-.. ...+. ....+.+|+.+-......+.. +++.|..+...+...
T Consensus 69 ~~PVYvv~Tk~D~l~GF~ef~~~L~~---~~r~q~lG~t~~~~~~~~~~~~~~~~~~~~~l~~~L~~~ 133 (266)
T PF14331_consen 69 RLPVYVVFTKCDLLPGFDEFFSDLSE---EEREQVLGFTFPYDEDADGDAWAWFDEEFDELVARLNAR 133 (266)
T ss_pred CCCeEeeeECCCcccCHHHHHHhCCH---HHHhCCcccccCCccccccchHHHHHHHHHHHHHHHHHH
Confidence 3567889999997521 11111 122244565544444455555 888888887776554
No 338
>PRK05773 3,4-dihydroxy-2-butanone 4-phosphate synthase; Validated
Probab=34.18 E-value=54 Score=21.70 Aligned_cols=22 Identities=23% Similarity=0.474 Sum_probs=18.3
Q ss_pred CCCCHHHHHHHHHHhCCeEEEe
Q psy17493 22 PQVSRERGEQLAIEYGIKFMET 43 (101)
Q Consensus 22 ~~v~~~~~~~~a~~~~~~~~et 43 (101)
.....+++.+||++|++++++.
T Consensus 189 ~~~~~~~~~~fA~~~~l~~isi 210 (219)
T PRK05773 189 LSLSKEKAKKIAKNLGFPLVEG 210 (219)
T ss_pred CCcCHHHHHHHHHHcCCcEEEH
Confidence 3667899999999999998753
No 339
>COG0290 InfC Translation initiation factor 3 (IF-3) [Translation, ribosomal structure and biogenesis]
Probab=33.89 E-value=59 Score=20.76 Aligned_cols=33 Identities=30% Similarity=0.246 Sum_probs=27.0
Q ss_pred CCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHH
Q psy17493 22 PQVSRERGEQLAIEYGIKFMETSAKNSINVEDA 54 (101)
Q Consensus 22 ~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~ 54 (101)
-.++..+|..+|++.|+...+.|+--.--|--+
T Consensus 32 Giv~~~eAL~lA~e~~LDLV~Ispna~PPVcKI 64 (176)
T COG0290 32 GIVSIEEALKLAEEAGLDLVEISPNAKPPVCKI 64 (176)
T ss_pred cceeHHHHHHHHHHcCCCEEEECCCCCCCeeEe
Confidence 468999999999999999999998755555443
No 340
>PRK10416 signal recognition particle-docking protein FtsY; Provisional
Probab=32.65 E-value=94 Score=21.62 Aligned_cols=39 Identities=15% Similarity=-0.038 Sum_probs=25.3
Q ss_pred cEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHH
Q psy17493 10 KYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDA 54 (101)
Q Consensus 10 ~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~ 54 (101)
-+|.+|.|-.. ..-.+...+...+++....+ +|++|+++
T Consensus 263 giIlTKlD~t~----~~G~~l~~~~~~~~Pi~~v~--~Gq~~~Dl 301 (318)
T PRK10416 263 GIILTKLDGTA----KGGVVFAIADELGIPIKFIG--VGEGIDDL 301 (318)
T ss_pred EEEEECCCCCC----CccHHHHHHHHHCCCEEEEe--CCCChhhC
Confidence 46778888432 12344556677788866666 78888766
No 341
>KOG0090|consensus
Probab=31.28 E-value=54 Score=21.92 Aligned_cols=22 Identities=23% Similarity=0.264 Sum_probs=16.6
Q ss_pred CCeEEEeccCCCCCHHHHHHHHH
Q psy17493 37 GIKFMETSAKNSINVEDAFFTLA 59 (101)
Q Consensus 37 ~~~~~etSAk~~~~V~~~F~~~~ 59 (101)
.+.|.|+|+|++ +|+++-.-+.
T Consensus 214 ~V~F~e~S~~~~-~i~~~~~wi~ 235 (238)
T KOG0090|consen 214 KVTFAEASAKTG-EIDQWESWIR 235 (238)
T ss_pred eeEEeecccCcC-ChHHHHHHHH
Confidence 467999999999 8887754443
No 342
>TIGR00269 conserved hypothetical protein TIGR00269.
Probab=31.22 E-value=1.1e+02 Score=17.48 Aligned_cols=24 Identities=8% Similarity=-0.032 Sum_probs=19.7
Q ss_pred CCCHHHHHHHHHHhCCeEEEeccC
Q psy17493 23 QVSRERGEQLAIEYGIKFMETSAK 46 (101)
Q Consensus 23 ~v~~~~~~~~a~~~~~~~~etSAk 46 (101)
.++..+...||..+|++|+.+..-
T Consensus 9 ~v~E~ei~~ya~~~~lp~~~~~CP 32 (104)
T TIGR00269 9 YIPEKEVVLYAFLNELKVHLDECP 32 (104)
T ss_pred cCCHHHHHHHHHHcCCCcCCCCCC
Confidence 477889999999999998865554
No 343
>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=31.19 E-value=53 Score=20.90 Aligned_cols=15 Identities=0% Similarity=-0.310 Sum_probs=11.2
Q ss_pred cCCCcEEeecCCCCC
Q psy17493 6 NTKSKYIEVPNFVSS 20 (101)
Q Consensus 6 ~~~~~lv~nk~Dl~~ 20 (101)
+.++.+++||.|+..
T Consensus 109 ~~pvliv~NK~Dl~~ 123 (203)
T cd04105 109 KIPVLIACNKQDLFT 123 (203)
T ss_pred CCCEEEEecchhhcc
Confidence 456677889999854
No 344
>cd00532 MGS-like MGS-like domain. This domain composes the whole protein of methylglyoxal synthetase, which catalyzes the enolization of dihydroxyacetone phosphate (DHAP) to produce methylglyoxal. The family also includes the C-terminal domain in carbamoyl phosphate synthetase (CPS) where it catalyzes the last phosphorylation of a coaboxyphosphate intermediate to form the product carbamoyl phosphate and may also play a regulatory role. This family also includes inosine monophosphate cyclohydrolase. The known structures in this family show a common phosphate binding site.
Probab=30.74 E-value=96 Score=17.73 Aligned_cols=37 Identities=14% Similarity=-0.085 Sum_probs=22.5
Q ss_pred CCCcEEeecCCCCC--CCCCCHHHHHHHHHHhCCeEEEe
Q psy17493 7 TKSKYIEVPNFVSS--MPQVSRERGEQLAIEYGIKFMET 43 (101)
Q Consensus 7 ~~~~lv~nk~Dl~~--~~~v~~~~~~~~a~~~~~~~~et 43 (101)
.++++|.|=.|-.. .....-...+..|-.++++++-+
T Consensus 67 g~idlVIn~~~~~~~~~~~~dg~~iRR~A~~~~Ip~~T~ 105 (112)
T cd00532 67 GKFDVVINLRDPRRDRCTDEDGTALLRLARLYKIPVTTP 105 (112)
T ss_pred CCEEEEEEcCCCCcccccCCChHHHHHHHHHcCCCEEEC
Confidence 67888887443111 02333456677788889888744
No 345
>KOG4102|consensus
Probab=30.55 E-value=24 Score=21.03 Aligned_cols=8 Identities=38% Similarity=0.484 Sum_probs=4.2
Q ss_pred CCCCcccccc
Q psy17493 91 PPSWLSKCSI 100 (101)
Q Consensus 91 ~~~~cc~Cc~ 100 (101)
+++.| |||
T Consensus 60 kKSKc--CCI 67 (121)
T KOG4102|consen 60 KKSKC--CCI 67 (121)
T ss_pred cccce--eEE
Confidence 44555 565
No 346
>TIGR00064 ftsY signal recognition particle-docking protein FtsY. There is a weak division between FtsY and SRP54; both are GTPases. In E.coli, ftsY is an essential gene located in an operon with cell division genes ftsE and ftsX, but its apparent function is as the signal recognition particle docking protein.
Probab=30.30 E-value=1.2e+02 Score=20.56 Aligned_cols=39 Identities=10% Similarity=-0.085 Sum_probs=22.9
Q ss_pred cEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHH
Q psy17493 10 KYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDA 54 (101)
Q Consensus 10 ~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~ 54 (101)
-+|.+|.|-.. ..-.+..++...+.+....+ +|++++++
T Consensus 221 g~IlTKlDe~~----~~G~~l~~~~~~~~Pi~~~~--~Gq~~~dl 259 (272)
T TIGR00064 221 GIILTKLDGTA----KGGIILSIAYELKLPIKFIG--VGEKIDDL 259 (272)
T ss_pred EEEEEccCCCC----CccHHHHHHHHHCcCEEEEe--CCCChHhC
Confidence 45667777532 23344455556677755555 67777665
No 347
>smart00851 MGS MGS-like domain. This domain composes the whole protein of methylglyoxal synthetase and the domain is also found in Carbamoyl phosphate synthetase (CPS) where it forms a regulatory domain that binds to the allosteric effector ornithine. This family also includes inosicase. The known structures in this family show a common phosphate binding site PUBMED:10526357.
Probab=30.25 E-value=84 Score=17.07 Aligned_cols=12 Identities=17% Similarity=-0.150 Sum_probs=5.7
Q ss_pred HHHHHHHhCCeE
Q psy17493 29 GEQLAIEYGIKF 40 (101)
Q Consensus 29 ~~~~a~~~~~~~ 40 (101)
.+..|..+++++
T Consensus 77 iRr~A~~~~Ip~ 88 (90)
T smart00851 77 LRRAAENIDIPG 88 (90)
T ss_pred HHHHHHHcCCCe
Confidence 344455555544
No 348
>cd03110 Fer4_NifH_child This protein family's function is unkown. It contains nucleotide binding site. It uses NTP as energy source to transfer electron or ion.
Probab=30.10 E-value=1.3e+02 Score=18.37 Aligned_cols=13 Identities=31% Similarity=0.261 Sum_probs=5.9
Q ss_pred HHHHHHHHhCCeE
Q psy17493 28 RGEQLAIEYGIKF 40 (101)
Q Consensus 28 ~~~~~a~~~~~~~ 40 (101)
++.++.+.+|+++
T Consensus 162 ~~~~~~~~~~~~v 174 (179)
T cd03110 162 EIEDYCEEEGIPI 174 (179)
T ss_pred HHHHHHHHcCCCe
Confidence 3444444445443
No 349
>PRK09601 GTP-binding protein YchF; Reviewed
Probab=29.71 E-value=79 Score=22.61 Aligned_cols=42 Identities=12% Similarity=0.018 Sum_probs=26.4
Q ss_pred cCCCcEEeecCCCCC-CCCCCHHHHHHHHHHhCCeEEEeccCC
Q psy17493 6 NTKSKYIEVPNFVSS-MPQVSRERGEQLAIEYGIKFMETSAKN 47 (101)
Q Consensus 6 ~~~~~lv~nk~Dl~~-~~~v~~~~~~~~a~~~~~~~~etSAk~ 47 (101)
.-++.++.|+.|.+- ...--.++..+|+..++.+++.+||+-
T Consensus 199 ~KP~i~v~N~~e~~~~~~~~~~~~i~~~~~~~~~~~i~~sa~~ 241 (364)
T PRK09601 199 AKPVLYVANVDEDDLADGNPYVKKVREIAAKEGAEVVVICAKI 241 (364)
T ss_pred cCCeEEEEECCccccccccHHHHHHHHHHHHcCCeEEEEEHHH
Confidence 445667788877421 111123455667777888899999863
No 350
>PF13263 PHP_C: PHP-associated; PDB: 2Z4G_B 2YXO_B 2YZ5_A 3DCP_B.
Probab=28.53 E-value=82 Score=15.67 Aligned_cols=20 Identities=35% Similarity=0.592 Sum_probs=12.0
Q ss_pred HHHHHHHHHHhCCeEEEecc
Q psy17493 26 RERGEQLAIEYGIKFMETSA 45 (101)
Q Consensus 26 ~~~~~~~a~~~~~~~~etSA 45 (101)
...+.++|+.++++++--|=
T Consensus 4 N~~A~~~A~~~~lp~~~gSD 23 (56)
T PF13263_consen 4 NRRAAELAEKYGLPFTGGSD 23 (56)
T ss_dssp --HHHHHHHHTT--EEEE--
T ss_pred HHHHHHHHHHcCCCeEeEEc
Confidence 36788999999998876553
No 351
>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=28.51 E-value=55 Score=25.20 Aligned_cols=28 Identities=11% Similarity=0.007 Sum_probs=23.7
Q ss_pred CeEEEeccCCCCCHHHHHHHHHHHHHHH
Q psy17493 38 IKFMETSAKNSINVEDAFFTLARDIKAQ 65 (101)
Q Consensus 38 ~~~~etSAk~~~~V~~~F~~~~~~i~~~ 65 (101)
++.|-.||+++.||+.+++.++..+...
T Consensus 254 ~PV~~gSa~~~~Gv~~LLd~I~~~lPsP 281 (689)
T TIGR00484 254 FPVLCGSAFKNKGVQLLLDAVVDYLPSP 281 (689)
T ss_pred EEEEeccccCCccHHHHHHHHHHHCCCc
Confidence 4677899999999999999998877643
No 352
>PF14174 YycC: YycC-like protein
Probab=28.25 E-value=82 Score=15.83 Aligned_cols=18 Identities=28% Similarity=0.401 Sum_probs=15.1
Q ss_pred CCCCHHHHHHHHHHhCCe
Q psy17493 22 PQVSRERGEQLAIEYGIK 39 (101)
Q Consensus 22 ~~v~~~~~~~~a~~~~~~ 39 (101)
.+++.+.|..+++..|++
T Consensus 4 lqIS~eTA~kLs~~L~vP 21 (53)
T PF14174_consen 4 LQISPETAVKLSKKLGVP 21 (53)
T ss_pred cccCHHHHHHHHHHHCCc
Confidence 478899999999998764
No 353
>PF06446 Hepcidin: Hepcidin; InterPro: IPR010500 Hepcidin is a antibacterial and anti-fungal protein expressed in the liver and is also a signalling molecule in iron metabolism. The hepcidin protein is cysteine-rich and forms a distorted beta-sheet with an unusual disulphide bond found at the turn of the hairpin [].; GO: 0006879 cellular iron ion homeostasis, 0005576 extracellular region; PDB: 1M4E_A 2KEF_A 1M4F_A 3H0T_C 1S6W_A.
Probab=28.08 E-value=24 Score=18.16 Aligned_cols=8 Identities=13% Similarity=0.484 Sum_probs=5.4
Q ss_pred CCcccccc
Q psy17493 93 SWLSKCSI 100 (101)
Q Consensus 93 ~~cc~Cc~ 100 (101)
..||+||-
T Consensus 40 rfCC~CC~ 47 (57)
T PF06446_consen 40 RFCCNCCN 47 (57)
T ss_dssp EEECSSST
T ss_pred cccccCCC
Confidence 35788873
No 354
>TIGR02836 spore_IV_A stage IV sporulation protein A. A comparative genome analysis of all sequenced genomes of shows a number of proteins conserved strictly among the endospore-forming subset of the Firmicutes. This protein, a member of this panel, is designated stage IV sporulation protein A. It acts in the mother cell compartment and plays a role in spore coat morphogenesis.
Probab=28.06 E-value=1.6e+02 Score=22.06 Aligned_cols=52 Identities=6% Similarity=0.051 Sum_probs=31.1
Q ss_pred cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccC--CCCCHHHHHHHHH
Q psy17493 6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAK--NSINVEDAFFTLA 59 (101)
Q Consensus 6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk--~~~~V~~~F~~~~ 59 (101)
+-+..++.|+.|.... -+.+.+..+.+.++.+++.+|+. +-..|..+|+.+.
T Consensus 180 ~kPfiivlN~~dp~~~--et~~l~~~l~eky~vpvl~v~c~~l~~~DI~~il~~vL 233 (492)
T TIGR02836 180 NKPFIILLNSTHPYHP--ETEALRQELEEKYDVPVLAMDVESMRESDILSVLEEVL 233 (492)
T ss_pred CCCEEEEEECcCCCCc--hhHHHHHHHHHHhCCceEEEEHHHcCHHHHHHHHHHHH
Confidence 3445667889994321 14444556767788876666663 4455666666554
No 355
>PRK00007 elongation factor G; Reviewed
Probab=28.00 E-value=59 Score=25.12 Aligned_cols=28 Identities=11% Similarity=0.071 Sum_probs=23.5
Q ss_pred CeEEEeccCCCCCHHHHHHHHHHHHHHH
Q psy17493 38 IKFMETSAKNSINVEDAFFTLARDIKAQ 65 (101)
Q Consensus 38 ~~~~etSAk~~~~V~~~F~~~~~~i~~~ 65 (101)
++.|-.||+++.||+.++..+++.+...
T Consensus 255 ~Pv~~gSa~~~~Gv~~LLd~I~~~lPsP 282 (693)
T PRK00007 255 VPVLCGSAFKNKGVQPLLDAVVDYLPSP 282 (693)
T ss_pred EEEEecccccCcCHHHHHHHHHHHCCCh
Confidence 4677899999999999999998877543
No 356
>KOG0369|consensus
Probab=27.71 E-value=3e+02 Score=22.12 Aligned_cols=43 Identities=26% Similarity=0.353 Sum_probs=33.1
Q ss_pred CCCCHHHHHHHHHHhCCeEEEeccCCC-----------CCHHHHHHHHHHHHHH
Q psy17493 22 PQVSRERGEQLAIEYGIKFMETSAKNS-----------INVEDAFFTLARDIKA 64 (101)
Q Consensus 22 ~~v~~~~~~~~a~~~~~~~~etSAk~~-----------~~V~~~F~~~~~~i~~ 64 (101)
...+.+++.+|++++|.+.+---|.-| +.|++.|++.....+.
T Consensus 169 Pitt~~EA~eF~k~yG~PvI~KAAyGGGGRGmRvVr~~e~vee~f~Ra~SEA~a 222 (1176)
T KOG0369|consen 169 PITTVEEALEFVKEYGLPVIIKAAYGGGGRGMRVVRSGEDVEEAFQRAYSEALA 222 (1176)
T ss_pred CcccHHHHHHHHHhcCCcEEEeecccCCCcceEEeechhhHHHHHHHHHHHHHH
Confidence 556789999999999999877666643 4578889888765544
No 357
>KOG2423|consensus
Probab=27.63 E-value=1.1e+02 Score=22.69 Aligned_cols=35 Identities=17% Similarity=0.077 Sum_probs=18.4
Q ss_pred CcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEec
Q psy17493 9 SKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETS 44 (101)
Q Consensus 9 ~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etS 44 (101)
..+|+||+||.. .-|+......+++++-..-|-.|
T Consensus 247 li~vLNKvDLVP-twvt~~Wv~~lSkeyPTiAfHAs 281 (572)
T KOG2423|consen 247 LIYVLNKVDLVP-TWVTAKWVRHLSKEYPTIAFHAS 281 (572)
T ss_pred eEEEeecccccc-HHHHHHHHHHHhhhCcceeeehh
Confidence 478899999832 22333333334444443345555
No 358
>KOG0071|consensus
Probab=27.29 E-value=1.7e+02 Score=18.46 Aligned_cols=47 Identities=4% Similarity=-0.069 Sum_probs=30.6
Q ss_pred EeecCCCCCCCCCCHHHHHHHHHH---hCC--eEEEeccCCCCCHHHHHHHHHH
Q psy17493 12 IEVPNFVSSMPQVSRERGEQLAIE---YGI--KFMETSAKNSINVEDAFFTLAR 60 (101)
Q Consensus 12 v~nk~Dl~~~~~v~~~~~~~~a~~---~~~--~~~etSAk~~~~V~~~F~~~~~ 60 (101)
.+||-|+.+. .+..+...+-+- .+- -..-++|.+|.++.+-|.-+..
T Consensus 124 lANkQDlp~A--~~pqei~d~leLe~~r~~~W~vqp~~a~~gdgL~eglswlsn 175 (180)
T KOG0071|consen 124 LANKQDLPDA--MKPQEIQDKLELERIRDRNWYVQPSCALSGDGLKEGLSWLSN 175 (180)
T ss_pred EecCcccccc--cCHHHHHHHhccccccCCccEeeccccccchhHHHHHHHHHh
Confidence 4789998753 444555444332 222 2457899999999998877754
No 359
>COG0050 TufB GTPases - translation elongation factors [Translation, ribosomal structure and biogenesis]
Probab=26.63 E-value=87 Score=22.24 Aligned_cols=44 Identities=14% Similarity=0.056 Sum_probs=26.7
Q ss_pred ccC-CCcEEeecCCCCCCCCCC---HHHHHHHHHHhC-----CeEEEeccCCC
Q psy17493 5 INT-KSKYIEVPNFVSSMPQVS---RERGEQLAIEYG-----IKFMETSAKNS 48 (101)
Q Consensus 5 ~~~-~~~lv~nk~Dl~~~~~v~---~~~~~~~a~~~~-----~~~~etSAk~~ 48 (101)
+|- .+.++.||+|+.+++..- ..+...+-..++ .+.+.-||..-
T Consensus 126 vGvp~ivvflnK~Dmvdd~ellelVemEvreLLs~y~f~gd~~Pii~gSal~a 178 (394)
T COG0050 126 VGVPYIVVFLNKVDMVDDEELLELVEMEVRELLSEYGFPGDDTPIIRGSALKA 178 (394)
T ss_pred cCCcEEEEEEecccccCcHHHHHHHHHHHHHHHHHcCCCCCCcceeechhhhh
Confidence 454 345568999997643321 245566667776 45777787543
No 360
>cd01424 MGS_CPS_II Methylglyoxal synthase-like domain from type II glutamine-dependent carbamoyl phosphate synthetase (CSP). CSP, a CarA and CarB heterodimer, catalyzes the production of carbamoyl phosphate which is subsequently employed in the metabolic pathways responsible for the synthesis of pyrimidine nucleotides or arginine. The MGS-like domain is the C-terminal domain of CarB and appears to play a regulatory role in CPS function by binding allosteric effector molecules, including UMP and ornithine.
Probab=26.14 E-value=1.3e+02 Score=16.92 Aligned_cols=35 Identities=11% Similarity=0.095 Sum_probs=21.2
Q ss_pred cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEE
Q psy17493 6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFM 41 (101)
Q Consensus 6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~ 41 (101)
..++++|.|=.+ ........-..+..|-.+|+++|
T Consensus 65 ~~~id~vIn~~~-~~~~~~~~~~iRR~Av~~~ipl~ 99 (110)
T cd01424 65 NGEIQLVINTPS-GKRAIRDGFSIRRAALEYKVPYF 99 (110)
T ss_pred cCCeEEEEECCC-CCccCccHHHHHHHHHHhCCCEE
Confidence 456777777433 11122234466777888898888
No 361
>CHL00199 infC translation initiation factor 3; Provisional
Probab=25.66 E-value=1.9e+02 Score=18.62 Aligned_cols=33 Identities=24% Similarity=0.220 Sum_probs=27.1
Q ss_pred CCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHH
Q psy17493 22 PQVSRERGEQLAIEYGIKFMETSAKNSINVEDA 54 (101)
Q Consensus 22 ~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~ 54 (101)
-.++..+|.+.|.+.|...+++|+...--|--+
T Consensus 38 Gv~~~~eAl~~A~~~~lDLVeVs~~a~PPVCKI 70 (182)
T CHL00199 38 GIFTSEQAIQLAANQGLDLVLVSEKSDPPVCRI 70 (182)
T ss_pred CceeHHHHHHHHHHcCCCEEEECCCCCCCeEEE
Confidence 478999999999999999999999766444333
No 362
>TIGR02432 lysidine_TilS_N tRNA(Ile)-lysidine synthetase, N-terminal domain. The only examples in which the wobble position of a tRNA must discriminate between G and A of mRNA are AUA (Ile) vs. AUG (Met) and UGA (stop) vs. UGG (Trp). In all bacteria, the wobble position of the tRNA(Ile) recognizing AUA is lysidine, a lysine derivative of cytidine. This family describes a protein domain found, apparently, in all bacteria in a single copy. Eukaryotic sequences appear to be organellar. The domain archictecture of this protein family is variable; some, including characterized proteins of E. coli and B. subtilis known to be tRNA(Ile)-lysidine synthetase, include a conserved 50-residue domain that many other members lack. This protein belongs to the ATP-binding PP-loop family ( pfam01171). It appears in the literature and protein databases as TilS, YacA, and putative cell cycle protein MesJ (a misnomer).
Probab=25.30 E-value=1.4e+02 Score=18.51 Aligned_cols=27 Identities=19% Similarity=0.315 Sum_probs=22.1
Q ss_pred CCCCHHHHHHHHHHhCCeEEEeccCCC
Q psy17493 22 PQVSRERGEQLAIEYGIKFMETSAKNS 48 (101)
Q Consensus 22 ~~v~~~~~~~~a~~~~~~~~etSAk~~ 48 (101)
..++.++...+++.++++|++..+-..
T Consensus 149 ~~~~k~ei~~~~~~~~lp~~~~~~~~~ 175 (189)
T TIGR02432 149 LGISKSEIEEYLKENGLPWFEDETNQD 175 (189)
T ss_pred CCCCHHHHHHHHHHcCCCeeeCCCCCC
Confidence 457889999999999999998875333
No 363
>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=25.19 E-value=38 Score=17.69 Aligned_cols=8 Identities=38% Similarity=0.484 Sum_probs=3.9
Q ss_pred CCCCcccccc
Q psy17493 91 PPSWLSKCSI 100 (101)
Q Consensus 91 ~~~~cc~Cc~ 100 (101)
+++.| |||
T Consensus 34 kkSK~--CCI 41 (60)
T PF07491_consen 34 KKSKC--CCI 41 (60)
T ss_pred ccCce--eee
Confidence 44445 455
No 364
>cd07201 cPLA2_Grp-IVB-IVD-IVE-IVF Group IVB, IVD, IVE, and IVF cytosolic phospholipase A2; catalytic domain; Ca-dependent. Group IVB, IVD, IVE, and IVF cPLA2 consists of two domains: the regulatory C2 domain and alpha/beta hydrolase PLA2 domain. Group IVB, IVD, IVE, and IVF cPLA2 are also referred to as cPLA2-beta, -delta, -epsilon, and -zeta respectively. cPLA2-beta is approximately 30% identical to cPLA2-alpha and it shows low enzymatic activity compared to cPLA2alpha. cPLA2-beta hydrolyzes palmitic acid from 1-[14C]palmitoyl-2-arachidonoyl-PC and arachidonic acid from 1-palmitoyl-2[14C]arachidonoyl-PC, but not from 1-O-alkyl-2[3H]arachidonoyl-PC. cPLA2-delta, -epsilon, and -zeta are approximately 45-50% identical to cPLA2-beta and 31-37% identical to cPLA2-alpha. It's possible that cPLA2-beta, -delta, -epsilon, and -zeta may have arisen by gene duplication from an ancestral gene. The catalytic domain of cytosolic phospholipase A2 (PLA2; EC 3.1.1.4) hydrolyzes the sn-2-acyl ester bon
Probab=24.92 E-value=1.1e+02 Score=23.20 Aligned_cols=48 Identities=21% Similarity=0.238 Sum_probs=28.1
Q ss_pred cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEE--EeccCCCCCHHH
Q psy17493 6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFM--ETSAKNSINVED 53 (101)
Q Consensus 6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~--etSAk~~~~V~~ 53 (101)
+.+||||+.=.=-.+...-....+..||.+.|++|= +.|..+..+..|
T Consensus 393 ~R~VDlIisfd~Sa~~~~~~L~~~~~y~~~~gIpfPk~~~~~~d~~~~ke 442 (541)
T cd07201 393 ERKVDVILSLNYSLGSQFEPLKQASEYCSEQGIPFPKIELSPEDQENLKE 442 (541)
T ss_pred CCcccEEEEeccccCCcchHHHHHHHHHHHcCCCCCCCCCChhHccCCce
Confidence 677787765110011133456788899999999874 444444444444
No 365
>PF02677 DUF208: Uncharacterized BCR, COG1636; InterPro: IPR003828 This entry describes proteins of unknown function.
Probab=23.92 E-value=99 Score=19.79 Aligned_cols=38 Identities=24% Similarity=0.224 Sum_probs=24.5
Q ss_pred CHHHHHHHHHHhCCeEEEeccCCC--CCHHHHHHHHHHHHH
Q psy17493 25 SRERGEQLAIEYGIKFMETSAKNS--INVEDAFFTLARDIK 63 (101)
Q Consensus 25 ~~~~~~~~a~~~~~~~~etSAk~~--~~V~~~F~~~~~~i~ 63 (101)
..+.+..+|+++|..+|-|+-... .+.+.+. .+.+.+-
T Consensus 92 RL~~tA~~A~e~gfd~FtTTL~~Sp~k~~~~I~-~iG~~~~ 131 (176)
T PF02677_consen 92 RLEKTAQYAKELGFDYFTTTLLISPYKNHELIN-EIGERLA 131 (176)
T ss_pred HHHHHHHHHHHcCCCEEEccccCcCccCHHHHH-HHHHHHH
Confidence 357788899999999998876533 4444333 4444443
No 366
>PRK00945 acetyl-CoA decarbonylase/synthase complex subunit epsilon; Provisional
Probab=23.91 E-value=1.8e+02 Score=18.49 Aligned_cols=40 Identities=15% Similarity=0.156 Sum_probs=23.8
Q ss_pred ccCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEecc
Q psy17493 5 INTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSA 45 (101)
Q Consensus 5 ~~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSA 45 (101)
...+-+++........ ..-..+...++++..+++++.|-.
T Consensus 32 ~~AKrPlIivG~ga~~-~~ea~e~l~elaEkl~iPVvtT~~ 71 (171)
T PRK00945 32 KKAKRPLLVVGSLLLD-DEELLDRAVKIAKKANIPVAATGG 71 (171)
T ss_pred HhCCCcEEEECcCccc-cchHHHHHHHHHHHHCCCEEEccc
Confidence 3445555544433322 123456788999999999886544
No 367
>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=23.80 E-value=1.6e+02 Score=17.11 Aligned_cols=34 Identities=21% Similarity=0.249 Sum_probs=23.0
Q ss_pred CCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHH
Q psy17493 23 QVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLA 59 (101)
Q Consensus 23 ~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~ 59 (101)
.++ ++..++|++++++.|+... .....++...+.
T Consensus 86 ~iP-~~~i~~A~~~~lPli~ip~--~~~f~~I~~~v~ 119 (123)
T PF07905_consen 86 EIP-EEIIELADELGLPLIEIPW--EVPFSDITREVM 119 (123)
T ss_pred cCC-HHHHHHHHHcCCCEEEeCC--CCCHHHHHHHHH
Confidence 454 6777899999999998887 444444444433
No 368
>COG4623 Predicted soluble lytic transglycosylase fused to an ABC-type amino acid-binding protein [Cell envelope biogenesis, outer membrane]
Probab=23.78 E-value=1.5e+02 Score=21.77 Aligned_cols=38 Identities=18% Similarity=0.191 Sum_probs=29.7
Q ss_pred CCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHH
Q psy17493 19 SSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLA 59 (101)
Q Consensus 19 ~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~ 59 (101)
..+..+.++-+++||+..|+..- -+...|++++|..+-
T Consensus 41 ~~p~G~eYelak~Fa~yLgV~Lk---i~~~~n~dqLf~aL~ 78 (473)
T COG4623 41 GGPTGLEYELAKAFADYLGVKLK---IIPADNIDQLFDALD 78 (473)
T ss_pred CCccchhHHHHHHHHHHhCCeEE---EEecCCHHHHHHHHh
Confidence 34567889999999999996543 235789999998874
No 369
>COG3623 SgaU Putative L-xylulose-5-phosphate 3-epimerase [Carbohydrate transport and metabolism]
Probab=23.63 E-value=1.3e+02 Score=20.52 Aligned_cols=24 Identities=33% Similarity=0.311 Sum_probs=21.0
Q ss_pred CCCCHHHHHHHHHHhCCeEEEecc
Q psy17493 22 PQVSRERGEQLAIEYGIKFMETSA 45 (101)
Q Consensus 22 ~~v~~~~~~~~a~~~~~~~~etSA 45 (101)
...+-.+-..+|++.|..|+|.|-
T Consensus 16 ~~~sW~erl~~AK~~GFDFvEmSv 39 (287)
T COG3623 16 NGFSWLERLALAKELGFDFVEMSV 39 (287)
T ss_pred CCCCHHHHHHHHHHcCCCeEEEec
Confidence 457778889999999999999986
No 370
>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=23.54 E-value=63 Score=12.30 Aligned_cols=14 Identities=36% Similarity=0.358 Sum_probs=9.1
Q ss_pred CHHHHHHHHHHHHH
Q psy17493 50 NVEDAFFTLARDIK 63 (101)
Q Consensus 50 ~V~~~F~~~~~~i~ 63 (101)
||-++|..++..+.
T Consensus 1 GVgd~~rKivs~iK 14 (17)
T PF08103_consen 1 GVGDAIRKIVSVIK 14 (17)
T ss_pred ChHHHHHHHHHHHH
Confidence 46677777776553
No 371
>PF01171 ATP_bind_3: PP-loop family; InterPro: IPR011063 This entry represents the PP-loop motif superfamily [,]. The PP-loop motif appears to be a modified version of the P-loop of nucleotide binding domain that is involved in phosphate binding []. Named PP-motif, since it appears to be a part of a previously uncharacterised ATP pyrophophatase domain. ATP sulfurylases, Escherichia coli NtrL, and Bacillus subtilis OutB consist of this domain alone. In other proteins, the pyrophosphatase domain is associated with amidotransferase domains (type I or type II), a putative citrulline-aspartate ligase domain or a nitrilase/amidase domain.; PDB: 3A2K_A 2E89_B 2E21_D 1WY5_B 1NI5_A.
Probab=23.50 E-value=44 Score=20.80 Aligned_cols=23 Identities=30% Similarity=0.424 Sum_probs=17.7
Q ss_pred CCCHHHHHHHHHHhCCeEEEecc
Q psy17493 23 QVSRERGEQLAIEYGIKFMETSA 45 (101)
Q Consensus 23 ~v~~~~~~~~a~~~~~~~~etSA 45 (101)
.++.++...|++.++++|++-+.
T Consensus 146 ~~~k~ei~~~~~~~~i~~~~D~t 168 (182)
T PF01171_consen 146 YVSKDEIRAYAKENGIPYVEDPT 168 (182)
T ss_dssp CS-HHHHHHHHHHTT-SSBS-CC
T ss_pred hCCHHHHHHHHHHCCCcEEECcC
Confidence 58889999999999999998664
No 372
>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=23.17 E-value=1.3e+02 Score=17.55 Aligned_cols=22 Identities=27% Similarity=0.234 Sum_probs=18.2
Q ss_pred CCHHHHHHHHHHhCCeEEEecc
Q psy17493 24 VSRERGEQLAIEYGIKFMETSA 45 (101)
Q Consensus 24 v~~~~~~~~a~~~~~~~~etSA 45 (101)
-..++..+|++..|++++.+-.
T Consensus 26 ~a~~~l~~lae~~~~Pv~~t~~ 47 (137)
T PF00205_consen 26 GAAEELRELAEKLGIPVATTPM 47 (137)
T ss_dssp TCHHHHHHHHHHHTSEEEEEGG
T ss_pred hHHHHHHHHHHHHCCCEEecCc
Confidence 4568899999999999987654
No 373
>PRK14974 cell division protein FtsY; Provisional
Probab=23.03 E-value=1.7e+02 Score=20.64 Aligned_cols=39 Identities=10% Similarity=-0.030 Sum_probs=23.0
Q ss_pred EEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHH
Q psy17493 11 YIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAF 55 (101)
Q Consensus 11 lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F 55 (101)
+|.+|.|.... .-.+...+...+.++...+ +|++|+++-
T Consensus 284 iIlTKlD~~~~----~G~~ls~~~~~~~Pi~~i~--~Gq~v~Dl~ 322 (336)
T PRK14974 284 VILTKVDADAK----GGAALSIAYVIGKPILFLG--VGQGYDDLI 322 (336)
T ss_pred EEEeeecCCCC----ccHHHHHHHHHCcCEEEEe--CCCChhhcc
Confidence 45678885421 2233445555677755555 788887764
No 374
>cd01993 Alpha_ANH_like_II 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 domainhas a strongly conserved motif SGGKD at the N terminus.
Probab=22.95 E-value=78 Score=19.36 Aligned_cols=23 Identities=22% Similarity=0.185 Sum_probs=19.6
Q ss_pred CCCHHHHHHHHHHhCCeEEEecc
Q psy17493 23 QVSRERGEQLAIEYGIKFMETSA 45 (101)
Q Consensus 23 ~v~~~~~~~~a~~~~~~~~etSA 45 (101)
.++..+..+|++.+|++|++-+.
T Consensus 157 ~~~k~eI~~~~~~~~l~~~~d~~ 179 (185)
T cd01993 157 YVREKEIVLYAELNGLPFVEEEC 179 (185)
T ss_pred cCCHHHHHHHHHHcCCCcccCCC
Confidence 47789999999999999987654
No 375
>PRK00407 hypothetical protein; Provisional
Probab=22.80 E-value=1e+02 Score=18.69 Aligned_cols=20 Identities=20% Similarity=0.124 Sum_probs=16.8
Q ss_pred CCCCHHHHHHHHHHHHHHHH
Q psy17493 47 NSINVEDAFFTLARDIKAQT 66 (101)
Q Consensus 47 ~~~~V~~~F~~~~~~i~~~~ 66 (101)
.|.+++++|..++..+++-.
T Consensus 18 ~g~tleE~F~~aa~a~~~~m 37 (139)
T PRK00407 18 YGRTLEEAFENAALAVFDVI 37 (139)
T ss_pred EECCHHHHHHHHHHHHHHhh
Confidence 37889999999999887754
No 376
>PRK05234 mgsA methylglyoxal synthase; Validated
Probab=22.57 E-value=1.6e+02 Score=17.90 Aligned_cols=37 Identities=11% Similarity=-0.080 Sum_probs=24.0
Q ss_pred cCCCcEEeecCCCCCCC--CCCHHHHHHHHHHhCCeEEE
Q psy17493 6 NTKSKYIEVPNFVSSMP--QVSRERGEQLAIEYGIKFME 42 (101)
Q Consensus 6 ~~~~~lv~nk~Dl~~~~--~v~~~~~~~~a~~~~~~~~e 42 (101)
..++++|.|=.|....+ .......+..|-.++++++-
T Consensus 73 ~g~i~lVInt~dp~~~~~~~~D~~~IRR~Av~~~IP~~T 111 (142)
T PRK05234 73 EGKIDMLIFFRDPLTAQPHDPDVKALLRLADVWNIPVAT 111 (142)
T ss_pred cCceeEEEEecCCCCCCcccchHHHHHHHHHHcCCCEEc
Confidence 45778888865532222 22344667888999999883
No 377
>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=22.54 E-value=1.5e+02 Score=16.19 Aligned_cols=26 Identities=23% Similarity=0.327 Sum_probs=19.3
Q ss_pred eEEEeccCCCCCHHHHHHHHHHHHHH
Q psy17493 39 KFMETSAKNSINVEDAFFTLARDIKA 64 (101)
Q Consensus 39 ~~~etSAk~~~~V~~~F~~~~~~i~~ 64 (101)
.|...-.-.+.++++++.++.++..+
T Consensus 15 ~yl~iv~~~~~d~d~Al~eM~e~A~~ 40 (74)
T TIGR03884 15 YYLGIVSTESDNVDEIVENLREKVKA 40 (74)
T ss_pred EEEEEEEEecCCHHHHHHHHHHHHHH
Confidence 35554446778999999999877654
No 378
>COG0108 RibB 3,4-dihydroxy-2-butanone 4-phosphate synthase [Coenzyme metabolism]
Probab=22.34 E-value=2.2e+02 Score=18.70 Aligned_cols=23 Identities=17% Similarity=0.141 Sum_probs=18.5
Q ss_pred CCCCCCHHHHHHHHHHhCCeEEE
Q psy17493 20 SMPQVSRERGEQLAIEYGIKFME 42 (101)
Q Consensus 20 ~~~~v~~~~~~~~a~~~~~~~~e 42 (101)
+...-...++..||++||++++.
T Consensus 168 dG~mar~~~~~~fa~~h~l~~it 190 (203)
T COG0108 168 DGTMARLPELEEFAKEHGLPVIT 190 (203)
T ss_pred CccccChHHHHHHHHHcCCcEEE
Confidence 33556678999999999999885
No 379
>PRK11537 putative GTP-binding protein YjiA; Provisional
Probab=22.21 E-value=1.4e+02 Score=20.71 Aligned_cols=41 Identities=10% Similarity=0.071 Sum_probs=22.3
Q ss_pred cEEeecCCCCCCCCCCHHHHHHHHHHhC--CeEEEeccCCCCCHHHHH
Q psy17493 10 KYIEVPNFVSSMPQVSRERGEQLAIEYG--IKFMETSAKNSINVEDAF 55 (101)
Q Consensus 10 ~lv~nk~Dl~~~~~v~~~~~~~~a~~~~--~~~~etSAk~~~~V~~~F 55 (101)
-|+.||+|+... .+......+..+ +++++++ ........+|
T Consensus 154 ~IvlnK~Dl~~~----~~~~~~~l~~lnp~a~i~~~~-~~~v~~~~l~ 196 (318)
T PRK11537 154 RILLTKTDVAGE----AEKLRERLARINARAPVYTVV-HGDIDLSLLF 196 (318)
T ss_pred EEEEeccccCCH----HHHHHHHHHHhCCCCEEEEec-cCCCCHHHHh
Confidence 356899998642 244555555554 5666554 2233444444
No 380
>PF02142 MGS: MGS-like domain This is a subfamily of this family; InterPro: IPR011607 This domain composes the whole protein of methylglyoxal synthetase and the domain is also found in carbamoyl phosphate synthetase (CPS) where it forms a regulatory domain that binds to the allosteric effector ornithine. The known structures in this domain show a common phosphate binding site []. ; PDB: 4A1O_A 3ZZM_A 1ZCZ_A 1M6V_C 1CS0_C 1C30_E 1C3O_G 1BXR_A 1T36_E 1A9X_A ....
Probab=22.20 E-value=15 Score=20.45 Aligned_cols=37 Identities=19% Similarity=0.174 Sum_probs=17.0
Q ss_pred ccCCCcEEeecCCCCCCCCC-CHHHHHHHHHHhCCeEE
Q psy17493 5 INTKSKYIEVPNFVSSMPQV-SRERGEQLAIEYGIKFM 41 (101)
Q Consensus 5 ~~~~~~lv~nk~Dl~~~~~v-~~~~~~~~a~~~~~~~~ 41 (101)
...++++|.|-.+-...... .--..+..|.+++++++
T Consensus 57 ~~~~IdlVIn~~~~~~~~~~~dg~~irr~a~~~~Ip~~ 94 (95)
T PF02142_consen 57 KNGKIDLVINTPYPFSDQEHTDGYKIRRAAVEYNIPLF 94 (95)
T ss_dssp HTTSEEEEEEE--THHHHHTHHHHHHHHHHHHTTSHEE
T ss_pred HcCCeEEEEEeCCCCcccccCCcHHHHHHHHHcCCCCc
Confidence 34566777664332211111 22333556667776654
No 381
>COG2379 GckA Putative glycerate kinase [Carbohydrate transport and metabolism]
Probab=21.95 E-value=2.7e+02 Score=20.41 Aligned_cols=44 Identities=18% Similarity=0.212 Sum_probs=35.3
Q ss_pred CCCCHHHHHHHHHHhCCe-EEEeccCCCCC--HHHHHHHHHHHHHHH
Q psy17493 22 PQVSRERGEQLAIEYGIK-FMETSAKNSIN--VEDAFFTLARDIKAQ 65 (101)
Q Consensus 22 ~~v~~~~~~~~a~~~~~~-~~etSAk~~~~--V~~~F~~~~~~i~~~ 65 (101)
..+..+.+..++...|+. ++-+|+.+|+- |-.++-.+++++...
T Consensus 256 n~~sleaaa~~~~~~G~~a~Il~d~ieGEArevg~v~asiarev~~~ 302 (422)
T COG2379 256 NRLSLEAAASEARALGFKAVILGDTIEGEAREVGRVHASIAREVARR 302 (422)
T ss_pred hHHHHHHHHHHHHhcCCeeEEeeccccccHHHHHHHHHHHHHHHHHc
Confidence 456678889999999986 88999999965 777788888877654
No 382
>PF00926 DHBP_synthase: 3,4-dihydroxy-2-butanone 4-phosphate synthase; InterPro: IPR000422 3,4-dihydroxy-2-butanone 4-phosphate synthase (4.1.99.12 from EC) (DHBP synthase) (RibB) catalyses the conversion of D-ribulose 5-phosphate to formate and 3,4-dihydroxy-2-butanone 4-phosphate, the latter serving as the biosynthetic precursor for the xylene ring of riboflavin []. In Photobacterium leiognathi, the riboflavin synthesis genes ribB (DHBP synthase), ribE (riboflavin synthase), ribH (lumazone synthase) and ribA (GTP cyclohydrolase II) all reside in the lux operon []. RibB is sometimes found as a bifunctional enzyme with GTP cyclohydrolase II that catalyses the first committed step in the biosynthesis of riboflavin (IPR000926 from INTERPRO). No sequences with significant homology to DHBP synthase are found in the metazoa.; GO: 0008686 3,4-dihydroxy-2-butanone-4-phosphate synthase activity, 0009231 riboflavin biosynthetic process; PDB: 1K4O_A 1K4L_A 1K4P_A 1K49_A 1K4I_A 1TKU_A 1TKS_B 2RIS_A 2RIU_A 3MIO_A ....
Probab=21.58 E-value=1e+02 Score=19.97 Aligned_cols=24 Identities=17% Similarity=0.223 Sum_probs=18.9
Q ss_pred CCCCCHHHHHHHHHHhCCeEEEec
Q psy17493 21 MPQVSRERGEQLAIEYGIKFMETS 44 (101)
Q Consensus 21 ~~~v~~~~~~~~a~~~~~~~~etS 44 (101)
...-..+++.+||++++++++..+
T Consensus 165 G~~~~~~~~~~fA~~~~l~~vsi~ 188 (194)
T PF00926_consen 165 GDMARRDELEEFAKKHGLPIVSIE 188 (194)
T ss_dssp SSBHCHHHHHHHHHHTT-EEEEHH
T ss_pred CCcCCHHHHHHHHHHcCCcEEEHH
Confidence 356778999999999999988643
No 383
>PF07945 Toxin_16: Janus-atracotoxin; InterPro: IPR012499 This family includes three peptides secreted by the spider Hadronyche versuta (Blue mountains funnel-web spider) (P82226 from SWISSPROT, P82227 from SWISSPROT, P82228 from SWISSPROT). These are insect-selective, excitatory neurotoxins that may function by antagonising muscle acetylcholine receptors, or acetylcholine receptor subtypes present in other invertebrate neurons []. Janus atracotoxin-Hv1c (J-ACTX-Hv1c, P82228 from SWISSPROT) is organised into a disulphide-rich globular core (residues 3-19) and a beta-hairpin (residues 20-34). There are 4 disulphide bridges, one of which is a vicinal disulphide bridge; this is known to be unimportant in the maintenance of structure but critical for insecticidal activity []. ; GO: 0009405 pathogenesis, 0005576 extracellular region; PDB: 1DL0_A.
Probab=21.49 E-value=33 Score=15.40 Aligned_cols=6 Identities=17% Similarity=0.334 Sum_probs=1.0
Q ss_pred Cccccc
Q psy17493 94 WLSKCS 99 (101)
Q Consensus 94 ~cc~Cc 99 (101)
.||-||
T Consensus 12 accpcc 17 (36)
T PF07945_consen 12 ACCPCC 17 (36)
T ss_dssp SS----
T ss_pred cccCCC
Confidence 456565
No 384
>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=21.40 E-value=1.3e+02 Score=19.55 Aligned_cols=23 Identities=9% Similarity=0.049 Sum_probs=18.8
Q ss_pred CCCCCHHHHHHHHHHhCCeEEEe
Q psy17493 21 MPQVSRERGEQLAIEYGIKFMET 43 (101)
Q Consensus 21 ~~~v~~~~~~~~a~~~~~~~~et 43 (101)
.......++.+||++|+++++..
T Consensus 170 G~m~~~~~~~~fA~~~~l~~isi 192 (199)
T TIGR00506 170 GTMARKPELMEYAKKHNLKLISI 192 (199)
T ss_pred CCccCHHHHHHHHHHcCCcEEEH
Confidence 35677899999999999998754
No 385
>COG5258 GTPBP1 GTPase [General function prediction only]
Probab=20.99 E-value=1.2e+02 Score=22.37 Aligned_cols=18 Identities=11% Similarity=0.001 Sum_probs=15.0
Q ss_pred CeEEEeccCCCCCHHHHH
Q psy17493 38 IKFMETSAKNSINVEDAF 55 (101)
Q Consensus 38 ~~~~etSAk~~~~V~~~F 55 (101)
.+.|.|||-||.|++-+-
T Consensus 314 vPi~~tSsVTg~GldlL~ 331 (527)
T COG5258 314 VPIFYTSSVTGEGLDLLD 331 (527)
T ss_pred EEEEEEecccCccHHHHH
Confidence 589999999999976543
No 386
>PF11111 CENP-M: Centromere protein M (CENP-M); InterPro: IPR020987 The prime candidate for specifying centromere identity is the array of nucleosomes assembles associated with CENP-A []. CENP-A recruits a nucleosome associated complex (CENP-A-NAC complex) comprised of CENP-M which this entry represents, along with two other proteins []. Assembly of the CENP-A NAC at centromeres is partly dependent on CENP-M. The CENP-A NAC is essential, as disruption of the complex causes errors of chromosome alignment and segregation that preclude cell survival [].
Probab=20.66 E-value=2.5e+02 Score=18.05 Aligned_cols=44 Identities=20% Similarity=0.197 Sum_probs=30.5
Q ss_pred CCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHHHH
Q psy17493 19 SSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQT 66 (101)
Q Consensus 19 ~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~~~ 66 (101)
.+...+..++..++|..+..+++..--.+ ++-+..+++++++..
T Consensus 109 ~~~~sv~~~~V~kla~~y~~plL~~~le~----~~~~~~lAqRLL~~l 152 (176)
T PF11111_consen 109 ESHCSVHPNEVRKLAATYNSPLLFADLEN----EEGRTSLAQRLLRML 152 (176)
T ss_pred ccccccCHHHHHHHHHHhCCCEEEeeccc----chHHHHHHHHHHHHH
Confidence 34467889999999999999877554433 355556666666544
No 387
>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=20.43 E-value=2.7e+02 Score=18.68 Aligned_cols=41 Identities=29% Similarity=0.310 Sum_probs=31.1
Q ss_pred CHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHHHHhh
Q psy17493 25 SRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQTEK 68 (101)
Q Consensus 25 ~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~~~~~ 68 (101)
..+..+++|+.-|-.||.. +..++.++|..+++.+...+.-
T Consensus 220 ~~~~L~~iA~~TGG~~~~~---~~~~l~~~f~~i~~~~~~~Y~l 260 (296)
T TIGR03436 220 GPEALERLAEETGGRAFYV---NSNDLDGAFAQIAEELRSQYLI 260 (296)
T ss_pred cHHHHHHHHHHhCCeEecc---cCccHHHHHHHHHHHHhheEEE
Confidence 3567788888888766654 5678999999999988776543
No 388
>PF14043 WVELL: WVELL protein
Probab=20.02 E-value=71 Score=17.42 Aligned_cols=48 Identities=19% Similarity=0.052 Sum_probs=34.4
Q ss_pred CCCCCHHHHHHHHHHhCCeEEEeccCCCCC--HHHHHHHHHHHHHHHHhh
Q psy17493 21 MPQVSRERGEQLAIEYGIKFMETSAKNSIN--VEDAFFTLARDIKAQTEK 68 (101)
Q Consensus 21 ~~~v~~~~~~~~a~~~~~~~~etSAk~~~~--V~~~F~~~~~~i~~~~~~ 68 (101)
....+..+|+.|.+-.=-.|=.|.||.|.- -.+.=+.++++.++....
T Consensus 15 N~~Ls~~qArtWVElLWeDFEsTyAKAG~~Y~G~e~te~iV~qwI~~yG~ 64 (75)
T PF14043_consen 15 NPMLSYEQARTWVELLWEDFESTYAKAGRPYQGEEMTERIVRQWIENYGS 64 (75)
T ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHHcCCccCcHHHHHHHHHHHHHHHHH
Confidence 346889999999887655677788998864 356666777777765543
Done!