Query 032001
Match_columns 149
No_of_seqs 105 out of 1157
Neff 9.1
Searched_HMMs 46136
Date Fri Mar 29 08:15:59 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/032001.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/032001hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0084 GTPase Rab1/YPT1, smal 99.9 2.3E-26 5E-31 160.8 12.8 135 5-147 67-205 (205)
2 KOG0092 GTPase Rab5/YPT51 and 99.9 1.7E-25 3.6E-30 156.0 11.8 135 5-147 63-200 (200)
3 KOG0078 GTP-binding protein SE 99.9 9.8E-25 2.1E-29 154.3 13.2 111 4-116 69-180 (207)
4 KOG0098 GTPase Rab2, small G p 99.9 1.1E-24 2.4E-29 151.2 11.0 110 5-116 64-174 (216)
5 KOG0094 GTPase Rab6/YPT6/Ryh1, 99.9 4.3E-24 9.3E-29 149.3 11.2 108 5-114 80-189 (221)
6 KOG0080 GTPase Rab18, small G 99.9 1.8E-23 3.8E-28 142.3 9.8 139 5-148 69-209 (209)
7 KOG0091 GTPase Rab39, small G 99.9 1.4E-22 3.1E-27 138.2 12.7 110 5-116 67-179 (213)
8 KOG0079 GTP-binding protein H- 99.9 2.1E-23 4.5E-28 140.2 8.4 124 4-130 65-190 (198)
9 KOG0088 GTPase Rab21, small G 99.9 8.5E-23 1.9E-27 138.7 10.9 109 5-115 71-180 (218)
10 cd04126 Rab20 Rab20 subfamily. 99.9 1.7E-21 3.7E-26 142.0 14.0 111 5-116 53-196 (220)
11 KOG0087 GTPase Rab11/YPT3, sma 99.9 1.3E-21 2.7E-26 138.4 12.3 109 5-115 72-181 (222)
12 cd04120 Rab12 Rab12 subfamily. 99.9 3.7E-21 7.9E-26 138.6 14.8 107 5-113 58-166 (202)
13 KOG0086 GTPase Rab4, small G p 99.9 1.2E-21 2.7E-26 132.4 9.5 125 5-131 67-194 (214)
14 cd04121 Rab40 Rab40 subfamily. 99.9 7.1E-21 1.5E-25 135.8 13.1 107 5-114 64-171 (189)
15 cd04107 Rab32_Rab38 Rab38/Rab3 99.8 4.6E-20 1E-24 132.4 14.1 108 5-114 59-172 (201)
16 cd04144 Ras2 Ras2 subfamily. 99.8 7.3E-20 1.6E-24 130.3 14.1 109 5-115 56-168 (190)
17 PLN03110 Rab GTPase; Provision 99.8 1E-19 2.3E-24 132.2 14.8 108 5-114 70-178 (216)
18 KOG0081 GTPase Rab27, small G 99.8 2.5E-20 5.5E-25 126.8 10.5 111 5-117 76-188 (219)
19 PTZ00099 rab6; Provisional 99.8 9.3E-20 2E-24 128.7 13.8 107 5-113 38-145 (176)
20 KOG0093 GTPase Rab3, small G p 99.8 1.1E-20 2.4E-25 126.9 8.5 108 5-114 79-187 (193)
21 KOG0394 Ras-related GTPase [Ge 99.8 3.7E-20 8E-25 128.5 10.8 109 5-114 67-182 (210)
22 cd04111 Rab39 Rab39 subfamily. 99.8 2.3E-19 5E-24 130.0 15.5 110 5-116 61-172 (211)
23 KOG0097 GTPase Rab14, small G 99.8 1.5E-19 3.2E-24 121.1 11.3 110 5-116 69-179 (215)
24 cd04112 Rab26 Rab26 subfamily. 99.8 4.2E-19 9E-24 126.5 13.5 107 5-113 59-166 (191)
25 cd04141 Rit_Rin_Ric Rit/Rin/Ri 99.8 3.1E-19 6.8E-24 125.3 12.4 108 5-114 59-168 (172)
26 cd04174 Rnd1_Rho6 Rnd1/Rho6 su 99.8 7.2E-19 1.6E-23 129.0 14.3 107 5-113 70-191 (232)
27 cd04133 Rop_like Rop subfamily 99.8 3E-19 6.4E-24 126.1 11.7 102 5-109 58-172 (176)
28 cd04110 Rab35 Rab35 subfamily. 99.8 1E-18 2.2E-23 125.4 14.4 107 5-114 64-171 (199)
29 PTZ00369 Ras-like protein; Pro 99.8 8E-19 1.7E-23 124.9 12.9 108 5-114 62-171 (189)
30 PLN03108 Rab family protein; P 99.8 3.8E-18 8.3E-23 123.4 15.1 110 5-116 64-174 (210)
31 cd01875 RhoG RhoG subfamily. 99.8 9.1E-19 2E-23 124.9 11.7 105 5-111 60-178 (191)
32 cd04122 Rab14 Rab14 subfamily. 99.8 1.2E-18 2.7E-23 121.1 11.9 105 5-111 60-165 (166)
33 cd04125 RabA_like RabA-like su 99.8 3.2E-18 7E-23 121.5 14.0 107 5-113 58-165 (188)
34 KOG0083 GTPase Rab26/Rab37, sm 99.8 2E-19 4.4E-24 119.3 7.2 106 5-112 56-162 (192)
35 cd04172 Rnd3_RhoE_Rho8 Rnd3/Rh 99.8 8.9E-19 1.9E-23 124.3 11.0 103 5-109 62-179 (182)
36 cd04118 Rab24 Rab24 subfamily. 99.8 4.8E-18 1E-22 120.9 14.7 131 5-146 59-193 (193)
37 KOG0095 GTPase Rab30, small G 99.8 1.7E-19 3.7E-24 121.7 6.7 106 5-112 65-171 (213)
38 cd04109 Rab28 Rab28 subfamily. 99.8 2.8E-18 6E-23 124.5 13.1 106 5-112 59-168 (215)
39 cd04131 Rnd Rnd subfamily. Th 99.8 2.4E-18 5.1E-23 121.6 11.2 104 5-110 58-176 (178)
40 cd04117 Rab15 Rab15 subfamily. 99.8 3.2E-18 7E-23 118.7 11.5 102 5-108 58-160 (161)
41 smart00176 RAN Ran (Ras-relate 99.8 4.4E-18 9.5E-23 122.4 12.1 103 5-112 53-156 (200)
42 cd04127 Rab27A Rab27a subfamil 99.8 4.6E-18 9.9E-23 119.5 11.5 106 5-112 72-179 (180)
43 cd01865 Rab3 Rab3 subfamily. 99.8 1.2E-17 2.6E-22 116.1 11.7 105 5-111 59-164 (165)
44 cd04136 Rap_like Rap-like subf 99.8 1.7E-17 3.8E-22 114.5 11.7 103 5-109 58-162 (163)
45 cd04128 Spg1 Spg1p. Spg1p (se 99.8 1.6E-17 3.4E-22 117.8 11.7 106 5-112 58-168 (182)
46 cd04175 Rap1 Rap1 subgroup. T 99.8 2E-17 4.3E-22 114.6 12.0 103 5-109 58-162 (164)
47 PF00071 Ras: Ras family; Int 99.8 2.8E-17 6E-22 113.5 12.6 104 5-110 57-161 (162)
48 cd04132 Rho4_like Rho4-like su 99.8 2.8E-17 6E-22 116.3 12.6 108 5-114 58-171 (187)
49 cd01867 Rab8_Rab10_Rab13_like 99.8 2.6E-17 5.6E-22 114.6 12.0 105 5-111 61-166 (167)
50 PLN03071 GTP-binding nuclear p 99.7 1.7E-17 3.7E-22 120.8 11.3 104 5-113 71-175 (219)
51 cd01869 Rab1_Ypt1 Rab1/Ypt1 su 99.7 3.2E-17 6.9E-22 113.8 11.7 104 5-110 60-164 (166)
52 cd04134 Rho3 Rho3 subfamily. 99.7 3.3E-17 7.1E-22 116.6 11.9 104 5-111 57-175 (189)
53 cd01873 RhoBTB RhoBTB subfamil 99.7 2.5E-17 5.3E-22 118.1 11.2 96 11-108 79-194 (195)
54 cd01874 Cdc42 Cdc42 subfamily. 99.7 3.2E-17 6.9E-22 115.4 11.6 102 5-108 58-173 (175)
55 cd04176 Rap2 Rap2 subgroup. T 99.7 4.9E-17 1.1E-21 112.5 12.1 103 5-109 58-162 (163)
56 cd04140 ARHI_like ARHI subfami 99.7 8.7E-17 1.9E-21 111.8 11.7 102 5-108 58-163 (165)
57 cd01868 Rab11_like Rab11-like. 99.7 7.9E-17 1.7E-21 111.6 11.2 103 5-109 61-164 (165)
58 cd04173 Rnd2_Rho7 Rnd2/Rho7 su 99.7 2.1E-16 4.4E-21 115.4 13.8 107 5-113 58-179 (222)
59 cd04138 H_N_K_Ras_like H-Ras/N 99.7 1.4E-16 3E-21 109.5 11.9 102 5-109 58-161 (162)
60 cd00877 Ran Ran (Ras-related n 99.7 1.6E-16 3.4E-21 110.8 12.1 102 5-111 58-160 (166)
61 cd01871 Rac1_like Rac1-like su 99.7 9.1E-17 2E-21 113.0 10.8 102 5-108 58-173 (174)
62 cd04108 Rab36_Rab34 Rab34/Rab3 99.7 1.5E-16 3.4E-21 111.4 11.9 105 5-111 58-166 (170)
63 cd01866 Rab2 Rab2 subfamily. 99.7 1.8E-16 3.8E-21 110.6 12.0 105 5-111 62-167 (168)
64 PLN03118 Rab family protein; P 99.7 5.4E-16 1.2E-20 112.1 14.7 106 5-112 71-179 (211)
65 smart00173 RAS Ras subfamily o 99.7 2.5E-16 5.5E-21 108.9 12.3 104 5-110 57-162 (164)
66 cd04106 Rab23_lke Rab23-like s 99.7 1.6E-16 3.5E-21 109.6 11.0 101 5-108 60-161 (162)
67 cd04119 RJL RJL (RabJ-Like) su 99.7 1.9E-16 4.2E-21 109.4 11.3 104 5-110 58-167 (168)
68 cd04145 M_R_Ras_like M-Ras/R-R 99.7 2.7E-16 5.8E-21 108.6 12.0 103 5-109 59-163 (164)
69 smart00174 RHO Rho (Ras homolo 99.7 2.7E-16 5.8E-21 109.9 10.9 104 5-110 55-172 (174)
70 cd04113 Rab4 Rab4 subfamily. 99.7 3.1E-16 6.7E-21 108.2 11.0 102 5-108 58-160 (161)
71 KOG0395 Ras-related GTPase [Ge 99.7 6.9E-16 1.5E-20 110.6 12.8 104 7-112 62-167 (196)
72 cd01864 Rab19 Rab19 subfamily. 99.7 4E-16 8.7E-21 108.2 10.9 102 5-108 61-164 (165)
73 cd04124 RabL2 RabL2 subfamily. 99.7 7E-16 1.5E-20 106.9 11.5 101 5-111 58-159 (161)
74 cd04116 Rab9 Rab9 subfamily. 99.7 5.6E-16 1.2E-20 107.9 10.8 101 5-108 63-169 (170)
75 cd04129 Rho2 Rho2 subfamily. 99.7 1.2E-15 2.6E-20 108.3 12.5 106 5-112 58-175 (187)
76 smart00175 RAB Rab subfamily o 99.7 9.3E-16 2E-20 105.8 11.6 104 6-111 59-163 (164)
77 cd04103 Centaurin_gamma Centau 99.7 7.7E-16 1.7E-20 106.8 10.8 93 15-108 61-157 (158)
78 cd01860 Rab5_related Rab5-rela 99.7 1.2E-15 2.6E-20 105.3 11.4 103 5-109 59-162 (163)
79 cd04143 Rhes_like Rhes_like su 99.7 2.4E-15 5.2E-20 111.4 13.2 104 5-110 57-171 (247)
80 cd04101 RabL4 RabL4 (Rab-like4 99.7 1.3E-15 2.9E-20 105.3 11.2 102 5-109 61-163 (164)
81 cd04177 RSR1 RSR1 subgroup. R 99.7 2.6E-15 5.6E-20 104.6 12.5 104 5-110 58-164 (168)
82 cd04123 Rab21 Rab21 subfamily. 99.7 2.6E-15 5.7E-20 103.1 11.9 103 5-109 58-161 (162)
83 cd01861 Rab6 Rab6 subfamily. 99.7 1.8E-15 3.9E-20 104.2 11.1 102 5-108 58-160 (161)
84 cd04115 Rab33B_Rab33A Rab33B/R 99.7 2E-15 4.3E-20 105.5 11.1 102 6-109 61-168 (170)
85 cd04146 RERG_RasL11_like RERG/ 99.6 3.4E-15 7.4E-20 103.6 11.9 99 10-110 62-164 (165)
86 cd04130 Wrch_1 Wrch-1 subfamil 99.6 3.3E-15 7.2E-20 104.6 11.2 100 5-106 57-170 (173)
87 cd04142 RRP22 RRP22 subfamily. 99.6 3.7E-15 8.1E-20 107.0 11.2 96 15-112 76-176 (198)
88 cd04158 ARD1 ARD1 subfamily. 99.6 2.7E-15 5.9E-20 104.8 10.1 103 6-112 53-163 (169)
89 PLN00223 ADP-ribosylation fact 99.6 2.3E-15 5E-20 106.6 9.6 103 5-111 70-179 (181)
90 cd04135 Tc10 TC10 subfamily. 99.6 7.1E-15 1.5E-19 102.6 11.5 103 5-109 57-173 (174)
91 cd04149 Arf6 Arf6 subfamily. 99.6 2.4E-15 5.2E-20 105.2 8.3 99 5-107 62-167 (168)
92 cd04114 Rab30 Rab30 subfamily. 99.6 1.3E-14 2.8E-19 100.7 11.9 103 5-109 65-168 (169)
93 cd04139 RalA_RalB RalA/RalB su 99.6 1.6E-14 3.4E-19 99.5 12.2 104 5-110 57-162 (164)
94 cd04148 RGK RGK subfamily. Th 99.6 1.7E-14 3.7E-19 105.2 12.8 100 13-113 65-166 (221)
95 cd01892 Miro2 Miro2 subfamily. 99.6 5.3E-15 1.2E-19 103.5 9.5 102 5-110 63-166 (169)
96 KOG4252 GTP-binding protein [S 99.6 3.3E-15 7.1E-20 103.8 8.1 108 5-115 78-186 (246)
97 PTZ00133 ADP-ribosylation fact 99.6 9.3E-15 2E-19 103.5 10.1 105 5-113 70-181 (182)
98 cd04147 Ras_dva Ras-dva subfam 99.6 2.8E-14 6.1E-19 102.2 12.0 105 5-110 56-163 (198)
99 cd01863 Rab18 Rab18 subfamily. 99.6 3.2E-14 6.8E-19 98.1 11.7 101 5-108 58-160 (161)
100 cd04150 Arf1_5_like Arf1-Arf5- 99.6 1E-14 2.2E-19 101.0 9.1 99 5-107 53-158 (159)
101 cd01862 Rab7 Rab7 subfamily. 99.6 4.4E-14 9.5E-19 98.2 12.2 106 5-112 58-169 (172)
102 cd04162 Arl9_Arfrp2_like Arl9/ 99.6 3.7E-15 8.1E-20 103.8 6.5 100 5-107 53-163 (164)
103 smart00177 ARF ARF-like small 99.6 1.8E-14 3.9E-19 101.3 9.9 101 5-109 66-173 (175)
104 cd04137 RheB Rheb (Ras Homolog 99.6 8E-14 1.7E-18 97.9 13.1 106 5-112 58-165 (180)
105 cd04152 Arl4_Arl7 Arl4/Arl7 su 99.6 4E-14 8.7E-19 100.2 10.2 105 5-113 61-173 (183)
106 cd01870 RhoA_like RhoA-like su 99.6 9.6E-14 2.1E-18 97.0 11.7 103 5-109 58-174 (175)
107 TIGR00157 ribosome small subun 99.5 2.6E-14 5.6E-19 105.8 8.9 95 7-107 24-120 (245)
108 cd04154 Arl2 Arl2 subfamily. 99.5 3E-14 6.6E-19 99.7 8.7 98 6-107 68-172 (173)
109 cd00876 Ras Ras family. The R 99.5 1.2E-13 2.7E-18 94.5 10.7 101 6-108 57-159 (160)
110 cd04157 Arl6 Arl6 subfamily. 99.5 8.3E-14 1.8E-18 95.9 9.0 99 5-107 54-161 (162)
111 cd00154 Rab Rab family. Rab G 99.5 2.4E-13 5.2E-18 92.5 10.2 99 6-106 59-158 (159)
112 PTZ00132 GTP-binding nuclear p 99.5 6.4E-13 1.4E-17 96.2 11.9 103 5-112 67-170 (215)
113 cd00879 Sar1 Sar1 subfamily. 99.5 1.7E-13 3.8E-18 97.1 8.4 99 6-108 73-189 (190)
114 KOG0393 Ras-related small GTPa 99.5 2.5E-13 5.4E-18 96.5 8.9 107 4-112 61-181 (198)
115 cd04153 Arl5_Arl8 Arl5/Arl8 su 99.5 3E-13 6.5E-18 94.9 9.2 99 5-107 68-173 (174)
116 cd04161 Arl2l1_Arl13_like Arl2 99.5 1.8E-13 3.8E-18 95.5 7.1 101 5-107 52-166 (167)
117 cd01893 Miro1 Miro1 subfamily. 99.5 7.5E-13 1.6E-17 92.0 10.3 103 5-110 56-164 (166)
118 PF00025 Arf: ADP-ribosylation 99.5 1.8E-12 3.9E-17 91.3 12.2 101 5-109 67-175 (175)
119 cd04160 Arfrp1 Arfrp1 subfamil 99.5 5.4E-13 1.2E-17 92.4 9.2 98 6-107 60-166 (167)
120 cd04156 ARLTS1 ARLTS1 subfamil 99.5 2.3E-13 5E-18 93.6 7.2 98 6-107 54-159 (160)
121 cd04151 Arl1 Arl1 subfamily. 99.5 6.8E-13 1.5E-17 91.4 9.2 99 5-107 52-157 (158)
122 cd04102 RabL3 RabL3 (Rab-like3 99.4 1.1E-12 2.4E-17 94.5 10.0 89 5-95 63-175 (202)
123 PRK12299 obgE GTPase CgtA; Rev 99.4 2.4E-12 5.1E-17 99.3 11.5 101 11-112 225-330 (335)
124 cd00157 Rho Rho (Ras homology) 99.4 3.8E-12 8.3E-17 88.3 10.9 99 7-107 59-170 (171)
125 cd01890 LepA LepA subfamily. 99.4 2.5E-12 5.5E-17 90.1 9.6 96 6-109 77-176 (179)
126 smart00178 SAR Sar1p-like memb 99.4 2.1E-12 4.6E-17 91.5 8.3 100 5-108 70-183 (184)
127 KOG4423 GTP-binding protein-li 99.4 2.1E-12 4.4E-17 90.4 7.6 114 5-119 84-203 (229)
128 cd00878 Arf_Arl Arf (ADP-ribos 99.4 5.9E-12 1.3E-16 86.5 9.9 99 5-107 52-157 (158)
129 cd01897 NOG NOG1 is a nucleola 99.3 9.7E-12 2.1E-16 86.2 9.1 86 20-109 79-167 (168)
130 cd01898 Obg Obg subfamily. Th 99.3 1.6E-11 3.4E-16 85.2 10.1 99 8-108 64-169 (170)
131 PLN00023 GTP-binding protein; 99.3 4.9E-11 1.1E-15 91.0 11.9 79 5-85 92-189 (334)
132 KOG3883 Ras family small GTPas 99.3 3.6E-11 7.9E-16 81.8 9.3 100 11-112 76-177 (198)
133 KOG0070 GTP-binding ADP-ribosy 99.2 1.2E-10 2.7E-15 81.3 10.4 104 5-111 70-179 (181)
134 cd04159 Arl10_like Arl10-like 99.2 7.1E-11 1.5E-15 80.3 9.2 98 6-107 54-158 (159)
135 TIGR02528 EutP ethanolamine ut 99.2 2E-11 4.3E-16 82.6 6.3 87 9-106 53-141 (142)
136 KOG0073 GTP-binding ADP-ribosy 99.2 1.7E-10 3.8E-15 79.2 10.4 101 8-112 72-180 (185)
137 TIGR02729 Obg_CgtA Obg family 99.2 1.5E-10 3.3E-15 89.1 10.6 97 11-109 224-328 (329)
138 cd04155 Arl3 Arl3 subfamily. 99.2 9.8E-11 2.1E-15 81.5 8.8 97 7-107 69-172 (173)
139 PRK04213 GTP-binding protein; 99.2 2E-11 4.4E-16 87.3 3.9 96 6-111 73-193 (201)
140 KOG0075 GTP-binding ADP-ribosy 99.2 1.9E-10 4.1E-15 77.8 8.1 102 5-109 74-181 (186)
141 cd01878 HflX HflX subfamily. 99.1 3.9E-10 8.5E-15 80.8 8.4 82 21-108 121-203 (204)
142 PRK12297 obgE GTPase CgtA; Rev 99.1 1.5E-09 3.3E-14 86.0 12.2 98 10-112 224-329 (424)
143 PRK15467 ethanolamine utilizat 99.1 7.9E-10 1.7E-14 76.6 8.4 83 20-112 64-149 (158)
144 cd01879 FeoB Ferrous iron tran 99.1 2.4E-09 5.3E-14 73.1 10.8 90 12-108 65-155 (158)
145 cd01891 TypA_BipA TypA (tyrosi 99.1 8.2E-10 1.8E-14 78.7 8.3 91 5-100 74-172 (194)
146 cd04171 SelB SelB subfamily. 99.1 8E-10 1.7E-14 75.9 7.8 97 7-107 62-163 (164)
147 cd01881 Obg_like The Obg-like 99.1 1.2E-09 2.5E-14 76.0 8.5 90 17-108 72-175 (176)
148 COG1100 GTPase SAR1 and relate 99.0 3.3E-09 7.2E-14 76.6 10.6 107 5-113 63-188 (219)
149 TIGR01393 lepA GTP-binding pro 99.0 1.3E-09 2.9E-14 89.8 9.2 98 7-112 81-182 (595)
150 PRK12288 GTPase RsgA; Reviewed 99.0 1.8E-09 3.8E-14 83.7 9.3 86 18-108 119-206 (347)
151 cd01855 YqeH YqeH. YqeH is an 99.0 1.8E-09 3.9E-14 76.8 8.0 94 9-110 24-125 (190)
152 PRK03003 GTP-binding protein D 99.0 1.2E-09 2.6E-14 88.0 7.8 100 7-111 280-383 (472)
153 TIGR03156 GTP_HflX GTP-binding 99.0 2.8E-09 6E-14 82.8 9.2 84 17-108 266-350 (351)
154 cd01859 MJ1464 MJ1464. This f 99.0 2.4E-09 5.2E-14 73.8 7.5 95 9-111 2-97 (156)
155 PRK12289 GTPase RsgA; Reviewed 99.0 4.1E-09 8.8E-14 81.8 9.6 95 8-109 78-174 (352)
156 KOG0096 GTPase Ran/TC4/GSP1 (n 99.0 3.5E-10 7.5E-15 79.4 3.2 103 5-112 68-171 (216)
157 COG2229 Predicted GTPase [Gene 99.0 5.5E-09 1.2E-13 73.1 9.1 98 5-108 77-176 (187)
158 KOG0076 GTP-binding ADP-ribosy 99.0 8.2E-10 1.8E-14 76.6 4.6 104 5-112 78-189 (197)
159 cd00882 Ras_like_GTPase Ras-li 99.0 1.2E-08 2.7E-13 67.9 9.9 95 10-106 59-156 (157)
160 KOG1673 Ras GTPases [General f 98.9 3.9E-09 8.4E-14 72.2 7.3 105 6-112 79-188 (205)
161 KOG0071 GTP-binding ADP-ribosy 98.9 5.2E-09 1.1E-13 70.4 7.0 102 5-109 70-177 (180)
162 TIGR00436 era GTP-binding prot 98.9 7.3E-09 1.6E-13 77.7 8.6 88 16-111 76-165 (270)
163 cd01887 IF2_eIF5B IF2/eIF5B (i 98.9 8.6E-09 1.9E-13 71.1 8.4 98 7-109 61-165 (168)
164 PRK12296 obgE GTPase CgtA; Rev 98.9 1.6E-08 3.4E-13 81.5 10.3 90 21-112 237-342 (500)
165 cd01854 YjeQ_engC YjeQ/EngC. 98.9 8.6E-09 1.9E-13 78.1 8.4 85 16-107 75-161 (287)
166 cd00881 GTP_translation_factor 98.9 1.4E-08 3.1E-13 71.1 9.0 96 8-109 74-186 (189)
167 TIGR00231 small_GTP small GTP- 98.9 2.8E-08 6E-13 67.0 9.9 98 6-106 60-160 (161)
168 PRK05433 GTP-binding protein L 98.9 1.4E-08 3E-13 83.9 9.7 98 7-112 85-186 (600)
169 PRK12298 obgE GTPase CgtA; Rev 98.9 3E-08 6.6E-13 78.0 10.8 94 16-112 234-335 (390)
170 PRK00098 GTPase RsgA; Reviewed 98.9 1.3E-08 2.8E-13 77.5 8.4 84 18-107 79-164 (298)
171 PRK11058 GTPase HflX; Provisio 98.9 3.4E-08 7.4E-13 78.6 11.0 87 20-112 276-364 (426)
172 TIGR03594 GTPase_EngA ribosome 98.9 2E-08 4.4E-13 79.7 9.6 90 16-111 251-345 (429)
173 PRK03003 GTP-binding protein D 98.9 1.2E-08 2.6E-13 82.2 8.4 92 9-111 107-200 (472)
174 TIGR03597 GTPase_YqeH ribosome 98.8 7.3E-09 1.6E-13 80.8 6.5 96 5-108 49-151 (360)
175 cd01889 SelB_euk SelB subfamil 98.8 3.3E-08 7.2E-13 70.3 9.3 96 11-111 80-187 (192)
176 PRK15494 era GTPase Era; Provi 98.8 3.5E-08 7.6E-13 76.4 9.5 87 17-112 129-218 (339)
177 cd01895 EngA2 EngA2 subfamily. 98.8 4.2E-08 9E-13 67.6 8.7 85 19-108 83-173 (174)
178 cd01888 eIF2_gamma eIF2-gamma 98.8 2E-08 4.3E-13 72.3 7.0 85 22-110 108-199 (203)
179 cd01894 EngA1 EngA1 subfamily. 98.8 4.8E-08 1E-12 66.4 8.5 83 15-108 72-156 (157)
180 PF00009 GTP_EFTU: Elongation 98.8 4.5E-08 9.8E-13 69.5 7.8 94 9-110 83-187 (188)
181 TIGR00487 IF-2 translation ini 98.8 7.2E-08 1.6E-12 79.4 9.9 94 5-107 144-247 (587)
182 TIGR00450 mnmE_trmE_thdF tRNA 98.8 7.4E-08 1.6E-12 77.0 9.7 85 15-113 278-363 (442)
183 TIGR00437 feoB ferrous iron tr 98.8 7E-08 1.5E-12 79.7 9.8 90 13-109 64-154 (591)
184 cd04164 trmE TrmE (MnmE, ThdF, 98.7 7.7E-08 1.7E-12 65.3 8.2 79 16-109 77-156 (157)
185 PRK05291 trmE tRNA modificatio 98.7 4.5E-08 9.7E-13 78.4 7.9 80 16-111 291-371 (449)
186 cd00880 Era_like Era (E. coli 98.7 1.3E-07 2.9E-12 63.6 8.1 88 15-108 71-162 (163)
187 PRK09518 bifunctional cytidyla 98.7 1.8E-07 3.8E-12 78.9 10.4 86 19-111 531-622 (712)
188 KOG0072 GTP-binding ADP-ribosy 98.7 6.1E-08 1.3E-12 65.6 5.7 100 9-111 75-180 (182)
189 TIGR00475 selB selenocysteine- 98.7 1.1E-07 2.4E-12 78.4 8.1 101 6-111 60-167 (581)
190 PF02421 FeoB_N: Ferrous iron 98.6 7.5E-08 1.6E-12 66.6 5.9 86 13-105 70-156 (156)
191 CHL00189 infB translation init 98.6 1.8E-07 4E-12 78.6 8.9 95 6-109 305-409 (742)
192 PRK00089 era GTPase Era; Revie 98.6 1.9E-07 4.2E-12 70.6 8.1 88 20-111 84-172 (292)
193 cd04163 Era Era subfamily. Er 98.6 1.8E-07 3.9E-12 63.8 7.0 89 14-108 77-167 (168)
194 KOG1707 Predicted Ras related/ 98.6 6.7E-08 1.4E-12 78.0 5.3 92 20-112 79-177 (625)
195 PRK05306 infB translation init 98.6 3.3E-07 7.2E-12 77.6 9.5 94 5-107 346-449 (787)
196 PRK00454 engB GTP-binding prot 98.6 1.7E-07 3.7E-12 66.4 6.7 99 7-110 91-194 (196)
197 KOG1489 Predicted GTP-binding 98.6 3.6E-07 7.7E-12 69.3 8.4 96 5-107 262-364 (366)
198 PRK00093 GTP-binding protein D 98.6 6.4E-07 1.4E-11 71.4 9.9 88 16-110 252-344 (435)
199 COG2262 HflX GTPases [General 98.6 1.1E-06 2.3E-11 68.6 10.7 87 20-112 271-358 (411)
200 PRK09518 bifunctional cytidyla 98.5 4.9E-07 1.1E-11 76.3 8.6 87 14-111 349-437 (712)
201 COG0481 LepA Membrane GTPase L 98.5 9.9E-07 2.1E-11 70.1 9.6 92 14-113 94-189 (603)
202 cd01849 YlqF_related_GTPase Yl 98.5 5.8E-07 1.3E-11 61.9 7.3 82 22-110 1-85 (155)
203 TIGR01394 TypA_BipA GTP-bindin 98.5 3.2E-07 7E-12 75.8 7.0 101 7-112 75-193 (594)
204 TIGR00491 aIF-2 translation in 98.5 9.9E-07 2.2E-11 72.8 9.3 97 6-110 79-216 (590)
205 PF08477 Miro: Miro-like prote 98.5 9E-07 2E-11 57.8 7.0 55 7-63 61-119 (119)
206 COG1162 Predicted GTPases [Gen 98.5 2E-06 4.2E-11 65.1 9.5 100 7-110 67-167 (301)
207 cd01858 NGP_1 NGP-1. Autoanti 98.4 8.5E-07 1.8E-11 61.2 6.7 86 21-109 9-94 (157)
208 COG0536 Obg Predicted GTPase [ 98.4 1.4E-06 3.1E-11 66.6 8.3 102 8-113 228-336 (369)
209 KOG0462 Elongation factor-type 98.4 9.8E-07 2.1E-11 71.1 7.7 92 14-113 143-238 (650)
210 TIGR03594 GTPase_EngA ribosome 98.4 1.3E-06 2.9E-11 69.4 7.9 89 10-111 69-161 (429)
211 PF10662 PduV-EutP: Ethanolami 98.4 7.8E-07 1.7E-11 60.6 5.6 53 52-106 89-142 (143)
212 PRK10218 GTP-binding protein; 98.4 1.8E-06 3.9E-11 71.5 8.7 102 6-112 78-197 (607)
213 TIGR03598 GTPase_YsxC ribosome 98.4 7.2E-07 1.6E-11 62.7 5.4 87 8-99 86-179 (179)
214 PRK13796 GTPase YqeH; Provisio 98.4 3E-06 6.4E-11 66.3 9.3 82 20-108 69-157 (365)
215 TIGR03680 eif2g_arch translati 98.4 1.1E-06 2.4E-11 69.6 7.0 98 9-110 93-196 (406)
216 cd04165 GTPBP1_like GTPBP1-lik 98.4 2.8E-06 6.2E-11 62.2 8.5 82 21-106 110-219 (224)
217 cd01856 YlqF YlqF. Proteins o 98.4 3.2E-06 6.9E-11 59.2 8.2 85 16-110 16-101 (171)
218 TIGR00483 EF-1_alpha translati 98.3 1.1E-06 2.4E-11 70.0 6.3 84 16-102 105-199 (426)
219 PRK04000 translation initiatio 98.3 2.7E-06 5.9E-11 67.5 8.4 95 12-110 98-201 (411)
220 PRK10512 selenocysteinyl-tRNA- 98.3 2.3E-06 4.9E-11 71.1 8.1 97 8-109 63-165 (614)
221 cd01876 YihA_EngB The YihA (En 98.3 1.7E-06 3.7E-11 59.0 6.2 94 8-108 67-169 (170)
222 PRK00093 GTP-binding protein D 98.3 3E-06 6.4E-11 67.6 8.2 82 14-108 75-160 (435)
223 COG1160 Predicted GTPases [Gen 98.3 5E-06 1.1E-10 65.8 9.2 79 20-110 83-165 (444)
224 PRK09554 feoB ferrous iron tra 98.3 5.8E-06 1.3E-10 70.3 10.1 83 20-109 85-167 (772)
225 PRK01889 GTPase RsgA; Reviewed 98.3 3.8E-06 8.2E-11 65.6 8.1 82 17-106 110-193 (356)
226 COG1159 Era GTPase [General fu 98.3 1.8E-06 4E-11 64.9 5.6 88 21-112 86-174 (298)
227 COG0532 InfB Translation initi 98.2 1.2E-05 2.5E-10 64.7 9.8 92 8-108 67-168 (509)
228 PRK14845 translation initiatio 98.2 9.4E-06 2E-10 70.7 9.3 96 6-109 536-672 (1049)
229 PRK13768 GTPase; Provisional 98.2 1.2E-05 2.5E-10 60.0 8.7 99 10-110 114-247 (253)
230 TIGR00101 ureG urease accessor 98.2 8.3E-06 1.8E-10 58.7 7.5 78 21-109 113-195 (199)
231 PRK09866 hypothetical protein; 98.2 2.3E-05 4.9E-10 65.0 10.7 88 16-107 255-350 (741)
232 cd01857 HSR1_MMR1 HSR1/MMR1. 98.2 5.5E-06 1.2E-10 56.2 6.1 73 17-97 9-84 (141)
233 TIGR03596 GTPase_YlqF ribosome 98.1 1.5E-05 3.3E-10 60.1 8.2 82 20-112 21-105 (276)
234 PRK04004 translation initiatio 98.1 2.1E-05 4.6E-10 65.1 9.6 96 6-109 81-217 (586)
235 COG1160 Predicted GTPases [Gen 98.1 5.1E-05 1.1E-09 60.2 10.7 88 18-109 258-350 (444)
236 PRK12317 elongation factor 1-a 98.1 1.2E-05 2.5E-10 64.1 7.1 81 20-102 107-197 (425)
237 cd04166 CysN_ATPS CysN_ATPS su 98.1 1.6E-05 3.4E-10 57.4 6.6 84 13-100 94-184 (208)
238 KOG0074 GTP-binding ADP-ribosy 98.0 7.6E-06 1.6E-10 55.4 4.5 97 8-107 74-176 (185)
239 smart00010 small_GTPase Small 98.0 2.2E-06 4.7E-11 56.0 1.7 78 10-99 37-115 (124)
240 PRK09563 rbgA GTPase YlqF; Rev 98.0 2.8E-05 6.1E-10 58.9 7.4 82 20-112 24-108 (287)
241 PF06858 NOG1: Nucleolar GTP-b 98.0 4E-05 8.7E-10 43.9 6.2 47 16-63 9-58 (58)
242 cd04105 SR_beta Signal recogni 98.0 2.9E-05 6.3E-10 55.9 6.9 61 5-65 57-122 (203)
243 cd04168 TetM_like Tet(M)-like 98.0 8.7E-05 1.9E-09 54.8 9.5 54 7-65 75-129 (237)
244 KOG1145 Mitochondrial translat 98.0 0.00019 4E-09 58.4 11.4 99 20-127 224-333 (683)
245 TIGR00073 hypB hydrogenase acc 97.9 2.1E-05 4.7E-10 56.7 5.6 55 53-108 149-205 (207)
246 PRK12736 elongation factor Tu; 97.9 5.2E-05 1.1E-09 59.9 8.1 86 21-110 99-201 (394)
247 cd01884 EF_Tu EF-Tu subfamily. 97.9 0.00013 2.8E-09 52.3 8.9 74 21-98 89-171 (195)
248 COG1084 Predicted GTPase [Gene 97.9 7.8E-05 1.7E-09 57.0 7.8 88 17-109 244-335 (346)
249 COG0486 ThdF Predicted GTPase 97.9 6.9E-05 1.5E-09 59.6 7.6 81 20-112 296-378 (454)
250 PLN00043 elongation factor 1-a 97.8 3.7E-05 7.9E-10 61.8 5.3 89 7-100 96-203 (447)
251 cd01896 DRG The developmentall 97.8 9.6E-05 2.1E-09 54.4 7.0 50 52-109 176-225 (233)
252 PTZ00327 eukaryotic translatio 97.8 0.00013 2.8E-09 58.8 7.8 86 21-110 141-233 (460)
253 cd01883 EF1_alpha Eukaryotic e 97.7 4.3E-05 9.4E-10 55.6 4.4 47 53-99 138-194 (219)
254 COG0218 Predicted GTPase [Gene 97.7 0.00022 4.8E-09 51.0 7.3 101 6-111 90-198 (200)
255 PRK00741 prfC peptide chain re 97.7 0.00034 7.5E-09 57.3 9.3 29 85-113 249-277 (526)
256 KOG0077 Vesicle coat complex C 97.7 0.00011 2.3E-09 51.1 5.0 96 10-108 78-191 (193)
257 TIGR00485 EF-Tu translation el 97.7 0.00029 6.3E-09 55.7 8.2 79 14-96 90-179 (394)
258 cd04167 Snu114p Snu114p subfam 97.6 0.00049 1.1E-08 49.7 8.6 54 7-65 82-136 (213)
259 PRK13351 elongation factor G; 97.6 0.00057 1.2E-08 57.8 9.3 54 7-65 84-138 (687)
260 KOG1490 GTP-binding protein CR 97.5 0.00067 1.5E-08 54.7 8.4 92 18-111 245-342 (620)
261 PRK12735 elongation factor Tu; 97.5 0.00052 1.1E-08 54.4 7.8 85 21-109 99-202 (396)
262 PRK12740 elongation factor G; 97.5 0.00075 1.6E-08 56.8 8.9 29 85-113 237-265 (668)
263 COG0370 FeoB Fe2+ transport sy 97.5 0.00059 1.3E-08 56.7 7.8 91 14-111 74-165 (653)
264 PRK09435 membrane ATPase/prote 97.5 0.0011 2.3E-08 51.4 8.8 85 18-110 167-260 (332)
265 smart00275 G_alpha G protein a 97.4 0.0027 5.9E-08 49.4 10.2 105 7-112 195-336 (342)
266 KOG1423 Ras-like GTPase ERA [C 97.4 0.00088 1.9E-08 51.1 7.1 87 20-110 155-271 (379)
267 cd01885 EF2 EF2 (for archaea a 97.4 0.001 2.2E-08 48.7 7.3 54 7-65 84-138 (222)
268 cd00066 G-alpha G protein alph 97.3 0.0033 7.1E-08 48.4 10.1 105 7-112 172-313 (317)
269 COG4917 EutP Ethanolamine util 97.3 0.001 2.3E-08 44.3 6.1 53 53-108 91-144 (148)
270 TIGR00503 prfC peptide chain r 97.3 0.0022 4.8E-08 52.6 9.2 29 85-113 250-278 (527)
271 cd04169 RF3 RF3 subfamily. Pe 97.3 0.002 4.3E-08 48.4 8.2 55 7-65 82-136 (267)
272 CHL00071 tufA elongation facto 97.3 0.0015 3.3E-08 52.0 7.9 74 21-98 99-181 (409)
273 COG0378 HypB Ni2+-binding GTPa 97.3 0.00071 1.5E-08 48.3 5.3 52 56-108 146-199 (202)
274 TIGR02034 CysN sulfate adenyly 97.2 0.0011 2.5E-08 52.6 6.8 77 20-100 103-187 (406)
275 TIGR00750 lao LAO/AO transport 97.2 0.0013 2.7E-08 50.3 6.2 58 52-110 172-238 (300)
276 PRK00049 elongation factor Tu; 97.2 0.0039 8.4E-08 49.4 9.1 85 20-108 98-201 (396)
277 PRK10463 hydrogenase nickel in 97.1 0.0012 2.5E-08 50.2 5.7 54 53-107 231-286 (290)
278 COG5257 GCD11 Translation init 97.1 0.00098 2.1E-08 51.2 5.2 60 53-113 141-205 (415)
279 PRK05124 cysN sulfate adenylyl 97.1 0.00091 2E-08 54.2 5.4 78 20-101 130-216 (474)
280 KOG1707 Predicted Ras related/ 97.1 0.003 6.5E-08 51.8 7.6 88 19-110 494-583 (625)
281 KOG0705 GTPase-activating prot 97.0 0.0032 6.9E-08 51.5 7.6 98 15-112 90-191 (749)
282 PRK05506 bifunctional sulfate 97.0 0.0034 7.4E-08 52.6 8.1 77 20-100 127-211 (632)
283 KOG0090 Signal recognition par 97.0 0.0051 1.1E-07 44.6 7.5 59 7-65 93-158 (238)
284 PLN03127 Elongation factor Tu; 97.0 0.0051 1.1E-07 49.6 8.1 86 21-110 148-252 (447)
285 KOG1532 GTPase XAB1, interacts 97.0 0.017 3.6E-07 43.8 10.1 29 84-112 238-266 (366)
286 KOG3905 Dynein light intermedi 96.9 0.012 2.5E-07 45.6 9.3 60 52-111 222-291 (473)
287 cd04104 p47_IIGP_like p47 (47- 96.9 0.011 2.4E-07 42.2 8.7 86 21-112 81-186 (197)
288 COG3276 SelB Selenocysteine-sp 96.9 0.0074 1.6E-07 48.0 8.2 97 8-109 59-161 (447)
289 PRK12739 elongation factor G; 96.7 0.011 2.4E-07 50.2 8.8 28 85-112 253-280 (691)
290 PF09439 SRPRB: Signal recogni 96.7 0.01 2.3E-07 42.1 7.1 49 16-65 72-125 (181)
291 PTZ00141 elongation factor 1- 96.7 0.0082 1.8E-07 48.4 7.3 77 20-100 108-203 (446)
292 cd04170 EF-G_bact Elongation f 96.7 0.012 2.7E-07 43.9 7.8 72 9-88 77-149 (268)
293 cd01886 EF-G Elongation factor 96.7 0.0042 9.1E-08 46.8 5.2 53 9-65 77-129 (270)
294 PLN03126 Elongation factor Tu; 96.6 0.0074 1.6E-07 49.1 6.8 74 20-97 167-249 (478)
295 KOG0461 Selenocysteine-specifi 96.3 0.022 4.7E-07 44.5 7.1 103 5-112 76-195 (522)
296 cd01899 Ygr210 Ygr210 subfamil 96.3 0.016 3.5E-07 44.7 6.5 56 51-111 213-270 (318)
297 TIGR00484 EF-G translation elo 96.3 0.027 5.9E-07 47.8 8.3 80 8-95 87-171 (689)
298 COG1217 TypA Predicted membran 96.2 0.024 5.1E-07 45.8 7.0 95 14-113 86-198 (603)
299 PF04670 Gtr1_RagA: Gtr1/RagA 96.1 0.054 1.2E-06 40.0 8.1 98 11-111 68-177 (232)
300 COG1163 DRG Predicted GTPase [ 96.1 0.022 4.7E-07 43.9 6.2 49 53-109 240-288 (365)
301 PRK00007 elongation factor G; 96.0 0.076 1.6E-06 45.2 9.7 28 85-112 255-282 (693)
302 cd04178 Nucleostemin_like Nucl 95.9 0.025 5.4E-07 39.7 5.5 43 22-65 1-43 (172)
303 KOG1144 Translation initiation 95.7 0.049 1.1E-06 46.3 7.3 105 7-116 551-693 (1064)
304 KOG1424 Predicted GTP-binding 95.6 0.021 4.6E-07 46.4 4.7 74 11-94 163-244 (562)
305 PF03029 ATP_bind_1: Conserved 95.6 0.014 3.1E-07 43.1 3.5 57 51-108 155-235 (238)
306 PF03308 ArgK: ArgK protein; 95.6 0.014 3E-07 43.7 3.2 82 19-110 141-230 (266)
307 cd01882 BMS1 Bms1. Bms1 is an 95.6 0.064 1.4E-06 39.2 6.7 76 19-98 102-184 (225)
308 COG1703 ArgK Putative periplas 95.5 0.13 2.8E-06 39.4 8.3 55 56-112 193-256 (323)
309 KOG1191 Mitochondrial GTPase [ 95.1 0.036 7.8E-07 44.9 4.5 92 20-111 348-451 (531)
310 COG5256 TEF1 Translation elong 95.1 0.099 2.1E-06 41.6 6.6 79 20-100 108-201 (428)
311 COG2895 CysN GTPases - Sulfate 95.0 0.12 2.7E-06 40.5 6.9 74 21-99 110-192 (431)
312 PRK09602 translation-associate 94.8 0.086 1.9E-06 42.0 5.9 56 51-111 216-272 (396)
313 TIGR02836 spore_IV_A stage IV 94.8 0.58 1.3E-05 37.8 10.3 65 35-106 166-233 (492)
314 smart00053 DYNc Dynamin, GTPas 94.1 0.16 3.5E-06 37.7 5.5 54 9-65 151-205 (240)
315 COG5258 GTPBP1 GTPase [General 94.0 0.38 8.3E-06 38.3 7.6 60 51-111 254-339 (527)
316 PRK13505 formate--tetrahydrofo 93.8 0.8 1.7E-05 37.9 9.4 102 3-110 305-429 (557)
317 PF05783 DLIC: Dynein light in 93.4 0.15 3.3E-06 41.5 4.7 60 53-112 197-266 (472)
318 KOG0466 Translation initiation 93.2 0.12 2.7E-06 39.8 3.6 59 53-112 180-243 (466)
319 COG1161 Predicted GTPases [Gen 93.1 0.16 3.4E-06 39.3 4.2 49 53-103 62-110 (322)
320 cd01852 AIG1 AIG1 (avrRpt2-ind 92.8 2 4.3E-05 30.4 9.4 91 20-112 83-186 (196)
321 cd01850 CDC_Septin CDC/Septin. 92.8 0.29 6.3E-06 37.0 5.2 40 52-92 143-184 (276)
322 KOG0410 Predicted GTP binding 92.5 0.1 2.3E-06 40.4 2.5 80 20-110 257-341 (410)
323 PRK07560 elongation factor EF- 92.3 0.77 1.7E-05 39.5 7.8 52 9-65 100-152 (731)
324 KOG0458 Elongation factor 1 al 92.2 0.21 4.6E-06 41.3 4.0 77 21-99 279-371 (603)
325 cd03110 Fer4_NifH_child This p 91.9 2 4.4E-05 29.7 8.4 62 20-88 114-175 (179)
326 KOG4273 Uncharacterized conser 91.8 0.54 1.2E-05 35.3 5.5 86 21-109 79-221 (418)
327 KOG0082 G-protein alpha subuni 91.7 0.43 9.4E-06 37.4 5.1 107 5-112 203-346 (354)
328 PF00503 G-alpha: G-protein al 91.5 0.35 7.6E-06 38.2 4.5 59 5-64 244-315 (389)
329 TIGR00490 aEF-2 translation el 90.6 0.46 1E-05 40.7 4.7 53 8-65 98-151 (720)
330 KOG2423 Nucleolar GTPase [Gene 90.5 1.3 2.8E-05 35.5 6.7 84 11-97 202-287 (572)
331 PF01926 MMR_HSR1: 50S ribosom 90.4 1.1 2.5E-05 28.6 5.5 38 20-61 79-116 (116)
332 KOG2484 GTPase [General functi 88.9 0.97 2.1E-05 36.0 4.9 42 20-65 146-190 (435)
333 KOG2486 Predicted GTPase [Gene 87.7 0.41 8.8E-06 36.4 2.1 92 10-107 207-313 (320)
334 COG0050 TufB GTPases - transla 87.7 1.4 3.1E-05 34.0 4.9 85 20-110 99-201 (394)
335 KOG1143 Predicted translation 86.8 2.8 6.1E-05 33.5 6.3 78 22-104 276-382 (591)
336 COG1149 MinD superfamily P-loo 86.5 5.3 0.00011 30.3 7.3 58 21-88 186-243 (284)
337 PTZ00416 elongation factor 2; 86.2 1.1 2.5E-05 39.1 4.3 43 18-65 114-157 (836)
338 KOG0468 U5 snRNP-specific prot 85.8 1 2.2E-05 38.4 3.6 44 16-64 217-261 (971)
339 PF00350 Dynamin_N: Dynamin fa 85.6 2.5 5.4E-05 28.7 5.1 50 9-62 118-168 (168)
340 PF03193 DUF258: Protein of un 83.7 3 6.5E-05 29.1 4.7 29 78-106 6-34 (161)
341 COG3640 CooC CO dehydrogenase 83.7 10 0.00022 28.3 7.6 43 20-64 155-197 (255)
342 PLN00116 translation elongatio 83.4 2.3 4.9E-05 37.3 4.9 43 18-65 120-163 (843)
343 COG0480 FusA Translation elong 82.8 5.6 0.00012 34.2 6.8 47 14-65 94-141 (697)
344 PF09419 PGP_phosphatase: Mito 81.3 16 0.00035 25.6 9.9 82 21-106 39-128 (168)
345 PF14331 ImcF-related_N: ImcF- 80.5 6.1 0.00013 29.7 5.8 21 45-65 62-82 (266)
346 KOG3886 GTP-binding protein [S 80.0 5 0.00011 30.0 4.9 52 12-65 74-129 (295)
347 PF11111 CENP-M: Centromere pr 79.6 19 0.00042 25.5 9.5 88 21-114 65-153 (176)
348 COG4108 PrfC Peptide chain rel 79.1 17 0.00036 29.8 7.8 63 16-85 101-163 (528)
349 PTZ00258 GTP-binding protein; 78.1 3.2 6.9E-05 33.1 3.7 44 52-96 220-266 (390)
350 COG4963 CpaE Flp pilus assembl 77.9 19 0.00042 28.5 7.8 52 13-65 233-284 (366)
351 COG0012 Predicted GTPase, prob 76.6 6.7 0.00015 31.0 5.0 43 51-94 205-248 (372)
352 KOG0463 GTP-binding protein GP 75.5 7.9 0.00017 31.1 5.1 27 85-112 333-359 (641)
353 TIGR00064 ftsY signal recognit 75.4 22 0.00047 26.9 7.4 77 21-109 191-267 (272)
354 cd03111 CpaE_like This protein 75.3 13 0.00029 23.5 5.5 42 20-61 64-106 (106)
355 KOG1954 Endocytosis/signaling 75.0 5.2 0.00011 32.0 4.0 49 15-65 176-224 (532)
356 COG0523 Putative GTPases (G3E 74.5 26 0.00056 27.3 7.7 34 56-92 149-184 (323)
357 cd04170 EF-G_bact Elongation f 73.9 3.1 6.7E-05 31.0 2.5 26 85-110 241-266 (268)
358 PF08438 MMR_HSR1_C: GTPase of 71.8 5.5 0.00012 25.9 3.0 31 58-93 1-32 (109)
359 KOG0460 Mitochondrial translat 71.8 13 0.00027 29.5 5.4 68 21-93 142-218 (449)
360 PLN02759 Formate--tetrahydrofo 70.7 37 0.0008 28.8 8.1 56 52-110 450-508 (637)
361 KOG2485 Conserved ATP/GTP bind 69.1 10 0.00022 29.5 4.3 14 52-65 73-86 (335)
362 KOG0447 Dynamin-like GTP bindi 69.0 41 0.00088 28.6 7.9 73 5-81 434-507 (980)
363 KOG2961 Predicted hydrolase (H 68.9 22 0.00048 24.8 5.5 62 43-107 71-132 (190)
364 TIGR03348 VI_IcmF type VI secr 68.9 28 0.00061 31.9 7.7 45 20-65 202-256 (1169)
365 PRK14974 cell division protein 68.8 28 0.00061 27.2 6.8 48 55-109 282-329 (336)
366 KOG0465 Mitochondrial elongati 68.2 12 0.00027 31.7 4.9 28 85-112 283-310 (721)
367 PF09547 Spore_IV_A: Stage IV 66.9 54 0.0012 26.9 8.1 50 38-93 169-218 (492)
368 cd02038 FleN-like FleN is a me 66.9 30 0.00065 22.9 6.0 48 15-64 62-109 (139)
369 COG3596 Predicted GTPase [Gene 66.2 25 0.00054 27.0 5.8 101 9-111 107-223 (296)
370 PRK10416 signal recognition pa 64.9 46 0.001 25.8 7.3 46 54-106 261-306 (318)
371 KOG0448 Mitofusin 1 GTPase, in 64.2 58 0.0013 28.2 8.1 42 21-65 233-274 (749)
372 cd04169 RF3 RF3 subfamily. Pe 63.2 5.7 0.00012 29.8 2.0 26 85-110 240-265 (267)
373 TIGR03371 cellulose_yhjQ cellu 62.8 55 0.0012 23.6 7.5 45 20-64 136-180 (246)
374 cd01886 EF-G Elongation factor 60.7 6.9 0.00015 29.5 2.1 26 85-110 243-268 (270)
375 COG2759 MIS1 Formyltetrahydrof 60.4 65 0.0014 26.6 7.5 102 4-111 303-427 (554)
376 cd01896 DRG The developmentall 59.0 68 0.0015 23.4 9.3 36 72-107 137-172 (233)
377 PF04548 AIG1: AIG1 family; I 58.9 63 0.0014 23.1 6.8 91 20-112 83-188 (212)
378 cd03112 CobW_like The function 58.5 21 0.00045 24.4 4.0 9 56-64 150-158 (158)
379 cd02036 MinD Bacterial cell di 57.1 58 0.0013 22.0 8.0 64 20-88 84-147 (179)
380 PRK13507 formate--tetrahydrofo 57.0 83 0.0018 26.6 7.7 55 52-109 401-457 (587)
381 cd00477 FTHFS Formyltetrahydro 56.5 83 0.0018 26.3 7.6 56 52-110 356-413 (524)
382 PRK13695 putative NTPase; Prov 55.5 65 0.0014 22.1 7.7 58 41-109 115-172 (174)
383 COG1010 CobJ Precorrin-3B meth 52.7 50 0.0011 24.7 5.3 45 18-62 152-197 (249)
384 PRK09601 GTP-binding protein Y 50.8 23 0.00049 28.1 3.6 44 52-95 199-242 (364)
385 cd02117 NifH_like This family 49.8 91 0.002 22.1 8.7 64 20-88 141-206 (212)
386 PF03709 OKR_DC_1_N: Orn/Lys/A 49.5 69 0.0015 20.6 5.8 40 22-62 38-77 (115)
387 COG1358 RPL8A Ribosomal protei 48.3 25 0.00054 23.1 2.9 43 17-65 40-83 (116)
388 PF07015 VirC1: VirC1 protein; 47.0 1.2E+02 0.0025 22.6 7.4 92 7-103 92-187 (231)
389 PRK13506 formate--tetrahydrofo 45.9 1.6E+02 0.0035 25.0 7.7 57 51-110 392-451 (578)
390 cd02033 BchX Chlorophyllide re 45.6 1.5E+02 0.0031 23.2 8.0 85 20-112 172-275 (329)
391 COG1908 FrhD Coenzyme F420-red 41.8 66 0.0014 21.4 4.1 58 54-111 56-123 (132)
392 PF01656 CbiA: CobQ/CobB/MinD/ 41.8 74 0.0016 21.8 4.8 46 20-65 116-161 (195)
393 PRK12727 flagellar biosynthesi 41.8 2.2E+02 0.0047 24.2 8.7 63 24-98 461-523 (559)
394 KOG4102 Uncharacterized conser 41.1 11 0.00023 24.8 0.3 10 138-147 57-66 (121)
395 PF07491 PPI_Ypi1: Protein pho 41.0 13 0.00027 21.5 0.6 10 138-147 31-40 (60)
396 KOG1486 GTP-binding protein DR 41.0 1.2E+02 0.0027 23.2 5.9 50 53-110 239-288 (364)
397 PTZ00386 formyl tetrahydrofola 39.2 2.4E+02 0.0051 24.2 7.8 101 4-110 371-496 (625)
398 KOG0099 G protein subunit Galp 38.6 45 0.00097 25.6 3.3 52 10-65 216-282 (379)
399 PF10881 DUF2726: Protein of u 38.5 74 0.0016 20.7 4.1 34 75-108 92-125 (126)
400 PRK05428 HPr kinase/phosphoryl 37.8 1.9E+02 0.0042 22.4 6.8 55 45-111 75-129 (308)
401 PF01268 FTHFS: Formate--tetra 36.5 37 0.00079 28.5 2.8 57 51-110 370-428 (557)
402 TIGR01968 minD_bact septum sit 35.9 1.7E+02 0.0036 21.1 7.1 43 20-64 133-175 (261)
403 TIGR01007 eps_fam capsular exo 35.8 1.5E+02 0.0033 20.7 5.8 44 20-65 150-193 (204)
404 cd03770 SR_TndX_transposase Se 35.7 1.3E+02 0.0029 19.9 6.5 49 38-91 57-106 (140)
405 cd01853 Toc34_like Toc34-like 35.2 82 0.0018 23.4 4.3 14 52-65 114-127 (249)
406 cd02067 B12-binding B12 bindin 33.7 1.2E+02 0.0027 19.2 4.6 36 25-60 53-89 (119)
407 TIGR01425 SRP54_euk signal rec 33.4 2.3E+02 0.0051 23.1 6.9 40 54-100 241-280 (429)
408 PF02603 Hpr_kinase_N: HPr Ser 33.3 50 0.0011 21.8 2.6 39 46-92 75-113 (127)
409 PF13651 EcoRI_methylase: Aden 32.6 95 0.0021 24.4 4.3 51 7-65 122-172 (336)
410 PF02492 cobW: CobW/HypB/UreG, 32.1 60 0.0013 22.5 3.1 10 56-65 145-154 (178)
411 KOG4146 Ubiquitin-like protein 32.0 27 0.00058 22.0 1.1 37 52-95 64-100 (101)
412 TIGR03677 rpl7ae 50S ribosomal 31.8 60 0.0013 21.2 2.8 39 21-65 43-82 (117)
413 TIGR02016 BchX chlorophyllide 31.2 2.4E+02 0.0051 21.5 7.4 84 20-112 147-251 (296)
414 KOG1487 GTP-binding protein DR 30.3 54 0.0012 25.2 2.6 50 52-110 231-281 (358)
415 PRK13602 putative ribosomal pr 30.2 60 0.0013 19.7 2.4 13 52-64 53-65 (82)
416 PRK14129 heat shock protein Hs 30.1 32 0.00069 22.2 1.2 33 24-57 20-53 (105)
417 TIGR00991 3a0901s02IAP34 GTP-b 30.1 1.9E+02 0.004 22.6 5.6 11 54-64 155-165 (313)
418 PF14784 ECIST_Cterm: C-termin 30.1 1.6E+02 0.0034 19.7 4.6 34 24-57 87-123 (126)
419 PRK04247 hypothetical protein; 30.1 2.4E+02 0.0051 21.1 7.5 50 33-92 186-235 (238)
420 cd01900 YchF YchF subfamily. 29.0 44 0.00096 25.3 2.0 41 53-95 196-238 (274)
421 PF07764 Omega_Repress: Omega 28.7 56 0.0012 18.9 1.9 20 91-110 44-63 (71)
422 PRK10818 cell division inhibit 28.6 2.4E+02 0.0052 20.7 6.6 45 20-64 135-185 (270)
423 PRK04175 rpl7ae 50S ribosomal 28.4 75 0.0016 20.9 2.8 39 21-65 47-86 (122)
424 cd02042 ParA ParA and ParB of 28.0 1.5E+02 0.0032 18.1 5.3 23 21-43 62-84 (104)
425 KOG0467 Translation elongation 27.9 1.2E+02 0.0027 26.8 4.6 12 52-63 124-135 (887)
426 COG3233 Predicted deacetylase 27.7 1.7E+02 0.0038 21.6 4.8 41 23-63 5-46 (233)
427 PRK13600 putative ribosomal pr 27.1 88 0.0019 19.3 2.8 38 21-64 30-67 (84)
428 TIGR00484 EF-G translation elo 26.5 44 0.00096 28.7 1.8 28 85-112 254-281 (689)
429 PRK00771 signal recognition pa 25.8 3.3E+02 0.0071 22.3 6.5 38 56-100 236-273 (437)
430 PF13124 DUF3963: Protein of u 25.7 72 0.0016 16.3 1.8 12 34-45 12-23 (40)
431 cd03114 ArgK-like The function 25.4 1.6E+02 0.0034 19.8 4.1 8 56-63 141-148 (148)
432 COG3785 Uncharacterized conser 25.4 17 0.00037 23.4 -0.6 28 21-49 26-53 (116)
433 PF00205 TPP_enzyme_M: Thiamin 25.0 1.7E+02 0.0036 19.1 4.1 36 51-91 11-46 (137)
434 PRK13185 chlL protochlorophyll 24.7 2.9E+02 0.0062 20.3 7.7 43 21-63 141-185 (270)
435 PF00448 SRP54: SRP54-type pro 24.1 2.7E+02 0.0058 19.8 5.9 38 56-100 144-181 (196)
436 PTZ00222 60S ribosomal protein 23.4 1.1E+02 0.0023 23.2 3.1 40 21-65 149-188 (263)
437 PF02084 Bindin: Bindin; Inte 23.3 1.5E+02 0.0033 21.9 3.8 53 54-113 110-164 (238)
438 PTZ00365 60S ribosomal protein 23.2 98 0.0021 23.4 2.9 40 21-65 149-188 (266)
439 cd02071 MM_CoA_mut_B12_BD meth 22.3 2.3E+02 0.0049 18.2 4.9 38 24-61 53-90 (122)
440 PRK01018 50S ribosomal protein 22.1 1E+02 0.0022 19.4 2.5 13 52-64 58-71 (99)
441 cd00338 Ser_Recombinase Serine 22.0 2.3E+02 0.0049 18.1 5.7 35 56-91 68-102 (137)
442 smart00857 Resolvase Resolvase 21.9 1.8E+02 0.0038 19.1 3.8 49 38-91 54-102 (148)
443 TIGR00679 hpr-ser Hpr(Ser) kin 21.8 3.9E+02 0.0084 20.8 6.1 40 45-92 75-114 (304)
444 KOG1249 Predicted GTPases [Gen 21.7 2.7E+02 0.0058 23.6 5.3 22 88-109 189-210 (572)
445 PRK07714 hypothetical protein; 21.6 1.1E+02 0.0024 19.1 2.6 13 52-64 60-72 (100)
446 PRK13601 putative L7Ae-like ri 21.6 1.1E+02 0.0024 18.6 2.5 14 51-64 49-62 (82)
447 TIGR00959 ffh signal recogniti 21.1 4.6E+02 0.01 21.4 7.4 38 56-100 243-280 (428)
448 PF05049 IIGP: Interferon-indu 21.1 1.7E+02 0.0037 23.4 4.0 86 22-113 116-221 (376)
449 PF15349 DCA16: DDB1- and CUL4 21.0 34 0.00074 23.5 0.1 10 139-148 171-180 (216)
450 PRK12311 rpsB 30S ribosomal pr 20.8 2.2E+02 0.0047 22.3 4.5 55 8-64 17-71 (326)
451 PTZ00271 hypoxanthine-guanine 20.8 2.4E+02 0.0051 20.6 4.4 38 24-62 121-158 (211)
452 PF03215 Rad17: Rad17 cell cyc 20.6 4.9E+02 0.011 21.8 6.7 43 21-64 132-177 (519)
453 PRK04017 hypothetical protein; 20.4 2E+02 0.0044 19.3 3.7 31 33-64 4-34 (132)
454 COG4502 5'(3')-deoxyribonucleo 20.4 1.9E+02 0.004 20.1 3.5 29 33-62 97-125 (180)
455 COG4359 Uncharacterized conser 20.3 2.2E+02 0.0047 20.7 4.0 33 74-106 79-111 (220)
456 COG2179 Predicted hydrolase of 20.3 3.3E+02 0.0071 19.3 5.8 43 36-91 49-91 (175)
457 PF07846 Metallothio_Cad: Meta 20.3 57 0.0012 14.4 0.7 8 140-147 13-20 (21)
458 PRK05583 ribosomal protein L7A 20.1 2.2E+02 0.0048 18.1 3.8 13 52-64 59-71 (104)
459 COG4108 PrfC Peptide chain rel 20.1 72 0.0016 26.3 1.8 29 85-113 251-279 (528)
460 COG0052 RpsB Ribosomal protein 20.0 3.7E+02 0.0081 20.3 5.3 67 9-87 23-91 (252)
No 1
>KOG0084 consensus GTPase Rab1/YPT1, small G protein superfamily, and related GTP-binding proteins [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]
Probab=99.94 E-value=2.3e-26 Score=160.81 Aligned_cols=135 Identities=33% Similarity=0.553 Sum_probs=115.8
Q ss_pred ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHh
Q 032001 5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEY 83 (149)
Q Consensus 5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~ 83 (149)
+-|||+++..+||+++++ ||+|||+++ .||+.+..|+.++..+..+++|.++||||+|+. +.+.+..+++..++..+
T Consensus 67 GQERFrtit~syYR~ahG-ii~vyDiT~~~SF~~v~~Wi~Ei~~~~~~~v~~lLVGNK~Dl~-~~~~v~~~~a~~fa~~~ 144 (205)
T KOG0084|consen 67 GQERFRTITSSYYRGAHG-IIFVYDITKQESFNNVKRWIQEIDRYASENVPKLLVGNKCDLT-EKRVVSTEEAQEFADEL 144 (205)
T ss_pred ccHHHhhhhHhhccCCCe-EEEEEEcccHHHhhhHHHHHHHhhhhccCCCCeEEEeeccccH-hheecCHHHHHHHHHhc
Confidence 558999999999999988 799999998 999999999999999988899999999999998 78889999999999999
Q ss_pred CCc-EEEecCCCCCCHHHHHHHHHHHHHHHhcCCCCC--CCCCcccccCCCCCCCCCCCCCCCCccC
Q 032001 84 GIK-FFETSAKTNLNVEQVFFSIARDIKQRLADTDSR--SEPSTIKINQPDQAGGVGQAAQKSACCG 147 (149)
Q Consensus 84 ~~~-~~~~Sak~~~~i~el~~~l~~~i~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~Cc~ 147 (149)
+++ ++++|||.+.||++.|..|+..+..++...... ...++++++++. ..+..++||+
T Consensus 145 ~~~~f~ETSAK~~~NVe~~F~~la~~lk~~~~~~~~~~~~~~~~~ql~~~p------~~~~~~~~C~ 205 (205)
T KOG0084|consen 145 GIPIFLETSAKDSTNVEDAFLTLAKELKQRKGLHVKWSTASLESVQLKGTP------VKKSNGGCCE 205 (205)
T ss_pred CCcceeecccCCccCHHHHHHHHHHHHHHhcccCCCCCcCCCCceeeCCCC------cccccCCCCC
Confidence 998 999999999999999999999998876554222 356777777632 3344455774
No 2
>KOG0092 consensus GTPase Rab5/YPT51 and related small G protein superfamily GTPases [Intracellular trafficking, secretion, and vesicular transport]
Probab=99.93 E-value=1.7e-25 Score=155.97 Aligned_cols=135 Identities=30% Similarity=0.498 Sum_probs=112.1
Q ss_pred ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHh
Q 032001 5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEY 83 (149)
Q Consensus 5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~ 83 (149)
|.|||.++.|-|||+++. +|+|||+++ +||..++.|+.++.+..++++-+.+||||+||. ..+.+..+++..++...
T Consensus 63 GQERy~slapMYyRgA~A-AivvYDit~~~SF~~aK~WvkeL~~~~~~~~vialvGNK~DL~-~~R~V~~~ea~~yAe~~ 140 (200)
T KOG0092|consen 63 GQERYHSLAPMYYRGANA-AIVVYDITDEESFEKAKNWVKELQRQASPNIVIALVGNKADLL-ERREVEFEEAQAYAESQ 140 (200)
T ss_pred CcccccccccceecCCcE-EEEEEecccHHHHHHHHHHHHHHHhhCCCCeEEEEecchhhhh-hcccccHHHHHHHHHhc
Confidence 679999999999999977 799999999 999999999999999888889999999999998 67899999999999999
Q ss_pred CCcEEEecCCCCCCHHHHHHHHHHHHHHHhcCCCC--CCCCCcccccCCCCCCCCCCCCCCCCccC
Q 032001 84 GIKFFETSAKTNLNVEQVFFSIARDIKQRLADTDS--RSEPSTIKINQPDQAGGVGQAAQKSACCG 147 (149)
Q Consensus 84 ~~~~~~~Sak~~~~i~el~~~l~~~i~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~Cc~ 147 (149)
+..++++|||||.||+++|..|++.++....+... ...+.+..+.... +....++||+
T Consensus 141 gll~~ETSAKTg~Nv~~if~~Ia~~lp~~~~~~~~~~~~~~~g~~l~~~~------~~~~~~~~C~ 200 (200)
T KOG0092|consen 141 GLLFFETSAKTGENVNEIFQAIAEKLPCSDPQERQGLPNRRQGVDLNSNQ------EPARPSGCCA 200 (200)
T ss_pred CCEEEEEecccccCHHHHHHHHHHhccCccccccccccccccceecccCC------CCcCcCCcCC
Confidence 99999999999999999999999999876544322 1112344444321 3445567775
No 3
>KOG0078 consensus GTP-binding protein SEC4, small G protein superfamily, and related Ras family GTP-binding proteins [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]
Probab=99.93 E-value=9.8e-25 Score=154.31 Aligned_cols=111 Identities=50% Similarity=0.791 Sum_probs=103.5
Q ss_pred cccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHH
Q 032001 4 LRCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADE 82 (149)
Q Consensus 4 ~~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~ 82 (149)
.|.|||+.+...||+++.+ +++|||+++ .||+++..|+..+.++.+.++|+++||||+|+. ..+++..+...+++.+
T Consensus 69 aGQerf~ti~~sYyrgA~g-i~LvyDitne~Sfeni~~W~~~I~e~a~~~v~~~LvGNK~D~~-~~R~V~~e~ge~lA~e 146 (207)
T KOG0078|consen 69 AGQERFRTITTAYYRGAMG-ILLVYDITNEKSFENIRNWIKNIDEHASDDVVKILVGNKCDLE-EKRQVSKERGEALARE 146 (207)
T ss_pred ccchhHHHHHHHHHhhcCe-eEEEEEccchHHHHHHHHHHHHHHhhCCCCCcEEEeecccccc-ccccccHHHHHHHHHH
Confidence 4679999999999999999 799999998 999999999999999988899999999999998 7889999999999999
Q ss_pred hCCcEEEecCCCCCCHHHHHHHHHHHHHHHhcCC
Q 032001 83 YGIKFFETSAKTNLNVEQVFFSIARDIKQRLADT 116 (149)
Q Consensus 83 ~~~~~~~~Sak~~~~i~el~~~l~~~i~~~~~~~ 116 (149)
+|+.++++|||+|.||++.|..|++.+..+....
T Consensus 147 ~G~~F~EtSAk~~~NI~eaF~~La~~i~~k~~~~ 180 (207)
T KOG0078|consen 147 YGIKFFETSAKTNFNIEEAFLSLARDILQKLEDA 180 (207)
T ss_pred hCCeEEEccccCCCCHHHHHHHHHHHHHhhcchh
Confidence 9999999999999999999999999998765543
No 4
>KOG0098 consensus GTPase Rab2, small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]
Probab=99.92 E-value=1.1e-24 Score=151.22 Aligned_cols=110 Identities=33% Similarity=0.574 Sum_probs=103.6
Q ss_pred ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHh
Q 032001 5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEY 83 (149)
Q Consensus 5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~ 83 (149)
|-|+|++.+..||+++.+ +++|||++. +||+++..|+.+++++..+++.|+++|||+||. ..+.+..++...|++++
T Consensus 64 Gqe~frsv~~syYr~a~G-alLVydit~r~sF~hL~~wL~D~rq~~~~NmvImLiGNKsDL~-~rR~Vs~EEGeaFA~eh 141 (216)
T KOG0098|consen 64 GQESFRSVTRSYYRGAAG-ALLVYDITRRESFNHLTSWLEDARQHSNENMVIMLIGNKSDLE-ARREVSKEEGEAFAREH 141 (216)
T ss_pred CcHHHHHHHHHHhccCcc-eEEEEEccchhhHHHHHHHHHHHHHhcCCCcEEEEEcchhhhh-ccccccHHHHHHHHHHc
Confidence 568899999999999999 699999998 999999999999999887899999999999998 88899999999999999
Q ss_pred CCcEEEecCCCCCCHHHHHHHHHHHHHHHhcCC
Q 032001 84 GIKFFETSAKTNLNVEQVFFSIARDIKQRLADT 116 (149)
Q Consensus 84 ~~~~~~~Sak~~~~i~el~~~l~~~i~~~~~~~ 116 (149)
++.++++||++++||+|.|...+..+....+..
T Consensus 142 gLifmETSakt~~~VEEaF~nta~~Iy~~~q~g 174 (216)
T KOG0098|consen 142 GLIFMETSAKTAENVEEAFINTAKEIYRKIQDG 174 (216)
T ss_pred CceeehhhhhhhhhHHHHHHHHHHHHHHHHHhc
Confidence 999999999999999999999999999887665
No 5
>KOG0094 consensus GTPase Rab6/YPT6/Ryh1, small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]
Probab=99.91 E-value=4.3e-24 Score=149.31 Aligned_cols=108 Identities=31% Similarity=0.461 Sum_probs=98.7
Q ss_pred ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCC-CCeEEEEeeCCCCCcCCCCCCHHHHHHHHHH
Q 032001 5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASD-NVNKVLVGNKADMDESKRAVPTSKGQALADE 82 (149)
Q Consensus 5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~-~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~ 82 (149)
|-|||+++.|.|+++... +|+|||+++ .||++..+|+++++...+. ++.|++||||.||. +.+++..++....+++
T Consensus 80 GQERFrslipsY~Rds~v-aviVyDit~~~Sfe~t~kWi~dv~~e~gs~~viI~LVGnKtDL~-dkrqvs~eEg~~kAke 157 (221)
T KOG0094|consen 80 GQERFRSLIPSYIRDSSV-AVIVYDITDRNSFENTSKWIEDVRRERGSDDVIIFLVGNKTDLS-DKRQVSIEEGERKAKE 157 (221)
T ss_pred cHHHHhhhhhhhccCCeE-EEEEEeccccchHHHHHHHHHHHHhccCCCceEEEEEccccccc-chhhhhHHHHHHHHHH
Confidence 569999999999999977 688999998 9999999999999887665 58999999999999 8888888888889999
Q ss_pred hCCcEEEecCCCCCCHHHHHHHHHHHHHHHhc
Q 032001 83 YGIKFFETSAKTNLNVEQVFFSIARDIKQRLA 114 (149)
Q Consensus 83 ~~~~~~~~Sak~~~~i~el~~~l~~~i~~~~~ 114 (149)
++..|+++||+.|.||.++|..|+..+++...
T Consensus 158 l~a~f~etsak~g~NVk~lFrrIaa~l~~~~~ 189 (221)
T KOG0094|consen 158 LNAEFIETSAKAGENVKQLFRRIAAALPGMEV 189 (221)
T ss_pred hCcEEEEecccCCCCHHHHHHHHHHhccCccc
Confidence 99999999999999999999999999987744
No 6
>KOG0080 consensus GTPase Rab18, small G protein superfamily [General function prediction only]
Probab=99.90 E-value=1.8e-23 Score=142.25 Aligned_cols=139 Identities=24% Similarity=0.382 Sum_probs=111.5
Q ss_pred ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcC-CCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHH
Q 032001 5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHAS-DNVNKVLVGNKADMDESKRAVPTSKGQALADE 82 (149)
Q Consensus 5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~-~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~ 82 (149)
|-||||.+++.||+++.+ +|+|||++. ++|..++.|+.++..+.. +++..++||||+|.. .++.+..++...+++.
T Consensus 69 GqErFRtLTpSyyRgaqG-iIlVYDVT~Rdtf~kLd~W~~Eld~Ystn~diikmlVgNKiDke-s~R~V~reEG~kfAr~ 146 (209)
T KOG0080|consen 69 GQERFRTLTPSYYRGAQG-IILVYDVTSRDTFVKLDIWLKELDLYSTNPDIIKMLVGNKIDKE-SERVVDREEGLKFARK 146 (209)
T ss_pred chHhhhccCHhHhccCce-eEEEEEccchhhHHhHHHHHHHHHhhcCCccHhHhhhcccccch-hcccccHHHHHHHHHh
Confidence 579999999999999999 799999998 999999999999988764 778889999999976 7888999999999999
Q ss_pred hCCcEEEecCCCCCCHHHHHHHHHHHHHHHhcCCCCCCCCCcccccCCCCCCCCCCCCCCCCccCC
Q 032001 83 YGIKFFETSAKTNLNVEQVFFSIARDIKQRLADTDSRSEPSTIKINQPDQAGGVGQAAQKSACCGG 148 (149)
Q Consensus 83 ~~~~~~~~Sak~~~~i~el~~~l~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Cc~~ 148 (149)
++.-++++||++.+||+..|+.|++.|.+...--++.+...+..+..... . . .....++||.|
T Consensus 147 h~~LFiE~SAkt~~~V~~~FeelveKIi~tp~l~~~~n~~~~~~i~~~p~-~-~-~~~~~g~~Cs~ 209 (209)
T KOG0080|consen 147 HRCLFIECSAKTRENVQCCFEELVEKIIETPSLWEEGNSSAGLDIASDPD-G-E-ASAHQGGCCSC 209 (209)
T ss_pred hCcEEEEcchhhhccHHHHHHHHHHHHhcCcchhhccCCccccccccCCC-c-c-cccccCCccCC
Confidence 99999999999999999999999999977633223333334444443211 0 0 12344678875
No 7
>KOG0091 consensus GTPase Rab39, small G protein superfamily [General function prediction only]
Probab=99.90 E-value=1.4e-22 Score=138.18 Aligned_cols=110 Identities=30% Similarity=0.459 Sum_probs=100.4
Q ss_pred ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcC--CCCeEEEEeeCCCCCcCCCCCCHHHHHHHHH
Q 032001 5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHAS--DNVNKVLVGNKADMDESKRAVPTSKGQALAD 81 (149)
Q Consensus 5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~--~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~ 81 (149)
|-|||++++..||++..+ +++|||+++ +||+++..|+.+..-+.. .++-+.+||+|.||. ..+++..+++..++.
T Consensus 67 gqerfrsitksyyrnsvg-vllvyditnr~sfehv~~w~~ea~m~~q~P~k~VFlLVGhKsDL~-SqRqVt~EEaEklAa 144 (213)
T KOG0091|consen 67 GQERFRSITKSYYRNSVG-VLLVYDITNRESFEHVENWVKEAAMATQGPDKVVFLLVGHKSDLQ-SQRQVTAEEAEKLAA 144 (213)
T ss_pred chHHHHHHHHHHhhcccc-eEEEEeccchhhHHHHHHHHHHHHHhcCCCCeeEEEEeccccchh-hhccccHHHHHHHHH
Confidence 568999999999999988 799999998 999999999999876543 456668999999998 889999999999999
Q ss_pred HhCCcEEEecCCCCCCHHHHHHHHHHHHHHHhcCC
Q 032001 82 EYGIKFFETSAKTNLNVEQVFFSIARDIKQRLADT 116 (149)
Q Consensus 82 ~~~~~~~~~Sak~~~~i~el~~~l~~~i~~~~~~~ 116 (149)
.+|+.++++||++|.||++.|+.|++.++..+.+.
T Consensus 145 ~hgM~FVETSak~g~NVeEAF~mlaqeIf~~i~qG 179 (213)
T KOG0091|consen 145 SHGMAFVETSAKNGCNVEEAFDMLAQEIFQAIQQG 179 (213)
T ss_pred hcCceEEEecccCCCcHHHHHHHHHHHHHHHHhcC
Confidence 99999999999999999999999999999887663
No 8
>KOG0079 consensus GTP-binding protein H-ray, small G protein superfamily [General function prediction only]
Probab=99.90 E-value=2.1e-23 Score=140.19 Aligned_cols=124 Identities=29% Similarity=0.475 Sum_probs=108.5
Q ss_pred cccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHH
Q 032001 4 LRCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADE 82 (149)
Q Consensus 4 ~~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~ 82 (149)
-|.|||+.|+..||++.++ +++|||+++ +||....+|+++++++. +.+|-|+||||.|.+ +.+.+..+.+..|+..
T Consensus 65 AGqErFrtitstyyrgthg-v~vVYDVTn~ESF~Nv~rWLeei~~nc-dsv~~vLVGNK~d~~-~RrvV~t~dAr~~A~~ 141 (198)
T KOG0079|consen 65 AGQERFRTITSTYYRGTHG-VIVVYDVTNGESFNNVKRWLEEIRNNC-DSVPKVLVGNKNDDP-ERRVVDTEDARAFALQ 141 (198)
T ss_pred ccHHHHHHHHHHHccCCce-EEEEEECcchhhhHhHHHHHHHHHhcC-ccccceecccCCCCc-cceeeehHHHHHHHHh
Confidence 3679999999999999988 799999999 99999999999999877 589999999999998 7777888899999999
Q ss_pred hCCcEEEecCCCCCCHHHHHHHHHHHHHHHh-cCCCCCCCCCcccccCC
Q 032001 83 YGIKFFETSAKTNLNVEQVFFSIARDIKQRL-ADTDSRSEPSTIKINQP 130 (149)
Q Consensus 83 ~~~~~~~~Sak~~~~i~el~~~l~~~i~~~~-~~~~~~~~~~~~~~~~~ 130 (149)
+++..|++|||.+.|++..|.-|.+.+...+ ..+....+....++.+.
T Consensus 142 mgie~FETSaKe~~NvE~mF~cit~qvl~~k~r~~~~~~r~~~~~l~~n 190 (198)
T KOG0079|consen 142 MGIELFETSAKENENVEAMFHCITKQVLQAKLRESVEQQRADAVSLKDN 190 (198)
T ss_pred cCchheehhhhhcccchHHHHHHHHHHHHHHHhhcHHHHhhcceEeccC
Confidence 9999999999999999999999999888765 33444555566666655
No 9
>KOG0088 consensus GTPase Rab21, small G protein superfamily [General function prediction only]
Probab=99.89 E-value=8.5e-23 Score=138.72 Aligned_cols=109 Identities=24% Similarity=0.445 Sum_probs=101.2
Q ss_pred ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHh
Q 032001 5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEY 83 (149)
Q Consensus 5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~ 83 (149)
+-|||-.+-|.||++.++ +++|||+++ .||..++.|..++++..++.+-+++||||+||. ..+.+...++..+++.-
T Consensus 71 GQErfHALGPIYYRgSnG-alLVyDITDrdSFqKVKnWV~Elr~mlGnei~l~IVGNKiDLE-eeR~Vt~qeAe~YAesv 148 (218)
T KOG0088|consen 71 GQERFHALGPIYYRGSNG-ALLVYDITDRDSFQKVKNWVLELRTMLGNEIELLIVGNKIDLE-EERQVTRQEAEAYAESV 148 (218)
T ss_pred chHhhhccCceEEeCCCc-eEEEEeccchHHHHHHHHHHHHHHHHhCCeeEEEEecCcccHH-HhhhhhHHHHHHHHHhh
Confidence 568999999999999998 689999998 999999999999999888899999999999997 78889999999999999
Q ss_pred CCcEEEecCCCCCCHHHHHHHHHHHHHHHhcC
Q 032001 84 GIKFFETSAKTNLNVEQVFFSIARDIKQRLAD 115 (149)
Q Consensus 84 ~~~~~~~Sak~~~~i~el~~~l~~~i~~~~~~ 115 (149)
|..++++||+.+.||.++|..|...+.+..++
T Consensus 149 GA~y~eTSAk~N~Gi~elFe~Lt~~MiE~~s~ 180 (218)
T KOG0088|consen 149 GALYMETSAKDNVGISELFESLTAKMIEHSSQ 180 (218)
T ss_pred chhheecccccccCHHHHHHHHHHHHHHHhhh
Confidence 99999999999999999999999988877543
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=99.88 E-value=1.7e-21 Score=141.95 Aligned_cols=111 Identities=23% Similarity=0.292 Sum_probs=93.1
Q ss_pred ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCc-----------------
Q 032001 5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDE----------------- 66 (149)
Q Consensus 5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~----------------- 66 (149)
|.++|..++..||++++. +|+|||+++ .+|+.+..|+..+.+....++|+|+|+||+|+.+
T Consensus 53 G~e~~~~l~~~~~~~ad~-~IlV~Dvt~~~Sf~~l~~~~~~l~~~~~~~~piIlVgNK~DL~~~~~~~~~~~~~~~~~~~ 131 (220)
T cd04126 53 GREQFHGLGSMYCRGAAA-VILTYDVSNVQSLEELEDRFLGLTDTANEDCLFAVVGNKLDLTEEGALAGQEKDAGDRVSP 131 (220)
T ss_pred CcccchhhHHHHhccCCE-EEEEEECCCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECcccccccccccccccccccccc
Confidence 557899999999988755 789999998 8999999998888765556799999999999962
Q ss_pred -CCCCCCHHHHHHHHHHhC--------------CcEEEecCCCCCCHHHHHHHHHHHHHHHhcCC
Q 032001 67 -SKRAVPTSKGQALADEYG--------------IKFFETSAKTNLNVEQVFFSIARDIKQRLADT 116 (149)
Q Consensus 67 -~~~~~~~~~~~~~~~~~~--------------~~~~~~Sak~~~~i~el~~~l~~~i~~~~~~~ 116 (149)
..+.+..+++..+++..+ .+++++||++|.||+++|..+++.+.+...+.
T Consensus 132 ~~~r~v~~~e~~~~a~~~~~~~~~~~~~~~~~~~~~~E~SA~tg~~V~elf~~i~~~~~~~~~~~ 196 (220)
T cd04126 132 EDQRQVTLEDAKAFYKRINKYKMLDEDLSPAAEKMCFETSAKTGYNVDELFEYLFNLVLPLILAQ 196 (220)
T ss_pred cccccCCHHHHHHHHHHhCccccccccccccccceEEEeeCCCCCCHHHHHHHHHHHHHHHHHhh
Confidence 146677788888888876 67999999999999999999999888765443
No 11
>KOG0087 consensus GTPase Rab11/YPT3, small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]
Probab=99.88 E-value=1.3e-21 Score=138.40 Aligned_cols=109 Identities=30% Similarity=0.526 Sum_probs=101.3
Q ss_pred ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHh
Q 032001 5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEY 83 (149)
Q Consensus 5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~ 83 (149)
|-|||+.+.+.||+++.+ .++|||++. .+|+.+.+|+.+++.+..+++++++||||+||. ..+.++.+++..+++..
T Consensus 72 GQERyrAitSaYYrgAvG-AllVYDITr~~Tfenv~rWL~ELRdhad~nivimLvGNK~DL~-~lraV~te~~k~~Ae~~ 149 (222)
T KOG0087|consen 72 GQERYRAITSAYYRGAVG-ALLVYDITRRQTFENVERWLKELRDHADSNIVIMLVGNKSDLN-HLRAVPTEDGKAFAEKE 149 (222)
T ss_pred chhhhccccchhhcccce-eEEEEechhHHHHHHHHHHHHHHHhcCCCCeEEEEeecchhhh-hccccchhhhHhHHHhc
Confidence 568999999999999988 699999998 999999999999999998999999999999997 67888999999999999
Q ss_pred CCcEEEecCCCCCCHHHHHHHHHHHHHHHhcC
Q 032001 84 GIKFFETSAKTNLNVEQVFFSIARDIKQRLAD 115 (149)
Q Consensus 84 ~~~~~~~Sak~~~~i~el~~~l~~~i~~~~~~ 115 (149)
++.++++||..+.||+.+|..+...|.....+
T Consensus 150 ~l~f~EtSAl~~tNVe~aF~~~l~~I~~~vs~ 181 (222)
T KOG0087|consen 150 GLFFLETSALDATNVEKAFERVLTEIYKIVSK 181 (222)
T ss_pred CceEEEecccccccHHHHHHHHHHHHHHHHHH
Confidence 99999999999999999999999999876544
No 12
>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=99.87 E-value=3.7e-21 Score=138.57 Aligned_cols=107 Identities=29% Similarity=0.565 Sum_probs=93.3
Q ss_pred ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHh
Q 032001 5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEY 83 (149)
Q Consensus 5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~ 83 (149)
|.++|+++|+.||+++++ +++|||+++ .||+.+..|+..+.+....++|+++||||+|+. ..+.+...++..+++..
T Consensus 58 Gqe~~~~l~~~y~~~ad~-iIlVfDvtd~~Sf~~l~~w~~~i~~~~~~~~piilVgNK~DL~-~~~~v~~~~~~~~a~~~ 135 (202)
T cd04120 58 GQERFNSITSAYYRSAKG-IILVYDITKKETFDDLPKWMKMIDKYASEDAELLLVGNKLDCE-TDREISRQQGEKFAQQI 135 (202)
T ss_pred CchhhHHHHHHHhcCCCE-EEEEEECcCHHHHHHHHHHHHHHHHhCCCCCcEEEEEECcccc-cccccCHHHHHHHHHhc
Confidence 568999999999998866 788999998 999999999999877655789999999999997 56777777778888775
Q ss_pred -CCcEEEecCCCCCCHHHHHHHHHHHHHHHh
Q 032001 84 -GIKFFETSAKTNLNVEQVFFSIARDIKQRL 113 (149)
Q Consensus 84 -~~~~~~~Sak~~~~i~el~~~l~~~i~~~~ 113 (149)
++.++++||++|.||+++|.++++.+....
T Consensus 136 ~~~~~~etSAktg~gV~e~F~~l~~~~~~~~ 166 (202)
T cd04120 136 TGMRFCEASAKDNFNVDEIFLKLVDDILKKM 166 (202)
T ss_pred CCCEEEEecCCCCCCHHHHHHHHHHHHHHhC
Confidence 788999999999999999999999887653
No 13
>KOG0086 consensus GTPase Rab4, small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]
Probab=99.87 E-value=1.2e-21 Score=132.43 Aligned_cols=125 Identities=30% Similarity=0.421 Sum_probs=114.5
Q ss_pred ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHh
Q 032001 5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEY 83 (149)
Q Consensus 5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~ 83 (149)
+-|||++....||+++++ .++|||++. ++|+.+..|+.+++...++++-+|++|||.||. +.+++...++..+++++
T Consensus 67 GQErFRSVtRsYYRGAAG-AlLVYD~TsrdsfnaLtnWL~DaR~lAs~nIvviL~GnKkDL~-~~R~VtflEAs~FaqEn 144 (214)
T KOG0086|consen 67 GQERFRSVTRSYYRGAAG-ALLVYDITSRDSFNALTNWLTDARTLASPNIVVILCGNKKDLD-PEREVTFLEASRFAQEN 144 (214)
T ss_pred cHHHHHHHHHHHhccccc-eEEEEeccchhhHHHHHHHHHHHHhhCCCcEEEEEeCChhhcC-hhhhhhHHHHHhhhccc
Confidence 568999999999999999 588999998 999999999999999888999999999999998 78899999999999999
Q ss_pred CCcEEEecCCCCCCHHHHHHHHHHHHHHHhcCC--CCCCCCCcccccCCC
Q 032001 84 GIKFFETSAKTNLNVEQVFFSIARDIKQRLADT--DSRSEPSTIKINQPD 131 (149)
Q Consensus 84 ~~~~~~~Sak~~~~i~el~~~l~~~i~~~~~~~--~~~~~~~~~~~~~~~ 131 (149)
.+.+.++||+||+||+|.|-..++.|..+++.. +++....+|+++...
T Consensus 145 el~flETSa~TGeNVEEaFl~c~~tIl~kIE~GElDPer~gsGIQYGdas 194 (214)
T KOG0086|consen 145 ELMFLETSALTGENVEEAFLKCARTILNKIESGELDPERMGSGIQYGDAS 194 (214)
T ss_pred ceeeeeecccccccHHHHHHHHHHHHHHHHhhcCCCHHHcccccccchhh
Confidence 998999999999999999999999999887654 777788899998665
No 14
>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=99.86 E-value=7.1e-21 Score=135.77 Aligned_cols=107 Identities=33% Similarity=0.533 Sum_probs=94.4
Q ss_pred ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHh
Q 032001 5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEY 83 (149)
Q Consensus 5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~ 83 (149)
|.++|..+++.||+++++ +++|||+++ .||+.+..|++++.... +++|+|+||||.|+. ..+.+..+++..+++..
T Consensus 64 G~~~~~~l~~~~~~~ad~-illVfD~t~~~Sf~~~~~w~~~i~~~~-~~~piilVGNK~DL~-~~~~v~~~~~~~~a~~~ 140 (189)
T cd04121 64 GQGRFCTIFRSYSRGAQG-IILVYDITNRWSFDGIDRWIKEIDEHA-PGVPKILVGNRLHLA-FKRQVATEQAQAYAERN 140 (189)
T ss_pred CcHHHHHHHHHHhcCCCE-EEEEEECcCHHHHHHHHHHHHHHHHhC-CCCCEEEEEECccch-hccCCCHHHHHHHHHHc
Confidence 558899999999987755 899999998 99999999999997765 589999999999997 55667788889999999
Q ss_pred CCcEEEecCCCCCCHHHHHHHHHHHHHHHhc
Q 032001 84 GIKFFETSAKTNLNVEQVFFSIARDIKQRLA 114 (149)
Q Consensus 84 ~~~~~~~Sak~~~~i~el~~~l~~~i~~~~~ 114 (149)
+.+++++||++|.||+++|.++++.+.....
T Consensus 141 ~~~~~e~SAk~g~~V~~~F~~l~~~i~~~~~ 171 (189)
T cd04121 141 GMTFFEVSPLCNFNITESFTELARIVLMRHG 171 (189)
T ss_pred CCEEEEecCCCCCCHHHHHHHHHHHHHHhcC
Confidence 9999999999999999999999998876543
No 15
>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=99.85 E-value=4.6e-20 Score=132.41 Aligned_cols=108 Identities=20% Similarity=0.347 Sum_probs=91.6
Q ss_pred ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhc----CCCCeEEEEeeCCCCCcCCCCCCHHHHHHH
Q 032001 5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHA----SDNVNKVLVGNKADMDESKRAVPTSKGQAL 79 (149)
Q Consensus 5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~----~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~ 79 (149)
|.++|+.+++.||+++++ +++|||+++ .+|+.+..|+.++.... ..++|+++|+||+|+. ..+.+...++..+
T Consensus 59 G~~~~~~~~~~~~~~a~~-~ilv~D~t~~~s~~~~~~~~~~i~~~~~~~~~~~~piilv~NK~Dl~-~~~~~~~~~~~~~ 136 (201)
T cd04107 59 GQERFGGMTRVYYRGAVG-AIIVFDVTRPSTFEAVLKWKADLDSKVTLPNGEPIPCLLLANKCDLK-KRLAKDGEQMDQF 136 (201)
T ss_pred CchhhhhhHHHHhCCCCE-EEEEEECCCHHHHHHHHHHHHHHHHhhcccCCCCCcEEEEEECCCcc-cccccCHHHHHHH
Confidence 457899999999998866 788889997 99999999999887532 2578999999999996 4456667788888
Q ss_pred HHHhC-CcEEEecCCCCCCHHHHHHHHHHHHHHHhc
Q 032001 80 ADEYG-IKFFETSAKTNLNVEQVFFSIARDIKQRLA 114 (149)
Q Consensus 80 ~~~~~-~~~~~~Sak~~~~i~el~~~l~~~i~~~~~ 114 (149)
++..+ ..++++||++|.|++++|.+|++.+.+..+
T Consensus 137 ~~~~~~~~~~e~Sak~~~~v~e~f~~l~~~l~~~~~ 172 (201)
T cd04107 137 CKENGFIGWFETSAKEGINIEEAMRFLVKNILANDK 172 (201)
T ss_pred HHHcCCceEEEEeCCCCCCHHHHHHHHHHHHHHhch
Confidence 88888 689999999999999999999998877643
No 16
>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=99.84 E-value=7.3e-20 Score=130.30 Aligned_cols=109 Identities=29% Similarity=0.441 Sum_probs=91.5
Q ss_pred ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhc---CCCCeEEEEeeCCCCCcCCCCCCHHHHHHHH
Q 032001 5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHA---SDNVNKVLVGNKADMDESKRAVPTSKGQALA 80 (149)
Q Consensus 5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~---~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~ 80 (149)
|.++|+.++..||++++. +++|||+++ .+|+.+..|+..+.... ..++|+++|+||+|+. ..+.+.......++
T Consensus 56 G~~~~~~~~~~~~~~ad~-~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~piilvgNK~Dl~-~~~~v~~~~~~~~~ 133 (190)
T cd04144 56 GQEEYTALRDQWIREGEG-FILVYSITSRSTFERVERFREQIQRVKDESAADVPIMIVGNKCDKV-YEREVSTEEGAALA 133 (190)
T ss_pred CchhhHHHHHHHHHhCCE-EEEEEECCCHHHHHHHHHHHHHHHHHhcccCCCCCEEEEEEChhcc-ccCccCHHHHHHHH
Confidence 457899999999998866 788889998 89999999999987643 2578999999999997 55566666677788
Q ss_pred HHhCCcEEEecCCCCCCHHHHHHHHHHHHHHHhcC
Q 032001 81 DEYGIKFFETSAKTNLNVEQVFFSIARDIKQRLAD 115 (149)
Q Consensus 81 ~~~~~~~~~~Sak~~~~i~el~~~l~~~i~~~~~~ 115 (149)
+..+.+++++||++|.|++++|.++++.+.+...+
T Consensus 134 ~~~~~~~~e~SAk~~~~v~~l~~~l~~~l~~~~~~ 168 (190)
T cd04144 134 RRLGCEFIEASAKTNVNVERAFYTLVRALRQQRQG 168 (190)
T ss_pred HHhCCEEEEecCCCCCCHHHHHHHHHHHHHHhhcc
Confidence 88888999999999999999999999988766543
No 17
>PLN03110 Rab GTPase; Provisional
Probab=99.84 E-value=1e-19 Score=132.16 Aligned_cols=108 Identities=30% Similarity=0.521 Sum_probs=93.4
Q ss_pred ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHh
Q 032001 5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEY 83 (149)
Q Consensus 5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~ 83 (149)
|.++|.+++..|++++++ +++|||+++ .+|+.+..|+..+.+....++|+++|+||+|+. ..+.+..+.+..++..+
T Consensus 70 G~~~~~~~~~~~~~~~~~-~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~piiiv~nK~Dl~-~~~~~~~~~~~~l~~~~ 147 (216)
T PLN03110 70 GQERYRAITSAYYRGAVG-ALLVYDITKRQTFDNVQRWLRELRDHADSNIVIMMAGNKSDLN-HLRSVAEEDGQALAEKE 147 (216)
T ss_pred CcHHHHHHHHHHhCCCCE-EEEEEECCChHHHHHHHHHHHHHHHhCCCCCeEEEEEEChhcc-cccCCCHHHHHHHHHHc
Confidence 457889999999987765 788899987 899999999999988766689999999999997 55666777778888888
Q ss_pred CCcEEEecCCCCCCHHHHHHHHHHHHHHHhc
Q 032001 84 GIKFFETSAKTNLNVEQVFFSIARDIKQRLA 114 (149)
Q Consensus 84 ~~~~~~~Sak~~~~i~el~~~l~~~i~~~~~ 114 (149)
+++++++||++|.|++++|+.|++.+.+.+.
T Consensus 148 ~~~~~e~SA~~g~~v~~lf~~l~~~i~~~~~ 178 (216)
T PLN03110 148 GLSFLETSALEATNVEKAFQTILLEIYHIIS 178 (216)
T ss_pred CCEEEEEeCCCCCCHHHHHHHHHHHHHHHhh
Confidence 8999999999999999999999999987543
No 18
>KOG0081 consensus GTPase Rab27, small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]
Probab=99.84 E-value=2.5e-20 Score=126.78 Aligned_cols=111 Identities=31% Similarity=0.501 Sum_probs=101.6
Q ss_pred ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhc-CCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHH
Q 032001 5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHA-SDNVNKVLVGNKADMDESKRAVPTSKGQALADE 82 (149)
Q Consensus 5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~-~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~ 82 (149)
+-|||++++..+|+++.+ ++++||++. .||..+..|+..++.+. .++..||++|||.||. +.+++.+.++..++.+
T Consensus 76 GQERFRSLTTAFfRDAMG-FlLiFDlT~eqSFLnvrnWlSQL~~hAYcE~PDivlcGNK~DL~-~~R~Vs~~qa~~La~k 153 (219)
T KOG0081|consen 76 GQERFRSLTTAFFRDAMG-FLLIFDLTSEQSFLNVRNWLSQLQTHAYCENPDIVLCGNKADLE-DQRVVSEDQAAALADK 153 (219)
T ss_pred cHHHHHHHHHHHHHhhcc-ceEEEeccchHHHHHHHHHHHHHHHhhccCCCCEEEEcCccchh-hhhhhhHHHHHHHHHH
Confidence 568999999999999999 688889998 99999999999987743 3778999999999998 7788999999999999
Q ss_pred hCCcEEEecCCCCCCHHHHHHHHHHHHHHHhcCCC
Q 032001 83 YGIKFFETSAKTNLNVEQVFFSIARDIKQRLADTD 117 (149)
Q Consensus 83 ~~~~~~~~Sak~~~~i~el~~~l~~~i~~~~~~~~ 117 (149)
+++|||++||.+|.||++..+.|+..+.+++++..
T Consensus 154 yglPYfETSA~tg~Nv~kave~LldlvM~Rie~~v 188 (219)
T KOG0081|consen 154 YGLPYFETSACTGTNVEKAVELLLDLVMKRIEQCV 188 (219)
T ss_pred hCCCeeeeccccCcCHHHHHHHHHHHHHHHHHHHH
Confidence 99999999999999999999999999999888773
No 19
>PTZ00099 rab6; Provisional
Probab=99.84 E-value=9.3e-20 Score=128.66 Aligned_cols=107 Identities=30% Similarity=0.445 Sum_probs=92.0
Q ss_pred ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHh
Q 032001 5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEY 83 (149)
Q Consensus 5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~ 83 (149)
|-++|+.+++.||++++. +++|||+++ .+|+.+..|+..+......++|+++|+||+|+. ..+.+...++..++..+
T Consensus 38 G~e~~~~~~~~~~~~ad~-~ilv~D~t~~~sf~~~~~w~~~i~~~~~~~~piilVgNK~DL~-~~~~v~~~e~~~~~~~~ 115 (176)
T PTZ00099 38 GQERFRSLIPSYIRDSAA-AIVVYDITNRQSFENTTKWIQDILNERGKDVIIALVGNKTDLG-DLRKVTYEEGMQKAQEY 115 (176)
T ss_pred ChHHhhhccHHHhCCCcE-EEEEEECCCHHHHHHHHHHHHHHHHhcCCCCeEEEEEECcccc-cccCCCHHHHHHHHHHc
Confidence 558899999999987755 899999998 899999999999877655678999999999996 44556777777788888
Q ss_pred CCcEEEecCCCCCCHHHHHHHHHHHHHHHh
Q 032001 84 GIKFFETSAKTNLNVEQVFFSIARDIKQRL 113 (149)
Q Consensus 84 ~~~~~~~Sak~~~~i~el~~~l~~~i~~~~ 113 (149)
+..++++||++|.||+++|++|++.+++..
T Consensus 116 ~~~~~e~SAk~g~nV~~lf~~l~~~l~~~~ 145 (176)
T PTZ00099 116 NTMFHETSAKAGHNIKVLFKKIAAKLPNLD 145 (176)
T ss_pred CCEEEEEECCCCCCHHHHHHHHHHHHHhcc
Confidence 888999999999999999999999997754
No 20
>KOG0093 consensus GTPase Rab3, small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]
Probab=99.84 E-value=1.1e-20 Score=126.92 Aligned_cols=108 Identities=35% Similarity=0.569 Sum_probs=100.5
Q ss_pred ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHh
Q 032001 5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEY 83 (149)
Q Consensus 5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~ 83 (149)
|-|||+.++..||+++.+ +|++||+++ +||+.++.|.-.|..+.-.+.|+|+|+||+|+. +++.++.+....++.+.
T Consensus 79 gqEryrtiTTayyRgamg-fiLmyDitNeeSf~svqdw~tqIktysw~naqvilvgnKCDmd-~eRvis~e~g~~l~~~L 156 (193)
T KOG0093|consen 79 GQERYRTITTAYYRGAMG-FILMYDITNEESFNSVQDWITQIKTYSWDNAQVILVGNKCDMD-SERVISHERGRQLADQL 156 (193)
T ss_pred cchhhhHHHHHHhhccce-EEEEEecCCHHHHHHHHHHHHHheeeeccCceEEEEecccCCc-cceeeeHHHHHHHHHHh
Confidence 568999999999999988 799999998 999999999999998877899999999999997 88999999999999999
Q ss_pred CCcEEEecCCCCCCHHHHHHHHHHHHHHHhc
Q 032001 84 GIKFFETSAKTNLNVEQVFFSIARDIKQRLA 114 (149)
Q Consensus 84 ~~~~~~~Sak~~~~i~el~~~l~~~i~~~~~ 114 (149)
|+.+|++|||.+.||+++|..++..|-.++.
T Consensus 157 GfefFEtSaK~NinVk~~Fe~lv~~Ic~kms 187 (193)
T KOG0093|consen 157 GFEFFETSAKENINVKQVFERLVDIICDKMS 187 (193)
T ss_pred ChHHhhhcccccccHHHHHHHHHHHHHHHhh
Confidence 9999999999999999999999998876654
No 21
>KOG0394 consensus Ras-related GTPase [General function prediction only]
Probab=99.84 E-value=3.7e-20 Score=128.51 Aligned_cols=109 Identities=28% Similarity=0.382 Sum_probs=95.7
Q ss_pred ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcC----CCCeEEEEeeCCCCCc-CCCCCCHHHHHH
Q 032001 5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHAS----DNVNKVLVGNKADMDE-SKRAVPTSKGQA 78 (149)
Q Consensus 5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~----~~~~iilv~nK~Dl~~-~~~~~~~~~~~~ 78 (149)
|-|||.++...+|++++- ++++||+++ .||+.+..|.+++..+.. ...|+|++|||+|+.+ ..++++...+..
T Consensus 67 GQERFqsLg~aFYRgaDc-Cvlvydv~~~~Sfe~L~~Wr~EFl~qa~~~~Pe~FPFVilGNKiD~~~~~~r~VS~~~Aq~ 145 (210)
T KOG0394|consen 67 GQERFQSLGVAFYRGADC-CVLVYDVNNPKSFENLENWRKEFLIQASPQDPETFPFVILGNKIDVDGGKSRQVSEKKAQT 145 (210)
T ss_pred cHHHhhhcccceecCCce-EEEEeecCChhhhccHHHHHHHHHHhcCCCCCCcccEEEEcccccCCCCccceeeHHHHHH
Confidence 568999999998887755 899999998 999999999999977653 5689999999999973 237899999999
Q ss_pred HHHHhC-CcEEEecCCCCCCHHHHHHHHHHHHHHHhc
Q 032001 79 LADEYG-IKFFETSAKTNLNVEQVFFSIARDIKQRLA 114 (149)
Q Consensus 79 ~~~~~~-~~~~~~Sak~~~~i~el~~~l~~~i~~~~~ 114 (149)
|+...| +|||++|||...||++.|..+++.....+.
T Consensus 146 WC~s~gnipyfEtSAK~~~NV~~AFe~ia~~aL~~E~ 182 (210)
T KOG0394|consen 146 WCKSKGNIPYFETSAKEATNVDEAFEEIARRALANED 182 (210)
T ss_pred HHHhcCCceeEEecccccccHHHHHHHHHHHHHhccc
Confidence 999876 799999999999999999999999887653
No 22
>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=99.84 E-value=2.3e-19 Score=129.96 Aligned_cols=110 Identities=26% Similarity=0.462 Sum_probs=92.9
Q ss_pred ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcC-CCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHH
Q 032001 5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHAS-DNVNKVLVGNKADMDESKRAVPTSKGQALADE 82 (149)
Q Consensus 5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~-~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~ 82 (149)
|.++|..++..||++++. +++|||+++ .+|+.+..|+.++.+... ..+|+++|+||.|+. ....+.......+++.
T Consensus 61 G~~~~~~~~~~~~~~~d~-iilv~D~~~~~Sf~~l~~~~~~i~~~~~~~~~~iilvgNK~Dl~-~~~~v~~~~~~~~~~~ 138 (211)
T cd04111 61 GQERFRSITRSYYRNSVG-VLLVFDITNRESFEHVHDWLEEARSHIQPHRPVFILVGHKCDLE-SQRQVTREEAEKLAKD 138 (211)
T ss_pred cchhHHHHHHHHhcCCcE-EEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEccccc-cccccCHHHHHHHHHH
Confidence 446788889999888755 788999998 999999999999977543 467899999999997 5556777778888888
Q ss_pred hCCcEEEecCCCCCCHHHHHHHHHHHHHHHhcCC
Q 032001 83 YGIKFFETSAKTNLNVEQVFFSIARDIKQRLADT 116 (149)
Q Consensus 83 ~~~~~~~~Sak~~~~i~el~~~l~~~i~~~~~~~ 116 (149)
.+.+++++||++|.|++++|+.|++.+.+.+...
T Consensus 139 ~~~~~~e~Sak~g~~v~e~f~~l~~~~~~~~~~~ 172 (211)
T cd04111 139 LGMKYIETSARTGDNVEEAFELLTQEIYERIKRG 172 (211)
T ss_pred hCCEEEEEeCCCCCCHHHHHHHHHHHHHHHhhcC
Confidence 8899999999999999999999999988775443
No 23
>KOG0097 consensus GTPase Rab14, small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]
Probab=99.83 E-value=1.5e-19 Score=121.06 Aligned_cols=110 Identities=30% Similarity=0.485 Sum_probs=101.6
Q ss_pred ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHh
Q 032001 5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEY 83 (149)
Q Consensus 5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~ 83 (149)
+-|||+.....||+++++ .++|||++. .+++++..|+.+.+....++..|++++||.||. +.+.+..+++..+++++
T Consensus 69 gqerfravtrsyyrgaag-almvyditrrstynhlsswl~dar~ltnpnt~i~lignkadle-~qrdv~yeeak~faeen 146 (215)
T KOG0097|consen 69 GQERFRAVTRSYYRGAAG-ALMVYDITRRSTYNHLSSWLTDARNLTNPNTVIFLIGNKADLE-SQRDVTYEEAKEFAEEN 146 (215)
T ss_pred cHHHHHHHHHHHhccccc-eeEEEEehhhhhhhhHHHHHhhhhccCCCceEEEEecchhhhh-hcccCcHHHHHHHHhhc
Confidence 568999999999999999 588999998 899999999999988777888999999999997 77889999999999999
Q ss_pred CCcEEEecCCCCCCHHHHHHHHHHHHHHHhcCC
Q 032001 84 GIKFFETSAKTNLNVEQVFFSIARDIKQRLADT 116 (149)
Q Consensus 84 ~~~~~~~Sak~~~~i~el~~~l~~~i~~~~~~~ 116 (149)
|+-++++|||+|.||++.|-..++.+.+.+++.
T Consensus 147 gl~fle~saktg~nvedafle~akkiyqniqdg 179 (215)
T KOG0097|consen 147 GLMFLEASAKTGQNVEDAFLETAKKIYQNIQDG 179 (215)
T ss_pred CeEEEEecccccCcHHHHHHHHHHHHHHhhhcC
Confidence 999999999999999999999999999887664
No 24
>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=99.82 E-value=4.2e-19 Score=126.51 Aligned_cols=107 Identities=39% Similarity=0.608 Sum_probs=91.2
Q ss_pred ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHh
Q 032001 5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEY 83 (149)
Q Consensus 5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~ 83 (149)
|.++|..++..++++++. +++|||+++ .+|+.+..|+..+......++|+++|+||+|+. ..+.+...+...++..+
T Consensus 59 G~~~~~~~~~~~~~~ad~-~i~v~D~~~~~s~~~~~~~~~~i~~~~~~~~piiiv~NK~Dl~-~~~~~~~~~~~~l~~~~ 136 (191)
T cd04112 59 GQERFRSVTHAYYRDAHA-LLLLYDITNKASFDNIRAWLTEIKEYAQEDVVIMLLGNKADMS-GERVVKREDGERLAKEY 136 (191)
T ss_pred CcHHHHHhhHHHccCCCE-EEEEEECCCHHHHHHHHHHHHHHHHhCCCCCcEEEEEEcccch-hccccCHHHHHHHHHHc
Confidence 457788888888887755 788889997 899999999999988765689999999999996 44556666777788888
Q ss_pred CCcEEEecCCCCCCHHHHHHHHHHHHHHHh
Q 032001 84 GIKFFETSAKTNLNVEQVFFSIARDIKQRL 113 (149)
Q Consensus 84 ~~~~~~~Sak~~~~i~el~~~l~~~i~~~~ 113 (149)
+.+++++||++|.|++++|.+|++.+.+..
T Consensus 137 ~~~~~e~Sa~~~~~v~~l~~~l~~~~~~~~ 166 (191)
T cd04112 137 GVPFMETSAKTGLNVELAFTAVAKELKHRK 166 (191)
T ss_pred CCeEEEEeCCCCCCHHHHHHHHHHHHHHhc
Confidence 889999999999999999999999987764
No 25
>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=99.82 E-value=3.1e-19 Score=125.30 Aligned_cols=108 Identities=27% Similarity=0.462 Sum_probs=92.7
Q ss_pred ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhc-CCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHH
Q 032001 5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHA-SDNVNKVLVGNKADMDESKRAVPTSKGQALADE 82 (149)
Q Consensus 5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~-~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~ 82 (149)
|.++|++++..||++++. +++|||+++ .+|..+..|+..+.+.. ..++|+++|+||.|+. ..+.+...++..+++.
T Consensus 59 G~~~~~~l~~~~~~~~d~-~ilv~d~~~~~Sf~~~~~~~~~i~~~~~~~~~piilvgNK~Dl~-~~~~v~~~~~~~~a~~ 136 (172)
T cd04141 59 GQAEFTAMRDQYMRCGEG-FIICYSVTDRHSFQEASEFKKLITRVRLTEDIPLVLVGNKVDLE-SQRQVTTEEGRNLARE 136 (172)
T ss_pred CchhhHHHhHHHhhcCCE-EEEEEECCchhHHHHHHHHHHHHHHhcCCCCCCEEEEEEChhhh-hcCccCHHHHHHHHHH
Confidence 457899999999998755 788899998 99999999998887643 3579999999999997 5566777788888888
Q ss_pred hCCcEEEecCCCCCCHHHHHHHHHHHHHHHhc
Q 032001 83 YGIKFFETSAKTNLNVEQVFFSIARDIKQRLA 114 (149)
Q Consensus 83 ~~~~~~~~Sak~~~~i~el~~~l~~~i~~~~~ 114 (149)
.+.+++++||++|.||+++|.+|++.+.+.++
T Consensus 137 ~~~~~~e~Sa~~~~~v~~~f~~l~~~~~~~~~ 168 (172)
T cd04141 137 FNCPFFETSAALRHYIDDAFHGLVREIRRKES 168 (172)
T ss_pred hCCEEEEEecCCCCCHHHHHHHHHHHHHHhcc
Confidence 89999999999999999999999998877544
No 26
>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=99.82 E-value=7.2e-19 Score=128.99 Aligned_cols=107 Identities=20% Similarity=0.280 Sum_probs=91.5
Q ss_pred ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHH-HHHHHHHHHhcCCCCeEEEEeeCCCCCcC-----------CCCC
Q 032001 5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDI-RNWIRNIEQHASDNVNKVLVGNKADMDES-----------KRAV 71 (149)
Q Consensus 5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~-~~~~~~i~~~~~~~~~iilv~nK~Dl~~~-----------~~~~ 71 (149)
|.++|.++++.||+++++ +++|||+++ .||+.+ ..|+.++.... +++|+|+||||+||... .+.+
T Consensus 70 G~e~~~~~~~~~~~~ad~-vIlVyDit~~~Sf~~~~~~w~~~i~~~~-~~~piilVgNK~DL~~~~~~~~~l~~~~~~~V 147 (232)
T cd04174 70 GSPYYDNVRPLCYSDSDA-VLLCFDISRPETVDSALKKWKAEIMDYC-PSTRILLIGCKTDLRTDLSTLMELSNQKQAPI 147 (232)
T ss_pred CchhhHHHHHHHcCCCcE-EEEEEECCChHHHHHHHHHHHHHHHHhC-CCCCEEEEEECcccccccchhhhhccccCCcC
Confidence 568899999999998876 799999998 999984 89999998765 57899999999998621 2457
Q ss_pred CHHHHHHHHHHhCC-cEEEecCCCCC-CHHHHHHHHHHHHHHHh
Q 032001 72 PTSKGQALADEYGI-KFFETSAKTNL-NVEQVFFSIARDIKQRL 113 (149)
Q Consensus 72 ~~~~~~~~~~~~~~-~~~~~Sak~~~-~i~el~~~l~~~i~~~~ 113 (149)
..+++..+++..+. .++++||++|. ||+++|..++..+.+..
T Consensus 148 s~~e~~~~a~~~~~~~~~EtSAktg~~~V~e~F~~~~~~~~~~~ 191 (232)
T cd04174 148 SYEQGCALAKQLGAEVYLECSAFTSEKSIHSIFRSASLLCLNKL 191 (232)
T ss_pred CHHHHHHHHHHcCCCEEEEccCCcCCcCHHHHHHHHHHHHHHhc
Confidence 78889999999998 69999999998 89999999999887653
No 27
>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=99.81 E-value=3e-19 Score=126.10 Aligned_cols=102 Identities=24% Similarity=0.377 Sum_probs=88.4
Q ss_pred ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHH-HHHHHHHHHhcCCCCeEEEEeeCCCCCcCC----------CCCC
Q 032001 5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDI-RNWIRNIEQHASDNVNKVLVGNKADMDESK----------RAVP 72 (149)
Q Consensus 5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~-~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~----------~~~~ 72 (149)
|.++|+++++.||+++++ +++|||+++ +||+.+ ..|+.++.+.. +++|+++||||.||. +. +.+.
T Consensus 58 G~~~~~~~~~~~~~~a~~-~ilvyd~~~~~Sf~~~~~~w~~~i~~~~-~~~piilvgnK~Dl~-~~~~~~~~~~~~~~v~ 134 (176)
T cd04133 58 GQEDYNRLRPLSYRGADV-FVLAFSLISRASYENVLKKWVPELRHYA-PNVPIVLVGTKLDLR-DDKQYLADHPGASPIT 134 (176)
T ss_pred CCccccccchhhcCCCcE-EEEEEEcCCHHHHHHHHHHHHHHHHHhC-CCCCEEEEEeChhhc-cChhhhhhccCCCCCC
Confidence 558999999999997755 899999998 999998 68999997765 579999999999996 32 2467
Q ss_pred HHHHHHHHHHhCC-cEEEecCCCCCCHHHHHHHHHHHH
Q 032001 73 TSKGQALADEYGI-KFFETSAKTNLNVEQVFFSIARDI 109 (149)
Q Consensus 73 ~~~~~~~~~~~~~-~~~~~Sak~~~~i~el~~~l~~~i 109 (149)
..++..+++.++. .++++||++|.||+++|+.+++.+
T Consensus 135 ~~~~~~~a~~~~~~~~~E~SAk~~~nV~~~F~~~~~~~ 172 (176)
T cd04133 135 TAQGEELRKQIGAAAYIECSSKTQQNVKAVFDAAIKVV 172 (176)
T ss_pred HHHHHHHHHHcCCCEEEECCCCcccCHHHHHHHHHHHH
Confidence 7888899999887 699999999999999999999876
No 28
>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=99.81 E-value=1e-18 Score=125.35 Aligned_cols=107 Identities=33% Similarity=0.506 Sum_probs=90.4
Q ss_pred ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHh
Q 032001 5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEY 83 (149)
Q Consensus 5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~ 83 (149)
|-++|+.++..|++++++ +++|||+++ ++|..+..|+..+.... ..+|+++|+||+|+. ....+....+..++...
T Consensus 64 G~~~~~~~~~~~~~~a~~-iilv~D~~~~~s~~~~~~~~~~i~~~~-~~~piivVgNK~Dl~-~~~~~~~~~~~~~~~~~ 140 (199)
T cd04110 64 GQERFRTITSTYYRGTHG-VIVVYDVTNGESFVNVKRWLQEIEQNC-DDVCKVLVGNKNDDP-ERKVVETEDAYKFAGQM 140 (199)
T ss_pred CchhHHHHHHHHhCCCcE-EEEEEECCCHHHHHHHHHHHHHHHHhC-CCCCEEEEEECcccc-cccccCHHHHHHHHHHc
Confidence 347788899999988765 788899987 99999999999987755 578999999999997 54556667777788888
Q ss_pred CCcEEEecCCCCCCHHHHHHHHHHHHHHHhc
Q 032001 84 GIKFFETSAKTNLNVEQVFFSIARDIKQRLA 114 (149)
Q Consensus 84 ~~~~~~~Sak~~~~i~el~~~l~~~i~~~~~ 114 (149)
+.+++++||++|.||+++|++|++.+.....
T Consensus 141 ~~~~~e~Sa~~~~gi~~lf~~l~~~~~~~~~ 171 (199)
T cd04110 141 GISLFETSAKENINVEEMFNCITELVLRAKK 171 (199)
T ss_pred CCEEEEEECCCCcCHHHHHHHHHHHHHHhhh
Confidence 8999999999999999999999998876543
No 29
>PTZ00369 Ras-like protein; Provisional
Probab=99.81 E-value=8e-19 Score=124.87 Aligned_cols=108 Identities=36% Similarity=0.597 Sum_probs=90.7
Q ss_pred ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcC-CCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHH
Q 032001 5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHAS-DNVNKVLVGNKADMDESKRAVPTSKGQALADE 82 (149)
Q Consensus 5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~-~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~ 82 (149)
|.++|..++..|+++.++ +++|||+++ .+|+.+..|+..+.+... .++|+++|+||.|+. ..+.+...++..+++.
T Consensus 62 G~~~~~~l~~~~~~~~d~-iilv~D~s~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~-~~~~i~~~~~~~~~~~ 139 (189)
T PTZ00369 62 GQEEYSAMRDQYMRTGQG-FLCVYSITSRSSFEEIASFREQILRVKDKDRVPMILVGNKCDLD-SERQVSTGEGQELAKS 139 (189)
T ss_pred CCccchhhHHHHhhcCCE-EEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECcccc-cccccCHHHHHHHHHH
Confidence 567899999999887755 788889998 899999999999876543 578999999999986 4455666667777777
Q ss_pred hCCcEEEecCCCCCCHHHHHHHHHHHHHHHhc
Q 032001 83 YGIKFFETSAKTNLNVEQVFFSIARDIKQRLA 114 (149)
Q Consensus 83 ~~~~~~~~Sak~~~~i~el~~~l~~~i~~~~~ 114 (149)
.+.+++++||++|.|++++|.+|++.+.+..+
T Consensus 140 ~~~~~~e~Sak~~~gi~~~~~~l~~~l~~~~~ 171 (189)
T PTZ00369 140 FGIPFLETSAKQRVNVDEAFYELVREIRKYLK 171 (189)
T ss_pred hCCEEEEeeCCCCCCHHHHHHHHHHHHHHHhh
Confidence 88899999999999999999999998876543
No 30
>PLN03108 Rab family protein; Provisional
Probab=99.80 E-value=3.8e-18 Score=123.42 Aligned_cols=110 Identities=33% Similarity=0.548 Sum_probs=92.9
Q ss_pred ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHh
Q 032001 5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEY 83 (149)
Q Consensus 5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~ 83 (149)
+.++|..++..++++++. +++|||+++ .+|..+..|+..+......++|+++|+||.|+. ..+.+...+...+++.+
T Consensus 64 G~~~~~~~~~~~~~~ad~-~vlv~D~~~~~s~~~l~~~~~~~~~~~~~~~piiiv~nK~Dl~-~~~~~~~~~~~~~~~~~ 141 (210)
T PLN03108 64 GQESFRSITRSYYRGAAG-ALLVYDITRRETFNHLASWLEDARQHANANMTIMLIGNKCDLA-HRRAVSTEEGEQFAKEH 141 (210)
T ss_pred CcHHHHHHHHHHhccCCE-EEEEEECCcHHHHHHHHHHHHHHHHhcCCCCcEEEEEECccCc-cccCCCHHHHHHHHHHc
Confidence 456788889999887655 788889997 899999999998877655679999999999997 55566777788888888
Q ss_pred CCcEEEecCCCCCCHHHHHHHHHHHHHHHhcCC
Q 032001 84 GIKFFETSAKTNLNVEQVFFSIARDIKQRLADT 116 (149)
Q Consensus 84 ~~~~~~~Sak~~~~i~el~~~l~~~i~~~~~~~ 116 (149)
+++++++||+++.|++++|.++++.+.+..++.
T Consensus 142 ~~~~~e~Sa~~~~~v~e~f~~l~~~~~~~~~~~ 174 (210)
T PLN03108 142 GLIFMEASAKTAQNVEEAFIKTAAKIYKKIQDG 174 (210)
T ss_pred CCEEEEEeCCCCCCHHHHHHHHHHHHHHHhhhc
Confidence 999999999999999999999999988765433
No 31
>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=99.80 E-value=9.1e-19 Score=124.90 Aligned_cols=105 Identities=24% Similarity=0.348 Sum_probs=87.3
Q ss_pred ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHH-HHHHHHHHhcCCCCeEEEEeeCCCCCcCC-----------CCC
Q 032001 5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIR-NWIRNIEQHASDNVNKVLVGNKADMDESK-----------RAV 71 (149)
Q Consensus 5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~-~~~~~i~~~~~~~~~iilv~nK~Dl~~~~-----------~~~ 71 (149)
|.++|+.+++.||+++++ +++|||+++ .||+.+. .|..++.+.. +++|+++||||.||.+.. +.+
T Consensus 60 G~e~~~~l~~~~~~~a~~-~ilvydit~~~Sf~~~~~~w~~~i~~~~-~~~piilvgNK~DL~~~~~~~~~~~~~~~~~v 137 (191)
T cd01875 60 GQEEYDRLRTLSYPQTNV-FIICFSIASPSSYENVRHKWHPEVCHHC-PNVPILLVGTKKDLRNDADTLKKLKEQGQAPI 137 (191)
T ss_pred CchhhhhhhhhhccCCCE-EEEEEECCCHHHHHHHHHHHHHHHHhhC-CCCCEEEEEeChhhhcChhhHHHHhhccCCCC
Confidence 568999999999998765 788999998 9999996 6988887654 579999999999996211 235
Q ss_pred CHHHHHHHHHHhC-CcEEEecCCCCCCHHHHHHHHHHHHHH
Q 032001 72 PTSKGQALADEYG-IKFFETSAKTNLNVEQVFFSIARDIKQ 111 (149)
Q Consensus 72 ~~~~~~~~~~~~~-~~~~~~Sak~~~~i~el~~~l~~~i~~ 111 (149)
...++..+++..+ .+++++||++|.||+++|.++++.+..
T Consensus 138 ~~~~~~~~a~~~~~~~~~e~SAk~g~~v~e~f~~l~~~~~~ 178 (191)
T cd01875 138 TPQQGGALAKQIHAVKYLECSALNQDGVKEVFAEAVRAVLN 178 (191)
T ss_pred CHHHHHHHHHHcCCcEEEEeCCCCCCCHHHHHHHHHHHHhc
Confidence 5667788888888 589999999999999999999987744
No 32
>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=99.80 E-value=1.2e-18 Score=121.11 Aligned_cols=105 Identities=30% Similarity=0.481 Sum_probs=91.0
Q ss_pred ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHh
Q 032001 5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEY 83 (149)
Q Consensus 5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~ 83 (149)
|.++|..++..|++++++ +++|||+++ .+|+.+..|+.++.....++.|+++|+||+|+. ..+.+...++..+++..
T Consensus 60 G~~~~~~~~~~~~~~~~~-~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~iiiv~nK~Dl~-~~~~~~~~~~~~~~~~~ 137 (166)
T cd04122 60 GQERFRAVTRSYYRGAAG-ALMVYDITRRSTYNHLSSWLTDARNLTNPNTVIFLIGNKADLE-AQRDVTYEEAKQFADEN 137 (166)
T ss_pred CcHHHHHHHHHHhcCCCE-EEEEEECCCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECcccc-cccCcCHHHHHHHHHHc
Confidence 457888999999987765 788899998 999999999999877655678999999999997 55666777888888888
Q ss_pred CCcEEEecCCCCCCHHHHHHHHHHHHHH
Q 032001 84 GIKFFETSAKTNLNVEQVFFSIARDIKQ 111 (149)
Q Consensus 84 ~~~~~~~Sak~~~~i~el~~~l~~~i~~ 111 (149)
+.+++++||++|.|++++|..+++.+.+
T Consensus 138 ~~~~~e~Sa~~~~~i~e~f~~l~~~~~~ 165 (166)
T cd04122 138 GLLFLECSAKTGENVEDAFLETAKKIYQ 165 (166)
T ss_pred CCEEEEEECCCCCCHHHHHHHHHHHHhh
Confidence 8999999999999999999999987754
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=99.80 E-value=3.2e-18 Score=121.46 Aligned_cols=107 Identities=31% Similarity=0.497 Sum_probs=91.2
Q ss_pred ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHh
Q 032001 5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEY 83 (149)
Q Consensus 5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~ 83 (149)
|.++|..++..++++++. +++|||+++ .+|..+..|+.++......++|+++|+||.|+. ....+....+..++...
T Consensus 58 g~~~~~~~~~~~~~~~d~-iilv~d~~~~~s~~~i~~~~~~i~~~~~~~~~~ivv~nK~Dl~-~~~~v~~~~~~~~~~~~ 135 (188)
T cd04125 58 GQERFRSLNNSYYRGAHG-YLLVYDVTDQESFENLKFWINEINRYARENVIKVIVANKSDLV-NNKVVDSNIAKSFCDSL 135 (188)
T ss_pred CcHHHHhhHHHHccCCCE-EEEEEECcCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECCCCc-ccccCCHHHHHHHHHHc
Confidence 456788888888887765 788889987 999999999999987665678999999999997 55556667777788888
Q ss_pred CCcEEEecCCCCCCHHHHHHHHHHHHHHHh
Q 032001 84 GIKFFETSAKTNLNVEQVFFSIARDIKQRL 113 (149)
Q Consensus 84 ~~~~~~~Sak~~~~i~el~~~l~~~i~~~~ 113 (149)
+++++++||++|.|++++|.+|++.+....
T Consensus 136 ~~~~~evSa~~~~~i~~~f~~l~~~~~~~~ 165 (188)
T cd04125 136 NIPFFETSAKQSINVEEAFILLVKLIIKRL 165 (188)
T ss_pred CCeEEEEeCCCCCCHHHHHHHHHHHHHHHh
Confidence 889999999999999999999999987654
No 34
>KOG0083 consensus GTPase Rab26/Rab37, small G protein superfamily [General function prediction only]
Probab=99.80 E-value=2e-19 Score=119.25 Aligned_cols=106 Identities=36% Similarity=0.561 Sum_probs=97.3
Q ss_pred ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHh
Q 032001 5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEY 83 (149)
Q Consensus 5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~ 83 (149)
+-|||++.+..||++++. ++++||+.+ .||++++.|+.+|.++....+.+.+++||+|+. .++.+..+....+++.+
T Consensus 56 gqerfrsvt~ayyrda~a-llllydiankasfdn~~~wlsei~ey~k~~v~l~llgnk~d~a-~er~v~~ddg~kla~~y 133 (192)
T KOG0083|consen 56 GQERFRSVTHAYYRDADA-LLLLYDIANKASFDNCQAWLSEIHEYAKEAVALMLLGNKCDLA-HERAVKRDDGEKLAEAY 133 (192)
T ss_pred chHHHhhhhHhhhcccce-eeeeeecccchhHHHHHHHHHHHHHHHHhhHhHhhhccccccc-hhhccccchHHHHHHHH
Confidence 578999999999999866 799999998 999999999999999887889999999999997 56778888889999999
Q ss_pred CCcEEEecCCCCCCHHHHHHHHHHHHHHH
Q 032001 84 GIKFFETSAKTNLNVEQVFFSIARDIKQR 112 (149)
Q Consensus 84 ~~~~~~~Sak~~~~i~el~~~l~~~i~~~ 112 (149)
++|+.++|||||.||+..|-.|++.+...
T Consensus 134 ~ipfmetsaktg~nvd~af~~ia~~l~k~ 162 (192)
T KOG0083|consen 134 GIPFMETSAKTGFNVDLAFLAIAEELKKL 162 (192)
T ss_pred CCCceeccccccccHhHHHHHHHHHHHHh
Confidence 99999999999999999999999988654
No 35
>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=99.80 E-value=8.9e-19 Score=124.27 Aligned_cols=103 Identities=20% Similarity=0.339 Sum_probs=88.9
Q ss_pred ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHH-HHHHHHHHHhcCCCCeEEEEeeCCCCCcC-----------CCCC
Q 032001 5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDI-RNWIRNIEQHASDNVNKVLVGNKADMDES-----------KRAV 71 (149)
Q Consensus 5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~-~~~~~~i~~~~~~~~~iilv~nK~Dl~~~-----------~~~~ 71 (149)
|.++|..+++.||++++. +++|||+++ .||+.+ ..|+.++.+.. ++.|+++||||.||.+. .+.+
T Consensus 62 G~e~~~~~~~~~~~~ad~-~ilvyDit~~~Sf~~~~~~w~~~i~~~~-~~~piilVgNK~DL~~~~~~~~~~~~~~~~~v 139 (182)
T cd04172 62 GSPYYDNVRPLSYPDSDA-VLICFDISRPETLDSVLKKWKGEIQEFC-PNTKMLLVGCKSDLRTDLTTLVELSNHRQTPV 139 (182)
T ss_pred CchhhHhhhhhhcCCCCE-EEEEEECCCHHHHHHHHHHHHHHHHHHC-CCCCEEEEeEChhhhcChhhHHHHHhcCCCCC
Confidence 568899999999998866 788999998 999997 79999998765 57899999999998621 2357
Q ss_pred CHHHHHHHHHHhCC-cEEEecCCCCCC-HHHHHHHHHHHH
Q 032001 72 PTSKGQALADEYGI-KFFETSAKTNLN-VEQVFFSIARDI 109 (149)
Q Consensus 72 ~~~~~~~~~~~~~~-~~~~~Sak~~~~-i~el~~~l~~~i 109 (149)
..+++..+++..+. +++++||++|.| |+++|..+++..
T Consensus 140 ~~~~~~~~a~~~~~~~~~E~SAk~~~n~v~~~F~~~~~~~ 179 (182)
T cd04172 140 SYDQGANMAKQIGAATYIECSALQSENSVRDIFHVATLAC 179 (182)
T ss_pred CHHHHHHHHHHcCCCEEEECCcCCCCCCHHHHHHHHHHHH
Confidence 78889999999995 899999999998 999999998854
No 36
>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=99.79 E-value=4.8e-18 Score=120.89 Aligned_cols=131 Identities=23% Similarity=0.378 Sum_probs=96.8
Q ss_pred ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcC---CCCCCHHHHHHHH
Q 032001 5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDES---KRAVPTSKGQALA 80 (149)
Q Consensus 5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~---~~~~~~~~~~~~~ 80 (149)
|.++|..++..+|++++. +++|||+++ .+|+.+..|+..+.... .++|+++|+||+|+.+. ...+...++..++
T Consensus 59 G~~~~~~~~~~~~~~~d~-iilv~d~~~~~s~~~~~~~~~~i~~~~-~~~piilv~nK~Dl~~~~~~~~~v~~~~~~~~~ 136 (193)
T cd04118 59 GSERYEAMSRIYYRGAKA-AIVCYDLTDSSSFERAKFWVKELQNLE-EHCKIYLCGTKSDLIEQDRSLRQVDFHDVQDFA 136 (193)
T ss_pred CchhhhhhhHhhcCCCCE-EEEEEECCCHHHHHHHHHHHHHHHhcC-CCCCEEEEEEcccccccccccCccCHHHHHHHH
Confidence 457888898888876654 788999987 89999999999987653 47899999999998621 1234445566677
Q ss_pred HHhCCcEEEecCCCCCCHHHHHHHHHHHHHHHhcCCCCCCCCCcccccCCCCCCCCCCCCCCCCcc
Q 032001 81 DEYGIKFFETSAKTNLNVEQVFFSIARDIKQRLADTDSRSEPSTIKINQPDQAGGVGQAAQKSACC 146 (149)
Q Consensus 81 ~~~~~~~~~~Sak~~~~i~el~~~l~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Cc 146 (149)
...+.+++++||++|.|++++|+++++.+.....+.... .++++++.. +.+..++||
T Consensus 137 ~~~~~~~~~~Sa~~~~gv~~l~~~i~~~~~~~~~~~~~~--~~~~~~~~~-------~~~~~~~~~ 193 (193)
T cd04118 137 DEIKAQHFETSSKTGQNVDELFQKVAEDFVSRANNQMNT--EKGVDLGQK-------KNSYFYSCC 193 (193)
T ss_pred HHcCCeEEEEeCCCCCCHHHHHHHHHHHHHHhcccccCC--CCccccCCc-------CCCCCCCCC
Confidence 777888999999999999999999999887653222111 144444433 235667888
No 37
>KOG0095 consensus GTPase Rab30, small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]
Probab=99.79 E-value=1.7e-19 Score=121.68 Aligned_cols=106 Identities=32% Similarity=0.508 Sum_probs=94.6
Q ss_pred ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHh
Q 032001 5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEY 83 (149)
Q Consensus 5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~ 83 (149)
|-|||++++..||+.++. +|+|||++= ++|+.+..|+.+|.++...++-.|+||||+|+. +.++++......+.+..
T Consensus 65 gqerfrsitqsyyrsaha-lilvydiscqpsfdclpewlreie~yan~kvlkilvgnk~d~~-drrevp~qigeefs~~q 142 (213)
T KOG0095|consen 65 GQERFRSITQSYYRSAHA-LILVYDISCQPSFDCLPEWLREIEQYANNKVLKILVGNKIDLA-DRREVPQQIGEEFSEAQ 142 (213)
T ss_pred chHHHHHHHHHHhhhcce-EEEEEecccCcchhhhHHHHHHHHHHhhcceEEEeeccccchh-hhhhhhHHHHHHHHHhh
Confidence 568999999999999866 799999996 899999999999999988888999999999997 77788888888888887
Q ss_pred CCcEEEecCCCCCCHHHHHHHHHHHHHHH
Q 032001 84 GIKFFETSAKTNLNVEQVFFSIARDIKQR 112 (149)
Q Consensus 84 ~~~~~~~Sak~~~~i~el~~~l~~~i~~~ 112 (149)
.+-++++||+...|++.||..++..+...
T Consensus 143 dmyfletsakea~nve~lf~~~a~rli~~ 171 (213)
T KOG0095|consen 143 DMYFLETSAKEADNVEKLFLDLACRLISE 171 (213)
T ss_pred hhhhhhhcccchhhHHHHHHHHHHHHHHH
Confidence 77889999999999999999999766544
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=99.79 E-value=2.8e-18 Score=124.49 Aligned_cols=106 Identities=22% Similarity=0.297 Sum_probs=89.9
Q ss_pred ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcC---CCCeEEEEeeCCCCCcCCCCCCHHHHHHHH
Q 032001 5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHAS---DNVNKVLVGNKADMDESKRAVPTSKGQALA 80 (149)
Q Consensus 5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~---~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~ 80 (149)
|.++|..++..|+++++. +++|||+++ ++|+.+..|+..+.+... .++|+++|+||.|+. ..+.+.......++
T Consensus 59 G~~~~~~l~~~~~~~ad~-iilV~D~t~~~s~~~~~~w~~~l~~~~~~~~~~~piilVgNK~DL~-~~~~v~~~~~~~~~ 136 (215)
T cd04109 59 GQSIGGKMLDKYIYGAHA-VFLVYDVTNSQSFENLEDWYSMVRKVLKSSETQPLVVLVGNKTDLE-HNRTVKDDKHARFA 136 (215)
T ss_pred CcHHHHHHHHHHhhcCCE-EEEEEECCCHHHHHHHHHHHHHHHHhccccCCCceEEEEEECcccc-cccccCHHHHHHHH
Confidence 346778889999887755 788999998 899999999999987542 457899999999997 55667777888888
Q ss_pred HHhCCcEEEecCCCCCCHHHHHHHHHHHHHHH
Q 032001 81 DEYGIKFFETSAKTNLNVEQVFFSIARDIKQR 112 (149)
Q Consensus 81 ~~~~~~~~~~Sak~~~~i~el~~~l~~~i~~~ 112 (149)
+.++.+++++||++|.|++++|++|++.+...
T Consensus 137 ~~~~~~~~~iSAktg~gv~~lf~~l~~~l~~~ 168 (215)
T cd04109 137 QANGMESCLVSAKTGDRVNLLFQQLAAELLGV 168 (215)
T ss_pred HHcCCEEEEEECCCCCCHHHHHHHHHHHHHhc
Confidence 88889999999999999999999999988754
No 39
>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=99.78 E-value=2.4e-18 Score=121.62 Aligned_cols=104 Identities=21% Similarity=0.324 Sum_probs=88.2
Q ss_pred ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHH-HHHHHHHHHhcCCCCeEEEEeeCCCCCcC-----------CCCC
Q 032001 5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDI-RNWIRNIEQHASDNVNKVLVGNKADMDES-----------KRAV 71 (149)
Q Consensus 5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~-~~~~~~i~~~~~~~~~iilv~nK~Dl~~~-----------~~~~ 71 (149)
|.++|.++++.||++++. +++|||+++ .||+.+ ..|+.++.+.. +++|+++||||.||.+. .+.+
T Consensus 58 G~~~~~~~~~~~~~~a~~-~ilvfdit~~~Sf~~~~~~w~~~i~~~~-~~~~iilVgnK~DL~~~~~~~~~~~~~~~~~v 135 (178)
T cd04131 58 GSPYYDNVRPLCYPDSDA-VLICFDISRPETLDSVLKKWRGEIQEFC-PNTKVLLVGCKTDLRTDLSTLMELSHQRQAPV 135 (178)
T ss_pred CchhhhhcchhhcCCCCE-EEEEEECCChhhHHHHHHHHHHHHHHHC-CCCCEEEEEEChhhhcChhHHHHHHhcCCCCC
Confidence 567899999999988866 789999998 999996 79999998765 57899999999999621 2347
Q ss_pred CHHHHHHHHHHhCC-cEEEecCCCCCC-HHHHHHHHHHHHH
Q 032001 72 PTSKGQALADEYGI-KFFETSAKTNLN-VEQVFFSIARDIK 110 (149)
Q Consensus 72 ~~~~~~~~~~~~~~-~~~~~Sak~~~~-i~el~~~l~~~i~ 110 (149)
..+++..+++.++. +++++||++|.+ |+++|..+++...
T Consensus 136 ~~~e~~~~a~~~~~~~~~E~SA~~~~~~v~~~F~~~~~~~~ 176 (178)
T cd04131 136 SYEQGCAIAKQLGAEIYLECSAFTSEKSVRDIFHVATMACL 176 (178)
T ss_pred CHHHHHHHHHHhCCCEEEECccCcCCcCHHHHHHHHHHHHh
Confidence 77889999999996 899999999995 9999999998543
No 40
>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=99.78 E-value=3.2e-18 Score=118.73 Aligned_cols=102 Identities=33% Similarity=0.568 Sum_probs=88.7
Q ss_pred ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHh
Q 032001 5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEY 83 (149)
Q Consensus 5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~ 83 (149)
+.++|..+++.|+++++. +++|||+++ .+|+.+..|+.++......++|+++|+||.|+. ..+.+...++..+++..
T Consensus 58 g~~~~~~~~~~~~~~~~~-~i~v~d~~~~~sf~~~~~~~~~~~~~~~~~~~iilvgnK~Dl~-~~~~v~~~~~~~~~~~~ 135 (161)
T cd04117 58 GQERYQTITKQYYRRAQG-IFLVYDISSERSYQHIMKWVSDVDEYAPEGVQKILIGNKADEE-QKRQVGDEQGNKLAKEY 135 (161)
T ss_pred CcHhHHhhHHHHhcCCcE-EEEEEECCCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECcccc-cccCCCHHHHHHHHHHc
Confidence 457889999999987755 789999998 899999999999887665679999999999997 55667778888888888
Q ss_pred CCcEEEecCCCCCCHHHHHHHHHHH
Q 032001 84 GIKFFETSAKTNLNVEQVFFSIARD 108 (149)
Q Consensus 84 ~~~~~~~Sak~~~~i~el~~~l~~~ 108 (149)
+.+++++||++|.|++++|.+|+++
T Consensus 136 ~~~~~e~Sa~~~~~v~~~f~~l~~~ 160 (161)
T cd04117 136 GMDFFETSACTNSNIKESFTRLTEL 160 (161)
T ss_pred CCEEEEEeCCCCCCHHHHHHHHHhh
Confidence 8999999999999999999999875
No 41
>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=99.78 E-value=4.4e-18 Score=122.40 Aligned_cols=103 Identities=23% Similarity=0.416 Sum_probs=87.3
Q ss_pred ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHh
Q 032001 5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEY 83 (149)
Q Consensus 5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~ 83 (149)
|.++|+.+++.||++++. +++|||+++ .+|..+..|+.++.+.. .++|+++||||+|+. . +.+.... ..++...
T Consensus 53 G~e~~~~l~~~~~~~ad~-~ilV~D~t~~~S~~~i~~w~~~i~~~~-~~~piilvgNK~Dl~-~-~~v~~~~-~~~~~~~ 127 (200)
T smart00176 53 GQEKFGGLRDGYYIQGQC-AIIMFDVTARVTYKNVPNWHRDLVRVC-ENIPIVLCGNKVDVK-D-RKVKAKS-ITFHRKK 127 (200)
T ss_pred CchhhhhhhHHHhcCCCE-EEEEEECCChHHHHHHHHHHHHHHHhC-CCCCEEEEEECcccc-c-ccCCHHH-HHHHHHc
Confidence 568999999999998866 788899998 89999999999998765 579999999999986 3 3344433 3567778
Q ss_pred CCcEEEecCCCCCCHHHHHHHHHHHHHHH
Q 032001 84 GIKFFETSAKTNLNVEQVFFSIARDIKQR 112 (149)
Q Consensus 84 ~~~~~~~Sak~~~~i~el~~~l~~~i~~~ 112 (149)
++.++++||++|.||.++|.+|++.+.+.
T Consensus 128 ~~~~~e~SAk~~~~v~~~F~~l~~~i~~~ 156 (200)
T smart00176 128 NLQYYDISAKSNYNFEKPFLWLARKLIGD 156 (200)
T ss_pred CCEEEEEeCCCCCCHHHHHHHHHHHHHhc
Confidence 89999999999999999999999988654
No 42
>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=99.77 E-value=4.6e-18 Score=119.52 Aligned_cols=106 Identities=32% Similarity=0.539 Sum_probs=90.5
Q ss_pred ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhc-CCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHH
Q 032001 5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHA-SDNVNKVLVGNKADMDESKRAVPTSKGQALADE 82 (149)
Q Consensus 5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~-~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~ 82 (149)
|.++|..++..|++++++ +++|||+++ .+|..+..|+.++.... ..+.|+++|+||+|+. ..+.+...++..+++.
T Consensus 72 G~~~~~~~~~~~~~~~~~-~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~-~~~~v~~~~~~~~~~~ 149 (180)
T cd04127 72 GQERFRSLTTAFFRDAMG-FLLIFDLTNEQSFLNVRNWMSQLQTHAYCENPDIVLCGNKADLE-DQRQVSEEQAKALADK 149 (180)
T ss_pred ChHHHHHHHHHHhCCCCE-EEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEeCccch-hcCccCHHHHHHHHHH
Confidence 346788899999988755 789999997 99999999999987754 3578999999999997 5556667778888888
Q ss_pred hCCcEEEecCCCCCCHHHHHHHHHHHHHHH
Q 032001 83 YGIKFFETSAKTNLNVEQVFFSIARDIKQR 112 (149)
Q Consensus 83 ~~~~~~~~Sak~~~~i~el~~~l~~~i~~~ 112 (149)
.+.+++++||++|.|++++|++|++.+.++
T Consensus 150 ~~~~~~e~Sak~~~~v~~l~~~l~~~~~~~ 179 (180)
T cd04127 150 YGIPYFETSAATGTNVEKAVERLLDLVMKR 179 (180)
T ss_pred cCCeEEEEeCCCCCCHHHHHHHHHHHHHhh
Confidence 899999999999999999999999888654
No 43
>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=99.76 E-value=1.2e-17 Score=116.07 Aligned_cols=105 Identities=33% Similarity=0.532 Sum_probs=88.7
Q ss_pred ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHh
Q 032001 5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEY 83 (149)
Q Consensus 5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~ 83 (149)
|.++|..++..++++++. +++|||+++ .+|+.+..|+..+.+.....+|+++|+||+|+. ..+.+.......++...
T Consensus 59 g~~~~~~~~~~~~~~~~~-~l~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~-~~~~~~~~~~~~~~~~~ 136 (165)
T cd01865 59 GQERYRTITTAYYRGAMG-FILMYDITNEESFNAVQDWSTQIKTYSWDNAQVILVGNKCDME-DERVVSSERGRQLADQL 136 (165)
T ss_pred ChHHHHHHHHHHccCCcE-EEEEEECCCHHHHHHHHHHHHHHHHhCCCCCCEEEEEECcccC-cccccCHHHHHHHHHHc
Confidence 457788899999888766 788889987 999999999999977665678999999999997 44555566777778888
Q ss_pred CCcEEEecCCCCCCHHHHHHHHHHHHHH
Q 032001 84 GIKFFETSAKTNLNVEQVFFSIARDIKQ 111 (149)
Q Consensus 84 ~~~~~~~Sak~~~~i~el~~~l~~~i~~ 111 (149)
+++++++||++|.|++++|+++++.+.+
T Consensus 137 ~~~~~~~Sa~~~~gv~~l~~~l~~~~~~ 164 (165)
T cd01865 137 GFEFFEASAKENINVKQVFERLVDIICD 164 (165)
T ss_pred CCEEEEEECCCCCCHHHHHHHHHHHHHh
Confidence 8899999999999999999999987653
No 44
>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=99.76 E-value=1.7e-17 Score=114.46 Aligned_cols=103 Identities=36% Similarity=0.545 Sum_probs=86.0
Q ss_pred ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcC-CCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHH
Q 032001 5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHAS-DNVNKVLVGNKADMDESKRAVPTSKGQALADE 82 (149)
Q Consensus 5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~-~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~ 82 (149)
|.++|..++..|++++++ +++|||+++ .+|+.+..|+..+..... .++|+++|+||+|+. ..+.+.......+++.
T Consensus 58 G~~~~~~~~~~~~~~~~~-~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~-~~~~~~~~~~~~~~~~ 135 (163)
T cd04136 58 GTEQFTAMRDLYIKNGQG-FVLVYSITSQSSFNDLQDLREQILRVKDTENVPMVLVGNKCDLE-DERVVSREEGQALARQ 135 (163)
T ss_pred CccccchHHHHHhhcCCE-EEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECcccc-ccceecHHHHHHHHHH
Confidence 457899999999988766 788889987 899999999999877543 578999999999997 4455555666677777
Q ss_pred hCCcEEEecCCCCCCHHHHHHHHHHHH
Q 032001 83 YGIKFFETSAKTNLNVEQVFFSIARDI 109 (149)
Q Consensus 83 ~~~~~~~~Sak~~~~i~el~~~l~~~i 109 (149)
++.+++++||++|.|++++|.++++.+
T Consensus 136 ~~~~~~~~Sa~~~~~v~~l~~~l~~~~ 162 (163)
T cd04136 136 WGCPFYETSAKSKINVDEVFADLVRQI 162 (163)
T ss_pred cCCeEEEecCCCCCCHHHHHHHHHHhc
Confidence 788999999999999999999998754
No 45
>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=99.76 E-value=1.6e-17 Score=117.77 Aligned_cols=106 Identities=16% Similarity=0.248 Sum_probs=84.7
Q ss_pred ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcC----CCCCCHHHHHHH
Q 032001 5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDES----KRAVPTSKGQAL 79 (149)
Q Consensus 5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~----~~~~~~~~~~~~ 79 (149)
+.++|.++++.|+++++. +++|||+++ .+|+.+..|+.++.+.....+| ++|+||+|+... .......+...+
T Consensus 58 G~~~~~~~~~~~~~~a~~-iilv~D~t~~~s~~~i~~~~~~~~~~~~~~~p-ilVgnK~Dl~~~~~~~~~~~~~~~~~~~ 135 (182)
T cd04128 58 GQREFINMLPLVCNDAVA-ILFMFDLTRKSTLNSIKEWYRQARGFNKTAIP-ILVGTKYDLFADLPPEEQEEITKQARKY 135 (182)
T ss_pred CchhHHHhhHHHCcCCCE-EEEEEECcCHHHHHHHHHHHHHHHHhCCCCCE-EEEEEchhccccccchhhhhhHHHHHHH
Confidence 567899999999888755 788899998 8999999999999876545567 678999998511 111123455667
Q ss_pred HHHhCCcEEEecCCCCCCHHHHHHHHHHHHHHH
Q 032001 80 ADEYGIKFFETSAKTNLNVEQVFFSIARDIKQR 112 (149)
Q Consensus 80 ~~~~~~~~~~~Sak~~~~i~el~~~l~~~i~~~ 112 (149)
++..+.+++++||++|.|++++|.++++.+.+.
T Consensus 136 a~~~~~~~~e~SAk~g~~v~~lf~~l~~~l~~~ 168 (182)
T cd04128 136 AKAMKAPLIFCSTSHSINVQKIFKIVLAKAFDL 168 (182)
T ss_pred HHHcCCEEEEEeCCCCCCHHHHHHHHHHHHHhc
Confidence 778888999999999999999999999988754
No 46
>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=99.76 E-value=2e-17 Score=114.64 Aligned_cols=103 Identities=31% Similarity=0.530 Sum_probs=86.9
Q ss_pred ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhc-CCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHH
Q 032001 5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHA-SDNVNKVLVGNKADMDESKRAVPTSKGQALADE 82 (149)
Q Consensus 5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~-~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~ 82 (149)
|.++|.+++..|+++++. +++|||+++ .+|+.+..|+..+.... ..++|+++|+||.|+. ....+....+..+++.
T Consensus 58 G~~~~~~~~~~~~~~~d~-~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~-~~~~~~~~~~~~~~~~ 135 (164)
T cd04175 58 GTEQFTAMRDLYMKNGQG-FVLVYSITAQSTFNDLQDLREQILRVKDTEDVPMILVGNKCDLE-DERVVGKEQGQNLARQ 135 (164)
T ss_pred CcccchhHHHHHHhhCCE-EEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECCcch-hccEEcHHHHHHHHHH
Confidence 457899999999999876 688889987 89999999999987643 3679999999999997 4445555666677778
Q ss_pred hCCcEEEecCCCCCCHHHHHHHHHHHH
Q 032001 83 YGIKFFETSAKTNLNVEQVFFSIARDI 109 (149)
Q Consensus 83 ~~~~~~~~Sak~~~~i~el~~~l~~~i 109 (149)
.+.+++++||++|.|++++|.++++.+
T Consensus 136 ~~~~~~~~Sa~~~~~v~~~~~~l~~~l 162 (164)
T cd04175 136 WGCAFLETSAKAKINVNEIFYDLVRQI 162 (164)
T ss_pred hCCEEEEeeCCCCCCHHHHHHHHHHHh
Confidence 888999999999999999999999765
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=99.75 E-value=2.8e-17 Score=113.52 Aligned_cols=104 Identities=24% Similarity=0.473 Sum_probs=93.4
Q ss_pred ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHh
Q 032001 5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEY 83 (149)
Q Consensus 5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~ 83 (149)
+.++|.+++..++++.+. ++++||+++ .||+.+..|+..+....+.++|+++||||.|+. ..+.+..+++..++..+
T Consensus 57 g~~~~~~~~~~~~~~~~~-~ii~fd~~~~~S~~~~~~~~~~i~~~~~~~~~iivvg~K~D~~-~~~~v~~~~~~~~~~~~ 134 (162)
T PF00071_consen 57 GQERFDSLRDIFYRNSDA-IIIVFDVTDEESFENLKKWLEEIQKYKPEDIPIIVVGNKSDLS-DEREVSVEEAQEFAKEL 134 (162)
T ss_dssp TSGGGHHHHHHHHTTESE-EEEEEETTBHHHHHTHHHHHHHHHHHSTTTSEEEEEEETTTGG-GGSSSCHHHHHHHHHHT
T ss_pred cccccccccccccccccc-ccccccccccccccccccccccccccccccccceeeecccccc-ccccchhhHHHHHHHHh
Confidence 567888889888888876 789999998 999999999999998876679999999999997 56778888899999999
Q ss_pred CCcEEEecCCCCCCHHHHHHHHHHHHH
Q 032001 84 GIKFFETSAKTNLNVEQVFFSIARDIK 110 (149)
Q Consensus 84 ~~~~~~~Sak~~~~i~el~~~l~~~i~ 110 (149)
+.+++++||+++.||.++|..+++.+.
T Consensus 135 ~~~~~e~Sa~~~~~v~~~f~~~i~~i~ 161 (162)
T PF00071_consen 135 GVPYFEVSAKNGENVKEIFQELIRKIL 161 (162)
T ss_dssp TSEEEEEBTTTTTTHHHHHHHHHHHHH
T ss_pred CCEEEEEECCCCCCHHHHHHHHHHHHh
Confidence 999999999999999999999998774
No 48
>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=99.75 E-value=2.8e-17 Score=116.35 Aligned_cols=108 Identities=20% Similarity=0.327 Sum_probs=87.4
Q ss_pred ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHH-HHHHHHHHhcCCCCeEEEEeeCCCCCcC---CCCCCHHHHHHH
Q 032001 5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIR-NWIRNIEQHASDNVNKVLVGNKADMDES---KRAVPTSKGQAL 79 (149)
Q Consensus 5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~-~~~~~i~~~~~~~~~iilv~nK~Dl~~~---~~~~~~~~~~~~ 79 (149)
|.++|..+++.++++++. +++|||+++ .+|+.+. .|+..+.... +++|+++|+||.|+... .+.+...++..+
T Consensus 58 G~~~~~~~~~~~~~~ad~-ii~v~d~~~~~s~~~~~~~~~~~~~~~~-~~~piilv~nK~Dl~~~~~~~~~v~~~~~~~~ 135 (187)
T cd04132 58 GQEEYDRLRPLSYPDVDV-LLICYAVDNPTSLDNVEDKWFPEVNHFC-PGTPIMLVGLKTDLRKDKNLDRKVTPAQAESV 135 (187)
T ss_pred CchhHHHHHHHhCCCCCE-EEEEEECCCHHHHHHHHHHHHHHHHHhC-CCCCEEEEEeChhhhhCccccCCcCHHHHHHH
Confidence 457788898888887765 788899998 8999985 6988876543 57899999999998621 123556677788
Q ss_pred HHHhCC-cEEEecCCCCCCHHHHHHHHHHHHHHHhc
Q 032001 80 ADEYGI-KFFETSAKTNLNVEQVFFSIARDIKQRLA 114 (149)
Q Consensus 80 ~~~~~~-~~~~~Sak~~~~i~el~~~l~~~i~~~~~ 114 (149)
+...+. +++++||++|.|++++|..+++.+.....
T Consensus 136 ~~~~~~~~~~e~Sa~~~~~v~~~f~~l~~~~~~~~~ 171 (187)
T cd04132 136 AKKQGAFAYLECSAKTMENVEEVFDTAIEEALKKEG 171 (187)
T ss_pred HHHcCCcEEEEccCCCCCCHHHHHHHHHHHHHhhhh
Confidence 888887 89999999999999999999998876643
No 49
>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=99.75 E-value=2.6e-17 Score=114.61 Aligned_cols=105 Identities=50% Similarity=0.819 Sum_probs=89.1
Q ss_pred ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHh
Q 032001 5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEY 83 (149)
Q Consensus 5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~ 83 (149)
|.++|..++..++++++. +++|||+++ .+|..+..|+..+......++|+++|+||+|+. ..+.+....+..+++..
T Consensus 61 g~~~~~~~~~~~~~~ad~-~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~-~~~~~~~~~~~~~~~~~ 138 (167)
T cd01867 61 GQERFRTITTAYYRGAMG-IILVYDITDEKSFENIRNWMRNIEEHASEDVERMLVGNKCDME-EKRVVSKEEGEALADEY 138 (167)
T ss_pred chHHHHHHHHHHhCCCCE-EEEEEECcCHHHHHhHHHHHHHHHHhCCCCCcEEEEEECcccc-cccCCCHHHHHHHHHHc
Confidence 346788888888877655 888999987 999999999999987665679999999999997 45556667777788888
Q ss_pred CCcEEEecCCCCCCHHHHHHHHHHHHHH
Q 032001 84 GIKFFETSAKTNLNVEQVFFSIARDIKQ 111 (149)
Q Consensus 84 ~~~~~~~Sak~~~~i~el~~~l~~~i~~ 111 (149)
+.+++++||++|.|++++|.++++.+..
T Consensus 139 ~~~~~~~Sa~~~~~v~~~~~~i~~~~~~ 166 (167)
T cd01867 139 GIKFLETSAKANINVEEAFFTLAKDIKK 166 (167)
T ss_pred CCEEEEEeCCCCCCHHHHHHHHHHHHHh
Confidence 8899999999999999999999988754
No 50
>PLN03071 GTP-binding nuclear protein Ran; Provisional
Probab=99.75 E-value=1.7e-17 Score=120.83 Aligned_cols=104 Identities=23% Similarity=0.407 Sum_probs=86.7
Q ss_pred ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHh
Q 032001 5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEY 83 (149)
Q Consensus 5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~ 83 (149)
|.++|..++..||++++. +++|||+++ .+|..+..|+.++.+.. +++|+++||||+|+. . +.+..... .+.+..
T Consensus 71 G~~~~~~~~~~~~~~~~~-~ilvfD~~~~~s~~~i~~w~~~i~~~~-~~~piilvgNK~Dl~-~-~~v~~~~~-~~~~~~ 145 (219)
T PLN03071 71 GQEKFGGLRDGYYIHGQC-AIIMFDVTARLTYKNVPTWHRDLCRVC-ENIPIVLCGNKVDVK-N-RQVKAKQV-TFHRKK 145 (219)
T ss_pred CchhhhhhhHHHcccccE-EEEEEeCCCHHHHHHHHHHHHHHHHhC-CCCcEEEEEEchhhh-h-ccCCHHHH-HHHHhc
Confidence 457899999999888766 788899998 99999999999998765 579999999999986 2 33334444 566777
Q ss_pred CCcEEEecCCCCCCHHHHHHHHHHHHHHHh
Q 032001 84 GIKFFETSAKTNLNVEQVFFSIARDIKQRL 113 (149)
Q Consensus 84 ~~~~~~~Sak~~~~i~el~~~l~~~i~~~~ 113 (149)
+++++++||++|.|++++|.+|++.+.+..
T Consensus 146 ~~~~~e~SAk~~~~i~~~f~~l~~~~~~~~ 175 (219)
T PLN03071 146 NLQYYEISAKSNYNFEKPFLYLARKLAGDP 175 (219)
T ss_pred CCEEEEcCCCCCCCHHHHHHHHHHHHHcCc
Confidence 889999999999999999999999886553
No 51
>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=99.74 E-value=3.2e-17 Score=113.81 Aligned_cols=104 Identities=41% Similarity=0.645 Sum_probs=88.8
Q ss_pred ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHh
Q 032001 5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEY 83 (149)
Q Consensus 5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~ 83 (149)
|.++|..++..++++++. +++|||.++ ++|..+..|+.++......+.|+++|+||.|+. ....+....+..++...
T Consensus 60 G~~~~~~~~~~~~~~~~~-ii~v~d~~~~~s~~~l~~~~~~~~~~~~~~~~~iiv~nK~Dl~-~~~~~~~~~~~~~~~~~ 137 (166)
T cd01869 60 GQERFRTITSSYYRGAHG-IIIVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDLT-DKRVVDYSEAQEFADEL 137 (166)
T ss_pred CcHhHHHHHHHHhCcCCE-EEEEEECcCHHHHHhHHHHHHHHHHhCCCCCcEEEEEEChhcc-cccCCCHHHHHHHHHHc
Confidence 457888899888887655 788889987 899999999999877654678999999999987 55556667778888888
Q ss_pred CCcEEEecCCCCCCHHHHHHHHHHHHH
Q 032001 84 GIKFFETSAKTNLNVEQVFFSIARDIK 110 (149)
Q Consensus 84 ~~~~~~~Sak~~~~i~el~~~l~~~i~ 110 (149)
+.+++++||++|.|++++|..+++.+.
T Consensus 138 ~~~~~~~Sa~~~~~v~~~~~~i~~~~~ 164 (166)
T cd01869 138 GIPFLETSAKNATNVEQAFMTMAREIK 164 (166)
T ss_pred CCeEEEEECCCCcCHHHHHHHHHHHHH
Confidence 899999999999999999999998774
No 52
>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=99.74 E-value=3.3e-17 Score=116.61 Aligned_cols=104 Identities=24% Similarity=0.325 Sum_probs=83.8
Q ss_pred ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHH-HHHHHHHHhcCCCCeEEEEeeCCCCCcCCC------------C
Q 032001 5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIR-NWIRNIEQHASDNVNKVLVGNKADMDESKR------------A 70 (149)
Q Consensus 5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~-~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~------------~ 70 (149)
|.++|..+++.||++++. +++|||+++ .+|+.+. .|+..+.... ++.|+++|+||+|+. ... .
T Consensus 57 G~~~~~~l~~~~~~~a~~-~ilv~dv~~~~sf~~~~~~~~~~i~~~~-~~~piilvgNK~Dl~-~~~~~~~~~~~~~~~~ 133 (189)
T cd04134 57 GQEEFDRLRSLSYADTDV-IMLCFSVDSPDSLENVESKWLGEIREHC-PGVKLVLVALKCDLR-EARNERDDLQRYGKHT 133 (189)
T ss_pred CChhccccccccccCCCE-EEEEEECCCHHHHHHHHHHHHHHHHHhC-CCCCEEEEEEChhhc-cChhhHHHHhhccCCC
Confidence 457899999998877655 889999998 8999886 6999887654 578999999999996 222 2
Q ss_pred CCHHHHHHHHHHhC-CcEEEecCCCCCCHHHHHHHHHHHHHH
Q 032001 71 VPTSKGQALADEYG-IKFFETSAKTNLNVEQVFFSIARDIKQ 111 (149)
Q Consensus 71 ~~~~~~~~~~~~~~-~~~~~~Sak~~~~i~el~~~l~~~i~~ 111 (149)
+...+...++...+ .+++++||++|.|++++|.+|++.+..
T Consensus 134 v~~~~~~~~~~~~~~~~~~e~SAk~~~~v~e~f~~l~~~~~~ 175 (189)
T cd04134 134 ISYEEGLAVAKRINALRYLECSAKLNRGVNEAFTEAARVALN 175 (189)
T ss_pred CCHHHHHHHHHHcCCCEEEEccCCcCCCHHHHHHHHHHHHhc
Confidence 34455566777766 689999999999999999999988853
No 53
>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=99.74 E-value=2.5e-17 Score=118.08 Aligned_cols=96 Identities=27% Similarity=0.390 Sum_probs=80.6
Q ss_pred ccchhhhhhcCeEEEEEeeCCh-hhHHHHH-HHHHHHHHhcCCCCeEEEEeeCCCCCcC------------------CCC
Q 032001 11 GVYPPYLAVLCRFKYCTYKIAS-YHFSDIR-NWIRNIEQHASDNVNKVLVGNKADMDES------------------KRA 70 (149)
Q Consensus 11 ~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~-~~~~~i~~~~~~~~~iilv~nK~Dl~~~------------------~~~ 70 (149)
.+++.||++++. +++|||+++ .||+.+. .|+.++.... +++|+++||||+||... .+.
T Consensus 79 ~~~~~~~~~ad~-iilv~d~t~~~Sf~~~~~~w~~~i~~~~-~~~piilvgNK~DL~~~~~~~~~~~~~~~~~~~~~~~~ 156 (195)
T cd01873 79 KDRRFAYGRSDV-VLLCFSIASPNSLRNVKTMWYPEIRHFC-PRVPVILVGCKLDLRYADLDEVNRARRPLARPIKNADI 156 (195)
T ss_pred hhhcccCCCCCE-EEEEEECCChhHHHHHHHHHHHHHHHhC-CCCCEEEEEEchhccccccchhhhcccccccccccCCc
Confidence 456677776655 899999998 8999996 6999987765 57899999999998621 356
Q ss_pred CCHHHHHHHHHHhCCcEEEecCCCCCCHHHHHHHHHHH
Q 032001 71 VPTSKGQALADEYGIKFFETSAKTNLNVEQVFFSIARD 108 (149)
Q Consensus 71 ~~~~~~~~~~~~~~~~~~~~Sak~~~~i~el~~~l~~~ 108 (149)
+..+++..+++.++.+++++||++|.||+++|..+++.
T Consensus 157 V~~~e~~~~a~~~~~~~~E~SAkt~~~V~e~F~~~~~~ 194 (195)
T cd01873 157 LPPETGRAVAKELGIPYYETSVVTQFGVKDVFDNAIRA 194 (195)
T ss_pred cCHHHHHHHHHHhCCEEEEcCCCCCCCHHHHHHHHHHh
Confidence 77888999999999999999999999999999999863
No 54
>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=99.74 E-value=3.2e-17 Score=115.42 Aligned_cols=102 Identities=20% Similarity=0.353 Sum_probs=84.3
Q ss_pred ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHH-HHHHHHHHhcCCCCeEEEEeeCCCCCcC-----------CCCC
Q 032001 5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIR-NWIRNIEQHASDNVNKVLVGNKADMDES-----------KRAV 71 (149)
Q Consensus 5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~-~~~~~i~~~~~~~~~iilv~nK~Dl~~~-----------~~~~ 71 (149)
|.++|..++..||++++. +++|||+++ .+|+.+. .|+.++.... +++|+++|+||.|+... .+.+
T Consensus 58 G~~~~~~~~~~~~~~a~~-~ilv~d~~~~~s~~~~~~~w~~~i~~~~-~~~piilvgnK~Dl~~~~~~~~~l~~~~~~~v 135 (175)
T cd01874 58 GQEDYDRLRPLSYPQTDV-FLVCFSVVSPSSFENVKEKWVPEITHHC-PKTPFLLVGTQIDLRDDPSTIEKLAKNKQKPI 135 (175)
T ss_pred CccchhhhhhhhcccCCE-EEEEEECCCHHHHHHHHHHHHHHHHHhC-CCCCEEEEEECHhhhhChhhHHHhhhccCCCc
Confidence 558899999999988755 899999998 8999996 6988887654 57899999999998621 1455
Q ss_pred CHHHHHHHHHHhC-CcEEEecCCCCCCHHHHHHHHHHH
Q 032001 72 PTSKGQALADEYG-IKFFETSAKTNLNVEQVFFSIARD 108 (149)
Q Consensus 72 ~~~~~~~~~~~~~-~~~~~~Sak~~~~i~el~~~l~~~ 108 (149)
..+++..+++..+ ..++++||++|.|++++|+.++..
T Consensus 136 ~~~~~~~~a~~~~~~~~~e~SA~tg~~v~~~f~~~~~~ 173 (175)
T cd01874 136 TPETGEKLARDLKAVKYVECSALTQKGLKNVFDEAILA 173 (175)
T ss_pred CHHHHHHHHHHhCCcEEEEecCCCCCCHHHHHHHHHHH
Confidence 6677777888777 689999999999999999999874
No 55
>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=99.74 E-value=4.9e-17 Score=112.46 Aligned_cols=103 Identities=32% Similarity=0.483 Sum_probs=85.9
Q ss_pred ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhc-CCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHH
Q 032001 5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHA-SDNVNKVLVGNKADMDESKRAVPTSKGQALADE 82 (149)
Q Consensus 5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~-~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~ 82 (149)
|.++|..++..|++++++ +++|||+++ .+|..+..|+..+.+.. ..++|+++|+||+|+. ....+.......++..
T Consensus 58 G~~~~~~~~~~~~~~ad~-~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piviv~nK~Dl~-~~~~~~~~~~~~~~~~ 135 (163)
T cd04176 58 GTEQFASMRDLYIKNGQG-FIVVYSLVNQQTFQDIKPMRDQIVRVKGYEKVPIILVGNKVDLE-SEREVSSAEGRALAEE 135 (163)
T ss_pred CcccccchHHHHHhhCCE-EEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccch-hcCccCHHHHHHHHHH
Confidence 457899999999998766 778889998 89999999999987743 2679999999999986 4445555566677777
Q ss_pred hCCcEEEecCCCCCCHHHHHHHHHHHH
Q 032001 83 YGIKFFETSAKTNLNVEQVFFSIARDI 109 (149)
Q Consensus 83 ~~~~~~~~Sak~~~~i~el~~~l~~~i 109 (149)
.+.+++++||++|.|++++|.++++.+
T Consensus 136 ~~~~~~~~Sa~~~~~v~~l~~~l~~~l 162 (163)
T cd04176 136 WGCPFMETSAKSKTMVNELFAEIVRQM 162 (163)
T ss_pred hCCEEEEecCCCCCCHHHHHHHHHHhc
Confidence 788999999999999999999998754
No 56
>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=99.73 E-value=8.7e-17 Score=111.75 Aligned_cols=102 Identities=27% Similarity=0.344 Sum_probs=83.9
Q ss_pred ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcC---CCCeEEEEeeCCCCCcCCCCCCHHHHHHHH
Q 032001 5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHAS---DNVNKVLVGNKADMDESKRAVPTSKGQALA 80 (149)
Q Consensus 5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~---~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~ 80 (149)
|.++|..++..++..++. +++|||+++ .+|+.+..|+..+.+... .++|+++|+||.|+. ..+.+....+..++
T Consensus 58 G~~~~~~~~~~~~~~~~~-~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~piilv~nK~Dl~-~~~~v~~~~~~~~~ 135 (165)
T cd04140 58 GSHQFPAMQRLSISKGHA-FILVYSVTSKQSLEELKPIYELICEIKGNNIEKIPIMLVGNKCDES-HKREVSSNEGAACA 135 (165)
T ss_pred CCCcchHHHHHHhhcCCE-EEEEEECCCHHHHHHHHHHHHHHHHHhcCCCCCCCEEEEEECcccc-ccCeecHHHHHHHH
Confidence 567888888888887655 788899998 999999999988876432 578999999999997 44555666666777
Q ss_pred HHhCCcEEEecCCCCCCHHHHHHHHHHH
Q 032001 81 DEYGIKFFETSAKTNLNVEQVFFSIARD 108 (149)
Q Consensus 81 ~~~~~~~~~~Sak~~~~i~el~~~l~~~ 108 (149)
...+.+++++||++|.|++++|++|+++
T Consensus 136 ~~~~~~~~e~SA~~g~~v~~~f~~l~~~ 163 (165)
T cd04140 136 TEWNCAFMETSAKTNHNVQELFQELLNL 163 (165)
T ss_pred HHhCCcEEEeecCCCCCHHHHHHHHHhc
Confidence 7778899999999999999999999853
No 57
>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=99.72 E-value=7.9e-17 Score=111.64 Aligned_cols=103 Identities=31% Similarity=0.548 Sum_probs=86.5
Q ss_pred ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHh
Q 032001 5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEY 83 (149)
Q Consensus 5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~ 83 (149)
+.++|..+++.++.+++. +++|||+++ .+|..+..|+.++.+....++|+++|+||.|+. ..+.+..++...++...
T Consensus 61 g~~~~~~~~~~~~~~~~~-~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~pi~vv~nK~Dl~-~~~~~~~~~~~~~~~~~ 138 (165)
T cd01868 61 GQERYRAITSAYYRGAVG-ALLVYDITKKQTFENVERWLKELRDHADSNIVIMLVGNKSDLR-HLRAVPTEEAKAFAEKN 138 (165)
T ss_pred ChHHHHHHHHHHHCCCCE-EEEEEECcCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECcccc-ccccCCHHHHHHHHHHc
Confidence 345678888888886654 788889987 899999999999988765679999999999997 54556666777777777
Q ss_pred CCcEEEecCCCCCCHHHHHHHHHHHH
Q 032001 84 GIKFFETSAKTNLNVEQVFFSIARDI 109 (149)
Q Consensus 84 ~~~~~~~Sak~~~~i~el~~~l~~~i 109 (149)
+.+++++||++|.|++++|+++++.+
T Consensus 139 ~~~~~~~Sa~~~~~v~~l~~~l~~~i 164 (165)
T cd01868 139 GLSFIETSALDGTNVEEAFKQLLTEI 164 (165)
T ss_pred CCEEEEEECCCCCCHHHHHHHHHHHh
Confidence 88999999999999999999998765
No 58
>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=99.72 E-value=2.1e-16 Score=115.39 Aligned_cols=107 Identities=21% Similarity=0.296 Sum_probs=86.3
Q ss_pred ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHH-HHHHHHHHHhcCCCCeEEEEeeCCCCCcCC-----------CCC
Q 032001 5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDI-RNWIRNIEQHASDNVNKVLVGNKADMDESK-----------RAV 71 (149)
Q Consensus 5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~-~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~-----------~~~ 71 (149)
|.+.|..+++.||++++. +++|||+++ ++|+.+ ..|..++.... +++|+|+||||+||.... ..+
T Consensus 58 G~e~~~~l~~~~~~~~d~-illvfdis~~~Sf~~i~~~w~~~~~~~~-~~~piiLVgnK~DL~~~~~~~~~~~~~~~~pI 135 (222)
T cd04173 58 GSSYYDNVRPLAYPDSDA-VLICFDISRPETLDSVLKKWQGETQEFC-PNAKVVLVGCKLDMRTDLATLRELSKQRLIPV 135 (222)
T ss_pred CcHHHHHHhHHhccCCCE-EEEEEECCCHHHHHHHHHHHHHHHHhhC-CCCCEEEEEECcccccchhhhhhhhhccCCcc
Confidence 457899999999988866 789999998 999998 56777765544 679999999999996210 125
Q ss_pred CHHHHHHHHHHhCC-cEEEecCCCCCC-HHHHHHHHHHHHHHHh
Q 032001 72 PTSKGQALADEYGI-KFFETSAKTNLN-VEQVFFSIARDIKQRL 113 (149)
Q Consensus 72 ~~~~~~~~~~~~~~-~~~~~Sak~~~~-i~el~~~l~~~i~~~~ 113 (149)
..++...+++..+. +|+++||+++.+ |+++|..++.....+.
T Consensus 136 s~e~g~~~ak~~~~~~y~E~SAk~~~~~V~~~F~~~~~~~~~~~ 179 (222)
T cd04173 136 THEQGTVLAKQVGAVSYVECSSRSSERSVRDVFHVATVASLGRG 179 (222)
T ss_pred CHHHHHHHHHHcCCCEEEEcCCCcCCcCHHHHHHHHHHHHHhcc
Confidence 56778889999885 899999999985 9999999998776654
No 59
>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=99.72 E-value=1.4e-16 Score=109.54 Aligned_cols=102 Identities=36% Similarity=0.594 Sum_probs=85.3
Q ss_pred ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcC-CCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHH
Q 032001 5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHAS-DNVNKVLVGNKADMDESKRAVPTSKGQALADE 82 (149)
Q Consensus 5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~-~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~ 82 (149)
|.++|..++..|+++.+. +++|||+++ .+|..+..|+..+.+... .++|+++|+||+|+. . +.+....+..+++.
T Consensus 58 G~~~~~~l~~~~~~~~~~-~i~v~~~~~~~s~~~~~~~~~~i~~~~~~~~~piivv~nK~Dl~-~-~~~~~~~~~~~~~~ 134 (162)
T cd04138 58 GQEEYSAMRDQYMRTGEG-FLCVFAINSRKSFEDIHTYREQIKRVKDSDDVPMVLVGNKCDLA-A-RTVSSRQGQDLAKS 134 (162)
T ss_pred CCcchHHHHHHHHhcCCE-EEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECcccc-c-ceecHHHHHHHHHH
Confidence 457899999999998765 788889987 899999999999877543 578999999999997 3 44555666777777
Q ss_pred hCCcEEEecCCCCCCHHHHHHHHHHHH
Q 032001 83 YGIKFFETSAKTNLNVEQVFFSIARDI 109 (149)
Q Consensus 83 ~~~~~~~~Sak~~~~i~el~~~l~~~i 109 (149)
.+.+++++||++|.|++++|+++++.+
T Consensus 135 ~~~~~~~~Sa~~~~gi~~l~~~l~~~~ 161 (162)
T cd04138 135 YGIPYIETSAKTRQGVEEAFYTLVREI 161 (162)
T ss_pred hCCeEEEecCCCCCCHHHHHHHHHHHh
Confidence 888999999999999999999998754
No 60
>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=99.72 E-value=1.6e-16 Score=110.85 Aligned_cols=102 Identities=26% Similarity=0.425 Sum_probs=83.4
Q ss_pred ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHh
Q 032001 5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEY 83 (149)
Q Consensus 5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~ 83 (149)
+.++|..++..+|..+++ +++|||+++ .+|..+..|+.++....+ ++|+++|+||+|+. . +.+. .....+.+..
T Consensus 58 G~~~~~~~~~~~~~~~d~-~i~v~d~~~~~s~~~~~~~~~~i~~~~~-~~piiiv~nK~Dl~-~-~~~~-~~~~~~~~~~ 132 (166)
T cd00877 58 GQEKFGGLRDGYYIGGQC-AIIMFDVTSRVTYKNVPNWHRDLVRVCG-NIPIVLCGNKVDIK-D-RKVK-AKQITFHRKK 132 (166)
T ss_pred CChhhccccHHHhcCCCE-EEEEEECCCHHHHHHHHHHHHHHHHhCC-CCcEEEEEEchhcc-c-ccCC-HHHHHHHHHc
Confidence 456788888888887655 788889998 999999999999988663 79999999999996 2 3333 3344566667
Q ss_pred CCcEEEecCCCCCCHHHHHHHHHHHHHH
Q 032001 84 GIKFFETSAKTNLNVEQVFFSIARDIKQ 111 (149)
Q Consensus 84 ~~~~~~~Sak~~~~i~el~~~l~~~i~~ 111 (149)
+.+++++||++|.|++++|++|++.+.+
T Consensus 133 ~~~~~e~Sa~~~~~v~~~f~~l~~~~~~ 160 (166)
T cd00877 133 NLQYYEISAKSNYNFEKPFLWLARKLLG 160 (166)
T ss_pred CCEEEEEeCCCCCChHHHHHHHHHHHHh
Confidence 7899999999999999999999988864
No 61
>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=99.72 E-value=9.1e-17 Score=113.01 Aligned_cols=102 Identities=25% Similarity=0.389 Sum_probs=83.8
Q ss_pred ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHH-HHHHHHHHhcCCCCeEEEEeeCCCCCcC-----------CCCC
Q 032001 5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIR-NWIRNIEQHASDNVNKVLVGNKADMDES-----------KRAV 71 (149)
Q Consensus 5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~-~~~~~i~~~~~~~~~iilv~nK~Dl~~~-----------~~~~ 71 (149)
|.++|..+++.||++++. +++|||+++ ++|+.+. .|+..+.... +++|+++|+||+|+.+. .+.+
T Consensus 58 G~~~~~~~~~~~~~~~d~-~ilv~d~~~~~sf~~~~~~~~~~~~~~~-~~~piilvgnK~Dl~~~~~~~~~~~~~~~~~v 135 (174)
T cd01871 58 GQEDYDRLRPLSYPQTDV-FLICFSLVSPASFENVRAKWYPEVRHHC-PNTPIILVGTKLDLRDDKDTIEKLKEKKLTPI 135 (174)
T ss_pred CchhhhhhhhhhcCCCCE-EEEEEECCCHHHHHHHHHHHHHHHHHhC-CCCCEEEEeeChhhccChhhHHHHhhccCCCC
Confidence 457899999999887655 889999998 9999995 6988887654 57999999999999621 1246
Q ss_pred CHHHHHHHHHHhC-CcEEEecCCCCCCHHHHHHHHHHH
Q 032001 72 PTSKGQALADEYG-IKFFETSAKTNLNVEQVFFSIARD 108 (149)
Q Consensus 72 ~~~~~~~~~~~~~-~~~~~~Sak~~~~i~el~~~l~~~ 108 (149)
...++..+++.++ .+++++||++|.|++++|+.+++.
T Consensus 136 ~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~ 173 (174)
T cd01871 136 TYPQGLAMAKEIGAVKYLECSALTQKGLKTVFDEAIRA 173 (174)
T ss_pred CHHHHHHHHHHcCCcEEEEecccccCCHHHHHHHHHHh
Confidence 6777888888888 489999999999999999999864
No 62
>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=99.72 E-value=1.5e-16 Score=111.40 Aligned_cols=105 Identities=20% Similarity=0.286 Sum_probs=85.5
Q ss_pred ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHh-cCCCCeEEEEeeCCCCCcCCCC--CCHHHHHHHH
Q 032001 5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQH-ASDNVNKVLVGNKADMDESKRA--VPTSKGQALA 80 (149)
Q Consensus 5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~-~~~~~~iilv~nK~Dl~~~~~~--~~~~~~~~~~ 80 (149)
|.++|..++..+|++++. +++|||+++ .+|..+..|+.++.+. .+.++|+++|+||.|+. .... .....+..++
T Consensus 58 G~~~~~~~~~~~~~~ad~-~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~iilVgnK~Dl~-~~~~~~~~~~~~~~~~ 135 (170)
T cd04108 58 GQERFKCIASTYYRGAQA-IIIVFDLTDVASLEHTRQWLEDALKENDPSSVLLFLVGTKKDLS-SPAQYALMEQDAIKLA 135 (170)
T ss_pred ChHHHHhhHHHHhcCCCE-EEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEChhcC-ccccccccHHHHHHHH
Confidence 457899999999998766 788899987 8999999999998664 33457899999999986 3222 2345566777
Q ss_pred HHhCCcEEEecCCCCCCHHHHHHHHHHHHHH
Q 032001 81 DEYGIKFFETSAKTNLNVEQVFFSIARDIKQ 111 (149)
Q Consensus 81 ~~~~~~~~~~Sak~~~~i~el~~~l~~~i~~ 111 (149)
...+.+++++||++|.|++++|+.|++.+.+
T Consensus 136 ~~~~~~~~e~Sa~~g~~v~~lf~~l~~~~~~ 166 (170)
T cd04108 136 AEMQAEYWSVSALSGENVREFFFRVAALTFE 166 (170)
T ss_pred HHcCCeEEEEECCCCCCHHHHHHHHHHHHHH
Confidence 7778899999999999999999999988754
No 63
>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=99.72 E-value=1.8e-16 Score=110.57 Aligned_cols=105 Identities=33% Similarity=0.574 Sum_probs=89.2
Q ss_pred ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHh
Q 032001 5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEY 83 (149)
Q Consensus 5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~ 83 (149)
|.++|..++..++++.+. +++|||+++ .+|..+..|+.+++....+++|+++|+||+|+. ....+.......++...
T Consensus 62 G~~~~~~~~~~~~~~~d~-il~v~d~~~~~s~~~~~~~~~~~~~~~~~~~pvivv~nK~Dl~-~~~~~~~~~~~~~~~~~ 139 (168)
T cd01866 62 GQESFRSITRSYYRGAAG-ALLVYDITRRETFNHLTSWLEDARQHSNSNMTIMLIGNKCDLE-SRREVSYEEGEAFAKEH 139 (168)
T ss_pred CcHHHHHHHHHHhccCCE-EEEEEECCCHHHHHHHHHHHHHHHHhCCCCCcEEEEEECcccc-cccCCCHHHHHHHHHHc
Confidence 456788889989887655 788889987 999999999999987665689999999999987 44556667777788888
Q ss_pred CCcEEEecCCCCCCHHHHHHHHHHHHHH
Q 032001 84 GIKFFETSAKTNLNVEQVFFSIARDIKQ 111 (149)
Q Consensus 84 ~~~~~~~Sak~~~~i~el~~~l~~~i~~ 111 (149)
+..++++||+++.|++++|..+++.+.+
T Consensus 140 ~~~~~e~Sa~~~~~i~~~~~~~~~~~~~ 167 (168)
T cd01866 140 GLIFMETSAKTASNVEEAFINTAKEIYE 167 (168)
T ss_pred CCEEEEEeCCCCCCHHHHHHHHHHHHHh
Confidence 8999999999999999999999988754
No 64
>PLN03118 Rab family protein; Provisional
Probab=99.71 E-value=5.4e-16 Score=112.10 Aligned_cols=106 Identities=33% Similarity=0.447 Sum_probs=85.9
Q ss_pred ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHH-HHHHHHHhc-CCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHH
Q 032001 5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRN-WIRNIEQHA-SDNVNKVLVGNKADMDESKRAVPTSKGQALAD 81 (149)
Q Consensus 5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~-~~~~i~~~~-~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~ 81 (149)
|.++|..++..|+++++. +++|||.++ .+|..+.. |...+.... ..+.|+++|+||+|+. ..+.+.......++.
T Consensus 71 G~~~~~~~~~~~~~~~d~-~vlv~D~~~~~sf~~~~~~~~~~~~~~~~~~~~~~ilv~NK~Dl~-~~~~i~~~~~~~~~~ 148 (211)
T PLN03118 71 GQERFRTLTSSYYRNAQG-IILVYDVTRRETFTNLSDVWGKEVELYSTNQDCVKMLVGNKVDRE-SERDVSREEGMALAK 148 (211)
T ss_pred CchhhHHHHHHHHhcCCE-EEEEEECCCHHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECcccc-ccCccCHHHHHHHHH
Confidence 457888999999988755 788889998 89999875 666655433 2467999999999997 445566667777777
Q ss_pred HhCCcEEEecCCCCCCHHHHHHHHHHHHHHH
Q 032001 82 EYGIKFFETSAKTNLNVEQVFFSIARDIKQR 112 (149)
Q Consensus 82 ~~~~~~~~~Sak~~~~i~el~~~l~~~i~~~ 112 (149)
..+.+++++||+++.|++++|++|++.+.+.
T Consensus 149 ~~~~~~~e~SAk~~~~v~~l~~~l~~~~~~~ 179 (211)
T PLN03118 149 EHGCLFLECSAKTRENVEQCFEELALKIMEV 179 (211)
T ss_pred HcCCEEEEEeCCCCCCHHHHHHHHHHHHHhh
Confidence 8888999999999999999999999988764
No 65
>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=99.71 E-value=2.5e-16 Score=108.90 Aligned_cols=104 Identities=34% Similarity=0.554 Sum_probs=86.4
Q ss_pred ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhc-CCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHH
Q 032001 5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHA-SDNVNKVLVGNKADMDESKRAVPTSKGQALADE 82 (149)
Q Consensus 5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~-~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~ 82 (149)
|-++|..++..+++++++ +++|||+++ ++|+.+..|...+.+.. ..++|+++|+||+|+. ..+.+....+..+++.
T Consensus 57 g~~~~~~~~~~~~~~~~~-~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~pii~v~nK~Dl~-~~~~~~~~~~~~~~~~ 134 (164)
T smart00173 57 GQEEFSAMRDQYMRTGEG-FLLVYSITDRQSFEEIKKFREQILRVKDRDDVPIVLVGNKCDLE-SERVVSTEEGKELARQ 134 (164)
T ss_pred CcccchHHHHHHHhhCCE-EEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECcccc-ccceEcHHHHHHHHHH
Confidence 346888999999998766 688889987 89999999998886643 2578999999999997 4445556666777788
Q ss_pred hCCcEEEecCCCCCCHHHHHHHHHHHHH
Q 032001 83 YGIKFFETSAKTNLNVEQVFFSIARDIK 110 (149)
Q Consensus 83 ~~~~~~~~Sak~~~~i~el~~~l~~~i~ 110 (149)
.+.+++++||++|.|++++|++|++.+.
T Consensus 135 ~~~~~~~~Sa~~~~~i~~l~~~l~~~~~ 162 (164)
T smart00173 135 WGCPFLETSAKERVNVDEAFYDLVREIR 162 (164)
T ss_pred cCCEEEEeecCCCCCHHHHHHHHHHHHh
Confidence 8899999999999999999999998764
No 66
>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=99.71 E-value=1.6e-16 Score=109.60 Aligned_cols=101 Identities=22% Similarity=0.346 Sum_probs=86.0
Q ss_pred ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHh
Q 032001 5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEY 83 (149)
Q Consensus 5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~ 83 (149)
|.++|..++..|+++.+. +++|||+++ .+|..+..|+..+.... .++|+++|+||+|+. ....+...++..+++..
T Consensus 60 G~~~~~~~~~~~~~~~~~-~v~v~d~~~~~s~~~l~~~~~~~~~~~-~~~p~iiv~nK~Dl~-~~~~v~~~~~~~~~~~~ 136 (162)
T cd04106 60 GQEEFDAITKAYYRGAQA-CILVFSTTDRESFEAIESWKEKVEAEC-GDIPMVLVQTKIDLL-DQAVITNEEAEALAKRL 136 (162)
T ss_pred chHHHHHhHHHHhcCCCE-EEEEEECCCHHHHHHHHHHHHHHHHhC-CCCCEEEEEEChhcc-cccCCCHHHHHHHHHHc
Confidence 457899999999987755 788889987 89999999999987654 579999999999997 45566667777888888
Q ss_pred CCcEEEecCCCCCCHHHHHHHHHHH
Q 032001 84 GIKFFETSAKTNLNVEQVFFSIARD 108 (149)
Q Consensus 84 ~~~~~~~Sak~~~~i~el~~~l~~~ 108 (149)
+.+++++||++|.|++++|++|+..
T Consensus 137 ~~~~~~~Sa~~~~~v~~l~~~l~~~ 161 (162)
T cd04106 137 QLPLFRTSVKDDFNVTELFEYLAEK 161 (162)
T ss_pred CCeEEEEECCCCCCHHHHHHHHHHh
Confidence 9999999999999999999999864
No 67
>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=99.71 E-value=1.9e-16 Score=109.39 Aligned_cols=104 Identities=25% Similarity=0.445 Sum_probs=86.8
Q ss_pred ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcC-----CCCeEEEEeeCCCCCcCCCCCCHHHHHH
Q 032001 5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHAS-----DNVNKVLVGNKADMDESKRAVPTSKGQA 78 (149)
Q Consensus 5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~-----~~~~iilv~nK~Dl~~~~~~~~~~~~~~ 78 (149)
|.++|..+++.+++++++ +++|||.++ .+|..+..|+.++..... .+.|+++|+||+|+. ....+.......
T Consensus 58 G~~~~~~~~~~~~~~~d~-~ilv~D~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~-~~~~~~~~~~~~ 135 (168)
T cd04119 58 GHPEYLEVRNEFYKDTQG-VLLVYDVTDRQSFEALDSWLKEMKQEGGPHGNMENIVVVVCANKIDLT-KHRAVSEDEGRL 135 (168)
T ss_pred ccHHHHHHHHHHhccCCE-EEEEEECCCHHHHHhHHHHHHHHHHhccccccCCCceEEEEEEchhcc-cccccCHHHHHH
Confidence 346788888888888765 788889987 899999999999987653 468999999999986 445556667777
Q ss_pred HHHHhCCcEEEecCCCCCCHHHHHHHHHHHHH
Q 032001 79 LADEYGIKFFETSAKTNLNVEQVFFSIARDIK 110 (149)
Q Consensus 79 ~~~~~~~~~~~~Sak~~~~i~el~~~l~~~i~ 110 (149)
++...+.+++++||++|.|++++|++|++.+.
T Consensus 136 ~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~l~ 167 (168)
T cd04119 136 WAESKGFKYFETSACTGEGVNEMFQTLFSSIV 167 (168)
T ss_pred HHHHcCCeEEEEECCCCCCHHHHHHHHHHHHh
Confidence 78888889999999999999999999998764
No 68
>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=99.71 E-value=2.7e-16 Score=108.59 Aligned_cols=103 Identities=29% Similarity=0.437 Sum_probs=85.7
Q ss_pred ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhc-CCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHH
Q 032001 5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHA-SDNVNKVLVGNKADMDESKRAVPTSKGQALADE 82 (149)
Q Consensus 5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~-~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~ 82 (149)
|.++|..++..|+++++. +++|||+++ .+|..+..|+..+.+.. ..++|+++|+||+|+. ....+.......+++.
T Consensus 59 G~~~~~~~~~~~~~~~~~-~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~piiiv~NK~Dl~-~~~~~~~~~~~~~~~~ 136 (164)
T cd04145 59 GQEEFSAMREQYMRTGEG-FLLVFSVTDRGSFEEVDKFHTQILRVKDRDEFPMILVGNKADLE-HQRKVSREEGQELARK 136 (164)
T ss_pred CCcchhHHHHHHHhhCCE-EEEEEECCCHHHHHHHHHHHHHHHHHhCCCCCCEEEEeeCcccc-ccceecHHHHHHHHHH
Confidence 446888999999988765 778889987 89999999999987643 3578999999999997 4445556667777777
Q ss_pred hCCcEEEecCCCCCCHHHHHHHHHHHH
Q 032001 83 YGIKFFETSAKTNLNVEQVFFSIARDI 109 (149)
Q Consensus 83 ~~~~~~~~Sak~~~~i~el~~~l~~~i 109 (149)
.+.+++++||++|.|++++|++|++.+
T Consensus 137 ~~~~~~~~Sa~~~~~i~~l~~~l~~~~ 163 (164)
T cd04145 137 LKIPYIETSAKDRLNVDKAFHDLVRVI 163 (164)
T ss_pred cCCcEEEeeCCCCCCHHHHHHHHHHhh
Confidence 888999999999999999999998754
No 69
>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=99.70 E-value=2.7e-16 Score=109.85 Aligned_cols=104 Identities=25% Similarity=0.360 Sum_probs=84.4
Q ss_pred ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHH-HHHHHHHHhcCCCCeEEEEeeCCCCCcC-----------CCCC
Q 032001 5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIR-NWIRNIEQHASDNVNKVLVGNKADMDES-----------KRAV 71 (149)
Q Consensus 5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~-~~~~~i~~~~~~~~~iilv~nK~Dl~~~-----------~~~~ 71 (149)
|.++|..+++.++++++. +++|||+++ .+|+.+. .|+..+.... +++|+++|+||.|+... ...+
T Consensus 55 G~~~~~~~~~~~~~~~d~-~ilv~d~~~~~s~~~~~~~~~~~i~~~~-~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v 132 (174)
T smart00174 55 GQEDYDRLRPLSYPDTDV-FLICFSVDSPASFENVKEKWYPEVKHFC-PNTPIILVGTKLDLREDKSTLRELSKQKQEPV 132 (174)
T ss_pred CCcccchhchhhcCCCCE-EEEEEECCCHHHHHHHHHHHHHHHHhhC-CCCCEEEEecChhhhhChhhhhhhhcccCCCc
Confidence 457788889888887655 889999998 8999985 6999887755 57999999999998621 1225
Q ss_pred CHHHHHHHHHHhCC-cEEEecCCCCCCHHHHHHHHHHHHH
Q 032001 72 PTSKGQALADEYGI-KFFETSAKTNLNVEQVFFSIARDIK 110 (149)
Q Consensus 72 ~~~~~~~~~~~~~~-~~~~~Sak~~~~i~el~~~l~~~i~ 110 (149)
...++..+++..+. +++++||++|.|++++|+.+++.+.
T Consensus 133 ~~~~~~~~~~~~~~~~~~e~Sa~~~~~v~~lf~~l~~~~~ 172 (174)
T smart00174 133 TYEQGEALAKRIGAVKYLECSALTQEGVREVFEEAIRAAL 172 (174)
T ss_pred cHHHHHHHHHHcCCcEEEEecCCCCCCHHHHHHHHHHHhc
Confidence 56667778888885 8999999999999999999998763
No 70
>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=99.69 E-value=3.1e-16 Score=108.24 Aligned_cols=102 Identities=32% Similarity=0.467 Sum_probs=86.9
Q ss_pred ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHh
Q 032001 5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEY 83 (149)
Q Consensus 5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~ 83 (149)
|.++|..++..++++.+. +++|||+++ .+|..+..|+..+.....+++|+++|+||.|+. ..+.+...++..++...
T Consensus 58 G~~~~~~~~~~~~~~~~~-~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~iivv~nK~D~~-~~~~~~~~~~~~~~~~~ 135 (161)
T cd04113 58 GQERFRSVTRSYYRGAAG-ALLVYDITNRTSFEALPTWLSDARALASPNIVVILVGNKSDLA-DQREVTFLEASRFAQEN 135 (161)
T ss_pred chHHHHHhHHHHhcCCCE-EEEEEECCCHHHHHHHHHHHHHHHHhCCCCCeEEEEEEchhcc-hhccCCHHHHHHHHHHc
Confidence 346778888888887755 788889997 899999999999877666789999999999997 45556677778888888
Q ss_pred CCcEEEecCCCCCCHHHHHHHHHHH
Q 032001 84 GIKFFETSAKTNLNVEQVFFSIARD 108 (149)
Q Consensus 84 ~~~~~~~Sak~~~~i~el~~~l~~~ 108 (149)
+.+++++||+++.|++++|+++++.
T Consensus 136 ~~~~~~~Sa~~~~~i~~~~~~~~~~ 160 (161)
T cd04113 136 GLLFLETSALTGENVEEAFLKCARS 160 (161)
T ss_pred CCEEEEEECCCCCCHHHHHHHHHHh
Confidence 8999999999999999999999875
No 71
>KOG0395 consensus Ras-related GTPase [General function prediction only]
Probab=99.69 E-value=6.9e-16 Score=110.60 Aligned_cols=104 Identities=33% Similarity=0.517 Sum_probs=93.5
Q ss_pred ccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHH-hcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhC
Q 032001 7 LCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQ-HASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYG 84 (149)
Q Consensus 7 ~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~-~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~ 84 (149)
+.|..|+..|++++++ +++||++++ .||+.+..+++.|.+ .....+|+++||||+|+. ..+.+..++...++..++
T Consensus 62 ~~~~~~~~~~~~~~~g-F~lVysitd~~SF~~~~~l~~~I~r~~~~~~~PivlVGNK~Dl~-~~R~V~~eeg~~la~~~~ 139 (196)
T KOG0395|consen 62 EEFSAMRDLYIRNGDG-FLLVYSITDRSSFEEAKQLREQILRVKGRDDVPIILVGNKCDLE-RERQVSEEEGKALARSWG 139 (196)
T ss_pred ccChHHHHHhhccCcE-EEEEEECCCHHHHHHHHHHHHHHHHhhCcCCCCEEEEEEcccch-hccccCHHHHHHHHHhcC
Confidence 5788899999999977 699999998 999999999999955 334678999999999998 668999999999999999
Q ss_pred CcEEEecCCCCCCHHHHHHHHHHHHHHH
Q 032001 85 IKFFETSAKTNLNVEQVFFSIARDIKQR 112 (149)
Q Consensus 85 ~~~~~~Sak~~~~i~el~~~l~~~i~~~ 112 (149)
.+++++||+.+.+++++|..|++.+...
T Consensus 140 ~~f~E~Sak~~~~v~~~F~~L~r~~~~~ 167 (196)
T KOG0395|consen 140 CAFIETSAKLNYNVDEVFYELVREIRLP 167 (196)
T ss_pred CcEEEeeccCCcCHHHHHHHHHHHHHhh
Confidence 9999999999999999999999988764
No 72
>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=99.69 E-value=4e-16 Score=108.24 Aligned_cols=102 Identities=29% Similarity=0.483 Sum_probs=84.8
Q ss_pred ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHh
Q 032001 5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEY 83 (149)
Q Consensus 5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~ 83 (149)
|.++|..++..++++++. +++|||+++ .+|..+..|+..+......++|+++|+||+|+. ..+.+....+..+++..
T Consensus 61 G~~~~~~~~~~~~~~~d~-~llv~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~-~~~~~~~~~~~~~~~~~ 138 (165)
T cd01864 61 GQERFRTITQSYYRSANG-AIIAYDITRRSSFESVPHWIEEVEKYGASNVVLLLIGNKCDLE-EQREVLFEEACTLAEKN 138 (165)
T ss_pred ChHHHHHHHHHHhccCCE-EEEEEECcCHHHHHhHHHHHHHHHHhCCCCCcEEEEEECcccc-cccccCHHHHHHHHHHc
Confidence 346788888888887755 788889998 899999999999987655689999999999997 44555666777777777
Q ss_pred CC-cEEEecCCCCCCHHHHHHHHHHH
Q 032001 84 GI-KFFETSAKTNLNVEQVFFSIARD 108 (149)
Q Consensus 84 ~~-~~~~~Sak~~~~i~el~~~l~~~ 108 (149)
+. .++++||++|.|++++|..+++.
T Consensus 139 ~~~~~~e~Sa~~~~~v~~~~~~l~~~ 164 (165)
T cd01864 139 GMLAVLETSAKESQNVEEAFLLMATE 164 (165)
T ss_pred CCcEEEEEECCCCCCHHHHHHHHHHh
Confidence 75 78999999999999999999864
No 73
>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=99.68 E-value=7e-16 Score=106.92 Aligned_cols=101 Identities=17% Similarity=0.289 Sum_probs=83.0
Q ss_pred ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHh
Q 032001 5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEY 83 (149)
Q Consensus 5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~ 83 (149)
|.++|..+++.|+++++. +++|||.++ .+|..+..|+..+.+.. +++|+++|+||+|+. . .. ......++...
T Consensus 58 G~~~~~~~~~~~~~~~d~-~i~v~d~~~~~s~~~~~~~~~~i~~~~-~~~p~ivv~nK~Dl~-~--~~-~~~~~~~~~~~ 131 (161)
T cd04124 58 GQERFQTMHASYYHKAHA-CILVFDVTRKITYKNLSKWYEELREYR-PEIPCIVVANKIDLD-P--SV-TQKKFNFAEKH 131 (161)
T ss_pred CchhhhhhhHHHhCCCCE-EEEEEECCCHHHHHHHHHHHHHHHHhC-CCCcEEEEEECccCc-h--hH-HHHHHHHHHHc
Confidence 568899999999998866 788889987 89999999999997654 578999999999985 2 11 23344556667
Q ss_pred CCcEEEecCCCCCCHHHHHHHHHHHHHH
Q 032001 84 GIKFFETSAKTNLNVEQVFFSIARDIKQ 111 (149)
Q Consensus 84 ~~~~~~~Sak~~~~i~el~~~l~~~i~~ 111 (149)
+.+++++||++|.|++++|+.+++.+.+
T Consensus 132 ~~~~~~~Sa~~~~gv~~l~~~l~~~~~~ 159 (161)
T cd04124 132 NLPLYYVSAADGTNVVKLFQDAIKLAVS 159 (161)
T ss_pred CCeEEEEeCCCCCCHHHHHHHHHHHHHh
Confidence 7899999999999999999999988765
No 74
>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=99.68 E-value=5.6e-16 Score=107.93 Aligned_cols=101 Identities=29% Similarity=0.403 Sum_probs=84.8
Q ss_pred ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhc----CCCCeEEEEeeCCCCCcCCCCCCHHHHHHH
Q 032001 5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHA----SDNVNKVLVGNKADMDESKRAVPTSKGQAL 79 (149)
Q Consensus 5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~----~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~ 79 (149)
|.++|..++..|+++++. +++|||+++ .+|+.+..|..++.... ..++|+++|+||+|+. .+.+...++..+
T Consensus 63 G~~~~~~~~~~~~~~~d~-~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~--~~~~~~~~~~~~ 139 (170)
T cd04116 63 GQERFRSLRTPFYRGSDC-CLLTFAVDDSQSFQNLSNWKKEFIYYADVKEPESFPFVVLGNKNDIP--ERQVSTEEAQAW 139 (170)
T ss_pred ChHHHHHhHHHHhcCCCE-EEEEEECCCHHHHHhHHHHHHHHHHhcccccCCCCcEEEEEECcccc--ccccCHHHHHHH
Confidence 457899999999987765 789999997 89999999999887643 2568999999999986 355666777888
Q ss_pred HHHhC-CcEEEecCCCCCCHHHHHHHHHHH
Q 032001 80 ADEYG-IKFFETSAKTNLNVEQVFFSIARD 108 (149)
Q Consensus 80 ~~~~~-~~~~~~Sak~~~~i~el~~~l~~~ 108 (149)
++.++ .+++++||++|.|+.++|..+++.
T Consensus 140 ~~~~~~~~~~e~Sa~~~~~v~~~~~~~~~~ 169 (170)
T cd04116 140 CRENGDYPYFETSAKDATNVAAAFEEAVRR 169 (170)
T ss_pred HHHCCCCeEEEEECCCCCCHHHHHHHHHhh
Confidence 88877 479999999999999999999864
No 75
>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=99.68 E-value=1.2e-15 Score=108.35 Aligned_cols=106 Identities=25% Similarity=0.396 Sum_probs=83.2
Q ss_pred ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHH-HHHHHHHHhcCCCCeEEEEeeCCCCCcC---------CCCCCH
Q 032001 5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIR-NWIRNIEQHASDNVNKVLVGNKADMDES---------KRAVPT 73 (149)
Q Consensus 5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~-~~~~~i~~~~~~~~~iilv~nK~Dl~~~---------~~~~~~ 73 (149)
+.++|..+++.++++++ +++++|++++ ++|..+. .|+..+.+.. +++|+++|+||+|+... .+.+..
T Consensus 58 g~~~~~~~~~~~~~~a~-~~llv~~i~~~~s~~~~~~~~~~~i~~~~-~~~piilvgnK~Dl~~~~~~~~~~~~~~~~~~ 135 (187)
T cd04129 58 GQEEYERLRPLSYSKAH-VILIGFAVDTPDSLENVRTKWIEEVRRYC-PNVPVILVGLKKDLRQDAVAKEEYRTQRFVPI 135 (187)
T ss_pred CChhccccchhhcCCCC-EEEEEEECCCHHHHHHHHHHHHHHHHHhC-CCCCEEEEeeChhhhhCcccccccccCCcCCH
Confidence 45667777777776665 4788899997 8999986 6999887655 46999999999998521 233445
Q ss_pred HHHHHHHHHhCC-cEEEecCCCCCCHHHHHHHHHHHHHHH
Q 032001 74 SKGQALADEYGI-KFFETSAKTNLNVEQVFFSIARDIKQR 112 (149)
Q Consensus 74 ~~~~~~~~~~~~-~~~~~Sak~~~~i~el~~~l~~~i~~~ 112 (149)
..+..+++..+. ++|++||++|.|++++|+++++.+...
T Consensus 136 ~~~~~~~~~~~~~~~~e~Sa~~~~~v~~~f~~l~~~~~~~ 175 (187)
T cd04129 136 QQGKRVAKEIGAKKYMECSALTGEGVDDVFEAATRAALLV 175 (187)
T ss_pred HHHHHHHHHhCCcEEEEccCCCCCCHHHHHHHHHHHHhcc
Confidence 667778888885 899999999999999999999877544
No 76
>smart00175 RAB Rab subfamily of small GTPases. Rab GTPases are implicated in vesicle trafficking.
Probab=99.68 E-value=9.3e-16 Score=105.77 Aligned_cols=104 Identities=37% Similarity=0.608 Sum_probs=87.2
Q ss_pred cccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhC
Q 032001 6 CLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYG 84 (149)
Q Consensus 6 ~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~ 84 (149)
.++|..++..++++++. +++|||+++ .+++.+..|+..+..+..+++|+++|+||+|+. ....+.......+.+..+
T Consensus 59 ~~~~~~~~~~~~~~~d~-~ilv~d~~~~~s~~~~~~~l~~~~~~~~~~~pivvv~nK~D~~-~~~~~~~~~~~~~~~~~~ 136 (164)
T smart00175 59 QERFRSITSSYYRGAVG-ALLVYDITNRESFENLKNWLKELREYADPNVVIMLVGNKSDLE-DQRQVSREEAEAFAEEHG 136 (164)
T ss_pred hHHHHHHHHHHhCCCCE-EEEEEECCCHHHHHHHHHHHHHHHHhCCCCCeEEEEEEchhcc-cccCCCHHHHHHHHHHcC
Confidence 45677888888877655 788889987 899999999999888765689999999999987 434556666777788888
Q ss_pred CcEEEecCCCCCCHHHHHHHHHHHHHH
Q 032001 85 IKFFETSAKTNLNVEQVFFSIARDIKQ 111 (149)
Q Consensus 85 ~~~~~~Sak~~~~i~el~~~l~~~i~~ 111 (149)
.+++++||++|.|++++|+.+.+.+.+
T Consensus 137 ~~~~e~Sa~~~~~i~~l~~~i~~~~~~ 163 (164)
T smart00175 137 LPFFETSAKTNTNVEEAFEELAREILK 163 (164)
T ss_pred CeEEEEeCCCCCCHHHHHHHHHHHHhh
Confidence 999999999999999999999988754
No 77
>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=99.67 E-value=7.7e-16 Score=106.78 Aligned_cols=93 Identities=19% Similarity=0.388 Sum_probs=76.0
Q ss_pred hhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcC-CCCeEEEEeeCCCCCc-CCCCCCHHHHHHHHHHh-CCcEEEe
Q 032001 15 PYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHAS-DNVNKVLVGNKADMDE-SKRAVPTSKGQALADEY-GIKFFET 90 (149)
Q Consensus 15 ~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~-~~~~iilv~nK~Dl~~-~~~~~~~~~~~~~~~~~-~~~~~~~ 90 (149)
.|++ ..+++++|||+++ .||..+..|+.++..... .++|+++||||.|+.. ..+.+...++..+++.. +..++++
T Consensus 61 ~~~~-~~~~~ilv~d~~~~~sf~~~~~~~~~i~~~~~~~~~piilvgnK~Dl~~~~~~~v~~~~~~~~~~~~~~~~~~e~ 139 (158)
T cd04103 61 QFAS-WVDAVIFVFSLENEASFQTVYNLYHQLSSYRNISEIPLILVGTQDAISESNPRVIDDARARQLCADMKRCSYYET 139 (158)
T ss_pred hHHh-cCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEeeHHHhhhcCCcccCHHHHHHHHHHhCCCcEEEE
Confidence 3444 4566899999998 999999999999987643 5789999999999841 24567777777888776 4899999
Q ss_pred cCCCCCCHHHHHHHHHHH
Q 032001 91 SAKTNLNVEQVFFSIARD 108 (149)
Q Consensus 91 Sak~~~~i~el~~~l~~~ 108 (149)
||++|.||+++|..+++.
T Consensus 140 SAk~~~~i~~~f~~~~~~ 157 (158)
T cd04103 140 CATYGLNVERVFQEAAQK 157 (158)
T ss_pred ecCCCCCHHHHHHHHHhh
Confidence 999999999999999864
No 78
>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=99.67 E-value=1.2e-15 Score=105.33 Aligned_cols=103 Identities=39% Similarity=0.602 Sum_probs=87.1
Q ss_pred ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHh
Q 032001 5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEY 83 (149)
Q Consensus 5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~ 83 (149)
|.++|..++..++++.+. +++|+|.++ .+|.....|+..+.......+|+++++||+|+. ..+.........+....
T Consensus 59 G~~~~~~~~~~~~~~~~~-~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~iivv~nK~D~~-~~~~~~~~~~~~~~~~~ 136 (163)
T cd01860 59 GQERYRSLAPMYYRGAAA-AIVVYDITSEESFEKAKSWVKELQRNASPNIIIALVGNKADLE-SKRQVSTEEAQEYADEN 136 (163)
T ss_pred chHHHHHHHHHHhccCCE-EEEEEECcCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECcccc-ccCcCCHHHHHHHHHHc
Confidence 457888899888887755 788889887 899999999999987665679999999999987 44555666777778888
Q ss_pred CCcEEEecCCCCCCHHHHHHHHHHHH
Q 032001 84 GIKFFETSAKTNLNVEQVFFSIARDI 109 (149)
Q Consensus 84 ~~~~~~~Sak~~~~i~el~~~l~~~i 109 (149)
+.+++++||++|.|++++|++|++.+
T Consensus 137 ~~~~~~~Sa~~~~~v~~l~~~l~~~l 162 (163)
T cd01860 137 GLLFFETSAKTGENVNELFTEIAKKL 162 (163)
T ss_pred CCEEEEEECCCCCCHHHHHHHHHHHh
Confidence 89999999999999999999999875
No 79
>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=99.66 E-value=2.4e-15 Score=111.43 Aligned_cols=104 Identities=21% Similarity=0.225 Sum_probs=82.9
Q ss_pred ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHh---------cCCCCeEEEEeeCCCCCcCCCCCCHH
Q 032001 5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQH---------ASDNVNKVLVGNKADMDESKRAVPTS 74 (149)
Q Consensus 5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~---------~~~~~~iilv~nK~Dl~~~~~~~~~~ 74 (149)
|.+.|..++..|+.+++. +|+|||+++ ++|+.+..|++++... ...++|+|+|+||+|+. ..+.+...
T Consensus 57 G~~~~~~~~~~~~~~ad~-iIlVfdv~~~~Sf~~i~~~~~~I~~~k~~~~~~~~~~~~~piIivgNK~Dl~-~~~~v~~~ 134 (247)
T cd04143 57 GNHPFPAMRRLSILTGDV-FILVFSLDNRESFEEVCRLREQILETKSCLKNKTKENVKIPMVICGNKADRD-FPREVQRD 134 (247)
T ss_pred CChhhhHHHHHHhccCCE-EEEEEeCCCHHHHHHHHHHHHHHHHhhcccccccccCCCCcEEEEEECccch-hccccCHH
Confidence 446777888888777654 789999998 9999999999998653 22578999999999997 44556666
Q ss_pred HHHHHHHH-hCCcEEEecCCCCCCHHHHHHHHHHHHH
Q 032001 75 KGQALADE-YGIKFFETSAKTNLNVEQVFFSIARDIK 110 (149)
Q Consensus 75 ~~~~~~~~-~~~~~~~~Sak~~~~i~el~~~l~~~i~ 110 (149)
++..++.. .+..++++||++|.|++++|++|++...
T Consensus 135 ei~~~~~~~~~~~~~evSAktg~gI~elf~~L~~~~~ 171 (247)
T cd04143 135 EVEQLVGGDENCAYFEVSAKKNSNLDEMFRALFSLAK 171 (247)
T ss_pred HHHHHHHhcCCCEEEEEeCCCCCCHHHHHHHHHHHhc
Confidence 66666553 3578999999999999999999998663
No 80
>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=99.66 E-value=1.3e-15 Score=105.27 Aligned_cols=102 Identities=26% Similarity=0.428 Sum_probs=83.3
Q ss_pred ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHh
Q 032001 5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEY 83 (149)
Q Consensus 5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~ 83 (149)
|.++|..++..++.+++. +++|||+++ .+|..+..|+..+.+.. .++|+++|+||+|+. ....+....+..+....
T Consensus 61 G~~~~~~~~~~~~~~~d~-ii~v~d~~~~~s~~~~~~~~~~~~~~~-~~~p~ilv~nK~Dl~-~~~~~~~~~~~~~~~~~ 137 (164)
T cd04101 61 GQELYSDMVSNYWESPSV-FILVYDVSNKASFENCSRWVNKVRTAS-KHMPGVLVGNKMDLA-DKAEVTDAQAQAFAQAN 137 (164)
T ss_pred CHHHHHHHHHHHhCCCCE-EEEEEECcCHHHHHHHHHHHHHHHHhC-CCCCEEEEEECcccc-cccCCCHHHHHHHHHHc
Confidence 346778888888876655 788899997 89999999999987754 568999999999996 44555555556666677
Q ss_pred CCcEEEecCCCCCCHHHHHHHHHHHH
Q 032001 84 GIKFFETSAKTNLNVEQVFFSIARDI 109 (149)
Q Consensus 84 ~~~~~~~Sak~~~~i~el~~~l~~~i 109 (149)
+.+++++||++|.|++++|..+++.+
T Consensus 138 ~~~~~~~Sa~~~~gi~~l~~~l~~~~ 163 (164)
T cd04101 138 QLKFFKTSALRGVGYEEPFESLARAF 163 (164)
T ss_pred CCeEEEEeCCCCCChHHHHHHHHHHh
Confidence 78899999999999999999999764
No 81
>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=99.66 E-value=2.6e-15 Score=104.59 Aligned_cols=104 Identities=31% Similarity=0.497 Sum_probs=86.4
Q ss_pred ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhc-CCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHH
Q 032001 5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHA-SDNVNKVLVGNKADMDESKRAVPTSKGQALADE 82 (149)
Q Consensus 5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~-~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~ 82 (149)
|-++|..++..+++++++ +++|||+++ ++|+....|...+.+.. ..+.|+++++||.|+. ..+.+.......+++.
T Consensus 58 G~~~~~~~~~~~~~~~~~-~vlv~~~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~D~~-~~~~~~~~~~~~~~~~ 135 (168)
T cd04177 58 GTEQFTAMRELYIKSGQG-FLLVYSVTSEASLNELGELREQVLRIKDSDNVPMVLVGNKADLE-DDRQVSREDGVSLSQQ 135 (168)
T ss_pred CcccchhhhHHHHhhCCE-EEEEEECCCHHHHHHHHHHHHHHHHhhCCCCCCEEEEEEChhcc-ccCccCHHHHHHHHHH
Confidence 457899999999999866 677889987 89999999999987643 3579999999999997 4455556666677777
Q ss_pred hC-CcEEEecCCCCCCHHHHHHHHHHHHH
Q 032001 83 YG-IKFFETSAKTNLNVEQVFFSIARDIK 110 (149)
Q Consensus 83 ~~-~~~~~~Sak~~~~i~el~~~l~~~i~ 110 (149)
.+ .+++++||++|.|++++|.+++..+.
T Consensus 136 ~~~~~~~~~SA~~~~~i~~~f~~i~~~~~ 164 (168)
T cd04177 136 WGNVPFYETSARKRTNVDEVFIDLVRQII 164 (168)
T ss_pred cCCceEEEeeCCCCCCHHHHHHHHHHHHh
Confidence 77 78999999999999999999998664
No 82
>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=99.66 E-value=2.6e-15 Score=103.11 Aligned_cols=103 Identities=31% Similarity=0.526 Sum_probs=85.7
Q ss_pred ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHh
Q 032001 5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEY 83 (149)
Q Consensus 5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~ 83 (149)
+.++|..+++.++.+.+ ++++|||+++ .++.....|+.++.+....++|+++|+||+|+. ....+.......+....
T Consensus 58 g~~~~~~~~~~~~~~~~-~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piiiv~nK~D~~-~~~~~~~~~~~~~~~~~ 135 (162)
T cd04123 58 GQERYHALGPIYYRDAD-GAILVYDITDADSFQKVKKWIKELKQMRGNNISLVIVGNKIDLE-RQRVVSKSEAEEYAKSV 135 (162)
T ss_pred chHHHHHhhHHHhccCC-EEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECcccc-cccCCCHHHHHHHHHHc
Confidence 34678888998887665 5788889987 899999999999988665679999999999997 44555566666677777
Q ss_pred CCcEEEecCCCCCCHHHHHHHHHHHH
Q 032001 84 GIKFFETSAKTNLNVEQVFFSIARDI 109 (149)
Q Consensus 84 ~~~~~~~Sak~~~~i~el~~~l~~~i 109 (149)
+.+++++||+++.|++++|+++++.+
T Consensus 136 ~~~~~~~s~~~~~gi~~~~~~l~~~~ 161 (162)
T cd04123 136 GAKHFETSAKTGKGIEELFLSLAKRM 161 (162)
T ss_pred CCEEEEEeCCCCCCHHHHHHHHHHHh
Confidence 88899999999999999999998764
No 83
>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=99.66 E-value=1.8e-15 Score=104.20 Aligned_cols=102 Identities=33% Similarity=0.519 Sum_probs=85.7
Q ss_pred ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHh
Q 032001 5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEY 83 (149)
Q Consensus 5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~ 83 (149)
|.++|..++..++.+.+. +++|||.++ .+|..+..|+..+....+.+.|+++|+||+|+. ..+.....+...+++..
T Consensus 58 G~~~~~~~~~~~~~~~~~-ii~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~iilv~nK~D~~-~~~~~~~~~~~~~~~~~ 135 (161)
T cd01861 58 GQERFRSLIPSYIRDSSV-AVVVYDITNRQSFDNTDKWIDDVRDERGNDVIIVLVGNKTDLS-DKRQVSTEEGEKKAKEL 135 (161)
T ss_pred CcHHHHHHHHHHhccCCE-EEEEEECcCHHHHHHHHHHHHHHHHhCCCCCEEEEEEEChhcc-ccCccCHHHHHHHHHHh
Confidence 457788888888887754 888999998 899999999999877654579999999999996 44555666677777777
Q ss_pred CCcEEEecCCCCCCHHHHHHHHHHH
Q 032001 84 GIKFFETSAKTNLNVEQVFFSIARD 108 (149)
Q Consensus 84 ~~~~~~~Sak~~~~i~el~~~l~~~ 108 (149)
+.+++++||+++.|++++|.++.+.
T Consensus 136 ~~~~~~~Sa~~~~~v~~l~~~i~~~ 160 (161)
T cd01861 136 NAMFIETSAKAGHNVKELFRKIASA 160 (161)
T ss_pred CCEEEEEeCCCCCCHHHHHHHHHHh
Confidence 8899999999999999999999864
No 84
>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=99.65 E-value=2e-15 Score=105.46 Aligned_cols=102 Identities=32% Similarity=0.546 Sum_probs=84.7
Q ss_pred ccccc-ccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhc-CCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHH
Q 032001 6 CLCFI-GVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHA-SDNVNKVLVGNKADMDESKRAVPTSKGQALADE 82 (149)
Q Consensus 6 ~~~~~-~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~-~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~ 82 (149)
.++|+ .++..|+++.+. +++|||+++ .+|..+..|+.++.... ..++|+++|+||+|+. ..+.+....+..+++.
T Consensus 61 ~~~~~~~~~~~~~~~~d~-~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~iiv~nK~Dl~-~~~~~~~~~~~~~~~~ 138 (170)
T cd04115 61 QERFRKSMVQHYYRNVHA-VVFVYDVTNMASFHSLPSWIEECEQHSLPNEVPRILVGNKCDLR-EQIQVPTDLAQRFADA 138 (170)
T ss_pred hHHHHHhhHHHhhcCCCE-EEEEEECCCHHHHHhHHHHHHHHHHhcCCCCCCEEEEEECccch-hhcCCCHHHHHHHHHH
Confidence 35676 577888877755 788999997 89999999999987754 3679999999999997 5566667777778888
Q ss_pred hCCcEEEecCCC---CCCHHHHHHHHHHHH
Q 032001 83 YGIKFFETSAKT---NLNVEQVFFSIARDI 109 (149)
Q Consensus 83 ~~~~~~~~Sak~---~~~i~el~~~l~~~i 109 (149)
.+.+++++||++ +.+++++|..+++.+
T Consensus 139 ~~~~~~e~Sa~~~~~~~~i~~~f~~l~~~~ 168 (170)
T cd04115 139 HSMPLFETSAKDPSENDHVEAIFMTLAHKL 168 (170)
T ss_pred cCCcEEEEeccCCcCCCCHHHHHHHHHHHh
Confidence 888999999999 889999999998765
No 85
>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=99.65 E-value=3.4e-15 Score=103.56 Aligned_cols=99 Identities=29% Similarity=0.396 Sum_probs=81.0
Q ss_pred cccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhc--CCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhCCc
Q 032001 10 IGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHA--SDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIK 86 (149)
Q Consensus 10 ~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~--~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~ 86 (149)
..++..++++++ ++++|||+++ .+|+.+..|+..+.... ..++|+++|+||+|+. ..+.+...++..+++..+.+
T Consensus 62 ~~~~~~~~~~~d-~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~-~~~~v~~~~~~~~~~~~~~~ 139 (165)
T cd04146 62 TEQLERSIRWAD-GFVLVYSITDRSSFDEISQLKQLIREIKKRDREIPVILVGNKADLL-HYRQVSTEEGEKLASELGCL 139 (165)
T ss_pred cchHHHHHHhCC-EEEEEEECCCHHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECCchH-HhCccCHHHHHHHHHHcCCE
Confidence 445667777654 5789999998 99999999999887753 3579999999999986 44556667777788888899
Q ss_pred EEEecCCCC-CCHHHHHHHHHHHHH
Q 032001 87 FFETSAKTN-LNVEQVFFSIARDIK 110 (149)
Q Consensus 87 ~~~~Sak~~-~~i~el~~~l~~~i~ 110 (149)
++++||++| .|++++|..+++.+.
T Consensus 140 ~~e~Sa~~~~~~v~~~f~~l~~~~~ 164 (165)
T cd04146 140 FFEVSAAEDYDGVHSVFHELCREVR 164 (165)
T ss_pred EEEeCCCCCchhHHHHHHHHHHHHh
Confidence 999999999 599999999998764
No 86
>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=99.64 E-value=3.3e-15 Score=104.58 Aligned_cols=100 Identities=26% Similarity=0.402 Sum_probs=81.7
Q ss_pred ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHH-HHHHHHHHhcCCCCeEEEEeeCCCCCcC-----------CCCC
Q 032001 5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIR-NWIRNIEQHASDNVNKVLVGNKADMDES-----------KRAV 71 (149)
Q Consensus 5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~-~~~~~i~~~~~~~~~iilv~nK~Dl~~~-----------~~~~ 71 (149)
|.++|..+++.++++++. +++|||+++ .+|+.+. .|+..+.... +++|+++|+||.|+... .+.+
T Consensus 57 G~~~~~~~~~~~~~~a~~-~i~v~d~~~~~sf~~~~~~~~~~~~~~~-~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v 134 (173)
T cd04130 57 GQDEFDKLRPLCYPDTDV-FLLCFSVVNPSSFQNISEKWIPEIRKHN-PKAPIILVGTQADLRTDVNVLIQLARYGEKPV 134 (173)
T ss_pred CChhhccccccccCCCcE-EEEEEECCCHHHHHHHHHHHHHHHHhhC-CCCCEEEEeeChhhccChhHHHHHhhcCCCCc
Confidence 457899999998887755 789999997 8999884 7998887543 46899999999998621 2355
Q ss_pred CHHHHHHHHHHhCC-cEEEecCCCCCCHHHHHHHHH
Q 032001 72 PTSKGQALADEYGI-KFFETSAKTNLNVEQVFFSIA 106 (149)
Q Consensus 72 ~~~~~~~~~~~~~~-~~~~~Sak~~~~i~el~~~l~ 106 (149)
...++..+++..+. +++++||++|.|++++|+.++
T Consensus 135 ~~~~~~~~a~~~~~~~~~e~Sa~~~~~v~~lf~~~~ 170 (173)
T cd04130 135 SQSRAKALAEKIGACEYIECSALTQKNLKEVFDTAI 170 (173)
T ss_pred CHHHHHHHHHHhCCCeEEEEeCCCCCCHHHHHHHHH
Confidence 66677888888887 899999999999999998876
No 87
>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=99.64 E-value=3.7e-15 Score=106.99 Aligned_cols=96 Identities=24% Similarity=0.260 Sum_probs=76.8
Q ss_pred hhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhc---CCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHH-HhCCcEEE
Q 032001 15 PYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHA---SDNVNKVLVGNKADMDESKRAVPTSKGQALAD-EYGIKFFE 89 (149)
Q Consensus 15 ~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~---~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~-~~~~~~~~ 89 (149)
.++++ .+++++|||+++ .||+.+..|+..+.+.. ..++|+++|+||+|+. ..+.+.......++. ..+.++++
T Consensus 76 ~~~~~-ad~iilv~D~~~~~S~~~~~~~~~~i~~~~~~~~~~~piiivgNK~Dl~-~~~~~~~~~~~~~~~~~~~~~~~e 153 (198)
T cd04142 76 RGLRN-SRAFILVYDICSPDSFHYVKLLRQQILETRPAGNKEPPIVVVGNKRDQQ-RHRFAPRHVLSVLVRKSWKCGYLE 153 (198)
T ss_pred hhhcc-CCEEEEEEECCCHHHHHHHHHHHHHHHHhcccCCCCCCEEEEEECcccc-ccccccHHHHHHHHHHhcCCcEEE
Confidence 34554 466899999998 89999999999987753 3679999999999997 445555555555554 45789999
Q ss_pred ecCCCCCCHHHHHHHHHHHHHHH
Q 032001 90 TSAKTNLNVEQVFFSIARDIKQR 112 (149)
Q Consensus 90 ~Sak~~~~i~el~~~l~~~i~~~ 112 (149)
+||++|.|++++|..+++.+...
T Consensus 154 ~Sak~g~~v~~lf~~i~~~~~~~ 176 (198)
T cd04142 154 CSAKYNWHILLLFKELLISATTR 176 (198)
T ss_pred ecCCCCCCHHHHHHHHHHHhhcc
Confidence 99999999999999999887654
No 88
>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=99.63 E-value=2.7e-15 Score=104.77 Aligned_cols=103 Identities=9% Similarity=0.031 Sum_probs=79.6
Q ss_pred cccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhc-CCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHh
Q 032001 6 CLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHA-SDNVNKVLVGNKADMDESKRAVPTSKGQALADEY 83 (149)
Q Consensus 6 ~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~-~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~ 83 (149)
.++|+.+|..|+++++. +++|||.++ .+|..+..|+..+.+.. ..+.|+++|+||+|+. ..+...+...++...
T Consensus 53 ~~~~~~~~~~~~~~ad~-ii~V~D~s~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~---~~~~~~~~~~~~~~~ 128 (169)
T cd04158 53 KHKLRPLWKHYYLNTQA-VVFVVDSSHRDRVSEAHSELAKLLTEKELRDALLLIFANKQDVA---GALSVEEMTELLSLH 128 (169)
T ss_pred ChhcchHHHHHhccCCE-EEEEEeCCcHHHHHHHHHHHHHHhcChhhCCCCEEEEEeCcCcc---cCCCHHHHHHHhCCc
Confidence 36788899999988766 788889887 88999999999887543 2468999999999996 234455555544322
Q ss_pred C------CcEEEecCCCCCCHHHHHHHHHHHHHHH
Q 032001 84 G------IKFFETSAKTNLNVEQVFFSIARDIKQR 112 (149)
Q Consensus 84 ~------~~~~~~Sak~~~~i~el~~~l~~~i~~~ 112 (149)
+ +.++++||++|.||+++|++|++.+.+.
T Consensus 129 ~~~~~~~~~~~~~Sa~~g~gv~~~f~~l~~~~~~~ 163 (169)
T cd04158 129 KLCCGRSWYIQGCDARSGMGLYEGLDWLSRQLVAA 163 (169)
T ss_pred cccCCCcEEEEeCcCCCCCCHHHHHHHHHHHHhhc
Confidence 2 2577899999999999999999877654
No 89
>PLN00223 ADP-ribosylation factor; Provisional
Probab=99.63 E-value=2.3e-15 Score=106.57 Aligned_cols=103 Identities=9% Similarity=0.012 Sum_probs=75.1
Q ss_pred ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHh-cCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHH
Q 032001 5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQH-ASDNVNKVLVGNKADMDESKRAVPTSKGQALADE 82 (149)
Q Consensus 5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~-~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~ 82 (149)
|.++|+.+|+.||++++. +|+|||+++ .++.....|+..+.+. ...++|+++|+||+|+. . .....+.......
T Consensus 70 Gq~~~~~~~~~~~~~a~~-iI~V~D~s~~~s~~~~~~~l~~~l~~~~~~~~piilv~NK~Dl~-~--~~~~~~~~~~l~l 145 (181)
T PLN00223 70 GQDKIRPLWRHYFQNTQG-LIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLP-N--AMNAAEITDKLGL 145 (181)
T ss_pred CCHHHHHHHHHHhccCCE-EEEEEeCCcHHHHHHHHHHHHHHhcCHhhCCCCEEEEEECCCCC-C--CCCHHHHHHHhCc
Confidence 447899999999998866 788889987 8888888777776542 22578999999999997 2 2233332222211
Q ss_pred hC-----CcEEEecCCCCCCHHHHHHHHHHHHHH
Q 032001 83 YG-----IKFFETSAKTNLNVEQVFFSIARDIKQ 111 (149)
Q Consensus 83 ~~-----~~~~~~Sak~~~~i~el~~~l~~~i~~ 111 (149)
.. +.++++||++|+|+.++|++|++.+.+
T Consensus 146 ~~~~~~~~~~~~~Sa~~g~gv~e~~~~l~~~~~~ 179 (181)
T PLN00223 146 HSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIAN 179 (181)
T ss_pred cccCCCceEEEeccCCCCCCHHHHHHHHHHHHhh
Confidence 11 235579999999999999999987754
No 90
>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=99.63 E-value=7.1e-15 Score=102.64 Aligned_cols=103 Identities=22% Similarity=0.361 Sum_probs=83.1
Q ss_pred ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHH-HHHHHHHHhcCCCCeEEEEeeCCCCCcCC-----------CCC
Q 032001 5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIR-NWIRNIEQHASDNVNKVLVGNKADMDESK-----------RAV 71 (149)
Q Consensus 5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~-~~~~~i~~~~~~~~~iilv~nK~Dl~~~~-----------~~~ 71 (149)
|.++|..+++.++.+++. +++|||+++ .+|+.+. .|...+... .+++|+++|+||+|+.... ..+
T Consensus 57 G~~~~~~~~~~~~~~~~~-~ilv~~~~~~~s~~~~~~~~~~~l~~~-~~~~piivv~nK~Dl~~~~~~~~~~~~~~~~~v 134 (174)
T cd04135 57 GQEDYDRLRPLSYPMTDV-FLICFSVVNPASFQNVKEEWVPELKEY-APNVPYLLVGTQIDLRDDPKTLARLNDMKEKPV 134 (174)
T ss_pred CcccccccccccCCCCCE-EEEEEECCCHHHHHHHHHHHHHHHHhh-CCCCCEEEEeEchhhhcChhhHHHHhhccCCCC
Confidence 567788999998888765 788889987 8999885 788888765 4679999999999986211 245
Q ss_pred CHHHHHHHHHHhCC-cEEEecCCCCCCHHHHHHHHHHHH
Q 032001 72 PTSKGQALADEYGI-KFFETSAKTNLNVEQVFFSIARDI 109 (149)
Q Consensus 72 ~~~~~~~~~~~~~~-~~~~~Sak~~~~i~el~~~l~~~i 109 (149)
...++..+++..+. +++++||++|.|++++|+.+++.+
T Consensus 135 ~~~~~~~~~~~~~~~~~~e~Sa~~~~gi~~~f~~~~~~~ 173 (174)
T cd04135 135 TVEQGQKLAKEIGAHCYVECSALTQKGLKTVFDEAILAI 173 (174)
T ss_pred CHHHHHHHHHHcCCCEEEEecCCcCCCHHHHHHHHHHHh
Confidence 55667778888875 799999999999999999998765
No 91
>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=99.62 E-value=2.4e-15 Score=105.17 Aligned_cols=99 Identities=10% Similarity=-0.004 Sum_probs=75.2
Q ss_pred ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhc-CCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHH
Q 032001 5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHA-SDNVNKVLVGNKADMDESKRAVPTSKGQALADE 82 (149)
Q Consensus 5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~-~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~ 82 (149)
|.++|+.+|+.||++++. +++|||+++ .+|.....|+.++.... ..++|+++|+||.|+. . .+..+++..+...
T Consensus 62 G~~~~~~~~~~~~~~a~~-ii~v~D~t~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~-~--~~~~~~i~~~~~~ 137 (168)
T cd04149 62 GQDKIRPLWRHYYTGTQG-LIFVVDSADRDRIDEARQELHRIINDREMRDALLLVFANKQDLP-D--AMKPHEIQEKLGL 137 (168)
T ss_pred CCHHHHHHHHHHhccCCE-EEEEEeCCchhhHHHHHHHHHHHhcCHhhcCCcEEEEEECcCCc-c--CCCHHHHHHHcCC
Confidence 457899999999998766 788889987 78999888887775432 2568999999999987 2 2344444443321
Q ss_pred -----hCCcEEEecCCCCCCHHHHHHHHHH
Q 032001 83 -----YGIKFFETSAKTNLNVEQVFFSIAR 107 (149)
Q Consensus 83 -----~~~~~~~~Sak~~~~i~el~~~l~~ 107 (149)
...+++++||++|.|++++|++|++
T Consensus 138 ~~~~~~~~~~~~~SAk~g~gv~~~~~~l~~ 167 (168)
T cd04149 138 TRIRDRNWYVQPSCATSGDGLYEGLTWLSS 167 (168)
T ss_pred CccCCCcEEEEEeeCCCCCChHHHHHHHhc
Confidence 2246899999999999999999874
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=99.61 E-value=1.3e-14 Score=100.74 Aligned_cols=103 Identities=31% Similarity=0.498 Sum_probs=83.2
Q ss_pred ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHh
Q 032001 5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEY 83 (149)
Q Consensus 5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~ 83 (149)
+.+.|..++..++..++. +++|||+++ .+|..+..|+..+......++|+++|+||+|+. ..+.+.......+.+..
T Consensus 65 g~~~~~~~~~~~~~~~d~-~i~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~i~v~NK~D~~-~~~~i~~~~~~~~~~~~ 142 (169)
T cd04114 65 GQERFRSITQSYYRSANA-LILTYDITCEESFRCLPEWLREIEQYANNKVITILVGNKIDLA-ERREVSQQRAEEFSDAQ 142 (169)
T ss_pred CcHHHHHHHHHHhcCCCE-EEEEEECcCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECcccc-cccccCHHHHHHHHHHc
Confidence 345688888888877655 788889987 899999999998877655679999999999987 44555555556666666
Q ss_pred CCcEEEecCCCCCCHHHHHHHHHHHH
Q 032001 84 GIKFFETSAKTNLNVEQVFFSIARDI 109 (149)
Q Consensus 84 ~~~~~~~Sak~~~~i~el~~~l~~~i 109 (149)
..+++++||++|.|++++|+++++.+
T Consensus 143 ~~~~~~~Sa~~~~gv~~l~~~i~~~~ 168 (169)
T cd04114 143 DMYYLETSAKESDNVEKLFLDLACRL 168 (169)
T ss_pred CCeEEEeeCCCCCCHHHHHHHHHHHh
Confidence 67899999999999999999999754
No 93
>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=99.61 E-value=1.6e-14 Score=99.50 Aligned_cols=104 Identities=30% Similarity=0.466 Sum_probs=84.8
Q ss_pred ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhc-CCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHH
Q 032001 5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHA-SDNVNKVLVGNKADMDESKRAVPTSKGQALADE 82 (149)
Q Consensus 5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~-~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~ 82 (149)
+.++|..++..++++.+. ++++|++++ .+|.....|+..+.... ..++|+++|+||+|+. ............+...
T Consensus 57 g~~~~~~~~~~~~~~~~~-~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piiiv~NK~D~~-~~~~~~~~~~~~~~~~ 134 (164)
T cd04139 57 GQEDYAAIRDNYHRSGEG-FLLVFSITDMESFTATAEFREQILRVKDDDNVPLLLVGNKCDLE-DKRQVSSEEAANLARQ 134 (164)
T ss_pred ChhhhhHHHHHHhhcCCE-EEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEEccccc-cccccCHHHHHHHHHH
Confidence 456788889999988876 677778886 88999999999887753 3579999999999997 3334455566667777
Q ss_pred hCCcEEEecCCCCCCHHHHHHHHHHHHH
Q 032001 83 YGIKFFETSAKTNLNVEQVFFSIARDIK 110 (149)
Q Consensus 83 ~~~~~~~~Sak~~~~i~el~~~l~~~i~ 110 (149)
.+.+++++||++|.|++++|+.+++.+.
T Consensus 135 ~~~~~~~~Sa~~~~gi~~l~~~l~~~~~ 162 (164)
T cd04139 135 WGVPYVETSAKTRQNVEKAFYDLVREIR 162 (164)
T ss_pred hCCeEEEeeCCCCCCHHHHHHHHHHHHH
Confidence 8889999999999999999999998764
No 94
>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=99.61 E-value=1.7e-14 Score=105.21 Aligned_cols=100 Identities=25% Similarity=0.344 Sum_probs=81.0
Q ss_pred chhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhc-CCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhCCcEEEe
Q 032001 13 YPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHA-SDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFET 90 (149)
Q Consensus 13 ~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~-~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~ 90 (149)
...++....+++++|||+++ .+|+.+..|+..+.+.. ..++|+|+|+||+|+. ..+.+...+...++..++.+++++
T Consensus 65 ~~~~~~~~ad~iilV~d~td~~S~~~~~~~~~~l~~~~~~~~~piilV~NK~Dl~-~~~~v~~~~~~~~a~~~~~~~~e~ 143 (221)
T cd04148 65 EDSCMQYQGDAFVVVYSVTDRSSFERASELRIQLRRNRQLEDRPIILVGNKSDLA-RSREVSVQEGRACAVVFDCKFIET 143 (221)
T ss_pred HhHHhhcCCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEEChhcc-ccceecHHHHHHHHHHcCCeEEEe
Confidence 34444414566899999998 89999999999987754 2579999999999997 455566666777888888899999
Q ss_pred cCCCCCCHHHHHHHHHHHHHHHh
Q 032001 91 SAKTNLNVEQVFFSIARDIKQRL 113 (149)
Q Consensus 91 Sak~~~~i~el~~~l~~~i~~~~ 113 (149)
||++|.||+++|+++++.+....
T Consensus 144 SA~~~~gv~~l~~~l~~~~~~~~ 166 (221)
T cd04148 144 SAGLQHNVDELLEGIVRQIRLRR 166 (221)
T ss_pred cCCCCCCHHHHHHHHHHHHHhhh
Confidence 99999999999999999886543
No 95
>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=99.61 E-value=5.3e-15 Score=103.45 Aligned_cols=102 Identities=16% Similarity=0.128 Sum_probs=79.3
Q ss_pred ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHh
Q 032001 5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEY 83 (149)
Q Consensus 5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~ 83 (149)
+.++|+.++..||++++. +++|||.++ .+|+.+..|+..+... .++|+++|+||.|+. ....+.......+++..
T Consensus 63 g~~~~~~~~~~~~~~~d~-~llv~d~~~~~s~~~~~~~~~~~~~~--~~~p~iiv~NK~Dl~-~~~~~~~~~~~~~~~~~ 138 (169)
T cd01892 63 EDEVAILLNDAELAACDV-ACLVYDSSDPKSFSYCAEVYKKYFML--GEIPCLFVAAKADLD-EQQQRYEVQPDEFCRKL 138 (169)
T ss_pred CcccccccchhhhhcCCE-EEEEEeCCCHHHHHHHHHHHHHhccC--CCCeEEEEEEccccc-ccccccccCHHHHHHHc
Confidence 456788899999877655 788889987 8999999999876432 368999999999996 33333233445566777
Q ss_pred CC-cEEEecCCCCCCHHHHHHHHHHHHH
Q 032001 84 GI-KFFETSAKTNLNVEQVFFSIARDIK 110 (149)
Q Consensus 84 ~~-~~~~~Sak~~~~i~el~~~l~~~i~ 110 (149)
+. .++++||++|.|++++|+.+++.+.
T Consensus 139 ~~~~~~~~Sa~~~~~v~~lf~~l~~~~~ 166 (169)
T cd01892 139 GLPPPLHFSSKLGDSSNELFTKLATAAQ 166 (169)
T ss_pred CCCCCEEEEeccCccHHHHHHHHHHHhh
Confidence 76 4699999999999999999998764
No 96
>KOG4252 consensus GTP-binding protein [Signal transduction mechanisms]
Probab=99.61 E-value=3.3e-15 Score=103.80 Aligned_cols=108 Identities=19% Similarity=0.340 Sum_probs=95.7
Q ss_pred ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHh
Q 032001 5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEY 83 (149)
Q Consensus 5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~ 83 (149)
+-+.|..++..||+++.. .++||+.++ .||+....|++++.... .++|.|+|-||+||. +..++...+...+++..
T Consensus 78 gqeEfDaItkAyyrgaqa-~vLVFSTTDr~SFea~~~w~~kv~~e~-~~IPtV~vqNKIDlv-eds~~~~~evE~lak~l 154 (246)
T KOG4252|consen 78 GQEEFDAITKAYYRGAQA-SVLVFSTTDRYSFEATLEWYNKVQKET-ERIPTVFVQNKIDLV-EDSQMDKGEVEGLAKKL 154 (246)
T ss_pred cchhHHHHHHHHhccccc-eEEEEecccHHHHHHHHHHHHHHHHHh-ccCCeEEeeccchhh-HhhhcchHHHHHHHHHh
Confidence 456788899999999877 788889988 99999999999998765 689999999999998 66777888888899999
Q ss_pred CCcEEEecCCCCCCHHHHHHHHHHHHHHHhcC
Q 032001 84 GIKFFETSAKTNLNVEQVFFSIARDIKQRLAD 115 (149)
Q Consensus 84 ~~~~~~~Sak~~~~i~el~~~l~~~i~~~~~~ 115 (149)
+.+++++|++...||.++|..|++.+.+.+.+
T Consensus 155 ~~RlyRtSvked~NV~~vF~YLaeK~~q~~kq 186 (246)
T KOG4252|consen 155 HKRLYRTSVKEDFNVMHVFAYLAEKLTQQKKQ 186 (246)
T ss_pred hhhhhhhhhhhhhhhHHHHHHHHHHHHHHHHH
Confidence 99999999999999999999999988877655
No 97
>PTZ00133 ADP-ribosylation factor; Provisional
Probab=99.60 E-value=9.3e-15 Score=103.51 Aligned_cols=105 Identities=11% Similarity=0.061 Sum_probs=76.1
Q ss_pred ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHh-cCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHH-
Q 032001 5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQH-ASDNVNKVLVGNKADMDESKRAVPTSKGQALAD- 81 (149)
Q Consensus 5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~-~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~- 81 (149)
|.++|+.+|+.||++++. +|+|||+++ .+|.....|+.++... ...++|+++|+||.|+. . .....+......
T Consensus 70 G~~~~~~~~~~~~~~ad~-iI~v~D~t~~~s~~~~~~~l~~~~~~~~~~~~piilv~NK~Dl~-~--~~~~~~i~~~l~~ 145 (182)
T PTZ00133 70 GQDKLRPLWRHYYQNTNG-LIFVVDSNDRERIGDAREELERMLSEDELRDAVLLVFANKQDLP-N--AMSTTEVTEKLGL 145 (182)
T ss_pred CCHhHHHHHHHHhcCCCE-EEEEEeCCCHHHHHHHHHHHHHHHhCHhhcCCCEEEEEeCCCCC-C--CCCHHHHHHHhCC
Confidence 447889999999998766 688889987 8899888777776442 22468999999999986 2 222222221111
Q ss_pred ----HhCCcEEEecCCCCCCHHHHHHHHHHHHHHHh
Q 032001 82 ----EYGIKFFETSAKTNLNVEQVFFSIARDIKQRL 113 (149)
Q Consensus 82 ----~~~~~~~~~Sak~~~~i~el~~~l~~~i~~~~ 113 (149)
...+.++++||++|.|++++|++|++.+..++
T Consensus 146 ~~~~~~~~~~~~~Sa~tg~gv~e~~~~l~~~i~~~~ 181 (182)
T PTZ00133 146 HSVRQRNWYIQGCCATTAQGLYEGLDWLSANIKKSM 181 (182)
T ss_pred CcccCCcEEEEeeeCCCCCCHHHHHHHHHHHHHHhc
Confidence 11234668999999999999999999887654
No 98
>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=99.59 E-value=2.8e-14 Score=102.18 Aligned_cols=105 Identities=27% Similarity=0.317 Sum_probs=80.6
Q ss_pred ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcC-CCCeEEEEeeCCCCCcCCCCCCHHHHHHHHH-
Q 032001 5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHAS-DNVNKVLVGNKADMDESKRAVPTSKGQALAD- 81 (149)
Q Consensus 5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~-~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~- 81 (149)
|.++|..++..|+.+++. +++|||+++ .+|+.+..|+..+..... .++|+++|+||+|+......+..........
T Consensus 56 G~~~~~~~~~~~~~~ad~-vilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~NK~Dl~~~~~~v~~~~~~~~~~~ 134 (198)
T cd04147 56 GSYSFPAMRKLSIQNSDA-FALVYAVDDPESFEEVERLREEILEVKEDKFVPIVVVGNKADSLEEERQVPAKDALSTVEL 134 (198)
T ss_pred CchhhhHHHHHHhhcCCE-EEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEEccccccccccccHHHHHHHHHh
Confidence 446778888888888765 788889987 899999999999877543 5799999999999862233343333333332
Q ss_pred HhCCcEEEecCCCCCCHHHHHHHHHHHHH
Q 032001 82 EYGIKFFETSAKTNLNVEQVFFSIARDIK 110 (149)
Q Consensus 82 ~~~~~~~~~Sak~~~~i~el~~~l~~~i~ 110 (149)
..+.+++++||++|.|++++|+++++.+.
T Consensus 135 ~~~~~~~~~Sa~~g~gv~~l~~~l~~~~~ 163 (198)
T cd04147 135 DWNCGFVETSAKDNENVLEVFKELLRQAN 163 (198)
T ss_pred hcCCcEEEecCCCCCCHHHHHHHHHHHhh
Confidence 34568999999999999999999998775
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=99.59 E-value=3.2e-14 Score=98.07 Aligned_cols=101 Identities=27% Similarity=0.431 Sum_probs=82.5
Q ss_pred ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcC-CCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHH
Q 032001 5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHAS-DNVNKVLVGNKADMDESKRAVPTSKGQALADE 82 (149)
Q Consensus 5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~-~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~ 82 (149)
+.++|..++..++++.+. +++|||.++ .+|..+..|+..+..... .++|+++|+||+|+. ...........++..
T Consensus 58 g~~~~~~~~~~~~~~~d~-~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~~iv~nK~D~~--~~~~~~~~~~~~~~~ 134 (161)
T cd01863 58 GQERFRTLTSSYYRGAQG-VILVYDVTRRDTFTNLETWLNELETYSTNNDIVKMLVGNKIDKE--NREVTREEGLKFARK 134 (161)
T ss_pred CchhhhhhhHHHhCCCCE-EEEEEECCCHHHHHhHHHHHHHHHHhCCCCCCcEEEEEECCccc--ccccCHHHHHHHHHH
Confidence 345677888888876655 788889987 899999999999887643 678999999999986 234445666777777
Q ss_pred hCCcEEEecCCCCCCHHHHHHHHHHH
Q 032001 83 YGIKFFETSAKTNLNVEQVFFSIARD 108 (149)
Q Consensus 83 ~~~~~~~~Sak~~~~i~el~~~l~~~ 108 (149)
.+.+++++||++|.|++++++.+.+.
T Consensus 135 ~~~~~~~~Sa~~~~gi~~~~~~~~~~ 160 (161)
T cd01863 135 HNMLFIETSAKTRDGVQQAFEELVEK 160 (161)
T ss_pred cCCEEEEEecCCCCCHHHHHHHHHHh
Confidence 88999999999999999999998864
No 100
>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=99.59 E-value=1e-14 Score=100.99 Aligned_cols=99 Identities=9% Similarity=0.037 Sum_probs=72.3
Q ss_pred ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHh-cCCCCeEEEEeeCCCCCcCCCCCCHHH-HHHHHH
Q 032001 5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQH-ASDNVNKVLVGNKADMDESKRAVPTSK-GQALAD 81 (149)
Q Consensus 5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~-~~~~~~iilv~nK~Dl~~~~~~~~~~~-~~~~~~ 81 (149)
|.++|+.+|+.||++++. +++|||.++ .+|.....|+..+... ...++|+++++||+|+. . .....+ ...+..
T Consensus 53 G~~~~~~~~~~~~~~ad~-~i~v~D~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~-~--~~~~~~i~~~~~~ 128 (159)
T cd04150 53 GQDKIRPLWRHYFQNTQG-LIFVVDSNDRERIGEAREELQRMLNEDELRDAVLLVFANKQDLP-N--AMSAAEVTDKLGL 128 (159)
T ss_pred CCHhHHHHHHHHhcCCCE-EEEEEeCCCHHHHHHHHHHHHHHHhcHHhcCCCEEEEEECCCCC-C--CCCHHHHHHHhCc
Confidence 446789999999988866 788889987 8899998888777542 22468999999999996 2 222222 222211
Q ss_pred ----HhCCcEEEecCCCCCCHHHHHHHHHH
Q 032001 82 ----EYGIKFFETSAKTNLNVEQVFFSIAR 107 (149)
Q Consensus 82 ----~~~~~~~~~Sak~~~~i~el~~~l~~ 107 (149)
..++.++++||++|.|++++|++|++
T Consensus 129 ~~~~~~~~~~~~~Sak~g~gv~~~~~~l~~ 158 (159)
T cd04150 129 HSLRNRNWYIQATCATSGDGLYEGLDWLSN 158 (159)
T ss_pred cccCCCCEEEEEeeCCCCCCHHHHHHHHhc
Confidence 11235779999999999999999874
No 101
>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=99.58 E-value=4.4e-14 Score=98.17 Aligned_cols=106 Identities=32% Similarity=0.440 Sum_probs=84.8
Q ss_pred ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcC----CCCeEEEEeeCCCCCcCCCCCCHHHHHHH
Q 032001 5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHAS----DNVNKVLVGNKADMDESKRAVPTSKGQAL 79 (149)
Q Consensus 5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~----~~~~iilv~nK~Dl~~~~~~~~~~~~~~~ 79 (149)
|.+.|..++..++++.+. ++++||+++ .+|.....|..++..... .++|+++|+||+|+. ............+
T Consensus 58 g~~~~~~~~~~~~~~~d~-~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~-~~~~~~~~~~~~~ 135 (172)
T cd01862 58 GQERFQSLGVAFYRGADC-CVLVYDVTNPKSFESLDSWRDEFLIQASPSDPENFPFVVLGNKIDLE-EKRQVSTKKAQQW 135 (172)
T ss_pred ChHHHHhHHHHHhcCCCE-EEEEEECCCHHHHHHHHHHHHHHHHhcCccCCCCceEEEEEECcccc-cccccCHHHHHHH
Confidence 345778888888887765 788889987 889999999988766432 378999999999997 3344455666667
Q ss_pred HHHhC-CcEEEecCCCCCCHHHHHHHHHHHHHHH
Q 032001 80 ADEYG-IKFFETSAKTNLNVEQVFFSIARDIKQR 112 (149)
Q Consensus 80 ~~~~~-~~~~~~Sak~~~~i~el~~~l~~~i~~~ 112 (149)
.+..+ .+++++||++|.|++++|+++++.+.+.
T Consensus 136 ~~~~~~~~~~~~Sa~~~~gv~~l~~~i~~~~~~~ 169 (172)
T cd01862 136 CQSNGNIPYFETSAKEAINVEQAFETIARKALEQ 169 (172)
T ss_pred HHHcCCceEEEEECCCCCCHHHHHHHHHHHHHhc
Confidence 77776 6899999999999999999999888765
No 102
>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=99.58 E-value=3.7e-15 Score=103.76 Aligned_cols=100 Identities=16% Similarity=0.128 Sum_probs=76.8
Q ss_pred ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCH----HHHHHH
Q 032001 5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPT----SKGQAL 79 (149)
Q Consensus 5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~----~~~~~~ 79 (149)
|.++|+.+|..||++++. +++|||.++ .+|.....|+.++.... .++|+++|+||+|+. ....+.. ..+..+
T Consensus 53 G~~~~~~~~~~~~~~ad~-ii~V~D~t~~~s~~~~~~~l~~~~~~~-~~~piilv~NK~Dl~-~~~~~~~i~~~~~~~~~ 129 (164)
T cd04162 53 GSQNLRKYWKRYLSGSQG-LIFVVDSADSERLPLARQELHQLLQHP-PDLPLVVLANKQDLP-AARSVQEIHKELELEPI 129 (164)
T ss_pred CCcchhHHHHHHHhhCCE-EEEEEECCCHHHHHHHHHHHHHHHhCC-CCCcEEEEEeCcCCc-CCCCHHHHHHHhCChhh
Confidence 456899999999999877 678888887 88999999998886543 579999999999987 3332221 122344
Q ss_pred HHHhCCcEEEecCCC------CCCHHHHHHHHHH
Q 032001 80 ADEYGIKFFETSAKT------NLNVEQVFFSIAR 107 (149)
Q Consensus 80 ~~~~~~~~~~~Sak~------~~~i~el~~~l~~ 107 (149)
++..++.++++||++ ++||+++|+.++.
T Consensus 130 ~~~~~~~~~~~Sa~~~~s~~~~~~v~~~~~~~~~ 163 (164)
T cd04162 130 ARGRRWILQGTSLDDDGSPSRMEAVKDLLSQLIN 163 (164)
T ss_pred cCCCceEEEEeeecCCCChhHHHHHHHHHHHHhc
Confidence 455677889999888 9999999998864
No 103
>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=99.58 E-value=1.8e-14 Score=101.28 Aligned_cols=101 Identities=7% Similarity=0.018 Sum_probs=74.1
Q ss_pred ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhc-CCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHH-
Q 032001 5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHA-SDNVNKVLVGNKADMDESKRAVPTSKGQALAD- 81 (149)
Q Consensus 5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~-~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~- 81 (149)
|.++|+.+|..||++++. +++|||+++ .+++....|+..+.+.. ..++|+++|+||.|+. .. ....+......
T Consensus 66 G~~~~~~~~~~~~~~ad~-ii~v~D~t~~~s~~~~~~~l~~~~~~~~~~~~piilv~NK~Dl~-~~--~~~~~i~~~~~~ 141 (175)
T smart00177 66 GQDKIRPLWRHYYTNTQG-LIFVVDSNDRDRIDEAREELHRMLNEDELRDAVILVFANKQDLP-DA--MKAAEITEKLGL 141 (175)
T ss_pred CChhhHHHHHHHhCCCCE-EEEEEECCCHHHHHHHHHHHHHHhhCHhhcCCcEEEEEeCcCcc-cC--CCHHHHHHHhCc
Confidence 457899999999988865 788889987 88999988888875432 2568999999999997 21 22222222111
Q ss_pred ----HhCCcEEEecCCCCCCHHHHHHHHHHHH
Q 032001 82 ----EYGIKFFETSAKTNLNVEQVFFSIARDI 109 (149)
Q Consensus 82 ----~~~~~~~~~Sak~~~~i~el~~~l~~~i 109 (149)
...+.++++||++|.|++++|++|.+.+
T Consensus 142 ~~~~~~~~~~~~~Sa~~g~gv~e~~~~l~~~~ 173 (175)
T smart00177 142 HSIRDRNWYIQPTCATSGDGLYEGLTWLSNNL 173 (175)
T ss_pred cccCCCcEEEEEeeCCCCCCHHHHHHHHHHHh
Confidence 1123467899999999999999998764
No 104
>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=99.58 E-value=8e-14 Score=97.94 Aligned_cols=106 Identities=28% Similarity=0.400 Sum_probs=85.0
Q ss_pred ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcC-CCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHH
Q 032001 5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHAS-DNVNKVLVGNKADMDESKRAVPTSKGQALADE 82 (149)
Q Consensus 5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~-~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~ 82 (149)
+.++|+.++..++...++ ++++||+++ .+|+.+..|+..+.+... .+.|+++|+||+|+. ..+.+.......+++.
T Consensus 58 g~~~~~~~~~~~~~~~~~-~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~-~~~~~~~~~~~~~~~~ 135 (180)
T cd04137 58 GQDEYSILPQKYSIGIHG-YILVYSVTSRKSFEVVKVIYDKILDMLGKESVPIVLVGNKSDLH-TQRQVSTEEGKELAES 135 (180)
T ss_pred ChHhhHHHHHHHHhhCCE-EEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEEchhhh-hcCccCHHHHHHHHHH
Confidence 345677788888887766 688889987 899999999888876543 578999999999987 4444455555666677
Q ss_pred hCCcEEEecCCCCCCHHHHHHHHHHHHHHH
Q 032001 83 YGIKFFETSAKTNLNVEQVFFSIARDIKQR 112 (149)
Q Consensus 83 ~~~~~~~~Sak~~~~i~el~~~l~~~i~~~ 112 (149)
.+.+++++||+++.|+.++|.++.+.+...
T Consensus 136 ~~~~~~~~Sa~~~~gv~~l~~~l~~~~~~~ 165 (180)
T cd04137 136 WGAAFLESSARENENVEEAFELLIEEIEKV 165 (180)
T ss_pred cCCeEEEEeCCCCCCHHHHHHHHHHHHHHh
Confidence 778899999999999999999999988654
No 105
>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=99.56 E-value=4e-14 Score=100.19 Aligned_cols=105 Identities=11% Similarity=0.079 Sum_probs=78.1
Q ss_pred ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhc-CCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHH
Q 032001 5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHA-SDNVNKVLVGNKADMDESKRAVPTSKGQALADE 82 (149)
Q Consensus 5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~-~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~ 82 (149)
|.++|+.+|..+++++++ +++|+|.++ .++.....|+.++.... ..++|+++|+||+|+. . .........+...
T Consensus 61 G~~~~~~~~~~~~~~~d~-ii~v~D~~~~~~~~~~~~~~~~i~~~~~~~~~p~iiv~NK~D~~-~--~~~~~~~~~~~~~ 136 (183)
T cd04152 61 GQEKLRPLWKSYTRCTDG-IVFVVDSVDVERMEEAKTELHKITRFSENQGVPVLVLANKQDLP-N--ALSVSEVEKLLAL 136 (183)
T ss_pred CcHhHHHHHHHHhccCCE-EEEEEECCCHHHHHHHHHHHHHHHhhhhcCCCcEEEEEECcCcc-c--cCCHHHHHHHhCc
Confidence 346788999998887766 677888887 78999999988876643 2578999999999986 2 2223333333221
Q ss_pred ------hCCcEEEecCCCCCCHHHHHHHHHHHHHHHh
Q 032001 83 ------YGIKFFETSAKTNLNVEQVFFSIARDIKQRL 113 (149)
Q Consensus 83 ------~~~~~~~~Sak~~~~i~el~~~l~~~i~~~~ 113 (149)
.+.+++++||++|.|++++|++|++.+.+..
T Consensus 137 ~~~~~~~~~~~~~~SA~~~~gi~~l~~~l~~~l~~~~ 173 (183)
T cd04152 137 HELSASTPWHVQPACAIIGEGLQEGLEKLYEMILKRR 173 (183)
T ss_pred cccCCCCceEEEEeecccCCCHHHHHHHHHHHHHHHH
Confidence 1245789999999999999999999886553
No 106
>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=99.55 E-value=9.6e-14 Score=96.98 Aligned_cols=103 Identities=25% Similarity=0.365 Sum_probs=78.6
Q ss_pred ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHH-HHHHHHHHhcCCCCeEEEEeeCCCCCcCC-----------CCC
Q 032001 5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIR-NWIRNIEQHASDNVNKVLVGNKADMDESK-----------RAV 71 (149)
Q Consensus 5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~-~~~~~i~~~~~~~~~iilv~nK~Dl~~~~-----------~~~ 71 (149)
|.++|..+++.++.+.+. +++||++++ .+|+.+. .|...+.+.. .++|+++|+||.|+.... ..+
T Consensus 58 G~~~~~~~~~~~~~~~d~-~i~v~~~~~~~s~~~~~~~~~~~~~~~~-~~~piilv~nK~Dl~~~~~~~~~i~~~~~~~v 135 (175)
T cd01870 58 GQEDYDRLRPLSYPDTDV-ILMCFSIDSPDSLENIPEKWTPEVKHFC-PNVPIILVGNKKDLRNDEHTRRELAKMKQEPV 135 (175)
T ss_pred CchhhhhccccccCCCCE-EEEEEECCCHHHHHHHHHHHHHHHHhhC-CCCCEEEEeeChhcccChhhhhhhhhccCCCc
Confidence 456788888888776654 788899997 8998885 6888887644 578999999999986211 123
Q ss_pred CHHHHHHHHHHhCC-cEEEecCCCCCCHHHHHHHHHHHH
Q 032001 72 PTSKGQALADEYGI-KFFETSAKTNLNVEQVFFSIARDI 109 (149)
Q Consensus 72 ~~~~~~~~~~~~~~-~~~~~Sak~~~~i~el~~~l~~~i 109 (149)
.......++...+. +++++||++|.|++++|+++++..
T Consensus 136 ~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~~ 174 (175)
T cd01870 136 KPEEGRDMANKIGAFGYMECSAKTKEGVREVFEMATRAA 174 (175)
T ss_pred cHHHHHHHHHHcCCcEEEEeccccCcCHHHHHHHHHHHh
Confidence 34455666666664 799999999999999999998653
No 107
>TIGR00157 ribosome small subunit-dependent GTPase A. The Aquifex aeolicus ortholog is split into consecutive open reading frames. Consequently, this model was build in fragment mode (-f option).
Probab=99.55 E-value=2.6e-14 Score=105.79 Aligned_cols=95 Identities=13% Similarity=0.163 Sum_probs=75.7
Q ss_pred ccccccchhhhhhcCeEEEEEeeCC-h-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhC
Q 032001 7 LCFIGVYPPYLAVLCRFKYCTYKIA-S-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYG 84 (149)
Q Consensus 7 ~~~~~~~~~~~~~~~~~vi~v~~~~-~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~ 84 (149)
|||..+.+.|+++++. +++|||++ + .+|..+..|+..+.. .++|+++|+||+||. +.+.+..+....+ ...+
T Consensus 24 eR~~~L~r~~~~n~D~-viiV~d~~~p~~s~~~l~r~l~~~~~---~~i~~vIV~NK~DL~-~~~~~~~~~~~~~-~~~g 97 (245)
T TIGR00157 24 ERKNELTRPIVANIDQ-IVIVSSAVLPELSLNQLDRFLVVAEA---QNIEPIIVLNKIDLL-DDEDMEKEQLDIY-RNIG 97 (245)
T ss_pred cccceEECcccccCCE-EEEEEECCCCCCCHHHHHHHHHHHHH---CCCCEEEEEECcccC-CCHHHHHHHHHHH-HHCC
Confidence 7999999999999877 68888887 4 489999999987754 568999999999996 3333222333333 3477
Q ss_pred CcEEEecCCCCCCHHHHHHHHHH
Q 032001 85 IKFFETSAKTNLNVEQVFFSIAR 107 (149)
Q Consensus 85 ~~~~~~Sak~~~~i~el~~~l~~ 107 (149)
.+++++||++|.|++++|..+..
T Consensus 98 ~~v~~~SAktg~gi~eLf~~l~~ 120 (245)
T TIGR00157 98 YQVLMTSSKNQDGLKELIEALQN 120 (245)
T ss_pred CeEEEEecCCchhHHHHHhhhcC
Confidence 89999999999999999998875
No 108
>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=99.55 E-value=3e-14 Score=99.71 Aligned_cols=98 Identities=10% Similarity=0.063 Sum_probs=74.1
Q ss_pred cccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHh-cCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHH--
Q 032001 6 CLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQH-ASDNVNKVLVGNKADMDESKRAVPTSKGQALAD-- 81 (149)
Q Consensus 6 ~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~-~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~-- 81 (149)
.++|+++|..||++.+. +++|||.++ .+|.....|+..+... ...++|+++|+||+|+. .. ....+...+..
T Consensus 68 ~~~~~~~~~~~~~~~d~-~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~iiv~nK~Dl~-~~--~~~~~~~~~~~~~ 143 (173)
T cd04154 68 QKTLRPYWRNYFESTDA-LIWVVDSSDRLRLDDCKRELKELLQEERLAGATLLILANKQDLP-GA--LSEEEIREALELD 143 (173)
T ss_pred CHHHHHHHHHHhCCCCE-EEEEEECCCHHHHHHHHHHHHHHHhChhhcCCCEEEEEECcccc-cC--CCHHHHHHHhCcc
Confidence 45678889999887766 678889987 7899988888887542 23579999999999997 22 23334443332
Q ss_pred ---HhCCcEEEecCCCCCCHHHHHHHHHH
Q 032001 82 ---EYGIKFFETSAKTNLNVEQVFFSIAR 107 (149)
Q Consensus 82 ---~~~~~~~~~Sak~~~~i~el~~~l~~ 107 (149)
..+.+++++||++|.|++++|+++++
T Consensus 144 ~~~~~~~~~~~~Sa~~g~gi~~l~~~l~~ 172 (173)
T cd04154 144 KISSHHWRIQPCSAVTGEGLLQGIDWLVD 172 (173)
T ss_pred ccCCCceEEEeccCCCCcCHHHHHHHHhc
Confidence 23468999999999999999999874
No 109
>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=99.54 E-value=1.2e-13 Score=94.54 Aligned_cols=101 Identities=33% Similarity=0.503 Sum_probs=83.0
Q ss_pred cccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcC-CCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHh
Q 032001 6 CLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHAS-DNVNKVLVGNKADMDESKRAVPTSKGQALADEY 83 (149)
Q Consensus 6 ~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~-~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~ 83 (149)
.+.|..++..++.+.+ ++++|||.++ .++.....|+..+.+... ...|+++|+||+|+. .........+..+....
T Consensus 57 ~~~~~~~~~~~~~~~~-~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~-~~~~~~~~~~~~~~~~~ 134 (160)
T cd00876 57 QEEFSAMRDLYIRQGD-GFILVYSITDRESFEEIKGYREQILRVKDDEDIPIVLVGNKCDLE-NERQVSKEEGKALAKEW 134 (160)
T ss_pred hHHHHHHHHHHHhcCC-EEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEECCccc-ccceecHHHHHHHHHHc
Confidence 3456777888888765 5788889987 899999999999887654 579999999999997 44555566777777777
Q ss_pred CCcEEEecCCCCCCHHHHHHHHHHH
Q 032001 84 GIKFFETSAKTNLNVEQVFFSIARD 108 (149)
Q Consensus 84 ~~~~~~~Sak~~~~i~el~~~l~~~ 108 (149)
+.+++++||+++.|++++|++|++.
T Consensus 135 ~~~~~~~S~~~~~~i~~l~~~l~~~ 159 (160)
T cd00876 135 GCPFIETSAKDNINIDEVFKLLVRE 159 (160)
T ss_pred CCcEEEeccCCCCCHHHHHHHHHhh
Confidence 7899999999999999999999875
No 110
>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=99.52 E-value=8.3e-14 Score=95.88 Aligned_cols=99 Identities=12% Similarity=0.130 Sum_probs=72.4
Q ss_pred ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhc---CCCCeEEEEeeCCCCCcCCCCCCHHHHHHHH
Q 032001 5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHA---SDNVNKVLVGNKADMDESKRAVPTSKGQALA 80 (149)
Q Consensus 5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~---~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~ 80 (149)
|.++|+.+|..||++++. +++|+|.++ .+|.....|+..+.+.. ..++|+++|+||+|+. ... ...+.....
T Consensus 54 G~~~~~~~~~~~~~~~d~-ii~v~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~iiv~NK~Dl~-~~~--~~~~~~~~l 129 (162)
T cd04157 54 GQGKYRGLWEHYYKNIQG-IIFVIDSSDRLRLVVVKDELELLLNHPDIKHRRVPILFFANKMDLP-DAL--TAVKITQLL 129 (162)
T ss_pred CCHhhHHHHHHHHccCCE-EEEEEeCCcHHHHHHHHHHHHHHHcCcccccCCCCEEEEEeCcccc-CCC--CHHHHHHHh
Confidence 456788999999988766 677888887 88888888888876532 2579999999999987 221 222222111
Q ss_pred H-----HhCCcEEEecCCCCCCHHHHHHHHHH
Q 032001 81 D-----EYGIKFFETSAKTNLNVEQVFFSIAR 107 (149)
Q Consensus 81 ~-----~~~~~~~~~Sak~~~~i~el~~~l~~ 107 (149)
. ....+++++||++|.|++++|++|++
T Consensus 130 ~~~~~~~~~~~~~~~Sa~~g~gv~~~~~~l~~ 161 (162)
T cd04157 130 GLENIKDKPWHIFASNALTGEGLDEGVQWLQA 161 (162)
T ss_pred CCccccCceEEEEEeeCCCCCchHHHHHHHhc
Confidence 1 11245899999999999999999864
No 111
>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=99.51 E-value=2.4e-13 Score=92.49 Aligned_cols=99 Identities=36% Similarity=0.610 Sum_probs=81.3
Q ss_pred cccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhC
Q 032001 6 CLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYG 84 (149)
Q Consensus 6 ~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~ 84 (149)
.++|..++..++++.+. +++|+|.++ +++..+..|+..+......+.|+++++||+|+. ............+....+
T Consensus 59 ~~~~~~~~~~~~~~~d~-ii~v~d~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~-~~~~~~~~~~~~~~~~~~ 136 (159)
T cd00154 59 QERFRSITPSYYRGAHG-AILVYDITNRESFENLDKWLKELKEYAPENIPIILVGNKIDLE-DQRQVSTEEAQQFAKENG 136 (159)
T ss_pred hHHHHHHHHHHhcCCCE-EEEEEECCCHHHHHHHHHHHHHHHHhCCCCCcEEEEEEccccc-ccccccHHHHHHHHHHcC
Confidence 35566778888877655 788889887 889999999999988665678999999999985 334555667777777788
Q ss_pred CcEEEecCCCCCCHHHHHHHHH
Q 032001 85 IKFFETSAKTNLNVEQVFFSIA 106 (149)
Q Consensus 85 ~~~~~~Sak~~~~i~el~~~l~ 106 (149)
.+++++||+++.|++++|.+|+
T Consensus 137 ~~~~~~sa~~~~~i~~~~~~i~ 158 (159)
T cd00154 137 LLFFETSAKTGENVEELFQSLA 158 (159)
T ss_pred CeEEEEecCCCCCHHHHHHHHh
Confidence 8999999999999999999886
No 112
>PTZ00132 GTP-binding nuclear protein Ran; Provisional
Probab=99.49 E-value=6.4e-13 Score=96.23 Aligned_cols=103 Identities=26% Similarity=0.450 Sum_probs=82.9
Q ss_pred ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHh
Q 032001 5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEY 83 (149)
Q Consensus 5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~ 83 (149)
+.++|..++..|+...+. +++|||+++ .+|..+..|+..+.... .++|+++++||.|+. . +.+.. ....++...
T Consensus 67 g~~~~~~~~~~~~~~~~~-~i~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~i~lv~nK~Dl~-~-~~~~~-~~~~~~~~~ 141 (215)
T PTZ00132 67 GQEKFGGLRDGYYIKGQC-AIIMFDVTSRITYKNVPNWHRDIVRVC-ENIPIVLVGNKVDVK-D-RQVKA-RQITFHRKK 141 (215)
T ss_pred CchhhhhhhHHHhccCCE-EEEEEECcCHHHHHHHHHHHHHHHHhC-CCCCEEEEEECccCc-c-ccCCH-HHHHHHHHc
Confidence 456788889888887755 788999997 99999999999987654 578999999999986 2 22322 233566677
Q ss_pred CCcEEEecCCCCCCHHHHHHHHHHHHHHH
Q 032001 84 GIKFFETSAKTNLNVEQVFFSIARDIKQR 112 (149)
Q Consensus 84 ~~~~~~~Sak~~~~i~el~~~l~~~i~~~ 112 (149)
++.++++||++|.|++++|.+|++.+...
T Consensus 142 ~~~~~e~Sa~~~~~v~~~f~~ia~~l~~~ 170 (215)
T PTZ00132 142 NLQYYDISAKSNYNFEKPFLWLARRLTND 170 (215)
T ss_pred CCEEEEEeCCCCCCHHHHHHHHHHHHhhc
Confidence 88999999999999999999999988654
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=99.48 E-value=1.7e-13 Score=97.08 Aligned_cols=99 Identities=15% Similarity=0.137 Sum_probs=75.4
Q ss_pred cccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcC-CCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHH-
Q 032001 6 CLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHAS-DNVNKVLVGNKADMDESKRAVPTSKGQALADE- 82 (149)
Q Consensus 6 ~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~-~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~- 82 (149)
.++|+.+|..|+++.+. +++|+|.++ .+|.....|+..+.+... .+.|+++++||+|+. ..+.......+...
T Consensus 73 ~~~~~~~~~~~~~~ad~-iilV~D~~~~~s~~~~~~~~~~i~~~~~~~~~pvivv~NK~Dl~---~~~~~~~~~~~~~~~ 148 (190)
T cd00879 73 HEQARRLWKDYFPEVDG-IVFLVDAADPERFQESKEELDSLLSDEELANVPFLILGNKIDLP---GAVSEEELRQALGLY 148 (190)
T ss_pred CHHHHHHHHHHhccCCE-EEEEEECCcHHHHHHHHHHHHHHHcCccccCCCEEEEEeCCCCC---CCcCHHHHHHHhCcc
Confidence 45677888888888755 788889987 789888888888765332 568999999999986 34445555554432
Q ss_pred ---------------hCCcEEEecCCCCCCHHHHHHHHHHH
Q 032001 83 ---------------YGIKFFETSAKTNLNVEQVFFSIARD 108 (149)
Q Consensus 83 ---------------~~~~~~~~Sak~~~~i~el~~~l~~~ 108 (149)
...+++++||++|.|++++|++|++.
T Consensus 149 ~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gv~e~~~~l~~~ 189 (190)
T cd00879 149 GTTTGKGVSLKVSGIRPIEVFMCSVVKRQGYGEAFRWLSQY 189 (190)
T ss_pred cccccccccccccCceeEEEEEeEecCCCChHHHHHHHHhh
Confidence 12468999999999999999999864
No 114
>KOG0393 consensus Ras-related small GTPase, Rho type [General function prediction only]
Probab=99.48 E-value=2.5e-13 Score=96.54 Aligned_cols=107 Identities=28% Similarity=0.393 Sum_probs=90.4
Q ss_pred cccccccccchhhhhhcCeEEEEEeeCCh-hhHHHH-HHHHHHHHHhcCCCCeEEEEeeCCCCCcC-----------CCC
Q 032001 4 LRCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDI-RNWIRNIEQHASDNVNKVLVGNKADMDES-----------KRA 70 (149)
Q Consensus 4 ~~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~-~~~~~~i~~~~~~~~~iilv~nK~Dl~~~-----------~~~ 70 (149)
.|.|.|.++|+..|...+. +++.|++++ .||+.+ .+|+.+++.+. +++|+|+||+|.||..+ ...
T Consensus 61 AGqedYDrlRplsY~~tdv-fl~cfsv~~p~S~~nv~~kW~pEi~~~c-p~vpiiLVGtk~DLr~d~~~~~~l~~~~~~~ 138 (198)
T KOG0393|consen 61 AGQEDYDRLRPLSYPQTDV-FLLCFSVVSPESFENVKSKWIPEIKHHC-PNVPIILVGTKADLRDDPSTLEKLQRQGLEP 138 (198)
T ss_pred CCCcccccccccCCCCCCE-EEEEEEcCChhhHHHHHhhhhHHHHhhC-CCCCEEEEeehHHhhhCHHHHHHHHhccCCc
Confidence 4678899999999998866 577899987 999997 59999999887 78999999999999721 124
Q ss_pred CCHHHHHHHHHHhC-CcEEEecCCCCCCHHHHHHHHHHHHHHH
Q 032001 71 VPTSKGQALADEYG-IKFFETSAKTNLNVEQVFFSIARDIKQR 112 (149)
Q Consensus 71 ~~~~~~~~~~~~~~-~~~~~~Sak~~~~i~el~~~l~~~i~~~ 112 (149)
+...+...++++.| ..++++||++..|+.++|+..+......
T Consensus 139 Vt~~~g~~lA~~iga~~y~EcSa~tq~~v~~vF~~a~~~~l~~ 181 (198)
T KOG0393|consen 139 VTYEQGLELAKEIGAVKYLECSALTQKGVKEVFDEAIRAALRP 181 (198)
T ss_pred ccHHHHHHHHHHhCcceeeeehhhhhCCcHHHHHHHHHHHhcc
Confidence 56677788899988 5899999999999999999999877654
No 115
>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=99.48 E-value=3e-13 Score=94.90 Aligned_cols=99 Identities=11% Similarity=0.063 Sum_probs=72.3
Q ss_pred ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcC-CCCeEEEEeeCCCCCcCCCCCCHHHH-HHHH-
Q 032001 5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHAS-DNVNKVLVGNKADMDESKRAVPTSKG-QALA- 80 (149)
Q Consensus 5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~-~~~~iilv~nK~Dl~~~~~~~~~~~~-~~~~- 80 (149)
|.++|..+|..||.+++. +++|+|.++ ++|.....|+..+.+... .++|+++++||+|+. . .....+. ..+.
T Consensus 68 G~~~~~~~~~~~~~~~d~-vi~V~D~s~~~~~~~~~~~l~~~~~~~~~~~~p~viv~NK~Dl~-~--~~~~~~i~~~l~~ 143 (174)
T cd04153 68 GQESLRSSWNTYYTNTDA-VILVIDSTDRERLPLTKEELYKMLAHEDLRKAVLLVLANKQDLK-G--AMTPAEISESLGL 143 (174)
T ss_pred CCHHHHHHHHHHhhcCCE-EEEEEECCCHHHHHHHHHHHHHHHhchhhcCCCEEEEEECCCCC-C--CCCHHHHHHHhCc
Confidence 345788889999987765 788889987 788888887777755322 568999999999987 2 2222322 2221
Q ss_pred ---HHhCCcEEEecCCCCCCHHHHHHHHHH
Q 032001 81 ---DEYGIKFFETSAKTNLNVEQVFFSIAR 107 (149)
Q Consensus 81 ---~~~~~~~~~~Sak~~~~i~el~~~l~~ 107 (149)
+..+.+++++||++|.|++++|++|++
T Consensus 144 ~~~~~~~~~~~~~SA~~g~gi~e~~~~l~~ 173 (174)
T cd04153 144 TSIRDHTWHIQGCCALTGEGLPEGLDWIAS 173 (174)
T ss_pred ccccCCceEEEecccCCCCCHHHHHHHHhc
Confidence 123356899999999999999999975
No 116
>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=99.46 E-value=1.8e-13 Score=95.53 Aligned_cols=101 Identities=14% Similarity=0.113 Sum_probs=73.2
Q ss_pred ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcC-CCCeEEEEeeCCCCCcCCCCCCHHH----HHH
Q 032001 5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHAS-DNVNKVLVGNKADMDESKRAVPTSK----GQA 78 (149)
Q Consensus 5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~-~~~~iilv~nK~Dl~~~~~~~~~~~----~~~ 78 (149)
|.++|+.+|..||+++++ +++|||.++ .+|..+..|+..+.+... .++|+++|+||+|+. ......... +..
T Consensus 52 G~~~~~~~~~~~~~~a~~-ii~V~D~s~~~s~~~~~~~l~~l~~~~~~~~~piliv~NK~Dl~-~~~~~~~i~~~~~l~~ 129 (167)
T cd04161 52 GGANFRGIWVNYYAEAHG-LVFVVDSSDDDRVQEVKEILRELLQHPRVSGKPILVLANKQDKK-NALLGADVIEYLSLEK 129 (167)
T ss_pred CcHHHHHHHHHHHcCCCE-EEEEEECCchhHHHHHHHHHHHHHcCccccCCcEEEEEeCCCCc-CCCCHHHHHHhcCccc
Confidence 346788999999988866 677789887 889999999998876432 578999999999997 322111111 112
Q ss_pred HHHHhC--CcEEEecCCCC------CCHHHHHHHHHH
Q 032001 79 LADEYG--IKFFETSAKTN------LNVEQVFFSIAR 107 (149)
Q Consensus 79 ~~~~~~--~~~~~~Sak~~------~~i~el~~~l~~ 107 (149)
+++..+ ..++.+||++| .|+.+.|+||++
T Consensus 130 ~~~~~~~~~~~~~~Sa~~g~~~~~~~g~~~~~~wl~~ 166 (167)
T cd04161 130 LVNENKSLCHIEPCSAIEGLGKKIDPSIVEGLRWLLA 166 (167)
T ss_pred ccCCCCceEEEEEeEceeCCCCccccCHHHHHHHHhc
Confidence 222222 45778999998 899999999974
No 117
>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=99.46 E-value=7.5e-13 Score=92.03 Aligned_cols=103 Identities=21% Similarity=0.281 Sum_probs=74.6
Q ss_pred ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHH-HHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCC--HHHHHHHH
Q 032001 5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIR-NWIRNIEQHASDNVNKVLVGNKADMDESKRAVP--TSKGQALA 80 (149)
Q Consensus 5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~-~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~--~~~~~~~~ 80 (149)
|.++|+.++..++.+++ ++++|||+++ .+|+.+. .|...++... .++|+++|+||+|+. +..... ......+.
T Consensus 56 G~~~~~~~~~~~~~~ad-~~ilv~d~~~~~s~~~~~~~~~~~i~~~~-~~~pviiv~nK~Dl~-~~~~~~~~~~~~~~~~ 132 (166)
T cd01893 56 SRPQDRANLAAEIRKAN-VICLVYSVDRPSTLERIRTKWLPLIRRLG-VKVPIILVGNKSDLR-DGSSQAGLEEEMLPIM 132 (166)
T ss_pred CchhhhHHHhhhcccCC-EEEEEEECCCHHHHHHHHHHHHHHHHHhC-CCCCEEEEEEchhcc-cccchhHHHHHHHHHH
Confidence 34556677777776655 5788999987 8999975 6888877654 479999999999997 322211 22233333
Q ss_pred HHh-C-CcEEEecCCCCCCHHHHHHHHHHHHH
Q 032001 81 DEY-G-IKFFETSAKTNLNVEQVFFSIARDIK 110 (149)
Q Consensus 81 ~~~-~-~~~~~~Sak~~~~i~el~~~l~~~i~ 110 (149)
..+ + .+++++||++|.|++++|+.+++.+.
T Consensus 133 ~~~~~~~~~~e~Sa~~~~~v~~lf~~~~~~~~ 164 (166)
T cd01893 133 NEFREIETCVECSAKTLINVSEVFYYAQKAVL 164 (166)
T ss_pred HHHhcccEEEEeccccccCHHHHHHHHHHHhc
Confidence 333 2 37999999999999999999988664
No 118
>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=99.46 E-value=1.8e-12 Score=91.28 Aligned_cols=101 Identities=13% Similarity=0.153 Sum_probs=75.1
Q ss_pred ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhc-CCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHH
Q 032001 5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHA-SDNVNKVLVGNKADMDESKRAVPTSKGQALADE 82 (149)
Q Consensus 5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~-~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~ 82 (149)
|.++++.+|+.||.+.++ +|+|.|..+ ..+......+.++.... -.++|+++++||.|++ ......+.......
T Consensus 67 G~~~~~~~w~~y~~~~~~-iIfVvDssd~~~l~e~~~~L~~ll~~~~~~~~piLIl~NK~D~~---~~~~~~~i~~~l~l 142 (175)
T PF00025_consen 67 GQESFRPLWKSYFQNADG-IIFVVDSSDPERLQEAKEELKELLNDPELKDIPILILANKQDLP---DAMSEEEIKEYLGL 142 (175)
T ss_dssp SSGGGGGGGGGGHTTESE-EEEEEETTGGGGHHHHHHHHHHHHTSGGGTTSEEEEEEESTTST---TSSTHHHHHHHTTG
T ss_pred ccccccccceeeccccce-eEEEEecccceeecccccchhhhcchhhcccceEEEEecccccc---CcchhhHHHhhhhh
Confidence 456789999999999877 566667776 77888877777776532 2579999999999987 23334444433221
Q ss_pred ------hCCcEEEecCCCCCCHHHHHHHHHHHH
Q 032001 83 ------YGIKFFETSAKTNLNVEQVFFSIARDI 109 (149)
Q Consensus 83 ------~~~~~~~~Sak~~~~i~el~~~l~~~i 109 (149)
..+.++.+||.+|+|+.+.|+||.+.+
T Consensus 143 ~~l~~~~~~~v~~~sa~~g~Gv~e~l~WL~~~~ 175 (175)
T PF00025_consen 143 EKLKNKRPWSVFSCSAKTGEGVDEGLEWLIEQI 175 (175)
T ss_dssp GGTTSSSCEEEEEEBTTTTBTHHHHHHHHHHHH
T ss_pred hhcccCCceEEEeeeccCCcCHHHHHHHHHhcC
Confidence 234588999999999999999999764
No 119
>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=99.46 E-value=5.4e-13 Score=92.41 Aligned_cols=98 Identities=11% Similarity=0.137 Sum_probs=73.0
Q ss_pred cccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhc-CCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHH-
Q 032001 6 CLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHA-SDNVNKVLVGNKADMDESKRAVPTSKGQALADE- 82 (149)
Q Consensus 6 ~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~-~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~- 82 (149)
-++|..++..++.+.+. +++|+|.++ .++.....|+..+.+.. ..++|+++|+||+|+. . .....+...+...
T Consensus 60 ~~~~~~~~~~~~~~~~~-~v~vvd~~~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~D~~-~--~~~~~~~~~~~~~~ 135 (167)
T cd04160 60 QESLRSLWDKYYAECHA-IIYVIDSTDRERFEESKSALEKVLRNEALEGVPLLILANKQDLP-D--ALSVEEIKEVFQDK 135 (167)
T ss_pred ChhhHHHHHHHhCCCCE-EEEEEECchHHHHHHHHHHHHHHHhChhhcCCCEEEEEEccccc-c--CCCHHHHHHHhccc
Confidence 35678888888887765 677788886 78888888888876532 2578999999999987 2 2333333333322
Q ss_pred ------hCCcEEEecCCCCCCHHHHHHHHHH
Q 032001 83 ------YGIKFFETSAKTNLNVEQVFFSIAR 107 (149)
Q Consensus 83 ------~~~~~~~~Sak~~~~i~el~~~l~~ 107 (149)
.+.+++++||++|.|+++++++|++
T Consensus 136 ~~~~~~~~~~~~~~Sa~~g~gv~e~~~~l~~ 166 (167)
T cd04160 136 AEEIGRRDCLVLPVSALEGTGVREGIEWLVE 166 (167)
T ss_pred cccccCCceEEEEeeCCCCcCHHHHHHHHhc
Confidence 2357999999999999999999975
No 120
>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=99.46 E-value=2.3e-13 Score=93.64 Aligned_cols=98 Identities=16% Similarity=0.128 Sum_probs=71.4
Q ss_pred cccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhc-CCCCeEEEEeeCCCCCcCCCCCCHHHHHHH----
Q 032001 6 CLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHA-SDNVNKVLVGNKADMDESKRAVPTSKGQAL---- 79 (149)
Q Consensus 6 ~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~-~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~---- 79 (149)
-++|..+|..++.+.+. +++|+|.++ .++.....|+.++.+.. ..+.|+++|+||+|+. . .....+....
T Consensus 54 ~~~~~~~~~~~~~~~~~-iv~v~D~~~~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~-~--~~~~~~i~~~~~~~ 129 (160)
T cd04156 54 QEKMRTVWKCYLENTDG-LVYVVDSSDEARLDESQKELKHILKNEHIKGVPVVLLANKQDLP-G--ALTAEEITRRFKLK 129 (160)
T ss_pred CHhHHHHHHHHhccCCE-EEEEEECCcHHHHHHHHHHHHHHHhchhhcCCCEEEEEECcccc-c--CcCHHHHHHHcCCc
Confidence 35678888888888765 778889887 78999988888876532 2578999999999986 2 1122222211
Q ss_pred --HHHhCCcEEEecCCCCCCHHHHHHHHHH
Q 032001 80 --ADEYGIKFFETSAKTNLNVEQVFFSIAR 107 (149)
Q Consensus 80 --~~~~~~~~~~~Sak~~~~i~el~~~l~~ 107 (149)
....+.+++++||++|.|++++|++|++
T Consensus 130 ~~~~~~~~~~~~~Sa~~~~gv~~~~~~i~~ 159 (160)
T cd04156 130 KYCSDRDWYVQPCSAVTGEGLAEAFRKLAS 159 (160)
T ss_pred ccCCCCcEEEEecccccCCChHHHHHHHhc
Confidence 1112346899999999999999999874
No 121
>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=99.45 E-value=6.8e-13 Score=91.42 Aligned_cols=99 Identities=10% Similarity=0.044 Sum_probs=69.3
Q ss_pred ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHH-hcCCCCeEEEEeeCCCCCcCCCCCCHHHHH-HHHH
Q 032001 5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQ-HASDNVNKVLVGNKADMDESKRAVPTSKGQ-ALAD 81 (149)
Q Consensus 5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~-~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~-~~~~ 81 (149)
|.++|+.+|..|+.+++. +++|+|.++ .++.....|+..+.+ ....++|+++|+||+|+. ... ...+.. .+..
T Consensus 52 G~~~~~~~~~~~~~~~~~-ii~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~piiiv~nK~Dl~-~~~--~~~~i~~~~~~ 127 (158)
T cd04151 52 GQTSIRPYWRCYYSNTDA-IIYVVDSTDRDRLGTAKEELHAMLEEEELKGAVLLVFANKQDMP-GAL--SEAEISEKLGL 127 (158)
T ss_pred CCHHHHHHHHHHhcCCCE-EEEEEECCCHHHHHHHHHHHHHHHhchhhcCCcEEEEEeCCCCC-CCC--CHHHHHHHhCc
Confidence 345788899999988766 678889887 677777666655433 222468999999999986 221 122221 1111
Q ss_pred ----HhCCcEEEecCCCCCCHHHHHHHHHH
Q 032001 82 ----EYGIKFFETSAKTNLNVEQVFFSIAR 107 (149)
Q Consensus 82 ----~~~~~~~~~Sak~~~~i~el~~~l~~ 107 (149)
..+.+++++||++|.|++++|++|++
T Consensus 128 ~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~ 157 (158)
T cd04151 128 SELKDRTWSIFKTSAIKGEGLDEGMDWLVN 157 (158)
T ss_pred cccCCCcEEEEEeeccCCCCHHHHHHHHhc
Confidence 11246999999999999999999975
No 122
>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=99.44 E-value=1.1e-12 Score=94.48 Aligned_cols=89 Identities=6% Similarity=0.095 Sum_probs=69.8
Q ss_pred ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhc-------------------CCCCeEEEEeeCCCC
Q 032001 5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHA-------------------SDNVNKVLVGNKADM 64 (149)
Q Consensus 5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~-------------------~~~~~iilv~nK~Dl 64 (149)
|.++|+++++.||+++++ +|+|||+++ .||+.+..|+.++.+.. +.++|+++||||.|+
T Consensus 63 G~e~~~~l~~~~yr~ad~-iIlVyDvtn~~Sf~~l~~W~~ei~~~~~~~~~~~~~~~~~~~~~~~~~~~PiilVGnK~Dl 141 (202)
T cd04102 63 GSESVKSTRAVFYNQVNG-IILVHDLTNRKSSQNLQRWSLEALNKDTFPTGLLVTNGDYDSEQFGGNQIPLLVIGTKLDQ 141 (202)
T ss_pred CchhHHHHHHHHhCcCCE-EEEEEECcChHHHHHHHHHHHHHHHhhccccccccccccccccccCCCCceEEEEEECccc
Confidence 457899999999998766 799999998 99999999999997631 247899999999999
Q ss_pred CcCCCCCCHH----HHHHHHHHhCCcEEEecCCCC
Q 032001 65 DESKRAVPTS----KGQALADEYGIKFFETSAKTN 95 (149)
Q Consensus 65 ~~~~~~~~~~----~~~~~~~~~~~~~~~~Sak~~ 95 (149)
. +.+.+... ....++.+.+.+.+..++..+
T Consensus 142 ~-~~r~~~~~~~~~~~~~ia~~~~~~~i~~~c~~~ 175 (202)
T cd04102 142 I-PEKESSGNLVLTARGFVAEQGNAEEINLNCTNG 175 (202)
T ss_pred h-hhcccchHHHhhHhhhHHHhcCCceEEEecCCc
Confidence 7 44444333 234567788888888887655
No 123
>PRK12299 obgE GTPase CgtA; Reviewed
Probab=99.42 E-value=2.4e-12 Score=99.25 Aligned_cols=101 Identities=16% Similarity=0.175 Sum_probs=75.1
Q ss_pred ccchhhhhh--cCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcC--CCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhCC
Q 032001 11 GVYPPYLAV--LCRFKYCTYKIAS-YHFSDIRNWIRNIEQHAS--DNVNKVLVGNKADMDESKRAVPTSKGQALADEYGI 85 (149)
Q Consensus 11 ~~~~~~~~~--~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~--~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~ 85 (149)
.+...+++. ..+++++|+|+++ .+++....|.+++..+.. .++|+++|+||+|+. ....+.......+....+.
T Consensus 225 gLg~~flrhie~a~vlI~ViD~s~~~s~e~~~~~~~EL~~~~~~L~~kp~IIV~NKiDL~-~~~~~~~~~~~~~~~~~~~ 303 (335)
T PRK12299 225 GLGHRFLKHIERTRLLLHLVDIEAVDPVEDYKTIRNELEKYSPELADKPRILVLNKIDLL-DEEEEREKRAALELAALGG 303 (335)
T ss_pred cHHHHHHHHhhhcCEEEEEEcCCCCCCHHHHHHHHHHHHHhhhhcccCCeEEEEECcccC-CchhHHHHHHHHHHHhcCC
Confidence 344454444 2356888999987 689999999999987643 468999999999987 3332222333344455567
Q ss_pred cEEEecCCCCCCHHHHHHHHHHHHHHH
Q 032001 86 KFFETSAKTNLNVEQVFFSIARDIKQR 112 (149)
Q Consensus 86 ~~~~~Sak~~~~i~el~~~l~~~i~~~ 112 (149)
+++++||+++.|+++++++|.+.+.+.
T Consensus 304 ~i~~iSAktg~GI~eL~~~L~~~l~~~ 330 (335)
T PRK12299 304 PVFLISAVTGEGLDELLRALWELLEEA 330 (335)
T ss_pred CEEEEEcCCCCCHHHHHHHHHHHHHhh
Confidence 899999999999999999999887653
No 124
>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=99.41 E-value=3.8e-12 Score=88.29 Aligned_cols=99 Identities=26% Similarity=0.431 Sum_probs=75.7
Q ss_pred ccccccchhhhhhcCeEEEEEeeCCh-hhHHHHH-HHHHHHHHhcCCCCeEEEEeeCCCCCcCCC----------CCCHH
Q 032001 7 LCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIR-NWIRNIEQHASDNVNKVLVGNKADMDESKR----------AVPTS 74 (149)
Q Consensus 7 ~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~-~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~----------~~~~~ 74 (149)
++|..++..++..+ +++++|||.++ .+|.... .|+..+.... .++|+++|+||+|+..... .+...
T Consensus 59 ~~~~~~~~~~~~~~-~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~-~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~v~~~ 136 (171)
T cd00157 59 EEYDRLRPLSYPNT-DVFLICFSVDSPSSFENVKTKWIPEIRHYC-PNVPIILVGTKIDLRDDENTLKKLEKGKEPITPE 136 (171)
T ss_pred ccccccchhhcCCC-CEEEEEEECCCHHHHHHHHHHHHHHHHhhC-CCCCEEEEEccHHhhhchhhhhhcccCCCccCHH
Confidence 45667777777665 45888999997 8888865 6887776654 4799999999999872221 23355
Q ss_pred HHHHHHHHhCC-cEEEecCCCCCCHHHHHHHHHH
Q 032001 75 KGQALADEYGI-KFFETSAKTNLNVEQVFFSIAR 107 (149)
Q Consensus 75 ~~~~~~~~~~~-~~~~~Sak~~~~i~el~~~l~~ 107 (149)
....+....+. +++++||++|.|++++|+++++
T Consensus 137 ~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~i~~ 170 (171)
T cd00157 137 EGEKLAKEIGAIGYMECSALTQEGVKEVFEEAIR 170 (171)
T ss_pred HHHHHHHHhCCeEEEEeecCCCCCHHHHHHHHhh
Confidence 56667777776 8999999999999999999875
No 125
>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=99.40 E-value=2.5e-12 Score=90.06 Aligned_cols=96 Identities=24% Similarity=0.246 Sum_probs=70.2
Q ss_pred cccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhC
Q 032001 6 CLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYG 84 (149)
Q Consensus 6 ~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~ 84 (149)
-++|..++..++++++. +++|+|.++ .++.....|.... . .++|+++|+||+|+. ... .......+.+..+
T Consensus 77 ~~~~~~~~~~~~~~ad~-~i~v~D~~~~~~~~~~~~~~~~~-~---~~~~iiiv~NK~Dl~-~~~--~~~~~~~~~~~~~ 148 (179)
T cd01890 77 HVDFSYEVSRSLAACEG-ALLLVDATQGVEAQTLANFYLAL-E---NNLEIIPVINKIDLP-SAD--PERVKQQIEDVLG 148 (179)
T ss_pred ChhhHHHHHHHHHhcCe-EEEEEECCCCccHhhHHHHHHHH-H---cCCCEEEEEECCCCC-cCC--HHHHHHHHHHHhC
Confidence 35677888888888765 688889886 6677777675433 2 468999999999986 221 2223344555555
Q ss_pred C---cEEEecCCCCCCHHHHHHHHHHHH
Q 032001 85 I---KFFETSAKTNLNVEQVFFSIARDI 109 (149)
Q Consensus 85 ~---~~~~~Sak~~~~i~el~~~l~~~i 109 (149)
. .++++||++|.|++++|++|++.+
T Consensus 149 ~~~~~~~~~Sa~~g~gi~~l~~~l~~~~ 176 (179)
T cd01890 149 LDPSEAILVSAKTGLGVEDLLEAIVERI 176 (179)
T ss_pred CCcccEEEeeccCCCCHHHHHHHHHhhC
Confidence 4 489999999999999999998765
No 126
>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=99.38 E-value=2.1e-12 Score=91.46 Aligned_cols=100 Identities=11% Similarity=0.072 Sum_probs=73.1
Q ss_pred ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhc-CCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHH
Q 032001 5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHA-SDNVNKVLVGNKADMDESKRAVPTSKGQALADE 82 (149)
Q Consensus 5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~-~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~ 82 (149)
|.++++.+|..||.+++. +++|+|.++ .++.....|+.++.+.. ..++|+++|+||+|++ ..+...+.......
T Consensus 70 G~~~~~~~~~~~~~~ad~-ii~vvD~~~~~~~~~~~~~l~~l~~~~~~~~~piliv~NK~Dl~---~~~~~~~i~~~l~l 145 (184)
T smart00178 70 GHQQARRLWKDYFPEVNG-IVYLVDAYDKERFAESKRELDALLSDEELATVPFLILGNKIDAP---YAASEDELRYALGL 145 (184)
T ss_pred CCHHHHHHHHHHhCCCCE-EEEEEECCcHHHHHHHHHHHHHHHcChhhcCCCEEEEEeCcccc---CCCCHHHHHHHcCC
Confidence 345778899999988766 677778876 78888888888775432 2568999999999986 23334443332211
Q ss_pred ------------hCCcEEEecCCCCCCHHHHHHHHHHH
Q 032001 83 ------------YGIKFFETSAKTNLNVEQVFFSIARD 108 (149)
Q Consensus 83 ------------~~~~~~~~Sak~~~~i~el~~~l~~~ 108 (149)
....++.+||++|.|+++++++|.+.
T Consensus 146 ~~~~~~~~~~~~~~~~i~~~Sa~~~~g~~~~~~wl~~~ 183 (184)
T smart00178 146 TNTTGSKGKVGVRPLEVFMCSVVRRMGYGEGFKWLSQY 183 (184)
T ss_pred CcccccccccCCceeEEEEeecccCCChHHHHHHHHhh
Confidence 12358999999999999999999764
No 127
>KOG4423 consensus GTP-binding protein-like, RAS superfamily [Signal transduction mechanisms]
Probab=99.38 E-value=2.1e-12 Score=90.38 Aligned_cols=114 Identities=19% Similarity=0.267 Sum_probs=89.2
Q ss_pred ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhc----CCCCeEEEEeeCCCCCcCCCCCCHHHHHHH
Q 032001 5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHA----SDNVNKVLVGNKADMDESKRAVPTSKGQAL 79 (149)
Q Consensus 5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~----~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~ 79 (149)
+-|||..|...||+...+ .++|||++. -+|+...+|.+++.... +.++|+|+.+||+|...............+
T Consensus 84 gQerfg~mtrVyykea~~-~~iVfdvt~s~tfe~~skwkqdldsk~qLpng~Pv~~vllankCd~e~~a~~~~~~~~d~f 162 (229)
T KOG4423|consen 84 GQERFGNMTRVYYKEAHG-AFIVFDVTRSLTFEPVSKWKQDLDSKLQLPNGTPVPCVLLANKCDQEKSAKNEATRQFDNF 162 (229)
T ss_pred hhhhhcceEEEEecCCcc-eEEEEEccccccccHHHHHHHhccCcccCCCCCcchheeccchhccChHhhhhhHHHHHHH
Confidence 457999999999999988 577889998 89999999999986632 367899999999998621111223455667
Q ss_pred HHHhCC-cEEEecCCCCCCHHHHHHHHHHHHHHHhcCCCCC
Q 032001 80 ADEYGI-KFFETSAKTNLNVEQVFFSIARDIKQRLADTDSR 119 (149)
Q Consensus 80 ~~~~~~-~~~~~Sak~~~~i~el~~~l~~~i~~~~~~~~~~ 119 (149)
.+++|+ ..+++|+|.+.|+.|+-..|++++...-++....
T Consensus 163 ~kengf~gwtets~Kenkni~Ea~r~lVe~~lvnd~q~~~s 203 (229)
T KOG4423|consen 163 KKENGFEGWTETSAKENKNIPEAQRELVEKILVNDEQPIKS 203 (229)
T ss_pred HhccCccceeeeccccccChhHHHHHHHHHHHhhccCCccc
Confidence 788886 7899999999999999999999887664444333
No 128
>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=99.38 E-value=5.9e-12 Score=86.50 Aligned_cols=99 Identities=9% Similarity=-0.008 Sum_probs=73.7
Q ss_pred ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhc-CCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHH
Q 032001 5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHA-SDNVNKVLVGNKADMDESKRAVPTSKGQALADE 82 (149)
Q Consensus 5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~-~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~ 82 (149)
|.++|.+++..++.+.+. +++|||+++ .++.....|+..+.... ..+.|+++|+||+|+. ... ...+.......
T Consensus 52 G~~~~~~~~~~~~~~~~~-~i~v~D~~~~~~~~~~~~~~~~~~~~~~~~~~piiiv~nK~D~~-~~~--~~~~~~~~~~~ 127 (158)
T cd00878 52 GQDKIRPLWKHYYENTNG-IIFVVDSSDRERIEEAKEELHKLLNEEELKGVPLLIFANKQDLP-GAL--SVSELIEKLGL 127 (158)
T ss_pred CChhhHHHHHHHhccCCE-EEEEEECCCHHHHHHHHHHHHHHHhCcccCCCcEEEEeeccCCc-ccc--CHHHHHHhhCh
Confidence 345778888888888755 788889997 78999988888876633 3578999999999987 222 22233332221
Q ss_pred -----hCCcEEEecCCCCCCHHHHHHHHHH
Q 032001 83 -----YGIKFFETSAKTNLNVEQVFFSIAR 107 (149)
Q Consensus 83 -----~~~~~~~~Sak~~~~i~el~~~l~~ 107 (149)
...+++++||++|.|++++|++|.+
T Consensus 128 ~~~~~~~~~~~~~Sa~~~~gv~~~~~~l~~ 157 (158)
T cd00878 128 EKILGRRWHIQPCSAVTGDGLDEGLDWLLQ 157 (158)
T ss_pred hhccCCcEEEEEeeCCCCCCHHHHHHHHhh
Confidence 2357999999999999999999875
No 129
>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=99.34 E-value=9.7e-12 Score=86.17 Aligned_cols=86 Identities=14% Similarity=0.087 Sum_probs=63.7
Q ss_pred cCeEEEEEeeCCh-hh--HHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhCCcEEEecCCCCC
Q 032001 20 LCRFKYCTYKIAS-YH--FSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKTNL 96 (149)
Q Consensus 20 ~~~~vi~v~~~~~-~s--~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~Sak~~~ 96 (149)
..+++++|+|.++ .+ +.....|+..+.... .++|+++|+||+|+. ....+. ....+....+.+++++||++|.
T Consensus 79 ~~d~~l~v~d~~~~~~~~~~~~~~~~~~l~~~~-~~~pvilv~NK~Dl~-~~~~~~--~~~~~~~~~~~~~~~~Sa~~~~ 154 (168)
T cd01897 79 LRAAVLFLFDPSETCGYSLEEQLSLFEEIKPLF-KNKPVIVVLNKIDLL-TFEDLS--EIEEEEELEGEEVLKISTLTEE 154 (168)
T ss_pred ccCcEEEEEeCCcccccchHHHHHHHHHHHhhc-CcCCeEEEEEccccC-chhhHH--HHHHhhhhccCceEEEEecccC
Confidence 3567889999986 43 456667888886643 478999999999987 322221 2334444456789999999999
Q ss_pred CHHHHHHHHHHHH
Q 032001 97 NVEQVFFSIARDI 109 (149)
Q Consensus 97 ~i~el~~~l~~~i 109 (149)
|++++|+++.+.+
T Consensus 155 gi~~l~~~l~~~~ 167 (168)
T cd01897 155 GVDEVKNKACELL 167 (168)
T ss_pred CHHHHHHHHHHHh
Confidence 9999999998865
No 130
>cd01898 Obg Obg subfamily. The Obg nucleotide binding protein subfamily has been implicated in stress response, chromosome partitioning, replication initiation, mycelium development, and sporulation. Obg proteins are among a large group of GTP binding proteins conserved from bacteria to humans. The E. coli homolog, ObgE is believed to function in ribosomal biogenesis. Members of the subfamily contain two equally and highly conserved domains, a C-terminal GTP binding domain and an N-terminal glycine-rich domain.
Probab=99.33 E-value=1.6e-11 Score=85.19 Aligned_cols=99 Identities=17% Similarity=0.145 Sum_probs=71.4
Q ss_pred cccccchhhhhh--cCeEEEEEeeCCh--hhHHHHHHHHHHHHHhcC--CCCeEEEEeeCCCCCcCCCCCCHHHHHHHHH
Q 032001 8 CFIGVYPPYLAV--LCRFKYCTYKIAS--YHFSDIRNWIRNIEQHAS--DNVNKVLVGNKADMDESKRAVPTSKGQALAD 81 (149)
Q Consensus 8 ~~~~~~~~~~~~--~~~~vi~v~~~~~--~s~~~~~~~~~~i~~~~~--~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~ 81 (149)
++..++..+++. ..+++++|+|.++ .+++....|.+++..... .++|+++|+||+|+. .... .......+..
T Consensus 64 ~~~~~~~~~~~~~~~~d~vi~v~D~~~~~~~~~~~~~~~~~l~~~~~~~~~~p~ivv~NK~Dl~-~~~~-~~~~~~~~~~ 141 (170)
T cd01898 64 EGKGLGHRFLRHIERTRLLLHVIDLSGDDDPVEDYKTIRNELELYNPELLEKPRIVVLNKIDLL-DEEE-LFELLKELLK 141 (170)
T ss_pred ccCCchHHHHHHHHhCCEEEEEEecCCCCCHHHHHHHHHHHHHHhCccccccccEEEEEchhcC-Cchh-hHHHHHHHHh
Confidence 334556666554 3456888889985 478899999999876542 368999999999986 3222 2233334444
Q ss_pred H-hCCcEEEecCCCCCCHHHHHHHHHHH
Q 032001 82 E-YGIKFFETSAKTNLNVEQVFFSIARD 108 (149)
Q Consensus 82 ~-~~~~~~~~Sak~~~~i~el~~~l~~~ 108 (149)
. .+.+++.+||+++.|++++|+++++.
T Consensus 142 ~~~~~~~~~~Sa~~~~gi~~l~~~i~~~ 169 (170)
T cd01898 142 ELWGKPVFPISALTGEGLDELLRKLAEL 169 (170)
T ss_pred hCCCCCEEEEecCCCCCHHHHHHHHHhh
Confidence 4 36789999999999999999999864
No 131
>PLN00023 GTP-binding protein; Provisional
Probab=99.30 E-value=4.9e-11 Score=91.03 Aligned_cols=79 Identities=11% Similarity=0.237 Sum_probs=64.4
Q ss_pred ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcC------------CCCeEEEEeeCCCCCcCCC--
Q 032001 5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHAS------------DNVNKVLVGNKADMDESKR-- 69 (149)
Q Consensus 5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~------------~~~~iilv~nK~Dl~~~~~-- 69 (149)
|.++|+++++.||+++++ +|+|||+++ .+|+.+..|++++..... .++|+++||||+||. ...
T Consensus 92 GqErfrsL~~~yyr~Adg-iILVyDITdr~SFenL~kWl~eI~~~~~~s~p~~s~~~~~~~ipIILVGNK~DL~-~~~~~ 169 (334)
T PLN00023 92 GHERYKDCRSLFYSQING-VIFVHDLSQRRTKTSLQKWASEVAATGTFSAPLGSGGPGGLPVPYIVIGNKADIA-PKEGT 169 (334)
T ss_pred CChhhhhhhHHhccCCCE-EEEEEeCCCHHHHHHHHHHHHHHHHhcccccccccccccCCCCcEEEEEECcccc-ccccc
Confidence 457999999999998766 789999998 999999999999987531 358999999999996 321
Q ss_pred -C---CCHHHHHHHHHHhCC
Q 032001 70 -A---VPTSKGQALADEYGI 85 (149)
Q Consensus 70 -~---~~~~~~~~~~~~~~~ 85 (149)
. +..+++..|++.+++
T Consensus 170 r~~s~~~~e~a~~~A~~~g~ 189 (334)
T PLN00023 170 RGSSGNLVDAARQWVEKQGL 189 (334)
T ss_pred cccccccHHHHHHHHHHcCC
Confidence 2 356788899988773
No 132
>KOG3883 consensus Ras family small GTPase [Signal transduction mechanisms]
Probab=99.29 E-value=3.6e-11 Score=81.78 Aligned_cols=100 Identities=20% Similarity=0.261 Sum_probs=81.8
Q ss_pred ccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcC-CCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhCCcEE
Q 032001 11 GVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHAS-DNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFF 88 (149)
Q Consensus 11 ~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~-~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~ 88 (149)
.+-.+||. ..|++++||+..+ +||+.+.-+..+|..... ..+||++++||.|+. +.+++....+..|+....+..+
T Consensus 76 eLprhy~q-~aDafVLVYs~~d~eSf~rv~llKk~Idk~KdKKEvpiVVLaN~rdr~-~p~~vd~d~A~~Wa~rEkvkl~ 153 (198)
T KOG3883|consen 76 ELPRHYFQ-FADAFVLVYSPMDPESFQRVELLKKEIDKHKDKKEVPIVVLANKRDRA-EPREVDMDVAQIWAKREKVKLW 153 (198)
T ss_pred hhhHhHhc-cCceEEEEecCCCHHHHHHHHHHHHHHhhccccccccEEEEechhhcc-cchhcCHHHHHHHHhhhheeEE
Confidence 34445554 4555899999998 999988776666655332 569999999999997 5677888899999999999999
Q ss_pred EecCCCCCCHHHHHHHHHHHHHHH
Q 032001 89 ETSAKTNLNVEQVFFSIARDIKQR 112 (149)
Q Consensus 89 ~~Sak~~~~i~el~~~l~~~i~~~ 112 (149)
+++|++...+-|.|..|+..+...
T Consensus 154 eVta~dR~sL~epf~~l~~rl~~p 177 (198)
T KOG3883|consen 154 EVTAMDRPSLYEPFTYLASRLHQP 177 (198)
T ss_pred EEEeccchhhhhHHHHHHHhccCC
Confidence 999999999999999999888655
No 133
>KOG0070 consensus GTP-binding ADP-ribosylation factor Arf1 [Intracellular trafficking, secretion, and vesicular transport]
Probab=99.25 E-value=1.2e-10 Score=81.25 Aligned_cols=104 Identities=9% Similarity=0.060 Sum_probs=75.6
Q ss_pred ccccccccchhhhhhcCeEEEEEeeCChhhHHHHHHHHHHHHHhcC-CCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHh
Q 032001 5 RCLCFIGVYPPYLAVLCRFKYCTYKIASYHFSDIRNWIRNIEQHAS-DNVNKVLVGNKADMDESKRAVPTSKGQALADEY 83 (149)
Q Consensus 5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~~s~~~~~~~~~~i~~~~~-~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~ 83 (149)
|.+++|.+|++||.+.+++|++|.+.+.+.+...+..+..+..... .+.|+++.+||.|++ ...+..+........
T Consensus 70 Gq~k~R~lW~~Y~~~t~~lIfVvDS~Dr~Ri~eak~eL~~~l~~~~l~~~~llv~aNKqD~~---~als~~ei~~~L~l~ 146 (181)
T KOG0070|consen 70 GQEKLRPLWKHYFQNTQGLIFVVDSSDRERIEEAKEELHRMLAEPELRNAPLLVFANKQDLP---GALSAAEITNKLGLH 146 (181)
T ss_pred CCcccccchhhhccCCcEEEEEEeCCcHHHHHHHHHHHHHHHcCcccCCceEEEEechhhcc---ccCCHHHHHhHhhhh
Confidence 4589999999999999996666644444777777766666655433 578999999999998 223333333333222
Q ss_pred -----CCcEEEecCCCCCCHHHHHHHHHHHHHH
Q 032001 84 -----GIKFFETSAKTNLNVEQVFFSIARDIKQ 111 (149)
Q Consensus 84 -----~~~~~~~Sak~~~~i~el~~~l~~~i~~ 111 (149)
...+..++|.+|+|+.|.++++.+.+..
T Consensus 147 ~l~~~~w~iq~~~a~~G~GL~egl~wl~~~~~~ 179 (181)
T KOG0070|consen 147 SLRSRNWHIQSTCAISGEGLYEGLDWLSNNLKK 179 (181)
T ss_pred ccCCCCcEEeeccccccccHHHHHHHHHHHHhc
Confidence 2346689999999999999999987753
No 134
>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=99.24 E-value=7.1e-11 Score=80.29 Aligned_cols=98 Identities=12% Similarity=0.192 Sum_probs=69.9
Q ss_pred cccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhc-CCCCeEEEEeeCCCCCcCCCCCCHHHHH-HHH--
Q 032001 6 CLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHA-SDNVNKVLVGNKADMDESKRAVPTSKGQ-ALA-- 80 (149)
Q Consensus 6 ~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~-~~~~~iilv~nK~Dl~~~~~~~~~~~~~-~~~-- 80 (149)
.++|+.++..++.+.+. +++|+|.++ .++.....|+.++.... ..++|+++|+||.|+. ... ...... .+.
T Consensus 54 ~~~~~~~~~~~~~~~d~-ii~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~-~~~--~~~~~~~~~~~~ 129 (159)
T cd04159 54 QPRFRSMWERYCRGVNA-IVYVVDAADRTALEAAKNELHDLLEKPSLEGIPLLVLGNKNDLP-GAL--SVDELIEQMNLK 129 (159)
T ss_pred CHhHHHHHHHHHhcCCE-EEEEEECCCHHHHHHHHHHHHHHHcChhhcCCCEEEEEeCcccc-CCc--CHHHHHHHhCcc
Confidence 35677888888888765 778889887 78888888877765422 2578999999999986 322 111111 111
Q ss_pred --HHhCCcEEEecCCCCCCHHHHHHHHHH
Q 032001 81 --DEYGIKFFETSAKTNLNVEQVFFSIAR 107 (149)
Q Consensus 81 --~~~~~~~~~~Sak~~~~i~el~~~l~~ 107 (149)
.....+++++||++|.|+++++++|++
T Consensus 130 ~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~ 158 (159)
T cd04159 130 SITDREVSCYSISCKEKTNIDIVLDWLIK 158 (159)
T ss_pred cccCCceEEEEEEeccCCChHHHHHHHhh
Confidence 112357899999999999999999875
No 135
>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=99.24 E-value=2e-11 Score=82.57 Aligned_cols=87 Identities=11% Similarity=0.040 Sum_probs=61.3
Q ss_pred ccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhCC-c
Q 032001 9 FIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGI-K 86 (149)
Q Consensus 9 ~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~-~ 86 (149)
|+.+.+ ++++++ ++++|||+++ .++.. ..|...+ ..|+++|+||+|+. + .....+....+++..+. +
T Consensus 53 ~~~~~~-~~~~ad-~vilv~d~~~~~s~~~-~~~~~~~------~~p~ilv~NK~Dl~-~-~~~~~~~~~~~~~~~~~~~ 121 (142)
T TIGR02528 53 YSALIV-TAADAD-VIALVQSATDPESRFP-PGFASIF------VKPVIGLVTKIDLA-E-ADVDIERAKELLETAGAEP 121 (142)
T ss_pred HHHHHH-HhhcCC-EEEEEecCCCCCcCCC-hhHHHhc------cCCeEEEEEeeccC-C-cccCHHHHHHHHHHcCCCc
Confidence 444443 455554 5788899987 66654 3454422 24999999999986 3 33344555666666665 7
Q ss_pred EEEecCCCCCCHHHHHHHHH
Q 032001 87 FFETSAKTNLNVEQVFFSIA 106 (149)
Q Consensus 87 ~~~~Sak~~~~i~el~~~l~ 106 (149)
++++||++|.|++++|++++
T Consensus 122 ~~~~Sa~~~~gi~~l~~~l~ 141 (142)
T TIGR02528 122 IFEISSVDEQGLEALVDYLN 141 (142)
T ss_pred EEEEecCCCCCHHHHHHHHh
Confidence 99999999999999999875
No 136
>KOG0073 consensus GTP-binding ADP-ribosylation factor-like protein ARL2 [Intracellular trafficking, secretion, and vesicular transport; Cytoskeleton]
Probab=99.23 E-value=1.7e-10 Score=79.17 Aligned_cols=101 Identities=12% Similarity=0.138 Sum_probs=74.6
Q ss_pred cccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHH-hcCCCCeEEEEeeCCCCCcCCCCCCHHH------HHHH
Q 032001 8 CFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQ-HASDNVNKVLVGNKADMDESKRAVPTSK------GQAL 79 (149)
Q Consensus 8 ~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~-~~~~~~~iilv~nK~Dl~~~~~~~~~~~------~~~~ 79 (149)
.++++|++||...+++ |+|+|..+ ..++.....+.++.. ..-...|+++++||.|++ .....+. +..+
T Consensus 72 ~lr~~W~nYfestdgl-IwvvDssD~~r~~e~~~~L~~lL~eerlaG~~~Lvlank~dl~---~~l~~~~i~~~~~L~~l 147 (185)
T KOG0073|consen 72 TLRSYWKNYFESTDGL-IWVVDSSDRMRMQECKQELTELLVEERLAGAPLLVLANKQDLP---GALSLEEISKALDLEEL 147 (185)
T ss_pred hhHHHHHHhhhccCeE-EEEEECchHHHHHHHHHHHHHHHhhhhhcCCceEEEEecCcCc---cccCHHHHHHhhCHHHh
Confidence 4689999999999885 55556665 788887766666543 222458999999999997 2222222 2334
Q ss_pred HHHhCCcEEEecCCCCCCHHHHHHHHHHHHHHH
Q 032001 80 ADEYGIKFFETSAKTNLNVEQVFFSIARDIKQR 112 (149)
Q Consensus 80 ~~~~~~~~~~~Sak~~~~i~el~~~l~~~i~~~ 112 (149)
++...++++.|||.+|+++.+-++||...+.++
T Consensus 148 ~ks~~~~l~~cs~~tge~l~~gidWL~~~l~~r 180 (185)
T KOG0073|consen 148 AKSHHWRLVKCSAVTGEDLLEGIDWLCDDLMSR 180 (185)
T ss_pred ccccCceEEEEeccccccHHHHHHHHHHHHHHH
Confidence 456678999999999999999999999888664
No 137
>TIGR02729 Obg_CgtA Obg family GTPase CgtA. This model describes a univeral, mostly one-gene-per-genome GTP-binding protein that associates with ribosomal subunits and appears to play a role in ribosomal RNA maturation. This GTPase, related to the nucleolar protein Obg, is designated CgtA in bacteria. Mutations in this gene are pleiotropic, but it appears that effects on cellular functions such as chromosome partition may be secondary to the effect on ribosome structure. Recent work done in Vibrio cholerae shows an essential role in the stringent response, in which RelA-dependent ability to synthesize the alarmone ppGpp is required for deletion of this GTPase to be lethal.
Probab=99.21 E-value=1.5e-10 Score=89.09 Aligned_cols=97 Identities=16% Similarity=0.201 Sum_probs=70.7
Q ss_pred ccchhhhhh--cCeEEEEEeeCCh----hhHHHHHHHHHHHHHhcC--CCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHH
Q 032001 11 GVYPPYLAV--LCRFKYCTYKIAS----YHFSDIRNWIRNIEQHAS--DNVNKVLVGNKADMDESKRAVPTSKGQALADE 82 (149)
Q Consensus 11 ~~~~~~~~~--~~~~vi~v~~~~~----~s~~~~~~~~~~i~~~~~--~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~ 82 (149)
.+...+++. ..+++++|+|+++ .+++....|.+++..+.. .+.|+++|+||+|+. ... ........+.+.
T Consensus 224 gLg~~flrhierad~ll~VvD~s~~~~~~~~e~l~~l~~EL~~~~~~l~~kp~IIV~NK~DL~-~~~-~~~~~~~~l~~~ 301 (329)
T TIGR02729 224 GLGHRFLKHIERTRVLLHLIDISPLDGRDPIEDYEIIRNELKKYSPELAEKPRIVVLNKIDLL-DEE-ELAELLKELKKA 301 (329)
T ss_pred cHHHHHHHHHHhhCEEEEEEcCccccccCHHHHHHHHHHHHHHhhhhhccCCEEEEEeCccCC-ChH-HHHHHHHHHHHH
Confidence 455555554 2355888889874 477888899988876532 468999999999997 321 122333445555
Q ss_pred hCCcEEEecCCCCCCHHHHHHHHHHHH
Q 032001 83 YGIKFFETSAKTNLNVEQVFFSIARDI 109 (149)
Q Consensus 83 ~~~~~~~~Sak~~~~i~el~~~l~~~i 109 (149)
.+.+++++||+++.|+++++++|.+.+
T Consensus 302 ~~~~vi~iSAktg~GI~eL~~~I~~~l 328 (329)
T TIGR02729 302 LGKPVFPISALTGEGLDELLYALAELL 328 (329)
T ss_pred cCCcEEEEEccCCcCHHHHHHHHHHHh
Confidence 677899999999999999999998754
No 138
>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=99.21 E-value=9.8e-11 Score=81.54 Aligned_cols=97 Identities=11% Similarity=0.077 Sum_probs=66.4
Q ss_pred ccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHh-cCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhC
Q 032001 7 LCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQH-ASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYG 84 (149)
Q Consensus 7 ~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~-~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~ 84 (149)
.+|..++..++.+.+. +++|+|..+ .++.....|+..+... ...++|+++++||.|+. .. ..............
T Consensus 69 ~~~~~~~~~~~~~~~~-ii~v~D~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~-~~--~~~~~i~~~l~~~~ 144 (173)
T cd04155 69 RAIRPYWRNYFENTDC-LIYVIDSADKKRLEEAGAELVELLEEEKLAGVPVLVFANKQDLA-TA--APAEEIAEALNLHD 144 (173)
T ss_pred HHHHHHHHHHhcCCCE-EEEEEeCCCHHHHHHHHHHHHHHHhChhhcCCCEEEEEECCCCc-cC--CCHHHHHHHcCCcc
Confidence 3566677777776655 788889987 7888888777766542 22568999999999986 21 11222211111111
Q ss_pred -----CcEEEecCCCCCCHHHHHHHHHH
Q 032001 85 -----IKFFETSAKTNLNVEQVFFSIAR 107 (149)
Q Consensus 85 -----~~~~~~Sak~~~~i~el~~~l~~ 107 (149)
.+++++||++|.|++++|++|++
T Consensus 145 ~~~~~~~~~~~Sa~~~~gi~~~~~~l~~ 172 (173)
T cd04155 145 LRDRTWHIQACSAKTGEGLQEGMNWVCK 172 (173)
T ss_pred cCCCeEEEEEeECCCCCCHHHHHHHHhc
Confidence 24689999999999999999975
No 139
>PRK04213 GTP-binding protein; Provisional
Probab=99.18 E-value=2e-11 Score=87.31 Aligned_cols=96 Identities=17% Similarity=0.177 Sum_probs=63.3
Q ss_pred cccccccchhhhhh-cC--eEEEEEeeCChhhHHHH-HHH------------HHHHHHhcCCCCeEEEEeeCCCCCcCCC
Q 032001 6 CLCFIGVYPPYLAV-LC--RFKYCTYKIASYHFSDI-RNW------------IRNIEQHASDNVNKVLVGNKADMDESKR 69 (149)
Q Consensus 6 ~~~~~~~~~~~~~~-~~--~~vi~v~~~~~~s~~~~-~~~------------~~~i~~~~~~~~~iilv~nK~Dl~~~~~ 69 (149)
.++|+.++..|+.. ++ +++++|+|.+. +... ..| ...+.. .++|+++|+||+|+. ...
T Consensus 73 ~~~~~~~~~~~~~~~~~~~~~vi~v~d~~~--~~~~~~~~~~~~~~~~~~~l~~~~~~---~~~p~iiv~NK~Dl~-~~~ 146 (201)
T PRK04213 73 QEKIKDEIVRYIEDNADRILAAVLVVDGKS--FIEIIERWEGRGEIPIDVEMFDFLRE---LGIPPIVAVNKMDKI-KNR 146 (201)
T ss_pred HHHHHHHHHHHHHhhhhhheEEEEEEeCcc--ccccccccccCCCcHHHHHHHHHHHH---cCCCeEEEEECcccc-CcH
Confidence 36788888888873 33 45666666542 2222 233 222222 468999999999986 221
Q ss_pred CCCHHHHHHHHHHhCC---------cEEEecCCCCCCHHHHHHHHHHHHHH
Q 032001 70 AVPTSKGQALADEYGI---------KFFETSAKTNLNVEQVFFSIARDIKQ 111 (149)
Q Consensus 70 ~~~~~~~~~~~~~~~~---------~~~~~Sak~~~~i~el~~~l~~~i~~ 111 (149)
......+.+..+. +++++||++| |++++|++|++.+.+
T Consensus 147 ---~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~g-gi~~l~~~l~~~~~~ 193 (201)
T PRK04213 147 ---DEVLDEIAERLGLYPPWRQWQDIIAPISAKKG-GIEELKEAIRKRLHE 193 (201)
T ss_pred ---HHHHHHHHHHhcCCccccccCCcEEEEecccC-CHHHHHHHHHHhhcC
Confidence 2334455555554 4799999999 999999999987643
No 140
>KOG0075 consensus GTP-binding ADP-ribosylation factor-like protein [General function prediction only]
Probab=99.17 E-value=1.9e-10 Score=77.81 Aligned_cols=102 Identities=13% Similarity=0.161 Sum_probs=71.3
Q ss_pred ccccccccchhhhhhcCeEEEEEeeCChhhHHHHHHHHHHHHH-hcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHH---
Q 032001 5 RCLCFIGVYPPYLAVLCRFKYCTYKIASYHFSDIRNWIRNIEQ-HASDNVNKVLVGNKADMDESKRAVPTSKGQALA--- 80 (149)
Q Consensus 5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~~s~~~~~~~~~~i~~-~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~--- 80 (149)
|..||++||..|+++.+.++++|...+++.+......+..+.. ..-..+|+++.|||.|++ + ......+....
T Consensus 74 Gq~rfrsmWerycR~v~aivY~VDaad~~k~~~sr~EL~~LL~k~~l~gip~LVLGnK~d~~-~--AL~~~~li~rmgL~ 150 (186)
T KOG0075|consen 74 GQPRFRSMWERYCRGVSAIVYVVDAADPDKLEASRSELHDLLDKPSLTGIPLLVLGNKIDLP-G--ALSKIALIERMGLS 150 (186)
T ss_pred CCccHHHHHHHHhhcCcEEEEEeecCCcccchhhHHHHHHHhcchhhcCCcEEEecccccCc-c--cccHHHHHHHhCcc
Confidence 5789999999999999887666655555656666555555443 222689999999999997 2 12222221111
Q ss_pred --HHhCCcEEEecCCCCCCHHHHHHHHHHHH
Q 032001 81 --DEYGIKFFETSAKTNLNVEQVFFSIARDI 109 (149)
Q Consensus 81 --~~~~~~~~~~Sak~~~~i~el~~~l~~~i 109 (149)
....+..|.+|++...|++.+++||.+..
T Consensus 151 sitdREvcC~siScke~~Nid~~~~Wli~hs 181 (186)
T KOG0075|consen 151 SITDREVCCFSISCKEKVNIDITLDWLIEHS 181 (186)
T ss_pred ccccceEEEEEEEEcCCccHHHHHHHHHHHh
Confidence 11224689999999999999999998754
No 141
>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=99.12 E-value=3.9e-10 Score=80.85 Aligned_cols=82 Identities=13% Similarity=0.077 Sum_probs=61.5
Q ss_pred CeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhCCcEEEecCCCCCCHH
Q 032001 21 CRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKTNLNVE 99 (149)
Q Consensus 21 ~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~Sak~~~~i~ 99 (149)
.+++++|+|.++ .++.....|...+......++|+++|+||+|+. .... ........+.+++++||+++.|++
T Consensus 121 ~d~ii~v~D~~~~~~~~~~~~~~~~l~~~~~~~~~viiV~NK~Dl~-~~~~-----~~~~~~~~~~~~~~~Sa~~~~gi~ 194 (204)
T cd01878 121 ADLLLHVVDASDPDYEEQIETVEKVLKELGAEDIPMILVLNKIDLL-DDEE-----LEERLEAGRPDAVFISAKTGEGLD 194 (204)
T ss_pred CCeEEEEEECCCCChhhHHHHHHHHHHHcCcCCCCEEEEEEccccC-ChHH-----HHHHhhcCCCceEEEEcCCCCCHH
Confidence 455888889986 777778788877766444568999999999987 2211 112333445689999999999999
Q ss_pred HHHHHHHHH
Q 032001 100 QVFFSIARD 108 (149)
Q Consensus 100 el~~~l~~~ 108 (149)
+++++|...
T Consensus 195 ~l~~~L~~~ 203 (204)
T cd01878 195 ELLEAIEEL 203 (204)
T ss_pred HHHHHHHhh
Confidence 999999864
No 142
>PRK12297 obgE GTPase CgtA; Reviewed
Probab=99.11 E-value=1.5e-09 Score=86.00 Aligned_cols=98 Identities=15% Similarity=0.283 Sum_probs=73.2
Q ss_pred cccchhhhhhc--CeEEEEEeeCCh----hhHHHHHHHHHHHHHhcC--CCCeEEEEeeCCCCCcCCCCCCHHHHHHHHH
Q 032001 10 IGVYPPYLAVL--CRFKYCTYKIAS----YHFSDIRNWIRNIEQHAS--DNVNKVLVGNKADMDESKRAVPTSKGQALAD 81 (149)
Q Consensus 10 ~~~~~~~~~~~--~~~vi~v~~~~~----~s~~~~~~~~~~i~~~~~--~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~ 81 (149)
..+...|++.. .+++++|+|+++ .++++...|.+++..+.+ .+.|+++|+||+|+. .. ......+.+
T Consensus 224 ~gLg~~fLrhier~~llI~VID~s~~~~~dp~e~~~~i~~EL~~y~~~L~~kP~IVV~NK~DL~-~~----~e~l~~l~~ 298 (424)
T PRK12297 224 VGLGHQFLRHIERTRVIVHVIDMSGSEGRDPIEDYEKINKELKLYNPRLLERPQIVVANKMDLP-EA----EENLEEFKE 298 (424)
T ss_pred chHHHHHHHHHhhCCEEEEEEeCCccccCChHHHHHHHHHHHhhhchhccCCcEEEEEeCCCCc-CC----HHHHHHHHH
Confidence 34556666553 466888889863 567888889998887643 468999999999985 21 233445555
Q ss_pred HhCCcEEEecCCCCCCHHHHHHHHHHHHHHH
Q 032001 82 EYGIKFFETSAKTNLNVEQVFFSIARDIKQR 112 (149)
Q Consensus 82 ~~~~~~~~~Sak~~~~i~el~~~l~~~i~~~ 112 (149)
..+.+++.+||+++.|+++++++|.+.+.+.
T Consensus 299 ~l~~~i~~iSA~tgeGI~eL~~~L~~~l~~~ 329 (424)
T PRK12297 299 KLGPKVFPISALTGQGLDELLYAVAELLEET 329 (424)
T ss_pred HhCCcEEEEeCCCCCCHHHHHHHHHHHHHhC
Confidence 5667899999999999999999999887654
No 143
>PRK15467 ethanolamine utilization protein EutP; Provisional
Probab=99.08 E-value=7.9e-10 Score=76.62 Aligned_cols=83 Identities=18% Similarity=0.116 Sum_probs=60.9
Q ss_pred cCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhCC--cEEEecCCCCC
Q 032001 20 LCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGI--KFFETSAKTNL 96 (149)
Q Consensus 20 ~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~--~~~~~Sak~~~ 96 (149)
..+++++|+|.++ .++ ...|+.++. .+.|+++++||+|+. .. .......+....+. +++++||++|.
T Consensus 64 ~ad~il~v~d~~~~~s~--~~~~~~~~~----~~~~ii~v~nK~Dl~-~~---~~~~~~~~~~~~~~~~p~~~~Sa~~g~ 133 (158)
T PRK15467 64 DVDMLIYVHGANDPESR--LPAGLLDIG----VSKRQIAVISKTDMP-DA---DVAATRKLLLETGFEEPIFELNSHDPQ 133 (158)
T ss_pred cCCEEEEEEeCCCcccc--cCHHHHhcc----CCCCeEEEEEccccC-cc---cHHHHHHHHHHcCCCCCEEEEECCCcc
Confidence 4466888899986 544 334555432 357899999999986 31 23455566666664 89999999999
Q ss_pred CHHHHHHHHHHHHHHH
Q 032001 97 NVEQVFFSIARDIKQR 112 (149)
Q Consensus 97 ~i~el~~~l~~~i~~~ 112 (149)
|++++|+.+++.+.+.
T Consensus 134 gi~~l~~~l~~~~~~~ 149 (158)
T PRK15467 134 SVQQLVDYLASLTKQE 149 (158)
T ss_pred CHHHHHHHHHHhchhh
Confidence 9999999999877543
No 144
>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=99.08 E-value=2.4e-09 Score=73.09 Aligned_cols=90 Identities=16% Similarity=0.100 Sum_probs=62.7
Q ss_pred cchhhhh-hcCeEEEEEeeCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhCCcEEEe
Q 032001 12 VYPPYLA-VLCRFKYCTYKIASYHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFET 90 (149)
Q Consensus 12 ~~~~~~~-~~~~~vi~v~~~~~~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~ 90 (149)
++..++. ...+++++|+|..+ ......|...+.. .++|+++|+||+|+. ....+.. ....+....+.+++++
T Consensus 65 ~~~~~~~~~~~d~vi~v~d~~~--~~~~~~~~~~~~~---~~~~~iiv~NK~Dl~-~~~~~~~-~~~~~~~~~~~~~~~i 137 (158)
T cd01879 65 VARDFLLGEKPDLIVNVVDATN--LERNLYLTLQLLE---LGLPVVVALNMIDEA-EKRGIKI-DLDKLSELLGVPVVPT 137 (158)
T ss_pred HHHHHhcCCCCcEEEEEeeCCc--chhHHHHHHHHHH---cCCCEEEEEehhhhc-ccccchh-hHHHHHHhhCCCeEEE
Confidence 3555554 34456788888885 2223345555544 368999999999997 3332222 2345666678899999
Q ss_pred cCCCCCCHHHHHHHHHHH
Q 032001 91 SAKTNLNVEQVFFSIARD 108 (149)
Q Consensus 91 Sak~~~~i~el~~~l~~~ 108 (149)
||.+|.|+.++++.+.+.
T Consensus 138 Sa~~~~~~~~l~~~l~~~ 155 (158)
T cd01879 138 SARKGEGIDELKDAIAEL 155 (158)
T ss_pred EccCCCCHHHHHHHHHHH
Confidence 999999999999998875
No 145
>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=99.07 E-value=8.2e-10 Score=78.74 Aligned_cols=91 Identities=14% Similarity=0.037 Sum_probs=59.2
Q ss_pred ccccccccchhhhhhcCeEEEEEeeCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCC-CCHHHHHHHHH--
Q 032001 5 RCLCFIGVYPPYLAVLCRFKYCTYKIASYHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRA-VPTSKGQALAD-- 81 (149)
Q Consensus 5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~-~~~~~~~~~~~-- 81 (149)
|-++|..++..|+++++. +++|+|+++..+.....|+..+.. .++|+++|+||+|+. .... ....+...+..
T Consensus 74 G~~~~~~~~~~~~~~~d~-~ilV~d~~~~~~~~~~~~~~~~~~---~~~p~iiv~NK~Dl~-~~~~~~~~~~~~~~~~~~ 148 (194)
T cd01891 74 GHADFGGEVERVLSMVDG-VLLLVDASEGPMPQTRFVLKKALE---LGLKPIVVINKIDRP-DARPEEVVDEVFDLFIEL 148 (194)
T ss_pred CcHHHHHHHHHHHHhcCE-EEEEEECCCCccHHHHHHHHHHHH---cCCCEEEEEECCCCC-CCCHHHHHHHHHHHHHHh
Confidence 345788888999988876 677888876334444555555443 468999999999996 2221 11122233332
Q ss_pred -----HhCCcEEEecCCCCCCHHH
Q 032001 82 -----EYGIKFFETSAKTNLNVEQ 100 (149)
Q Consensus 82 -----~~~~~~~~~Sak~~~~i~e 100 (149)
..+.+++++||++|.|+.+
T Consensus 149 ~~~~~~~~~~iv~~Sa~~g~~~~~ 172 (194)
T cd01891 149 GATEEQLDFPVLYASAKNGWASLN 172 (194)
T ss_pred CCccccCccCEEEeehhccccccc
Confidence 2257899999999977643
No 146
>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=99.06 E-value=8e-10 Score=75.87 Aligned_cols=97 Identities=14% Similarity=0.035 Sum_probs=57.5
Q ss_pred ccccccchhhhhhcCeEEEEEeeCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCC--CCHHHHHHHHHH--
Q 032001 7 LCFIGVYPPYLAVLCRFKYCTYKIASYHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRA--VPTSKGQALADE-- 82 (149)
Q Consensus 7 ~~~~~~~~~~~~~~~~~vi~v~~~~~~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~--~~~~~~~~~~~~-- 82 (149)
++|......++++++ ++++|+|.++........++..+... ...|+++|+||+|+. .... ............
T Consensus 62 ~~~~~~~~~~~~~ad-~ii~V~d~~~~~~~~~~~~~~~~~~~--~~~~~ilv~NK~Dl~-~~~~~~~~~~~~~~~~~~~~ 137 (164)
T cd04171 62 EKFIKNMLAGAGGID-LVLLVVAADEGIMPQTREHLEILELL--GIKRGLVVLTKADLV-DEDWLELVEEEIRELLAGTF 137 (164)
T ss_pred HHHHHHHHhhhhcCC-EEEEEEECCCCccHhHHHHHHHHHHh--CCCcEEEEEECcccc-CHHHHHHHHHHHHHHHHhcC
Confidence 445555555555554 57888898752112222222222221 124899999999997 2111 111222233333
Q ss_pred -hCCcEEEecCCCCCCHHHHHHHHHH
Q 032001 83 -YGIKFFETSAKTNLNVEQVFFSIAR 107 (149)
Q Consensus 83 -~~~~~~~~Sak~~~~i~el~~~l~~ 107 (149)
.+.+++++||++|.|++++|+.+.+
T Consensus 138 ~~~~~~~~~Sa~~~~~v~~l~~~l~~ 163 (164)
T cd04171 138 LADAPIFPVSAVTGEGIEELKEYLDE 163 (164)
T ss_pred cCCCcEEEEeCCCCcCHHHHHHHHhh
Confidence 3578999999999999999998864
No 147
>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=99.06 E-value=1.2e-09 Score=75.97 Aligned_cols=90 Identities=17% Similarity=0.100 Sum_probs=61.9
Q ss_pred hhhcCeEEEEEeeCCh-h------hHHHHHHHHHHHHHhcC-------CCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHH
Q 032001 17 LAVLCRFKYCTYKIAS-Y------HFSDIRNWIRNIEQHAS-------DNVNKVLVGNKADMDESKRAVPTSKGQALADE 82 (149)
Q Consensus 17 ~~~~~~~vi~v~~~~~-~------s~~~~~~~~~~i~~~~~-------~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~ 82 (149)
+.+ .+++++|+|.++ . ++.....|..++..... .+.|+++|+||+|+. ................
T Consensus 72 ~~~-~d~ii~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~NK~Dl~-~~~~~~~~~~~~~~~~ 149 (176)
T cd01881 72 IRR-ADAILHVVDASEDDDIGGVDPLEDYEILNAELKLYDLETILGLLTAKPVIYVLNKIDLD-DAEELEEELVRELALE 149 (176)
T ss_pred Hhc-cCEEEEEEeccCCccccccCHHHHHHHHHHHHHHhhhhhHHHHHhhCCeEEEEEchhcC-chhHHHHHHHHHHhcC
Confidence 444 456788888875 2 67777788888765432 368999999999987 3222211111222333
Q ss_pred hCCcEEEecCCCCCCHHHHHHHHHHH
Q 032001 83 YGIKFFETSAKTNLNVEQVFFSIARD 108 (149)
Q Consensus 83 ~~~~~~~~Sak~~~~i~el~~~l~~~ 108 (149)
.+.+++.+||+++.|++++++++...
T Consensus 150 ~~~~~~~~Sa~~~~gl~~l~~~l~~~ 175 (176)
T cd01881 150 EGAEVVPISAKTEEGLDELIRAIYEL 175 (176)
T ss_pred CCCCEEEEehhhhcCHHHHHHHHHhh
Confidence 45679999999999999999998764
No 148
>COG1100 GTPase SAR1 and related small G proteins [General function prediction only]
Probab=99.04 E-value=3.3e-09 Score=76.60 Aligned_cols=107 Identities=23% Similarity=0.264 Sum_probs=78.1
Q ss_pred ccccccccchhhhhhcCeEEEEEeeCCh--hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCC------------C
Q 032001 5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS--YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKR------------A 70 (149)
Q Consensus 5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~--~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~------------~ 70 (149)
+-++|+.+|+.|+++.+++ +++||... .+++....|..++....+...|+++|+||+|+. ... .
T Consensus 63 gq~~~~~~~~~y~~~~~~~-l~~~d~~~~~~~~~~~~~~~~~l~~~~~~~~~iilv~nK~Dl~-~~~~~~~~~~~~~~~~ 140 (219)
T COG1100 63 GQEEYRSLRPEYYRGANGI-LIVYDSTLRESSDELTEEWLEELRELAPDDVPILLVGNKIDLF-DEQSSSEEILNQLNRE 140 (219)
T ss_pred CHHHHHHHHHHHhcCCCEE-EEEEecccchhhhHHHHHHHHHHHHhCCCCceEEEEecccccc-cchhHHHHHHhhhhcC
Confidence 4578899999999999995 66666664 556667899999887665579999999999997 332 2
Q ss_pred CCHHHHHHHHHH---hCCcEEEecCC--CCCCHHHHHHHHHHHHHHHh
Q 032001 71 VPTSKGQALADE---YGIKFFETSAK--TNLNVEQVFFSIARDIKQRL 113 (149)
Q Consensus 71 ~~~~~~~~~~~~---~~~~~~~~Sak--~~~~i~el~~~l~~~i~~~~ 113 (149)
............ ....++.+||+ ++.++.++|..+...+.+..
T Consensus 141 ~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~~~v~~~~~~~~~~~~~~~ 188 (219)
T COG1100 141 VVLLVLAPKAVLPEVANPALLETSAKSLTGPNVNELFKELLRKLLEEI 188 (219)
T ss_pred cchhhhHhHHhhhhhcccceeEeecccCCCcCHHHHHHHHHHHHHHhh
Confidence 222222222222 23348999999 99999999999999886553
No 149
>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=99.04 E-value=1.3e-09 Score=89.77 Aligned_cols=98 Identities=19% Similarity=0.215 Sum_probs=71.4
Q ss_pred ccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhCC
Q 032001 7 LCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGI 85 (149)
Q Consensus 7 ~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~ 85 (149)
.+|...+..+++.++. +++|+|.++ .++.....|...+. .++|+++|+||+|+. .. ........+....+.
T Consensus 81 ~dF~~~v~~~l~~aD~-aILVvDat~g~~~qt~~~~~~~~~----~~ipiIiViNKiDl~-~~--~~~~~~~el~~~lg~ 152 (595)
T TIGR01393 81 VDFSYEVSRSLAACEG-ALLLVDAAQGIEAQTLANVYLALE----NDLEIIPVINKIDLP-SA--DPERVKKEIEEVIGL 152 (595)
T ss_pred HHHHHHHHHHHHhCCE-EEEEecCCCCCCHhHHHHHHHHHH----cCCCEEEEEECcCCC-cc--CHHHHHHHHHHHhCC
Confidence 4677788888888766 677778886 66777777765443 367999999999986 21 122233445555554
Q ss_pred ---cEEEecCCCCCCHHHHHHHHHHHHHHH
Q 032001 86 ---KFFETSAKTNLNVEQVFFSIARDIKQR 112 (149)
Q Consensus 86 ---~~~~~Sak~~~~i~el~~~l~~~i~~~ 112 (149)
.++.+||++|.|++++|++|++.++..
T Consensus 153 ~~~~vi~vSAktG~GI~~Lle~I~~~lp~p 182 (595)
T TIGR01393 153 DASEAILASAKTGIGIEEILEAIVKRVPPP 182 (595)
T ss_pred CcceEEEeeccCCCCHHHHHHHHHHhCCCC
Confidence 489999999999999999999877543
No 150
>PRK12288 GTPase RsgA; Reviewed
Probab=99.03 E-value=1.8e-09 Score=83.71 Aligned_cols=86 Identities=13% Similarity=0.137 Sum_probs=63.0
Q ss_pred hhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCC-CHHHHHHHHHHhCCcEEEecCCCC
Q 032001 18 AVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAV-PTSKGQALADEYGIKFFETSAKTN 95 (149)
Q Consensus 18 ~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~-~~~~~~~~~~~~~~~~~~~Sak~~ 95 (149)
+|++. +++|+++++ .++..++.|+..+.. .++|.++|+||+||. +.... ............+.+++.+||+++
T Consensus 119 ANvD~-vlIV~s~~p~~s~~~Ldr~L~~a~~---~~i~~VIVlNK~DL~-~~~~~~~~~~~~~~y~~~g~~v~~vSA~tg 193 (347)
T PRK12288 119 ANIDQ-IVIVSAVLPELSLNIIDRYLVACET---LGIEPLIVLNKIDLL-DDEGRAFVNEQLDIYRNIGYRVLMVSSHTG 193 (347)
T ss_pred EEccE-EEEEEeCCCCCCHHHHHHHHHHHHh---cCCCEEEEEECccCC-CcHHHHHHHHHHHHHHhCCCeEEEEeCCCC
Confidence 44655 788889887 889999999886654 468999999999997 22110 011122233456789999999999
Q ss_pred CCHHHHHHHHHHH
Q 032001 96 LNVEQVFFSIARD 108 (149)
Q Consensus 96 ~~i~el~~~l~~~ 108 (149)
.|+++|+..|...
T Consensus 194 ~GideL~~~L~~k 206 (347)
T PRK12288 194 EGLEELEAALTGR 206 (347)
T ss_pred cCHHHHHHHHhhC
Confidence 9999999988753
No 151
>cd01855 YqeH YqeH. YqeH is an essential GTP-binding protein. Depletion of YqeH induces an excess initiation of DNA replication, suggesting that it negatively controls initiation of chromosome replication. The YqeH subfamily is common in eukaryotes and sporadically present in bacteria with probable acquisition by plants from chloroplasts. Proteins of the YqeH family contain all sequence motifs typical of the vast class of P-loop-containing GTPases, but show a circular permutation, with a G4-G1-G3 pattern of motifs as opposed to the regular G1-G3-G4 pattern seen in most GTPases.
Probab=99.01 E-value=1.8e-09 Score=76.84 Aligned_cols=94 Identities=18% Similarity=0.197 Sum_probs=61.2
Q ss_pred ccccchhhhhhcCeEEEEEeeCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHH-----HHh
Q 032001 9 FIGVYPPYLAVLCRFKYCTYKIASYHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALA-----DEY 83 (149)
Q Consensus 9 ~~~~~~~~~~~~~~~vi~v~~~~~~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~-----~~~ 83 (149)
|+.++..|+++++. +++|+|+.+.. ..|..++.... .+.|+++|+||+|+. . ..........+. +..
T Consensus 24 ~~~~l~~~~~~ad~-il~VvD~~~~~----~~~~~~l~~~~-~~~~~ilV~NK~Dl~-~-~~~~~~~~~~~~~~~~~~~~ 95 (190)
T cd01855 24 ILNLLSSISPKKAL-VVHVVDIFDFP----GSLIPRLRLFG-GNNPVILVGNKIDLL-P-KDKNLVRIKNWLRAKAAAGL 95 (190)
T ss_pred HHHHHHhcccCCcE-EEEEEECccCC----CccchhHHHhc-CCCcEEEEEEchhcC-C-CCCCHHHHHHHHHHHHHhhc
Confidence 36677777777755 78888887521 12333332222 467999999999986 3 222233333333 223
Q ss_pred CC---cEEEecCCCCCCHHHHHHHHHHHHH
Q 032001 84 GI---KFFETSAKTNLNVEQVFFSIARDIK 110 (149)
Q Consensus 84 ~~---~~~~~Sak~~~~i~el~~~l~~~i~ 110 (149)
+. +++.+||++|.|+++++..|.+.+.
T Consensus 96 ~~~~~~i~~vSA~~~~gi~eL~~~l~~~l~ 125 (190)
T cd01855 96 GLKPKDVILISAKKGWGVEELINAIKKLAK 125 (190)
T ss_pred CCCcccEEEEECCCCCCHHHHHHHHHHHhh
Confidence 32 6899999999999999999998774
No 152
>PRK03003 GTP-binding protein Der; Reviewed
Probab=99.01 E-value=1.2e-09 Score=87.97 Aligned_cols=100 Identities=14% Similarity=0.030 Sum_probs=63.3
Q ss_pred ccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCC--HHHHHH-HHHH
Q 032001 7 LCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVP--TSKGQA-LADE 82 (149)
Q Consensus 7 ~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~--~~~~~~-~~~~ 82 (149)
+.|..++...+...++++++|+|.++ .++.+.. |+..+.. .++|+|+|+||+|+. ...... ...... +...
T Consensus 280 e~~~~~~~~~~i~~ad~vilV~Da~~~~s~~~~~-~~~~~~~---~~~piIiV~NK~Dl~-~~~~~~~~~~~i~~~l~~~ 354 (472)
T PRK03003 280 EYYASLRTHAAIEAAEVAVVLIDASEPISEQDQR-VLSMVIE---AGRALVLAFNKWDLV-DEDRRYYLEREIDRELAQV 354 (472)
T ss_pred HHHHHHHHHHHHhcCCEEEEEEeCCCCCCHHHHH-HHHHHHH---cCCCEEEEEECcccC-ChhHHHHHHHHHHHhcccC
Confidence 34444444333334566888889987 6666653 4455443 468999999999997 211100 011111 1111
Q ss_pred hCCcEEEecCCCCCCHHHHHHHHHHHHHH
Q 032001 83 YGIKFFETSAKTNLNVEQVFFSIARDIKQ 111 (149)
Q Consensus 83 ~~~~~~~~Sak~~~~i~el~~~l~~~i~~ 111 (149)
...+++++||++|.|++++|..+++.+..
T Consensus 355 ~~~~~~~~SAk~g~gv~~lf~~i~~~~~~ 383 (472)
T PRK03003 355 PWAPRVNISAKTGRAVDKLVPALETALES 383 (472)
T ss_pred CCCCEEEEECCCCCCHHHHHHHHHHHHHH
Confidence 23588999999999999999999986643
No 153
>TIGR03156 GTP_HflX GTP-binding protein HflX. This protein family is one of a number of homologous small, well-conserved GTP-binding proteins with pleiotropic effects. Bacterial members are designated HflX, following the naming convention in Escherichia coli where HflX is encoded immediately downstream of the RNA chaperone Hfq, and immediately upstream of HflKC, a membrane-associated protease pair with an important housekeeping function. Over large numbers of other bacterial genomes, the pairing with hfq is more significant than with hflK and hlfC. The gene from Homo sapiens in this family has been named PGPL (pseudoautosomal GTP-binding protein-like).
Probab=99.00 E-value=2.8e-09 Score=82.81 Aligned_cols=84 Identities=18% Similarity=0.144 Sum_probs=59.3
Q ss_pred hhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhCCcEEEecCCCC
Q 032001 17 LAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKTN 95 (149)
Q Consensus 17 ~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~Sak~~ 95 (149)
+.++ +++++|+|.++ .+++....|...+......++|+++|+||+|+. ... ..... .....+++.+||++|
T Consensus 266 ~~~A-Dlil~VvD~s~~~~~~~~~~~~~~L~~l~~~~~piIlV~NK~Dl~-~~~-----~v~~~-~~~~~~~i~iSAktg 337 (351)
T TIGR03156 266 VREA-DLLLHVVDASDPDREEQIEAVEKVLEELGAEDIPQLLVYNKIDLL-DEP-----RIERL-EEGYPEAVFVSAKTG 337 (351)
T ss_pred HHhC-CEEEEEEECCCCchHHHHHHHHHHHHHhccCCCCEEEEEEeecCC-ChH-----hHHHH-HhCCCCEEEEEccCC
Confidence 4444 56899999986 677777777666655433578999999999987 221 11111 112246899999999
Q ss_pred CCHHHHHHHHHHH
Q 032001 96 LNVEQVFFSIARD 108 (149)
Q Consensus 96 ~~i~el~~~l~~~ 108 (149)
.|++++++.|.+.
T Consensus 338 ~GI~eL~~~I~~~ 350 (351)
T TIGR03156 338 EGLDLLLEAIAER 350 (351)
T ss_pred CCHHHHHHHHHhh
Confidence 9999999998764
No 154
>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=98.98 E-value=2.4e-09 Score=73.80 Aligned_cols=95 Identities=18% Similarity=0.082 Sum_probs=60.9
Q ss_pred ccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhCCcE
Q 032001 9 FIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKF 87 (149)
Q Consensus 9 ~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~ 87 (149)
|+.++.++.++++. +++|+|..+ ..... ..+...+.. .+.|+++|+||+|+. .... ......+....+.++
T Consensus 2 ~~~~~~~i~~~aD~-vl~V~D~~~~~~~~~-~~l~~~~~~---~~~p~iiv~NK~Dl~-~~~~--~~~~~~~~~~~~~~~ 73 (156)
T cd01859 2 WKRLVRRIIKESDV-VLEVLDARDPELTRS-RKLERYVLE---LGKKLLIVLNKADLV-PKEV--LEKWKSIKESEGIPV 73 (156)
T ss_pred HHHHHHHHHhhCCE-EEEEeeCCCCcccCC-HHHHHHHHh---CCCcEEEEEEhHHhC-CHHH--HHHHHHHHHhCCCcE
Confidence 45667777777755 677778864 22221 223222222 357999999999986 2111 111112333345689
Q ss_pred EEecCCCCCCHHHHHHHHHHHHHH
Q 032001 88 FETSAKTNLNVEQVFFSIARDIKQ 111 (149)
Q Consensus 88 ~~~Sak~~~~i~el~~~l~~~i~~ 111 (149)
+.+||+++.|++++++.+.+.++.
T Consensus 74 ~~iSa~~~~gi~~L~~~l~~~~~~ 97 (156)
T cd01859 74 VYVSAKERLGTKILRRTIKELAKI 97 (156)
T ss_pred EEEEccccccHHHHHHHHHHHHhh
Confidence 999999999999999999987753
No 155
>PRK12289 GTPase RsgA; Reviewed
Probab=98.98 E-value=4.1e-09 Score=81.81 Aligned_cols=95 Identities=18% Similarity=0.186 Sum_probs=66.8
Q ss_pred cccccchhhhhhcCeEEEEEeeCCh--hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhCC
Q 032001 8 CFIGVYPPYLAVLCRFKYCTYKIAS--YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGI 85 (149)
Q Consensus 8 ~~~~~~~~~~~~~~~~vi~v~~~~~--~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~ 85 (149)
|-..+..+.+++++. +++|+|+.+ .++..+..|+..+.. .++|+|+|+||+||. .... ...........++
T Consensus 78 R~~~L~R~~~aNvD~-vLlV~d~~~p~~~~~~LdR~L~~a~~---~~ip~ILVlNK~DLv-~~~~--~~~~~~~~~~~g~ 150 (352)
T PRK12289 78 RKTELDRPPVANADQ-ILLVFALAEPPLDPWQLSRFLVKAES---TGLEIVLCLNKADLV-SPTE--QQQWQDRLQQWGY 150 (352)
T ss_pred cccceechhhhcCCE-EEEEEECCCCCCCHHHHHHHHHHHHH---CCCCEEEEEEchhcC-ChHH--HHHHHHHHHhcCC
Confidence 344555667777765 788888874 355567888877644 468999999999997 2111 1122223345678
Q ss_pred cEEEecCCCCCCHHHHHHHHHHHH
Q 032001 86 KFFETSAKTNLNVEQVFFSIARDI 109 (149)
Q Consensus 86 ~~~~~Sak~~~~i~el~~~l~~~i 109 (149)
.++.+||+++.|+++|++.+...+
T Consensus 151 ~v~~iSA~tg~GI~eL~~~L~~ki 174 (352)
T PRK12289 151 QPLFISVETGIGLEALLEQLRNKI 174 (352)
T ss_pred eEEEEEcCCCCCHHHHhhhhccce
Confidence 899999999999999999887643
No 156
>KOG0096 consensus GTPase Ran/TC4/GSP1 (nuclear protein transport pathway), small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]
Probab=98.98 E-value=3.5e-10 Score=79.44 Aligned_cols=103 Identities=23% Similarity=0.394 Sum_probs=82.7
Q ss_pred ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHh
Q 032001 5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEY 83 (149)
Q Consensus 5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~ 83 (149)
+.|+|..++..||-.+.-+ +++||++. -+...+.+|..++.... .++|||+.|||.|.. . +. .......+-+..
T Consensus 68 gqEk~gglrdgyyI~~qcA-iimFdVtsr~t~~n~~rwhrd~~rv~-~NiPiv~cGNKvDi~-~-r~-~k~k~v~~~rkk 142 (216)
T KOG0096|consen 68 GQEKKGGLRDGYYIQGQCA-IIMFDVTSRFTYKNVPRWHRDLVRVR-ENIPIVLCGNKVDIK-A-RK-VKAKPVSFHRKK 142 (216)
T ss_pred cceeecccccccEEeccee-EEEeeeeehhhhhcchHHHHHHHHHh-cCCCeeeeccceecc-c-cc-cccccceeeecc
Confidence 6789999999999998885 66778886 88999999999998876 469999999999986 2 22 122223344556
Q ss_pred CCcEEEecCCCCCCHHHHHHHHHHHHHHH
Q 032001 84 GIKFFETSAKTNLNVEQVFFSIARDIKQR 112 (149)
Q Consensus 84 ~~~~~~~Sak~~~~i~el~~~l~~~i~~~ 112 (149)
++.++++||+++.|.+..|-++++.+...
T Consensus 143 nl~y~~iSaksn~NfekPFl~LarKl~G~ 171 (216)
T KOG0096|consen 143 NLQYYEISAKSNYNFERPFLWLARKLTGD 171 (216)
T ss_pred cceeEEeecccccccccchHHHhhhhcCC
Confidence 77899999999999999999999988644
No 157
>COG2229 Predicted GTPase [General function prediction only]
Probab=98.98 E-value=5.5e-09 Score=73.09 Aligned_cols=98 Identities=12% Similarity=0.009 Sum_probs=73.6
Q ss_pred ccccccccchhhhhhcCeEEEEEeeCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHh-
Q 032001 5 RCLCFIGVYPPYLAVLCRFKYCTYKIASYHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEY- 83 (149)
Q Consensus 5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~- 83 (149)
|-+||.+||..++++..+++++|.+..+..+ .....++.+.... .+|+++.+||.||. ...+.+.........
T Consensus 77 Gq~RF~fm~~~l~~ga~gaivlVDss~~~~~-~a~~ii~f~~~~~--~ip~vVa~NK~DL~---~a~ppe~i~e~l~~~~ 150 (187)
T COG2229 77 GQERFKFMWEILSRGAVGAIVLVDSSRPITF-HAEEIIDFLTSRN--PIPVVVAINKQDLF---DALPPEKIREALKLEL 150 (187)
T ss_pred CcHHHHHHHHHHhCCcceEEEEEecCCCcch-HHHHHHHHHhhcc--CCCEEEEeeccccC---CCCCHHHHHHHHHhcc
Confidence 5589999999999999998888755555667 6666666655432 39999999999998 333444444444443
Q ss_pred -CCcEEEecCCCCCCHHHHHHHHHHH
Q 032001 84 -GIKFFETSAKTNLNVEQVFFSIARD 108 (149)
Q Consensus 84 -~~~~~~~Sak~~~~i~el~~~l~~~ 108 (149)
..+++.++|..+++..+.++.+...
T Consensus 151 ~~~~vi~~~a~e~~~~~~~L~~ll~~ 176 (187)
T COG2229 151 LSVPVIEIDATEGEGARDQLDVLLLK 176 (187)
T ss_pred CCCceeeeecccchhHHHHHHHHHhh
Confidence 7899999999999998887777654
No 158
>KOG0076 consensus GTP-binding ADP-ribosylation factor-like protein yARL3 [Intracellular trafficking, secretion, and vesicular transport]
Probab=98.97 E-value=8.2e-10 Score=76.59 Aligned_cols=104 Identities=12% Similarity=0.142 Sum_probs=74.8
Q ss_pred ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhc-CCCCeEEEEeeCCCCCcCCCCCCHHHHH---HH
Q 032001 5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHA-SDNVNKVLVGNKADMDESKRAVPTSKGQ---AL 79 (149)
Q Consensus 5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~-~~~~~iilv~nK~Dl~~~~~~~~~~~~~---~~ 79 (149)
|.+..+++|..||..+++ +|+++|.++ +.|+....-.+.+..+- -.++|+++.+||.|+. +.. ...+.. ..
T Consensus 78 GQe~lrSlw~~yY~~~H~-ii~viDa~~~eR~~~~~t~~~~v~~~E~leg~p~L~lankqd~q-~~~--~~~El~~~~~~ 153 (197)
T KOG0076|consen 78 GQESLRSLWKKYYWLAHG-IIYVIDATDRERFEESKTAFEKVVENEKLEGAPVLVLANKQDLQ-NAM--EAAELDGVFGL 153 (197)
T ss_pred ChHHHHHHHHHHHHHhce-eEEeecCCCHHHHHHHHHHHHHHHHHHHhcCCchhhhcchhhhh-hhh--hHHHHHHHhhh
Confidence 345678999999999988 566667766 88888776666654422 2689999999999997 322 222222 22
Q ss_pred HHHhC---CcEEEecCCCCCCHHHHHHHHHHHHHHH
Q 032001 80 ADEYG---IKFFETSAKTNLNVEQVFFSIARDIKQR 112 (149)
Q Consensus 80 ~~~~~---~~~~~~Sak~~~~i~el~~~l~~~i~~~ 112 (149)
+...+ .++..+||.+|+||++-..|++..+...
T Consensus 154 ~e~~~~rd~~~~pvSal~gegv~egi~w~v~~~~kn 189 (197)
T KOG0076|consen 154 AELIPRRDNPFQPVSALTGEGVKEGIEWLVKKLEKN 189 (197)
T ss_pred hhhcCCccCccccchhhhcccHHHHHHHHHHHHhhc
Confidence 33333 4688999999999999999999887654
No 159
>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=98.95 E-value=1.2e-08 Score=67.87 Aligned_cols=95 Identities=32% Similarity=0.516 Sum_probs=63.9
Q ss_pred cccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHH-HHhcCCCCeEEEEeeCCCCCcCCCCCCHHH-HHHHHHHhCCc
Q 032001 10 IGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNI-EQHASDNVNKVLVGNKADMDESKRAVPTSK-GQALADEYGIK 86 (149)
Q Consensus 10 ~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i-~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~-~~~~~~~~~~~ 86 (149)
...+..++... +++++|+|.+. .++.....|+... ......++|+++++||+|+. ......... ..........+
T Consensus 59 ~~~~~~~~~~~-~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~ivv~nk~D~~-~~~~~~~~~~~~~~~~~~~~~ 136 (157)
T cd00882 59 RSLRRLYYRGA-DGIILVYDVTDRESFENVKEWLLLILINKEGENIPIILVGNKIDLP-EERVVSEEELAEQLAKELGVP 136 (157)
T ss_pred HhHHHHHhcCC-CEEEEEEECcCHHHHHHHHHHHHHHHHhhccCCCcEEEEEeccccc-cccchHHHHHHHHHHhhcCCc
Confidence 33344455445 45788889987 7788888773332 22333679999999999986 322211111 23334445679
Q ss_pred EEEecCCCCCCHHHHHHHHH
Q 032001 87 FFETSAKTNLNVEQVFFSIA 106 (149)
Q Consensus 87 ~~~~Sak~~~~i~el~~~l~ 106 (149)
++.+|+..+.|+++++++|+
T Consensus 137 ~~~~s~~~~~~i~~~~~~l~ 156 (157)
T cd00882 137 YFETSAKTGENVEELFEELA 156 (157)
T ss_pred EEEEecCCCCChHHHHHHHh
Confidence 99999999999999999886
No 160
>KOG1673 consensus Ras GTPases [General function prediction only]
Probab=98.95 E-value=3.9e-09 Score=72.15 Aligned_cols=105 Identities=16% Similarity=0.241 Sum_probs=79.1
Q ss_pred cccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCc----CCCCCCHHHHHHHH
Q 032001 6 CLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDE----SKRAVPTSKGQALA 80 (149)
Q Consensus 6 ~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~----~~~~~~~~~~~~~~ 80 (149)
.++|+.|.|.-..+. .+++++||++. .+++.+..|+...+......+| |+||+|.|+-- +.+.....+++.++
T Consensus 79 ~~~~~n~lPiac~ds-vaIlFmFDLt~r~TLnSi~~WY~QAr~~NktAiP-ilvGTKyD~fi~lp~e~Q~~I~~qar~YA 156 (205)
T KOG1673|consen 79 QREFINMLPIACKDS-VAILFMFDLTRRSTLNSIKEWYRQARGLNKTAIP-ILVGTKYDLFIDLPPELQETISRQARKYA 156 (205)
T ss_pred cHhhhccCceeecCc-EEEEEEEecCchHHHHHHHHHHHHHhccCCccce-EEeccchHhhhcCCHHHHHHHHHHHHHHH
Confidence 356777777765554 55899999997 8999999999998775545566 67899999530 11111123456677
Q ss_pred HHhCCcEEEecCCCCCCHHHHHHHHHHHHHHH
Q 032001 81 DEYGIKFFETSAKTNLNVEQVFFSIARDIKQR 112 (149)
Q Consensus 81 ~~~~~~~~~~Sak~~~~i~el~~~l~~~i~~~ 112 (149)
+-++.+.|++|+....||..+|.-+...++.-
T Consensus 157 k~mnAsL~F~Sts~sINv~KIFK~vlAklFnL 188 (205)
T KOG1673|consen 157 KVMNASLFFCSTSHSINVQKIFKIVLAKLFNL 188 (205)
T ss_pred HHhCCcEEEeeccccccHHHHHHHHHHHHhCC
Confidence 88889999999999999999999999888654
No 161
>KOG0071 consensus GTP-binding ADP-ribosylation factor Arf6 (dArf3) [Intracellular trafficking, secretion, and vesicular transport]
Probab=98.92 E-value=5.2e-09 Score=70.39 Aligned_cols=102 Identities=10% Similarity=0.061 Sum_probs=71.3
Q ss_pred ccccccccchhhhhhcCeEEEEEeeCChhhHHHHHHHHHHHHHhcC-CCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHh
Q 032001 5 RCLCFIGVYPPYLAVLCRFKYCTYKIASYHFSDIRNWIRNIEQHAS-DNVNKVLVGNKADMDESKRAVPTSKGQALADEY 83 (149)
Q Consensus 5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~~s~~~~~~~~~~i~~~~~-~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~ 83 (149)
|-++-|.+|.+||.+..++++++.+.+....+.....+..+.+... .+.++++.+||.|++ + ...+.+...+.+..
T Consensus 70 Gqd~iRplWrhYy~gtqglIFV~Dsa~~dr~eeAr~ELh~ii~~~em~~~~~LvlANkQDlp-~--A~~pqei~d~leLe 146 (180)
T KOG0071|consen 70 GQDKIRPLWRHYYTGTQGLIFVVDSADRDRIEEARNELHRIINDREMRDAIILILANKQDLP-D--AMKPQEIQDKLELE 146 (180)
T ss_pred CchhhhHHHHhhccCCceEEEEEeccchhhHHHHHHHHHHHhCCHhhhcceEEEEecCcccc-c--ccCHHHHHHHhccc
Confidence 3467889999999999996666644444555666555555544322 578999999999998 3 23344544443322
Q ss_pred -----CCcEEEecCCCCCCHHHHHHHHHHHH
Q 032001 84 -----GIKFFETSAKTNLNVEQVFFSIARDI 109 (149)
Q Consensus 84 -----~~~~~~~Sak~~~~i~el~~~l~~~i 109 (149)
.+.+..++|.+|.++.|-|.+|...+
T Consensus 147 ~~r~~~W~vqp~~a~~gdgL~eglswlsnn~ 177 (180)
T KOG0071|consen 147 RIRDRNWYVQPSCALSGDGLKEGLSWLSNNL 177 (180)
T ss_pred cccCCccEeeccccccchhHHHHHHHHHhhc
Confidence 24567899999999999999998755
No 162
>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=98.92 E-value=7.3e-09 Score=77.71 Aligned_cols=88 Identities=14% Similarity=-0.047 Sum_probs=59.3
Q ss_pred hhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhCC-cEEEecCC
Q 032001 16 YLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGI-KFFETSAK 93 (149)
Q Consensus 16 ~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~-~~~~~Sak 93 (149)
++.++ +++++|+|.++ .+++ ..|+..+.. .+.|+++|+||+|+. ... ........+....+. +++++||+
T Consensus 76 ~l~~a-Dvvl~VvD~~~~~~~~--~~i~~~l~~---~~~p~ilV~NK~Dl~-~~~-~~~~~~~~~~~~~~~~~v~~iSA~ 147 (270)
T TIGR00436 76 AIGGV-DLILFVVDSDQWNGDG--EFVLTKLQN---LKRPVVLTRNKLDNK-FKD-KLLPLIDKYAILEDFKDIVPISAL 147 (270)
T ss_pred HHhhC-CEEEEEEECCCCCchH--HHHHHHHHh---cCCCEEEEEECeeCC-CHH-HHHHHHHHHHhhcCCCceEEEecC
Confidence 44444 55788888886 4443 445554443 368999999999986 221 112233334444444 79999999
Q ss_pred CCCCHHHHHHHHHHHHHH
Q 032001 94 TNLNVEQVFFSIARDIKQ 111 (149)
Q Consensus 94 ~~~~i~el~~~l~~~i~~ 111 (149)
+|.|++++++.+.+.+++
T Consensus 148 ~g~gi~~L~~~l~~~l~~ 165 (270)
T TIGR00436 148 TGDNTSFLAAFIEVHLPE 165 (270)
T ss_pred CCCCHHHHHHHHHHhCCC
Confidence 999999999999887744
No 163
>cd01887 IF2_eIF5B IF2/eIF5B (initiation factors 2/ eukaryotic initiation factor 5B) subfamily. IF2/eIF5B contribute to ribosomal subunit joining and function as GTPases that are maximally activated by the presence of both ribosomal subunits. As seen in other GTPases, IF2/IF5B undergoes conformational changes between its GTP- and GDP-bound states. Eukaryotic IF2/eIF5Bs possess three characteristic segments, including a divergent N-terminal region followed by conserved central and C-terminal segments. This core region is conserved among all known eukaryotic and archaeal IF2/eIF5Bs and eubacterial IF2s.
Probab=98.92 E-value=8.6e-09 Score=71.12 Aligned_cols=98 Identities=15% Similarity=0.068 Sum_probs=58.8
Q ss_pred ccccccchhhhhhcCeEEEEEeeCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCC-HHHHHHHHH----
Q 032001 7 LCFIGVYPPYLAVLCRFKYCTYKIASYHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVP-TSKGQALAD---- 81 (149)
Q Consensus 7 ~~~~~~~~~~~~~~~~~vi~v~~~~~~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~-~~~~~~~~~---- 81 (149)
+.|..++..++..+ +++++|+|.++.........+..+.. .++|+++|+||+|+. ...... ......+..
T Consensus 61 ~~~~~~~~~~~~~~-d~il~v~d~~~~~~~~~~~~~~~~~~---~~~p~ivv~NK~Dl~-~~~~~~~~~~~~~~~~~~~~ 135 (168)
T cd01887 61 EAFTNMRARGASLT-DIAILVVAADDGVMPQTIEAIKLAKA---ANVPFIVALNKIDKP-NANPERVKNELSELGLQGED 135 (168)
T ss_pred HHHHHHHHHHHhhc-CEEEEEEECCCCccHHHHHHHHHHHH---cCCCEEEEEEceecc-cccHHHHHHHHHHhhccccc
Confidence 45666777666655 45788888875111111122222333 468999999999986 221100 011111111
Q ss_pred H--hCCcEEEecCCCCCCHHHHHHHHHHHH
Q 032001 82 E--YGIKFFETSAKTNLNVEQVFFSIARDI 109 (149)
Q Consensus 82 ~--~~~~~~~~Sak~~~~i~el~~~l~~~i 109 (149)
. ...+++++||++|.|+++++++|.+..
T Consensus 136 ~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~~ 165 (168)
T cd01887 136 EWGGDVQIVPTSAKTGEGIDDLLEAILLLA 165 (168)
T ss_pred cccCcCcEEEeecccCCCHHHHHHHHHHhh
Confidence 1 135799999999999999999998754
No 164
>PRK12296 obgE GTPase CgtA; Reviewed
Probab=98.90 E-value=1.6e-08 Score=81.51 Aligned_cols=90 Identities=20% Similarity=0.254 Sum_probs=63.1
Q ss_pred CeEEEEEeeCCh-----hhHHHHHHHHHHHHHhcC-----------CCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhC
Q 032001 21 CRFKYCTYKIAS-----YHFSDIRNWIRNIEQHAS-----------DNVNKVLVGNKADMDESKRAVPTSKGQALADEYG 84 (149)
Q Consensus 21 ~~~vi~v~~~~~-----~s~~~~~~~~~~i~~~~~-----------~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~ 84 (149)
.+++++|+|.++ .++.....|..++..+.. ...|+|+|+||+|++ ..... ...........+
T Consensus 237 advLv~VVD~s~~e~~rdp~~d~~~i~~EL~~y~~~l~~~~~~~~l~~kP~IVVlNKiDL~-da~el-~e~l~~~l~~~g 314 (500)
T PRK12296 237 CAVLVHVVDCATLEPGRDPLSDIDALEAELAAYAPALDGDLGLGDLAERPRLVVLNKIDVP-DAREL-AEFVRPELEARG 314 (500)
T ss_pred cCEEEEEECCcccccccCchhhHHHHHHHHHHhhhcccccchhhhhcCCCEEEEEECccch-hhHHH-HHHHHHHHHHcC
Confidence 355788888863 356667777777765431 368999999999997 32211 112222233457
Q ss_pred CcEEEecCCCCCCHHHHHHHHHHHHHHH
Q 032001 85 IKFFETSAKTNLNVEQVFFSIARDIKQR 112 (149)
Q Consensus 85 ~~~~~~Sak~~~~i~el~~~l~~~i~~~ 112 (149)
++++.+||+++.|+++++.+|.+.+...
T Consensus 315 ~~Vf~ISA~tgeGLdEL~~~L~ell~~~ 342 (500)
T PRK12296 315 WPVFEVSAASREGLRELSFALAELVEEA 342 (500)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHHHhh
Confidence 8899999999999999999999887654
No 165
>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=98.90 E-value=8.6e-09 Score=78.06 Aligned_cols=85 Identities=15% Similarity=0.114 Sum_probs=62.2
Q ss_pred hhhhcCeEEEEEeeCCh-h-hHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhCCcEEEecCC
Q 032001 16 YLAVLCRFKYCTYKIAS-Y-HFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAK 93 (149)
Q Consensus 16 ~~~~~~~~vi~v~~~~~-~-s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~Sak 93 (149)
.+++++. +++|+|.++ . ++..+++|+..+.. .++|+++|+||+||. +. ........+....+.+++.+||+
T Consensus 75 i~anvD~-vllV~d~~~p~~s~~~ldr~L~~~~~---~~ip~iIVlNK~DL~-~~--~~~~~~~~~~~~~g~~v~~vSA~ 147 (287)
T cd01854 75 IAANVDQ-LVIVVSLNEPFFNPRLLDRYLVAAEA---AGIEPVIVLTKADLL-DD--EEEELELVEALALGYPVLAVSAK 147 (287)
T ss_pred EEEeCCE-EEEEEEcCCCCCCHHHHHHHHHHHHH---cCCCEEEEEEHHHCC-Ch--HHHHHHHHHHHhCCCeEEEEECC
Confidence 3555544 778888875 4 88888999987765 468999999999996 22 11112222334467899999999
Q ss_pred CCCCHHHHHHHHHH
Q 032001 94 TNLNVEQVFFSIAR 107 (149)
Q Consensus 94 ~~~~i~el~~~l~~ 107 (149)
++.|+++|+..|..
T Consensus 148 ~g~gi~~L~~~L~~ 161 (287)
T cd01854 148 TGEGLDELREYLKG 161 (287)
T ss_pred CCccHHHHHhhhcc
Confidence 99999999888774
No 166
>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=98.89 E-value=1.4e-08 Score=71.14 Aligned_cols=96 Identities=16% Similarity=0.093 Sum_probs=62.9
Q ss_pred cccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCC--HHHHHHHHHH--
Q 032001 8 CFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVP--TSKGQALADE-- 82 (149)
Q Consensus 8 ~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~--~~~~~~~~~~-- 82 (149)
.|...+..++..++. +++|+|... .+.. ...++..+.. .+.|+++|+||+|+. ...... ........+.
T Consensus 74 ~~~~~~~~~~~~~d~-~i~v~d~~~~~~~~-~~~~~~~~~~---~~~~i~iv~nK~D~~-~~~~~~~~~~~~~~~~~~~~ 147 (189)
T cd00881 74 DFSSEVIRGLSVSDG-AILVVDANEGVQPQ-TREHLRIARE---GGLPIIVAINKIDRV-GEEDLEEVLREIKELLGLIG 147 (189)
T ss_pred HHHHHHHHHHHhcCE-EEEEEECCCCCcHH-HHHHHHHHHH---CCCCeEEEEECCCCc-chhcHHHHHHHHHHHHcccc
Confidence 456677788877766 667778875 3332 3344444443 468999999999987 211111 1122222222
Q ss_pred ------------hCCcEEEecCCCCCCHHHHHHHHHHHH
Q 032001 83 ------------YGIKFFETSAKTNLNVEQVFFSIARDI 109 (149)
Q Consensus 83 ------------~~~~~~~~Sak~~~~i~el~~~l~~~i 109 (149)
...+++++||++|.|+++++.+|.+.+
T Consensus 148 ~~~~~~~~~~~~~~~~v~~~Sa~~g~gi~~l~~~l~~~l 186 (189)
T cd00881 148 FISTKEEGTRNGLLVPIVPGSALTGIGVEELLEAIVEHL 186 (189)
T ss_pred ccchhhhhcccCCcceEEEEecccCcCHHHHHHHHHhhC
Confidence 246889999999999999999999876
No 167
>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=98.89 E-value=2.8e-08 Score=66.97 Aligned_cols=98 Identities=22% Similarity=0.288 Sum_probs=67.5
Q ss_pred cccccccchhhhhhcCeEEEEEeeCCh--hhHHHHH-HHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHH
Q 032001 6 CLCFIGVYPPYLAVLCRFKYCTYKIAS--YHFSDIR-NWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADE 82 (149)
Q Consensus 6 ~~~~~~~~~~~~~~~~~~vi~v~~~~~--~s~~~~~-~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~ 82 (149)
-++|+.++..++..... ++.++|+.. .++.... .|...+......+.|+++++||.|+. ... ........+...
T Consensus 60 ~~~~~~~~~~~~~~~~~-~i~~~d~~~~v~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~-~~~-~~~~~~~~~~~~ 136 (161)
T TIGR00231 60 QEDYRAIRRLYYRAVES-SLRVFDIVILVLDVEEILEKQTKEIIHHAESNVPIILVGNKIDLR-DAK-LKTHVAFLFAKL 136 (161)
T ss_pred cccchHHHHHHHhhhhE-EEEEEEEeeeehhhhhHhHHHHHHHHHhcccCCcEEEEEEcccCC-cch-hhHHHHHHHhhc
Confidence 35677788877776655 566667763 5566654 77777666543478999999999987 322 222233333333
Q ss_pred hCCcEEEecCCCCCCHHHHHHHHH
Q 032001 83 YGIKFFETSAKTNLNVEQVFFSIA 106 (149)
Q Consensus 83 ~~~~~~~~Sak~~~~i~el~~~l~ 106 (149)
...+++++||++|.|+.++|++|-
T Consensus 137 ~~~~~~~~sa~~~~gv~~~~~~l~ 160 (161)
T TIGR00231 137 NGEPIIPLSAETGKNIDSAFKIVE 160 (161)
T ss_pred cCCceEEeecCCCCCHHHHHHHhh
Confidence 456899999999999999998863
No 168
>PRK05433 GTP-binding protein LepA; Provisional
Probab=98.88 E-value=1.4e-08 Score=83.93 Aligned_cols=98 Identities=22% Similarity=0.223 Sum_probs=68.9
Q ss_pred ccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhCC
Q 032001 7 LCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGI 85 (149)
Q Consensus 7 ~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~ 85 (149)
..|...+..+++.+++ +++|+|.++ ........|..... .++|+++|+||+|+. ... .......+....+.
T Consensus 85 ~dF~~~v~~sl~~aD~-aILVVDas~gv~~qt~~~~~~~~~----~~lpiIvViNKiDl~-~a~--~~~v~~ei~~~lg~ 156 (600)
T PRK05433 85 VDFSYEVSRSLAACEG-ALLVVDASQGVEAQTLANVYLALE----NDLEIIPVLNKIDLP-AAD--PERVKQEIEDVIGI 156 (600)
T ss_pred HHHHHHHHHHHHHCCE-EEEEEECCCCCCHHHHHHHHHHHH----CCCCEEEEEECCCCC-ccc--HHHHHHHHHHHhCC
Confidence 4566777888888766 677778875 45555666654332 368999999999986 211 12223344444554
Q ss_pred ---cEEEecCCCCCCHHHHHHHHHHHHHHH
Q 032001 86 ---KFFETSAKTNLNVEQVFFSIARDIKQR 112 (149)
Q Consensus 86 ---~~~~~Sak~~~~i~el~~~l~~~i~~~ 112 (149)
.++.+||++|.|+++++++|++.++..
T Consensus 157 ~~~~vi~iSAktG~GI~~Ll~~I~~~lp~P 186 (600)
T PRK05433 157 DASDAVLVSAKTGIGIEEVLEAIVERIPPP 186 (600)
T ss_pred CcceEEEEecCCCCCHHHHHHHHHHhCccc
Confidence 389999999999999999999887654
No 169
>PRK12298 obgE GTPase CgtA; Reviewed
Probab=98.87 E-value=3e-08 Score=78.03 Aligned_cols=94 Identities=20% Similarity=0.250 Sum_probs=66.6
Q ss_pred hhhhcCeEEEEEeeCC---h-hhHHHHHHHHHHHHHhcC--CCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhC--CcE
Q 032001 16 YLAVLCRFKYCTYKIA---S-YHFSDIRNWIRNIEQHAS--DNVNKVLVGNKADMDESKRAVPTSKGQALADEYG--IKF 87 (149)
Q Consensus 16 ~~~~~~~~vi~v~~~~---~-~s~~~~~~~~~~i~~~~~--~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~--~~~ 87 (149)
++.++ +++++|+|++ . .++.....|++++..+.. .+.|+++|+||+|+. ....+ ......+.+..+ .++
T Consensus 234 ~i~ra-dvlL~VVD~s~~~~~d~~e~~~~l~~eL~~~~~~L~~kP~IlVlNKiDl~-~~~el-~~~l~~l~~~~~~~~~V 310 (390)
T PRK12298 234 HLERC-RVLLHLIDIAPIDGSDPVENARIIINELEKYSPKLAEKPRWLVFNKIDLL-DEEEA-EERAKAIVEALGWEGPV 310 (390)
T ss_pred HHHhC-CEEEEEeccCcccccChHHHHHHHHHHHHhhhhhhcCCCEEEEEeCCccC-ChHHH-HHHHHHHHHHhCCCCCE
Confidence 34444 4477777876 3 567778889888876532 368999999999986 32211 223333444444 368
Q ss_pred EEecCCCCCCHHHHHHHHHHHHHHH
Q 032001 88 FETSAKTNLNVEQVFFSIARDIKQR 112 (149)
Q Consensus 88 ~~~Sak~~~~i~el~~~l~~~i~~~ 112 (149)
+.+||+++.+++++++.|.+.+.+.
T Consensus 311 i~ISA~tg~GIdeLl~~I~~~L~~~ 335 (390)
T PRK12298 311 YLISAASGLGVKELCWDLMTFIEEN 335 (390)
T ss_pred EEEECCCCcCHHHHHHHHHHHhhhC
Confidence 9999999999999999999988654
No 170
>PRK00098 GTPase RsgA; Reviewed
Probab=98.86 E-value=1.3e-08 Score=77.52 Aligned_cols=84 Identities=17% Similarity=0.141 Sum_probs=58.7
Q ss_pred hhcCeEEEEEeeCCh-hh-HHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhCCcEEEecCCCC
Q 032001 18 AVLCRFKYCTYKIAS-YH-FSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKTN 95 (149)
Q Consensus 18 ~~~~~~vi~v~~~~~-~s-~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~Sak~~ 95 (149)
+++ +.+++|+|+.+ .+ ...+..|+..+.. .++|+++|+||+|+. .... .........+..+.+++.+||+++
T Consensus 79 ani-D~vllV~d~~~p~~~~~~idr~L~~~~~---~~ip~iIVlNK~DL~-~~~~-~~~~~~~~~~~~g~~v~~vSA~~g 152 (298)
T PRK00098 79 ANV-DQAVLVFAAKEPDFSTDLLDRFLVLAEA---NGIKPIIVLNKIDLL-DDLE-EARELLALYRAIGYDVLELSAKEG 152 (298)
T ss_pred ecC-CEEEEEEECCCCCCCHHHHHHHHHHHHH---CCCCEEEEEEhHHcC-CCHH-HHHHHHHHHHHCCCeEEEEeCCCC
Confidence 444 45788889864 33 4456888887755 468999999999996 2211 111223344556788999999999
Q ss_pred CCHHHHHHHHHH
Q 032001 96 LNVEQVFFSIAR 107 (149)
Q Consensus 96 ~~i~el~~~l~~ 107 (149)
.|+++++..+..
T Consensus 153 ~gi~~L~~~l~g 164 (298)
T PRK00098 153 EGLDELKPLLAG 164 (298)
T ss_pred ccHHHHHhhccC
Confidence 999999988753
No 171
>PRK11058 GTPase HflX; Provisional
Probab=98.86 E-value=3.4e-08 Score=78.56 Aligned_cols=87 Identities=17% Similarity=0.124 Sum_probs=60.1
Q ss_pred cCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhCCc-EEEecCCCCCC
Q 032001 20 LCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIK-FFETSAKTNLN 97 (149)
Q Consensus 20 ~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~-~~~~Sak~~~~ 97 (149)
.++++++|+|.++ .++.....|...+......++|+++|+||+|+. .... .... ....+.+ ++.+||++|.|
T Consensus 276 ~ADlIL~VvDaS~~~~~e~l~~v~~iL~el~~~~~pvIiV~NKiDL~-~~~~---~~~~--~~~~~~~~~v~ISAktG~G 349 (426)
T PRK11058 276 QATLLLHVVDAADVRVQENIEAVNTVLEEIDAHEIPTLLVMNKIDML-DDFE---PRID--RDEENKPIRVWLSAQTGAG 349 (426)
T ss_pred cCCEEEEEEeCCCccHHHHHHHHHHHHHHhccCCCCEEEEEEcccCC-Cchh---HHHH--HHhcCCCceEEEeCCCCCC
Confidence 4566899999987 667776655554444333578999999999986 2111 1111 1123444 58899999999
Q ss_pred HHHHHHHHHHHHHHH
Q 032001 98 VEQVFFSIARDIKQR 112 (149)
Q Consensus 98 i~el~~~l~~~i~~~ 112 (149)
+++++++|.+.+...
T Consensus 350 IdeL~e~I~~~l~~~ 364 (426)
T PRK11058 350 IPLLFQALTERLSGE 364 (426)
T ss_pred HHHHHHHHHHHhhhc
Confidence 999999999988543
No 172
>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=98.86 E-value=2e-08 Score=79.71 Aligned_cols=90 Identities=14% Similarity=0.029 Sum_probs=57.8
Q ss_pred hhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHH----hCCcEEEe
Q 032001 16 YLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADE----YGIKFFET 90 (149)
Q Consensus 16 ~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~----~~~~~~~~ 90 (149)
+++.+ +++++|+|.++ .+.... .++..+.. .+.|+++|+||+|+. ............+... .+.+++++
T Consensus 251 ~~~~a-d~~ilV~D~~~~~~~~~~-~~~~~~~~---~~~~iiiv~NK~Dl~-~~~~~~~~~~~~~~~~~~~~~~~~vi~~ 324 (429)
T TIGR03594 251 AIERA-DVVLLVLDATEGITEQDL-RIAGLILE---AGKALVIVVNKWDLV-KDEKTREEFKKELRRKLPFLDFAPIVFI 324 (429)
T ss_pred HHHhC-CEEEEEEECCCCccHHHH-HHHHHHHH---cCCcEEEEEECcccC-CCHHHHHHHHHHHHHhcccCCCCceEEE
Confidence 34444 55788889886 554443 34444443 368999999999986 2111111111122222 23689999
Q ss_pred cCCCCCCHHHHHHHHHHHHHH
Q 032001 91 SAKTNLNVEQVFFSIARDIKQ 111 (149)
Q Consensus 91 Sak~~~~i~el~~~l~~~i~~ 111 (149)
||++|.|++++|+++.+....
T Consensus 325 SA~~g~~v~~l~~~i~~~~~~ 345 (429)
T TIGR03594 325 SALTGQGVDKLLDAIDEVYEN 345 (429)
T ss_pred eCCCCCCHHHHHHHHHHHHHH
Confidence 999999999999999886543
No 173
>PRK03003 GTP-binding protein Der; Reviewed
Probab=98.85 E-value=1.2e-08 Score=82.16 Aligned_cols=92 Identities=11% Similarity=0.063 Sum_probs=61.0
Q ss_pred ccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhCC-c
Q 032001 9 FIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGI-K 86 (149)
Q Consensus 9 ~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~-~ 86 (149)
+...+..++..++ ++++|+|.++ .++.. ..|...+.. .++|+++|+||+|+. ... ......+ ..++ .
T Consensus 107 ~~~~~~~~~~~aD-~il~VvD~~~~~s~~~-~~i~~~l~~---~~~piilV~NK~Dl~-~~~---~~~~~~~--~~g~~~ 175 (472)
T PRK03003 107 VAEQAEVAMRTAD-AVLFVVDATVGATATD-EAVARVLRR---SGKPVILAANKVDDE-RGE---ADAAALW--SLGLGE 175 (472)
T ss_pred HHHHHHHHHHhCC-EEEEEEECCCCCCHHH-HHHHHHHHH---cCCCEEEEEECccCC-ccc---hhhHHHH--hcCCCC
Confidence 3344555666665 5788889986 44432 345444443 468999999999986 211 1111122 2233 4
Q ss_pred EEEecCCCCCCHHHHHHHHHHHHHH
Q 032001 87 FFETSAKTNLNVEQVFFSIARDIKQ 111 (149)
Q Consensus 87 ~~~~Sak~~~~i~el~~~l~~~i~~ 111 (149)
.+++||++|.|++++|+++++.+.+
T Consensus 176 ~~~iSA~~g~gi~eL~~~i~~~l~~ 200 (472)
T PRK03003 176 PHPVSALHGRGVGDLLDAVLAALPE 200 (472)
T ss_pred eEEEEcCCCCCcHHHHHHHHhhccc
Confidence 5799999999999999999988865
No 174
>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=98.84 E-value=7.3e-09 Score=80.75 Aligned_cols=96 Identities=20% Similarity=0.195 Sum_probs=67.1
Q ss_pred ccccccccchhhhhhcCeEEEEEeeCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHH----HH
Q 032001 5 RCLCFIGVYPPYLAVLCRFKYCTYKIASYHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQA----LA 80 (149)
Q Consensus 5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~----~~ 80 (149)
..+.|+.+...++.+.+ ++++|+|+.+ ....|..++.+.. .+.|+++|+||+|+. . +......... ++
T Consensus 49 ~~e~f~~~l~~~~~~~~-~Il~VvD~~d----~~~s~~~~l~~~~-~~~piilV~NK~DLl-~-k~~~~~~~~~~l~~~~ 120 (360)
T TIGR03597 49 NDDDFLNLLNSLGDSNA-LIVYVVDIFD----FEGSLIPELKRFV-GGNPVLLVGNKIDLL-P-KSVNLSKIKEWMKKRA 120 (360)
T ss_pred CHHHHHHHHhhcccCCc-EEEEEEECcC----CCCCccHHHHHHh-CCCCEEEEEEchhhC-C-CCCCHHHHHHHHHHHH
Confidence 45678888888877664 5788888864 1244666665544 367999999999986 3 2233333333 34
Q ss_pred HHhCC---cEEEecCCCCCCHHHHHHHHHHH
Q 032001 81 DEYGI---KFFETSAKTNLNVEQVFFSIARD 108 (149)
Q Consensus 81 ~~~~~---~~~~~Sak~~~~i~el~~~l~~~ 108 (149)
+..++ .++.+||++|.|+++++..|.+.
T Consensus 121 k~~g~~~~~i~~vSAk~g~gv~eL~~~l~~~ 151 (360)
T TIGR03597 121 KELGLKPVDIILVSAKKGNGIDELLDKIKKA 151 (360)
T ss_pred HHcCCCcCcEEEecCCCCCCHHHHHHHHHHH
Confidence 55665 48999999999999999999764
No 175
>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=98.84 E-value=3.3e-08 Score=70.32 Aligned_cols=96 Identities=9% Similarity=-0.050 Sum_probs=60.1
Q ss_pred ccchhhhhhc--CeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCC--CHHHHHHH-HH---
Q 032001 11 GVYPPYLAVL--CRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAV--PTSKGQAL-AD--- 81 (149)
Q Consensus 11 ~~~~~~~~~~--~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~--~~~~~~~~-~~--- 81 (149)
.++..++... .+++++|+|..+ ........|.. ... .++|+++++||+|+. ..... ........ ..
T Consensus 80 ~~~~~~~~~~~~~d~vi~VvD~~~~~~~~~~~~~~~--~~~--~~~~~iiv~NK~Dl~-~~~~~~~~~~~~~~~l~~~~~ 154 (192)
T cd01889 80 SLIRTIIGGAQIIDLMLLVVDATKGIQTQTAECLVI--GEI--LCKKLIVVLNKIDLI-PEEERERKIEKMKKKLQKTLE 154 (192)
T ss_pred HHHHHHHHHHhhCCEEEEEEECCCCccHHHHHHHHH--HHH--cCCCEEEEEECcccC-CHHHHHHHHHHHHHHHHHHHH
Confidence 4456665543 356888888875 43444333331 122 257999999999986 21111 11112211 11
Q ss_pred ---HhCCcEEEecCCCCCCHHHHHHHHHHHHHH
Q 032001 82 ---EYGIKFFETSAKTNLNVEQVFFSIARDIKQ 111 (149)
Q Consensus 82 ---~~~~~~~~~Sak~~~~i~el~~~l~~~i~~ 111 (149)
..+++++++||++|.|+++|++.|.+.++.
T Consensus 155 ~~~~~~~~vi~iSa~~g~gi~~L~~~l~~~~~~ 187 (192)
T cd01889 155 KTRFKNSPIIPVSAKPGGGEAELGKDLNNLIVL 187 (192)
T ss_pred hcCcCCCCEEEEeccCCCCHHHHHHHHHhcccc
Confidence 135689999999999999999999988754
No 176
>PRK15494 era GTPase Era; Provisional
Probab=98.82 E-value=3.5e-08 Score=76.37 Aligned_cols=87 Identities=22% Similarity=0.233 Sum_probs=57.7
Q ss_pred hhhcCeEEEEEeeCChhhHHHHH-HHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhC--CcEEEecCC
Q 032001 17 LAVLCRFKYCTYKIASYHFSDIR-NWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYG--IKFFETSAK 93 (149)
Q Consensus 17 ~~~~~~~vi~v~~~~~~s~~~~~-~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~--~~~~~~Sak 93 (149)
+.++ +++++|+|..+ +|.... .|+..+.. .+.|.++|+||+|+. .. ....+..++...+ ..++++||+
T Consensus 129 l~~a-Dvil~VvD~~~-s~~~~~~~il~~l~~---~~~p~IlViNKiDl~-~~---~~~~~~~~l~~~~~~~~i~~iSAk 199 (339)
T PRK15494 129 LHSA-DLVLLIIDSLK-SFDDITHNILDKLRS---LNIVPIFLLNKIDIE-SK---YLNDIKAFLTENHPDSLLFPISAL 199 (339)
T ss_pred hhhC-CEEEEEEECCC-CCCHHHHHHHHHHHh---cCCCEEEEEEhhcCc-cc---cHHHHHHHHHhcCCCcEEEEEecc
Confidence 4444 45666777553 455554 45555544 245778899999986 32 1233444444433 579999999
Q ss_pred CCCCHHHHHHHHHHHHHHH
Q 032001 94 TNLNVEQVFFSIARDIKQR 112 (149)
Q Consensus 94 ~~~~i~el~~~l~~~i~~~ 112 (149)
+|.|++++|++|++.+++.
T Consensus 200 tg~gv~eL~~~L~~~l~~~ 218 (339)
T PRK15494 200 SGKNIDGLLEYITSKAKIS 218 (339)
T ss_pred CccCHHHHHHHHHHhCCCC
Confidence 9999999999999877553
No 177
>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=98.81 E-value=4.2e-08 Score=67.57 Aligned_cols=85 Identities=16% Similarity=0.088 Sum_probs=54.5
Q ss_pred hcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHH-HHHHHHHh----CCcEEEecC
Q 032001 19 VLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSK-GQALADEY----GIKFFETSA 92 (149)
Q Consensus 19 ~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~-~~~~~~~~----~~~~~~~Sa 92 (149)
...+++++|+|..+ .+.... .++..+.. .+.|+++++||+|+. ......... ...+.... ..+++.+||
T Consensus 83 ~~~d~vi~v~d~~~~~~~~~~-~~~~~~~~---~~~~~iiv~nK~Dl~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa 157 (174)
T cd01895 83 ERADVVLLVIDATEGITEQDL-RIAGLILE---EGKALVIVVNKWDLV-EKDSKTMKEFKKEIRRKLPFLDYAPIVFISA 157 (174)
T ss_pred hhcCeEEEEEeCCCCcchhHH-HHHHHHHh---cCCCEEEEEeccccC-CccHHHHHHHHHHHHhhcccccCCceEEEec
Confidence 34566888888876 444433 33333333 358999999999987 322111222 22222322 358999999
Q ss_pred CCCCCHHHHHHHHHHH
Q 032001 93 KTNLNVEQVFFSIARD 108 (149)
Q Consensus 93 k~~~~i~el~~~l~~~ 108 (149)
+++.|++++++.+.+.
T Consensus 158 ~~~~~i~~~~~~l~~~ 173 (174)
T cd01895 158 LTGQGVDKLFDAIDEV 173 (174)
T ss_pred cCCCCHHHHHHHHHHh
Confidence 9999999999998763
No 178
>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=98.79 E-value=2e-08 Score=72.31 Aligned_cols=85 Identities=12% Similarity=0.075 Sum_probs=50.3
Q ss_pred eEEEEEeeCCh-h-hHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCC--HHHHHHHHHH---hCCcEEEecCCC
Q 032001 22 RFKYCTYKIAS-Y-HFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVP--TSKGQALADE---YGIKFFETSAKT 94 (149)
Q Consensus 22 ~~vi~v~~~~~-~-s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~--~~~~~~~~~~---~~~~~~~~Sak~ 94 (149)
+++++|+|.++ . .......| ..+... ...|+++|+||+|+. ...... ......+... .+.+++++||++
T Consensus 108 D~~llVvd~~~~~~~~~t~~~l-~~~~~~--~~~~iiivvNK~Dl~-~~~~~~~~~~~i~~~~~~~~~~~~~i~~vSA~~ 183 (203)
T cd01888 108 DGALLLIAANEPCPQPQTSEHL-AALEIM--GLKHIIIVQNKIDLV-KEEQALENYEQIKKFVKGTIAENAPIIPISAQL 183 (203)
T ss_pred CEEEEEEECCCCCCCcchHHHH-HHHHHc--CCCcEEEEEEchhcc-CHHHHHHHHHHHHHHHhccccCCCcEEEEeCCC
Confidence 55778888874 1 11111222 222221 124789999999987 211110 1122222322 246799999999
Q ss_pred CCCHHHHHHHHHHHHH
Q 032001 95 NLNVEQVFFSIARDIK 110 (149)
Q Consensus 95 ~~~i~el~~~l~~~i~ 110 (149)
|.|++++|+.+.+.++
T Consensus 184 g~gi~~L~~~l~~~l~ 199 (203)
T cd01888 184 KYNIDVLLEYIVKKIP 199 (203)
T ss_pred CCCHHHHHHHHHHhCC
Confidence 9999999999987664
No 179
>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=98.79 E-value=4.8e-08 Score=66.39 Aligned_cols=83 Identities=13% Similarity=0.038 Sum_probs=53.1
Q ss_pred hhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhCC-cEEEecC
Q 032001 15 PYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGI-KFFETSA 92 (149)
Q Consensus 15 ~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~-~~~~~Sa 92 (149)
.+++.+ +++++|+|..+ .+.... .+...+.. .+.|+++|+||+|+. .... . .......+. +++++||
T Consensus 72 ~~~~~~-d~ii~v~d~~~~~~~~~~-~~~~~~~~---~~~piiiv~nK~D~~-~~~~----~-~~~~~~~~~~~~~~~Sa 140 (157)
T cd01894 72 LAIEEA-DVILFVVDGREGLTPADE-EIAKYLRK---SKKPVILVVNKVDNI-KEED----E-AAEFYSLGFGEPIPISA 140 (157)
T ss_pred HHHHhC-CEEEEEEeccccCCccHH-HHHHHHHh---cCCCEEEEEECcccC-ChHH----H-HHHHHhcCCCCeEEEec
Confidence 344455 45777778764 323222 12222222 358999999999987 2211 1 222334455 7899999
Q ss_pred CCCCCHHHHHHHHHHH
Q 032001 93 KTNLNVEQVFFSIARD 108 (149)
Q Consensus 93 k~~~~i~el~~~l~~~ 108 (149)
++|.|++++|+++++.
T Consensus 141 ~~~~gv~~l~~~l~~~ 156 (157)
T cd01894 141 EHGRGIGDLLDAILEL 156 (157)
T ss_pred ccCCCHHHHHHHHHhh
Confidence 9999999999999875
No 180
>PF00009 GTP_EFTU: Elongation factor Tu GTP binding domain; InterPro: IPR000795 Elongation factors belong to a family of proteins that promote the GTP-dependent binding of aminoacyl tRNA to the A site of ribosomes during protein biosynthesis, and catalyse the translocation of the synthesised protein chain from the A to the P site. The proteins are all relatively similar in the vicinity of their C-termini, and are also highly similar to a range of proteins that includes the nodulation Q protein from Rhizobium meliloti (Sinorhizobium meliloti), bacterial tetracycline resistance proteins [] and the omnipotent suppressor protein 2 from yeast. In both prokaryotes and eukaryotes, there are three distinct types of elongation factors, EF-1alpha (EF-Tu), which binds GTP and an aminoacyl-tRNAand delivers the latter to the A site of ribosomes; EF-1beta (EF-Ts), which interacts with EF-1a/EF-Tu to displace GDP and thus allows the regeneration of GTP-EF-1a; and EF-2 (EF-G), which binds GTP and peptidyl-tRNA and translocates the latter from the A site to the P site. In EF-1-alpha, a specific region has been shown [] to be involved in a conformational change mediated by the hydrolysis of GTP to GDP. This region is conserved in both EF-1alpha/EF-Tu as well as EF-2/EF-G and thus seems typical for GTP-dependent proteins which bind non-initiator tRNAs to the ribosome. The GTP-binding protein synthesis factor family also includes the eukaryotic peptide chain release factor GTP-binding subunits [] and prokaryotic peptide chain release factor 3 (RF-3) []; the prokaryotic GTP-binding protein lepA and its homologue in yeast (GUF1) and Caenorhabditis elegans (ZK1236.1); yeast HBS1 []; rat statin S1 []; and the prokaryotic selenocysteine-specific elongation factor selB [].; GO: 0003924 GTPase activity, 0005525 GTP binding; PDB: 3IZW_C 1DG1_G 2BVN_B 3IZV_C 3MMP_C 1OB2_A 1EFU_A 3FIH_Z 3TR5_A 1TUI_C ....
Probab=98.76 E-value=4.5e-08 Score=69.48 Aligned_cols=94 Identities=15% Similarity=0.123 Sum_probs=56.6
Q ss_pred ccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHH----HHHHHh
Q 032001 9 FIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQ----ALADEY 83 (149)
Q Consensus 9 ~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~----~~~~~~ 83 (149)
|...+..-+... |++++|.|... ... .....+..+.. .++|++++.||+|+. ..+ ...... .+.+..
T Consensus 83 f~~~~~~~~~~~-D~ailvVda~~g~~~-~~~~~l~~~~~---~~~p~ivvlNK~D~~-~~~--~~~~~~~~~~~l~~~~ 154 (188)
T PF00009_consen 83 FIKEMIRGLRQA-DIAILVVDANDGIQP-QTEEHLKILRE---LGIPIIVVLNKMDLI-EKE--LEEIIEEIKEKLLKEY 154 (188)
T ss_dssp HHHHHHHHHTTS-SEEEEEEETTTBSTH-HHHHHHHHHHH---TT-SEEEEEETCTSS-HHH--HHHHHHHHHHHHHHHT
T ss_pred eeecccceeccc-ccceeeeeccccccc-ccccccccccc---cccceEEeeeeccch-hhh--HHHHHHHHHHHhcccc
Confidence 444444444444 44677778775 322 23333333444 358899999999986 111 111111 232332
Q ss_pred ------CCcEEEecCCCCCCHHHHHHHHHHHHH
Q 032001 84 ------GIKFFETSAKTNLNVEQVFFSIARDIK 110 (149)
Q Consensus 84 ------~~~~~~~Sak~~~~i~el~~~l~~~i~ 110 (149)
..+++++||++|.|+++|++.|.+.++
T Consensus 155 ~~~~~~~~~vi~~Sa~~g~gi~~Ll~~l~~~~P 187 (188)
T PF00009_consen 155 GENGEEIVPVIPISALTGDGIDELLEALVELLP 187 (188)
T ss_dssp TSTTTSTEEEEEEBTTTTBTHHHHHHHHHHHS-
T ss_pred ccCccccceEEEEecCCCCCHHHHHHHHHHhCc
Confidence 247999999999999999999998764
No 181
>TIGR00487 IF-2 translation initiation factor IF-2. This model discriminates eubacterial (and mitochondrial) translation initiation factor 2 (IF-2), encoded by the infB gene in bacteria, from similar proteins in the Archaea and Eukaryotes. In the bacteria and in organelles, the initiator tRNA is charged with N-formyl-Met instead of Met. This translation factor acts in delivering the initator tRNA to the ribosome. It is one of a number of GTP-binding translation factors recognized by the pfam model GTP_EFTU.
Probab=98.75 E-value=7.2e-08 Score=79.43 Aligned_cols=94 Identities=16% Similarity=0.071 Sum_probs=60.4
Q ss_pred ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHH-
Q 032001 5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADE- 82 (149)
Q Consensus 5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~- 82 (149)
|-+.|..++..++...+. +++|+|.++ ........| ..+.. .++|+++++||+|+. .. ........+..
T Consensus 144 Ghe~F~~~r~rga~~aDi-aILVVda~dgv~~qT~e~i-~~~~~---~~vPiIVviNKiDl~-~~---~~e~v~~~L~~~ 214 (587)
T TIGR00487 144 GHEAFTSMRARGAKVTDI-VVLVVAADDGVMPQTIEAI-SHAKA---ANVPIIVAINKIDKP-EA---NPDRVKQELSEY 214 (587)
T ss_pred CCcchhhHHHhhhccCCE-EEEEEECCCCCCHhHHHHH-HHHHH---cCCCEEEEEECcccc-cC---CHHHHHHHHHHh
Confidence 346788888877665555 677778875 222222233 22222 468999999999986 21 12222222222
Q ss_pred ------hC--CcEEEecCCCCCCHHHHHHHHHH
Q 032001 83 ------YG--IKFFETSAKTNLNVEQVFFSIAR 107 (149)
Q Consensus 83 ------~~--~~~~~~Sak~~~~i~el~~~l~~ 107 (149)
++ .+++++||++|.|++++|+++..
T Consensus 215 g~~~~~~~~~~~~v~iSAktGeGI~eLl~~I~~ 247 (587)
T TIGR00487 215 GLVPEDWGGDTIFVPVSALTGDGIDELLDMILL 247 (587)
T ss_pred hhhHHhcCCCceEEEEECCCCCChHHHHHhhhh
Confidence 22 46899999999999999999874
No 182
>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=98.75 E-value=7.4e-08 Score=77.02 Aligned_cols=85 Identities=14% Similarity=0.124 Sum_probs=62.1
Q ss_pred hhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhCCcEEEecCC
Q 032001 15 PYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAK 93 (149)
Q Consensus 15 ~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~Sak 93 (149)
.+++++ +++++|||.++ .+++.. |+..+.. .++|+++|+||+|+. .. ....+.+..+.+++.+||+
T Consensus 278 ~~~~~a-D~il~V~D~s~~~s~~~~--~l~~~~~---~~~piIlV~NK~Dl~-~~------~~~~~~~~~~~~~~~vSak 344 (442)
T TIGR00450 278 KAIKQA-DLVIYVLDASQPLTKDDF--LIIDLNK---SKKPFILVLNKIDLK-IN------SLEFFVSSKVLNSSNLSAK 344 (442)
T ss_pred HHHhhC-CEEEEEEECCCCCChhHH--HHHHHhh---CCCCEEEEEECccCC-Cc------chhhhhhhcCCceEEEEEe
Confidence 455544 55888889986 666654 7776643 468999999999986 22 1123445567788999999
Q ss_pred CCCCHHHHHHHHHHHHHHHh
Q 032001 94 TNLNVEQVFFSIARDIKQRL 113 (149)
Q Consensus 94 ~~~~i~el~~~l~~~i~~~~ 113 (149)
+ .||+++|+.|.+.+.+..
T Consensus 345 ~-~gI~~~~~~L~~~i~~~~ 363 (442)
T TIGR00450 345 Q-LKIKALVDLLTQKINAFY 363 (442)
T ss_pred c-CCHHHHHHHHHHHHHHHh
Confidence 8 699999999999886654
No 183
>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=98.75 E-value=7e-08 Score=79.66 Aligned_cols=90 Identities=16% Similarity=0.145 Sum_probs=63.1
Q ss_pred chhhhh-hcCeEEEEEeeCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhCCcEEEec
Q 032001 13 YPPYLA-VLCRFKYCTYKIASYHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETS 91 (149)
Q Consensus 13 ~~~~~~-~~~~~vi~v~~~~~~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~S 91 (149)
+..|+. +..+++++|+|.++ ++....+..++.+ .++|+++|+||+|+. +...+. .....+.+..+.+++++|
T Consensus 64 ~~~~l~~~~aDvvI~VvDat~--ler~l~l~~ql~~---~~~PiIIVlNK~Dl~-~~~~i~-~d~~~L~~~lg~pvv~tS 136 (591)
T TIGR00437 64 ARDYLLNEKPDLVVNVVDASN--LERNLYLTLQLLE---LGIPMILALNLVDEA-EKKGIR-IDEEKLEERLGVPVVPTS 136 (591)
T ss_pred HHHHHhhcCCCEEEEEecCCc--chhhHHHHHHHHh---cCCCEEEEEehhHHH-HhCCCh-hhHHHHHHHcCCCEEEEE
Confidence 344443 24577888888875 2222344444433 468999999999986 333332 334567777889999999
Q ss_pred CCCCCCHHHHHHHHHHHH
Q 032001 92 AKTNLNVEQVFFSIARDI 109 (149)
Q Consensus 92 ak~~~~i~el~~~l~~~i 109 (149)
|++|.|++++++.+.+..
T Consensus 137 A~tg~Gi~eL~~~i~~~~ 154 (591)
T TIGR00437 137 ATEGRGIERLKDAIRKAI 154 (591)
T ss_pred CCCCCCHHHHHHHHHHHh
Confidence 999999999999998753
No 184
>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=98.74 E-value=7.7e-08 Score=65.31 Aligned_cols=79 Identities=14% Similarity=0.075 Sum_probs=56.1
Q ss_pred hhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhCCcEEEecCCC
Q 032001 16 YLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT 94 (149)
Q Consensus 16 ~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~Sak~ 94 (149)
++.+. +++++|+|+++ .+......|.. ..+.|+++|+||+|+. ..... .....+.+++.+||++
T Consensus 77 ~~~~~-~~~v~v~d~~~~~~~~~~~~~~~------~~~~~vi~v~nK~D~~-~~~~~-------~~~~~~~~~~~~Sa~~ 141 (157)
T cd04164 77 AIEEA-DLVLFVIDASRGLDEEDLEILEL------PADKPIIVVLNKSDLL-PDSEL-------LSLLAGKPIIAISAKT 141 (157)
T ss_pred HHhhC-CEEEEEEECCCCCCHHHHHHHHh------hcCCCEEEEEEchhcC-Ccccc-------ccccCCCceEEEECCC
Confidence 34444 55788889986 55555554433 2468999999999987 32211 2233456899999999
Q ss_pred CCCHHHHHHHHHHHH
Q 032001 95 NLNVEQVFFSIARDI 109 (149)
Q Consensus 95 ~~~i~el~~~l~~~i 109 (149)
+.|+++++.+|.+.+
T Consensus 142 ~~~v~~l~~~l~~~~ 156 (157)
T cd04164 142 GEGLDELKEALLELA 156 (157)
T ss_pred CCCHHHHHHHHHHhh
Confidence 999999999988754
No 185
>PRK05291 trmE tRNA modification GTPase TrmE; Reviewed
Probab=98.73 E-value=4.5e-08 Score=78.43 Aligned_cols=80 Identities=16% Similarity=0.101 Sum_probs=58.1
Q ss_pred hhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhCCcEEEecCCC
Q 032001 16 YLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT 94 (149)
Q Consensus 16 ~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~Sak~ 94 (149)
++.+ .+++++|+|.++ .+++....|.. ..+.|+++|+||+|+. ...... ...+.+++.+||++
T Consensus 291 ~~~~-aD~il~VvD~s~~~s~~~~~~l~~------~~~~piiiV~NK~DL~-~~~~~~--------~~~~~~~i~iSAkt 354 (449)
T PRK05291 291 AIEE-ADLVLLVLDASEPLTEEDDEILEE------LKDKPVIVVLNKADLT-GEIDLE--------EENGKPVIRISAKT 354 (449)
T ss_pred HHHh-CCEEEEEecCCCCCChhHHHHHHh------cCCCCcEEEEEhhhcc-ccchhh--------hccCCceEEEEeeC
Confidence 4444 456888899986 66665555543 2468999999999997 322111 23356789999999
Q ss_pred CCCHHHHHHHHHHHHHH
Q 032001 95 NLNVEQVFFSIARDIKQ 111 (149)
Q Consensus 95 ~~~i~el~~~l~~~i~~ 111 (149)
|.|+++++++|.+.+..
T Consensus 355 g~GI~~L~~~L~~~l~~ 371 (449)
T PRK05291 355 GEGIDELREAIKELAFG 371 (449)
T ss_pred CCCHHHHHHHHHHHHhh
Confidence 99999999999988754
No 186
>cd00880 Era_like Era (E. coli Ras-like protein)-like. This family includes several distinct subfamilies (TrmE/ThdF, FeoB, YihA (EngG), Era, and EngA/YfgK) that generally show sequence conservation in the region between the Walker A and B motifs (G1 and G3 box motifs), to the exclusion of other GTPases. TrmE is ubiquitous in bacteria and is a widespread mitochondrial protein in eukaryotes, but is absent from archaea. The yeast member of TrmE family, MSS1, is involved in mitochondrial translation; bacterial members are often present in translation-related operons. FeoB represents an unusual adaptation of GTPases for high-affinity iron (II) transport. YihA (EngB) family of GTPases is typified by the E. coli YihA, which is an essential protein involved in cell division control. Era is characterized by a distinct derivative of the KH domain (the pseudo-KH domain) which is located C-terminal to the GTPase domain. EngA and its orthologs are composed of two GTPase domains and, since the se
Probab=98.69 E-value=1.3e-07 Score=63.63 Aligned_cols=88 Identities=13% Similarity=0.035 Sum_probs=56.4
Q ss_pred hhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHH---HHHHHHHhCCcEEEe
Q 032001 15 PYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSK---GQALADEYGIKFFET 90 (149)
Q Consensus 15 ~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~---~~~~~~~~~~~~~~~ 90 (149)
.++... +++++|++... .+..... |...... .+.|+++|+||.|+. ......... ........+.+++++
T Consensus 71 ~~~~~~-d~il~v~~~~~~~~~~~~~-~~~~~~~---~~~~~ivv~nK~D~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~ 144 (163)
T cd00880 71 RVLERA-DLILFVVDADLRADEEEEK-LLELLRE---RGKPVLLVLNKIDLL-PEEEEEELLELRLLILLLLLGLPVIAV 144 (163)
T ss_pred HHHHhC-CEEEEEEeCCCCCCHHHHH-HHHHHHh---cCCeEEEEEEccccC-ChhhHHHHHHHHHhhcccccCCceEEE
Confidence 355555 45777778876 4444433 4444433 568999999999987 322111110 112222345789999
Q ss_pred cCCCCCCHHHHHHHHHHH
Q 032001 91 SAKTNLNVEQVFFSIARD 108 (149)
Q Consensus 91 Sak~~~~i~el~~~l~~~ 108 (149)
||+++.|++++++++.+.
T Consensus 145 sa~~~~~v~~l~~~l~~~ 162 (163)
T cd00880 145 SALTGEGIDELREALIEA 162 (163)
T ss_pred eeeccCCHHHHHHHHHhh
Confidence 999999999999998864
No 187
>PRK09518 bifunctional cytidylate kinase/GTPase Der; Reviewed
Probab=98.68 E-value=1.8e-07 Score=78.91 Aligned_cols=86 Identities=14% Similarity=0.111 Sum_probs=57.9
Q ss_pred hcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHH-HHHHHh----CCcEEEecC
Q 032001 19 VLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQ-ALADEY----GIKFFETSA 92 (149)
Q Consensus 19 ~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~-~~~~~~----~~~~~~~Sa 92 (149)
...+++++|+|.+. .++.... ++..+.. .++|+++|+||+|+. +... ..... .+.... ..+++.+||
T Consensus 531 ~~advvilViDat~~~s~~~~~-i~~~~~~---~~~piIiV~NK~DL~-~~~~--~~~~~~~~~~~l~~~~~~~ii~iSA 603 (712)
T PRK09518 531 ERSELALFLFDASQPISEQDLK-VMSMAVD---AGRALVLVFNKWDLM-DEFR--RQRLERLWKTEFDRVTWARRVNLSA 603 (712)
T ss_pred hcCCEEEEEEECCCCCCHHHHH-HHHHHHH---cCCCEEEEEEchhcC-ChhH--HHHHHHHHHHhccCCCCCCEEEEEC
Confidence 34566888889986 5666654 4444443 468999999999997 2111 11111 122221 246799999
Q ss_pred CCCCCHHHHHHHHHHHHHH
Q 032001 93 KTNLNVEQVFFSIARDIKQ 111 (149)
Q Consensus 93 k~~~~i~el~~~l~~~i~~ 111 (149)
++|.|++++|+.+.+.+.+
T Consensus 604 ktg~gv~~L~~~i~~~~~~ 622 (712)
T PRK09518 604 KTGWHTNRLAPAMQEALES 622 (712)
T ss_pred CCCCCHHHHHHHHHHHHHH
Confidence 9999999999999987765
No 188
>KOG0072 consensus GTP-binding ADP-ribosylation factor-like protein ARL1 [Intracellular trafficking, secretion, and vesicular transport]
Probab=98.66 E-value=6.1e-08 Score=65.56 Aligned_cols=100 Identities=12% Similarity=0.067 Sum_probs=61.9
Q ss_pred ccccchhhhhhcCeEEEEEeeCCh-hhHHHHHH-HHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHH----HHHH
Q 032001 9 FIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRN-WIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQA----LADE 82 (149)
Q Consensus 9 ~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~-~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~----~~~~ 82 (149)
-+.+|.-||.+.+.++++| |..+ ........ ++..+.+..-....+++++||.|.. . +....+.... -.+.
T Consensus 75 irPyWRcYy~dt~avIyVV-Dssd~dris~a~~el~~mL~E~eLq~a~llv~anKqD~~-~-~~t~~E~~~~L~l~~Lk~ 151 (182)
T KOG0072|consen 75 IRPYWRCYYADTDAVIYVV-DSSDRDRISIAGVELYSMLQEEELQHAKLLVFANKQDYS-G-ALTRSEVLKMLGLQKLKD 151 (182)
T ss_pred ccHHHHHHhcccceEEEEE-eccchhhhhhhHHHHHHHhccHhhcCceEEEEeccccch-h-hhhHHHHHHHhChHHHhh
Confidence 4678999999998855555 5554 33333332 2222222111457889999999986 2 2211111111 1122
Q ss_pred hCCcEEEecCCCCCCHHHHHHHHHHHHHH
Q 032001 83 YGIKFFETSAKTNLNVEQVFFSIARDIKQ 111 (149)
Q Consensus 83 ~~~~~~~~Sak~~~~i~el~~~l~~~i~~ 111 (149)
.-+.+|..||.+|+|+++.++||.+-+.+
T Consensus 152 r~~~Iv~tSA~kg~Gld~~~DWL~~~l~~ 180 (182)
T KOG0072|consen 152 RIWQIVKTSAVKGEGLDPAMDWLQRPLKS 180 (182)
T ss_pred heeEEEeeccccccCCcHHHHHHHHHHhc
Confidence 23679999999999999999999987744
No 189
>TIGR00475 selB selenocysteine-specific elongation factor SelB. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several elements: SelC is the tRNA itself, SelD acts as a donor of reduced selenium, SelA modifies a serine residue on SelC into selenocysteine, and SelB is a selenocysteine-specific translation elongation factor. 3-prime or 5-prime non-coding elements of mRNA have been found as probable structures for directing selenocysteine incorporation. This model describes the elongation factor SelB, a close homolog rf EF-Tu. It may function by replacing EF-Tu. A C-terminal domain not found in EF-Tu is in all SelB sequences in the seed alignment except that from Methanococcus jannaschii. This model does not find an equivalent protein for eukaryotes.
Probab=98.65 E-value=1.1e-07 Score=78.43 Aligned_cols=101 Identities=14% Similarity=0.095 Sum_probs=62.3
Q ss_pred cccccccchhhhhhcCeEEEEEeeCChhhHHHHHHHHHHHHHhcCCCCe-EEEEeeCCCCCcCCCCC--CHHHHHHHHHH
Q 032001 6 CLCFIGVYPPYLAVLCRFKYCTYKIASYHFSDIRNWIRNIEQHASDNVN-KVLVGNKADMDESKRAV--PTSKGQALADE 82 (149)
Q Consensus 6 ~~~~~~~~~~~~~~~~~~vi~v~~~~~~s~~~~~~~~~~i~~~~~~~~~-iilv~nK~Dl~~~~~~~--~~~~~~~~~~~ 82 (149)
-++|...+..++.+++. +++|+|.++.........+..+.. .++| +++|+||+|+. +.... ...+...+...
T Consensus 60 he~f~~~~~~g~~~aD~-aILVVDa~~G~~~qT~ehl~il~~---lgi~~iIVVlNK~Dlv-~~~~~~~~~~ei~~~l~~ 134 (581)
T TIGR00475 60 HEKFISNAIAGGGGIDA-ALLVVDADEGVMTQTGEHLAVLDL---LGIPHTIVVITKADRV-NEEEIKRTEMFMKQILNS 134 (581)
T ss_pred HHHHHHHHHhhhccCCE-EEEEEECCCCCcHHHHHHHHHHHH---cCCCeEEEEEECCCCC-CHHHHHHHHHHHHHHHHH
Confidence 35566666666666655 677778875111111122222222 2466 99999999997 32211 11233344443
Q ss_pred h----CCcEEEecCCCCCCHHHHHHHHHHHHHH
Q 032001 83 Y----GIKFFETSAKTNLNVEQVFFSIARDIKQ 111 (149)
Q Consensus 83 ~----~~~~~~~Sak~~~~i~el~~~l~~~i~~ 111 (149)
. +.+++++||++|.|+++++..+.+.+..
T Consensus 135 ~~~~~~~~ii~vSA~tG~GI~eL~~~L~~l~~~ 167 (581)
T TIGR00475 135 YIFLKNAKIFKTSAKTGQGIGELKKELKNLLES 167 (581)
T ss_pred hCCCCCCcEEEEeCCCCCCchhHHHHHHHHHHh
Confidence 3 4689999999999999999999876643
No 190
>PF02421 FeoB_N: Ferrous iron transport protein B; InterPro: IPR011619 Escherichia coli has an iron(II) transport system (feo) which may make an important contribution to the iron supply of the cell under anaerobic conditions. FeoB has been identified as part of this transport system and may play a role in the transport of ferrous iron. FeoB is a large 700-800 amino acid integral membrane protein. The N terminus contains a P-loop motif suggesting that iron transport may be ATP dependent [].; GO: 0005525 GTP binding, 0015093 ferrous iron transmembrane transporter activity, 0015684 ferrous iron transport, 0016021 integral to membrane; PDB: 3TAH_B 3B1X_A 3SS8_A 3B1W_C 3B1V_A 3LX5_A 3B1Y_A 3LX8_A 3B1Z_A 3K53_B ....
Probab=98.64 E-value=7.5e-08 Score=66.62 Aligned_cols=86 Identities=15% Similarity=0.174 Sum_probs=58.7
Q ss_pred chhhhh-hcCeEEEEEeeCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhCCcEEEec
Q 032001 13 YPPYLA-VLCRFKYCTYKIASYHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETS 91 (149)
Q Consensus 13 ~~~~~~-~~~~~vi~v~~~~~~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~S 91 (149)
+..|+. +-.|++++|.|.+. ++....+..++.+ .++|+|+|.||+|+. ...... .....+.+..+.|++.+|
T Consensus 70 ~~~~l~~~~~D~ii~VvDa~~--l~r~l~l~~ql~e---~g~P~vvvlN~~D~a-~~~g~~-id~~~Ls~~Lg~pvi~~s 142 (156)
T PF02421_consen 70 ARDYLLSEKPDLIIVVVDATN--LERNLYLTLQLLE---LGIPVVVVLNKMDEA-ERKGIE-IDAEKLSERLGVPVIPVS 142 (156)
T ss_dssp HHHHHHHTSSSEEEEEEEGGG--HHHHHHHHHHHHH---TTSSEEEEEETHHHH-HHTTEE-E-HHHHHHHHTS-EEEEB
T ss_pred HHHHHhhcCCCEEEEECCCCC--HHHHHHHHHHHHH---cCCCEEEEEeCHHHH-HHcCCE-ECHHHHHHHhCCCEEEEE
Confidence 344443 34577888888885 3333445555555 368999999999986 222221 134556777899999999
Q ss_pred CCCCCCHHHHHHHH
Q 032001 92 AKTNLNVEQVFFSI 105 (149)
Q Consensus 92 ak~~~~i~el~~~l 105 (149)
|+++.|++++++.+
T Consensus 143 a~~~~g~~~L~~~I 156 (156)
T PF02421_consen 143 ARTGEGIDELKDAI 156 (156)
T ss_dssp TTTTBTHHHHHHHH
T ss_pred eCCCcCHHHHHhhC
Confidence 99999999998865
No 191
>CHL00189 infB translation initiation factor 2; Provisional
Probab=98.63 E-value=1.8e-07 Score=78.62 Aligned_cols=95 Identities=17% Similarity=0.124 Sum_probs=61.8
Q ss_pred cccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHH-HH----
Q 032001 6 CLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQ-AL---- 79 (149)
Q Consensus 6 ~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~-~~---- 79 (149)
-+.|..++..++..++. +++|+|.++ ........|. .+.. .++|+|+++||+|+. ... ..... .+
T Consensus 305 he~F~~mr~rg~~~aDi-aILVVDA~dGv~~QT~E~I~-~~k~---~~iPiIVViNKiDl~-~~~---~e~v~~eL~~~~ 375 (742)
T CHL00189 305 HEAFSSMRSRGANVTDI-AILIIAADDGVKPQTIEAIN-YIQA---ANVPIIVAINKIDKA-NAN---TERIKQQLAKYN 375 (742)
T ss_pred HHHHHHHHHHHHHHCCE-EEEEEECcCCCChhhHHHHH-HHHh---cCceEEEEEECCCcc-ccC---HHHHHHHHHHhc
Confidence 35688888888877655 677778775 2223333332 2222 468999999999987 211 11111 11
Q ss_pred --HHHhC--CcEEEecCCCCCCHHHHHHHHHHHH
Q 032001 80 --ADEYG--IKFFETSAKTNLNVEQVFFSIARDI 109 (149)
Q Consensus 80 --~~~~~--~~~~~~Sak~~~~i~el~~~l~~~i 109 (149)
...++ ++++++||++|.|+++||++|....
T Consensus 376 ll~e~~g~~vpvv~VSAktG~GIdeLle~I~~l~ 409 (742)
T CHL00189 376 LIPEKWGGDTPMIPISASQGTNIDKLLETILLLA 409 (742)
T ss_pred cchHhhCCCceEEEEECCCCCCHHHHHHhhhhhh
Confidence 12233 5899999999999999999998653
No 192
>PRK00089 era GTPase Era; Reviewed
Probab=98.62 E-value=1.9e-07 Score=70.61 Aligned_cols=88 Identities=15% Similarity=0.095 Sum_probs=56.9
Q ss_pred cCeEEEEEeeCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhC-CcEEEecCCCCCCH
Q 032001 20 LCRFKYCTYKIASYHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYG-IKFFETSAKTNLNV 98 (149)
Q Consensus 20 ~~~~vi~v~~~~~~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~-~~~~~~Sak~~~~i 98 (149)
..+++++|+|.++ .+.....++...... .+.|+++|+||+|+. ............+....+ .+++.+||+++.|+
T Consensus 84 ~~D~il~vvd~~~-~~~~~~~~i~~~l~~--~~~pvilVlNKiDl~-~~~~~l~~~~~~l~~~~~~~~i~~iSA~~~~gv 159 (292)
T PRK00089 84 DVDLVLFVVDADE-KIGPGDEFILEKLKK--VKTPVILVLNKIDLV-KDKEELLPLLEELSELMDFAEIVPISALKGDNV 159 (292)
T ss_pred cCCEEEEEEeCCC-CCChhHHHHHHHHhh--cCCCEEEEEECCcCC-CCHHHHHHHHHHHHhhCCCCeEEEecCCCCCCH
Confidence 3455788888875 222333333322221 368999999999986 222222223334444444 57899999999999
Q ss_pred HHHHHHHHHHHHH
Q 032001 99 EQVFFSIARDIKQ 111 (149)
Q Consensus 99 ~el~~~l~~~i~~ 111 (149)
++++++|.+.+++
T Consensus 160 ~~L~~~L~~~l~~ 172 (292)
T PRK00089 160 DELLDVIAKYLPE 172 (292)
T ss_pred HHHHHHHHHhCCC
Confidence 9999999987754
No 193
>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=98.61 E-value=1.8e-07 Score=63.77 Aligned_cols=89 Identities=15% Similarity=0.103 Sum_probs=55.8
Q ss_pred hhhhhhcCeEEEEEeeCChhhHHHHHHH-HHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhC-CcEEEec
Q 032001 14 PPYLAVLCRFKYCTYKIASYHFSDIRNW-IRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYG-IKFFETS 91 (149)
Q Consensus 14 ~~~~~~~~~~vi~v~~~~~~s~~~~~~~-~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~-~~~~~~S 91 (149)
..++...+ ++++++|.... +.....| ...+.. .+.|+++|+||+|+. ............+....+ .+++.+|
T Consensus 77 ~~~~~~~d-~i~~v~d~~~~-~~~~~~~~~~~~~~---~~~~~iiv~nK~Dl~-~~~~~~~~~~~~~~~~~~~~~~~~~s 150 (168)
T cd04163 77 WSALKDVD-LVLFVVDASEP-IGEGDEFILELLKK---SKTPVILVLNKIDLV-KDKEDLLPLLEKLKELGPFAEIFPIS 150 (168)
T ss_pred HHHHHhCC-EEEEEEECCCc-cCchHHHHHHHHHH---hCCCEEEEEEchhcc-ccHHHHHHHHHHHHhccCCCceEEEE
Confidence 34455554 46777788752 2333333 333433 257999999999986 222222222333334443 5899999
Q ss_pred CCCCCCHHHHHHHHHHH
Q 032001 92 AKTNLNVEQVFFSIARD 108 (149)
Q Consensus 92 ak~~~~i~el~~~l~~~ 108 (149)
++++.+++++++.|.+.
T Consensus 151 ~~~~~~~~~l~~~l~~~ 167 (168)
T cd04163 151 ALKGENVDELLEEIVKY 167 (168)
T ss_pred eccCCChHHHHHHHHhh
Confidence 99999999999999764
No 194
>KOG1707 consensus Predicted Ras related/Rac-GTP binding protein [Defense mechanisms]
Probab=98.60 E-value=6.7e-08 Score=77.99 Aligned_cols=92 Identities=20% Similarity=0.279 Sum_probs=68.2
Q ss_pred cCeEEEEEeeCCh-hhHHHHH-HHHHHHHHhcC--CCCeEEEEeeCCCCCcCCCCCC-HHHHHHHHHHhC--CcEEEecC
Q 032001 20 LCRFKYCTYKIAS-YHFSDIR-NWIRNIEQHAS--DNVNKVLVGNKADMDESKRAVP-TSKGQALADEYG--IKFFETSA 92 (149)
Q Consensus 20 ~~~~vi~v~~~~~-~s~~~~~-~~~~~i~~~~~--~~~~iilv~nK~Dl~~~~~~~~-~~~~~~~~~~~~--~~~~~~Sa 92 (149)
.++++++||++++ .+.+.+. +|+..+++..+ .++|+|+||||.|+. .+.... +.....+...+. ...++|||
T Consensus 79 kA~vi~lvyavd~~~T~D~ist~WLPlir~~~~~~~~~PVILvGNK~d~~-~~~~~s~e~~~~pim~~f~EiEtciecSA 157 (625)
T KOG1707|consen 79 KADVICLVYAVDDESTVDRISTKWLPLIRQLFGDYHETPVILVGNKSDNG-DNENNSDEVNTLPIMIAFAEIETCIECSA 157 (625)
T ss_pred hcCEEEEEEecCChHHhhhhhhhhhhhhhcccCCCccCCEEEEeeccCCc-cccccchhHHHHHHHHHhHHHHHHHhhhh
Confidence 3466999999998 8999985 89999988654 689999999999987 322221 112223333332 24789999
Q ss_pred CCCCCHHHHHHHHHHHHHHH
Q 032001 93 KTNLNVEQVFFSIARDIKQR 112 (149)
Q Consensus 93 k~~~~i~el~~~l~~~i~~~ 112 (149)
++..++.|+|+...+.+...
T Consensus 158 ~~~~n~~e~fYyaqKaVihP 177 (625)
T KOG1707|consen 158 LTLANVSELFYYAQKAVIHP 177 (625)
T ss_pred hhhhhhHhhhhhhhheeecc
Confidence 99999999999988877554
No 195
>PRK05306 infB translation initiation factor IF-2; Validated
Probab=98.59 E-value=3.3e-07 Score=77.63 Aligned_cols=94 Identities=17% Similarity=0.124 Sum_probs=60.9
Q ss_pred ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHH-HH----
Q 032001 5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKG-QA---- 78 (149)
Q Consensus 5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~-~~---- 78 (149)
|-+.|..|+..++...+. +++|+|.++ ........|. .+.. .++|+|+++||+|+. ... .... ..
T Consensus 346 Ghe~F~~m~~rga~~aDi-aILVVdAddGv~~qT~e~i~-~a~~---~~vPiIVviNKiDl~-~a~---~e~V~~eL~~~ 416 (787)
T PRK05306 346 GHEAFTAMRARGAQVTDI-VVLVVAADDGVMPQTIEAIN-HAKA---AGVPIIVAINKIDKP-GAN---PDRVKQELSEY 416 (787)
T ss_pred CCccchhHHHhhhhhCCE-EEEEEECCCCCCHhHHHHHH-HHHh---cCCcEEEEEECcccc-ccC---HHHHHHHHHHh
Confidence 345788888877665544 677778875 2223333332 2222 468999999999996 211 1111 11
Q ss_pred --HHHHhC--CcEEEecCCCCCCHHHHHHHHHH
Q 032001 79 --LADEYG--IKFFETSAKTNLNVEQVFFSIAR 107 (149)
Q Consensus 79 --~~~~~~--~~~~~~Sak~~~~i~el~~~l~~ 107 (149)
+...++ ++++++||++|.|++++|++|..
T Consensus 417 ~~~~e~~g~~vp~vpvSAktG~GI~eLle~I~~ 449 (787)
T PRK05306 417 GLVPEEWGGDTIFVPVSAKTGEGIDELLEAILL 449 (787)
T ss_pred cccHHHhCCCceEEEEeCCCCCCchHHHHhhhh
Confidence 122233 68999999999999999999875
No 196
>PRK00454 engB GTP-binding protein YsxC; Reviewed
Probab=98.59 E-value=1.7e-07 Score=66.44 Aligned_cols=99 Identities=13% Similarity=-0.011 Sum_probs=60.3
Q ss_pred ccccccchhhhhhcC--eEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCC--HHHHHHHHH
Q 032001 7 LCFIGVYPPYLAVLC--RFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVP--TSKGQALAD 81 (149)
Q Consensus 7 ~~~~~~~~~~~~~~~--~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~--~~~~~~~~~ 81 (149)
++|..+...|++..+ +++++++|.+. .+... ..+...+.. .++|+++++||+|+. ...... .........
T Consensus 91 ~~~~~~~~~~~~~~~~~~~~~~v~d~~~~~~~~~-~~i~~~l~~---~~~~~iiv~nK~Dl~-~~~~~~~~~~~i~~~l~ 165 (196)
T PRK00454 91 EKWQKLIEEYLRTRENLKGVVLLIDSRHPLKELD-LQMIEWLKE---YGIPVLIVLTKADKL-KKGERKKQLKKVRKALK 165 (196)
T ss_pred HHHHHHHHHHHHhCccceEEEEEEecCCCCCHHH-HHHHHHHHH---cCCcEEEEEECcccC-CHHHHHHHHHHHHHHHH
Confidence 455566677777654 34566666654 22221 112222222 358899999999986 321111 111223333
Q ss_pred HhCCcEEEecCCCCCCHHHHHHHHHHHHH
Q 032001 82 EYGIKFFETSAKTNLNVEQVFFSIARDIK 110 (149)
Q Consensus 82 ~~~~~~~~~Sak~~~~i~el~~~l~~~i~ 110 (149)
....+++++||+++.|++++++.|.+.+.
T Consensus 166 ~~~~~~~~~Sa~~~~gi~~l~~~i~~~~~ 194 (196)
T PRK00454 166 FGDDEVILFSSLKKQGIDELRAAIAKWLA 194 (196)
T ss_pred hcCCceEEEEcCCCCCHHHHHHHHHHHhc
Confidence 33578999999999999999999987663
No 197
>KOG1489 consensus Predicted GTP-binding protein (ODN superfamily) [General function prediction only]
Probab=98.58 E-value=3.6e-07 Score=69.28 Aligned_cols=96 Identities=14% Similarity=0.139 Sum_probs=66.1
Q ss_pred ccccccccchhhhhhcCeEEEEEeeCCh----hhHHHHHHHHHHHHHhcC--CCCeEEEEeeCCCCCcCCCCCCHHHHHH
Q 032001 5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS----YHFSDIRNWIRNIEQHAS--DNVNKVLVGNKADMDESKRAVPTSKGQA 78 (149)
Q Consensus 5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~----~s~~~~~~~~~~i~~~~~--~~~~iilv~nK~Dl~~~~~~~~~~~~~~ 78 (149)
.+++|.++++.... .++++|.|+.. +.+++++.++.|+..+.. .+.|.++|+||+|++ +.. ...+..
T Consensus 262 kGlG~~FLrHiER~---~~l~fVvD~s~~~~~~p~~~~~lL~~ELe~yek~L~~rp~liVaNKiD~~-eae---~~~l~~ 334 (366)
T KOG1489|consen 262 KGLGYKFLRHIERC---KGLLFVVDLSGKQLRNPWQQLQLLIEELELYEKGLADRPALIVANKIDLP-EAE---KNLLSS 334 (366)
T ss_pred CcccHHHHHHHHhh---ceEEEEEECCCcccCCHHHHHHHHHHHHHHHhhhhccCceEEEEeccCch-hHH---HHHHHH
Confidence 35666677665533 33667777763 577888888888766543 678999999999986 211 122345
Q ss_pred HHHHhCC-cEEEecCCCCCCHHHHHHHHHH
Q 032001 79 LADEYGI-KFFETSAKTNLNVEQVFFSIAR 107 (149)
Q Consensus 79 ~~~~~~~-~~~~~Sak~~~~i~el~~~l~~ 107 (149)
+++...- .++.+||+++++++++++.|-+
T Consensus 335 L~~~lq~~~V~pvsA~~~egl~~ll~~lr~ 364 (366)
T KOG1489|consen 335 LAKRLQNPHVVPVSAKSGEGLEELLNGLRE 364 (366)
T ss_pred HHHHcCCCcEEEeeeccccchHHHHHHHhh
Confidence 5555433 4899999999999999887754
No 198
>PRK00093 GTP-binding protein Der; Reviewed
Probab=98.56 E-value=6.4e-07 Score=71.37 Aligned_cols=88 Identities=14% Similarity=0.030 Sum_probs=56.0
Q ss_pred hhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHH----hCCcEEEe
Q 032001 16 YLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADE----YGIKFFET 90 (149)
Q Consensus 16 ~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~----~~~~~~~~ 90 (149)
++..+ +++++|+|.+. .+..+. .+...+.. .+.|+++|+||+|+. +... .......+... ...+++++
T Consensus 252 ~~~~a-d~~ilViD~~~~~~~~~~-~i~~~~~~---~~~~~ivv~NK~Dl~-~~~~-~~~~~~~~~~~l~~~~~~~i~~~ 324 (435)
T PRK00093 252 AIERA-DVVLLVIDATEGITEQDL-RIAGLALE---AGRALVIVVNKWDLV-DEKT-MEEFKKELRRRLPFLDYAPIVFI 324 (435)
T ss_pred HHHHC-CEEEEEEeCCCCCCHHHH-HHHHHHHH---cCCcEEEEEECccCC-CHHH-HHHHHHHHHHhcccccCCCEEEE
Confidence 34444 55788889886 444443 34444443 358999999999986 2111 11111112111 24689999
Q ss_pred cCCCCCCHHHHHHHHHHHHH
Q 032001 91 SAKTNLNVEQVFFSIARDIK 110 (149)
Q Consensus 91 Sak~~~~i~el~~~l~~~i~ 110 (149)
||++|.|++++++.+.+...
T Consensus 325 SA~~~~gv~~l~~~i~~~~~ 344 (435)
T PRK00093 325 SALTGQGVDKLLEAIDEAYE 344 (435)
T ss_pred eCCCCCCHHHHHHHHHHHHH
Confidence 99999999999999887554
No 199
>COG2262 HflX GTPases [General function prediction only]
Probab=98.56 E-value=1.1e-06 Score=68.64 Aligned_cols=87 Identities=14% Similarity=0.025 Sum_probs=59.6
Q ss_pred cCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhCCcEEEecCCCCCCH
Q 032001 20 LCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKTNLNV 98 (149)
Q Consensus 20 ~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~Sak~~~~i 98 (149)
-+|++++|.|.++ .....+..-.+-+.+....++|+|+|.||+|+. .... .........+ ..+.+||++|.|+
T Consensus 271 ~aDlllhVVDaSdp~~~~~~~~v~~vL~el~~~~~p~i~v~NKiD~~-~~~~----~~~~~~~~~~-~~v~iSA~~~~gl 344 (411)
T COG2262 271 EADLLLHVVDASDPEILEKLEAVEDVLAEIGADEIPIILVLNKIDLL-EDEE----ILAELERGSP-NPVFISAKTGEGL 344 (411)
T ss_pred cCCEEEEEeecCChhHHHHHHHHHHHHHHcCCCCCCEEEEEeccccc-Cchh----hhhhhhhcCC-CeEEEEeccCcCH
Confidence 4577899999986 444555555555554434679999999999976 2211 1111111112 5899999999999
Q ss_pred HHHHHHHHHHHHHH
Q 032001 99 EQVFFSIARDIKQR 112 (149)
Q Consensus 99 ~el~~~l~~~i~~~ 112 (149)
+.|+..|.+.+...
T Consensus 345 ~~L~~~i~~~l~~~ 358 (411)
T COG2262 345 DLLRERIIELLSGL 358 (411)
T ss_pred HHHHHHHHHHhhhc
Confidence 99999999988754
No 200
>PRK09518 bifunctional cytidylate kinase/GTPase Der; Reviewed
Probab=98.52 E-value=4.9e-07 Score=76.27 Aligned_cols=87 Identities=13% Similarity=0.095 Sum_probs=57.1
Q ss_pred hhhhhhcCeEEEEEeeCChhhHHHH-HHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhCC-cEEEec
Q 032001 14 PPYLAVLCRFKYCTYKIASYHFSDI-RNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGI-KFFETS 91 (149)
Q Consensus 14 ~~~~~~~~~~vi~v~~~~~~s~~~~-~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~-~~~~~S 91 (149)
..++..+ +++++|+|... .+... ..|...++. .++|+++|+||+|+. ... .....+. ..+. ..+++|
T Consensus 349 ~~~~~~a-D~iL~VvDa~~-~~~~~d~~i~~~Lr~---~~~pvIlV~NK~D~~-~~~----~~~~~~~-~lg~~~~~~iS 417 (712)
T PRK09518 349 QIAVSLA-DAVVFVVDGQV-GLTSTDERIVRMLRR---AGKPVVLAVNKIDDQ-ASE----YDAAEFW-KLGLGEPYPIS 417 (712)
T ss_pred HHHHHhC-CEEEEEEECCC-CCCHHHHHHHHHHHh---cCCCEEEEEECcccc-cch----hhHHHHH-HcCCCCeEEEE
Confidence 3445555 55788888874 12222 345555554 468999999999986 211 1112221 1232 467999
Q ss_pred CCCCCCHHHHHHHHHHHHHH
Q 032001 92 AKTNLNVEQVFFSIARDIKQ 111 (149)
Q Consensus 92 ak~~~~i~el~~~l~~~i~~ 111 (149)
|++|.|++++|+++++.+.+
T Consensus 418 A~~g~GI~eLl~~i~~~l~~ 437 (712)
T PRK09518 418 AMHGRGVGDLLDEALDSLKV 437 (712)
T ss_pred CCCCCCchHHHHHHHHhccc
Confidence 99999999999999988754
No 201
>COG0481 LepA Membrane GTPase LepA [Cell envelope biogenesis, outer membrane]
Probab=98.52 E-value=9.9e-07 Score=70.15 Aligned_cols=92 Identities=25% Similarity=0.236 Sum_probs=63.8
Q ss_pred hhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhCC---cEEE
Q 032001 14 PPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGI---KFFE 89 (149)
Q Consensus 14 ~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~---~~~~ 89 (149)
...++.+.+++++ +|.+. ---..+.+.+.-+. .+..+|.|.||+||+ . ...+....+...-.|+ ..+.
T Consensus 94 SRSLAACEGalLv-VDAsQGveAQTlAN~YlAle----~~LeIiPViNKIDLP-~--Adpervk~eIe~~iGid~~dav~ 165 (603)
T COG0481 94 SRSLAACEGALLV-VDASQGVEAQTLANVYLALE----NNLEIIPVLNKIDLP-A--ADPERVKQEIEDIIGIDASDAVL 165 (603)
T ss_pred hhhHhhCCCcEEE-EECccchHHHHHHHHHHHHH----cCcEEEEeeecccCC-C--CCHHHHHHHHHHHhCCCcchhee
Confidence 3456667786554 47764 33445555555554 467899999999998 2 2223344445555664 4789
Q ss_pred ecCCCCCCHHHHHHHHHHHHHHHh
Q 032001 90 TSAKTNLNVEQVFFSIARDIKQRL 113 (149)
Q Consensus 90 ~Sak~~~~i~el~~~l~~~i~~~~ 113 (149)
+|||+|.||+++++.+++.++...
T Consensus 166 ~SAKtG~gI~~iLe~Iv~~iP~P~ 189 (603)
T COG0481 166 VSAKTGIGIEDVLEAIVEKIPPPK 189 (603)
T ss_pred EecccCCCHHHHHHHHHhhCCCCC
Confidence 999999999999999999987664
No 202
>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=98.51 E-value=5.8e-07 Score=61.93 Aligned_cols=82 Identities=18% Similarity=0.116 Sum_probs=51.3
Q ss_pred eEEEEEeeCCh-hhHHHHHHHHH--HHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhCCcEEEecCCCCCCH
Q 032001 22 RFKYCTYKIAS-YHFSDIRNWIR--NIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKTNLNV 98 (149)
Q Consensus 22 ~~vi~v~~~~~-~s~~~~~~~~~--~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~Sak~~~~i 98 (149)
|++++|+|..+ .+.. ..|+. .+.. .++|+++|.||+|+. +...+ ......+....+..++.+||+++.|+
T Consensus 1 Dvvl~VvD~~~p~~~~--~~~i~~~~~~~---~~~p~IiVlNK~Dl~-~~~~~-~~~~~~~~~~~~~~ii~vSa~~~~gi 73 (155)
T cd01849 1 DVILEVLDARDPLGTR--SPDIERVLIKE---KGKKLILVLNKADLV-PKEVL-RKWLAYLRHSYPTIPFKISATNGQGI 73 (155)
T ss_pred CEEEEEEeccCCcccc--CHHHHHHHHhc---CCCCEEEEEechhcC-CHHHH-HHHHHHHHhhCCceEEEEeccCCcCh
Confidence 46788888864 3222 23443 2222 468999999999996 21110 01111222233457899999999999
Q ss_pred HHHHHHHHHHHH
Q 032001 99 EQVFFSIARDIK 110 (149)
Q Consensus 99 ~el~~~l~~~i~ 110 (149)
+++++.+.+...
T Consensus 74 ~~L~~~i~~~~~ 85 (155)
T cd01849 74 EKKESAFTKQTN 85 (155)
T ss_pred hhHHHHHHHHhH
Confidence 999999876543
No 203
>TIGR01394 TypA_BipA GTP-binding protein TypA/BipA. This bacterial (and Arabidopsis) protein, termed TypA or BipA, a GTP-binding protein, is phosphorylated on a tyrosine residue under some cellular conditions. Mutants show altered regulation of some pathways, but the precise function is unknown.
Probab=98.50 E-value=3.2e-07 Score=75.78 Aligned_cols=101 Identities=16% Similarity=0.123 Sum_probs=67.8
Q ss_pred ccccccchhhhhhcCeEEEEEeeCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCC-CHHHHHHHHH----
Q 032001 7 LCFIGVYPPYLAVLCRFKYCTYKIASYHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAV-PTSKGQALAD---- 81 (149)
Q Consensus 7 ~~~~~~~~~~~~~~~~~vi~v~~~~~~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~-~~~~~~~~~~---- 81 (149)
..|...+..+++.++. +++|+|...........|+..+.. .++|+++|+||+|+. ..+.. ...+...+..
T Consensus 75 ~DF~~ev~~~l~~aD~-alLVVDa~~G~~~qT~~~l~~a~~---~~ip~IVviNKiD~~-~a~~~~v~~ei~~l~~~~g~ 149 (594)
T TIGR01394 75 ADFGGEVERVLGMVDG-VLLLVDASEGPMPQTRFVLKKALE---LGLKPIVVINKIDRP-SARPDEVVDEVFDLFAELGA 149 (594)
T ss_pred HHHHHHHHHHHHhCCE-EEEEEeCCCCCcHHHHHHHHHHHH---CCCCEEEEEECCCCC-CcCHHHHHHHHHHHHHhhcc
Confidence 4566677778888776 566667765335666777777765 458999999999986 22210 1122222221
Q ss_pred ---HhCCcEEEecCCCCC----------CHHHHHHHHHHHHHHH
Q 032001 82 ---EYGIKFFETSAKTNL----------NVEQVFFSIARDIKQR 112 (149)
Q Consensus 82 ---~~~~~~~~~Sak~~~----------~i~el~~~l~~~i~~~ 112 (149)
...++++.+||++|. |+..+|+.+++.++..
T Consensus 150 ~~e~l~~pvl~~SA~~g~~~~~~~~~~~gi~~Lld~Iv~~lP~P 193 (594)
T TIGR01394 150 DDEQLDFPIVYASGRAGWASLDLDDPSDNMAPLFDAIVRHVPAP 193 (594)
T ss_pred ccccccCcEEechhhcCcccccCcccccCHHHHHHHHHHhCCCC
Confidence 124689999999995 7999999999887644
No 204
>TIGR00491 aIF-2 translation initiation factor aIF-2/yIF-2. This model describes archaeal and eukaryotic orthologs of bacterial IF-2. Like IF-2, it helps convey the initiator tRNA to the ribosome, although the initiator is N-formyl-Met in bacteria and Met here. This protein is not closely related to the subunits of eIF-2 of eukaryotes, which is also involved in the initiation of translation. The aIF-2 of Methanococcus jannaschii contains a large intein interrupting a region of very strongly conserved sequence very near the amino end; this model does not correctly align the sequences from Methanococcus jannaschii and Pyrococcus horikoshii in this region.
Probab=98.48 E-value=9.9e-07 Score=72.80 Aligned_cols=97 Identities=14% Similarity=0.052 Sum_probs=60.3
Q ss_pred cccccccchhhhhhcCeEEEEEeeCCh----hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCC---CCH-----
Q 032001 6 CLCFIGVYPPYLAVLCRFKYCTYKIAS----YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRA---VPT----- 73 (149)
Q Consensus 6 ~~~~~~~~~~~~~~~~~~vi~v~~~~~----~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~---~~~----- 73 (149)
-+.|..++..+++.++. +++|+|.++ .+++.+.. +.. .++|+++++||+|+...... ...
T Consensus 79 ~e~f~~l~~~~~~~aD~-~IlVvD~~~g~~~qt~e~i~~----l~~---~~vpiIVv~NK~Dl~~~~~~~~~~~f~e~sa 150 (590)
T TIGR00491 79 HEAFTNLRKRGGALADL-AILIVDINEGFKPQTQEALNI----LRM---YKTPFVVAANKIDRIPGWRSHEGRPFMESFS 150 (590)
T ss_pred cHhHHHHHHHHHhhCCE-EEEEEECCcCCCHhHHHHHHH----HHH---cCCCEEEEEECCCccchhhhccCchHHHHHH
Confidence 35678888888876655 778888874 33433322 222 36899999999998621110 000
Q ss_pred ---H------------HHHHHHH------------Hh--CCcEEEecCCCCCCHHHHHHHHHHHHH
Q 032001 74 ---S------------KGQALAD------------EY--GIKFFETSAKTNLNVEQVFFSIARDIK 110 (149)
Q Consensus 74 ---~------------~~~~~~~------------~~--~~~~~~~Sak~~~~i~el~~~l~~~i~ 110 (149)
. ...++.+ .+ ..+++++||++|+|+++|+.++.....
T Consensus 151 k~~~~v~~~~~~~~~~lv~~l~~~G~~~e~~~~i~~~~~~v~iVpVSA~tGeGideLl~~l~~l~~ 216 (590)
T TIGR00491 151 KQEIQVQQNLDTKVYNLVIKLHEEGFEAERFDRVTDFTKTVAIIPISAITGEGIPELLTMLAGLAQ 216 (590)
T ss_pred hhhHHHHHHHHHHHHHHHHHHHhcCccHHhhhhhhhcCCCceEEEeecCCCCChhHHHHHHHHHHH
Confidence 0 0001111 11 258999999999999999998875443
No 205
>PF08477 Miro: Miro-like protein; InterPro: IPR013684 Mitochondrial Rho proteins (Miro-1, Q8IXI2 from SWISSPROT and Miro-2, Q8IXI1 from SWISSPROT) are atypical Rho GTPases. They have a unique domain organisation, with tandem GTP-binding domains and two EF hand domains (IPR002048 from INTERPRO), that may bind calcium. They are also larger than classical small GTPases. It has been proposed that they are involved in mitochondrial homeostasis and apoptosis []. ; GO: 0005525 GTP binding, 0007264 small GTPase mediated signal transduction, 0005622 intracellular; PDB: 2IWR_A 2BMJ_A 3IHW_A 2ZEJ_A 3D6T_B 3DPU_A.
Probab=98.46 E-value=9e-07 Score=57.80 Aligned_cols=55 Identities=24% Similarity=0.419 Sum_probs=38.1
Q ss_pred ccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHH---HHHHHHHhcCCCCeEEEEeeCCC
Q 032001 7 LCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRN---WIRNIEQHASDNVNKVLVGNKAD 63 (149)
Q Consensus 7 ~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~---~~~~i~~~~~~~~~iilv~nK~D 63 (149)
+.+...+...+... +++++|||.++ .+|+.+.. |+..+.... .++|+++|+||.|
T Consensus 61 ~~~~~~~~~~~~~~-d~~ilv~D~s~~~s~~~~~~~~~~l~~~~~~~-~~~piilv~nK~D 119 (119)
T PF08477_consen 61 EEFYSQHQFFLKKA-DAVILVYDLSDPESLEYLSQLLKWLKNIRKRD-KNIPIILVGNKSD 119 (119)
T ss_dssp HCHHCTSHHHHHHS-CEEEEEEECCGHHHHHHHHHHHHHHHHHHHHS-SCSEEEEEEE-TC
T ss_pred ceecccccchhhcC-cEEEEEEcCCChHHHHHHHHHHHHHHHHHccC-CCCCEEEEEeccC
Confidence 34555555555554 55899999998 88988754 555555433 5699999999998
No 206
>COG1162 Predicted GTPases [General function prediction only]
Probab=98.45 E-value=2e-06 Score=65.12 Aligned_cols=100 Identities=15% Similarity=0.081 Sum_probs=73.0
Q ss_pred ccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhCC
Q 032001 7 LCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGI 85 (149)
Q Consensus 7 ~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~ 85 (149)
+|-..+..+-..+.++++|+|..+++ -+...+++++--+.. .++.-|++.||+||. +.......+........+.
T Consensus 67 ~Rkn~L~Rp~v~n~d~~iiIvs~~~P~~~~~~ldR~Lv~ae~---~gi~pvIvlnK~DL~-~~~~~~~~~~~~~y~~~gy 142 (301)
T COG1162 67 PRKNVLIRPPVANNDQAIIVVSLVDPDFNTNLLDRYLVLAEA---GGIEPVIVLNKIDLL-DDEEAAVKELLREYEDIGY 142 (301)
T ss_pred cccCceeCCcccccceEEEEEeccCCCCCHHHHHHHHHHHHH---cCCcEEEEEEccccC-cchHHHHHHHHHHHHhCCe
Confidence 34555666667778888888877887 678888888777665 457778889999998 3222111234445566788
Q ss_pred cEEEecCCCCCCHHHHHHHHHHHHH
Q 032001 86 KFFETSAKTNLNVEQVFFSIARDIK 110 (149)
Q Consensus 86 ~~~~~Sak~~~~i~el~~~l~~~i~ 110 (149)
+++.+|++++.+++++...+...+.
T Consensus 143 ~v~~~s~~~~~~~~~l~~~l~~~~s 167 (301)
T COG1162 143 PVLFVSAKNGDGLEELAELLAGKIT 167 (301)
T ss_pred eEEEecCcCcccHHHHHHHhcCCeE
Confidence 9999999999999998888876543
No 207
>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=98.43 E-value=8.5e-07 Score=61.19 Aligned_cols=86 Identities=10% Similarity=0.048 Sum_probs=50.1
Q ss_pred CeEEEEEeeCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhCCcEEEecCCCCCCHHH
Q 032001 21 CRFKYCTYKIASYHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKTNLNVEQ 100 (149)
Q Consensus 21 ~~~vi~v~~~~~~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~Sak~~~~i~e 100 (149)
.|++++|.|...........+...+.. ...+.|+++|.||+|+. +... .......+.+.+....+.+||+.+.|+++
T Consensus 9 aD~il~VvD~~~p~~~~~~~i~~~l~~-~~~~~p~ilVlNKiDl~-~~~~-~~~~~~~~~~~~~~~~~~iSa~~~~~~~~ 85 (157)
T cd01858 9 SDVVIQVLDARDPMGTRCKHVEEYLKK-EKPHKHLIFVLNKCDLV-PTWV-TARWVKILSKEYPTIAFHASINNPFGKGS 85 (157)
T ss_pred CCEEEEEEECCCCccccCHHHHHHHHh-ccCCCCEEEEEEchhcC-CHHH-HHHHHHHHhcCCcEEEEEeeccccccHHH
Confidence 456788888874211222233333322 22458999999999996 2211 01112222222222357899999999999
Q ss_pred HHHHHHHHH
Q 032001 101 VFFSIARDI 109 (149)
Q Consensus 101 l~~~l~~~i 109 (149)
+++.+.+..
T Consensus 86 L~~~l~~~~ 94 (157)
T cd01858 86 LIQLLRQFS 94 (157)
T ss_pred HHHHHHHHH
Confidence 999997754
No 208
>COG0536 Obg Predicted GTPase [General function prediction only]
Probab=98.43 E-value=1.4e-06 Score=66.64 Aligned_cols=102 Identities=16% Similarity=0.144 Sum_probs=67.6
Q ss_pred cccccchhhhhhcCeEEEEEeeCCh-h---hHHHHHHHHHHHHHhcC--CCCeEEEEeeCCCCCcCCCCCCHHHHHHHHH
Q 032001 8 CFIGVYPPYLAVLCRFKYCTYKIAS-Y---HFSDIRNWIRNIEQHAS--DNVNKVLVGNKADMDESKRAVPTSKGQALAD 81 (149)
Q Consensus 8 ~~~~~~~~~~~~~~~~vi~v~~~~~-~---s~~~~~~~~~~i~~~~~--~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~ 81 (149)
+.+++++.- +. .++++|.|+++ + ..++...+..++..+.. .+.|.++|+||+|++ ...+........+.+
T Consensus 228 G~~FLrHIE--Rt-~vL~hviD~s~~~~~dp~~~~~~i~~EL~~Y~~~L~~K~~ivv~NKiD~~-~~~e~~~~~~~~l~~ 303 (369)
T COG0536 228 GLRFLRHIE--RT-RVLLHVIDLSPIDGRDPIEDYQTIRNELEKYSPKLAEKPRIVVLNKIDLP-LDEEELEELKKALAE 303 (369)
T ss_pred cHHHHHHHH--hh-heeEEEEecCcccCCCHHHHHHHHHHHHHHhhHHhccCceEEEEeccCCC-cCHHHHHHHHHHHHH
Confidence 344444443 23 33677778874 3 57778888888888754 678999999999976 222211222333444
Q ss_pred HhCCcEEE-ecCCCCCCHHHHHHHHHHHHHHHh
Q 032001 82 EYGIKFFE-TSAKTNLNVEQVFFSIARDIKQRL 113 (149)
Q Consensus 82 ~~~~~~~~-~Sak~~~~i~el~~~l~~~i~~~~ 113 (149)
..+...+. +||.++.|++++...+.+.+.+..
T Consensus 304 ~~~~~~~~~ISa~t~~g~~~L~~~~~~~l~~~~ 336 (369)
T COG0536 304 ALGWEVFYLISALTREGLDELLRALAELLEETK 336 (369)
T ss_pred hcCCCcceeeehhcccCHHHHHHHHHHHHHHhh
Confidence 44543332 999999999999999998887663
No 209
>KOG0462 consensus Elongation factor-type GTP-binding protein [Translation, ribosomal structure and biogenesis]
Probab=98.43 E-value=9.8e-07 Score=71.08 Aligned_cols=92 Identities=23% Similarity=0.223 Sum_probs=61.5
Q ss_pred hhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhC---CcEEE
Q 032001 14 PPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYG---IKFFE 89 (149)
Q Consensus 14 ~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~---~~~~~ 89 (149)
...+..++++ ++|+|... .--.....++.-+.. +..+|.|.||+|++ .. ..+....+..+.++ .+.+.
T Consensus 143 sRslaac~G~-lLvVDA~qGvqAQT~anf~lAfe~----~L~iIpVlNKIDlp-~a--dpe~V~~q~~~lF~~~~~~~i~ 214 (650)
T KOG0462|consen 143 SRSLAACDGA-LLVVDASQGVQAQTVANFYLAFEA----GLAIIPVLNKIDLP-SA--DPERVENQLFELFDIPPAEVIY 214 (650)
T ss_pred hehhhhcCce-EEEEEcCcCchHHHHHHHHHHHHc----CCeEEEeeeccCCC-CC--CHHHHHHHHHHHhcCCccceEE
Confidence 3455667774 55557765 333444455444443 57899999999998 22 22333334444444 47899
Q ss_pred ecCCCCCCHHHHHHHHHHHHHHHh
Q 032001 90 TSAKTNLNVEQVFFSIARDIKQRL 113 (149)
Q Consensus 90 ~Sak~~~~i~el~~~l~~~i~~~~ 113 (149)
+|||+|-|++++++.+++.++...
T Consensus 215 vSAK~G~~v~~lL~AII~rVPpP~ 238 (650)
T KOG0462|consen 215 VSAKTGLNVEELLEAIIRRVPPPK 238 (650)
T ss_pred EEeccCccHHHHHHHHHhhCCCCC
Confidence 999999999999999999886553
No 210
>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=98.40 E-value=1.3e-06 Score=69.38 Aligned_cols=89 Identities=13% Similarity=0.100 Sum_probs=57.9
Q ss_pred cccchhhhhhcCeEEEEEeeCCh-hhHH--HHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhCC-
Q 032001 10 IGVYPPYLAVLCRFKYCTYKIAS-YHFS--DIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGI- 85 (149)
Q Consensus 10 ~~~~~~~~~~~~~~vi~v~~~~~-~s~~--~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~- 85 (149)
...+..++..++ ++++|+|... .+.. .+..|+ ++ .++|+++|+||+|+. .... .... ....+.
T Consensus 69 ~~~~~~~~~~ad-~vl~vvD~~~~~~~~d~~i~~~l---~~---~~~piilVvNK~D~~-~~~~----~~~~-~~~lg~~ 135 (429)
T TIGR03594 69 REQAEIAIEEAD-VILFVVDGREGLTPEDEEIAKWL---RK---SGKPVILVANKIDGK-KEDA----VAAE-FYSLGFG 135 (429)
T ss_pred HHHHHHHHhhCC-EEEEEEeCCCCCCHHHHHHHHHH---HH---hCCCEEEEEECccCC-cccc----cHHH-HHhcCCC
Confidence 334445556654 4777778764 2222 233343 33 358999999999986 2221 1111 234565
Q ss_pred cEEEecCCCCCCHHHHHHHHHHHHHH
Q 032001 86 KFFETSAKTNLNVEQVFFSIARDIKQ 111 (149)
Q Consensus 86 ~~~~~Sak~~~~i~el~~~l~~~i~~ 111 (149)
+++.+||++|.|+.++++.+.+.+.+
T Consensus 136 ~~~~vSa~~g~gv~~ll~~i~~~l~~ 161 (429)
T TIGR03594 136 EPIPISAEHGRGIGDLLDAILELLPE 161 (429)
T ss_pred CeEEEeCCcCCChHHHHHHHHHhcCc
Confidence 79999999999999999999987754
No 211
>PF10662 PduV-EutP: Ethanolamine utilisation - propanediol utilisation; InterPro: IPR012381 Members of this family function in ethanolamine [] and propanediol [] degradation pathways. Both pathways require coenzyme B12 (adenosylcobalamin, AdoCbl). Bacteria that harbour these pathways can use ethanolamine as a source of carbon and nitrogen, or propanediol as a sole carbon and energy source, respectively. The exact roles of the EutP and PduV proteins in these respective pathways are not yet determined. Members of this family contain P-loop consensus motifs in the N-terminal part, and are distantly related to various GTPases and ATPases, including ATPase components of transport systems. Propanediol degradation is thought to be important for the natural Salmonella populations, since propanediol is produced by the fermentation of the common plant sugars rhamnose and fucose [, ]. More than 1% of the Salmonella enterica genome is devoted to the utilisation of propanediol and cobalamin biosynthesis. In vivo expression technology has indicated that propanediol utilisation (pdu) genes may be important for growth in host tissues, and competitive index studies with mice have shown that pdu mutations confer a virulence defect [, ]. The pdu operon is contiguous and co-regulated with the cobalamin (B12) biosynthesis cob operon, indicating that propanediol catabolism may be the primary reason for de novo B12 synthesis in Salmonella [, , ]. Please see IPR003207 from INTERPRO, IPR003208 from INTERPRO, IPR009204 from INTERPRO, IPR009191 from INTERPRO, IPR009192 from INTERPRO for more details on the propanediol utilisation pathway and the pdu operon.; GO: 0005524 ATP binding, 0006576 cellular biogenic amine metabolic process
Probab=98.40 E-value=7.8e-07 Score=60.57 Aligned_cols=53 Identities=23% Similarity=0.241 Sum_probs=42.6
Q ss_pred CCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhCC-cEEEecCCCCCCHHHHHHHHH
Q 032001 52 NVNKVLVGNKADMDESKRAVPTSKGQALADEYGI-KFFETSAKTNLNVEQVFFSIA 106 (149)
Q Consensus 52 ~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~-~~~~~Sak~~~~i~el~~~l~ 106 (149)
+.|+|-|.||+|+. . .....+.+..+++..|. .+|++|+.+|+|+++|+++|.
T Consensus 89 ~~pvIGVITK~Dl~-~-~~~~i~~a~~~L~~aG~~~if~vS~~~~eGi~eL~~~L~ 142 (143)
T PF10662_consen 89 NKPVIGVITKIDLP-S-DDANIERAKKWLKNAGVKEIFEVSAVTGEGIEELKDYLE 142 (143)
T ss_pred CCCEEEEEECccCc-c-chhhHHHHHHHHHHcCCCCeEEEECCCCcCHHHHHHHHh
Confidence 46999999999997 2 22334566778888886 689999999999999998874
No 212
>PRK10218 GTP-binding protein; Provisional
Probab=98.39 E-value=1.8e-06 Score=71.54 Aligned_cols=102 Identities=12% Similarity=0.066 Sum_probs=64.9
Q ss_pred cccccccchhhhhhcCeEEEEEeeCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCC-CCHHHHHHHHH---
Q 032001 6 CLCFIGVYPPYLAVLCRFKYCTYKIASYHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRA-VPTSKGQALAD--- 81 (149)
Q Consensus 6 ~~~~~~~~~~~~~~~~~~vi~v~~~~~~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~-~~~~~~~~~~~--- 81 (149)
-..|...+..+++.++. +++|+|..+........++..+.. .++|.++++||+|+. ..+. ....+...+..
T Consensus 78 ~~df~~~v~~~l~~aDg-~ILVVDa~~G~~~qt~~~l~~a~~---~gip~IVviNKiD~~-~a~~~~vl~ei~~l~~~l~ 152 (607)
T PRK10218 78 HADFGGEVERVMSMVDS-VLLVVDAFDGPMPQTRFVTKKAFA---YGLKPIVVINKVDRP-GARPDWVVDQVFDLFVNLD 152 (607)
T ss_pred cchhHHHHHHHHHhCCE-EEEEEecccCccHHHHHHHHHHHH---cCCCEEEEEECcCCC-CCchhHHHHHHHHHHhccC
Confidence 35677788888888877 566778775222344444444444 357889999999986 2211 11112222211
Q ss_pred ----HhCCcEEEecCCCCC----------CHHHHHHHHHHHHHHH
Q 032001 82 ----EYGIKFFETSAKTNL----------NVEQVFFSIARDIKQR 112 (149)
Q Consensus 82 ----~~~~~~~~~Sak~~~----------~i~el~~~l~~~i~~~ 112 (149)
...++++.+||++|. ++..+++.+++.++..
T Consensus 153 ~~~~~~~~PVi~~SA~~G~~~~~~~~~~~~i~~Lld~Ii~~iP~P 197 (607)
T PRK10218 153 ATDEQLDFPIVYASALNGIAGLDHEDMAEDMTPLYQAIVDHVPAP 197 (607)
T ss_pred ccccccCCCEEEeEhhcCcccCCccccccchHHHHHHHHHhCCCC
Confidence 124679999999998 5888888888877543
No 213
>TIGR03598 GTPase_YsxC ribosome biogenesis GTP-binding protein YsxC/EngB. Members of this protein family are a GTPase associated with ribosome biogenesis, typified by YsxC from Bacillus subutilis. The family is widely but not universally distributed among bacteria. Members commonly are called EngB based on homology to EngA, one of several other GTPases of ribosome biogenesis. Cutoffs as set find essentially all bacterial members, but also identify large numbers of eukaryotic (probably organellar) sequences. This protein is found in about 80 percent of bacterial genomes.
Probab=98.38 E-value=7.2e-07 Score=62.72 Aligned_cols=87 Identities=13% Similarity=0.039 Sum_probs=52.5
Q ss_pred cccccchhhhhhc--CeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCC--CCHHHHHHHHHH
Q 032001 8 CFIGVYPPYLAVL--CRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRA--VPTSKGQALADE 82 (149)
Q Consensus 8 ~~~~~~~~~~~~~--~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~--~~~~~~~~~~~~ 82 (149)
.|..+...|++.. .+++++|+|.+. .+.... .++..+.. .++|+++++||+|+. .... ........+...
T Consensus 86 ~~~~~~~~~l~~~~~~~~ii~vvd~~~~~~~~~~-~~~~~~~~---~~~pviiv~nK~D~~-~~~~~~~~~~~i~~~l~~ 160 (179)
T TIGR03598 86 KWQKLIEEYLEKRENLKGVVLLMDIRHPLKELDL-EMLEWLRE---RGIPVLIVLTKADKL-KKSELNKQLKKIKKALKK 160 (179)
T ss_pred HHHHHHHHHHHhChhhcEEEEEecCCCCCCHHHH-HHHHHHHH---cCCCEEEEEECcccC-CHHHHHHHHHHHHHHHhh
Confidence 3555556677654 255788888875 333333 23333433 358999999999986 2111 112223334444
Q ss_pred hC--CcEEEecCCCCCCHH
Q 032001 83 YG--IKFFETSAKTNLNVE 99 (149)
Q Consensus 83 ~~--~~~~~~Sak~~~~i~ 99 (149)
.+ .+++.+||++|+|++
T Consensus 161 ~~~~~~v~~~Sa~~g~gi~ 179 (179)
T TIGR03598 161 DADDPSVQLFSSLKKTGID 179 (179)
T ss_pred ccCCCceEEEECCCCCCCC
Confidence 33 479999999999973
No 214
>PRK13796 GTPase YqeH; Provisional
Probab=98.38 E-value=3e-06 Score=66.34 Aligned_cols=82 Identities=23% Similarity=0.306 Sum_probs=55.4
Q ss_pred cCeEEEEEeeCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHH----HHHhCC---cEEEecC
Q 032001 20 LCRFKYCTYKIASYHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQAL----ADEYGI---KFFETSA 92 (149)
Q Consensus 20 ~~~~vi~v~~~~~~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~----~~~~~~---~~~~~Sa 92 (149)
.+.+|++|.|+.+ ....|..++.+.. .+.|+++|+||+|+. . ..........| ++..++ .++.+||
T Consensus 69 ~~~lIv~VVD~~D----~~~s~~~~L~~~~-~~kpviLViNK~DLl-~-~~~~~~~i~~~l~~~~k~~g~~~~~v~~vSA 141 (365)
T PRK13796 69 SDALVVNVVDIFD----FNGSWIPGLHRFV-GNNPVLLVGNKADLL-P-KSVKKNKVKNWLRQEAKELGLRPVDVVLISA 141 (365)
T ss_pred cCcEEEEEEECcc----CCCchhHHHHHHh-CCCCEEEEEEchhhC-C-CccCHHHHHHHHHHHHHhcCCCcCcEEEEEC
Confidence 4446788888765 1234555665543 367899999999996 3 22223333333 444554 5899999
Q ss_pred CCCCCHHHHHHHHHHH
Q 032001 93 KTNLNVEQVFFSIARD 108 (149)
Q Consensus 93 k~~~~i~el~~~l~~~ 108 (149)
+++.|++++++.+.+.
T Consensus 142 k~g~gI~eL~~~I~~~ 157 (365)
T PRK13796 142 QKGHGIDELLEAIEKY 157 (365)
T ss_pred CCCCCHHHHHHHHHHh
Confidence 9999999999999764
No 215
>TIGR03680 eif2g_arch translation initiation factor 2 subunit gamma. eIF-2 functions in the early steps of protein synthesis by forming a ternary complex with GTP and initiator tRNA.
Probab=98.38 E-value=1.1e-06 Score=69.59 Aligned_cols=98 Identities=16% Similarity=0.127 Sum_probs=56.0
Q ss_pred ccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCC--CHHHHHHHHHHh--
Q 032001 9 FIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAV--PTSKGQALADEY-- 83 (149)
Q Consensus 9 ~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~--~~~~~~~~~~~~-- 83 (149)
|...+...+..+ +++++|+|.++ .........+..+... .-.++++++||+|+. +.... ...+...+....
T Consensus 93 f~~~~~~g~~~a-D~aIlVVDa~~g~~~~qt~e~l~~l~~~--gi~~iIVvvNK~Dl~-~~~~~~~~~~~i~~~l~~~~~ 168 (406)
T TIGR03680 93 LMATMLSGAALM-DGALLVIAANEPCPQPQTKEHLMALEII--GIKNIVIVQNKIDLV-SKEKALENYEEIKEFVKGTVA 168 (406)
T ss_pred HHHHHHHHHHHC-CEEEEEEECCCCccccchHHHHHHHHHc--CCCeEEEEEEccccC-CHHHHHHHHHHHHhhhhhccc
Confidence 333333333333 55777888874 2012222222222221 124689999999987 22111 112222333322
Q ss_pred -CCcEEEecCCCCCCHHHHHHHHHHHHH
Q 032001 84 -GIKFFETSAKTNLNVEQVFFSIARDIK 110 (149)
Q Consensus 84 -~~~~~~~Sak~~~~i~el~~~l~~~i~ 110 (149)
+.+++++||++|.|+++++++|...++
T Consensus 169 ~~~~ii~vSA~~g~gi~~L~e~L~~~l~ 196 (406)
T TIGR03680 169 ENAPIIPVSALHNANIDALLEAIEKFIP 196 (406)
T ss_pred CCCeEEEEECCCCCChHHHHHHHHHhCC
Confidence 468999999999999999999987664
No 216
>cd04165 GTPBP1_like GTPBP1-like. Mammalian GTP binding protein 1 (GTPBP1), GTPBP2, and nematode homologs AGP-1 and CGP-1 are GTPases whose specific functions remain unknown. In mouse, GTPBP1 is expressed in macrophages, in smooth muscle cells of various tissues and in some neurons of the cerebral cortex; GTPBP2 tissue distribution appears to overlap that of GTPBP1. In human leukemia and macrophage cell lines, expression of both GTPBP1 and GTPBP2 is enhanced by interferon-gamma (IFN-gamma). The chromosomal location of both genes has been identified in humans, with GTPBP1 located in chromosome 22q12-13.1 and GTPBP2 located in chromosome 6p21-12. Human glioblastoma multiforme (GBM), a highly-malignant astrocytic glioma and the most common cancer in the central nervous system, has been linked to chromosomal deletions and a translocation on chromosome 6. The GBM translocation results in a fusion of GTPBP2 and PTPRZ1, a protein involved in oligodendrocyte differentiation, recovery, and
Probab=98.37 E-value=2.8e-06 Score=62.17 Aligned_cols=82 Identities=9% Similarity=0.030 Sum_probs=50.0
Q ss_pred CeEEEEEeeCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCH--HHHHHHHHH----------------
Q 032001 21 CRFKYCTYKIASYHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPT--SKGQALADE---------------- 82 (149)
Q Consensus 21 ~~~vi~v~~~~~~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~--~~~~~~~~~---------------- 82 (149)
.+++++|.|.+...-.....++..+.. .++|+++|.||+|+. +...... .....+...
T Consensus 110 ~D~~llVvda~~g~~~~d~~~l~~l~~---~~ip~ivvvNK~D~~-~~~~~~~~~~~l~~~L~~~g~~~~p~~~~~~~~~ 185 (224)
T cd04165 110 PDYAMLVVAANAGIIGMTKEHLGLALA---LNIPVFVVVTKIDLA-PANILQETLKDLKRILKVPGVRKLPVPVKSDDDV 185 (224)
T ss_pred CCEEEEEEECCCCCcHHHHHHHHHHHH---cCCCEEEEEECcccc-CHHHHHHHHHHHHHHhcCCCccccceeeecccce
Confidence 466788888775212333445454444 358999999999986 2211111 111122210
Q ss_pred ----------hCCcEEEecCCCCCCHHHHHHHHH
Q 032001 83 ----------YGIKFFETSAKTNLNVEQVFFSIA 106 (149)
Q Consensus 83 ----------~~~~~~~~Sak~~~~i~el~~~l~ 106 (149)
...|+|.+||.+|.|+++|+..|.
T Consensus 186 ~~~~~~~~~~~~~pi~~vSavtg~Gi~~L~~~L~ 219 (224)
T cd04165 186 VLAASNFSSERIVPIFQVSNVTGEGLDLLHAFLN 219 (224)
T ss_pred eehhhcCCccccCcEEEeeCCCccCHHHHHHHHH
Confidence 123899999999999999887764
No 217
>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=98.36 E-value=3.2e-06 Score=59.19 Aligned_cols=85 Identities=18% Similarity=0.141 Sum_probs=51.9
Q ss_pred hhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhCCcEEEecCCC
Q 032001 16 YLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT 94 (149)
Q Consensus 16 ~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~Sak~ 94 (149)
...++ |++++|+|... ... ....+...+ .+.|.++|.||+|+. +... ......+.+..+..++.+||++
T Consensus 16 ~i~~a-D~il~v~D~~~~~~~-~~~~i~~~~-----~~k~~ilVlNK~Dl~-~~~~--~~~~~~~~~~~~~~vi~iSa~~ 85 (171)
T cd01856 16 KLKLV-DLVIEVRDARIPLSS-RNPLLEKIL-----GNKPRIIVLNKADLA-DPKK--TKKWLKYFESKGEKVLFVNAKS 85 (171)
T ss_pred HHhhC-CEEEEEeeccCccCc-CChhhHhHh-----cCCCEEEEEehhhcC-ChHH--HHHHHHHHHhcCCeEEEEECCC
Confidence 33444 56788888864 211 111222222 246899999999986 2211 1111122223345689999999
Q ss_pred CCCHHHHHHHHHHHHH
Q 032001 95 NLNVEQVFFSIARDIK 110 (149)
Q Consensus 95 ~~~i~el~~~l~~~i~ 110 (149)
+.|+++++..+...++
T Consensus 86 ~~gi~~L~~~l~~~l~ 101 (171)
T cd01856 86 GKGVKKLLKAAKKLLK 101 (171)
T ss_pred cccHHHHHHHHHHHHH
Confidence 9999999999998764
No 218
>TIGR00483 EF-1_alpha translation elongation factor EF-1 alpha. This model represents the counterpart of bacterial EF-Tu for the Archaea (aEF-1 alpha) and Eukaryotes (eEF-1 alpha). The trusted cutoff is set fairly high so that incomplete sequences will score between suggested and trusted cutoff levels.
Probab=98.35 E-value=1.1e-06 Score=69.96 Aligned_cols=84 Identities=12% Similarity=-0.040 Sum_probs=48.7
Q ss_pred hhhhcCeEEEEEeeCCh-hhHHHHHH-HHHHHHHhcCCCCeEEEEeeCCCCCcCCCCC----CHHHHHHHHHHhC-----
Q 032001 16 YLAVLCRFKYCTYKIAS-YHFSDIRN-WIRNIEQHASDNVNKVLVGNKADMDESKRAV----PTSKGQALADEYG----- 84 (149)
Q Consensus 16 ~~~~~~~~vi~v~~~~~-~s~~~~~~-~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~----~~~~~~~~~~~~~----- 84 (149)
++.. .+++++|+|.++ +++..... +...+.... ...++|+++||+|+. +.... ...+...+++..+
T Consensus 105 ~~~~-aD~~ilVvDa~~~~~~~~~~t~~~~~~~~~~-~~~~iIVviNK~Dl~-~~~~~~~~~~~~ei~~~~~~~g~~~~~ 181 (426)
T TIGR00483 105 GASQ-ADAAVLVVAVGDGEFEVQPQTREHAFLARTL-GINQLIVAINKMDSV-NYDEEEFEAIKKEVSNLIKKVGYNPDT 181 (426)
T ss_pred hhhh-CCEEEEEEECCCCCcccCCchHHHHHHHHHc-CCCeEEEEEEChhcc-CccHHHHHHHHHHHHHHHHHcCCCccc
Confidence 3344 455788889986 43222211 111222222 235799999999996 32111 1223344555544
Q ss_pred CcEEEecCCCCCCHHHHH
Q 032001 85 IKFFETSAKTNLNVEQVF 102 (149)
Q Consensus 85 ~~~~~~Sak~~~~i~el~ 102 (149)
++++++||++|.|+.+++
T Consensus 182 ~~~i~iSA~~g~ni~~~~ 199 (426)
T TIGR00483 182 VPFIPISAWNGDNVIKKS 199 (426)
T ss_pred ceEEEeeccccccccccc
Confidence 578999999999998744
No 219
>PRK04000 translation initiation factor IF-2 subunit gamma; Validated
Probab=98.34 E-value=2.7e-06 Score=67.52 Aligned_cols=95 Identities=15% Similarity=0.099 Sum_probs=56.3
Q ss_pred cchhhhhhc--CeEEEEEeeCCh-h-hHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCC--HHHHHHHHHH---
Q 032001 12 VYPPYLAVL--CRFKYCTYKIAS-Y-HFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVP--TSKGQALADE--- 82 (149)
Q Consensus 12 ~~~~~~~~~--~~~vi~v~~~~~-~-s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~--~~~~~~~~~~--- 82 (149)
+...++.+. .+++++|+|.+. . .......| ..+... .-.|+++|+||+|+. +..... ......+...
T Consensus 98 f~~~~~~~~~~~D~~llVVDa~~~~~~~~t~~~l-~~l~~~--~i~~iiVVlNK~Dl~-~~~~~~~~~~~i~~~l~~~~~ 173 (411)
T PRK04000 98 LMATMLSGAALMDGAILVIAANEPCPQPQTKEHL-MALDII--GIKNIVIVQNKIDLV-SKERALENYEQIKEFVKGTVA 173 (411)
T ss_pred HHHHHHHHHhhCCEEEEEEECCCCCCChhHHHHH-HHHHHc--CCCcEEEEEEeeccc-cchhHHHHHHHHHHHhccccC
Confidence 344555554 356788888874 2 12222222 222221 123689999999987 322111 1222233322
Q ss_pred hCCcEEEecCCCCCCHHHHHHHHHHHHH
Q 032001 83 YGIKFFETSAKTNLNVEQVFFSIARDIK 110 (149)
Q Consensus 83 ~~~~~~~~Sak~~~~i~el~~~l~~~i~ 110 (149)
.+.+++++||++|.|+++|++.|...+.
T Consensus 174 ~~~~ii~vSA~~g~gI~~L~~~L~~~l~ 201 (411)
T PRK04000 174 ENAPIIPVSALHKVNIDALIEAIEEEIP 201 (411)
T ss_pred CCCeEEEEECCCCcCHHHHHHHHHHhCC
Confidence 1468999999999999999999987664
No 220
>PRK10512 selenocysteinyl-tRNA-specific translation factor; Provisional
Probab=98.34 E-value=2.3e-06 Score=71.12 Aligned_cols=97 Identities=13% Similarity=0.120 Sum_probs=55.6
Q ss_pred cccccchhhhhhcCeEEEEEeeCChhhHHHHHHHHHHHHHhcCCCCe-EEEEeeCCCCCcCCCCCC--HHHHHHHHHHhC
Q 032001 8 CFIGVYPPYLAVLCRFKYCTYKIASYHFSDIRNWIRNIEQHASDNVN-KVLVGNKADMDESKRAVP--TSKGQALADEYG 84 (149)
Q Consensus 8 ~~~~~~~~~~~~~~~~vi~v~~~~~~s~~~~~~~~~~i~~~~~~~~~-iilv~nK~Dl~~~~~~~~--~~~~~~~~~~~~ 84 (149)
+|...+...+.+. |++++|+|.+..........+..+.. . ++| +++|+||+|+. +..... ..+...+....+
T Consensus 63 ~fi~~m~~g~~~~-D~~lLVVda~eg~~~qT~ehl~il~~-l--gi~~iIVVlNKiDlv-~~~~~~~v~~ei~~~l~~~~ 137 (614)
T PRK10512 63 KFLSNMLAGVGGI-DHALLVVACDDGVMAQTREHLAILQL-T--GNPMLTVALTKADRV-DEARIAEVRRQVKAVLREYG 137 (614)
T ss_pred HHHHHHHHHhhcC-CEEEEEEECCCCCcHHHHHHHHHHHH-c--CCCeEEEEEECCccC-CHHHHHHHHHHHHHHHHhcC
Confidence 4444444444444 55677778875111222222222222 2 344 57999999987 321111 122333333333
Q ss_pred ---CcEEEecCCCCCCHHHHHHHHHHHH
Q 032001 85 ---IKFFETSAKTNLNVEQVFFSIARDI 109 (149)
Q Consensus 85 ---~~~~~~Sak~~~~i~el~~~l~~~i 109 (149)
.+++.+||++|.|++++++.|.+..
T Consensus 138 ~~~~~ii~VSA~tG~gI~~L~~~L~~~~ 165 (614)
T PRK10512 138 FAEAKLFVTAATEGRGIDALREHLLQLP 165 (614)
T ss_pred CCCCcEEEEeCCCCCCCHHHHHHHHHhh
Confidence 5899999999999999999998654
No 221
>cd01876 YihA_EngB The YihA (EngB) subfamily. This subfamily of GTPases is typified by the E. coli YihA, an essential protein involved in cell division control. YihA and its orthologs are small proteins that typically contain less than 200 amino acid residues and consists of the GTPase domain only (some of the eukaryotic homologs contain an N-terminal extension of about 120 residues that might be involved in organellar targeting). Homologs of yihA are found in most Gram-positive and Gram-negative pathogenic bacteria, with the exception of Mycobacterium tuberculosis. The broad-spectrum nature of YihA and its essentiality for cell viability in bacteria make it an attractive antibacterial target.
Probab=98.33 E-value=1.7e-06 Score=59.04 Aligned_cols=94 Identities=12% Similarity=0.011 Sum_probs=56.3
Q ss_pred cccccchhhhhhcC--eEEEEEeeCCh-h--hHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCC--HHHHHHHH
Q 032001 8 CFIGVYPPYLAVLC--RFKYCTYKIAS-Y--HFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVP--TSKGQALA 80 (149)
Q Consensus 8 ~~~~~~~~~~~~~~--~~vi~v~~~~~-~--s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~--~~~~~~~~ 80 (149)
.|..++..|+.... +++++++|.+. . ....+..|+.. .+.|+++|+||+|+. ...... ........
T Consensus 67 ~~~~~~~~~~~~~~~~~~~~~v~d~~~~~~~~~~~~~~~l~~------~~~~vi~v~nK~D~~-~~~~~~~~~~~~~~~l 139 (170)
T cd01876 67 KWGKLIEEYLENRENLKGVVLLIDSRHGPTEIDLEMLDWLEE------LGIPFLVVLTKADKL-KKSELAKALKEIKKEL 139 (170)
T ss_pred HHHHHHHHHHHhChhhhEEEEEEEcCcCCCHhHHHHHHHHHH------cCCCEEEEEEchhcC-ChHHHHHHHHHHHHHH
Confidence 34555666666542 34666777763 2 11223344433 247999999999985 211111 11122222
Q ss_pred H--HhCCcEEEecCCCCCCHHHHHHHHHHH
Q 032001 81 D--EYGIKFFETSAKTNLNVEQVFFSIARD 108 (149)
Q Consensus 81 ~--~~~~~~~~~Sak~~~~i~el~~~l~~~ 108 (149)
+ ....+++++||+++.++.++++.|.+.
T Consensus 140 ~~~~~~~~~~~~Sa~~~~~~~~l~~~l~~~ 169 (170)
T cd01876 140 KLFEIDPPIILFSSLKGQGIDELRALIEKW 169 (170)
T ss_pred HhccCCCceEEEecCCCCCHHHHHHHHHHh
Confidence 2 223578999999999999999999864
No 222
>PRK00093 GTP-binding protein Der; Reviewed
Probab=98.32 E-value=3e-06 Score=67.57 Aligned_cols=82 Identities=15% Similarity=0.153 Sum_probs=53.0
Q ss_pred hhhhhhcCeEEEEEeeCCh-hhHH--HHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhCC-cEEE
Q 032001 14 PPYLAVLCRFKYCTYKIAS-YHFS--DIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGI-KFFE 89 (149)
Q Consensus 14 ~~~~~~~~~~vi~v~~~~~-~s~~--~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~-~~~~ 89 (149)
..++..+ +++++|+|... .+.. .+..|+.. .++|+++|+||+|+. . . ......+ ...++ .+++
T Consensus 75 ~~~~~~a-d~il~vvd~~~~~~~~~~~~~~~l~~------~~~piilv~NK~D~~-~-~---~~~~~~~-~~lg~~~~~~ 141 (435)
T PRK00093 75 ELAIEEA-DVILFVVDGRAGLTPADEEIAKILRK------SNKPVILVVNKVDGP-D-E---EADAYEF-YSLGLGEPYP 141 (435)
T ss_pred HHHHHhC-CEEEEEEECCCCCCHHHHHHHHHHHH------cCCcEEEEEECccCc-c-c---hhhHHHH-HhcCCCCCEE
Confidence 3445555 45777788874 2222 23344332 268999999999976 2 1 1122222 23455 4899
Q ss_pred ecCCCCCCHHHHHHHHHHH
Q 032001 90 TSAKTNLNVEQVFFSIARD 108 (149)
Q Consensus 90 ~Sak~~~~i~el~~~l~~~ 108 (149)
+||++|.|++++|+.++..
T Consensus 142 iSa~~g~gv~~l~~~I~~~ 160 (435)
T PRK00093 142 ISAEHGRGIGDLLDAILEE 160 (435)
T ss_pred EEeeCCCCHHHHHHHHHhh
Confidence 9999999999999999873
No 223
>COG1160 Predicted GTPases [General function prediction only]
Probab=98.32 E-value=5e-06 Score=65.79 Aligned_cols=79 Identities=13% Similarity=0.071 Sum_probs=52.8
Q ss_pred cCeEEEEEeeCCh-hhH--HHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhCC-cEEEecCCCC
Q 032001 20 LCRFKYCTYKIAS-YHF--SDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGI-KFFETSAKTN 95 (149)
Q Consensus 20 ~~~~vi~v~~~~~-~s~--~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~-~~~~~Sak~~ 95 (149)
-+|+++||+|... -+. ..+.+|+. . .++|+|+|+||+|-. . .+.....+ -..|+ .++.+||..|
T Consensus 83 eADvilfvVD~~~Git~~D~~ia~~Lr---~---~~kpviLvvNK~D~~-~----~e~~~~ef-yslG~g~~~~ISA~Hg 150 (444)
T COG1160 83 EADVILFVVDGREGITPADEEIAKILR---R---SKKPVILVVNKIDNL-K----AEELAYEF-YSLGFGEPVPISAEHG 150 (444)
T ss_pred hCCEEEEEEeCCCCCCHHHHHHHHHHH---h---cCCCEEEEEEcccCc-h----hhhhHHHH-HhcCCCCceEeehhhc
Confidence 3466888888875 211 22233333 2 468999999999964 1 11222222 23444 7899999999
Q ss_pred CCHHHHHHHHHHHHH
Q 032001 96 LNVEQVFFSIARDIK 110 (149)
Q Consensus 96 ~~i~el~~~l~~~i~ 110 (149)
.|+.+|++.+++.++
T Consensus 151 ~Gi~dLld~v~~~l~ 165 (444)
T COG1160 151 RGIGDLLDAVLELLP 165 (444)
T ss_pred cCHHHHHHHHHhhcC
Confidence 999999999999875
No 224
>PRK09554 feoB ferrous iron transport protein B; Reviewed
Probab=98.31 E-value=5.8e-06 Score=70.29 Aligned_cols=83 Identities=11% Similarity=0.087 Sum_probs=61.1
Q ss_pred cCeEEEEEeeCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhCCcEEEecCCCCCCHH
Q 032001 20 LCRFKYCTYKIASYHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKTNLNVE 99 (149)
Q Consensus 20 ~~~~vi~v~~~~~~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~Sak~~~~i~ 99 (149)
..|++++|+|.++ ++....|..++.+ .++|++++.||+|+. +.+.. ......+.+..+.+++.+||++|.|++
T Consensus 85 ~aD~vI~VvDat~--ler~l~l~~ql~e---~giPvIvVlNK~Dl~-~~~~i-~id~~~L~~~LG~pVvpiSA~~g~GId 157 (772)
T PRK09554 85 DADLLINVVDASN--LERNLYLTLQLLE---LGIPCIVALNMLDIA-EKQNI-RIDIDALSARLGCPVIPLVSTRGRGIE 157 (772)
T ss_pred CCCEEEEEecCCc--chhhHHHHHHHHH---cCCCEEEEEEchhhh-hccCc-HHHHHHHHHHhCCCEEEEEeecCCCHH
Confidence 4567888888885 2233345555554 368999999999986 33333 344566777889999999999999999
Q ss_pred HHHHHHHHHH
Q 032001 100 QVFFSIARDI 109 (149)
Q Consensus 100 el~~~l~~~i 109 (149)
++++.+.+..
T Consensus 158 eL~~~I~~~~ 167 (772)
T PRK09554 158 ALKLAIDRHQ 167 (772)
T ss_pred HHHHHHHHhh
Confidence 9998887654
No 225
>PRK01889 GTPase RsgA; Reviewed
Probab=98.30 E-value=3.8e-06 Score=65.55 Aligned_cols=82 Identities=13% Similarity=0.170 Sum_probs=56.9
Q ss_pred hhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHH-HhCCcEEEecCCC
Q 032001 17 LAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALAD-EYGIKFFETSAKT 94 (149)
Q Consensus 17 ~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~-~~~~~~~~~Sak~ 94 (149)
.+|.+. +++|++.++ -....+++++..+.. .+++.++|.||+||. +. .......+.. ..+.+++.+||++
T Consensus 110 aANvD~-vliV~s~~p~~~~~~ldr~L~~a~~---~~i~piIVLNK~DL~-~~---~~~~~~~~~~~~~g~~Vi~vSa~~ 181 (356)
T PRK01889 110 AANVDT-VFIVCSLNHDFNLRRIERYLALAWE---SGAEPVIVLTKADLC-ED---AEEKIAEVEALAPGVPVLAVSALD 181 (356)
T ss_pred EEeCCE-EEEEEecCCCCChhHHHHHHHHHHH---cCCCEEEEEEChhcC-CC---HHHHHHHHHHhCCCCcEEEEECCC
Confidence 355555 777878886 555667787777665 457778999999997 32 1112222222 3467899999999
Q ss_pred CCCHHHHHHHHH
Q 032001 95 NLNVEQVFFSIA 106 (149)
Q Consensus 95 ~~~i~el~~~l~ 106 (149)
+.|+++|..+|.
T Consensus 182 g~gl~~L~~~L~ 193 (356)
T PRK01889 182 GEGLDVLAAWLS 193 (356)
T ss_pred CccHHHHHHHhh
Confidence 999999888874
No 226
>COG1159 Era GTPase [General function prediction only]
Probab=98.27 E-value=1.8e-06 Score=64.90 Aligned_cols=88 Identities=15% Similarity=0.057 Sum_probs=56.5
Q ss_pred CeEEEEEeeCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhC-CcEEEecCCCCCCHH
Q 032001 21 CRFKYCTYKIASYHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYG-IKFFETSAKTNLNVE 99 (149)
Q Consensus 21 ~~~vi~v~~~~~~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~-~~~~~~Sak~~~~i~ 99 (149)
.|++++|.|.+. .+...+.|+-+..+. .+.|++++.||+|.. .....-......+..... ..++++||++|.|++
T Consensus 86 vDlilfvvd~~~-~~~~~d~~il~~lk~--~~~pvil~iNKID~~-~~~~~l~~~~~~~~~~~~f~~ivpiSA~~g~n~~ 161 (298)
T COG1159 86 VDLILFVVDADE-GWGPGDEFILEQLKK--TKTPVILVVNKIDKV-KPKTVLLKLIAFLKKLLPFKEIVPISALKGDNVD 161 (298)
T ss_pred CcEEEEEEeccc-cCCccHHHHHHHHhh--cCCCeEEEEEccccC-CcHHHHHHHHHHHHhhCCcceEEEeeccccCCHH
Confidence 355666667664 344455555444332 467999999999987 322211122222223333 379999999999999
Q ss_pred HHHHHHHHHHHHH
Q 032001 100 QVFFSIARDIKQR 112 (149)
Q Consensus 100 el~~~l~~~i~~~ 112 (149)
.|.+.+...+++.
T Consensus 162 ~L~~~i~~~Lpeg 174 (298)
T COG1159 162 TLLEIIKEYLPEG 174 (298)
T ss_pred HHHHHHHHhCCCC
Confidence 9999999888654
No 227
>COG0532 InfB Translation initiation factor 2 (IF-2; GTPase) [Translation, ribosomal structure and biogenesis]
Probab=98.24 E-value=1.2e-05 Score=64.74 Aligned_cols=92 Identities=20% Similarity=0.175 Sum_probs=56.9
Q ss_pred cccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHH-----
Q 032001 8 CFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALAD----- 81 (149)
Q Consensus 8 ~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~----- 81 (149)
-|..|+..=. ...|++++|.++++ -....... ++.++. .++|++++.||+|.++.+ +.....-..
T Consensus 67 AFt~mRaRGa-~vtDIaILVVa~dDGv~pQTiEA-I~hak~---a~vP~iVAiNKiDk~~~n----p~~v~~el~~~gl~ 137 (509)
T COG0532 67 AFTAMRARGA-SVTDIAILVVAADDGVMPQTIEA-INHAKA---AGVPIVVAINKIDKPEAN----PDKVKQELQEYGLV 137 (509)
T ss_pred HHHHHHhcCC-ccccEEEEEEEccCCcchhHHHH-HHHHHH---CCCCEEEEEecccCCCCC----HHHHHHHHHHcCCC
Confidence 3444444432 35577888889986 22222222 222333 579999999999987221 222222222
Q ss_pred --HhC--CcEEEecCCCCCCHHHHHHHHHHH
Q 032001 82 --EYG--IKFFETSAKTNLNVEQVFFSIARD 108 (149)
Q Consensus 82 --~~~--~~~~~~Sak~~~~i~el~~~l~~~ 108 (149)
.++ ..++.+||++|+|+.+|+..+.-.
T Consensus 138 ~E~~gg~v~~VpvSA~tg~Gi~eLL~~ill~ 168 (509)
T COG0532 138 PEEWGGDVIFVPVSAKTGEGIDELLELILLL 168 (509)
T ss_pred HhhcCCceEEEEeeccCCCCHHHHHHHHHHH
Confidence 222 368999999999999999888743
No 228
>PRK14845 translation initiation factor IF-2; Provisional
Probab=98.21 E-value=9.4e-06 Score=70.69 Aligned_cols=96 Identities=15% Similarity=0.126 Sum_probs=57.0
Q ss_pred cccccccchhhhhhcCeEEEEEeeCCh----hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCC---------
Q 032001 6 CLCFIGVYPPYLAVLCRFKYCTYKIAS----YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVP--------- 72 (149)
Q Consensus 6 ~~~~~~~~~~~~~~~~~~vi~v~~~~~----~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~--------- 72 (149)
-+.|..++...+..+ +++++|+|+++ .++..+. .+.. .++|+++|+||+|+........
T Consensus 536 he~F~~lr~~g~~~a-DivlLVVDa~~Gi~~qT~e~I~----~lk~---~~iPiIVViNKiDL~~~~~~~~~~~~~~~~~ 607 (1049)
T PRK14845 536 HEAFTSLRKRGGSLA-DLAVLVVDINEGFKPQTIEAIN----ILRQ---YKTPFVVAANKIDLIPGWNISEDEPFLLNFN 607 (1049)
T ss_pred cHHHHHHHHhhcccC-CEEEEEEECcccCCHhHHHHHH----HHHH---cCCCEEEEEECCCCccccccccchhhhhhhh
Confidence 345666666655444 55788888874 2333332 2333 3579999999999862211000
Q ss_pred ---H---HHHH--------HHH------------HHh--CCcEEEecCCCCCCHHHHHHHHHHHH
Q 032001 73 ---T---SKGQ--------ALA------------DEY--GIKFFETSAKTNLNVEQVFFSIARDI 109 (149)
Q Consensus 73 ---~---~~~~--------~~~------------~~~--~~~~~~~Sak~~~~i~el~~~l~~~i 109 (149)
. .+.. ++. +.+ .++++.+||++|+|+++|+..|....
T Consensus 608 ~q~~~~~~el~~~l~~v~~~L~~~G~~~e~~~~~~d~~~~v~iVpVSA~tGeGId~Ll~~l~~l~ 672 (1049)
T PRK14845 608 EQDQHALTELEIKLYELIGKLYELGFDADRFDRVQDFTRTVAIVPVSAKTGEGIPELLMMVAGLA 672 (1049)
T ss_pred hhHHHHHHHHHHHHHHHhhHHHhcCcchhhhhhhhhcCCCceEEEEEcCCCCCHHHHHHHHHHhh
Confidence 0 0000 011 111 25789999999999999998876544
No 229
>PRK13768 GTPase; Provisional
Probab=98.20 E-value=1.2e-05 Score=59.96 Aligned_cols=99 Identities=17% Similarity=0.070 Sum_probs=57.7
Q ss_pred cccchhhhhhc----CeEEEEEeeCCh-hhHHH-HH-HHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHH--HHH---
Q 032001 10 IGVYPPYLAVL----CRFKYCTYKIAS-YHFSD-IR-NWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTS--KGQ--- 77 (149)
Q Consensus 10 ~~~~~~~~~~~----~~~vi~v~~~~~-~s~~~-~~-~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~--~~~--- 77 (149)
+..++.+++.. .+++++|+|... ....+ .. .|+...... ..++|+++|+||+|+. ........ ...
T Consensus 114 ~~~~~~~~~~l~~~~~~~ii~liD~~~~~~~~d~~~~~~l~~~~~~-~~~~~~i~v~nK~D~~-~~~~~~~~~~~l~~~~ 191 (253)
T PRK13768 114 RESGRKLVERLSGSSKSVVVFLIDAVLAKTPSDFVSLLLLALSVQL-RLGLPQIPVLNKADLL-SEEELERILKWLEDPE 191 (253)
T ss_pred hHHHHHHHHHHHhcCCeEEEEEechHHhCCHHHHHHHHHHHHHHHH-HcCCCEEEEEEhHhhc-CchhHHHHHHHHhCHH
Confidence 33444444443 567888888864 22222 22 233222211 1468999999999987 32211100 000
Q ss_pred ---------------------HHHHHhC--CcEEEecCCCCCCHHHHHHHHHHHHH
Q 032001 78 ---------------------ALADEYG--IKFFETSAKTNLNVEQVFFSIARDIK 110 (149)
Q Consensus 78 ---------------------~~~~~~~--~~~~~~Sak~~~~i~el~~~l~~~i~ 110 (149)
...+..+ .+++.+||+++.|++++++++.+.+.
T Consensus 192 ~~~~~l~~~~~~~~~~~~~~~~~i~~~~~~~~vi~iSa~~~~gl~~L~~~I~~~l~ 247 (253)
T PRK13768 192 YLLEELKLEKGLQGLLSLELLRALEETGLPVRVIPVSAKTGEGFDELYAAIQEVFC 247 (253)
T ss_pred HHHHHHhcccchHHHHHHHHHHHHHHHCCCCcEEEEECCCCcCHHHHHHHHHHHcC
Confidence 0112223 47899999999999999999988764
No 230
>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=98.19 E-value=8.3e-06 Score=58.66 Aligned_cols=78 Identities=18% Similarity=0.106 Sum_probs=49.4
Q ss_pred CeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeE--EEEeeCCCCCcCCCCCCHHHHHHHHHH--hCCcEEEecCCCC
Q 032001 21 CRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNK--VLVGNKADMDESKRAVPTSKGQALADE--YGIKFFETSAKTN 95 (149)
Q Consensus 21 ~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~i--ilv~nK~Dl~~~~~~~~~~~~~~~~~~--~~~~~~~~Sak~~ 95 (149)
.+.+++|+|+.. .+.. ..+.. .+.. ++++||+|+. +.............+. .+.+++++||++|
T Consensus 113 ~~~~i~vvD~~~~~~~~--~~~~~--------qi~~ad~~~~~k~d~~-~~~~~~~~~~~~~~~~~~~~~~i~~~Sa~~g 181 (199)
T TIGR00101 113 ADLTIFVIDVAAGDKIP--RKGGP--------GITRSDLLVINKIDLA-PMVGADLGVMERDAKKMRGEKPFIFTNLKTK 181 (199)
T ss_pred hCcEEEEEEcchhhhhh--hhhHh--------HhhhccEEEEEhhhcc-ccccccHHHHHHHHHHhCCCCCEEEEECCCC
Confidence 355788889885 3211 11111 2233 7889999997 2111122333333443 2468999999999
Q ss_pred CCHHHHHHHHHHHH
Q 032001 96 LNVEQVFFSIARDI 109 (149)
Q Consensus 96 ~~i~el~~~l~~~i 109 (149)
.|++++|+++.+..
T Consensus 182 ~gi~el~~~i~~~~ 195 (199)
T TIGR00101 182 EGLDTVIDWIEHYA 195 (199)
T ss_pred CCHHHHHHHHHhhc
Confidence 99999999998754
No 231
>PRK09866 hypothetical protein; Provisional
Probab=98.19 E-value=2.3e-05 Score=65.00 Aligned_cols=88 Identities=16% Similarity=0.086 Sum_probs=54.0
Q ss_pred hhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHH----Hh---CCcE
Q 032001 16 YLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALAD----EY---GIKF 87 (149)
Q Consensus 16 ~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~----~~---~~~~ 87 (149)
.+..+ |+|++|.|.+. .+..+ ....+.+.+.. ...|+++|.||+|+. +......+....+.. .. ...+
T Consensus 255 qL~eA-DvVLFVVDat~~~s~~D-eeIlk~Lkk~~-K~~PVILVVNKIDl~-dreeddkE~Lle~V~~~L~q~~i~f~eI 330 (741)
T PRK09866 255 QLARA-SAVLAVLDYTQLKSISD-EEVREAILAVG-QSVPLYVLVNKFDQQ-DRNSDDADQVRALISGTLMKGCITPQQI 330 (741)
T ss_pred HHhhC-CEEEEEEeCCCCCChhH-HHHHHHHHhcC-CCCCEEEEEEcccCC-CcccchHHHHHHHHHHHHHhcCCCCceE
Confidence 45555 55788888875 33332 23334444322 235999999999986 222212233333321 11 2369
Q ss_pred EEecCCCCCCHHHHHHHHHH
Q 032001 88 FETSAKTNLNVEQVFFSIAR 107 (149)
Q Consensus 88 ~~~Sak~~~~i~el~~~l~~ 107 (149)
|++||+.|.|++++++.|..
T Consensus 331 fPVSAlkG~nid~LLdeI~~ 350 (741)
T PRK09866 331 FPVSSMWGYLANRARHELAN 350 (741)
T ss_pred EEEeCCCCCCHHHHHHHHHh
Confidence 99999999999999998886
No 232
>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=98.19 E-value=5.5e-06 Score=56.18 Aligned_cols=73 Identities=15% Similarity=0.154 Sum_probs=43.5
Q ss_pred hhhcCeEEEEEeeCCh-hhHH--HHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhCCcEEEecCC
Q 032001 17 LAVLCRFKYCTYKIAS-YHFS--DIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAK 93 (149)
Q Consensus 17 ~~~~~~~vi~v~~~~~-~s~~--~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~Sak 93 (149)
+.++ |++++|+|..+ .+.. .+..|+... . .++|+++|+||+|+. +.. .........+..+..++.+||+
T Consensus 9 i~~a-D~vl~ViD~~~p~~~~~~~l~~~l~~~---~-~~k~~iivlNK~DL~-~~~--~~~~~~~~~~~~~~~ii~iSa~ 80 (141)
T cd01857 9 VERS-DIVVQIVDARNPLLFRPPDLERYVKEV---D-PRKKNILLLNKADLL-TEE--QRKAWAEYFKKEGIVVVFFSAL 80 (141)
T ss_pred HhhC-CEEEEEEEccCCcccCCHHHHHHHHhc---c-CCCcEEEEEechhcC-CHH--HHHHHHHHHHhcCCeEEEEEec
Confidence 3344 45788888875 3222 333444332 1 368999999999986 211 1122233444556789999999
Q ss_pred CCCC
Q 032001 94 TNLN 97 (149)
Q Consensus 94 ~~~~ 97 (149)
++.+
T Consensus 81 ~~~~ 84 (141)
T cd01857 81 KENA 84 (141)
T ss_pred CCCc
Confidence 8753
No 233
>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=98.14 E-value=1.5e-05 Score=60.07 Aligned_cols=82 Identities=22% Similarity=0.251 Sum_probs=52.5
Q ss_pred cCeEEEEEeeCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHH---HHHhCCcEEEecCCCCC
Q 032001 20 LCRFKYCTYKIASYHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQAL---ADEYGIKFFETSAKTNL 96 (149)
Q Consensus 20 ~~~~vi~v~~~~~~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~---~~~~~~~~~~~Sak~~~ 96 (149)
.+|++++|.|.... +.....++.++. .+.|+++|.||+|+. +. .....| .+..+.+++.+||+++.
T Consensus 21 ~aDvVl~V~Dar~p-~~~~~~~i~~~l----~~kp~IiVlNK~DL~-~~-----~~~~~~~~~~~~~~~~vi~iSa~~~~ 89 (276)
T TIGR03596 21 LVDVVIEVLDARIP-LSSRNPMIDEIR----GNKPRLIVLNKADLA-DP-----AVTKQWLKYFEEKGIKALAINAKKGK 89 (276)
T ss_pred hCCEEEEEEeCCCC-CCCCChhHHHHH----CCCCEEEEEEccccC-CH-----HHHHHHHHHHHHcCCeEEEEECCCcc
Confidence 34567888888631 111122223322 247999999999996 21 112222 22345678999999999
Q ss_pred CHHHHHHHHHHHHHHH
Q 032001 97 NVEQVFFSIARDIKQR 112 (149)
Q Consensus 97 ~i~el~~~l~~~i~~~ 112 (149)
|++++++.+.+.+.+.
T Consensus 90 gi~~L~~~i~~~~~~~ 105 (276)
T TIGR03596 90 GVKKIIKAAKKLLKEK 105 (276)
T ss_pred cHHHHHHHHHHHHHHh
Confidence 9999999998877654
No 234
>PRK04004 translation initiation factor IF-2; Validated
Probab=98.13 E-value=2.1e-05 Score=65.09 Aligned_cols=96 Identities=15% Similarity=0.068 Sum_probs=57.6
Q ss_pred cccccccchhhhhhcCeEEEEEeeCCh----hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCC-C--------
Q 032001 6 CLCFIGVYPPYLAVLCRFKYCTYKIAS----YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAV-P-------- 72 (149)
Q Consensus 6 ~~~~~~~~~~~~~~~~~~vi~v~~~~~----~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~-~-------- 72 (149)
-+.|..++...++.++. +++|+|.++ .++..+.. +.. .++|+++++||+|+....... .
T Consensus 81 ~e~f~~~~~~~~~~aD~-~IlVvDa~~g~~~qt~e~i~~----~~~---~~vpiIvviNK~D~~~~~~~~~~~~~~e~~~ 152 (586)
T PRK04004 81 HEAFTNLRKRGGALADI-AILVVDINEGFQPQTIEAINI----LKR---RKTPFVVAANKIDRIPGWKSTEDAPFLESIE 152 (586)
T ss_pred hHHHHHHHHHhHhhCCE-EEEEEECCCCCCHhHHHHHHH----HHH---cCCCEEEEEECcCCchhhhhhcCchHHHHHh
Confidence 35677777766665554 677778874 34443332 222 368999999999985111100 0
Q ss_pred ---H---H-------HHHHHHHHh---------------CCcEEEecCCCCCCHHHHHHHHHHHH
Q 032001 73 ---T---S-------KGQALADEY---------------GIKFFETSAKTNLNVEQVFFSIARDI 109 (149)
Q Consensus 73 ---~---~-------~~~~~~~~~---------------~~~~~~~Sak~~~~i~el~~~l~~~i 109 (149)
. . +........ ..+++.+||++|.|+++++..+....
T Consensus 153 ~~~~~v~~~f~~~l~ev~~~L~~~g~~~e~~~~~~~~~~~v~ivpiSA~tGeGi~dLl~~i~~~~ 217 (586)
T PRK04004 153 KQSQRVQQELEEKLYELIGQLSELGFSADRFDRVKDFTKTVAIVPVSAKTGEGIPDLLMVLAGLA 217 (586)
T ss_pred hhhHHHHHHHHHHHHHHHHHHHhcCCChhhhhhhhccCCCceEeeccCCCCCChHHHHHHHHHHH
Confidence 0 0 000011111 25789999999999999998886544
No 235
>COG1160 Predicted GTPases [General function prediction only]
Probab=98.10 E-value=5.1e-05 Score=60.18 Aligned_cols=88 Identities=15% Similarity=0.002 Sum_probs=57.9
Q ss_pred hhcCeEEEEEeeCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHH-HHHHH---h-CCcEEEecC
Q 032001 18 AVLCRFKYCTYKIASYHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQ-ALADE---Y-GIKFFETSA 92 (149)
Q Consensus 18 ~~~~~~vi~v~~~~~~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~-~~~~~---~-~~~~~~~Sa 92 (149)
-..++++++|.|....--++..+....+.+ ...++|+|.||+|+. ........... .+... . ..+++++||
T Consensus 258 I~~a~vvllviDa~~~~~~qD~~ia~~i~~---~g~~~vIvvNKWDl~-~~~~~~~~~~k~~i~~~l~~l~~a~i~~iSA 333 (444)
T COG1160 258 IERADVVLLVIDATEGISEQDLRIAGLIEE---AGRGIVIVVNKWDLV-EEDEATMEEFKKKLRRKLPFLDFAPIVFISA 333 (444)
T ss_pred HhhcCEEEEEEECCCCchHHHHHHHHHHHH---cCCCeEEEEEccccC-CchhhHHHHHHHHHHHHhccccCCeEEEEEe
Confidence 345677888888885323444555555555 457999999999987 32222222222 22222 2 258999999
Q ss_pred CCCCCHHHHHHHHHHHH
Q 032001 93 KTNLNVEQVFFSIARDI 109 (149)
Q Consensus 93 k~~~~i~el~~~l~~~i 109 (149)
++|.+++++|+.+....
T Consensus 334 ~~~~~i~~l~~~i~~~~ 350 (444)
T COG1160 334 LTGQGLDKLFEAIKEIY 350 (444)
T ss_pred cCCCChHHHHHHHHHHH
Confidence 99999999999988644
No 236
>PRK12317 elongation factor 1-alpha; Reviewed
Probab=98.09 E-value=1.2e-05 Score=64.14 Aligned_cols=81 Identities=14% Similarity=-0.057 Sum_probs=46.3
Q ss_pred cCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCC----CHHHHHHHHHHhC-----CcEEE
Q 032001 20 LCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAV----PTSKGQALADEYG-----IKFFE 89 (149)
Q Consensus 20 ~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~----~~~~~~~~~~~~~-----~~~~~ 89 (149)
..+++++|+|.++ ..+.....+...+.... ...++++++||+|+. ..... ...+...+....+ .++++
T Consensus 107 ~aD~~ilVvDa~~~~~~~~~~~~~~~~~~~~-~~~~iivviNK~Dl~-~~~~~~~~~~~~~i~~~l~~~g~~~~~~~ii~ 184 (425)
T PRK12317 107 QADAAVLVVAADDAGGVMPQTREHVFLARTL-GINQLIVAINKMDAV-NYDEKRYEEVKEEVSKLLKMVGYKPDDIPFIP 184 (425)
T ss_pred cCCEEEEEEEcccCCCCCcchHHHHHHHHHc-CCCeEEEEEEccccc-cccHHHHHHHHHHHHHHHHhhCCCcCcceEEE
Confidence 3456788888875 12322222222222222 124689999999997 31110 1123334444444 46899
Q ss_pred ecCCCCCCHHHHH
Q 032001 90 TSAKTNLNVEQVF 102 (149)
Q Consensus 90 ~Sak~~~~i~el~ 102 (149)
+||++|.|+++++
T Consensus 185 iSA~~g~gi~~~~ 197 (425)
T PRK12317 185 VSAFEGDNVVKKS 197 (425)
T ss_pred eecccCCCccccc
Confidence 9999999998754
No 237
>cd04166 CysN_ATPS CysN_ATPS subfamily. CysN, together with protein CysD, form the ATP sulfurylase (ATPS) complex in some bacteria and lower eukaryotes. ATPS catalyzes the production of ATP sulfurylase (APS) and pyrophosphate (PPi) from ATP and sulfate. CysD, which catalyzes ATP hydrolysis, is a member of the ATP pyrophosphatase (ATP PPase) family. CysN hydrolysis of GTP is required for CysD hydrolysis of ATP; however, CysN hydrolysis of GTP is not dependent on CysD hydrolysis of ATP. CysN is an example of lateral gene transfer followed by acquisition of new function. In many organisms, an ATPS exists which is not GTP-dependent and shares no sequence or structural similarity to CysN.
Probab=98.05 E-value=1.6e-05 Score=57.43 Aligned_cols=84 Identities=17% Similarity=0.046 Sum_probs=45.6
Q ss_pred chhhhhhcCeEEEEEeeCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCC----HHHHHHHHHHhC---C
Q 032001 13 YPPYLAVLCRFKYCTYKIASYHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVP----TSKGQALADEYG---I 85 (149)
Q Consensus 13 ~~~~~~~~~~~vi~v~~~~~~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~----~~~~~~~~~~~~---~ 85 (149)
+...+..+ +++++|+|.+.........+...+.. . ...++|+|+||+|+. ...... ......+....+ .
T Consensus 94 ~~~~~~~a-d~~llVvD~~~~~~~~~~~~~~~~~~-~-~~~~iIvviNK~D~~-~~~~~~~~~i~~~~~~~~~~~~~~~~ 169 (208)
T cd04166 94 MVTGASTA-DLAILLVDARKGVLEQTRRHSYILSL-L-GIRHVVVAVNKMDLV-DYSEEVFEEIVADYLAFAAKLGIEDI 169 (208)
T ss_pred HHHhhhhC-CEEEEEEECCCCccHhHHHHHHHHHH-c-CCCcEEEEEEchhcc-cCCHHHHHHHHHHHHHHHHHcCCCCc
Confidence 33444544 44777778875212222222222222 2 123578899999986 221110 112333444445 3
Q ss_pred cEEEecCCCCCCHHH
Q 032001 86 KFFETSAKTNLNVEQ 100 (149)
Q Consensus 86 ~~~~~Sak~~~~i~e 100 (149)
+++.+||++|.|+.+
T Consensus 170 ~ii~iSA~~g~ni~~ 184 (208)
T cd04166 170 TFIPISALDGDNVVS 184 (208)
T ss_pred eEEEEeCCCCCCCcc
Confidence 589999999999875
No 238
>KOG0074 consensus GTP-binding ADP-ribosylation factor-like protein ARL3 [General function prediction only]
Probab=98.05 E-value=7.6e-06 Score=55.41 Aligned_cols=97 Identities=14% Similarity=0.102 Sum_probs=62.6
Q ss_pred cccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHH-hcCCCCeEEEEeeCCCCCcCCCCCCHHHHHH--HH--H
Q 032001 8 CFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQ-HASDNVNKVLVGNKADMDESKRAVPTSKGQA--LA--D 81 (149)
Q Consensus 8 ~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~-~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~--~~--~ 81 (149)
+-|.+|..||.+.+.+++++ |.++ .-|+.+..-+.++.. ..-..+|+.+.+||.|+. ....+. ..+.. ++ +
T Consensus 74 ~IRpyWsNYyenvd~lIyVI-DS~D~krfeE~~~el~ELleeeKl~~vpvlIfankQdll-taa~~e-eia~klnl~~lr 150 (185)
T KOG0074|consen 74 GIRPYWSNYYENVDGLIYVI-DSTDEKRFEEISEELVELLEEEKLAEVPVLIFANKQDLL-TAAKVE-EIALKLNLAGLR 150 (185)
T ss_pred ccchhhhhhhhccceEEEEE-eCCchHhHHHHHHHHHHHhhhhhhhccceeehhhhhHHH-hhcchH-HHHHhcchhhhh
Confidence 45789999999999965555 5555 677766544444433 222568999999999986 211111 11111 11 1
Q ss_pred HhCCcEEEecCCCCCCHHHHHHHHHH
Q 032001 82 EYGIKFFETSAKTNLNVEQVFFSIAR 107 (149)
Q Consensus 82 ~~~~~~~~~Sak~~~~i~el~~~l~~ 107 (149)
...+.+..+||.+++++.+-.+++..
T Consensus 151 dRswhIq~csals~eg~~dg~~wv~s 176 (185)
T KOG0074|consen 151 DRSWHIQECSALSLEGSTDGSDWVQS 176 (185)
T ss_pred hceEEeeeCccccccCccCcchhhhc
Confidence 11245678999999999988888765
No 239
>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=98.03 E-value=2.2e-06 Score=56.05 Aligned_cols=78 Identities=19% Similarity=0.207 Sum_probs=51.8
Q ss_pred cccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhCCcEE
Q 032001 10 IGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFF 88 (149)
Q Consensus 10 ~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~ 88 (149)
..+.+.+++..+. ++++|+.+. .+++.+ |...+......++|+++++||.|+. ......... +..++
T Consensus 37 ~~~~~~~~~s~~~-~~~v~~~~~~~s~~~~--~~~~i~~~~k~dl~~~~~~nk~dl~-~~~~~~~~~--------~~~~~ 104 (124)
T smart00010 37 DVYDPTSYESFDV-VLQCWRVDDRDSADNK--NVPEVLVGNKSDLPILVGGNRDVLE-EERQVATEE--------GLEFA 104 (124)
T ss_pred hhccccccCCCCE-EEEEEEccCHHHHHHH--hHHHHHhcCCCCCcEEEEeechhhH-hhCcCCHHH--------HHHHH
Confidence 3445666666665 577788886 777655 8877765444678999999999985 222222222 22355
Q ss_pred EecCCCCCCHH
Q 032001 89 ETSAKTNLNVE 99 (149)
Q Consensus 89 ~~Sak~~~~i~ 99 (149)
++|++++.|+.
T Consensus 105 ~~s~~~~~~~~ 115 (124)
T smart00010 105 ETSAKTPEEGE 115 (124)
T ss_pred HHhCCCcchhh
Confidence 67889999874
No 240
>PRK09563 rbgA GTPase YlqF; Reviewed
Probab=98.00 E-value=2.8e-05 Score=58.93 Aligned_cols=82 Identities=21% Similarity=0.240 Sum_probs=53.1
Q ss_pred cCeEEEEEeeCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHH---HHhCCcEEEecCCCCC
Q 032001 20 LCRFKYCTYKIASYHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALA---DEYGIKFFETSAKTNL 96 (149)
Q Consensus 20 ~~~~vi~v~~~~~~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~---~~~~~~~~~~Sak~~~ 96 (149)
..|++++|.|.... +.....++.++.. +.|+++|.||+|+. +. .....+. +..+.+++.+||+++.
T Consensus 24 ~aDvIL~VvDar~p-~~~~~~~l~~~~~----~kp~iiVlNK~DL~-~~-----~~~~~~~~~~~~~~~~vi~vSa~~~~ 92 (287)
T PRK09563 24 LVDVVIEVLDARIP-LSSENPMIDKIIG----NKPRLLILNKSDLA-DP-----EVTKKWIEYFEEQGIKALAINAKKGQ 92 (287)
T ss_pred hCCEEEEEEECCCC-CCCCChhHHHHhC----CCCEEEEEEchhcC-CH-----HHHHHHHHHHHHcCCeEEEEECCCcc
Confidence 34667888887531 1122233333322 57999999999986 21 1122222 2335678999999999
Q ss_pred CHHHHHHHHHHHHHHH
Q 032001 97 NVEQVFFSIARDIKQR 112 (149)
Q Consensus 97 ~i~el~~~l~~~i~~~ 112 (149)
|+++++..+.+.+.+.
T Consensus 93 gi~~L~~~l~~~l~~~ 108 (287)
T PRK09563 93 GVKKILKAAKKLLKEK 108 (287)
T ss_pred cHHHHHHHHHHHHHHH
Confidence 9999999998877654
No 241
>PF06858 NOG1: Nucleolar GTP-binding protein 1 (NOG1); InterPro: IPR010674 This domain represents a conserved region of approximately 60 residues in length within nucleolar GTP-binding protein 1 (NOG1). The NOG1 family includes eukaryotic, bacterial and archaeal proteins. In Saccharomyces cerevisiae, the NOG1 gene has been shown to be essential for cell viability, suggesting that NOG1 may play an important role in nucleolar functions. In particular, NOG1 is believed to be functionally linked to ribosome biogenesis, which occurs in the nucleolus. In eukaryotes, NOG1 mutants were found to disrupt the biogenesis of the 60S ribosomal subunit []. The DRG and OBG proteins as well as the prokaryotic NOG-like proteins are homologous throughout their length to the amino half of eukaryotic NOG1, which contains the GTP binding motifs (IPR006073 from INTERPRO); the N-terminal GTP-binding motif is required for function.; GO: 0005525 GTP binding; PDB: 2E87_A.
Probab=98.00 E-value=4e-05 Score=43.87 Aligned_cols=47 Identities=21% Similarity=0.184 Sum_probs=33.3
Q ss_pred hhhhcCeEEEEEeeCCh---hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCC
Q 032001 16 YLAVLCRFKYCTYKIAS---YHFSDIRNWIRNIEQHASDNVNKVLVGNKAD 63 (149)
Q Consensus 16 ~~~~~~~~vi~v~~~~~---~s~~~~~~~~~~i~~~~~~~~~iilv~nK~D 63 (149)
-++...++|++++|.+. .+.+.-.+++.+++... .+.|+++|.||+|
T Consensus 9 AL~hL~~~ilfi~D~Se~CGysie~Q~~L~~~ik~~F-~~~P~i~V~nK~D 58 (58)
T PF06858_consen 9 ALAHLADAILFIIDPSEQCGYSIEEQLSLFKEIKPLF-PNKPVIVVLNKID 58 (58)
T ss_dssp GGGGT-SEEEEEE-TT-TTSS-HHHHHHHHHHHHHHT-TTS-EEEEE--TT
T ss_pred HHHhhcceEEEEEcCCCCCCCCHHHHHHHHHHHHHHc-CCCCEEEEEeccC
Confidence 35567788999999985 57788888999998877 4789999999998
No 242
>cd04105 SR_beta Signal recognition particle receptor, beta subunit (SR-beta). SR-beta and SR-alpha form the heterodimeric signal recognition particle (SRP or SR) receptor that binds SRP to regulate protein translocation across the ER membrane. Nascent polypeptide chains are synthesized with an N-terminal hydrophobic signal sequence that binds SRP54, a component of the SRP. SRP directs targeting of the ribosome-nascent chain complex (RNC) to the ER membrane via interaction with the SR, which is localized to the ER membrane. The RNC is then transferred to the protein-conducting channel, or translocon, which facilitates polypeptide translation across the ER membrane or integration into the ER membrane. SR-beta is found only in eukaryotes; it is believed to control the release of the signal sequence from SRP54 upon binding of the ribosome to the translocon. High expression of SR-beta has been observed in human colon cancer, suggesting it may play a role in the development of this typ
Probab=97.99 E-value=2.9e-05 Score=55.88 Aligned_cols=61 Identities=11% Similarity=0.082 Sum_probs=44.2
Q ss_pred ccccccccchhhhhhcCeEEEEEeeCCh--hhHHHHHHHHHHHHHh---cCCCCeEEEEeeCCCCC
Q 032001 5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS--YHFSDIRNWIRNIEQH---ASDNVNKVLVGNKADMD 65 (149)
Q Consensus 5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~--~s~~~~~~~~~~i~~~---~~~~~~iilv~nK~Dl~ 65 (149)
|-++|+.++..||++..+++|+|+|..+ .++.....|+..+... ....+|+++++||+|+.
T Consensus 57 G~~~~~~~~~~~~~~~~~~vV~VvD~~~~~~~~~~~~~~l~~il~~~~~~~~~~pvliv~NK~Dl~ 122 (203)
T cd04105 57 GHPKLRDKLLETLKNSAKGIVFVVDSATFQKNLKDVAEFLYDILTDLEKVKNKIPVLIACNKQDLF 122 (203)
T ss_pred CCHHHHHHHHHHHhccCCEEEEEEECccchhHHHHHHHHHHHHHHHHhhccCCCCEEEEecchhhc
Confidence 4467888889999988344677777775 5677777676655332 22579999999999986
No 243
>cd04168 TetM_like Tet(M)-like subfamily. Tet(M), Tet(O), Tet(W), and OtrA are tetracycline resistance genes found in Gram-positive and Gram-negative bacteria. Tetracyclines inhibit protein synthesis by preventing aminoacyl-tRNA from binding to the ribosomal acceptor site. This subfamily contains tetracycline resistance proteins that function through ribosomal protection and are typically found on mobile genetic elements, such as transposons or plasmids, and are often conjugative. Ribosomal protection proteins are homologous to the elongation factors EF-Tu and EF-G. EF-G and Tet(M) compete for binding on the ribosomes. Tet(M) has a higher affinity than EF-G, suggesting these two proteins may have overlapping binding sites and that Tet(M) must be released before EF-G can bind. Tet(M) and Tet(O) have been shown to have ribosome-dependent GTPase activity. These proteins are part of the GTP translation factor family, which includes EF-G, EF-Tu, EF2, LepA, and SelB.
Probab=97.99 E-value=8.7e-05 Score=54.79 Aligned_cols=54 Identities=20% Similarity=0.189 Sum_probs=37.5
Q ss_pred ccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCC
Q 032001 7 LCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMD 65 (149)
Q Consensus 7 ~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~ 65 (149)
..|...+..+++.++. +++|+|..+ .. .....|+..+.. .++|+++++||+|+.
T Consensus 75 ~~f~~~~~~~l~~aD~-~IlVvd~~~g~~-~~~~~~~~~~~~---~~~P~iivvNK~D~~ 129 (237)
T cd04168 75 MDFIAEVERSLSVLDG-AILVISAVEGVQ-AQTRILWRLLRK---LNIPTIIFVNKIDRA 129 (237)
T ss_pred cchHHHHHHHHHHhCe-EEEEEeCCCCCC-HHHHHHHHHHHH---cCCCEEEEEECcccc
Confidence 4566677788888766 566667775 32 344556665554 368999999999985
No 244
>KOG1145 consensus Mitochondrial translation initiation factor 2 (IF-2; GTPase) [Translation, ribosomal structure and biogenesis]
Probab=97.95 E-value=0.00019 Score=58.40 Aligned_cols=99 Identities=17% Similarity=0.146 Sum_probs=57.8
Q ss_pred cCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHH-HHH------HHhC--CcEEE
Q 032001 20 LCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQ-ALA------DEYG--IKFFE 89 (149)
Q Consensus 20 ~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~-~~~------~~~~--~~~~~ 89 (149)
..|++++|+..++ -.....+. +..++. .++|+|+..||+|.++.+ .+... ++. +.+| ..+++
T Consensus 224 vtDIvVLVVAadDGVmpQT~Ea-IkhAk~---A~VpiVvAinKiDkp~a~----pekv~~eL~~~gi~~E~~GGdVQvip 295 (683)
T KOG1145|consen 224 VTDIVVLVVAADDGVMPQTLEA-IKHAKS---ANVPIVVAINKIDKPGAN----PEKVKRELLSQGIVVEDLGGDVQVIP 295 (683)
T ss_pred cccEEEEEEEccCCccHhHHHH-HHHHHh---cCCCEEEEEeccCCCCCC----HHHHHHHHHHcCccHHHcCCceeEEE
Confidence 4467777778876 22222222 222233 579999999999976221 22222 221 2333 57899
Q ss_pred ecCCCCCCHHHHHHHHHHHHHHHhcCC-CCCCCCCcccc
Q 032001 90 TSAKTNLNVEQVFFSIARDIKQRLADT-DSRSEPSTIKI 127 (149)
Q Consensus 90 ~Sak~~~~i~el~~~l~~~i~~~~~~~-~~~~~~~~~~~ 127 (149)
+||++|.|++.|.+.+.-.. +.++-. .+...-+++-+
T Consensus 296 iSAl~g~nl~~L~eaill~A-e~mdLkA~p~g~~eg~VI 333 (683)
T KOG1145|consen 296 ISALTGENLDLLEEAILLLA-EVMDLKADPKGPAEGWVI 333 (683)
T ss_pred eecccCCChHHHHHHHHHHH-HHhhcccCCCCCceEEEE
Confidence 99999999999888887533 333333 33333344333
No 245
>TIGR00073 hypB hydrogenase accessory protein HypB. HypB is implicated in insertion of nickel into the large subunit of NiFe hydrogenases.
Probab=97.95 E-value=2.1e-05 Score=56.70 Aligned_cols=55 Identities=20% Similarity=0.154 Sum_probs=39.1
Q ss_pred CeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhC--CcEEEecCCCCCCHHHHHHHHHHH
Q 032001 53 VNKVLVGNKADMDESKRAVPTSKGQALADEYG--IKFFETSAKTNLNVEQVFFSIARD 108 (149)
Q Consensus 53 ~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~--~~~~~~Sak~~~~i~el~~~l~~~ 108 (149)
.+.++++||+|+. +.............+..+ .+++.+||++|.|++++|+++.+.
T Consensus 149 ~a~iiv~NK~Dl~-~~~~~~~~~~~~~l~~~~~~~~i~~~Sa~~g~gv~~l~~~i~~~ 205 (207)
T TIGR00073 149 EADLIVINKADLA-EAVGFDVEKMKADAKKINPEAEIILMSLKTGEGLDEWLEFLEGQ 205 (207)
T ss_pred hCCEEEEEHHHcc-ccchhhHHHHHHHHHHhCCCCCEEEEECCCCCCHHHHHHHHHHh
Confidence 5679999999997 322112223333333333 789999999999999999999874
No 246
>PRK12736 elongation factor Tu; Reviewed
Probab=97.94 E-value=5.2e-05 Score=59.94 Aligned_cols=86 Identities=19% Similarity=0.132 Sum_probs=49.4
Q ss_pred CeEEEEEeeCChhhHHHHHHHHHHHHHhcCCCCe-EEEEeeCCCCCcCCCCCC---HHHHHHHHHHhC-----CcEEEec
Q 032001 21 CRFKYCTYKIASYHFSDIRNWIRNIEQHASDNVN-KVLVGNKADMDESKRAVP---TSKGQALADEYG-----IKFFETS 91 (149)
Q Consensus 21 ~~~vi~v~~~~~~s~~~~~~~~~~i~~~~~~~~~-iilv~nK~Dl~~~~~~~~---~~~~~~~~~~~~-----~~~~~~S 91 (149)
.+++++|+|.+..........+..+.. .++| +|++.||+|+. +..... ..+...+....+ .+++++|
T Consensus 99 ~d~~llVvd~~~g~~~~t~~~~~~~~~---~g~~~~IvviNK~D~~-~~~~~~~~i~~~i~~~l~~~~~~~~~~~ii~vS 174 (394)
T PRK12736 99 MDGAILVVAATDGPMPQTREHILLARQ---VGVPYLVVFLNKVDLV-DDEELLELVEMEVRELLSEYDFPGDDIPVIRGS 174 (394)
T ss_pred CCEEEEEEECCCCCchhHHHHHHHHHH---cCCCEEEEEEEecCCc-chHHHHHHHHHHHHHHHHHhCCCcCCccEEEee
Confidence 466788888875212223333333443 2467 67889999986 322111 112333444443 4799999
Q ss_pred CCCCC--------CHHHHHHHHHHHHH
Q 032001 92 AKTNL--------NVEQVFFSIARDIK 110 (149)
Q Consensus 92 ak~~~--------~i~el~~~l~~~i~ 110 (149)
|++|. ++.++++.+.+.++
T Consensus 175 a~~g~~~~~~~~~~i~~Ll~~l~~~lp 201 (394)
T PRK12736 175 ALKALEGDPKWEDAIMELMDAVDEYIP 201 (394)
T ss_pred ccccccCCCcchhhHHHHHHHHHHhCC
Confidence 99983 46666666665543
No 247
>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=97.90 E-value=0.00013 Score=52.29 Aligned_cols=74 Identities=20% Similarity=0.125 Sum_probs=42.3
Q ss_pred CeEEEEEeeCChhhHHHHHHHHHHHHHhcCCCCe-EEEEeeCCCCCcCCCCCCH---HHHHHHHHHhC-----CcEEEec
Q 032001 21 CRFKYCTYKIASYHFSDIRNWIRNIEQHASDNVN-KVLVGNKADMDESKRAVPT---SKGQALADEYG-----IKFFETS 91 (149)
Q Consensus 21 ~~~vi~v~~~~~~s~~~~~~~~~~i~~~~~~~~~-iilv~nK~Dl~~~~~~~~~---~~~~~~~~~~~-----~~~~~~S 91 (149)
.+++++|.|.+..--......+..+.. .++| +|++.||+|+. ....... .+...+....+ ++++++|
T Consensus 89 ~D~~ilVvda~~g~~~~~~~~~~~~~~---~~~~~iIvviNK~D~~-~~~~~~~~~~~~i~~~l~~~g~~~~~v~iipiS 164 (195)
T cd01884 89 MDGAILVVSATDGPMPQTREHLLLARQ---VGVPYIVVFLNKADMV-DDEELLELVEMEVRELLSKYGFDGDNTPIVRGS 164 (195)
T ss_pred CCEEEEEEECCCCCcHHHHHHHHHHHH---cCCCcEEEEEeCCCCC-CcHHHHHHHHHHHHHHHHHhcccccCCeEEEee
Confidence 455677778775211223333344444 2455 78899999986 2221111 12333344333 5799999
Q ss_pred CCCCCCH
Q 032001 92 AKTNLNV 98 (149)
Q Consensus 92 ak~~~~i 98 (149)
|++|.|+
T Consensus 165 a~~g~n~ 171 (195)
T cd01884 165 ALKALEG 171 (195)
T ss_pred CccccCC
Confidence 9999985
No 248
>COG1084 Predicted GTPase [General function prediction only]
Probab=97.88 E-value=7.8e-05 Score=57.00 Aligned_cols=88 Identities=16% Similarity=0.164 Sum_probs=63.0
Q ss_pred hhhcCeEEEEEeeCCh---hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHH-hCCcEEEecC
Q 032001 17 LAVLCRFKYCTYKIAS---YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADE-YGIKFFETSA 92 (149)
Q Consensus 17 ~~~~~~~vi~v~~~~~---~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~-~~~~~~~~Sa 92 (149)
++...++|+++||.+. .+.+.-.+++++++.... .|+++|.||+|+. +.. ..+++...... .+.....+++
T Consensus 244 L~hl~~~IlF~~D~Se~cgy~lE~Q~~L~~eIk~~f~--~p~v~V~nK~D~~-~~e--~~~~~~~~~~~~~~~~~~~~~~ 318 (346)
T COG1084 244 LRHLAGVILFLFDPSETCGYSLEEQISLLEEIKELFK--APIVVVINKIDIA-DEE--KLEEIEASVLEEGGEEPLKISA 318 (346)
T ss_pred HHHhcCeEEEEEcCccccCCCHHHHHHHHHHHHHhcC--CCeEEEEeccccc-chh--HHHHHHHHHHhhccccccceee
Confidence 4567888999999985 577888889999988773 8999999999987 211 22233333333 3345677888
Q ss_pred CCCCCHHHHHHHHHHHH
Q 032001 93 KTNLNVEQVFFSIARDI 109 (149)
Q Consensus 93 k~~~~i~el~~~l~~~i 109 (149)
..+.+++.+...+....
T Consensus 319 ~~~~~~d~~~~~v~~~a 335 (346)
T COG1084 319 TKGCGLDKLREEVRKTA 335 (346)
T ss_pred eehhhHHHHHHHHHHHh
Confidence 88888887777666653
No 249
>COG0486 ThdF Predicted GTPase [General function prediction only]
Probab=97.87 E-value=6.9e-05 Score=59.61 Aligned_cols=81 Identities=16% Similarity=-0.012 Sum_probs=53.8
Q ss_pred cCeEEEEEeeCChh--hHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhCCcEEEecCCCCCC
Q 032001 20 LCRFKYCTYKIASY--HFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKTNLN 97 (149)
Q Consensus 20 ~~~~vi~v~~~~~~--s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~Sak~~~~ 97 (149)
.+|.+++|+|.+.. ..+....| ....+.|+++|.||.||. .... ........+.+++.+||++|.|
T Consensus 296 ~ADlvL~v~D~~~~~~~~d~~~~~------~~~~~~~~i~v~NK~DL~-~~~~-----~~~~~~~~~~~~i~iSa~t~~G 363 (454)
T COG0486 296 EADLVLFVLDASQPLDKEDLALIE------LLPKKKPIIVVLNKADLV-SKIE-----LESEKLANGDAIISISAKTGEG 363 (454)
T ss_pred hCCEEEEEEeCCCCCchhhHHHHH------hcccCCCEEEEEechhcc-cccc-----cchhhccCCCceEEEEecCccC
Confidence 45678888888852 22222222 222578999999999998 3211 1111112344689999999999
Q ss_pred HHHHHHHHHHHHHHH
Q 032001 98 VEQVFFSIARDIKQR 112 (149)
Q Consensus 98 i~el~~~l~~~i~~~ 112 (149)
++.|.+.|.+.+...
T Consensus 364 l~~L~~~i~~~~~~~ 378 (454)
T COG0486 364 LDALREAIKQLFGKG 378 (454)
T ss_pred HHHHHHHHHHHHhhc
Confidence 999999999877654
No 250
>PLN00043 elongation factor 1-alpha; Provisional
Probab=97.81 E-value=3.7e-05 Score=61.78 Aligned_cols=89 Identities=15% Similarity=0.019 Sum_probs=52.1
Q ss_pred ccccccchhhhhhcCeEEEEEeeCChhhHH-------HHHHHHHHHHHhcCCCC-eEEEEeeCCCCCcCCC--CC----C
Q 032001 7 LCFIGVYPPYLAVLCRFKYCTYKIASYHFS-------DIRNWIRNIEQHASDNV-NKVLVGNKADMDESKR--AV----P 72 (149)
Q Consensus 7 ~~~~~~~~~~~~~~~~~vi~v~~~~~~s~~-------~~~~~~~~i~~~~~~~~-~iilv~nK~Dl~~~~~--~~----~ 72 (149)
++|...+...++.++. +++|+|.++..|+ .....+..+.. .++ ++|++.||+|+. +.. .. .
T Consensus 96 ~df~~~~~~g~~~aD~-aIlVVda~~G~~e~g~~~~~qT~eh~~~~~~---~gi~~iIV~vNKmD~~-~~~~~~~~~~~i 170 (447)
T PLN00043 96 RDFIKNMITGTSQADC-AVLIIDSTTGGFEAGISKDGQTREHALLAFT---LGVKQMICCCNKMDAT-TPKYSKARYDEI 170 (447)
T ss_pred HHHHHHHHhhhhhccE-EEEEEEcccCceecccCCCchHHHHHHHHHH---cCCCcEEEEEEcccCC-chhhhHHHHHHH
Confidence 4566666666665555 5667788754443 22222222222 346 578899999975 111 10 1
Q ss_pred HHHHHHHHHHhC-----CcEEEecCCCCCCHHH
Q 032001 73 TSKGQALADEYG-----IKFFETSAKTNLNVEQ 100 (149)
Q Consensus 73 ~~~~~~~~~~~~-----~~~~~~Sak~~~~i~e 100 (149)
..++..++...+ ++++++||.+|.|+.+
T Consensus 171 ~~ei~~~l~~~g~~~~~~~~ipiSa~~G~ni~~ 203 (447)
T PLN00043 171 VKEVSSYLKKVGYNPDKIPFVPISGFEGDNMIE 203 (447)
T ss_pred HHHHHHHHHHcCCCcccceEEEEeccccccccc
Confidence 223444555555 5799999999999854
No 251
>cd01896 DRG The developmentally regulated GTP-binding protein (DRG) subfamily is an uncharacterized member of the Obg family, an evolutionary branch of GTPase superfamily proteins. GTPases act as molecular switches regulating diverse cellular processes. DRG2 and DRG1 comprise the DRG subfamily in eukaryotes. In view of their widespread expression in various tissues and high conservation among distantly related species in eukaryotes and archaea, DRG proteins may regulate fundamental cellular processes. It is proposed that the DRG subfamily proteins play their physiological roles through RNA binding.
Probab=97.80 E-value=9.6e-05 Score=54.38 Aligned_cols=50 Identities=24% Similarity=0.159 Sum_probs=38.1
Q ss_pred CCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhCCcEEEecCCCCCCHHHHHHHHHHHH
Q 032001 52 NVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKTNLNVEQVFFSIARDI 109 (149)
Q Consensus 52 ~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~Sak~~~~i~el~~~l~~~i 109 (149)
-+|+++|+||+|+. . ..+...++. ..+++++||++|.|++++|+.+.+.+
T Consensus 176 y~p~iiV~NK~Dl~-~-----~~~~~~~~~--~~~~~~~SA~~g~gi~~l~~~i~~~L 225 (233)
T cd01896 176 YIPCLYVYNKIDLI-S-----IEELDLLAR--QPNSVVISAEKGLNLDELKERIWDKL 225 (233)
T ss_pred EeeEEEEEECccCC-C-----HHHHHHHhc--CCCEEEEcCCCCCCHHHHHHHHHHHh
Confidence 37999999999986 2 233333433 23589999999999999999998754
No 252
>PTZ00327 eukaryotic translation initiation factor 2 gamma subunit; Provisional
Probab=97.77 E-value=0.00013 Score=58.80 Aligned_cols=86 Identities=12% Similarity=0.072 Sum_probs=50.6
Q ss_pred CeEEEEEeeCCh--hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCC--HHHHHHHHHH---hCCcEEEecCC
Q 032001 21 CRFKYCTYKIAS--YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVP--TSKGQALADE---YGIKFFETSAK 93 (149)
Q Consensus 21 ~~~vi~v~~~~~--~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~--~~~~~~~~~~---~~~~~~~~Sak 93 (149)
.|++++|.|.++ .......++ ..+.. . .-.++|+|.||+|+. +..... ..+...+... ...+++.+||+
T Consensus 141 ~D~alLVVda~~g~~~~qT~ehl-~i~~~-l-gi~~iIVvlNKiDlv-~~~~~~~~~~ei~~~l~~~~~~~~~iipVSA~ 216 (460)
T PTZ00327 141 MDAALLLIAANESCPQPQTSEHL-AAVEI-M-KLKHIIILQNKIDLV-KEAQAQDQYEEIRNFVKGTIADNAPIIPISAQ 216 (460)
T ss_pred CCEEEEEEECCCCccchhhHHHH-HHHHH-c-CCCcEEEEEeccccc-CHHHHHHHHHHHHHHHHhhccCCCeEEEeeCC
Confidence 355677778874 122222333 22222 2 124689999999987 211111 1122222222 24689999999
Q ss_pred CCCCHHHHHHHHHHHHH
Q 032001 94 TNLNVEQVFFSIARDIK 110 (149)
Q Consensus 94 ~~~~i~el~~~l~~~i~ 110 (149)
+|.|++.|++.|.+.++
T Consensus 217 ~G~nI~~Ll~~L~~~lp 233 (460)
T PTZ00327 217 LKYNIDVVLEYICTQIP 233 (460)
T ss_pred CCCCHHHHHHHHHhhCC
Confidence 99999999999887554
No 253
>cd01883 EF1_alpha Eukaryotic elongation factor 1 (EF1) alpha subfamily. EF1 is responsible for the GTP-dependent binding of aminoacyl-tRNAs to the ribosomes. EF1 is composed of four subunits: the alpha chain which binds GTP and aminoacyl-tRNAs, the gamma chain that probably plays a role in anchoring the complex to other cellular components and the beta and delta (or beta') chains. This subfamily is the alpha subunit, and represents the counterpart of bacterial EF-Tu for the archaea (aEF1-alpha) and eukaryotes (eEF1-alpha). eEF1-alpha interacts with the actin of the eukaryotic cytoskeleton and may thereby play a role in cellular transformation and apoptosis. EF-Tu can have no such role in bacteria. In humans, the isoform eEF1A2 is overexpressed in 2/3 of breast cancers and has been identified as a putative oncogene. This subfamily also includes Hbs1, a G protein known to be important for efficient growth and protein synthesis under conditions of limiting translation initiation in
Probab=97.74 E-value=4.3e-05 Score=55.57 Aligned_cols=47 Identities=17% Similarity=0.116 Sum_probs=29.0
Q ss_pred CeEEEEeeCCCCCcCC-CCCCHH----HHHHHHHHhC-----CcEEEecCCCCCCHH
Q 032001 53 VNKVLVGNKADMDESK-RAVPTS----KGQALADEYG-----IKFFETSAKTNLNVE 99 (149)
Q Consensus 53 ~~iilv~nK~Dl~~~~-~~~~~~----~~~~~~~~~~-----~~~~~~Sak~~~~i~ 99 (149)
.|+++++||+|+.... ...... .+..+....+ .+++++||++|.|++
T Consensus 138 ~~iiivvNK~Dl~~~~~~~~~~~~i~~~l~~~l~~~~~~~~~~~ii~iSA~tg~gi~ 194 (219)
T cd01883 138 KQLIVAVNKMDDVTVNWSEERYDEIKKELSPFLKKVGYNPKDVPFIPISGLTGDNLI 194 (219)
T ss_pred CeEEEEEEccccccccccHHHHHHHHHHHHHHHHHcCCCcCCceEEEeecCcCCCCC
Confidence 6899999999986110 110011 1222233332 569999999999986
No 254
>COG0218 Predicted GTPase [General function prediction only]
Probab=97.70 E-value=0.00022 Score=51.04 Aligned_cols=101 Identities=14% Similarity=-0.015 Sum_probs=59.4
Q ss_pred cccccccchhhhhhcC--eEEEEEeeCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHh
Q 032001 6 CLCFIGVYPPYLAVLC--RFKYCTYKIASYHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEY 83 (149)
Q Consensus 6 ~~~~~~~~~~~~~~~~--~~vi~v~~~~~~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~ 83 (149)
.+++..+...|+..-. .+++++.|.....-+....+++-+.+ .++|+++|+||+|.. ... .....+...++..
T Consensus 90 ~e~w~~~i~~YL~~R~~L~~vvlliD~r~~~~~~D~em~~~l~~---~~i~~~vv~tK~DKi-~~~-~~~k~l~~v~~~l 164 (200)
T COG0218 90 KEKWKKLIEEYLEKRANLKGVVLLIDARHPPKDLDREMIEFLLE---LGIPVIVVLTKADKL-KKS-ERNKQLNKVAEEL 164 (200)
T ss_pred HHHHHHHHHHHHhhchhheEEEEEEECCCCCcHHHHHHHHHHHH---cCCCeEEEEEccccC-Chh-HHHHHHHHHHHHh
Confidence 3455567777877633 33555556664111212233333443 469999999999977 211 1112223333322
Q ss_pred ----CC--cEEEecCCCCCCHHHHHHHHHHHHHH
Q 032001 84 ----GI--KFFETSAKTNLNVEQVFFSIARDIKQ 111 (149)
Q Consensus 84 ----~~--~~~~~Sak~~~~i~el~~~l~~~i~~ 111 (149)
.. .++..|+.++.|++++...|.+.+.+
T Consensus 165 ~~~~~~~~~~~~~ss~~k~Gi~~l~~~i~~~~~~ 198 (200)
T COG0218 165 KKPPPDDQWVVLFSSLKKKGIDELKAKILEWLKE 198 (200)
T ss_pred cCCCCccceEEEEecccccCHHHHHHHHHHHhhc
Confidence 12 27788999999999999998876643
No 255
>PRK00741 prfC peptide chain release factor 3; Provisional
Probab=97.69 E-value=0.00034 Score=57.32 Aligned_cols=29 Identities=17% Similarity=0.092 Sum_probs=25.8
Q ss_pred CcEEEecCCCCCCHHHHHHHHHHHHHHHh
Q 032001 85 IKFFETSAKTNLNVEQVFFSIARDIKQRL 113 (149)
Q Consensus 85 ~~~~~~Sak~~~~i~el~~~l~~~i~~~~ 113 (149)
+|+|..||.++.||.+|++.+++.++...
T Consensus 249 ~PV~~GSA~~n~Gv~~LLd~i~~~~P~P~ 277 (526)
T PRK00741 249 TPVFFGSALNNFGVQEFLDAFVEWAPAPQ 277 (526)
T ss_pred EEEEEeecccCcCHHHHHHHHHHHCCCCC
Confidence 47999999999999999999999987653
No 256
>KOG0077 consensus Vesicle coat complex COPII, GTPase subunit SAR1 [Intracellular trafficking, secretion, and vesicular transport]
Probab=97.66 E-value=0.00011 Score=51.14 Aligned_cols=96 Identities=14% Similarity=0.168 Sum_probs=60.8
Q ss_pred cccchhhhhhcCeEEEEEeeCChhhHHHHHHHHHHHHHhc-CCCCeEEEEeeCCCCCcCCCCCCHHHHHHH---HHH---
Q 032001 10 IGVYPPYLAVLCRFKYCTYKIASYHFSDIRNWIRNIEQHA-SDNVNKVLVGNKADMDESKRAVPTSKGQAL---ADE--- 82 (149)
Q Consensus 10 ~~~~~~~~~~~~~~vi~v~~~~~~s~~~~~~~~~~i~~~~-~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~---~~~--- 82 (149)
+..|..||..++++|++|...+.+.|.....-++.+...- -.++|+++.+||+|.+ . -..+++.... .+.
T Consensus 78 rr~wkdyf~~v~~iv~lvda~d~er~~es~~eld~ll~~e~la~vp~lilgnKId~p-~--a~se~~l~~~l~l~~~t~~ 154 (193)
T KOG0077|consen 78 RRVWKDYFPQVDAIVYLVDAYDQERFAESKKELDALLSDESLATVPFLILGNKIDIP-Y--AASEDELRFHLGLSNFTTG 154 (193)
T ss_pred HHHHHHHHhhhceeEeeeehhhHHHhHHHHHHHHHHHhHHHHhcCcceeecccccCC-C--cccHHHHHHHHHHHHHhcc
Confidence 4578999999998766664444477777665555544321 1579999999999987 2 2233332211 111
Q ss_pred --------hC---CcEEEecCCCCCCHHHHHHHHHHH
Q 032001 83 --------YG---IKFFETSAKTNLNVEQVFFSIARD 108 (149)
Q Consensus 83 --------~~---~~~~~~Sak~~~~i~el~~~l~~~ 108 (149)
.+ +.+|.+|...+.+--+.|.++...
T Consensus 155 ~~~v~~~~~~~rp~evfmcsi~~~~gy~e~fkwl~qy 191 (193)
T KOG0077|consen 155 KGKVNLTDSNVRPLEVFMCSIVRKMGYGEGFKWLSQY 191 (193)
T ss_pred cccccccCCCCCeEEEEEEEEEccCccceeeeehhhh
Confidence 01 236788888888777777777653
No 257
>TIGR00485 EF-Tu translation elongation factor TU. This alignment models orthologs of translation elongation factor EF-Tu in bacteria, mitochondria, and chloroplasts, one of several GTP-binding translation factors found by the more general pfam model GTP_EFTU. The eukaryotic conterpart, eukaryotic translation elongation factor 1 (eEF-1 alpha), is excluded from this model. EF-Tu is one of the most abundant proteins in bacteria, as well as one of the most highly conserved, and in a number of species the gene is duplicated with identical function. When bound to GTP, EF-Tu can form a complex with any (correctly) aminoacylated tRNA except those for initiation and for selenocysteine, in which case EF-Tu is replaced by other factors. Transfer RNA is carried to the ribosome in these complexes for protein translation.
Probab=97.65 E-value=0.00029 Score=55.72 Aligned_cols=79 Identities=19% Similarity=0.099 Sum_probs=43.7
Q ss_pred hhhhhhc--CeEEEEEeeCChhhHHHHHHHHHHHHHhcCCCCeE-EEEeeCCCCCcCCCCCC---HHHHHHHHHHhC---
Q 032001 14 PPYLAVL--CRFKYCTYKIASYHFSDIRNWIRNIEQHASDNVNK-VLVGNKADMDESKRAVP---TSKGQALADEYG--- 84 (149)
Q Consensus 14 ~~~~~~~--~~~vi~v~~~~~~s~~~~~~~~~~i~~~~~~~~~i-ilv~nK~Dl~~~~~~~~---~~~~~~~~~~~~--- 84 (149)
..++++. .+++++|+|.+..........+..+.. .++|. |++.||+|+. +..... ..+...++...+
T Consensus 90 ~~~~~~~~~~D~~ilVvda~~g~~~qt~e~l~~~~~---~gi~~iIvvvNK~Dl~-~~~~~~~~~~~~i~~~l~~~~~~~ 165 (394)
T TIGR00485 90 KNMITGAAQMDGAILVVSATDGPMPQTREHILLARQ---VGVPYIVVFLNKCDMV-DDEELLELVEMEVRELLSEYDFPG 165 (394)
T ss_pred HHHHHHHhhCCEEEEEEECCCCCcHHHHHHHHHHHH---cCCCEEEEEEEecccC-CHHHHHHHHHHHHHHHHHhcCCCc
Confidence 4444443 355777888875112222233333433 24664 5689999987 321111 123444555544
Q ss_pred --CcEEEecCCCCC
Q 032001 85 --IKFFETSAKTNL 96 (149)
Q Consensus 85 --~~~~~~Sak~~~ 96 (149)
++++++||++|.
T Consensus 166 ~~~~ii~vSa~~g~ 179 (394)
T TIGR00485 166 DDTPIIRGSALKAL 179 (394)
T ss_pred cCccEEECcccccc
Confidence 689999999885
No 258
>cd04167 Snu114p Snu114p subfamily. Snu114p is one of several proteins that make up the U5 small nuclear ribonucleoprotein (snRNP) particle. U5 is a component of the spliceosome, which catalyzes the splicing of pre-mRNA to remove introns. Snu114p is homologous to EF-2, but typically contains an additional N-terminal domain not found in Ef-2. This protein is part of the GTP translation factor family and the Ras superfamily, characterized by five G-box motifs.
Probab=97.64 E-value=0.00049 Score=49.72 Aligned_cols=54 Identities=19% Similarity=0.105 Sum_probs=35.9
Q ss_pred ccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCC
Q 032001 7 LCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMD 65 (149)
Q Consensus 7 ~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~ 65 (149)
+.|...+..++..++. +++|+|... .++. ...|+..+.. .++|+++|+||+|+.
T Consensus 82 ~~f~~~~~~~~~~aD~-~llVvD~~~~~~~~-~~~~~~~~~~---~~~p~iiviNK~D~~ 136 (213)
T cd04167 82 VNFMDEVAAALRLSDG-VVLVVDVVEGVTSN-TERLIRHAIL---EGLPIVLVINKIDRL 136 (213)
T ss_pred cchHHHHHHHHHhCCE-EEEEEECCCCCCHH-HHHHHHHHHH---cCCCEEEEEECcccC
Confidence 3466666777776666 677778875 4443 3455555443 358999999999974
No 259
>PRK13351 elongation factor G; Reviewed
Probab=97.57 E-value=0.00057 Score=57.77 Aligned_cols=54 Identities=19% Similarity=0.257 Sum_probs=37.5
Q ss_pred ccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCC
Q 032001 7 LCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMD 65 (149)
Q Consensus 7 ~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~ 65 (149)
..|...+..+++.++. +++|+|.+. ..+.....| ..+.. .++|+++++||+|+.
T Consensus 84 ~df~~~~~~~l~~aD~-~ilVvd~~~~~~~~~~~~~-~~~~~---~~~p~iiviNK~D~~ 138 (687)
T PRK13351 84 IDFTGEVERSLRVLDG-AVVVFDAVTGVQPQTETVW-RQADR---YGIPRLIFINKMDRV 138 (687)
T ss_pred HHHHHHHHHHHHhCCE-EEEEEeCCCCCCHHHHHHH-HHHHh---cCCCEEEEEECCCCC
Confidence 3466677788887766 566778876 555555555 33443 368999999999986
No 260
>KOG1490 consensus GTP-binding protein CRFG/NOG1 (ODN superfamily) [General function prediction only]
Probab=97.52 E-value=0.00067 Score=54.73 Aligned_cols=92 Identities=18% Similarity=0.137 Sum_probs=65.9
Q ss_pred hhcCeEEEEEeeCCh---hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHH---HHHHHHHhCCcEEEec
Q 032001 18 AVLCRFKYCTYKIAS---YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSK---GQALADEYGIKFFETS 91 (149)
Q Consensus 18 ~~~~~~vi~v~~~~~---~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~---~~~~~~~~~~~~~~~S 91 (149)
+..-.+|+++.|++. .|...-.+++..|+... .+.|+|+|.||+|+. ....+.... ...+....+++++.+|
T Consensus 245 AHLraaVLYfmDLSe~CGySva~QvkLfhsIKpLF-aNK~~IlvlNK~D~m-~~edL~~~~~~ll~~~~~~~~v~v~~tS 322 (620)
T KOG1490|consen 245 AHLRSAVLYFMDLSEMCGYSVAAQVKLYHSIKPLF-ANKVTILVLNKIDAM-RPEDLDQKNQELLQTIIDDGNVKVVQTS 322 (620)
T ss_pred HHhhhhheeeeechhhhCCCHHHHHHHHHHhHHHh-cCCceEEEeeccccc-CccccCHHHHHHHHHHHhccCceEEEec
Confidence 344556888889985 57777778888888766 578999999999986 322222222 2223333447899999
Q ss_pred CCCCCCHHHHHHHHHHHHHH
Q 032001 92 AKTNLNVEQVFFSIARDIKQ 111 (149)
Q Consensus 92 ak~~~~i~el~~~l~~~i~~ 111 (149)
..+.+||.++.....+.+..
T Consensus 323 ~~~eegVm~Vrt~ACe~LLa 342 (620)
T KOG1490|consen 323 CVQEEGVMDVRTTACEALLA 342 (620)
T ss_pred ccchhceeeHHHHHHHHHHH
Confidence 99999999998887776653
No 261
>PRK12735 elongation factor Tu; Reviewed
Probab=97.52 E-value=0.00052 Score=54.37 Aligned_cols=85 Identities=18% Similarity=0.126 Sum_probs=48.9
Q ss_pred CeEEEEEeeCChhhHHHHHHHHHHHHHhcCCCCeEE-EEeeCCCCCcCCCCCC---HHHHHHHHHHhC-----CcEEEec
Q 032001 21 CRFKYCTYKIASYHFSDIRNWIRNIEQHASDNVNKV-LVGNKADMDESKRAVP---TSKGQALADEYG-----IKFFETS 91 (149)
Q Consensus 21 ~~~vi~v~~~~~~s~~~~~~~~~~i~~~~~~~~~ii-lv~nK~Dl~~~~~~~~---~~~~~~~~~~~~-----~~~~~~S 91 (149)
.|++++|+|.......+....+..+.. .++|.+ ++.||+|+. +..... ..++..+....+ .+++++|
T Consensus 99 aD~~llVvda~~g~~~qt~e~l~~~~~---~gi~~iivvvNK~Dl~-~~~~~~~~~~~ei~~~l~~~~~~~~~~~ii~~S 174 (396)
T PRK12735 99 MDGAILVVSAADGPMPQTREHILLARQ---VGVPYIVVFLNKCDMV-DDEELLELVEMEVRELLSKYDFPGDDTPIIRGS 174 (396)
T ss_pred CCEEEEEEECCCCCchhHHHHHHHHHH---cCCCeEEEEEEecCCc-chHHHHHHHHHHHHHHHHHcCCCcCceeEEecc
Confidence 355777888875212233333344443 346754 679999986 321111 113334444432 5789999
Q ss_pred CCCCC----------CHHHHHHHHHHHH
Q 032001 92 AKTNL----------NVEQVFFSIARDI 109 (149)
Q Consensus 92 ak~~~----------~i~el~~~l~~~i 109 (149)
|++|. ++.+|++.|...+
T Consensus 175 a~~g~n~~~~~~w~~~~~~Ll~~l~~~~ 202 (396)
T PRK12735 175 ALKALEGDDDEEWEAKILELMDAVDSYI 202 (396)
T ss_pred hhccccCCCCCcccccHHHHHHHHHhcC
Confidence 99984 5667777776654
No 262
>PRK12740 elongation factor G; Reviewed
Probab=97.49 E-value=0.00075 Score=56.85 Aligned_cols=29 Identities=21% Similarity=0.264 Sum_probs=25.4
Q ss_pred CcEEEecCCCCCCHHHHHHHHHHHHHHHh
Q 032001 85 IKFFETSAKTNLNVEQVFFSIARDIKQRL 113 (149)
Q Consensus 85 ~~~~~~Sak~~~~i~el~~~l~~~i~~~~ 113 (149)
+|++..||++|.|++.|++.+...++...
T Consensus 237 ~Pv~~gSA~~~~Gv~~LLd~i~~~lPsp~ 265 (668)
T PRK12740 237 VPVFCGSALKNKGVQRLLDAVVDYLPSPL 265 (668)
T ss_pred EEEEeccccCCccHHHHHHHHHHHCCChh
Confidence 46889999999999999999999887653
No 263
>COG0370 FeoB Fe2+ transport system protein B [Inorganic ion transport and metabolism]
Probab=97.48 E-value=0.00059 Score=56.69 Aligned_cols=91 Identities=14% Similarity=0.081 Sum_probs=62.7
Q ss_pred hhhhhh-cCeEEEEEeeCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhCCcEEEecC
Q 032001 14 PPYLAV-LCRFKYCTYKIASYHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSA 92 (149)
Q Consensus 14 ~~~~~~-~~~~vi~v~~~~~~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~Sa 92 (149)
..|+.+ ..|+++.|.|.++ ++..-..--++.+ -++|+|++.|.+|.. ....+ ......+.+..|+|++.+||
T Consensus 74 r~~ll~~~~D~ivnVvDAtn--LeRnLyltlQLlE---~g~p~ilaLNm~D~A-~~~Gi-~ID~~~L~~~LGvPVv~tvA 146 (653)
T COG0370 74 RDFLLEGKPDLIVNVVDATN--LERNLYLTLQLLE---LGIPMILALNMIDEA-KKRGI-RIDIEKLSKLLGVPVVPTVA 146 (653)
T ss_pred HHHHhcCCCCEEEEEcccch--HHHHHHHHHHHHH---cCCCeEEEeccHhhH-HhcCC-cccHHHHHHHhCCCEEEEEe
Confidence 344443 4488888888885 2222222233333 468999999999986 32222 33445677889999999999
Q ss_pred CCCCCHHHHHHHHHHHHHH
Q 032001 93 KTNLNVEQVFFSIARDIKQ 111 (149)
Q Consensus 93 k~~~~i~el~~~l~~~i~~ 111 (149)
++|.|++++...+.+....
T Consensus 147 ~~g~G~~~l~~~i~~~~~~ 165 (653)
T COG0370 147 KRGEGLEELKRAIIELAES 165 (653)
T ss_pred ecCCCHHHHHHHHHHhccc
Confidence 9999999999988875543
No 264
>PRK09435 membrane ATPase/protein kinase; Provisional
Probab=97.46 E-value=0.0011 Score=51.43 Aligned_cols=85 Identities=16% Similarity=0.151 Sum_probs=48.2
Q ss_pred hhcCeEEEEEeeCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCC--HHHHHHHHHH-------hCCcEE
Q 032001 18 AVLCRFKYCTYKIASYHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVP--TSKGQALADE-------YGIKFF 88 (149)
Q Consensus 18 ~~~~~~vi~v~~~~~~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~--~~~~~~~~~~-------~~~~~~ 88 (149)
...+|+++++.+ +.+.+.++.....+.+ +.-++|.||+|+. ...... ..+....... ...+++
T Consensus 167 ~~~aD~vlvv~~--p~~gd~iq~~k~gi~E-----~aDIiVVNKaDl~-~~~~a~~~~~el~~~L~l~~~~~~~w~~pVi 238 (332)
T PRK09435 167 AGMVDFFLLLQL--PGAGDELQGIKKGIME-----LADLIVINKADGD-NKTAARRAAAEYRSALRLLRPKDPGWQPPVL 238 (332)
T ss_pred HHhCCEEEEEec--CCchHHHHHHHhhhhh-----hhheEEeehhccc-chhHHHHHHHHHHHHHhcccccccCCCCCEE
Confidence 335666666643 2233444333332222 2237889999986 221110 0111111111 124799
Q ss_pred EecCCCCCCHHHHHHHHHHHHH
Q 032001 89 ETSAKTNLNVEQVFFSIARDIK 110 (149)
Q Consensus 89 ~~Sak~~~~i~el~~~l~~~i~ 110 (149)
.+||+++.|+++|++.+.+.+.
T Consensus 239 ~vSA~~g~GIdeL~~~I~~~~~ 260 (332)
T PRK09435 239 TCSALEGEGIDEIWQAIEDHRA 260 (332)
T ss_pred EEECCCCCCHHHHHHHHHHHHH
Confidence 9999999999999999998765
No 265
>smart00275 G_alpha G protein alpha subunit. Subunit of G proteins that contains the guanine nucleotide binding site
Probab=97.38 E-value=0.0027 Score=49.40 Aligned_cols=105 Identities=17% Similarity=0.077 Sum_probs=62.5
Q ss_pred ccccccchhhhhhcCeEEEEEeeCCh-----------hhHHHHHHHHHHHHHhc-CCCCeEEEEeeCCCCCc--------
Q 032001 7 LCFIGVYPPYLAVLCRFKYCTYKIAS-----------YHFSDIRNWIRNIEQHA-SDNVNKVLVGNKADMDE-------- 66 (149)
Q Consensus 7 ~~~~~~~~~~~~~~~~~vi~v~~~~~-----------~s~~~~~~~~~~i~~~~-~~~~~iilv~nK~Dl~~-------- 66 (149)
..+|..|.+||.+... +++|.|.++ ..+.......+.+.+.. -.+.|+++++||.|+-.
T Consensus 195 r~~R~kW~~~f~~v~~-IiFvvdlSd~d~~~~Ed~~~nrl~esl~~f~~l~~~~~~~~~piil~~NK~D~~~~Kl~~~~l 273 (342)
T smart00275 195 RSERKKWIHCFDNVTA-IIFCVALSEYDQVLEEDESTNRMQESLNLFESICNSRWFANTSIILFLNKIDLFEEKIKKVPL 273 (342)
T ss_pred hhhhhhHHHHhCCCCE-EEEEEECcccccchhccCcchHHHHHHHHHHHHHcCccccCCcEEEEEecHHhHHHHhCCCch
Confidence 4578999999998777 566656663 23444444444444321 15789999999999731
Q ss_pred -----C-CCCCCHHHHHH-----HHHHhC------CcEEEecCCCCCCHHHHHHHHHHHHHHH
Q 032001 67 -----S-KRAVPTSKGQA-----LADEYG------IKFFETSAKTNLNVEQVFFSIARDIKQR 112 (149)
Q Consensus 67 -----~-~~~~~~~~~~~-----~~~~~~------~~~~~~Sak~~~~i~el~~~l~~~i~~~ 112 (149)
+ ........+.. +..... +-+..++|.+-.++..+|+.+.+.+...
T Consensus 274 ~~~fp~y~g~~~~~~~~~yi~~~F~~~~~~~~~r~~y~h~t~a~Dt~~~~~v~~~v~~~I~~~ 336 (342)
T smart00275 274 VDYFPDYKGPNDYEAAAKFIKQKFLRLNRNSSRKSIYHHFTCATDTRNIRVVFDAVKDIILQR 336 (342)
T ss_pred hccCCCCCCCCCHHHHHHHHHHHHHHhccCCCCceEEEEEeeecccHHHHHHHHHHHHHHHHH
Confidence 0 00011122221 222111 2235677888888999999888877654
No 266
>KOG1423 consensus Ras-like GTPase ERA [Cell cycle control, cell division, chromosome partitioning; Signal transduction mechanisms]
Probab=97.37 E-value=0.00088 Score=51.09 Aligned_cols=87 Identities=14% Similarity=0.159 Sum_probs=51.2
Q ss_pred cCeEEEEEeeCChhhHHHH-HHHHHHHHHhcCCCCeEEEEeeCCCCCcCCC------------CCCHHHHHHHHHHh---
Q 032001 20 LCRFKYCTYKIASYHFSDI-RNWIRNIEQHASDNVNKVLVGNKADMDESKR------------AVPTSKGQALADEY--- 83 (149)
Q Consensus 20 ~~~~vi~v~~~~~~s~~~~-~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~------------~~~~~~~~~~~~~~--- 83 (149)
.+|.|++|+|+.+. -..+ ...+..+..+ ..+|-|+|.||+|.....+ ++..- ...+.+.+
T Consensus 155 ~AD~vvVv~Das~t-r~~l~p~vl~~l~~y--s~ips~lvmnkid~~k~k~~Ll~l~~~Lt~g~l~~~-kl~v~~~f~~~ 230 (379)
T KOG1423|consen 155 NADCVVVVVDASAT-RTPLHPRVLHMLEEY--SKIPSILVMNKIDKLKQKRLLLNLKDLLTNGELAKL-KLEVQEKFTDV 230 (379)
T ss_pred hCCEEEEEEeccCC-cCccChHHHHHHHHH--hcCCceeeccchhcchhhhHHhhhHHhccccccchh-hhhHHHHhccC
Confidence 35668888898841 1111 2333444444 3688899999999641111 11100 01111111
Q ss_pred ----------C----CcEEEecCCCCCCHHHHHHHHHHHHH
Q 032001 84 ----------G----IKFFETSAKTNLNVEQVFFSIARDIK 110 (149)
Q Consensus 84 ----------~----~~~~~~Sak~~~~i~el~~~l~~~i~ 110 (149)
| ..+|++||++|+||+++.++|....+
T Consensus 231 p~~~~~~~~~gwshfe~vF~vSaL~G~GikdlkqyLmsqa~ 271 (379)
T KOG1423|consen 231 PSDEKWRTICGWSHFERVFMVSALYGEGIKDLKQYLMSQAP 271 (379)
T ss_pred CcccccccccCcccceeEEEEecccccCHHHHHHHHHhcCC
Confidence 1 14899999999999999999987553
No 267
>cd01885 EF2 EF2 (for archaea and eukarya). Translocation requires hydrolysis of a molecule of GTP and is mediated by EF-G in bacteria and by eEF2 in eukaryotes. The eukaryotic elongation factor eEF2 is a GTPase involved in the translocation of the peptidyl-tRNA from the A site to the P site on the ribosome. The 95-kDa protein is highly conserved, with 60% amino acid sequence identity between the human and yeast proteins. Two major mechanisms are known to regulate protein elongation and both involve eEF2. First, eEF2 can be modulated by reversible phosphorylation. Increased levels of phosphorylated eEF2 reduce elongation rates presumably because phosphorylated eEF2 fails to bind the ribosomes. Treatment of mammalian cells with agents that raise the cytoplasmic Ca2+ and cAMP levels reduce elongation rates by activating the kinase responsible for phosphorylating eEF2. In contrast, treatment of cells with insulin increases elongation rates by promoting eEF2 dephosphorylation. Seco
Probab=97.37 E-value=0.001 Score=48.67 Aligned_cols=54 Identities=17% Similarity=0.026 Sum_probs=36.1
Q ss_pred ccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCC
Q 032001 7 LCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMD 65 (149)
Q Consensus 7 ~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~ 65 (149)
+.|......+++.+++ +++|+|+.. .+......|. .+.. .++|+++|+||+|+.
T Consensus 84 ~~f~~~~~~~l~~aD~-~ilVvD~~~g~~~~t~~~l~-~~~~---~~~p~ilviNKiD~~ 138 (222)
T cd01885 84 VDFSSEVTAALRLCDG-ALVVVDAVEGVCVQTETVLR-QALK---ERVKPVLVINKIDRL 138 (222)
T ss_pred cccHHHHHHHHHhcCe-eEEEEECCCCCCHHHHHHHH-HHHH---cCCCEEEEEECCCcc
Confidence 4566677778877777 577778886 4444433333 3332 357999999999975
No 268
>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=97.33 E-value=0.0033 Score=48.42 Aligned_cols=105 Identities=16% Similarity=0.052 Sum_probs=61.7
Q ss_pred ccccccchhhhhhcCeEEEEEeeCCh-----------hhHHHHHHHHHHHHHhcC-CCCeEEEEeeCCCCCc--------
Q 032001 7 LCFIGVYPPYLAVLCRFKYCTYKIAS-----------YHFSDIRNWIRNIEQHAS-DNVNKVLVGNKADMDE-------- 66 (149)
Q Consensus 7 ~~~~~~~~~~~~~~~~~vi~v~~~~~-----------~s~~~~~~~~~~i~~~~~-~~~~iilv~nK~Dl~~-------- 66 (149)
...+..|.+||.+... +++|.|.++ ..+.........+.+... .+.|+++++||.|+-.
T Consensus 172 ~~~R~kW~~~f~~v~~-iifvv~lsd~d~~~~e~~~~nrl~esl~~f~~i~~~~~~~~~pill~~NK~D~f~~ki~~~~l 250 (317)
T cd00066 172 RSERKKWIHCFEDVTA-IIFVVALSEYDQVLFEDESTNRMQESLNLFDSICNSRWFANTSIILFLNKKDLFEEKIKKSPL 250 (317)
T ss_pred cccchhHHHHhCCCCE-EEEEEEchhcccccccCCcchHHHHHHHHHHHHHhCccccCCCEEEEccChHHHHHhhcCCCc
Confidence 4578999999998877 555656653 223333334444433211 5789999999999631
Q ss_pred -----C--CCCCCHHHHHHH-----HHHh-----CCcEEEecCCCCCCHHHHHHHHHHHHHHH
Q 032001 67 -----S--KRAVPTSKGQAL-----ADEY-----GIKFFETSAKTNLNVEQVFFSIARDIKQR 112 (149)
Q Consensus 67 -----~--~~~~~~~~~~~~-----~~~~-----~~~~~~~Sak~~~~i~el~~~l~~~i~~~ 112 (149)
+ +.......+..+ .... .+-...++|.+-.++..+|+.+.+.+...
T Consensus 251 ~~~fp~y~g~~~~~~~~~~~i~~~F~~~~~~~~~~~~~~~t~a~Dt~~i~~vf~~v~~~i~~~ 313 (317)
T cd00066 251 TDYFPDYTGPPNDYEEAAKFIRKKFLDLNRNPNKEIYPHFTCATDTENIRFVFDAVKDIILQN 313 (317)
T ss_pred cccCCCCCCCCCCHHHHHHHHHHHHHHhhcCCCCeEEEEeccccchHHHHHHHHHHHHHHHHH
Confidence 0 001112222222 1111 12234677888888999999888877654
No 269
>COG4917 EutP Ethanolamine utilization protein [Amino acid transport and metabolism]
Probab=97.31 E-value=0.001 Score=44.29 Aligned_cols=53 Identities=30% Similarity=0.223 Sum_probs=41.2
Q ss_pred CeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhCC-cEEEecCCCCCCHHHHHHHHHHH
Q 032001 53 VNKVLVGNKADMDESKRAVPTSKGQALADEYGI-KFFETSAKTNLNVEQVFFSIARD 108 (149)
Q Consensus 53 ~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~-~~~~~Sak~~~~i~el~~~l~~~ 108 (149)
.|+|-|.+|+||. +.. .......|..+.|. ++|.+|+.++.|++++++.|...
T Consensus 91 k~vIgvVTK~DLa-ed~--dI~~~~~~L~eaGa~~IF~~s~~d~~gv~~l~~~L~~~ 144 (148)
T COG4917 91 KKVIGVVTKADLA-EDA--DISLVKRWLREAGAEPIFETSAVDNQGVEELVDYLASL 144 (148)
T ss_pred cceEEEEeccccc-chH--hHHHHHHHHHHcCCcceEEEeccCcccHHHHHHHHHhh
Confidence 4589999999998 222 22445567777774 89999999999999999998753
No 270
>TIGR00503 prfC peptide chain release factor 3. This translation releasing factor, RF-3 (prfC) was originally described as stop codon-independent, in contrast to peptide chain release factor 1 (RF-1, prfA) and RF-2 (prfB). RF-1 and RF-2 are closely related to each other, while RF-3 is similar to elongation factors EF-Tu and EF-G; RF-1 is active at UAA and UAG and RF-2 is active at UAA and UGA. More recently, RF-3 was shown to be active primarily at UGA stop codons in E. coli. All bacteria and organelles have RF-1. The Mycoplasmas and organelles, which translate UGA as Trp rather than as a stop codon, lack RF-2. RF-3, in contrast, seems to be rare among bacteria and is found so far only in Escherichia coli and some other gamma subdivision Proteobacteria, in Synechocystis PCC6803, and in Staphylococcus aureus.
Probab=97.29 E-value=0.0022 Score=52.65 Aligned_cols=29 Identities=14% Similarity=0.087 Sum_probs=25.6
Q ss_pred CcEEEecCCCCCCHHHHHHHHHHHHHHHh
Q 032001 85 IKFFETSAKTNLNVEQVFFSIARDIKQRL 113 (149)
Q Consensus 85 ~~~~~~Sak~~~~i~el~~~l~~~i~~~~ 113 (149)
+|+|.-||.++.||.+|++.+++.++...
T Consensus 250 ~PV~~GSA~~n~Gv~~LLd~i~~~~PsP~ 278 (527)
T TIGR00503 250 TPVFFGTALGNFGVDHFLDGLLQWAPKPE 278 (527)
T ss_pred eEEEEeecccCccHHHHHHHHHHHCCCCc
Confidence 47899999999999999999999987653
No 271
>cd04169 RF3 RF3 subfamily. Peptide chain release factor 3 (RF3) is a protein involved in the termination step of translation in bacteria. Termination occurs when class I release factors (RF1 or RF2) recognize the stop codon at the A-site of the ribosome and activate the release of the nascent polypeptide. The class II release factor RF3 then initiates the release of the class I RF from the ribosome. RF3 binds to the RF/ribosome complex in the inactive (GDP-bound) state. GDP/GTP exchange occurs, followed by the release of the class I RF. Subsequent hydrolysis of GTP to GDP triggers the release of RF3 from the ribosome. RF3 also enhances the efficiency of class I RFs at less preferred stop codons and at stop codons in weak contexts.
Probab=97.28 E-value=0.002 Score=48.42 Aligned_cols=55 Identities=13% Similarity=-0.049 Sum_probs=34.5
Q ss_pred ccccccchhhhhhcCeEEEEEeeCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCC
Q 032001 7 LCFIGVYPPYLAVLCRFKYCTYKIASYHFSDIRNWIRNIEQHASDNVNKVLVGNKADMD 65 (149)
Q Consensus 7 ~~~~~~~~~~~~~~~~~vi~v~~~~~~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~ 65 (149)
++|...+..+++.++. +++|+|.+..-......|+..+.. .++|+++++||+|+.
T Consensus 82 ~df~~~~~~~l~~aD~-~IlVvda~~g~~~~~~~i~~~~~~---~~~P~iivvNK~D~~ 136 (267)
T cd04169 82 EDFSEDTYRTLTAVDS-AVMVIDAAKGVEPQTRKLFEVCRL---RGIPIITFINKLDRE 136 (267)
T ss_pred hHHHHHHHHHHHHCCE-EEEEEECCCCccHHHHHHHHHHHh---cCCCEEEEEECCccC
Confidence 3455556667776655 566778765211333445444433 368999999999986
No 272
>CHL00071 tufA elongation factor Tu
Probab=97.28 E-value=0.0015 Score=51.97 Aligned_cols=74 Identities=19% Similarity=0.095 Sum_probs=42.5
Q ss_pred CeEEEEEeeCChhhHHHHHHHHHHHHHhcCCCCe-EEEEeeCCCCCcCCCCCC---HHHHHHHHHHhC-----CcEEEec
Q 032001 21 CRFKYCTYKIASYHFSDIRNWIRNIEQHASDNVN-KVLVGNKADMDESKRAVP---TSKGQALADEYG-----IKFFETS 91 (149)
Q Consensus 21 ~~~vi~v~~~~~~s~~~~~~~~~~i~~~~~~~~~-iilv~nK~Dl~~~~~~~~---~~~~~~~~~~~~-----~~~~~~S 91 (149)
.|++++|.|............+..+.. .++| +|++.||+|+. +..... ..++..+....+ ++++.+|
T Consensus 99 ~D~~ilVvda~~g~~~qt~~~~~~~~~---~g~~~iIvvvNK~D~~-~~~~~~~~~~~~l~~~l~~~~~~~~~~~ii~~S 174 (409)
T CHL00071 99 MDGAILVVSAADGPMPQTKEHILLAKQ---VGVPNIVVFLNKEDQV-DDEELLELVELEVRELLSKYDFPGDDIPIVSGS 174 (409)
T ss_pred CCEEEEEEECCCCCcHHHHHHHHHHHH---cCCCEEEEEEEccCCC-CHHHHHHHHHHHHHHHHHHhCCCCCcceEEEcc
Confidence 455777778875222333333344443 3467 77899999987 322111 113333444433 5799999
Q ss_pred CCCCCCH
Q 032001 92 AKTNLNV 98 (149)
Q Consensus 92 ak~~~~i 98 (149)
|.+|.|+
T Consensus 175 a~~g~n~ 181 (409)
T CHL00071 175 ALLALEA 181 (409)
T ss_pred hhhcccc
Confidence 9998743
No 273
>COG0378 HypB Ni2+-binding GTPase involved in regulation of expression and maturation of urease and hydrogenase [Posttranslational modification, protein turnover, chaperones / Transcription]
Probab=97.27 E-value=0.00071 Score=48.30 Aligned_cols=52 Identities=21% Similarity=0.109 Sum_probs=37.6
Q ss_pred EEEeeCCCCCcCCCCCCHHHHHHHHHHhC--CcEEEecCCCCCCHHHHHHHHHHH
Q 032001 56 VLVGNKADMDESKRAVPTSKGQALADEYG--IKFFETSAKTNLNVEQVFFSIARD 108 (149)
Q Consensus 56 ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~--~~~~~~Sak~~~~i~el~~~l~~~ 108 (149)
++|.||.||. +--....+....-+++.+ .+++++|++||+|+++++.++...
T Consensus 146 llVInK~DLa-~~v~~dlevm~~da~~~np~~~ii~~n~ktg~G~~~~~~~i~~~ 199 (202)
T COG0378 146 LLVINKTDLA-PYVGADLEVMARDAKEVNPEAPIIFTNLKTGEGLDEWLRFIEPQ 199 (202)
T ss_pred EEEEehHHhH-HHhCccHHHHHHHHHHhCCCCCEEEEeCCCCcCHHHHHHHHHhh
Confidence 7888999998 322222344444455543 689999999999999998888754
No 274
>TIGR02034 CysN sulfate adenylyltransferase, large subunit. Homologous to this E.coli activation pathway are nodPQH gene products found among members of the Rhizobiaceae family. These gene products have been shown to exhibit ATP sulfurase and APS kinase activity, yet are involved in Nod factor sulfation, and sulfation of other macromolecules. With members of the Rhizobiaceae family, nodQ often appears as a fusion of cysN (large subunit of ATP sulfurase) and cysC (APS kinase).
Probab=97.24 E-value=0.0011 Score=52.61 Aligned_cols=77 Identities=18% Similarity=0.046 Sum_probs=42.6
Q ss_pred cCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCH----HHHHHHHHHhC---CcEEEec
Q 032001 20 LCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPT----SKGQALADEYG---IKFFETS 91 (149)
Q Consensus 20 ~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~----~~~~~~~~~~~---~~~~~~S 91 (149)
..|++++|+|... ..-.....|.. +.... ..++|++.||+|+. ....... .....+....+ .+++++|
T Consensus 103 ~aD~allVVda~~G~~~qt~~~~~~-~~~~~--~~~iivviNK~D~~-~~~~~~~~~i~~~~~~~~~~~~~~~~~iipiS 178 (406)
T TIGR02034 103 TADLAVLLVDARKGVLEQTRRHSYI-ASLLG--IRHVVLAVNKMDLV-DYDEEVFENIKKDYLAFAEQLGFRDVTFIPLS 178 (406)
T ss_pred hCCEEEEEEECCCCCccccHHHHHH-HHHcC--CCcEEEEEEecccc-cchHHHHHHHHHHHHHHHHHcCCCCccEEEee
Confidence 4455777778764 22222223322 22211 23688999999986 3221111 11222333333 4699999
Q ss_pred CCCCCCHHH
Q 032001 92 AKTNLNVEQ 100 (149)
Q Consensus 92 ak~~~~i~e 100 (149)
|++|.|+.+
T Consensus 179 A~~g~ni~~ 187 (406)
T TIGR02034 179 ALKGDNVVS 187 (406)
T ss_pred cccCCCCcc
Confidence 999999875
No 275
>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=97.17 E-value=0.0013 Score=50.27 Aligned_cols=58 Identities=17% Similarity=0.258 Sum_probs=37.2
Q ss_pred CCeEEEEeeCCCCCcCCCCCCHHH--H----HHHHHH---hCCcEEEecCCCCCCHHHHHHHHHHHHH
Q 032001 52 NVNKVLVGNKADMDESKRAVPTSK--G----QALADE---YGIKFFETSAKTNLNVEQVFFSIARDIK 110 (149)
Q Consensus 52 ~~~iilv~nK~Dl~~~~~~~~~~~--~----~~~~~~---~~~~~~~~Sak~~~~i~el~~~l~~~i~ 110 (149)
++|.++|.||+|+. ......... . ..+... ...+++.+||+++.|++++++++.+...
T Consensus 172 ~~~~ivv~NK~Dl~-~~~~~~~~~~~~~~~l~~l~~~~~~~~~~v~~iSA~~g~Gi~~L~~~i~~~~~ 238 (300)
T TIGR00750 172 EIADIYVVNKADGE-GATNVTIARLMLALALEEIRRREDGWRPPVLTTSAVEGRGIDELWDAIEEHKT 238 (300)
T ss_pred hhccEEEEEccccc-chhHHHHHHHHHHHHHhhccccccCCCCCEEEEEccCCCCHHHHHHHHHHHHH
Confidence 46779999999987 221110000 0 111111 1236899999999999999999998643
No 276
>PRK00049 elongation factor Tu; Reviewed
Probab=97.16 E-value=0.0039 Score=49.45 Aligned_cols=85 Identities=16% Similarity=0.104 Sum_probs=47.0
Q ss_pred cCeEEEEEeeCChhhHHHHHHHHHHHHHhcCCCCeEE-EEeeCCCCCcCCCCCC---HHHHHHHHHHh-----CCcEEEe
Q 032001 20 LCRFKYCTYKIASYHFSDIRNWIRNIEQHASDNVNKV-LVGNKADMDESKRAVP---TSKGQALADEY-----GIKFFET 90 (149)
Q Consensus 20 ~~~~vi~v~~~~~~s~~~~~~~~~~i~~~~~~~~~ii-lv~nK~Dl~~~~~~~~---~~~~~~~~~~~-----~~~~~~~ 90 (149)
..|++++|.|.+.........++..+.. .++|.+ ++.||+|+. ...... ..+...+.... ..+++.+
T Consensus 98 ~aD~~llVVDa~~g~~~qt~~~~~~~~~---~g~p~iiVvvNK~D~~-~~~~~~~~~~~~i~~~l~~~~~~~~~~~iv~i 173 (396)
T PRK00049 98 QMDGAILVVSAADGPMPQTREHILLARQ---VGVPYIVVFLNKCDMV-DDEELLELVEMEVRELLSKYDFPGDDTPIIRG 173 (396)
T ss_pred cCCEEEEEEECCCCCchHHHHHHHHHHH---cCCCEEEEEEeecCCc-chHHHHHHHHHHHHHHHHhcCCCccCCcEEEe
Confidence 3456777778875222333344444444 247765 689999987 211111 11222333332 3578999
Q ss_pred cCCCCC----------CHHHHHHHHHHH
Q 032001 91 SAKTNL----------NVEQVFFSIARD 108 (149)
Q Consensus 91 Sak~~~----------~i~el~~~l~~~ 108 (149)
||++|. ++..+++.|...
T Consensus 174 Sa~~g~~~~~~~~w~~~~~~ll~~l~~~ 201 (396)
T PRK00049 174 SALKALEGDDDEEWEKKILELMDAVDSY 201 (396)
T ss_pred ecccccCCCCcccccccHHHHHHHHHhc
Confidence 999875 345555555543
No 277
>PRK10463 hydrogenase nickel incorporation protein HypB; Provisional
Probab=97.15 E-value=0.0012 Score=50.23 Aligned_cols=54 Identities=20% Similarity=0.139 Sum_probs=36.6
Q ss_pred CeEEEEeeCCCCCcCCCCCCHHHHHHHHHH-h-CCcEEEecCCCCCCHHHHHHHHHH
Q 032001 53 VNKVLVGNKADMDESKRAVPTSKGQALADE-Y-GIKFFETSAKTNLNVEQVFFSIAR 107 (149)
Q Consensus 53 ~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~-~-~~~~~~~Sak~~~~i~el~~~l~~ 107 (149)
..-++|.||+|+. +......+......+. + ..+++.+||++|.|+++++++|.+
T Consensus 231 ~ADIVVLNKiDLl-~~~~~dle~~~~~lr~lnp~a~I~~vSA~tGeGld~L~~~L~~ 286 (290)
T PRK10463 231 AASLMLLNKVDLL-PYLNFDVEKCIACAREVNPEIEIILISATSGEGMDQWLNWLET 286 (290)
T ss_pred cCcEEEEEhHHcC-cccHHHHHHHHHHHHhhCCCCcEEEEECCCCCCHHHHHHHHHH
Confidence 4568889999997 2111111222222233 3 368999999999999999999876
No 278
>COG5257 GCD11 Translation initiation factor 2, gamma subunit (eIF-2gamma; GTPase) [Translation, ribosomal structure and biogenesis]
Probab=97.14 E-value=0.00098 Score=51.18 Aligned_cols=60 Identities=18% Similarity=0.197 Sum_probs=43.0
Q ss_pred CeEEEEeeCCCCCcCCCC--CCHHHHHHHHHH---hCCcEEEecCCCCCCHHHHHHHHHHHHHHHh
Q 032001 53 VNKVLVGNKADMDESKRA--VPTSKGQALADE---YGIKFFETSAKTNLNVEQVFFSIARDIKQRL 113 (149)
Q Consensus 53 ~~iilv~nK~Dl~~~~~~--~~~~~~~~~~~~---~~~~~~~~Sak~~~~i~el~~~l~~~i~~~~ 113 (149)
..+|++-||+||. .... ...++...|.+. .+.|++.+||..+.||+.|++.|.+.++...
T Consensus 141 k~iiIvQNKIDlV-~~E~AlE~y~qIk~FvkGt~Ae~aPIIPiSA~~~~NIDal~e~i~~~IptP~ 205 (415)
T COG5257 141 KNIIIVQNKIDLV-SRERALENYEQIKEFVKGTVAENAPIIPISAQHKANIDALIEAIEKYIPTPE 205 (415)
T ss_pred ceEEEEeccccee-cHHHHHHHHHHHHHHhcccccCCCceeeehhhhccCHHHHHHHHHHhCCCCc
Confidence 4789999999998 3211 112233334332 2468999999999999999999999886653
No 279
>PRK05124 cysN sulfate adenylyltransferase subunit 1; Provisional
Probab=97.14 E-value=0.00091 Score=54.23 Aligned_cols=78 Identities=17% Similarity=0.068 Sum_probs=42.5
Q ss_pred cCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHH----HHHHHHHh----CCcEEEe
Q 032001 20 LCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSK----GQALADEY----GIKFFET 90 (149)
Q Consensus 20 ~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~----~~~~~~~~----~~~~~~~ 90 (149)
..|++++|+|.+. ..-.....|.. +.... ..++|++.||+|+. ......... ...+.... ..+++.+
T Consensus 130 ~aD~allVVDa~~G~~~qt~~~~~l-~~~lg--~~~iIvvvNKiD~~-~~~~~~~~~i~~~l~~~~~~~~~~~~~~iipv 205 (474)
T PRK05124 130 TCDLAILLIDARKGVLDQTRRHSFI-ATLLG--IKHLVVAVNKMDLV-DYSEEVFERIREDYLTFAEQLPGNLDIRFVPL 205 (474)
T ss_pred hCCEEEEEEECCCCccccchHHHHH-HHHhC--CCceEEEEEeeccc-cchhHHHHHHHHHHHHHHHhcCCCCCceEEEE
Confidence 3455777778874 21112222221 12111 24789999999987 322111111 11222232 3679999
Q ss_pred cCCCCCCHHHH
Q 032001 91 SAKTNLNVEQV 101 (149)
Q Consensus 91 Sak~~~~i~el 101 (149)
||++|.|+.++
T Consensus 206 SA~~g~ni~~~ 216 (474)
T PRK05124 206 SALEGDNVVSQ 216 (474)
T ss_pred EeecCCCcccc
Confidence 99999999764
No 280
>KOG1707 consensus Predicted Ras related/Rac-GTP binding protein [Defense mechanisms]
Probab=97.07 E-value=0.003 Score=51.78 Aligned_cols=88 Identities=16% Similarity=0.232 Sum_probs=62.8
Q ss_pred hcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhCC-cEEEecCCCCC
Q 032001 19 VLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGI-KFFETSAKTNL 96 (149)
Q Consensus 19 ~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~-~~~~~Sak~~~ 96 (149)
..++++.++||.++ .+|..+....+.-... ..+|+++|++|+|+. +..+........++.++++ +.+.+|.++..
T Consensus 494 ~~cDv~~~~YDsS~p~sf~~~a~v~~~~~~~--~~~Pc~~va~K~dlD-e~~Q~~~iqpde~~~~~~i~~P~~~S~~~~~ 570 (625)
T KOG1707|consen 494 AACDVACLVYDSSNPRSFEYLAEVYNKYFDL--YKIPCLMVATKADLD-EVPQRYSIQPDEFCRQLGLPPPIHISSKTLS 570 (625)
T ss_pred ceeeeEEEecccCCchHHHHHHHHHHHhhhc--cCCceEEEeeccccc-hhhhccCCChHHHHHhcCCCCCeeeccCCCC
Confidence 35678999999997 8999988876654333 578999999999997 4333333333667888886 34556666433
Q ss_pred CHHHHHHHHHHHHH
Q 032001 97 NVEQVFFSIARDIK 110 (149)
Q Consensus 97 ~i~el~~~l~~~i~ 110 (149)
. .++|..|+.+..
T Consensus 571 s-~~lf~kL~~~A~ 583 (625)
T KOG1707|consen 571 S-NELFIKLATMAQ 583 (625)
T ss_pred C-chHHHHHHHhhh
Confidence 3 789999987664
No 281
>KOG0705 consensus GTPase-activating protein Centaurin gamma (contains Ras-like GTPase, PH and ankyrin repeat domains) [Signal transduction mechanisms]
Probab=97.05 E-value=0.0032 Score=51.50 Aligned_cols=98 Identities=18% Similarity=0.356 Sum_probs=73.6
Q ss_pred hhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcC-CCCeEEEEeeCCCCCcC-CCCCCHHHHHHHHHHh-CCcEEEe
Q 032001 15 PYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHAS-DNVNKVLVGNKADMDES-KRAVPTSKGQALADEY-GIKFFET 90 (149)
Q Consensus 15 ~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~-~~~~iilv~nK~Dl~~~-~~~~~~~~~~~~~~~~-~~~~~~~ 90 (149)
.-|..+.+++|+||.+.+ .+|+.+..+..++..+.. ..+|+++++++.-+... .+.+.+.+..+++..+ ...+|+.
T Consensus 90 aQft~wvdavIfvf~~~d~~s~q~v~~l~~~l~~~r~r~~i~l~lvgtqd~iS~~~~rv~~da~~r~l~~~~krcsy~et 169 (749)
T KOG0705|consen 90 AQFCQWVDAVVFVFSVEDEQSFQAVQALAHEMSSYRNISDLPLILVGTQDHISAKRPRVITDDRARQLSAQMKRCSYYET 169 (749)
T ss_pred hhhhhhccceEEEEEeccccCHHHHHHHHhhcccccccccchHHhhcCcchhhcccccccchHHHHHHHHhcCccceeec
Confidence 346678899999999998 899999988888765443 67889999888765421 2334445555555554 3568999
Q ss_pred cCCCCCCHHHHHHHHHHHHHHH
Q 032001 91 SAKTNLNVEQVFFSIARDIKQR 112 (149)
Q Consensus 91 Sak~~~~i~el~~~l~~~i~~~ 112 (149)
.|.+|.+++.+|..++..+...
T Consensus 170 ~atyGlnv~rvf~~~~~k~i~~ 191 (749)
T KOG0705|consen 170 CATYGLNVERVFQEVAQKIVQL 191 (749)
T ss_pred chhhhhhHHHHHHHHHHHHHHH
Confidence 9999999999999999877654
No 282
>PRK05506 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional
Probab=97.04 E-value=0.0034 Score=52.64 Aligned_cols=77 Identities=18% Similarity=0.062 Sum_probs=42.6
Q ss_pred cCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHH----HHHHHHHHhC---CcEEEec
Q 032001 20 LCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTS----KGQALADEYG---IKFFETS 91 (149)
Q Consensus 20 ~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~----~~~~~~~~~~---~~~~~~S 91 (149)
..|++++|+|.+. ..-.....+. .+... ...++|++.||+|+. +....... +...+....+ .+++++|
T Consensus 127 ~aD~~llVvda~~g~~~~t~e~~~-~~~~~--~~~~iivvvNK~D~~-~~~~~~~~~i~~~i~~~~~~~~~~~~~iipiS 202 (632)
T PRK05506 127 TADLAIILVDARKGVLTQTRRHSF-IASLL--GIRHVVLAVNKMDLV-DYDQEVFDEIVADYRAFAAKLGLHDVTFIPIS 202 (632)
T ss_pred hCCEEEEEEECCCCccccCHHHHH-HHHHh--CCCeEEEEEEecccc-cchhHHHHHHHHHHHHHHHHcCCCCccEEEEe
Confidence 4455777778864 2112222222 22222 125788999999987 31111111 1222333444 3689999
Q ss_pred CCCCCCHHH
Q 032001 92 AKTNLNVEQ 100 (149)
Q Consensus 92 ak~~~~i~e 100 (149)
|++|.|+.+
T Consensus 203 A~~g~ni~~ 211 (632)
T PRK05506 203 ALKGDNVVT 211 (632)
T ss_pred cccCCCccc
Confidence 999999874
No 283
>KOG0090 consensus Signal recognition particle receptor, beta subunit (small G protein superfamily) [Intracellular trafficking, secretion, and vesicular transport]
Probab=97.00 E-value=0.0051 Score=44.61 Aligned_cols=59 Identities=12% Similarity=0.119 Sum_probs=35.1
Q ss_pred ccccccchhhhh---hcCeEEEEEeeCCh-hhHHHHHHHHHHH-HHhc--CCCCeEEEEeeCCCCC
Q 032001 7 LCFIGVYPPYLA---VLCRFKYCTYKIAS-YHFSDIRNWIRNI-EQHA--SDNVNKVLVGNKADMD 65 (149)
Q Consensus 7 ~~~~~~~~~~~~---~~~~~vi~v~~~~~-~s~~~~~~~~~~i-~~~~--~~~~~iilv~nK~Dl~ 65 (149)
+|.|.....||. .+.++|++|.+... ....+...++-.+ .... .+.+|++++.||.|+.
T Consensus 93 ~rlR~kl~e~~~~~~~akaiVFVVDSa~f~k~vrdvaefLydil~~~~~~~~~~~vLIaCNKqDl~ 158 (238)
T KOG0090|consen 93 SRLRRKLLEYLKHNYSAKAIVFVVDSATFLKNVRDVAEFLYDILLDSRVKKNKPPVLIACNKQDLF 158 (238)
T ss_pred HHHHHHHHHHccccccceeEEEEEeccccchhhHHHHHHHHHHHHhhccccCCCCEEEEecchhhh
Confidence 344444455565 45565555554443 4455555444444 3332 3678999999999985
No 284
>PLN03127 Elongation factor Tu; Provisional
Probab=96.95 E-value=0.0051 Score=49.58 Aligned_cols=86 Identities=16% Similarity=0.075 Sum_probs=45.7
Q ss_pred CeEEEEEeeCChhhHHHHHHHHHHHHHhcCCCCe-EEEEeeCCCCCcCCCCCCHH---HHHHHHHHh-----CCcEEEec
Q 032001 21 CRFKYCTYKIASYHFSDIRNWIRNIEQHASDNVN-KVLVGNKADMDESKRAVPTS---KGQALADEY-----GIKFFETS 91 (149)
Q Consensus 21 ~~~vi~v~~~~~~s~~~~~~~~~~i~~~~~~~~~-iilv~nK~Dl~~~~~~~~~~---~~~~~~~~~-----~~~~~~~S 91 (149)
.|++++|.|.+..-..+....+..+.. .++| +|++.||+|+. +....... +...+.... .++++.+|
T Consensus 148 aD~allVVda~~g~~~qt~e~l~~~~~---~gip~iIvviNKiDlv-~~~~~~~~i~~~i~~~l~~~~~~~~~vpiip~S 223 (447)
T PLN03127 148 MDGGILVVSAPDGPMPQTKEHILLARQ---VGVPSLVVFLNKVDVV-DDEELLELVEMELRELLSFYKFPGDEIPIIRGS 223 (447)
T ss_pred CCEEEEEEECCCCCchhHHHHHHHHHH---cCCCeEEEEEEeeccC-CHHHHHHHHHHHHHHHHHHhCCCCCcceEEEec
Confidence 566777778875212222333333333 3577 57889999987 32111111 122222222 25788888
Q ss_pred CC---CCCC-------HHHHHHHHHHHHH
Q 032001 92 AK---TNLN-------VEQVFFSIARDIK 110 (149)
Q Consensus 92 ak---~~~~-------i~el~~~l~~~i~ 110 (149)
|. +|.| +.+|++.+...++
T Consensus 224 a~sa~~g~n~~~~~~~i~~Ll~~l~~~lp 252 (447)
T PLN03127 224 ALSALQGTNDEIGKNAILKLMDAVDEYIP 252 (447)
T ss_pred cceeecCCCcccccchHHHHHHHHHHhCC
Confidence 75 4555 5667776666543
No 285
>KOG1532 consensus GTPase XAB1, interacts with DNA repair protein XPA [Replication, recombination and repair]
Probab=96.95 E-value=0.017 Score=43.75 Aligned_cols=29 Identities=10% Similarity=0.255 Sum_probs=24.2
Q ss_pred CCcEEEecCCCCCCHHHHHHHHHHHHHHH
Q 032001 84 GIKFFETSAKTNLNVEQVFFSIARDIKQR 112 (149)
Q Consensus 84 ~~~~~~~Sak~~~~i~el~~~l~~~i~~~ 112 (149)
++..+.+||.+|.|.+++|..+-+.+-+-
T Consensus 238 ~lrtv~VSs~tG~G~ddf~~av~~~vdEy 266 (366)
T KOG1532|consen 238 SLRTVGVSSVTGEGFDDFFTAVDESVDEY 266 (366)
T ss_pred hCceEEEecccCCcHHHHHHHHHHHHHHH
Confidence 46789999999999999999888766544
No 286
>KOG3905 consensus Dynein light intermediate chain [Cell motility]
Probab=96.93 E-value=0.012 Score=45.59 Aligned_cols=60 Identities=18% Similarity=0.211 Sum_probs=44.1
Q ss_pred CCeEEEEeeCCCCCc---CC---CCCCHH----HHHHHHHHhCCcEEEecCCCCCCHHHHHHHHHHHHHH
Q 032001 52 NVNKVLVGNKADMDE---SK---RAVPTS----KGQALADEYGIKFFETSAKTNLNVEQVFFSIARDIKQ 111 (149)
Q Consensus 52 ~~~iilv~nK~Dl~~---~~---~~~~~~----~~~~~~~~~~~~~~~~Sak~~~~i~el~~~l~~~i~~ 111 (149)
.+|+++|.+|+|... .+ +..... .+..|+-.+|...|++|+|...|++-|...|+..++.
T Consensus 222 Gi~vlVV~TK~D~~s~leke~eyrDehfdfiq~~lRkFCLr~GaaLiyTSvKE~KNidllyKYivhr~yG 291 (473)
T KOG3905|consen 222 GIPVLVVCTKCDAVSVLEKEHEYRDEHFDFIQSHLRKFCLRYGAALIYTSVKETKNIDLLYKYIVHRSYG 291 (473)
T ss_pred CCcEEEEEeccchhhHhhhcchhhHHHHHHHHHHHHHHHHHcCceeEEeecccccchHHHHHHHHHHhcC
Confidence 489999999999730 11 111111 2345667788889999999999999999999987764
No 287
>cd04104 p47_IIGP_like p47 (47-kDa) family. The p47 GTPase family consists of several highly homologous proteins, including IGTP, TGTP/Mg21, IRG-47, GTPI, LRG-47, and IIGP1. They are found in higher eukaryotes where they play a role in immune resistance against intracellular pathogens. p47 proteins exist at low resting levels in mouse cells, but are strongly induced by Type II interferon (IFN-gamma). ITGP is critical for resistance to Toxoplasma gondii infection and in involved in inhibition of Coxsackievirus-B3-induced apoptosis. TGTP was shown to limit vesicular stomatitis virus (VSV) infection of fibroblasts in vitro. IRG-47 is involved in resistance to T. gondii infection. LRG-47 has been implicated in resistance to T. gondii, Listeria monocytogenes, Leishmania, and mycobacterial infections. IIGP1 has been shown to localize to the ER and to the Golgi membranes in IFN-induced cells and inflamed tissues. In macrophages, IIGP1 interacts with hook3, a microtubule binding protei
Probab=96.91 E-value=0.011 Score=42.20 Aligned_cols=86 Identities=16% Similarity=0.129 Sum_probs=50.4
Q ss_pred CeEEEEEeeCChhhHHHH-HHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCC------CHHH----HH----HHHHHhC-
Q 032001 21 CRFKYCTYKIASYHFSDI-RNWIRNIEQHASDNVNKVLVGNKADMDESKRAV------PTSK----GQ----ALADEYG- 84 (149)
Q Consensus 21 ~~~vi~v~~~~~~s~~~~-~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~------~~~~----~~----~~~~~~~- 84 (149)
.++++++. .+ +|... ..|+..+... +.|+++|+||+|+....... ...+ .. ......+
T Consensus 81 ~d~~l~v~-~~--~~~~~d~~~~~~l~~~---~~~~ilV~nK~D~~~~~~~~~~~~~~~~~~~l~~i~~~~~~~~~~~~~ 154 (197)
T cd04104 81 YDFFIIIS-ST--RFSSNDVKLAKAIQCM---GKKFYFVRTKVDRDLSNEQRSKPRSFNREQVLQEIRDNCLENLQEAGV 154 (197)
T ss_pred cCEEEEEe-CC--CCCHHHHHHHHHHHHh---CCCEEEEEecccchhhhhhccccccccHHHHHHHHHHHHHHHHHHcCC
Confidence 35455553 22 34443 4566666553 47999999999984111100 0111 11 1112222
Q ss_pred --CcEEEecCC--CCCCHHHHHHHHHHHHHHH
Q 032001 85 --IKFFETSAK--TNLNVEQVFFSIARDIKQR 112 (149)
Q Consensus 85 --~~~~~~Sak--~~~~i~el~~~l~~~i~~~ 112 (149)
-++|.+|+. .+.++..+.+.|...+++.
T Consensus 155 ~~p~v~~vS~~~~~~~~~~~l~~~~~~~l~~~ 186 (197)
T cd04104 155 SEPPVFLVSNFDPSDYDFPKLRETLLKDLPAH 186 (197)
T ss_pred CCCCEEEEeCCChhhcChHHHHHHHHHHhhHH
Confidence 268899998 5689999999999988765
No 288
>COG3276 SelB Selenocysteine-specific translation elongation factor [Translation, ribosomal structure and biogenesis]
Probab=96.88 E-value=0.0074 Score=48.00 Aligned_cols=97 Identities=18% Similarity=0.086 Sum_probs=57.2
Q ss_pred cccccchhhhhh--cCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHH---
Q 032001 8 CFIGVYPPYLAV--LCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALAD--- 81 (149)
Q Consensus 8 ~~~~~~~~~~~~--~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~--- 81 (149)
+|-.....-..+ +.+..++|.+.++ -......++. +.+.. .-...++|.||+|.. +...+ ++.......
T Consensus 59 gh~~~i~~miag~~~~d~alLvV~~deGl~~qtgEhL~--iLdll-gi~~giivltk~D~~-d~~r~-e~~i~~Il~~l~ 133 (447)
T COG3276 59 GHPDFISNLLAGLGGIDYALLVVAADEGLMAQTGEHLL--ILDLL-GIKNGIIVLTKADRV-DEARI-EQKIKQILADLS 133 (447)
T ss_pred CcHHHHHHHHhhhcCCceEEEEEeCccCcchhhHHHHH--HHHhc-CCCceEEEEeccccc-cHHHH-HHHHHHHHhhcc
Confidence 344444444444 4566777778764 2233333321 22222 234569999999987 32211 112222222
Q ss_pred HhCCcEEEecCCCCCCHHHHHHHHHHHH
Q 032001 82 EYGIKFFETSAKTNLNVEQVFFSIARDI 109 (149)
Q Consensus 82 ~~~~~~~~~Sak~~~~i~el~~~l~~~i 109 (149)
....++|.+|+++|+||++|.+.|.+..
T Consensus 134 l~~~~i~~~s~~~g~GI~~Lk~~l~~L~ 161 (447)
T COG3276 134 LANAKIFKTSAKTGRGIEELKNELIDLL 161 (447)
T ss_pred cccccccccccccCCCHHHHHHHHHHhh
Confidence 2245789999999999999999999877
No 289
>PRK12739 elongation factor G; Reviewed
Probab=96.74 E-value=0.011 Score=50.15 Aligned_cols=28 Identities=14% Similarity=0.107 Sum_probs=24.3
Q ss_pred CcEEEecCCCCCCHHHHHHHHHHHHHHH
Q 032001 85 IKFFETSAKTNLNVEQVFFSIARDIKQR 112 (149)
Q Consensus 85 ~~~~~~Sak~~~~i~el~~~l~~~i~~~ 112 (149)
+|++..||.++.|+..|++.|+..++..
T Consensus 253 ~Pv~~gSa~~~~Gv~~LLd~I~~~lPsP 280 (691)
T PRK12739 253 FPVLCGSAFKNKGVQPLLDAVVDYLPSP 280 (691)
T ss_pred EEEEeccccCCccHHHHHHHHHHHCCCh
Confidence 3678889999999999999999988754
No 290
>PF09439 SRPRB: Signal recognition particle receptor beta subunit; InterPro: IPR019009 The signal recognition particle (SRP) is a multimeric protein, which along with its conjugate receptor (SR), is involved in targeting secretory proteins to the rough endoplasmic reticulum (RER) membrane in eukaryotes, or to the plasma membrane in prokaryotes [, ]. SRP recognises the signal sequence of the nascent polypeptide on the ribosome, retards its elongation, and docks the SRP-ribosome-polypeptide complex to the RER membrane via the SR receptor. Eukaryotic SRP consists of six polypeptides (SRP9, SRP14, SRP19, SRP54, SRP68 and SRP72) and a single 300 nucleotide 7S RNA molecule. The RNA component catalyses the interaction of SRP with its SR receptor []. In higher eukaryotes, the SRP complex consists of the Alu domain and the S domain linked by the SRP RNA. The Alu domain consists of a heterodimer of SRP9 and SRP14 bound to the 5' and 3' terminal sequences of SRP RNA. This domain is necessary for retarding the elongation of the nascent polypeptide chain, which gives SRP time to dock the ribosome-polypeptide complex to the RER membrane. In archaea, the SRP complex contains 7S RNA like its eukaryotic counterpart, yet only includes two of the six protein subunits found in the eukarytic complex: SRP19 and SRP54 []. The SR receptor is a monomer consisting of the loosely membrane-associated SR-alpha homologue FtsY, while the eukaryotic SR receptor is a heterodimer of SR-alpha (70 kDa) and SR-beta (25 kDa), both of which contain a GTP-binding domain []. SR-alpha regulates the targeting of SRP-ribosome-nascent polypeptide complexes to the translocon []. SR-alpha binds to the SRP54 subunit of the SRP complex. The SR-beta subunit is a transmembrane GTPase that anchors the SR-alpha subunit (a peripheral membrane GTPase) to the ER membrane []. SR-beta interacts with the N-terminal SRX-domain of SR-alpha, which is not present in the bacterial FtsY homologue. SR-beta also functions in recruiting the SRP-nascent polypeptide to the protein-conducting channel. The beta subunit of the signal recognition particle receptor (SRP) is a transmembrane GTPase, which anchors the alpha subunit to the endoplasmic reticulum membrane []. ; PDB: 2GED_B 1NRJ_B 2GO5_2 2FH5_B.
Probab=96.70 E-value=0.01 Score=42.07 Aligned_cols=49 Identities=14% Similarity=0.217 Sum_probs=27.8
Q ss_pred hhhhcCeEEEEEeeCC-h-hhHHHHHHHHHHHHH-h--cCCCCeEEEEeeCCCCC
Q 032001 16 YLAVLCRFKYCTYKIA-S-YHFSDIRNWIRNIEQ-H--ASDNVNKVLVGNKADMD 65 (149)
Q Consensus 16 ~~~~~~~~vi~v~~~~-~-~s~~~~~~~~~~i~~-~--~~~~~~iilv~nK~Dl~ 65 (149)
|..++.++ |+|.|.. . ..+.....++-.+.. . ....+|+++++||.|+.
T Consensus 72 ~~~~~k~I-IfvvDSs~~~~~~~~~Ae~Ly~iL~~~~~~~~~~piLIacNK~Dl~ 125 (181)
T PF09439_consen 72 YLSNAKGI-IFVVDSSTDQKELRDVAEYLYDILSDTEVQKNKPPILIACNKQDLF 125 (181)
T ss_dssp HHGGEEEE-EEEEETTTHHHHHHHHHHHHHHHHHHHHCCTT--EEEEEEE-TTST
T ss_pred chhhCCEE-EEEEeCccchhhHHHHHHHHHHHHHhhhhccCCCCEEEEEeCcccc
Confidence 35556664 5555554 3 455555544444433 2 23679999999999987
No 291
>PTZ00141 elongation factor 1- alpha; Provisional
Probab=96.68 E-value=0.0082 Score=48.40 Aligned_cols=77 Identities=12% Similarity=0.001 Sum_probs=41.3
Q ss_pred cCeEEEEEeeCChhhH--------HHHHHHHHHHHHhcCCCCe-EEEEeeCCCCCc-CCCCCCH----HHHHHHHHHh--
Q 032001 20 LCRFKYCTYKIASYHF--------SDIRNWIRNIEQHASDNVN-KVLVGNKADMDE-SKRAVPT----SKGQALADEY-- 83 (149)
Q Consensus 20 ~~~~vi~v~~~~~~s~--------~~~~~~~~~i~~~~~~~~~-iilv~nK~Dl~~-~~~~~~~----~~~~~~~~~~-- 83 (149)
..|++++|.|.+..-| ....+|.. +.. .++| +|++.||+|... +...... .+...+....
T Consensus 108 ~aD~ailVVda~~G~~e~~~~~~~qT~eh~~~-~~~---~gi~~iiv~vNKmD~~~~~~~~~~~~~i~~~i~~~l~~~g~ 183 (446)
T PTZ00141 108 QADVAILVVASTAGEFEAGISKDGQTREHALL-AFT---LGVKQMIVCINKMDDKTVNYSQERYDEIKKEVSAYLKKVGY 183 (446)
T ss_pred hcCEEEEEEEcCCCceecccCCCccHHHHHHH-HHH---cCCCeEEEEEEccccccchhhHHHHHHHHHHHHHHHHhcCC
Confidence 3445666767765222 22334432 333 2455 678999999530 1111111 1222333332
Q ss_pred ---CCcEEEecCCCCCCHHH
Q 032001 84 ---GIKFFETSAKTNLNVEQ 100 (149)
Q Consensus 84 ---~~~~~~~Sak~~~~i~e 100 (149)
.++++.+||.+|.|+.+
T Consensus 184 ~~~~~~~ipiSa~~g~ni~~ 203 (446)
T PTZ00141 184 NPEKVPFIPISGWQGDNMIE 203 (446)
T ss_pred CcccceEEEeecccCCCccc
Confidence 25789999999999864
No 292
>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=96.67 E-value=0.012 Score=43.94 Aligned_cols=72 Identities=15% Similarity=0.195 Sum_probs=40.7
Q ss_pred ccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhCCcE
Q 032001 9 FIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKF 87 (149)
Q Consensus 9 ~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~ 87 (149)
|...+..+++.++. +++|+|.+. ........|. .+.. .++|.++++||+|+. .. ........+.+..+.++
T Consensus 77 f~~~~~~~l~~aD~-~i~Vvd~~~g~~~~~~~~~~-~~~~---~~~p~iivvNK~D~~-~~--~~~~~~~~l~~~~~~~~ 148 (268)
T cd04170 77 FVGETRAALRAADA-ALVVVSAQSGVEVGTEKLWE-FADE---AGIPRIIFINKMDRE-RA--DFDKTLAALQEAFGRPV 148 (268)
T ss_pred HHHHHHHHHHHCCE-EEEEEeCCCCCCHHHHHHHH-HHHH---cCCCEEEEEECCccC-CC--CHHHHHHHHHHHhCCCe
Confidence 34445666666655 677778875 3333333443 3333 358999999999987 22 22233344444555544
Q ss_pred E
Q 032001 88 F 88 (149)
Q Consensus 88 ~ 88 (149)
+
T Consensus 149 ~ 149 (268)
T cd04170 149 V 149 (268)
T ss_pred E
Confidence 4
No 293
>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=96.65 E-value=0.0042 Score=46.77 Aligned_cols=53 Identities=19% Similarity=0.112 Sum_probs=32.2
Q ss_pred ccccchhhhhhcCeEEEEEeeCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCC
Q 032001 9 FIGVYPPYLAVLCRFKYCTYKIASYHFSDIRNWIRNIEQHASDNVNKVLVGNKADMD 65 (149)
Q Consensus 9 ~~~~~~~~~~~~~~~vi~v~~~~~~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~ 65 (149)
|..-+..+++.++. +++|.|....--.....++..+.. .++|++++.||+|+.
T Consensus 77 f~~~~~~~l~~aD~-ailVVDa~~g~~~~t~~~~~~~~~---~~~p~ivviNK~D~~ 129 (270)
T cd01886 77 FTIEVERSLRVLDG-AVAVFDAVAGVEPQTETVWRQADR---YNVPRIAFVNKMDRT 129 (270)
T ss_pred HHHHHHHHHHHcCE-EEEEEECCCCCCHHHHHHHHHHHH---cCCCEEEEEECCCCC
Confidence 44455667777766 455557664111223344444444 358999999999986
No 294
>PLN03126 Elongation factor Tu; Provisional
Probab=96.64 E-value=0.0074 Score=49.06 Aligned_cols=74 Identities=19% Similarity=0.073 Sum_probs=42.1
Q ss_pred cCeEEEEEeeCChhhHHHHHHHHHHHHHhcCCCCe-EEEEeeCCCCCcCCCCCCH---HHHHHHHHHh-----CCcEEEe
Q 032001 20 LCRFKYCTYKIASYHFSDIRNWIRNIEQHASDNVN-KVLVGNKADMDESKRAVPT---SKGQALADEY-----GIKFFET 90 (149)
Q Consensus 20 ~~~~vi~v~~~~~~s~~~~~~~~~~i~~~~~~~~~-iilv~nK~Dl~~~~~~~~~---~~~~~~~~~~-----~~~~~~~ 90 (149)
..|++++|+|.+.........++..+.. .++| +|++.||+|+. +...... .+...+.... .++++.+
T Consensus 167 ~aD~ailVVda~~G~~~qt~e~~~~~~~---~gi~~iIvvvNK~Dl~-~~~~~~~~i~~~i~~~l~~~g~~~~~~~~vp~ 242 (478)
T PLN03126 167 QMDGAILVVSGADGPMPQTKEHILLAKQ---VGVPNMVVFLNKQDQV-DDEELLELVELEVRELLSSYEFPGDDIPIISG 242 (478)
T ss_pred hCCEEEEEEECCCCCcHHHHHHHHHHHH---cCCCeEEEEEeccccc-CHHHHHHHHHHHHHHHHHhcCCCcCcceEEEE
Confidence 3455777778775212333344444444 2466 78899999987 3211111 1233344443 3579999
Q ss_pred cCCCCCC
Q 032001 91 SAKTNLN 97 (149)
Q Consensus 91 Sak~~~~ 97 (149)
||.+|.+
T Consensus 243 Sa~~g~n 249 (478)
T PLN03126 243 SALLALE 249 (478)
T ss_pred Ecccccc
Confidence 9998854
No 295
>KOG0461 consensus Selenocysteine-specific elongation factor [Translation, ribosomal structure and biogenesis]
Probab=96.30 E-value=0.022 Score=44.51 Aligned_cols=103 Identities=12% Similarity=0.072 Sum_probs=58.2
Q ss_pred ccccccccchhhhhhcC--eEEEEEeeCCh-hhHHHHH-HHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCH-HH-HHH
Q 032001 5 RCLCFIGVYPPYLAVLC--RFKYCTYKIAS-YHFSDIR-NWIRNIEQHASDNVNKVLVGNKADMDESKRAVPT-SK-GQA 78 (149)
Q Consensus 5 ~~~~~~~~~~~~~~~~~--~~vi~v~~~~~-~s~~~~~-~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~-~~-~~~ 78 (149)
-|++..++....+.++. |+.++|.|+.. .--...+ -.+.++.. ...|+|.||+|...+++.... ++ +..
T Consensus 76 DCPGHasLIRtiiggaqiiDlm~lviDv~kG~QtQtAEcLiig~~~c-----~klvvvinkid~lpE~qr~ski~k~~kk 150 (522)
T KOG0461|consen 76 DCPGHASLIRTIIGGAQIIDLMILVIDVQKGKQTQTAECLIIGELLC-----KKLVVVINKIDVLPENQRASKIEKSAKK 150 (522)
T ss_pred eCCCcHHHHHHHHhhhheeeeeeEEEehhcccccccchhhhhhhhhc-----cceEEEEeccccccchhhhhHHHHHHHH
Confidence 35666777777766644 55677778774 2222222 23333322 356778888886522221111 11 112
Q ss_pred HHH---Hh----CCcEEEecCCCC----CCHHHHHHHHHHHHHHH
Q 032001 79 LAD---EY----GIKFFETSAKTN----LNVEQVFFSIARDIKQR 112 (149)
Q Consensus 79 ~~~---~~----~~~~~~~Sak~~----~~i~el~~~l~~~i~~~ 112 (149)
..+ .. +.|++++||+.| +++.+|...|...+++.
T Consensus 151 ~~KtLe~t~f~g~~PI~~vsa~~G~~~~~~i~eL~e~l~s~if~P 195 (522)
T KOG0461|consen 151 VRKTLESTGFDGNSPIVEVSAADGYFKEEMIQELKEALESRIFEP 195 (522)
T ss_pred HHHHHHhcCcCCCCceeEEecCCCccchhHHHHHHHHHHHhhcCC
Confidence 221 11 268999999999 67777777777766554
No 296
>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=96.28 E-value=0.016 Score=44.73 Aligned_cols=56 Identities=20% Similarity=0.173 Sum_probs=39.8
Q ss_pred CCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHh-CCcEEEecCCCCCCHHHHHH-HHHHHHHH
Q 032001 51 DNVNKVLVGNKADMDESKRAVPTSKGQALADEY-GIKFFETSAKTNLNVEQVFF-SIARDIKQ 111 (149)
Q Consensus 51 ~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~-~~~~~~~Sak~~~~i~el~~-~l~~~i~~ 111 (149)
...|+|+|+||+|+. ... .....+.... ...++.+||+.+.+++++.+ .+++.+++
T Consensus 213 t~KPvI~VlNK~Dl~-~~~----~~~~~l~~~~~~~~iI~iSA~~e~~L~~L~~~~i~~~lPe 270 (318)
T cd01899 213 RSKPMVIAANKADIP-DAE----NNISKLRLKYPDEIVVPTSAEAELALRRAAKQGLIKYDPG 270 (318)
T ss_pred cCCcEEEEEEHHHcc-ChH----HHHHHHHhhCCCCeEEEEeCcccccHHHHHHhhHHHhCCC
Confidence 458999999999986 221 1112222233 45799999999999999987 58887754
No 297
>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=96.27 E-value=0.027 Score=47.82 Aligned_cols=80 Identities=16% Similarity=0.119 Sum_probs=45.0
Q ss_pred cccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhCC-
Q 032001 8 CFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGI- 85 (149)
Q Consensus 8 ~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~- 85 (149)
+|...+..+++.++. +++|+|... ........| ..+.. .++|+++++||+|+. ... .......+....+.
T Consensus 87 ~~~~~~~~~l~~~D~-~ilVvda~~g~~~~~~~~~-~~~~~---~~~p~ivviNK~D~~-~~~--~~~~~~~i~~~l~~~ 158 (689)
T TIGR00484 87 DFTVEVERSLRVLDG-AVAVLDAVGGVQPQSETVW-RQANR---YEVPRIAFVNKMDKT-GAN--FLRVVNQIKQRLGAN 158 (689)
T ss_pred chhHHHHHHHHHhCE-EEEEEeCCCCCChhHHHHH-HHHHH---cCCCEEEEEECCCCC-CCC--HHHHHHHHHHHhCCC
Confidence 455556677777766 566667775 434433333 33443 358999999999987 221 12223334344332
Q ss_pred ---cEEEecCCCC
Q 032001 86 ---KFFETSAKTN 95 (149)
Q Consensus 86 ---~~~~~Sak~~ 95 (149)
..+.+|+..+
T Consensus 159 ~~~~~ipis~~~~ 171 (689)
T TIGR00484 159 AVPIQLPIGAEDN 171 (689)
T ss_pred ceeEEeccccCCC
Confidence 2455666554
No 298
>COG1217 TypA Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]
Probab=96.18 E-value=0.024 Score=45.81 Aligned_cols=95 Identities=13% Similarity=0.109 Sum_probs=56.5
Q ss_pred hhhhhhcCeEEEEEeeCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCC-HHHHHHH-H------HHhCC
Q 032001 14 PPYLAVLCRFKYCTYKIASYHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVP-TSKGQAL-A------DEYGI 85 (149)
Q Consensus 14 ~~~~~~~~~~vi~v~~~~~~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~-~~~~~~~-~------~~~~~ 85 (149)
...+...++++++| |..+-..-+....+..... .+.+-|+|.||+|.+ ..+... ..+...+ . .+..+
T Consensus 86 ERvl~MVDgvlLlV-DA~EGpMPQTrFVlkKAl~---~gL~PIVVvNKiDrp-~Arp~~Vvd~vfDLf~~L~A~deQLdF 160 (603)
T COG1217 86 ERVLSMVDGVLLLV-DASEGPMPQTRFVLKKALA---LGLKPIVVINKIDRP-DARPDEVVDEVFDLFVELGATDEQLDF 160 (603)
T ss_pred hhhhhhcceEEEEE-EcccCCCCchhhhHHHHHH---cCCCcEEEEeCCCCC-CCCHHHHHHHHHHHHHHhCCChhhCCC
Confidence 34455667755555 6554223445555555544 345667788999987 322110 1111122 1 34567
Q ss_pred cEEEecCCCC----------CCHHHHHHHHHHHHHHHh
Q 032001 86 KFFETSAKTN----------LNVEQVFFSIARDIKQRL 113 (149)
Q Consensus 86 ~~~~~Sak~~----------~~i~el~~~l~~~i~~~~ 113 (149)
|++..||..| .++..||+.|++.++...
T Consensus 161 PivYAS~~~G~a~~~~~~~~~~m~pLfe~I~~hvp~P~ 198 (603)
T COG1217 161 PIVYASARNGTASLDPEDEADDMAPLFETILDHVPAPK 198 (603)
T ss_pred cEEEeeccCceeccCccccccchhHHHHHHHHhCCCCC
Confidence 8999998776 467889999998887654
No 299
>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=96.08 E-value=0.054 Score=39.97 Aligned_cols=98 Identities=14% Similarity=0.162 Sum_probs=57.0
Q ss_pred ccchhhhhhcCeEEEEEeeCCh----hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCC-CCCCH----HHHHHHHH
Q 032001 11 GVYPPYLAVLCRFKYCTYKIAS----YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESK-RAVPT----SKGQALAD 81 (149)
Q Consensus 11 ~~~~~~~~~~~~~vi~v~~~~~----~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~-~~~~~----~~~~~~~~ 81 (149)
.-+...|++... +|+|+|+.. +.+......+..+.+.. +++.+.+..+|+|+..++ +.... ......+.
T Consensus 68 ~~~~~if~~v~~-LIyV~D~qs~~~~~~l~~~~~~i~~l~~~s-p~~~v~vfiHK~D~l~~~~r~~~~~~~~~~i~~~~~ 145 (232)
T PF04670_consen 68 SQREEIFSNVGV-LIYVFDAQSDDYDEDLAYLSDCIEALRQYS-PNIKVFVFIHKMDLLSEDEREEIFRDIQQRIRDELE 145 (232)
T ss_dssp CCHHHHHCTESE-EEEEEETT-STCHHHHHHHHHHHHHHHHHS-TT-EEEEEEE-CCCS-HHHHHHHHHHHHHHHHHHHH
T ss_pred ccHHHHHhccCE-EEEEEEcccccHHHHHHHHHHHHHHHHHhC-CCCeEEEEEeecccCCHHHHHHHHHHHHHHHHHHhh
Confidence 345667777766 777888873 34444455555555555 689999999999986211 11001 11222333
Q ss_pred HhC---CcEEEecCCCCCCHHHHHHHHHHHHHH
Q 032001 82 EYG---IKFFETSAKTNLNVEQVFFSIARDIKQ 111 (149)
Q Consensus 82 ~~~---~~~~~~Sak~~~~i~el~~~l~~~i~~ 111 (149)
..+ +.++.+|.-+ +.+-+.+-.++..+..
T Consensus 146 ~~~~~~~~~~~TSI~D-~Sly~A~S~Ivq~LiP 177 (232)
T PF04670_consen 146 DLGIEDITFFLTSIWD-ESLYEAWSKIVQKLIP 177 (232)
T ss_dssp HTT-TSEEEEEE-TTS-THHHHHHHHHHHTTST
T ss_pred hccccceEEEeccCcC-cHHHHHHHHHHHHHcc
Confidence 444 5678887764 6888888888876643
No 300
>COG1163 DRG Predicted GTPase [General function prediction only]
Probab=96.08 E-value=0.022 Score=43.94 Aligned_cols=49 Identities=22% Similarity=0.177 Sum_probs=38.1
Q ss_pred CeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhCCcEEEecCCCCCCHHHHHHHHHHHH
Q 032001 53 VNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKTNLNVEQVFFSIARDI 109 (149)
Q Consensus 53 ~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~Sak~~~~i~el~~~l~~~i 109 (149)
+|-++|.||+|+. . .+.+..+.+.. ..+.+||+++.|+++|.+.|-+.+
T Consensus 240 ~p~l~v~NKiD~~-~-----~e~~~~l~~~~--~~v~isa~~~~nld~L~e~i~~~L 288 (365)
T COG1163 240 KPALYVVNKIDLP-G-----LEELERLARKP--NSVPISAKKGINLDELKERIWDVL 288 (365)
T ss_pred eeeEEEEeccccc-C-----HHHHHHHHhcc--ceEEEecccCCCHHHHHHHHHHhh
Confidence 7999999999997 2 23333333333 689999999999999999888766
No 301
>PRK00007 elongation factor G; Reviewed
Probab=96.00 E-value=0.076 Score=45.21 Aligned_cols=28 Identities=14% Similarity=0.132 Sum_probs=24.3
Q ss_pred CcEEEecCCCCCCHHHHHHHHHHHHHHH
Q 032001 85 IKFFETSAKTNLNVEQVFFSIARDIKQR 112 (149)
Q Consensus 85 ~~~~~~Sak~~~~i~el~~~l~~~i~~~ 112 (149)
+|++..||.++.|+..|++.|++.++..
T Consensus 255 ~Pv~~gSa~~~~Gv~~LLd~I~~~lPsP 282 (693)
T PRK00007 255 VPVLCGSAFKNKGVQPLLDAVVDYLPSP 282 (693)
T ss_pred EEEEecccccCcCHHHHHHHHHHHCCCh
Confidence 4678889999999999999999988755
No 302
>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=95.91 E-value=0.025 Score=39.74 Aligned_cols=43 Identities=19% Similarity=0.001 Sum_probs=24.9
Q ss_pred eEEEEEeeCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCC
Q 032001 22 RFKYCTYKIASYHFSDIRNWIRNIEQHASDNVNKVLVGNKADMD 65 (149)
Q Consensus 22 ~~vi~v~~~~~~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~ 65 (149)
|++++|.|....-......+.+.+. ....+.|+|+|.||+|+.
T Consensus 1 DvVl~VvDar~p~~~~~~~i~~~~~-l~~~~kp~IlVlNK~DL~ 43 (172)
T cd04178 1 DVILEVLDARDPLGCRCPQVEEAVL-QAGGNKKLVLVLNKIDLV 43 (172)
T ss_pred CEEEEEEECCCCCCCCCHHHHHHHH-hccCCCCEEEEEehhhcC
Confidence 4678888876421111223333321 111357999999999997
No 303
>KOG1144 consensus Translation initiation factor 5B (eIF-5B) [Translation, ribosomal structure and biogenesis]
Probab=95.75 E-value=0.049 Score=46.35 Aligned_cols=105 Identities=12% Similarity=0.174 Sum_probs=59.8
Q ss_pred ccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCC-----CCH-------
Q 032001 7 LCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRA-----VPT------- 73 (149)
Q Consensus 7 ~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~-----~~~------- 73 (149)
|.|..++.. ....+++.|+|.|+.. -....+..+ +.++. .+.|+|+..||+|..=.+.. +..
T Consensus 551 EsFtnlRsr-gsslC~~aIlvvdImhGlepqtiESi-~lLR~---rktpFivALNKiDRLYgwk~~p~~~i~~~lkkQ~k 625 (1064)
T KOG1144|consen 551 ESFTNLRSR-GSSLCDLAILVVDIMHGLEPQTIESI-NLLRM---RKTPFIVALNKIDRLYGWKSCPNAPIVEALKKQKK 625 (1064)
T ss_pred hhhhhhhhc-cccccceEEEEeehhccCCcchhHHH-HHHHh---cCCCeEEeehhhhhhcccccCCCchHHHHHHHhhH
Confidence 445444443 3456677888889874 111222221 22333 46899999999995301100 000
Q ss_pred ---H----H----HHHHHHH------------hC--CcEEEecCCCCCCHHHHHHHHHHHHHHHhcCC
Q 032001 74 ---S----K----GQALADE------------YG--IKFFETSAKTNLNVEQVFFSIARDIKQRLADT 116 (149)
Q Consensus 74 ---~----~----~~~~~~~------------~~--~~~~~~Sak~~~~i~el~~~l~~~i~~~~~~~ 116 (149)
. . ...|++. .+ +.++++||.+|+||-+|+-+|+......+.+.
T Consensus 626 ~v~~EF~~R~~~ii~efaEQgLN~~LyykNk~~~~~vsiVPTSA~sGeGipdLl~llv~ltQk~m~~k 693 (1064)
T KOG1144|consen 626 DVQNEFKERLNNIIVEFAEQGLNAELYYKNKEMGETVSIVPTSAISGEGIPDLLLLLVQLTQKTMVEK 693 (1064)
T ss_pred HHHHHHHHHHHHHHHHHHHcccchhheeecccccceEEeeecccccCCCcHHHHHHHHHHHHHHHHHH
Confidence 0 0 0111110 01 23678999999999999999998877665443
No 304
>KOG1424 consensus Predicted GTP-binding protein MMR1 [General function prediction only]
Probab=95.62 E-value=0.021 Score=46.37 Aligned_cols=74 Identities=19% Similarity=0.240 Sum_probs=45.7
Q ss_pred ccchhhhhh--cCeEEEEEeeCChhhHH---HHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHH---H
Q 032001 11 GVYPPYLAV--LCRFKYCTYKIASYHFS---DIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALAD---E 82 (149)
Q Consensus 11 ~~~~~~~~~--~~~~vi~v~~~~~~s~~---~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~---~ 82 (149)
.+|...|+- -.|+|+.++|+-+..|- ++..++.+.. +....+++.||.||. +......|+. .
T Consensus 163 E~WRQLWRVlErSDivvqIVDARnPllfr~~dLe~Yvke~d----~~K~~~LLvNKaDLl------~~~qr~aWa~YF~~ 232 (562)
T KOG1424|consen 163 EIWRQLWRVLERSDIVVQIVDARNPLLFRSPDLEDYVKEVD----PSKANVLLVNKADLL------PPEQRVAWAEYFRQ 232 (562)
T ss_pred HHHHHHHHHHhhcceEEEEeecCCccccCChhHHHHHhccc----cccceEEEEehhhcC------CHHHHHHHHHHHHh
Confidence 344444443 23667777788764443 3444444433 346788899999997 2344455554 4
Q ss_pred hCCcEEEecCCC
Q 032001 83 YGIKFFETSAKT 94 (149)
Q Consensus 83 ~~~~~~~~Sak~ 94 (149)
+++++++.||..
T Consensus 233 ~ni~~vf~SA~~ 244 (562)
T KOG1424|consen 233 NNIPVVFFSALA 244 (562)
T ss_pred cCceEEEEeccc
Confidence 568899999875
No 305
>PF03029 ATP_bind_1: Conserved hypothetical ATP binding protein; InterPro: IPR004130 Members of this family are found in a range of archaea and eukaryotes and have hypothesised ATP binding activity.; GO: 0000166 nucleotide binding; PDB: 1YR7_A 1YRA_B 1YR8_A 1YR6_A 1YR9_A 1YRB_A 2OXR_A.
Probab=95.62 E-value=0.014 Score=43.13 Aligned_cols=57 Identities=23% Similarity=0.312 Sum_probs=31.6
Q ss_pred CCCeEEEEeeCCCCCcCCCC-C------------------CHHHHHHHHHH---hC-C-cEEEecCCCCCCHHHHHHHHH
Q 032001 51 DNVNKVLVGNKADMDESKRA-V------------------PTSKGQALADE---YG-I-KFFETSAKTNLNVEQVFFSIA 106 (149)
Q Consensus 51 ~~~~iilv~nK~Dl~~~~~~-~------------------~~~~~~~~~~~---~~-~-~~~~~Sak~~~~i~el~~~l~ 106 (149)
-+.|.|.|.||+|+. .... . .......+++. ++ . +++.+|+++++++++|+..+-
T Consensus 155 ~~lP~vnvlsK~Dl~-~~~~~~~l~~~~d~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~f~pls~~~~~~~~~L~~~id 233 (238)
T PF03029_consen 155 LELPHVNVLSKIDLL-SKYLEFILEWFEDPDSLEDLLESDYKKLNEEIAELLDDFGLVIRFIPLSSKDGEGMEELLAAID 233 (238)
T ss_dssp HTSEEEEEE--GGGS--HHHHHHHHHHHSHHHHHHHHHT-HHHHHHHHHHHCCCCSSS---EE-BTTTTTTHHHHHHHHH
T ss_pred CCCCEEEeeeccCcc-cchhHHHHHHhcChHHHHHHHHHHHHHHHHHHHHHHhhcCCCceEEEEECCChHHHHHHHHHHH
Confidence 468999999999997 2110 0 00001112222 23 3 689999999999999888776
Q ss_pred HH
Q 032001 107 RD 108 (149)
Q Consensus 107 ~~ 108 (149)
+.
T Consensus 234 ~a 235 (238)
T PF03029_consen 234 KA 235 (238)
T ss_dssp HH
T ss_pred HH
Confidence 53
No 306
>PF03308 ArgK: ArgK protein; InterPro: IPR005129 Bacterial periplasmic transport systems require the function of a specific substrate-binding protein, located in the periplasm, and several cytoplasmic membrane transport components. In Escherichia coli, the arginine-ornithine transport system requires an arginine-ornithine-binding protein and the lysine-arginine-ornithine (LAO) transport system includes a LAO-binding protein. Both periplasmic proteins can be phosphorylated by a single kinase, ArgK [] resulting in reduced levels of transport activity of the periplasmic transport systems that include each of the binding proteins. The ArgK protein acts as an ATPase enzyme and as a kinase.; PDB: 3MD0_A 3P32_A 2QM7_A 2QM8_A 2WWW_D 2P67_A 3NXS_A.
Probab=95.58 E-value=0.014 Score=43.68 Aligned_cols=82 Identities=16% Similarity=0.144 Sum_probs=43.8
Q ss_pred hcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHH-------hCCcEEEe
Q 032001 19 VLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADE-------YGIKFFET 90 (149)
Q Consensus 19 ~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~-------~~~~~~~~ 90 (149)
...|.+++|....- .....++.=+-++ .=++|.||.|.+...+ ...+....... +..|++.+
T Consensus 141 ~~aD~~v~v~~Pg~GD~iQ~~KaGimEi--------aDi~vVNKaD~~gA~~--~~~~l~~~l~l~~~~~~~W~ppV~~t 210 (266)
T PF03308_consen 141 DMADTVVLVLVPGLGDEIQAIKAGIMEI--------ADIFVVNKADRPGADR--TVRDLRSMLHLLREREDGWRPPVLKT 210 (266)
T ss_dssp TTSSEEEEEEESSTCCCCCTB-TTHHHH---------SEEEEE--SHHHHHH--HHHHHHHHHHHCSTSCTSB--EEEEE
T ss_pred HhcCeEEEEecCCCccHHHHHhhhhhhh--------ccEEEEeCCChHHHHH--HHHHHHHHHhhccccccCCCCCEEEE
Confidence 35566666655543 3333333333333 2377889999752111 11111211111 12479999
Q ss_pred cCCCCCCHHHHHHHHHHHHH
Q 032001 91 SAKTNLNVEQVFFSIARDIK 110 (149)
Q Consensus 91 Sak~~~~i~el~~~l~~~i~ 110 (149)
||.++.|+++|++.|.+...
T Consensus 211 sA~~~~Gi~eL~~~i~~~~~ 230 (266)
T PF03308_consen 211 SALEGEGIDELWEAIDEHRD 230 (266)
T ss_dssp BTTTTBSHHHHHHHHHHHHH
T ss_pred EeCCCCCHHHHHHHHHHHHH
Confidence 99999999999999987543
No 307
>cd01882 BMS1 Bms1. Bms1 is an essential, evolutionarily conserved, nucleolar protein. Its depletion interferes with processing of the 35S pre-rRNA at sites A0, A1, and A2, and the formation of 40S subunits. Bms1, the putative endonuclease Rc11, and the essential U3 small nucleolar RNA form a stable subcomplex that is believed to control an early step in the formation of the 40S subumit. The C-terminal domain of Bms1 contains a GTPase-activating protein (GAP) that functions intramolecularly. It is believed that Rc11 activates Bms1 by acting as a guanine-nucleotide exchange factor (GEF) to promote GDP/GTP exchange, and that activated (GTP-bound) Bms1 delivers Rc11 to the preribosomes.
Probab=95.55 E-value=0.064 Score=39.21 Aligned_cols=76 Identities=11% Similarity=0.005 Sum_probs=39.8
Q ss_pred hcCeEEEEEeeCChhhHHHHHHHHHHHHHhcCCCCe-EEEEeeCCCCCcCCCCCCHH---HHHH-HHHH--hCCcEEEec
Q 032001 19 VLCRFKYCTYKIASYHFSDIRNWIRNIEQHASDNVN-KVLVGNKADMDESKRAVPTS---KGQA-LADE--YGIKFFETS 91 (149)
Q Consensus 19 ~~~~~vi~v~~~~~~s~~~~~~~~~~i~~~~~~~~~-iilv~nK~Dl~~~~~~~~~~---~~~~-~~~~--~~~~~~~~S 91 (149)
...+++++|.|.....-.....++..+.. .+.| +++|.||+|+. ........ .+.. +... .+.+++.+|
T Consensus 102 k~aDvVllviDa~~~~~~~~~~i~~~l~~---~g~p~vi~VvnK~D~~-~~~~~~~~~~~~l~~~~~~~~~~~~ki~~iS 177 (225)
T cd01882 102 KVADLVLLLIDASFGFEMETFEFLNILQV---HGFPRVMGVLTHLDLF-KKNKTLRKTKKRLKHRFWTEVYQGAKLFYLS 177 (225)
T ss_pred HhcCEEEEEEecCcCCCHHHHHHHHHHHH---cCCCeEEEEEeccccC-CcHHHHHHHHHHHHHHHHHhhCCCCcEEEEe
Confidence 34566788888764111122334444433 2356 45599999986 22111111 1111 2222 235899999
Q ss_pred CCCCCCH
Q 032001 92 AKTNLNV 98 (149)
Q Consensus 92 ak~~~~i 98 (149)
|++...+
T Consensus 178 a~~~~~~ 184 (225)
T cd01882 178 GIVHGRY 184 (225)
T ss_pred eccCCCC
Confidence 9988543
No 308
>COG1703 ArgK Putative periplasmic protein kinase ArgK and related GTPases of G3E family [Amino acid transport and metabolism]
Probab=95.52 E-value=0.13 Score=39.37 Aligned_cols=55 Identities=24% Similarity=0.226 Sum_probs=35.7
Q ss_pred EEEeeCCCCCcCCCCCCHHH---HHHHHH----HhC--CcEEEecCCCCCCHHHHHHHHHHHHHHH
Q 032001 56 VLVGNKADMDESKRAVPTSK---GQALAD----EYG--IKFFETSAKTNLNVEQVFFSIARDIKQR 112 (149)
Q Consensus 56 ilv~nK~Dl~~~~~~~~~~~---~~~~~~----~~~--~~~~~~Sak~~~~i~el~~~l~~~i~~~ 112 (149)
|+|.||.|.. . ......+ +..+.. ..+ .+++.+||.+|+|+++|++.+.+.....
T Consensus 193 i~vINKaD~~-~-A~~a~r~l~~al~~~~~~~~~~~W~ppv~~t~A~~g~Gi~~L~~ai~~h~~~~ 256 (323)
T COG1703 193 IIVINKADRK-G-AEKAARELRSALDLLREVWRENGWRPPVVTTSALEGEGIDELWDAIEDHRKFL 256 (323)
T ss_pred eeeEeccChh-h-HHHHHHHHHHHHHhhcccccccCCCCceeEeeeccCCCHHHHHHHHHHHHHHH
Confidence 7788999975 2 1111111 111221 122 4799999999999999999999866443
No 309
>KOG1191 consensus Mitochondrial GTPase [Translation, ribosomal structure and biogenesis]
Probab=95.13 E-value=0.036 Score=44.87 Aligned_cols=92 Identities=12% Similarity=0.025 Sum_probs=52.1
Q ss_pred cCeEEEEEeeCCh---hhHHHHHHHHHHHHHhc------CCCCeEEEEeeCCCCCcCCCCCCHHHHHHH-HHHh-CCc-E
Q 032001 20 LCRFKYCTYKIAS---YHFSDIRNWIRNIEQHA------SDNVNKVLVGNKADMDESKRAVPTSKGQAL-ADEY-GIK-F 87 (149)
Q Consensus 20 ~~~~vi~v~~~~~---~s~~~~~~~~~~i~~~~------~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~-~~~~-~~~-~ 87 (149)
.+|++++|+|... ++...+...++....-. ....+++++.||+|+....++......... +... .++ +
T Consensus 348 ~advi~~vvda~~~~t~sd~~i~~~l~~~~~g~~~~~~~~~~~~~i~~~nk~D~~s~~~~~~~~~~~~~~~~~~~~~~i~ 427 (531)
T KOG1191|consen 348 RADVILLVVDAEESDTESDLKIARILETEGVGLVVIVNKMEKQRIILVANKSDLVSKIPEMTKIPVVYPSAEGRSVFPIV 427 (531)
T ss_pred hcCEEEEEecccccccccchHHHHHHHHhccceEEEeccccccceEEEechhhccCccccccCCceeccccccCcccceE
Confidence 4577888888843 22222233333322211 134799999999998722222222111111 1111 133 4
Q ss_pred EEecCCCCCCHHHHHHHHHHHHHH
Q 032001 88 FETSAKTNLNVEQVFFSIARDIKQ 111 (149)
Q Consensus 88 ~~~Sak~~~~i~el~~~l~~~i~~ 111 (149)
.++|++|++++++|.+.+.+.+..
T Consensus 428 ~~vs~~tkeg~~~L~~all~~~~~ 451 (531)
T KOG1191|consen 428 VEVSCTTKEGCERLSTALLNIVER 451 (531)
T ss_pred EEeeechhhhHHHHHHHHHHHHHH
Confidence 569999999999999998876643
No 310
>COG5256 TEF1 Translation elongation factor EF-1alpha (GTPase) [Translation, ribosomal structure and biogenesis]
Probab=95.06 E-value=0.099 Score=41.56 Aligned_cols=79 Identities=13% Similarity=0.011 Sum_probs=46.3
Q ss_pred cCeEEEEEeeCChhhHHHH------HHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHH----HHHHHHhC-----
Q 032001 20 LCRFKYCTYKIASYHFSDI------RNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKG----QALADEYG----- 84 (149)
Q Consensus 20 ~~~~vi~v~~~~~~s~~~~------~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~----~~~~~~~~----- 84 (149)
.+|+.+||.|.....|+.- .+...-+....+ -..+|++.||+|++ +.++...++. ..+.+..|
T Consensus 108 qAD~aVLVV~a~~~efE~g~~~~gQtrEH~~La~tlG-i~~lIVavNKMD~v-~wde~rf~ei~~~v~~l~k~~G~~~~~ 185 (428)
T COG5256 108 QADVAVLVVDARDGEFEAGFGVGGQTREHAFLARTLG-IKQLIVAVNKMDLV-SWDEERFEEIVSEVSKLLKMVGYNPKD 185 (428)
T ss_pred hccEEEEEEECCCCccccccccCCchhHHHHHHHhcC-CceEEEEEEccccc-ccCHHHHHHHHHHHHHHHHHcCCCccC
Confidence 4566777778775333322 122222223332 34788889999998 5554444332 23444444
Q ss_pred CcEEEecCCCCCCHHH
Q 032001 85 IKFFETSAKTNLNVEQ 100 (149)
Q Consensus 85 ~~~~~~Sak~~~~i~e 100 (149)
++++++||..|.|+.+
T Consensus 186 v~FIPiSg~~G~Nl~~ 201 (428)
T COG5256 186 VPFIPISGFKGDNLTK 201 (428)
T ss_pred CeEEecccccCCcccc
Confidence 4589999999999754
No 311
>COG2895 CysN GTPases - Sulfate adenylate transferase subunit 1 [Inorganic ion transport and metabolism]
Probab=95.04 E-value=0.12 Score=40.46 Aligned_cols=74 Identities=19% Similarity=0.148 Sum_probs=43.1
Q ss_pred CeEEEEEeeCChhhHHHHH--HHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHH----HHHHHHHhCC---cEEEec
Q 032001 21 CRFKYCTYKIASYHFSDIR--NWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSK----GQALADEYGI---KFFETS 91 (149)
Q Consensus 21 ~~~vi~v~~~~~~s~~~~~--~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~----~~~~~~~~~~---~~~~~S 91 (149)
+++.|++.|.-..-.++.. .++..+ . .=..+|+..||+||. +-.+...+. ...++...++ .++++|
T Consensus 110 adlAIlLVDAR~Gvl~QTrRHs~I~sL---L-GIrhvvvAVNKmDLv-dy~e~~F~~I~~dy~~fa~~L~~~~~~~IPiS 184 (431)
T COG2895 110 ADLAILLVDARKGVLEQTRRHSFIASL---L-GIRHVVVAVNKMDLV-DYSEEVFEAIVADYLAFAAQLGLKDVRFIPIS 184 (431)
T ss_pred ccEEEEEEecchhhHHHhHHHHHHHHH---h-CCcEEEEEEeeeccc-ccCHHHHHHHHHHHHHHHHHcCCCcceEEech
Confidence 4555666577543334432 222222 2 124788889999998 433322222 2345666653 689999
Q ss_pred CCCCCCHH
Q 032001 92 AKTNLNVE 99 (149)
Q Consensus 92 ak~~~~i~ 99 (149)
|..|+||-
T Consensus 185 Al~GDNV~ 192 (431)
T COG2895 185 ALLGDNVV 192 (431)
T ss_pred hccCCccc
Confidence 99998873
No 312
>PRK09602 translation-associated GTPase; Reviewed
Probab=94.84 E-value=0.086 Score=41.95 Aligned_cols=56 Identities=21% Similarity=0.170 Sum_probs=38.0
Q ss_pred CCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhCCcEEEecCCCCCCHHH-HHHHHHHHHHH
Q 032001 51 DNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKTNLNVEQ-VFFSIARDIKQ 111 (149)
Q Consensus 51 ~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~Sak~~~~i~e-l~~~l~~~i~~ 111 (149)
..+|+++|+||.|+. ... .....+.+..+..++.+||+.+.++.+ +++.+++.+++
T Consensus 216 t~KPvI~VlNK~D~~-~~~----~~l~~i~~~~~~~vvpISA~~e~~l~~~l~~~i~~~lp~ 272 (396)
T PRK09602 216 ISKPMVIAANKADLP-PAE----ENIERLKEEKYYIVVPTSAEAELALRRAAKAGLIDYIPG 272 (396)
T ss_pred cCCCEEEEEEchhcc-cch----HHHHHHHhcCCCcEEEEcchhhhhHHHHHHHhHHhhCCC
Confidence 458999999999975 211 112222222345789999999999988 67777766544
No 313
>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=94.79 E-value=0.58 Score=37.78 Aligned_cols=65 Identities=11% Similarity=0.171 Sum_probs=41.5
Q ss_pred HHHHHHHHHHHHHhcCCCCeEEEEeeCCC-CCcCCCCCCHHHHHHHHHHhCCcEEEecCCCC--CCHHHHHHHHH
Q 032001 35 FSDIRNWIRNIEQHASDNVNKVLVGNKAD-MDESKRAVPTSKGQALADEYGIKFFETSAKTN--LNVEQVFFSIA 106 (149)
Q Consensus 35 ~~~~~~~~~~i~~~~~~~~~iilv~nK~D-l~~~~~~~~~~~~~~~~~~~~~~~~~~Sak~~--~~i~el~~~l~ 106 (149)
.+....|++++++ .++|+++|.||.| .. . ........+...++.+++.+|+..- ..|..++..+.
T Consensus 166 ~~aEe~~i~eLk~---~~kPfiivlN~~dp~~-~---et~~l~~~l~eky~vpvl~v~c~~l~~~DI~~il~~vL 233 (492)
T TIGR02836 166 VEAEERVIEELKE---LNKPFIILLNSTHPYH-P---ETEALRQELEEKYDVPVLAMDVESMRESDILSVLEEVL 233 (492)
T ss_pred hHHHHHHHHHHHh---cCCCEEEEEECcCCCC-c---hhHHHHHHHHHHhCCceEEEEHHHcCHHHHHHHHHHHH
Confidence 3556789999887 4689999999999 32 1 1233344556677888888776432 23444444433
No 314
>smart00053 DYNc Dynamin, GTPase. Large GTPases that mediate vesicle trafficking. Dynamin participates in the endocytic uptake of receptors, associated ligands, and plasma membrane following an exocytic event.
Probab=94.07 E-value=0.16 Score=37.69 Aligned_cols=54 Identities=9% Similarity=0.046 Sum_probs=35.6
Q ss_pred ccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCC
Q 032001 9 FIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMD 65 (149)
Q Consensus 9 ~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~ 65 (149)
...+...|+.+.+.++++|.+... -+-.....+...+.. ...++++|.||.|..
T Consensus 151 i~~lv~~yi~~~~~IIL~Vvda~~d~~~~d~l~ia~~ld~---~~~rti~ViTK~D~~ 205 (240)
T smart00053 151 IKDMIKQFISKEECLILAVTPANVDLANSDALKLAKEVDP---QGERTIGVITKLDLM 205 (240)
T ss_pred HHHHHHHHHhCccCeEEEEEECCCCCCchhHHHHHHHHHH---cCCcEEEEEECCCCC
Confidence 445677888888778888887653 111222233333333 468999999999987
No 315
>COG5258 GTPBP1 GTPase [General function prediction only]
Probab=94.02 E-value=0.38 Score=38.28 Aligned_cols=60 Identities=20% Similarity=0.124 Sum_probs=35.0
Q ss_pred CCCeEEEEeeCCCCCcCCCCC-CHHHH----------------------HHHHHHhC---CcEEEecCCCCCCHHHHHHH
Q 032001 51 DNVNKVLVGNKADMDESKRAV-PTSKG----------------------QALADEYG---IKFFETSAKTNLNVEQVFFS 104 (149)
Q Consensus 51 ~~~~iilv~nK~Dl~~~~~~~-~~~~~----------------------~~~~~~~~---~~~~~~Sak~~~~i~el~~~ 104 (149)
-..|++++.+|+|+.++++.. ..++. ...+-+.+ .|+|.+|+.||+|.+- ++.
T Consensus 254 ~~lPviVvvTK~D~~~ddr~~~v~~ei~~~Lk~v~Rip~~vk~~~d~v~aa~a~k~~~~vvPi~~tSsVTg~Gldl-L~e 332 (527)
T COG5258 254 MELPVIVVVTKIDMVPDDRFQGVVEEISALLKRVGRIPLIVKDTDDVVLAAKAMKAGRGVVPIFYTSSVTGEGLDL-LDE 332 (527)
T ss_pred hcCCEEEEEEecccCcHHHHHHHHHHHHHHHHHhcccceeeeccchhHHhhhhhhcCCceEEEEEEecccCccHHH-HHH
Confidence 368999999999997221100 00011 11122222 4899999999999764 444
Q ss_pred HHHHHHH
Q 032001 105 IARDIKQ 111 (149)
Q Consensus 105 l~~~i~~ 111 (149)
+...++.
T Consensus 333 ~f~~Lp~ 339 (527)
T COG5258 333 FFLLLPK 339 (527)
T ss_pred HHHhCCc
Confidence 4444543
No 316
>PRK13505 formate--tetrahydrofolate ligase; Provisional
Probab=93.78 E-value=0.8 Score=37.94 Aligned_cols=102 Identities=17% Similarity=0.118 Sum_probs=61.2
Q ss_pred ccccccccccchhhhhhcCeEEEEEeeCC--------------h-------hhHHHHHHHHHHHHHhcCCCCeEEEEeeC
Q 032001 3 YLRCLCFIGVYPPYLAVLCRFKYCTYKIA--------------S-------YHFSDIRNWIRNIEQHASDNVNKVLVGNK 61 (149)
Q Consensus 3 ~~~~~~~~~~~~~~~~~~~~~vi~v~~~~--------------~-------~s~~~~~~~~~~i~~~~~~~~~iilv~nK 61 (149)
-||.|+|..+--...--.-+++++|..+- . .-+.++.+-++.++.+ ++|++++.||
T Consensus 305 DlGaEKF~dIkcr~~gl~P~~~VlVaTvraLK~hgg~~~~~l~~en~Eal~sGl~NL~RHIenvr~F---GvPvVVAINK 381 (557)
T PRK13505 305 DLGAEKFLDIKCRKAGLKPDAVVIVATVRALKMHGGVAKDDLKEENVEALKKGFANLERHIENIRKF---GVPVVVAINK 381 (557)
T ss_pred CCCCceeeeeecccCCCCCCEEEEEeehHHHHHcCCCChhhccccCHHHHHHHHHHHHHHHHHHHHc---CCCEEEEEeC
Confidence 36677776665554433445566664221 1 1234444444444442 5899999999
Q ss_pred CCCCcCCCCCCHHHHHHHHHHhCCcEEEec--CCCCCCHHHHHHHHHHHHH
Q 032001 62 ADMDESKRAVPTSKGQALADEYGIKFFETS--AKTNLNVEQVFFSIARDIK 110 (149)
Q Consensus 62 ~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~S--ak~~~~i~el~~~l~~~i~ 110 (149)
.|+. ..........++.+.++++..+. ++-|+|-.++-..+++.+.
T Consensus 382 Fd~D---Te~Ei~~I~~~c~e~Gv~va~~~~~~~Gg~Gai~LA~aVveA~~ 429 (557)
T PRK13505 382 FVTD---TDAEIAALKELCEELGVEVALSEVWAKGGEGGVELAEKVVELIE 429 (557)
T ss_pred CCCC---CHHHHHHHHHHHHHcCCCEEEecccccCCcchHHHHHHHHHHHh
Confidence 9975 22233456778888898776433 4556677777777776554
No 317
>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=93.38 E-value=0.15 Score=41.50 Aligned_cols=60 Identities=20% Similarity=0.212 Sum_probs=43.5
Q ss_pred CeEEEEeeCCCCCc---CC---CCCCHH----HHHHHHHHhCCcEEEecCCCCCCHHHHHHHHHHHHHHH
Q 032001 53 VNKVLVGNKADMDE---SK---RAVPTS----KGQALADEYGIKFFETSAKTNLNVEQVFFSIARDIKQR 112 (149)
Q Consensus 53 ~~iilv~nK~Dl~~---~~---~~~~~~----~~~~~~~~~~~~~~~~Sak~~~~i~el~~~l~~~i~~~ 112 (149)
+|++||.+|.|... .. ...... .++.++-.+|.-.|.+|++...+++-|+.+|...++..
T Consensus 197 ipi~VV~tksD~~~~Lek~~~~~~e~~DfIqq~LR~~cL~yGAsL~yts~~~~~n~~~L~~yi~h~l~~~ 266 (472)
T PF05783_consen 197 IPIVVVCTKSDKIETLEKETDWKEEHFDFIQQYLRTFCLKYGASLIYTSVKEEKNLDLLYKYILHRLYGF 266 (472)
T ss_pred cceEEEEecccHHHHHhhhcccchhhHHHHHHHHHHHHHhcCCeEEEeeccccccHHHHHHHHHHHhccC
Confidence 89999999999641 11 111112 24455667888899999999999999998988877654
No 318
>KOG0466 consensus Translation initiation factor 2, gamma subunit (eIF-2gamma; GTPase) [Translation, ribosomal structure and biogenesis]
Probab=93.16 E-value=0.12 Score=39.76 Aligned_cols=59 Identities=19% Similarity=0.203 Sum_probs=41.7
Q ss_pred CeEEEEeeCCCCCcCCCCCCH--HHHHHHHHH---hCCcEEEecCCCCCCHHHHHHHHHHHHHHH
Q 032001 53 VNKVLVGNKADMDESKRAVPT--SKGQALADE---YGIKFFETSAKTNLNVEQVFFSIARDIKQR 112 (149)
Q Consensus 53 ~~iilv~nK~Dl~~~~~~~~~--~~~~~~~~~---~~~~~~~~Sak~~~~i~el~~~l~~~i~~~ 112 (149)
..++++.||+||. .+.+..+ +....|... .+.|++.+||....||+.+.+.++..++..
T Consensus 180 khiiilQNKiDli-~e~~A~eq~e~I~kFi~~t~ae~aPiiPisAQlkyNId~v~eyivkkIPvP 243 (466)
T KOG0466|consen 180 KHIIILQNKIDLI-KESQALEQHEQIQKFIQGTVAEGAPIIPISAQLKYNIDVVCEYIVKKIPVP 243 (466)
T ss_pred ceEEEEechhhhh-hHHHHHHHHHHHHHHHhccccCCCceeeehhhhccChHHHHHHHHhcCCCC
Confidence 5789999999998 3222111 122233332 356999999999999999999999888654
No 319
>COG1161 Predicted GTPases [General function prediction only]
Probab=93.10 E-value=0.16 Score=39.35 Aligned_cols=49 Identities=31% Similarity=0.260 Sum_probs=30.3
Q ss_pred CeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhCCcEEEecCCCCCCHHHHHH
Q 032001 53 VNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKTNLNVEQVFF 103 (149)
Q Consensus 53 ~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~Sak~~~~i~el~~ 103 (149)
.+.++|+||.||. + ..+.......+.+..+...+.++++.+.+...+..
T Consensus 62 k~~i~vlNK~DL~-~-~~~~~~W~~~~~~~~~~~~~~v~~~~~~~~~~i~~ 110 (322)
T COG1161 62 KPKLLVLNKADLA-P-KEVTKKWKKYFKKEEGIKPIFVSAKSRQGGKKIRK 110 (322)
T ss_pred CCcEEEEehhhcC-C-HHHHHHHHHHHHhcCCCccEEEEeecccCccchHH
Confidence 4559999999998 2 21222222333333456678888888887766654
No 320
>cd01852 AIG1 AIG1 (avrRpt2-induced gene 1). This represents Arabidoposis protein AIG1 that appears to be involved in plant resistance to bacteria. The Arabidopsis disease resistance gene RPS2 is involved in recognition of bacterial pathogens carrying the avirulence gene avrRpt2. AIG1 exhibits RPS2- and avrRpt1-dependent induction early after infection with Pseudomonas syringae carrying avrRpt2. This subfamily also includes IAN-4 protein, which has GTP-binding activity and shares sequence homology with a novel family of putative GTP-binding proteins: the immuno-associated nucleotide (IAN) family. The evolutionary conservation of the IAN family provides a unique example of a plant pathogen response gene conserved in animals. The IAN/IMAP subfamily has been proposed to regulate apoptosis in vertebrates and angiosperm plants, particularly in relation to cancer, diabetes, and infections. The human IAN genes were renamed GIMAP (GTPase of the immunity associated proteins).
Probab=92.85 E-value=2 Score=30.38 Aligned_cols=91 Identities=5% Similarity=0.095 Sum_probs=51.2
Q ss_pred cCeEEEEEeeCChhhHHHHHHHHHHHHHhcCC--CCeEEEEeeCCCCCcCCCCCC------HHHHHHHHHHhCCcEEEec
Q 032001 20 LCRFKYCTYKIASYHFSDIRNWIRNIEQHASD--NVNKVLVGNKADMDESKRAVP------TSKGQALADEYGIKFFETS 91 (149)
Q Consensus 20 ~~~~vi~v~~~~~~s~~~~~~~~~~i~~~~~~--~~~iilv~nK~Dl~~~~~~~~------~~~~~~~~~~~~~~~~~~S 91 (149)
..+++++|.+.+..+ ......++.+.+..+. -.++++|.|+.|.. ...... ...+..+.+..+-.++..+
T Consensus 83 g~~~illVi~~~~~t-~~d~~~l~~l~~~fg~~~~~~~ivv~T~~d~l-~~~~~~~~~~~~~~~l~~l~~~c~~r~~~f~ 160 (196)
T cd01852 83 GPHAFLLVVPLGRFT-EEEEQAVETLQELFGEKVLDHTIVLFTRGDDL-EGGTLEDYLENSCEALKRLLEKCGGRYVAFN 160 (196)
T ss_pred CCEEEEEEEECCCcC-HHHHHHHHHHHHHhChHhHhcEEEEEECcccc-CCCcHHHHHHhccHHHHHHHHHhCCeEEEEe
Confidence 456788888887511 1122334444443322 24778888998865 222111 1234445555565554444
Q ss_pred -----CCCCCCHHHHHHHHHHHHHHH
Q 032001 92 -----AKTNLNVEQVFFSIARDIKQR 112 (149)
Q Consensus 92 -----ak~~~~i~el~~~l~~~i~~~ 112 (149)
+..+.++.+|+..|.+++.+.
T Consensus 161 ~~~~~~~~~~q~~~Ll~~i~~~~~~~ 186 (196)
T cd01852 161 NKAKGEEQEQQVKELLAKVESMVKEN 186 (196)
T ss_pred CCCCcchhHHHHHHHHHHHHHHHHhc
Confidence 445678888888888887653
No 321
>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=92.76 E-value=0.29 Score=36.98 Aligned_cols=40 Identities=23% Similarity=0.135 Sum_probs=26.4
Q ss_pred CCeEEEEeeCCCCCcCCCC--CCHHHHHHHHHHhCCcEEEecC
Q 032001 52 NVNKVLVGNKADMDESKRA--VPTSKGQALADEYGIKFFETSA 92 (149)
Q Consensus 52 ~~~iilv~nK~Dl~~~~~~--~~~~~~~~~~~~~~~~~~~~Sa 92 (149)
.+|+++|+||+|+. .... .........+..+++++|....
T Consensus 143 ~v~vi~VinK~D~l-~~~e~~~~k~~i~~~l~~~~i~~~~~~~ 184 (276)
T cd01850 143 RVNIIPVIAKADTL-TPEELKEFKQRIMEDIEEHNIKIYKFPE 184 (276)
T ss_pred cCCEEEEEECCCcC-CHHHHHHHHHHHHHHHHHcCCceECCCC
Confidence 58999999999985 2111 1223344566777888886554
No 322
>KOG0410 consensus Predicted GTP binding protein [General function prediction only]
Probab=92.51 E-value=0.1 Score=40.42 Aligned_cols=80 Identities=14% Similarity=0.069 Sum_probs=48.3
Q ss_pred cCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCe----EEEEeeCCCCCcCCCCCCHHHHHHHHHHhCCcEEEecCCC
Q 032001 20 LCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVN----KVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT 94 (149)
Q Consensus 20 ~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~----iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~Sak~ 94 (149)
-++++++|.|++. ..-.+....+.-+.+..-++.| ++=|-||+|.. +. .++ .++++ .+.+||++
T Consensus 257 eadlllHvvDiShP~ae~q~e~Vl~vL~~igv~~~pkl~~mieVdnkiD~e-~~-~~e-------~E~n~--~v~isalt 325 (410)
T KOG0410|consen 257 EADLLLHVVDISHPNAEEQRETVLHVLNQIGVPSEPKLQNMIEVDNKIDYE-ED-EVE-------EEKNL--DVGISALT 325 (410)
T ss_pred hcceEEEEeecCCccHHHHHHHHHHHHHhcCCCcHHHHhHHHhhccccccc-cc-cCc-------cccCC--cccccccc
Confidence 3577899999996 3333344444444443323333 45566777765 11 110 11222 68899999
Q ss_pred CCCHHHHHHHHHHHHH
Q 032001 95 NLNVEQVFFSIARDIK 110 (149)
Q Consensus 95 ~~~i~el~~~l~~~i~ 110 (149)
|+|.+++.+.+-+.+.
T Consensus 326 gdgl~el~~a~~~kv~ 341 (410)
T KOG0410|consen 326 GDGLEELLKAEETKVA 341 (410)
T ss_pred CccHHHHHHHHHHHhh
Confidence 9999999888876654
No 323
>PRK07560 elongation factor EF-2; Reviewed
Probab=92.35 E-value=0.77 Score=39.46 Aligned_cols=52 Identities=15% Similarity=0.007 Sum_probs=28.9
Q ss_pred ccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCC
Q 032001 9 FIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMD 65 (149)
Q Consensus 9 ~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~ 65 (149)
|.......++.++. +++|.|... ........|.. +.. .++|.|++.||+|+.
T Consensus 100 f~~~~~~~l~~~D~-avlVvda~~g~~~~t~~~~~~-~~~---~~~~~iv~iNK~D~~ 152 (731)
T PRK07560 100 FGGDVTRAMRAVDG-AIVVVDAVEGVMPQTETVLRQ-ALR---ERVKPVLFINKVDRL 152 (731)
T ss_pred hHHHHHHHHHhcCE-EEEEEECCCCCCccHHHHHHH-HHH---cCCCeEEEEECchhh
Confidence 33334444555655 555667664 33333334433 333 245778999999975
No 324
>KOG0458 consensus Elongation factor 1 alpha [Translation, ribosomal structure and biogenesis]
Probab=92.20 E-value=0.21 Score=41.28 Aligned_cols=77 Identities=13% Similarity=0.050 Sum_probs=45.2
Q ss_pred CeEEEEEeeCChhhHHH----H--HHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHH----HHHH-HHhC-----
Q 032001 21 CRFKYCTYKIASYHFSD----I--RNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKG----QALA-DEYG----- 84 (149)
Q Consensus 21 ~~~vi~v~~~~~~s~~~----~--~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~----~~~~-~~~~----- 84 (149)
+|+.++|.|.+...|+. . .+....+.+..+ -..+|++.||+|+. ++.+...++. ..++ +..|
T Consensus 279 aD~avLvvd~s~~~FE~gfd~~gQtrEha~llr~Lg-i~qlivaiNKmD~V-~Wsq~RF~eIk~~l~~fL~~~~gf~es~ 356 (603)
T KOG0458|consen 279 ADVAVLVVDASTGEFESGFDPGGQTREHALLLRSLG-ISQLIVAINKMDLV-SWSQDRFEEIKNKLSSFLKESCGFKESS 356 (603)
T ss_pred cceEEEEEECCcchhhhccCCCCchHHHHHHHHHcC-cceEEEEeeccccc-CccHHHHHHHHHHHHHHHHHhcCcccCC
Confidence 45566666776433432 1 122233333332 34788899999998 5555444433 2334 3333
Q ss_pred CcEEEecCCCCCCHH
Q 032001 85 IKFFETSAKTNLNVE 99 (149)
Q Consensus 85 ~~~~~~Sak~~~~i~ 99 (149)
+.++++|+.+|+|+-
T Consensus 357 v~FIPiSGl~GeNL~ 371 (603)
T KOG0458|consen 357 VKFIPISGLSGENLI 371 (603)
T ss_pred cceEecccccCCccc
Confidence 368999999999864
No 325
>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=91.92 E-value=2 Score=29.73 Aligned_cols=62 Identities=13% Similarity=0.132 Sum_probs=41.1
Q ss_pred cCeEEEEEeeCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhCCcEE
Q 032001 20 LCRFKYCTYKIASYHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFF 88 (149)
Q Consensus 20 ~~~~vi~v~~~~~~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~ 88 (149)
..+.++++...+..+......+++.+... +.++.+|.||.|.. . . ......++.+..+++++
T Consensus 114 ~aD~vliv~~~~~~~~~~~~~~~~~l~~~---~~~~~vV~N~~~~~-~--~-~~~~~~~~~~~~~~~vl 175 (179)
T cd03110 114 GADAALLVTEPTPSGLHDLERAVELVRHF---GIPVGVVINKYDLN-D--E-IAEEIEDYCEEEGIPIL 175 (179)
T ss_pred cCCEEEEEecCCcccHHHHHHHHHHHHHc---CCCEEEEEeCCCCC-c--c-hHHHHHHHHHHcCCCeE
Confidence 45557777777766677777777776653 46788999999864 2 1 23445566677777655
No 326
>KOG4273 consensus Uncharacterized conserved protein [Function unknown]
Probab=91.83 E-value=0.54 Score=35.35 Aligned_cols=86 Identities=16% Similarity=0.289 Sum_probs=55.4
Q ss_pred CeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCC-eEEEEeeCCCCCc---------------CCC--------------
Q 032001 21 CRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNV-NKVLVGNKADMDE---------------SKR-------------- 69 (149)
Q Consensus 21 ~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~-~iilv~nK~Dl~~---------------~~~-------------- 69 (149)
-.++++|||.+. ..+..++.|+..-.- +.. .++.++||+|... ..+
T Consensus 79 l~a~vmvfdlse~s~l~alqdwl~htdi---nsfdillcignkvdrvphhlahdeyrrrl~kasdpsrdl~~di~dfgis 155 (418)
T KOG4273|consen 79 LQAFVMVFDLSEKSGLDALQDWLPHTDI---NSFDILLCIGNKVDRVPHHLAHDEYRRRLAKASDPSRDLMIDICDFGIS 155 (418)
T ss_pred eeeEEEEEeccchhhhHHHHhhcccccc---ccchhheecccccccccchhhhhHHHHHHHhhcCcchhHhhhhhhcccc
Confidence 356788899998 788889999774211 122 3467799999530 000
Q ss_pred --------------CCCHHHHHHHHHHhCCcEEEecCCCC------------CCHHHHHHHHHHHH
Q 032001 70 --------------AVPTSKGQALADEYGIKFFETSAKTN------------LNVEQVFFSIARDI 109 (149)
Q Consensus 70 --------------~~~~~~~~~~~~~~~~~~~~~Sak~~------------~~i~el~~~l~~~i 109 (149)
......+..|+.++++.+++.+|... .||+.+|..|-..+
T Consensus 156 etegssllgsedasldirga~lewc~e~~~efieacasn~dfd~c~~~dgdsqgverifgal~ahm 221 (418)
T KOG4273|consen 156 ETEGSSLLGSEDASLDIRGAALEWCLEHGFEFIEACASNEDFDECDDDDGDSQGVERIFGALNAHM 221 (418)
T ss_pred ccccccccccccchhhHHHHHHHHHHhcCceeeeecCCccccchhhccCcchhhHHHHHHHhhhcc
Confidence 00112345678889999999887322 57888888887654
No 327
>KOG0082 consensus G-protein alpha subunit (small G protein superfamily) [Cell cycle control, cell division, chromosome partitioning; Signal transduction mechanisms]
Probab=91.74 E-value=0.43 Score=37.37 Aligned_cols=107 Identities=17% Similarity=0.137 Sum_probs=58.7
Q ss_pred ccccc-cccchhhhhhcCeEEEEEeeCCh---hhHHH-----H---HHHHHHHHHhcC-CCCeEEEEeeCCCCCc-----
Q 032001 5 RCLCF-IGVYPPYLAVLCRFKYCTYKIAS---YHFSD-----I---RNWIRNIEQHAS-DNVNKVLVGNKADMDE----- 66 (149)
Q Consensus 5 ~~~~~-~~~~~~~~~~~~~~vi~v~~~~~---~s~~~-----~---~~~~~~i~~~~~-~~~~iilv~nK~Dl~~----- 66 (149)
||+|- |..|.++|.+...++++| +++. ..+++ . .++.+.+.++.- .+.++|+..||.||-+
T Consensus 203 GGQRseRrKWihcFe~v~aviF~v-slSeYdq~l~ED~~~NRM~eS~~LF~sI~n~~~F~~tsiiLFLNK~DLFeEKi~~ 281 (354)
T KOG0082|consen 203 GGQRSERKKWIHCFEDVTAVIFCV-SLSEYDQVLEEDETTNRMHESLKLFESICNNKWFANTSIILFLNKKDLFEEKIKK 281 (354)
T ss_pred CCcHHHhhhHHHhhcCCCEEEEEE-ehhhhhhhcccccchhHHHHHHHHHHHHhcCcccccCcEEEEeecHHHHHHHhcc
Confidence 34443 467899999988754444 5542 11111 1 122233322211 5789999999999721
Q ss_pred --------CCC-CCCHHHHHH-----HHHHhC-----CcEEEecCCCCCCHHHHHHHHHHHHHHH
Q 032001 67 --------SKR-AVPTSKGQA-----LADEYG-----IKFFETSAKTNLNVEQVFFSIARDIKQR 112 (149)
Q Consensus 67 --------~~~-~~~~~~~~~-----~~~~~~-----~~~~~~Sak~~~~i~el~~~l~~~i~~~ 112 (149)
+-. ....+.+.. +.+.+. +-+..+.|.+-.+|+.+|+.+.+.+...
T Consensus 282 ~~~~~~Fpdy~G~~~~~~a~~yI~~kF~~l~~~~~k~iy~h~T~AtDT~nv~~vf~av~d~Ii~~ 346 (354)
T KOG0082|consen 282 VPLTDCFPDYKGVNTYEEAAKYIRKKFEELNKNKDKKIYVHFTCATDTQNVQFVFDAVTDTIIQN 346 (354)
T ss_pred CchhhhCcCCCCCCChHHHHHHHHHHHHHHhcccCCcceEEEEeeccHHHHHHHHHHHHHHHHHH
Confidence 000 011222222 222211 2233567888889999999999988765
No 328
>PF00503 G-alpha: G-protein alpha subunit; InterPro: IPR001019 Guanine nucleotide binding proteins (G proteins) are membrane-associated, heterotrimeric proteins composed of three subunits: alpha (IPR001019 from INTERPRO), beta (IPR001632 from INTERPRO) and gamma (IPR001770 from INTERPRO) []. G proteins and their receptors (GPCRs) form one of the most prevalent signalling systems in mammalian cells, regulating systems as diverse as sensory perception, cell growth and hormonal regulation []. At the cell surface, the binding of ligands such as hormones and neurotransmitters to a GPCR activates the receptor by causing a conformational change, which in turn activates the bound G protein on the intracellular-side of the membrane. The activated receptor promotes the exchange of bound GDP for GTP on the G protein alpha subunit. GTP binding changes the conformation of switch regions within the alpha subunit, which allows the bound trimeric G protein (inactive) to be released from the receptor, and to dissociate into active alpha subunit (GTP-bound) and beta/gamma dimer. The alpha subunit and the beta/gamma dimer go on to activate distinct downstream effectors, such as adenylyl cyclase, phosphodiesterases, phospholipase C, and ion channels. These effectors in turn regulate the intracellular concentrations of secondary messengers, such as cAMP, diacylglycerol, sodium or calcium cations, which ultimately lead to a physiological response, usually via the downstream regulation of gene transcription. The cycle is completed by the hydrolysis of alpha subunit-bound GTP to GDP, resulting in the re-association of the alpha and beta/gamma subunits and their binding to the receptor, which terminates the signal []. The length of the G protein signal is controlled by the duration of the GTP-bound alpha subunit, which can be regulated by RGS (regulator of G protein signalling) proteins (IPR000342 from INTERPRO) or by covalent modifications []. There are several isoforms of each subunit, many of which have splice variants, which together can make up hundreds of combinations of G proteins. The specific combination of subunits in heterotrimeric G proteins affects not only which receptor it can bind to, but also which downstream target is affected, providing the means to target specific physiological processes in response to specific external stimuli [, ]. G proteins carry lipid modifications on one or more of their subunits to target them to the plasma membrane and to contribute to protein interactions. This family consists of the G protein alpha subunit, which acts as a weak GTPase. G protein classes are defined based on the sequence and function of their alpha subunits, which in mammals fall into four main categories: G(S)alpha, G(Q)alpha, G(I)alpha and G(12)alpha; there are also fungal and plant classes of alpha subunits. The alpha subunit consists of two domains: a GTP-binding domain and a helical insertion domain (IPR011025 from INTERPRO). The GTP-binding domain is homologous to Ras-like small GTPases, and includes switch regions I and II, which change conformation during activation. The switch regions are loops of alpha-helices with conformations sensitive to guanine nucleotides. The helical insertion domain is inserted into the GTP-binding domain before switch region I and is unique to heterotrimeric G proteins. This helical insertion domain functions to sequester the guanine nucleotide at the interface with the GTP-binding domain and must be displaced to enable nucleotide dissociation.; GO: 0004871 signal transducer activity, 0019001 guanyl nucleotide binding, 0007186 G-protein coupled receptor protein signaling pathway; PDB: 3QI2_B 3QE0_A 2IK8_A 2OM2_A 2GTP_B 2XNS_B 3ONW_B 1KJY_A 2EBC_A 1Y3A_B ....
Probab=91.46 E-value=0.35 Score=38.23 Aligned_cols=59 Identities=12% Similarity=0.042 Sum_probs=35.7
Q ss_pred cccc-ccccchhhhhhcCeEEEEEeeCCh-----------hhHHHHHHHHHHHHHhc-CCCCeEEEEeeCCCC
Q 032001 5 RCLC-FIGVYPPYLAVLCRFKYCTYKIAS-----------YHFSDIRNWIRNIEQHA-SDNVNKVLVGNKADM 64 (149)
Q Consensus 5 ~~~~-~~~~~~~~~~~~~~~vi~v~~~~~-----------~s~~~~~~~~~~i~~~~-~~~~~iilv~nK~Dl 64 (149)
||.| -|..|.++|.+... ||+|+++.+ ..+.......+.+..+. -.+.|+||+.||.|+
T Consensus 244 GGqr~eRkKW~~~F~~v~~-vif~vsls~ydq~~~ed~~~nrl~esl~lF~~i~~~~~~~~~~iil~lnK~D~ 315 (389)
T PF00503_consen 244 GGQRSERKKWIHCFEDVTA-VIFVVSLSEYDQTLYEDPNTNRLHESLNLFESICNNPWFKNTPIILFLNKIDL 315 (389)
T ss_dssp TSSGGGGGGGGGGGTTESE-EEEEEEGGGGGSBESSSTTSBHHHHHHHHHHHHHTSGGGTTSEEEEEEE-HHH
T ss_pred CCCchhhhhHHHHhccccE-EEEeecccchhhhhcccchHHHHHHHHHHHHHHHhCcccccCceEEeeecHHH
Confidence 4444 35889999998877 555556531 12333334444444321 157899999999996
No 329
>TIGR00490 aEF-2 translation elongation factor aEF-2. This model represents archaeal elongation factor 2, a protein more similar to eukaryotic EF-2 than to bacterial EF-G, both in sequence similarity and in sharing with eukaryotes the property of having a diphthamide (modified His) residue at a conserved position. The diphthamide can be ADP-ribosylated by diphtheria toxin in the presence of NAD.
Probab=90.61 E-value=0.46 Score=40.73 Aligned_cols=53 Identities=17% Similarity=-0.012 Sum_probs=31.8
Q ss_pred cccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCC
Q 032001 8 CFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMD 65 (149)
Q Consensus 8 ~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~ 65 (149)
+|.......++.++. +++|+|... ........|.. +.. .++|+++++||+|..
T Consensus 98 ~f~~~~~~al~~aD~-~llVvda~~g~~~~t~~~~~~-~~~---~~~p~ivviNKiD~~ 151 (720)
T TIGR00490 98 DFGGDVTRAMRAVDG-AIVVVCAVEGVMPQTETVLRQ-ALK---ENVKPVLFINKVDRL 151 (720)
T ss_pred ccHHHHHHHHHhcCE-EEEEEecCCCCCccHHHHHHH-HHH---cCCCEEEEEEChhcc
Confidence 355556667777766 566667764 22333333432 222 356888999999975
No 330
>KOG2423 consensus Nucleolar GTPase [General function prediction only]
Probab=90.52 E-value=1.3 Score=35.51 Aligned_cols=84 Identities=13% Similarity=0.096 Sum_probs=44.3
Q ss_pred ccchhhhhh--cCeEEEEEeeCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhCCcEE
Q 032001 11 GVYPPYLAV--LCRFKYCTYKIASYHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFF 88 (149)
Q Consensus 11 ~~~~~~~~~--~~~~vi~v~~~~~~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~ 88 (149)
++|--.|.- ..|+++.|.|.-+...-...+.-.-++... +...+|.|.||+||. . .-+.......+.+.+..--|
T Consensus 202 RIW~ELyKViDSSDVvvqVlDARDPmGTrc~~ve~ylkke~-phKHli~vLNKvDLV-P-twvt~~Wv~~lSkeyPTiAf 278 (572)
T KOG2423|consen 202 RIWGELYKVIDSSDVVVQVLDARDPMGTRCKHVEEYLKKEK-PHKHLIYVLNKVDLV-P-TWVTAKWVRHLSKEYPTIAF 278 (572)
T ss_pred HHHHHHHHhhcccceeEEeeeccCCcccccHHHHHHHhhcC-CcceeEEEeeccccc-c-HHHHHHHHHHHhhhCcceee
Confidence 455555554 447778887776532333333323233322 567999999999998 1 22222333344444444334
Q ss_pred EecCCCCCC
Q 032001 89 ETSAKTNLN 97 (149)
Q Consensus 89 ~~Sak~~~~ 97 (149)
-.|.....|
T Consensus 279 HAsi~nsfG 287 (572)
T KOG2423|consen 279 HASINNSFG 287 (572)
T ss_pred ehhhcCccc
Confidence 444333333
No 331
>PF01926 MMR_HSR1: 50S ribosome-binding GTPase; InterPro: IPR002917 Human HSR1, has been localized to the human MHC class I region and is highly homologous to a putative GTP-binding protein, MMR1 from mouse. These proteins represent a new subfamily of GTP-binding proteins that has both prokaryote and eukaryote members [].; GO: 0005525 GTP binding, 0005622 intracellular; PDB: 2DWQ_B 2DBY_A 3CNN_A 3CNO_A 3CNL_A 3IBY_A 1PUI_B 1WXQ_A 1LNZ_A 3GEE_A ....
Probab=90.43 E-value=1.1 Score=28.61 Aligned_cols=38 Identities=18% Similarity=0.169 Sum_probs=22.8
Q ss_pred cCeEEEEEeeCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeC
Q 032001 20 LCRFKYCTYKIASYHFSDIRNWIRNIEQHASDNVNKVLVGNK 61 (149)
Q Consensus 20 ~~~~vi~v~~~~~~s~~~~~~~~~~i~~~~~~~~~iilv~nK 61 (149)
..+++++|++.+...-+....++..++ .+.|+++|.||
T Consensus 79 ~~d~ii~vv~~~~~~~~~~~~~~~~l~----~~~~~i~v~NK 116 (116)
T PF01926_consen 79 KSDLIIYVVDASNPITEDDKNILRELK----NKKPIILVLNK 116 (116)
T ss_dssp TESEEEEEEETTSHSHHHHHHHHHHHH----TTSEEEEEEES
T ss_pred HCCEEEEEEECCCCCCHHHHHHHHHHh----cCCCEEEEEcC
Confidence 345677777876411123334444442 46899999998
No 332
>KOG2484 consensus GTPase [General function prediction only]
Probab=88.91 E-value=0.97 Score=35.99 Aligned_cols=42 Identities=14% Similarity=0.106 Sum_probs=26.9
Q ss_pred cCeEEEEEeeCCh-hh--HHHHHHHHHHHHHhcCCCCeEEEEeeCCCCC
Q 032001 20 LCRFKYCTYKIAS-YH--FSDIRNWIRNIEQHASDNVNKVLVGNKADMD 65 (149)
Q Consensus 20 ~~~~vi~v~~~~~-~s--~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~ 65 (149)
..|+||-|-|.-+ .+ -...+.|+... . .+...|+|.||+||.
T Consensus 146 ~sDVVleVlDARDPlgtR~~~vE~~V~~~---~-gnKkLILVLNK~DLV 190 (435)
T KOG2484|consen 146 ASDVVLEVLDARDPLGTRCPEVEEAVLQA---H-GNKKLILVLNKIDLV 190 (435)
T ss_pred hhheEEEeeeccCCCCCCChhHHHHHHhc---c-CCceEEEEeehhccC
Confidence 5677888888764 21 12334443321 1 358999999999998
No 333
>KOG2486 consensus Predicted GTPase [General function prediction only]
Probab=87.73 E-value=0.41 Score=36.43 Aligned_cols=92 Identities=16% Similarity=0.109 Sum_probs=51.8
Q ss_pred cccchhhhhhcCe--EEEEEeeCC-h--hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCC-CCC---HHH---HH
Q 032001 10 IGVYPPYLAVLCR--FKYCTYKIA-S--YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKR-AVP---TSK---GQ 77 (149)
Q Consensus 10 ~~~~~~~~~~~~~--~vi~v~~~~-~--~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~-~~~---~~~---~~ 77 (149)
..+...|+.+-.. -++++.|.+ + .+-..+..|+.+ .++|..+|.||+|...... ... ... ..
T Consensus 207 ~~~t~~Y~leR~nLv~~FLLvd~sv~i~~~D~~~i~~~ge------~~VP~t~vfTK~DK~k~~~~~~kKp~~~i~~~f~ 280 (320)
T KOG2486|consen 207 DKFTKSYLLERENLVRVFLLVDASVPIQPTDNPEIAWLGE------NNVPMTSVFTKCDKQKKVKRTGKKPGLNIKINFQ 280 (320)
T ss_pred hHhHHHHHHhhhhhheeeeeeeccCCCCCCChHHHHHHhh------cCCCeEEeeehhhhhhhccccccCccccceeehh
Confidence 3455666655332 233333444 2 334445677665 4799999999999641100 000 011 11
Q ss_pred HHHH---HhCCcEEEecCCCCCCHHHHHHHHHH
Q 032001 78 ALAD---EYGIKFFETSAKTNLNVEQVFFSIAR 107 (149)
Q Consensus 78 ~~~~---~~~~~~~~~Sak~~~~i~el~~~l~~ 107 (149)
.+.+ ....|++.+|+.++.|+++|+-.++.
T Consensus 281 ~l~~~~f~~~~Pw~~~Ssvt~~Grd~Ll~~i~q 313 (320)
T KOG2486|consen 281 GLIRGVFLVDLPWIYVSSVTSLGRDLLLLHIAQ 313 (320)
T ss_pred hccccceeccCCceeeecccccCceeeeeehhh
Confidence 1111 12346778999999999998877664
No 334
>COG0050 TufB GTPases - translation elongation factors [Translation, ribosomal structure and biogenesis]
Probab=87.65 E-value=1.4 Score=33.98 Aligned_cols=85 Identities=18% Similarity=0.131 Sum_probs=44.7
Q ss_pred cCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCC-eEEEEeeCCCCCcCCCCCC---HHHHHHHHHHhCC-----cEEE
Q 032001 20 LCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNV-NKVLVGNKADMDESKRAVP---TSKGQALADEYGI-----KFFE 89 (149)
Q Consensus 20 ~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~-~iilv~nK~Dl~~~~~~~~---~~~~~~~~~~~~~-----~~~~ 89 (149)
-+++ |+|.+.++ .....-.+.+. .++. .+ .++++.||+|+. +++... +.+...++..+++ |++.
T Consensus 99 mDgA-ILVVsA~dGpmPqTrEHiLl-arqv---Gvp~ivvflnK~Dmv-dd~ellelVemEvreLLs~y~f~gd~~Pii~ 172 (394)
T COG0050 99 MDGA-ILVVAATDGPMPQTREHILL-ARQV---GVPYIVVFLNKVDMV-DDEELLELVEMEVRELLSEYGFPGDDTPIIR 172 (394)
T ss_pred cCcc-EEEEEcCCCCCCcchhhhhh-hhhc---CCcEEEEEEeccccc-CcHHHHHHHHHHHHHHHHHcCCCCCCcceee
Confidence 3454 55556654 33333333322 2332 34 556779999998 433221 2345567777664 5777
Q ss_pred ecCCCC--------CCHHHHHHHHHHHHH
Q 032001 90 TSAKTN--------LNVEQVFFSIARDIK 110 (149)
Q Consensus 90 ~Sak~~--------~~i~el~~~l~~~i~ 110 (149)
-||..- ..|.+|++.+-+.++
T Consensus 173 gSal~ale~~~~~~~~i~eLm~avd~yip 201 (394)
T COG0050 173 GSALKALEGDAKWEAKIEELMDAVDSYIP 201 (394)
T ss_pred chhhhhhcCCcchHHHHHHHHHHHHhcCC
Confidence 666422 124566666655553
No 335
>KOG1143 consensus Predicted translation elongation factor [Translation, ribosomal structure and biogenesis]
Probab=86.83 E-value=2.8 Score=33.49 Aligned_cols=78 Identities=12% Similarity=0.118 Sum_probs=42.9
Q ss_pred eEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCC------------------------HHHH
Q 032001 22 RFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVP------------------------TSKG 76 (149)
Q Consensus 22 ~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~------------------------~~~~ 76 (149)
+..++|.+.+. -.+..-.+ +..+.. -++|++++.+|+|+. +...+. ...+
T Consensus 276 h~A~LvVsA~~Gi~~tTrEH-Lgl~~A---L~iPfFvlvtK~Dl~-~~~~~~~tv~~l~nll~~~Gc~kvp~~Vt~~ddA 350 (591)
T KOG1143|consen 276 HFACLVVSADRGITWTTREH-LGLIAA---LNIPFFVLVTKMDLV-DRQGLKKTVKDLSNLLAKAGCTKVPKRVTTKDDA 350 (591)
T ss_pred ceEEEEEEcCCCCccccHHH-HHHHHH---hCCCeEEEEEeeccc-cchhHHHHHHHHHHHHhhcCccccceEeechHHH
Confidence 34566667664 32222222 222333 369999999999996 321111 1111
Q ss_pred HHHHHH----hCCcEEEecCCCCCCHHHHHHH
Q 032001 77 QALADE----YGIKFFETSAKTNLNVEQVFFS 104 (149)
Q Consensus 77 ~~~~~~----~~~~~~~~Sak~~~~i~el~~~ 104 (149)
...++. +-.|+|-+|+.+|+++.-+...
T Consensus 351 v~Aaq~~~s~nivPif~vSsVsGegl~ll~~f 382 (591)
T KOG1143|consen 351 VKAAQELCSGNIVPIFAVSSVSGEGLRLLRTF 382 (591)
T ss_pred HHHHHHhccCCceeEEEEeecCccchhHHHHH
Confidence 111222 2258999999999997754433
No 336
>COG1149 MinD superfamily P-loop ATPase containing an inserted ferredoxin domain [Energy production and conversion]
Probab=86.48 E-value=5.3 Score=30.34 Aligned_cols=58 Identities=14% Similarity=0.268 Sum_probs=40.4
Q ss_pred CeEEEEEeeCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhCCcEE
Q 032001 21 CRFKYCTYKIASYHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFF 88 (149)
Q Consensus 21 ~~~vi~v~~~~~~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~ 88 (149)
.|++|+|.-.++..+.+.+..++..... ++|..+|.||.++- . .+...++...+++++
T Consensus 186 aD~ai~VTEPTp~glhD~kr~~el~~~f---~ip~~iViNr~~~g--~-----s~ie~~~~e~gi~il 243 (284)
T COG1149 186 ADLAILVTEPTPFGLHDLKRALELVEHF---GIPTGIVINRYNLG--D-----SEIEEYCEEEGIPIL 243 (284)
T ss_pred CCEEEEEecCCccchhHHHHHHHHHHHh---CCceEEEEecCCCC--c-----hHHHHHHHHcCCCee
Confidence 4556777666666677777777766553 58999999999653 1 256667788887765
No 337
>PTZ00416 elongation factor 2; Provisional
Probab=86.24 E-value=1.1 Score=39.08 Aligned_cols=43 Identities=19% Similarity=0.139 Sum_probs=25.8
Q ss_pred hhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCC
Q 032001 18 AVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMD 65 (149)
Q Consensus 18 ~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~ 65 (149)
+.+++ +++|.|... -.... ...+..+.. .++|+|++.||+|+.
T Consensus 114 ~~~D~-ailVvda~~g~~~~t-~~~~~~~~~---~~~p~iv~iNK~D~~ 157 (836)
T PTZ00416 114 RVTDG-ALVVVDCVEGVCVQT-ETVLRQALQ---ERIRPVLFINKVDRA 157 (836)
T ss_pred hcCCe-EEEEEECCCCcCccH-HHHHHHHHH---cCCCEEEEEEChhhh
Confidence 33445 566667665 22233 333344443 358999999999975
No 338
>KOG0468 consensus U5 snRNP-specific protein [Translation, ribosomal structure and biogenesis]
Probab=85.78 E-value=1 Score=38.36 Aligned_cols=44 Identities=20% Similarity=0.116 Sum_probs=28.5
Q ss_pred hhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCC
Q 032001 16 YLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADM 64 (149)
Q Consensus 16 ~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl 64 (149)
.++-.++ +++|+|+-. -+++...-+..-++ ++.|+++|.||+|.
T Consensus 217 ~l~~sDg-vVlvvDv~EGVmlntEr~ikhaiq----~~~~i~vviNKiDR 261 (971)
T KOG0468|consen 217 SLRLSDG-VVLVVDVAEGVMLNTERIIKHAIQ----NRLPIVVVINKVDR 261 (971)
T ss_pred Hhhhcce-EEEEEEcccCceeeHHHHHHHHHh----ccCcEEEEEehhHH
Confidence 3444555 566667765 55655544433333 46899999999995
No 339
>PF00350 Dynamin_N: Dynamin family; InterPro: IPR001401 Membrane transport between compartments in eukaryotic cells requires proteins that allow the budding and scission of nascent cargo vesicles from one compartment and their targeting and fusion with another. Dynamins are large GTPases that belong to a protein superfamily [] that, in eukaryotic cells, includes classical dynamins, dynamin-like proteins, OPA1, Mx proteins, mitofusins and guanylate-binding proteins/atlastins [, , , ], and are involved in the scission of a wide range of vesicles and organelles. They play a role in many processes including budding of transport vesicles, division of organelles, cytokinesis and pathogen resistance. The minimal distinguishing architectural features that are common to all dynamins and are distinct from other GTPases are the structure of the large GTPase domain (300 amino acids) and the presence of two additional domains; the middle domain and the GTPase effector domain (GED), which are involved in oligomerization and regulation of the GTPase activity. This entry represents the GTPase domain, containing the GTP-binding motifs that are needed for guanine-nucleotide binding and hydrolysis. The conservation of these motifs is absolute except for the the final motif in guanylate-binding proteins. The GTPase catalytic activity can be stimulated by oligomerisation of the protein, which is mediated by interactions between the GTPase domain, the middle domain and the GED.; GO: 0003924 GTPase activity, 0005525 GTP binding; PDB: 1JWY_B 1JX2_B 3ZVR_A 2AKA_B 3L43_B 2X2F_D 2X2E_D 3SNH_A 3ZYS_D 3ZYC_D ....
Probab=85.61 E-value=2.5 Score=28.73 Aligned_cols=50 Identities=16% Similarity=0.139 Sum_probs=30.6
Q ss_pred ccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCC
Q 032001 9 FIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKA 62 (149)
Q Consensus 9 ~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~ 62 (149)
...++..|+ .-++++++|.+.+. -+-.....|....... ....++|.||+
T Consensus 118 ~~~~~~~~~-~~~d~vi~V~~~~~~~~~~~~~~l~~~~~~~---~~~~i~V~nk~ 168 (168)
T PF00350_consen 118 HTEITEEYL-PKADVVIFVVDANQDLTESDMEFLKQMLDPD---KSRTIFVLNKA 168 (168)
T ss_dssp TSHHHHHHH-STTEEEEEEEETTSTGGGHHHHHHHHHHTTT---CSSEEEEEE-G
T ss_pred hHHHHHHhh-ccCCEEEEEeccCcccchHHHHHHHHHhcCC---CCeEEEEEcCC
Confidence 346677787 55567888888875 3334455555554432 34588888984
No 340
>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=83.74 E-value=3 Score=29.05 Aligned_cols=29 Identities=24% Similarity=0.227 Sum_probs=17.1
Q ss_pred HHHHHhCCcEEEecCCCCCCHHHHHHHHH
Q 032001 78 ALADEYGIKFFETSAKTNLNVEQVFFSIA 106 (149)
Q Consensus 78 ~~~~~~~~~~~~~Sak~~~~i~el~~~l~ 106 (149)
...+..+.+++.+|++++.++++|...+.
T Consensus 6 ~~y~~~gy~v~~~S~~~~~g~~~l~~~l~ 34 (161)
T PF03193_consen 6 EQYEKLGYPVFFISAKTGEGIEELKELLK 34 (161)
T ss_dssp HHHHHTTSEEEE-BTTTTTTHHHHHHHHT
T ss_pred HHHHHcCCcEEEEeCCCCcCHHHHHHHhc
Confidence 34455566666677776667666655544
No 341
>COG3640 CooC CO dehydrogenase maturation factor [Cell division and chromosome partitioning]
Probab=83.69 E-value=10 Score=28.33 Aligned_cols=43 Identities=12% Similarity=-0.065 Sum_probs=29.7
Q ss_pred cCeEEEEEeeCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCC
Q 032001 20 LCRFKYCTYKIASYHFSDIRNWIRNIEQHASDNVNKVLVGNKADM 64 (149)
Q Consensus 20 ~~~~vi~v~~~~~~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl 64 (149)
..|++++|.|.+..++....+..+...+.. =.++.+|.||+|-
T Consensus 155 ~vD~vivVvDpS~~sl~taeri~~L~~elg--~k~i~~V~NKv~e 197 (255)
T COG3640 155 GVDLVIVVVDPSYKSLRTAERIKELAEELG--IKRIFVVLNKVDE 197 (255)
T ss_pred CCCEEEEEeCCcHHHHHHHHHHHHHHHHhC--CceEEEEEeeccc
Confidence 446677777777677777777655544421 2689999999983
No 342
>PLN00116 translation elongation factor EF-2 subunit; Provisional
Probab=83.44 E-value=2.3 Score=37.31 Aligned_cols=43 Identities=12% Similarity=-0.021 Sum_probs=26.1
Q ss_pred hhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCC
Q 032001 18 AVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMD 65 (149)
Q Consensus 18 ~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~ 65 (149)
+.+++ +++|.|... ........|.. +.. .++|+|++.||+|..
T Consensus 120 ~~~D~-ailVvda~~Gv~~~t~~~~~~-~~~---~~~p~i~~iNK~D~~ 163 (843)
T PLN00116 120 RITDG-ALVVVDCIEGVCVQTETVLRQ-ALG---ERIRPVLTVNKMDRC 163 (843)
T ss_pred hhcCE-EEEEEECCCCCcccHHHHHHH-HHH---CCCCEEEEEECCccc
Confidence 33445 566667664 33333334433 333 468999999999975
No 343
>COG0480 FusA Translation elongation factors (GTPases) [Translation, ribosomal structure and biogenesis]
Probab=82.81 E-value=5.6 Score=34.21 Aligned_cols=47 Identities=19% Similarity=0.084 Sum_probs=29.7
Q ss_pred hhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCC
Q 032001 14 PPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMD 65 (149)
Q Consensus 14 ~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~ 65 (149)
...++-.+++++++ |... -......-|.... . .++|.+++.||+|..
T Consensus 94 ~rslrvlDgavvVv-daveGV~~QTEtv~rqa~-~---~~vp~i~fiNKmDR~ 141 (697)
T COG0480 94 ERSLRVLDGAVVVV-DAVEGVEPQTETVWRQAD-K---YGVPRILFVNKMDRL 141 (697)
T ss_pred HHHHHhhcceEEEE-ECCCCeeecHHHHHHHHh-h---cCCCeEEEEECcccc
Confidence 34455567755555 5554 4345555565543 3 468999999999976
No 344
>PF09419 PGP_phosphatase: Mitochondrial PGP phosphatase; InterPro: IPR010021 This group of hypothetical proteins is a part of the IIIA subfamily of the haloacid dehalogenase (HAD) superfamily of hydrolases. All characterised members of this subfamily and most characterised members of the HAD superfamily are phosphatases. HAD superfamily phosphatases contain active site residues in several conserved catalytic motifs [], all of which are found conserved here. This family consists of sequences from fungi, plants, cyanobacteria, Gram-positive bacteria and Deinococcus. There is presently no characterisation of any sequence in this family.
Probab=81.33 E-value=16 Score=25.63 Aligned_cols=82 Identities=13% Similarity=0.199 Sum_probs=55.3
Q ss_pred CeEEEEEeeCCh--------hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhCCcEEEecC
Q 032001 21 CRFKYCTYKIAS--------YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSA 92 (149)
Q Consensus 21 ~~~vi~v~~~~~--------~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~Sa 92 (149)
.++=.+++|.|+ +-...+..|++++++..+. ..+++|-|-.=.. ......++..+.+..+++++.-++
T Consensus 39 ~Gik~li~DkDNTL~~~~~~~i~~~~~~~~~~l~~~~~~-~~v~IvSNsaGs~---~d~~~~~a~~~~~~lgIpvl~h~~ 114 (168)
T PF09419_consen 39 KGIKALIFDKDNTLTPPYEDEIPPEYAEWLNELKKQFGK-DRVLIVSNSAGSS---DDPDGERAEALEKALGIPVLRHRA 114 (168)
T ss_pred cCceEEEEcCCCCCCCCCcCcCCHHHHHHHHHHHHHCCC-CeEEEEECCCCcc---cCccHHHHHHHHHhhCCcEEEeCC
Confidence 455677778874 1225678899999876532 2578887765221 122356777888889999999998
Q ss_pred CCCCCHHHHHHHHH
Q 032001 93 KTNLNVEQVFFSIA 106 (149)
Q Consensus 93 k~~~~i~el~~~l~ 106 (149)
+...+..+++..+.
T Consensus 115 kKP~~~~~i~~~~~ 128 (168)
T PF09419_consen 115 KKPGCFREILKYFK 128 (168)
T ss_pred CCCccHHHHHHHHh
Confidence 88877776665553
No 345
>PF14331 ImcF-related_N: ImcF-related N-terminal domain
Probab=80.53 E-value=6.1 Score=29.68 Aligned_cols=21 Identities=14% Similarity=0.131 Sum_probs=16.9
Q ss_pred HHHhcCCCCeEEEEeeCCCCC
Q 032001 45 IEQHASDNVNKVLVGNKADMD 65 (149)
Q Consensus 45 i~~~~~~~~~iilv~nK~Dl~ 65 (149)
+.+..+..+|+.+|.||+|+.
T Consensus 62 l~~~lg~~~PVYvv~Tk~D~l 82 (266)
T PF14331_consen 62 LQRTLGVRLPVYVVFTKCDLL 82 (266)
T ss_pred HHHHhCCCCCeEeeeECCCcc
Confidence 333456789999999999987
No 346
>KOG3886 consensus GTP-binding protein [Signal transduction mechanisms]
Probab=80.05 E-value=5 Score=29.98 Aligned_cols=52 Identities=10% Similarity=0.074 Sum_probs=34.4
Q ss_pred cchhhhhhcCeEEEEEeeCCh-h---hHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCC
Q 032001 12 VYPPYLAVLCRFKYCTYKIAS-Y---HFSDIRNWIRNIEQHASDNVNKVLVGNKADMD 65 (149)
Q Consensus 12 ~~~~~~~~~~~~vi~v~~~~~-~---s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~ 65 (149)
-....|++... ++.|||++. + .|...++-++.+.++. +...+.+..+|.||.
T Consensus 74 q~d~iF~nV~v-li~vFDves~e~~~D~~~yqk~Le~ll~~S-P~AkiF~l~hKmDLv 129 (295)
T KOG3886|consen 74 QEDNIFRNVQV-LIYVFDVESREMEKDFHYYQKCLEALLQNS-PEAKIFCLLHKMDLV 129 (295)
T ss_pred cchhhheehee-eeeeeeccchhhhhhHHHHHHHHHHHHhcC-CcceEEEEEeechhc
Confidence 34455556654 789999984 3 3334444445555555 567888899999997
No 347
>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=79.62 E-value=19 Score=25.47 Aligned_cols=88 Identities=13% Similarity=0.166 Sum_probs=52.6
Q ss_pred CeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhCCcEEEecCCCCCCHH
Q 032001 21 CRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKTNLNVE 99 (149)
Q Consensus 21 ~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~Sak~~~~i~ 99 (149)
-|.|+|+.+... .|+...+.=+..+....--+ .+.++++-.... +...+......+++..+..|++..--.+.++
T Consensus 65 IDlIVFvinl~sk~SL~~ve~SL~~vd~~fflG-KVCfl~t~a~~~-~~~sv~~~~V~kla~~y~~plL~~~le~~~~-- 140 (176)
T PF11111_consen 65 IDLIVFVINLHSKYSLQSVEASLSHVDPSFFLG-KVCFLATNAGRE-SHCSVHPNEVRKLAATYNSPLLFADLENEEG-- 140 (176)
T ss_pred eEEEEEEEecCCcccHHHHHHHHhhCChhhhcc-ceEEEEcCCCcc-cccccCHHHHHHHHHHhCCCEEEeecccchH--
Confidence 366778878886 67777665444432211112 334444444433 4467788889999999999999875554444
Q ss_pred HHHHHHHHHHHHHhc
Q 032001 100 QVFFSIARDIKQRLA 114 (149)
Q Consensus 100 el~~~l~~~i~~~~~ 114 (149)
+..+++.+.+..+
T Consensus 141 --~~~lAqRLL~~lq 153 (176)
T PF11111_consen 141 --RTSLAQRLLRMLQ 153 (176)
T ss_pred --HHHHHHHHHHHHH
Confidence 4455555544433
No 348
>COG4108 PrfC Peptide chain release factor RF-3 [Translation, ribosomal structure and biogenesis]
Probab=79.06 E-value=17 Score=29.82 Aligned_cols=63 Identities=14% Similarity=0.045 Sum_probs=34.3
Q ss_pred hhhhcCeEEEEEeeCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhCC
Q 032001 16 YLAVLCRFKYCTYKIASYHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGI 85 (149)
Q Consensus 16 ~~~~~~~~vi~v~~~~~~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~ 85 (149)
.+...+.+++++ |.-.---....++.+-.+- .++||+...||.|.. ...+.+.+....+..++
T Consensus 101 tLtAvDsAvMVI-DaAKGiE~qT~KLfeVcrl---R~iPI~TFiNKlDR~---~rdP~ELLdEiE~~L~i 163 (528)
T COG4108 101 TLTAVDSAVMVI-DAAKGIEPQTLKLFEVCRL---RDIPIFTFINKLDRE---GRDPLELLDEIEEELGI 163 (528)
T ss_pred HHHhhheeeEEE-ecccCccHHHHHHHHHHhh---cCCceEEEeeccccc---cCChHHHHHHHHHHhCc
Confidence 344455544444 5553111344555555443 469999999999976 22233444444444443
No 349
>PTZ00258 GTP-binding protein; Provisional
Probab=78.10 E-value=3.2 Score=33.13 Aligned_cols=44 Identities=16% Similarity=0.034 Sum_probs=27.9
Q ss_pred CCeEEEEeeCC--CCCcCCCCCCHHHHHHHHHHh-CCcEEEecCCCCC
Q 032001 52 NVNKVLVGNKA--DMDESKRAVPTSKGQALADEY-GIKFFETSAKTNL 96 (149)
Q Consensus 52 ~~~iilv~nK~--Dl~~~~~~~~~~~~~~~~~~~-~~~~~~~Sak~~~ 96 (149)
..|+++|+|+. |+. ............++... +.+++.+||+...
T Consensus 220 ~KP~iyv~N~~E~D~~-~~~~~~~~~l~~~~~~~~~~~~v~~sa~~E~ 266 (390)
T PTZ00258 220 AKPMIYLVNMSEKDFI-RQKNKWLAKIKEWVGEKGGGPIIPYSAEFEE 266 (390)
T ss_pred cCCEEEEEECchhhhc-ccchHHHHHHHHHHHhcCCCeEEEeeHHHHH
Confidence 47999999999 762 11111223444455555 4789999987554
No 350
>COG4963 CpaE Flp pilus assembly protein, ATPase CpaE [Intracellular trafficking and secretion]
Probab=77.95 E-value=19 Score=28.52 Aligned_cols=52 Identities=8% Similarity=0.072 Sum_probs=41.1
Q ss_pred chhhhhhcCeEEEEEeeCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCC
Q 032001 13 YPPYLAVLCRFKYCTYKIASYHFSDIRNWIRNIEQHASDNVNKVLVGNKADMD 65 (149)
Q Consensus 13 ~~~~~~~~~~~vi~v~~~~~~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~ 65 (149)
...++.+.+. +++|.+.+=.+....+..++++++..+++.+.++|.||....
T Consensus 233 t~~vL~~Sd~-iviv~e~sl~slR~ak~lld~l~~~r~~~~~p~lv~n~~~~~ 284 (366)
T COG4963 233 TRQVLSGSDE-IVIVAEPSLASLRNAKELLDELKRLRPNDPKPILVLNRVGVP 284 (366)
T ss_pred HHHHHhcCCe-EEEEecccHHHHHHHHHHHHHHHHhCCCCCCceEEeeecCCC
Confidence 3455666666 566666665789999999999999888888999999999864
No 351
>COG0012 Predicted GTPase, probable translation factor [Translation, ribosomal structure and biogenesis]
Probab=76.64 E-value=6.7 Score=31.04 Aligned_cols=43 Identities=16% Similarity=0.074 Sum_probs=30.0
Q ss_pred CCCeEEEEeeCCCCCcCCCC-CCHHHHHHHHHHhCCcEEEecCCC
Q 032001 51 DNVNKVLVGNKADMDESKRA-VPTSKGQALADEYGIKFFETSAKT 94 (149)
Q Consensus 51 ~~~~iilv~nK~Dl~~~~~~-~~~~~~~~~~~~~~~~~~~~Sak~ 94 (149)
..+|+++++||.|.. .... ........++...+.+++.+||+.
T Consensus 205 t~KP~lyvaN~~e~~-~~~~n~~~~~i~~~~~~~~~~vV~~sA~~ 248 (372)
T COG0012 205 TAKPMLYVANVSEDD-LANLNEYVKRLKELAAKENAEVVPVSAAI 248 (372)
T ss_pred hcCCeEEEEECCccc-ccchhHHHHHHHHHhhhcCCcEEEeeHHH
Confidence 468999999999976 2111 113445566777778899999853
No 352
>KOG0463 consensus GTP-binding protein GP-1 [General function prediction only]
Probab=75.48 E-value=7.9 Score=31.07 Aligned_cols=27 Identities=19% Similarity=0.201 Sum_probs=18.9
Q ss_pred CcEEEecCCCCCCHHHHHHHHHHHHHHH
Q 032001 85 IKFFETSAKTNLNVEQVFFSIARDIKQR 112 (149)
Q Consensus 85 ~~~~~~Sak~~~~i~el~~~l~~~i~~~ 112 (149)
.|+|.+|..+|.|++ |+......+..+
T Consensus 333 CPIFQvSNVtG~NL~-LLkmFLNlls~R 359 (641)
T KOG0463|consen 333 CPIFQVSNVTGTNLP-LLKMFLNLLSLR 359 (641)
T ss_pred cceEEeccccCCChH-HHHHHHhhcCcc
Confidence 478999999999976 445555555433
No 353
>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=75.40 E-value=22 Score=26.86 Aligned_cols=77 Identities=8% Similarity=-0.085 Sum_probs=42.4
Q ss_pred CeEEEEEeeCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhCCcEEEecCCCCCCHHH
Q 032001 21 CRFKYCTYKIASYHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKTNLNVEQ 100 (149)
Q Consensus 21 ~~~vi~v~~~~~~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~Sak~~~~i~e 100 (149)
.+-+++|.+..- ..+... +...+.+.. + +.-+|.||.|.. .. .-.+..+....+.|+.+++ +|+++++
T Consensus 191 ~~~~~LVl~a~~-~~~~~~-~~~~f~~~~--~-~~g~IlTKlDe~-~~----~G~~l~~~~~~~~Pi~~~~--~Gq~~~d 258 (272)
T TIGR00064 191 PDEVLLVLDATT-GQNALE-QAKVFNEAV--G-LTGIILTKLDGT-AK----GGIILSIAYELKLPIKFIG--VGEKIDD 258 (272)
T ss_pred CceEEEEEECCC-CHHHHH-HHHHHHhhC--C-CCEEEEEccCCC-CC----ccHHHHHHHHHCcCEEEEe--CCCChHh
Confidence 444666767763 122222 223333322 1 346778999975 21 1233344556688888887 7888887
Q ss_pred HHHHHHHHH
Q 032001 101 VFFSIARDI 109 (149)
Q Consensus 101 l~~~l~~~i 109 (149)
+...-.+.+
T Consensus 259 l~~~~~~~~ 267 (272)
T TIGR00064 259 LAPFDADWF 267 (272)
T ss_pred CccCCHHHH
Confidence 654433333
No 354
>cd03111 CpaE_like This protein family consists of proteins similar to the cpaE protein of the Caulobacter pilus assembly and the orf4 protein of Actinobacillus pilus formation gene cluster. The function of these proteins are unkown. The Caulobacter pilus assembly contains 7 genes: pilA, cpaA, cpaB, cpaC, cpaD, cpaE and cpaF. These genes are clustered together on chromosome.
Probab=75.28 E-value=13 Score=23.50 Aligned_cols=42 Identities=7% Similarity=-0.017 Sum_probs=27.5
Q ss_pred cCeEEEEEeeCChhhHHHHHHHHHHHHHhcCC-CCeEEEEeeC
Q 032001 20 LCRFKYCTYKIASYHFSDIRNWIRNIEQHASD-NVNKVLVGNK 61 (149)
Q Consensus 20 ~~~~vi~v~~~~~~s~~~~~~~~~~i~~~~~~-~~~iilv~nK 61 (149)
.++.++++...+..+......+.+.+++...+ ...+.+|.|+
T Consensus 64 ~aD~vlvvv~~~~~s~~~~~~~~~~l~~~~~~~~~~~~lVvNr 106 (106)
T cd03111 64 QADRVFLVTQQDLPSIRNAKRLLELLRVLDYSLPAKIELVLNR 106 (106)
T ss_pred HcCeEEEEecCChHHHHHHHHHHHHHHHcCCCCcCceEEEecC
Confidence 34556777777767778888888777664433 3466666664
No 355
>KOG1954 consensus Endocytosis/signaling protein EHD1 [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]
Probab=74.98 E-value=5.2 Score=32.00 Aligned_cols=49 Identities=16% Similarity=0.078 Sum_probs=30.5
Q ss_pred hhhhhcCeEEEEEeeCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCC
Q 032001 15 PYLAVLCRFKYCTYKIASYHFSDIRNWIRNIEQHASDNVNKVLVGNKADMD 65 (149)
Q Consensus 15 ~~~~~~~~~vi~v~~~~~~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~ 65 (149)
..|..-.|.+|++||.-. ++-.+....-|.+..+..-.+-+|.||.|..
T Consensus 176 ~WFaeR~D~IiLlfD~hK--LDIsdEf~~vi~aLkG~EdkiRVVLNKADqV 224 (532)
T KOG1954|consen 176 EWFAERVDRIILLFDAHK--LDISDEFKRVIDALKGHEDKIRVVLNKADQV 224 (532)
T ss_pred HHHHHhccEEEEEechhh--ccccHHHHHHHHHhhCCcceeEEEecccccc
Confidence 356667788999998763 1111222222333344566888899999987
No 356
>COG0523 Putative GTPases (G3E family) [General function prediction only]
Probab=74.53 E-value=26 Score=27.29 Aligned_cols=34 Identities=26% Similarity=0.232 Sum_probs=21.0
Q ss_pred EEEeeCCCCCcCCCCCCHHHHHHHHHHhC--CcEEEecC
Q 032001 56 VLVGNKADMDESKRAVPTSKGQALADEYG--IKFFETSA 92 (149)
Q Consensus 56 ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~--~~~~~~Sa 92 (149)
++|.||+|+. +.. .......+.+..+ .+++..+.
T Consensus 149 ~ivlNK~Dlv-~~~--~l~~l~~~l~~lnp~A~i~~~~~ 184 (323)
T COG0523 149 VIVLNKTDLV-DAE--ELEALEARLRKLNPRARIIETSY 184 (323)
T ss_pred EEEEecccCC-CHH--HHHHHHHHHHHhCCCCeEEEccc
Confidence 7788999998 322 2344445555544 47777665
No 357
>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=73.94 E-value=3.1 Score=31.03 Aligned_cols=26 Identities=19% Similarity=0.259 Sum_probs=23.2
Q ss_pred CcEEEecCCCCCCHHHHHHHHHHHHH
Q 032001 85 IKFFETSAKTNLNVEQVFFSIARDIK 110 (149)
Q Consensus 85 ~~~~~~Sak~~~~i~el~~~l~~~i~ 110 (149)
.|++..||+++.|+++|++.+.+.++
T Consensus 241 ~pv~~gSa~~~~G~~~ll~~~~~~~p 266 (268)
T cd04170 241 VPVLCGSALTNIGVRELLDALVHLLP 266 (268)
T ss_pred EEEEEeeCCCCcCHHHHHHHHHHhCC
Confidence 47999999999999999999998764
No 358
>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=71.77 E-value=5.5 Score=25.90 Aligned_cols=31 Identities=29% Similarity=0.354 Sum_probs=17.3
Q ss_pred EeeCCCCCcCCCCCCHHHHHHHHHHhC-CcEEEecCC
Q 032001 58 VGNKADMDESKRAVPTSKGQALADEYG-IKFFETSAK 93 (149)
Q Consensus 58 v~nK~Dl~~~~~~~~~~~~~~~~~~~~-~~~~~~Sak 93 (149)
++||+|++ . .......+.+.+. ..++.+||.
T Consensus 1 AaNK~D~~-~----a~~ni~kl~~~~~~~~vVp~SA~ 32 (109)
T PF08438_consen 1 AANKADLP-A----ADENIEKLKEKYPDEPVVPTSAA 32 (109)
T ss_dssp EEE-GGG--S-----HHHHHHHHHHHTT-EEEEE-HH
T ss_pred CCcccccc-c----cHhHHHHHHHhCCCCceeeccHH
Confidence 58999985 2 2344555555554 688999974
No 359
>KOG0460 consensus Mitochondrial translation elongation factor Tu [Translation, ribosomal structure and biogenesis]
Probab=71.77 E-value=13 Score=29.54 Aligned_cols=68 Identities=15% Similarity=0.010 Sum_probs=35.8
Q ss_pred CeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCC---CCHHHHHHHHHHhC-----CcEEEec
Q 032001 21 CRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRA---VPTSKGQALADEYG-----IKFFETS 91 (149)
Q Consensus 21 ~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~---~~~~~~~~~~~~~~-----~~~~~~S 91 (149)
++++++| ..++ .....-.++ ...++-. - ..+++..||.|+. ++.. .-+.+...++..++ .|++.=|
T Consensus 142 DGaILVV-aatDG~MPQTrEHl-LLArQVG-V-~~ivvfiNKvD~V-~d~e~leLVEmE~RElLse~gf~Gd~~PvI~GS 216 (449)
T KOG0460|consen 142 DGAILVV-AATDGPMPQTREHL-LLARQVG-V-KHIVVFINKVDLV-DDPEMLELVEMEIRELLSEFGFDGDNTPVIRGS 216 (449)
T ss_pred CceEEEE-EcCCCCCcchHHHH-HHHHHcC-C-ceEEEEEeccccc-CCHHHHHHHHHHHHHHHHHcCCCCCCCCeeecc
Confidence 4544444 5554 333333333 2234422 1 3677789999998 3322 12234556677765 4677766
Q ss_pred CC
Q 032001 92 AK 93 (149)
Q Consensus 92 ak 93 (149)
|.
T Consensus 217 AL 218 (449)
T KOG0460|consen 217 AL 218 (449)
T ss_pred hh
Confidence 53
No 360
>PLN02759 Formate--tetrahydrofolate ligase
Probab=70.72 E-value=37 Score=28.85 Aligned_cols=56 Identities=14% Similarity=0.029 Sum_probs=37.9
Q ss_pred CCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhC-CcEEEec--CCCCCCHHHHHHHHHHHHH
Q 032001 52 NVNKVLVGNKADMDESKRAVPTSKGQALADEYG-IKFFETS--AKTNLNVEQVFFSIARDIK 110 (149)
Q Consensus 52 ~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~-~~~~~~S--ak~~~~i~el~~~l~~~i~ 110 (149)
++|+|+..|+.... ...+.+....++...+ ..+..+. ++-|+|-.+|-+.+++.+.
T Consensus 450 g~pvVVaiN~F~~D---t~~Ei~~v~~~~~~~ga~~~~~~~~wa~GGeGa~eLA~~Vv~a~e 508 (637)
T PLN02759 450 GVNVVVAINMFATD---TEAELEAVRQAALAAGAFDAVLCTHHAHGGKGAVDLGEAVQKACE 508 (637)
T ss_pred CCCeEEEecCCCCC---CHHHHHHHHHHHHHcCCCcEEEechhhcccHHHHHHHHHHHHHHh
Confidence 68999999998643 3233345667788888 4655444 4566777888877776553
No 361
>KOG2485 consensus Conserved ATP/GTP binding protein [General function prediction only]
Probab=69.09 E-value=10 Score=29.47 Aligned_cols=14 Identities=29% Similarity=0.420 Sum_probs=12.5
Q ss_pred CCeEEEEeeCCCCC
Q 032001 52 NVNKVLVGNKADMD 65 (149)
Q Consensus 52 ~~~iilv~nK~Dl~ 65 (149)
..|-|+|.||.||.
T Consensus 73 ~k~riiVlNK~DLa 86 (335)
T KOG2485|consen 73 PKPRIIVLNKMDLA 86 (335)
T ss_pred CCceEEEEeccccc
Confidence 57889999999998
No 362
>KOG0447 consensus Dynamin-like GTP binding protein [General function prediction only]
Probab=69.02 E-value=41 Score=28.62 Aligned_cols=73 Identities=12% Similarity=0.189 Sum_probs=46.2
Q ss_pred ccccccccchhhhhhcCeEEEEEeeCChhhHHHHHHHHHHHHHh-cCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHH
Q 032001 5 RCLCFIGVYPPYLAVLCRFKYCTYKIASYHFSDIRNWIRNIEQH-ASDNVNKVLVGNKADMDESKRAVPTSKGQALAD 81 (149)
Q Consensus 5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~~s~~~~~~~~~~i~~~-~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~ 81 (149)
-.+.-.+|...|+.+-..+++.+-|-+ .+.......++... .+.+...|+|.+|+|+. +.+...+....++.+
T Consensus 434 TKd~I~~msKayM~NPNAIILCIQDGS---VDAERSnVTDLVsq~DP~GrRTIfVLTKVDlA-EknlA~PdRI~kIle 507 (980)
T KOG0447|consen 434 TKETIFSISKAYMQNPNAIILCIQDGS---VDAERSIVTDLVSQMDPHGRRTIFVLTKVDLA-EKNVASPSRIQQIIE 507 (980)
T ss_pred chHHHHHHHHHHhcCCCeEEEEeccCC---cchhhhhHHHHHHhcCCCCCeeEEEEeecchh-hhccCCHHHHHHHHh
Confidence 345566788999999988766665443 33333333444332 33567889999999998 545555555555443
No 363
>KOG2961 consensus Predicted hydrolase (HAD superfamily) [General function prediction only]
Probab=68.95 E-value=22 Score=24.83 Aligned_cols=62 Identities=18% Similarity=0.124 Sum_probs=41.5
Q ss_pred HHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhCCcEEEecCCCCCCHHHHHHHHHH
Q 032001 43 RNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKTNLNVEQVFFSIAR 107 (149)
Q Consensus 43 ~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~Sak~~~~i~el~~~l~~ 107 (149)
++++... .+..++++-|-+-+.+ -.-....+..+..+.|+|+++-|.+......|+.+....
T Consensus 71 e~~~~vy-gek~i~v~SNsaG~~~--~D~d~s~Ak~le~k~gIpVlRHs~kKP~ct~E~~~y~~~ 132 (190)
T KOG2961|consen 71 ERCKAVY-GEKDIAVFSNSAGLTE--YDHDDSKAKALEAKIGIPVLRHSVKKPACTAEEVEYHFG 132 (190)
T ss_pred HHHHHHh-CcccEEEEecCcCccc--cCCchHHHHHHHHhhCCceEeecccCCCccHHHHHHHhC
Confidence 3344433 3467788877665541 112345677778889999999999988888877666543
No 364
>TIGR03348 VI_IcmF type VI secretion protein IcmF. Members of this protein family are IcmF homologs and tend to be associated with type VI secretion systems.
Probab=68.89 E-value=28 Score=31.92 Aligned_cols=45 Identities=22% Similarity=0.211 Sum_probs=30.6
Q ss_pred cCeEEEEEeeCCh-hh--H-------HHHHHHHHHHHHhcCCCCeEEEEeeCCCCC
Q 032001 20 LCRFKYCTYKIAS-YH--F-------SDIRNWIRNIEQHASDNVNKVLVGNKADMD 65 (149)
Q Consensus 20 ~~~~vi~v~~~~~-~s--~-------~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~ 65 (149)
.++ ||++.|+.+ -. - ..+..-++++.+..+-.+|+.+|.||+|+.
T Consensus 202 lnG-vil~vs~~~Ll~~~~~~~~~~a~~lR~rl~el~~~lg~~~PVYvv~Tk~Dll 256 (1169)
T TIGR03348 202 LNG-VVVTVSLADLLTADPAERKAHARAIRQRLQELREQLGARFPVYLVLTKADLL 256 (1169)
T ss_pred CCe-EEEEEEHHHHhCCCHHHHHHHHHHHHHHHHHHHHHhCCCCCEEEEEecchhh
Confidence 456 666667764 11 1 234455566666667899999999999987
No 365
>PRK14974 cell division protein FtsY; Provisional
Probab=68.84 E-value=28 Score=27.23 Aligned_cols=48 Identities=13% Similarity=0.039 Sum_probs=29.6
Q ss_pred EEEEeeCCCCCcCCCCCCHHHHHHHHHHhCCcEEEecCCCCCCHHHHHHHHHHHH
Q 032001 55 KVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKTNLNVEQVFFSIARDI 109 (149)
Q Consensus 55 iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~Sak~~~~i~el~~~l~~~i 109 (149)
--+|.||.|.. ..- -.+...+...+.|+.+++ +|++++++...=.+.+
T Consensus 282 ~giIlTKlD~~-~~~----G~~ls~~~~~~~Pi~~i~--~Gq~v~Dl~~~~~~~~ 329 (336)
T PRK14974 282 DGVILTKVDAD-AKG----GAALSIAYVIGKPILFLG--VGQGYDDLIPFDPDWF 329 (336)
T ss_pred CEEEEeeecCC-CCc----cHHHHHHHHHCcCEEEEe--CCCChhhcccCCHHHH
Confidence 35677999976 211 123334445688888887 6999988654443333
No 366
>KOG0465 consensus Mitochondrial elongation factor [Translation, ribosomal structure and biogenesis]
Probab=68.16 E-value=12 Score=31.69 Aligned_cols=28 Identities=14% Similarity=0.146 Sum_probs=25.3
Q ss_pred CcEEEecCCCCCCHHHHHHHHHHHHHHH
Q 032001 85 IKFFETSAKTNLNVEQVFFSIARDIKQR 112 (149)
Q Consensus 85 ~~~~~~Sak~~~~i~el~~~l~~~i~~~ 112 (149)
.|++.=||..+.||..+++.+++.++..
T Consensus 283 vPVl~GSAlKNkGVQPlLDAVvdYLPsP 310 (721)
T KOG0465|consen 283 VPVLCGSALKNKGVQPLLDAVVDYLPSP 310 (721)
T ss_pred eeEEechhhcccCcchHHHHHHHhCCCh
Confidence 4788899999999999999999999765
No 367
>PF09547 Spore_IV_A: Stage IV sporulation protein A (spore_IV_A); InterPro: IPR014201 This entry is designated stage IV sporulation protein A. It acts in the mother cell compartment and plays a role in spore coat morphogenesis []. A comparative genome analysis of all sequenced genomes of Firmicutes shows that the proteins are strictly conserved among the sub-set of endospore-forming species.
Probab=66.88 E-value=54 Score=26.91 Aligned_cols=50 Identities=10% Similarity=0.149 Sum_probs=34.8
Q ss_pred HHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhCCcEEEecCC
Q 032001 38 IRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAK 93 (149)
Q Consensus 38 ~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~Sak 93 (149)
..+.++++++ -++|+|++.|=.+= ........+..+.++++.+++.+++.
T Consensus 169 EervI~ELk~---igKPFvillNs~~P---~s~et~~L~~eL~ekY~vpVlpvnc~ 218 (492)
T PF09547_consen 169 EERVIEELKE---IGKPFVILLNSTKP---YSEETQELAEELEEKYDVPVLPVNCE 218 (492)
T ss_pred HHHHHHHHHH---hCCCEEEEEeCCCC---CCHHHHHHHHHHHHHhCCcEEEeehH
Confidence 3567777776 46899999998862 23333445566778889999888764
No 368
>cd02038 FleN-like FleN is a member of the Fer4_NifH superfamily. It shares the common function as an ATPase, with the ATP-binding domain at the N-terminus. In Pseudomonas aeruginosa, FleN gene is involved in regulating the number of flagella and chemotactic motility by influencing FleQ activity.
Probab=66.88 E-value=30 Score=22.93 Aligned_cols=48 Identities=13% Similarity=0.118 Sum_probs=29.6
Q ss_pred hhhhhcCeEEEEEeeCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCC
Q 032001 15 PYLAVLCRFKYCTYKIASYHFSDIRNWIRNIEQHASDNVNKVLVGNKADM 64 (149)
Q Consensus 15 ~~~~~~~~~vi~v~~~~~~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl 64 (149)
..+... |.++++.+.+..++......++.+.+.. ...++.+|.|+.+-
T Consensus 62 ~~l~~a-D~vviv~~~~~~s~~~~~~~l~~l~~~~-~~~~~~lVvN~~~~ 109 (139)
T cd02038 62 DFFLAA-DEVIVVTTPEPTSITDAYALIKKLAKQL-RVLNFRVVVNRAES 109 (139)
T ss_pred HHHHhC-CeEEEEcCCChhHHHHHHHHHHHHHHhc-CCCCEEEEEeCCCC
Confidence 334444 4467776777666666666666654433 34567788899864
No 369
>COG3596 Predicted GTPase [General function prediction only]
Probab=66.25 E-value=25 Score=26.95 Aligned_cols=101 Identities=13% Similarity=0.163 Sum_probs=58.6
Q ss_pred ccccchhhhhhcCeEEEEEeeCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcC-------CCCCCHHH------
Q 032001 9 FIGVYPPYLAVLCRFKYCTYKIASYHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDES-------KRAVPTSK------ 75 (149)
Q Consensus 9 ~~~~~~~~~~~~~~~vi~v~~~~~~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~-------~~~~~~~~------ 75 (149)
|+.+...|+...+ .++++-+.++..+....+.+.++.... -+.+++++.|..|.... ........
T Consensus 107 ~r~~~~d~l~~~D-LvL~l~~~~draL~~d~~f~~dVi~~~-~~~~~i~~VtQ~D~a~p~~~W~~~~~~p~~a~~qfi~~ 184 (296)
T COG3596 107 HRQLYRDYLPKLD-LVLWLIKADDRALGTDEDFLRDVIILG-LDKRVLFVVTQADRAEPGREWDSAGHQPSPAIKQFIEE 184 (296)
T ss_pred HHHHHHHHhhhcc-EEEEeccCCCccccCCHHHHHHHHHhc-cCceeEEEEehhhhhccccccccccCCCCHHHHHHHHH
Confidence 4455555666665 456666666532333334444444333 34799999999997521 11111111
Q ss_pred -HHHHHHHhC--CcEEEecCCCCCCHHHHHHHHHHHHHH
Q 032001 76 -GQALADEYG--IKFFETSAKTNLNVEQVFFSIARDIKQ 111 (149)
Q Consensus 76 -~~~~~~~~~--~~~~~~Sak~~~~i~el~~~l~~~i~~ 111 (149)
+....+... -|++.+++..+-|++.+...+++.++.
T Consensus 185 k~~~~~~~~q~V~pV~~~~~r~~wgl~~l~~ali~~lp~ 223 (296)
T COG3596 185 KAEALGRLFQEVKPVVAVSGRLPWGLKELVRALITALPV 223 (296)
T ss_pred HHHHHHHHHhhcCCeEEeccccCccHHHHHHHHHHhCcc
Confidence 111122221 278888888899999999999987764
No 370
>PRK10416 signal recognition particle-docking protein FtsY; Provisional
Probab=64.95 E-value=46 Score=25.75 Aligned_cols=46 Identities=22% Similarity=0.078 Sum_probs=30.0
Q ss_pred eEEEEeeCCCCCcCCCCCCHHHHHHHHHHhCCcEEEecCCCCCCHHHHHHHHH
Q 032001 54 NKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKTNLNVEQVFFSIA 106 (149)
Q Consensus 54 ~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~Sak~~~~i~el~~~l~ 106 (149)
+--+|.||.|.. .. .-.+.......+.|+.+++ +|++++++...=.
T Consensus 261 ~~giIlTKlD~t-~~----~G~~l~~~~~~~~Pi~~v~--~Gq~~~Dl~~~~~ 306 (318)
T PRK10416 261 LTGIILTKLDGT-AK----GGVVFAIADELGIPIKFIG--VGEGIDDLQPFDA 306 (318)
T ss_pred CCEEEEECCCCC-CC----ccHHHHHHHHHCCCEEEEe--CCCChhhCccCCH
Confidence 346778999965 21 1233445566789998888 7898887654333
No 371
>KOG0448 consensus Mitofusin 1 GTPase, involved in mitochondrila biogenesis [Posttranslational modification, protein turnover, chaperones]
Probab=64.17 E-value=58 Score=28.21 Aligned_cols=42 Identities=10% Similarity=0.119 Sum_probs=22.3
Q ss_pred CeEEEEEeeCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCC
Q 032001 21 CRFKYCTYKIASYHFSDIRNWIRNIEQHASDNVNKVLVGNKADMD 65 (149)
Q Consensus 21 ~~~vi~v~~~~~~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~ 65 (149)
.|++++|....+.--....++.....+ .+..|+++-||.|..
T Consensus 233 aDVfVlV~NaEntlt~sek~Ff~~vs~---~KpniFIlnnkwDas 274 (749)
T KOG0448|consen 233 ADVFVLVVNAENTLTLSEKQFFHKVSE---EKPNIFILNNKWDAS 274 (749)
T ss_pred CCeEEEEecCccHhHHHHHHHHHHhhc---cCCcEEEEechhhhh
Confidence 344555555554212223344443332 355677888999976
No 372
>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=63.18 E-value=5.7 Score=29.84 Aligned_cols=26 Identities=19% Similarity=0.188 Sum_probs=23.3
Q ss_pred CcEEEecCCCCCCHHHHHHHHHHHHH
Q 032001 85 IKFFETSAKTNLNVEQVFFSIARDIK 110 (149)
Q Consensus 85 ~~~~~~Sak~~~~i~el~~~l~~~i~ 110 (149)
+|++..||.++.|+..|++.|++.++
T Consensus 240 ~Pv~~gsa~~~~Gv~~Lld~i~~~~P 265 (267)
T cd04169 240 TPVFFGSALNNFGVQELLDALVDLAP 265 (267)
T ss_pred EEEEecccccCcCHHHHHHHHHHHCC
Confidence 48899999999999999999998764
No 373
>TIGR03371 cellulose_yhjQ cellulose synthase operon protein YhjQ. Members of this family are the YhjQ protein, found immediately upsteam of bacterial cellulose synthase (bcs) genes in a broad range of bacteria, including both copies of the bcs locus in Klebsiella pneumoniae. In several species it is seen clearly as part of the bcs operon. It is identified as a probable component of the bacterial cellulose metabolic process not only by gene location, but also by partial phylogenetic profiling, or Haft-Selengut algorithm (PubMed:16930487), based on a bacterial cellulose biosynthesis genome property profile. Cellulose plays an important role in biofilm formation and structural integrity in some bacteria. Mutants in yhjQ in Escherichia coli, show altered morphology an growth, but the function of YhjQ has not yet been determined.
Probab=62.78 E-value=55 Score=23.58 Aligned_cols=45 Identities=4% Similarity=0.030 Sum_probs=24.1
Q ss_pred cCeEEEEEeeCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCC
Q 032001 20 LCRFKYCTYKIASYHFSDIRNWIRNIEQHASDNVNKVLVGNKADM 64 (149)
Q Consensus 20 ~~~~vi~v~~~~~~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl 64 (149)
.++.++++...+..++..+.....++......+.++-+|.|+.|.
T Consensus 136 ~ad~vii~~~~~~~s~~~~~~~~~~l~~~~~~~~~~~iv~n~~~~ 180 (246)
T TIGR03371 136 AADLVLVVVNADAACYATLHQQALALFAGSGPRIGPHFLINQFDP 180 (246)
T ss_pred hCCeEEEEeCCCHHHHHHHHHHHHHHhhcccccccceEEeeccCc
Confidence 445566666666555555553222232222234456778899874
No 374
>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=60.69 E-value=6.9 Score=29.45 Aligned_cols=26 Identities=15% Similarity=0.151 Sum_probs=23.3
Q ss_pred CcEEEecCCCCCCHHHHHHHHHHHHH
Q 032001 85 IKFFETSAKTNLNVEQVFFSIARDIK 110 (149)
Q Consensus 85 ~~~~~~Sak~~~~i~el~~~l~~~i~ 110 (149)
+|+|..||.++.|+..|++.+...++
T Consensus 243 ~PV~~gSa~~~~Gi~~lld~i~~~~p 268 (270)
T cd01886 243 VPVLCGSAFKNKGVQPLLDAVVDYLP 268 (270)
T ss_pred EEEEeCcCCCCcCHHHHHHHHHHhcC
Confidence 48899999999999999999998764
No 375
>COG2759 MIS1 Formyltetrahydrofolate synthetase [Nucleotide transport and metabolism]
Probab=60.38 E-value=65 Score=26.59 Aligned_cols=102 Identities=18% Similarity=0.120 Sum_probs=61.8
Q ss_pred cccccccccchhhhhhcCeEEEEEeeCCh--------------h-------hHHHHHHHHHHHHHhcCCCCeEEEEeeCC
Q 032001 4 LRCLCFIGVYPPYLAVLCRFKYCTYKIAS--------------Y-------HFSDIRNWIRNIEQHASDNVNKVLVGNKA 62 (149)
Q Consensus 4 ~~~~~~~~~~~~~~~~~~~~vi~v~~~~~--------------~-------s~~~~~~~~~~i~~~~~~~~~iilv~nK~ 62 (149)
|+.|+|..+--.+.--.-+++++|..+-- + -|.++.+-++.+++ =++|+|+..||.
T Consensus 303 lGaEKF~dIK~r~~gl~PdavVlVATvRALK~hGG~~~~~l~~Env~avk~G~aNL~~Hi~Nikk---fgvp~VVAIN~F 379 (554)
T COG2759 303 LGAEKFFDIKCRSSGLKPDAVVLVATVRALKMHGGVPKEDLTEENVDAVKKGFANLLKHIENIKK---FGVPVVVAINKF 379 (554)
T ss_pred cchhhhcceeccccCCCCCeEEEeeehHHHHHcCCCChHHhcchhHHHHHHHHHHHHHHHHHHHH---cCCCeEEEeccC
Confidence 56777777766665555566777754321 1 12223333333443 258999999998
Q ss_pred CCCcCCCCCCHHHHHHHHHHhCCcEEEec--CCCCCCHHHHHHHHHHHHHH
Q 032001 63 DMDESKRAVPTSKGQALADEYGIKFFETS--AKTNLNVEQVFFSIARDIKQ 111 (149)
Q Consensus 63 Dl~~~~~~~~~~~~~~~~~~~~~~~~~~S--ak~~~~i~el~~~l~~~i~~ 111 (149)
-.. .........+++.+.++++..+. |+-|+|-.+|-+.+++.+.+
T Consensus 380 ~tD---t~~Ei~~i~~~~~~~gv~~~ls~vwakGg~Gg~eLA~kVv~~~~~ 427 (554)
T COG2759 380 PTD---TEAEIAAIEKLCEEHGVEVALSEVWAKGGEGGIELAKKVVEAIEQ 427 (554)
T ss_pred CCC---CHHHHHHHHHHHHHcCCceeehhhhhccCccHHHHHHHHHHHHhC
Confidence 632 22223445677888887655332 67788888888888776643
No 376
>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=59.01 E-value=68 Score=23.40 Aligned_cols=36 Identities=17% Similarity=0.231 Sum_probs=25.2
Q ss_pred CHHHHHHHHHHhCCcEEEecCCCCCCHHHHHHHHHH
Q 032001 72 PTSKGQALADEYGIKFFETSAKTNLNVEQVFFSIAR 107 (149)
Q Consensus 72 ~~~~~~~~~~~~~~~~~~~Sak~~~~i~el~~~l~~ 107 (149)
..+....+.+++++.-=.++...+.+++++.+.+..
T Consensus 137 ~~~~v~~~l~~~~i~~~~v~~~~~~~~~~~~~~~~~ 172 (233)
T cd01896 137 DEKTIKAILREYKIHNADVLIREDITVDDLIDVIEG 172 (233)
T ss_pred CHHHHHHHHHHhCeeeEEEEEccCCCHHHHHHHHhC
Confidence 456677788888864334466778888988887753
No 377
>PF04548 AIG1: AIG1 family; InterPro: IPR006703 This entry represents a domain found in Arabidopsis protein AIG1 which appears to be involved in plant resistance to bacteria. The Arabidopsis disease resistance gene RPS2 is involved in recognition of bacterial pathogens carrying the avirulence gene avrRpt2. AIG1 (avrRpt2-induced gene) exhibits RPS2- and avrRpt2-dependent induction early after infection with Pseudomonas syringae carrying avrRpt2 []. The domain is also apparently found in a number of mammalian proteins, for example the rat immune-associated nucleotide 4 protein. ; GO: 0005525 GTP binding; PDB: 3LXX_A 3BB4_A 3DEF_A 3BB3_A 2J3E_A 3V70_B 3BB1_A 1H65_B 2XTP_A 3P1J_C ....
Probab=58.87 E-value=63 Score=23.13 Aligned_cols=91 Identities=11% Similarity=0.131 Sum_probs=47.3
Q ss_pred cCeEEEEEeeCChhhHHHHHHHHHHHHHhcCCC--CeEEEEeeCCCCCcCCCCCCH-------HHHHHHHHHhCCcEEEe
Q 032001 20 LCRFKYCTYKIASYHFSDIRNWIRNIEQHASDN--VNKVLVGNKADMDESKRAVPT-------SKGQALADEYGIKFFET 90 (149)
Q Consensus 20 ~~~~vi~v~~~~~~s~~~~~~~~~~i~~~~~~~--~~iilv~nK~Dl~~~~~~~~~-------~~~~~~~~~~~~~~~~~ 90 (149)
+-+++++|...+.-+ ......++.+....++. ..+++|.|..|.. ....+.. ..+..+.+..+-++...
T Consensus 83 g~ha~llVi~~~r~t-~~~~~~l~~l~~~FG~~~~k~~ivvfT~~d~~-~~~~~~~~l~~~~~~~l~~li~~c~~R~~~f 160 (212)
T PF04548_consen 83 GPHAFLLVIPLGRFT-EEDREVLELLQEIFGEEIWKHTIVVFTHADEL-EDDSLEDYLKKESNEALQELIEKCGGRYHVF 160 (212)
T ss_dssp -ESEEEEEEETTB-S-HHHHHHHHHHHHHHCGGGGGGEEEEEEEGGGG-TTTTHHHHHHHHHHHHHHHHHHHTTTCEEEC
T ss_pred CCeEEEEEEecCcch-HHHHHHHHHHHHHccHHHHhHhhHHhhhcccc-ccccHHHHHhccCchhHhHHhhhcCCEEEEE
Confidence 345678888887411 11223333344433321 3577777877754 2222110 12344556666677766
Q ss_pred cCC------CCCCHHHHHHHHHHHHHHH
Q 032001 91 SAK------TNLNVEQVFFSIARDIKQR 112 (149)
Q Consensus 91 Sak------~~~~i~el~~~l~~~i~~~ 112 (149)
..+ ....+.+|+..+-+++.+.
T Consensus 161 ~n~~~~~~~~~~qv~~Ll~~ie~mv~~n 188 (212)
T PF04548_consen 161 NNKTKDKEKDESQVSELLEKIEEMVQEN 188 (212)
T ss_dssp CTTHHHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred eccccchhhhHHHHHHHHHHHHHHHHHc
Confidence 554 2245677777777766554
No 378
>cd03112 CobW_like The function of this protein family is unkown. The amino acid sequence of YjiA protein in E. coli contains several conserved motifs that characterizes it as a P-loop GTPase. YijA gene is among the genes significantly induced in response to DNA-damage caused by mitomycin. YijA gene is a homologue of the CobW gene which encodes the cobalamin synthesis protein/P47K.
Probab=58.51 E-value=21 Score=24.41 Aligned_cols=9 Identities=33% Similarity=0.493 Sum_probs=5.0
Q ss_pred EEEeeCCCC
Q 032001 56 VLVGNKADM 64 (149)
Q Consensus 56 ilv~nK~Dl 64 (149)
++|.||+|+
T Consensus 150 ~ivlnk~dl 158 (158)
T cd03112 150 RILLNKTDL 158 (158)
T ss_pred EEEEecccC
Confidence 445566664
No 379
>cd02036 MinD Bacterial cell division requires the formation of a septum at mid-cell. The site is determined by the min operon products MinC, MinD and MinE. MinC is a nonspecific inhibitor of the septum protein FtsZ. MinE is the supressor of MinC. MinD plays a pivotal role, selecting the mid-cell over other sites through the activation and regulation of MinC and MinE. MinD is a membrane-associated ATPase, related to nitrogenase iron protein. More distantly related proteins include flagellar biosynthesis proteins and ParA chromosome partitioning proteins. MinD is a monomer.
Probab=57.06 E-value=58 Score=21.99 Aligned_cols=64 Identities=8% Similarity=-0.044 Sum_probs=36.4
Q ss_pred cCeEEEEEeeCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhCCcEE
Q 032001 20 LCRFKYCTYKIASYHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFF 88 (149)
Q Consensus 20 ~~~~vi~v~~~~~~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~ 88 (149)
.++.++++...+..++.....+++.+.... ...+.+|.|+.+.. ..........+.+..+.+++
T Consensus 84 ~ad~viiv~~~~~~s~~~~~~~~~~~~~~~--~~~~~iv~N~~~~~---~~~~~~~~~~~~~~~~~~v~ 147 (179)
T cd02036 84 PADEALLVTTPEISSLRDADRVKGLLEALG--IKVVGVIVNRVRPD---MVEGGDMVEDIEEILGVPLL 147 (179)
T ss_pred hCCcEEEEeCCCcchHHHHHHHHHHHHHcC--CceEEEEEeCCccc---ccchhhHHHHHHHHhCCCEE
Confidence 344467776777666777777776665521 23567889999853 11122223344455566544
No 380
>PRK13507 formate--tetrahydrofolate ligase; Provisional
Probab=56.99 E-value=83 Score=26.60 Aligned_cols=55 Identities=15% Similarity=0.090 Sum_probs=37.0
Q ss_pred CCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhCCcEEEec--CCCCCCHHHHHHHHHHHH
Q 032001 52 NVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETS--AKTNLNVEQVFFSIARDI 109 (149)
Q Consensus 52 ~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~S--ak~~~~i~el~~~l~~~i 109 (149)
++|+|+..|+.... ...+.+....++...+.++..+. ++-|+|-.+|-+.+++.+
T Consensus 401 g~pvVVaiN~F~~D---t~~Ei~~l~~~~~~~g~~~~v~~~wa~GGeGa~eLA~~Vv~a~ 457 (587)
T PRK13507 401 GINPVVCINAFYTD---THAEIAIVRRLAEQAGARVAVSRHWEKGGEGALELADAVIDAC 457 (587)
T ss_pred CCCeEEEeCCCCCC---CHHHHHHHHHHHHHcCCCEEEechhhccchhHHHHHHHHHHHh
Confidence 68999999998643 22233455677778887655433 455677777777777655
No 381
>cd00477 FTHFS Formyltetrahydrofolate synthetase (FTHFS) catalyzes the ATP-dependent activation of formate ion via its addition to the N10 position of tetrahydrofolate. FTHFS is a highly expressed key enzyme in both the Wood-Ljungdahl pathway of autotrophic CO2 fixation (acetogenesis) and the glycine synthase/reductase pathways of purinolysis. The key physiological role of this enzyme in acetogens is to catalyze the formylation of tetrahydrofolate, an initial step in the reduction of carbon dioxide and other one-carbon precursors to acetate. In purinolytic organisms, the enzymatic reaction is reversed, liberating formate from 10-formyltetrahydrofolate with concurrent production of ATP.
Probab=56.50 E-value=83 Score=26.28 Aligned_cols=56 Identities=18% Similarity=0.102 Sum_probs=38.5
Q ss_pred CCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhCCcEEEec--CCCCCCHHHHHHHHHHHHH
Q 032001 52 NVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETS--AKTNLNVEQVFFSIARDIK 110 (149)
Q Consensus 52 ~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~S--ak~~~~i~el~~~l~~~i~ 110 (149)
.+|+|+..|+.... ...+.+....++...+.++..+. ++-|+|-.+|-+.+++.+.
T Consensus 356 g~p~VVaiN~F~~D---t~~Ei~~v~~~~~~~g~~~~~~~~~~~GG~Ga~eLA~~Vi~a~e 413 (524)
T cd00477 356 GVPVVVAINKFSTD---TDAELALVRKLAEEAGAFVAVSEHWAEGGKGAVELAEAVIEACE 413 (524)
T ss_pred CCCeEEEecCCCCC---CHHHHHHHHHHHHHcCCCEEEehhhhhhhhhHHHHHHHHHHHhc
Confidence 58999999999743 22233456677888888665443 4566787888777776553
No 382
>PRK13695 putative NTPase; Provisional
Probab=55.48 E-value=65 Score=22.07 Aligned_cols=58 Identities=14% Similarity=0.223 Sum_probs=32.2
Q ss_pred HHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhCCcEEEecCCCCCCHHHHHHHHHHHH
Q 032001 41 WIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKTNLNVEQVFFSIARDI 109 (149)
Q Consensus 41 ~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~Sak~~~~i~el~~~l~~~i 109 (149)
+.+.+.+....+.|++++.||.... .....+....+..++.+ +.+|-+++...+.+.+
T Consensus 115 ~~~~l~~~~~~~~~~i~v~h~~~~~--------~~~~~i~~~~~~~i~~~---~~~~r~~~~~~~~~~~ 172 (174)
T PRK13695 115 FVKAVEEVLDSEKPVIATLHRRSVH--------PFVQEIKSRPGGRVYEL---TPENRDSLPFEILNRL 172 (174)
T ss_pred HHHHHHHHHhCCCeEEEEECchhhH--------HHHHHHhccCCcEEEEE---cchhhhhHHHHHHHHH
Confidence 3333333223567999998985432 12222333334455555 5677777777777654
No 383
>COG1010 CobJ Precorrin-3B methylase [Coenzyme metabolism]
Probab=52.71 E-value=50 Score=24.68 Aligned_cols=45 Identities=18% Similarity=0.161 Sum_probs=32.1
Q ss_pred hhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCC
Q 032001 18 AVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKA 62 (149)
Q Consensus 18 ~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~ 62 (149)
...+|+++.+|..-. .--+++.+-++-++++..++.|+.+|-|--
T Consensus 152 AA~adfVi~~YNP~s~~R~~~~~~a~eil~~~r~~~tpVgivrnag 197 (249)
T COG1010 152 AAEADFVIALYNPISKRRPEQLGRAFEILREHRSPDTPVGIVRNAG 197 (249)
T ss_pred HhhCCEEEEEECCccccchHHHHHHHHHHHHhcCCCCcEEEEecCC
Confidence 345677888887764 444566777777777777788988887765
No 384
>PRK09601 GTP-binding protein YchF; Reviewed
Probab=50.85 E-value=23 Score=28.12 Aligned_cols=44 Identities=18% Similarity=0.120 Sum_probs=27.9
Q ss_pred CCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhCCcEEEecCCCC
Q 032001 52 NVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKTN 95 (149)
Q Consensus 52 ~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~Sak~~ 95 (149)
..|+++++|+.|..-............++...+.+++.+||+..
T Consensus 199 ~KP~i~v~N~~e~~~~~~~~~~~~i~~~~~~~~~~~i~~sa~~E 242 (364)
T PRK09601 199 AKPVLYVANVDEDDLADGNPYVKKVREIAAKEGAEVVVICAKIE 242 (364)
T ss_pred cCCeEEEEECCccccccccHHHHHHHHHHHHcCCeEEEEEHHHH
Confidence 38999999999852001111233445566666888999998533
No 385
>cd02117 NifH_like This family contains the NifH (iron protein) of nitrogenase, L subunit (BchL/ChlL) of the protochlorophyllide reductase and the BchX subunit of the Chlorophyllide reductase. Members of this family use energey from ATP hydrolysis and transfer electrons through a Fe4-S4 cluster to other subunit for reduction of substrate.
Probab=49.83 E-value=91 Score=22.13 Aligned_cols=64 Identities=19% Similarity=0.136 Sum_probs=36.8
Q ss_pred cCeEEEEEeeCChhhHHHHHHHHHHHHHhcC-CCCe-EEEEeeCCCCCcCCCCCCHHHHHHHHHHhCCcEE
Q 032001 20 LCRFKYCTYKIASYHFSDIRNWIRNIEQHAS-DNVN-KVLVGNKADMDESKRAVPTSKGQALADEYGIKFF 88 (149)
Q Consensus 20 ~~~~vi~v~~~~~~s~~~~~~~~~~i~~~~~-~~~~-iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~ 88 (149)
.++.++++...+..+........+.+..... .+.+ ..++.|+.+.. ........+.+.++.+++
T Consensus 141 ~ad~vliv~~p~~~sl~~~~~l~~~i~~~~~~~~~~~~gvv~N~~~~~-----~~~~~~~~~~~~~~~~vl 206 (212)
T cd02117 141 KADEIYIVTSGEFMALYAANNICKGIRKYAKSGGVRLGGLICNSRNTD-----RETELIDAFAERLGTQVI 206 (212)
T ss_pred cCcEEEEEecccHHHHHHHHHHHHHHHHhCcccCCcEEEEEEeCCCCc-----cHHHHHHHHHHHcCCCEE
Confidence 4566777777776566565555555544322 1333 45889999842 223344556666666554
No 386
>PF03709 OKR_DC_1_N: Orn/Lys/Arg decarboxylase, N-terminal domain; InterPro: IPR005308 This domain has a flavodoxin-like fold, and is termed the "wing" domain because of its position in the overall 3D structure. Ornithine decarboxylase from Lactobacillus 30a (L30a OrnDC, P43099 from SWISSPROT) is representative of the large, pyridoxal-5'-phosphate-dependent decarboxylases that act on lysine, arginine or ornithine. The crystal structure of the L30a OrnDC has been solved to 3.0 A resolution. Six dimers related by C6 symmetry compose the enzymatically active dodecamer (approximately 106 Da). Each monomer of L30a OrnDC can be described in terms of five sequential folding domains. The amino-terminal domain, residues 1 to 107, consists of a five-stranded beta-sheet termed the "wing" domain. Two wing domains of each dimer project inward towards the centre of the dodecamer and contribute to dodecamer stabilisation [].; GO: 0016831 carboxy-lyase activity; PDB: 3Q16_C 3N75_A 1C4K_A 1ORD_A 2VYC_D.
Probab=49.51 E-value=69 Score=20.62 Aligned_cols=40 Identities=5% Similarity=0.081 Sum_probs=25.4
Q ss_pred eEEEEEeeCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCC
Q 032001 22 RFKYCTYKIASYHFSDIRNWIRNIEQHASDNVNKVLVGNKA 62 (149)
Q Consensus 22 ~~vi~v~~~~~~s~~~~~~~~~~i~~~~~~~~~iilv~nK~ 62 (149)
++..+|.+.+....+.....+..++... .++|++++.++.
T Consensus 38 ~i~avvi~~d~~~~~~~~~ll~~i~~~~-~~iPVFl~~~~~ 77 (115)
T PF03709_consen 38 DIAAVVISWDGEEEDEAQELLDKIRERN-FGIPVFLLAERD 77 (115)
T ss_dssp TEEEEEEECHHHHHHHHHHHHHHHHHHS-TT-EEEEEESCC
T ss_pred CeeEEEEEcccccchhHHHHHHHHHHhC-CCCCEEEEecCC
Confidence 3445555655444455667777776655 689999998865
No 387
>COG1358 RPL8A Ribosomal protein HS6-type (S12/L30/L7a) [Translation, ribosomal structure and biogenesis]
Probab=48.25 E-value=25 Score=23.10 Aligned_cols=43 Identities=16% Similarity=0.188 Sum_probs=27.5
Q ss_pred hhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCC
Q 032001 17 LAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMD 65 (149)
Q Consensus 17 ~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~ 65 (149)
-++...+|++.-|+++ +....+... ... .++|++.|.+|..|-
T Consensus 40 ~~g~a~LVviA~Dv~P~~~~~~l~~l---c~~---~~vpyv~V~sk~~LG 83 (116)
T COG1358 40 ERGKAKLVVIAEDVSPEELVKHLPAL---CEE---KNVPYVYVGSKKELG 83 (116)
T ss_pred HcCCCcEEEEecCCCHHHHHHHHHHH---HHh---cCCCEEEeCCHHHHH
Confidence 3455677788878775 433333332 222 469999999998874
No 388
>PF07015 VirC1: VirC1 protein; InterPro: IPR009744 This family consists of several bacterial VirC1 proteins. In Agrobacterium tumefaciens, a cis-active 24-base-pair sequence adjacent to the right border of the T-DNA, called overdrive, stimulates tumour formation by increasing the level of T-DNA processing. It is thought that the virC operon, which enhances T-DNA processing probably, does so because the VirC1 protein interacts with overdrive. It has now been shown that the virC1 gene product binds to overdrive but not to the right border of T-DNA [].
Probab=47.01 E-value=1.2e+02 Score=22.56 Aligned_cols=92 Identities=8% Similarity=0.070 Sum_probs=52.0
Q ss_pred ccccccchhhhhhcCeEEEEEeeCCh---hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHH-HHHHHHHH
Q 032001 7 LCFIGVYPPYLAVLCRFKYCTYKIAS---YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTS-KGQALADE 82 (149)
Q Consensus 7 ~~~~~~~~~~~~~~~~~vi~v~~~~~---~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~-~~~~~~~~ 82 (149)
++..+.+..|.-...|.|++=.-.+. ..-...-.|+.++.+..+.++|..++.|++.-. +..... ......
T Consensus 92 eG~as~~~~~aia~sDlVlIP~~~s~lD~~eA~~t~~~v~~~~~~~~~~ip~~Vl~Tr~~~~---~~~~~~~~~~e~~-- 166 (231)
T PF07015_consen 92 EGGASELNDYAIARSDLVLIPMQPSQLDADEAAKTFKWVRRLEKAERRDIPAAVLFTRVPAA---RLTRAQRIISEQL-- 166 (231)
T ss_pred CCCCchhHHHHHHHCCEEEECCCCChHHHHHHHHHHHHHHHHHHhhCCCCCeeEEEecCCcc---hhhHHHHHHHHHH--
Confidence 45667777887778887666655553 112223356666655445789999999998632 111111 112222
Q ss_pred hCCcEEEecCCCCCCHHHHHH
Q 032001 83 YGIKFFETSAKTNLNVEQVFF 103 (149)
Q Consensus 83 ~~~~~~~~Sak~~~~i~el~~ 103 (149)
.++|+|.+.-....-..++|.
T Consensus 167 ~~lpvl~t~l~eR~Af~~m~~ 187 (231)
T PF07015_consen 167 ESLPVLDTELHERDAFRAMFS 187 (231)
T ss_pred hcCCccccccccHHHHHHHHH
Confidence 257887765544444444443
No 389
>PRK13506 formate--tetrahydrofolate ligase; Provisional
Probab=45.94 E-value=1.6e+02 Score=24.99 Aligned_cols=57 Identities=9% Similarity=-0.091 Sum_probs=37.2
Q ss_pred CCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHH-hCCcEEEec--CCCCCCHHHHHHHHHHHHH
Q 032001 51 DNVNKVLVGNKADMDESKRAVPTSKGQALADE-YGIKFFETS--AKTNLNVEQVFFSIARDIK 110 (149)
Q Consensus 51 ~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~-~~~~~~~~S--ak~~~~i~el~~~l~~~i~ 110 (149)
=++|+|+..|+.... ...+.+....++.. .+.++..+. ++-|+|-.+|-+.+++.+.
T Consensus 392 fg~pvVVaiN~F~~D---t~~Ei~~~~~~~~~~~~~~~~~~~~wa~GGeGa~eLA~~Vv~a~e 451 (578)
T PRK13506 392 YGLPVVVAINRFPTD---TDEELEWLKEAVLLTGAFGCEISEAFAQGGEGATALAQAVVRACE 451 (578)
T ss_pred cCCCeEEEecCCCCC---CHHHHHHHHHHHHHcCCCcEEEechhhccchhHHHHHHHHHHHhh
Confidence 368999999998643 22223445667777 566655444 4566777888777776553
No 390
>cd02033 BchX Chlorophyllide reductase converts chlorophylls into bacteriochlorophylls by reducing the chlorin B-ring. This family contains the X subunit of this three-subunit enzyme. Sequence and structure similarity between bchX, protochlorophyllide reductase L subunit (bchL and chlL) and nitrogenase Fe protein (nifH gene) suggest their functional similarity. Members of the BchX family serve as the unique electron donors to their respective catalytic subunits (bchN-bchB, bchY-bchZ and nitrogenase component 1). Mechanistically, they hydrolyze ATP and transfer electrons through a Fe4-S4 cluster.
Probab=45.58 E-value=1.5e+02 Score=23.23 Aligned_cols=85 Identities=14% Similarity=0.128 Sum_probs=45.0
Q ss_pred cCeEEEEEeeCChhhHH---HHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhCCcEEE-------
Q 032001 20 LCRFKYCTYKIASYHFS---DIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFE------- 89 (149)
Q Consensus 20 ~~~~vi~v~~~~~~s~~---~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~------- 89 (149)
.++.+++|...+..++. .+.+.++.+++...+-..+-+|.||.|.. . ....+++..+++++.
T Consensus 172 ~ad~VIVVt~pe~~si~~A~~v~kai~~~~~lg~~~~i~GlViNr~d~~-~-------~ie~~ae~lgi~vLg~IP~D~~ 243 (329)
T cd02033 172 MAQKVIVVGSNDLQSLYVANNVCNAVEYFRKLGGNVGVAGMVINKDDGT-G-------EAQAFAAHAGIPILAAIPADEE 243 (329)
T ss_pred CCceEEEeCCchHHHHHHHHHHHHHHHHHHHhCCCCCceEEEEeCcCCc-c-------hHHHHHHHhCCCEEEECCCCHH
Confidence 45556666444434553 34566666655321222367888999864 1 234444445544332
Q ss_pred ---------ecCCCCCCHHHHHHHHHHHHHHH
Q 032001 90 ---------TSAKTNLNVEQVFFSIARDIKQR 112 (149)
Q Consensus 90 ---------~Sak~~~~i~el~~~l~~~i~~~ 112 (149)
+-......+.+.|..|++.+.+.
T Consensus 244 V~~a~~~g~~~~~p~s~~a~~f~~LA~~I~~~ 275 (329)
T cd02033 244 LRRKSAAYQIVGRPGTTWGPLFEQLATNVAEA 275 (329)
T ss_pred HHHHHHcCCeecCCCCHHHHHHHHHHHHHHHh
Confidence 00112234667888888887664
No 391
>COG1908 FrhD Coenzyme F420-reducing hydrogenase, delta subunit [Energy production and conversion]
Probab=41.83 E-value=66 Score=21.44 Aligned_cols=58 Identities=19% Similarity=0.162 Sum_probs=36.1
Q ss_pred eEEEEeeCCCCCc--CCCCCCH---HHHHHHHHHhCC-----cEEEecCCCCCCHHHHHHHHHHHHHH
Q 032001 54 NKVLVGNKADMDE--SKRAVPT---SKGQALADEYGI-----KFFETSAKTNLNVEQVFFSIARDIKQ 111 (149)
Q Consensus 54 ~iilv~nK~Dl~~--~~~~~~~---~~~~~~~~~~~~-----~~~~~Sak~~~~i~el~~~l~~~i~~ 111 (149)
-++++|=|.+--- ..+.... +.+.+++.+.++ .++.+||..++.+.+.++..++.+.+
T Consensus 56 GV~v~GC~~geCHy~~GN~ka~rR~~~lke~l~elgie~eRv~~~wiSa~E~ekf~e~~~efv~~i~~ 123 (132)
T COG1908 56 GVLVAGCKIGECHYISGNYKAKRRMELLKELLKELGIEPERVRVLWISAAEGEKFAETINEFVERIKE 123 (132)
T ss_pred eEEEecccccceeeeccchHHHHHHHHHHHHHHHhCCCcceEEEEEEehhhHHHHHHHHHHHHHHHHH
Confidence 4666777776310 1111111 233445556553 58999999999988888888877754
No 392
>PF01656 CbiA: CobQ/CobB/MinD/ParA nucleotide binding domain; InterPro: IPR002586 This entry consists of various cobyrinic acid a,c-diamide synthases. These include CbiA and CbiP from Salmonella typhimurium []., and CobQ from Rhodobacter capsulatus []. These amidases catalyse amidations to various side chains of hydrogenobyrinic acid or cobyrinic acid a,c-diamide in the biosynthesis of cobalamin (vitamin B12) from uroporphyrinogen III. Vitamin B12 is an important cofactor and an essential nutrient for many plants and animals and is primarily produced by bacteria [].; PDB: 3K9G_A 3K9H_B 3EZ9_B 3EZF_A 3EZ2_B 3EZ6_A 3EZ7_A 1G3Q_A 1G3R_A 1DTS_A ....
Probab=41.82 E-value=74 Score=21.76 Aligned_cols=46 Identities=9% Similarity=0.010 Sum_probs=31.5
Q ss_pred cCeEEEEEeeCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCC
Q 032001 20 LCRFKYCTYKIASYHFSDIRNWIRNIEQHASDNVNKVLVGNKADMD 65 (149)
Q Consensus 20 ~~~~vi~v~~~~~~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~ 65 (149)
..+.+|++...+..+......+.+.+......-..+.+|.|+.+..
T Consensus 116 ~ad~viv~~~~~~~~i~~~~~~~~~l~~~~~~~~~~~vv~N~v~~~ 161 (195)
T PF01656_consen 116 AADYVIVPIEPDPSSIEGAERLIELLKRLGKKLKIIGVVINRVDPG 161 (195)
T ss_dssp TSSEEEEEEESSHHHHHHHHHHHHHHHHHTHTEEEEEEEEEEETSC
T ss_pred hCceeeeecCCcHHHHHHHHHHHHHHHHhccccceEEEEEeeeCCC
Confidence 4566777778887667777888777766432222567788999753
No 393
>PRK12727 flagellar biosynthesis regulator FlhF; Provisional
Probab=41.76 E-value=2.2e+02 Score=24.17 Aligned_cols=63 Identities=14% Similarity=0.138 Sum_probs=36.7
Q ss_pred EEEEeeCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhCCcEEEecCCCCCCH
Q 032001 24 KYCTYKIASYHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKTNLNV 98 (149)
Q Consensus 24 vi~v~~~~~~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~Sak~~~~i 98 (149)
.++|.+... ++......+..+.. -.+.-+|.||.|.. . ..-.+.......+.++.+++ +|..|
T Consensus 461 ~lLVLpAts-s~~Dl~eii~~f~~----~~~~gvILTKlDEt---~--~lG~aLsv~~~~~LPI~yvt--~GQ~V 523 (559)
T PRK12727 461 SLLVLPANA-HFSDLDEVVRRFAH----AKPQGVVLTKLDET---G--RFGSALSVVVDHQMPITWVT--DGQRV 523 (559)
T ss_pred cEEEEECCC-ChhHHHHHHHHHHh----hCCeEEEEecCcCc---c--chhHHHHHHHHhCCCEEEEe--CCCCc
Confidence 455555553 34444444444433 13567889999965 1 12345555667788877776 47776
No 394
>KOG4102 consensus Uncharacterized conserved protein [Function unknown]
Probab=41.09 E-value=11 Score=24.82 Aligned_cols=10 Identities=40% Similarity=0.879 Sum_probs=7.7
Q ss_pred CCCCCCCccC
Q 032001 138 QAAQKSACCG 147 (149)
Q Consensus 138 ~~~~~~~Cc~ 147 (149)
=+++|+.|||
T Consensus 57 MgrkKSKcCC 66 (121)
T KOG4102|consen 57 MGRKKSKCCC 66 (121)
T ss_pred ccccccceeE
Confidence 4677788887
No 395
>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=41.03 E-value=13 Score=21.49 Aligned_cols=10 Identities=40% Similarity=0.886 Sum_probs=7.0
Q ss_pred CCCCCCCccC
Q 032001 138 QAAQKSACCG 147 (149)
Q Consensus 138 ~~~~~~~Cc~ 147 (149)
-+++++.|||
T Consensus 31 mgkkkSK~CC 40 (60)
T PF07491_consen 31 MGKKKSKCCC 40 (60)
T ss_pred cccccCceee
Confidence 3667777887
No 396
>KOG1486 consensus GTP-binding protein DRG2 (ODN superfamily) [Signal transduction mechanisms]
Probab=41.00 E-value=1.2e+02 Score=23.20 Aligned_cols=50 Identities=20% Similarity=0.213 Sum_probs=35.6
Q ss_pred CeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhCCcEEEecCCCCCCHHHHHHHHHHHHH
Q 032001 53 VNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKTNLNVEQVFFSIARDIK 110 (149)
Q Consensus 53 ~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~Sak~~~~i~el~~~l~~~i~ 110 (149)
++.+-|.||+|.. ..++...+++.-+ .+.+|+...-|++.+++.+-+.+.
T Consensus 239 ~~ClYvYnKID~v------s~eevdrlAr~Pn--svViSC~m~lnld~lle~iWe~l~ 288 (364)
T KOG1486|consen 239 IKCLYVYNKIDQV------SIEEVDRLARQPN--SVVISCNMKLNLDRLLERIWEELN 288 (364)
T ss_pred EEEEEEeecccee------cHHHHHHHhcCCC--cEEEEeccccCHHHHHHHHHHHhc
Confidence 6889999999965 2345555555444 456677778898888888877663
No 397
>PTZ00386 formyl tetrahydrofolate synthetase; Provisional
Probab=39.23 E-value=2.4e+02 Score=24.24 Aligned_cols=101 Identities=19% Similarity=0.138 Sum_probs=57.2
Q ss_pred cccccccccchhhhhhcCeEEEEEeeCCh--------------hhHHHHH-------HHHHHHHHhcCCCCeEEEEeeCC
Q 032001 4 LRCLCFIGVYPPYLAVLCRFKYCTYKIAS--------------YHFSDIR-------NWIRNIEQHASDNVNKVLVGNKA 62 (149)
Q Consensus 4 ~~~~~~~~~~~~~~~~~~~~vi~v~~~~~--------------~s~~~~~-------~~~~~i~~~~~~~~~iilv~nK~ 62 (149)
+|.|+|..+--.+.--.-+++++|..+.- +..+.+. +=++.+++ -++|+|+..|+.
T Consensus 371 lGaEKF~dIkcR~sgl~P~a~VlVaTvRALK~hGG~~~~~l~~enl~al~~G~~NL~~Hien~~~---fgvpvVVAIN~F 447 (625)
T PTZ00386 371 IGCEKFFNIKCRTSGLKPDAAVLVATVRALKFHGGVEPVVAGKENLEAVRKGLSNLQRHIQNIRK---FGVPVVVALNKF 447 (625)
T ss_pred CCchhhccccccccCCCcCEEEEEeehHHHHHhCCCCccccCccCHHHHHHHHHHHHHHHHHHHH---cCCCeEEEecCC
Confidence 56777776655554444455666644321 1222222 22222332 368999999998
Q ss_pred CCCcCCCCCCHHHHHHHHH-HhC-CcEEEec--CCCCCCHHHHHHHHHHHHH
Q 032001 63 DMDESKRAVPTSKGQALAD-EYG-IKFFETS--AKTNLNVEQVFFSIARDIK 110 (149)
Q Consensus 63 Dl~~~~~~~~~~~~~~~~~-~~~-~~~~~~S--ak~~~~i~el~~~l~~~i~ 110 (149)
... ...+.+....++. ..+ .++..+. ++-|+|-.+|-+.+++.+.
T Consensus 448 ~tD---T~~Ei~~i~~~~~~~~ga~~~~~s~~~a~GG~Ga~eLA~~Vv~a~~ 496 (625)
T PTZ00386 448 STD---TDAELELVKELALQEGGAADVVVTDHWAKGGAGAVDLAQALIRVTE 496 (625)
T ss_pred CCC---CHHHHHHHHHHHHHhcCCccEEEechhhccchhHHHHHHHHHHHHh
Confidence 643 2223345566777 777 4655443 4566777888777776553
No 398
>KOG0099 consensus G protein subunit Galphas, small G protein superfamily [Signal transduction mechanisms]
Probab=38.61 E-value=45 Score=25.64 Aligned_cols=52 Identities=10% Similarity=0.130 Sum_probs=30.8
Q ss_pred cccchhhhhhcCeEEEEEeeCC-------hhhHHHHHH--------HHHHHHHhcCCCCeEEEEeeCCCCC
Q 032001 10 IGVYPPYLAVLCRFKYCTYKIA-------SYHFSDIRN--------WIRNIEQHASDNVNKVLVGNKADMD 65 (149)
Q Consensus 10 ~~~~~~~~~~~~~~vi~v~~~~-------~~s~~~~~~--------~~~~i~~~~~~~~~iilv~nK~Dl~ 65 (149)
+..|..+|.+.-.+++++...+ +++-+.++. |.++.. ..+-+|+..||.|+.
T Consensus 216 RrKWIQcFndvtAiifv~acSsyn~vlrED~~qNRL~EaL~LFksiWnNRwL----~tisvIlFLNKqDll 282 (379)
T KOG0099|consen 216 RRKWIQCFNDVTAIIFVVACSSYNMVLREDNQQNRLQEALNLFKSIWNNRWL----RTISVILFLNKQDLL 282 (379)
T ss_pred hhhHHHHhcCccEEEEEEeccchhhhhhcCCchhHHHHHHHHHHHHHhhhHH----hhhheeEEecHHHHH
Confidence 5689999999888655553332 111222222 333322 347889999999973
No 399
>PF10881 DUF2726: Protein of unknown function (DUF2726); InterPro: IPR024402 This domain found in bacterial proteins has no known function.
Probab=38.51 E-value=74 Score=20.66 Aligned_cols=34 Identities=18% Similarity=0.229 Sum_probs=27.3
Q ss_pred HHHHHHHHhCCcEEEecCCCCCCHHHHHHHHHHH
Q 032001 75 KGQALADEYGIKFFETSAKTNLNVEQVFFSIARD 108 (149)
Q Consensus 75 ~~~~~~~~~~~~~~~~Sak~~~~i~el~~~l~~~ 108 (149)
.....+...|++++.+++....++.++.+.|-+.
T Consensus 92 ~k~~~l~~agiplir~~~~~~~~~~~l~~~l~~~ 125 (126)
T PF10881_consen 92 FKDRVLKKAGIPLIRISPKDSYSVEELRRDLREA 125 (126)
T ss_pred HHHHHHHHCCCCEEEEeCCCCCCHHHHHHHHHHh
Confidence 3455678889999999999999999888777543
No 400
>PRK05428 HPr kinase/phosphorylase; Provisional
Probab=37.77 E-value=1.9e+02 Score=22.42 Aligned_cols=55 Identities=13% Similarity=0.140 Sum_probs=34.7
Q ss_pred HHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhCCcEEEecCCCCCCHHHHHHHHHHHHHH
Q 032001 45 IEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKTNLNVEQVFFSIARDIKQ 111 (149)
Q Consensus 45 i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~Sak~~~~i~el~~~l~~~i~~ 111 (149)
+.+....++|.+++......+ ......++.+++|.+.+... ..++...+...+.+
T Consensus 75 ~~~l~~~~~P~iIvt~~~~~p--------~~l~~~a~~~~ipll~t~~~----t~~~i~~l~~~L~~ 129 (308)
T PRK05428 75 LKKLFSLEPPCIIVTRGLEPP--------PELLEAAKEAGIPLLRTPLS----TTRLISKLTNYLDR 129 (308)
T ss_pred HHHHhCCCCCEEEEECcCCCC--------HHHHHHHHHcCCcEEEeCCc----HHHHHHHHHHHHHH
Confidence 344444678988886655433 55778899999999876543 34455455544433
No 401
>PF01268 FTHFS: Formate--tetrahydrofolate ligase; InterPro: IPR000559 Formate--tetrahydrofolate ligase (6.3.4.3 from EC) (formyltetrahydrofolate synthetase) (FTHFS) is one of the enzymes participating in the transfer of one-carbon units, an essential element of various biosynthetic pathways. In many of these processes the transfers of one-carbon units are mediated by the coenzyme tetrahydrofolate (THF). In eukaryotes the FTHFS activity is expressed by a multifunctional enzyme, C-1-tetrahydrofolate synthase (C1-THF synthase), which also catalyses the dehydrogenase and cyclohydrolase activities. Two forms of C1-THF synthases are known [], one is located in the mitochondrial matrix, while the second one is cytoplasmic. In both forms the FTHFS domain consists of about 600 amino acid residues and is located in the C-terminal section of C1-THF synthase. In prokaryotes FTHFS activity is expressed by a monofunctional homotetrameric enzyme of about 560 amino acid residues []. The crystal structure of N(10)-formyltetrahydrofolate synthetase from Moorella thermoacetica shows that the subunit is composed of three domains organised around three mixed beta-sheets. There are two cavities between adjacent domains. One of them was identified as the nucleotide binding site by homology modelling. The large domain contains a seven-stranded beta-sheet surrounded by helices on both sides. The second domain contains a five-stranded beta-sheet with two alpha-helices packed on one side while the other two are a wall of the active site cavity. The third domain contains a four-stranded beta-sheet forming a half-barrel. The concave side is covered by two helices while the convex side is another wall of the large cavity. Arg 97 is likely involved in formyl phosphate binding. The tetrameric molecule is relatively flat with the shape of the letter X, and the active sites are located at the end of the subunits far from the subunit interface [].; GO: 0004329 formate-tetrahydrofolate ligase activity, 0005524 ATP binding, 0009396 folic acid-containing compound biosynthetic process; PDB: 2EO2_A 3DO6_B 1FPM_A 3RBO_A 3PZX_B 3QB6_A 1FP7_A 3SIN_B 1EG7_A 3QUS_A ....
Probab=36.51 E-value=37 Score=28.52 Aligned_cols=57 Identities=16% Similarity=0.117 Sum_probs=31.8
Q ss_pred CCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhCCcEEEec--CCCCCCHHHHHHHHHHHHH
Q 032001 51 DNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETS--AKTNLNVEQVFFSIARDIK 110 (149)
Q Consensus 51 ~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~S--ak~~~~i~el~~~l~~~i~ 110 (149)
=++|+|+..|+.-.. ...+.+....+++..|.++..+. ++-|+|-.+|-+.+++.+.
T Consensus 370 fGvpvVVAIN~F~tD---T~aEi~~I~~~~~~~Gv~~avs~~wa~GGeGa~eLA~~Vv~a~e 428 (557)
T PF01268_consen 370 FGVPVVVAINRFPTD---TDAEIELIRELCEELGVRAAVSEHWAKGGEGAVELAEAVVEACE 428 (557)
T ss_dssp TT--EEEEEE--TTS----HHHHHHHHHHCCCCCEEEEEC-HHHHGGGGCHHHHHHHHHH-H
T ss_pred cCCCeEEEecCCCCC---CHHHHHHHHHHHHhCCCCEEEechhhcccccHHHHHHHHHHHhh
Confidence 368999999998643 21222334455566676643332 4567788888888888773
No 402
>TIGR01968 minD_bact septum site-determining protein MinD. This model describes the bacterial and chloroplast form of MinD, a multifunctional cell division protein that guides correct placement of the septum. The homologous archaeal MinD proteins, with many archaeal genomes having two or more forms, are described by a separate model.
Probab=35.85 E-value=1.7e+02 Score=21.13 Aligned_cols=43 Identities=12% Similarity=-0.062 Sum_probs=28.3
Q ss_pred cCeEEEEEeeCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCC
Q 032001 20 LCRFKYCTYKIASYHFSDIRNWIRNIEQHASDNVNKVLVGNKADM 64 (149)
Q Consensus 20 ~~~~vi~v~~~~~~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl 64 (149)
.+|.++++...+..++......++.+.... ..++.++.|+.+.
T Consensus 133 ~aD~viiv~~~~~~s~~~~~~~~~~l~~~~--~~~~~iviN~~~~ 175 (261)
T TIGR01968 133 PADEAIVVTTPEVSAVRDADRVIGLLEAKG--IEKIHLIVNRLRP 175 (261)
T ss_pred hCCeEEEEcCCCcHHHHHHHHHHHHHHHcC--CCceEEEEeCcCc
Confidence 345567776666667777777777665533 2356778899874
No 403
>TIGR01007 eps_fam capsular exopolysaccharide family. This model describes the capsular exopolysaccharide proteins in bacteria. The exopolysaccharide gene cluster consists of several genes which encode a number of proteins which regulate the exoploysaccharide biosynthesis(EPS). Atleast 13 genes espA to espM in streptococcus species seem to direct the EPS proteins and all of which share high homology. Functional roles were characterized by gene disruption experiments which resulted in exopolysaccharide-deficient phenotypes.
Probab=35.83 E-value=1.5e+02 Score=20.70 Aligned_cols=44 Identities=18% Similarity=0.162 Sum_probs=25.4
Q ss_pred cCeEEEEEeeCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCC
Q 032001 20 LCRFKYCTYKIASYHFSDIRNWIRNIEQHASDNVNKVLVGNKADMD 65 (149)
Q Consensus 20 ~~~~vi~v~~~~~~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~ 65 (149)
..+.+++|...+..+...+..-.+.+.+.. -..+-+|.||.|..
T Consensus 150 ~~D~vilV~~~~~~~~~~~~~~~~~l~~~~--~~~~gvVlN~~~~~ 193 (204)
T TIGR01007 150 ACDASILVTDAGEIKKRDVQKAKEQLEQTG--SNFLGVVLNKVDIS 193 (204)
T ss_pred hCCeEEEEEECCCCCHHHHHHHHHHHHhCC--CCEEEEEEeCcccc
Confidence 345566666666555666666666655421 12445677888754
No 404
>cd03770 SR_TndX_transposase Serine Recombinase (SR) family, TndX-like transposase subfamily, catalytic domain; composed of large serine recombinases similar to Clostridium TndX and TnpX transposases. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining mechanism which involves a transient phosphoserine linkage between DNA and the enzyme. They are functionally versatile and include resolvases, invertases, integrases, and transposases. TndX mediates the excision and circularization of the conjugative transposon Tn5397 from Clostridium difficile. TnpX is responsible for the movement of the nonconjugative chloramphenicol resistance elements of the Tn4451/3 family. Mobile genetic elements such as transposons are important vehicles for the transmission of virulence and antibiotic resistance in many microorganisms.
Probab=35.71 E-value=1.3e+02 Score=19.90 Aligned_cols=49 Identities=12% Similarity=0.272 Sum_probs=21.7
Q ss_pred HHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHH-HHHHHHHhCCcEEEec
Q 032001 38 IRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSK-GQALADEYGIKFFETS 91 (149)
Q Consensus 38 ~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~-~~~~~~~~~~~~~~~S 91 (149)
...+++.+.. ..+. ++|..+.|.. ......... ...+...+|+.++.+.
T Consensus 57 l~~ll~~~~~---g~vd-~vvv~~ldRl-~R~~~d~~~~~~~l~~~~gv~l~~~~ 106 (140)
T cd03770 57 FNRMIEDIEA---GKID-IVIVKDMSRL-GRNYLKVGLYMEILFPKKGVRFIAIN 106 (140)
T ss_pred HHHHHHHHHc---CCCC-EEEEeccchh-ccCHHHHHHHHHHHHhhcCcEEEEec
Confidence 3445554443 3344 4455778755 222111112 2223333477666543
No 405
>cd01853 Toc34_like Toc34-like (Translocon at the Outer-envelope membrane of Chloroplasts). This family contains several Toc proteins, including Toc34, Toc33, Toc120, Toc159, Toc86, Toc125, and Toc90. The Toc complex at the outer envelope membrane of chloroplasts is a molecular machine of ~500 kDa that contains a single Toc159 protein, four Toc75 molecules, and four or five copies of Toc34. Toc64 and Toc12 are associated with the translocon, but do not appear to be part of the core complex. The Toc translocon initiates the import of nuclear-encoded preproteins from the cytosol into the organelle. Toc34 and Toc159 are both GTPases, while Toc75 is a beta-barrel integral membrane protein. Toc159 is equally distributed between a soluble cytoplasmic form and a membrane-inserted form, suggesting that assembly of the Toc complex is dynamic. Toc34 and Toc75 act sequentially to mediate docking and insertion of Toc159 resulting in assembly of the functional translocon.
Probab=35.18 E-value=82 Score=23.42 Aligned_cols=14 Identities=29% Similarity=0.290 Sum_probs=10.1
Q ss_pred CCeEEEEeeCCCCC
Q 032001 52 NVNKVLVGNKADMD 65 (149)
Q Consensus 52 ~~~iilv~nK~Dl~ 65 (149)
.+++++..++.|..
T Consensus 114 ~idvIL~V~rlD~~ 127 (249)
T cd01853 114 TPDVVLYVDRLDMY 127 (249)
T ss_pred CCCEEEEEEcCCCC
Confidence 46777778888754
No 406
>cd02067 B12-binding B12 binding domain (B12-BD). This domain binds different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide, it is found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase. Cobalamin undergoes a conformational change on binding the protein; the dimethylbenzimidazole group, which is coordinated to the cobalt in the free cofactor, moves away from the corrin and is replaced by a histidine contributed by the protein. The sequence Asp-X-His-X-X-Gly, which contains this histidine ligand, is conserved in many cobalamin-binding proteins.
Probab=33.73 E-value=1.2e+02 Score=19.18 Aligned_cols=36 Identities=11% Similarity=0.195 Sum_probs=22.5
Q ss_pred EEEeeCC-hhhHHHHHHHHHHHHHhcCCCCeEEEEee
Q 032001 25 YCTYKIA-SYHFSDIRNWIRNIEQHASDNVNKVLVGN 60 (149)
Q Consensus 25 i~v~~~~-~~s~~~~~~~~~~i~~~~~~~~~iilv~n 60 (149)
+++++.. ...+.....+.+.+++....++++++-|.
T Consensus 53 vV~iS~~~~~~~~~~~~~i~~l~~~~~~~~~i~vGG~ 89 (119)
T cd02067 53 AIGLSGLLTTHMTLMKEVIEELKEAGLDDIPVLVGGA 89 (119)
T ss_pred EEEEeccccccHHHHHHHHHHHHHcCCCCCeEEEECC
Confidence 3333444 36788889999998876422556555544
No 407
>TIGR01425 SRP54_euk signal recognition particle protein SRP54. This model represents examples from the eukaryotic cytosol of the signal recognition particle protein component, SRP54. This GTP-binding protein is a component of the eukaryotic signal recognition particle, along with several other protein subunits and a 7S RNA. Some species, including Arabidopsis, have several closely related forms. The extreme C-terminal region is glycine-rich and lower in complexity, poorly conserved between species, and excluded from this model.
Probab=33.45 E-value=2.3e+02 Score=23.07 Aligned_cols=40 Identities=10% Similarity=0.018 Sum_probs=21.1
Q ss_pred eEEEEeeCCCCCcCCCCCCHHHHHHHHHHhCCcEEEecCCCCCCHHH
Q 032001 54 NKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKTNLNVEQ 100 (149)
Q Consensus 54 ~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~Sak~~~~i~e 100 (149)
+--+|.||.|.. ..- -.+.......+.|+.+++ +|+.+++
T Consensus 241 ~~g~IlTKlD~~-arg----G~aLs~~~~t~~PI~fig--~Ge~v~D 280 (429)
T TIGR01425 241 VGSVIITKLDGH-AKG----GGALSAVAATKSPIIFIG--TGEHIDD 280 (429)
T ss_pred CcEEEEECccCC-CCc----cHHhhhHHHHCCCeEEEc--CCCChhh
Confidence 456778999965 211 112333445566666654 3544443
No 408
>PF02603 Hpr_kinase_N: HPr Serine kinase N terminus; InterPro: IPR011126 Two-component signal transduction systems enable bacteria to sense, respond, and adapt to a wide range of environments, stressors, and growth conditions []. Some bacteria can contain up to as many as 200 two-component systems that need tight regulation to prevent unwanted cross-talk []. These pathways have been adapted to response to a wide variety of stimuli, including nutrients, cellular redox state, changes in osmolarity, quorum signals, antibiotics, and more []. Two-component systems are comprised of a sensor histidine kinase (HK) and its cognate response regulator (RR) []. The HK catalyses its own auto-phosphorylation followed by the transfer of the phosphoryl group to the receiver domain on RR; phosphorylation of the RR usually activates an attached output domain, which can then effect changes in cellular physiology, often by regulating gene expression. Some HK are bifunctional, catalysing both the phosphorylation and dephosphorylation of their cognate RR. The input stimuli can regulate either the kinase or phosphatase activity of the bifunctional HK. A variant of the two-component system is the phospho-relay system. Here a hybrid HK auto-phosphorylates and then transfers the phosphoryl group to an internal receiver domain, rather than to a separate RR protein. The phosphoryl group is then shuttled to histidine phosphotransferase (HPT) and subsequently to a terminal RR, which can evoke the desired response [, ]. This entry represents the N-terminal region of Hpr Serine/threonine kinase PtsK. This kinase is the sensor in a multicomponent phosphorelay system in control of carbon catabolic repression in bacteria []. This kinase in unusual in that it recognises the tertiary structure of its target and is a member of a novel family unrelated to any previously described protein phosphorylating enzymes []. X-ray analysis of the full-length crystalline enzyme from Staphylococcus xylosus at a resolution of 1.95 A shows the enzyme to consist of two clearly separated domains that are assembled in a hexameric structure resembling a three-bladed propeller. The blades are formed by two N-terminal domains each, and the compact central hub assembles the C-terminal kinase domains []. ; GO: 0000155 two-component sensor activity, 0004672 protein kinase activity, 0005524 ATP binding, 0000160 two-component signal transduction system (phosphorelay), 0006109 regulation of carbohydrate metabolic process; PDB: 1KNX_B 1KO7_A.
Probab=33.33 E-value=50 Score=21.79 Aligned_cols=39 Identities=23% Similarity=0.245 Sum_probs=22.8
Q ss_pred HHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhCCcEEEecC
Q 032001 46 EQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSA 92 (149)
Q Consensus 46 ~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~Sa 92 (149)
.+....++|.+++..-... +......++++++|++.++.
T Consensus 75 ~~l~~~~~P~iIvt~~~~~--------p~~l~e~a~~~~ipll~t~~ 113 (127)
T PF02603_consen 75 EKLFSYNPPCIIVTRGLEP--------PPELIELAEKYNIPLLRTPL 113 (127)
T ss_dssp HHHCTTT-S-EEEETTT-----------HHHHHHHHHCT--EEEESS
T ss_pred HHHhCCCCCEEEEECcCCC--------CHHHHHHHHHhCCcEEEcCC
Confidence 3334467898888665543 36777889999999987654
No 409
>PF13651 EcoRI_methylase: Adenine-specific methyltransferase EcoRI
Probab=32.63 E-value=95 Score=24.36 Aligned_cols=51 Identities=14% Similarity=0.088 Sum_probs=34.5
Q ss_pred ccccccchhhhhhcCeEEEEEeeCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCC
Q 032001 7 LCFIGVYPPYLAVLCRFKYCTYKIASYHFSDIRNWIRNIEQHASDNVNKVLVGNKADMD 65 (149)
Q Consensus 7 ~~~~~~~~~~~~~~~~~vi~v~~~~~~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~ 65 (149)
-.|||-...-+...+| |+| ++++|.--..++..|.++ ++.+++|||.--++
T Consensus 122 GDFrS~E~i~Ll~eAD--IVV---TNPPFSLFrEyv~~Li~~---~KkFlIIGN~NaiT 172 (336)
T PF13651_consen 122 GDFRSDECIELLKEAD--IVV---TNPPFSLFREYVAQLIEY---DKKFLIIGNINAIT 172 (336)
T ss_pred CCcCcHHHHHHHhcCC--EEE---eCCCcHHHHHHHHHHHHh---CCCEEEEecccccc
Confidence 3466666666666666 444 555688877777777664 57899999986543
No 410
>PF02492 cobW: CobW/HypB/UreG, nucleotide-binding domain; InterPro: IPR003495 Cobalamin (vitamin B12) is a structurally complex cofactor, consisting of a modified tetrapyrrole with a centrally chelated cobalt. Cobalamin is usually found in one of two biologically active forms: methylcobalamin and adocobalamin. Most prokaryotes, as well as animals, have cobalamin-dependent enzymes, whereas plants and fungi do not appear to use it. In bacteria and archaea, these include methionine synthase, ribonucleotide reductase, glutamate and methylmalonyl-CoA mutases, ethanolamine ammonia lyase, and diol dehydratase []. In mammals, cobalamin is obtained through the diet, and is required for methionine synthase and methylmalonyl-CoA mutase []. There are at least two distinct cobalamin biosynthetic pathways in bacteria []: Aerobic pathway that requires oxygen and in which cobalt is inserted late in the pathway []; found in Pseudomonas denitrificans and Rhodobacter capsulatus. Anaerobic pathway in which cobalt insertion is the first committed step towards cobalamin synthesis []; found in Salmonella typhimurium, Bacillus megaterium, and Propionibacterium freudenreichii subsp. shermanii. Either pathway can be divided into two parts: (1) corrin ring synthesis (differs in aerobic and anaerobic pathways) and (2) adenosylation of corrin ring, attachment of aminopropanol arm, and assembly of the nucleotide loop (common to both pathways) []. There are about 30 enzymes involved in either pathway, where those involved in the aerobic pathway are prefixed Cob and those of the anaerobic pathway Cbi. Several of these enzymes are pathway-specific: CbiD, CbiG, and CbiK are specific to the anaerobic route of S. typhimurium, whereas CobE, CobF, CobG, CobN, CobS, CobT, and CobW are unique to the aerobic pathway of P. denitrificans. CobW proteins are generally found proximal to the trimeric cobaltochelatase subunit CobN, which is essential for vitamin B12 (cobalamin) biosynthesis []. They contain a P-loop nucleotide-binding loop in the N-terminal domain and a histidine-rich region in the C-terminal portion suggesting a role in metal binding, possibly as an intermediary between the cobalt transport and chelation systems. CobW might be involved in cobalt reduction leading to cobalt(I) corrinoids. This entry represents CobW-like proteins, including P47K (P31521 from SWISSPROT), a Pseudomonas chlororaphis protein needed for nitrile hydratase expression [], and urease accessory protein UreG, which acts as a chaperone in the activation of urease upon insertion of nickel into the active site [].; PDB: 2WSM_B 1NIJ_A 2HF9_A 2HF8_B.
Probab=32.05 E-value=60 Score=22.47 Aligned_cols=10 Identities=50% Similarity=0.534 Sum_probs=7.3
Q ss_pred EEEeeCCCCC
Q 032001 56 VLVGNKADMD 65 (149)
Q Consensus 56 ilv~nK~Dl~ 65 (149)
++|.||+|+.
T Consensus 145 vIvlnK~D~~ 154 (178)
T PF02492_consen 145 VIVLNKIDLV 154 (178)
T ss_dssp EEEEE-GGGH
T ss_pred EEEEeccccC
Confidence 6777999987
No 411
>KOG4146 consensus Ubiquitin-like protein [Posttranslational modification, protein turnover, chaperones]
Probab=31.96 E-value=27 Score=22.04 Aligned_cols=37 Identities=14% Similarity=0.047 Sum_probs=21.0
Q ss_pred CCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhCCcEEEecCCCC
Q 032001 52 NVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKTN 95 (149)
Q Consensus 52 ~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~Sak~~ 95 (149)
..-+|++.|++|.. ......+--+.+-.++++|...|
T Consensus 64 rpGii~lINd~DWE-------llekedy~ledgD~ivfiSTlHG 100 (101)
T KOG4146|consen 64 RPGIIVLINDMDWE-------LLEKEDYPLEDGDHIVFISTLHG 100 (101)
T ss_pred cCcEEEEEeccchh-------hhcccccCcccCCEEEEEEeccC
Confidence 34578889999964 01111122234556788887655
No 412
>TIGR03677 rpl7ae 50S ribosomal protein L7Ae. Multifunctional RNA-binding protein that recognizes the K-turn motif in ribosomal RNA, box H/ACA, box C/D and box C'/D' sRNAs. Interacts with protein L15e.
Probab=31.82 E-value=60 Score=21.18 Aligned_cols=39 Identities=10% Similarity=0.174 Sum_probs=21.4
Q ss_pred CeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCC
Q 032001 21 CRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMD 65 (149)
Q Consensus 21 ~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~ 65 (149)
..+||+.-|+++ +.-..+..|-+ . .++|++.+++|.+|-
T Consensus 43 a~LVilA~D~s~~~~~~~i~~lc~---~---~~Ip~~~~~sk~eLG 82 (117)
T TIGR03677 43 AKLVVIAEDVEPPEIVAHLPALCE---E---KGIPYVYVKKKEDLG 82 (117)
T ss_pred ccEEEEeCCCCcHHHHHHHHHHHH---H---cCCCEEEeCCHHHHH
Confidence 455555555554 22233333322 2 368999988887763
No 413
>TIGR02016 BchX chlorophyllide reductase iron protein subunit X. This model represents the X subunit of the three-subunit enzyme, (bacterio)chlorophyllide reductase. This enzyme is responsible for the reduction of the chlorin B-ring and is closely related to the protochlorophyllide reductase complex which reduces the D-ring. Both of these complexes in turn are homologous to nitrogenase. This subunit is homologous to the nitrogenase component II, or "iron" protein.
Probab=31.19 E-value=2.4e+02 Score=21.48 Aligned_cols=84 Identities=19% Similarity=0.159 Sum_probs=43.0
Q ss_pred cCeEEEEEeeCChhhHHH---HHHHHHHHHHhcCCCC-eEEEEeeCCCCCcCCCCCCHHHHHHHHHHhCCcEEEe-----
Q 032001 20 LCRFKYCTYKIASYHFSD---IRNWIRNIEQHASDNV-NKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFET----- 90 (149)
Q Consensus 20 ~~~~vi~v~~~~~~s~~~---~~~~~~~i~~~~~~~~-~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~----- 90 (149)
.++.++++...+..++.. +...++.+... +.++ ++-+|.|+.+.. . ....+++..+++++..
T Consensus 147 ~Ad~viVvt~~e~~sl~~a~~l~k~v~~~~~~-~~~v~i~GVV~N~~~~~-~-------~~~~~~~~~~i~vLg~IP~d~ 217 (296)
T TIGR02016 147 LAEEVIVIGSNDRQSLYVANNICNAVEYFRKL-GGRVGLLGLVVNRDDGS-G-------EAQAFAREVGIPVLAAIPADE 217 (296)
T ss_pred hCCeEEEEecchHHHHHHHHHHHHHHHHHHHc-CCCCcceEEEEeCCCCc-c-------HHHHHHHHcCCCeEEECCCCH
Confidence 455567776655445544 34444444442 2223 456888999743 1 2234445555443321
Q ss_pred --c---------CCCCC-CHHHHHHHHHHHHHHH
Q 032001 91 --S---------AKTNL-NVEQVFFSIARDIKQR 112 (149)
Q Consensus 91 --S---------ak~~~-~i~el~~~l~~~i~~~ 112 (149)
. ..... ...+.|..|++.+.+.
T Consensus 218 ~i~~~~~~~~~~~~~~~~~~~~~f~~la~~i~~~ 251 (296)
T TIGR02016 218 ELRRKSLAYQIVGSHATPRFGKLFEELAGNVADA 251 (296)
T ss_pred HHHHHhcCCCeeecCCCHHHHHHHHHHHHHHHHh
Confidence 0 00111 2567788888877654
No 414
>KOG1487 consensus GTP-binding protein DRG1 (ODN superfamily) [Signal transduction mechanisms]
Probab=30.31 E-value=54 Score=25.19 Aligned_cols=50 Identities=24% Similarity=0.116 Sum_probs=34.4
Q ss_pred CCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhC-CcEEEecCCCCCCHHHHHHHHHHHHH
Q 032001 52 NVNKVLVGNKADMDESKRAVPTSKGQALADEYG-IKFFETSAKTNLNVEQVFFSIARDIK 110 (149)
Q Consensus 52 ~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~-~~~~~~Sak~~~~i~el~~~l~~~i~ 110 (149)
-+|.+.+.||+|-. .. +++. -.+- ...+.+||.++=|+++++..+-+.+.
T Consensus 231 yVp~iyvLNkIdsI-Si-----EELd---ii~~iphavpISA~~~wn~d~lL~~mweyL~ 281 (358)
T KOG1487|consen 231 YVPCIYVLNKIDSI-SI-----EELD---IIYTIPHAVPISAHTGWNFDKLLEKMWEYLK 281 (358)
T ss_pred eeeeeeeeccccee-ee-----eccc---eeeeccceeecccccccchHHHHHHHhhcch
Confidence 47999999999965 21 1111 0111 24678999999999999888887653
No 415
>PRK13602 putative ribosomal protein L7Ae-like; Provisional
Probab=30.16 E-value=60 Score=19.71 Aligned_cols=13 Identities=15% Similarity=0.105 Sum_probs=8.6
Q ss_pred CCeEEEEeeCCCC
Q 032001 52 NVNKVLVGNKADM 64 (149)
Q Consensus 52 ~~~iilv~nK~Dl 64 (149)
++|++.+.+|.+|
T Consensus 53 ~Vp~~~~~s~~eL 65 (82)
T PRK13602 53 GVPVSKVDSMKKL 65 (82)
T ss_pred CCCEEEECCHHHH
Confidence 5777777666554
No 416
>PRK14129 heat shock protein HspQ; Provisional
Probab=30.14 E-value=32 Score=22.16 Aligned_cols=33 Identities=6% Similarity=-0.127 Sum_probs=21.9
Q ss_pred EEEEeeCChhhHHHHHHHHHHHHHhcC-CCCeEEE
Q 032001 24 KYCTYKIASYHFSDIRNWIRNIEQHAS-DNVNKVL 57 (149)
Q Consensus 24 vi~v~~~~~~s~~~~~~~~~~i~~~~~-~~~~iil 57 (149)
--+|+|+|+ .|...+.|++.+....+ .+-|+--
T Consensus 20 rGVV~DVDP-~fs~~e~w~~~ia~~~p~kdqPwYH 53 (105)
T PRK14129 20 LGVVVDIDP-EYSLEEPSPDELAVNDELRAAPWYH 53 (105)
T ss_pred CeEEEeeCC-CcCCCchhHHhhccCCCccCCCceE
Confidence 346778886 47777899998866433 3456633
No 417
>TIGR00991 3a0901s02IAP34 GTP-binding protein (Chloroplast Envelope Protein Translocase).
Probab=30.11 E-value=1.9e+02 Score=22.57 Aligned_cols=11 Identities=18% Similarity=0.289 Sum_probs=5.9
Q ss_pred eEEEEeeCCCC
Q 032001 54 NKVLVGNKADM 64 (149)
Q Consensus 54 ~iilv~nK~Dl 64 (149)
+.|+|.|+.|.
T Consensus 155 ~~IVVfTh~d~ 165 (313)
T TIGR00991 155 KSLVVLTHAQF 165 (313)
T ss_pred cEEEEEECCcc
Confidence 45555555554
No 418
>PF14784 ECIST_Cterm: C-terminal domain of the ECSIT protein
Probab=30.09 E-value=1.6e+02 Score=19.67 Aligned_cols=34 Identities=9% Similarity=0.309 Sum_probs=21.7
Q ss_pred EEEEeeCCh-hhHHHHHHHHHHHHHhcC--CCCeEEE
Q 032001 24 KYCTYKIAS-YHFSDIRNWIRNIEQHAS--DNVNKVL 57 (149)
Q Consensus 24 vi~v~~~~~-~s~~~~~~~~~~i~~~~~--~~~~iil 57 (149)
.|+....+. .+-+.+.+|+..+.+..+ .++|+++
T Consensus 87 ti~Amc~tg~~~~~sL~~WI~~Lq~~NP~L~~ipV~F 123 (126)
T PF14784_consen 87 TIFAMCMTGTSDKDSLLSWIRGLQETNPNLAQIPVLF 123 (126)
T ss_pred eEEEEEeccCCCHHHHHHHHHHHHhhCCchhcceEEE
Confidence 444444444 566788999999987443 4566554
No 419
>PRK04247 hypothetical protein; Provisional
Probab=30.09 E-value=2.4e+02 Score=21.10 Aligned_cols=50 Identities=16% Similarity=0.404 Sum_probs=37.1
Q ss_pred hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhCCcEEEecC
Q 032001 33 YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSA 92 (149)
Q Consensus 33 ~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~Sa 92 (149)
....++..++..++...+.++.-|+|+-.+. ..+..+++..|+.++.++-
T Consensus 186 ~~V~Ql~rY~~~~~~~~~~~VRGilvAp~i~----------~~A~~ll~~~Gle~~~l~p 235 (238)
T PRK04247 186 SAVSQLKRYVEALRELHGDKVRGILVAPSIT----------DRARRLLEKEGLEFVKLEP 235 (238)
T ss_pred hHHHHHHHHHHHHHhhcCCCcEEEEECCcCC----------HHHHHHHHHcCCeEEEecC
Confidence 5667888888888776556677788766553 4577888999998887653
No 420
>cd01900 YchF YchF subfamily. YchF is a member of the Obg family, which includes four other subfamilies of GTPases: Obg, DRG, Ygr210, and NOG1. Obg is an essential gene that is involved in DNA replication in C. crescentus and Streptomyces griseus and is associated with the ribosome. Several members of the family, including YchF, possess the TGS domain related to the RNA-binding proteins. Experimental data and genomic analysis suggest that YchF may be part of a nucleoprotein complex and may function as a GTP-dependent translational factor.
Probab=29.03 E-value=44 Score=25.33 Aligned_cols=41 Identities=20% Similarity=0.200 Sum_probs=24.9
Q ss_pred CeEEEEeeCCC--CCcCCCCCCHHHHHHHHHHhCCcEEEecCCCC
Q 032001 53 VNKVLVGNKAD--MDESKRAVPTSKGQALADEYGIKFFETSAKTN 95 (149)
Q Consensus 53 ~~iilv~nK~D--l~~~~~~~~~~~~~~~~~~~~~~~~~~Sak~~ 95 (149)
.|+++++|+.| +. . ..........+....+.+++.+||+..
T Consensus 196 KP~i~v~N~~e~d~~-~-~~~~~~~~~~~~~~~~~~~i~~sa~~E 238 (274)
T cd01900 196 KPVLYVANVSEDDLA-N-GNNKVLKVREIAAKEGAEVIPISAKIE 238 (274)
T ss_pred CCceeecccCHHHhc-c-ccHHHHHHHHHHhcCCCeEEEeeHHHH
Confidence 79999999998 32 1 111112233344455778999998643
No 421
>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=28.66 E-value=56 Score=18.90 Aligned_cols=20 Identities=30% Similarity=0.272 Sum_probs=14.4
Q ss_pred cCCCCCCHHHHHHHHHHHHH
Q 032001 91 SAKTNLNVEQVFFSIARDIK 110 (149)
Q Consensus 91 Sak~~~~i~el~~~l~~~i~ 110 (149)
+|++|.||.|+.+.-.+...
T Consensus 44 tAknGgNvKEvme~~lr~~l 63 (71)
T PF07764_consen 44 TAKNGGNVKEVMEQALREKL 63 (71)
T ss_dssp HHHSSS-HHHHHHHHHHHHH
T ss_pred ecccCCCHHHHHHHHHHHHH
Confidence 68999999998776665443
No 422
>PRK10818 cell division inhibitor MinD; Provisional
Probab=28.56 E-value=2.4e+02 Score=20.69 Aligned_cols=45 Identities=7% Similarity=0.031 Sum_probs=28.2
Q ss_pred cCeEEEEEeeCChhhHHHHHHHHHHHHHhc------CCCCeEEEEeeCCCC
Q 032001 20 LCRFKYCTYKIASYHFSDIRNWIRNIEQHA------SDNVNKVLVGNKADM 64 (149)
Q Consensus 20 ~~~~vi~v~~~~~~s~~~~~~~~~~i~~~~------~~~~~iilv~nK~Dl 64 (149)
.++.++++.+.+..++..+..+++.+.... ..+++..+|.|..|.
T Consensus 135 ~ad~vivv~~p~~~sl~~~~~~l~~i~~~~~~~~~~~~~~~~~vv~n~~~~ 185 (270)
T PRK10818 135 FADEAIITTNPEVSSVRDSDRILGILASKSRRAENGEEPIKEHLLLTRYNP 185 (270)
T ss_pred hCCeEEEEcCCCchHHHhHHHHHHHHHHhhccccccccccceEEEEeccCH
Confidence 445577776777667777777777765321 123445677888874
No 423
>PRK04175 rpl7ae 50S ribosomal protein L7Ae; Validated
Probab=28.39 E-value=75 Score=20.92 Aligned_cols=39 Identities=13% Similarity=0.172 Sum_probs=21.6
Q ss_pred CeEEEEEeeCChh-hHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCC
Q 032001 21 CRFKYCTYKIASY-HFSDIRNWIRNIEQHASDNVNKVLVGNKADMD 65 (149)
Q Consensus 21 ~~~vi~v~~~~~~-s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~ 65 (149)
..+||+.-|+++. ....+..|- .. .++|++.+++|.+|-
T Consensus 47 akLVilA~D~s~~~i~~~~~~lc---~~---~~Vp~~~~~tk~eLG 86 (122)
T PRK04175 47 AKLVVIAEDVDPEEIVAHLPLLC---EE---KKIPYVYVPSKKDLG 86 (122)
T ss_pred ccEEEEeCCCChHHHHHHHHHHH---HH---cCCCEEEECCHHHHH
Confidence 4555555555542 223333332 22 368999888887653
No 424
>cd02042 ParA ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the initiation of DNA replication. ParB regulates the ParA ATPase activity by promoting nucleotide exchange in a fashion reminiscent of the exchange factors of eukaryotic G proteins. ADP-bound ParA binds single-stranded DNA, whereas the ATP-bound form dissociates ParB from its DNA binding sites. Increasing the fraction of ParA-ADP in the cell inhibits cell division, suggesting that this simple nucleotide switch may regulate cytokinesis. ParA shares sequence similarity to a conserved and widespread family of ATPases which includes the repA protein of the repABC operon in R. etli Sym plasmid. This operon is involved in the plasmid replication and partition.
Probab=27.97 E-value=1.5e+02 Score=18.07 Aligned_cols=23 Identities=0% Similarity=0.122 Sum_probs=12.9
Q ss_pred CeEEEEEeeCChhhHHHHHHHHH
Q 032001 21 CRFKYCTYKIASYHFSDIRNWIR 43 (149)
Q Consensus 21 ~~~vi~v~~~~~~s~~~~~~~~~ 43 (149)
.+.++++.+.+..++.....+++
T Consensus 62 ad~viv~~~~~~~s~~~~~~~~~ 84 (104)
T cd02042 62 ADLVLIPVQPSPLDLDGLEKLLE 84 (104)
T ss_pred CCEEEEeccCCHHHHHHHHHHHH
Confidence 34456665665555666655554
No 425
>KOG0467 consensus Translation elongation factor 2/ribosome biogenesis protein RIA1 and related proteins [Translation, ribosomal structure and biogenesis]
Probab=27.89 E-value=1.2e+02 Score=26.75 Aligned_cols=12 Identities=42% Similarity=0.537 Sum_probs=9.7
Q ss_pred CCeEEEEeeCCC
Q 032001 52 NVNKVLVGNKAD 63 (149)
Q Consensus 52 ~~~iilv~nK~D 63 (149)
+...++|.||+|
T Consensus 124 ~~~~~lvinkid 135 (887)
T KOG0467|consen 124 GLKPILVINKID 135 (887)
T ss_pred cCceEEEEehhh
Confidence 356688999999
No 426
>COG3233 Predicted deacetylase [General function prediction only]
Probab=27.73 E-value=1.7e+02 Score=21.64 Aligned_cols=41 Identities=17% Similarity=0.220 Sum_probs=24.6
Q ss_pred EEEEEeeCChhhHHHHHHHHHHHHHhcCCCCeEEEE-eeCCC
Q 032001 23 FKYCTYKIASYHFSDIRNWIRNIEQHASDNVNKVLV-GNKAD 63 (149)
Q Consensus 23 ~vi~v~~~~~~s~~~~~~~~~~i~~~~~~~~~iilv-~nK~D 63 (149)
.++++.|+++..+..+.....-+.++...++++++| -|-.+
T Consensus 5 ~iillhdVSpv~~~~~~~i~~~ide~~~~~~t~lLViPn~~~ 46 (233)
T COG3233 5 LIILLHDVSPVYWPTLSNIDAAIDEYGAQNSTVLLVIPNHAN 46 (233)
T ss_pred ceEEEEecCcccchhHHHHHHHHHHhCCCCceEEEEeeccCC
Confidence 478888999844555555555555555466777444 44333
No 427
>PRK13600 putative ribosomal protein L7Ae-like; Provisional
Probab=27.14 E-value=88 Score=19.26 Aligned_cols=38 Identities=13% Similarity=0.168 Sum_probs=19.5
Q ss_pred CeEEEEEeeCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCC
Q 032001 21 CRFKYCTYKIASYHFSDIRNWIRNIEQHASDNVNKVLVGNKADM 64 (149)
Q Consensus 21 ~~~vi~v~~~~~~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl 64 (149)
...+++.-|+++. -+.+......+ .++|++.|-+|.||
T Consensus 30 ~~~v~iA~Da~~~---vv~~l~~lcee---k~Ip~v~V~s~~~L 67 (84)
T PRK13600 30 VTSLIIAEDVEVY---LMTRVLSQINQ---KNIPVSFFKSKHAL 67 (84)
T ss_pred ceEEEEeCCCCHH---HHHHHHHHHHH---cCCCEEEECCHHHH
Confidence 3445555555532 22333333333 35777777777665
No 428
>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=26.49 E-value=44 Score=28.70 Aligned_cols=28 Identities=14% Similarity=0.090 Sum_probs=24.9
Q ss_pred CcEEEecCCCCCCHHHHHHHHHHHHHHH
Q 032001 85 IKFFETSAKTNLNVEQVFFSIARDIKQR 112 (149)
Q Consensus 85 ~~~~~~Sak~~~~i~el~~~l~~~i~~~ 112 (149)
+|++..||.++.|+..|++.|+..++..
T Consensus 254 ~PV~~gSa~~~~Gv~~LLd~I~~~lPsP 281 (689)
T TIGR00484 254 FPVLCGSAFKNKGVQLLLDAVVDYLPSP 281 (689)
T ss_pred EEEEeccccCCccHHHHHHHHHHHCCCc
Confidence 4788889999999999999999988754
No 429
>PRK00771 signal recognition particle protein Srp54; Provisional
Probab=25.81 E-value=3.3e+02 Score=22.27 Aligned_cols=38 Identities=13% Similarity=0.082 Sum_probs=22.4
Q ss_pred EEEeeCCCCCcCCCCCCHHHHHHHHHHhCCcEEEecCCCCCCHHH
Q 032001 56 VLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKTNLNVEQ 100 (149)
Q Consensus 56 ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~Sak~~~~i~e 100 (149)
-+|.||.|.. .. --.+.......+.|+.+++. |+.+++
T Consensus 236 gvIlTKlD~~-a~----~G~~ls~~~~~~~Pi~fig~--Ge~v~D 273 (437)
T PRK00771 236 GIIITKLDGT-AK----GGGALSAVAETGAPIKFIGT--GEKIDD 273 (437)
T ss_pred EEEEecccCC-Cc----ccHHHHHHHHHCcCEEEEec--CCCccc
Confidence 5677999965 21 12344455666778777653 555543
No 430
>PF13124 DUF3963: Protein of unknown function (DUF3963)
Probab=25.68 E-value=72 Score=16.32 Aligned_cols=12 Identities=67% Similarity=1.304 Sum_probs=9.7
Q ss_pred hHHHHHHHHHHH
Q 032001 34 HFSDIRNWIRNI 45 (149)
Q Consensus 34 s~~~~~~~~~~i 45 (149)
-|+++++|+..+
T Consensus 12 yfddiqkwirni 23 (40)
T PF13124_consen 12 YFDDIQKWIRNI 23 (40)
T ss_pred HHHHHHHHHHHH
Confidence 478899998876
No 431
>cd03114 ArgK-like The function of this protein family is unkown. The protein sequences are similar to the ArgK protein in E. coli. ArgK protein is a membrane ATPase which is required for transporting arginine, ornithine and lysine into the cells by the arginine and ornithine (AO system) and lysine, arginine and ornithine (LAO) transport systems.
Probab=25.41 E-value=1.6e+02 Score=19.84 Aligned_cols=8 Identities=63% Similarity=0.796 Sum_probs=5.0
Q ss_pred EEEeeCCC
Q 032001 56 VLVGNKAD 63 (149)
Q Consensus 56 ilv~nK~D 63 (149)
+++.||+|
T Consensus 141 ~~~~~k~~ 148 (148)
T cd03114 141 IVVVNKAD 148 (148)
T ss_pred EEEEeCCC
Confidence 55557765
No 432
>COG3785 Uncharacterized conserved protein [Function unknown]
Probab=25.39 E-value=17 Score=23.39 Aligned_cols=28 Identities=11% Similarity=0.404 Sum_probs=20.4
Q ss_pred CeEEEEEeeCChhhHHHHHHHHHHHHHhc
Q 032001 21 CRFKYCTYKIASYHFSDIRNWIRNIEQHA 49 (149)
Q Consensus 21 ~~~vi~v~~~~~~s~~~~~~~~~~i~~~~ 49 (149)
..+.-+|||+|++ |.....|+++|-...
T Consensus 26 fpfrGVV~DvDPe-yanteew~~~ip~~~ 53 (116)
T COG3785 26 FPFRGVVFDVDPE-YANTEEWPDEIPVNI 53 (116)
T ss_pred cccceEEEecCcc-cccCccChhhccccc
Confidence 3445678899974 788889999886543
No 433
>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=25.01 E-value=1.7e+02 Score=19.07 Aligned_cols=36 Identities=22% Similarity=0.250 Sum_probs=25.3
Q ss_pred CCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhCCcEEEec
Q 032001 51 DNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETS 91 (149)
Q Consensus 51 ~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~S 91 (149)
.+.|++++|.-.... ....+..++++..++|++.+-
T Consensus 11 A~rP~il~G~g~~~~-----~a~~~l~~lae~~~~Pv~~t~ 46 (137)
T PF00205_consen 11 AKRPVILAGRGARRS-----GAAEELRELAEKLGIPVATTP 46 (137)
T ss_dssp -SSEEEEE-HHHHHT-----TCHHHHHHHHHHHTSEEEEEG
T ss_pred CCCEEEEEcCCcChh-----hHHHHHHHHHHHHCCCEEecC
Confidence 457999998877532 235778889999999987644
No 434
>PRK13185 chlL protochlorophyllide reductase iron-sulfur ATP-binding protein; Provisional
Probab=24.69 E-value=2.9e+02 Score=20.30 Aligned_cols=43 Identities=7% Similarity=0.021 Sum_probs=24.8
Q ss_pred CeEEEEEeeCChhhHHHHHHHHHHHHHh-cCCCCeE-EEEeeCCC
Q 032001 21 CRFKYCTYKIASYHFSDIRNWIRNIEQH-ASDNVNK-VLVGNKAD 63 (149)
Q Consensus 21 ~~~vi~v~~~~~~s~~~~~~~~~~i~~~-~~~~~~i-ilv~nK~D 63 (149)
++.++++...+..++..+...++.+... ...++++ .+|.|+.+
T Consensus 141 AD~viip~~~~~~sl~~~~~~~~~i~~~~~~~~l~i~giv~N~~~ 185 (270)
T PRK13185 141 ADYALIVTANDFDSIFAANRIAAAIQAKAKNYKVRLAGVIANRSA 185 (270)
T ss_pred CcEEEEEecCchhhHHHHHHHHHHHHhhhhccCCCceEEEEeccC
Confidence 4546666655545666666665555432 1245654 47789976
No 435
>PF00448 SRP54: SRP54-type protein, GTPase domain; InterPro: IPR000897 The signal recognition particle (SRP) is a multimeric protein, which along with its conjugate receptor (SR), is involved in targeting secretory proteins to the rough endoplasmic reticulum (RER) membrane in eukaryotes, or to the plasma membrane in prokaryotes [, ]. SRP recognises the signal sequence of the nascent polypeptide on the ribosome, retards its elongation, and docks the SRP-ribosome-polypeptide complex to the RER membrane via the SR receptor. Eukaryotic SRP consists of six polypeptides (SRP9, SRP14, SRP19, SRP54, SRP68 and SRP72) and a single 300 nucleotide 7S RNA molecule. The RNA component catalyses the interaction of SRP with its SR receptor []. In higher eukaryotes, the SRP complex consists of the Alu domain and the S domain linked by the SRP RNA. The Alu domain consists of a heterodimer of SRP9 and SRP14 bound to the 5' and 3' terminal sequences of SRP RNA. This domain is necessary for retarding the elongation of the nascent polypeptide chain, which gives SRP time to dock the ribosome-polypeptide complex to the RER membrane. In archaea, the SRP complex contains 7S RNA like its eukaryotic counterpart, yet only includes two of the six protein subunits found in the eukarytic complex: SRP19 and SRP54 []. This entry represents the GTPase domain of the 54 kDa SRP54 component, a GTP-binding protein that interacts with the signal sequence when it emerges from the ribosome. SRP54 of the signal recognition particle has a three-domain structure: an N-terminal helical bundle domain, a GTPase domain, and the M-domain that binds the 7s RNA and also binds the signal sequence. The extreme C-terminal region is glycine-rich and lower in complexity and poorly conserved between species. The GTPase domain is evolutionary related to P-loop NTPase domains found in a variety of other proteins []. These proteins include Escherichia coli and Bacillus subtilis ffh protein (P48), which seems to be the prokaryotic counterpart of SRP54; signal recognition particle receptor alpha subunit (docking protein), an integral membrane GTP-binding protein which ensures, in conjunction with SRP, the correct targeting of nascent secretory proteins to the endoplasmic reticulum membrane; bacterial FtsY protein, which is believed to play a similar role to that of the docking protein in eukaryotes; the pilA protein from Neisseria gonorrhoeae, the homologue of ftsY; and bacterial flagellar biosynthesis protein flhF.; GO: 0005525 GTP binding, 0006614 SRP-dependent cotranslational protein targeting to membrane; PDB: 2OG2_A 3B9Q_A 3DM9_B 3DMD_B 3E70_C 3DM5_B 2XXA_C 2J28_9 1ZU5_B 1ZU4_A ....
Probab=24.08 E-value=2.7e+02 Score=19.76 Aligned_cols=38 Identities=24% Similarity=0.157 Sum_probs=22.0
Q ss_pred EEEeeCCCCCcCCCCCCHHHHHHHHHHhCCcEEEecCCCCCCHHH
Q 032001 56 VLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKTNLNVEQ 100 (149)
Q Consensus 56 ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~Sak~~~~i~e 100 (149)
-+|.||.|.. . ..-.+-.+....+.|+-.+| +|++|++
T Consensus 144 ~lIlTKlDet-~----~~G~~l~~~~~~~~Pi~~it--~Gq~V~D 181 (196)
T PF00448_consen 144 GLILTKLDET-A----RLGALLSLAYESGLPISYIT--TGQRVDD 181 (196)
T ss_dssp EEEEESTTSS-S----TTHHHHHHHHHHTSEEEEEE--SSSSTTG
T ss_pred eEEEEeecCC-C----CcccceeHHHHhCCCeEEEE--CCCChhc
Confidence 4456888854 1 12334555666777776665 4666644
No 436
>PTZ00222 60S ribosomal protein L7a; Provisional
Probab=23.37 E-value=1.1e+02 Score=23.20 Aligned_cols=40 Identities=13% Similarity=0.333 Sum_probs=25.5
Q ss_pred CeEEEEEeeCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCC
Q 032001 21 CRFKYCTYKIASYHFSDIRNWIRNIEQHASDNVNKVLVGNKADMD 65 (149)
Q Consensus 21 ~~~vi~v~~~~~~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~ 65 (149)
..+||+.-|+++ .....|+..+-+. .++|+++|.+|.+|-
T Consensus 149 AkLVIIA~DVsP---ie~vk~LpaLCrk--~~VPY~iVktKaeLG 188 (263)
T PTZ00222 149 ARMVVIANNVDP---VELVLWMPNLCRA--NKIPYAIVKDMARLG 188 (263)
T ss_pred ceEEEEeCCCCH---HHHHHHHHHHHHh--cCCCEEEECCHHHHH
Confidence 455666666664 3344555555443 369999999888763
No 437
>PF02084 Bindin: Bindin; InterPro: IPR000775 Bindin, the major protein component of the acrosome granule of sea urchin sperm, mediates species-specific adhesion of sperm to the egg surface during fertilisation [, ]. The protein coats the acrosomal process after externalisation by the acrosome reaction; it binds to sulphated, fucose-containing polysaccharides on the vitelline-layer receptor proteoglycans that cover the egg plasma membrane. Bindins from different genera show high levels of sequence similarity in both the mature bindin domain and in the probindin precursor region. The most highly conserved region is a 42-residue segment in the central portion of the mature bindin protein. This domain may be responsible for conserved functions of bindin, while the more highly divergent flanking regions may be responsible for its species-specific properties [].; GO: 0007342 fusion of sperm to egg plasma membrane
Probab=23.27 E-value=1.5e+02 Score=21.91 Aligned_cols=53 Identities=15% Similarity=0.091 Sum_probs=25.8
Q ss_pred eEEEEeeCCCCCcCCCCCCHHHHHHHHHH--hCCcEEEecCCCCCCHHHHHHHHHHHHHHHh
Q 032001 54 NKVLVGNKADMDESKRAVPTSKGQALADE--YGIKFFETSAKTNLNVEQVFFSIARDIKQRL 113 (149)
Q Consensus 54 ~iilv~nK~Dl~~~~~~~~~~~~~~~~~~--~~~~~~~~Sak~~~~i~el~~~l~~~i~~~~ 113 (149)
+.||=+||+||+-+.+ ..-.+--+++. ++...+ | +.+--++++.+...+.+.+
T Consensus 110 kavLgaTKiDLPVDIN--DPYDlGLLLRhLRHHSNLL---A--nIgdP~VreqVLsAMqEee 164 (238)
T PF02084_consen 110 KAVLGATKIDLPVDIN--DPYDLGLLLRHLRHHSNLL---A--NIGDPEVREQVLSAMQEEE 164 (238)
T ss_pred HHHhcccccccccccC--ChhhHHHHHHHHHHHHHHH---h--hcCCHHHHHHHHHHHhhhH
Confidence 3466689999983222 12222112221 111111 2 3344578888887776553
No 438
>PTZ00365 60S ribosomal protein L7Ae-like; Provisional
Probab=23.18 E-value=98 Score=23.45 Aligned_cols=40 Identities=5% Similarity=0.204 Sum_probs=25.9
Q ss_pred CeEEEEEeeCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCC
Q 032001 21 CRFKYCTYKIASYHFSDIRNWIRNIEQHASDNVNKVLVGNKADMD 65 (149)
Q Consensus 21 ~~~vi~v~~~~~~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~ 65 (149)
..+||+.-|+++ .....|+..+-+. -++|++++.+|.+|-
T Consensus 149 AkLVIIA~DVsP---~t~kk~LP~LC~k--~~VPY~iv~sK~eLG 188 (266)
T PTZ00365 149 AKLVVIAHDVDP---IELVCFLPALCRK--KEVPYCIIKGKSRLG 188 (266)
T ss_pred ccEEEEeCCCCH---HHHHHHHHHHHhc--cCCCEEEECCHHHHH
Confidence 455666666664 4455665444443 368999999988763
No 439
>cd02071 MM_CoA_mut_B12_BD methylmalonyl CoA mutase B12 binding domain. This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen atom with a group attached to a neighboring carbon atom. This family is present in both mammals and bacteria. Bacterial members are heterodimers and involved in the fermentation of pyruvate to propionate. Mammalian members are homodimers and responsible for the conversion of odd-chain fatty acids and branched-chain amino acids via propionyl CoA to succinyl CoA for further degradation.
Probab=22.25 E-value=2.3e+02 Score=18.25 Aligned_cols=38 Identities=11% Similarity=0.006 Sum_probs=23.2
Q ss_pred EEEEeeCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeC
Q 032001 24 KYCTYKIASYHFSDIRNWIRNIEQHASDNVNKVLVGNK 61 (149)
Q Consensus 24 vi~v~~~~~~s~~~~~~~~~~i~~~~~~~~~iilv~nK 61 (149)
++.+......+...+..+...+++....++++++-|+.
T Consensus 53 ~V~iS~~~~~~~~~~~~~~~~L~~~~~~~i~i~~GG~~ 90 (122)
T cd02071 53 VIGLSSLSGGHMTLFPEVIELLRELGAGDILVVGGGII 90 (122)
T ss_pred EEEEcccchhhHHHHHHHHHHHHhcCCCCCEEEEECCC
Confidence 34443333466777888988888764445565555553
No 440
>PRK01018 50S ribosomal protein L30e; Reviewed
Probab=22.15 E-value=1e+02 Score=19.35 Aligned_cols=13 Identities=8% Similarity=0.235 Sum_probs=8.6
Q ss_pred CCeEEEE-eeCCCC
Q 032001 52 NVNKVLV-GNKADM 64 (149)
Q Consensus 52 ~~~iilv-~nK~Dl 64 (149)
++|++.. ++|.+|
T Consensus 58 ~Ip~~~~~~tk~eL 71 (99)
T PRK01018 58 GIPVYEYEGSSVEL 71 (99)
T ss_pred CCCEEEECCCHHHH
Confidence 5887665 677665
No 441
>cd00338 Ser_Recombinase Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining mechanism which involves a transient phosphoserine linkage between DNA and serine recombinase. Serine recombinases demonstrate functional versatility and include resolvases, invertases, integrases, and transposases. Resolvases and invertases (i.e. Tn3, gamma-delta, Tn5044 resolvases, Gin and Hin invertases) in this family contain a C-terminal DNA binding domain and comprise a major phylogenic group. Also included are phage- and bacterial-encoded recombinases such as phiC31 integrase, SpoIVCA excisionase, and Tn4451 TnpX transposase. These integrases and transposases have larger C-terminal domains compared to resolvases/invertases and are referred to as large serine recombinases. Also belonging to this family are protei
Probab=21.97 E-value=2.3e+02 Score=18.14 Aligned_cols=35 Identities=20% Similarity=0.202 Sum_probs=17.5
Q ss_pred EEEeeCCCCCcCCCCCCHHHHHHHHHHhCCcEEEec
Q 032001 56 VLVGNKADMDESKRAVPTSKGQALADEYGIKFFETS 91 (149)
Q Consensus 56 ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~S 91 (149)
+||..+.|-. .............+...|+.++.++
T Consensus 68 ~ivv~~~~Rl-~R~~~~~~~~~~~l~~~gi~l~~~~ 102 (137)
T cd00338 68 VVLVEKLDRL-SRNLVDLLELLELLEAHGVRVVTAD 102 (137)
T ss_pred EEEEEecchh-hCCHHHHHHHHHHHHHCCCEEEEec
Confidence 4555666654 2222122233344556677776655
No 442
>smart00857 Resolvase Resolvase, N terminal domain. The N-terminal domain of the resolvase family contains the active site and the dimer interface. The extended arm at the C-terminus of this domain connects to the C-terminal helix-turn-helix domain of resolvase.
Probab=21.89 E-value=1.8e+02 Score=19.05 Aligned_cols=49 Identities=14% Similarity=0.247 Sum_probs=22.8
Q ss_pred HHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhCCcEEEec
Q 032001 38 IRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETS 91 (149)
Q Consensus 38 ~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~S 91 (149)
...+++.+.. ..+. +||..+.|-. .............+...|+.++.++
T Consensus 54 l~~ll~~~~~---g~~~-~ivv~~~~Rl-~R~~~~~~~~~~~l~~~gi~l~~~~ 102 (148)
T smart00857 54 LQRLLADLRA---GDID-VLVVYKLDRL-GRSLRDLLALLELLEKKGVRLVSVT 102 (148)
T ss_pred HHHHHHHHHc---CCCC-EEEEeccchh-hCcHHHHHHHHHHHHHCCCEEEECc
Confidence 3445544443 2344 4445666643 2222222233345667777666443
No 443
>TIGR00679 hpr-ser Hpr(Ser) kinase/phosphatase. The hprK gene of Enterococcus faecalis encodes a bifunctional enzyme: the HPr kinase/phosphatase
Probab=21.83 E-value=3.9e+02 Score=20.77 Aligned_cols=40 Identities=10% Similarity=0.137 Sum_probs=27.2
Q ss_pred HHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhCCcEEEecC
Q 032001 45 IEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSA 92 (149)
Q Consensus 45 i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~Sa 92 (149)
+.+....++|.+++......+ ......++.++++.+.+..
T Consensus 75 ~~~~~~~~~P~iIvt~~~~~p--------~~l~~~a~~~~ip~l~t~~ 114 (304)
T TIGR00679 75 IHNLLTLNPPAIILSKSFTDP--------TVLLQVNETYQVPILKTDL 114 (304)
T ss_pred HHHHhCCCCCEEEEECcCCCC--------HHHHHHHHHhCCcEEEeCC
Confidence 344444678888876555432 6677789999999886544
No 444
>KOG1249 consensus Predicted GTPases [General function prediction only]
Probab=21.70 E-value=2.7e+02 Score=23.61 Aligned_cols=22 Identities=18% Similarity=0.193 Sum_probs=17.9
Q ss_pred EEecCCCCCCHHHHHHHHHHHH
Q 032001 88 FETSAKTNLNVEQVFFSIARDI 109 (149)
Q Consensus 88 ~~~Sak~~~~i~el~~~l~~~i 109 (149)
..+++++|.|+++|.-.|++..
T Consensus 189 ~~~r~ktgyg~eeLI~~lvd~~ 210 (572)
T KOG1249|consen 189 DLIRAKTGYGIEELIVMLVDIV 210 (572)
T ss_pred hhhhhhhcccHHHHHHHhhhee
Confidence 4688999999999888887643
No 445
>PRK07714 hypothetical protein; Provisional
Probab=21.61 E-value=1.1e+02 Score=19.14 Aligned_cols=13 Identities=31% Similarity=0.345 Sum_probs=9.0
Q ss_pred CCeEEEEeeCCCC
Q 032001 52 NVNKVLVGNKADM 64 (149)
Q Consensus 52 ~~~iilv~nK~Dl 64 (149)
++|++.+++|.+|
T Consensus 60 ~vp~~~~~sk~eL 72 (100)
T PRK07714 60 NVPMRKVENRQQL 72 (100)
T ss_pred CCCEEEeCCHHHH
Confidence 5888877766554
No 446
>PRK13601 putative L7Ae-like ribosomal protein; Provisional
Probab=21.61 E-value=1.1e+02 Score=18.62 Aligned_cols=14 Identities=7% Similarity=0.335 Sum_probs=9.5
Q ss_pred CCCeEEEEeeCCCC
Q 032001 51 DNVNKVLVGNKADM 64 (149)
Q Consensus 51 ~~~~iilv~nK~Dl 64 (149)
.++|++.+++|.+|
T Consensus 49 ~~Vpv~~~~t~~eL 62 (82)
T PRK13601 49 KSIKIVYIDTMKEL 62 (82)
T ss_pred CCCCEEEeCCHHHH
Confidence 35777777777665
No 447
>TIGR00959 ffh signal recognition particle protein. This model represents Ffh (Fifty-Four Homolog), the protein component that forms the bacterial (and organellar) signal recognition particle together with a 4.5S RNA. Ffh is a GTPase homologous to eukaryotic SRP54 and also to the GTPase FtsY (TIGR00064) that is the receptor for the signal recognition particle.
Probab=21.11 E-value=4.6e+02 Score=21.35 Aligned_cols=38 Identities=13% Similarity=0.084 Sum_probs=22.3
Q ss_pred EEEeeCCCCCcCCCCCCHHHHHHHHHHhCCcEEEecCCCCCCHHH
Q 032001 56 VLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKTNLNVEQ 100 (149)
Q Consensus 56 ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~Sak~~~~i~e 100 (149)
-+|.||.|-. ... -.+.......+.|+.+++. |+.+++
T Consensus 243 giIlTKlD~~-~~~----G~~lsi~~~~~~PI~fi~~--Ge~i~d 280 (428)
T TIGR00959 243 GVVLTKLDGD-ARG----GAALSVRSVTGKPIKFIGV--GEKIDD 280 (428)
T ss_pred EEEEeCccCc-ccc----cHHHHHHHHHCcCEEEEeC--CCChhh
Confidence 5667999954 111 2244555667788777654 555544
No 448
>PF05049 IIGP: Interferon-inducible GTPase (IIGP); InterPro: IPR007743 Interferon-inducible GTPase (IIGP) is thought to play a role in in intracellular defence. IIGP is predominantly associated with the Golgi apparatus and also localizes to the endoplasmic reticulum and exerts a distinct role in IFN-induced intracellular membrane trafficking or processing [].; GO: 0005525 GTP binding, 0016817 hydrolase activity, acting on acid anhydrides, 0016020 membrane; PDB: 1TPZ_A 1TQD_A 1TQ6_A 1TQ2_B 1TQ4_A.
Probab=21.11 E-value=1.7e+02 Score=23.40 Aligned_cols=86 Identities=15% Similarity=0.179 Sum_probs=40.1
Q ss_pred eEEEEEeeCChhhHHHHHHHH-HHHHHhcCCCCeEEEEeeCCCCC--c----CCCCCCHHH----HHHH----HHHhCC-
Q 032001 22 RFKYCTYKIASYHFSDIRNWI-RNIEQHASDNVNKVLVGNKADMD--E----SKRAVPTSK----GQAL----ADEYGI- 85 (149)
Q Consensus 22 ~~vi~v~~~~~~s~~~~~~~~-~~i~~~~~~~~~iilv~nK~Dl~--~----~~~~~~~~~----~~~~----~~~~~~- 85 (149)
|++|++.+ + .|...+-|+ ..+.+ -+.|+.+|.+|+|.. . ..+...+++ .... .+..++
T Consensus 116 D~fiii~s-~--rf~~ndv~La~~i~~---~gK~fyfVRTKvD~Dl~~~~~~~p~~f~~e~~L~~IR~~c~~~L~k~gv~ 189 (376)
T PF05049_consen 116 DFFIIISS-E--RFTENDVQLAKEIQR---MGKKFYFVRTKVDSDLYNERRRKPRTFNEEKLLQEIRENCLENLQKAGVS 189 (376)
T ss_dssp SEEEEEES-S--S--HHHHHHHHHHHH---TT-EEEEEE--HHHHHHHHHCC-STT--HHTHHHHHHHHHHHHHHCTT-S
T ss_pred CEEEEEeC-C--CCchhhHHHHHHHHH---cCCcEEEEEecccccHhhhhccCCcccCHHHHHHHHHHHHHHHHHHcCCC
Confidence 55565543 3 344444333 33444 358999999999951 0 011111111 1111 122343
Q ss_pred --cEEEecCCCCC--CHHHHHHHHHHHHHHHh
Q 032001 86 --KFFETSAKTNL--NVEQVFFSIARDIKQRL 113 (149)
Q Consensus 86 --~~~~~Sak~~~--~i~el~~~l~~~i~~~~ 113 (149)
++|.+|+..-. +...|.+.|.+.++..+
T Consensus 190 ~P~VFLVS~~dl~~yDFp~L~~tL~~dLp~~K 221 (376)
T PF05049_consen 190 EPQVFLVSSFDLSKYDFPKLEETLEKDLPAHK 221 (376)
T ss_dssp S--EEEB-TTTTTSTTHHHHHHHHHHHS-GGG
T ss_pred cCceEEEeCCCcccCChHHHHHHHHHHhHHHH
Confidence 68889987544 56778888888776553
No 449
>PF15349 DCA16: DDB1- and CUL4-associated factor 16
Probab=21.00 E-value=34 Score=23.50 Aligned_cols=10 Identities=40% Similarity=0.900 Sum_probs=6.8
Q ss_pred CCCCCCccCC
Q 032001 139 AAQKSACCGG 148 (149)
Q Consensus 139 ~~~~~~Cc~~ 148 (149)
++--+|||||
T Consensus 171 nscvsgcccg 180 (216)
T PF15349_consen 171 NSCVSGCCCG 180 (216)
T ss_pred chhhcccchh
Confidence 3445788887
No 450
>PRK12311 rpsB 30S ribosomal protein S2/unknown domain fusion protein; Provisional
Probab=20.84 E-value=2.2e+02 Score=22.32 Aligned_cols=55 Identities=11% Similarity=0.154 Sum_probs=33.2
Q ss_pred cccccchhhhhhcCeEEEEEeeCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCC
Q 032001 8 CFIGVYPPYLAVLCRFKYCTYKIASYHFSDIRNWIRNIEQHASDNVNKVLVGNKADM 64 (149)
Q Consensus 8 ~~~~~~~~~~~~~~~~vi~v~~~~~~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl 64 (149)
++...+.+|..+... -+.+.|+. .+...+..-..-+......+-.+++|++|...
T Consensus 17 ~wnpkM~~yIyg~R~-gihIIDL~-kT~~~L~~A~~~i~~~~~~gg~iLfVgTk~~~ 71 (326)
T PRK12311 17 RWNPKMAPYIFGTRN-NIHIIDLA-QTVPLLHRALQAVSDTVAKGGRVLFVGTKRQA 71 (326)
T ss_pred CCCCcccCceecccC-CcEEEcHH-HHHHHHHHHHHHHHHHHhCCCEEEEEeCcHHH
Confidence 456667777777666 35666776 34444444443333322245689999999853
No 451
>PTZ00271 hypoxanthine-guanine phosphoribosyltransferase; Provisional
Probab=20.82 E-value=2.4e+02 Score=20.56 Aligned_cols=38 Identities=11% Similarity=0.115 Sum_probs=24.1
Q ss_pred EEEEeeCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCC
Q 032001 24 KYCTYKIASYHFSDIRNWIRNIEQHASDNVNKVLVGNKA 62 (149)
Q Consensus 24 vi~v~~~~~~s~~~~~~~~~~i~~~~~~~~~iilv~nK~ 62 (149)
|++|-|+-+ |-..+...++.+....+..+.+.++.+|.
T Consensus 121 VLIVDDIvD-TG~TL~~v~~~l~~~~p~svk~avL~dK~ 158 (211)
T PTZ00271 121 ILIVEDIVD-SAITLQYLMRFMLAKKPASLKTVVLLDKP 158 (211)
T ss_pred EEEEecccC-CHHHHHHHHHHHHhcCCCEEEEEEEEEcc
Confidence 688877765 34445555555555555667778888884
No 452
>PF03215 Rad17: Rad17 cell cycle checkpoint protein
Probab=20.58 E-value=4.9e+02 Score=21.79 Aligned_cols=43 Identities=7% Similarity=0.106 Sum_probs=23.5
Q ss_pred CeEEEEEeeCCh-hhHHHHHHHHHHHHHhcC-CCC-eEEEEeeCCCC
Q 032001 21 CRFKYCTYKIAS-YHFSDIRNWIRNIEQHAS-DNV-NKVLVGNKADM 64 (149)
Q Consensus 21 ~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~-~~~-~iilv~nK~Dl 64 (149)
..-||+|=|+-+ -.-+. ..+.+-+++... ... |+|+|.+-+|.
T Consensus 132 ~~kvILVEDlPN~~~~~~-~~f~~~L~~~l~~~~~~PlV~iiSe~~~ 177 (519)
T PF03215_consen 132 NKKVILVEDLPNVFHRDT-SRFREALRQYLRSSRCLPLVFIISETES 177 (519)
T ss_pred CceEEEeeccccccchhH-HHHHHHHHHHHHcCCCCCEEEEEecccc
Confidence 345778866664 21222 344444443221 345 99999996654
No 453
>PRK04017 hypothetical protein; Provisional
Probab=20.42 E-value=2e+02 Score=19.34 Aligned_cols=31 Identities=13% Similarity=0.358 Sum_probs=22.5
Q ss_pred hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCC
Q 032001 33 YHFSDIRNWIRNIEQHASDNVNKVLVGNKADM 64 (149)
Q Consensus 33 ~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl 64 (149)
+.++.+..|++++++....+ .+|+|--|.|.
T Consensus 4 ~~~~~~~e~i~~L~e~s~~g-~vIVVEGk~D~ 34 (132)
T PRK04017 4 ENYERFEEIIEELKEFSEAG-APIIVEGKRDV 34 (132)
T ss_pred HHHHHHHHHHHHHHHhcCCC-CEEEEeCccHH
Confidence 45788899999998876543 44666677774
No 454
>COG4502 5'(3')-deoxyribonucleotidase [Nucleotide transport and metabolism]
Probab=20.35 E-value=1.9e+02 Score=20.06 Aligned_cols=29 Identities=24% Similarity=0.359 Sum_probs=21.6
Q ss_pred hhHHHHHHHHHHHHHhcCCCCeEEEEeeCC
Q 032001 33 YHFSDIRNWIRNIEQHASDNVNKVLVGNKA 62 (149)
Q Consensus 33 ~s~~~~~~~~~~i~~~~~~~~~iilv~nK~ 62 (149)
.|+++--.|+.+.-... +.-.+|+++||-
T Consensus 97 ~s~~dK~eWl~E~FPFi-~~qn~vfCgnKn 125 (180)
T COG4502 97 KSCEDKGEWLKEKFPFI-SYQNIVFCGNKN 125 (180)
T ss_pred hhHHHHHHHHHHHCCCC-ChhhEEEecCCC
Confidence 78998899988865544 345788888874
No 455
>COG4359 Uncharacterized conserved protein [Function unknown]
Probab=20.29 E-value=2.2e+02 Score=20.73 Aligned_cols=33 Identities=18% Similarity=0.129 Sum_probs=22.9
Q ss_pred HHHHHHHHHhCCcEEEecCCCCCCHHHHHHHHH
Q 032001 74 SKGQALADEYGIKFFETSAKTNLNVEQVFFSIA 106 (149)
Q Consensus 74 ~~~~~~~~~~~~~~~~~Sak~~~~i~el~~~l~ 106 (149)
.+.-.|+++++++++.+|+=+.-=|..||+.++
T Consensus 79 Kef~e~ike~di~fiVvSsGm~~fI~~lfe~iv 111 (220)
T COG4359 79 KEFVEWIKEHDIPFIVVSSGMDPFIYPLFEGIV 111 (220)
T ss_pred HHHHHHHHHcCCCEEEEeCCCchHHHHHHHhhc
Confidence 455678899999999999844444555555544
No 456
>COG2179 Predicted hydrolase of the HAD superfamily [General function prediction only]
Probab=20.29 E-value=3.3e+02 Score=19.33 Aligned_cols=43 Identities=21% Similarity=0.543 Sum_probs=30.6
Q ss_pred HHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhCCcEEEec
Q 032001 36 SDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETS 91 (149)
Q Consensus 36 ~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~S 91 (149)
..+..|+.+++. ..+.++++-|.. +.....++...+++++.-.
T Consensus 49 pe~~~W~~e~k~---~gi~v~vvSNn~----------e~RV~~~~~~l~v~fi~~A 91 (175)
T COG2179 49 PELRAWLAELKE---AGIKVVVVSNNK----------ESRVARAAEKLGVPFIYRA 91 (175)
T ss_pred HHHHHHHHHHHh---cCCEEEEEeCCC----------HHHHHhhhhhcCCceeecc
Confidence 567899999987 457888887743 2455667778888877543
No 457
>PF07846 Metallothio_Cad: Metallothionein family; InterPro: IPR012484 The sequence making up family 7 of the metallothionein superfamily are found repeated in metallothionein proteins expressed by two Tetrahymena species. Metallothioneins are low molecular mass, cysteine-rich metal-binding proteins that are thought to be involved in the regulation of levels of trace metals, and detoxification of these metals when present in excess []. Some of the metallothioneins found in this family (for example, Q8T6B3 from SWISSPROT) are known to be induced by cadmium and are thought to be involved in the cellular sequestration of toxic metal ions. The high proportion of cysteine residues allows the metal ions to be bound by the formation of clusters of metal-thiolate complexes []. Tetrahymena spp. metallothioneins differ from other eukaryotic metallothioneins mainly in the length of their sequences and in the cysteine-containing motifs they exhibit. ; GO: 0046870 cadmium ion binding
Probab=20.26 E-value=57 Score=14.40 Aligned_cols=8 Identities=38% Similarity=0.999 Sum_probs=4.7
Q ss_pred CCCCCccC
Q 032001 140 AQKSACCG 147 (149)
Q Consensus 140 ~~~~~Cc~ 147 (149)
...+||||
T Consensus 13 DPnsG~~C 20 (21)
T PF07846_consen 13 DPNSGCCC 20 (21)
T ss_pred CCCCcccc
Confidence 34467776
No 458
>PRK05583 ribosomal protein L7Ae family protein; Provisional
Probab=20.14 E-value=2.2e+02 Score=18.11 Aligned_cols=13 Identities=15% Similarity=0.169 Sum_probs=9.4
Q ss_pred CCeEEEEeeCCCC
Q 032001 52 NVNKVLVGNKADM 64 (149)
Q Consensus 52 ~~~iilv~nK~Dl 64 (149)
++|++..++|.+|
T Consensus 59 ~vp~~~~~t~~eL 71 (104)
T PRK05583 59 NIPYIEGYSKEEL 71 (104)
T ss_pred CCCEEEecCHHHH
Confidence 5888877777654
No 459
>COG4108 PrfC Peptide chain release factor RF-3 [Translation, ribosomal structure and biogenesis]
Probab=20.08 E-value=72 Score=26.30 Aligned_cols=29 Identities=17% Similarity=0.090 Sum_probs=25.6
Q ss_pred CcEEEecCCCCCCHHHHHHHHHHHHHHHh
Q 032001 85 IKFFETSAKTNLNVEQVFFSIARDIKQRL 113 (149)
Q Consensus 85 ~~~~~~Sak~~~~i~el~~~l~~~i~~~~ 113 (149)
.|+|+-||.++.||+.+++.+++..+...
T Consensus 251 TPVFFGSAl~NFGV~~~L~~~~~~AP~P~ 279 (528)
T COG4108 251 TPVFFGSALGNFGVDHFLDALVDWAPSPR 279 (528)
T ss_pred cceEehhhhhccCHHHHHHHHHhhCCCCC
Confidence 48999999999999999999999876553
No 460
>COG0052 RpsB Ribosomal protein S2 [Translation, ribosomal structure and biogenesis]
Probab=20.01 E-value=3.7e+02 Score=20.27 Aligned_cols=67 Identities=12% Similarity=0.205 Sum_probs=35.6
Q ss_pred ccccchhhhhhcCeEEEEEeeCCh--hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhCCc
Q 032001 9 FIGVYPPYLAVLCRFKYCTYKIAS--YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIK 86 (149)
Q Consensus 9 ~~~~~~~~~~~~~~~vi~v~~~~~--~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~ 86 (149)
+...+.+|..+..+. +++.|+.. +-+......+.++.+ .+-.|++|++|.--. .....++..-|..
T Consensus 23 wnpkm~~fIf~~Rng-ihIIDL~kT~~~l~~A~~~v~~~~~---~~g~ILfVgTK~~a~--------~~V~~~A~r~g~~ 90 (252)
T COG0052 23 WNPKMKPFIFGERNG-IHIIDLQKTLERLREAYKFLRRIAA---NGGKILFVGTKKQAQ--------EPVKEFAERTGAY 90 (252)
T ss_pred cCCcccccceeecCC-cEEEEHHHHHHHHHHHHHHHHHHHc---CCCEEEEEechHHHH--------HHHHHHHHHhCCc
Confidence 344444454444442 55557763 344444444444433 456899999995321 3344455555544
Q ss_pred E
Q 032001 87 F 87 (149)
Q Consensus 87 ~ 87 (149)
+
T Consensus 91 y 91 (252)
T COG0052 91 Y 91 (252)
T ss_pred e
Confidence 3
Done!