Query psy2514
Match_columns 71
No_of_seqs 145 out of 1155
Neff 9.3
Searched_HMMs 46136
Date Fri Aug 16 18:08:06 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy2514.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/2514hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0084|consensus 99.9 8.5E-24 1.8E-28 122.2 7.4 65 6-70 3-68 (205)
2 KOG0094|consensus 99.9 1E-22 2.2E-27 117.9 7.6 61 10-70 20-81 (221)
3 KOG0394|consensus 99.8 1.6E-21 3.5E-26 112.1 5.4 63 8-70 5-68 (210)
4 KOG0092|consensus 99.8 6.7E-21 1.5E-25 109.9 7.4 61 10-70 3-64 (200)
5 KOG0080|consensus 99.8 2E-20 4.4E-25 106.1 8.7 63 8-70 7-70 (209)
6 KOG0078|consensus 99.8 1.8E-20 3.8E-25 109.2 8.0 63 8-70 8-71 (207)
7 KOG0098|consensus 99.8 2E-20 4.3E-25 107.9 7.9 63 8-70 2-65 (216)
8 KOG0079|consensus 99.8 3E-21 6.6E-26 108.3 4.1 61 10-70 6-67 (198)
9 cd04172 Rnd3_RhoE_Rho8 Rnd3/Rh 99.8 1.6E-19 3.4E-24 104.1 8.2 62 9-70 2-63 (182)
10 KOG0087|consensus 99.8 3.1E-19 6.8E-24 104.2 6.9 64 7-70 9-73 (222)
11 KOG0095|consensus 99.8 3.9E-19 8.3E-24 100.1 6.9 62 9-70 4-66 (213)
12 cd04131 Rnd Rnd subfamily. Th 99.8 8.4E-19 1.8E-23 100.6 7.9 58 12-70 1-59 (178)
13 cd04128 Spg1 Spg1p. Spg1p (se 99.8 1.3E-18 2.8E-23 100.1 8.6 58 13-70 1-59 (182)
14 cd01875 RhoG RhoG subfamily. 99.8 9.7E-19 2.1E-23 101.1 7.9 59 12-70 3-61 (191)
15 cd04133 Rop_like Rop subfamily 99.8 9.8E-19 2.1E-23 100.4 7.8 58 13-70 2-59 (176)
16 cd04173 Rnd2_Rho7 Rnd2/Rho7 su 99.8 9.7E-19 2.1E-23 103.6 7.6 59 12-70 1-59 (222)
17 KOG0093|consensus 99.8 6.4E-19 1.4E-23 98.8 6.3 63 8-70 17-80 (193)
18 cd04174 Rnd1_Rho6 Rnd1/Rho6 su 99.8 1.8E-18 3.9E-23 103.1 8.2 61 10-70 11-71 (232)
19 cd01874 Cdc42 Cdc42 subfamily. 99.8 2.5E-18 5.5E-23 98.2 7.8 58 13-70 2-59 (175)
20 cd04120 Rab12 Rab12 subfamily. 99.8 4.6E-18 1E-22 99.5 8.5 58 13-70 1-59 (202)
21 cd04121 Rab40 Rab40 subfamily. 99.8 1.2E-17 2.6E-22 96.8 9.1 61 10-70 4-65 (189)
22 cd04108 Rab36_Rab34 Rab34/Rab3 99.7 1.5E-17 3.3E-22 94.6 8.4 57 14-70 2-59 (170)
23 KOG0086|consensus 99.7 3.7E-18 8.1E-23 96.4 5.7 64 7-70 4-68 (214)
24 cd04102 RabL3 RabL3 (Rab-like3 99.7 1.5E-17 3.2E-22 97.4 8.3 58 13-70 1-64 (202)
25 PLN03071 GTP-binding nuclear p 99.7 3.2E-17 7E-22 96.7 9.2 61 10-70 11-72 (219)
26 cd04122 Rab14 Rab14 subfamily. 99.7 4E-17 8.7E-22 91.9 8.6 59 12-70 2-61 (166)
27 cd04119 RJL RJL (RabJ-Like) su 99.7 4.1E-17 9E-22 91.2 8.5 58 13-70 1-59 (168)
28 PF00071 Ras: Ras family; Int 99.7 4.7E-17 1E-21 91.0 8.8 57 14-70 1-58 (162)
29 cd04141 Rit_Rin_Ric Rit/Rin/Ri 99.7 2.7E-17 5.9E-22 93.7 7.8 59 12-70 2-60 (172)
30 cd04107 Rab32_Rab38 Rab38/Rab3 99.7 3.6E-17 7.9E-22 94.9 8.5 58 13-70 1-60 (201)
31 cd01871 Rac1_like Rac1-like su 99.7 3.1E-17 6.8E-22 93.6 7.8 58 13-70 2-59 (174)
32 cd04117 Rab15 Rab15 subfamily. 99.7 5.1E-17 1.1E-21 91.4 8.4 58 13-70 1-59 (161)
33 KOG0091|consensus 99.7 3E-18 6.5E-23 97.5 3.1 61 10-70 6-68 (213)
34 cd04136 Rap_like Rap-like subf 99.7 3.7E-17 8E-22 91.3 7.4 58 12-70 1-59 (163)
35 cd01892 Miro2 Miro2 subfamily. 99.7 7.2E-17 1.6E-21 91.6 8.7 61 10-70 2-64 (169)
36 cd04138 H_N_K_Ras_like H-Ras/N 99.7 5E-17 1.1E-21 90.4 7.8 59 12-70 1-59 (162)
37 PLN03110 Rab GTPase; Provision 99.7 1E-16 2.3E-21 94.2 9.5 63 8-70 8-71 (216)
38 PTZ00369 Ras-like protein; Pro 99.7 5.9E-17 1.3E-21 93.3 7.9 61 10-70 3-63 (189)
39 cd01865 Rab3 Rab3 subfamily. 99.7 9.6E-17 2.1E-21 90.4 8.5 58 13-70 2-60 (165)
40 cd04175 Rap1 Rap1 subgroup. T 99.7 6.6E-17 1.4E-21 90.7 7.6 58 12-70 1-59 (164)
41 KOG0393|consensus 99.7 3.9E-18 8.5E-23 99.3 2.5 61 10-70 2-63 (198)
42 cd04109 Rab28 Rab28 subfamily. 99.7 9.5E-17 2.1E-21 94.2 8.4 58 13-70 1-60 (215)
43 cd01867 Rab8_Rab10_Rab13_like 99.7 1.3E-16 2.9E-21 90.0 8.6 60 11-70 2-62 (167)
44 PLN00023 GTP-binding protein; 99.7 1E-16 2.3E-21 99.3 8.5 63 8-70 17-93 (334)
45 cd04110 Rab35 Rab35 subfamily. 99.7 1.7E-16 3.8E-21 92.1 8.9 61 10-70 4-65 (199)
46 cd04116 Rab9 Rab9 subfamily. 99.7 2E-16 4.4E-21 89.2 8.9 61 10-70 3-64 (170)
47 cd04127 Rab27A Rab27a subfamil 99.7 2E-16 4.2E-21 89.9 8.7 60 11-70 3-73 (180)
48 KOG0097|consensus 99.7 7.9E-17 1.7E-21 90.3 6.6 64 7-70 6-70 (215)
49 cd04134 Rho3 Rho3 subfamily. 99.7 1.3E-16 2.8E-21 92.0 7.6 58 13-70 1-58 (189)
50 cd04132 Rho4_like Rho4-like su 99.7 1.9E-16 4E-21 90.6 8.0 58 13-70 1-59 (187)
51 cd00877 Ran Ran (Ras-related n 99.7 2.9E-16 6.2E-21 88.9 8.6 58 13-70 1-59 (166)
52 cd04118 Rab24 Rab24 subfamily. 99.7 2.7E-16 5.8E-21 90.5 8.5 58 13-70 1-60 (193)
53 cd04142 RRP22 RRP22 subfamily. 99.7 1.6E-16 3.4E-21 92.6 7.5 57 13-69 1-58 (198)
54 cd04124 RabL2 RabL2 subfamily. 99.7 3.3E-16 7.2E-21 88.1 8.6 58 13-70 1-59 (161)
55 cd04176 Rap2 Rap2 subgroup. T 99.7 2.2E-16 4.7E-21 88.5 7.6 58 12-70 1-59 (163)
56 cd04143 Rhes_like Rhes_like su 99.7 1.8E-16 4E-21 95.1 7.7 57 13-70 1-58 (247)
57 cd04125 RabA_like RabA-like su 99.7 3.3E-16 7.2E-21 89.9 8.4 58 13-70 1-59 (188)
58 cd01864 Rab19 Rab19 subfamily. 99.7 4.3E-16 9.4E-21 87.6 8.7 60 11-70 2-62 (165)
59 cd01869 Rab1_Ypt1 Rab1/Ypt1 su 99.7 4.4E-16 9.6E-21 87.5 8.7 59 12-70 2-61 (166)
60 cd04144 Ras2 Ras2 subfamily. 99.7 1.6E-16 3.4E-21 91.6 6.9 57 14-70 1-57 (190)
61 cd04115 Rab33B_Rab33A Rab33B/R 99.7 4.3E-16 9.3E-21 88.2 8.5 59 12-70 2-61 (170)
62 PLN03108 Rab family protein; P 99.7 5E-16 1.1E-20 91.0 9.0 62 9-70 3-65 (210)
63 cd01870 RhoA_like RhoA-like su 99.7 2.7E-16 5.8E-21 89.0 7.5 59 12-70 1-59 (175)
64 cd04111 Rab39 Rab39 subfamily. 99.7 5.4E-16 1.2E-20 91.0 8.4 59 12-70 2-62 (211)
65 cd04106 Rab23_lke Rab23-like s 99.7 6.8E-16 1.5E-20 86.2 8.3 58 13-70 1-61 (162)
66 cd04140 ARHI_like ARHI subfami 99.7 5.2E-16 1.1E-20 87.4 7.8 58 13-70 2-59 (165)
67 cd01868 Rab11_like Rab11-like. 99.7 9.1E-16 2E-20 86.1 8.7 60 11-70 2-62 (165)
68 cd04103 Centaurin_gamma Centau 99.7 5.1E-16 1.1E-20 87.6 7.6 56 13-70 1-57 (158)
69 PTZ00132 GTP-binding nuclear p 99.7 1.1E-15 2.3E-20 89.6 8.9 64 7-70 4-68 (215)
70 smart00173 RAS Ras subfamily o 99.7 5.9E-16 1.3E-20 86.7 7.5 58 13-70 1-58 (164)
71 KOG0088|consensus 99.7 5.6E-17 1.2E-21 92.1 3.1 64 7-70 8-72 (218)
72 cd04130 Wrch_1 Wrch-1 subfamil 99.7 7.5E-16 1.6E-20 87.4 7.7 57 13-70 1-58 (173)
73 cd01866 Rab2 Rab2 subfamily. 99.7 1.6E-15 3.5E-20 85.7 8.8 60 11-70 3-63 (168)
74 cd04113 Rab4 Rab4 subfamily. 99.7 1.3E-15 2.9E-20 85.1 8.3 58 13-70 1-59 (161)
75 cd04101 RabL4 RabL4 (Rab-like4 99.7 1.3E-15 2.9E-20 85.2 8.3 58 13-70 1-62 (164)
76 cd01860 Rab5_related Rab5-rela 99.6 2.1E-15 4.5E-20 84.3 8.4 59 12-70 1-60 (163)
77 cd04112 Rab26 Rab26 subfamily. 99.6 1.6E-15 3.6E-20 87.4 8.2 58 13-70 1-60 (191)
78 cd04145 M_R_Ras_like M-Ras/R-R 99.6 1.7E-15 3.6E-20 84.7 8.0 59 12-70 2-60 (164)
79 cd04135 Tc10 TC10 subfamily. 99.6 1.5E-15 3.2E-20 85.8 7.7 57 13-70 1-58 (174)
80 KOG0081|consensus 99.6 5.4E-18 1.2E-22 96.3 -2.6 62 9-70 6-77 (219)
81 cd01873 RhoBTB RhoBTB subfamil 99.6 1.4E-15 3.1E-20 88.5 7.2 59 12-70 2-76 (195)
82 smart00174 RHO Rho (Ras homolo 99.6 1.5E-15 3.3E-20 85.8 7.0 56 15-70 1-56 (174)
83 cd04177 RSR1 RSR1 subgroup. R 99.6 2.3E-15 5E-20 85.0 7.7 57 13-70 2-59 (168)
84 cd01861 Rab6 Rab6 subfamily. 99.6 3.8E-15 8.1E-20 83.1 8.4 58 13-70 1-59 (161)
85 cd04146 RERG_RasL11_like RERG/ 99.6 1.7E-15 3.6E-20 85.2 6.5 57 14-70 1-57 (165)
86 COG1100 GTPase SAR1 and relate 99.6 3.5E-15 7.5E-20 87.1 7.9 59 12-70 5-64 (219)
87 cd04148 RGK RGK subfamily. Th 99.6 3.7E-15 8E-20 88.0 7.9 58 13-70 1-60 (221)
88 cd01862 Rab7 Rab7 subfamily. 99.6 5.8E-15 1.2E-19 83.0 8.3 58 13-70 1-59 (172)
89 PLN03118 Rab family protein; P 99.6 1.2E-14 2.6E-19 85.0 9.0 61 9-70 11-72 (211)
90 smart00176 RAN Ran (Ras-relate 99.6 4.5E-15 9.8E-20 86.8 7.1 53 18-70 1-54 (200)
91 smart00175 RAB Rab subfamily o 99.6 1.4E-14 3.1E-19 80.8 8.4 58 13-70 1-59 (164)
92 cd04126 Rab20 Rab20 subfamily. 99.6 8E-15 1.7E-19 86.9 7.6 54 13-70 1-54 (220)
93 cd04139 RalA_RalB RalA/RalB su 99.6 9.9E-15 2.2E-19 81.3 7.3 58 13-70 1-58 (164)
94 cd01863 Rab18 Rab18 subfamily. 99.6 2.4E-14 5.2E-19 80.0 8.3 58 13-70 1-59 (161)
95 cd00157 Rho Rho (Ras homology) 99.6 2.4E-14 5.2E-19 80.4 7.8 58 13-70 1-58 (171)
96 cd04114 Rab30 Rab30 subfamily. 99.6 5.4E-14 1.2E-18 79.0 9.1 61 10-70 5-66 (169)
97 KOG0395|consensus 99.6 5.7E-15 1.2E-19 86.2 4.4 59 12-70 3-61 (196)
98 cd04123 Rab21 Rab21 subfamily. 99.6 6.5E-14 1.4E-18 77.8 8.4 58 13-70 1-59 (162)
99 cd01893 Miro1 Miro1 subfamily. 99.6 3.8E-14 8.2E-19 79.9 7.5 57 13-70 1-57 (166)
100 smart00177 ARF ARF-like small 99.5 3.3E-14 7.1E-19 81.1 7.3 57 10-70 11-67 (175)
101 KOG0083|consensus 99.5 3.1E-16 6.7E-21 87.1 -1.1 54 17-70 2-57 (192)
102 cd04149 Arf6 Arf6 subfamily. 99.5 3.3E-14 7.1E-19 80.7 7.0 57 10-70 7-63 (168)
103 PTZ00133 ADP-ribosylation fact 99.5 3.8E-14 8.3E-19 81.4 7.2 57 10-70 15-71 (182)
104 cd04150 Arf1_5_like Arf1-Arf5- 99.5 3.8E-14 8.2E-19 79.7 7.0 54 13-70 1-54 (159)
105 cd00154 Rab Rab family. Rab G 99.5 8.6E-14 1.9E-18 76.6 8.3 58 13-70 1-59 (159)
106 cd04152 Arl4_Arl7 Arl4/Arl7 su 99.5 4.8E-14 1E-18 80.9 7.5 58 12-70 3-62 (183)
107 cd04162 Arl9_Arfrp2_like Arl9/ 99.5 3E-14 6.6E-19 80.5 6.5 53 15-70 2-54 (164)
108 cd04129 Rho2 Rho2 subfamily. 99.5 6.4E-14 1.4E-18 80.6 7.8 58 13-70 2-59 (187)
109 cd04137 RheB Rheb (Ras Homolog 99.5 7.9E-14 1.7E-18 79.3 7.2 58 13-70 2-59 (180)
110 PLN00223 ADP-ribosylation fact 99.5 1E-13 2.2E-18 79.7 7.3 57 10-70 15-71 (181)
111 cd04147 Ras_dva Ras-dva subfam 99.5 9.4E-14 2E-18 80.5 6.9 56 14-70 1-57 (198)
112 TIGR00231 small_GTP small GTP- 99.5 3.5E-13 7.6E-18 73.7 8.4 58 13-70 2-60 (161)
113 cd00876 Ras Ras family. The R 99.5 2.9E-13 6.4E-18 75.0 7.0 56 14-70 1-57 (160)
114 cd04158 ARD1 ARD1 subfamily. 99.5 2.8E-13 6E-18 76.7 7.0 53 14-70 1-53 (169)
115 cd04156 ARLTS1 ARLTS1 subfamil 99.5 4.5E-13 9.7E-18 74.7 7.0 54 14-70 1-54 (160)
116 cd04154 Arl2 Arl2 subfamily. 99.5 5.6E-13 1.2E-17 75.6 7.2 57 10-70 12-68 (173)
117 cd04157 Arl6 Arl6 subfamily. 99.4 3.2E-13 7E-18 75.2 6.1 54 14-70 1-55 (162)
118 cd04161 Arl2l1_Arl13_like Arl2 99.4 1.2E-12 2.5E-17 74.2 7.3 53 14-70 1-53 (167)
119 cd04159 Arl10_like Arl10-like 99.4 1.3E-12 2.9E-17 71.9 7.1 54 14-70 1-54 (159)
120 KOG4252|consensus 99.4 6.8E-15 1.5E-19 85.1 -2.5 60 11-70 19-79 (246)
121 PF08477 Miro: Miro-like prote 99.4 3.2E-12 6.9E-17 68.5 7.8 57 14-70 1-60 (119)
122 cd04153 Arl5_Arl8 Arl5/Arl8 su 99.4 1.5E-12 3.3E-17 74.1 6.7 56 11-70 14-69 (174)
123 cd04151 Arl1 Arl1 subfamily. 99.4 2.5E-12 5.4E-17 71.9 6.6 53 14-70 1-53 (158)
124 cd01850 CDC_Septin CDC/Septin. 99.4 1.1E-11 2.4E-16 75.6 8.8 59 11-69 3-72 (276)
125 cd04171 SelB SelB subfamily. 99.4 4.5E-12 9.7E-17 70.6 6.6 57 14-70 2-61 (164)
126 KOG0096|consensus 99.3 3E-12 6.5E-17 74.4 5.7 61 10-70 8-69 (216)
127 PRK04213 GTP-binding protein; 99.3 6.1E-12 1.3E-16 72.8 6.7 55 10-69 7-61 (201)
128 TIGR03598 GTPase_YsxC ribosome 99.3 9E-12 2E-16 71.2 7.3 62 6-69 12-73 (179)
129 PRK00454 engB GTP-binding prot 99.3 9.7E-12 2.1E-16 71.4 7.2 59 9-69 21-79 (196)
130 cd00878 Arf_Arl Arf (ADP-ribos 99.3 7.3E-12 1.6E-16 69.7 6.4 53 14-70 1-53 (158)
131 cd00879 Sar1 Sar1 subfamily. 99.3 1.3E-11 2.7E-16 70.8 7.5 57 10-70 17-73 (190)
132 cd04160 Arfrp1 Arfrp1 subfamil 99.3 7.8E-12 1.7E-16 70.1 6.4 54 14-70 1-60 (167)
133 smart00178 SAR Sar1p-like memb 99.3 1.3E-11 2.8E-16 71.0 7.2 58 9-70 14-71 (184)
134 cd01897 NOG NOG1 is a nucleola 99.3 1.5E-11 3.2E-16 69.0 7.1 54 14-70 2-57 (168)
135 cd01878 HflX HflX subfamily. 99.3 1.6E-11 3.5E-16 71.2 6.3 59 10-70 39-99 (204)
136 TIGR02528 EutP ethanolamine ut 99.3 6.2E-12 1.3E-16 69.1 4.2 44 14-70 2-45 (142)
137 KOG1673|consensus 99.3 3.5E-12 7.6E-17 72.5 3.1 63 8-70 16-79 (205)
138 cd01891 TypA_BipA TypA (tyrosi 99.3 1.7E-11 3.7E-16 70.8 5.7 58 13-70 3-75 (194)
139 cd04155 Arl3 Arl3 subfamily. 99.3 6.7E-11 1.5E-15 66.7 7.7 57 10-70 12-68 (173)
140 cd01887 IF2_eIF5B IF2/eIF5B (i 99.2 4.9E-11 1.1E-15 66.7 6.7 57 14-70 2-60 (168)
141 PF00025 Arf: ADP-ribosylation 99.2 5.4E-11 1.2E-15 68.1 6.4 58 9-70 11-68 (175)
142 cd01890 LepA LepA subfamily. 99.2 8.8E-11 1.9E-15 66.5 6.8 57 14-70 2-77 (179)
143 cd01879 FeoB Ferrous iron tran 99.2 4.5E-11 9.7E-16 66.2 5.4 53 17-70 1-53 (158)
144 TIGR00450 mnmE_trmE_thdF tRNA 99.2 1.4E-10 3.1E-15 74.6 8.0 58 11-70 202-261 (442)
145 TIGR03156 GTP_HflX GTP-binding 99.2 9E-11 2E-15 73.7 6.6 58 11-70 188-247 (351)
146 PRK15494 era GTPase Era; Provi 99.2 1.7E-10 3.7E-15 72.1 7.7 58 10-70 50-110 (339)
147 KOG0073|consensus 99.2 9.9E-11 2.1E-15 66.8 5.9 57 10-70 14-70 (185)
148 cd04105 SR_beta Signal recogni 99.2 1.6E-10 3.4E-15 67.6 6.5 56 14-70 2-58 (203)
149 cd04164 trmE TrmE (MnmE, ThdF, 99.1 4.2E-10 9E-15 62.0 7.5 56 13-69 2-58 (157)
150 cd01876 YihA_EngB The YihA (En 99.1 2.2E-10 4.9E-15 63.5 6.3 54 14-69 1-54 (170)
151 cd04163 Era Era subfamily. Er 99.1 4.1E-10 9E-15 62.2 7.2 58 12-70 3-61 (168)
152 KOG0070|consensus 99.1 6.1E-11 1.3E-15 68.3 3.7 58 9-70 14-71 (181)
153 cd01898 Obg Obg subfamily. Th 99.1 2.1E-10 4.5E-15 64.4 5.9 55 14-70 2-58 (170)
154 PRK03003 GTP-binding protein D 99.1 3.7E-10 7.9E-15 73.1 7.4 58 11-69 210-268 (472)
155 cd01889 SelB_euk SelB subfamil 99.1 3.7E-10 8.1E-15 65.1 5.7 58 13-70 1-78 (192)
156 PRK05291 trmE tRNA modificatio 99.1 8.4E-10 1.8E-14 71.2 7.5 58 11-70 214-273 (449)
157 PRK00093 GTP-binding protein D 99.1 1E-09 2.3E-14 70.0 7.2 56 13-70 2-59 (435)
158 PRK03003 GTP-binding protein D 99.0 1.8E-09 4E-14 69.9 7.9 59 11-70 37-96 (472)
159 cd01895 EngA2 EngA2 subfamily. 99.0 1.8E-09 4E-14 60.1 6.9 58 12-70 2-60 (174)
160 cd01857 HSR1_MMR1 HSR1/MMR1. 99.0 1.3E-09 2.9E-14 60.4 6.2 53 14-69 85-137 (141)
161 PRK11058 GTPase HflX; Provisio 99.0 9.8E-10 2.1E-14 70.5 6.1 58 13-70 198-255 (426)
162 KOG4423|consensus 99.0 6.6E-13 1.4E-17 77.1 -7.6 61 10-70 23-85 (229)
163 cd01859 MJ1464 MJ1464. This f 99.0 3E-09 6.5E-14 59.6 7.1 56 11-69 100-155 (156)
164 cd04104 p47_IIGP_like p47 (47- 99.0 9.7E-10 2.1E-14 63.9 5.2 58 13-70 2-62 (197)
165 KOG0071|consensus 99.0 1.6E-09 3.4E-14 60.9 5.5 57 10-70 15-71 (180)
166 cd00882 Ras_like_GTPase Ras-li 99.0 2.1E-09 4.6E-14 57.8 5.9 53 17-70 1-55 (157)
167 KOG0074|consensus 99.0 3.1E-09 6.8E-14 59.8 6.5 60 8-70 13-72 (185)
168 cd01856 YlqF YlqF. Proteins o 99.0 3.1E-09 6.7E-14 60.6 6.6 58 10-70 113-170 (171)
169 TIGR00436 era GTP-binding prot 99.0 2.5E-09 5.3E-14 64.9 6.4 55 14-70 2-58 (270)
170 KOG3883|consensus 99.0 3E-09 6.5E-14 60.5 6.2 59 11-69 8-69 (198)
171 cd01881 Obg_like The Obg-like 99.0 1.1E-09 2.4E-14 61.5 4.4 52 17-70 1-54 (176)
172 PF01926 MMR_HSR1: 50S ribosom 98.9 1.2E-08 2.7E-13 54.5 7.8 54 14-69 1-56 (116)
173 TIGR03594 GTPase_EngA ribosome 98.9 4.5E-09 9.7E-14 66.9 7.0 54 14-69 1-56 (429)
174 cd01894 EngA1 EngA1 subfamily. 98.9 2.9E-09 6.2E-14 58.7 5.3 53 16-70 1-55 (157)
175 PF00735 Septin: Septin; Inte 98.9 1.3E-08 2.7E-13 62.5 8.3 59 11-69 3-72 (281)
176 TIGR00487 IF-2 translation ini 98.9 6.2E-09 1.4E-13 69.1 7.3 60 11-70 86-145 (587)
177 cd01896 DRG The developmentall 98.9 9.7E-09 2.1E-13 61.3 7.5 55 14-70 2-57 (233)
178 PF02421 FeoB_N: Ferrous iron 98.9 7.8E-09 1.7E-13 58.7 6.7 57 13-70 1-57 (156)
179 TIGR00991 3a0901s02IAP34 GTP-b 98.9 1E-08 2.2E-13 63.7 7.5 60 8-69 34-95 (313)
180 PRK09518 bifunctional cytidyla 98.9 6.7E-09 1.4E-13 70.1 7.2 57 11-69 449-507 (712)
181 TIGR03594 GTPase_EngA ribosome 98.9 1.3E-08 2.9E-13 64.8 7.7 57 11-69 171-229 (429)
182 PRK00089 era GTPase Era; Revie 98.9 1.3E-08 2.8E-13 62.1 7.2 58 11-70 4-63 (292)
183 TIGR01393 lepA GTP-binding pro 98.9 1.3E-08 2.8E-13 67.7 7.5 59 12-70 3-80 (595)
184 cd01853 Toc34_like Toc34-like 98.9 2E-08 4.4E-13 60.6 7.7 59 9-69 28-88 (249)
185 cd01899 Ygr210 Ygr210 subfamil 98.9 4.9E-09 1.1E-13 65.2 4.9 56 15-70 1-79 (318)
186 COG0486 ThdF Predicted GTPase 98.9 1.6E-08 3.5E-13 65.2 7.1 57 11-69 216-274 (454)
187 PRK09518 bifunctional cytidyla 98.8 2.2E-08 4.8E-13 67.6 7.9 61 9-70 272-333 (712)
188 cd00881 GTP_translation_factor 98.8 2.8E-08 6.1E-13 56.3 7.2 56 14-70 1-72 (189)
189 smart00010 small_GTPase Small 98.8 7.3E-09 1.6E-13 55.3 4.5 34 13-46 1-35 (124)
190 TIGR00475 selB selenocysteine- 98.8 2.1E-08 4.5E-13 66.6 7.2 57 13-70 1-60 (581)
191 PRK00093 GTP-binding protein D 98.8 3.9E-08 8.4E-13 62.9 8.0 58 11-69 172-230 (435)
192 cd04167 Snu114p Snu114p subfam 98.8 2.2E-08 4.7E-13 58.8 5.7 57 14-70 2-81 (213)
193 cd00880 Era_like Era (E. coli 98.8 1.9E-08 4.2E-13 54.7 5.1 54 17-70 1-55 (163)
194 TIGR02729 Obg_CgtA Obg family 98.8 5.1E-08 1.1E-12 60.9 7.3 58 11-70 156-215 (329)
195 PRK09602 translation-associate 98.8 4.9E-08 1.1E-12 62.3 7.3 57 13-69 2-81 (396)
196 TIGR00437 feoB ferrous iron tr 98.8 4.1E-08 8.8E-13 65.3 6.7 51 19-70 1-51 (591)
197 PRK09554 feoB ferrous iron tra 98.7 8E-08 1.7E-12 65.6 8.0 58 12-70 3-60 (772)
198 PRK05306 infB translation init 98.7 1.1E-07 2.4E-12 65.0 7.6 59 11-70 289-347 (787)
199 CHL00189 infB translation init 98.7 8.5E-08 1.8E-12 65.2 6.9 60 11-70 243-305 (742)
200 PF04670 Gtr1_RagA: Gtr1/RagA 98.7 5.5E-08 1.2E-12 58.3 5.3 55 14-70 1-58 (232)
201 COG3596 Predicted GTPase [Gene 98.7 1.7E-08 3.7E-13 61.8 3.1 61 9-69 36-96 (296)
202 PRK12299 obgE GTPase CgtA; Rev 98.7 1.4E-07 3E-12 59.2 7.0 58 11-70 157-216 (335)
203 PRK10218 GTP-binding protein; 98.7 1.9E-07 4.1E-12 62.4 7.7 59 12-70 5-78 (607)
204 PRK12296 obgE GTPase CgtA; Rev 98.6 2.1E-07 4.5E-12 61.0 7.3 56 11-69 158-215 (500)
205 COG5019 CDC3 Septin family pro 98.6 2E-07 4.3E-12 58.9 6.6 63 7-69 18-91 (373)
206 PRK15467 ethanolamine utilizat 98.6 5.3E-08 1.2E-12 54.9 3.8 45 14-70 3-47 (158)
207 PRK12297 obgE GTPase CgtA; Rev 98.6 2.4E-07 5.1E-12 59.7 7.0 57 12-70 158-216 (424)
208 cd01852 AIG1 AIG1 (avrRpt2-ind 98.6 3.3E-07 7.1E-12 53.2 6.9 56 13-69 1-58 (196)
209 TIGR03596 GTPase_YlqF ribosome 98.6 3.9E-07 8.5E-12 55.6 7.1 57 11-70 117-173 (276)
210 cd01858 NGP_1 NGP-1. Autoanti 98.6 5.6E-07 1.2E-11 50.6 7.1 56 11-69 101-156 (157)
211 PF04548 AIG1: AIG1 family; I 98.6 7.9E-07 1.7E-11 52.4 7.7 56 13-69 1-58 (212)
212 PRK09563 rbgA GTPase YlqF; Rev 98.5 8.3E-07 1.8E-11 54.5 7.7 57 11-70 120-176 (287)
213 KOG1707|consensus 98.5 1.3E-07 2.8E-12 62.6 4.1 58 10-68 7-64 (625)
214 KOG2655|consensus 98.5 5.9E-07 1.3E-11 56.9 6.7 63 8-70 17-89 (366)
215 cd01855 YqeH YqeH. YqeH is an 98.5 6E-07 1.3E-11 51.8 5.9 25 12-36 127-151 (190)
216 KOG0075|consensus 98.5 4.4E-08 9.6E-13 55.5 1.1 57 11-70 19-75 (186)
217 KOG1191|consensus 98.5 5.1E-07 1.1E-11 58.9 6.0 57 11-69 267-325 (531)
218 cd04168 TetM_like Tet(M)-like 98.5 1.1E-06 2.4E-11 52.7 6.9 21 14-34 1-21 (237)
219 PRK12317 elongation factor 1-a 98.5 9.5E-07 2.1E-11 56.6 6.9 25 9-33 3-27 (425)
220 cd04178 Nucleostemin_like Nucl 98.5 1.2E-06 2.5E-11 50.4 6.6 54 12-69 117-171 (172)
221 PTZ00099 rab6; Provisional 98.4 6.4E-07 1.4E-11 51.5 5.3 37 34-70 2-39 (176)
222 PRK12298 obgE GTPase CgtA; Rev 98.4 1.3E-06 2.7E-11 55.9 7.0 58 12-70 159-217 (390)
223 TIGR00491 aIF-2 translation in 98.4 6.7E-07 1.4E-11 59.7 5.9 58 13-70 5-79 (590)
224 TIGR00483 EF-1_alpha translati 98.4 1.3E-06 2.9E-11 56.0 7.0 26 9-34 4-29 (426)
225 PRK05433 GTP-binding protein L 98.4 1.2E-06 2.6E-11 58.5 7.0 60 11-70 6-84 (600)
226 cd04169 RF3 RF3 subfamily. Pe 98.4 1.9E-06 4E-11 52.6 7.0 22 13-34 3-24 (267)
227 COG1160 Predicted GTPases [Gen 98.4 1E-06 2.2E-11 56.9 6.1 58 11-69 177-235 (444)
228 KOG1423|consensus 98.4 2.1E-06 4.6E-11 53.7 7.1 60 9-70 69-130 (379)
229 TIGR00490 aEF-2 translation el 98.4 1E-06 2.3E-11 59.8 6.2 61 10-70 17-96 (720)
230 PTZ00258 GTP-binding protein; 98.4 1.7E-06 3.7E-11 55.3 6.4 28 10-37 19-46 (390)
231 PRK09601 GTP-binding protein Y 98.4 2.2E-06 4.7E-11 54.5 6.7 24 13-36 3-26 (364)
232 KOG1547|consensus 98.4 1.3E-06 2.7E-11 53.3 5.3 63 7-69 41-113 (336)
233 cd01900 YchF YchF subfamily. 98.4 1.5E-06 3.3E-11 53.3 5.7 23 15-37 1-23 (274)
234 cd04170 EF-G_bact Elongation f 98.4 1.4E-06 3E-11 52.8 5.5 21 14-34 1-21 (268)
235 KOG3859|consensus 98.3 1.2E-06 2.7E-11 54.3 5.0 63 7-69 37-104 (406)
236 cd04166 CysN_ATPS CysN_ATPS su 98.3 2.7E-06 5.8E-11 49.9 6.1 21 14-34 1-21 (208)
237 COG1161 Predicted GTPases [Gen 98.3 3.6E-06 7.7E-11 52.6 6.5 55 11-69 131-186 (322)
238 COG1159 Era GTPase [General fu 98.3 4.2E-06 9.1E-11 51.8 6.3 59 10-69 4-63 (298)
239 TIGR00993 3a0901s04IAP86 chlor 98.3 5.6E-06 1.2E-10 56.2 7.3 57 11-69 117-175 (763)
240 COG1160 Predicted GTPases [Gen 98.3 2.7E-06 5.8E-11 55.1 5.5 55 13-69 4-60 (444)
241 PF10662 PduV-EutP: Ethanolami 98.3 2E-06 4.3E-11 48.3 4.4 44 13-58 2-45 (143)
242 PRK10512 selenocysteinyl-tRNA- 98.3 5.3E-06 1.1E-10 55.7 7.0 54 14-69 2-60 (614)
243 COG0218 Predicted GTPase [Gene 98.2 7.5E-06 1.6E-10 48.2 6.6 61 7-69 19-79 (200)
244 TIGR01394 TypA_BipA GTP-bindin 98.2 4E-06 8.8E-11 56.1 6.1 57 14-70 3-74 (594)
245 TIGR00485 EF-Tu translation el 98.2 6.4E-06 1.4E-10 52.5 6.7 27 7-33 7-33 (394)
246 COG1084 Predicted GTPase [Gene 98.2 9.6E-06 2.1E-10 50.9 7.1 59 11-71 167-226 (346)
247 cd01849 YlqF_related_GTPase Yl 98.2 9.5E-06 2.1E-10 45.5 6.0 55 11-69 99-154 (155)
248 PRK04004 translation initiatio 98.2 9E-06 1.9E-10 54.4 6.5 25 13-37 7-31 (586)
249 PRK04000 translation initiatio 98.2 5.4E-06 1.2E-10 53.3 5.0 30 5-34 2-31 (411)
250 PRK13351 elongation factor G; 98.1 6E-06 1.3E-10 55.8 5.3 58 10-70 6-83 (687)
251 cd01886 EF-G Elongation factor 98.1 2.1E-05 4.5E-10 48.1 7.1 21 14-34 1-21 (270)
252 PF09439 SRPRB: Signal recogni 98.1 1.2E-06 2.6E-11 50.9 1.3 57 12-70 3-59 (181)
253 CHL00071 tufA elongation facto 98.1 2.6E-05 5.6E-10 50.1 7.4 34 1-34 1-34 (409)
254 PF03193 DUF258: Protein of un 98.1 4E-06 8.6E-11 48.0 3.2 23 13-35 36-58 (161)
255 COG0370 FeoB Fe2+ transport sy 98.1 2.5E-05 5.4E-10 52.7 7.3 57 12-70 3-60 (653)
256 PRK12735 elongation factor Tu; 98.1 2.5E-05 5.5E-10 49.9 7.0 29 6-34 6-34 (396)
257 TIGR00503 prfC peptide chain r 98.1 2.2E-05 4.7E-10 52.0 6.9 61 10-70 9-90 (527)
258 PRK00741 prfC peptide chain re 98.1 1E-05 2.3E-10 53.5 5.4 61 10-70 8-89 (526)
259 cd01888 eIF2_gamma eIF2-gamma 98.1 1.8E-05 3.9E-10 46.2 5.6 22 13-34 1-22 (203)
260 PRK12288 GTPase RsgA; Reviewed 98.0 7.8E-06 1.7E-10 51.6 4.0 22 15-36 208-229 (347)
261 cd01883 EF1_alpha Eukaryotic e 98.0 2.7E-05 5.8E-10 46.0 5.9 20 14-33 1-20 (219)
262 cd01851 GBP Guanylate-binding 98.0 1.9E-05 4.2E-10 47.0 5.4 60 11-70 6-70 (224)
263 PF05049 IIGP: Interferon-indu 98.0 9E-06 1.9E-10 51.9 4.1 25 10-34 33-57 (376)
264 PRK12289 GTPase RsgA; Reviewed 98.0 2.2E-05 4.8E-10 49.7 5.4 21 15-35 175-195 (352)
265 TIGR03597 GTPase_YqeH ribosome 98.0 3.3E-05 7.2E-10 48.9 5.8 23 13-35 155-177 (360)
266 TIGR00157 ribosome small subun 98.0 3.9E-05 8.5E-10 46.3 5.8 23 13-35 121-143 (245)
267 PRK12736 elongation factor Tu; 97.9 5.3E-05 1.1E-09 48.4 6.7 28 7-34 7-34 (394)
268 cd01854 YjeQ_engC YjeQ/EngC. 97.9 1.4E-05 2.9E-10 49.2 3.7 25 13-37 162-186 (287)
269 PLN03126 Elongation factor Tu; 97.9 7.5E-05 1.6E-09 49.0 7.3 26 9-34 78-103 (478)
270 COG2229 Predicted GTPase [Gene 97.9 5.2E-05 1.1E-09 44.2 5.8 61 8-70 6-78 (187)
271 PRK13796 GTPase YqeH; Provisio 97.9 3.5E-05 7.7E-10 48.9 5.5 24 12-35 160-183 (365)
272 PF00009 GTP_EFTU: Elongation 97.9 1.2E-05 2.6E-10 46.3 3.2 24 12-35 3-26 (188)
273 TIGR00484 EF-G translation elo 97.9 5.6E-05 1.2E-09 51.3 6.7 60 10-70 8-85 (689)
274 cd01884 EF_Tu EF-Tu subfamily. 97.9 7.9E-05 1.7E-09 43.6 6.2 23 12-34 2-24 (195)
275 COG1163 DRG Predicted GTPase [ 97.9 7.4E-05 1.6E-09 47.1 6.2 60 8-69 59-119 (365)
276 PRK00098 GTPase RsgA; Reviewed 97.9 2.1E-05 4.6E-10 48.6 3.8 24 13-36 165-188 (298)
277 cd01885 EF2 EF2 (for archaea a 97.9 6.6E-05 1.4E-09 44.8 5.7 21 14-34 2-22 (222)
278 PF03266 NTPase_1: NTPase; In 97.9 4.1E-05 8.8E-10 44.0 4.6 51 14-67 1-52 (168)
279 TIGR03680 eif2g_arch translati 97.8 6.6E-05 1.4E-09 48.2 5.5 24 11-34 3-26 (406)
280 PRK00049 elongation factor Tu; 97.8 0.00015 3.2E-09 46.5 7.0 28 7-34 7-34 (396)
281 PRK14738 gmk guanylate kinase; 97.8 4.7E-05 1E-09 44.8 4.4 35 1-35 1-36 (206)
282 PF13207 AAA_17: AAA domain; P 97.8 4.6E-05 1E-09 40.7 3.6 22 14-35 1-22 (121)
283 PRK12739 elongation factor G; 97.7 0.00023 5E-09 48.5 7.3 25 10-34 6-30 (691)
284 PF00350 Dynamin_N: Dynamin fa 97.7 0.00041 8.9E-09 38.9 7.2 33 15-47 1-34 (168)
285 COG1618 Predicted nucleotide k 97.7 0.00023 5E-09 41.1 6.0 56 10-68 3-59 (179)
286 COG0563 Adk Adenylate kinase a 97.7 4.3E-05 9.3E-10 44.3 3.0 23 13-35 1-23 (178)
287 PLN03127 Elongation factor Tu; 97.7 0.00028 6.1E-09 46.0 7.0 26 8-33 57-82 (447)
288 cd04165 GTPBP1_like GTPBP1-lik 97.7 5.7E-05 1.2E-09 45.0 3.4 26 14-39 1-26 (224)
289 PRK08118 topology modulation p 97.7 6E-05 1.3E-09 43.1 3.3 22 13-34 2-23 (167)
290 TIGR00092 GTP-binding protein 97.7 0.00026 5.6E-09 45.3 6.3 25 13-37 3-27 (368)
291 TIGR02034 CysN sulfate adenyly 97.7 0.00016 3.4E-09 46.5 5.4 21 13-33 1-21 (406)
292 PRK07261 topology modulation p 97.6 6.7E-05 1.4E-09 43.0 3.3 21 14-34 2-22 (171)
293 PRK05506 bifunctional sulfate 97.6 0.00026 5.6E-09 47.8 6.2 25 10-34 22-46 (632)
294 KOG0705|consensus 97.6 4.2E-05 9E-10 51.2 2.3 61 9-70 27-87 (749)
295 PF13671 AAA_33: AAA domain; P 97.6 8.5E-05 1.8E-09 40.7 3.3 19 15-33 2-20 (143)
296 PTZ00141 elongation factor 1- 97.6 0.00046 9.9E-09 45.0 7.0 26 9-34 4-29 (446)
297 COG1162 Predicted GTPases [Gen 97.6 6.5E-05 1.4E-09 46.8 2.9 21 14-34 166-186 (301)
298 PF07728 AAA_5: AAA domain (dy 97.6 9.7E-05 2.1E-09 40.5 3.3 20 15-34 2-21 (139)
299 PRK05124 cysN sulfate adenylyl 97.6 0.00038 8.2E-09 45.7 6.5 26 9-34 24-49 (474)
300 KOG1491|consensus 97.6 0.00036 7.8E-09 44.4 6.0 63 7-69 15-93 (391)
301 cd01882 BMS1 Bms1. Bms1 is an 97.6 0.00035 7.6E-09 41.6 5.7 56 11-70 38-93 (225)
302 PF00004 AAA: ATPase family as 97.5 0.00012 2.7E-09 39.2 3.2 21 15-35 1-21 (132)
303 PRK00007 elongation factor G; 97.5 0.00061 1.3E-08 46.5 6.9 60 10-70 8-85 (693)
304 PF13521 AAA_28: AAA domain; P 97.5 8.8E-05 1.9E-09 41.8 2.5 22 14-35 1-22 (163)
305 TIGR02836 spore_IV_A stage IV 97.5 0.0005 1.1E-08 45.0 6.1 26 10-35 15-40 (492)
306 KOG1707|consensus 97.5 0.00057 1.2E-08 45.9 6.3 52 7-58 420-471 (625)
307 KOG0072|consensus 97.5 2.2E-05 4.9E-10 44.5 -0.2 57 10-70 16-72 (182)
308 KOG0076|consensus 97.5 9.3E-05 2E-09 43.1 2.3 59 9-70 14-79 (197)
309 PF13191 AAA_16: AAA ATPase do 97.5 0.00014 3E-09 41.2 3.0 24 11-34 23-46 (185)
310 COG1116 TauB ABC-type nitrate/ 97.5 0.00013 2.9E-09 44.3 2.9 21 14-34 31-51 (248)
311 PF13401 AAA_22: AAA domain; P 97.5 0.00018 4E-09 38.7 3.3 24 13-36 5-28 (131)
312 KOG3886|consensus 97.4 5.1E-05 1.1E-09 46.1 1.0 59 12-70 4-63 (295)
313 PF05783 DLIC: Dynein light in 97.4 0.00068 1.5E-08 44.6 6.1 57 10-69 23-82 (472)
314 PF05729 NACHT: NACHT domain 97.4 0.00016 3.6E-09 40.0 2.9 21 15-35 3-23 (166)
315 PRK06217 hypothetical protein; 97.4 0.00022 4.7E-09 41.1 3.3 23 13-35 2-24 (183)
316 KOG2485|consensus 97.4 0.00051 1.1E-08 43.1 5.0 62 9-71 140-207 (335)
317 smart00382 AAA ATPases associa 97.4 0.00031 6.7E-09 37.2 3.7 26 13-38 3-28 (148)
318 TIGR00235 udk uridine kinase. 97.4 0.00032 6.9E-09 41.1 3.9 26 9-34 3-28 (207)
319 COG3839 MalK ABC-type sugar tr 97.3 0.00022 4.9E-09 45.1 2.9 22 15-36 32-53 (338)
320 KOG0077|consensus 97.3 0.00047 1E-08 40.0 3.8 36 10-46 18-53 (193)
321 PRK10078 ribose 1,5-bisphospho 97.3 0.00028 6.1E-09 40.7 3.0 22 14-35 4-25 (186)
322 TIGR02322 phosphon_PhnN phosph 97.3 0.00031 6.7E-09 40.0 3.1 22 14-35 3-24 (179)
323 cd02019 NK Nucleoside/nucleoti 97.3 0.0004 8.7E-09 34.2 3.1 21 15-35 2-22 (69)
324 cd00071 GMPK Guanosine monopho 97.3 0.00033 7.2E-09 38.8 3.1 21 15-35 2-22 (137)
325 PRK05480 uridine/cytidine kina 97.3 0.00045 9.8E-09 40.4 3.8 25 10-34 4-28 (209)
326 PRK12740 elongation factor G; 97.3 0.00059 1.3E-08 46.2 4.7 52 18-70 1-70 (668)
327 cd00009 AAA The AAA+ (ATPases 97.3 0.00035 7.5E-09 37.4 3.1 25 12-36 19-43 (151)
328 COG0012 Predicted GTPase, prob 97.3 0.0013 2.7E-08 42.2 5.9 26 12-37 2-27 (372)
329 PLN00043 elongation factor 1-a 97.3 0.0022 4.7E-08 41.9 7.0 25 10-34 5-29 (447)
330 PF00005 ABC_tran: ABC transpo 97.3 0.00043 9.2E-09 37.7 3.3 23 12-34 11-33 (137)
331 PF13238 AAA_18: AAA domain; P 97.3 0.00048 1E-08 36.8 3.4 21 15-35 1-21 (129)
332 PRK03839 putative kinase; Prov 97.2 0.00044 9.4E-09 39.5 3.2 22 14-35 2-23 (180)
333 TIGR00150 HI0065_YjeE ATPase, 97.2 0.0018 3.9E-08 36.0 5.5 23 13-35 23-45 (133)
334 PRK14737 gmk guanylate kinase; 97.2 0.00044 9.6E-09 40.2 3.1 23 13-35 5-27 (186)
335 COG1126 GlnQ ABC-type polar am 97.2 0.00055 1.2E-08 41.2 3.5 25 12-36 28-52 (240)
336 PLN00116 translation elongatio 97.2 0.00094 2E-08 46.5 5.1 27 8-34 15-41 (843)
337 TIGR03263 guanyl_kin guanylate 97.2 0.00042 9.1E-09 39.4 2.9 22 14-35 3-24 (180)
338 PRK10751 molybdopterin-guanine 97.2 0.00059 1.3E-08 39.5 3.5 22 13-34 7-28 (173)
339 PF13173 AAA_14: AAA domain 97.2 0.00043 9.3E-09 37.7 2.8 24 14-37 4-27 (128)
340 PRK14530 adenylate kinase; Pro 97.2 0.0005 1.1E-08 40.5 3.3 21 14-34 5-25 (215)
341 PRK14532 adenylate kinase; Pro 97.2 0.00051 1.1E-08 39.5 3.2 21 14-34 2-22 (188)
342 COG3842 PotA ABC-type spermidi 97.2 0.00055 1.2E-08 43.6 3.5 22 15-36 34-55 (352)
343 KOG1424|consensus 97.2 0.001 2.2E-08 44.2 4.7 55 12-69 314-368 (562)
344 PF01637 Arch_ATPase: Archaeal 97.2 0.0006 1.3E-08 39.6 3.4 25 12-36 20-44 (234)
345 PF03205 MobB: Molybdopterin g 97.2 0.00067 1.4E-08 37.9 3.4 21 14-34 2-22 (140)
346 PRK00300 gmk guanylate kinase; 97.1 0.00053 1.2E-08 39.8 3.0 24 12-35 5-28 (205)
347 TIGR00101 ureG urease accessor 97.1 0.00065 1.4E-08 39.9 3.4 23 13-35 2-24 (199)
348 PRK13695 putative NTPase; Prov 97.1 0.00063 1.4E-08 38.8 3.3 22 13-34 1-22 (174)
349 PRK14531 adenylate kinase; Pro 97.1 0.00065 1.4E-08 39.1 3.3 23 12-34 2-24 (183)
350 COG1117 PstB ABC-type phosphat 97.1 0.00043 9.4E-09 41.8 2.5 21 14-34 35-55 (253)
351 KOG3905|consensus 97.1 0.001 2.2E-08 42.5 4.2 56 11-69 51-109 (473)
352 TIGR01360 aden_kin_iso1 adenyl 97.1 0.00057 1.2E-08 38.9 2.9 21 13-33 4-24 (188)
353 COG1124 DppF ABC-type dipeptid 97.1 0.001 2.2E-08 40.5 4.0 23 12-34 33-55 (252)
354 PF04665 Pox_A32: Poxvirus A32 97.1 0.00063 1.4E-08 41.3 3.2 24 11-34 12-35 (241)
355 PRK02496 adk adenylate kinase; 97.1 0.00078 1.7E-08 38.6 3.4 22 13-34 2-23 (184)
356 cd00820 PEPCK_HprK Phosphoenol 97.1 0.00065 1.4E-08 36.5 2.8 21 13-33 16-36 (107)
357 KOG0090|consensus 97.1 0.00041 8.9E-09 41.6 2.1 56 10-69 36-91 (238)
358 PRK13949 shikimate kinase; Pro 97.1 0.00081 1.8E-08 38.5 3.3 21 14-34 3-23 (169)
359 cd01428 ADK Adenylate kinase ( 97.1 0.00068 1.5E-08 38.9 2.9 22 14-35 1-22 (194)
360 cd02023 UMPK Uridine monophosp 97.1 0.00073 1.6E-08 39.2 3.1 20 15-34 2-21 (198)
361 COG4525 TauB ABC-type taurine 97.1 0.00066 1.4E-08 40.7 2.8 22 13-34 32-53 (259)
362 COG0194 Gmk Guanylate kinase [ 97.1 0.00077 1.7E-08 39.6 3.0 24 13-36 5-28 (191)
363 COG1136 SalX ABC-type antimicr 97.0 0.00068 1.5E-08 40.8 2.9 21 14-34 33-53 (226)
364 PRK08233 hypothetical protein; 97.0 0.0008 1.7E-08 38.1 3.1 22 13-34 4-25 (182)
365 PHA00729 NTP-binding motif con 97.0 0.00098 2.1E-08 40.1 3.5 23 13-35 18-40 (226)
366 KOG3347|consensus 97.0 0.00061 1.3E-08 39.0 2.4 25 10-34 5-29 (176)
367 PTZ00088 adenylate kinase 1; P 97.0 0.001 2.2E-08 39.9 3.5 22 13-34 7-28 (229)
368 cd03238 ABC_UvrA The excision 97.0 0.00088 1.9E-08 38.7 3.1 24 10-33 19-42 (176)
369 COG3638 ABC-type phosphate/pho 97.0 0.00072 1.6E-08 41.2 2.8 21 14-34 32-52 (258)
370 PF12775 AAA_7: P-loop contain 97.0 0.0012 2.5E-08 40.6 3.8 25 12-36 33-57 (272)
371 TIGR01351 adk adenylate kinase 97.0 0.00081 1.8E-08 39.5 3.0 21 14-34 1-21 (210)
372 TIGR03015 pepcterm_ATPase puta 97.0 0.00086 1.9E-08 40.3 3.1 22 14-35 45-66 (269)
373 PF00910 RNA_helicase: RNA hel 97.0 0.00074 1.6E-08 35.8 2.5 20 15-34 1-20 (107)
374 TIGR01313 therm_gnt_kin carboh 97.0 0.0007 1.5E-08 38.0 2.6 21 15-35 1-21 (163)
375 TIGR01359 UMP_CMP_kin_fam UMP- 97.0 0.00096 2.1E-08 38.0 3.1 20 15-34 2-21 (183)
376 smart00053 DYNc Dynamin, GTPas 97.0 0.0015 3.3E-08 39.6 3.9 26 12-37 26-51 (240)
377 PLN02200 adenylate kinase fami 97.0 0.0016 3.4E-08 39.2 3.9 23 12-34 43-65 (234)
378 PTZ00416 elongation factor 2; 96.9 0.0028 6.1E-08 44.3 5.5 26 9-34 16-41 (836)
379 PRK06547 hypothetical protein; 96.9 0.0014 3.1E-08 37.7 3.5 26 9-34 12-37 (172)
380 PRK05057 aroK shikimate kinase 96.9 0.0013 2.8E-08 37.7 3.2 22 13-34 5-26 (172)
381 PRK07429 phosphoribulokinase; 96.9 0.0015 3.3E-08 41.1 3.8 25 9-33 5-29 (327)
382 PF13555 AAA_29: P-loop contai 96.9 0.0016 3.4E-08 31.8 3.0 21 14-34 25-45 (62)
383 cd03255 ABC_MJ0796_Lo1CDE_FtsE 96.9 0.0012 2.7E-08 38.7 3.1 23 13-35 31-53 (218)
384 KOG1486|consensus 96.9 0.0053 1.1E-07 38.2 5.8 59 9-69 59-118 (364)
385 PF00625 Guanylate_kin: Guanyl 96.9 0.0013 2.9E-08 37.7 3.2 20 15-34 5-24 (183)
386 smart00072 GuKc Guanylate kina 96.9 0.0014 3E-08 37.8 3.1 22 14-35 4-25 (184)
387 cd01120 RecA-like_NTPases RecA 96.9 0.0013 2.9E-08 36.1 2.9 21 15-35 2-22 (165)
388 PF07724 AAA_2: AAA domain (Cd 96.9 0.0019 4E-08 37.2 3.6 27 11-37 2-28 (171)
389 PRK06762 hypothetical protein; 96.9 0.0014 3.1E-08 36.9 3.1 22 14-35 4-25 (166)
390 PRK08099 bifunctional DNA-bind 96.9 0.0013 2.8E-08 42.5 3.2 28 8-35 215-242 (399)
391 cd02021 GntK Gluconate kinase 96.9 0.0015 3.3E-08 36.2 3.1 21 15-35 2-22 (150)
392 TIGR01526 nadR_NMN_Atrans nico 96.9 0.0014 3.1E-08 41.1 3.3 23 12-34 162-184 (325)
393 TIGR00960 3a0501s02 Type II (G 96.9 0.0014 3.1E-08 38.4 3.1 22 13-34 30-51 (216)
394 cd03264 ABC_drug_resistance_li 96.9 0.0012 2.6E-08 38.6 2.8 21 14-34 27-47 (211)
395 PRK00279 adk adenylate kinase; 96.8 0.0016 3.4E-08 38.4 3.2 21 14-34 2-22 (215)
396 cd01124 KaiC KaiC is a circadi 96.8 0.0015 3.2E-08 37.2 3.0 21 15-35 2-22 (187)
397 cd01128 rho_factor Transcripti 96.8 0.0016 3.5E-08 39.6 3.3 26 11-36 15-40 (249)
398 TIGR02315 ABC_phnC phosphonate 96.8 0.0015 3.2E-08 38.9 3.1 22 13-34 29-50 (243)
399 TIGR02881 spore_V_K stage V sp 96.8 0.0018 3.8E-08 39.3 3.5 24 11-34 41-64 (261)
400 cd03226 ABC_cobalt_CbiO_domain 96.8 0.0016 3.4E-08 38.0 3.1 23 13-35 27-49 (205)
401 COG1120 FepC ABC-type cobalami 96.8 0.0014 3E-08 40.2 2.9 22 13-34 29-50 (258)
402 TIGR02868 CydC thiol reductant 96.8 0.0018 3.9E-08 42.6 3.6 25 10-34 359-383 (529)
403 PRK13947 shikimate kinase; Pro 96.8 0.0018 3.9E-08 36.5 3.2 21 14-34 3-23 (171)
404 PRK14528 adenylate kinase; Pro 96.8 0.0018 3.9E-08 37.5 3.3 22 13-34 2-23 (186)
405 cd03225 ABC_cobalt_CbiO_domain 96.8 0.0017 3.6E-08 37.9 3.1 22 13-34 28-49 (211)
406 PRK00625 shikimate kinase; Pro 96.8 0.0019 4.1E-08 37.3 3.3 21 14-34 2-22 (173)
407 PF13479 AAA_24: AAA domain 96.8 0.0013 2.8E-08 38.9 2.6 21 12-32 3-23 (213)
408 cd03292 ABC_FtsE_transporter F 96.8 0.0018 3.8E-08 37.9 3.1 22 13-34 28-49 (214)
409 PF00448 SRP54: SRP54-type pro 96.8 0.0019 4.2E-08 37.9 3.3 20 14-33 3-22 (196)
410 cd03260 ABC_PstB_phosphate_tra 96.8 0.0019 4.1E-08 38.1 3.2 23 13-35 27-49 (227)
411 TIGR03420 DnaA_homol_Hda DnaA 96.8 0.0017 3.8E-08 38.0 3.1 25 11-35 37-61 (226)
412 TIGR00073 hypB hydrogenase acc 96.8 0.0015 3.2E-08 38.3 2.7 26 10-35 20-45 (207)
413 PRK13540 cytochrome c biogenes 96.8 0.0026 5.7E-08 37.0 3.8 24 12-35 27-50 (200)
414 PRK04040 adenylate kinase; Pro 96.8 0.0023 5E-08 37.3 3.5 23 13-35 3-25 (188)
415 TIGR03608 L_ocin_972_ABC putat 96.8 0.0026 5.6E-08 36.9 3.8 23 13-35 25-47 (206)
416 PF00485 PRK: Phosphoribulokin 96.8 0.0021 4.6E-08 37.3 3.4 20 15-34 2-21 (194)
417 cd03224 ABC_TM1139_LivF_branch 96.8 0.0018 3.8E-08 38.1 3.0 22 13-34 27-48 (222)
418 PRK00131 aroK shikimate kinase 96.8 0.0022 4.8E-08 36.0 3.3 22 13-34 5-26 (175)
419 cd03269 ABC_putative_ATPase Th 96.8 0.0019 4.1E-08 37.7 3.1 23 13-35 27-49 (210)
420 cd00227 CPT Chloramphenicol (C 96.8 0.0019 4.2E-08 36.8 3.1 22 14-35 4-25 (175)
421 TIGR01166 cbiO cobalt transpor 96.8 0.0017 3.7E-08 37.4 2.9 22 13-34 19-40 (190)
422 cd00464 SK Shikimate kinase (S 96.8 0.0019 4.1E-08 35.7 3.0 21 14-34 1-21 (154)
423 cd01131 PilT Pilus retraction 96.7 0.0019 4.2E-08 37.7 3.1 20 15-34 4-23 (198)
424 cd03261 ABC_Org_Solvent_Resist 96.7 0.0019 4.1E-08 38.4 3.1 22 13-34 27-48 (235)
425 TIGR02673 FtsE cell division A 96.7 0.0019 4.2E-08 37.7 3.1 22 13-34 29-50 (214)
426 cd01130 VirB11-like_ATPase Typ 96.7 0.0022 4.7E-08 37.1 3.2 23 12-34 25-47 (186)
427 cd03262 ABC_HisP_GlnQ_permease 96.7 0.002 4.3E-08 37.6 3.1 22 13-34 27-48 (213)
428 PRK14526 adenylate kinase; Pro 96.7 0.0022 4.8E-08 38.1 3.3 21 14-34 2-22 (211)
429 cd03266 ABC_NatA_sodium_export 96.7 0.002 4.4E-08 37.8 3.1 22 13-34 32-53 (218)
430 COG1936 Predicted nucleotide k 96.7 0.002 4.3E-08 37.5 2.9 21 13-33 1-21 (180)
431 cd03222 ABC_RNaseL_inhibitor T 96.7 0.0027 5.9E-08 36.7 3.5 23 12-34 25-47 (177)
432 cd02025 PanK Pantothenate kina 96.7 0.0019 4.1E-08 38.5 3.0 20 15-34 2-21 (220)
433 COG4619 ABC-type uncharacteriz 96.7 0.002 4.3E-08 37.9 2.9 24 11-34 28-51 (223)
434 cd03293 ABC_NrtD_SsuB_transpor 96.7 0.0021 4.5E-08 37.8 3.1 23 13-35 31-53 (220)
435 cd03257 ABC_NikE_OppD_transpor 96.7 0.0029 6.2E-08 37.3 3.7 23 13-35 32-54 (228)
436 cd03218 ABC_YhbG The ABC trans 96.7 0.0021 4.6E-08 38.0 3.1 23 13-35 27-49 (232)
437 PRK13541 cytochrome c biogenes 96.7 0.0031 6.8E-08 36.5 3.8 23 13-35 27-49 (195)
438 cd02027 APSK Adenosine 5'-phos 96.7 0.0023 5E-08 35.8 3.1 21 15-35 2-22 (149)
439 cd03259 ABC_Carb_Solutes_like 96.7 0.0022 4.7E-08 37.5 3.1 22 13-34 27-48 (213)
440 cd03256 ABC_PhnC_transporter A 96.7 0.0019 4.1E-08 38.4 2.9 22 13-34 28-49 (241)
441 PRK15177 Vi polysaccharide exp 96.7 0.0027 5.8E-08 37.5 3.5 24 12-35 13-36 (213)
442 COG2262 HflX GTPases [General 96.7 0.0074 1.6E-07 39.2 5.6 58 10-69 190-249 (411)
443 PRK11629 lolD lipoprotein tran 96.7 0.0022 4.8E-08 38.1 3.1 22 14-35 37-58 (233)
444 cd03216 ABC_Carb_Monos_I This 96.7 0.0034 7.4E-08 35.5 3.8 24 12-35 26-49 (163)
445 cd03265 ABC_DrrA DrrA is the A 96.7 0.0022 4.9E-08 37.7 3.1 22 13-34 27-48 (220)
446 TIGR02211 LolD_lipo_ex lipopro 96.7 0.0032 7E-08 37.0 3.8 23 13-35 32-54 (221)
447 PLN02674 adenylate kinase 96.7 0.0015 3.3E-08 39.7 2.4 23 12-34 31-53 (244)
448 TIGR00635 ruvB Holliday juncti 96.7 0.0021 4.5E-08 39.5 3.1 23 13-35 31-53 (305)
449 PRK05541 adenylylsulfate kinas 96.7 0.0024 5.2E-08 36.4 3.1 23 12-34 7-29 (176)
450 cd03116 MobB Molybdenum is an 96.7 0.0024 5.2E-08 36.4 3.1 21 14-34 3-23 (159)
451 COG0466 Lon ATP-dependent Lon 96.7 0.0015 3.2E-08 45.0 2.5 22 12-33 350-371 (782)
452 PRK11248 tauB taurine transpor 96.7 0.0023 4.9E-08 38.7 3.1 23 13-35 28-50 (255)
453 cd03263 ABC_subfamily_A The AB 96.7 0.0021 4.5E-08 37.7 2.9 22 14-35 30-51 (220)
454 PF05621 TniB: Bacterial TniB 96.7 0.0025 5.3E-08 39.9 3.3 26 12-37 61-86 (302)
455 cd03258 ABC_MetN_methionine_tr 96.7 0.0021 4.6E-08 38.1 2.9 22 13-34 32-53 (233)
456 cd03219 ABC_Mj1267_LivG_branch 96.7 0.0022 4.7E-08 38.1 2.9 22 13-34 27-48 (236)
457 PRK14529 adenylate kinase; Pro 96.7 0.0026 5.6E-08 38.2 3.2 21 14-34 2-22 (223)
458 cd02028 UMPK_like Uridine mono 96.7 0.0025 5.4E-08 36.8 3.1 20 15-34 2-21 (179)
459 PF06745 KaiC: KaiC; InterPro 96.7 0.0027 5.8E-08 37.5 3.3 23 13-35 20-42 (226)
460 cd01918 HprK_C HprK/P, the bif 96.7 0.0032 6.8E-08 35.7 3.4 25 12-36 14-38 (149)
461 PF03029 ATP_bind_1: Conserved 96.7 0.0019 4.1E-08 39.0 2.6 18 17-34 1-18 (238)
462 PRK11247 ssuB aliphatic sulfon 96.6 0.0025 5.3E-08 38.7 3.1 22 13-34 39-60 (257)
463 PRK10908 cell division protein 96.6 0.0036 7.8E-08 36.9 3.8 22 13-34 29-50 (222)
464 cd03301 ABC_MalK_N The N-termi 96.6 0.0033 7.1E-08 36.7 3.6 23 13-35 27-49 (213)
465 PRK09270 nucleoside triphospha 96.6 0.0034 7.4E-08 37.4 3.7 25 10-34 31-55 (229)
466 TIGR01978 sufC FeS assembly AT 96.6 0.0024 5.2E-08 38.0 3.0 23 13-35 27-49 (243)
467 PHA02530 pseT polynucleotide k 96.6 0.0024 5.2E-08 39.1 3.1 22 14-35 4-25 (300)
468 cd03235 ABC_Metallic_Cations A 96.6 0.0033 7.1E-08 36.8 3.6 22 13-34 26-47 (213)
469 COG4987 CydC ABC-type transpor 96.6 0.0033 7.2E-08 42.1 3.8 27 8-34 360-386 (573)
470 cd03268 ABC_BcrA_bacitracin_re 96.6 0.0033 7.1E-08 36.7 3.5 23 13-35 27-49 (208)
471 TIGR03410 urea_trans_UrtE urea 96.6 0.0025 5.3E-08 37.7 3.0 23 12-34 26-48 (230)
472 cd03229 ABC_Class3 This class 96.6 0.0027 5.9E-08 36.3 3.1 22 13-34 27-48 (178)
473 PRK08903 DnaA regulatory inact 96.6 0.0026 5.6E-08 37.6 3.1 23 13-35 43-65 (227)
474 PRK13539 cytochrome c biogenes 96.6 0.0039 8.5E-08 36.5 3.8 23 13-35 29-51 (207)
475 TIGR01189 ccmA heme ABC export 96.6 0.0039 8.5E-08 36.1 3.8 24 12-35 26-49 (198)
476 TIGR02323 CP_lyasePhnK phospho 96.6 0.0026 5.6E-08 38.2 3.1 23 13-35 30-52 (253)
477 PRK10895 lipopolysaccharide AB 96.6 0.0026 5.7E-08 37.9 3.1 24 12-35 29-52 (241)
478 PRK09825 idnK D-gluconate kina 96.6 0.0028 6E-08 36.5 3.1 21 14-34 5-25 (176)
479 PRK14527 adenylate kinase; Pro 96.6 0.0036 7.9E-08 36.2 3.6 22 13-34 7-28 (191)
480 cd03214 ABC_Iron-Siderophores_ 96.6 0.0041 8.9E-08 35.6 3.8 22 13-34 26-47 (180)
481 TIGR03864 PQQ_ABC_ATP ABC tran 96.6 0.0039 8.4E-08 37.1 3.7 22 13-34 28-49 (236)
482 PRK13851 type IV secretion sys 96.6 0.0026 5.6E-08 40.4 3.1 25 11-35 161-185 (344)
483 TIGR00176 mobB molybdopterin-g 96.6 0.003 6.5E-08 35.8 3.1 20 15-34 2-21 (155)
484 cd03296 ABC_CysA_sulfate_impor 96.6 0.0028 6E-08 37.8 3.1 22 14-35 30-51 (239)
485 PRK13538 cytochrome c biogenes 96.6 0.0041 8.9E-08 36.3 3.8 23 13-35 28-50 (204)
486 cd01672 TMPK Thymidine monopho 96.6 0.0029 6.3E-08 36.1 3.1 20 15-34 3-22 (200)
487 cd03223 ABCD_peroxisomal_ALDP 96.6 0.0031 6.8E-08 35.8 3.2 23 12-34 27-49 (166)
488 cd03230 ABC_DR_subfamily_A Thi 96.6 0.0031 6.6E-08 35.9 3.1 22 13-34 27-48 (173)
489 cd02020 CMPK Cytidine monophos 96.6 0.0032 6.8E-08 34.4 3.1 20 15-34 2-21 (147)
490 PRK14242 phosphate transporter 96.6 0.0031 6.7E-08 37.8 3.2 22 13-34 33-54 (253)
491 PRK14731 coaE dephospho-CoA ki 96.6 0.0047 1E-07 36.4 3.9 25 10-34 3-27 (208)
492 cd03221 ABCF_EF-3 ABCF_EF-3 E 96.6 0.0038 8.3E-08 34.7 3.4 23 13-35 27-49 (144)
493 cd03237 ABC_RNaseL_inhibitor_d 96.6 0.0041 9E-08 37.5 3.7 23 13-35 26-48 (246)
494 cd03297 ABC_ModC_molybdenum_tr 96.6 0.004 8.6E-08 36.5 3.6 23 13-35 24-46 (214)
495 cd03231 ABC_CcmA_heme_exporter 96.6 0.0032 6.8E-08 36.7 3.1 23 12-34 26-48 (201)
496 PF00503 G-alpha: G-protein al 96.6 0.0039 8.5E-08 39.8 3.8 25 9-33 55-79 (389)
497 cd03254 ABCC_Glucan_exporter_l 96.6 0.0031 6.7E-08 37.2 3.1 22 14-35 31-52 (229)
498 PRK04182 cytidylate kinase; Pr 96.6 0.0036 7.7E-08 35.4 3.3 21 14-34 2-22 (180)
499 cd03247 ABCC_cytochrome_bd The 96.6 0.0047 1E-07 35.3 3.8 23 13-35 29-51 (178)
500 PRK14247 phosphate ABC transpo 96.6 0.0031 6.7E-08 37.8 3.1 22 13-34 30-51 (250)
No 1
>KOG0084|consensus
Probab=99.90 E-value=8.5e-24 Score=122.17 Aligned_cols=65 Identities=26% Similarity=0.369 Sum_probs=60.7
Q ss_pred cccCceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514 6 VLRGSIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA 70 (71)
Q Consensus 6 ~~~~~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~ 70 (71)
...-++.||++++||++||||+|+.||..+.|++.|..|+|+||..+.+..++ .++++||||||+
T Consensus 3 ~~~~dylFKiiliGds~VGKtCL~~Rf~~~~f~e~~~sTIGVDf~~rt~e~~gk~iKlQIWDTAGQ 68 (205)
T KOG0084|consen 3 NPEYDYLFKIILIGDSGVGKTCLLLRFKDDTFTESYISTIGVDFKIRTVELDGKTIKLQIWDTAGQ 68 (205)
T ss_pred CcccceEEEEEEECCCCcChhhhhhhhccCCcchhhcceeeeEEEEEEeeecceEEEEEeeecccc
Confidence 34567899999999999999999999999999999999999999999998887 789999999996
No 2
>KOG0094|consensus
Probab=99.89 E-value=1e-22 Score=117.93 Aligned_cols=61 Identities=30% Similarity=0.432 Sum_probs=57.2
Q ss_pred ceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514 10 SIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA 70 (71)
Q Consensus 10 ~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~ 70 (71)
-.++|++++|+.+||||||+.||+.+.|...|.+|+|+||..++++..+ ++.|++|||||+
T Consensus 20 ~k~~KlVflGdqsVGKTslItRf~yd~fd~~YqATIGiDFlskt~~l~d~~vrLQlWDTAGQ 81 (221)
T KOG0094|consen 20 LKKYKLVFLGDQSVGKTSLITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQ 81 (221)
T ss_pred ceEEEEEEEccCccchHHHHHHHHHhhhcccccceeeeEEEEEEEEEcCcEEEEEEEecccH
Confidence 3459999999999999999999999999999999999999999998865 999999999996
No 3
>KOG0394|consensus
Probab=99.85 E-value=1.6e-21 Score=112.08 Aligned_cols=63 Identities=29% Similarity=0.438 Sum_probs=58.7
Q ss_pred cCceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514 8 RGSIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA 70 (71)
Q Consensus 8 ~~~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~ 70 (71)
++...+|++++||+|||||||+.+|..++|..+|..|+|.+|..+.+.+++ .+.++||||||+
T Consensus 5 ~K~~lLKViiLGDsGVGKtSLmn~yv~~kF~~qykaTIgadFltKev~Vd~~~vtlQiWDTAGQ 68 (210)
T KOG0394|consen 5 RKRTLLKVIILGDSGVGKTSLMNQYVNKKFSQQYKATIGADFLTKEVQVDDRSVTLQIWDTAGQ 68 (210)
T ss_pred CcccceEEEEeCCCCccHHHHHHHHHHHHHHHHhccccchhheeeEEEEcCeEEEEEEEecccH
Confidence 456679999999999999999999999999999999999999999998876 788999999996
No 4
>KOG0092|consensus
Probab=99.85 E-value=6.7e-21 Score=109.87 Aligned_cols=61 Identities=26% Similarity=0.376 Sum_probs=56.9
Q ss_pred ceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514 10 SIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA 70 (71)
Q Consensus 10 ~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~ 70 (71)
...+|++++|+++||||||+.||..+.|.+...||+|..|..+++..++ .++++||||||+
T Consensus 3 ~~~~KvvLLG~~~VGKSSlV~Rfvk~~F~e~~e~TIGaaF~tktv~~~~~~ikfeIWDTAGQ 64 (200)
T KOG0092|consen 3 TREFKVVLLGDSGVGKSSLVLRFVKDQFHENIEPTIGAAFLTKTVTVDDNTIKFEIWDTAGQ 64 (200)
T ss_pred cceEEEEEECCCCCCchhhhhhhhhCccccccccccccEEEEEEEEeCCcEEEEEEEEcCCc
Confidence 4579999999999999999999999999998899999999999998865 899999999996
No 5
>KOG0080|consensus
Probab=99.84 E-value=2e-20 Score=106.07 Aligned_cols=63 Identities=25% Similarity=0.331 Sum_probs=58.2
Q ss_pred cCceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514 8 RGSIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA 70 (71)
Q Consensus 8 ~~~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~ 70 (71)
.....+|++++|++|||||||+.||..+.|.+....|+|.||..+.+..++ .+++.||||||+
T Consensus 7 ~~~~t~KiLlIGeSGVGKSSLllrFv~~~fd~~~~~tIGvDFkvk~m~vdg~~~KlaiWDTAGq 70 (209)
T KOG0080|consen 7 GYDTTFKILLIGESGVGKSSLLLRFVSNTFDDLHPTTIGVDFKVKVMQVDGKRLKLAIWDTAGQ 70 (209)
T ss_pred CcceeEEEEEEccCCccHHHHHHHHHhcccCccCCceeeeeEEEEEEEEcCceEEEEEEeccch
Confidence 345679999999999999999999999999998888899999999998876 899999999996
No 6
>KOG0078|consensus
Probab=99.84 E-value=1.8e-20 Score=109.23 Aligned_cols=63 Identities=19% Similarity=0.355 Sum_probs=59.7
Q ss_pred cCceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514 8 RGSIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA 70 (71)
Q Consensus 8 ~~~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~ 70 (71)
..+..+|++++||++||||+++.||.++.|...|..|+|+||..+++..++ .+.+++|||||+
T Consensus 8 ~~d~~~kvlliGDs~vGKt~~l~rf~d~~f~~~~~sTiGIDFk~kti~l~g~~i~lQiWDtaGQ 71 (207)
T KOG0078|consen 8 DYDYLFKLLLIGDSGVGKTCLLLRFSDDSFNTSFISTIGIDFKIKTIELDGKKIKLQIWDTAGQ 71 (207)
T ss_pred CcceEEEEEEECCCCCchhHhhhhhhhccCcCCccceEEEEEEEEEEEeCCeEEEEEEEEcccc
Confidence 567889999999999999999999999999999999999999999999987 889999999996
No 7
>KOG0098|consensus
Probab=99.84 E-value=2e-20 Score=107.89 Aligned_cols=63 Identities=24% Similarity=0.264 Sum_probs=58.9
Q ss_pred cCceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514 8 RGSIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA 70 (71)
Q Consensus 8 ~~~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~ 70 (71)
...+.+|++++||.|||||+|+.||+++.|...|..|+|++|-.+.+.+++ +++|+||||||.
T Consensus 2 ~~~~~fKyIiiGd~gVGKSclllrf~~krF~~~hd~TiGvefg~r~~~id~k~IKlqiwDtaGq 65 (216)
T KOG0098|consen 2 SYAYLFKYIIIGDTGVGKSCLLLRFTDKRFQPVHDLTIGVEFGARMVTIDGKQIKLQIWDTAGQ 65 (216)
T ss_pred CccceEEEEEECCCCccHHHHHHHHhccCccccccceeeeeeceeEEEEcCceEEEEEEecCCc
Confidence 356789999999999999999999999999999999999999999998876 999999999995
No 8
>KOG0079|consensus
Probab=99.83 E-value=3e-21 Score=108.27 Aligned_cols=61 Identities=30% Similarity=0.427 Sum_probs=57.3
Q ss_pred ceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514 10 SIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA 70 (71)
Q Consensus 10 ~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~ 70 (71)
...+|.+++||+|||||+|+.+|.++.|..+|..|+|.||.++++.+++ .++++||||||+
T Consensus 6 dhLfkllIigDsgVGKssLl~rF~ddtFs~sYitTiGvDfkirTv~i~G~~VkLqIwDtAGq 67 (198)
T KOG0079|consen 6 DHLFKLLIIGDSGVGKSSLLLRFADDTFSGSYITTIGVDFKIRTVDINGDRVKLQIWDTAGQ 67 (198)
T ss_pred HHHHHHHeecCCcccHHHHHHHHhhcccccceEEEeeeeEEEEEeecCCcEEEEEEeecccH
Confidence 4568899999999999999999999999999999999999999999887 899999999995
No 9
>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=99.81 E-value=1.6e-19 Score=104.08 Aligned_cols=62 Identities=18% Similarity=0.325 Sum_probs=53.4
Q ss_pred CceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514 9 GSIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA 70 (71)
Q Consensus 9 ~~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~ 70 (71)
+...+|++++|+++||||||+.+|..+.|.++|.||++.+|.......+..+.++||||+|+
T Consensus 2 ~~~~~KivvvGd~~vGKTsli~~~~~~~f~~~~~pT~~~~~~~~~~~~~~~~~l~iwDtaG~ 63 (182)
T cd04172 2 QNVKCKIVVVGDSQCGKTALLHVFAKDCFPENYVPTVFENYTASFEIDTQRIELSLWDTSGS 63 (182)
T ss_pred CcceEEEEEECCCCCCHHHHHHHHHhCCCCCccCCceeeeeEEEEEECCEEEEEEEEECCCc
Confidence 45679999999999999999999999999999999999887644333344899999999995
No 10
>KOG0087|consensus
Probab=99.79 E-value=3.1e-19 Score=104.24 Aligned_cols=64 Identities=30% Similarity=0.419 Sum_probs=59.5
Q ss_pred ccCceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514 7 LRGSIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA 70 (71)
Q Consensus 7 ~~~~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~ 70 (71)
...++.||++++||++||||-|+.||..++|..+..+|+|++|..+.+..++ .++.+||||||+
T Consensus 9 ~~~dylFKiVliGDS~VGKsnLlsRftrnEF~~~SksTIGvef~t~t~~vd~k~vkaqIWDTAGQ 73 (222)
T KOG0087|consen 9 EEYDYLFKIVLIGDSAVGKSNLLSRFTRNEFSLESKSTIGVEFATRTVNVDGKTVKAQIWDTAGQ 73 (222)
T ss_pred cccceEEEEEEeCCCccchhHHHHHhcccccCcccccceeEEEEeeceeecCcEEEEeeecccch
Confidence 4457889999999999999999999999999999999999999999998876 889999999996
No 11
>KOG0095|consensus
Probab=99.79 E-value=3.9e-19 Score=100.14 Aligned_cols=62 Identities=27% Similarity=0.405 Sum_probs=58.1
Q ss_pred CceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514 9 GSIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA 70 (71)
Q Consensus 9 ~~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~ 70 (71)
....+|++++|+.|||||+|.+||.++-|+.....|+|++|-.+++..++ +++++||||||+
T Consensus 4 ykflfkivlvgnagvgktclvrrftqglfppgqgatigvdfmiktvev~gekiklqiwdtagq 66 (213)
T KOG0095|consen 4 YKFLFKIVLVGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEVNGEKIKLQIWDTAGQ 66 (213)
T ss_pred cceeEEEEEEccCCcCcchhhhhhhccCCCCCCCceeeeeEEEEEEEECCeEEEEEEeeccch
Confidence 35679999999999999999999999999999999999999999999987 899999999995
No 12
>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=99.79 E-value=8.4e-19 Score=100.63 Aligned_cols=58 Identities=17% Similarity=0.296 Sum_probs=50.9
Q ss_pred eeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeC-CEEEEEEEcCCCC
Q psy2514 12 KGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCR-GTFTRDYKKTIGA 70 (71)
Q Consensus 12 ~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~-~~~~l~i~Dt~G~ 70 (71)
++|++++|+++||||||+.+|..+.|+..|.||++.++.. .+..+ ..+.++||||+|+
T Consensus 1 ~~Kiv~vG~~~vGKTsli~~~~~~~f~~~~~~t~~~~~~~-~~~~~~~~~~l~iwDt~G~ 59 (178)
T cd04131 1 RCKIVVVGDVQCGKTALLQVFAKDCYPETYVPTVFENYTA-SFEIDEQRIELSLWDTSGS 59 (178)
T ss_pred CeEEEEECCCCCCHHHHHHHHHhCcCCCCcCCceEEEEEE-EEEECCEEEEEEEEECCCc
Confidence 4799999999999999999999999999999999988764 44444 4789999999995
No 13
>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=99.79 E-value=1.3e-18 Score=100.11 Aligned_cols=58 Identities=28% Similarity=0.447 Sum_probs=52.8
Q ss_pred eeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514 13 GTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA 70 (71)
Q Consensus 13 ~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~ 70 (71)
+|++++|+++||||||+.||..+.|.++|.||++.++..+.+..++ .+.++||||+|.
T Consensus 1 ~Ki~vlG~~~vGKTsLi~~~~~~~f~~~~~~T~g~~~~~~~i~~~~~~~~l~iwDt~G~ 59 (182)
T cd04128 1 LKIGLLGDAQIGKTSLMVKYVEGEFDEDYIQTLGVNFMEKTISIRGTEITFSIWDLGGQ 59 (182)
T ss_pred CEEEEECCCCCCHHHHHHHHHhCCCCCCCCCccceEEEEEEEEECCEEEEEEEEeCCCc
Confidence 5899999999999999999999999999999999999877776666 789999999985
No 14
>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=99.79 E-value=9.7e-19 Score=101.07 Aligned_cols=59 Identities=27% Similarity=0.361 Sum_probs=51.4
Q ss_pred eeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514 12 KGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA 70 (71)
Q Consensus 12 ~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~ 70 (71)
.+|++++|+++||||||+.||..+.|+++|.||++.++.......+..+.++||||+|+
T Consensus 3 ~~ki~~vG~~~vGKTsli~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~ 61 (191)
T cd01875 3 SIKCVVVGDGAVGKTCLLICYTTNAFPKEYIPTVFDNYSAQTAVDGRTVSLNLWDTAGQ 61 (191)
T ss_pred cEEEEEECCCCCCHHHHHHHHHhCCCCcCCCCceEeeeEEEEEECCEEEEEEEEECCCc
Confidence 48999999999999999999999999999999999877654434445899999999995
No 15
>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=99.79 E-value=9.8e-19 Score=100.39 Aligned_cols=58 Identities=31% Similarity=0.320 Sum_probs=50.5
Q ss_pred eeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514 13 GTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA 70 (71)
Q Consensus 13 ~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~ 70 (71)
+|++++|+++||||||+.+|..+.|..+|.||++..+.......+..++++||||+|.
T Consensus 2 ~kivv~G~~~vGKTsli~~~~~~~f~~~~~~Ti~~~~~~~~~~~~~~v~l~i~Dt~G~ 59 (176)
T cd04133 2 IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVSVDGNTVNLGLWDTAGQ 59 (176)
T ss_pred eEEEEECCCCCcHHHHHHHHhcCCCCCCCCCcceeeeEEEEEECCEEEEEEEEECCCC
Confidence 6899999999999999999999999999999999887654433344799999999985
No 16
>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=99.78 E-value=9.7e-19 Score=103.64 Aligned_cols=59 Identities=17% Similarity=0.334 Sum_probs=51.6
Q ss_pred eeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514 12 KGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA 70 (71)
Q Consensus 12 ~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~ 70 (71)
++||+++|+++||||||+.+|..+.|++.|.||++.+|.......+..+.++||||+|+
T Consensus 1 ~~KIvvvGd~~vGKTsLi~~~~~~~f~~~y~pTi~~~~~~~~~~~~~~v~L~iwDt~G~ 59 (222)
T cd04173 1 RCKIVVVGDAECGKTALLQVFAKDAYPGSYVPTVFENYTASFEIDKRRIELNMWDTSGS 59 (222)
T ss_pred CeEEEEECCCCCCHHHHHHHHHcCCCCCccCCccccceEEEEEECCEEEEEEEEeCCCc
Confidence 37999999999999999999999999999999999888654444445899999999995
No 17
>KOG0093|consensus
Probab=99.78 E-value=6.4e-19 Score=98.84 Aligned_cols=63 Identities=25% Similarity=0.406 Sum_probs=57.8
Q ss_pred cCceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514 8 RGSIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA 70 (71)
Q Consensus 8 ~~~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~ 70 (71)
+=++.+|++++|++.+||||++.||+++.|...|.+|+|++|..++++-.. +++++||||||.
T Consensus 17 nFDymfKlliiGnssvGKTSfl~ry~ddSFt~afvsTvGidFKvKTvyr~~kRiklQiwDTagq 80 (193)
T KOG0093|consen 17 NFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVYRSDKRIKLQIWDTAGQ 80 (193)
T ss_pred cccceeeEEEEccCCccchhhhHHhhccccccceeeeeeeeEEEeEeeecccEEEEEEEecccc
Confidence 345789999999999999999999999999999999999999999887754 899999999985
No 18
>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=99.78 E-value=1.8e-18 Score=103.07 Aligned_cols=61 Identities=18% Similarity=0.240 Sum_probs=53.4
Q ss_pred ceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514 10 SIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA 70 (71)
Q Consensus 10 ~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~ 70 (71)
-..+||+++|+++||||||+.+|..+.|..+|.||++.+|.......+..+.++||||+|+
T Consensus 11 ~~~~KIvvvGd~~VGKTsLi~r~~~~~F~~~y~pTi~~~~~~~i~~~~~~v~l~iwDTaG~ 71 (232)
T cd04174 11 VMRCKLVLVGDVQCGKTAMLQVLAKDCYPETYVPTVFENYTAGLETEEQRVELSLWDTSGS 71 (232)
T ss_pred eeeEEEEEECCCCCcHHHHHHHHhcCCCCCCcCCceeeeeEEEEEECCEEEEEEEEeCCCc
Confidence 4679999999999999999999999999999999999888765434345899999999995
No 19
>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=99.77 E-value=2.5e-18 Score=98.21 Aligned_cols=58 Identities=26% Similarity=0.381 Sum_probs=50.4
Q ss_pred eeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514 13 GTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA 70 (71)
Q Consensus 13 ~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~ 70 (71)
+|++++|+++||||||+.++..+.|.++|.||++.++.......+.++.++||||+|.
T Consensus 2 ~ki~vvG~~~vGKTsl~~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~l~i~Dt~G~ 59 (175)
T cd01874 2 IKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAVTVMIGGEPYTLGLFDTAGQ 59 (175)
T ss_pred eEEEEECCCCCCHHHHHHHHHcCCCCCCCCCceeeeeEEEEEECCEEEEEEEEECCCc
Confidence 6999999999999999999999999999999999888654433344789999999985
No 20
>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=99.77 E-value=4.6e-18 Score=99.47 Aligned_cols=58 Identities=29% Similarity=0.462 Sum_probs=52.9
Q ss_pred eeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514 13 GTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA 70 (71)
Q Consensus 13 ~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~ 70 (71)
+.++++|+++||||||+.||..+.|.++|.||++.+|..+.+..++ .+.++||||+|+
T Consensus 1 ~~vvvlG~~gVGKTSli~r~~~~~f~~~~~~Ti~~~~~~~~i~~~~~~v~l~iwDtaGq 59 (202)
T cd04120 1 LQVIIIGSRGVGKTSLMRRFTDDTFCEACKSGVGVDFKIKTVELRGKKIRLQIWDTAGQ 59 (202)
T ss_pred CEEEEECcCCCCHHHHHHHHHhCCCCCcCCCcceeEEEEEEEEECCEEEEEEEEeCCCc
Confidence 3689999999999999999999999999999999999888777766 799999999996
No 21
>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=99.76 E-value=1.2e-17 Score=96.83 Aligned_cols=61 Identities=18% Similarity=0.282 Sum_probs=54.9
Q ss_pred ceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514 10 SIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA 70 (71)
Q Consensus 10 ~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~ 70 (71)
...+||+++|+.+||||||+.+|..+.|..+|.|+++.++....+..++ .+.+++|||+|.
T Consensus 4 ~~~~KivviG~~~vGKTsll~~~~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~iwDt~G~ 65 (189)
T cd04121 4 DYLLKFLLVGDSDVGKGEILASLQDGSTESPYGYNMGIDYKTTTILLDGRRVKLQLWDTSGQ 65 (189)
T ss_pred CceeEEEEECCCCCCHHHHHHHHHcCCCCCCCCCcceeEEEEEEEEECCEEEEEEEEeCCCc
Confidence 4569999999999999999999999999999999999999877777665 789999999985
No 22
>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=99.75 E-value=1.5e-17 Score=94.58 Aligned_cols=57 Identities=37% Similarity=0.672 Sum_probs=51.9
Q ss_pred eEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514 14 TVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA 70 (71)
Q Consensus 14 ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~ 70 (71)
||+++|+++||||||++++..+.|.++|.||++.++..+.+..++ .+.+++|||+|.
T Consensus 2 ki~ivG~~~vGKTsli~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~ 59 (170)
T cd04108 2 KVIVVGDLSVGKTCLINRFCKDVFDKNYKATIGVDFEMERFEILGVPFSLQLWDTAGQ 59 (170)
T ss_pred EEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeEEEEEEEEECCEEEEEEEEeCCCh
Confidence 899999999999999999999999999999999998877776665 789999999984
No 23
>KOG0086|consensus
Probab=99.75 E-value=3.7e-18 Score=96.44 Aligned_cols=64 Identities=22% Similarity=0.290 Sum_probs=59.3
Q ss_pred ccCceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514 7 LRGSIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA 70 (71)
Q Consensus 7 ~~~~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~ 70 (71)
-..++.+|++++|+.|.|||+|+++|..++|.++..-|+|++|-.+++..++ .++++||||||+
T Consensus 4 EtYDyLfKfl~iG~aGtGKSCLLh~Fie~kfkDdssHTiGveFgSrIinVGgK~vKLQIWDTAGQ 68 (214)
T KOG0086|consen 4 ETYDYLFKFLVIGSAGTGKSCLLHQFIENKFKDDSSHTIGVEFGSRIVNVGGKTVKLQIWDTAGQ 68 (214)
T ss_pred hhhhhhheeEEeccCCCChhHHHHHHHHhhhcccccceeeeeecceeeeecCcEEEEEEeecccH
Confidence 4457789999999999999999999999999999999999999999998876 789999999995
No 24
>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=99.74 E-value=1.5e-17 Score=97.41 Aligned_cols=58 Identities=24% Similarity=0.379 Sum_probs=51.8
Q ss_pred eeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeC------CEEEEEEEcCCCC
Q psy2514 13 GTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCR------GTFTRDYKKTIGA 70 (71)
Q Consensus 13 ~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~------~~~~l~i~Dt~G~ 70 (71)
+|++++|+++||||||+.+++.+.|.+++.||++.++..+.+..+ ..+.++||||+|+
T Consensus 1 vKIvlvGd~gVGKTSLi~~~~~~~f~~~~~~Tig~~~~~k~~~~~~~~~~~~~~~l~IwDtaG~ 64 (202)
T cd04102 1 VRVLVVGDSGVGKSSLVHLICKNQVLGRPSWTVGCSVDVKHHTYKEGTPEEKTFFVELWDVGGS 64 (202)
T ss_pred CEEEEECCCCCCHHHHHHHHHcCCCCCCCCcceeeeEEEEEEEEcCCCCCCcEEEEEEEecCCc
Confidence 589999999999999999999999999999999988877766653 4789999999995
No 25
>PLN03071 GTP-binding nuclear protein Ran; Provisional
Probab=99.74 E-value=3.2e-17 Score=96.66 Aligned_cols=61 Identities=30% Similarity=0.489 Sum_probs=54.6
Q ss_pred ceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeC-CEEEEEEEcCCCC
Q psy2514 10 SIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCR-GTFTRDYKKTIGA 70 (71)
Q Consensus 10 ~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~-~~~~l~i~Dt~G~ 70 (71)
...+|++++|+++||||||+.++..+.|...|.||++.++....+..+ +.+.+++|||+|.
T Consensus 11 ~~~~Ki~vvG~~gvGKTsli~~~~~~~f~~~~~~tig~~~~~~~~~~~~~~~~l~i~Dt~G~ 72 (219)
T PLN03071 11 YPSFKLVIVGDGGTGKTTFVKRHLTGEFEKKYEPTIGVEVHPLDFFTNCGKIRFYCWDTAGQ 72 (219)
T ss_pred CCceEEEEECcCCCCHHHHHHHHhhCCCCCccCCccceeEEEEEEEECCeEEEEEEEECCCc
Confidence 677999999999999999999999999999999999998877666555 4789999999985
No 26
>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=99.73 E-value=4e-17 Score=91.94 Aligned_cols=59 Identities=25% Similarity=0.352 Sum_probs=53.1
Q ss_pred eeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514 12 KGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA 70 (71)
Q Consensus 12 ~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~ 70 (71)
.+|++++|+++||||||++++..+.|...+.||++.++..+.+..++ .+.+++|||+|.
T Consensus 2 ~~ki~iiG~~~vGKTsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~ 61 (166)
T cd04122 2 IFKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVNGQKIKLQIWDTAGQ 61 (166)
T ss_pred ceEEEEECCCCCCHHHHHHHHhcCCCCCCCCcccceeEEEEEEEECCEEEEEEEEECCCc
Confidence 48999999999999999999999999999999999998877666665 789999999985
No 27
>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=99.73 E-value=4.1e-17 Score=91.16 Aligned_cols=58 Identities=33% Similarity=0.588 Sum_probs=52.4
Q ss_pred eeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514 13 GTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA 70 (71)
Q Consensus 13 ~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~ 70 (71)
+|++++|+++||||||+.+++.+.|...|.||++.++..+.+..++ .+.+++|||+|.
T Consensus 1 ~ki~~vG~~~vGKTsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~ 59 (168)
T cd04119 1 IKVISMGNSGVGKSCIIKRYCEGRFVSKYLPTIGIDYGVKKVSVRNKEVRVNFFDLSGH 59 (168)
T ss_pred CEEEEECCCCCCHHHHHHHHHhCCCCCCCCCccceeEEEEEEEECCeEEEEEEEECCcc
Confidence 5899999999999999999999999999999999998777776655 789999999984
No 28
>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=99.73 E-value=4.7e-17 Score=90.98 Aligned_cols=57 Identities=33% Similarity=0.548 Sum_probs=52.7
Q ss_pred eEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514 14 TVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA 70 (71)
Q Consensus 14 ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~ 70 (71)
||+++|+++||||+|+.+|..+.|+++|.||++.++....+..++ ++.+++||++|+
T Consensus 1 Ki~vvG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~ 58 (162)
T PF00071_consen 1 KIVVVGDSGVGKTSLINRLINGEFPENYIPTIGIDSYSKEVSIDGKPVNLEIWDTSGQ 58 (162)
T ss_dssp EEEEEESTTSSHHHHHHHHHHSSTTSSSETTSSEEEEEEEEEETTEEEEEEEEEETTS
T ss_pred CEEEECCCCCCHHHHHHHHHhhcccccccccccccccccccccccccccccccccccc
Confidence 799999999999999999999999999999999888888887765 899999999985
No 29
>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=99.73 E-value=2.7e-17 Score=93.66 Aligned_cols=59 Identities=24% Similarity=0.271 Sum_probs=50.9
Q ss_pred eeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514 12 KGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA 70 (71)
Q Consensus 12 ~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~ 70 (71)
.+|++++|+++||||||+.++..++|+..|.||++..+.......+..+.+++|||+|.
T Consensus 2 ~~ki~vvG~~~vGKTsL~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~ 60 (172)
T cd04141 2 EYKIVMLGAGGVGKSAVTMQFISHSFPDYHDPTIEDAYKQQARIDNEPALLDILDTAGQ 60 (172)
T ss_pred ceEEEEECCCCCcHHHHHHHHHhCCCCCCcCCcccceEEEEEEECCEEEEEEEEeCCCc
Confidence 47999999999999999999999999999999999777655444444789999999985
No 30
>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=99.73 E-value=3.6e-17 Score=94.93 Aligned_cols=58 Identities=31% Similarity=0.487 Sum_probs=52.5
Q ss_pred eeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeC--CEEEEEEEcCCCC
Q psy2514 13 GTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCR--GTFTRDYKKTIGA 70 (71)
Q Consensus 13 ~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~--~~~~l~i~Dt~G~ 70 (71)
+||+++|+++||||||+.++..+.|...|.||++.++..+.+..+ ..+.+++|||+|.
T Consensus 1 ~KivivG~~~vGKTsli~~l~~~~~~~~~~~t~~~d~~~~~v~~~~~~~~~l~l~Dt~G~ 60 (201)
T cd04107 1 LKVLVIGDLGVGKTSIIKRYVHGIFSQHYKATIGVDFALKVIEWDPNTVVRLQLWDIAGQ 60 (201)
T ss_pred CEEEEECCCCCCHHHHHHHHHcCCCCCCCCCceeEEEEEEEEEECCCCEEEEEEEECCCc
Confidence 589999999999999999999999999999999999887777665 4889999999995
No 31
>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=99.73 E-value=3.1e-17 Score=93.63 Aligned_cols=58 Identities=26% Similarity=0.305 Sum_probs=49.2
Q ss_pred eeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514 13 GTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA 70 (71)
Q Consensus 13 ~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~ 70 (71)
+|++++|+++||||||+.++..+.|.++|.||++..+.......+..+.++||||+|.
T Consensus 2 ~ki~iiG~~~vGKSsli~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~ 59 (174)
T cd01871 2 IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVMVDGKPVNLGLWDTAGQ 59 (174)
T ss_pred eEEEEECCCCCCHHHHHHHHhcCCCCCcCCCcceeeeEEEEEECCEEEEEEEEECCCc
Confidence 6999999999999999999999999999999998655544433334789999999985
No 32
>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=99.73 E-value=5.1e-17 Score=91.44 Aligned_cols=58 Identities=24% Similarity=0.372 Sum_probs=52.6
Q ss_pred eeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514 13 GTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA 70 (71)
Q Consensus 13 ~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~ 70 (71)
+|++++|++++|||||+.++..+.|.+.+.||++.++..+.+..++ .+.+++|||+|+
T Consensus 1 ~ki~vvG~~~~GKTsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~ 59 (161)
T cd04117 1 FRLLLIGDSGVGKTCLLCRFTDNEFHSSHISTIGVDFKMKTIEVDGIKVRIQIWDTAGQ 59 (161)
T ss_pred CEEEEECcCCCCHHHHHHHHhcCCCCCCCCCceeeEEEEEEEEECCEEEEEEEEeCCCc
Confidence 5899999999999999999999999999999999998877777766 789999999985
No 33
>KOG0091|consensus
Probab=99.72 E-value=3e-18 Score=97.53 Aligned_cols=61 Identities=23% Similarity=0.315 Sum_probs=55.8
Q ss_pred ceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeC--CEEEEEEEcCCCC
Q psy2514 10 SIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCR--GTFTRDYKKTIGA 70 (71)
Q Consensus 10 ~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~--~~~~l~i~Dt~G~ 70 (71)
.+.++++++||+-||||||+++|..++|.+-..||+|+||..+.+... .++++++|||||+
T Consensus 6 ~yqfrlivigdstvgkssll~~ft~gkfaelsdptvgvdffarlie~~pg~riklqlwdtagq 68 (213)
T KOG0091|consen 6 HYQFRLIVIGDSTVGKSSLLRYFTEGKFAELSDPTVGVDFFARLIELRPGYRIKLQLWDTAGQ 68 (213)
T ss_pred EEEEEEEEEcCCcccHHHHHHHHhcCcccccCCCccchHHHHHHHhcCCCcEEEEEEeeccch
Confidence 467999999999999999999999999999889999999998887764 3899999999996
No 34
>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=99.72 E-value=3.7e-17 Score=91.30 Aligned_cols=58 Identities=29% Similarity=0.454 Sum_probs=49.2
Q ss_pred eeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514 12 KGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA 70 (71)
Q Consensus 12 ~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~ 70 (71)
++|++++|+++||||||+.++..+.|...|.||++..+. +.+..++ .+.+++|||+|.
T Consensus 1 ~~ki~i~G~~~vGKTsl~~~~~~~~~~~~~~~t~~~~~~-~~~~~~~~~~~l~i~Dt~G~ 59 (163)
T cd04136 1 EYKVVVLGSGGVGKSALTVQFVQGIFVEKYDPTIEDSYR-KQIEVDGQQCMLEILDTAGT 59 (163)
T ss_pred CeEEEEECCCCCCHHHHHHHHHhCCCCcccCCchhhhEE-EEEEECCEEEEEEEEECCCc
Confidence 379999999999999999999999999999999985444 4454554 789999999994
No 35
>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=99.72 E-value=7.2e-17 Score=91.64 Aligned_cols=61 Identities=15% Similarity=0.157 Sum_probs=54.2
Q ss_pred ceeeeEEEEeCCCCCHHHHHHHHHhCcCC-CCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514 10 SIKGTVVIVGNGAVGKSSMIQRYCRGTFT-RDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA 70 (71)
Q Consensus 10 ~~~~ki~v~G~~~vGKtsl~~~~~~~~f~-~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~ 70 (71)
+..+|++++|+++||||||+.+|..+.|. .+|.||++.++..+.+..++ .+.+.+||++|.
T Consensus 2 ~~~~kv~~vG~~~vGKTsli~~~~~~~f~~~~~~~T~~~~~~~~~~~~~~~~~~l~~~d~~g~ 64 (169)
T cd01892 2 RNVFLCFVLGAKGSGKSALLRAFLGRSFSLNAYSPTIKPRYAVNTVEVYGQEKYLILREVGED 64 (169)
T ss_pred CeEEEEEEECCCCCcHHHHHHHHhCCCCCcccCCCccCcceEEEEEEECCeEEEEEEEecCCc
Confidence 45799999999999999999999999998 89999999998877776665 678999999985
No 36
>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=5e-17 Score=90.40 Aligned_cols=59 Identities=27% Similarity=0.314 Sum_probs=49.5
Q ss_pred eeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514 12 KGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA 70 (71)
Q Consensus 12 ~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~ 70 (71)
.+||+++|+++||||||++++..++|..++.||++..+.......+..+.+++|||+|.
T Consensus 1 ~~ki~iiG~~~vGKTsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~i~Dt~G~ 59 (162)
T cd04138 1 EYKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSYRKQVVIDGETCLLDILDTAGQ 59 (162)
T ss_pred CeEEEEECCCCCCHHHHHHHHHhCCCcCCcCCcchheEEEEEEECCEEEEEEEEECCCC
Confidence 37999999999999999999999999999999998776544333334678999999985
No 37
>PLN03110 Rab GTPase; Provisional
Probab=99.72 E-value=1e-16 Score=94.23 Aligned_cols=63 Identities=29% Similarity=0.420 Sum_probs=56.2
Q ss_pred cCceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514 8 RGSIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA 70 (71)
Q Consensus 8 ~~~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~ 70 (71)
.....+|++++|+++||||+|+.++..+.|..++.||++.++..+.+..++ .+.++||||+|+
T Consensus 8 ~~~~~~Ki~ivG~~~vGKStLi~~l~~~~~~~~~~~t~g~~~~~~~v~~~~~~~~l~l~Dt~G~ 71 (216)
T PLN03110 8 EYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQ 71 (216)
T ss_pred ccCceeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeEEEEEEEEEECCEEEEEEEEECCCc
Confidence 345679999999999999999999999999888999999999888777766 689999999986
No 38
>PTZ00369 Ras-like protein; Provisional
Probab=99.72 E-value=5.9e-17 Score=93.31 Aligned_cols=61 Identities=28% Similarity=0.343 Sum_probs=51.6
Q ss_pred ceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514 10 SIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA 70 (71)
Q Consensus 10 ~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~ 70 (71)
...+|++++|+++||||||+.++..+.|..++.||++..+.......+..+.+++|||+|.
T Consensus 3 ~~~~Ki~iiG~~~~GKTsLi~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~ 63 (189)
T PTZ00369 3 STEYKLVVVGGGGVGKSALTIQFIQNHFIDEYDPTIEDSYRKQCVIDEETCLLDILDTAGQ 63 (189)
T ss_pred CcceEEEEECCCCCCHHHHHHHHhcCCCCcCcCCchhhEEEEEEEECCEEEEEEEEeCCCC
Confidence 3469999999999999999999999999999999999877544333344788999999984
No 39
>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=99.71 E-value=9.6e-17 Score=90.41 Aligned_cols=58 Identities=26% Similarity=0.461 Sum_probs=52.2
Q ss_pred eeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514 13 GTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA 70 (71)
Q Consensus 13 ~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~ 70 (71)
+|++++|+++||||||++++..+.|...|.||++.++....+..++ .+.+++|||+|.
T Consensus 2 ~ki~i~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~g~ 60 (165)
T cd01865 2 FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRNDKRVKLQIWDTAGQ 60 (165)
T ss_pred eEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeEEEEEEEEECCEEEEEEEEECCCh
Confidence 7999999999999999999999999989999999888777766655 689999999984
No 40
>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=99.71 E-value=6.6e-17 Score=90.73 Aligned_cols=58 Identities=26% Similarity=0.425 Sum_probs=49.9
Q ss_pred eeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514 12 KGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA 70 (71)
Q Consensus 12 ~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~ 70 (71)
++|++++|+++||||||+.++..+.|...+.||++..+... +..++ .+.+++|||+|.
T Consensus 1 ~~ki~~~G~~~~GKTsli~~~~~~~~~~~~~~t~~~~~~~~-~~~~~~~~~l~i~Dt~G~ 59 (164)
T cd04175 1 EYKLVVLGSGGVGKSALTVQFVQGIFVEKYDPTIEDSYRKQ-VEVDGQQCMLEILDTAGT 59 (164)
T ss_pred CcEEEEECCCCCCHHHHHHHHHhCCCCcccCCcchheEEEE-EEECCEEEEEEEEECCCc
Confidence 47999999999999999999999999989999999777544 44444 789999999985
No 41
>KOG0393|consensus
Probab=99.71 E-value=3.9e-18 Score=99.30 Aligned_cols=61 Identities=26% Similarity=0.318 Sum_probs=56.4
Q ss_pred ceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEe-CCEEEEEEEcCCCC
Q psy2514 10 SIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYC-RGTFTRDYKKTIGA 70 (71)
Q Consensus 10 ~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~-~~~~~l~i~Dt~G~ 70 (71)
...+|++++||.+||||+++..|..+.|++.|.||+.++|...+..+ +.++.+.+|||||+
T Consensus 2 ~~~~K~VvVGDga~GKT~ll~~~t~~~fp~~yvPTVFdnys~~v~V~dg~~v~L~LwDTAGq 63 (198)
T KOG0393|consen 2 SRRIKCVVVGDGAVGKTCLLISYTTNAFPEEYVPTVFDNYSANVTVDDGKPVELGLWDTAGQ 63 (198)
T ss_pred ceeeEEEEECCCCcCceEEEEEeccCcCcccccCeEEccceEEEEecCCCEEEEeeeecCCC
Confidence 34689999999999999999999999999999999999999888885 67999999999996
No 42
>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=99.71 E-value=9.5e-17 Score=94.18 Aligned_cols=58 Identities=31% Similarity=0.484 Sum_probs=52.5
Q ss_pred eeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC--EEEEEEEcCCCC
Q psy2514 13 GTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG--TFTRDYKKTIGA 70 (71)
Q Consensus 13 ~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~--~~~l~i~Dt~G~ 70 (71)
+|++++|+++||||||+++|..+.|...|.||++.++..+.+..++ .+.++||||+|.
T Consensus 1 ~Ki~ivG~~~vGKSsLi~~l~~~~~~~~~~~T~~~d~~~~~i~~~~~~~~~~~i~Dt~G~ 60 (215)
T cd04109 1 FKIVVLGDGAVGKTSLCRRFAKEGFGKSYKQTIGLDFFSKRVTLPGNLNVTLQVWDIGGQ 60 (215)
T ss_pred CEEEEECcCCCCHHHHHHHHhcCCCCCCCCCceeEEEEEEEEEeCCCCEEEEEEEECCCc
Confidence 5899999999999999999999999999999999998877777653 789999999985
No 43
>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=99.71 E-value=1.3e-16 Score=89.96 Aligned_cols=60 Identities=22% Similarity=0.396 Sum_probs=53.9
Q ss_pred eeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514 11 IKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA 70 (71)
Q Consensus 11 ~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~ 70 (71)
+.+||+++|+++||||||+.++..+.|...|.||++.++..+.+..++ .+.+++|||+|.
T Consensus 2 ~~~ki~vvG~~~~GKSsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~~l~l~D~~g~ 62 (167)
T cd01867 2 YLFKLLLIGDSGVGKSCLLLRFSEDSFNPSFISTIGIDFKIRTIELDGKKIKLQIWDTAGQ 62 (167)
T ss_pred cceEEEEECCCCCCHHHHHHHHhhCcCCcccccCccceEEEEEEEECCEEEEEEEEeCCch
Confidence 468999999999999999999999999999999999988777776665 689999999984
No 44
>PLN00023 GTP-binding protein; Provisional
Probab=99.70 E-value=1e-16 Score=99.29 Aligned_cols=63 Identities=22% Similarity=0.275 Sum_probs=54.8
Q ss_pred cCceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeC--------------CEEEEEEEcCCCC
Q psy2514 8 RGSIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCR--------------GTFTRDYKKTIGA 70 (71)
Q Consensus 8 ~~~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~--------------~~~~l~i~Dt~G~ 70 (71)
.+...+||+++|+.+||||||+.+|+.+.|...+.||+|.++..+.+..+ ..+.++||||+|+
T Consensus 17 ~~~~~iKIVLLGdsGVGKTSLI~rf~~g~F~~~~~pTIG~d~~ik~I~~~~~~~~~~~ik~d~~k~v~LqIWDTAGq 93 (334)
T PLN00023 17 PPCGQVRVLVVGDSGVGKSSLVHLIVKGSSIARPPQTIGCTVGVKHITYGSPGSSSNSIKGDSERDFFVELWDVSGH 93 (334)
T ss_pred CCccceEEEEECCCCCcHHHHHHHHhcCCcccccCCceeeeEEEEEEEECCcccccccccccCCceEEEEEEECCCC
Confidence 34567999999999999999999999999999999999999877766543 3688999999996
No 45
>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=99.70 E-value=1.7e-16 Score=92.10 Aligned_cols=61 Identities=30% Similarity=0.430 Sum_probs=54.4
Q ss_pred ceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514 10 SIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA 70 (71)
Q Consensus 10 ~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~ 70 (71)
+..+||+++|+++||||||+.++..+.|...|.||++.++....+..++ .+.+.||||+|.
T Consensus 4 ~~~~kivvvG~~~vGKTsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~l~D~~G~ 65 (199)
T cd04110 4 DHLFKLLIIGDSGVGKSSLLLRFADNTFSGSYITTIGVDFKIRTVEINGERVKLQIWDTAGQ 65 (199)
T ss_pred CceeEEEEECCCCCCHHHHHHHHhcCCCCCCcCccccceeEEEEEEECCEEEEEEEEeCCCc
Confidence 4579999999999999999999999999989999999988877776665 678999999985
No 46
>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=99.70 E-value=2e-16 Score=89.18 Aligned_cols=61 Identities=33% Similarity=0.420 Sum_probs=54.0
Q ss_pred ceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514 10 SIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA 70 (71)
Q Consensus 10 ~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~ 70 (71)
...+|++++|+++||||||+.++..+.|...+.|+++.++..+.+..++ .+.++||||+|.
T Consensus 3 ~~~~ki~vvG~~~~GKTsli~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~i~D~~G~ 64 (170)
T cd04116 3 SSLLKVILLGDGGVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLEVDGHFVTLQIWDTAGQ 64 (170)
T ss_pred ceEEEEEEECCCCCCHHHHHHHHHcCCCCcCcCCceeeEEEEEEEEECCeEEEEEEEeCCCh
Confidence 4569999999999999999999999999988999999888777766655 789999999984
No 47
>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=99.70 E-value=2e-16 Score=89.93 Aligned_cols=60 Identities=18% Similarity=0.304 Sum_probs=52.6
Q ss_pred eeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeC-----------CEEEEEEEcCCCC
Q psy2514 11 IKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCR-----------GTFTRDYKKTIGA 70 (71)
Q Consensus 11 ~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~-----------~~~~l~i~Dt~G~ 70 (71)
+.+|++++|+++||||||+.++..+.|...+.||++.++....+..+ ..+.+++|||+|.
T Consensus 3 ~~~ki~ivG~~~vGKTsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~ 73 (180)
T cd04127 3 YLIKFLALGDSGVGKTSFLYQYTDNKFNPKFITTVGIDFREKRVVYNSSGPGGTLGRGQRIHLQLWDTAGQ 73 (180)
T ss_pred ceEEEEEECCCCCCHHHHHHHHhcCCCCccCCCccceEEEEEEEEEcCccccccccCCCEEEEEEEeCCCh
Confidence 56999999999999999999999999999999999998876655442 3688999999985
No 48
>KOG0097|consensus
Probab=99.70 E-value=7.9e-17 Score=90.29 Aligned_cols=64 Identities=25% Similarity=0.310 Sum_probs=59.4
Q ss_pred ccCceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514 7 LRGSIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA 70 (71)
Q Consensus 7 ~~~~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~ 70 (71)
.+..+.+|++++||-|||||+|+++|..++|..+-.-|+|++|-.+.+...+ +++++||||||+
T Consensus 6 ynysyifkyiiigdmgvgkscllhqftekkfmadcphtigvefgtriievsgqkiklqiwdtagq 70 (215)
T KOG0097|consen 6 YNYSYIFKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQKIKLQIWDTAGQ 70 (215)
T ss_pred cchhheEEEEEEccccccHHHHHHHHHHHHHhhcCCcccceecceeEEEecCcEEEEEEeecccH
Confidence 4567889999999999999999999999999999889999999999998876 899999999985
No 49
>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=99.70 E-value=1.3e-16 Score=91.98 Aligned_cols=58 Identities=26% Similarity=0.318 Sum_probs=49.8
Q ss_pred eeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514 13 GTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA 70 (71)
Q Consensus 13 ~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~ 70 (71)
.|++++|+++||||||+.+|..+.|...|.||++.++.......+..+.++||||+|.
T Consensus 1 ~kivivG~~~vGKTsli~~~~~~~~~~~~~~t~~~~~~~~i~~~~~~~~l~i~Dt~G~ 58 (189)
T cd04134 1 RKVVVLGDGACGKTSLLNVFTRGYFPQVYEPTVFENYVHDIFVDGLHIELSLWDTAGQ 58 (189)
T ss_pred CEEEEECCCCCCHHHHHHHHhcCCCCCccCCcceeeeEEEEEECCEEEEEEEEECCCC
Confidence 3899999999999999999999999999999999887654433344789999999985
No 50
>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=99.69 E-value=1.9e-16 Score=90.64 Aligned_cols=58 Identities=22% Similarity=0.341 Sum_probs=50.3
Q ss_pred eeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEe-CCEEEEEEEcCCCC
Q psy2514 13 GTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYC-RGTFTRDYKKTIGA 70 (71)
Q Consensus 13 ~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~-~~~~~l~i~Dt~G~ 70 (71)
+||+++|++++|||||++++..+.|...|.||++.++....... +..+.+.||||+|.
T Consensus 1 ~ki~vvG~~~vGKTsli~~l~~~~~~~~~~~t~~~~~~~~i~~~~~~~~~l~i~Dt~G~ 59 (187)
T cd04132 1 KKIVVVGDGGCGKTCLLIVYSQGKFPEEYVPTVFENYVTNIQGPNGKIIELALWDTAGQ 59 (187)
T ss_pred CeEEEECCCCCCHHHHHHHHHhCcCCCCCCCeeeeeeEEEEEecCCcEEEEEEEECCCc
Confidence 48999999999999999999999999999999998876554443 34789999999985
No 51
>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=99.69 E-value=2.9e-16 Score=88.90 Aligned_cols=58 Identities=26% Similarity=0.450 Sum_probs=51.5
Q ss_pred eeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514 13 GTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA 70 (71)
Q Consensus 13 ~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~ 70 (71)
+|++++|+++||||||+.++..+.|...+.||++.++....+..++ .+.+++|||+|.
T Consensus 1 ~ki~vvG~~~vGKTsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~ 59 (166)
T cd00877 1 FKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLDFHTNRGKIRFNVWDTAGQ 59 (166)
T ss_pred CEEEEECCCCCCHHHHHHHHHhCCCCCCCCCceeeEEEEEEEEECCEEEEEEEEECCCC
Confidence 5899999999999999999999999999999999888766665554 789999999985
No 52
>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=99.69 E-value=2.7e-16 Score=90.46 Aligned_cols=58 Identities=29% Similarity=0.426 Sum_probs=51.4
Q ss_pred eeEEEEeCCCCCHHHHHHHHHhCcCCC-CccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514 13 GTVVIVGNGAVGKSSMIQRYCRGTFTR-DYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA 70 (71)
Q Consensus 13 ~ki~v~G~~~vGKtsl~~~~~~~~f~~-~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~ 70 (71)
+||+++|+++||||||+.+++.+.|.. .|.||++.++..+.+..++ .+.+++|||+|.
T Consensus 1 ~ki~vvG~~~vGKSsLi~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~G~ 60 (193)
T cd04118 1 VKVVMLGKESVGKTSLVERYVHHRFLVGPYQNTIGAAFVAKRMVVGERVVTLGIWDTAGS 60 (193)
T ss_pred CEEEEECCCCCCHHHHHHHHHhCCcCCcCcccceeeEEEEEEEEECCEEEEEEEEECCCc
Confidence 489999999999999999999999975 6899999988777777765 788999999985
No 53
>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=99.69 E-value=1.6e-16 Score=92.59 Aligned_cols=57 Identities=16% Similarity=0.253 Sum_probs=50.2
Q ss_pred eeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCC
Q psy2514 13 GTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIG 69 (71)
Q Consensus 13 ~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G 69 (71)
+||+++|+++||||||+.++..++|...|.||++.++....+..++ .+.+++|||+|
T Consensus 1 ~kI~ivG~~~vGKTsLi~~~~~~~f~~~~~pt~~~~~~~~~i~~~~~~~~l~i~Dt~G 58 (198)
T cd04142 1 VRVAVLGAPGVGKTAIVRQFLAQEFPEEYIPTEHRRLYRPAVVLSGRVYDLHILDVPN 58 (198)
T ss_pred CEEEEECCCCCcHHHHHHHHHcCCCCcccCCccccccceeEEEECCEEEEEEEEeCCC
Confidence 5899999999999999999999999999999998877666665555 68999999987
No 54
>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=99.69 E-value=3.3e-16 Score=88.05 Aligned_cols=58 Identities=22% Similarity=0.375 Sum_probs=50.4
Q ss_pred eeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514 13 GTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA 70 (71)
Q Consensus 13 ~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~ 70 (71)
+|++++|+++||||||+.++..+.|.+.+.++.+.++.......++ .+.+++|||+|.
T Consensus 1 ~ki~vvG~~~vGKTsli~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~ 59 (161)
T cd04124 1 VKIILLGDSAVGKSKLVERFLMDGYEPQQLSTYALTLYKHNAKFEGKTILVDFWDTAGQ 59 (161)
T ss_pred CEEEEECCCCCCHHHHHHHHHhCCCCCCcCCceeeEEEEEEEEECCEEEEEEEEeCCCc
Confidence 5899999999999999999999999988889988777666555554 789999999985
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=99.69 E-value=2.2e-16 Score=88.47 Aligned_cols=58 Identities=28% Similarity=0.385 Sum_probs=49.4
Q ss_pred eeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514 12 KGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA 70 (71)
Q Consensus 12 ~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~ 70 (71)
++|++++|++++|||||+.++..+.|.+.+.||++. +....+..++ .+.++||||+|.
T Consensus 1 ~~ki~i~G~~~vGKTsl~~~~~~~~~~~~~~~t~~~-~~~~~~~~~~~~~~l~i~Dt~G~ 59 (163)
T cd04176 1 EYKVVVLGSGGVGKSALTVQFVSGTFIEKYDPTIED-FYRKEIEVDSSPSVLEILDTAGT 59 (163)
T ss_pred CeEEEEECCCCCCHHHHHHHHHcCCCCCCCCCchhh-eEEEEEEECCEEEEEEEEECCCc
Confidence 479999999999999999999999999999999874 4445555555 788999999994
No 56
>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=99.69 E-value=1.8e-16 Score=95.11 Aligned_cols=57 Identities=28% Similarity=0.465 Sum_probs=49.9
Q ss_pred eeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514 13 GTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA 70 (71)
Q Consensus 13 ~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~ 70 (71)
+|++++|+++||||||+.+|+.+.|...|.||++ ++..+.+..++ .+.++||||+|.
T Consensus 1 ~KVvvlG~~gvGKTSLi~r~~~~~f~~~y~pTi~-d~~~k~~~i~~~~~~l~I~Dt~G~ 58 (247)
T cd04143 1 YRMVVLGASKVGKTAIVSRFLGGRFEEQYTPTIE-DFHRKLYSIRGEVYQLDILDTSGN 58 (247)
T ss_pred CEEEEECcCCCCHHHHHHHHHcCCCCCCCCCChh-HhEEEEEEECCEEEEEEEEECCCC
Confidence 5899999999999999999999999999999998 55556666665 789999999995
No 57
>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=99.69 E-value=3.3e-16 Score=89.91 Aligned_cols=58 Identities=33% Similarity=0.467 Sum_probs=52.2
Q ss_pred eeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514 13 GTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA 70 (71)
Q Consensus 13 ~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~ 70 (71)
+|++++|+++||||||+.++..+.|...|.||++.++..+.+..++ .+.+++|||+|.
T Consensus 1 ~ki~v~G~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~g~ 59 (188)
T cd04125 1 FKVVIIGDYGVGKSSLLKRFTEDEFSESTKSTIGVDFKIKTVYIENKIIKLQIWDTNGQ 59 (188)
T ss_pred CEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeEEEEEEEEECCEEEEEEEEECCCc
Confidence 5899999999999999999999999888999999988877777765 788999999985
No 58
>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=4.3e-16 Score=87.56 Aligned_cols=60 Identities=28% Similarity=0.454 Sum_probs=53.9
Q ss_pred eeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514 11 IKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA 70 (71)
Q Consensus 11 ~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~ 70 (71)
+.+|++++|++++|||||+.++..+.|...+.++.+.++..+.+..++ .+.+++|||+|.
T Consensus 2 ~~~kv~vvG~~~~GKTsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~G~ 62 (165)
T cd01864 2 FLFKIILIGDSNVGKTCVVQRFKSGTFSERQGNTIGVDFTMKTLEIEGKRVKLQIWDTAGQ 62 (165)
T ss_pred ceeEEEEECCCCCCHHHHHHHHhhCCCcccCCCccceEEEEEEEEECCEEEEEEEEECCCh
Confidence 468999999999999999999999999998999999888877777766 578999999984
No 59
>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=99.68 E-value=4.4e-16 Score=87.51 Aligned_cols=59 Identities=29% Similarity=0.448 Sum_probs=53.0
Q ss_pred eeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514 12 KGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA 70 (71)
Q Consensus 12 ~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~ 70 (71)
.+|++++|+++||||+|+.++..+.|...+.||.+.++..+.+..++ .+.+++|||+|.
T Consensus 2 ~~ki~i~G~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~ 61 (166)
T cd01869 2 LFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQ 61 (166)
T ss_pred eEEEEEECCCCCCHHHHHHHHhcCCCCCCCCCccceeEEEEEEEECCEEEEEEEEECCCc
Confidence 48999999999999999999999999988999999988877777665 688999999984
No 60
>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=99.68 E-value=1.6e-16 Score=91.60 Aligned_cols=57 Identities=23% Similarity=0.355 Sum_probs=48.8
Q ss_pred eEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514 14 TVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA 70 (71)
Q Consensus 14 ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~ 70 (71)
|++++|+++||||||+.+|+.+.|...|.||++..+.......+..+.+++|||+|.
T Consensus 1 ki~ivG~~~vGKTsli~~l~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~ 57 (190)
T cd04144 1 KLVVLGDGGVGKTALTIQLCLNHFVETYDPTIEDSYRKQVVVDGQPCMLEVLDTAGQ 57 (190)
T ss_pred CEEEECCCCCCHHHHHHHHHhCCCCccCCCchHhhEEEEEEECCEEEEEEEEECCCc
Confidence 689999999999999999999999999999999777655444344788999999994
No 61
>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=99.68 E-value=4.3e-16 Score=88.19 Aligned_cols=59 Identities=25% Similarity=0.439 Sum_probs=53.3
Q ss_pred eeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514 12 KGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA 70 (71)
Q Consensus 12 ~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~ 70 (71)
.+||+++|+++||||+|+.++..+.|...+.++++.++..+.+..++ .+.++||||+|.
T Consensus 2 ~~ki~vvG~~~vGKTsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~ 61 (170)
T cd04115 2 IFKIIVIGDSNVGKTCLTYRFCAGRFPERTEATIGVDFRERTVEIDGERIKVQLWDTAGQ 61 (170)
T ss_pred ceEEEEECCCCCCHHHHHHHHHhCCCCCccccceeEEEEEEEEEECCeEEEEEEEeCCCh
Confidence 47999999999999999999999999988999999988877777665 789999999984
No 62
>PLN03108 Rab family protein; Provisional
Probab=99.68 E-value=5e-16 Score=90.99 Aligned_cols=62 Identities=21% Similarity=0.217 Sum_probs=54.9
Q ss_pred CceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514 9 GSIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA 70 (71)
Q Consensus 9 ~~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~ 70 (71)
..+.+||+++|++++|||||+.++..+.|...+.||++.++....+..++ .+.+++|||+|.
T Consensus 3 ~~~~~kivivG~~gvGKStLi~~l~~~~~~~~~~~ti~~~~~~~~i~~~~~~i~l~l~Dt~G~ 65 (210)
T PLN03108 3 YAYLFKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMITIDNKPIKLQIWDTAGQ 65 (210)
T ss_pred CCcceEEEEECCCCCCHHHHHHHHHhCCCCCCCCCCccceEEEEEEEECCEEEEEEEEeCCCc
Confidence 34569999999999999999999999999988999999998877777765 788999999984
No 63
>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=99.68 E-value=2.7e-16 Score=88.96 Aligned_cols=59 Identities=22% Similarity=0.284 Sum_probs=50.0
Q ss_pred eeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514 12 KGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA 70 (71)
Q Consensus 12 ~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~ 70 (71)
+.|++++|+++||||||+.++..+.|...|.||++..+.......+..+.+.+|||+|.
T Consensus 1 ~~ki~iiG~~~~GKTsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~ 59 (175)
T cd01870 1 RKKLVIVGDGACGKTCLLIVFSKDQFPEVYVPTVFENYVADIEVDGKQVELALWDTAGQ 59 (175)
T ss_pred CcEEEEECCCCCCHHHHHHHHhcCCCCCCCCCccccceEEEEEECCEEEEEEEEeCCCc
Confidence 36899999999999999999999999999999999777654433344788999999984
No 64
>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=99.67 E-value=5.4e-16 Score=90.97 Aligned_cols=59 Identities=24% Similarity=0.349 Sum_probs=52.8
Q ss_pred eeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeC--CEEEEEEEcCCCC
Q psy2514 12 KGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCR--GTFTRDYKKTIGA 70 (71)
Q Consensus 12 ~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~--~~~~l~i~Dt~G~ 70 (71)
.+||+++|+++||||||++++..+.|...+.||++.++..+.+... ..+.+++|||+|.
T Consensus 2 ~~KIvvvG~~~vGKTsLi~~l~~~~~~~~~~~ti~~d~~~~~i~~~~~~~~~l~i~Dt~G~ 62 (211)
T cd04111 2 QFRLIVIGDSTVGKSSLLKRFTEGRFAEVSDPTVGVDFFSRLIEIEPGVRIKLQLWDTAGQ 62 (211)
T ss_pred ceEEEEECCCCCCHHHHHHHHHcCCCCCCCCceeceEEEEEEEEECCCCEEEEEEEeCCcc
Confidence 5899999999999999999999999998899999999888777653 3789999999984
No 65
>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=99.67 E-value=6.8e-16 Score=86.18 Aligned_cols=58 Identities=50% Similarity=0.685 Sum_probs=51.1
Q ss_pred eeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeC---CEEEEEEEcCCCC
Q psy2514 13 GTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCR---GTFTRDYKKTIGA 70 (71)
Q Consensus 13 ~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~---~~~~l~i~Dt~G~ 70 (71)
+|++++|++++|||||+.++..+.|...+.||++.++..+.+..+ ..+.+++|||+|.
T Consensus 1 ~kv~~vG~~~~GKTsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~i~D~~G~ 61 (162)
T cd04106 1 IKVIVVGNGNVGKSSMIQRFVKGIFTKDYKKTIGVDFLEKQIFLRQSDEDVRLMLWDTAGQ 61 (162)
T ss_pred CEEEEECCCCCCHHHHHHHHhcCCCCCCCCCcEEEEEEEEEEEEcCCCCEEEEEEeeCCch
Confidence 489999999999999999999999999999999999876666554 3789999999984
No 66
>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=99.67 E-value=5.2e-16 Score=87.40 Aligned_cols=58 Identities=33% Similarity=0.508 Sum_probs=49.1
Q ss_pred eeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514 13 GTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA 70 (71)
Q Consensus 13 ~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~ 70 (71)
+||+++|+++||||||++++..+.|...|.||++..+..........+.+++|||+|.
T Consensus 2 ~kv~~vG~~~vGKTsli~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~ 59 (165)
T cd04140 2 YRVVVFGAGGVGKSSLVLRFVKGTFRESYIPTIEDTYRQVISCSKNICTLQITDTTGS 59 (165)
T ss_pred eEEEEECCCCCCHHHHHHHHHhCCCCCCcCCcchheEEEEEEECCEEEEEEEEECCCC
Confidence 7899999999999999999999999989999998766443333344788999999985
No 67
>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=99.67 E-value=9.1e-16 Score=86.07 Aligned_cols=60 Identities=32% Similarity=0.471 Sum_probs=53.6
Q ss_pred eeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514 11 IKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA 70 (71)
Q Consensus 11 ~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~ 70 (71)
..+|++++|+++||||+|++++..+.|...+.|+++.++....+..++ .+.+++|||+|.
T Consensus 2 ~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~ 62 (165)
T cd01868 2 YLFKIVLIGDSGVGKSNLLSRFTRNEFNLDSKSTIGVEFATRSIQIDGKTIKAQIWDTAGQ 62 (165)
T ss_pred CceEEEEECCCCCCHHHHHHHHhcCCCCCCCCCccceEEEEEEEEECCEEEEEEEEeCCCh
Confidence 358999999999999999999999999988999999998887777766 678999999984
No 68
>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=5.1e-16 Score=87.60 Aligned_cols=56 Identities=25% Similarity=0.316 Sum_probs=46.1
Q ss_pred eeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514 13 GTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA 70 (71)
Q Consensus 13 ~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~ 70 (71)
+|++++|+++||||||+.+|..+.|.+.+.|+ +.+|. +.+..++ .+.+.+|||+|+
T Consensus 1 ~ki~vvG~~gvGKTsli~~~~~~~f~~~~~~~-~~~~~-~~i~~~~~~~~l~i~D~~g~ 57 (158)
T cd04103 1 LKLGIVGNLQSGKSALVHRYLTGSYVQLESPE-GGRFK-KEVLVDGQSHLLLIRDEGGA 57 (158)
T ss_pred CEEEEECCCCCcHHHHHHHHHhCCCCCCCCCC-ccceE-EEEEECCEEEEEEEEECCCC
Confidence 48999999999999999999999998877665 44564 4455555 778999999986
No 69
>PTZ00132 GTP-binding nuclear protein Ran; Provisional
Probab=99.66 E-value=1.1e-15 Score=89.57 Aligned_cols=64 Identities=27% Similarity=0.511 Sum_probs=55.9
Q ss_pred ccCceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeC-CEEEEEEEcCCCC
Q psy2514 7 LRGSIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCR-GTFTRDYKKTIGA 70 (71)
Q Consensus 7 ~~~~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~-~~~~l~i~Dt~G~ 70 (71)
+.+...+|++++|++|||||||+.+++.+.|...|.||++.++.......+ +.+.+++|||+|.
T Consensus 4 ~~~~~~~kv~liG~~g~GKTtLi~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~i~~~Dt~g~ 68 (215)
T PTZ00132 4 MDEVPEFKLILVGDGGVGKTTFVKRHLTGEFEKKYIPTLGVEVHPLKFYTNCGPICFNVWDTAGQ 68 (215)
T ss_pred ccCCCCceEEEECCCCCCHHHHHHHHHhCCCCCCCCCccceEEEEEEEEECCeEEEEEEEECCCc
Confidence 345667999999999999999999999999999999999999887766554 5899999999984
No 70
>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=99.66 E-value=5.9e-16 Score=86.68 Aligned_cols=58 Identities=28% Similarity=0.390 Sum_probs=48.6
Q ss_pred eeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514 13 GTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA 70 (71)
Q Consensus 13 ~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~ 70 (71)
+||+++|++++|||||+.++..+.|...+.||++..+.......+..+.+++|||+|.
T Consensus 1 ~ki~v~G~~~~GKTsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~g~ 58 (164)
T smart00173 1 YKLVVLGSGGVGKSALTIQFVQGHFVDDYDPTIEDSYRKQIEIDGEVCLLDILDTAGQ 58 (164)
T ss_pred CEEEEECCCCCCHHHHHHHHHhCcCCcccCCchhhhEEEEEEECCEEEEEEEEECCCc
Confidence 5899999999999999999999999999999998665544333344789999999984
No 71
>KOG0088|consensus
Probab=99.66 E-value=5.6e-17 Score=92.11 Aligned_cols=64 Identities=23% Similarity=0.280 Sum_probs=58.3
Q ss_pred ccCceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514 7 LRGSIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA 70 (71)
Q Consensus 7 ~~~~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~ 70 (71)
-.+..+||++++|+..||||||.-||+.+.|...+.+|+...|..+.+..++ +..+.||||||+
T Consensus 8 ~g~s~~FK~VLLGEGCVGKtSLVLRy~EnkFn~kHlsTlQASF~~kk~n~ed~ra~L~IWDTAGQ 72 (218)
T KOG0088|consen 8 DGKSFKFKIVLLGEGCVGKTSLVLRYVENKFNCKHLSTLQASFQNKKVNVEDCRADLHIWDTAGQ 72 (218)
T ss_pred cCCceeeEEEEEcCCccchhHHHHHHHHhhcchhhHHHHHHHHhhcccccccceeeeeeeeccch
Confidence 3456889999999999999999999999999999999999999988887765 889999999996
No 72
>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=99.66 E-value=7.5e-16 Score=87.39 Aligned_cols=57 Identities=30% Similarity=0.395 Sum_probs=48.1
Q ss_pred eeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514 13 GTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA 70 (71)
Q Consensus 13 ~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~ 70 (71)
+|++++|++++|||||+.++..+.|..+|.||....+.. .+..++ .+.+++|||+|.
T Consensus 1 ~k~~i~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~-~~~~~~~~~~~~i~Dt~G~ 58 (173)
T cd04130 1 LKCVLVGDGAVGKTSLIVSYTTNGYPTEYVPTAFDNFSV-VVLVDGKPVRLQLCDTAGQ 58 (173)
T ss_pred CEEEEECCCCCCHHHHHHHHHhCCCCCCCCCceeeeeeE-EEEECCEEEEEEEEECCCC
Confidence 589999999999999999999999999999998654444 444555 789999999985
No 73
>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=99.66 E-value=1.6e-15 Score=85.67 Aligned_cols=60 Identities=23% Similarity=0.274 Sum_probs=53.5
Q ss_pred eeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514 11 IKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA 70 (71)
Q Consensus 11 ~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~ 70 (71)
..+||+++|+++||||+|++++..+.+...+.++.+.++....+..++ .+.+.+|||+|.
T Consensus 3 ~~~ki~vvG~~~vGKSsLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~ 63 (168)
T cd01866 3 YLFKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMITIDGKQIKLQIWDTAGQ 63 (168)
T ss_pred cceEEEEECCCCCCHHHHHHHHHcCCCCCCCCCccceeEEEEEEEECCEEEEEEEEECCCc
Confidence 458999999999999999999999999988899999988877776665 678999999994
No 74
>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=99.65 E-value=1.3e-15 Score=85.11 Aligned_cols=58 Identities=26% Similarity=0.403 Sum_probs=52.1
Q ss_pred eeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514 13 GTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA 70 (71)
Q Consensus 13 ~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~ 70 (71)
+|++++|+++||||||++++..+.+...+.++.+.++....+..++ .+.+++|||+|.
T Consensus 1 ~ki~v~G~~~vGKTsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~l~D~~G~ 59 (161)
T cd04113 1 FKFIIIGSSGTGKSCLLHRFVENKFKEDSQHTIGVEFGSKIIRVGGKRVKLQIWDTAGQ 59 (161)
T ss_pred CEEEEECCCCCCHHHHHHHHHhCCCCCCCCCceeeeEEEEEEEECCEEEEEEEEECcch
Confidence 5899999999999999999999999988999999888877777666 688999999984
No 75
>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=99.65 E-value=1.3e-15 Score=85.23 Aligned_cols=58 Identities=22% Similarity=0.313 Sum_probs=50.0
Q ss_pred eeEEEEeCCCCCHHHHHHHHHhC--cCCCCccCCcceeeEEEEEEeC--CEEEEEEEcCCCC
Q psy2514 13 GTVVIVGNGAVGKSSMIQRYCRG--TFTRDYKKTIGVKSSMIQRYCR--GTFTRDYKKTIGA 70 (71)
Q Consensus 13 ~ki~v~G~~~vGKtsl~~~~~~~--~f~~~~~~t~~~~~~~~~~~~~--~~~~l~i~Dt~G~ 70 (71)
+|++++|++++|||||+.++..+ .|+.+|.||++.++..+....+ ..+.+.+|||+|.
T Consensus 1 ~ki~vvG~~~~GKtsl~~~l~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~G~ 62 (164)
T cd04101 1 LRCAVVGDPAVGKTAFVQMFHSNGAVFPKNYLMTTGCDFVVKEVPVDTDNTVELFIFDSAGQ 62 (164)
T ss_pred CEEEEECCCCCCHHHHHHHHhcCCCCcCccCCCceEEEEEEEEEEeCCCCEEEEEEEECCCH
Confidence 48999999999999999999865 7888999999999877666553 4789999999984
No 76
>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=99.65 E-value=2.1e-15 Score=84.29 Aligned_cols=59 Identities=25% Similarity=0.390 Sum_probs=52.7
Q ss_pred eeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514 12 KGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA 70 (71)
Q Consensus 12 ~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~ 70 (71)
.+|++++|++++|||+|++++..+.+...+.|+.+.++..+.+..++ .+.+.+|||+|.
T Consensus 1 ~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~v~~~~~~~~~~i~D~~G~ 60 (163)
T cd01860 1 QFKLVLLGDSSVGKSSLVLRFVKNEFSENQESTIGAAFLTQTVNLDDTTVKFEIWDTAGQ 60 (163)
T ss_pred CeEEEEECCCCCCHHHHHHHHHcCCCCCCCCCccceeEEEEEEEECCEEEEEEEEeCCch
Confidence 37999999999999999999999999888899999888777777765 789999999985
No 77
>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=99.65 E-value=1.6e-15 Score=87.41 Aligned_cols=58 Identities=22% Similarity=0.407 Sum_probs=50.8
Q ss_pred eeEEEEeCCCCCHHHHHHHHHhCcCCC-CccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514 13 GTVVIVGNGAVGKSSMIQRYCRGTFTR-DYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA 70 (71)
Q Consensus 13 ~ki~v~G~~~vGKtsl~~~~~~~~f~~-~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~ 70 (71)
+||+++|++++|||||+.++..++|.. ++.+|++.++....+..++ .+.++||||+|+
T Consensus 1 ~Ki~vvG~~~vGKTSli~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~ 60 (191)
T cd04112 1 FKVMLLGDSGVGKTCLLVRFKDGAFLNGNFIATVGIDFRNKVVTVDGVKVKLQIWDTAGQ 60 (191)
T ss_pred CEEEEECCCCCCHHHHHHHHhcCCCCccCcCCcccceeEEEEEEECCEEEEEEEEeCCCc
Confidence 589999999999999999999999864 6889999888777676665 788999999985
No 78
>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=99.64 E-value=1.7e-15 Score=84.67 Aligned_cols=59 Identities=27% Similarity=0.322 Sum_probs=49.4
Q ss_pred eeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514 12 KGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA 70 (71)
Q Consensus 12 ~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~ 70 (71)
.+|++++|++++|||||+.++..+.+...+.||++..+.......+..+.+++|||+|.
T Consensus 2 ~~ki~i~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~i~Dt~G~ 60 (164)
T cd04145 2 TYKLVVVGGGGVGKSALTIQFIQSYFVTDYDPTIEDSYTKQCEIDGQWAILDILDTAGQ 60 (164)
T ss_pred ceEEEEECCCCCcHHHHHHHHHhCCCCcccCCCccceEEEEEEECCEEEEEEEEECCCC
Confidence 48999999999999999999999999988999998766544333334689999999994
No 79
>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=99.64 E-value=1.5e-15 Score=85.85 Aligned_cols=57 Identities=26% Similarity=0.437 Sum_probs=48.3
Q ss_pred eeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514 13 GTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA 70 (71)
Q Consensus 13 ~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~ 70 (71)
+|++++|++++|||||+.++..+.|...|.|+++..+... +..++ .+.+++|||+|.
T Consensus 1 ~ki~i~G~~~~GKTsl~~~~~~~~~~~~~~~t~~~~~~~~-~~~~~~~~~~~i~Dt~G~ 58 (174)
T cd04135 1 LKCVVVGDGAVGKTCLLMSYANDAFPEEYVPTVFDHYAVS-VTVGGKQYLLGLYDTAGQ 58 (174)
T ss_pred CEEEEECCCCCCHHHHHHHHHhCCCCCCCCCceeeeeEEE-EEECCEEEEEEEEeCCCc
Confidence 5899999999999999999999999988999988665543 44444 788999999985
No 80
>KOG0081|consensus
Probab=99.64 E-value=5.4e-18 Score=96.28 Aligned_cols=62 Identities=19% Similarity=0.314 Sum_probs=54.6
Q ss_pred CceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeC----------CEEEEEEEcCCCC
Q psy2514 9 GSIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCR----------GTFTRDYKKTIGA 70 (71)
Q Consensus 9 ~~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~----------~~~~l~i~Dt~G~ 70 (71)
.++.+|.+.+||+||||||++++|.++.|..++.+|+|+||..+.+..+ .++.+++|||||+
T Consensus 6 ydylikfLaLGDSGVGKTs~Ly~YTD~~F~~qFIsTVGIDFreKrvvY~s~gp~g~gr~~rihLQlWDTAGQ 77 (219)
T KOG0081|consen 6 YDYLIKFLALGDSGVGKTSFLYQYTDGKFNTQFISTVGIDFREKRVVYNSSGPGGGGRGQRIHLQLWDTAGQ 77 (219)
T ss_pred HHHHHHHHhhccCCCCceEEEEEecCCcccceeEEEeecccccceEEEeccCCCCCCcceEEEEeeeccccH
Confidence 3566899999999999999999999999999999999999997766552 1689999999995
No 81
>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=99.64 E-value=1.4e-15 Score=88.49 Aligned_cols=59 Identities=24% Similarity=0.256 Sum_probs=43.8
Q ss_pred eeeEEEEeCCCCCHHHHHH-HHHhC-----cCCCCccCCcce-e-eEEEE--------EEeCCEEEEEEEcCCCC
Q psy2514 12 KGTVVIVGNGAVGKSSMIQ-RYCRG-----TFTRDYKKTIGV-K-SSMIQ--------RYCRGTFTRDYKKTIGA 70 (71)
Q Consensus 12 ~~ki~v~G~~~vGKtsl~~-~~~~~-----~f~~~~~~t~~~-~-~~~~~--------~~~~~~~~l~i~Dt~G~ 70 (71)
.+||+++|+++||||||+. ++..+ .|..+|.||++. + |.... ...+..+.++||||||.
T Consensus 2 ~~Kiv~vG~~~vGKTsLi~~~~~~~~~~~~~f~~~~~pTi~~~~~~~~~~~~~~~~~~~~~~~~v~l~iwDTaG~ 76 (195)
T cd01873 2 TIKCVVVGDNAVGKTRLICARACNKTLTQYQLLATHVPTVWAIDQYRVCQEVLERSRDVVDGVSVSLRLWDTFGD 76 (195)
T ss_pred ceEEEEECCCCcCHHHHHHHHHhCCCcccccCccccCCceecccceeEEeeeccccceeeCCEEEEEEEEeCCCC
Confidence 4799999999999999995 56544 456778999973 3 43321 23344899999999995
No 82
>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=99.63 E-value=1.5e-15 Score=85.76 Aligned_cols=56 Identities=29% Similarity=0.384 Sum_probs=47.5
Q ss_pred EEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514 15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA 70 (71)
Q Consensus 15 i~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~ 70 (71)
|+++|+++||||||+.++..+.|...|.|+++..+.......+..+.+.+|||+|.
T Consensus 1 i~i~G~~~vGKTsli~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~ 56 (174)
T smart00174 1 LVVVGDGAVGKTCLLISYTTNAFPEDYVPTVFENYSADVEVDGKPVELGLWDTAGQ 56 (174)
T ss_pred CEEECCCCCCHHHHHHHHHhCCCCCCCCCcEEeeeeEEEEECCEEEEEEEEECCCC
Confidence 57899999999999999999999999999998777654444344789999999984
No 83
>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=99.63 E-value=2.3e-15 Score=84.97 Aligned_cols=57 Identities=25% Similarity=0.365 Sum_probs=48.9
Q ss_pred eeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeC-CEEEEEEEcCCCC
Q psy2514 13 GTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCR-GTFTRDYKKTIGA 70 (71)
Q Consensus 13 ~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~-~~~~l~i~Dt~G~ 70 (71)
+|++++|++++|||||++++..+.|...+.||++..+. +.+..+ ..+.+++|||+|.
T Consensus 2 ~ki~liG~~~~GKTsli~~~~~~~~~~~~~~t~~~~~~-~~~~~~~~~~~~~i~Dt~G~ 59 (168)
T cd04177 2 YKIVVLGAGGVGKSALTVQFVQNVFIESYDPTIEDSYR-KQVEIDGRQCDLEILDTAGT 59 (168)
T ss_pred eEEEEECCCCCCHHHHHHHHHhCCCCcccCCcchheEE-EEEEECCEEEEEEEEeCCCc
Confidence 78999999999999999999999999889999987664 444444 4789999999984
No 84
>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=99.63 E-value=3.8e-15 Score=83.11 Aligned_cols=58 Identities=31% Similarity=0.492 Sum_probs=52.4
Q ss_pred eeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514 13 GTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA 70 (71)
Q Consensus 13 ~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~ 70 (71)
+|++++|++++|||||++++..+++...+.|+.+.++..+.+..++ .+.+++|||+|.
T Consensus 1 ~ki~liG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~D~~G~ 59 (161)
T cd01861 1 HKLVFLGDQSVGKTSIITRFMYDTFDNQYQATIGIDFLSKTMYLEDKTVRLQLWDTAGQ 59 (161)
T ss_pred CEEEEECCCCCCHHHHHHHHHcCCCCccCCCceeeeEEEEEEEECCEEEEEEEEECCCc
Confidence 4899999999999999999999999888999999999888887766 678999999984
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=99.62 E-value=1.7e-15 Score=85.18 Aligned_cols=57 Identities=19% Similarity=0.326 Sum_probs=47.8
Q ss_pred eEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514 14 TVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA 70 (71)
Q Consensus 14 ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~ 70 (71)
||+++|+++||||||+.+++.+.|..+|.|+.+..+.......+..+.+++|||+|.
T Consensus 1 ki~vvG~~~~GKtsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~i~D~~g~ 57 (165)
T cd04146 1 KIAVLGASGVGKSALVVRFLTKRFIGEYDPNLESLYSRQVTIDGEQVSLEILDTAGQ 57 (165)
T ss_pred CEEEECCCCCcHHHHHHHHHhCccccccCCChHHhceEEEEECCEEEEEEEEECCCC
Confidence 689999999999999999999999888999987666544434344788999999984
No 86
>COG1100 GTPase SAR1 and related small G proteins [General function prediction only]
Probab=99.62 E-value=3.5e-15 Score=87.07 Aligned_cols=59 Identities=24% Similarity=0.369 Sum_probs=54.2
Q ss_pred eeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514 12 KGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA 70 (71)
Q Consensus 12 ~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~ 70 (71)
.+|++++|++++|||||+.++..+.|...|.||++.++........+ .+++.+|||+|.
T Consensus 5 ~~kivv~G~~g~GKTtl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~Dt~gq 64 (219)
T COG1100 5 EFKIVVLGDGGVGKTTLLNRLVGDEFPEGYPPTIGNLDPAKTIEPYRRNIKLQLWDTAGQ 64 (219)
T ss_pred eEEEEEEcCCCccHHHHHHHHhcCcCcccCCCceeeeeEEEEEEeCCCEEEEEeecCCCH
Confidence 38999999999999999999999999999999999988888877765 889999999985
No 87
>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=99.62 E-value=3.7e-15 Score=88.02 Aligned_cols=58 Identities=21% Similarity=0.230 Sum_probs=49.6
Q ss_pred eeEEEEeCCCCCHHHHHHHHHhCcCC-CCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514 13 GTVVIVGNGAVGKSSMIQRYCRGTFT-RDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA 70 (71)
Q Consensus 13 ~ki~v~G~~~vGKtsl~~~~~~~~f~-~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~ 70 (71)
+||+++|+++||||||+.+|..+.|. ..|.|+.+.++..+.+..++ .+.+.+|||+|.
T Consensus 1 ~KI~lvG~~gvGKTsLi~~~~~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~i~Dt~G~ 60 (221)
T cd04148 1 YRVVMLGSPGVGKSSLASQFTSGEYDDHAYDASGDDDTYERTVSVDGEESTLVVIDHWEQ 60 (221)
T ss_pred CEEEEECCCCCcHHHHHHHHhcCCcCccCcCCCccccceEEEEEECCEEEEEEEEeCCCc
Confidence 58999999999999999999999987 77888887677666666654 788999999985
No 88
>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=99.62 E-value=5.8e-15 Score=83.02 Aligned_cols=58 Identities=29% Similarity=0.447 Sum_probs=51.5
Q ss_pred eeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514 13 GTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA 70 (71)
Q Consensus 13 ~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~ 70 (71)
+||+++|++++|||||++++.++.+...+.++++.++..+.+..++ .+.+++||++|.
T Consensus 1 ~ki~viG~~~~GKSsl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~D~~g~ 59 (172)
T cd01862 1 LKVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVTVDDKLVTLQIWDTAGQ 59 (172)
T ss_pred CEEEEECCCCCCHHHHHHHHhcCCCCcCcCCccceEEEEEEEEECCEEEEEEEEeCCCh
Confidence 5899999999999999999999999888899999888777766665 788999999984
No 89
>PLN03118 Rab family protein; Provisional
Probab=99.60 E-value=1.2e-14 Score=85.00 Aligned_cols=61 Identities=25% Similarity=0.377 Sum_probs=52.5
Q ss_pred CceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514 9 GSIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA 70 (71)
Q Consensus 9 ~~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~ 70 (71)
....+|++++|+++||||||+.+++.+.+. .+.|+.+.++....+..++ .+.+.+|||+|.
T Consensus 11 ~~~~~kv~ivG~~~vGKTsli~~l~~~~~~-~~~~t~~~~~~~~~~~~~~~~~~l~l~Dt~G~ 72 (211)
T PLN03118 11 YDLSFKILLIGDSGVGKSSLLVSFISSSVE-DLAPTIGVDFKIKQLTVGGKRLKLTIWDTAGQ 72 (211)
T ss_pred cCcceEEEEECcCCCCHHHHHHHHHhCCCC-CcCCCceeEEEEEEEEECCEEEEEEEEECCCc
Confidence 456799999999999999999999998874 6789999888777776665 788999999995
No 90
>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=99.60 E-value=4.5e-15 Score=86.77 Aligned_cols=53 Identities=26% Similarity=0.459 Sum_probs=47.7
Q ss_pred EeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514 18 VGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA 70 (71)
Q Consensus 18 ~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~ 70 (71)
+|+++||||||+.+|+.+.|...|.||++.++....+..++ .+.++||||+|.
T Consensus 1 vG~~~vGKTsLi~r~~~~~f~~~~~~Tig~~~~~~~~~~~~~~~~l~iwDt~G~ 54 (200)
T smart00176 1 VGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIRFNVWDTAGQ 54 (200)
T ss_pred CCCCCCCHHHHHHHHhcCCCCCCCCCceeEEEEEEEEEECCEEEEEEEEECCCc
Confidence 59999999999999999999989999999998877776655 799999999995
No 91
>smart00175 RAB Rab subfamily of small GTPases. Rab GTPases are implicated in vesicle trafficking.
Probab=99.59 E-value=1.4e-14 Score=80.76 Aligned_cols=58 Identities=31% Similarity=0.533 Sum_probs=51.8
Q ss_pred eeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514 13 GTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA 70 (71)
Q Consensus 13 ~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~ 70 (71)
+|++++|++++|||||++++....+...+.++++.++....+..++ .+.+++||++|.
T Consensus 1 ~kv~v~G~~~~GKTtli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~D~~G~ 59 (164)
T smart00175 1 FKIILIGDSGVGKSSLLSRFTDGKFSEQYKSTIGVDFKTKTIEVDGKRVKLQIWDTAGQ 59 (164)
T ss_pred CEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeEEEEEEEEECCEEEEEEEEECCCh
Confidence 5899999999999999999999999888899999988877777766 678999999984
No 92
>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=99.59 E-value=8e-15 Score=86.85 Aligned_cols=54 Identities=30% Similarity=0.433 Sum_probs=46.5
Q ss_pred eeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514 13 GTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA 70 (71)
Q Consensus 13 ~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~ 70 (71)
+|++++|+++||||||+.++..++|.. +.||++.++..... +.+.+.||||+|.
T Consensus 1 ~KIvivG~~~vGKTSLi~r~~~~~f~~-~~~Tig~~~~~~~~---~~~~l~iwDt~G~ 54 (220)
T cd04126 1 LKVVLLGDMNVGKTSLLHRYMERRFKD-TVSTVGGAFYLKQW---GPYNISIWDTAGR 54 (220)
T ss_pred CEEEEECCCCCcHHHHHHHHhcCCCCC-CCCccceEEEEEEe---eEEEEEEEeCCCc
Confidence 589999999999999999999999985 68999987765433 4688999999985
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=99.59 E-value=9.9e-15 Score=81.32 Aligned_cols=58 Identities=24% Similarity=0.311 Sum_probs=49.5
Q ss_pred eeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514 13 GTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA 70 (71)
Q Consensus 13 ~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~ 70 (71)
+|++++|++++|||||+.++..+.|...+.|+++..+.......+..+.+.+|||+|.
T Consensus 1 ~ki~~~G~~~~GKTsl~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~ 58 (164)
T cd04139 1 YKVIVVGAGGVGKSALTLQFMYDEFVEDYEPTKADSYRKKVVLDGEDVQLNILDTAGQ 58 (164)
T ss_pred CEEEEECCCCCCHHHHHHHHHhCCCccccCCcchhhEEEEEEECCEEEEEEEEECCCh
Confidence 5899999999999999999999999999999998766554444345789999999984
No 94
>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=99.58 E-value=2.4e-14 Score=79.95 Aligned_cols=58 Identities=29% Similarity=0.447 Sum_probs=51.0
Q ss_pred eeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514 13 GTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA 70 (71)
Q Consensus 13 ~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~ 70 (71)
+|++++|++++|||||++++..+.+...+.|+.+.++....+..++ .+.+.+|||+|.
T Consensus 1 ~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~D~~g~ 59 (161)
T cd01863 1 LKILLIGDSGVGKSSLLLRFTDDTFDPDLAATIGVDFKVKTLTVDGKKVKLAIWDTAGQ 59 (161)
T ss_pred CEEEEECCCCCCHHHHHHHHHcCCCCcccCCcccceEEEEEEEECCEEEEEEEEECCCc
Confidence 5899999999999999999999999888899999888776666654 688999999984
No 95
>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=99.57 E-value=2.4e-14 Score=80.44 Aligned_cols=58 Identities=28% Similarity=0.383 Sum_probs=49.3
Q ss_pred eeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514 13 GTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA 70 (71)
Q Consensus 13 ~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~ 70 (71)
+|++++|++++|||||++++..+.+...+.|+....+.......+..+.+++|||+|.
T Consensus 1 iki~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~D~~g~ 58 (171)
T cd00157 1 IKIVVVGDGAVGKTCLLISYTTGKFPTEYVPTVFDNYSATVTVDGKQVNLGLWDTAGQ 58 (171)
T ss_pred CEEEEECCCCCCHHHHHHHHHhCCCCCCCCCceeeeeEEEEEECCEEEEEEEEeCCCc
Confidence 5899999999999999999999999888889988666555544445889999999984
No 96
>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=99.57 E-value=5.4e-14 Score=79.04 Aligned_cols=61 Identities=26% Similarity=0.441 Sum_probs=53.6
Q ss_pred ceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514 10 SIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA 70 (71)
Q Consensus 10 ~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~ 70 (71)
...+|++++|+++||||||+.++..+.+...+.++++.++..+.+..++ .+.+.+||++|.
T Consensus 5 ~~~~~v~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~D~~g~ 66 (169)
T cd04114 5 DFLFKIVLIGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEIKGEKIKLQIWDTAGQ 66 (169)
T ss_pred CceeEEEEECCCCCCHHHHHHHHHhCCCCCCCCCceeeEEEEEEEEECCEEEEEEEEECCCc
Confidence 4569999999999999999999999998888889999888877777766 688999999984
No 97
>KOG0395|consensus
Probab=99.55 E-value=5.7e-15 Score=86.24 Aligned_cols=59 Identities=27% Similarity=0.363 Sum_probs=52.7
Q ss_pred eeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514 12 KGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA 70 (71)
Q Consensus 12 ~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~ 70 (71)
.+|++++|.+|||||+|..+|..+.|.+.|.||+++.|......+++.+.++|+||+|.
T Consensus 3 ~~kvvvlG~~gVGKSal~~qf~~~~f~~~y~ptied~y~k~~~v~~~~~~l~ilDt~g~ 61 (196)
T KOG0395|consen 3 EYKVVVLGAGGVGKSALTIQFLTGRFVEDYDPTIEDSYRKELTVDGEVCMLEILDTAGQ 61 (196)
T ss_pred ceEEEEECCCCCCcchheeeecccccccccCCCccccceEEEEECCEEEEEEEEcCCCc
Confidence 58999999999999999999999999999999999767666666556899999999983
No 98
>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=99.55 E-value=6.5e-14 Score=77.80 Aligned_cols=58 Identities=26% Similarity=0.335 Sum_probs=50.3
Q ss_pred eeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514 13 GTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA 70 (71)
Q Consensus 13 ~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~ 70 (71)
+|++++|++++|||||++++..+.+...+.+++..++....+...+ .+.+.+||++|.
T Consensus 1 ~ki~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~ 59 (162)
T cd04123 1 FKVVLLGEGRVGKTSLVLRYVENKFNEKHESTTQASFFQKTVNIGGKRIDLAIWDTAGQ 59 (162)
T ss_pred CEEEEECCCCCCHHHHHHHHHhCCCCCCcCCccceeEEEEEEEECCEEEEEEEEECCch
Confidence 5899999999999999999999999888888888777766666655 678999999984
No 99
>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=99.55 E-value=3.8e-14 Score=79.94 Aligned_cols=57 Identities=18% Similarity=0.233 Sum_probs=44.2
Q ss_pred eeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514 13 GTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA 70 (71)
Q Consensus 13 ~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~ 70 (71)
.|++++|+++||||||+.++..+.|+..+ |+...++.......+..+.+++|||+|.
T Consensus 1 ~kv~ivG~~~vGKTsl~~~l~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~i~Dt~G~ 57 (166)
T cd01893 1 VRIVLIGDEGVGKSSLIMSLVSEEFPENV-PRVLPEITIPADVTPERVPTTIVDTSSR 57 (166)
T ss_pred CEEEEECCCCCCHHHHHHHHHhCcCCccC-CCcccceEeeeeecCCeEEEEEEeCCCc
Confidence 48999999999999999999999998765 4444444433333345789999999985
No 100
>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=99.55 E-value=3.3e-14 Score=81.12 Aligned_cols=57 Identities=18% Similarity=0.184 Sum_probs=46.8
Q ss_pred ceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514 10 SIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA 70 (71)
Q Consensus 10 ~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~ 70 (71)
...+|++++|++++|||||+.++..++|. .+.||++.++.. ... ..+.+.+|||+|.
T Consensus 11 ~~~~ki~l~G~~~~GKTsL~~~~~~~~~~-~~~~t~~~~~~~--~~~-~~~~l~l~D~~G~ 67 (175)
T smart00177 11 NKEMRILMVGLDAAGKTTILYKLKLGESV-TTIPTIGFNVET--VTY-KNISFTVWDVGGQ 67 (175)
T ss_pred CCccEEEEEcCCCCCHHHHHHHHhcCCCC-CcCCccccceEE--EEE-CCEEEEEEECCCC
Confidence 34699999999999999999999988885 578999977643 322 4588999999995
No 101
>KOG0083|consensus
Probab=99.55 E-value=3.1e-16 Score=87.14 Aligned_cols=54 Identities=19% Similarity=0.355 Sum_probs=49.1
Q ss_pred EEeCCCCCHHHHHHHHHhCcCC-CCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514 17 IVGNGAVGKSSMIQRYCRGTFT-RDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA 70 (71)
Q Consensus 17 v~G~~~vGKtsl~~~~~~~~f~-~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~ 70 (71)
++||+++|||+|+.||.++.|- .++.+|+|+||..+.+..++ +++++||||||+
T Consensus 2 llgds~~gktcllir~kdgafl~~~fistvgid~rnkli~~~~~kvklqiwdtagq 57 (192)
T KOG0083|consen 2 LLGDSCTGKTCLLIRFKDGAFLAGNFISTVGIDFRNKLIDMDDKKVKLQIWDTAGQ 57 (192)
T ss_pred ccccCccCceEEEEEeccCceecCceeeeeeeccccceeccCCcEEEEEEeeccch
Confidence 6899999999999999999885 46889999999999887766 899999999996
No 102
>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=99.55 E-value=3.3e-14 Score=80.73 Aligned_cols=57 Identities=14% Similarity=0.170 Sum_probs=46.8
Q ss_pred ceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514 10 SIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA 70 (71)
Q Consensus 10 ~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~ 70 (71)
...+|++++|+++||||||+.++..+.|. .+.||++.++.. ... ..+.+++|||+|.
T Consensus 7 ~~~~kv~i~G~~~~GKTsli~~l~~~~~~-~~~~t~g~~~~~--~~~-~~~~~~l~Dt~G~ 63 (168)
T cd04149 7 NKEMRILMLGLDAAGKTTILYKLKLGQSV-TTIPTVGFNVET--VTY-KNVKFNVWDVGGQ 63 (168)
T ss_pred CCccEEEEECcCCCCHHHHHHHHccCCCc-cccCCcccceEE--EEE-CCEEEEEEECCCC
Confidence 34689999999999999999999988886 478999977642 222 4688999999995
No 103
>PTZ00133 ADP-ribosylation factor; Provisional
Probab=99.54 E-value=3.8e-14 Score=81.42 Aligned_cols=57 Identities=18% Similarity=0.198 Sum_probs=47.1
Q ss_pred ceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514 10 SIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA 70 (71)
Q Consensus 10 ~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~ 70 (71)
+..+|++++|+++||||||+.++..+.|.. +.||++.++. .+.. ..+.+++|||+|.
T Consensus 15 ~~~~kv~lvG~~~vGKTsli~~~~~~~~~~-~~~T~~~~~~--~~~~-~~~~~~l~D~~G~ 71 (182)
T PTZ00133 15 KKEVRILMVGLDAAGKTTILYKLKLGEVVT-TIPTIGFNVE--TVEY-KNLKFTMWDVGGQ 71 (182)
T ss_pred CCccEEEEEcCCCCCHHHHHHHHhcCCccc-cCCccccceE--EEEE-CCEEEEEEECCCC
Confidence 446999999999999999999999888875 7899997664 2322 4588999999995
No 104
>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=99.54 E-value=3.8e-14 Score=79.74 Aligned_cols=54 Identities=19% Similarity=0.217 Sum_probs=44.9
Q ss_pred eeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514 13 GTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA 70 (71)
Q Consensus 13 ~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~ 70 (71)
+|++++|+++||||||+.++..+.|. .+.||++.++. .+.. ..+.+++|||+|.
T Consensus 1 ~kv~~~G~~~~GKTsli~~l~~~~~~-~~~pt~g~~~~--~~~~-~~~~~~l~D~~G~ 54 (159)
T cd04150 1 MRILMVGLDAAGKTTILYKLKLGEIV-TTIPTIGFNVE--TVEY-KNISFTVWDVGGQ 54 (159)
T ss_pred CEEEEECCCCCCHHHHHHHHhcCCCc-ccCCCCCcceE--EEEE-CCEEEEEEECCCC
Confidence 48999999999999999999988887 47899997653 2332 4688999999995
No 105
>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=99.54 E-value=8.6e-14 Score=76.59 Aligned_cols=58 Identities=33% Similarity=0.527 Sum_probs=51.8
Q ss_pred eeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514 13 GTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA 70 (71)
Q Consensus 13 ~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~ 70 (71)
+|++++|++++|||||+.++..+.+...+.+|.+.++....+..++ .+.+.+||++|.
T Consensus 1 ~~i~~~G~~~~GKStl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~ 59 (159)
T cd00154 1 FKIVLIGDSGVGKTSLLLRFVDGKFDENYKSTIGVDFKSKTIEIDGKTVKLQIWDTAGQ 59 (159)
T ss_pred CeEEEECCCCCCHHHHHHHHHhCcCCCccCCceeeeeEEEEEEECCEEEEEEEEecCCh
Confidence 5899999999999999999999999988889999988887777765 688999999984
No 106
>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=99.54 E-value=4.8e-14 Score=80.90 Aligned_cols=58 Identities=19% Similarity=0.241 Sum_probs=47.8
Q ss_pred eeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEe-C-CEEEEEEEcCCCC
Q psy2514 12 KGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYC-R-GTFTRDYKKTIGA 70 (71)
Q Consensus 12 ~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~-~-~~~~l~i~Dt~G~ 70 (71)
.+|++++|+++||||||+.++..+.|... .||.+.++....+.. + ..+.+++|||+|.
T Consensus 3 ~~kv~~vG~~~~GKTsli~~~~~~~~~~~-~~t~~~~~~~~~~~~~~~~~~~l~l~Dt~G~ 62 (183)
T cd04152 3 SLHIVMLGLDSAGKTTVLYRLKFNEFVNT-VPTKGFNTEKIKVSLGNSKGITFHFWDVGGQ 62 (183)
T ss_pred ceEEEEECCCCCCHHHHHHHHhcCCcCCc-CCccccceeEEEeeccCCCceEEEEEECCCc
Confidence 58999999999999999999999888764 689887765554443 2 4688999999985
No 107
>cd04162 Arl9_Arfrp2_like Arl9/Arfrp2-like subfamily. Arl9 (Arf-like 9) was first identified as part of the Human Cancer Genome Project. It maps to chromosome 4q12 and is sometimes referred to as Arfrp2 (Arf-related protein 2). This is a novel subfamily identified in human cancers that is uncharacterized to date.
Probab=99.54 E-value=3e-14 Score=80.54 Aligned_cols=53 Identities=15% Similarity=0.191 Sum_probs=44.8
Q ss_pred EEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514 15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA 70 (71)
Q Consensus 15 i~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~ 70 (71)
++++|+++||||||+.++..+.|...|.||++.++. .+ ..+.+.+++|||+|.
T Consensus 2 i~ivG~~~vGKTsli~~~~~~~~~~~~~pt~g~~~~--~i-~~~~~~l~i~Dt~G~ 54 (164)
T cd04162 2 ILVLGLDGAGKTSLLHSLSSERSLESVVPTTGFNSV--AI-PTQDAIMELLEIGGS 54 (164)
T ss_pred EEEECCCCCCHHHHHHHHhcCCCcccccccCCcceE--EE-eeCCeEEEEEECCCC
Confidence 789999999999999999999999899999996542 22 344689999999985
No 108
>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=99.54 E-value=6.4e-14 Score=80.56 Aligned_cols=58 Identities=28% Similarity=0.371 Sum_probs=48.7
Q ss_pred eeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514 13 GTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA 70 (71)
Q Consensus 13 ~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~ 70 (71)
.|++++|++|+|||||+.++..+.|.+.+.+|++..+.......+..+.+.+|||+|.
T Consensus 2 ~Ki~ivG~~g~GKStLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~g~ 59 (187)
T cd04129 2 RKLVIVGDGACGKTSLLSVFTLGEFPEEYHPTVFENYVTDCRVDGKPVQLALWDTAGQ 59 (187)
T ss_pred eEEEEECCCCCCHHHHHHHHHhCCCCcccCCcccceEEEEEEECCEEEEEEEEECCCC
Confidence 6999999999999999999999999988899988777654433344688999999984
No 109
>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=99.52 E-value=7.9e-14 Score=79.28 Aligned_cols=58 Identities=29% Similarity=0.474 Sum_probs=48.3
Q ss_pred eeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514 13 GTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA 70 (71)
Q Consensus 13 ~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~ 70 (71)
.|++++|+++||||||+.++..+.+...+.|+++..+.......+..+.+++|||+|.
T Consensus 2 ~kv~l~G~~g~GKTtl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~D~~g~ 59 (180)
T cd04137 2 RKIAVLGSRSVGKSSLTVQFVEGHFVESYYPTIENTFSKIIRYKGQDYHLEIVDTAGQ 59 (180)
T ss_pred eEEEEECCCCCCHHHHHHHHHhCCCccccCcchhhhEEEEEEECCEEEEEEEEECCCh
Confidence 6899999999999999999999999888899998766544433334788999999984
No 110
>PLN00223 ADP-ribosylation factor; Provisional
Probab=99.51 E-value=1e-13 Score=79.68 Aligned_cols=57 Identities=18% Similarity=0.201 Sum_probs=46.8
Q ss_pred ceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514 10 SIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA 70 (71)
Q Consensus 10 ~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~ 70 (71)
...+|++++|++++|||||+.++..++|. .+.||++.++. .+.. +.+.+++||++|.
T Consensus 15 ~~~~ki~ivG~~~~GKTsl~~~l~~~~~~-~~~pt~g~~~~--~~~~-~~~~~~i~D~~Gq 71 (181)
T PLN00223 15 KKEMRILMVGLDAAGKTTILYKLKLGEIV-TTIPTIGFNVE--TVEY-KNISFTVWDVGGQ 71 (181)
T ss_pred CCccEEEEECCCCCCHHHHHHHHccCCCc-cccCCcceeEE--EEEE-CCEEEEEEECCCC
Confidence 34589999999999999999999988887 47899997653 2332 4588999999995
No 111
>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=99.51 E-value=9.4e-14 Score=80.54 Aligned_cols=56 Identities=30% Similarity=0.500 Sum_probs=47.2
Q ss_pred eEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514 14 TVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA 70 (71)
Q Consensus 14 ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~ 70 (71)
||+++|+++||||||+.+++.+.|...|.+|++. +....+..++ .+.+++|||+|.
T Consensus 1 kv~vvG~~~vGKTsll~~~~~~~~~~~~~~t~~~-~~~~~~~~~~~~~~l~i~D~~G~ 57 (198)
T cd04147 1 RLVFMGAAGVGKTALIQRFLYDTFEPKYRRTVEE-MHRKEYEVGGVSLTLDILDTSGS 57 (198)
T ss_pred CEEEECCCCCCHHHHHHHHHhCCCCccCCCchhh-heeEEEEECCEEEEEEEEECCCc
Confidence 6899999999999999999999999888888874 4445555555 688999999984
No 112
>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=99.50 E-value=3.5e-13 Score=73.71 Aligned_cols=58 Identities=28% Similarity=0.366 Sum_probs=51.1
Q ss_pred eeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514 13 GTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA 70 (71)
Q Consensus 13 ~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~ 70 (71)
+||+++|.+++|||||++++..+.++.++.++++.++....+..++ .+.+.+|||.|.
T Consensus 2 ~ki~~~G~~~~GKstl~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~G~ 60 (161)
T TIGR00231 2 IKIVIVGDPNVGKSTLLNRLLGNKFITEYKPGTTRNYVTTVIEEDGKTYKFNLLDTAGQ 60 (161)
T ss_pred eEEEEECCCCCCHHHHHHHHhCCCCcCcCCCCceeeeeEEEEEECCEEEEEEEEECCCc
Confidence 7999999999999999999999888888889999888877666665 488999999984
No 113
>cd00876 Ras Ras family. The Ras family of the Ras superfamily includes classical N-Ras, H-Ras, and K-Ras, as well as R-Ras, Rap, Ral, Rheb, Rhes, ARHI, RERG, Rin/Rit, RSR1, RRP22, Ras2, Ras-dva, and RGK proteins. Ras proteins regulate cell growth, proliferation and differentiation. Ras is activated by guanine nucleotide exchange factors (GEFs) that release GDP and allow GTP binding. Many RasGEFs have been identified. These are sequestered in the cytosol until activation by growth factors triggers recruitment to the plasma membrane or Golgi, where the GEF colocalizes with Ras. Active GTP-bound Ras interacts with several effector proteins: among the best characterized are the Raf kinases, phosphatidylinositol 3-kinase (PI3K), RalGEFs and NORE/MST1. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of m
Probab=99.47 E-value=2.9e-13 Score=75.01 Aligned_cols=56 Identities=38% Similarity=0.586 Sum_probs=46.9
Q ss_pred eEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514 14 TVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA 70 (71)
Q Consensus 14 ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~ 70 (71)
|++++|++++|||||+.++..+.+...+.|+.+. ........++ .+.+++||++|.
T Consensus 1 ki~i~G~~~~GKTsli~~l~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~l~D~~g~ 57 (160)
T cd00876 1 KVVVLGAGGVGKSAITIQFVKGTFVEEYDPTIED-SYRKTIVVDGETYTLDILDTAGQ 57 (160)
T ss_pred CEEEECCCCCCHHHHHHHHHhCCCCcCcCCChhH-eEEEEEEECCEEEEEEEEECCCh
Confidence 6899999999999999999998899999999884 4444455554 789999999984
No 114
>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=99.47 E-value=2.8e-13 Score=76.73 Aligned_cols=53 Identities=19% Similarity=0.224 Sum_probs=43.9
Q ss_pred eEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514 14 TVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA 70 (71)
Q Consensus 14 ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~ 70 (71)
|++++|+++||||||+.++..+.|.. +.||++.++. .... ..+.+.+|||+|.
T Consensus 1 ~vvlvG~~~~GKTsl~~~l~~~~~~~-~~~T~~~~~~--~~~~-~~~~i~l~Dt~G~ 53 (169)
T cd04158 1 RVVTLGLDGAGKTTILFKLKQDEFMQ-PIPTIGFNVE--TVEY-KNLKFTIWDVGGK 53 (169)
T ss_pred CEEEECCCCCCHHHHHHHHhcCCCCC-cCCcCceeEE--EEEE-CCEEEEEEECCCC
Confidence 68999999999999999999988864 7899987764 2322 4588999999985
No 115
>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=4.5e-13 Score=74.71 Aligned_cols=54 Identities=15% Similarity=0.195 Sum_probs=44.5
Q ss_pred eEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514 14 TVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA 70 (71)
Q Consensus 14 ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~ 70 (71)
+++++|+++||||||+.++..+.+.. +.||++.++ ..+..++.+.+.+|||+|.
T Consensus 1 ~i~i~G~~~~GKTsl~~~~~~~~~~~-~~~t~~~~~--~~~~~~~~~~l~i~D~~G~ 54 (160)
T cd04156 1 QVLLLGLDSAGKSTLLYKLKHAELVT-TIPTVGFNV--EMLQLEKHLSLTVWDVGGQ 54 (160)
T ss_pred CEEEEcCCCCCHHHHHHHHhcCCccc-ccCccCcce--EEEEeCCceEEEEEECCCC
Confidence 58999999999999999999998875 468888554 3444456789999999985
No 116
>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=99.45 E-value=5.6e-13 Score=75.57 Aligned_cols=57 Identities=12% Similarity=0.206 Sum_probs=45.0
Q ss_pred ceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514 10 SIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA 70 (71)
Q Consensus 10 ~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~ 70 (71)
...+|++++|++++|||||+.++..+.+ ..+.||++..+ ..+..+ .+.+++|||+|.
T Consensus 12 ~~~~kv~ivG~~~~GKTsL~~~l~~~~~-~~~~~t~g~~~--~~~~~~-~~~l~l~D~~G~ 68 (173)
T cd04154 12 EREMRILILGLDNAGKTTILKKLLGEDI-DTISPTLGFQI--KTLEYE-GYKLNIWDVGGQ 68 (173)
T ss_pred CCccEEEEECCCCCCHHHHHHHHccCCC-CCcCCccccce--EEEEEC-CEEEEEEECCCC
Confidence 3468999999999999999999997755 46789988433 444444 488999999995
No 117
>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=99.45 E-value=3.2e-13 Score=75.25 Aligned_cols=54 Identities=17% Similarity=0.255 Sum_probs=43.2
Q ss_pred eEEEEeCCCCCHHHHHHHHHhCc-CCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514 14 TVVIVGNGAVGKSSMIQRYCRGT-FTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA 70 (71)
Q Consensus 14 ki~v~G~~~vGKtsl~~~~~~~~-f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~ 70 (71)
+|+++|+++||||||+.++..+. +...+.||++..+. ... .+.+.+++|||+|.
T Consensus 1 ~i~~vG~~~~GKTsl~~~l~~~~~~~~~~~~t~g~~~~--~~~-~~~~~~~l~Dt~G~ 55 (162)
T cd04157 1 NILVVGLDNSGKTTIINQLKPENAQSQIIVPTVGFNVE--SFE-KGNLSFTAFDMSGQ 55 (162)
T ss_pred CEEEECCCCCCHHHHHHHHcccCCCcceecCccccceE--EEE-ECCEEEEEEECCCC
Confidence 57899999999999999999876 46678899985442 222 34688999999995
No 118
>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=99.42 E-value=1.2e-12 Score=74.17 Aligned_cols=53 Identities=15% Similarity=0.202 Sum_probs=43.2
Q ss_pred eEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514 14 TVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA 70 (71)
Q Consensus 14 ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~ 70 (71)
+++++|+++||||||++++..+ |...+.||++.. ...+.. +.+.+++||++|.
T Consensus 1 ~i~~~G~~~~GKTsl~~~l~~~-~~~~~~~t~g~~--~~~~~~-~~~~~~i~D~~G~ 53 (167)
T cd04161 1 TLLTVGLDNAGKTTLVSALQGE-IPKKVAPTVGFT--PTKLRL-DKYEVCIFDLGGG 53 (167)
T ss_pred CEEEECCCCCCHHHHHHHHhCC-CCccccCcccce--EEEEEE-CCEEEEEEECCCc
Confidence 4789999999999999999866 888899999964 334443 4588999999995
No 119
>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=99.42 E-value=1.3e-12 Score=71.89 Aligned_cols=54 Identities=20% Similarity=0.265 Sum_probs=45.7
Q ss_pred eEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514 14 TVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA 70 (71)
Q Consensus 14 ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~ 70 (71)
.++++|++++|||||++++...+|..++.||++.++.. ...+ .+.+++||++|.
T Consensus 1 ~i~i~G~~~~GKssl~~~l~~~~~~~~~~~t~~~~~~~--~~~~-~~~~~~~D~~g~ 54 (159)
T cd04159 1 EITLVGLQNSGKTTLVNVIAGGQFSEDTIPTVGFNMRK--VTKG-NVTLKVWDLGGQ 54 (159)
T ss_pred CEEEEcCCCCCHHHHHHHHccCCCCcCccCCCCcceEE--EEEC-CEEEEEEECCCC
Confidence 37899999999999999999999999999999977653 3333 488999999984
No 120
>KOG4252|consensus
Probab=99.41 E-value=6.8e-15 Score=85.10 Aligned_cols=60 Identities=52% Similarity=0.640 Sum_probs=53.8
Q ss_pred eeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514 11 IKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA 70 (71)
Q Consensus 11 ~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~ 70 (71)
..+|++++|..+|||+|+++||+.+-|...|..|+|.+|..+.+..++ .+.+.+|||||+
T Consensus 19 ~aiK~vivGng~VGKssmiqryCkgifTkdykktIgvdflerqi~v~~Edvr~mlWdtagq 79 (246)
T KOG4252|consen 19 RAIKFVIVGNGSVGKSSMIQRYCKGIFTKDYKKTIGVDFLERQIKVLIEDVRSMLWDTAGQ 79 (246)
T ss_pred hhEEEEEECCCccchHHHHHHHhccccccccccccchhhhhHHHHhhHHHHHHHHHHhccc
Confidence 469999999999999999999999999999999999999877776654 567789999996
No 121
>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=99.40 E-value=3.2e-12 Score=68.45 Aligned_cols=57 Identities=25% Similarity=0.419 Sum_probs=40.9
Q ss_pred eEEEEeCCCCCHHHHHHHHHhCcCC--CCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514 14 TVVIVGNGAVGKSSMIQRYCRGTFT--RDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA 70 (71)
Q Consensus 14 ki~v~G~~~vGKtsl~~~~~~~~f~--~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~ 70 (71)
||+++|++++|||||+++++.+.+. ..+.++.+..+......... ...+++||++|.
T Consensus 1 kI~V~G~~g~GKTsLi~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~g~ 60 (119)
T PF08477_consen 1 KIVVLGDSGVGKTSLIRRLCGGEFPDNSVPEETSEITIGVDVIVVDGDRQSLQFWDFGGQ 60 (119)
T ss_dssp EEEEECSTTSSHHHHHHHHHHSS--------SSTTSCEEEEEEEETTEEEEEEEEEESSS
T ss_pred CEEEECcCCCCHHHHHHHHhcCCCcccccccccCCCcEEEEEEEecCCceEEEEEecCcc
Confidence 7999999999999999999998887 23445555556655565555 456999999874
No 122
>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=99.40 E-value=1.5e-12 Score=74.08 Aligned_cols=56 Identities=20% Similarity=0.226 Sum_probs=46.0
Q ss_pred eeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514 11 IKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA 70 (71)
Q Consensus 11 ~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~ 70 (71)
..+|++++|++++|||||+.++..++|.. +.||++.++.. ...+ .+.+.+|||+|.
T Consensus 14 ~~~kv~~~G~~~~GKTsl~~~l~~~~~~~-~~~t~~~~~~~--~~~~-~~~~~l~D~~G~ 69 (174)
T cd04153 14 KEYKVIIVGLDNAGKTTILYQFLLGEVVH-TSPTIGSNVEE--IVYK-NIRFLMWDIGGQ 69 (174)
T ss_pred CccEEEEECCCCCCHHHHHHHHccCCCCC-cCCccccceEE--EEEC-CeEEEEEECCCC
Confidence 46899999999999999999999988875 67999876532 3223 588999999995
No 123
>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=99.38 E-value=2.5e-12 Score=71.87 Aligned_cols=53 Identities=19% Similarity=0.233 Sum_probs=42.7
Q ss_pred eEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514 14 TVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA 70 (71)
Q Consensus 14 ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~ 70 (71)
|++++|++++|||+|+.++..+.+.. +.||++.++. .+.. ..+.+++|||+|.
T Consensus 1 kv~lvG~~~~GKTsl~~~l~~~~~~~-~~~t~~~~~~--~~~~-~~~~~~i~Dt~G~ 53 (158)
T cd04151 1 RILILGLDNAGKTTILYRLQLGEVVT-TIPTIGFNVE--TVTY-KNLKFQVWDLGGQ 53 (158)
T ss_pred CEEEECCCCCCHHHHHHHHccCCCcC-cCCccCcCeE--EEEE-CCEEEEEEECCCC
Confidence 68999999999999999998888764 6789886653 2222 4578999999995
No 124
>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=99.36 E-value=1.1e-11 Score=75.61 Aligned_cols=59 Identities=24% Similarity=0.334 Sum_probs=47.0
Q ss_pred eeeeEEEEeCCCCCHHHHHHHHHhCcCCCC----------ccCCcceeeEEEEEEeCC-EEEEEEEcCCC
Q psy2514 11 IKGTVVIVGNGAVGKSSMIQRYCRGTFTRD----------YKKTIGVKSSMIQRYCRG-TFTRDYKKTIG 69 (71)
Q Consensus 11 ~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~----------~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G 69 (71)
..++++++|++|+|||||+.++....+... +.+|+........+..++ ++.+.+|||+|
T Consensus 3 ~~f~I~vvG~sg~GKSTliN~L~~~~~~~~~~~~~~~~~~~~~T~~i~~~~~~i~~~g~~~~l~iiDTpG 72 (276)
T cd01850 3 FQFNIMVVGESGLGKSTFINTLFNTKLIPSDYPPDPAEEHIDKTVEIKSSKAEIEENGVKLKLTVIDTPG 72 (276)
T ss_pred cEEEEEEEcCCCCCHHHHHHHHHcCCCccccCCCCccccccCCceEEEEEEEEEEECCEEEEEEEEecCC
Confidence 468999999999999999999998776543 456666666555555555 78999999998
No 125
>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=99.35 E-value=4.5e-12 Score=70.57 Aligned_cols=57 Identities=12% Similarity=0.139 Sum_probs=39.8
Q ss_pred eEEEEeCCCCCHHHHHHHHHh---CcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514 14 TVVIVGNGAVGKSSMIQRYCR---GTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA 70 (71)
Q Consensus 14 ki~v~G~~~vGKtsl~~~~~~---~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~ 70 (71)
.++++|+++||||||+.++.. +.+..++.+++..+.........+...+++|||+|.
T Consensus 2 ~i~i~G~~~~GKssl~~~l~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~DtpG~ 61 (164)
T cd04171 2 IIGTAGHIDHGKTTLIKALTGIETDRLPEEKKRGITIDLGFAYLDLPSGKRLGFIDVPGH 61 (164)
T ss_pred EEEEEecCCCCHHHHHHHHhCcccccchhhhccCceEEeeeEEEEecCCcEEEEEECCCh
Confidence 478999999999999999985 445544445444444333344442467999999995
No 126
>KOG0096|consensus
Probab=99.35 E-value=3e-12 Score=74.40 Aligned_cols=61 Identities=28% Similarity=0.498 Sum_probs=52.4
Q ss_pred ceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEe-CCEEEEEEEcCCCC
Q psy2514 10 SIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYC-RGTFTRDYKKTIGA 70 (71)
Q Consensus 10 ~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~-~~~~~l~i~Dt~G~ 70 (71)
-..+|++++|+.+.|||++..|.+.++|...|.||+|.+...-.... .+++.++.|||+|.
T Consensus 8 ~~~fklvlvGdgg~gKtt~vkr~ltgeFe~~y~at~Gv~~~pl~f~tn~g~irf~~wdtagq 69 (216)
T KOG0096|consen 8 GLTFKLVLVGDGGTGKTTFVKRHLTGEFEKTYPATLGVEVHPLLFDTNRGQIRFNVWDTAGQ 69 (216)
T ss_pred cceEEEEEecCCcccccchhhhhhcccceecccCcceeEEeeeeeecccCcEEEEeeecccc
Confidence 35799999999999999999999999999999999998765444433 35799999999985
No 127
>PRK04213 GTP-binding protein; Provisional
Probab=99.34 E-value=6.1e-12 Score=72.78 Aligned_cols=55 Identities=16% Similarity=0.149 Sum_probs=42.1
Q ss_pred ceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCC
Q psy2514 10 SIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIG 69 (71)
Q Consensus 10 ~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G 69 (71)
...++++++|.++||||||++++..+.+...+.|++. +.......+ .+.+|||+|
T Consensus 7 ~~~~~i~i~G~~~~GKSsLin~l~~~~~~~~~~~~~t--~~~~~~~~~---~~~l~Dt~G 61 (201)
T PRK04213 7 DRKPEIVFVGRSNVGKSTLVRELTGKKVRVGKRPGVT--RKPNHYDWG---DFILTDLPG 61 (201)
T ss_pred CCCCEEEEECCCCCCHHHHHHHHhCCCCccCCCCcee--eCceEEeec---ceEEEeCCc
Confidence 3568999999999999999999998887766666554 333333333 589999998
No 128
>TIGR03598 GTPase_YsxC ribosome biogenesis GTP-binding protein YsxC/EngB. Members of this protein family are a GTPase associated with ribosome biogenesis, typified by YsxC from Bacillus subutilis. The family is widely but not universally distributed among bacteria. Members commonly are called EngB based on homology to EngA, one of several other GTPases of ribosome biogenesis. Cutoffs as set find essentially all bacterial members, but also identify large numbers of eukaryotic (probably organellar) sequences. This protein is found in about 80 percent of bacterial genomes.
Probab=99.34 E-value=9e-12 Score=71.21 Aligned_cols=62 Identities=19% Similarity=0.087 Sum_probs=44.9
Q ss_pred cccCceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCC
Q psy2514 6 VLRGSIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIG 69 (71)
Q Consensus 6 ~~~~~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G 69 (71)
...+....+++++|++++|||||+.++....+...+.++.+..........++ .+.+|||+|
T Consensus 12 ~~~~~~~~~i~ivG~~~~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~--~~~liDtpG 73 (179)
T TIGR03598 12 QLPPDDGPEIAFAGRSNVGKSSLINALTNRKKLARTSKTPGRTQLINFFEVND--GFRLVDLPG 73 (179)
T ss_pred hCCCCCCCEEEEEcCCCCCHHHHHHHHhCCCCcccccCCCCcceEEEEEEeCC--cEEEEeCCC
Confidence 34556789999999999999999999998876555556655433222222233 588999998
No 129
>PRK00454 engB GTP-binding protein YsxC; Reviewed
Probab=99.33 E-value=9.7e-12 Score=71.41 Aligned_cols=59 Identities=19% Similarity=0.071 Sum_probs=44.9
Q ss_pred CceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCC
Q psy2514 9 GSIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIG 69 (71)
Q Consensus 9 ~~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G 69 (71)
.+...+++++|++++|||||+.+++.+.+...+.++.+.......... ...+.+|||+|
T Consensus 21 ~~~~~~v~ivG~~~~GKSsli~~l~~~~~~~~~~~~~~~t~~~~~~~~--~~~l~l~DtpG 79 (196)
T PRK00454 21 PDDGPEIAFAGRSNVGKSSLINALTNRKNLARTSKTPGRTQLINFFEV--NDKLRLVDLPG 79 (196)
T ss_pred CCCCCEEEEEcCCCCCHHHHHHHHhCCCCcccccCCCCceeEEEEEec--CCeEEEeCCCC
Confidence 456789999999999999999999988776667777764333222221 36789999999
No 130
>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=99.33 E-value=7.3e-12 Score=69.74 Aligned_cols=53 Identities=17% Similarity=0.230 Sum_probs=42.3
Q ss_pred eEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514 14 TVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA 70 (71)
Q Consensus 14 ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~ 70 (71)
|++++|.+++|||||++++..+.+ ..+.+|++..+. .+..+ .+.+++||++|.
T Consensus 1 ki~iiG~~~~GKssli~~~~~~~~-~~~~~t~~~~~~--~~~~~-~~~~~i~D~~G~ 53 (158)
T cd00878 1 RILILGLDGAGKTTILYKLKLGEV-VTTIPTIGFNVE--TVEYK-NVSFTVWDVGGQ 53 (158)
T ss_pred CEEEEcCCCCCHHHHHHHHhcCCC-CCCCCCcCcceE--EEEEC-CEEEEEEECCCC
Confidence 689999999999999999998874 457888886543 33333 578999999985
No 131
>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=99.32 E-value=1.3e-11 Score=70.79 Aligned_cols=57 Identities=11% Similarity=0.100 Sum_probs=45.4
Q ss_pred ceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514 10 SIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA 70 (71)
Q Consensus 10 ~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~ 70 (71)
....|++++|++++|||||+.++..+.+. .|.||.+... ..+..++ +.+.+||++|.
T Consensus 17 ~~~~ki~ilG~~~~GKStLi~~l~~~~~~-~~~~T~~~~~--~~i~~~~-~~~~l~D~~G~ 73 (190)
T cd00879 17 NKEAKILFLGLDNAGKTTLLHMLKDDRLA-QHVPTLHPTS--EELTIGN-IKFKTFDLGGH 73 (190)
T ss_pred cCCCEEEEECCCCCCHHHHHHHHhcCCCc-ccCCccCcce--EEEEECC-EEEEEEECCCC
Confidence 44699999999999999999999988874 5788887543 3344443 77899999985
No 132
>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=99.32 E-value=7.8e-12 Score=70.11 Aligned_cols=54 Identities=15% Similarity=0.180 Sum_probs=41.3
Q ss_pred eEEEEeCCCCCHHHHHHHHHhC------cCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514 14 TVVIVGNGAVGKSSMIQRYCRG------TFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA 70 (71)
Q Consensus 14 ki~v~G~~~vGKtsl~~~~~~~------~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~ 70 (71)
+++++|++++|||||+.++... .+...+.||++.++.. +..+ ...+.+|||+|.
T Consensus 1 ~i~~vG~~~~GKstLi~~l~~~~~~~~~~~~~~~~~t~~~~~~~--~~~~-~~~~~l~Dt~G~ 60 (167)
T cd04160 1 SVLILGLDNAGKTTFLEQLKTLFSKYKGLPPSKITPTVGLNIGT--IEVG-NARLKFWDLGGQ 60 (167)
T ss_pred CEEEEecCCCCHHHHHHHHhhhcccccCCcccccCCccccceEE--EEEC-CEEEEEEECCCC
Confidence 5899999999999999998753 2244677888877643 3333 478999999984
No 133
>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=99.32 E-value=1.3e-11 Score=70.96 Aligned_cols=58 Identities=10% Similarity=0.063 Sum_probs=45.0
Q ss_pred CceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514 9 GSIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA 70 (71)
Q Consensus 9 ~~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~ 70 (71)
....+|++++|.+++|||||+.++..+.+. .+.||.+... ..+..+ .+++.+|||+|.
T Consensus 14 ~~~~~~i~ivG~~~~GKTsli~~l~~~~~~-~~~~t~~~~~--~~~~~~-~~~~~~~D~~G~ 71 (184)
T smart00178 14 WNKHAKILFLGLDNAGKTTLLHMLKNDRLA-QHQPTQHPTS--EELAIG-NIKFTTFDLGGH 71 (184)
T ss_pred ccccCEEEEECCCCCCHHHHHHHHhcCCCc-ccCCccccce--EEEEEC-CEEEEEEECCCC
Confidence 355699999999999999999999988775 4567777533 333333 478999999985
No 134
>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=99.31 E-value=1.5e-11 Score=69.02 Aligned_cols=54 Identities=24% Similarity=0.145 Sum_probs=37.7
Q ss_pred eEEEEeCCCCCHHHHHHHHHhCcCCCCccC--CcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514 14 TVVIVGNGAVGKSSMIQRYCRGTFTRDYKK--TIGVKSSMIQRYCRGTFTRDYKKTIGA 70 (71)
Q Consensus 14 ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~--t~~~~~~~~~~~~~~~~~l~i~Dt~G~ 70 (71)
+++++|++++|||||++++..+.+.....+ |.. ........ +.+.+.+|||+|.
T Consensus 2 ~i~~~G~~~~GKssli~~l~~~~~~~~~~~~~t~~--~~~~~~~~-~~~~~~i~Dt~G~ 57 (168)
T cd01897 2 TLVIAGYPNVGKSSLVNKLTRAKPEVAPYPFTTKS--LFVGHFDY-KYLRWQVIDTPGL 57 (168)
T ss_pred eEEEEcCCCCCHHHHHHHHhcCCCccCCCCCcccc--eeEEEEcc-CceEEEEEECCCc
Confidence 689999999999999999998877533222 222 22222211 3478999999994
No 135
>cd01878 HflX HflX subfamily. A distinct conserved domain with a glycine-rich segment N-terminal of the GTPase domain characterizes the HflX subfamily. The E. coli HflX has been implicated in the control of the lambda cII repressor proteolysis, but the actual biological functions of these GTPases remain unclear. HflX is widespread, but not universally represented in all three superkingdoms.
Probab=99.28 E-value=1.6e-11 Score=71.23 Aligned_cols=59 Identities=19% Similarity=0.130 Sum_probs=41.9
Q ss_pred ceeeeEEEEeCCCCCHHHHHHHHHhCcCCCC--ccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514 10 SIKGTVVIVGNGAVGKSSMIQRYCRGTFTRD--YKKTIGVKSSMIQRYCRGTFTRDYKKTIGA 70 (71)
Q Consensus 10 ~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~--~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~ 70 (71)
+..++|+++|++|||||||++++..+.+... +.+|.. .....+..++...+.+|||+|-
T Consensus 39 ~~~~~I~iiG~~g~GKStLl~~l~~~~~~~~~~~~~t~~--~~~~~~~~~~~~~~~i~Dt~G~ 99 (204)
T cd01878 39 SGIPTVALVGYTNAGKSTLFNALTGADVYAEDQLFATLD--PTTRRLRLPDGREVLLTDTVGF 99 (204)
T ss_pred cCCCeEEEECCCCCCHHHHHHHHhcchhccCCccceecc--ceeEEEEecCCceEEEeCCCcc
Confidence 4468999999999999999999998765322 334443 3333344444447899999984
No 136
>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=99.27 E-value=6.2e-12 Score=69.13 Aligned_cols=44 Identities=25% Similarity=0.318 Sum_probs=35.4
Q ss_pred eEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514 14 TVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA 70 (71)
Q Consensus 14 ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~ 70 (71)
|++++|+++||||||++++..+.+ .+.+|++.++.. .+|||+|.
T Consensus 2 kv~liG~~~vGKSsL~~~l~~~~~--~~~~t~~~~~~~-----------~~iDt~G~ 45 (142)
T TIGR02528 2 RIMFIGSVGCGKTTLTQALQGEEI--LYKKTQAVEYND-----------GAIDTPGE 45 (142)
T ss_pred eEEEECCCCCCHHHHHHHHcCCcc--ccccceeEEEcC-----------eeecCchh
Confidence 899999999999999999998776 356776655532 57899884
No 137
>KOG1673|consensus
Probab=99.27 E-value=3.5e-12 Score=72.48 Aligned_cols=63 Identities=21% Similarity=0.376 Sum_probs=58.3
Q ss_pred cCceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514 8 RGSIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA 70 (71)
Q Consensus 8 ~~~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~ 70 (71)
++...+|+-++||+.+|||||+..|.++++.++|..+.|++|-.+++..++ .+.+.|||..|+
T Consensus 16 ~n~Vslkv~llGD~qiGKTs~mvkYV~~~~de~~~q~~GvN~mdkt~~i~~t~IsfSIwdlgG~ 79 (205)
T KOG1673|consen 16 SNLVSLKVGLLGDAQIGKTSLMVKYVQNEYDEEYTQTLGVNFMDKTVSIRGTDISFSIWDLGGQ 79 (205)
T ss_pred ccceEEEEEeecccccCceeeehhhhcchhHHHHHHHhCccceeeEEEecceEEEEEEEecCCc
Confidence 455689999999999999999999999999999999999999999999987 889999999885
No 138
>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=99.26 E-value=1.7e-11 Score=70.85 Aligned_cols=58 Identities=16% Similarity=0.251 Sum_probs=42.6
Q ss_pred eeEEEEeCCCCCHHHHHHHHHh--CcCCCCc------------cCCcceeeEEEEEEe-CCEEEEEEEcCCCC
Q psy2514 13 GTVVIVGNGAVGKSSMIQRYCR--GTFTRDY------------KKTIGVKSSMIQRYC-RGTFTRDYKKTIGA 70 (71)
Q Consensus 13 ~ki~v~G~~~vGKtsl~~~~~~--~~f~~~~------------~~t~~~~~~~~~~~~-~~~~~l~i~Dt~G~ 70 (71)
-+++++|++++|||||+.+++. +.|...+ .++.+..+....... .+.+.+.+|||+|.
T Consensus 3 r~i~ivG~~~~GKTsL~~~l~~~~~~~~~~~~~~~~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~l~DtpG~ 75 (194)
T cd01891 3 RNIAIIAHVDHGKTTLVDALLKQSGTFRENEEVEERVMDSNDLERERGITILAKNTAVTYKDTKINIVDTPGH 75 (194)
T ss_pred cEEEEEecCCCCHHHHHHHHHHHcCCCCccCcccccccccchhHHhcccccccceeEEEECCEEEEEEECCCc
Confidence 4799999999999999999997 6776543 234555554443333 34688999999995
No 139
>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=99.25 E-value=6.7e-11 Score=66.69 Aligned_cols=57 Identities=18% Similarity=0.274 Sum_probs=44.5
Q ss_pred ceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514 10 SIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA 70 (71)
Q Consensus 10 ~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~ 70 (71)
...++++++|++|+|||||+.++....+. .+.||.|.++ ..+..++ ..+.+||++|.
T Consensus 12 ~~~~~v~i~G~~g~GKStLl~~l~~~~~~-~~~~t~g~~~--~~i~~~~-~~~~~~D~~G~ 68 (173)
T cd04155 12 SEEPRILILGLDNAGKTTILKQLASEDIS-HITPTQGFNI--KTVQSDG-FKLNVWDIGGQ 68 (173)
T ss_pred CCccEEEEEccCCCCHHHHHHHHhcCCCc-ccCCCCCcce--EEEEECC-EEEEEEECCCC
Confidence 44799999999999999999999887665 4678888543 3343444 77999999985
No 140
>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=99.24 E-value=4.9e-11 Score=66.75 Aligned_cols=57 Identities=12% Similarity=0.148 Sum_probs=42.5
Q ss_pred eEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeC--CEEEEEEEcCCCC
Q psy2514 14 TVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCR--GTFTRDYKKTIGA 70 (71)
Q Consensus 14 ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~--~~~~l~i~Dt~G~ 70 (71)
.++++|++++|||||++++..+.+...+.++...++.......+ ....+.+|||+|.
T Consensus 2 ~i~iiG~~~~GKtsli~~l~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~iiDtpG~ 60 (168)
T cd01887 2 VVTVMGHVDHGKTTLLDKIRKTNVAAGEAGGITQHIGAFEVPAEVLKIPGITFIDTPGH 60 (168)
T ss_pred EEEEEecCCCCHHHHHHHHHhcccccccCCCeEEeeccEEEecccCCcceEEEEeCCCc
Confidence 48999999999999999999988876655555444433333333 3578999999984
No 141
>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=99.22 E-value=5.4e-11 Score=68.09 Aligned_cols=58 Identities=19% Similarity=0.316 Sum_probs=47.1
Q ss_pred CceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514 9 GSIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA 70 (71)
Q Consensus 9 ~~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~ 70 (71)
.....||+++|..++|||++++++..+.+.. +.||.|.+ ...+..++ +.+++||..|+
T Consensus 11 ~~~~~~ililGl~~sGKTtll~~l~~~~~~~-~~pT~g~~--~~~i~~~~-~~~~~~d~gG~ 68 (175)
T PF00025_consen 11 KKKEIKILILGLDGSGKTTLLNRLKNGEISE-TIPTIGFN--IEEIKYKG-YSLTIWDLGGQ 68 (175)
T ss_dssp TTSEEEEEEEESTTSSHHHHHHHHHSSSEEE-EEEESSEE--EEEEEETT-EEEEEEEESSS
T ss_pred cCcEEEEEEECCCccchHHHHHHhhhccccc-cCcccccc--cceeeeCc-EEEEEEecccc
Confidence 3678999999999999999999998776654 78999954 45555554 78999999886
No 142
>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=99.21 E-value=8.8e-11 Score=66.52 Aligned_cols=57 Identities=14% Similarity=0.152 Sum_probs=39.7
Q ss_pred eEEEEeCCCCCHHHHHHHHHhC-------cCCCCccCCc------ceeeEEEEEE------eCCEEEEEEEcCCCC
Q psy2514 14 TVVIVGNGAVGKSSMIQRYCRG-------TFTRDYKKTI------GVKSSMIQRY------CRGTFTRDYKKTIGA 70 (71)
Q Consensus 14 ki~v~G~~~vGKtsl~~~~~~~-------~f~~~~~~t~------~~~~~~~~~~------~~~~~~l~i~Dt~G~ 70 (71)
+++++|++++|||||+.+++.. .+...+.++. |..+..+... .+..+.+.+|||+|.
T Consensus 2 ni~~vG~~~~GKssL~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~g~t~~~~~~~~~~~~~~~~~~~~~l~Dt~G~ 77 (179)
T cd01890 2 NFSIIAHIDHGKSTLADRLLELTGTVSKREMKEQVLDSMDLERERGITIKAQTVRLNYKAKDGQEYLLNLIDTPGH 77 (179)
T ss_pred cEEEEeecCCCHHHHHHHHHHHhCCCCcCCCceEeccCChhHHHCCCeEecceEEEEEecCCCCcEEEEEEECCCC
Confidence 5899999999999999999863 2333444433 4445443322 234788999999994
No 143
>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=99.21 E-value=4.5e-11 Score=66.24 Aligned_cols=53 Identities=17% Similarity=0.137 Sum_probs=40.8
Q ss_pred EEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514 17 IVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA 70 (71)
Q Consensus 17 v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~ 70 (71)
++|.+++|||||+.++....+...+.|++..++....+..++ ..+.+|||+|.
T Consensus 1 l~G~~~~GKssl~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~-~~~~liDtpG~ 53 (158)
T cd01879 1 LVGNPNVGKTTLFNALTGARQKVGNWPGVTVEKKEGRFKLGG-KEIEIVDLPGT 53 (158)
T ss_pred CCCCCCCCHHHHHHHHhcCcccccCCCCcccccceEEEeeCC-eEEEEEECCCc
Confidence 479999999999999998766555556666666555565555 57999999984
No 144
>TIGR00450 mnmE_trmE_thdF tRNA modification GTPase TrmE. TrmE, also called MnmE and previously designated ThdF (thiophene and furan oxidation protein), is a GTPase involved in tRNA modification to create 5-methylaminomethyl-2-thiouridine in the wobble position of some tRNAs. This protein and GidA form an alpha2/beta2 heterotetramer.
Probab=99.20 E-value=1.4e-10 Score=74.63 Aligned_cols=58 Identities=22% Similarity=0.161 Sum_probs=44.5
Q ss_pred eeeeEEEEeCCCCCHHHHHHHHHhCc--CCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514 11 IKGTVVIVGNGAVGKSSMIQRYCRGT--FTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA 70 (71)
Q Consensus 11 ~~~ki~v~G~~~vGKtsl~~~~~~~~--f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~ 70 (71)
..+|++++|+++||||||+++++... +..++ |.+..++....+..++ ..+.+|||+|.
T Consensus 202 ~g~kVvIvG~~nvGKSSLiN~L~~~~~aivs~~-pgtTrd~~~~~i~~~g-~~v~l~DTaG~ 261 (442)
T TIGR00450 202 DGFKLAIVGSPNVGKSSLLNALLKQDRAIVSDI-KGTTRDVVEGDFELNG-ILIKLLDTAGI 261 (442)
T ss_pred cCCEEEEECCCCCcHHHHHHHHhCCCCcccCCC-CCcEEEEEEEEEEECC-EEEEEeeCCCc
Confidence 45899999999999999999999764 34444 5555566666666665 56789999994
No 145
>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=99.19 E-value=9e-11 Score=73.66 Aligned_cols=58 Identities=19% Similarity=0.113 Sum_probs=43.0
Q ss_pred eeeeEEEEeCCCCCHHHHHHHHHhCcCCC-Cc-cCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514 11 IKGTVVIVGNGAVGKSSMIQRYCRGTFTR-DY-KKTIGVKSSMIQRYCRGTFTRDYKKTIGA 70 (71)
Q Consensus 11 ~~~ki~v~G~~~vGKtsl~~~~~~~~f~~-~~-~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~ 70 (71)
..++++++|.+++|||||+++++...+.. ++ .+|. ++....+...+...+.+|||+|-
T Consensus 188 ~~~~ValvG~~NvGKSSLln~L~~~~~~v~~~~~tT~--d~~~~~i~~~~~~~i~l~DT~G~ 247 (351)
T TIGR03156 188 DVPTVALVGYTNAGKSTLFNALTGADVYAADQLFATL--DPTTRRLDLPDGGEVLLTDTVGF 247 (351)
T ss_pred CCcEEEEECCCCCCHHHHHHHHhCCceeeccCCcccc--CCEEEEEEeCCCceEEEEecCcc
Confidence 44899999999999999999999876532 22 3443 45556666644467899999994
No 146
>PRK15494 era GTPase Era; Provisional
Probab=99.18 E-value=1.7e-10 Score=72.07 Aligned_cols=58 Identities=17% Similarity=0.098 Sum_probs=41.7
Q ss_pred ceeeeEEEEeCCCCCHHHHHHHHHhCcCCC---CccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514 10 SIKGTVVIVGNGAVGKSSMIQRYCRGTFTR---DYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA 70 (71)
Q Consensus 10 ~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~---~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~ 70 (71)
....+++++|.++||||||+++++...+.. .+.+|. ++....+..++ ..+.+|||+|.
T Consensus 50 ~k~~kV~ivG~~nvGKSTLin~l~~~k~~ivs~k~~tTr--~~~~~~~~~~~-~qi~~~DTpG~ 110 (339)
T PRK15494 50 QKTVSVCIIGRPNSGKSTLLNRIIGEKLSIVTPKVQTTR--SIITGIITLKD-TQVILYDTPGI 110 (339)
T ss_pred cceeEEEEEcCCCCCHHHHHHHHhCCceeeccCCCCCcc--CcEEEEEEeCC-eEEEEEECCCc
Confidence 456799999999999999999999877642 222333 33334444444 56899999995
No 147
>KOG0073|consensus
Probab=99.18 E-value=9.9e-11 Score=66.79 Aligned_cols=57 Identities=18% Similarity=0.284 Sum_probs=48.1
Q ss_pred ceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514 10 SIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA 70 (71)
Q Consensus 10 ~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~ 70 (71)
+..++|.++|..++|||++..++.... .+...||.| |..++...++ +.++|||..|+
T Consensus 14 erE~riLiLGLdNsGKTti~~kl~~~~-~~~i~pt~g--f~Iktl~~~~-~~L~iwDvGGq 70 (185)
T KOG0073|consen 14 EREVRILILGLDNSGKTTIVKKLLGED-TDTISPTLG--FQIKTLEYKG-YTLNIWDVGGQ 70 (185)
T ss_pred hheeEEEEEecCCCCchhHHHHhcCCC-ccccCCccc--eeeEEEEecc-eEEEEEEcCCc
Confidence 348999999999999999999997655 666789999 6667776665 89999999986
No 148
>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=99.16 E-value=1.6e-10 Score=67.64 Aligned_cols=56 Identities=13% Similarity=0.184 Sum_probs=40.7
Q ss_pred eEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEe-CCEEEEEEEcCCCC
Q psy2514 14 TVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYC-RGTFTRDYKKTIGA 70 (71)
Q Consensus 14 ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~-~~~~~l~i~Dt~G~ 70 (71)
+++++|++++|||+|+.++..+.+...+.++ ..++....... +....+.+|||+|.
T Consensus 2 ~vll~G~~~sGKTsL~~~l~~~~~~~t~~s~-~~~~~~~~~~~~~~~~~~~l~D~pG~ 58 (203)
T cd04105 2 TVLLLGPSDSGKTALFTKLTTGKYRSTVTSI-EPNVATFILNSEGKGKKFRLVDVPGH 58 (203)
T ss_pred eEEEEcCCCCCHHHHHHHHhcCCCCCccCcE-eecceEEEeecCCCCceEEEEECCCC
Confidence 5899999999999999999999887766444 33333222211 23577999999985
No 149
>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=99.15 E-value=4.2e-10 Score=62.03 Aligned_cols=56 Identities=21% Similarity=0.081 Sum_probs=40.0
Q ss_pred eeEEEEeCCCCCHHHHHHHHHhCcCC-CCccCCcceeeEEEEEEeCCEEEEEEEcCCC
Q psy2514 13 GTVVIVGNGAVGKSSMIQRYCRGTFT-RDYKKTIGVKSSMIQRYCRGTFTRDYKKTIG 69 (71)
Q Consensus 13 ~ki~v~G~~~vGKtsl~~~~~~~~f~-~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G 69 (71)
++++++|++++|||||+.++....+. ....++...++.......+ ...+.+|||.|
T Consensus 2 ~~i~l~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~i~DtpG 58 (157)
T cd04164 2 IKVVIVGKPNVGKSSLLNALAGRDRAIVSDIAGTTRDVIEESIDIG-GIPVRLIDTAG 58 (157)
T ss_pred cEEEEECCCCCCHHHHHHHHHCCceEeccCCCCCccceEEEEEEeC-CEEEEEEECCC
Confidence 58999999999999999999876642 1223444444544444444 46789999998
No 150
>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=99.14 E-value=2.2e-10 Score=63.47 Aligned_cols=54 Identities=20% Similarity=0.153 Sum_probs=41.0
Q ss_pred eEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCC
Q psy2514 14 TVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIG 69 (71)
Q Consensus 14 ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G 69 (71)
+++++|++|+|||||++.+.++.+.....++.+..........+. .+.+|||.|
T Consensus 1 ~i~l~G~~g~GKTtL~~~l~~~~~~~~~~~~~~~t~~~~~~~~~~--~~~~~D~~g 54 (170)
T cd01876 1 EIAFAGRSNVGKSSLINALTNRKKLARTSKTPGKTQLINFFNVND--KFRLVDLPG 54 (170)
T ss_pred CEEEEcCCCCCHHHHHHHHhcCCceeeecCCCCcceeEEEEEccC--eEEEecCCC
Confidence 478999999999999999997777666667766544444443333 889999987
No 151
>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=99.14 E-value=4.1e-10 Score=62.19 Aligned_cols=58 Identities=22% Similarity=0.264 Sum_probs=38.5
Q ss_pred eeeEEEEeCCCCCHHHHHHHHHhCcCCCCc-cCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514 12 KGTVVIVGNGAVGKSSMIQRYCRGTFTRDY-KKTIGVKSSMIQRYCRGTFTRDYKKTIGA 70 (71)
Q Consensus 12 ~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~-~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~ 70 (71)
..+++++|.+|+|||||++++....+.... .+... ..............+.+|||+|.
T Consensus 3 ~~~i~~~G~~g~GKttl~~~l~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~liDtpG~ 61 (168)
T cd04163 3 SGFVAIVGRPNVGKSTLLNALVGQKISIVSPKPQTT-RNRIRGIYTDDDAQIIFVDTPGI 61 (168)
T ss_pred eeEEEEECCCCCCHHHHHHHHhCCceEeccCCCCce-eceEEEEEEcCCeEEEEEECCCC
Confidence 578999999999999999999876543211 11111 12222333344578999999984
No 152
>KOG0070|consensus
Probab=99.13 E-value=6.1e-11 Score=68.35 Aligned_cols=58 Identities=19% Similarity=0.251 Sum_probs=50.0
Q ss_pred CceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514 9 GSIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA 70 (71)
Q Consensus 9 ~~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~ 70 (71)
...+.+|+++|..++|||++++++..+++... .||+| |....+... .+.+.+||..|+
T Consensus 14 ~~~e~~IlmlGLD~AGKTTILykLk~~E~vtt-vPTiG--fnVE~v~yk-n~~f~vWDvGGq 71 (181)
T KOG0070|consen 14 GKKEMRILMVGLDAAGKTTILYKLKLGEIVTT-VPTIG--FNVETVEYK-NISFTVWDVGGQ 71 (181)
T ss_pred CcceEEEEEEeccCCCceeeeEeeccCCcccC-CCccc--cceeEEEEc-ceEEEEEecCCC
Confidence 55689999999999999999999999998876 89999 555666666 589999999997
No 153
>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=99.13 E-value=2.1e-10 Score=64.36 Aligned_cols=55 Identities=18% Similarity=0.115 Sum_probs=35.6
Q ss_pred eEEEEeCCCCCHHHHHHHHHhCcCCC-Cc-cCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514 14 TVVIVGNGAVGKSSMIQRYCRGTFTR-DY-KKTIGVKSSMIQRYCRGTFTRDYKKTIGA 70 (71)
Q Consensus 14 ki~v~G~~~vGKtsl~~~~~~~~f~~-~~-~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~ 70 (71)
.|+++|.+++|||||++++....... .+ .+|+. .....+..++...+.+|||+|.
T Consensus 2 ~v~ivG~~~~GKStl~~~l~~~~~~v~~~~~~t~~--~~~~~~~~~~~~~~~l~DtpG~ 58 (170)
T cd01898 2 DVGLVGLPNAGKSTLLSAISNAKPKIADYPFTTLV--PNLGVVRVDDGRSFVVADIPGL 58 (170)
T ss_pred CeEEECCCCCCHHHHHHHHhcCCccccCCCccccC--CcceEEEcCCCCeEEEEecCcc
Confidence 58999999999999999998654321 11 12221 1122233344458999999993
No 154
>PRK03003 GTP-binding protein Der; Reviewed
Probab=99.12 E-value=3.7e-10 Score=73.06 Aligned_cols=58 Identities=24% Similarity=0.190 Sum_probs=43.8
Q ss_pred eeeeEEEEeCCCCCHHHHHHHHHhCcCC-CCccCCcceeeEEEEEEeCCEEEEEEEcCCC
Q psy2514 11 IKGTVVIVGNGAVGKSSMIQRYCRGTFT-RDYKKTIGVKSSMIQRYCRGTFTRDYKKTIG 69 (71)
Q Consensus 11 ~~~ki~v~G~~~vGKtsl~~~~~~~~f~-~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G 69 (71)
...|++++|.++||||||+++++...+. .+..|++..++....+..++ ..+.+|||+|
T Consensus 210 ~~~kI~iiG~~nvGKSSLin~l~~~~~~~~s~~~gtT~d~~~~~~~~~~-~~~~l~DTaG 268 (472)
T PRK03003 210 GPRRVALVGKPNVGKSSLLNKLAGEERSVVDDVAGTTVDPVDSLIELGG-KTWRFVDTAG 268 (472)
T ss_pred cceEEEEECCCCCCHHHHHHHHhCCCcccccCCCCccCCcceEEEEECC-EEEEEEECCC
Confidence 4589999999999999999999987652 23445566666655555555 3467999999
No 155
>cd01889 SelB_euk SelB subfamily. SelB is an elongation factor needed for the co-translational incorporation of selenocysteine. Selenocysteine is coded by a UGA stop codon in combination with a specific downstream mRNA hairpin. In bacteria, the C-terminal part of SelB recognizes this hairpin, while the N-terminal part binds GTP and tRNA in analogy with elongation factor Tu (EF-Tu). It specifically recognizes the selenocysteine charged tRNAsec, which has a UCA anticodon, in an EF-Tu like manner. This allows insertion of selenocysteine at in-frame UGA stop codons. In E. coli SelB binds GTP, selenocysteyl-tRNAsec and a stem-loop structure immediately downstream of the UGA codon (the SECIS sequence). The absence of active SelB prevents the participation of selenocysteyl-tRNAsec in translation. Archaeal and animal mechanisms of selenocysteine incorporation are more complex. Although the SECIS elements have different secondary structures and conserved elements between archaea and euk
Probab=99.09 E-value=3.7e-10 Score=65.15 Aligned_cols=58 Identities=16% Similarity=0.127 Sum_probs=38.5
Q ss_pred eeEEEEeCCCCCHHHHHHHHHhC----cCCCCc-----cCCcceeeEEEEEE-----------eCCEEEEEEEcCCCC
Q psy2514 13 GTVVIVGNGAVGKSSMIQRYCRG----TFTRDY-----KKTIGVKSSMIQRY-----------CRGTFTRDYKKTIGA 70 (71)
Q Consensus 13 ~ki~v~G~~~vGKtsl~~~~~~~----~f~~~~-----~~t~~~~~~~~~~~-----------~~~~~~l~i~Dt~G~ 70 (71)
++++++|++++|||||+.+++.. .+...+ ..|++..+....+. ....+.+.+|||+|.
T Consensus 1 ~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~~~~e~~~g~T~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~DtpG~ 78 (192)
T cd01889 1 VNVGVLGHVDSGKTSLAKALSEIASTAAFDKNPQSQERGITLDLGFSSFYVDKPKHLRELINPGEENLQITLVDCPGH 78 (192)
T ss_pred CeEEEEecCCCCHHHHHHHHHhccchhhhccCHHHHHcCCeeeecceEEEecccccccccccccccCceEEEEECCCc
Confidence 47999999999999999999862 222221 24445444333332 122578999999984
No 156
>PRK05291 trmE tRNA modification GTPase TrmE; Reviewed
Probab=99.08 E-value=8.4e-10 Score=71.15 Aligned_cols=58 Identities=22% Similarity=0.133 Sum_probs=43.2
Q ss_pred eeeeEEEEeCCCCCHHHHHHHHHhCcC--CCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514 11 IKGTVVIVGNGAVGKSSMIQRYCRGTF--TRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA 70 (71)
Q Consensus 11 ~~~ki~v~G~~~vGKtsl~~~~~~~~f--~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~ 70 (71)
..++++++|.+++|||||++++..... ..++ |....++....+..++ ..+.+|||+|-
T Consensus 214 ~~~kV~ivG~~nvGKSSLln~L~~~~~a~v~~~-~gtT~d~~~~~i~~~g-~~i~l~DT~G~ 273 (449)
T PRK05291 214 EGLKVVIAGRPNVGKSSLLNALLGEERAIVTDI-AGTTRDVIEEHINLDG-IPLRLIDTAGI 273 (449)
T ss_pred cCCEEEEECCCCCCHHHHHHHHhCCCCcccCCC-CCcccccEEEEEEECC-eEEEEEeCCCC
Confidence 358999999999999999999997654 3333 4444456655565555 57899999993
No 157
>PRK00093 GTP-binding protein Der; Reviewed
Probab=99.05 E-value=1e-09 Score=70.00 Aligned_cols=56 Identities=23% Similarity=0.140 Sum_probs=41.6
Q ss_pred eeEEEEeCCCCCHHHHHHHHHhCcC--CCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514 13 GTVVIVGNGAVGKSSMIQRYCRGTF--TRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA 70 (71)
Q Consensus 13 ~ki~v~G~~~vGKtsl~~~~~~~~f--~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~ 70 (71)
.+|+++|.++||||||++++..... ..+ .|.+..+........++ ..+.+|||+|.
T Consensus 2 ~~I~ivG~~~vGKStL~n~l~~~~~~~v~~-~~~~t~d~~~~~~~~~~-~~~~liDT~G~ 59 (435)
T PRK00093 2 PVVAIVGRPNVGKSTLFNRLTGKRDAIVAD-TPGVTRDRIYGEAEWLG-REFILIDTGGI 59 (435)
T ss_pred CEEEEECCCCCCHHHHHHHHhCCCceeeCC-CCCCcccceEEEEEECC-cEEEEEECCCC
Confidence 5899999999999999999997653 333 34444445545555555 78999999984
No 158
>PRK03003 GTP-binding protein Der; Reviewed
Probab=99.04 E-value=1.8e-09 Score=69.87 Aligned_cols=59 Identities=19% Similarity=0.095 Sum_probs=42.3
Q ss_pred eeeeEEEEeCCCCCHHHHHHHHHhCcCC-CCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514 11 IKGTVVIVGNGAVGKSSMIQRYCRGTFT-RDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA 70 (71)
Q Consensus 11 ~~~ki~v~G~~~vGKtsl~~~~~~~~f~-~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~ 70 (71)
...+|+++|.++||||||+++++.+.+. ....|.+..+........++ ..+.+|||+|.
T Consensus 37 ~~~~V~IvG~~nvGKSSL~nrl~~~~~~~v~~~~gvT~d~~~~~~~~~~-~~~~l~DT~G~ 96 (472)
T PRK03003 37 PLPVVAVVGRPNVGKSTLVNRILGRREAVVEDVPGVTRDRVSYDAEWNG-RRFTVVDTGGW 96 (472)
T ss_pred CCCEEEEEcCCCCCHHHHHHHHhCcCcccccCCCCCCEeeEEEEEEECC-cEEEEEeCCCc
Confidence 3478999999999999999999976642 23345554455444444444 45889999993
No 159
>cd01895 EngA2 EngA2 subfamily. This CD represents the second GTPase domain of EngA and its orthologs, which are composed of two adjacent GTPase domains. Since the sequences of the two domains are more similar to each other than to other GTPases, it is likely that an ancient gene duplication, rather than a fusion of evolutionarily distinct GTPases, gave rise to this family. Although the exact function of these proteins has not been elucidated, studies have revealed that the E. coli EngA homolog, Der, and Neisseria gonorrhoeae EngA are essential for cell viability. A recent report suggests that E. coli Der functions in ribosome assembly and stability.
Probab=99.03 E-value=1.8e-09 Score=60.14 Aligned_cols=58 Identities=19% Similarity=0.100 Sum_probs=38.6
Q ss_pred eeeEEEEeCCCCCHHHHHHHHHhCcCC-CCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514 12 KGTVVIVGNGAVGKSSMIQRYCRGTFT-RDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA 70 (71)
Q Consensus 12 ~~ki~v~G~~~vGKtsl~~~~~~~~f~-~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~ 70 (71)
.++++++|++++|||||+.++....+. ....+....+........++ ..+.+|||+|.
T Consensus 2 ~~~i~i~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~iiDtpG~ 60 (174)
T cd01895 2 PIRIAIIGRPNVGKSSLVNALLGEERVIVSDIAGTTRDSIDVPFEYDG-KKYTLIDTAGI 60 (174)
T ss_pred CcEEEEEcCCCCCHHHHHHHHhCccceeccCCCCCccCceeeEEEECC-eeEEEEECCCC
Confidence 478999999999999999999876532 22233333333333333343 45789999983
No 160
>cd01857 HSR1_MMR1 HSR1/MMR1. Human HSR1, is localized to the human MHC class I region and is highly homologous to a putative GTP-binding protein, MMR1 from mouse. These proteins represent a new subfamily of GTP-binding proteins that has only eukaryote members. This subfamily shows a circular permutation of the GTPase signature motifs so that the C-terminal strands 5, 6, and 7 (strand 6 contains the G4 box with sequence NKXD) are relocated to the N terminus.
Probab=99.03 E-value=1.3e-09 Score=60.40 Aligned_cols=53 Identities=25% Similarity=0.219 Sum_probs=36.4
Q ss_pred eEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCC
Q psy2514 14 TVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIG 69 (71)
Q Consensus 14 ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G 69 (71)
+++++|.+++||||+++++....+.. .....|.......+..++ .+.||||+|
T Consensus 85 ~~~~~G~~~vGKstlin~l~~~~~~~-~~~~~~~~~~~~~~~~~~--~~~i~DtpG 137 (141)
T cd01857 85 TIGLVGYPNVGKSSLINALVGKKKVS-VSATPGKTKHFQTIFLTP--TITLCDCPG 137 (141)
T ss_pred EEEEECCCCCCHHHHHHHHhCCCcee-eCCCCCcccceEEEEeCC--CEEEEECCC
Confidence 89999999999999999999776642 222222222233333333 479999998
No 161
>PRK11058 GTPase HflX; Provisional
Probab=99.02 E-value=9.8e-10 Score=70.54 Aligned_cols=58 Identities=17% Similarity=0.159 Sum_probs=40.6
Q ss_pred eeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514 13 GTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA 70 (71)
Q Consensus 13 ~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~ 70 (71)
.+++++|.+++|||||++++....+.....|....+.....+...+...+.+|||+|.
T Consensus 198 p~ValVG~~NaGKSSLlN~Lt~~~~~v~~~~~tTld~~~~~i~l~~~~~~~l~DTaG~ 255 (426)
T PRK11058 198 PTVSLVGYTNAGKSTLFNRITEARVYAADQLFATLDPTLRRIDVADVGETVLADTVGF 255 (426)
T ss_pred CEEEEECCCCCCHHHHHHHHhCCceeeccCCCCCcCCceEEEEeCCCCeEEEEecCcc
Confidence 5899999999999999999997665332223333345544555554336789999994
No 162
>KOG4423|consensus
Probab=99.02 E-value=6.6e-13 Score=77.10 Aligned_cols=61 Identities=26% Similarity=0.369 Sum_probs=54.9
Q ss_pred ceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC--EEEEEEEcCCCC
Q psy2514 10 SIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG--TFTRDYKKTIGA 70 (71)
Q Consensus 10 ~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~--~~~l~i~Dt~G~ 70 (71)
...+|+.++|+.++|||+++.||....|...|..|+|.+|..++...+. .+++++||.+|+
T Consensus 23 ~hL~k~lVig~~~vgkts~i~ryv~~nfs~~yRAtIgvdfalkVl~wdd~t~vRlqLwdIagQ 85 (229)
T KOG4423|consen 23 EHLFKVLVIGDLGVGKTSSIKRYVHQNFSYHYRATIGVDFALKVLQWDDKTIVRLQLWDIAGQ 85 (229)
T ss_pred hhhhhhheeeeccccchhHHHHHHHHHHHHHHHHHHhHHHHHHHhccChHHHHHHHHhcchhh
Confidence 4468999999999999999999999999999999999999988887765 567899999985
No 163
>cd01859 MJ1464 MJ1464. This family represents archaeal GTPase typified by the protein MJ1464 from Methanococcus jannaschii. The members of this family show a circular permutation of the GTPase signature motifs so that C-terminal strands 5, 6, and 7 (strands 6 contain the NKxD motif) are relocated to the N terminus.
Probab=99.01 E-value=3e-09 Score=59.61 Aligned_cols=56 Identities=23% Similarity=0.150 Sum_probs=40.0
Q ss_pred eeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCC
Q psy2514 11 IKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIG 69 (71)
Q Consensus 11 ~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G 69 (71)
...+++++|.+++|||++++++..+. ...+.++.|..........+ ..+.+|||+|
T Consensus 100 ~~~~~~~ig~~~~Gkssl~~~l~~~~-~~~~~~~~~~t~~~~~~~~~--~~~~~~DtpG 155 (156)
T cd01859 100 KEGKVGVVGYPNVGKSSIINALKGRH-SASTSPSPGYTKGEQLVKIT--SKIYLLDTPG 155 (156)
T ss_pred CCcEEEEECCCCCCHHHHHHHHhCCC-ccccCCCCCeeeeeEEEEcC--CCEEEEECcC
Confidence 45788999999999999999998544 34456777754332222222 3689999998
No 164
>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=99.01 E-value=9.7e-10 Score=63.93 Aligned_cols=58 Identities=17% Similarity=0.118 Sum_probs=37.8
Q ss_pred eeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcce-eeEEE--EEEeCCEEEEEEEcCCCC
Q psy2514 13 GTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGV-KSSMI--QRYCRGTFTRDYKKTIGA 70 (71)
Q Consensus 13 ~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~-~~~~~--~~~~~~~~~l~i~Dt~G~ 70 (71)
+|++++|++|+|||||++.+....+.....++++. +.... .+.......+.+|||+|.
T Consensus 2 ~kI~i~G~~g~GKSSLin~L~g~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~l~l~DtpG~ 62 (197)
T cd04104 2 LNIAVTGESGAGKSSFINALRGVGHEEEGAAPTGVVETTMKRTPYPHPKFPNVTLWDLPGI 62 (197)
T ss_pred eEEEEECCCCCCHHHHHHHHhccCCCCCCccccCccccccCceeeecCCCCCceEEeCCCC
Confidence 68999999999999999999986665444444441 11111 111112236899999883
No 165
>KOG0071|consensus
Probab=98.99 E-value=1.6e-09 Score=60.89 Aligned_cols=57 Identities=14% Similarity=0.177 Sum_probs=46.9
Q ss_pred ceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514 10 SIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA 70 (71)
Q Consensus 10 ~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~ 70 (71)
.++++++++|..++|||++++.+.-++.. ...||+| |.++++...+ +++++||..|+
T Consensus 15 ~KE~~ilmlGLd~aGKTtiLyKLkl~~~~-~~ipTvG--FnvetVtykN-~kfNvwdvGGq 71 (180)
T KOG0071|consen 15 NKEMRILMLGLDAAGKTTILYKLKLGQSV-TTIPTVG--FNVETVTYKN-VKFNVWDVGGQ 71 (180)
T ss_pred cccceEEEEecccCCceehhhHHhcCCCc-ccccccc--eeEEEEEeee-eEEeeeeccCc
Confidence 45799999999999999999999876654 4679999 5666666555 88999999886
No 166
>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=98.99 E-value=2.1e-09 Score=57.84 Aligned_cols=53 Identities=26% Similarity=0.418 Sum_probs=41.2
Q ss_pred EEeCCCCCHHHHHHHHHhCcC-CCCccCCcceeeEEEEEEeC-CEEEEEEEcCCCC
Q psy2514 17 IVGNGAVGKSSMIQRYCRGTF-TRDYKKTIGVKSSMIQRYCR-GTFTRDYKKTIGA 70 (71)
Q Consensus 17 v~G~~~vGKtsl~~~~~~~~f-~~~~~~t~~~~~~~~~~~~~-~~~~l~i~Dt~G~ 70 (71)
++|.+++|||||+.++..... ...+.++. .++........ ....+.+||+.|.
T Consensus 1 iiG~~~~GKStl~~~l~~~~~~~~~~~~t~-~~~~~~~~~~~~~~~~~~l~D~~g~ 55 (157)
T cd00882 1 VVGDSGVGKTSLLNRLLGGEFVPEEYETTI-IDFYSKTIEVDGKKVKLQIWDTAGQ 55 (157)
T ss_pred CCCcCCCcHHHHHHHHHhCCcCCcccccch-hheeeEEEEECCEEEEEEEEecCCh
Confidence 479999999999999998777 56666777 66655555443 3788999999883
No 167
>KOG0074|consensus
Probab=98.98 E-value=3.1e-09 Score=59.77 Aligned_cols=60 Identities=18% Similarity=0.237 Sum_probs=50.6
Q ss_pred cCceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514 8 RGSIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA 70 (71)
Q Consensus 8 ~~~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~ 70 (71)
+.+..+++.++|-.++|||+++.++.... +....||-| |..+.+..++.+++++||..|+
T Consensus 13 ~t~rEirilllGldnAGKTT~LKqL~sED-~~hltpT~G--Fn~k~v~~~g~f~LnvwDiGGq 72 (185)
T KOG0074|consen 13 RTRREIRILLLGLDNAGKTTFLKQLKSED-PRHLTPTNG--FNTKKVEYDGTFHLNVWDIGGQ 72 (185)
T ss_pred CCcceEEEEEEecCCCcchhHHHHHccCC-hhhccccCC--cceEEEeecCcEEEEEEecCCc
Confidence 45678999999999999999999886544 445678888 7778888899999999999885
No 168
>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=98.98 E-value=3.1e-09 Score=60.57 Aligned_cols=58 Identities=21% Similarity=0.137 Sum_probs=40.3
Q ss_pred ceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514 10 SIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA 70 (71)
Q Consensus 10 ~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~ 70 (71)
+..++++++|.+++||||+++++....+.. ..+..+..+....+..+ ..+.++||+|=
T Consensus 113 ~~~~~~~~~G~~~vGKstlin~l~~~~~~~-~~~~~~~T~~~~~~~~~--~~~~~iDtpG~ 170 (171)
T cd01856 113 PRGIRAMVVGIPNVGKSTLINRLRGKKVAK-VGNKPGVTKGIQWIKIS--PGIYLLDTPGI 170 (171)
T ss_pred CCCeEEEEECCCCCCHHHHHHHHhCCCcee-ecCCCCEEeeeEEEEec--CCEEEEECCCC
Confidence 345799999999999999999999877642 23333333333333333 35789999983
No 169
>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=98.98 E-value=2.5e-09 Score=64.89 Aligned_cols=55 Identities=20% Similarity=0.176 Sum_probs=38.4
Q ss_pred eEEEEeCCCCCHHHHHHHHHhCcCC--CCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514 14 TVVIVGNGAVGKSSMIQRYCRGTFT--RDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA 70 (71)
Q Consensus 14 ki~v~G~~~vGKtsl~~~~~~~~f~--~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~ 70 (71)
+++++|.++||||||++++....+. .....|+.. .. ..+...+...+.+|||+|-
T Consensus 2 ~V~liG~pnvGKSTLln~L~~~~~~~vs~~~~TTr~-~i-~~i~~~~~~qii~vDTPG~ 58 (270)
T TIGR00436 2 FVAILGRPNVGKSTLLNQLHGQKISITSPKAQTTRN-RI-SGIHTTGASQIIFIDTPGF 58 (270)
T ss_pred EEEEECCCCCCHHHHHHHHhCCcEeecCCCCCcccC-cE-EEEEEcCCcEEEEEECcCC
Confidence 6899999999999999999987653 233334443 22 2333334456899999984
No 170
>KOG3883|consensus
Probab=98.97 E-value=3e-09 Score=60.50 Aligned_cols=59 Identities=22% Similarity=0.225 Sum_probs=48.0
Q ss_pred eeeeEEEEeCCCCCHHHHHHHHHhCcCC--CCccCCcceeeEEEEEEeCC-EEEEEEEcCCC
Q psy2514 11 IKGTVVIVGNGAVGKSSMIQRYCRGTFT--RDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIG 69 (71)
Q Consensus 11 ~~~ki~v~G~~~vGKtsl~~~~~~~~f~--~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G 69 (71)
...|++++|--+||||+++.+++.++-. .++.||+.+-|....-..++ +-.+.++||+|
T Consensus 8 k~~kVvVcG~k~VGKTaileQl~yg~~~~~~e~~pTiEDiY~~svet~rgarE~l~lyDTaG 69 (198)
T KOG3883|consen 8 KVCKVVVCGMKSVGKTAILEQLLYGNHVPGTELHPTIEDIYVASVETDRGAREQLRLYDTAG 69 (198)
T ss_pred cceEEEEECCccccHHHHHHHHHhccCCCCCccccchhhheeEeeecCCChhheEEEeeccc
Confidence 4689999999999999999999865443 46889999877666555555 66799999998
No 171
>cd01881 Obg_like The Obg-like subfamily consists of five well-delimited, ancient subfamilies, namely Obg, DRG, YyaF/YchF, Ygr210, and NOG1. Four of these groups (Obg, DRG, YyaF/YchF, and Ygr210) are characterized by a distinct glycine-rich motif immediately following the Walker B motif (G3 box). Obg/CgtA is an essential gene that is involved in the initiation of sporulation and DNA replication in the bacteria Caulobacter and Bacillus, but its exact molecular role is unknown. Furthermore, several OBG family members possess a C-terminal RNA-binding domain, the TGS domain, which is also present in threonyl-tRNA synthetase and in bacterial guanosine polyphosphatase SpoT. Nog1 is a nucleolar protein that might function in ribosome assembly. The DRG and Nog1 subfamilies are ubiquitous in archaea and eukaryotes, the Ygr210 subfamily is present in archaea and fungi, and the Obg and YyaF/YchF subfamilies are ubiquitous in bacteria and eukaryotes. The Obg/Nog1 and DRG subfamilies appear to
Probab=98.97 E-value=1.1e-09 Score=61.52 Aligned_cols=52 Identities=17% Similarity=0.143 Sum_probs=34.1
Q ss_pred EEeCCCCCHHHHHHHHHhCcC-CCCcc-CCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514 17 IVGNGAVGKSSMIQRYCRGTF-TRDYK-KTIGVKSSMIQRYCRGTFTRDYKKTIGA 70 (71)
Q Consensus 17 v~G~~~vGKtsl~~~~~~~~f-~~~~~-~t~~~~~~~~~~~~~~~~~l~i~Dt~G~ 70 (71)
++|++++|||||++++....+ ..++. +|....+ .....++...+.+|||+|-
T Consensus 1 iiG~~~~GKStll~~l~~~~~~~~~~~~~t~~~~~--~~~~~~~~~~~~i~DtpG~ 54 (176)
T cd01881 1 LVGLPNVGKSTLLNALTNAKPKVANYPFTTLEPNL--GVVEVPDGARIQVADIPGL 54 (176)
T ss_pred CCCCCCCcHHHHHHHHhcCCccccCCCceeecCcc--eEEEcCCCCeEEEEecccc
Confidence 479999999999999998764 23332 2333222 2233342467899999983
No 172
>PF01926 MMR_HSR1: 50S ribosome-binding GTPase; InterPro: IPR002917 Human HSR1, has been localized to the human MHC class I region and is highly homologous to a putative GTP-binding protein, MMR1 from mouse. These proteins represent a new subfamily of GTP-binding proteins that has both prokaryote and eukaryote members [].; GO: 0005525 GTP binding, 0005622 intracellular; PDB: 2DWQ_B 2DBY_A 3CNN_A 3CNO_A 3CNL_A 3IBY_A 1PUI_B 1WXQ_A 1LNZ_A 3GEE_A ....
Probab=98.94 E-value=1.2e-08 Score=54.53 Aligned_cols=54 Identities=22% Similarity=0.145 Sum_probs=35.6
Q ss_pred eEEEEeCCCCCHHHHHHHHHhCcC--CCCccCCcceeeEEEEEEeCCEEEEEEEcCCC
Q psy2514 14 TVVIVGNGAVGKSSMIQRYCRGTF--TRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIG 69 (71)
Q Consensus 14 ki~v~G~~~vGKtsl~~~~~~~~f--~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G 69 (71)
+|+++|.+++|||||++.++.... .....++... ........++ ..+.++||.|
T Consensus 1 ~V~iiG~~~~GKSTlin~l~~~~~~~~~~~~~~T~~-~~~~~~~~~~-~~~~~vDtpG 56 (116)
T PF01926_consen 1 RVAIIGRPNVGKSTLINALTGKKLAKVSNIPGTTRD-PVYGQFEYNN-KKFILVDTPG 56 (116)
T ss_dssp EEEEEESTTSSHHHHHHHHHTSTSSEESSSTTSSSS-EEEEEEEETT-EEEEEEESSS
T ss_pred CEEEECCCCCCHHHHHHHHhccccccccccccceee-eeeeeeeece-eeEEEEeCCC
Confidence 689999999999999999997533 2223333332 2333344444 3446999988
No 173
>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=98.94 E-value=4.5e-09 Score=66.92 Aligned_cols=54 Identities=24% Similarity=0.164 Sum_probs=38.2
Q ss_pred eEEEEeCCCCCHHHHHHHHHhCcC--CCCccCCcceeeEEEEEEeCCEEEEEEEcCCC
Q psy2514 14 TVVIVGNGAVGKSSMIQRYCRGTF--TRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIG 69 (71)
Q Consensus 14 ki~v~G~~~vGKtsl~~~~~~~~f--~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G 69 (71)
+++++|.++||||||++++..... ..++ |.+..+........++ ..+.+|||+|
T Consensus 1 ~i~ivG~~nvGKStL~n~l~~~~~~~v~~~-~g~t~d~~~~~~~~~~-~~~~liDTpG 56 (429)
T TIGR03594 1 VVAIVGRPNVGKSTLFNRLTGKRDAIVSDT-PGVTRDRKYGDAEWGG-REFILIDTGG 56 (429)
T ss_pred CEEEECCCCCCHHHHHHHHhCCCcceecCC-CCcccCceEEEEEECC-eEEEEEECCC
Confidence 589999999999999999997653 2333 3333344444444444 4699999999
No 174
>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=98.94 E-value=2.9e-09 Score=58.73 Aligned_cols=53 Identities=23% Similarity=0.156 Sum_probs=35.6
Q ss_pred EEEeCCCCCHHHHHHHHHhCc--CCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514 16 VIVGNGAVGKSSMIQRYCRGT--FTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA 70 (71)
Q Consensus 16 ~v~G~~~vGKtsl~~~~~~~~--f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~ 70 (71)
+++|.+++|||||+.++.... +...+.++. .+........++ ..+.+|||+|-
T Consensus 1 ~l~G~~~~GKssl~~~l~~~~~~~~~~~~~~t-~~~~~~~~~~~~-~~~~i~DtpG~ 55 (157)
T cd01894 1 AIVGRPNVGKSTLFNRLTGRRDAIVEDTPGVT-RDRIYGEAEWGG-REFILIDTGGI 55 (157)
T ss_pred CccCCCCCCHHHHHHHHhCCcEEeecCCCCce-eCceeEEEEECC-eEEEEEECCCC
Confidence 478999999999999999764 333443333 333333333333 67999999983
No 175
>PF00735 Septin: Septin; InterPro: IPR000038 Septins constitute a eukaryotic family of guanine nucleotide-binding proteins, most of which polymerise to form filaments []. Members of the family were first identified by genetic screening for Saccharomyces cerevisiae (Baker's yeast) mutants defective in cytokinesis []. Temperature-sensitive mutations in four genes, CDC3, CDC10, CDC11 and CDC12, were found to cause cell-cycle arrest and defects in bud growth and cytokinesis. The protein products of these genes localise at the division plane between mother and daughter cells, indicating a role in mother-daughter separation during cytokinesis []. Members of the family were therefore termed septins to reflect their role in septation and cell division. The identification of septin homologues in higher eukaryotes, which localise to the cleavage furrow in dividing cells, supports an orthologous function in cytokinesis. Septins have since been identified in most eukaryotes, except plants []. Septins are approximately 40-50 kDa in molecular mass, and typically comprise a conserved central core domain (more than 35% sequence identity between mammalian and yeast homologues) flanked by more divergent N- and C-termini. Most septins possess a P-loop motif in their N-terminal domain (which is characteristic of GTP-binding proteins), and a predicted C-terminal coiled-coil domain []. A number of septin interaction partners have been identified in yeast, many of which are components of the budding site selection machinery, kinase cascades or of the ubiquitination pathway. It has been proposed that septins may act as a scaffold that provides an interaction matrix for other proteins [, ]. In mammals, septins have been shown to regulate vesicle dynamics []. Mammalian septins have also been implicated in a variety of other cellular processes, including apoptosis, carcinogenesis and neurodegeneration []. This entry represents a variety of septins and homologous sequences involved in the cell division process.; GO: 0005525 GTP binding, 0007049 cell cycle; PDB: 2QAG_B 3FTQ_D 2QA5_A 2QNR_B 3TW4_A 3T5D_C.
Probab=98.93 E-value=1.3e-08 Score=62.48 Aligned_cols=59 Identities=15% Similarity=0.322 Sum_probs=38.5
Q ss_pred eeeeEEEEeCCCCCHHHHHHHHHhCcCCCCc----------cCCcceeeEEEEEEeCC-EEEEEEEcCCC
Q psy2514 11 IKGTVVIVGNGAVGKSSMIQRYCRGTFTRDY----------KKTIGVKSSMIQRYCRG-TFTRDYKKTIG 69 (71)
Q Consensus 11 ~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~----------~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G 69 (71)
..++++|+|++|+|||||++.+......... .++..+.-....+..++ ++.+.++||.|
T Consensus 3 ~~fnImVvG~sG~GKTTFIntL~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~l~e~~~~l~LtiiDTpG 72 (281)
T PF00735_consen 3 FNFNIMVVGESGLGKTTFINTLFNSDIISEDSSIPPPSASISRTLEIEERTVELEENGVKLNLTIIDTPG 72 (281)
T ss_dssp EEEEEEEEECTTSSHHHHHHHHHTSS---------S------SCEEEEEEEEEEEETCEEEEEEEEEEC-
T ss_pred ceEEEEEECCCCCCHHHHHHHHHhcccccccccccccccccccccceeeEEEEeccCCcceEEEEEeCCC
Confidence 4689999999999999999999875543321 12333333333344455 78899999987
No 176
>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=98.92 E-value=6.2e-09 Score=69.10 Aligned_cols=60 Identities=15% Similarity=0.104 Sum_probs=45.4
Q ss_pred eeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514 11 IKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA 70 (71)
Q Consensus 11 ~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~ 70 (71)
...+++++|..++|||||+.++....+...+.+.+..++....+..++...+.+|||+|.
T Consensus 86 r~p~V~I~Ghvd~GKTSLl~~l~~~~v~~~e~~GIT~~ig~~~v~~~~~~~i~~iDTPGh 145 (587)
T TIGR00487 86 RPPVVTIMGHVDHGKTSLLDSIRKTKVAQGEAGGITQHIGAYHVENEDGKMITFLDTPGH 145 (587)
T ss_pred CCCEEEEECCCCCCHHHHHHHHHhCCcccccCCceeecceEEEEEECCCcEEEEEECCCC
Confidence 347899999999999999999998888776666555554444444443337899999984
No 177
>cd01896 DRG The developmentally regulated GTP-binding protein (DRG) subfamily is an uncharacterized member of the Obg family, an evolutionary branch of GTPase superfamily proteins. GTPases act as molecular switches regulating diverse cellular processes. DRG2 and DRG1 comprise the DRG subfamily in eukaryotes. In view of their widespread expression in various tissues and high conservation among distantly related species in eukaryotes and archaea, DRG proteins may regulate fundamental cellular processes. It is proposed that the DRG subfamily proteins play their physiological roles through RNA binding.
Probab=98.92 E-value=9.7e-09 Score=61.32 Aligned_cols=55 Identities=20% Similarity=0.206 Sum_probs=37.1
Q ss_pred eEEEEeCCCCCHHHHHHHHHhCcC-CCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514 14 TVVIVGNGAVGKSSMIQRYCRGTF-TRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA 70 (71)
Q Consensus 14 ki~v~G~~~vGKtsl~~~~~~~~f-~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~ 70 (71)
+++++|.+++|||||++++..... ..+|..+. .+.....+..++ ..+++|||+|.
T Consensus 2 ~v~lvG~~~~GKStLl~~Ltg~~~~v~~~~~tT-~~~~~g~~~~~~-~~i~l~DtpG~ 57 (233)
T cd01896 2 RVALVGFPSVGKSTLLSKLTNTKSEVAAYEFTT-LTCVPGVLEYKG-AKIQLLDLPGI 57 (233)
T ss_pred EEEEECCCCCCHHHHHHHHHCCCccccCCCCcc-ccceEEEEEECC-eEEEEEECCCc
Confidence 689999999999999999986542 23333222 222333333444 67899999984
No 178
>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=98.92 E-value=7.8e-09 Score=58.72 Aligned_cols=57 Identities=16% Similarity=0.049 Sum_probs=40.3
Q ss_pred eeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514 13 GTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA 70 (71)
Q Consensus 13 ~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~ 70 (71)
++|+++|.++||||+|+++++..+..-...|.+-.+...-.+..++ ..++++|+.|.
T Consensus 1 i~ialvG~PNvGKStLfN~Ltg~~~~v~n~pG~Tv~~~~g~~~~~~-~~~~lvDlPG~ 57 (156)
T PF02421_consen 1 IRIALVGNPNVGKSTLFNALTGAKQKVGNWPGTTVEKKEGIFKLGD-QQVELVDLPGI 57 (156)
T ss_dssp -EEEEEESTTSSHHHHHHHHHTTSEEEEESTTSSSEEEEEEEEETT-EEEEEEE----
T ss_pred CEEEEECCCCCCHHHHHHHHHCCCceecCCCCCCeeeeeEEEEecC-ceEEEEECCCc
Confidence 4799999999999999999997665433346666666665666556 78999999984
No 179
>TIGR00991 3a0901s02IAP34 GTP-binding protein (Chloroplast Envelope Protein Translocase).
Probab=98.91 E-value=1e-08 Score=63.70 Aligned_cols=60 Identities=25% Similarity=0.399 Sum_probs=39.0
Q ss_pred cCceeeeEEEEeCCCCCHHHHHHHHHhCcC--CCCccCCcceeeEEEEEEeCCEEEEEEEcCCC
Q psy2514 8 RGSIKGTVVIVGNGAVGKSSMIQRYCRGTF--TRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIG 69 (71)
Q Consensus 8 ~~~~~~ki~v~G~~~vGKtsl~~~~~~~~f--~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G 69 (71)
.+...++|+++|.+||||||++++++.... ...+.+ .+..-.......+ ...+.++||+|
T Consensus 34 ~~~~~~rIllvGktGVGKSSliNsIlG~~v~~vs~f~s-~t~~~~~~~~~~~-G~~l~VIDTPG 95 (313)
T TIGR00991 34 EDVSSLTILVMGKGGVGKSSTVNSIIGERIATVSAFQS-EGLRPMMVSRTRA-GFTLNIIDTPG 95 (313)
T ss_pred ccccceEEEEECCCCCCHHHHHHHHhCCCcccccCCCC-cceeEEEEEEEEC-CeEEEEEECCC
Confidence 345679999999999999999999996543 222222 1111111112223 47899999998
No 180
>PRK09518 bifunctional cytidylate kinase/GTPase Der; Reviewed
Probab=98.91 E-value=6.7e-09 Score=70.09 Aligned_cols=57 Identities=23% Similarity=0.159 Sum_probs=40.9
Q ss_pred eeeeEEEEeCCCCCHHHHHHHHHhCcC--CCCccCCcceeeEEEEEEeCCEEEEEEEcCCC
Q psy2514 11 IKGTVVIVGNGAVGKSSMIQRYCRGTF--TRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIG 69 (71)
Q Consensus 11 ~~~ki~v~G~~~vGKtsl~~~~~~~~f--~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G 69 (71)
...|++++|.++||||||+++++..++ ..++.+|. .+.....+..++ ..+.+|||+|
T Consensus 449 ~~~kI~ivG~~nvGKSSLin~l~~~~~~~v~~~~gtT-~d~~~~~~~~~~-~~~~liDTaG 507 (712)
T PRK09518 449 GLRRVALVGRPNVGKSSLLNQLTHEERAVVNDLAGTT-RDPVDEIVEIDG-EDWLFIDTAG 507 (712)
T ss_pred CCcEEEEECCCCCCHHHHHHHHhCccccccCCCCCCC-cCcceeEEEECC-CEEEEEECCC
Confidence 358999999999999999999998764 34444444 444444444444 2456999998
No 181
>TIGR03594 GTPase_EngA ribosome-associated GTPase EngA. EngA (YfgK, Der) is a ribosome-associated essential GTPase with a duplication of its GTP-binding domain. It is broadly to universally distributed among bacteria. It appears to function in ribosome biogenesis or stability.
Probab=98.89 E-value=1.3e-08 Score=64.79 Aligned_cols=57 Identities=23% Similarity=0.134 Sum_probs=39.7
Q ss_pred eeeeEEEEeCCCCCHHHHHHHHHhCcC--CCCccCCcceeeEEEEEEeCCEEEEEEEcCCC
Q psy2514 11 IKGTVVIVGNGAVGKSSMIQRYCRGTF--TRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIG 69 (71)
Q Consensus 11 ~~~ki~v~G~~~vGKtsl~~~~~~~~f--~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G 69 (71)
..++++++|.+++|||||+++++.... ...+..|. .+.....+..++ ..+.+|||+|
T Consensus 171 ~~~~v~ivG~~~~GKSsLin~l~~~~~~~~~~~~gtt-~~~~~~~~~~~~-~~~~liDT~G 229 (429)
T TIGR03594 171 GPIKIAIIGRPNVGKSTLVNALLGEERVIVSDIAGTT-RDSIDIPFERNG-KKYLLIDTAG 229 (429)
T ss_pred CceEEEEECCCCCCHHHHHHHHHCCCeeecCCCCCce-ECcEeEEEEECC-cEEEEEECCC
Confidence 458999999999999999999997653 23333333 333333343444 3788999999
No 182
>PRK00089 era GTPase Era; Reviewed
Probab=98.88 E-value=1.3e-08 Score=62.14 Aligned_cols=58 Identities=22% Similarity=0.200 Sum_probs=38.6
Q ss_pred eeeeEEEEeCCCCCHHHHHHHHHhCcCCC-CccC-CcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514 11 IKGTVVIVGNGAVGKSSMIQRYCRGTFTR-DYKK-TIGVKSSMIQRYCRGTFTRDYKKTIGA 70 (71)
Q Consensus 11 ~~~ki~v~G~~~vGKtsl~~~~~~~~f~~-~~~~-t~~~~~~~~~~~~~~~~~l~i~Dt~G~ 70 (71)
..-.|+++|.+++|||||+++++...+.. ...| |... . ...+...+...+.+|||.|-
T Consensus 4 ~~g~V~iiG~pn~GKSTLin~L~g~~~~~vs~~~~tt~~-~-i~~i~~~~~~qi~~iDTPG~ 63 (292)
T PRK00089 4 KSGFVAIVGRPNVGKSTLLNALVGQKISIVSPKPQTTRH-R-IRGIVTEDDAQIIFVDTPGI 63 (292)
T ss_pred eeEEEEEECCCCCCHHHHHHHHhCCceeecCCCCCcccc-c-EEEEEEcCCceEEEEECCCC
Confidence 45679999999999999999998776532 1122 2221 1 22222234478999999983
No 183
>TIGR01393 lepA GTP-binding protein LepA. LepA (GUF1 in Saccaromyces) is a GTP-binding membrane protein related to EF-G and EF-Tu. Two types of phylogenetic tree, rooted by other GTP-binding proteins, suggest that eukaryotic homologs (including GUF1 of yeast) originated within the bacterial LepA family. The function is unknown.
Probab=98.87 E-value=1.3e-08 Score=67.66 Aligned_cols=59 Identities=15% Similarity=0.134 Sum_probs=41.6
Q ss_pred eeeEEEEeCCCCCHHHHHHHHHhC-------cCCCCccCC------cceeeEEEEEEe------CCEEEEEEEcCCCC
Q psy2514 12 KGTVVIVGNGAVGKSSMIQRYCRG-------TFTRDYKKT------IGVKSSMIQRYC------RGTFTRDYKKTIGA 70 (71)
Q Consensus 12 ~~ki~v~G~~~vGKtsl~~~~~~~-------~f~~~~~~t------~~~~~~~~~~~~------~~~~~l~i~Dt~G~ 70 (71)
.-+++++|..++|||||+.+++.. .+...+..+ .|..+....+.. +..+.+++|||+|.
T Consensus 3 iRNi~IIGh~d~GKTTL~~rLl~~~g~i~~~~~~~~~~D~~~~ErerGiTi~~~~v~~~~~~~~g~~~~l~liDTPG~ 80 (595)
T TIGR01393 3 IRNFSIIAHIDHGKSTLADRLLEYTGAISEREMREQVLDSMDLERERGITIKAQAVRLNYKAKDGETYVLNLIDTPGH 80 (595)
T ss_pred eeEEEEECCCCCCHHHHHHHHHHHcCCCccccccccccCCChHHHhcCCCeeeeEEEEEEEcCCCCEEEEEEEECCCc
Confidence 357999999999999999999864 233334332 366555443322 33689999999995
No 184
>cd01853 Toc34_like Toc34-like (Translocon at the Outer-envelope membrane of Chloroplasts). This family contains several Toc proteins, including Toc34, Toc33, Toc120, Toc159, Toc86, Toc125, and Toc90. The Toc complex at the outer envelope membrane of chloroplasts is a molecular machine of ~500 kDa that contains a single Toc159 protein, four Toc75 molecules, and four or five copies of Toc34. Toc64 and Toc12 are associated with the translocon, but do not appear to be part of the core complex. The Toc translocon initiates the import of nuclear-encoded preproteins from the cytosol into the organelle. Toc34 and Toc159 are both GTPases, while Toc75 is a beta-barrel integral membrane protein. Toc159 is equally distributed between a soluble cytoplasmic form and a membrane-inserted form, suggesting that assembly of the Toc complex is dynamic. Toc34 and Toc75 act sequentially to mediate docking and insertion of Toc159 resulting in assembly of the functional translocon.
Probab=98.87 E-value=2e-08 Score=60.64 Aligned_cols=59 Identities=19% Similarity=0.215 Sum_probs=38.9
Q ss_pred CceeeeEEEEeCCCCCHHHHHHHHHhCcCCC--CccCCcceeeEEEEEEeCCEEEEEEEcCCC
Q psy2514 9 GSIKGTVVIVGNGAVGKSSMIQRYCRGTFTR--DYKKTIGVKSSMIQRYCRGTFTRDYKKTIG 69 (71)
Q Consensus 9 ~~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~--~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G 69 (71)
....++|+++|.+|+||||+++.+....... .+.++.. .........+ ...+.+|||.|
T Consensus 28 ~~~~~~IllvG~tGvGKSSliNaLlg~~~~~v~~~~~~T~-~~~~~~~~~~-g~~i~vIDTPG 88 (249)
T cd01853 28 LDFSLTILVLGKTGVGKSSTINSIFGERKAATSAFQSETL-RVREVSGTVD-GFKLNIIDTPG 88 (249)
T ss_pred ccCCeEEEEECCCCCcHHHHHHHHhCCCCcccCCCCCceE-EEEEEEEEEC-CeEEEEEECCC
Confidence 4567999999999999999999999765422 2222222 1221222223 36789999988
No 185
>cd01899 Ygr210 Ygr210 subfamily. Ygr210 is a member of Obg-like family and present in archaea and fungi. They are characterized by a distinct glycine-rich motif immediately following the Walker B motif. The Ygr210 and YyaF/YchF subfamilies appear to form one major branch of the Obg-like family. Among eukaryotes, the Ygr210 subfamily is represented only in fungi. These fungal proteins form a tight cluster with their archaeal orthologs, which suggests the possibility of horizontal transfer from archaea to fungi.
Probab=98.86 E-value=4.9e-09 Score=65.24 Aligned_cols=56 Identities=14% Similarity=0.221 Sum_probs=38.6
Q ss_pred EEEEeCCCCCHHHHHHHHHhCcCC------CCccCCcceeeEEEE---------------EEeC--CEEEEEEEcCCCC
Q psy2514 15 VVIVGNGAVGKSSMIQRYCRGTFT------RDYKKTIGVKSSMIQ---------------RYCR--GTFTRDYKKTIGA 70 (71)
Q Consensus 15 i~v~G~~~vGKtsl~~~~~~~~f~------~~~~~t~~~~~~~~~---------------~~~~--~~~~l~i~Dt~G~ 70 (71)
+.++|.++||||||+++++...+. ..+.|++|..+.... ...+ +.+.+++|||||-
T Consensus 1 i~ivG~pnvGKStLfn~lt~~~~~~~~~pftT~~p~~g~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~v~i~l~D~aGl 79 (318)
T cd01899 1 IGLVGKPNAGKSTFFNAATLADVEIANYPFTTIDPNVGVGYVRVECPCKELGVSCNPRYGKCIDGKRYVPVELIDVAGL 79 (318)
T ss_pred CEEECCCCCCHHHHHHHHhCCCCcccCCCCccccceeEEEEEecCCCchhhhhhhcccccccccCcCcceEEEEECCCC
Confidence 468999999999999999987643 234566665543221 0012 2367999999994
No 186
>COG0486 ThdF Predicted GTPase [General function prediction only]
Probab=98.85 E-value=1.6e-08 Score=65.17 Aligned_cols=57 Identities=23% Similarity=0.162 Sum_probs=44.0
Q ss_pred eeeeEEEEeCCCCCHHHHHHHHHhCcC--CCCccCCcceeeEEEEEEeCCEEEEEEEcCCC
Q psy2514 11 IKGTVVIVGNGAVGKSSMIQRYCRGTF--TRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIG 69 (71)
Q Consensus 11 ~~~ki~v~G~~~vGKtsl~~~~~~~~f--~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G 69 (71)
..+|++++|.|+||||||++.++..+- ..+. |.+-.|.....+..++ +.+.+.||||
T Consensus 216 ~G~kvvIiG~PNvGKSSLLNaL~~~d~AIVTdI-~GTTRDviee~i~i~G-~pv~l~DTAG 274 (454)
T COG0486 216 EGLKVVIIGRPNVGKSSLLNALLGRDRAIVTDI-AGTTRDVIEEDINLNG-IPVRLVDTAG 274 (454)
T ss_pred cCceEEEECCCCCcHHHHHHHHhcCCceEecCC-CCCccceEEEEEEECC-EEEEEEecCC
Confidence 458999999999999999999996433 3344 4444466666666677 8899999998
No 187
>PRK09518 bifunctional cytidylate kinase/GTPase Der; Reviewed
Probab=98.85 E-value=2.2e-08 Score=67.61 Aligned_cols=61 Identities=21% Similarity=0.166 Sum_probs=41.0
Q ss_pred CceeeeEEEEeCCCCCHHHHHHHHHhCcCCC-CccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514 9 GSIKGTVVIVGNGAVGKSSMIQRYCRGTFTR-DYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA 70 (71)
Q Consensus 9 ~~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~-~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~ 70 (71)
+....+|+++|.++||||||+++++...+.. ...|.+..+........++ ..+.+|||+|-
T Consensus 272 ~~~~~~V~IvG~~nvGKSSL~n~l~~~~~~iv~~~pGvT~d~~~~~~~~~~-~~~~liDT~G~ 333 (712)
T PRK09518 272 PKAVGVVAIVGRPNVGKSTLVNRILGRREAVVEDTPGVTRDRVSYDAEWAG-TDFKLVDTGGW 333 (712)
T ss_pred cccCcEEEEECCCCCCHHHHHHHHhCCCceeecCCCCeeEEEEEEEEEECC-EEEEEEeCCCc
Confidence 4456789999999999999999999765421 2234444343333333333 57889999993
No 188
>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=98.84 E-value=2.8e-08 Score=56.30 Aligned_cols=56 Identities=21% Similarity=0.172 Sum_probs=37.5
Q ss_pred eEEEEeCCCCCHHHHHHHHHhCcCCCCccCCc----------------ceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514 14 TVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTI----------------GVKSSMIQRYCRGTFTRDYKKTIGA 70 (71)
Q Consensus 14 ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~----------------~~~~~~~~~~~~~~~~l~i~Dt~G~ 70 (71)
+|+++|++++|||||++++....+...+.++. ..+........ ....+.+|||+|.
T Consensus 1 ~v~v~G~~~~GKStlln~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~liDtpG~ 72 (189)
T cd00881 1 NVGIAGHVDHGKTTLTERLLYVTGDIERDGTVEETFLDVLKEERERGITIKSGVATFEW-PDRRVNFIDTPGH 72 (189)
T ss_pred CEEEEeCCCCCHHHHHHHHHHhcCCCCcCCceecccccCCHHHHHcCCCeecceEEEee-CCEEEEEEeCCCc
Confidence 47899999999999999999887765442222 11111122222 2468999999984
No 189
>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=98.84 E-value=7.3e-09 Score=55.33 Aligned_cols=34 Identities=32% Similarity=0.340 Sum_probs=29.8
Q ss_pred eeEEEEeCCCCCHHHHHHHHHhCcCCCCcc-CCcc
Q psy2514 13 GTVVIVGNGAVGKSSMIQRYCRGTFTRDYK-KTIG 46 (71)
Q Consensus 13 ~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~-~t~~ 46 (71)
+|++++|+.++|||+|+.|+....|...+. +|++
T Consensus 1 ~kvv~~G~~gvGKt~l~~~~~~~~~~~~~~~~t~~ 35 (124)
T smart00010 1 FKVVGIGDSGVGKVGKSARFVQFPFDYVPTVFTIG 35 (124)
T ss_pred CEEEEECCCChhHHHHHHHHhcCCccccCceehhh
Confidence 589999999999999999999888876666 6766
No 190
>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=98.83 E-value=2.1e-08 Score=66.57 Aligned_cols=57 Identities=9% Similarity=0.176 Sum_probs=44.9
Q ss_pred eeEEEEeCCCCCHHHHHHHHHh---CcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514 13 GTVVIVGNGAVGKSSMIQRYCR---GTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA 70 (71)
Q Consensus 13 ~ki~v~G~~~vGKtsl~~~~~~---~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~ 70 (71)
+.|+++|..++|||||+.++.. +.+++++.+++..++....+..++ ..+.+|||+|.
T Consensus 1 ~~I~iiG~~d~GKTTLi~aLtg~~~d~~~eE~~rGiTid~~~~~~~~~~-~~v~~iDtPGh 60 (581)
T TIGR00475 1 MIIATAGHVDHGKTTLLKALTGIAADRLPEEKKRGMTIDLGFAYFPLPD-YRLGFIDVPGH 60 (581)
T ss_pred CEEEEECCCCCCHHHHHHHHhCccCcCChhHhcCCceEEeEEEEEEeCC-EEEEEEECCCH
Confidence 3588999999999999999985 556666777777776655555555 88999999983
No 191
>PRK00093 GTP-binding protein Der; Reviewed
Probab=98.82 E-value=3.9e-08 Score=62.87 Aligned_cols=58 Identities=21% Similarity=0.084 Sum_probs=39.1
Q ss_pred eeeeEEEEeCCCCCHHHHHHHHHhCc-CCCCccCCcceeeEEEEEEeCCEEEEEEEcCCC
Q psy2514 11 IKGTVVIVGNGAVGKSSMIQRYCRGT-FTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIG 69 (71)
Q Consensus 11 ~~~ki~v~G~~~vGKtsl~~~~~~~~-f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G 69 (71)
..++++++|.+++|||||+.+++... ......|.+..+........++ ..+.+|||+|
T Consensus 172 ~~~~v~ivG~~n~GKStlin~ll~~~~~~~~~~~gtt~~~~~~~~~~~~-~~~~lvDT~G 230 (435)
T PRK00093 172 EPIKIAIIGRPNVGKSSLINALLGEERVIVSDIAGTTRDSIDTPFERDG-QKYTLIDTAG 230 (435)
T ss_pred cceEEEEECCCCCCHHHHHHHHhCCCceeecCCCCceEEEEEEEEEECC-eeEEEEECCC
Confidence 46999999999999999999998654 2222333333333333333333 5578999998
No 192
>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=98.79 E-value=2.2e-08 Score=58.80 Aligned_cols=57 Identities=19% Similarity=0.216 Sum_probs=36.8
Q ss_pred eEEEEeCCCCCHHHHHHHHHhCcCCCC-----------c------cCCcceeeEEEEEE------eCCEEEEEEEcCCCC
Q psy2514 14 TVVIVGNGAVGKSSMIQRYCRGTFTRD-----------Y------KKTIGVKSSMIQRY------CRGTFTRDYKKTIGA 70 (71)
Q Consensus 14 ki~v~G~~~vGKtsl~~~~~~~~f~~~-----------~------~~t~~~~~~~~~~~------~~~~~~l~i~Dt~G~ 70 (71)
+++++|..++|||+|+.+++...+... + ....+..+...... .+..+.+++|||+|.
T Consensus 2 nv~iiG~~~~GKTtL~~~l~~~~~~~~~~~~~~~~~~~~~d~~~~e~~~giti~~~~~~~~~~~~~~~~~~i~iiDtpG~ 81 (213)
T cd04167 2 NVAIAGHLHHGKTSLLDMLIEQTHDLTPSGKDGWKPLRYTDIRKDEQERGISIKSSPISLVLPDSKGKSYLFNIIDTPGH 81 (213)
T ss_pred cEEEEcCCCCCHHHHHHHHHHhcCCCcccccccCCceeECCCCHHHHHcCccccccceeEEEEcCCCCEEEEEEEECCCC
Confidence 589999999999999999986543321 0 11222222222221 134688999999985
No 193
>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=98.78 E-value=1.9e-08 Score=54.75 Aligned_cols=54 Identities=13% Similarity=-0.023 Sum_probs=35.0
Q ss_pred EEeCCCCCHHHHHHHHHhCcCC-CCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514 17 IVGNGAVGKSSMIQRYCRGTFT-RDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA 70 (71)
Q Consensus 17 v~G~~~vGKtsl~~~~~~~~f~-~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~ 70 (71)
++|..|+|||||+.++....+. ....+....+.............+.+|||+|-
T Consensus 1 i~G~~gsGKstl~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Dt~g~ 55 (163)
T cd00880 1 LFGRTNAGKSSLLNALLGQEVAIVSPVPGTTTDPVEYVWELGPLGPVVLIDTPGI 55 (163)
T ss_pred CcCCCCCCHHHHHHHHhCccccccCCCCCcEECCeEEEEEecCCCcEEEEECCCC
Confidence 4799999999999999876544 22222222223333333343578999999983
No 194
>TIGR02729 Obg_CgtA Obg family GTPase CgtA. This model describes a univeral, mostly one-gene-per-genome GTP-binding protein that associates with ribosomal subunits and appears to play a role in ribosomal RNA maturation. This GTPase, related to the nucleolar protein Obg, is designated CgtA in bacteria. Mutations in this gene are pleiotropic, but it appears that effects on cellular functions such as chromosome partition may be secondary to the effect on ribosome structure. Recent work done in Vibrio cholerae shows an essential role in the stringent response, in which RelA-dependent ability to synthesize the alarmone ppGpp is required for deletion of this GTPase to be lethal.
Probab=98.77 E-value=5.1e-08 Score=60.94 Aligned_cols=58 Identities=19% Similarity=0.140 Sum_probs=38.5
Q ss_pred eeeeEEEEeCCCCCHHHHHHHHHhCcC-CCCcc-CCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514 11 IKGTVVIVGNGAVGKSSMIQRYCRGTF-TRDYK-KTIGVKSSMIQRYCRGTFTRDYKKTIGA 70 (71)
Q Consensus 11 ~~~ki~v~G~~~vGKtsl~~~~~~~~f-~~~~~-~t~~~~~~~~~~~~~~~~~l~i~Dt~G~ 70 (71)
....|.++|.+++|||||++++..... ..+|. .|.. ...-.+..++...+.+|||+|.
T Consensus 156 ~~adV~lvG~pnaGKSTLl~~lt~~~~~va~y~fTT~~--p~ig~v~~~~~~~~~i~D~PGl 215 (329)
T TIGR02729 156 LLADVGLVGLPNAGKSTLISAVSAAKPKIADYPFTTLV--PNLGVVRVDDGRSFVIADIPGL 215 (329)
T ss_pred ccccEEEEcCCCCCHHHHHHHHhcCCccccCCCCCccC--CEEEEEEeCCceEEEEEeCCCc
Confidence 347899999999999999999986542 22232 2222 2222233444577899999984
No 195
>PRK09602 translation-associated GTPase; Reviewed
Probab=98.77 E-value=4.9e-08 Score=62.35 Aligned_cols=57 Identities=21% Similarity=0.305 Sum_probs=39.0
Q ss_pred eeEEEEeCCCCCHHHHHHHHHhCcCCC-Cc-----cCCcceeeEEEEE---------------EeCC--EEEEEEEcCCC
Q psy2514 13 GTVVIVGNGAVGKSSMIQRYCRGTFTR-DY-----KKTIGVKSSMIQR---------------YCRG--TFTRDYKKTIG 69 (71)
Q Consensus 13 ~ki~v~G~~~vGKtsl~~~~~~~~f~~-~~-----~~t~~~~~~~~~~---------------~~~~--~~~l~i~Dt~G 69 (71)
+++.++|.++||||||+++++..++.. +| .|++|..+..... ..++ ...+++|||+|
T Consensus 2 ~kigivG~pnvGKSTlfn~Lt~~~~~~~~y~f~t~~p~~g~~~v~~~~~~~r~~~~~~~~~~~~~~~~~~~~i~i~D~aG 81 (396)
T PRK09602 2 ITIGLVGKPNVGKSTFFNAATLADVEIANYPFTTIDPNVGVAYVRVECPCKELGVKCNPRNGKCIDGTRFIPVELIDVAG 81 (396)
T ss_pred cEEEEECCCCCCHHHHHHHHhCCcccccCCCCcceeeeeeeeeeccCCchhhhhhhhccccccccCCcceeeEEEEEcCC
Confidence 689999999999999999999776642 33 3555543321100 0111 36799999998
No 196
>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=4.1e-08 Score=65.31 Aligned_cols=51 Identities=20% Similarity=0.130 Sum_probs=39.7
Q ss_pred eCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514 19 GNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA 70 (71)
Q Consensus 19 G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~ 70 (71)
|+++||||||++++....+...+.|++..+.....+..++ .++++|||+|.
T Consensus 1 G~pNvGKSSL~N~Ltg~~~~v~n~pG~Tv~~~~~~i~~~~-~~i~lvDtPG~ 51 (591)
T TIGR00437 1 GNPNVGKSTLFNALTGANQTVGNWPGVTVEKKEGKLGFQG-EDIEIVDLPGI 51 (591)
T ss_pred CCCCCCHHHHHHHHhCCCCeecCCCCeEEEEEEEEEEECC-eEEEEEECCCc
Confidence 8899999999999998777555567777676665555554 45899999995
No 197
>PRK09554 feoB ferrous iron transport protein B; Reviewed
Probab=98.74 E-value=8e-08 Score=65.57 Aligned_cols=58 Identities=16% Similarity=0.113 Sum_probs=39.1
Q ss_pred eeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514 12 KGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA 70 (71)
Q Consensus 12 ~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~ 70 (71)
..+++++|.++||||||++++...+..-...|.+..+...... ..+...+++|||+|.
T Consensus 3 ~~~IaLvG~pNvGKSTLfN~Ltg~~~~vgn~pGvTve~k~g~~-~~~~~~i~lvDtPG~ 60 (772)
T PRK09554 3 KLTIGLIGNPNSGKTTLFNQLTGARQRVGNWAGVTVERKEGQF-STTDHQVTLVDLPGT 60 (772)
T ss_pred ceEEEEECCCCCCHHHHHHHHhCCCCccCCCCCceEeeEEEEE-EcCceEEEEEECCCc
Confidence 4789999999999999999998655432222333323222222 234578999999984
No 198
>PRK05306 infB translation initiation factor IF-2; Validated
Probab=98.70 E-value=1.1e-07 Score=65.00 Aligned_cols=59 Identities=19% Similarity=0.146 Sum_probs=42.9
Q ss_pred eeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514 11 IKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA 70 (71)
Q Consensus 11 ~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~ 70 (71)
....|+++|..++|||||+.++....+.....+.+..+.....+..++ ..+.+|||+|.
T Consensus 289 R~pvV~ImGhvd~GKTSLl~~Lr~~~v~~~e~~GIT~~iga~~v~~~~-~~ItfiDTPGh 347 (787)
T PRK05306 289 RPPVVTIMGHVDHGKTSLLDAIRKTNVAAGEAGGITQHIGAYQVETNG-GKITFLDTPGH 347 (787)
T ss_pred CCCEEEEECCCCCCHHHHHHHHHhCCccccccCceeeeccEEEEEECC-EEEEEEECCCC
Confidence 447899999999999999999998877665444443333333344444 67899999984
No 199
>CHL00189 infB translation initiation factor 2; Provisional
Probab=98.69 E-value=8.5e-08 Score=65.18 Aligned_cols=60 Identities=15% Similarity=0.148 Sum_probs=42.0
Q ss_pred eeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCccee--eEEEEEEe-CCEEEEEEEcCCCC
Q psy2514 11 IKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVK--SSMIQRYC-RGTFTRDYKKTIGA 70 (71)
Q Consensus 11 ~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~--~~~~~~~~-~~~~~l~i~Dt~G~ 70 (71)
....|+++|..++|||||+.++....+.....+++..+ ........ +....+.+|||+|.
T Consensus 243 r~p~V~IvGhvdvGKTSLld~L~~~~~~~~e~~GiTq~i~~~~v~~~~~~~~~kItfiDTPGh 305 (742)
T CHL00189 243 RPPIVTILGHVDHGKTTLLDKIRKTQIAQKEAGGITQKIGAYEVEFEYKDENQKIVFLDTPGH 305 (742)
T ss_pred cCCEEEEECCCCCCHHHHHHHHHhccCccccCCccccccceEEEEEEecCCceEEEEEECCcH
Confidence 44789999999999999999999887765544333322 22222222 23688999999984
No 200
>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=98.68 E-value=5.5e-08 Score=58.35 Aligned_cols=55 Identities=18% Similarity=0.184 Sum_probs=32.4
Q ss_pred eEEEEeCCCCCHHHHHHHHHhCcCCCC---ccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514 14 TVVIVGNGAVGKSSMIQRYCRGTFTRD---YKKTIGVKSSMIQRYCRGTFTRDYKKTIGA 70 (71)
Q Consensus 14 ki~v~G~~~vGKtsl~~~~~~~~f~~~---~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~ 70 (71)
|++++|.+++||||+......+--+.+ -.||+..+ ...+...+-+.+++||..|+
T Consensus 1 KiLLmG~~~SGKTSi~~vIF~~~~p~dT~~L~~T~~ve--~~~v~~~~~~~l~iwD~pGq 58 (232)
T PF04670_consen 1 KILLMGPRRSGKTSIRSVIFHKYSPRDTLRLEPTIDVE--KSHVRFLSFLPLNIWDCPGQ 58 (232)
T ss_dssp EEEEEESTTSSHHHHHHHHHS---GGGGGG-----SEE--EEEEECTTSCEEEEEEE-SS
T ss_pred CEEEEcCCCCChhhHHHHHHcCCCchhccccCCcCCce--EEEEecCCCcEEEEEEcCCc
Confidence 799999999999997665544333322 23555533 23333355679999999986
No 201
>COG3596 Predicted GTPase [General function prediction only]
Probab=98.68 E-value=1.7e-08 Score=61.78 Aligned_cols=61 Identities=21% Similarity=0.195 Sum_probs=38.9
Q ss_pred CceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCC
Q psy2514 9 GSIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIG 69 (71)
Q Consensus 9 ~~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G 69 (71)
....+++++.|..|+||||+++.+..++..+--.-.++.+.........+.-.+.+|||.|
T Consensus 36 ~~~pvnvLi~G~TG~GKSSliNALF~~~~~~v~~vg~~t~~~~~~~~~~~~~~l~lwDtPG 96 (296)
T COG3596 36 EKEPVNVLLMGATGAGKSSLINALFQGEVKEVSKVGVGTDITTRLRLSYDGENLVLWDTPG 96 (296)
T ss_pred ccCceeEEEecCCCCcHHHHHHHHHhccCceeeecccCCCchhhHHhhccccceEEecCCC
Confidence 4456899999999999999999998765543221122222222222222225589999987
No 202
>PRK12299 obgE GTPase CgtA; Reviewed
Probab=98.67 E-value=1.4e-07 Score=59.16 Aligned_cols=58 Identities=19% Similarity=0.146 Sum_probs=37.8
Q ss_pred eeeeEEEEeCCCCCHHHHHHHHHhCcC-CCCcc-CCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514 11 IKGTVVIVGNGAVGKSSMIQRYCRGTF-TRDYK-KTIGVKSSMIQRYCRGTFTRDYKKTIGA 70 (71)
Q Consensus 11 ~~~ki~v~G~~~vGKtsl~~~~~~~~f-~~~~~-~t~~~~~~~~~~~~~~~~~l~i~Dt~G~ 70 (71)
....|.++|.+++|||||++++..... ..+|. .|+. ...-.+...+...+.+||++|-
T Consensus 157 ~~adVglVG~PNaGKSTLln~ls~a~~~va~ypfTT~~--p~~G~v~~~~~~~~~i~D~PGl 216 (335)
T PRK12299 157 LLADVGLVGLPNAGKSTLISAVSAAKPKIADYPFTTLH--PNLGVVRVDDYKSFVIADIPGL 216 (335)
T ss_pred ccCCEEEEcCCCCCHHHHHHHHHcCCCccCCCCCceeC--ceEEEEEeCCCcEEEEEeCCCc
Confidence 346789999999999999999986432 22332 2332 2223333334456899999984
No 203
>PRK10218 GTP-binding protein; Provisional
Probab=98.66 E-value=1.9e-07 Score=62.40 Aligned_cols=59 Identities=17% Similarity=0.278 Sum_probs=44.1
Q ss_pred eeeEEEEeCCCCCHHHHHHHHHh--CcCCCCc------------cCCcceeeEEEEEEe-CCEEEEEEEcCCCC
Q psy2514 12 KGTVVIVGNGAVGKSSMIQRYCR--GTFTRDY------------KKTIGVKSSMIQRYC-RGTFTRDYKKTIGA 70 (71)
Q Consensus 12 ~~ki~v~G~~~vGKtsl~~~~~~--~~f~~~~------------~~t~~~~~~~~~~~~-~~~~~l~i~Dt~G~ 70 (71)
..+|+++|..++|||||+.+++. +.|...+ ..+.|..+..+.... .+.+++++|||+|.
T Consensus 5 iRnIaIiGh~d~GKTTLv~~Ll~~~g~~~~~~~~~~~v~D~~~~E~erGiTi~~~~~~i~~~~~~inliDTPG~ 78 (607)
T PRK10218 5 LRNIAIIAHVDHGKTTLVDKLLQQSGTFDSRAETQERVMDSNDLEKERGITILAKNTAIKWNDYRINIVDTPGH 78 (607)
T ss_pred ceEEEEECCCCCcHHHHHHHHHHhcCCcccccccceeeeccccccccCceEEEEEEEEEecCCEEEEEEECCCc
Confidence 47899999999999999999996 5554432 345666666554444 34689999999985
No 204
>PRK12296 obgE GTPase CgtA; Reviewed
Probab=98.64 E-value=2.1e-07 Score=61.03 Aligned_cols=56 Identities=21% Similarity=0.170 Sum_probs=37.9
Q ss_pred eeeeEEEEeCCCCCHHHHHHHHHhCcCC-CCcc-CCcceeeEEEEEEeCCEEEEEEEcCCC
Q psy2514 11 IKGTVVIVGNGAVGKSSMIQRYCRGTFT-RDYK-KTIGVKSSMIQRYCRGTFTRDYKKTIG 69 (71)
Q Consensus 11 ~~~ki~v~G~~~vGKtsl~~~~~~~~f~-~~~~-~t~~~~~~~~~~~~~~~~~l~i~Dt~G 69 (71)
...+|+++|.+++|||||++++...... .+|. +|+. ...-.+..++ ..+.+|||+|
T Consensus 158 ~~adV~LVG~PNAGKSTLln~Ls~akpkIadypfTTl~--P~lGvv~~~~-~~f~laDtPG 215 (500)
T PRK12296 158 SVADVGLVGFPSAGKSSLISALSAAKPKIADYPFTTLV--PNLGVVQAGD-TRFTVADVPG 215 (500)
T ss_pred ccceEEEEEcCCCCHHHHHHHHhcCCccccccCccccc--ceEEEEEECC-eEEEEEECCC
Confidence 3478999999999999999999865432 2332 2322 2223333344 6789999998
No 205
>COG5019 CDC3 Septin family protein [Cell division and chromosome partitioning / Cytoskeleton]
Probab=98.62 E-value=2e-07 Score=58.91 Aligned_cols=63 Identities=19% Similarity=0.291 Sum_probs=48.3
Q ss_pred ccCceeeeEEEEeCCCCCHHHHHHHHHhCcCCCC----------ccCCcceeeEEEEEEeCC-EEEEEEEcCCC
Q psy2514 7 LRGSIKGTVVIVGNGAVGKSSMIQRYCRGTFTRD----------YKKTIGVKSSMIQRYCRG-TFTRDYKKTIG 69 (71)
Q Consensus 7 ~~~~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~----------~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G 69 (71)
.+....+.++++|++|.|||+|++.++......+ ..|++.+.+....+..++ ++.+++.||.|
T Consensus 18 ~k~Gi~f~im~~G~sG~GKttfiNtL~~~~l~~~~~~~~~~~~~~~~~~~i~~~~~~l~e~~~~~~l~vIDtpG 91 (373)
T COG5019 18 SKKGIDFTIMVVGESGLGKTTFINTLFGTSLVDETEIDDIRAEGTSPTLEIKITKAELEEDGFHLNLTVIDTPG 91 (373)
T ss_pred HhcCCceEEEEecCCCCchhHHHHhhhHhhccCCCCccCcccccCCcceEEEeeeeeeecCCeEEEEEEeccCC
Confidence 3446679999999999999999999987644332 346666666666666666 88899999987
No 206
>PRK15467 ethanolamine utilization protein EutP; Provisional
Probab=98.62 E-value=5.3e-08 Score=54.94 Aligned_cols=45 Identities=24% Similarity=0.355 Sum_probs=30.1
Q ss_pred eEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514 14 TVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA 70 (71)
Q Consensus 14 ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~ 70 (71)
+|+++|.+++|||||++++. +.+.. ..++.+..+. .. .+|||+|.
T Consensus 3 ~i~~iG~~~~GKstl~~~l~-~~~~~-~~~~~~v~~~-------~~---~~iDtpG~ 47 (158)
T PRK15467 3 RIAFVGAVGAGKTTLFNALQ-GNYTL-ARKTQAVEFN-------DK---GDIDTPGE 47 (158)
T ss_pred EEEEECCCCCCHHHHHHHHc-CCCcc-CccceEEEEC-------CC---CcccCCcc
Confidence 79999999999999999965 44432 1233333221 11 37999995
No 207
>PRK12297 obgE GTPase CgtA; Reviewed
Probab=98.61 E-value=2.4e-07 Score=59.73 Aligned_cols=57 Identities=18% Similarity=0.084 Sum_probs=37.0
Q ss_pred eeeEEEEeCCCCCHHHHHHHHHhCcCC-CCcc-CCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514 12 KGTVVIVGNGAVGKSSMIQRYCRGTFT-RDYK-KTIGVKSSMIQRYCRGTFTRDYKKTIGA 70 (71)
Q Consensus 12 ~~ki~v~G~~~vGKtsl~~~~~~~~f~-~~~~-~t~~~~~~~~~~~~~~~~~l~i~Dt~G~ 70 (71)
...|.++|.++||||||+++++..... .+|. .|....+ -.+..++...+.+||++|-
T Consensus 158 ~adVglVG~pNaGKSTLLn~Lt~ak~kIa~ypfTTl~Pnl--G~v~~~~~~~~~laD~PGl 216 (424)
T PRK12297 158 LADVGLVGFPNVGKSTLLSVVSNAKPKIANYHFTTLVPNL--GVVETDDGRSFVMADIPGL 216 (424)
T ss_pred cCcEEEEcCCCCCHHHHHHHHHcCCCccccCCcceeceEE--EEEEEeCCceEEEEECCCC
Confidence 358999999999999999999865421 2222 2333222 2233333466899999983
No 208
>cd01852 AIG1 AIG1 (avrRpt2-induced gene 1). This represents Arabidoposis protein AIG1 that appears to be involved in plant resistance to bacteria. The Arabidopsis disease resistance gene RPS2 is involved in recognition of bacterial pathogens carrying the avirulence gene avrRpt2. AIG1 exhibits RPS2- and avrRpt1-dependent induction early after infection with Pseudomonas syringae carrying avrRpt2. This subfamily also includes IAN-4 protein, which has GTP-binding activity and shares sequence homology with a novel family of putative GTP-binding proteins: the immuno-associated nucleotide (IAN) family. The evolutionary conservation of the IAN family provides a unique example of a plant pathogen response gene conserved in animals. The IAN/IMAP subfamily has been proposed to regulate apoptosis in vertebrates and angiosperm plants, particularly in relation to cancer, diabetes, and infections. The human IAN genes were renamed GIMAP (GTPase of the immunity associated proteins).
Probab=98.60 E-value=3.3e-07 Score=53.15 Aligned_cols=56 Identities=16% Similarity=0.124 Sum_probs=35.4
Q ss_pred eeEEEEeCCCCCHHHHHHHHHhCcC-CCCc-cCCcceeeEEEEEEeCCEEEEEEEcCCC
Q psy2514 13 GTVVIVGNGAVGKSSMIQRYCRGTF-TRDY-KKTIGVKSSMIQRYCRGTFTRDYKKTIG 69 (71)
Q Consensus 13 ~ki~v~G~~~vGKtsl~~~~~~~~f-~~~~-~~t~~~~~~~~~~~~~~~~~l~i~Dt~G 69 (71)
.+|+++|.+|+||||+++.++..+. .... .+..-.+........++ ..+.++||.|
T Consensus 1 ~~i~lvG~~g~GKSsl~N~ilg~~~~~~~~~~~~~T~~~~~~~~~~~~-~~i~viDTPG 58 (196)
T cd01852 1 LRLVLVGKTGAGKSATGNTILGREVFESKLSASSVTKTCQKESAVWDG-RRVNVIDTPG 58 (196)
T ss_pred CEEEEECCCCCCHHHHHHHhhCCCccccccCCCCcccccceeeEEECC-eEEEEEECcC
Confidence 3689999999999999999996543 2221 11111122222222333 5789999988
No 209
>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=98.58 E-value=3.9e-07 Score=55.61 Aligned_cols=57 Identities=23% Similarity=0.181 Sum_probs=37.1
Q ss_pred eeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514 11 IKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA 70 (71)
Q Consensus 11 ~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~ 70 (71)
..++++++|.++||||||++++........ .+..|.......+..+. .+.++||.|-
T Consensus 117 ~~~~~~~vG~~nvGKSslin~l~~~~~~~~-~~~~g~T~~~~~~~~~~--~~~l~DtPG~ 173 (276)
T TIGR03596 117 RPIRAMIVGIPNVGKSTLINRLAGKKVAKV-GNRPGVTKGQQWIKLSD--GLELLDTPGI 173 (276)
T ss_pred CCeEEEEECCCCCCHHHHHHHHhCCCcccc-CCCCCeecceEEEEeCC--CEEEEECCCc
Confidence 358899999999999999999986553321 12222222223333332 4689999984
No 210
>cd01858 NGP_1 NGP-1. Autoantigen NGP-1 (Nucleolar G-protein gene 1) has been shown to localize in the nucleolus and nucleolar organizers in all cell types analyzed, which is indicative of a function in ribosomal assembly. NGP-1 and its homologs show a circular permutation of the GTPase signature motifs so that the C-terminal strands 5, 6, and 7 (strand 6 contains the G4 box with NKXD motif) are relocated to the N terminus.
Probab=98.57 E-value=5.6e-07 Score=50.56 Aligned_cols=56 Identities=18% Similarity=0.058 Sum_probs=34.2
Q ss_pred eeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCC
Q psy2514 11 IKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIG 69 (71)
Q Consensus 11 ~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G 69 (71)
....++++|.++||||||++++....... ..++-|..-....+..++ .+.+.||+|
T Consensus 101 ~~~~v~~~G~~nvGKStliN~l~~~~~~~-~~~~~g~T~~~~~~~~~~--~~~liDtPG 156 (157)
T cd01858 101 KQISVGFIGYPNVGKSSIINTLRSKKVCK-VAPIPGETKVWQYITLMK--RIYLIDCPG 156 (157)
T ss_pred cceEEEEEeCCCCChHHHHHHHhcCCcee-eCCCCCeeEeEEEEEcCC--CEEEEECcC
Confidence 35788899999999999999998654322 112222111111122222 367999998
No 211
>PF04548 AIG1: AIG1 family; InterPro: IPR006703 This entry represents a domain found in Arabidopsis protein AIG1 which appears to be involved in plant resistance to bacteria. The Arabidopsis disease resistance gene RPS2 is involved in recognition of bacterial pathogens carrying the avirulence gene avrRpt2. AIG1 (avrRpt2-induced gene) exhibits RPS2- and avrRpt2-dependent induction early after infection with Pseudomonas syringae carrying avrRpt2 []. The domain is also apparently found in a number of mammalian proteins, for example the rat immune-associated nucleotide 4 protein. ; GO: 0005525 GTP binding; PDB: 3LXX_A 3BB4_A 3DEF_A 3BB3_A 2J3E_A 3V70_B 3BB1_A 1H65_B 2XTP_A 3P1J_C ....
Probab=98.56 E-value=7.9e-07 Score=52.40 Aligned_cols=56 Identities=16% Similarity=0.136 Sum_probs=33.8
Q ss_pred eeEEEEeCCCCCHHHHHHHHHhCcCCCCcc--CCcceeeEEEEEEeCCEEEEEEEcCCC
Q psy2514 13 GTVVIVGNGAVGKSSMIQRYCRGTFTRDYK--KTIGVKSSMIQRYCRGTFTRDYKKTIG 69 (71)
Q Consensus 13 ~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~--~t~~~~~~~~~~~~~~~~~l~i~Dt~G 69 (71)
++|+++|.+|+||||+.+.++......... .+.-..........++ ..+.++||.|
T Consensus 1 l~IlllG~tGsGKSs~~N~ilg~~~f~~~~~~~~~t~~~~~~~~~~~g-~~v~VIDTPG 58 (212)
T PF04548_consen 1 LRILLLGKTGSGKSSLGNSILGKEVFKSGSSAKSVTQECQKYSGEVDG-RQVTVIDTPG 58 (212)
T ss_dssp EEEEEECSTTSSHHHHHHHHHTSS-SS--TTTSS--SS-EEEEEEETT-EEEEEEE--S
T ss_pred CEEEEECCCCCCHHHHHHHHhcccceeeccccCCcccccceeeeeecc-eEEEEEeCCC
Confidence 479999999999999999998654433221 1122223333344455 6688999987
No 212
>PRK09563 rbgA GTPase YlqF; Reviewed
Probab=98.54 E-value=8.3e-07 Score=54.49 Aligned_cols=57 Identities=21% Similarity=0.184 Sum_probs=37.3
Q ss_pred eeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514 11 IKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA 70 (71)
Q Consensus 11 ~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~ 70 (71)
..++++++|.++|||||+++++...+... ..+..|.......+..+. .+.++||.|=
T Consensus 120 ~~~~~~~~G~pnvGKSsliN~l~~~~~~~-~~~~~g~T~~~~~~~~~~--~~~l~DtPGi 176 (287)
T PRK09563 120 RAIRAMIIGIPNVGKSTLINRLAGKKIAK-TGNRPGVTKAQQWIKLGK--GLELLDTPGI 176 (287)
T ss_pred CceEEEEECCCCCCHHHHHHHHhcCCccc-cCCCCCeEEEEEEEEeCC--cEEEEECCCc
Confidence 45899999999999999999998765422 122223222222333333 4779999984
No 213
>KOG1707|consensus
Probab=98.53 E-value=1.3e-07 Score=62.57 Aligned_cols=58 Identities=16% Similarity=0.145 Sum_probs=43.2
Q ss_pred ceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCC
Q psy2514 10 SIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTI 68 (71)
Q Consensus 10 ~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~ 68 (71)
...++|+++||.|||||||+..++.++|+++. |.+...+..+.-.....+...|.||.
T Consensus 7 ~kdVRIvliGD~G~GKtSLImSL~~eef~~~V-P~rl~~i~IPadvtPe~vpt~ivD~s 64 (625)
T KOG1707|consen 7 LKDVRIVLIGDEGVGKTSLIMSLLEEEFVDAV-PRRLPRILIPADVTPENVPTSIVDTS 64 (625)
T ss_pred ccceEEEEECCCCccHHHHHHHHHhhhccccc-cccCCccccCCccCcCcCceEEEecc
Confidence 45699999999999999999999999999864 55544454443333344557788874
No 214
>KOG2655|consensus
Probab=98.51 E-value=5.9e-07 Score=56.86 Aligned_cols=63 Identities=21% Similarity=0.328 Sum_probs=45.6
Q ss_pred cCceeeeEEEEeCCCCCHHHHHHHHHhCcCCCC---------ccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514 8 RGSIKGTVVIVGNGAVGKSSMIQRYCRGTFTRD---------YKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA 70 (71)
Q Consensus 8 ~~~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~---------~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~ 70 (71)
+....|.++++|++|.|||+|++.+....+..+ ...|+.+......+..++ .+.|++.||.|.
T Consensus 17 KkG~~ftlmvvG~sGlGKsTfiNsLf~~~l~~~~~~~~~~~~~~~t~~i~~~~~~iee~g~~l~LtvidtPGf 89 (366)
T KOG2655|consen 17 KKGFDFTLMVVGESGLGKSTFINSLFLTDLSGNREVPGASERIKETVEIESTKVEIEENGVKLNLTVIDTPGF 89 (366)
T ss_pred hcCCceEEEEecCCCccHHHHHHHHHhhhccCCcccCCcccCccccceeeeeeeeecCCCeEEeeEEeccCCC
Confidence 345569999999999999999999776655432 223555555555555555 788999999874
No 215
>cd01855 YqeH YqeH. YqeH is an essential GTP-binding protein. Depletion of YqeH induces an excess initiation of DNA replication, suggesting that it negatively controls initiation of chromosome replication. The YqeH subfamily is common in eukaryotes and sporadically present in bacteria with probable acquisition by plants from chloroplasts. Proteins of the YqeH family contain all sequence motifs typical of the vast class of P-loop-containing GTPases, but show a circular permutation, with a G4-G1-G3 pattern of motifs as opposed to the regular G1-G3-G4 pattern seen in most GTPases.
Probab=98.49 E-value=6e-07 Score=51.80 Aligned_cols=25 Identities=36% Similarity=0.575 Sum_probs=21.8
Q ss_pred eeeEEEEeCCCCCHHHHHHHHHhCc
Q psy2514 12 KGTVVIVGNGAVGKSSMIQRYCRGT 36 (71)
Q Consensus 12 ~~ki~v~G~~~vGKtsl~~~~~~~~ 36 (71)
...++++|.++||||||++.+....
T Consensus 127 ~~~~~~~G~~nvGKStliN~l~~~~ 151 (190)
T cd01855 127 GGDVYVVGATNVGKSTLINALLKKD 151 (190)
T ss_pred CCcEEEEcCCCCCHHHHHHHHHHhc
Confidence 3579999999999999999998643
No 216
>KOG0075|consensus
Probab=98.49 E-value=4.4e-08 Score=55.47 Aligned_cols=57 Identities=23% Similarity=0.327 Sum_probs=48.2
Q ss_pred eeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514 11 IKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA 70 (71)
Q Consensus 11 ~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~ 70 (71)
.+..+.++|...+|||+|......+.|.+...||+| |..+.+. .+.+.+.+||..|+
T Consensus 19 ~emel~lvGLq~sGKtt~Vn~ia~g~~~edmiptvG--fnmrk~t-kgnvtiklwD~gGq 75 (186)
T KOG0075|consen 19 EEMELSLVGLQNSGKTTLVNVIARGQYLEDMIPTVG--FNMRKVT-KGNVTIKLWDLGGQ 75 (186)
T ss_pred heeeEEEEeeccCCcceEEEEEeeccchhhhccccc--ceeEEec-cCceEEEEEecCCC
Confidence 357889999999999999999999999999999999 5555554 34588999999886
No 217
>KOG1191|consensus
Probab=98.49 E-value=5.1e-07 Score=58.94 Aligned_cols=57 Identities=25% Similarity=0.239 Sum_probs=40.8
Q ss_pred eeeeEEEEeCCCCCHHHHHHHHHhCcCC--CCccCCcceeeEEEEEEeCCEEEEEEEcCCC
Q psy2514 11 IKGTVVIVGNGAVGKSSMIQRYCRGTFT--RDYKKTIGVKSSMIQRYCRGTFTRDYKKTIG 69 (71)
Q Consensus 11 ~~~ki~v~G~~~vGKtsl~~~~~~~~f~--~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G 69 (71)
..++++++|.++||||||++.+...+-. ....-|+. |-.-..+..++ +.+.+.||||
T Consensus 267 ~gl~iaIvGrPNvGKSSLlNaL~~~drsIVSpv~GTTR-Daiea~v~~~G-~~v~L~DTAG 325 (531)
T KOG1191|consen 267 SGLQIAIVGRPNVGKSSLLNALSREDRSIVSPVPGTTR-DAIEAQVTVNG-VPVRLSDTAG 325 (531)
T ss_pred cCCeEEEEcCCCCCHHHHHHHHhcCCceEeCCCCCcch-hhheeEeecCC-eEEEEEeccc
Confidence 3489999999999999999999976542 23333444 33333444455 8889999998
No 218
>cd04168 TetM_like Tet(M)-like subfamily. Tet(M), Tet(O), Tet(W), and OtrA are tetracycline resistance genes found in Gram-positive and Gram-negative bacteria. Tetracyclines inhibit protein synthesis by preventing aminoacyl-tRNA from binding to the ribosomal acceptor site. This subfamily contains tetracycline resistance proteins that function through ribosomal protection and are typically found on mobile genetic elements, such as transposons or plasmids, and are often conjugative. Ribosomal protection proteins are homologous to the elongation factors EF-Tu and EF-G. EF-G and Tet(M) compete for binding on the ribosomes. Tet(M) has a higher affinity than EF-G, suggesting these two proteins may have overlapping binding sites and that Tet(M) must be released before EF-G can bind. Tet(M) and Tet(O) have been shown to have ribosome-dependent GTPase activity. These proteins are part of the GTP translation factor family, which includes EF-G, EF-Tu, EF2, LepA, and SelB.
Probab=98.47 E-value=1.1e-06 Score=52.70 Aligned_cols=21 Identities=14% Similarity=0.279 Sum_probs=19.1
Q ss_pred eEEEEeCCCCCHHHHHHHHHh
Q psy2514 14 TVVIVGNGAVGKSSMIQRYCR 34 (71)
Q Consensus 14 ki~v~G~~~vGKtsl~~~~~~ 34 (71)
+++++|..++|||||+.+++.
T Consensus 1 ni~i~G~~~~GKTtL~~~ll~ 21 (237)
T cd04168 1 NIGILAHVDAGKTTLTESLLY 21 (237)
T ss_pred CEEEEcCCCCCHHHHHHHHHH
Confidence 478999999999999999985
No 219
>PRK12317 elongation factor 1-alpha; Reviewed
Probab=98.47 E-value=9.5e-07 Score=56.65 Aligned_cols=25 Identities=20% Similarity=0.339 Sum_probs=22.6
Q ss_pred CceeeeEEEEeCCCCCHHHHHHHHH
Q psy2514 9 GSIKGTVVIVGNGAVGKSSMIQRYC 33 (71)
Q Consensus 9 ~~~~~ki~v~G~~~vGKtsl~~~~~ 33 (71)
+...++++++|..++|||||+.+++
T Consensus 3 ~k~~~~v~iiGh~d~GKSTL~~~Ll 27 (425)
T PRK12317 3 EKPHLNLAVIGHVDHGKSTLVGRLL 27 (425)
T ss_pred CCCEEEEEEECCCCCChHHHHHHHH
Confidence 4557999999999999999999988
No 220
>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=98.46 E-value=1.2e-06 Score=50.41 Aligned_cols=54 Identities=26% Similarity=0.185 Sum_probs=35.8
Q ss_pred eeeEEEEeCCCCCHHHHHHHHHhCcC-CCCccCCcceeeEEEEEEeCCEEEEEEEcCCC
Q psy2514 12 KGTVVIVGNGAVGKSSMIQRYCRGTF-TRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIG 69 (71)
Q Consensus 12 ~~ki~v~G~~~vGKtsl~~~~~~~~f-~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G 69 (71)
.++++++|.+++|||||++++....- .....|.+- .....+..+. .+.++||.|
T Consensus 117 ~~~~~~vG~pnvGKSslin~l~~~~~~~~~~~pg~T--~~~~~~~~~~--~~~l~DtPG 171 (172)
T cd04178 117 SITVGVVGFPNVGKSSLINSLKRSRACNVGATPGVT--KSMQEVHLDK--KVKLLDSPG 171 (172)
T ss_pred CcEEEEEcCCCCCHHHHHHHHhCcccceecCCCCeE--cceEEEEeCC--CEEEEECcC
Confidence 37999999999999999999986543 222223322 2223333332 478999988
No 221
>PTZ00099 rab6; Provisional
Probab=98.45 E-value=6.4e-07 Score=51.47 Aligned_cols=37 Identities=24% Similarity=0.315 Sum_probs=31.4
Q ss_pred hCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514 34 RGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA 70 (71)
Q Consensus 34 ~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~ 70 (71)
.+.|.++|.||+|.+|..+.+..++ .+.+.||||+|.
T Consensus 2 ~~~F~~~~~~Tig~~~~~~~~~~~~~~v~l~iwDt~G~ 39 (176)
T PTZ00099 2 YDTFDNNYQSTIGIDFLSKTLYLDEGPVRLQLWDTAGQ 39 (176)
T ss_pred CCCcCCCCCCccceEEEEEEEEECCEEEEEEEEECCCh
Confidence 3578889999999999887776655 889999999995
No 222
>PRK12298 obgE GTPase CgtA; Reviewed
Probab=98.45 E-value=1.3e-06 Score=55.89 Aligned_cols=58 Identities=19% Similarity=0.096 Sum_probs=37.0
Q ss_pred eeeEEEEeCCCCCHHHHHHHHHhCcC-CCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514 12 KGTVVIVGNGAVGKSSMIQRYCRGTF-TRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA 70 (71)
Q Consensus 12 ~~ki~v~G~~~vGKtsl~~~~~~~~f-~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~ 70 (71)
...|.++|.+++|||||++++...+. ...|.-|+-. ...-.+..++...+.++||.|-
T Consensus 159 iadValVG~PNaGKSTLln~Lt~~k~~vs~~p~TT~~-p~~Giv~~~~~~~i~~vDtPGi 217 (390)
T PRK12298 159 LADVGLLGLPNAGKSTFIRAVSAAKPKVADYPFTTLV-PNLGVVRVDDERSFVVADIPGL 217 (390)
T ss_pred cccEEEEcCCCCCHHHHHHHHhCCcccccCCCCCccC-cEEEEEEeCCCcEEEEEeCCCc
Confidence 34799999999999999999986443 2233222221 2222233344456889999884
No 223
>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=98.44 E-value=6.7e-07 Score=59.68 Aligned_cols=58 Identities=14% Similarity=0.155 Sum_probs=38.1
Q ss_pred eeEEEEeCCCCCHHHHHHHHHhCcCCCC----ccCCcceeeEEEEEEeC--------CE-----EEEEEEcCCCC
Q psy2514 13 GTVVIVGNGAVGKSSMIQRYCRGTFTRD----YKKTIGVKSSMIQRYCR--------GT-----FTRDYKKTIGA 70 (71)
Q Consensus 13 ~ki~v~G~~~vGKtsl~~~~~~~~f~~~----~~~t~~~~~~~~~~~~~--------~~-----~~l~i~Dt~G~ 70 (71)
.-|+++|.+++|||||+.++....+... +.+++|..+........ .+ ..+.+|||+|.
T Consensus 5 piV~IiG~~d~GKTSLln~l~~~~v~~~e~ggiTq~iG~~~v~~~~~~~~~~~~~~~~~v~~~~~~l~~iDTpG~ 79 (590)
T TIGR00491 5 PIVSVLGHVDHGKTTLLDKIRGSAVAKREAGGITQHIGATEIPMDVIEGICGDLLKKFKIRLKIPGLLFIDTPGH 79 (590)
T ss_pred CEEEEECCCCCCHHHHHHHHhccccccccCCceecccCeeEeeeccccccccccccccccccccCcEEEEECCCc
Confidence 3589999999999999999998877543 33455544432211110 01 13889999984
No 224
>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=98.44 E-value=1.3e-06 Score=56.02 Aligned_cols=26 Identities=19% Similarity=0.198 Sum_probs=23.1
Q ss_pred CceeeeEEEEeCCCCCHHHHHHHHHh
Q psy2514 9 GSIKGTVVIVGNGAVGKSSMIQRYCR 34 (71)
Q Consensus 9 ~~~~~ki~v~G~~~vGKtsl~~~~~~ 34 (71)
+...++++++|..++|||||+.+++.
T Consensus 4 ~~~~~~v~i~Ghvd~GKSTL~~~ll~ 29 (426)
T TIGR00483 4 EKEHINVAFIGHVDHGKSTTVGHLLY 29 (426)
T ss_pred CCceeEEEEEeccCCcHHHHHHHHHH
Confidence 45569999999999999999999985
No 225
>PRK05433 GTP-binding protein LepA; Provisional
Probab=98.43 E-value=1.2e-06 Score=58.52 Aligned_cols=60 Identities=17% Similarity=0.146 Sum_probs=39.0
Q ss_pred eeeeEEEEeCCCCCHHHHHHHHHhC--cCC-----CCc------cCCcceeeEEEEEE------eCCEEEEEEEcCCCC
Q psy2514 11 IKGTVVIVGNGAVGKSSMIQRYCRG--TFT-----RDY------KKTIGVKSSMIQRY------CRGTFTRDYKKTIGA 70 (71)
Q Consensus 11 ~~~ki~v~G~~~vGKtsl~~~~~~~--~f~-----~~~------~~t~~~~~~~~~~~------~~~~~~l~i~Dt~G~ 70 (71)
..-+++++|..++|||||+.+++.. .+. ..+ ....|..+...... .+..+.+++|||+|.
T Consensus 6 ~iRNi~IiGhvd~GKTTL~~rLl~~tg~i~~~~~~~~~lD~~~~ErerGiTi~~~~v~~~~~~~dg~~~~lnLiDTPGh 84 (600)
T PRK05433 6 NIRNFSIIAHIDHGKSTLADRLIELTGTLSEREMKAQVLDSMDLERERGITIKAQAVRLNYKAKDGETYILNLIDTPGH 84 (600)
T ss_pred cCCEEEEECCCCCCHHHHHHHHHHhcCCCcccccccccccCchHHhhcCCcccccEEEEEEEccCCCcEEEEEEECCCc
Confidence 3468999999999999999999852 221 111 12334444332221 233689999999994
No 226
>cd04169 RF3 RF3 subfamily. Peptide chain release factor 3 (RF3) is a protein involved in the termination step of translation in bacteria. Termination occurs when class I release factors (RF1 or RF2) recognize the stop codon at the A-site of the ribosome and activate the release of the nascent polypeptide. The class II release factor RF3 then initiates the release of the class I RF from the ribosome. RF3 binds to the RF/ribosome complex in the inactive (GDP-bound) state. GDP/GTP exchange occurs, followed by the release of the class I RF. Subsequent hydrolysis of GTP to GDP triggers the release of RF3 from the ribosome. RF3 also enhances the efficiency of class I RFs at less preferred stop codons and at stop codons in weak contexts.
Probab=98.42 E-value=1.9e-06 Score=52.59 Aligned_cols=22 Identities=18% Similarity=0.369 Sum_probs=19.8
Q ss_pred eeEEEEeCCCCCHHHHHHHHHh
Q psy2514 13 GTVVIVGNGAVGKSSMIQRYCR 34 (71)
Q Consensus 13 ~ki~v~G~~~vGKtsl~~~~~~ 34 (71)
-+++++|.+++|||||+.+++.
T Consensus 3 Rni~ivGh~~~GKTTL~e~ll~ 24 (267)
T cd04169 3 RTFAIISHPDAGKTTLTEKLLL 24 (267)
T ss_pred cEEEEEcCCCCCHHHHHHHHHH
Confidence 4689999999999999999874
No 227
>COG1160 Predicted GTPases [General function prediction only]
Probab=98.42 E-value=1e-06 Score=56.91 Aligned_cols=58 Identities=22% Similarity=0.072 Sum_probs=40.5
Q ss_pred eeeeEEEEeCCCCCHHHHHHHHHhCcC-CCCccCCcceeeEEEEEEeCCEEEEEEEcCCC
Q psy2514 11 IKGTVVIVGNGAVGKSSMIQRYCRGTF-TRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIG 69 (71)
Q Consensus 11 ~~~ki~v~G~~~vGKtsl~~~~~~~~f-~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G 69 (71)
..+|++++|-++||||||+++++..+- .-+..|.+-.|.....+..++ -++.+.||||
T Consensus 177 ~~ikiaiiGrPNvGKSsLiN~ilgeeR~Iv~~~aGTTRD~I~~~~e~~~-~~~~liDTAG 235 (444)
T COG1160 177 DPIKIAIIGRPNVGKSSLINAILGEERVIVSDIAGTTRDSIDIEFERDG-RKYVLIDTAG 235 (444)
T ss_pred CceEEEEEeCCCCCchHHHHHhccCceEEecCCCCccccceeeeEEECC-eEEEEEECCC
Confidence 359999999999999999999996432 222334444444445555444 4578999998
No 228
>KOG1423|consensus
Probab=98.41 E-value=2.1e-06 Score=53.71 Aligned_cols=60 Identities=18% Similarity=0.189 Sum_probs=42.1
Q ss_pred CceeeeEEEEeCCCCCHHHHHHHHHhCcCCCC-cc-CCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514 9 GSIKGTVVIVGNGAVGKSSMIQRYCRGTFTRD-YK-KTIGVKSSMIQRYCRGTFTRDYKKTIGA 70 (71)
Q Consensus 9 ~~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~-~~-~t~~~~~~~~~~~~~~~~~l~i~Dt~G~ 70 (71)
..+...++++|.++||||+|.++.+......- .. -|+. ...--+...++..+.++||.|.
T Consensus 69 ~~k~L~vavIG~PNvGKStLtN~mig~kv~~vS~K~~TTr--~~ilgi~ts~eTQlvf~DTPGl 130 (379)
T KOG1423|consen 69 AQKSLYVAVIGAPNVGKSTLTNQMIGQKVSAVSRKVHTTR--HRILGIITSGETQLVFYDTPGL 130 (379)
T ss_pred cceEEEEEEEcCCCcchhhhhhHhhCCcccccccccccee--eeeeEEEecCceEEEEecCCcc
Confidence 35679999999999999999999997665431 11 1111 2223334466789999999985
No 229
>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=98.40 E-value=1e-06 Score=59.79 Aligned_cols=61 Identities=18% Similarity=0.231 Sum_probs=41.5
Q ss_pred ceeeeEEEEeCCCCCHHHHHHHHHhC---------------cCCCC---ccCCcceeeEEEEE-EeCCEEEEEEEcCCCC
Q psy2514 10 SIKGTVVIVGNGAVGKSSMIQRYCRG---------------TFTRD---YKKTIGVKSSMIQR-YCRGTFTRDYKKTIGA 70 (71)
Q Consensus 10 ~~~~ki~v~G~~~vGKtsl~~~~~~~---------------~f~~~---~~~t~~~~~~~~~~-~~~~~~~l~i~Dt~G~ 70 (71)
....+|+++|..++|||||+.+++.. .|... +..|+...+..... ...+.+.+++|||+|.
T Consensus 17 ~~irnI~ivGh~~~GKTTL~~~ll~~~g~i~~~~~~~~~~~d~~~~e~~rg~Ti~~~~~~~~~~~~~~~~~i~liDTPG~ 96 (720)
T TIGR00490 17 KFIRNIGIVAHIDHGKTTLSDNLLAGAGMISEELAGQQLYLDFDEQEQERGITINAANVSMVHEYEGNEYLINLIDTPGH 96 (720)
T ss_pred ccccEEEEEEeCCCCHHHHHHHHHHHcCCCchhcCCceeecCCCHHHHhhcchhhcccceeEEeecCCceEEEEEeCCCc
Confidence 45689999999999999999999752 22221 23455544433222 2244789999999985
No 230
>PTZ00258 GTP-binding protein; Provisional
Probab=98.38 E-value=1.7e-06 Score=55.34 Aligned_cols=28 Identities=29% Similarity=0.385 Sum_probs=23.8
Q ss_pred ceeeeEEEEeCCCCCHHHHHHHHHhCcC
Q psy2514 10 SIKGTVVIVGNGAVGKSSMIQRYCRGTF 37 (71)
Q Consensus 10 ~~~~ki~v~G~~~vGKtsl~~~~~~~~f 37 (71)
...+++.++|.+++|||||++.+....-
T Consensus 19 ~~~~kvgIVG~PNvGKSTLfnaLt~~~~ 46 (390)
T PTZ00258 19 GNNLKMGIVGLPNVGKSTTFNALCKQQV 46 (390)
T ss_pred CCCcEEEEECCCCCChHHHHHHHhcCcc
Confidence 4568999999999999999999976543
No 231
>PRK09601 GTP-binding protein YchF; Reviewed
Probab=98.37 E-value=2.2e-06 Score=54.47 Aligned_cols=24 Identities=29% Similarity=0.333 Sum_probs=22.0
Q ss_pred eeEEEEeCCCCCHHHHHHHHHhCc
Q psy2514 13 GTVVIVGNGAVGKSSMIQRYCRGT 36 (71)
Q Consensus 13 ~ki~v~G~~~vGKtsl~~~~~~~~ 36 (71)
+++.++|.+++|||||++++....
T Consensus 3 ~~vgIVG~PNvGKSTLfnaLt~~~ 26 (364)
T PRK09601 3 LKCGIVGLPNVGKSTLFNALTKAG 26 (364)
T ss_pred cEEEEECCCCCCHHHHHHHHhCCC
Confidence 689999999999999999998755
No 232
>KOG1547|consensus
Probab=98.37 E-value=1.3e-06 Score=53.31 Aligned_cols=63 Identities=21% Similarity=0.301 Sum_probs=45.5
Q ss_pred ccCceeeeEEEEeCCCCCHHHHHHHHHhCcCCC---------CccCCcceeeEEEEEEeCC-EEEEEEEcCCC
Q psy2514 7 LRGSIKGTVVIVGNGAVGKSSMIQRYCRGTFTR---------DYKKTIGVKSSMIQRYCRG-TFTRDYKKTIG 69 (71)
Q Consensus 7 ~~~~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~---------~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G 69 (71)
|+....|+|+++|.+|.|||++++.+...+... .+..|+.......++..++ +.++++.||.|
T Consensus 41 mk~GF~FNIMVVgqSglgkstlinTlf~s~v~~~s~~~~~~~p~pkT~eik~~thvieE~gVklkltviDTPG 113 (336)
T KOG1547|consen 41 MKTGFDFNIMVVGQSGLGKSTLINTLFKSHVSDSSSSDNSAEPIPKTTEIKSITHVIEEKGVKLKLTVIDTPG 113 (336)
T ss_pred HhccCceEEEEEecCCCCchhhHHHHHHHHHhhccCCCcccCcccceEEEEeeeeeeeecceEEEEEEecCCC
Confidence 455678999999999999999999766433322 2334555555556666566 77899999987
No 233
>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=98.36 E-value=1.5e-06 Score=53.29 Aligned_cols=23 Identities=30% Similarity=0.421 Sum_probs=19.9
Q ss_pred EEEEeCCCCCHHHHHHHHHhCcC
Q psy2514 15 VVIVGNGAVGKSSMIQRYCRGTF 37 (71)
Q Consensus 15 i~v~G~~~vGKtsl~~~~~~~~f 37 (71)
+.++|.+++|||||++.++....
T Consensus 1 igivG~PN~GKSTLfn~Lt~~~~ 23 (274)
T cd01900 1 IGIVGLPNVGKSTLFNALTKAGA 23 (274)
T ss_pred CeEeCCCCCcHHHHHHHHhCCCC
Confidence 46899999999999999987554
No 234
>cd04170 EF-G_bact Elongation factor G (EF-G) subfamily. Translocation is mediated by EF-G (also called translocase). The structure of EF-G closely resembles that of the complex between EF-Tu and tRNA. This is an example of molecular mimicry; a protein domain evolved so that it mimics the shape of a tRNA molecule. EF-G in the GTP form binds to the ribosome, primarily through the interaction of its EF-Tu-like domain with the 50S subunit. The binding of EF-G to the ribosome in this manner stimulates the GTPase activity of EF-G. On GTP hydrolysis, EF-G undergoes a conformational change that forces its arm deeper into the A site on the 30S subunit. To accommodate this domain, the peptidyl-tRNA in the A site moves to the P site, carrying the mRNA and the deacylated tRNA with it. The ribosome may be prepared for these rearrangements by the initial binding of EF-G as well. The dissociation of EF-G leaves the ribosome ready to accept the next aminoacyl-tRNA into the A site. This group
Probab=98.36 E-value=1.4e-06 Score=52.81 Aligned_cols=21 Identities=19% Similarity=0.480 Sum_probs=18.9
Q ss_pred eEEEEeCCCCCHHHHHHHHHh
Q psy2514 14 TVVIVGNGAVGKSSMIQRYCR 34 (71)
Q Consensus 14 ki~v~G~~~vGKtsl~~~~~~ 34 (71)
+++++|.+++|||||+.+++.
T Consensus 1 ni~ivG~~gsGKStL~~~Ll~ 21 (268)
T cd04170 1 NIALVGHSGSGKTTLAEALLY 21 (268)
T ss_pred CEEEECCCCCCHHHHHHHHHH
Confidence 478999999999999999874
No 235
>KOG3859|consensus
Probab=98.35 E-value=1.2e-06 Score=54.34 Aligned_cols=63 Identities=13% Similarity=0.238 Sum_probs=45.9
Q ss_pred ccCceeeeEEEEeCCCCCHHHHHHHHHhCcCCCC----ccCCcceeeEEEEEEeCC-EEEEEEEcCCC
Q psy2514 7 LRGSIKGTVVIVGNGAVGKSSMIQRYCRGTFTRD----YKKTIGVKSSMIQRYCRG-TFTRDYKKTIG 69 (71)
Q Consensus 7 ~~~~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~----~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G 69 (71)
.+....|+|+.+|+.|.|||+|+..+.+-.|... ..|++...-....+...+ +.++.|+||.|
T Consensus 37 v~~GF~FNilCvGETg~GKsTLmdtLFNt~f~~~p~~H~~~~V~L~~~TyelqEsnvrlKLtiv~tvG 104 (406)
T KOG3859|consen 37 VSQGFCFNILCVGETGLGKSTLMDTLFNTKFESEPSTHTLPNVKLQANTYELQESNVRLKLTIVDTVG 104 (406)
T ss_pred HhcCceEEEEEeccCCccHHHHHHHHhccccCCCCCccCCCCceeecchhhhhhcCeeEEEEEEeecc
Confidence 4456789999999999999999999988777653 235555333333333334 78899999987
No 236
>cd04166 CysN_ATPS CysN_ATPS subfamily. CysN, together with protein CysD, form the ATP sulfurylase (ATPS) complex in some bacteria and lower eukaryotes. ATPS catalyzes the production of ATP sulfurylase (APS) and pyrophosphate (PPi) from ATP and sulfate. CysD, which catalyzes ATP hydrolysis, is a member of the ATP pyrophosphatase (ATP PPase) family. CysN hydrolysis of GTP is required for CysD hydrolysis of ATP; however, CysN hydrolysis of GTP is not dependent on CysD hydrolysis of ATP. CysN is an example of lateral gene transfer followed by acquisition of new function. In many organisms, an ATPS exists which is not GTP-dependent and shares no sequence or structural similarity to CysN.
Probab=98.33 E-value=2.7e-06 Score=49.87 Aligned_cols=21 Identities=29% Similarity=0.363 Sum_probs=19.0
Q ss_pred eEEEEeCCCCCHHHHHHHHHh
Q psy2514 14 TVVIVGNGAVGKSSMIQRYCR 34 (71)
Q Consensus 14 ki~v~G~~~vGKtsl~~~~~~ 34 (71)
+++++|.+++|||||+.+++.
T Consensus 1 ~i~iiG~~~~GKStL~~~Ll~ 21 (208)
T cd04166 1 RFLTCGSVDDGKSTLIGRLLY 21 (208)
T ss_pred CEEEEECCCCCHHHHHHHHHH
Confidence 589999999999999999874
No 237
>COG1161 Predicted GTPases [General function prediction only]
Probab=98.31 E-value=3.6e-06 Score=52.62 Aligned_cols=55 Identities=24% Similarity=0.189 Sum_probs=36.7
Q ss_pred eeeeEEEEeCCCCCHHHHHHHHHhCcCC-CCccCCcceeeEEEEEEeCCEEEEEEEcCCC
Q psy2514 11 IKGTVVIVGNGAVGKSSMIQRYCRGTFT-RDYKKTIGVKSSMIQRYCRGTFTRDYKKTIG 69 (71)
Q Consensus 11 ~~~ki~v~G~~~vGKtsl~~~~~~~~f~-~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G 69 (71)
...++.++|-++|||||++++++...-. ....| |..-..+.+..+. .+.++||.|
T Consensus 131 ~~~~v~vvG~PNVGKSslIN~L~~k~~~~~s~~P--G~Tk~~q~i~~~~--~i~LlDtPG 186 (322)
T COG1161 131 RKIRVGVVGYPNVGKSTLINRLLGKKVAKTSNRP--GTTKGIQWIKLDD--GIYLLDTPG 186 (322)
T ss_pred cceEEEEEcCCCCcHHHHHHHHhcccceeeCCCC--ceecceEEEEcCC--CeEEecCCC
Confidence 3478999999999999999999976542 22334 4222223332222 388999988
No 238
>COG1159 Era GTPase [General function prediction only]
Probab=98.28 E-value=4.2e-06 Score=51.77 Aligned_cols=59 Identities=19% Similarity=0.176 Sum_probs=41.1
Q ss_pred ceeeeEEEEeCCCCCHHHHHHHHHhCcCC-CCccCCcceeeEEEEEEeCCEEEEEEEcCCC
Q psy2514 10 SIKGTVVIVGNGAVGKSSMIQRYCRGTFT-RDYKKTIGVKSSMIQRYCRGTFTRDYKKTIG 69 (71)
Q Consensus 10 ~~~~ki~v~G~~~vGKtsl~~~~~~~~f~-~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G 69 (71)
...-.++++|.++||||+|+++++..+.. -+..|.+-. ...+-+...+..++-+.||.|
T Consensus 4 ~ksGfVaIiGrPNvGKSTLlN~l~G~KisIvS~k~QTTR-~~I~GI~t~~~~QiIfvDTPG 63 (298)
T COG1159 4 FKSGFVAIIGRPNVGKSTLLNALVGQKISIVSPKPQTTR-NRIRGIVTTDNAQIIFVDTPG 63 (298)
T ss_pred ceEEEEEEEcCCCCcHHHHHHHHhcCceEeecCCcchhh-hheeEEEEcCCceEEEEeCCC
Confidence 34567899999999999999999976553 122232221 234455555578888999988
No 239
>TIGR00993 3a0901s04IAP86 chloroplast protein import component Toc86/159, G and M domains. The long precursor of the 86K protein originally described is proposed to have three domains. The N-terminal A-domain is acidic, repetitive, weakly conserved, readily removed by proteolysis during chloroplast isolation, and not required for protein translocation. The other domains are designated G (GTPase) and M (membrane anchor); this family includes most of the G domain and all of M.
Probab=98.28 E-value=5.6e-06 Score=56.19 Aligned_cols=57 Identities=19% Similarity=0.281 Sum_probs=36.9
Q ss_pred eeeeEEEEeCCCCCHHHHHHHHHhCc-CCCC-ccCCcceeeEEEEEEeCCEEEEEEEcCCC
Q psy2514 11 IKGTVVIVGNGAVGKSSMIQRYCRGT-FTRD-YKKTIGVKSSMIQRYCRGTFTRDYKKTIG 69 (71)
Q Consensus 11 ~~~ki~v~G~~~vGKtsl~~~~~~~~-f~~~-~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G 69 (71)
..++|+++|.+|+||||+++.++... |... +.+.+.. ........+ ...+.++||.|
T Consensus 117 fslrIvLVGKTGVGKSSLINSILGekvf~vss~~~~TTr-~~ei~~~id-G~~L~VIDTPG 175 (763)
T TIGR00993 117 FSLNILVLGKSGVGKSATINSIFGEVKFSTDAFGMGTTS-VQEIEGLVQ-GVKIRVIDTPG 175 (763)
T ss_pred cceEEEEECCCCCCHHHHHHHHhccccccccCCCCCceE-EEEEEEEEC-CceEEEEECCC
Confidence 45789999999999999999998754 4322 2122221 111111223 36789999988
No 240
>COG1160 Predicted GTPases [General function prediction only]
Probab=98.27 E-value=2.7e-06 Score=55.06 Aligned_cols=55 Identities=24% Similarity=0.154 Sum_probs=37.6
Q ss_pred eeEEEEeCCCCCHHHHHHHHHhCcC--CCCccCCcceeeEEEEEEeCCEEEEEEEcCCC
Q psy2514 13 GTVVIVGNGAVGKSSMIQRYCRGTF--TRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIG 69 (71)
Q Consensus 13 ~ki~v~G~~~vGKtsl~~~~~~~~f--~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G 69 (71)
..|+++|-++||||||.+|++.... .+++.-++.+.. .......+ ..+.+.||+|
T Consensus 4 ~~VAIVGRPNVGKSTLFNRL~g~r~AIV~D~pGvTRDr~-y~~~~~~~-~~f~lIDTgG 60 (444)
T COG1160 4 PVVAIVGRPNVGKSTLFNRLTGRRIAIVSDTPGVTRDRI-YGDAEWLG-REFILIDTGG 60 (444)
T ss_pred CEEEEECCCCCcHHHHHHHHhCCeeeEeecCCCCccCCc-cceeEEcC-ceEEEEECCC
Confidence 5799999999999999999996544 445444444322 23333333 3488999988
No 241
>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=98.27 E-value=2e-06 Score=48.33 Aligned_cols=44 Identities=20% Similarity=0.295 Sum_probs=31.4
Q ss_pred eeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC
Q psy2514 13 GTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG 58 (71)
Q Consensus 13 ~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~ 58 (71)
-|++++|..++|||+|++++...+. .|.-|-.+.|..+.+...+
T Consensus 2 krimliG~~g~GKTTL~q~L~~~~~--~~~KTq~i~~~~~~IDTPG 45 (143)
T PF10662_consen 2 KRIMLIGPSGSGKTTLAQALNGEEI--RYKKTQAIEYYDNTIDTPG 45 (143)
T ss_pred ceEEEECCCCCCHHHHHHHHcCCCC--CcCccceeEecccEEECCh
Confidence 4899999999999999999987665 4555655555544443333
No 242
>PRK10512 selenocysteinyl-tRNA-specific translation factor; Provisional
Probab=98.26 E-value=5.3e-06 Score=55.68 Aligned_cols=54 Identities=13% Similarity=0.132 Sum_probs=36.3
Q ss_pred eEEEEeCCCCCHHHHHHHHHh---CcCCCCc--cCCcceeeEEEEEEeCCEEEEEEEcCCC
Q psy2514 14 TVVIVGNGAVGKSSMIQRYCR---GTFTRDY--KKTIGVKSSMIQRYCRGTFTRDYKKTIG 69 (71)
Q Consensus 14 ki~v~G~~~vGKtsl~~~~~~---~~f~~~~--~~t~~~~~~~~~~~~~~~~~l~i~Dt~G 69 (71)
-+.++|..++|||||+.++.. +.+.++. ..|+...|. .....+...+.+|||+|
T Consensus 2 ii~~~GhvdhGKTtLi~aLtg~~~dr~~eE~~rGiTI~l~~~--~~~~~~g~~i~~IDtPG 60 (614)
T PRK10512 2 IIATAGHVDHGKTTLLQAITGVNADRLPEEKKRGMTIDLGYA--YWPQPDGRVLGFIDVPG 60 (614)
T ss_pred EEEEECCCCCCHHHHHHHHhCCCCccchhcccCCceEEeeeE--EEecCCCcEEEEEECCC
Confidence 478899999999999999984 4555554 344433332 22222334589999998
No 243
>COG0218 Predicted GTPase [General function prediction only]
Probab=98.25 E-value=7.5e-06 Score=48.23 Aligned_cols=61 Identities=18% Similarity=0.082 Sum_probs=39.0
Q ss_pred ccCceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCC
Q psy2514 7 LRGSIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIG 69 (71)
Q Consensus 7 ~~~~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G 69 (71)
..++...-|+++|-++||||||++.+++.+--.....|.|..-..+-...++. +.+.|..|
T Consensus 19 ~P~~~~~EIaF~GRSNVGKSSlIN~l~~~k~LArtSktPGrTq~iNff~~~~~--~~lVDlPG 79 (200)
T COG0218 19 YPEDDLPEIAFAGRSNVGKSSLINALTNQKNLARTSKTPGRTQLINFFEVDDE--LRLVDLPG 79 (200)
T ss_pred CCCCCCcEEEEEccCcccHHHHHHHHhCCcceeecCCCCCccceeEEEEecCc--EEEEeCCC
Confidence 34556678999999999999999999985532223344443333333444443 56777655
No 244
>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=98.25 E-value=4e-06 Score=56.05 Aligned_cols=57 Identities=16% Similarity=0.251 Sum_probs=38.0
Q ss_pred eEEEEeCCCCCHHHHHHHHHh--CcCCCCc------------cCCcceeeEEEEEEe-CCEEEEEEEcCCCC
Q psy2514 14 TVVIVGNGAVGKSSMIQRYCR--GTFTRDY------------KKTIGVKSSMIQRYC-RGTFTRDYKKTIGA 70 (71)
Q Consensus 14 ki~v~G~~~vGKtsl~~~~~~--~~f~~~~------------~~t~~~~~~~~~~~~-~~~~~l~i~Dt~G~ 70 (71)
+|+++|..++|||||+.+++. +.|.... ....|+.+..+.... .+.+++++|||+|.
T Consensus 3 NIaIiGHvd~GKTTLv~~LL~~sg~~~~~~~v~~~~~D~~~~ErerGiTI~~~~~~v~~~~~kinlIDTPGh 74 (594)
T TIGR01394 3 NIAIIAHVDHGKTTLVDALLKQSGTFRANEAVAERVMDSNDLERERGITILAKNTAIRYNGTKINIVDTPGH 74 (594)
T ss_pred EEEEEcCCCCCHHHHHHHHHHhcCCCcccccceeecccCchHHHhCCccEEeeeEEEEECCEEEEEEECCCH
Confidence 689999999999999999985 4554321 122344443332222 23588999999984
No 245
>TIGR00485 EF-Tu translation elongation factor TU. This alignment models orthologs of translation elongation factor EF-Tu in bacteria, mitochondria, and chloroplasts, one of several GTP-binding translation factors found by the more general pfam model GTP_EFTU. The eukaryotic conterpart, eukaryotic translation elongation factor 1 (eEF-1 alpha), is excluded from this model. EF-Tu is one of the most abundant proteins in bacteria, as well as one of the most highly conserved, and in a number of species the gene is duplicated with identical function. When bound to GTP, EF-Tu can form a complex with any (correctly) aminoacylated tRNA except those for initiation and for selenocysteine, in which case EF-Tu is replaced by other factors. Transfer RNA is carried to the ribosome in these complexes for protein translation.
Probab=98.24 E-value=6.4e-06 Score=52.54 Aligned_cols=27 Identities=15% Similarity=0.170 Sum_probs=23.7
Q ss_pred ccCceeeeEEEEeCCCCCHHHHHHHHH
Q psy2514 7 LRGSIKGTVVIVGNGAVGKSSMIQRYC 33 (71)
Q Consensus 7 ~~~~~~~ki~v~G~~~vGKtsl~~~~~ 33 (71)
-+....++++++|..++|||+|+.+++
T Consensus 7 ~~~~~~~~i~i~Ghvd~GKStL~~~L~ 33 (394)
T TIGR00485 7 ERTKPHVNIGTIGHVDHGKTTLTAAIT 33 (394)
T ss_pred cCCCceEEEEEEeecCCCHHHHHHHHH
Confidence 445667999999999999999999986
No 246
>COG1084 Predicted GTPase [General function prediction only]
Probab=98.23 E-value=9.6e-06 Score=50.93 Aligned_cols=59 Identities=25% Similarity=0.231 Sum_probs=38.3
Q ss_pred eeeeEEEEeCCCCCHHHHHHHHHhCcC-CCCccCCcceeeEEEEEEeCCEEEEEEEcCCCCC
Q psy2514 11 IKGTVVIVGNGAVGKSSMIQRYCRGTF-TRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGAL 71 (71)
Q Consensus 11 ~~~ki~v~G~~~vGKtsl~~~~~~~~f-~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~~ 71 (71)
....+++.|.++||||||+..+...+- ..+|.-|+- ....-.+ ..+-..+++.||.|=|
T Consensus 167 ~~pTivVaG~PNVGKSSlv~~lT~AkpEvA~YPFTTK-~i~vGhf-e~~~~R~QvIDTPGlL 226 (346)
T COG1084 167 DLPTIVVAGYPNVGKSSLVRKLTTAKPEVAPYPFTTK-GIHVGHF-ERGYLRIQVIDTPGLL 226 (346)
T ss_pred CCCeEEEecCCCCcHHHHHHHHhcCCCccCCCCcccc-ceeEeee-ecCCceEEEecCCccc
Confidence 457899999999999999999986543 233432221 1211111 1234689999999854
No 247
>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=98.19 E-value=9.5e-06 Score=45.50 Aligned_cols=55 Identities=20% Similarity=0.063 Sum_probs=34.9
Q ss_pred eeeeEEEEeCCCCCHHHHHHHHHhCcC-CCCccCCcceeeEEEEEEeCCEEEEEEEcCCC
Q psy2514 11 IKGTVVIVGNGAVGKSSMIQRYCRGTF-TRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIG 69 (71)
Q Consensus 11 ~~~ki~v~G~~~vGKtsl~~~~~~~~f-~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G 69 (71)
....++++|.+++||||+++.+....- .....|....+.. ....+ ..+.+.||.|
T Consensus 99 ~~~~~~~~G~~~~GKstlin~l~~~~~~~~~~~~~~t~~~~--~~~~~--~~~~liDtPG 154 (155)
T cd01849 99 KSITVGVIGYPNVGKSSVINALLNKLKLKVGNVPGTTTSQQ--EVKLD--NKIKLLDTPG 154 (155)
T ss_pred cCcEEEEEccCCCCHHHHHHHHHccccccccCCCCcccceE--EEEec--CCEEEEECCC
Confidence 457899999999999999999986542 2222222221221 12222 3488999988
No 248
>PRK04004 translation initiation factor IF-2; Validated
Probab=98.17 E-value=9e-06 Score=54.36 Aligned_cols=25 Identities=20% Similarity=0.393 Sum_probs=21.6
Q ss_pred eeEEEEeCCCCCHHHHHHHHHhCcC
Q psy2514 13 GTVVIVGNGAVGKSSMIQRYCRGTF 37 (71)
Q Consensus 13 ~ki~v~G~~~vGKtsl~~~~~~~~f 37 (71)
..|+++|..++|||||+.++....+
T Consensus 7 p~V~i~Gh~~~GKTSLl~~l~~~~v 31 (586)
T PRK04004 7 PIVVVLGHVDHGKTTLLDKIRGTAV 31 (586)
T ss_pred cEEEEECCCCCCHHHHHHHHhCccc
Confidence 4699999999999999999976544
No 249
>PRK04000 translation initiation factor IF-2 subunit gamma; Validated
Probab=98.15 E-value=5.4e-06 Score=53.25 Aligned_cols=30 Identities=17% Similarity=0.182 Sum_probs=25.3
Q ss_pred ccccCceeeeEEEEeCCCCCHHHHHHHHHh
Q psy2514 5 WVLRGSIKGTVVIVGNGAVGKSSMIQRYCR 34 (71)
Q Consensus 5 ~~~~~~~~~ki~v~G~~~vGKtsl~~~~~~ 34 (71)
|+.++...++++++|..++|||||+.++..
T Consensus 2 ~~~~~~~~~ni~v~Gh~d~GKSTL~~~L~~ 31 (411)
T PRK04000 2 MWEKVQPEVNIGMVGHVDHGKTTLVQALTG 31 (411)
T ss_pred CcccCCCcEEEEEEccCCCCHHHHHHHhhC
Confidence 445667789999999999999999988853
No 250
>PRK13351 elongation factor G; Reviewed
Probab=98.14 E-value=6e-06 Score=55.83 Aligned_cols=58 Identities=16% Similarity=0.058 Sum_probs=38.3
Q ss_pred ceeeeEEEEeCCCCCHHHHHHHHHhCc-------------CCC-------CccCCcceeeEEEEEEeCCEEEEEEEcCCC
Q psy2514 10 SIKGTVVIVGNGAVGKSSMIQRYCRGT-------------FTR-------DYKKTIGVKSSMIQRYCRGTFTRDYKKTIG 69 (71)
Q Consensus 10 ~~~~ki~v~G~~~vGKtsl~~~~~~~~-------------f~~-------~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G 69 (71)
....+++++|..++|||||+.+++... +.. ++..|+...+ ..+.. +.+.+++|||+|
T Consensus 6 ~~irni~iiG~~~~GKTtL~~~ll~~~g~~~~~~~v~~~~~~~d~~~~e~~r~~ti~~~~--~~~~~-~~~~i~liDtPG 82 (687)
T PRK13351 6 MQIRNIGILAHIDAGKTTLTERILFYTGKIHKMGEVEDGTTVTDWMPQEQERGITIESAA--TSCDW-DNHRINLIDTPG 82 (687)
T ss_pred ccccEEEEECCCCCcchhHHHHHHHhcCCccccccccCCcccCCCCHHHHhcCCCcccce--EEEEE-CCEEEEEEECCC
Confidence 346899999999999999999998421 111 1233443322 22222 357899999998
Q ss_pred C
Q psy2514 70 A 70 (71)
Q Consensus 70 ~ 70 (71)
.
T Consensus 83 ~ 83 (687)
T PRK13351 83 H 83 (687)
T ss_pred c
Confidence 5
No 251
>cd01886 EF-G Elongation factor G (EF-G) subfamily. Translocation is mediated by EF-G (also called translocase). The structure of EF-G closely resembles that of the complex between EF-Tu and tRNA. This is an example of molecular mimicry; a protein domain evolved so that it mimics the shape of a tRNA molecule. EF-G in the GTP form binds to the ribosome, primarily through the interaction of its EF-Tu-like domain with the 50S subunit. The binding of EF-G to the ribosome in this manner stimulates the GTPase activity of EF-G. On GTP hydrolysis, EF-G undergoes a conformational change that forces its arm deeper into the A site on the 30S subunit. To accommodate this domain, the peptidyl-tRNA in the A site moves to the P site, carrying the mRNA and the deacylated tRNA with it. The ribosome may be prepared for these rearrangements by the initial binding of EF-G as well. The dissociation of EF-G leaves the ribosome ready to accept the next aminoacyl-tRNA into the A site. This group conta
Probab=98.13 E-value=2.1e-05 Score=48.12 Aligned_cols=21 Identities=19% Similarity=0.294 Sum_probs=18.8
Q ss_pred eEEEEeCCCCCHHHHHHHHHh
Q psy2514 14 TVVIVGNGAVGKSSMIQRYCR 34 (71)
Q Consensus 14 ki~v~G~~~vGKtsl~~~~~~ 34 (71)
+++++|.+++|||||+.+++.
T Consensus 1 nv~ivGh~~~GKTtL~~~Ll~ 21 (270)
T cd01886 1 NIGIIAHIDAGKTTTTERILY 21 (270)
T ss_pred CEEEEcCCCCCHHHHHHHHHH
Confidence 478999999999999999873
No 252
>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=98.11 E-value=1.2e-06 Score=50.93 Aligned_cols=57 Identities=14% Similarity=0.173 Sum_probs=31.6
Q ss_pred eeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514 12 KGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA 70 (71)
Q Consensus 12 ~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~ 70 (71)
.-.++++|++++|||+|..++..+.+...+.+ +..... ........-.+.+.|+.|.
T Consensus 3 ~~~vlL~Gps~SGKTaLf~~L~~~~~~~T~tS-~e~n~~-~~~~~~~~~~~~lvD~PGH 59 (181)
T PF09439_consen 3 RPTVLLVGPSGSGKTALFSQLVNGKTVPTVTS-MENNIA-YNVNNSKGKKLRLVDIPGH 59 (181)
T ss_dssp --EEEEE-STTSSHHHHHHHHHHSS---B----SSEEEE-CCGSSTCGTCECEEEETT-
T ss_pred CceEEEEcCCCCCHHHHHHHHhcCCcCCeecc-ccCCce-EEeecCCCCEEEEEECCCc
Confidence 34689999999999999999999977654332 232221 1111122345788888773
No 253
>CHL00071 tufA elongation factor Tu
Probab=98.11 E-value=2.6e-05 Score=50.08 Aligned_cols=34 Identities=15% Similarity=0.092 Sum_probs=27.1
Q ss_pred CcccccccCceeeeEEEEeCCCCCHHHHHHHHHh
Q psy2514 1 MLNLWVLRGSIKGTVVIVGNGAVGKSSMIQRYCR 34 (71)
Q Consensus 1 m~~~~~~~~~~~~ki~v~G~~~vGKtsl~~~~~~ 34 (71)
|..+.-.++...++++++|..++|||||+.+++.
T Consensus 1 ~~~~~~~~~~~~~~i~i~Gh~d~GKSTL~~~Ll~ 34 (409)
T CHL00071 1 MAREKFERKKPHVNIGTIGHVDHGKTTLTAAITM 34 (409)
T ss_pred CchhhccCCCCeEEEEEECCCCCCHHHHHHHHHH
Confidence 3334444556679999999999999999999985
No 254
>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=98.09 E-value=4e-06 Score=47.96 Aligned_cols=23 Identities=39% Similarity=0.550 Sum_probs=20.3
Q ss_pred eeEEEEeCCCCCHHHHHHHHHhC
Q psy2514 13 GTVVIVGNGAVGKSSMIQRYCRG 35 (71)
Q Consensus 13 ~ki~v~G~~~vGKtsl~~~~~~~ 35 (71)
--++++|.+|||||||++.+...
T Consensus 36 k~~vl~G~SGvGKSSLiN~L~~~ 58 (161)
T PF03193_consen 36 KTSVLLGQSGVGKSSLINALLPE 58 (161)
T ss_dssp SEEEEECSTTSSHHHHHHHHHTS
T ss_pred CEEEEECCCCCCHHHHHHHHHhh
Confidence 45788999999999999999865
No 255
>COG0370 FeoB Fe2+ transport system protein B [Inorganic ion transport and metabolism]
Probab=98.09 E-value=2.5e-05 Score=52.69 Aligned_cols=57 Identities=21% Similarity=0.278 Sum_probs=40.5
Q ss_pred eeeEEEEeCCCCCHHHHHHHHHhCc-CCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514 12 KGTVVIVGNGAVGKSSMIQRYCRGT-FTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA 70 (71)
Q Consensus 12 ~~ki~v~G~~~vGKtsl~~~~~~~~-f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~ 70 (71)
+.+++++|+++||||+|.++++..+ ...++ |.+-++-+.-....++ .++++.|..|.
T Consensus 3 ~~~valvGNPNvGKTtlFN~LTG~~q~VgNw-pGvTVEkkeg~~~~~~-~~i~ivDLPG~ 60 (653)
T COG0370 3 KLTVALVGNPNVGKTTLFNALTGANQKVGNW-PGVTVEKKEGKLKYKG-HEIEIVDLPGT 60 (653)
T ss_pred cceEEEecCCCccHHHHHHHHhccCceecCC-CCeeEEEEEEEEEecC-ceEEEEeCCCc
Confidence 4569999999999999999999643 34444 6666555544444444 34889998874
No 256
>PRK12735 elongation factor Tu; Reviewed
Probab=98.08 E-value=2.5e-05 Score=49.93 Aligned_cols=29 Identities=17% Similarity=0.194 Sum_probs=25.0
Q ss_pred cccCceeeeEEEEeCCCCCHHHHHHHHHh
Q psy2514 6 VLRGSIKGTVVIVGNGAVGKSSMIQRYCR 34 (71)
Q Consensus 6 ~~~~~~~~ki~v~G~~~vGKtsl~~~~~~ 34 (71)
-.+....++++++|..++|||||+.+++.
T Consensus 6 ~~~~~~~~~i~iiGhvd~GKSTL~~~L~~ 34 (396)
T PRK12735 6 FERTKPHVNVGTIGHVDHGKTTLTAAITK 34 (396)
T ss_pred cCCCCCeEEEEEECcCCCCHHHHHHHHHH
Confidence 34556779999999999999999999985
No 257
>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=98.08 E-value=2.2e-05 Score=51.99 Aligned_cols=61 Identities=15% Similarity=0.184 Sum_probs=39.5
Q ss_pred ceeeeEEEEeCCCCCHHHHHHHHHh-CcCCC-------------------CccCCcceeeEEEEEEe-CCEEEEEEEcCC
Q psy2514 10 SIKGTVVIVGNGAVGKSSMIQRYCR-GTFTR-------------------DYKKTIGVKSSMIQRYC-RGTFTRDYKKTI 68 (71)
Q Consensus 10 ~~~~ki~v~G~~~vGKtsl~~~~~~-~~f~~-------------------~~~~t~~~~~~~~~~~~-~~~~~l~i~Dt~ 68 (71)
....+++++|..++|||||+.+++. ..... ......|+.+....... .+.+.+++|||+
T Consensus 9 ~~~RniaiiGh~~aGKTTL~e~Ll~~~g~i~~~g~v~~~g~~~~t~~D~~~~E~~rgisi~~~~~~~~~~~~~inliDTP 88 (527)
T TIGR00503 9 DKRRTFAIISHPDAGKTTITEKVLLYGGAIQTAGAVKGRGSQRHAKSDWMEMEKQRGISITTSVMQFPYRDCLVNLLDTP 88 (527)
T ss_pred ccCCEEEEEcCCCCCHHHHHHHHHHhCCCccccceeccccccccccCCCCHHHHhcCCcEEEEEEEEeeCCeEEEEEECC
Confidence 4567999999999999999999863 21111 01122344444433333 346889999999
Q ss_pred CC
Q psy2514 69 GA 70 (71)
Q Consensus 69 G~ 70 (71)
|.
T Consensus 89 G~ 90 (527)
T TIGR00503 89 GH 90 (527)
T ss_pred Ch
Confidence 84
No 258
>PRK00741 prfC peptide chain release factor 3; Provisional
Probab=98.08 E-value=1e-05 Score=53.47 Aligned_cols=61 Identities=16% Similarity=0.225 Sum_probs=38.1
Q ss_pred ceeeeEEEEeCCCCCHHHHHHHHHh--CcCC---------------CC---ccCCcceeeEEEEEEe-CCEEEEEEEcCC
Q psy2514 10 SIKGTVVIVGNGAVGKSSMIQRYCR--GTFT---------------RD---YKKTIGVKSSMIQRYC-RGTFTRDYKKTI 68 (71)
Q Consensus 10 ~~~~ki~v~G~~~vGKtsl~~~~~~--~~f~---------------~~---~~~t~~~~~~~~~~~~-~~~~~l~i~Dt~ 68 (71)
....+++++|..++|||||+.+++. +... .+ .....|..+....... .+.+.+++|||+
T Consensus 8 ~~~Rni~IiGh~daGKTTL~e~Ll~~~g~i~~~g~v~~~~~~~~~~~D~~~~E~~rgiSi~~~~~~~~~~~~~inliDTP 87 (526)
T PRK00741 8 AKRRTFAIISHPDAGKTTLTEKLLLFGGAIQEAGTVKGRKSGRHATSDWMEMEKQRGISVTSSVMQFPYRDCLINLLDTP 87 (526)
T ss_pred hcCCEEEEECCCCCCHHHHHHHHHHhCCCccccceeeccccCccccCCCcHHHHhhCCceeeeeEEEEECCEEEEEEECC
Confidence 3457999999999999999999873 1110 00 0112233333333322 235889999999
Q ss_pred CC
Q psy2514 69 GA 70 (71)
Q Consensus 69 G~ 70 (71)
|.
T Consensus 88 G~ 89 (526)
T PRK00741 88 GH 89 (526)
T ss_pred Cc
Confidence 84
No 259
>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=98.06 E-value=1.8e-05 Score=46.23 Aligned_cols=22 Identities=23% Similarity=0.344 Sum_probs=19.1
Q ss_pred eeEEEEeCCCCCHHHHHHHHHh
Q psy2514 13 GTVVIVGNGAVGKSSMIQRYCR 34 (71)
Q Consensus 13 ~ki~v~G~~~vGKtsl~~~~~~ 34 (71)
+++.++|..++|||+|+..+..
T Consensus 1 ~~i~~~g~~~~GKttL~~~l~~ 22 (203)
T cd01888 1 INIGTIGHVAHGKSTLVKALSG 22 (203)
T ss_pred CEEEEECCCCCCHHHHHHHHhC
Confidence 3688999999999999998853
No 260
>PRK12288 GTPase RsgA; Reviewed
Probab=98.04 E-value=7.8e-06 Score=51.63 Aligned_cols=22 Identities=36% Similarity=0.555 Sum_probs=19.6
Q ss_pred EEEEeCCCCCHHHHHHHHHhCc
Q psy2514 15 VVIVGNGAVGKSSMIQRYCRGT 36 (71)
Q Consensus 15 i~v~G~~~vGKtsl~~~~~~~~ 36 (71)
++++|.+|||||||++++....
T Consensus 208 ~~~vG~sgVGKSTLiN~Ll~~~ 229 (347)
T PRK12288 208 SIFVGQSGVGKSSLINALLPEA 229 (347)
T ss_pred EEEECCCCCCHHHHHHHhcccc
Confidence 6899999999999999998543
No 261
>cd01883 EF1_alpha Eukaryotic elongation factor 1 (EF1) alpha subfamily. EF1 is responsible for the GTP-dependent binding of aminoacyl-tRNAs to the ribosomes. EF1 is composed of four subunits: the alpha chain which binds GTP and aminoacyl-tRNAs, the gamma chain that probably plays a role in anchoring the complex to other cellular components and the beta and delta (or beta') chains. This subfamily is the alpha subunit, and represents the counterpart of bacterial EF-Tu for the archaea (aEF1-alpha) and eukaryotes (eEF1-alpha). eEF1-alpha interacts with the actin of the eukaryotic cytoskeleton and may thereby play a role in cellular transformation and apoptosis. EF-Tu can have no such role in bacteria. In humans, the isoform eEF1A2 is overexpressed in 2/3 of breast cancers and has been identified as a putative oncogene. This subfamily also includes Hbs1, a G protein known to be important for efficient growth and protein synthesis under conditions of limiting translation initiation in
Probab=98.02 E-value=2.7e-05 Score=46.03 Aligned_cols=20 Identities=25% Similarity=0.444 Sum_probs=18.2
Q ss_pred eEEEEeCCCCCHHHHHHHHH
Q psy2514 14 TVVIVGNGAVGKSSMIQRYC 33 (71)
Q Consensus 14 ki~v~G~~~vGKtsl~~~~~ 33 (71)
+++++|..++|||+|+.+++
T Consensus 1 nv~i~Gh~~~GKttL~~~ll 20 (219)
T cd01883 1 NLVVIGHVDAGKSTTTGHLL 20 (219)
T ss_pred CEEEecCCCCChHHHHHHHH
Confidence 47899999999999999886
No 262
>cd01851 GBP Guanylate-binding protein (GBP), N-terminal domain. Guanylate-binding proteins (GBPs) define a group of proteins that are synthesized after activation of the cell by interferons. The biochemical properties of GBPs are clearly different from those of Ras-like and heterotrimeric GTP-binding proteins. They bind guanine nucleotides with low affinity (micromolar range), are stable in their absence and have a high turnover GTPase. In addition to binding GDP/GTP, they have the unique ability to bind GMP with equal affinity and hydrolyze GTP not only to GDP, but also to GMP. Furthermore, two unique regions around the base and the phosphate-binding areas, the guanine and the phosphate caps, respectively, give the nucleotide-binding site a unique appearance not found in the canonical GTP-binding proteins. The phosphate cap, which constitutes the region analogous to switch I, completely shields the phosphate-binding site from solvent such that a potential GTPase-activating protein
Probab=98.02 E-value=1.9e-05 Score=47.02 Aligned_cols=60 Identities=17% Similarity=0.085 Sum_probs=40.1
Q ss_pred eeeeEEEEeCCCCCHHHHHHHHHhC--cCCCC---ccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514 11 IKGTVVIVGNGAVGKSSMIQRYCRG--TFTRD---YKKTIGVKSSMIQRYCRGTFTRDYKKTIGA 70 (71)
Q Consensus 11 ~~~ki~v~G~~~vGKtsl~~~~~~~--~f~~~---~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~ 70 (71)
...-|.++|..++|||+|++++... .|.-. ...|.|+-.............+-+.||.|.
T Consensus 6 ~v~vvsv~G~~~sGKS~llN~l~~~~~~f~~~~~~~~~T~gi~~~~~~~~~~~~~~v~~lDteG~ 70 (224)
T cd01851 6 PVAVVSVFGPQSSGKSFLLNHLFGTLSGFDVMDTSQQTTKGIWMWSVPFKLGKEHAVLLLDTEGT 70 (224)
T ss_pred CEEEEEEECCCCCCHHHHHHHHhCCCCCeEecCCCCCCccceEEEeccccCCCcceEEEEecCCc
Confidence 3466889999999999999999987 66432 234455433222222223567899999885
No 263
>PF05049 IIGP: Interferon-inducible GTPase (IIGP); InterPro: IPR007743 Interferon-inducible GTPase (IIGP) is thought to play a role in in intracellular defence. IIGP is predominantly associated with the Golgi apparatus and also localizes to the endoplasmic reticulum and exerts a distinct role in IFN-induced intracellular membrane trafficking or processing [].; GO: 0005525 GTP binding, 0016817 hydrolase activity, acting on acid anhydrides, 0016020 membrane; PDB: 1TPZ_A 1TQD_A 1TQ6_A 1TQ2_B 1TQ4_A.
Probab=98.02 E-value=9e-06 Score=51.88 Aligned_cols=25 Identities=24% Similarity=0.348 Sum_probs=21.0
Q ss_pred ceeeeEEEEeCCCCCHHHHHHHHHh
Q psy2514 10 SIKGTVVIVGNGAVGKSSMIQRYCR 34 (71)
Q Consensus 10 ~~~~ki~v~G~~~vGKtsl~~~~~~ 34 (71)
...++|+|.|++|+|||||++.+..
T Consensus 33 ~~~l~IaV~G~sGsGKSSfINalrG 57 (376)
T PF05049_consen 33 NAPLNIAVTGESGSGKSSFINALRG 57 (376)
T ss_dssp H--EEEEEEESTTSSHHHHHHHHTT
T ss_pred cCceEEEEECCCCCCHHHHHHHHhC
Confidence 3568999999999999999999864
No 264
>PRK12289 GTPase RsgA; Reviewed
Probab=97.99 E-value=2.2e-05 Score=49.71 Aligned_cols=21 Identities=43% Similarity=0.653 Sum_probs=19.3
Q ss_pred EEEEeCCCCCHHHHHHHHHhC
Q psy2514 15 VVIVGNGAVGKSSMIQRYCRG 35 (71)
Q Consensus 15 i~v~G~~~vGKtsl~~~~~~~ 35 (71)
++++|.+|||||||++.+..+
T Consensus 175 ~v~iG~SgVGKSSLIN~L~~~ 195 (352)
T PRK12289 175 TVVAGPSGVGKSSLINRLIPD 195 (352)
T ss_pred EEEEeCCCCCHHHHHHHHcCc
Confidence 799999999999999999854
No 265
>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=97.95 E-value=3.3e-05 Score=48.91 Aligned_cols=23 Identities=39% Similarity=0.561 Sum_probs=21.1
Q ss_pred eeEEEEeCCCCCHHHHHHHHHhC
Q psy2514 13 GTVVIVGNGAVGKSSMIQRYCRG 35 (71)
Q Consensus 13 ~ki~v~G~~~vGKtsl~~~~~~~ 35 (71)
.+++++|.++||||||++++...
T Consensus 155 ~~v~~vG~~nvGKStliN~l~~~ 177 (360)
T TIGR03597 155 KDVYVVGVTNVGKSSLINKLLKQ 177 (360)
T ss_pred CeEEEECCCCCCHHHHHHHHHhh
Confidence 58999999999999999999864
No 266
>TIGR00157 ribosome small subunit-dependent GTPase A. The Aquifex aeolicus ortholog is split into consecutive open reading frames. Consequently, this model was build in fragment mode (-f option).
Probab=97.95 E-value=3.9e-05 Score=46.28 Aligned_cols=23 Identities=35% Similarity=0.449 Sum_probs=20.3
Q ss_pred eeEEEEeCCCCCHHHHHHHHHhC
Q psy2514 13 GTVVIVGNGAVGKSSMIQRYCRG 35 (71)
Q Consensus 13 ~ki~v~G~~~vGKtsl~~~~~~~ 35 (71)
..++++|.+|||||||++++...
T Consensus 121 ~~~~~~G~sgvGKStLiN~L~~~ 143 (245)
T TIGR00157 121 RISVFAGQSGVGKSSLINALDPS 143 (245)
T ss_pred CEEEEECCCCCCHHHHHHHHhhh
Confidence 36789999999999999999864
No 267
>PRK12736 elongation factor Tu; Reviewed
Probab=97.95 E-value=5.3e-05 Score=48.44 Aligned_cols=28 Identities=14% Similarity=0.200 Sum_probs=24.1
Q ss_pred ccCceeeeEEEEeCCCCCHHHHHHHHHh
Q psy2514 7 LRGSIKGTVVIVGNGAVGKSSMIQRYCR 34 (71)
Q Consensus 7 ~~~~~~~ki~v~G~~~vGKtsl~~~~~~ 34 (71)
.+....++++++|..++|||||+.+++.
T Consensus 7 ~~~k~~~ni~i~Ghvd~GKSTL~~~L~~ 34 (394)
T PRK12736 7 DRSKPHVNIGTIGHVDHGKTTLTAAITK 34 (394)
T ss_pred ccCCCeeEEEEEccCCCcHHHHHHHHHh
Confidence 3455679999999999999999999874
No 268
>cd01854 YjeQ_engC YjeQ/EngC. YjeQ (YloQ in Bacillus subtilis) represents a protein family whose members are broadly conserved in bacteria and have been shown to be essential to the growth of E. coli and B. subtilis. Proteins of the YjeQ family contain all sequence motifs typical of the vast class of P-loop-containing GTPases, but show a circular permutation, with a G4-G1-G3 pattern of motifs as opposed to the regular G1-G3-G4 pattern seen in most GTPases. All YjeQ family proteins display a unique domain architecture, which includes an N-terminal OB-fold RNA-binding domain, the central permuted GTPase domain, and a zinc knuckle-like C-terminal cysteine domain. This domain architecture suggests a role for YjeQ as a regulator of translation.
Probab=97.94 E-value=1.4e-05 Score=49.24 Aligned_cols=25 Identities=36% Similarity=0.453 Sum_probs=21.3
Q ss_pred eeEEEEeCCCCCHHHHHHHHHhCcC
Q psy2514 13 GTVVIVGNGAVGKSSMIQRYCRGTF 37 (71)
Q Consensus 13 ~ki~v~G~~~vGKtsl~~~~~~~~f 37 (71)
..++++|.+|+|||||++.+.....
T Consensus 162 k~~~~~G~sg~GKSTlin~l~~~~~ 186 (287)
T cd01854 162 KTSVLVGQSGVGKSTLINALLPDLD 186 (287)
T ss_pred ceEEEECCCCCCHHHHHHHHhchhh
Confidence 4689999999999999999886443
No 269
>PLN03126 Elongation factor Tu; Provisional
Probab=97.93 E-value=7.5e-05 Score=49.00 Aligned_cols=26 Identities=12% Similarity=0.139 Sum_probs=23.1
Q ss_pred CceeeeEEEEeCCCCCHHHHHHHHHh
Q psy2514 9 GSIKGTVVIVGNGAVGKSSMIQRYCR 34 (71)
Q Consensus 9 ~~~~~ki~v~G~~~vGKtsl~~~~~~ 34 (71)
....++++++|..++|||+|+.+++.
T Consensus 78 ~k~~~ni~iiGhvd~GKSTLi~~Ll~ 103 (478)
T PLN03126 78 KKPHVNIGTIGHVDHGKTTLTAALTM 103 (478)
T ss_pred cCCeeEEEEECCCCCCHHHHHHHHHH
Confidence 45568999999999999999999984
No 270
>COG2229 Predicted GTPase [General function prediction only]
Probab=97.93 E-value=5.2e-05 Score=44.17 Aligned_cols=61 Identities=16% Similarity=0.200 Sum_probs=42.9
Q ss_pred cCceeeeEEEEeCCCCCHHHHHHHHHhCcC--------CCCcc----CCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514 8 RGSIKGTVVIVGNGAVGKSSMIQRYCRGTF--------TRDYK----KTIGVKSSMIQRYCRGTFTRDYKKTIGA 70 (71)
Q Consensus 8 ~~~~~~ki~v~G~~~vGKtsl~~~~~~~~f--------~~~~~----~t~~~~~~~~~~~~~~~~~l~i~Dt~G~ 70 (71)
......||++.|+.++|||+++++..+... ..++. .|+..||-.- ..++...+.++||.|+
T Consensus 6 ~k~~~~KIvv~G~~~agKtTfv~~~s~k~~v~t~~~~~~~s~k~kr~tTva~D~g~~--~~~~~~~v~LfgtPGq 78 (187)
T COG2229 6 NKMIETKIVVIGPVGAGKTTFVRALSDKPLVITEADASSVSGKGKRPTTVAMDFGSI--ELDEDTGVHLFGTPGQ 78 (187)
T ss_pred ccccceeEEEEcccccchhhHHHHhhccccceeeccccccccccccceeEeecccce--EEcCcceEEEecCCCc
Confidence 445679999999999999999999987664 11222 3455555332 2344577899999986
No 271
>PRK13796 GTPase YqeH; Provisional
Probab=97.93 E-value=3.5e-05 Score=48.89 Aligned_cols=24 Identities=38% Similarity=0.541 Sum_probs=21.1
Q ss_pred eeeEEEEeCCCCCHHHHHHHHHhC
Q psy2514 12 KGTVVIVGNGAVGKSSMIQRYCRG 35 (71)
Q Consensus 12 ~~ki~v~G~~~vGKtsl~~~~~~~ 35 (71)
..++.++|.++||||||++++...
T Consensus 160 ~~~v~vvG~~NvGKSTLiN~L~~~ 183 (365)
T PRK13796 160 GRDVYVVGVTNVGKSTLINRIIKE 183 (365)
T ss_pred CCeEEEEcCCCCcHHHHHHHHHhh
Confidence 357899999999999999999853
No 272
>PF00009 GTP_EFTU: Elongation factor Tu GTP binding domain; InterPro: IPR000795 Elongation factors belong to a family of proteins that promote the GTP-dependent binding of aminoacyl tRNA to the A site of ribosomes during protein biosynthesis, and catalyse the translocation of the synthesised protein chain from the A to the P site. The proteins are all relatively similar in the vicinity of their C-termini, and are also highly similar to a range of proteins that includes the nodulation Q protein from Rhizobium meliloti (Sinorhizobium meliloti), bacterial tetracycline resistance proteins [] and the omnipotent suppressor protein 2 from yeast. In both prokaryotes and eukaryotes, there are three distinct types of elongation factors, EF-1alpha (EF-Tu), which binds GTP and an aminoacyl-tRNAand delivers the latter to the A site of ribosomes; EF-1beta (EF-Ts), which interacts with EF-1a/EF-Tu to displace GDP and thus allows the regeneration of GTP-EF-1a; and EF-2 (EF-G), which binds GTP and peptidyl-tRNA and translocates the latter from the A site to the P site. In EF-1-alpha, a specific region has been shown [] to be involved in a conformational change mediated by the hydrolysis of GTP to GDP. This region is conserved in both EF-1alpha/EF-Tu as well as EF-2/EF-G and thus seems typical for GTP-dependent proteins which bind non-initiator tRNAs to the ribosome. The GTP-binding protein synthesis factor family also includes the eukaryotic peptide chain release factor GTP-binding subunits [] and prokaryotic peptide chain release factor 3 (RF-3) []; the prokaryotic GTP-binding protein lepA and its homologue in yeast (GUF1) and Caenorhabditis elegans (ZK1236.1); yeast HBS1 []; rat statin S1 []; and the prokaryotic selenocysteine-specific elongation factor selB [].; GO: 0003924 GTPase activity, 0005525 GTP binding; PDB: 3IZW_C 1DG1_G 2BVN_B 3IZV_C 3MMP_C 1OB2_A 1EFU_A 3FIH_Z 3TR5_A 1TUI_C ....
Probab=97.92 E-value=1.2e-05 Score=46.28 Aligned_cols=24 Identities=17% Similarity=0.336 Sum_probs=21.3
Q ss_pred eeeEEEEeCCCCCHHHHHHHHHhC
Q psy2514 12 KGTVVIVGNGAVGKSSMIQRYCRG 35 (71)
Q Consensus 12 ~~ki~v~G~~~vGKtsl~~~~~~~ 35 (71)
..+|+++|..++|||+|+.++...
T Consensus 3 ~~~I~i~G~~~sGKTTL~~~L~~~ 26 (188)
T PF00009_consen 3 IRNIAIIGHVDSGKTTLLGALLGK 26 (188)
T ss_dssp EEEEEEEESTTSSHHHHHHHHHHH
T ss_pred EEEEEEECCCCCCcEeechhhhhh
Confidence 478999999999999999998843
No 273
>TIGR00484 EF-G translation elongation factor EF-G. After peptide bond formation, this elongation factor of bacteria and organelles catalyzes the translocation of the tRNA-mRNA complex, with its attached nascent polypeptide chain, from the A-site to the P-site of the ribosome. Every completed bacterial genome has at least one copy, but some species have additional EF-G-like proteins. The closest homolog to canonical (e.g. E. coli) EF-G in the spirochetes clusters as if it is derived from mitochondrial forms, while a more distant second copy is also present. Synechocystis PCC6803 has a few proteins more closely related to EF-G than to any other characterized protein. Two of these resemble E. coli EF-G more closely than does the best match from the spirochetes; it may be that both function as authentic EF-G.
Probab=97.92 E-value=5.6e-05 Score=51.31 Aligned_cols=60 Identities=15% Similarity=0.181 Sum_probs=37.4
Q ss_pred ceeeeEEEEeCCCCCHHHHHHHHHh--CcCC--CCc--------------cCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514 10 SIKGTVVIVGNGAVGKSSMIQRYCR--GTFT--RDY--------------KKTIGVKSSMIQRYCRGTFTRDYKKTIGA 70 (71)
Q Consensus 10 ~~~~ki~v~G~~~vGKtsl~~~~~~--~~f~--~~~--------------~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~ 70 (71)
....+++++|..++|||||+.+++. +... ... ...+..+.....+..+ ...+.+|||+|.
T Consensus 8 ~~irni~iiG~~~~GKsTL~~~ll~~~g~~~~~~~~~~g~~~~D~~~~e~~rgiti~~~~~~~~~~-~~~i~liDTPG~ 85 (689)
T TIGR00484 8 NRFRNIGISAHIDAGKTTTTERILFYTGRIHKIGEVHDGAATMDWMEQEKERGITITSAATTVFWK-GHRINIIDTPGH 85 (689)
T ss_pred ccccEEEEECCCCCCHHHHHHHHHHhCCCccccccccCCccccCCCHHHHhcCCCEecceEEEEEC-CeEEEEEECCCC
Confidence 3456999999999999999999973 1110 000 1122222233333333 478999999984
No 274
>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=97.89 E-value=7.9e-05 Score=43.57 Aligned_cols=23 Identities=17% Similarity=0.267 Sum_probs=20.8
Q ss_pred eeeEEEEeCCCCCHHHHHHHHHh
Q psy2514 12 KGTVVIVGNGAVGKSSMIQRYCR 34 (71)
Q Consensus 12 ~~ki~v~G~~~vGKtsl~~~~~~ 34 (71)
.++++++|..++|||+|+.+++.
T Consensus 2 ~~ni~iiGh~~~GKTTL~~~Ll~ 24 (195)
T cd01884 2 HVNVGTIGHVDHGKTTLTAAITK 24 (195)
T ss_pred cEEEEEECCCCCCHHHHHHHHHH
Confidence 47899999999999999999875
No 275
>COG1163 DRG Predicted GTPase [General function prediction only]
Probab=97.88 E-value=7.4e-05 Score=47.15 Aligned_cols=60 Identities=23% Similarity=0.206 Sum_probs=38.3
Q ss_pred cCceeeeEEEEeCCCCCHHHHHHHHHhCcC-CCCccCCcceeeEEEEEEeCCEEEEEEEcCCC
Q psy2514 8 RGSIKGTVVIVGNGAVGKSSMIQRYCRGTF-TRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIG 69 (71)
Q Consensus 8 ~~~~~~ki~v~G~~~vGKtsl~~~~~~~~f-~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G 69 (71)
.+.--..++++|.++||||||+..+.+-.. ..+|.-|+- .-.--++..++ ..+++.|+.|
T Consensus 59 ~KsGda~v~lVGfPsvGKStLL~~LTnt~seva~y~FTTl-~~VPG~l~Y~g-a~IQild~Pg 119 (365)
T COG1163 59 KKSGDATVALVGFPSVGKSTLLNKLTNTKSEVADYPFTTL-EPVPGMLEYKG-AQIQLLDLPG 119 (365)
T ss_pred eccCCeEEEEEcCCCccHHHHHHHHhCCCccccccCceec-ccccceEeecC-ceEEEEcCcc
Confidence 344457899999999999999999985332 234433322 12222333344 6788999865
No 276
>PRK00098 GTPase RsgA; Reviewed
Probab=97.87 E-value=2.1e-05 Score=48.59 Aligned_cols=24 Identities=25% Similarity=0.479 Sum_probs=20.5
Q ss_pred eeEEEEeCCCCCHHHHHHHHHhCc
Q psy2514 13 GTVVIVGNGAVGKSSMIQRYCRGT 36 (71)
Q Consensus 13 ~ki~v~G~~~vGKtsl~~~~~~~~ 36 (71)
..++++|.+|||||||++.+....
T Consensus 165 k~~~~~G~sgvGKStlin~l~~~~ 188 (298)
T PRK00098 165 KVTVLAGQSGVGKSTLLNALAPDL 188 (298)
T ss_pred ceEEEECCCCCCHHHHHHHHhCCc
Confidence 458899999999999999998543
No 277
>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=97.86 E-value=6.6e-05 Score=44.81 Aligned_cols=21 Identities=14% Similarity=0.306 Sum_probs=19.1
Q ss_pred eEEEEeCCCCCHHHHHHHHHh
Q psy2514 14 TVVIVGNGAVGKSSMIQRYCR 34 (71)
Q Consensus 14 ki~v~G~~~vGKtsl~~~~~~ 34 (71)
+++++|..+.|||+|+.+++.
T Consensus 2 NvaiiGhvd~GKTTL~d~Ll~ 22 (222)
T cd01885 2 NICIIAHVDHGKTTLSDSLLA 22 (222)
T ss_pred eEEEECCCCCCHHHHHHHHHH
Confidence 589999999999999999874
No 278
>PF03266 NTPase_1: NTPase; InterPro: IPR004948 This entry represents a family of nucleoside-triphosphatases which have activity towards ATP, GTP, CTP, TTP and UTP and may hydrolyse nucleoside diphosphates with lower efficiency []. It includes proteins from bacteria to human, and the function was determined first in a hyperthermophilic bacterium to be an NTPase []. The structure of one member-sequence represents a variation of the RecA fold, and implies that the function might be that of a DNA/RNA modifying enzyme []. The sequence carries both a Walker A and Walker B motif which together are characteristic of ATPases or GTPases. The protein exhibits an increased expression profile in human liver cholangiocarcinoma when compared to normal tissue [].; GO: 0005524 ATP binding, 0016740 transferase activity, 0019204 nucleotide phosphatase activity; PDB: 1YE8_A 2I3B_A.
Probab=97.86 E-value=4.1e-05 Score=43.95 Aligned_cols=51 Identities=16% Similarity=0.159 Sum_probs=31.1
Q ss_pred eEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcC
Q psy2514 14 TVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKT 67 (71)
Q Consensus 14 ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt 67 (71)
++++-|++|+|||+++.+++..- .....+.-| |....+..++ .+-+.+.|.
T Consensus 1 ~i~iTG~pG~GKTTll~k~i~~l-~~~~~~v~G--f~t~evr~~g~r~GF~iv~l 52 (168)
T PF03266_consen 1 HIFITGPPGVGKTTLLKKVIEEL-KKKGLPVGG--FYTEEVRENGRRIGFDIVDL 52 (168)
T ss_dssp EEEEES-TTSSHHHHHHHHHHHH-HHTCGGEEE--EEEEEEETTSSEEEEEEEET
T ss_pred CEEEECcCCCCHHHHHHHHHHHh-hccCCccce--EEeecccCCCceEEEEEEEC
Confidence 68899999999999999987422 111223444 5555544443 555555554
No 279
>TIGR03680 eif2g_arch translation initiation factor 2 subunit gamma. eIF-2 functions in the early steps of protein synthesis by forming a ternary complex with GTP and initiator tRNA.
Probab=97.82 E-value=6.6e-05 Score=48.18 Aligned_cols=24 Identities=17% Similarity=0.253 Sum_probs=21.4
Q ss_pred eeeeEEEEeCCCCCHHHHHHHHHh
Q psy2514 11 IKGTVVIVGNGAVGKSSMIQRYCR 34 (71)
Q Consensus 11 ~~~ki~v~G~~~vGKtsl~~~~~~ 34 (71)
..++++++|..++|||||+.++..
T Consensus 3 ~~~~i~iiG~~~~GKSTL~~~Lt~ 26 (406)
T TIGR03680 3 PEVNIGMVGHVDHGKTTLTKALTG 26 (406)
T ss_pred ceEEEEEEccCCCCHHHHHHHHhC
Confidence 468999999999999999988863
No 280
>PRK00049 elongation factor Tu; Reviewed
Probab=97.81 E-value=0.00015 Score=46.50 Aligned_cols=28 Identities=18% Similarity=0.200 Sum_probs=24.3
Q ss_pred ccCceeeeEEEEeCCCCCHHHHHHHHHh
Q psy2514 7 LRGSIKGTVVIVGNGAVGKSSMIQRYCR 34 (71)
Q Consensus 7 ~~~~~~~ki~v~G~~~vGKtsl~~~~~~ 34 (71)
-+....++++++|..++|||||+.+++.
T Consensus 7 ~~~~~~~ni~iiGhvd~GKSTL~~~L~~ 34 (396)
T PRK00049 7 ERTKPHVNVGTIGHVDHGKTTLTAAITK 34 (396)
T ss_pred cCCCCEEEEEEEeECCCCHHHHHHHHHH
Confidence 3456679999999999999999999885
No 281
>PRK14738 gmk guanylate kinase; Provisional
Probab=97.81 E-value=4.7e-05 Score=44.75 Aligned_cols=35 Identities=31% Similarity=0.524 Sum_probs=26.0
Q ss_pred CcccccccCc-eeeeEEEEeCCCCCHHHHHHHHHhC
Q psy2514 1 MLNLWVLRGS-IKGTVVIVGNGAVGKSSMIQRYCRG 35 (71)
Q Consensus 1 m~~~~~~~~~-~~~ki~v~G~~~vGKtsl~~~~~~~ 35 (71)
|.|++..+++ ...-++++|.+|+|||+++..+...
T Consensus 1 ~~~~~~~~~~~~~~~ivi~GpsG~GK~tl~~~L~~~ 36 (206)
T PRK14738 1 MMNPWLFNKPAKPLLVVISGPSGVGKDAVLARMRER 36 (206)
T ss_pred CCCccccCCCCCCeEEEEECcCCCCHHHHHHHHHhc
Confidence 5566665544 4456678899999999999998753
No 282
>PF13207 AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6_G 2QT1_A 2QSZ_A 2QSY_A 2QT0_A 2QG6_A 2P0E_A ....
Probab=97.76 E-value=4.6e-05 Score=40.71 Aligned_cols=22 Identities=23% Similarity=0.457 Sum_probs=19.5
Q ss_pred eEEEEeCCCCCHHHHHHHHHhC
Q psy2514 14 TVVIVGNGAVGKSSMIQRYCRG 35 (71)
Q Consensus 14 ki~v~G~~~vGKtsl~~~~~~~ 35 (71)
.|++.|.+|+|||+++..+...
T Consensus 1 vI~I~G~~gsGKST~a~~La~~ 22 (121)
T PF13207_consen 1 VIIISGPPGSGKSTLAKELAER 22 (121)
T ss_dssp EEEEEESTTSSHHHHHHHHHHH
T ss_pred CEEEECCCCCCHHHHHHHHHHH
Confidence 4789999999999999988864
No 283
>PRK12739 elongation factor G; Reviewed
Probab=97.74 E-value=0.00023 Score=48.47 Aligned_cols=25 Identities=16% Similarity=0.190 Sum_probs=21.9
Q ss_pred ceeeeEEEEeCCCCCHHHHHHHHHh
Q psy2514 10 SIKGTVVIVGNGAVGKSSMIQRYCR 34 (71)
Q Consensus 10 ~~~~ki~v~G~~~vGKtsl~~~~~~ 34 (71)
....+++++|..++|||||+.+++.
T Consensus 6 ~~irni~iiGh~~~GKsTL~~~ll~ 30 (691)
T PRK12739 6 EKTRNIGIMAHIDAGKTTTTERILY 30 (691)
T ss_pred cCeeEEEEECCCCCCHHHHHHHHHH
Confidence 3467899999999999999999974
No 284
>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=97.72 E-value=0.00041 Score=38.87 Aligned_cols=33 Identities=24% Similarity=0.317 Sum_probs=26.0
Q ss_pred EEEEeCCCCCHHHHHHHHHhCc-CCCCccCCcce
Q psy2514 15 VVIVGNGAVGKSSMIQRYCRGT-FTRDYKKTIGV 47 (71)
Q Consensus 15 i~v~G~~~vGKtsl~~~~~~~~-f~~~~~~t~~~ 47 (71)
|+++|..++|||||++.++... ++....|+...
T Consensus 1 V~v~G~~ssGKSTliNaLlG~~ilp~~~~~~T~~ 34 (168)
T PF00350_consen 1 VAVVGQFSSGKSTLINALLGRPILPSGVGPCTAV 34 (168)
T ss_dssp EEEEEBTTSSHHHHHHHHHTSS-SSSSSSSTTSS
T ss_pred CEEEcCCCCCHHHHHHHHHhcccCcccccccccc
Confidence 6899999999999999999877 44445556554
No 285
>COG1618 Predicted nucleotide kinase [Nucleotide transport and metabolism]
Probab=97.71 E-value=0.00023 Score=41.07 Aligned_cols=56 Identities=13% Similarity=0.148 Sum_probs=37.5
Q ss_pred ceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCC
Q psy2514 10 SIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTI 68 (71)
Q Consensus 10 ~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~ 68 (71)
...+|+.+-|.+|+|||+++.+..+.--... -+++ -|....+..++ .+=+.|.|.+
T Consensus 3 ~~~mki~ITG~PGvGKtTl~~ki~e~L~~~g--~kvg-Gf~t~EVR~gGkR~GF~Ivdl~ 59 (179)
T COG1618 3 KMAMKIFITGRPGVGKTTLVLKIAEKLREKG--YKVG-GFITPEVREGGKRIGFKIVDLA 59 (179)
T ss_pred CcceEEEEeCCCCccHHHHHHHHHHHHHhcC--ceee-eEEeeeeecCCeEeeeEEEEcc
Confidence 3458999999999999999998875332222 2233 25555555554 5667777765
No 286
>COG0563 Adk Adenylate kinase and related kinases [Nucleotide transport and metabolism]
Probab=97.70 E-value=4.3e-05 Score=44.27 Aligned_cols=23 Identities=22% Similarity=0.486 Sum_probs=20.8
Q ss_pred eeEEEEeCCCCCHHHHHHHHHhC
Q psy2514 13 GTVVIVGNGAVGKSSMIQRYCRG 35 (71)
Q Consensus 13 ~ki~v~G~~~vGKtsl~~~~~~~ 35 (71)
.+++++|.||+||||++.++...
T Consensus 1 ~riiilG~pGaGK~T~A~~La~~ 23 (178)
T COG0563 1 MRILILGPPGAGKSTLAKKLAKK 23 (178)
T ss_pred CeEEEECCCCCCHHHHHHHHHHH
Confidence 37999999999999999999876
No 287
>PLN03127 Elongation factor Tu; Provisional
Probab=97.69 E-value=0.00028 Score=45.99 Aligned_cols=26 Identities=19% Similarity=0.216 Sum_probs=22.6
Q ss_pred cCceeeeEEEEeCCCCCHHHHHHHHH
Q psy2514 8 RGSIKGTVVIVGNGAVGKSSMIQRYC 33 (71)
Q Consensus 8 ~~~~~~ki~v~G~~~vGKtsl~~~~~ 33 (71)
+....++++++|..++|||||+.++.
T Consensus 57 ~~k~~~ni~iiGhvd~GKSTL~~~L~ 82 (447)
T PLN03127 57 RTKPHVNVGTIGHVDHGKTTLTAAIT 82 (447)
T ss_pred cCCceEEEEEECcCCCCHHHHHHHHH
Confidence 34566899999999999999999886
No 288
>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=97.68 E-value=5.7e-05 Score=45.04 Aligned_cols=26 Identities=31% Similarity=0.547 Sum_probs=23.2
Q ss_pred eEEEEeCCCCCHHHHHHHHHhCcCCC
Q psy2514 14 TVVIVGNGAVGKSSMIQRYCRGTFTR 39 (71)
Q Consensus 14 ki~v~G~~~vGKtsl~~~~~~~~f~~ 39 (71)
|++++|+.++|||||+.++..+.|..
T Consensus 1 ~v~~~G~~~~GKttl~~~~~~~~~~~ 26 (224)
T cd04165 1 RVAVVGNVDAGKSTLLGVLTQGELDN 26 (224)
T ss_pred CEEEECCCCCCHHHHHHHHHhCCcCC
Confidence 68899999999999999999877754
No 289
>PRK08118 topology modulation protein; Reviewed
Probab=97.67 E-value=6e-05 Score=43.08 Aligned_cols=22 Identities=23% Similarity=0.631 Sum_probs=19.7
Q ss_pred eeEEEEeCCCCCHHHHHHHHHh
Q psy2514 13 GTVVIVGNGAVGKSSMIQRYCR 34 (71)
Q Consensus 13 ~ki~v~G~~~vGKtsl~~~~~~ 34 (71)
.+|+|+|.+|+|||++...+..
T Consensus 2 ~rI~I~G~~GsGKSTlak~L~~ 23 (167)
T PRK08118 2 KKIILIGSGGSGKSTLARQLGE 23 (167)
T ss_pred cEEEEECCCCCCHHHHHHHHHH
Confidence 4799999999999999998874
No 290
>TIGR00092 GTP-binding protein YchF. This predicted GTP-binding protein is found in a single copy in every complete bacterial genome, and is found in Eukaryotes. A more distantly related protein, separated from this model, is found in the archaea. It is known to bind GTP and double-stranded nucleic acid. It is suggested to belong to a nucleoprotein complex and act as a translation factor.
Probab=97.66 E-value=0.00026 Score=45.27 Aligned_cols=25 Identities=28% Similarity=0.089 Sum_probs=22.2
Q ss_pred eeEEEEeCCCCCHHHHHHHHHhCcC
Q psy2514 13 GTVVIVGNGAVGKSSMIQRYCRGTF 37 (71)
Q Consensus 13 ~ki~v~G~~~vGKtsl~~~~~~~~f 37 (71)
+|+.++|.+++|||+|.+.+....-
T Consensus 3 lk~GivGlPn~GKSTlfnaLT~~~~ 27 (368)
T TIGR00092 3 LSGGIVGLPNVGKSTLFAATTNLLG 27 (368)
T ss_pred ceEEEECCCCCChHHHHHHHhCCCc
Confidence 7899999999999999998886654
No 291
>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=97.66 E-value=0.00016 Score=46.49 Aligned_cols=21 Identities=29% Similarity=0.322 Sum_probs=19.5
Q ss_pred eeEEEEeCCCCCHHHHHHHHH
Q psy2514 13 GTVVIVGNGAVGKSSMIQRYC 33 (71)
Q Consensus 13 ~ki~v~G~~~vGKtsl~~~~~ 33 (71)
++++++|..++|||||+.+++
T Consensus 1 ~~~~~vGhvd~GKSTL~~~ll 21 (406)
T TIGR02034 1 LRFLTCGSVDDGKSTLIGRLL 21 (406)
T ss_pred CeEEEECCCCCCchhhhHHHH
Confidence 479999999999999999987
No 292
>PRK07261 topology modulation protein; Provisional
Probab=97.65 E-value=6.7e-05 Score=42.97 Aligned_cols=21 Identities=24% Similarity=0.585 Sum_probs=19.1
Q ss_pred eEEEEeCCCCCHHHHHHHHHh
Q psy2514 14 TVVIVGNGAVGKSSMIQRYCR 34 (71)
Q Consensus 14 ki~v~G~~~vGKtsl~~~~~~ 34 (71)
+|+++|.+|+|||+|+..+..
T Consensus 2 ri~i~G~~GsGKSTla~~l~~ 22 (171)
T PRK07261 2 KIAIIGYSGSGKSTLARKLSQ 22 (171)
T ss_pred EEEEEcCCCCCHHHHHHHHHH
Confidence 789999999999999998764
No 293
>PRK05506 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional
Probab=97.62 E-value=0.00026 Score=47.76 Aligned_cols=25 Identities=24% Similarity=0.214 Sum_probs=22.3
Q ss_pred ceeeeEEEEeCCCCCHHHHHHHHHh
Q psy2514 10 SIKGTVVIVGNGAVGKSSMIQRYCR 34 (71)
Q Consensus 10 ~~~~ki~v~G~~~vGKtsl~~~~~~ 34 (71)
+..++++++|..++|||||+.+++.
T Consensus 22 ~~~~~i~iiGh~~~GKSTL~~~Ll~ 46 (632)
T PRK05506 22 KSLLRFITCGSVDDGKSTLIGRLLY 46 (632)
T ss_pred CCeeEEEEECCCCCChHHHHHHHHH
Confidence 4568999999999999999999885
No 294
>KOG0705|consensus
Probab=97.61 E-value=4.2e-05 Score=51.18 Aligned_cols=61 Identities=21% Similarity=0.221 Sum_probs=50.9
Q ss_pred CceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514 9 GSIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA 70 (71)
Q Consensus 9 ~~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~ 70 (71)
.-..+|+-++|+.+.|||+|++||+.+.|..+. .+.+..|...++.+.+...+-|.|-+|.
T Consensus 27 sipelk~givg~~~sgktalvhr~ltgty~~~e-~~e~~~~kkE~vv~gqs~lLlirdeg~~ 87 (749)
T KOG0705|consen 27 SIPELKLGIVGTSQSGKTALVHRYLTGTYTQDE-SPEGGRFKKEVVVDGQSHLLLIRDEGGH 87 (749)
T ss_pred ccchhheeeeecccCCceeeeeeeccceecccc-CCcCccceeeEEeeccceEeeeecccCC
Confidence 345789999999999999999999999998754 5556678888887777888999998774
No 295
>PF13671 AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1_A 1RRC_A 1RPZ_A 3ZVM_A 1YJ5_A 3ZVL_A 3U7E_B ....
Probab=97.61 E-value=8.5e-05 Score=40.66 Aligned_cols=19 Identities=26% Similarity=0.611 Sum_probs=17.7
Q ss_pred EEEEeCCCCCHHHHHHHHH
Q psy2514 15 VVIVGNGAVGKSSMIQRYC 33 (71)
Q Consensus 15 i~v~G~~~vGKtsl~~~~~ 33 (71)
++++|.+|+|||+++.++.
T Consensus 2 ii~~G~pgsGKSt~a~~l~ 20 (143)
T PF13671_consen 2 IILCGPPGSGKSTLAKRLA 20 (143)
T ss_dssp EEEEESTTSSHHHHHHHHH
T ss_pred EEEECCCCCCHHHHHHHHH
Confidence 6889999999999999987
No 296
>PTZ00141 elongation factor 1- alpha; Provisional
Probab=97.60 E-value=0.00046 Score=45.00 Aligned_cols=26 Identities=19% Similarity=0.244 Sum_probs=22.7
Q ss_pred CceeeeEEEEeCCCCCHHHHHHHHHh
Q psy2514 9 GSIKGTVVIVGNGAVGKSSMIQRYCR 34 (71)
Q Consensus 9 ~~~~~ki~v~G~~~vGKtsl~~~~~~ 34 (71)
....++++++|..++|||+|+.+++.
T Consensus 4 ~k~~~nv~i~Ghvd~GKSTL~~~Ll~ 29 (446)
T PTZ00141 4 EKTHINLVVIGHVDSGKSTTTGHLIY 29 (446)
T ss_pred CCceEEEEEEecCCCCHHHHHHHHHH
Confidence 34568999999999999999998875
No 297
>COG1162 Predicted GTPases [General function prediction only]
Probab=97.60 E-value=6.5e-05 Score=46.77 Aligned_cols=21 Identities=33% Similarity=0.588 Sum_probs=18.6
Q ss_pred eEEEEeCCCCCHHHHHHHHHh
Q psy2514 14 TVVIVGNGAVGKSSMIQRYCR 34 (71)
Q Consensus 14 ki~v~G~~~vGKtsl~~~~~~ 34 (71)
-.+++|.+|||||||++++..
T Consensus 166 ~svl~GqSGVGKSSLiN~L~p 186 (301)
T COG1162 166 ITVLLGQSGVGKSTLINALLP 186 (301)
T ss_pred eEEEECCCCCcHHHHHHhhCc
Confidence 567889999999999999874
No 298
>PF07728 AAA_5: AAA domain (dynein-related subfamily); InterPro: IPR011704 The ATPases Associated to a variety of cellular Activities (AAA) are a family distinguished by a highly conserved module of 230 amino acids []. The highly conserved nature of this module across taxa suggests that it has a key cellular role. Members of the family are involved in diverse cellular functions including gene expression, peroxisome assembly and vesicle mediated transport. Although the role of this ATPase AAA domain is not, as yet, clear, the AAA+ superfamily of proteins to which the AAA ATPases belong has a chaperone-like function in the assembly, operation or disassembly of proteins []. This ATPase domain includes some proteins not detected by the IPR003959 from INTERPRO model.; GO: 0005524 ATP binding, 0016887 ATPase activity; PDB: 3NBX_X 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A 3VKH_A 3VKG_A.
Probab=97.59 E-value=9.7e-05 Score=40.49 Aligned_cols=20 Identities=25% Similarity=0.544 Sum_probs=18.1
Q ss_pred EEEEeCCCCCHHHHHHHHHh
Q psy2514 15 VVIVGNGAVGKSSMIQRYCR 34 (71)
Q Consensus 15 i~v~G~~~vGKtsl~~~~~~ 34 (71)
++++|++|+|||++++.++.
T Consensus 2 vlL~G~~G~GKt~l~~~la~ 21 (139)
T PF07728_consen 2 VLLVGPPGTGKTTLARELAA 21 (139)
T ss_dssp EEEEESSSSSHHHHHHHHHH
T ss_pred EEEECCCCCCHHHHHHHHHH
Confidence 78999999999999998774
No 299
>PRK05124 cysN sulfate adenylyltransferase subunit 1; Provisional
Probab=97.59 E-value=0.00038 Score=45.67 Aligned_cols=26 Identities=23% Similarity=0.202 Sum_probs=22.9
Q ss_pred CceeeeEEEEeCCCCCHHHHHHHHHh
Q psy2514 9 GSIKGTVVIVGNGAVGKSSMIQRYCR 34 (71)
Q Consensus 9 ~~~~~ki~v~G~~~vGKtsl~~~~~~ 34 (71)
....++++++|..++|||+|+.+++.
T Consensus 24 ~~~~~~i~iiGhvdaGKSTL~~~LL~ 49 (474)
T PRK05124 24 HKSLLRFLTCGSVDDGKSTLIGRLLH 49 (474)
T ss_pred ccCceEEEEECCCCCChHHHHHHHHH
Confidence 35569999999999999999999874
No 300
>KOG1491|consensus
Probab=97.58 E-value=0.00036 Score=44.40 Aligned_cols=63 Identities=17% Similarity=0.091 Sum_probs=40.6
Q ss_pred ccCceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccC--CcceeeEEEEEEe------------CC--EEEEEEEcCCC
Q psy2514 7 LRGSIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKK--TIGVKSSMIQRYC------------RG--TFTRDYKKTIG 69 (71)
Q Consensus 7 ~~~~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~--t~~~~~~~~~~~~------------~~--~~~l~i~Dt~G 69 (71)
.+....+|+-+||.++||||++.+.+.+........| |+..+-....+.+ .+ +..++++|.||
T Consensus 15 gR~~~~lkiGIVGlPNvGKST~fnalT~~~a~~~NfPF~TIdPn~a~V~v~d~Rfd~l~~~Y~~~~~vpa~l~v~DIAG 93 (391)
T KOG1491|consen 15 GRDGNNLKIGIVGLPNVGKSTFFNALTKSKAGAANFPFCTIDPNEARVEVPDSRFDLLCPIYGPKSKVPAFLTVYDIAG 93 (391)
T ss_pred cCCCCcceeeEeeCCCCchHHHHHHHhcCCCCccCCCcceeccccceeecCchHHHHHHHhcCCcceeeeeEEEEeecc
Confidence 3455678999999999999999999987655433222 3332222111111 12 56789999987
No 301
>cd01882 BMS1 Bms1. Bms1 is an essential, evolutionarily conserved, nucleolar protein. Its depletion interferes with processing of the 35S pre-rRNA at sites A0, A1, and A2, and the formation of 40S subunits. Bms1, the putative endonuclease Rc11, and the essential U3 small nucleolar RNA form a stable subcomplex that is believed to control an early step in the formation of the 40S subumit. The C-terminal domain of Bms1 contains a GTPase-activating protein (GAP) that functions intramolecularly. It is believed that Rc11 activates Bms1 by acting as a guanine-nucleotide exchange factor (GEF) to promote GDP/GTP exchange, and that activated (GTP-bound) Bms1 delivers Rc11 to the preribosomes.
Probab=97.57 E-value=0.00035 Score=41.59 Aligned_cols=56 Identities=14% Similarity=0.147 Sum_probs=34.1
Q ss_pred eeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514 11 IKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA 70 (71)
Q Consensus 11 ~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~ 70 (71)
....++++|.+++|||+|++.+....-........|. + .+...+...+.++||.|.
T Consensus 38 ~~~~i~ivG~~~~GKstl~~~l~~~~~~~~~~~~~g~-i---~i~~~~~~~i~~vDtPg~ 93 (225)
T cd01882 38 PPLVVAVVGPPGVGKTTLIKSLVKNYTKQNISDIKGP-I---TVVTGKKRRLTFIECPND 93 (225)
T ss_pred CCCEEEEECCCCCCHHHHHHHHHhhcccCcccccccc-E---EEEecCCceEEEEeCCch
Confidence 3477899999999999999888753211111111221 1 112224566788999874
No 302
>PF00004 AAA: ATPase family associated with various cellular activities (AAA); InterPro: IPR003959 AAA ATPases (ATPases Associated with diverse cellular Activities) form a large protein family and play a number of roles in the cell including cell-cycle regulation, protein proteolysis and disaggregation, organelle biogenesis and intracellular transport. Some of them function as molecular chaperones, subunits of proteolytic complexes or independent proteases (FtsH, Lon). They also act as DNA helicases and transcription factors []. AAA ATPases belong to the AAA+ superfamily of ringshaped P-loop NTPases, which act via the energy-dependent unfolding of macromolecules [, ]. There are six major clades of AAA domains (proteasome subunits, metalloproteases, domains D1 and D2 of ATPases with two AAA domains, the MSP1/katanin/spastin group and BCS1 and it homologues), as well as a number of deeply branching minor clades []. They assemble into oligomeric assemblies (often hexamers) that form a ring-shaped structure with a central pore. These proteins produce a molecular motor that couples ATP binding and hydrolysis to changes in conformational states that act upon a target substrate, either translocating or remodelling it []. They are found in all living organisms and share the common feature of the presence of a highly conserved AAA domain called the AAA module. This domain is responsible for ATP binding and hydrolysis. It contains 200-250 residues, among them there are two classical motifs, Walker A (GX4GKT) and Walker B (HyDE) []. The functional variety seen between AAA ATPases is in part due to their extensive number of accessory domains and factors, and to their variable organisation within oligomeric assemblies, in addition to changes in key functional residues within the ATPase domain itself. More information about these proteins can be found at Protein of the Month: AAA ATPases [].; GO: 0005524 ATP binding; PDB: 3H4M_A 1NSF_A 1D2N_A 1HQY_E 1DO0_E 1DO2_C 1G4B_E 1HT1_F 1G4A_F 1HT2_G ....
Probab=97.53 E-value=0.00012 Score=39.21 Aligned_cols=21 Identities=14% Similarity=0.382 Sum_probs=18.5
Q ss_pred EEEEeCCCCCHHHHHHHHHhC
Q psy2514 15 VVIVGNGAVGKSSMIQRYCRG 35 (71)
Q Consensus 15 i~v~G~~~vGKtsl~~~~~~~ 35 (71)
+++.|++|+|||++++.++..
T Consensus 1 ill~G~~G~GKT~l~~~la~~ 21 (132)
T PF00004_consen 1 ILLHGPPGTGKTTLARALAQY 21 (132)
T ss_dssp EEEESSTTSSHHHHHHHHHHH
T ss_pred CEEECcCCCCeeHHHHHHHhh
Confidence 578999999999999988753
No 303
>PRK00007 elongation factor G; Reviewed
Probab=97.51 E-value=0.00061 Score=46.48 Aligned_cols=60 Identities=15% Similarity=0.199 Sum_probs=37.7
Q ss_pred ceeeeEEEEeCCCCCHHHHHHHHHh--CcCCC----------------CccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514 10 SIKGTVVIVGNGAVGKSSMIQRYCR--GTFTR----------------DYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA 70 (71)
Q Consensus 10 ~~~~ki~v~G~~~vGKtsl~~~~~~--~~f~~----------------~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~ 70 (71)
....+++++|..++|||||+.+++. +.... +....+..+.....+..+ ...+++.||+|-
T Consensus 8 ~~Irni~iiG~~~~GKsTL~~~ll~~~g~~~~~g~v~~~~~~~D~~~~E~~rg~ti~~~~~~~~~~-~~~~~liDTPG~ 85 (693)
T PRK00007 8 ERYRNIGIMAHIDAGKTTTTERILFYTGVNHKIGEVHDGAATMDWMEQEQERGITITSAATTCFWK-DHRINIIDTPGH 85 (693)
T ss_pred cceeEEEEECCCCCCHHHHHHHHHHhcCCccccccccCCcccCCCCHHHHhCCCCEeccEEEEEEC-CeEEEEEeCCCc
Confidence 3467999999999999999999973 21100 012222222323333333 467999999983
No 304
>PF13521 AAA_28: AAA domain; PDB: 1LW7_A.
Probab=97.51 E-value=8.8e-05 Score=41.81 Aligned_cols=22 Identities=27% Similarity=0.552 Sum_probs=17.3
Q ss_pred eEEEEeCCCCCHHHHHHHHHhC
Q psy2514 14 TVVIVGNGAVGKSSMIQRYCRG 35 (71)
Q Consensus 14 ki~v~G~~~vGKtsl~~~~~~~ 35 (71)
||++.|.+++|||+|+..+...
T Consensus 1 rI~i~G~~stGKTTL~~~L~~~ 22 (163)
T PF13521_consen 1 RIVITGGPSTGKTTLIEALAAR 22 (163)
T ss_dssp -EEEE--TTSHHHHHHHHHHHH
T ss_pred CEEEECCCCCCHHHHHHHHHHc
Confidence 7999999999999999988754
No 305
>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=97.51 E-value=0.0005 Score=45.02 Aligned_cols=26 Identities=23% Similarity=0.276 Sum_probs=23.1
Q ss_pred ceeeeEEEEeCCCCCHHHHHHHHHhC
Q psy2514 10 SIKGTVVIVGNGAVGKSSMIQRYCRG 35 (71)
Q Consensus 10 ~~~~ki~v~G~~~vGKtsl~~~~~~~ 35 (71)
.-.+-+.++|...+|||||+++|+..
T Consensus 15 ~G~IyIGvvGpvrtGKSTfIn~fm~q 40 (492)
T TIGR02836 15 QGDIYIGVVGPVRTGKSTFIKKFMEL 40 (492)
T ss_pred CCcEEEEEEcCCCCChHHHHHHHHhh
Confidence 34578999999999999999999977
No 306
>KOG1707|consensus
Probab=97.49 E-value=0.00057 Score=45.91 Aligned_cols=52 Identities=15% Similarity=0.203 Sum_probs=45.0
Q ss_pred ccCceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC
Q psy2514 7 LRGSIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG 58 (71)
Q Consensus 7 ~~~~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~ 58 (71)
...+.-+.+.++|+.++|||.+++.|..+.+..++..+....+..+.+...+
T Consensus 420 ~~~R~Vf~C~V~G~k~~GKs~lL~sflgr~~~~~~~~~~~~~~avn~v~~~g 471 (625)
T KOG1707|consen 420 QTDRKVFQCFVVGPKNCGKSALLQSFLGRSMSDNNTGTTKPRYAVNSVEVKG 471 (625)
T ss_pred cccceeeeEEEEcCCcCchHHHHHHHhccccccccccCCCCceeeeeeeecc
Confidence 4466789999999999999999999999999888888888888887776655
No 307
>KOG0072|consensus
Probab=97.48 E-value=2.2e-05 Score=44.54 Aligned_cols=57 Identities=19% Similarity=0.219 Sum_probs=43.4
Q ss_pred ceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514 10 SIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA 70 (71)
Q Consensus 10 ~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~ 70 (71)
....+++++|..|+|||++..|..-++... ..||+|. ....+.. +..++++||-.|.
T Consensus 16 e~e~rililgldGaGkttIlyrlqvgevvt-tkPtigf--nve~v~y-KNLk~~vwdLggq 72 (182)
T KOG0072|consen 16 EREMRILILGLDGAGKTTILYRLQVGEVVT-TKPTIGF--NVETVPY-KNLKFQVWDLGGQ 72 (182)
T ss_pred ccceEEEEeeccCCCeeEEEEEcccCcccc-cCCCCCc--Ccccccc-ccccceeeEccCc
Confidence 367899999999999999999988777654 5799984 4444443 4477889997663
No 308
>KOG0076|consensus
Probab=97.47 E-value=9.3e-05 Score=43.07 Aligned_cols=59 Identities=14% Similarity=0.197 Sum_probs=40.7
Q ss_pred CceeeeEEEEeCCCCCHHHHHHHHHhC---cC----CCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514 9 GSIKGTVVIVGNGAVGKSSMIQRYCRG---TF----TRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA 70 (71)
Q Consensus 9 ~~~~~ki~v~G~~~vGKtsl~~~~~~~---~f----~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~ 70 (71)
....+.++++|...+|||+|+...-.. .+ +..-.||+|.+.- ++..+ ...+.+||-.|+
T Consensus 14 ~Ke~y~vlIlgldnAGKttfLe~~Kt~~~~~~~~l~~~ki~~tvgLnig--~i~v~-~~~l~fwdlgGQ 79 (197)
T KOG0076|consen 14 KKEDYSVLILGLDNAGKTTFLEALKTDFSKAYGGLNPSKITPTVGLNIG--TIEVC-NAPLSFWDLGGQ 79 (197)
T ss_pred hhhhhhheeeccccCCchhHHHHHHHHHHhhhcCCCHHHeecccceeec--ceeec-cceeEEEEcCCh
Confidence 344588999999999999999865421 11 1235688886543 33334 467899999885
No 309
>PF13191 AAA_16: AAA ATPase domain; PDB: 2V1U_A.
Probab=97.46 E-value=0.00014 Score=41.16 Aligned_cols=24 Identities=17% Similarity=0.405 Sum_probs=16.1
Q ss_pred eeeeEEEEeCCCCCHHHHHHHHHh
Q psy2514 11 IKGTVVIVGNGAVGKSSMIQRYCR 34 (71)
Q Consensus 11 ~~~ki~v~G~~~vGKtsl~~~~~~ 34 (71)
..--+++.|++|+|||+++.++..
T Consensus 23 ~~~~~ll~G~~G~GKT~ll~~~~~ 46 (185)
T PF13191_consen 23 SPRNLLLTGESGSGKTSLLRALLD 46 (185)
T ss_dssp ----EEE-B-TTSSHHHHHHHHHH
T ss_pred CCcEEEEECCCCCCHHHHHHHHHH
Confidence 346789999999999999998764
No 310
>COG1116 TauB ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]
Probab=97.46 E-value=0.00013 Score=44.30 Aligned_cols=21 Identities=29% Similarity=0.491 Sum_probs=18.2
Q ss_pred eEEEEeCCCCCHHHHHHHHHh
Q psy2514 14 TVVIVGNGAVGKSSMIQRYCR 34 (71)
Q Consensus 14 ki~v~G~~~vGKtsl~~~~~~ 34 (71)
-++++|++|||||+|++-...
T Consensus 31 fvsilGpSGcGKSTLLriiAG 51 (248)
T COG1116 31 FVAILGPSGCGKSTLLRLIAG 51 (248)
T ss_pred EEEEECCCCCCHHHHHHHHhC
Confidence 478899999999999987764
No 311
>PF13401 AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S_B.
Probab=97.46 E-value=0.00018 Score=38.71 Aligned_cols=24 Identities=33% Similarity=0.541 Sum_probs=18.4
Q ss_pred eeEEEEeCCCCCHHHHHHHHHhCc
Q psy2514 13 GTVVIVGNGAVGKSSMIQRYCRGT 36 (71)
Q Consensus 13 ~ki~v~G~~~vGKtsl~~~~~~~~ 36 (71)
--+++.|++|+|||+++.++....
T Consensus 5 ~~~~i~G~~G~GKT~~~~~~~~~~ 28 (131)
T PF13401_consen 5 RILVISGPPGSGKTTLIKRLARQL 28 (131)
T ss_dssp --EEEEE-TTSSHHHHHHHHHHHH
T ss_pred cccEEEcCCCCCHHHHHHHHHHHh
Confidence 347889999999999999998643
No 312
>KOG3886|consensus
Probab=97.44 E-value=5.1e-05 Score=46.12 Aligned_cols=59 Identities=17% Similarity=0.158 Sum_probs=35.8
Q ss_pred eeeEEEEeCCCCCHHHHHHHHHhCcCC-CCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514 12 KGTVVIVGNGAVGKSSMIQRYCRGTFT-RDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA 70 (71)
Q Consensus 12 ~~ki~v~G~~~vGKtsl~~~~~~~~f~-~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~ 70 (71)
.-|++++|.+|+||||+-.-+..+... +...++-.+|+.......-+..-+++||..|+
T Consensus 4 ~kKvlLMGrsGsGKsSmrsiiF~ny~a~D~~rlg~tidveHsh~RflGnl~LnlwDcGgq 63 (295)
T KOG3886|consen 4 KKKVLLMGRSGSGKSSMRSIIFANYIARDTRRLGATIDVEHSHVRFLGNLVLNLWDCGGQ 63 (295)
T ss_pred cceEEEeccCCCCccccchhhhhhhhhhhhhccCCcceeeehhhhhhhhheeehhccCCc
Confidence 468999999999999975544322211 11123333344443333345577999999885
No 313
>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=97.43 E-value=0.00068 Score=44.63 Aligned_cols=57 Identities=18% Similarity=0.223 Sum_probs=40.9
Q ss_pred ceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeC---CEEEEEEEcCCC
Q psy2514 10 SIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCR---GTFTRDYKKTIG 69 (71)
Q Consensus 10 ~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~---~~~~l~i~Dt~G 69 (71)
...-.|+|+|+.++|||+|+.++... +.+.++.+.+|..-.+.++ ...++.+|--.|
T Consensus 23 ~~~k~vlvlG~~~~GKttli~~L~~~---e~~~~~~aLeYty~~v~d~~~dd~~rl~vw~L~g 82 (472)
T PF05783_consen 23 PSEKSVLVLGDKGSGKTTLIARLQGI---EDPKKGLALEYTYLDVKDEDRDDLARLNVWELDG 82 (472)
T ss_pred CCCceEEEEeCCCCchHHHHHHhhcc---CCCCCCcccceEEEeeccCcCCcCceeeEEEcCC
Confidence 34578999999999999999998643 3467888888865444443 235677875544
No 314
>PF05729 NACHT: NACHT domain
Probab=97.43 E-value=0.00016 Score=40.03 Aligned_cols=21 Identities=24% Similarity=0.507 Sum_probs=18.6
Q ss_pred EEEEeCCCCCHHHHHHHHHhC
Q psy2514 15 VVIVGNGAVGKSSMIQRYCRG 35 (71)
Q Consensus 15 i~v~G~~~vGKtsl~~~~~~~ 35 (71)
+++.|++|+|||+++.+++..
T Consensus 3 l~I~G~~G~GKStll~~~~~~ 23 (166)
T PF05729_consen 3 LWISGEPGSGKSTLLRKLAQQ 23 (166)
T ss_pred EEEECCCCCChHHHHHHHHHH
Confidence 688999999999999988753
No 315
>PRK06217 hypothetical protein; Validated
Probab=97.40 E-value=0.00022 Score=41.07 Aligned_cols=23 Identities=13% Similarity=0.215 Sum_probs=20.4
Q ss_pred eeEEEEeCCCCCHHHHHHHHHhC
Q psy2514 13 GTVVIVGNGAVGKSSMIQRYCRG 35 (71)
Q Consensus 13 ~ki~v~G~~~vGKtsl~~~~~~~ 35 (71)
.+|+++|.+|+|||++..++...
T Consensus 2 ~~I~i~G~~GsGKSTla~~L~~~ 24 (183)
T PRK06217 2 MRIHITGASGSGTTTLGAALAER 24 (183)
T ss_pred eEEEEECCCCCCHHHHHHHHHHH
Confidence 47999999999999999988754
No 316
>KOG2485|consensus
Probab=97.40 E-value=0.00051 Score=43.14 Aligned_cols=62 Identities=23% Similarity=0.177 Sum_probs=38.0
Q ss_pred CceeeeEEEEeCCCCCHHHHHHHHHhCcCCCC------ccCCcceeeEEEEEEeCCEEEEEEEcCCCCC
Q psy2514 9 GSIKGTVVIVGNGAVGKSSMIQRYCRGTFTRD------YKKTIGVKSSMIQRYCRGTFTRDYKKTIGAL 71 (71)
Q Consensus 9 ~~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~------~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~~ 71 (71)
....+.+.++|-++||||||+........... ..|.+-..........+++ .+.+.||.|.|
T Consensus 140 ~~~~~~vmVvGvPNVGKSsLINa~r~~~Lrk~k~a~vG~~pGVT~~V~~~iri~~rp-~vy~iDTPGil 207 (335)
T KOG2485|consen 140 LNSEYNVMVVGVPNVGKSSLINALRNVHLRKKKAARVGAEPGVTRRVSERIRISHRP-PVYLIDTPGIL 207 (335)
T ss_pred cCCceeEEEEcCCCCChHHHHHHHHHHHhhhccceeccCCCCceeeehhheEeccCC-ceEEecCCCcC
Confidence 34578999999999999999997654322221 2233332332222222332 37889999875
No 317
>smart00382 AAA ATPases associated with a variety of cellular activities. AAA - ATPases associated with a variety of cellular activities. This profile/alignment only detects a fraction of this vast family. The poorly conserved N-terminal helix is missing from the alignment.
Probab=97.40 E-value=0.00031 Score=37.20 Aligned_cols=26 Identities=23% Similarity=0.370 Sum_probs=21.8
Q ss_pred eeEEEEeCCCCCHHHHHHHHHhCcCC
Q psy2514 13 GTVVIVGNGAVGKSSMIQRYCRGTFT 38 (71)
Q Consensus 13 ~ki~v~G~~~vGKtsl~~~~~~~~f~ 38 (71)
-.+++.|++|+|||+++..++..-..
T Consensus 3 ~~~~l~G~~G~GKTtl~~~l~~~~~~ 28 (148)
T smart00382 3 EVILIVGPPGSGKTTLARALARELGP 28 (148)
T ss_pred CEEEEECCCCCcHHHHHHHHHhccCC
Confidence 46889999999999999998865544
No 318
>TIGR00235 udk uridine kinase. Model contains a number of longer eukaryotic proteins and starts bringing in phosphoribulokinase hits at scores of 160 and below
Probab=97.39 E-value=0.00032 Score=41.10 Aligned_cols=26 Identities=15% Similarity=0.199 Sum_probs=21.6
Q ss_pred CceeeeEEEEeCCCCCHHHHHHHHHh
Q psy2514 9 GSIKGTVVIVGNGAVGKSSMIQRYCR 34 (71)
Q Consensus 9 ~~~~~ki~v~G~~~vGKtsl~~~~~~ 34 (71)
++...-+.++|.+|+|||+|+..+..
T Consensus 3 ~~~g~vi~I~G~sGsGKSTl~~~l~~ 28 (207)
T TIGR00235 3 KPKGIIIGIGGGSGSGKTTVARKIYE 28 (207)
T ss_pred CCCeEEEEEECCCCCCHHHHHHHHHH
Confidence 44557788999999999999988764
No 319
>COG3839 MalK ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]
Probab=97.32 E-value=0.00022 Score=45.07 Aligned_cols=22 Identities=27% Similarity=0.474 Sum_probs=18.9
Q ss_pred EEEEeCCCCCHHHHHHHHHhCc
Q psy2514 15 VVIVGNGAVGKSSMIQRYCRGT 36 (71)
Q Consensus 15 i~v~G~~~vGKtsl~~~~~~~~ 36 (71)
++++|++|||||++++-++.=+
T Consensus 32 ~vllGPSGcGKSTlLr~IAGLe 53 (338)
T COG3839 32 VVLLGPSGCGKSTLLRMIAGLE 53 (338)
T ss_pred EEEECCCCCCHHHHHHHHhCCC
Confidence 7888999999999999887533
No 320
>KOG0077|consensus
Probab=97.30 E-value=0.00047 Score=39.98 Aligned_cols=36 Identities=14% Similarity=0.254 Sum_probs=28.1
Q ss_pred ceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcc
Q psy2514 10 SIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIG 46 (71)
Q Consensus 10 ~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~ 46 (71)
.+.-|++++|-.++|||+|++.+.++... ++.||.-
T Consensus 18 kK~gKllFlGLDNAGKTTLLHMLKdDrl~-qhvPTlH 53 (193)
T KOG0077|consen 18 KKFGKLLFLGLDNAGKTTLLHMLKDDRLG-QHVPTLH 53 (193)
T ss_pred ccCceEEEEeecCCchhhHHHHHcccccc-ccCCCcC
Confidence 34579999999999999999988776654 4566654
No 321
>PRK10078 ribose 1,5-bisphosphokinase; Provisional
Probab=97.30 E-value=0.00028 Score=40.69 Aligned_cols=22 Identities=18% Similarity=0.377 Sum_probs=19.3
Q ss_pred eEEEEeCCCCCHHHHHHHHHhC
Q psy2514 14 TVVIVGNGAVGKSSMIQRYCRG 35 (71)
Q Consensus 14 ki~v~G~~~vGKtsl~~~~~~~ 35 (71)
.++++|.+|+||||+++.+...
T Consensus 4 ~i~l~G~sGsGKsTl~~~l~~~ 25 (186)
T PRK10078 4 LIWLMGPSGSGKDSLLAALRQR 25 (186)
T ss_pred EEEEECCCCCCHHHHHHHHhcc
Confidence 5889999999999999988653
No 322
>TIGR02322 phosphon_PhnN phosphonate metabolism protein/1,5-bisphosphokinase (PRPP-forming) PhnN. Members of this family resemble PhnN of phosphonate utilization operons, where different such operons confer the ability to use somewhat different profiles of C-P bond-containing compounds (see PubMed:15231805), including phosphites as well as phosphonates. PhnN in E. coli shows considerable homology to guanylate kinases (EC 2.7.4.8), and has actually been shown to act as a ribose 1,5-bisphosphokinase (PRPP forming). This suggests an analogous kinase reaction for phosphonate metabolism, converting 5-phosphoalpha-1-(methylphosphono)ribose to methylphosphono-PRPP.
Probab=97.30 E-value=0.00031 Score=40.03 Aligned_cols=22 Identities=18% Similarity=0.371 Sum_probs=18.9
Q ss_pred eEEEEeCCCCCHHHHHHHHHhC
Q psy2514 14 TVVIVGNGAVGKSSMIQRYCRG 35 (71)
Q Consensus 14 ki~v~G~~~vGKtsl~~~~~~~ 35 (71)
.++++|.+|+|||+++..+...
T Consensus 3 ~~~i~G~sGsGKttl~~~l~~~ 24 (179)
T TIGR02322 3 LIYVVGPSGAGKDTLLDYARAR 24 (179)
T ss_pred EEEEECCCCCCHHHHHHHHHHH
Confidence 4789999999999999987653
No 323
>cd02019 NK Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates to nucleosides/nucleotides, nucleoside monophosphates, or sugars. Members of this family play a wide variety of essential roles in nucleotide metabolism, the biosynthesis of coenzymes and aromatic compounds, as well as the metabolism of sugar and sulfate.
Probab=97.30 E-value=0.0004 Score=34.17 Aligned_cols=21 Identities=24% Similarity=0.517 Sum_probs=18.2
Q ss_pred EEEEeCCCCCHHHHHHHHHhC
Q psy2514 15 VVIVGNGAVGKSSMIQRYCRG 35 (71)
Q Consensus 15 i~v~G~~~vGKtsl~~~~~~~ 35 (71)
+++.|.+|+|||++.+.+...
T Consensus 2 i~i~G~~gsGKst~~~~l~~~ 22 (69)
T cd02019 2 IAITGGSGSGKSTVAKKLAEQ 22 (69)
T ss_pred EEEECCCCCCHHHHHHHHHHH
Confidence 678899999999999988754
No 324
>cd00071 GMPK Guanosine monophosphate kinase (GMPK, EC 2.7.4.8), also known as guanylate kinase (GKase), catalyzes the reversible phosphoryl transfer from adenosine triphosphate (ATP) to guanosine monophosphate (GMP) to yield adenosine diphosphate (ADP) and guanosine diphosphate (GDP). It plays an essential role in the biosynthesis of guanosine triphosphate (GTP). This enzyme is also important for the activation of some antiviral and anticancer agents, such as acyclovir, ganciclovir, carbovir, and thiopurines.
Probab=97.29 E-value=0.00033 Score=38.78 Aligned_cols=21 Identities=33% Similarity=0.662 Sum_probs=18.4
Q ss_pred EEEEeCCCCCHHHHHHHHHhC
Q psy2514 15 VVIVGNGAVGKSSMIQRYCRG 35 (71)
Q Consensus 15 i~v~G~~~vGKtsl~~~~~~~ 35 (71)
++++|++|+|||+++..+...
T Consensus 2 i~i~GpsGsGKstl~~~L~~~ 22 (137)
T cd00071 2 IVLSGPSGVGKSTLLKRLLEE 22 (137)
T ss_pred EEEECCCCCCHHHHHHHHHhc
Confidence 578999999999999988753
No 325
>PRK05480 uridine/cytidine kinase; Provisional
Probab=97.29 E-value=0.00045 Score=40.38 Aligned_cols=25 Identities=16% Similarity=0.214 Sum_probs=21.3
Q ss_pred ceeeeEEEEeCCCCCHHHHHHHHHh
Q psy2514 10 SIKGTVVIVGNGAVGKSSMIQRYCR 34 (71)
Q Consensus 10 ~~~~ki~v~G~~~vGKtsl~~~~~~ 34 (71)
.....|.+.|.+|+|||+|+..+..
T Consensus 4 ~~~~iI~I~G~sGsGKTTl~~~l~~ 28 (209)
T PRK05480 4 KKPIIIGIAGGSGSGKTTVASTIYE 28 (209)
T ss_pred CCCEEEEEECCCCCCHHHHHHHHHH
Confidence 3467899999999999999988764
No 326
>PRK12740 elongation factor G; Reviewed
Probab=97.29 E-value=0.00059 Score=46.21 Aligned_cols=52 Identities=19% Similarity=0.256 Sum_probs=30.5
Q ss_pred EeCCCCCHHHHHHHHHhCc--CCC--C--------------ccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514 18 VGNGAVGKSSMIQRYCRGT--FTR--D--------------YKKTIGVKSSMIQRYCRGTFTRDYKKTIGA 70 (71)
Q Consensus 18 ~G~~~vGKtsl~~~~~~~~--f~~--~--------------~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~ 70 (71)
+|..++|||+|+.+++... ... + ....+.+.........+ .+.+++|||+|.
T Consensus 1 ig~~~~GKTTL~~~Ll~~~g~i~~~~~~~~~~~~~d~~~~e~~rgiTi~~~~~~~~~~-~~~i~liDtPG~ 70 (668)
T PRK12740 1 VGHSGAGKTTLTEAILFYTGAIHRIGEVEDGTTTMDFMPEERERGISITSAATTCEWK-GHKINLIDTPGH 70 (668)
T ss_pred CCCCCCcHHHHHHHHHHhcCCCccCccccCCcccCCCChHHHhcCCCeeeceEEEEEC-CEEEEEEECCCc
Confidence 5889999999999996321 100 0 11222222222333333 478999999985
No 327
>cd00009 AAA The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC, RecA-like, VirD4-like, PilT-like, and SF1/2 helicases. Members of the AAA+ ATPases function as molecular chaperons, ATPase subunits of proteases, helicases, or nucleic-acid stimulated ATPases. The AAA+ proteins contain several distinct features in addition to the conserved alpha-beta-alpha core domain structure and the Walker A and B motifs of the P-loop NTPases.
Probab=97.29 E-value=0.00035 Score=37.42 Aligned_cols=25 Identities=12% Similarity=0.300 Sum_probs=20.9
Q ss_pred eeeEEEEeCCCCCHHHHHHHHHhCc
Q psy2514 12 KGTVVIVGNGAVGKSSMIQRYCRGT 36 (71)
Q Consensus 12 ~~ki~v~G~~~vGKtsl~~~~~~~~ 36 (71)
..-+++.|++|+|||+++..+...-
T Consensus 19 ~~~v~i~G~~G~GKT~l~~~i~~~~ 43 (151)
T cd00009 19 PKNLLLYGPPGTGKTTLARAIANEL 43 (151)
T ss_pred CCeEEEECCCCCCHHHHHHHHHHHh
Confidence 3468899999999999999887644
No 328
>COG0012 Predicted GTPase, probable translation factor [Translation, ribosomal structure and biogenesis]
Probab=97.28 E-value=0.0013 Score=42.17 Aligned_cols=26 Identities=27% Similarity=0.319 Sum_probs=22.6
Q ss_pred eeeEEEEeCCCCCHHHHHHHHHhCcC
Q psy2514 12 KGTVVIVGNGAVGKSSMIQRYCRGTF 37 (71)
Q Consensus 12 ~~ki~v~G~~~vGKtsl~~~~~~~~f 37 (71)
.+++-++|.|+||||||.+.+....-
T Consensus 2 ~l~~GIVGlPNVGKSTlFnAlT~~~a 27 (372)
T COG0012 2 SLKIGIVGLPNVGKSTLFNALTKAGA 27 (372)
T ss_pred CceeEEecCCCCcHHHHHHHHHcCCc
Confidence 47899999999999999999886553
No 329
>PLN00043 elongation factor 1-alpha; Provisional
Probab=97.26 E-value=0.0022 Score=41.94 Aligned_cols=25 Identities=20% Similarity=0.331 Sum_probs=21.8
Q ss_pred ceeeeEEEEeCCCCCHHHHHHHHHh
Q psy2514 10 SIKGTVVIVGNGAVGKSSMIQRYCR 34 (71)
Q Consensus 10 ~~~~ki~v~G~~~vGKtsl~~~~~~ 34 (71)
...++++++|..+.|||+|+.+++.
T Consensus 5 k~~~ni~i~Ghvd~GKSTL~g~Ll~ 29 (447)
T PLN00043 5 KVHINIVVIGHVDSGKSTTTGHLIY 29 (447)
T ss_pred CceEEEEEEecCCCCHHHHHHHHHH
Confidence 4568899999999999999998873
No 330
>PF00005 ABC_tran: ABC transporter This structure is on hold until Dec 1999; InterPro: IPR003439 ABC transporters belong to the ATP-Binding Cassette (ABC) superfamily, which uses the hydrolysis of ATP to energise diverse biological systems. ABC transporters minimally consist of two conserved regions: a highly conserved ATP binding cassette (ABC) and a less conserved transmembrane domain (TMD). These can be found on the same protein or on two different ones. Most ABC transporters function as a dimer and therefore are constituted of four domains, two ABC modules and two TMDs. ABC transporters are involved in the export or import of a wide variety of substrates ranging from small ions to macromolecules. The major function of ABC import systems is to provide essential nutrients to bacteria. They are found only in prokaryotes and their four constitutive domains are usually encoded by independent polypeptides (two ABC proteins and two TMD proteins). Prokaryotic importers require additional extracytoplasmic binding proteins (one or more per systems) for function. In contrast, export systems are involved in the extrusion of noxious substances, the export of extracellular toxins and the targeting of membrane components. They are found in all living organisms and in general the TMD is fused to the ABC module in a variety of combinations. Some eukaryotic exporters encode the four domains on the same polypeptide chain []. The ABC module (approximately two hundred amino acid residues) is known to bind and hydrolyse ATP, thereby coupling transport to ATP hydrolysis in a large number of biological processes. The cassette is duplicated in several subfamilies. Its primary sequence is highly conserved, displaying a typical phosphate-binding loop: Walker A, and a magnesium binding site: Walker B. Besides these two regions, three other conserved motifs are present in the ABC cassette: the switch region which contains a histidine loop, postulated to polarise the attaching water molecule for hydrolysis, the signature conserved motif (LSGGQ) specific to the ABC transporter, and the Q-motif (between Walker A and the signature), which interacts with the gamma phosphate through a water bond. The Walker A, Walker B, Q-loop and switch region form the nucleotide binding site [, , ]. The 3D structure of a monomeric ABC module adopts a stubby L-shape with two distinct arms. ArmI (mainly beta-strand) contains Walker A and Walker B. The important residues for ATP hydrolysis and/or binding are located in the P-loop. The ATP-binding pocket is located at the extremity of armI. The perpendicular armII contains mostly the alpha helical subdomain with the signature motif. It only seems to be required for structural integrity of the ABC module. ArmII is in direct contact with the TMD. The hinge between armI and armII contains both the histidine loop and the Q-loop, making contact with the gamma phosphate of the ATP molecule. ATP hydrolysis leads to a conformational change that could facilitate ADP release. In the dimer the two ABC cassettes contact each other through hydrophobic interactions at the antiparallel beta-sheet of armI by a two-fold axis [, , , , , ]. The ATP-Binding Cassette (ABC) superfamily forms one of the largest of all protein families with a diversity of physiological functions []. Several studies have shown that there is a correlation between the functional characterisation and the phylogenetic classification of the ABC cassette [, ]. More than 50 subfamilies have been described based on a phylogenetic and functional classification [, , ]; (for further information see http://www.tcdb.org/tcdb/index.php?tc=3.A.1). On the basis of sequence similarities a family of related ATP-binding proteins has been characterised [, , , , ]. The proteins belonging to this family also contain one or two copies of the 'A' consensus sequence [] or the 'P-loop' [] (see IPR001687 from INTERPRO).; GO: 0005524 ATP binding, 0016887 ATPase activity; PDB: 3NHB_A 3NH9_A 3NHA_A 3NH6_A 1VCI_A 1V43_A 2YZ2_B 2PMK_A 2FFA_A 1XEF_D ....
Probab=97.26 E-value=0.00043 Score=37.68 Aligned_cols=23 Identities=30% Similarity=0.486 Sum_probs=19.3
Q ss_pred eeeEEEEeCCCCCHHHHHHHHHh
Q psy2514 12 KGTVVIVGNGAVGKSSMIQRYCR 34 (71)
Q Consensus 12 ~~ki~v~G~~~vGKtsl~~~~~~ 34 (71)
.-.++++|.+|+|||+|+..+..
T Consensus 11 g~~~~i~G~nGsGKStLl~~l~g 33 (137)
T PF00005_consen 11 GEIVAIVGPNGSGKSTLLKALAG 33 (137)
T ss_dssp TSEEEEEESTTSSHHHHHHHHTT
T ss_pred CCEEEEEccCCCccccceeeecc
Confidence 34688999999999999987654
No 331
>PF13238 AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB_A 3IIM_A 2AXP_A 3KB2_A 1KHT_A 1NKS_A 3H86_C ....
Probab=97.25 E-value=0.00048 Score=36.76 Aligned_cols=21 Identities=19% Similarity=0.332 Sum_probs=18.0
Q ss_pred EEEEeCCCCCHHHHHHHHHhC
Q psy2514 15 VVIVGNGAVGKSSMIQRYCRG 35 (71)
Q Consensus 15 i~v~G~~~vGKtsl~~~~~~~ 35 (71)
|++.|.+|+|||+++..+...
T Consensus 1 I~i~G~~GsGKtTia~~L~~~ 21 (129)
T PF13238_consen 1 IGISGIPGSGKTTIAKELAER 21 (129)
T ss_dssp EEEEESTTSSHHHHHHHHHHH
T ss_pred CEEECCCCCCHHHHHHHHHHH
Confidence 678999999999999877644
No 332
>PRK03839 putative kinase; Provisional
Probab=97.23 E-value=0.00044 Score=39.55 Aligned_cols=22 Identities=23% Similarity=0.421 Sum_probs=19.3
Q ss_pred eEEEEeCCCCCHHHHHHHHHhC
Q psy2514 14 TVVIVGNGAVGKSSMIQRYCRG 35 (71)
Q Consensus 14 ki~v~G~~~vGKtsl~~~~~~~ 35 (71)
+|+++|.+|+|||++..++...
T Consensus 2 ~I~l~G~pGsGKsT~~~~La~~ 23 (180)
T PRK03839 2 IIAITGTPGVGKTTVSKLLAEK 23 (180)
T ss_pred EEEEECCCCCCHHHHHHHHHHH
Confidence 5899999999999999988753
No 333
>TIGR00150 HI0065_YjeE ATPase, YjeE family. Members of this family have a conserved nucleotide-binding motif GXXGXGKT and a nucleotide-binding fold. Member protein YjeE of Haemophilus influenzae (HI0065) was shown to have ATPase activity.
Probab=97.22 E-value=0.0018 Score=36.03 Aligned_cols=23 Identities=26% Similarity=0.540 Sum_probs=20.0
Q ss_pred eeEEEEeCCCCCHHHHHHHHHhC
Q psy2514 13 GTVVIVGNGAVGKSSMIQRYCRG 35 (71)
Q Consensus 13 ~ki~v~G~~~vGKtsl~~~~~~~ 35 (71)
--+++.|+.|+|||+|++.++..
T Consensus 23 ~~i~l~G~lGaGKTtl~~~l~~~ 45 (133)
T TIGR00150 23 TVVLLKGDLGAGKTTLVQGLLQG 45 (133)
T ss_pred CEEEEEcCCCCCHHHHHHHHHHH
Confidence 35889999999999999988864
No 334
>PRK14737 gmk guanylate kinase; Provisional
Probab=97.21 E-value=0.00044 Score=40.22 Aligned_cols=23 Identities=26% Similarity=0.290 Sum_probs=20.0
Q ss_pred eeEEEEeCCCCCHHHHHHHHHhC
Q psy2514 13 GTVVIVGNGAVGKSSMIQRYCRG 35 (71)
Q Consensus 13 ~ki~v~G~~~vGKtsl~~~~~~~ 35 (71)
.=++++|++|+||++|+.+++..
T Consensus 5 ~~ivl~GpsG~GK~tl~~~l~~~ 27 (186)
T PRK14737 5 KLFIISSVAGGGKSTIIQALLEE 27 (186)
T ss_pred eEEEEECCCCCCHHHHHHHHHhc
Confidence 34889999999999999999864
No 335
>COG1126 GlnQ ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]
Probab=97.21 E-value=0.00055 Score=41.23 Aligned_cols=25 Identities=28% Similarity=0.384 Sum_probs=20.4
Q ss_pred eeeEEEEeCCCCCHHHHHHHHHhCc
Q psy2514 12 KGTVVIVGNGAVGKSSMIQRYCRGT 36 (71)
Q Consensus 12 ~~ki~v~G~~~vGKtsl~~~~~~~~ 36 (71)
.=.++++|++|+|||+|++.+..-+
T Consensus 28 Gevv~iiGpSGSGKSTlLRclN~LE 52 (240)
T COG1126 28 GEVVVIIGPSGSGKSTLLRCLNGLE 52 (240)
T ss_pred CCEEEEECCCCCCHHHHHHHHHCCc
Confidence 3468899999999999999886544
No 336
>PLN00116 translation elongation factor EF-2 subunit; Provisional
Probab=97.20 E-value=0.00094 Score=46.55 Aligned_cols=27 Identities=11% Similarity=0.183 Sum_probs=23.3
Q ss_pred cCceeeeEEEEeCCCCCHHHHHHHHHh
Q psy2514 8 RGSIKGTVVIVGNGAVGKSSMIQRYCR 34 (71)
Q Consensus 8 ~~~~~~ki~v~G~~~vGKtsl~~~~~~ 34 (71)
+.....+|+++|..++|||||+.+++.
T Consensus 15 ~~~~Irni~iiGhvd~GKTTL~~~Ll~ 41 (843)
T PLN00116 15 KKHNIRNMSVIAHVDHGKSTLTDSLVA 41 (843)
T ss_pred CccCccEEEEEcCCCCCHHHHHHHHHH
Confidence 345567999999999999999999884
No 337
>TIGR03263 guanyl_kin guanylate kinase. Members of this family are the enzyme guanylate kinase, also called GMP kinase. This enzyme transfers a phosphate from ATP to GMP, yielding ADP and GDP.
Probab=97.20 E-value=0.00042 Score=39.44 Aligned_cols=22 Identities=32% Similarity=0.555 Sum_probs=19.3
Q ss_pred eEEEEeCCCCCHHHHHHHHHhC
Q psy2514 14 TVVIVGNGAVGKSSMIQRYCRG 35 (71)
Q Consensus 14 ki~v~G~~~vGKtsl~~~~~~~ 35 (71)
.++++|.+|+|||+++..+...
T Consensus 3 ii~l~G~~GsGKsTl~~~L~~~ 24 (180)
T TIGR03263 3 LIVISGPSGVGKSTLVKALLEE 24 (180)
T ss_pred EEEEECCCCCCHHHHHHHHHcc
Confidence 4789999999999999988763
No 338
>PRK10751 molybdopterin-guanine dinucleotide biosynthesis protein B; Provisional
Probab=97.20 E-value=0.00059 Score=39.50 Aligned_cols=22 Identities=14% Similarity=0.327 Sum_probs=19.1
Q ss_pred eeEEEEeCCCCCHHHHHHHHHh
Q psy2514 13 GTVVIVGNGAVGKSSMIQRYCR 34 (71)
Q Consensus 13 ~ki~v~G~~~vGKtsl~~~~~~ 34 (71)
.-+.++|.+|+|||+|+.++..
T Consensus 7 ~ii~ivG~sgsGKTTLi~~li~ 28 (173)
T PRK10751 7 PLLAIAAWSGTGKTTLLKKLIP 28 (173)
T ss_pred eEEEEECCCCChHHHHHHHHHH
Confidence 4678899999999999998874
No 339
>PF13173 AAA_14: AAA domain
Probab=97.20 E-value=0.00043 Score=37.69 Aligned_cols=24 Identities=17% Similarity=0.589 Sum_probs=20.4
Q ss_pred eEEEEeCCCCCHHHHHHHHHhCcC
Q psy2514 14 TVVIVGNGAVGKSSMIQRYCRGTF 37 (71)
Q Consensus 14 ki~v~G~~~vGKtsl~~~~~~~~f 37 (71)
-+++.|..+||||+++.+++....
T Consensus 4 ~~~l~G~R~vGKTtll~~~~~~~~ 27 (128)
T PF13173_consen 4 IIILTGPRGVGKTTLLKQLAKDLL 27 (128)
T ss_pred eEEEECCCCCCHHHHHHHHHHHhc
Confidence 467889999999999999986544
No 340
>PRK14530 adenylate kinase; Provisional
Probab=97.19 E-value=0.0005 Score=40.49 Aligned_cols=21 Identities=14% Similarity=0.396 Sum_probs=19.0
Q ss_pred eEEEEeCCCCCHHHHHHHHHh
Q psy2514 14 TVVIVGNGAVGKSSMIQRYCR 34 (71)
Q Consensus 14 ki~v~G~~~vGKtsl~~~~~~ 34 (71)
+|+++|.+|+|||++..+++.
T Consensus 5 ~I~i~G~pGsGKsT~~~~La~ 25 (215)
T PRK14530 5 RILLLGAPGAGKGTQSSNLAE 25 (215)
T ss_pred EEEEECCCCCCHHHHHHHHHH
Confidence 799999999999999998863
No 341
>PRK14532 adenylate kinase; Provisional
Probab=97.18 E-value=0.00051 Score=39.46 Aligned_cols=21 Identities=24% Similarity=0.499 Sum_probs=19.1
Q ss_pred eEEEEeCCCCCHHHHHHHHHh
Q psy2514 14 TVVIVGNGAVGKSSMIQRYCR 34 (71)
Q Consensus 14 ki~v~G~~~vGKtsl~~~~~~ 34 (71)
+++++|.+|+|||++..++..
T Consensus 2 ~i~~~G~pGsGKsT~a~~la~ 22 (188)
T PRK14532 2 NLILFGPPAAGKGTQAKRLVE 22 (188)
T ss_pred EEEEECCCCCCHHHHHHHHHH
Confidence 689999999999999998874
No 342
>COG3842 PotA ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]
Probab=97.18 E-value=0.00055 Score=43.58 Aligned_cols=22 Identities=18% Similarity=0.400 Sum_probs=18.7
Q ss_pred EEEEeCCCCCHHHHHHHHHhCc
Q psy2514 15 VVIVGNGAVGKSSMIQRYCRGT 36 (71)
Q Consensus 15 i~v~G~~~vGKtsl~~~~~~~~ 36 (71)
++++|++||||||+++.++.=+
T Consensus 34 ~~lLGPSGcGKTTlLR~IAGfe 55 (352)
T COG3842 34 VTLLGPSGCGKTTLLRMIAGFE 55 (352)
T ss_pred EEEECCCCCCHHHHHHHHhCCC
Confidence 6789999999999999887533
No 343
>KOG1424|consensus
Probab=97.16 E-value=0.001 Score=44.20 Aligned_cols=55 Identities=24% Similarity=0.132 Sum_probs=37.9
Q ss_pred eeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCC
Q psy2514 12 KGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIG 69 (71)
Q Consensus 12 ~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G 69 (71)
.+.|-+||-++|||||.|+.+...+-.. ...|-|-.-..+++.... .+.++|+.|
T Consensus 314 ~vtVG~VGYPNVGKSSTINaLvG~KkVs-VS~TPGkTKHFQTi~ls~--~v~LCDCPG 368 (562)
T KOG1424|consen 314 VVTVGFVGYPNVGKSSTINALVGRKKVS-VSSTPGKTKHFQTIFLSP--SVCLCDCPG 368 (562)
T ss_pred eeEEEeecCCCCchhHHHHHHhcCceee-eecCCCCcceeEEEEcCC--CceecCCCC
Confidence 5788999999999999999999766543 445656432223443333 356788877
No 344
>PF01637 Arch_ATPase: Archaeal ATPase; InterPro: IPR011579 This domain has been found in a number of bacterial and archaeal proteins, all of which contain a conserved P-loop motif that is involved in binding ATP.; GO: 0005524 ATP binding; PDB: 2FNA_A 2QEN_A.
Probab=97.16 E-value=0.0006 Score=39.61 Aligned_cols=25 Identities=16% Similarity=0.438 Sum_probs=20.9
Q ss_pred eeeEEEEeCCCCCHHHHHHHHHhCc
Q psy2514 12 KGTVVIVGNGAVGKSSMIQRYCRGT 36 (71)
Q Consensus 12 ~~ki~v~G~~~vGKtsl~~~~~~~~ 36 (71)
..-+++.|+.|+|||+|+..+....
T Consensus 20 ~~~~~l~G~rg~GKTsLl~~~~~~~ 44 (234)
T PF01637_consen 20 SQHILLYGPRGSGKTSLLKEFINEL 44 (234)
T ss_dssp SSEEEEEESTTSSHHHHHHHHHHHC
T ss_pred CcEEEEEcCCcCCHHHHHHHHHHHh
Confidence 3567788999999999999988644
No 345
>PF03205 MobB: Molybdopterin guanine dinucleotide synthesis protein B; PDB: 2F1R_B 1P9N_A 1NP6_B 2NPI_A 1XJC_A.
Probab=97.15 E-value=0.00067 Score=37.86 Aligned_cols=21 Identities=29% Similarity=0.552 Sum_probs=18.5
Q ss_pred eEEEEeCCCCCHHHHHHHHHh
Q psy2514 14 TVVIVGNGAVGKSSMIQRYCR 34 (71)
Q Consensus 14 ki~v~G~~~vGKtsl~~~~~~ 34 (71)
.+.++|..++|||+|+..++.
T Consensus 2 vv~VvG~~~sGKTTl~~~Li~ 22 (140)
T PF03205_consen 2 VVQVVGPKNSGKTTLIRKLIN 22 (140)
T ss_dssp EEEEEESTTSSHHHHHHHHHH
T ss_pred EEEEECCCCCCHHHHHHHHHH
Confidence 478999999999999998764
No 346
>PRK00300 gmk guanylate kinase; Provisional
Probab=97.15 E-value=0.00053 Score=39.80 Aligned_cols=24 Identities=21% Similarity=0.368 Sum_probs=20.1
Q ss_pred eeeEEEEeCCCCCHHHHHHHHHhC
Q psy2514 12 KGTVVIVGNGAVGKSSMIQRYCRG 35 (71)
Q Consensus 12 ~~ki~v~G~~~vGKtsl~~~~~~~ 35 (71)
.--++++|.+|+|||+|+..+...
T Consensus 5 g~~i~i~G~sGsGKstl~~~l~~~ 28 (205)
T PRK00300 5 GLLIVLSGPSGAGKSTLVKALLER 28 (205)
T ss_pred CCEEEEECCCCCCHHHHHHHHHhh
Confidence 345899999999999999988753
No 347
>TIGR00101 ureG urease accessory protein UreG. This model represents UreG, a GTP hydrolase that acts in the assembly of the nickel metallocenter of urease. It is found only in urease-positive species, although some urease-positive species (e.g. Bacillus subtilis) lack this protein. A similar protein, hypB, is an accessory protein for expression of hydrogenase, which also uses nickel.
Probab=97.15 E-value=0.00065 Score=39.88 Aligned_cols=23 Identities=22% Similarity=0.372 Sum_probs=20.5
Q ss_pred eeEEEEeCCCCCHHHHHHHHHhC
Q psy2514 13 GTVVIVGNGAVGKSSMIQRYCRG 35 (71)
Q Consensus 13 ~ki~v~G~~~vGKtsl~~~~~~~ 35 (71)
+++.++|..|+|||+++.++...
T Consensus 2 ~~i~i~G~~GsGKTTll~~l~~~ 24 (199)
T TIGR00101 2 LKIGVAGPVGSGKTALIEALTRA 24 (199)
T ss_pred eEEEEECCCCCCHHHHHHHHHHh
Confidence 68999999999999999988753
No 348
>PRK13695 putative NTPase; Provisional
Probab=97.14 E-value=0.00063 Score=38.77 Aligned_cols=22 Identities=23% Similarity=0.431 Sum_probs=19.2
Q ss_pred eeEEEEeCCCCCHHHHHHHHHh
Q psy2514 13 GTVVIVGNGAVGKSSMIQRYCR 34 (71)
Q Consensus 13 ~ki~v~G~~~vGKtsl~~~~~~ 34 (71)
+|+++.|++|+|||+|+..+..
T Consensus 1 ~~i~ltG~~G~GKTTll~~i~~ 22 (174)
T PRK13695 1 MKIGITGPPGVGKTTLVLKIAE 22 (174)
T ss_pred CEEEEECCCCCCHHHHHHHHHH
Confidence 4799999999999999998653
No 349
>PRK14531 adenylate kinase; Provisional
Probab=97.13 E-value=0.00065 Score=39.11 Aligned_cols=23 Identities=26% Similarity=0.557 Sum_probs=20.0
Q ss_pred eeeEEEEeCCCCCHHHHHHHHHh
Q psy2514 12 KGTVVIVGNGAVGKSSMIQRYCR 34 (71)
Q Consensus 12 ~~ki~v~G~~~vGKtsl~~~~~~ 34 (71)
+.+++++|.+|+|||++..++..
T Consensus 2 ~~~i~i~G~pGsGKsT~~~~la~ 24 (183)
T PRK14531 2 KQRLLFLGPPGAGKGTQAARLCA 24 (183)
T ss_pred CcEEEEECCCCCCHHHHHHHHHH
Confidence 35799999999999999988764
No 350
>COG1117 PstB ABC-type phosphate transport system, ATPase component [Inorganic ion transport and metabolism]
Probab=97.12 E-value=0.00043 Score=41.75 Aligned_cols=21 Identities=24% Similarity=0.539 Sum_probs=17.6
Q ss_pred eEEEEeCCCCCHHHHHHHHHh
Q psy2514 14 TVVIVGNGAVGKSSMIQRYCR 34 (71)
Q Consensus 14 ki~v~G~~~vGKtsl~~~~~~ 34 (71)
--.++|++|||||+|++.+-.
T Consensus 35 VTAlIGPSGcGKST~LR~lNR 55 (253)
T COG1117 35 VTALIGPSGCGKSTLLRCLNR 55 (253)
T ss_pred eEEEECCCCcCHHHHHHHHHh
Confidence 346789999999999998763
No 351
>KOG3905|consensus
Probab=97.12 E-value=0.001 Score=42.52 Aligned_cols=56 Identities=18% Similarity=0.189 Sum_probs=39.3
Q ss_pred eeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeC---CEEEEEEEcCCC
Q psy2514 11 IKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCR---GTFTRDYKKTIG 69 (71)
Q Consensus 11 ~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~---~~~~l~i~Dt~G 69 (71)
..-.++++|+.++|||+|+.++-..+ .+.+..|.+|..-.+.++ +..++.+|--.|
T Consensus 51 sgk~VlvlGdn~sGKtsLi~klqg~e---~~KkgsgLeY~yl~V~de~RDd~tr~~VWiLDG 109 (473)
T KOG3905|consen 51 SGKNVLVLGDNGSGKTSLISKLQGSE---TVKKGSGLEYLYLHVHDEDRDDLTRCNVWILDG 109 (473)
T ss_pred CCCeEEEEccCCCchhHHHHHhhccc---ccCCCCCcceEEEecccccchhhhhcceEEecC
Confidence 45689999999999999999986544 466777777765444432 245667775444
No 352
>TIGR01360 aden_kin_iso1 adenylate kinase, isozyme 1 subfamily. Members of this family are adenylate kinase, EC 2.7.4.3. This clade is found only in eukaryotes and includes human adenylate kinase isozyme 1 (myokinase). Within the adenylate kinase superfamily, this set appears specifically closely related to a subfamily of eukaryotic UMP-CMP kinases (TIGR01359), rather than to the large clade of bacterial, archaeal, and eukaryotic adenylate kinase family members in TIGR01351.
Probab=97.12 E-value=0.00057 Score=38.94 Aligned_cols=21 Identities=24% Similarity=0.431 Sum_probs=18.7
Q ss_pred eeEEEEeCCCCCHHHHHHHHH
Q psy2514 13 GTVVIVGNGAVGKSSMIQRYC 33 (71)
Q Consensus 13 ~ki~v~G~~~vGKtsl~~~~~ 33 (71)
-.++++|.+|+|||+++.++.
T Consensus 4 ~ii~i~G~~GsGKsTl~~~l~ 24 (188)
T TIGR01360 4 KIIFIVGGPGSGKGTQCEKIV 24 (188)
T ss_pred cEEEEECCCCCCHHHHHHHHH
Confidence 367889999999999999887
No 353
>COG1124 DppF ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]
Probab=97.11 E-value=0.001 Score=40.54 Aligned_cols=23 Identities=30% Similarity=0.410 Sum_probs=19.3
Q ss_pred eeeEEEEeCCCCCHHHHHHHHHh
Q psy2514 12 KGTVVIVGNGAVGKSSMIQRYCR 34 (71)
Q Consensus 12 ~~ki~v~G~~~vGKtsl~~~~~~ 34 (71)
.=.+.++|++|+|||||.+.++.
T Consensus 33 Ge~lgivGeSGsGKSTL~r~l~G 55 (252)
T COG1124 33 GETLGIVGESGSGKSTLARLLAG 55 (252)
T ss_pred CCEEEEEcCCCCCHHHHHHHHhc
Confidence 34577899999999999998875
No 354
>PF04665 Pox_A32: Poxvirus A32 protein; InterPro: IPR006758 This entry contains uncharacterised proteins belonging to the B354L family which include the pox virus A32 protein. This is thought to be an ATPase involved in viral DNA packaging [].
Probab=97.11 E-value=0.00063 Score=41.28 Aligned_cols=24 Identities=25% Similarity=0.379 Sum_probs=21.0
Q ss_pred eeeeEEEEeCCCCCHHHHHHHHHh
Q psy2514 11 IKGTVVIVGNGAVGKSSMIQRYCR 34 (71)
Q Consensus 11 ~~~ki~v~G~~~vGKtsl~~~~~~ 34 (71)
..++++++|.+|+|||+++..++.
T Consensus 12 ~~fr~viIG~sGSGKT~li~~lL~ 35 (241)
T PF04665_consen 12 DPFRMVIIGKSGSGKTTLIKSLLY 35 (241)
T ss_pred CCceEEEECCCCCCHHHHHHHHHH
Confidence 458999999999999999887764
No 355
>PRK02496 adk adenylate kinase; Provisional
Probab=97.10 E-value=0.00078 Score=38.62 Aligned_cols=22 Identities=14% Similarity=0.280 Sum_probs=19.5
Q ss_pred eeEEEEeCCCCCHHHHHHHHHh
Q psy2514 13 GTVVIVGNGAVGKSSMIQRYCR 34 (71)
Q Consensus 13 ~ki~v~G~~~vGKtsl~~~~~~ 34 (71)
.+++++|.+|+|||+++..+..
T Consensus 2 ~~i~i~G~pGsGKst~a~~la~ 23 (184)
T PRK02496 2 TRLIFLGPPGAGKGTQAVVLAE 23 (184)
T ss_pred eEEEEECCCCCCHHHHHHHHHH
Confidence 5799999999999999988764
No 356
>cd00820 PEPCK_HprK Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and phosphorylation of oxaloacetate to yield phosphoenolpyruvate and carbon dioxide, using a nucleotide molecule (ATP or GTP) for the phosphoryl transfer, and has a strict requirement for divalent metal ions for activity. PEPCK's separate into two phylogenetic groups based on their nucleotide substrate specificity (the ATP-, and GTP-dependent groups).HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent phosphorylation of HPr and its dephosphorylation by phosphorolysis. PEPCK and the C-terminal catalytic domain of HprK/P are structural
Probab=97.10 E-value=0.00065 Score=36.52 Aligned_cols=21 Identities=24% Similarity=0.458 Sum_probs=18.5
Q ss_pred eeEEEEeCCCCCHHHHHHHHH
Q psy2514 13 GTVVIVGNGAVGKSSMIQRYC 33 (71)
Q Consensus 13 ~ki~v~G~~~vGKtsl~~~~~ 33 (71)
-.++++|++|+|||+|+..+.
T Consensus 16 e~v~I~GpSGsGKSTLl~~l~ 36 (107)
T cd00820 16 VGVLITGDSGIGKTELALELI 36 (107)
T ss_pred EEEEEEcCCCCCHHHHHHHhh
Confidence 457899999999999999876
No 357
>KOG0090|consensus
Probab=97.08 E-value=0.00041 Score=41.61 Aligned_cols=56 Identities=18% Similarity=0.213 Sum_probs=35.9
Q ss_pred ceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCC
Q psy2514 10 SIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIG 69 (71)
Q Consensus 10 ~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G 69 (71)
...-.++++|.+++|||+|..++..+.+...+ +++..+-. +...+. ..+++.|-.|
T Consensus 36 s~~~~Vll~Gl~dSGKT~LF~qL~~gs~~~Tv-tSiepn~a--~~r~gs-~~~~LVD~PG 91 (238)
T KOG0090|consen 36 SKQNAVLLVGLSDSGKTSLFTQLITGSHRGTV-TSIEPNEA--TYRLGS-ENVTLVDLPG 91 (238)
T ss_pred ccCCcEEEEecCCCCceeeeeehhcCCccCee-eeecccee--eEeecC-cceEEEeCCC
Confidence 34467999999999999999999998765433 33332211 111222 2367777766
No 358
>PRK13949 shikimate kinase; Provisional
Probab=97.07 E-value=0.00081 Score=38.49 Aligned_cols=21 Identities=24% Similarity=0.456 Sum_probs=18.7
Q ss_pred eEEEEeCCCCCHHHHHHHHHh
Q psy2514 14 TVVIVGNGAVGKSSMIQRYCR 34 (71)
Q Consensus 14 ki~v~G~~~vGKtsl~~~~~~ 34 (71)
+|+++|.+|+|||++...++.
T Consensus 3 ~I~liG~~GsGKstl~~~La~ 23 (169)
T PRK13949 3 RIFLVGYMGAGKTTLGKALAR 23 (169)
T ss_pred EEEEECCCCCCHHHHHHHHHH
Confidence 799999999999999987663
No 359
>cd01428 ADK Adenylate kinase (ADK) catalyzes the reversible phosphoryl transfer from adenosine triphosphates (ATP) to adenosine monophosphates (AMP) and to yield adenosine diphosphates (ADP). This enzyme is required for the biosynthesis of ADP and is essential for homeostasis of adenosine phosphates.
Probab=97.07 E-value=0.00068 Score=38.87 Aligned_cols=22 Identities=18% Similarity=0.475 Sum_probs=19.2
Q ss_pred eEEEEeCCCCCHHHHHHHHHhC
Q psy2514 14 TVVIVGNGAVGKSSMIQRYCRG 35 (71)
Q Consensus 14 ki~v~G~~~vGKtsl~~~~~~~ 35 (71)
+|+++|.+|+|||++..++...
T Consensus 1 ~I~i~G~pGsGKst~a~~La~~ 22 (194)
T cd01428 1 RILLLGPPGSGKGTQAERLAKK 22 (194)
T ss_pred CEEEECCCCCCHHHHHHHHHHH
Confidence 5899999999999999988753
No 360
>cd02023 UMPK Uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK), catalyzes the reversible phosphoryl transfer from ATP to uridine or cytidine to yield UMP or CMP. In the primidine nucleotide-salvage pathway, this enzyme combined with nucleoside diphosphate kinases further phosphorylates UMP and CMP to form UTP and CTP. This kinase also catalyzes the phosphorylation of several cytotoxic ribonucleoside analogs such as 5-flurrouridine and cyclopentenyl-cytidine.
Probab=97.07 E-value=0.00073 Score=39.16 Aligned_cols=20 Identities=20% Similarity=0.420 Sum_probs=17.5
Q ss_pred EEEEeCCCCCHHHHHHHHHh
Q psy2514 15 VVIVGNGAVGKSSMIQRYCR 34 (71)
Q Consensus 15 i~v~G~~~vGKtsl~~~~~~ 34 (71)
+.+.|.+|+|||++++.+..
T Consensus 2 igi~G~~GsGKSTl~~~l~~ 21 (198)
T cd02023 2 IGIAGGSGSGKTTVAEEIIE 21 (198)
T ss_pred EEEECCCCCCHHHHHHHHHH
Confidence 57899999999999988764
No 361
>COG4525 TauB ABC-type taurine transport system, ATPase component [Inorganic ion transport and metabolism]
Probab=97.05 E-value=0.00066 Score=40.69 Aligned_cols=22 Identities=23% Similarity=0.484 Sum_probs=18.4
Q ss_pred eeEEEEeCCCCCHHHHHHHHHh
Q psy2514 13 GTVVIVGNGAVGKSSMIQRYCR 34 (71)
Q Consensus 13 ~ki~v~G~~~vGKtsl~~~~~~ 34 (71)
=-++++|++|||||+|++-...
T Consensus 32 e~vv~lGpSGcGKTTLLnl~AG 53 (259)
T COG4525 32 ELVVVLGPSGCGKTTLLNLIAG 53 (259)
T ss_pred CEEEEEcCCCccHHHHHHHHhc
Confidence 3578999999999999987653
No 362
>COG0194 Gmk Guanylate kinase [Nucleotide transport and metabolism]
Probab=97.05 E-value=0.00077 Score=39.55 Aligned_cols=24 Identities=25% Similarity=0.444 Sum_probs=20.4
Q ss_pred eeEEEEeCCCCCHHHHHHHHHhCc
Q psy2514 13 GTVVIVGNGAVGKSSMIQRYCRGT 36 (71)
Q Consensus 13 ~ki~v~G~~~vGKtsl~~~~~~~~ 36 (71)
.-+++.|++|+||||++..+....
T Consensus 5 ~l~vlsgPSG~GKsTl~k~L~~~~ 28 (191)
T COG0194 5 LLIVLSGPSGVGKSTLVKALLEDD 28 (191)
T ss_pred eEEEEECCCCCCHHHHHHHHHhhc
Confidence 457888999999999999988654
No 363
>COG1136 SalX ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]
Probab=97.05 E-value=0.00068 Score=40.80 Aligned_cols=21 Identities=33% Similarity=0.460 Sum_probs=18.2
Q ss_pred eEEEEeCCCCCHHHHHHHHHh
Q psy2514 14 TVVIVGNGAVGKSSMIQRYCR 34 (71)
Q Consensus 14 ki~v~G~~~vGKtsl~~~~~~ 34 (71)
-++++|++|+|||+|++-+..
T Consensus 33 ~vaI~GpSGSGKSTLLniig~ 53 (226)
T COG1136 33 FVAIVGPSGSGKSTLLNLLGG 53 (226)
T ss_pred EEEEECCCCCCHHHHHHHHhc
Confidence 578899999999999997753
No 364
>PRK08233 hypothetical protein; Provisional
Probab=97.04 E-value=0.0008 Score=38.14 Aligned_cols=22 Identities=18% Similarity=0.348 Sum_probs=19.1
Q ss_pred eeEEEEeCCCCCHHHHHHHHHh
Q psy2514 13 GTVVIVGNGAVGKSSMIQRYCR 34 (71)
Q Consensus 13 ~ki~v~G~~~vGKtsl~~~~~~ 34 (71)
.-|++.|.+|+|||+++.++..
T Consensus 4 ~iI~I~G~~GsGKtTla~~L~~ 25 (182)
T PRK08233 4 KIITIAAVSGGGKTTLTERLTH 25 (182)
T ss_pred eEEEEECCCCCCHHHHHHHHHh
Confidence 5677889999999999998874
No 365
>PHA00729 NTP-binding motif containing protein
Probab=97.03 E-value=0.00098 Score=40.11 Aligned_cols=23 Identities=26% Similarity=0.419 Sum_probs=20.5
Q ss_pred eeEEEEeCCCCCHHHHHHHHHhC
Q psy2514 13 GTVVIVGNGAVGKSSMIQRYCRG 35 (71)
Q Consensus 13 ~ki~v~G~~~vGKtsl~~~~~~~ 35 (71)
.++++.|.+|+|||+++..+...
T Consensus 18 ~nIlItG~pGvGKT~LA~aLa~~ 40 (226)
T PHA00729 18 VSAVIFGKQGSGKTTYALKVARD 40 (226)
T ss_pred EEEEEECCCCCCHHHHHHHHHHH
Confidence 58999999999999999988753
No 366
>KOG3347|consensus
Probab=97.03 E-value=0.00061 Score=39.04 Aligned_cols=25 Identities=20% Similarity=0.474 Sum_probs=22.2
Q ss_pred ceeeeEEEEeCCCCCHHHHHHHHHh
Q psy2514 10 SIKGTVVIVGNGAVGKSSMIQRYCR 34 (71)
Q Consensus 10 ~~~~ki~v~G~~~vGKtsl~~~~~~ 34 (71)
+...+|++.|-||+|||++..+++.
T Consensus 5 r~~PNILvtGTPG~GKstl~~~lae 29 (176)
T KOG3347|consen 5 RERPNILVTGTPGTGKSTLAERLAE 29 (176)
T ss_pred hcCCCEEEeCCCCCCchhHHHHHHH
Confidence 5678999999999999999998873
No 367
>PTZ00088 adenylate kinase 1; Provisional
Probab=97.03 E-value=0.001 Score=39.94 Aligned_cols=22 Identities=23% Similarity=0.430 Sum_probs=19.9
Q ss_pred eeEEEEeCCCCCHHHHHHHHHh
Q psy2514 13 GTVVIVGNGAVGKSSMIQRYCR 34 (71)
Q Consensus 13 ~ki~v~G~~~vGKtsl~~~~~~ 34 (71)
++++++|.+|+|||++..++..
T Consensus 7 mrIvl~G~PGsGK~T~a~~La~ 28 (229)
T PTZ00088 7 LKIVLFGAPGVGKGTFAEILSK 28 (229)
T ss_pred ceEEEECCCCCCHHHHHHHHHH
Confidence 6799999999999999998865
No 368
>cd03238 ABC_UvrA The excision repair protein UvrA; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep ATP-dependent reaction that requires the UvrA, UvrB, and UvrC proteins. Both UvrA and UvrB are ATPases, with UvrA having two ATP binding sites, which have the characteristic signature of the family of ABC proteins, and UvrB having one ATP binding site that is structurally related to that of helicases.
Probab=97.02 E-value=0.00088 Score=38.72 Aligned_cols=24 Identities=25% Similarity=0.398 Sum_probs=20.0
Q ss_pred ceeeeEEEEeCCCCCHHHHHHHHH
Q psy2514 10 SIKGTVVIVGNGAVGKSSMIQRYC 33 (71)
Q Consensus 10 ~~~~ki~v~G~~~vGKtsl~~~~~ 33 (71)
...-.++++|++|+|||+|++...
T Consensus 19 ~~G~~~~l~G~nG~GKSTLl~~il 42 (176)
T cd03238 19 PLNVLVVVTGVSGSGKSTLVNEGL 42 (176)
T ss_pred cCCCEEEEECCCCCCHHHHHHHHh
Confidence 344678999999999999998764
No 369
>COG3638 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]
Probab=97.02 E-value=0.00072 Score=41.16 Aligned_cols=21 Identities=29% Similarity=0.545 Sum_probs=18.2
Q ss_pred eEEEEeCCCCCHHHHHHHHHh
Q psy2514 14 TVVIVGNGAVGKSSMIQRYCR 34 (71)
Q Consensus 14 ki~v~G~~~vGKtsl~~~~~~ 34 (71)
-++++|++|+|||+|++.+..
T Consensus 32 ~VaiIG~SGaGKSTLLR~lng 52 (258)
T COG3638 32 MVAIIGPSGAGKSTLLRSLNG 52 (258)
T ss_pred EEEEECCCCCcHHHHHHHHhc
Confidence 478899999999999998764
No 370
>PF12775 AAA_7: P-loop containing dynein motor region D3; PDB: 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A 3VKH_A 3VKG_A.
Probab=97.01 E-value=0.0012 Score=40.59 Aligned_cols=25 Identities=32% Similarity=0.558 Sum_probs=21.3
Q ss_pred eeeEEEEeCCCCCHHHHHHHHHhCc
Q psy2514 12 KGTVVIVGNGAVGKSSMIQRYCRGT 36 (71)
Q Consensus 12 ~~ki~v~G~~~vGKtsl~~~~~~~~ 36 (71)
..-++++|++|+|||+++..++...
T Consensus 33 ~~pvLl~G~~GtGKT~li~~~l~~l 57 (272)
T PF12775_consen 33 GRPVLLVGPSGTGKTSLIQNFLSSL 57 (272)
T ss_dssp TEEEEEESSTTSSHHHHHHHHHHCS
T ss_pred CCcEEEECCCCCchhHHHHhhhccC
Confidence 3568999999999999999988653
No 371
>TIGR01351 adk adenylate kinases. Adenylate kinase (EC 2.7.4.3) converts ATP + AMP to ADP + ADP, that is, uses ATP as a phosphate donor for AMP. Most members of this family are known or believed to be adenylate kinase. However, some members accept other nucleotide triphosphates as donors, may be unable to use ATP, and may fail to complement adenylate kinase mutants. An example of a nucleoside-triphosphate--adenylate kinase (EC 2.7.4.10) is a GTP:AMP phosphotransferase. This family is designated subfamily rather than equivalog for this reason.
Probab=97.01 E-value=0.00081 Score=39.46 Aligned_cols=21 Identities=24% Similarity=0.469 Sum_probs=18.8
Q ss_pred eEEEEeCCCCCHHHHHHHHHh
Q psy2514 14 TVVIVGNGAVGKSSMIQRYCR 34 (71)
Q Consensus 14 ki~v~G~~~vGKtsl~~~~~~ 34 (71)
+|+++|.+|+|||++..++..
T Consensus 1 rI~i~G~pGsGKsT~a~~La~ 21 (210)
T TIGR01351 1 RLVLLGPPGSGKGTQAKRIAE 21 (210)
T ss_pred CEEEECCCCCCHHHHHHHHHH
Confidence 589999999999999998864
No 372
>TIGR03015 pepcterm_ATPase putative secretion ATPase, PEP-CTERM locus subfamily. Members of this protein are marked as probable ATPases by the nucleotide binding P-loop motif GXXGXGKTT, a motif DEAQ similar to the DEAD/H box of helicases, and extensive homology to ATPases of MSHA-type pilus systems and to GspA proteins associated with type II protein secretion systems.
Probab=97.01 E-value=0.00086 Score=40.31 Aligned_cols=22 Identities=23% Similarity=0.502 Sum_probs=19.4
Q ss_pred eEEEEeCCCCCHHHHHHHHHhC
Q psy2514 14 TVVIVGNGAVGKSSMIQRYCRG 35 (71)
Q Consensus 14 ki~v~G~~~vGKtsl~~~~~~~ 35 (71)
.+++.|++|+|||++++.+...
T Consensus 45 ~~~l~G~~G~GKTtl~~~l~~~ 66 (269)
T TIGR03015 45 FILITGEVGAGKTTLIRNLLKR 66 (269)
T ss_pred EEEEEcCCCCCHHHHHHHHHHh
Confidence 5789999999999999988754
No 373
>PF00910 RNA_helicase: RNA helicase; InterPro: IPR000605 Helicases have been classified in 5 superfamilies (SF1-SF5). All of the proteins bind ATP and, consequently, all of them carry the classical Walker A (phosphate-binding loop or P-loop) and Walker B (Mg2+-binding aspartic acid) motifs. Superfamily 3 consists of helicases encoded mainly by small DNA viruses and some large nucleocytoplasmic DNA viruses [, ]. Small viruses are very dependent on the host-cell machinery to replicate. SF3 helicase in small viruses is associated with an origin-binding domain. By pairing a domain that recognises the ori with a helicase, the virus can bypass the host-cell-based regulation pathway and initiate its own replication. The protein binds to the viral ori leading to origin unwinding. Cellular replication proteins are then recruited to the ori and the viral DNA is replicated. In SF3 helicases the Walker A and Walker B motifs are separated by spacers of rather uniform, and relatively short, length. In addition to the A and B motifs this family is characterised by a third motif (C) which resides between the B motif and the C terminus of the conserved region. This motif consists of an Asn residue preceded by a run of hydrophobic residues []. Several structures of SF3 helicases have been solved []. They all possess the same core alpha/beta fold, consisting of a five-stranded parallel beta sheet flanked on both sides by several alpha helices. In contrast to SF1 and SF2 helicases, which have RecA-like core folds, the strand connectivity within the alpha/beta core domain is that of AAA+ proteins []. The SF3 helicase proteins assemble into a hexameric ring. Some proteins known to contain an SF3 helicase domain are listed below: Polyomavirus large T antigen. It initiates DNA unwinding and replication via interactions with the viral origin of replication. Papillomavirus E1 protein. An ATP-dependent DNA helicase required for initiation of viral DNA replication. Parvovirus Rep/NS1 protein, which is also required for the initiation of viral replication. Poxviridae and other large DNA viruses D5 protein. Bacteriophage DNA primase/helicase protein. Bacterial prophage DNA primase/helicase protein. The entry represents the core alpha/beta fold of the SF3 helicase domain found predominantly in DNA viruses.; GO: 0003723 RNA binding, 0003724 RNA helicase activity
Probab=97.00 E-value=0.00074 Score=35.84 Aligned_cols=20 Identities=25% Similarity=0.529 Sum_probs=17.2
Q ss_pred EEEEeCCCCCHHHHHHHHHh
Q psy2514 15 VVIVGNGAVGKSSMIQRYCR 34 (71)
Q Consensus 15 i~v~G~~~vGKtsl~~~~~~ 34 (71)
|.+-|++|+|||+++..++.
T Consensus 1 I~i~G~~G~GKS~l~~~l~~ 20 (107)
T PF00910_consen 1 IWIYGPPGIGKSTLAKELAK 20 (107)
T ss_pred CEEECCCCCCHHHHHHHHHH
Confidence 46789999999999998664
No 374
>TIGR01313 therm_gnt_kin carbohydrate kinase, thermoresistant glucokinase family. This model represents a subfamily of proteins that includes thermoresistant and thermosensitve isozymes of gluconate kinase (gluconokinase) in E. coli and other related proteins; members of this family are often named by similarity to the thermostable isozyme. These proteins show homology to shikimate kinases and adenylate kinases but not to gluconate kinases from the FGGY family of carbohydrate kinases.
Probab=97.00 E-value=0.0007 Score=38.03 Aligned_cols=21 Identities=24% Similarity=0.433 Sum_probs=17.7
Q ss_pred EEEEeCCCCCHHHHHHHHHhC
Q psy2514 15 VVIVGNGAVGKSSMIQRYCRG 35 (71)
Q Consensus 15 i~v~G~~~vGKtsl~~~~~~~ 35 (71)
++++|.+|+|||++...+...
T Consensus 1 i~l~G~~GsGKSTla~~l~~~ 21 (163)
T TIGR01313 1 FVLMGVAGSGKSTIASALAHR 21 (163)
T ss_pred CEEECCCCCCHHHHHHHHHHh
Confidence 468899999999999987643
No 375
>TIGR01359 UMP_CMP_kin_fam UMP-CMP kinase family. This subfamily of the adenylate kinase superfamily contains examples of UMP-CMP kinase, as well as others proteins with unknown specificity, some currently designated adenylate kinase. All known members are eukaryotic.
Probab=96.99 E-value=0.00096 Score=38.05 Aligned_cols=20 Identities=20% Similarity=0.419 Sum_probs=17.8
Q ss_pred EEEEeCCCCCHHHHHHHHHh
Q psy2514 15 VVIVGNGAVGKSSMIQRYCR 34 (71)
Q Consensus 15 i~v~G~~~vGKtsl~~~~~~ 34 (71)
++++|.+|+|||++..++..
T Consensus 2 i~i~G~pGsGKst~a~~la~ 21 (183)
T TIGR01359 2 VFVLGGPGSGKGTQCAKIVE 21 (183)
T ss_pred EEEECCCCCCHHHHHHHHHH
Confidence 68899999999999998764
No 376
>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=96.97 E-value=0.0015 Score=39.58 Aligned_cols=26 Identities=27% Similarity=0.563 Sum_probs=22.7
Q ss_pred eeeEEEEeCCCCCHHHHHHHHHhCcC
Q psy2514 12 KGTVVIVGNGAVGKSSMIQRYCRGTF 37 (71)
Q Consensus 12 ~~ki~v~G~~~vGKtsl~~~~~~~~f 37 (71)
...++++|+.++||||+++.+....|
T Consensus 26 ~p~i~vvG~~~~GKSt~l~~i~g~~~ 51 (240)
T smart00053 26 LPQIAVVGGQSAGKSSVLENFVGRDF 51 (240)
T ss_pred CCeEEEEcCCCccHHHHHHHHhCCCc
Confidence 45799999999999999999987653
No 377
>PLN02200 adenylate kinase family protein
Probab=96.95 E-value=0.0016 Score=39.22 Aligned_cols=23 Identities=13% Similarity=0.251 Sum_probs=20.1
Q ss_pred eeeEEEEeCCCCCHHHHHHHHHh
Q psy2514 12 KGTVVIVGNGAVGKSSMIQRYCR 34 (71)
Q Consensus 12 ~~ki~v~G~~~vGKtsl~~~~~~ 34 (71)
...++++|.+|+|||+++.++..
T Consensus 43 ~~ii~I~G~PGSGKsT~a~~La~ 65 (234)
T PLN02200 43 PFITFVLGGPGSGKGTQCEKIVE 65 (234)
T ss_pred CEEEEEECCCCCCHHHHHHHHHH
Confidence 36789999999999999988874
No 378
>PTZ00416 elongation factor 2; Provisional
Probab=96.95 E-value=0.0028 Score=44.26 Aligned_cols=26 Identities=12% Similarity=0.149 Sum_probs=22.6
Q ss_pred CceeeeEEEEeCCCCCHHHHHHHHHh
Q psy2514 9 GSIKGTVVIVGNGAVGKSSMIQRYCR 34 (71)
Q Consensus 9 ~~~~~ki~v~G~~~vGKtsl~~~~~~ 34 (71)
.+...+|+++|..++|||||+.+++.
T Consensus 16 ~~~irni~iiGh~d~GKTTL~~~Ll~ 41 (836)
T PTZ00416 16 PDQIRNMSVIAHVDHGKSTLTDSLVC 41 (836)
T ss_pred ccCcCEEEEECCCCCCHHHHHHHHHH
Confidence 34556999999999999999999885
No 379
>PRK06547 hypothetical protein; Provisional
Probab=96.94 E-value=0.0014 Score=37.69 Aligned_cols=26 Identities=27% Similarity=0.326 Sum_probs=21.4
Q ss_pred CceeeeEEEEeCCCCCHHHHHHHHHh
Q psy2514 9 GSIKGTVVIVGNGAVGKSSMIQRYCR 34 (71)
Q Consensus 9 ~~~~~ki~v~G~~~vGKtsl~~~~~~ 34 (71)
......|++.|.+|+|||++...+..
T Consensus 12 ~~~~~~i~i~G~~GsGKTt~a~~l~~ 37 (172)
T PRK06547 12 GGGMITVLIDGRSGSGKTTLAGALAA 37 (172)
T ss_pred cCCCEEEEEECCCCCCHHHHHHHHHH
Confidence 34457788889999999999998864
No 380
>PRK05057 aroK shikimate kinase I; Reviewed
Probab=96.92 E-value=0.0013 Score=37.67 Aligned_cols=22 Identities=23% Similarity=0.428 Sum_probs=19.6
Q ss_pred eeEEEEeCCCCCHHHHHHHHHh
Q psy2514 13 GTVVIVGNGAVGKSSMIQRYCR 34 (71)
Q Consensus 13 ~ki~v~G~~~vGKtsl~~~~~~ 34 (71)
.+|+++|.+|+|||++...+..
T Consensus 5 ~~I~liG~~GaGKStl~~~La~ 26 (172)
T PRK05057 5 RNIFLVGPMGAGKSTIGRQLAQ 26 (172)
T ss_pred CEEEEECCCCcCHHHHHHHHHH
Confidence 4699999999999999998874
No 381
>PRK07429 phosphoribulokinase; Provisional
Probab=96.92 E-value=0.0015 Score=41.12 Aligned_cols=25 Identities=12% Similarity=0.280 Sum_probs=21.5
Q ss_pred CceeeeEEEEeCCCCCHHHHHHHHH
Q psy2514 9 GSIKGTVVIVGNGAVGKSSMIQRYC 33 (71)
Q Consensus 9 ~~~~~ki~v~G~~~vGKtsl~~~~~ 33 (71)
....+-|.+.|++|+|||++++.+.
T Consensus 5 ~~~~~IIgI~G~SGSGKSTla~~L~ 29 (327)
T PRK07429 5 PDRPVLLGVAGDSGCGKTTFLRGLA 29 (327)
T ss_pred CCCCEEEEEECCCCCCHHHHHHHHH
Confidence 3456899999999999999998876
No 382
>PF13555 AAA_29: P-loop containing region of AAA domain
Probab=96.91 E-value=0.0016 Score=31.80 Aligned_cols=21 Identities=24% Similarity=0.438 Sum_probs=17.6
Q ss_pred eEEEEeCCCCCHHHHHHHHHh
Q psy2514 14 TVVIVGNGAVGKSSMIQRYCR 34 (71)
Q Consensus 14 ki~v~G~~~vGKtsl~~~~~~ 34 (71)
-.++.|+.|+|||+++..+..
T Consensus 25 ~tli~G~nGsGKSTllDAi~~ 45 (62)
T PF13555_consen 25 VTLITGPNGSGKSTLLDAIQT 45 (62)
T ss_pred EEEEECCCCCCHHHHHHHHHH
Confidence 378899999999999976653
No 383
>cd03255 ABC_MJ0796_Lo1CDE_FtsE This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together phylogenetically. MacAB is an exporter that confers resistance to macrolides, while the LolCDE system is not a transporter at all. An FtsE null mutants showed filamentous growth and appeared viable on high salt medium only, indicating a role for FtsE in cell division and/or salt transport. The LolCDE complex catalyses the release of lipoproteins from the cytoplasmic membrane prior to their targeting to the outer membrane.
Probab=96.91 E-value=0.0012 Score=38.66 Aligned_cols=23 Identities=30% Similarity=0.342 Sum_probs=19.5
Q ss_pred eeEEEEeCCCCCHHHHHHHHHhC
Q psy2514 13 GTVVIVGNGAVGKSSMIQRYCRG 35 (71)
Q Consensus 13 ~ki~v~G~~~vGKtsl~~~~~~~ 35 (71)
-.+.++|++|+|||+|++.++.-
T Consensus 31 ~~~~l~G~nGsGKSTLl~~i~Gl 53 (218)
T cd03255 31 EFVAIVGPSGSGKSTLLNILGGL 53 (218)
T ss_pred CEEEEEcCCCCCHHHHHHHHhCC
Confidence 36789999999999999987643
No 384
>KOG1486|consensus
Probab=96.90 E-value=0.0053 Score=38.18 Aligned_cols=59 Identities=19% Similarity=0.131 Sum_probs=35.9
Q ss_pred CceeeeEEEEeCCCCCHHHHHHHHHhCcC-CCCccCCcceeeEEEEEEeCCEEEEEEEcCCC
Q psy2514 9 GSIKGTVVIVGNGAVGKSSMIQRYCRGTF-TRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIG 69 (71)
Q Consensus 9 ~~~~~ki~v~G~~~vGKtsl~~~~~~~~f-~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G 69 (71)
+.--.+++++|-+.||||+|+..+..-+. ..+|.-|.-. ...-++..++ ..+++.|-.|
T Consensus 59 KsGdaRValIGfPSVGKStlLs~iT~T~SeaA~yeFTTLt-cIpGvi~y~g-a~IQllDLPG 118 (364)
T KOG1486|consen 59 KSGDARVALIGFPSVGKSTLLSKITSTHSEAASYEFTTLT-CIPGVIHYNG-ANIQLLDLPG 118 (364)
T ss_pred ccCCeEEEEecCCCccHHHHHHHhhcchhhhhceeeeEEE-eecceEEecC-ceEEEecCcc
Confidence 34457899999999999999998875332 2234333321 2222333333 4577777654
No 385
>PF00625 Guanylate_kin: Guanylate kinase; InterPro: IPR008144 Guanylate kinase (2.7.4.8 from EC) (GK) [] catalyzes the ATP-dependent phosphorylation of GMP into GDP. It is essential for recycling GMP and indirectly, cGMP. In prokaryotes (such as Escherichia coli), lower eukaryotes (such as yeast) and in vertebrates, GK is a highly conserved monomeric protein of about 200 amino acids. GK has been shown [, , ] to be structurally similar to protein A57R (or SalG2R) from various strains of Vaccinia virus. Proteins containing one or more copies of the DHR domain, an SH3 domain as well as a C-terminal GK-like domain, are collectively termed MAGUKs (membrane-associated guanylate kinase homologs) [], and include Drosophila lethal(1)discs large-1 tumor suppressor protein (gene dlg1); mammalian tight junction protein Zo-1; a family of mammalian synaptic proteins that seem to interact with the cytoplasmic tail of NMDA receptor subunits (SAP90/PSD-95, CHAPSYN-110/PSD-93, SAP97/DLG1 and SAP102); vertebrate 55kDa erythrocyte membrane protein (p55); Caenorhabditis elegans protein lin-2; rat protein CASK; and human proteins DLG2 and DLG3. There is an ATP-binding site (P-loop) in the N-terminal section of GK, which is not conserved in the GK-like domain of the above proteins. However these proteins retain the residues known, in GK, to be involved in the binding of GMP.; GO: 0005515 protein binding; PDB: 3UAT_A 3KFV_A 2ANC_F 2F3T_E 2ANB_A 2AN9_A 1S96_A 2F3R_B 3TR0_A 1LVG_A ....
Probab=96.90 E-value=0.0013 Score=37.74 Aligned_cols=20 Identities=35% Similarity=0.674 Sum_probs=18.3
Q ss_pred EEEEeCCCCCHHHHHHHHHh
Q psy2514 15 VVIVGNGAVGKSSMIQRYCR 34 (71)
Q Consensus 15 i~v~G~~~vGKtsl~~~~~~ 34 (71)
++++|++|+||++|..+++.
T Consensus 5 ivl~Gpsg~GK~~l~~~L~~ 24 (183)
T PF00625_consen 5 IVLVGPSGSGKSTLAKRLIQ 24 (183)
T ss_dssp EEEESSTTSSHHHHHHHHHH
T ss_pred EEEECCCCCCHHHHHHHHHH
Confidence 67899999999999999875
No 386
>smart00072 GuKc Guanylate kinase homologues. Active enzymes catalyze ATP-dependent phosphorylation of GMP to GDP. Structure resembles that of adenylate kinase. So-called membrane-associated guanylate kinase homologues (MAGUKs) do not possess guanylate kinase activities; instead at least some possess protein-binding functions.
Probab=96.88 E-value=0.0014 Score=37.79 Aligned_cols=22 Identities=23% Similarity=0.539 Sum_probs=19.6
Q ss_pred eEEEEeCCCCCHHHHHHHHHhC
Q psy2514 14 TVVIVGNGAVGKSSMIQRYCRG 35 (71)
Q Consensus 14 ki~v~G~~~vGKtsl~~~~~~~ 35 (71)
=++++|++|+||++++.+++..
T Consensus 4 ~ivl~Gpsg~GK~tl~~~L~~~ 25 (184)
T smart00072 4 PIVLSGPSGVGKGTLLAELIQE 25 (184)
T ss_pred EEEEECCCCCCHHHHHHHHHhc
Confidence 3789999999999999999866
No 387
>cd01120 RecA-like_NTPases RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.
Probab=96.87 E-value=0.0013 Score=36.08 Aligned_cols=21 Identities=14% Similarity=0.408 Sum_probs=18.1
Q ss_pred EEEEeCCCCCHHHHHHHHHhC
Q psy2514 15 VVIVGNGAVGKSSMIQRYCRG 35 (71)
Q Consensus 15 i~v~G~~~vGKtsl~~~~~~~ 35 (71)
+++.|++|+|||+++..++..
T Consensus 2 ~~i~G~~G~GKT~l~~~i~~~ 22 (165)
T cd01120 2 ILVFGPTGSGKTTLALQLALN 22 (165)
T ss_pred eeEeCCCCCCHHHHHHHHHHH
Confidence 678999999999999988643
No 388
>PF07724 AAA_2: AAA domain (Cdc48 subfamily); InterPro: IPR013093 ATPases Associated to a variety of cellular Activities (AAA) are a family distinguished by a highly conserved module of 230 amino acids []. The highly conserved nature of this module across taxa suggests that it has a key cellular role. Members of the family are involved in diverse cellular functions including gene expression, peroxisome assembly and vesicle mediated transport. Although the role of ATPase AAA-2 domain is not, as yet, clear, the AAA+ superfamily of proteins to which the AAA ATPases belong has a chaperone-like function in the assembly, operation or disassembly of proteins []. Some of these ATPases function as a chaperone subunit of a proteasome-like degradation complex. This ATPase family includes some proteins not detected by IPR003959 from INTERPRO.; GO: 0005524 ATP binding; PDB: 1R6B_X 1KSF_X 3PXI_C 1KYI_T 1G3I_S 1OFH_B 1OFI_A 1G41_A 1IM2_A 1HQY_E ....
Probab=96.87 E-value=0.0019 Score=37.20 Aligned_cols=27 Identities=22% Similarity=0.407 Sum_probs=21.8
Q ss_pred eeeeEEEEeCCCCCHHHHHHHHHhCcC
Q psy2514 11 IKGTVVIVGNGAVGKSSMIQRYCRGTF 37 (71)
Q Consensus 11 ~~~ki~v~G~~~vGKtsl~~~~~~~~f 37 (71)
+...++++|++|||||.++..+..--+
T Consensus 2 p~~~~ll~GpsGvGKT~la~~la~~l~ 28 (171)
T PF07724_consen 2 PKSNFLLAGPSGVGKTELAKALAELLF 28 (171)
T ss_dssp -SEEEEEESSTTSSHHHHHHHHHHHHT
T ss_pred CEEEEEEECCCCCCHHHHHHHHHHHhc
Confidence 356789999999999999988875444
No 389
>PRK06762 hypothetical protein; Provisional
Probab=96.87 E-value=0.0014 Score=36.88 Aligned_cols=22 Identities=23% Similarity=0.481 Sum_probs=18.5
Q ss_pred eEEEEeCCCCCHHHHHHHHHhC
Q psy2514 14 TVVIVGNGAVGKSSMIQRYCRG 35 (71)
Q Consensus 14 ki~v~G~~~vGKtsl~~~~~~~ 35 (71)
-+++.|.+|+|||++...+...
T Consensus 4 li~i~G~~GsGKST~A~~L~~~ 25 (166)
T PRK06762 4 LIIIRGNSGSGKTTIAKQLQER 25 (166)
T ss_pred EEEEECCCCCCHHHHHHHHHHH
Confidence 5788999999999999887643
No 390
>PRK08099 bifunctional DNA-binding transcriptional repressor/ NMN adenylyltransferase; Provisional
Probab=96.87 E-value=0.0013 Score=42.46 Aligned_cols=28 Identities=29% Similarity=0.427 Sum_probs=23.7
Q ss_pred cCceeeeEEEEeCCCCCHHHHHHHHHhC
Q psy2514 8 RGSIKGTVVIVGNGAVGKSSMIQRYCRG 35 (71)
Q Consensus 8 ~~~~~~ki~v~G~~~vGKtsl~~~~~~~ 35 (71)
++....+|+++|.+++|||+|+..+...
T Consensus 215 r~~~~~~IvI~G~~gsGKTTL~~~La~~ 242 (399)
T PRK08099 215 RPFFVRTVAILGGESSGKSTLVNKLANI 242 (399)
T ss_pred hhCCCcEEEEEcCCCCCHHHHHHHHHHH
Confidence 4556789999999999999999988753
No 391
>cd02021 GntK Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate. The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits.
Probab=96.86 E-value=0.0015 Score=36.15 Aligned_cols=21 Identities=24% Similarity=0.428 Sum_probs=18.1
Q ss_pred EEEEeCCCCCHHHHHHHHHhC
Q psy2514 15 VVIVGNGAVGKSSMIQRYCRG 35 (71)
Q Consensus 15 i~v~G~~~vGKtsl~~~~~~~ 35 (71)
+++.|.+|+|||++...+...
T Consensus 2 i~l~G~~GsGKST~a~~l~~~ 22 (150)
T cd02021 2 IVVMGVSGSGKSTVGKALAER 22 (150)
T ss_pred EEEEcCCCCCHHHHHHHHHhh
Confidence 578899999999999987653
No 392
>TIGR01526 nadR_NMN_Atrans nicotinamide-nucleotide adenylyltransferase, NadR type. E. coli NadR has also been found to regulate the import of its substrate, nicotinamide ribonucleotide, but it is not known if the other members of this model share that activity.
Probab=96.86 E-value=0.0014 Score=41.13 Aligned_cols=23 Identities=30% Similarity=0.566 Sum_probs=20.6
Q ss_pred eeeEEEEeCCCCCHHHHHHHHHh
Q psy2514 12 KGTVVIVGNGAVGKSSMIQRYCR 34 (71)
Q Consensus 12 ~~ki~v~G~~~vGKtsl~~~~~~ 34 (71)
.-+++++|.+|+|||+|+..+..
T Consensus 162 ~~~~~~~G~~~~gkstl~~~l~~ 184 (325)
T TIGR01526 162 VKTVAILGGESTGKSTLVNKLAA 184 (325)
T ss_pred CcEEEEECCCCCCHHHHHHHHHH
Confidence 45899999999999999998875
No 393
>TIGR00960 3a0501s02 Type II (General) Secretory Pathway (IISP) Family protein.
Probab=96.85 E-value=0.0014 Score=38.39 Aligned_cols=22 Identities=27% Similarity=0.472 Sum_probs=19.2
Q ss_pred eeEEEEeCCCCCHHHHHHHHHh
Q psy2514 13 GTVVIVGNGAVGKSSMIQRYCR 34 (71)
Q Consensus 13 ~ki~v~G~~~vGKtsl~~~~~~ 34 (71)
-.+.++|++|+|||+|++-++.
T Consensus 30 e~~~i~G~nGsGKSTLl~~l~G 51 (216)
T TIGR00960 30 EMVFLVGHSGAGKSTFLKLILG 51 (216)
T ss_pred CEEEEECCCCCCHHHHHHHHhC
Confidence 3678999999999999998775
No 394
>cd03264 ABC_drug_resistance_like ABC-type multidrug transport system, ATPase component. The biological function of this family is not well characterized, but display ABC domains similar to members of ABCA subfamily. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.
Probab=96.85 E-value=0.0012 Score=38.58 Aligned_cols=21 Identities=14% Similarity=0.379 Sum_probs=19.0
Q ss_pred eEEEEeCCCCCHHHHHHHHHh
Q psy2514 14 TVVIVGNGAVGKSSMIQRYCR 34 (71)
Q Consensus 14 ki~v~G~~~vGKtsl~~~~~~ 34 (71)
.+.++|++|+|||+|++-+..
T Consensus 27 ~~~i~G~nGsGKSTLl~~l~G 47 (211)
T cd03264 27 MYGLLGPNGAGKTTLMRILAT 47 (211)
T ss_pred cEEEECCCCCCHHHHHHHHhC
Confidence 789999999999999998764
No 395
>PRK00279 adk adenylate kinase; Reviewed
Probab=96.84 E-value=0.0016 Score=38.36 Aligned_cols=21 Identities=14% Similarity=0.357 Sum_probs=18.8
Q ss_pred eEEEEeCCCCCHHHHHHHHHh
Q psy2514 14 TVVIVGNGAVGKSSMIQRYCR 34 (71)
Q Consensus 14 ki~v~G~~~vGKtsl~~~~~~ 34 (71)
+|+++|.+|+|||++...+..
T Consensus 2 ~I~v~G~pGsGKsT~a~~la~ 22 (215)
T PRK00279 2 RLILLGPPGAGKGTQAKFIAE 22 (215)
T ss_pred EEEEECCCCCCHHHHHHHHHH
Confidence 699999999999999887763
No 396
>cd01124 KaiC KaiC is a circadian clock protein primarily found in cyanobacteria KaiC is a RecA-like ATPase, having both Walker A and Walker B motifs. A related protein is found in archaea.
Probab=96.84 E-value=0.0015 Score=37.19 Aligned_cols=21 Identities=14% Similarity=0.403 Sum_probs=18.2
Q ss_pred EEEEeCCCCCHHHHHHHHHhC
Q psy2514 15 VVIVGNGAVGKSSMIQRYCRG 35 (71)
Q Consensus 15 i~v~G~~~vGKtsl~~~~~~~ 35 (71)
+++.|++|+|||+|..+++..
T Consensus 2 ~li~G~~G~GKT~l~~~~~~~ 22 (187)
T cd01124 2 TLLSGGPGTGKTTFALQFLYA 22 (187)
T ss_pred EEEEcCCCCCHHHHHHHHHHH
Confidence 578999999999999988753
No 397
>cd01128 rho_factor Transcription termination factor rho is a bacterial ATP-dependent RNA/DNA helicase. It is a homohexamer. Each monomer consists of an N-terminal domain of the OB fold, which is responsible for binding to cysteine rich nucleotides. This alignment is of the C-terminal ATP binding domain.
Probab=96.84 E-value=0.0016 Score=39.60 Aligned_cols=26 Identities=19% Similarity=0.259 Sum_probs=21.5
Q ss_pred eeeeEEEEeCCCCCHHHHHHHHHhCc
Q psy2514 11 IKGTVVIVGNGAVGKSSMIQRYCRGT 36 (71)
Q Consensus 11 ~~~ki~v~G~~~vGKtsl~~~~~~~~ 36 (71)
..-+++++|++|+|||+|++.+.+..
T Consensus 15 ~Gqr~~I~G~~G~GKTTLlr~I~n~l 40 (249)
T cd01128 15 KGQRGLIVAPPKAGKTTLLQSIANAI 40 (249)
T ss_pred CCCEEEEECCCCCCHHHHHHHHHhcc
Confidence 34588999999999999998877544
No 398
>TIGR02315 ABC_phnC phosphonate ABC transporter, ATP-binding protein. Phosphonates are a class of phosphorus-containing organic compound with a stable direct C-P bond rather than a C-O-P linkage. A number of bacterial species have operons, typically about 14 genes in size, with genes for ATP-dependent transport of phosphonates, degradation, and regulation of the expression of the system. Members of this protein family are the ATP-binding cassette component of tripartite ABC transporters of phosphonates.
Probab=96.84 E-value=0.0015 Score=38.93 Aligned_cols=22 Identities=32% Similarity=0.530 Sum_probs=18.9
Q ss_pred eeEEEEeCCCCCHHHHHHHHHh
Q psy2514 13 GTVVIVGNGAVGKSSMIQRYCR 34 (71)
Q Consensus 13 ~ki~v~G~~~vGKtsl~~~~~~ 34 (71)
=.++++|++|+|||+|++.++.
T Consensus 29 e~~~l~G~nGsGKSTLl~~l~G 50 (243)
T TIGR02315 29 EFVAIIGPSGAGKSTLLRCINR 50 (243)
T ss_pred CEEEEECCCCCCHHHHHHHHhC
Confidence 3688999999999999987764
No 399
>TIGR02881 spore_V_K stage V sporulation protein K. Members of this protein family are the stage V sporulation protein K (SpoVK), a close homolog of the Rubisco expression protein CbbX (TIGR02880) and a members of the ATPase family associated with various cellular activities (pfam00004). Members are strictly limited to bacterial endospore-forming species, but are not universal in this group and are missing from the Clostridium group.
Probab=96.83 E-value=0.0018 Score=39.27 Aligned_cols=24 Identities=17% Similarity=0.257 Sum_probs=20.6
Q ss_pred eeeeEEEEeCCCCCHHHHHHHHHh
Q psy2514 11 IKGTVVIVGNGAVGKSSMIQRYCR 34 (71)
Q Consensus 11 ~~~ki~v~G~~~vGKtsl~~~~~~ 34 (71)
....+++.|++|+|||++++.+..
T Consensus 41 ~~~~vll~GppGtGKTtlA~~ia~ 64 (261)
T TIGR02881 41 QVLHMIFKGNPGTGKTTVARILGK 64 (261)
T ss_pred CcceEEEEcCCCCCHHHHHHHHHH
Confidence 457899999999999999987754
No 400
>cd03226 ABC_cobalt_CbiO_domain2 Domain II of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. The CbiMNQO family ABC transport system is involved in cobalt transport in association with the cobalamin (vitamin B12) biosynthetic pathways. Most cobalt (Cbi) transport systems possess a separate CbiN component, the cobalt-binding periplasmic protein, and they are encoded by the conserved gene cluster cbiMNQO. Both the CbiM and CbiQ proteins are integral cytoplasmic membrane proteins, and the CbiO protein has the linker peptide and the Walker A and B motifs commonly found in the ATPase components of the ABC-type transport systems.
Probab=96.82 E-value=0.0016 Score=37.99 Aligned_cols=23 Identities=13% Similarity=0.320 Sum_probs=19.7
Q ss_pred eeEEEEeCCCCCHHHHHHHHHhC
Q psy2514 13 GTVVIVGNGAVGKSSMIQRYCRG 35 (71)
Q Consensus 13 ~ki~v~G~~~vGKtsl~~~~~~~ 35 (71)
-.+.++|++|+|||+|++.++.-
T Consensus 27 e~~~i~G~nGsGKSTLl~~l~Gl 49 (205)
T cd03226 27 EIIALTGKNGAGKTTLAKILAGL 49 (205)
T ss_pred CEEEEECCCCCCHHHHHHHHhcC
Confidence 46889999999999999987653
No 401
>COG1120 FepC ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]
Probab=96.82 E-value=0.0014 Score=40.21 Aligned_cols=22 Identities=23% Similarity=0.374 Sum_probs=18.5
Q ss_pred eeEEEEeCCCCCHHHHHHHHHh
Q psy2514 13 GTVVIVGNGAVGKSSMIQRYCR 34 (71)
Q Consensus 13 ~ki~v~G~~~vGKtsl~~~~~~ 34 (71)
--++++|+.|+|||||++.+..
T Consensus 29 ~i~~iiGpNG~GKSTLLk~l~g 50 (258)
T COG1120 29 EITGILGPNGSGKSTLLKCLAG 50 (258)
T ss_pred cEEEEECCCCCCHHHHHHHHhc
Confidence 3467889999999999998764
No 402
>TIGR02868 CydC thiol reductant ABC exporter, CydC subunit. The gene pair cydCD encodes an ABC-family transporter in which each gene contains an N-terminal membrane-spanning domain (pfam00664) and a C-terminal ATP-binding domain (pfam00005). In E. coli these genes were discovered as mutants which caused the terminal heme-copper oxidase complex cytochrome bd to fail to assemble. Recent work has shown that the transporter is involved in export of redox-active thiol compounds such as cysteine and glutathione. The linkage to assembly of the cytochrome bd complex is further supported by the conserved operon structure found outside the gammaproteobacteria (cydABCD) containing both the transporter and oxidase genes components. The genes used as the seed members for this model are all either found in the gammproteobacterial context or the CydABCD context. All members of this family scoring above trusted at the time of its creation were from genomes which encode a cytochrome bd complex.
Probab=96.82 E-value=0.0018 Score=42.61 Aligned_cols=25 Identities=24% Similarity=0.335 Sum_probs=20.8
Q ss_pred ceeeeEEEEeCCCCCHHHHHHHHHh
Q psy2514 10 SIKGTVVIVGNGAVGKSSMIQRYCR 34 (71)
Q Consensus 10 ~~~~ki~v~G~~~vGKtsl~~~~~~ 34 (71)
+..-+++++|++|+|||||+.-+..
T Consensus 359 ~~G~~vaIvG~SGsGKSTLl~lL~g 383 (529)
T TIGR02868 359 PPGERVAILGPSGSGKSTLLMLLTG 383 (529)
T ss_pred cCCCEEEEECCCCCCHHHHHHHHhc
Confidence 3456889999999999999987763
No 403
>PRK13947 shikimate kinase; Provisional
Probab=96.82 E-value=0.0018 Score=36.55 Aligned_cols=21 Identities=24% Similarity=0.457 Sum_probs=18.8
Q ss_pred eEEEEeCCCCCHHHHHHHHHh
Q psy2514 14 TVVIVGNGAVGKSSMIQRYCR 34 (71)
Q Consensus 14 ki~v~G~~~vGKtsl~~~~~~ 34 (71)
+|+++|.+|+|||++...+..
T Consensus 3 ~I~l~G~~GsGKst~a~~La~ 23 (171)
T PRK13947 3 NIVLIGFMGTGKTTVGKRVAT 23 (171)
T ss_pred eEEEEcCCCCCHHHHHHHHHH
Confidence 689999999999999988764
No 404
>PRK14528 adenylate kinase; Provisional
Probab=96.82 E-value=0.0018 Score=37.51 Aligned_cols=22 Identities=18% Similarity=0.513 Sum_probs=19.1
Q ss_pred eeEEEEeCCCCCHHHHHHHHHh
Q psy2514 13 GTVVIVGNGAVGKSSMIQRYCR 34 (71)
Q Consensus 13 ~ki~v~G~~~vGKtsl~~~~~~ 34 (71)
.+++++|.+|+|||++..++..
T Consensus 2 ~~i~i~G~pGsGKtt~a~~la~ 23 (186)
T PRK14528 2 KNIIFMGPPGAGKGTQAKILCE 23 (186)
T ss_pred cEEEEECCCCCCHHHHHHHHHH
Confidence 4689999999999999988763
No 405
>cd03225 ABC_cobalt_CbiO_domain1 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC transport system of the CbiMNQO family is involved in cobalt transport in association with the cobalamin (vitamin B12) biosynthetic pathways. Most of cobalt (Cbi) transport systems possess a separate CbiN component, the cobalt-binding periplasmic protein, and they are encoded by the conserved gene cluster cbiMNQO. Both the CbiM and CbiQ proteins are integral cytoplasmic membrane proteins, and the CbiO protein has the linker peptide and the Walker A and B motifs commonly found in the ATPase components of the ABC-type transport systems.
Probab=96.80 E-value=0.0017 Score=37.92 Aligned_cols=22 Identities=32% Similarity=0.468 Sum_probs=19.0
Q ss_pred eeEEEEeCCCCCHHHHHHHHHh
Q psy2514 13 GTVVIVGNGAVGKSSMIQRYCR 34 (71)
Q Consensus 13 ~ki~v~G~~~vGKtsl~~~~~~ 34 (71)
-.+.++|++|+|||+|++-+..
T Consensus 28 ~~~~l~G~nGsGKSTLl~~l~G 49 (211)
T cd03225 28 EFVLIVGPNGSGKSTLLRLLNG 49 (211)
T ss_pred cEEEEECCCCCCHHHHHHHHhc
Confidence 4578999999999999998764
No 406
>PRK00625 shikimate kinase; Provisional
Probab=96.80 E-value=0.0019 Score=37.25 Aligned_cols=21 Identities=24% Similarity=0.425 Sum_probs=18.7
Q ss_pred eEEEEeCCCCCHHHHHHHHHh
Q psy2514 14 TVVIVGNGAVGKSSMIQRYCR 34 (71)
Q Consensus 14 ki~v~G~~~vGKtsl~~~~~~ 34 (71)
+|+++|-+|+|||++...+..
T Consensus 2 ~I~LiG~pGsGKTT~~k~La~ 22 (173)
T PRK00625 2 QIFLCGLPTVGKTSFGKALAK 22 (173)
T ss_pred EEEEECCCCCCHHHHHHHHHH
Confidence 589999999999999988764
No 407
>PF13479 AAA_24: AAA domain
Probab=96.79 E-value=0.0013 Score=38.85 Aligned_cols=21 Identities=19% Similarity=0.332 Sum_probs=19.5
Q ss_pred eeeEEEEeCCCCCHHHHHHHH
Q psy2514 12 KGTVVIVGNGAVGKSSMIQRY 32 (71)
Q Consensus 12 ~~ki~v~G~~~vGKtsl~~~~ 32 (71)
.+++++-|++|+|||+++..+
T Consensus 3 ~~~~lIyG~~G~GKTt~a~~~ 23 (213)
T PF13479_consen 3 PIKILIYGPPGSGKTTLAASL 23 (213)
T ss_pred ceEEEEECCCCCCHHHHHHhC
Confidence 589999999999999999887
No 408
>cd03292 ABC_FtsE_transporter FtsE is a hydrophilic nucleotide-binding protein that binds FtsX to form a heterodimeric ATP-binding cassette (ABC)-type transporter that associates with the bacterial inner membrane. The FtsE/X transporter is thought to be involved in cell division and is important for assembly or stability of the septal ring.
Probab=96.79 E-value=0.0018 Score=37.87 Aligned_cols=22 Identities=27% Similarity=0.505 Sum_probs=19.1
Q ss_pred eeEEEEeCCCCCHHHHHHHHHh
Q psy2514 13 GTVVIVGNGAVGKSSMIQRYCR 34 (71)
Q Consensus 13 ~ki~v~G~~~vGKtsl~~~~~~ 34 (71)
-.+.++|++|+|||+|++-++.
T Consensus 28 ~~~~i~G~nGsGKSTLl~~l~G 49 (214)
T cd03292 28 EFVFLVGPSGAGKSTLLKLIYK 49 (214)
T ss_pred CEEEEECCCCCCHHHHHHHHhc
Confidence 3578999999999999998875
No 409
>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=96.78 E-value=0.0019 Score=37.87 Aligned_cols=20 Identities=30% Similarity=0.619 Sum_probs=17.5
Q ss_pred eEEEEeCCCCCHHHHHHHHH
Q psy2514 14 TVVIVGNGAVGKSSMIQRYC 33 (71)
Q Consensus 14 ki~v~G~~~vGKtsl~~~~~ 33 (71)
.++++|+.|||||+.+-++.
T Consensus 3 vi~lvGptGvGKTTt~aKLA 22 (196)
T PF00448_consen 3 VIALVGPTGVGKTTTIAKLA 22 (196)
T ss_dssp EEEEEESTTSSHHHHHHHHH
T ss_pred EEEEECCCCCchHhHHHHHH
Confidence 57899999999999888766
No 410
>cd03260 ABC_PstB_phosphate_transporter Phosphate uptake is of fundamental importance in the cell physiology of bacteria because phosphate is required as a nutrient. The Pst system of E. coli comprises four distinct subunits encoded by the pstS, pstA, pstB, and pstC genes. The PstS protein is a phosphate-binding protein located in the periplasmic space. P stA and PstC are hydrophobic and they form the transmembrane portion of the Pst system. PstB is the catalytic subunit, which couples the energy of ATP hydrolysis to the import of phosphate across cellular membranes through the Pst system, often referred as ABC-protein. PstB belongs to one of the largest superfamilies of proteins characterized by a highly conserved adenosine triphosphate (ATP) binding cassette (ABC), which is also a nucleotide binding domain (NBD).
Probab=96.78 E-value=0.0019 Score=38.14 Aligned_cols=23 Identities=22% Similarity=0.408 Sum_probs=19.5
Q ss_pred eeEEEEeCCCCCHHHHHHHHHhC
Q psy2514 13 GTVVIVGNGAVGKSSMIQRYCRG 35 (71)
Q Consensus 13 ~ki~v~G~~~vGKtsl~~~~~~~ 35 (71)
-.+.++|++|+|||+|++-+..-
T Consensus 27 e~~~i~G~nGsGKSTLl~~i~G~ 49 (227)
T cd03260 27 EITALIGPSGCGKSTLLRLLNRL 49 (227)
T ss_pred CEEEEECCCCCCHHHHHHHHHhh
Confidence 46789999999999999987653
No 411
>TIGR03420 DnaA_homol_Hda DnaA regulatory inactivator Hda. Members of this protein family are Hda (Homologous to DnaA). These proteins are about half the length of DnaA and homologous over length of Hda. In the model species Escherichia coli, the initiation of DNA replication requires DnaA bound to ATP rather than ADP; Hda helps facilitate the conversion of DnaA-ATP to DnaA-ADP.
Probab=96.78 E-value=0.0017 Score=38.05 Aligned_cols=25 Identities=24% Similarity=0.399 Sum_probs=20.7
Q ss_pred eeeeEEEEeCCCCCHHHHHHHHHhC
Q psy2514 11 IKGTVVIVGNGAVGKSSMIQRYCRG 35 (71)
Q Consensus 11 ~~~ki~v~G~~~vGKtsl~~~~~~~ 35 (71)
..-.+++.|++|+|||+++..+...
T Consensus 37 ~~~~lll~G~~G~GKT~la~~~~~~ 61 (226)
T TIGR03420 37 GDRFLYLWGESGSGKSHLLQAACAA 61 (226)
T ss_pred CCCeEEEECCCCCCHHHHHHHHHHH
Confidence 3457889999999999999987753
No 412
>TIGR00073 hypB hydrogenase accessory protein HypB. HypB is implicated in insertion of nickel into the large subunit of NiFe hydrogenases.
Probab=96.78 E-value=0.0015 Score=38.34 Aligned_cols=26 Identities=12% Similarity=0.185 Sum_probs=22.0
Q ss_pred ceeeeEEEEeCCCCCHHHHHHHHHhC
Q psy2514 10 SIKGTVVIVGNGAVGKSSMIQRYCRG 35 (71)
Q Consensus 10 ~~~~ki~v~G~~~vGKtsl~~~~~~~ 35 (71)
.....+.++|..|+|||+|+.+++..
T Consensus 20 ~~~~~i~~~G~~gsGKTTli~~l~~~ 45 (207)
T TIGR00073 20 HGLVVLNFMSSPGSGKTTLIEKLIDN 45 (207)
T ss_pred cCcEEEEEECCCCCCHHHHHHHHHHH
Confidence 34577899999999999999998853
No 413
>PRK13540 cytochrome c biogenesis protein CcmA; Provisional
Probab=96.78 E-value=0.0026 Score=36.97 Aligned_cols=24 Identities=17% Similarity=0.358 Sum_probs=20.0
Q ss_pred eeeEEEEeCCCCCHHHHHHHHHhC
Q psy2514 12 KGTVVIVGNGAVGKSSMIQRYCRG 35 (71)
Q Consensus 12 ~~ki~v~G~~~vGKtsl~~~~~~~ 35 (71)
.=.+.++|++|+|||+|++-++.-
T Consensus 27 Ge~~~l~G~nGsGKSTLl~~i~G~ 50 (200)
T PRK13540 27 GGLLHLKGSNGAGKTTLLKLIAGL 50 (200)
T ss_pred CCEEEEECCCCCCHHHHHHHHhcC
Confidence 346889999999999999977653
No 414
>PRK04040 adenylate kinase; Provisional
Probab=96.78 E-value=0.0023 Score=37.28 Aligned_cols=23 Identities=26% Similarity=0.460 Sum_probs=19.6
Q ss_pred eeEEEEeCCCCCHHHHHHHHHhC
Q psy2514 13 GTVVIVGNGAVGKSSMIQRYCRG 35 (71)
Q Consensus 13 ~ki~v~G~~~vGKtsl~~~~~~~ 35 (71)
..+++.|.+|+|||+++..+...
T Consensus 3 ~~i~v~G~pG~GKtt~~~~l~~~ 25 (188)
T PRK04040 3 KVVVVTGVPGVGKTTVLNKALEK 25 (188)
T ss_pred eEEEEEeCCCCCHHHHHHHHHHH
Confidence 46889999999999999987653
No 415
>TIGR03608 L_ocin_972_ABC putative bacteriocin export ABC transporter, lactococcin 972 group. A gene pair with a fairly wide distribution consists of a polypeptide related to the lactococcin 972 (see TIGR01653) and multiple-membrane-spanning putative immunity protein (see TIGR01654). This model represents a small clade within the ABC transporters that regularly are found adjacent to these bacteriocin system gene pairs and are likely serve as export proteins.
Probab=96.78 E-value=0.0026 Score=36.95 Aligned_cols=23 Identities=22% Similarity=0.290 Sum_probs=19.6
Q ss_pred eeEEEEeCCCCCHHHHHHHHHhC
Q psy2514 13 GTVVIVGNGAVGKSSMIQRYCRG 35 (71)
Q Consensus 13 ~ki~v~G~~~vGKtsl~~~~~~~ 35 (71)
=.+.++|++|+|||+|++-++.-
T Consensus 25 e~~~i~G~nGsGKSTLl~~l~G~ 47 (206)
T TIGR03608 25 KMYAIIGESGSGKSTLLNIIGLL 47 (206)
T ss_pred cEEEEECCCCCCHHHHHHHHhcC
Confidence 35889999999999999988753
No 416
>PF00485 PRK: Phosphoribulokinase / Uridine kinase family; InterPro: IPR006083 Phosphoribulokinase (PRK) 2.7.1.19 from EC catalyses the ATP-dependent phosphorylation of ribulose-5-phosphate to ribulose-1,5-phosphate, a key step in the pentose phosphate pathway where carbon dioxide is assimilated by autotrophic organisms []. In general, plant enzymes are light-activated by the thioredoxin/ferredoxin system, while those from photosynthetic bacteria are regulated by a system that has an absolute requirement for NADH. Thioredoxin/ferredoxin regulation is mediated by the reversible oxidation/reduction of sulphydryl and disulphide groups. Uridine kinase (pyrimidine ribonucleoside kinase) is the rate-limiting enzyme in the pyrimidine salvage pathway. It catalyzes the following reaction: ATP + Uridine = ADP + UMP Pantothenate kinase (2.7.1.33 from EC) catalyzes the rate-limiting step in the biosynthesis of coenzyme A, the conversion of pantothenate to D-4'-phosphopantothenate in the presence of ATP. ; GO: 0005524 ATP binding, 0016301 kinase activity, 0008152 metabolic process; PDB: 2ZSE_A 2ZS7_A 3AF0_A 3AVP_A 2ZS9_A 2ZS8_A 3AEZ_A 2ZSB_A 2ZSD_A 2GEV_A ....
Probab=96.77 E-value=0.0021 Score=37.28 Aligned_cols=20 Identities=25% Similarity=0.542 Sum_probs=17.3
Q ss_pred EEEEeCCCCCHHHHHHHHHh
Q psy2514 15 VVIVGNGAVGKSSMIQRYCR 34 (71)
Q Consensus 15 i~v~G~~~vGKtsl~~~~~~ 34 (71)
|.+.|.+|+|||+|..++..
T Consensus 2 IgI~G~sgSGKTTla~~L~~ 21 (194)
T PF00485_consen 2 IGIAGPSGSGKTTLAKRLAQ 21 (194)
T ss_dssp EEEEESTTSSHHHHHHHHHH
T ss_pred EEEECCCCCCHHHHHHHHHH
Confidence 57889999999999998763
No 417
>cd03224 ABC_TM1139_LivF_branched LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a heterodimer of six-helix TM domains (LivM and LivH), and one of two alternative soluble periplasmic substrate binding proteins (LivK or LivJ). ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules.
Probab=96.76 E-value=0.0018 Score=38.07 Aligned_cols=22 Identities=18% Similarity=0.481 Sum_probs=18.9
Q ss_pred eeEEEEeCCCCCHHHHHHHHHh
Q psy2514 13 GTVVIVGNGAVGKSSMIQRYCR 34 (71)
Q Consensus 13 ~ki~v~G~~~vGKtsl~~~~~~ 34 (71)
=.++++|++|+|||+|+.-+..
T Consensus 27 e~~~i~G~nGsGKSTLl~~l~G 48 (222)
T cd03224 27 EIVALLGRNGAGKTTLLKTIMG 48 (222)
T ss_pred eEEEEECCCCCCHHHHHHHHhC
Confidence 4688999999999999987654
No 418
>PRK00131 aroK shikimate kinase; Reviewed
Probab=96.76 E-value=0.0022 Score=35.95 Aligned_cols=22 Identities=23% Similarity=0.394 Sum_probs=19.1
Q ss_pred eeEEEEeCCCCCHHHHHHHHHh
Q psy2514 13 GTVVIVGNGAVGKSSMIQRYCR 34 (71)
Q Consensus 13 ~ki~v~G~~~vGKtsl~~~~~~ 34 (71)
..|+++|.+|+|||++...+..
T Consensus 5 ~~i~l~G~~GsGKstla~~La~ 26 (175)
T PRK00131 5 PNIVLIGFMGAGKSTIGRLLAK 26 (175)
T ss_pred CeEEEEcCCCCCHHHHHHHHHH
Confidence 4789999999999999887764
No 419
>cd03269 ABC_putative_ATPase This subfamily is involved in drug resistance, nodulation, lipid transport, and bacteriocin and lantibiotic immunity. In eubacteria and archaea, the typical organization consists of one ABC and one or two IMs. Eukaryote systems of the ABCA subfamily display ABC domains strongly similar to this family. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region in addition to the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.
Probab=96.76 E-value=0.0019 Score=37.72 Aligned_cols=23 Identities=17% Similarity=0.219 Sum_probs=19.6
Q ss_pred eeEEEEeCCCCCHHHHHHHHHhC
Q psy2514 13 GTVVIVGNGAVGKSSMIQRYCRG 35 (71)
Q Consensus 13 ~ki~v~G~~~vGKtsl~~~~~~~ 35 (71)
-.+.++|++|+|||+|+.-++.-
T Consensus 27 ~~~~i~G~nGsGKSTLl~~l~G~ 49 (210)
T cd03269 27 EIFGLLGPNGAGKTTTIRMILGI 49 (210)
T ss_pred cEEEEECCCCCCHHHHHHHHhCC
Confidence 45789999999999999988753
No 420
>cd00227 CPT Chloramphenicol (Cm) phosphotransferase (CPT). Cm-inactivating enzyme; modifies the primary (C-3) hydroxyl of the antibiotic. Related structurally to shikimate kinase II.
Probab=96.76 E-value=0.0019 Score=36.83 Aligned_cols=22 Identities=23% Similarity=0.391 Sum_probs=19.1
Q ss_pred eEEEEeCCCCCHHHHHHHHHhC
Q psy2514 14 TVVIVGNGAVGKSSMIQRYCRG 35 (71)
Q Consensus 14 ki~v~G~~~vGKtsl~~~~~~~ 35 (71)
-+++.|.+|+|||++.+.+...
T Consensus 4 ~i~l~G~~gsGKst~a~~l~~~ 25 (175)
T cd00227 4 IIILNGGSSAGKSSIARALQSV 25 (175)
T ss_pred EEEEECCCCCCHHHHHHHHHHh
Confidence 4889999999999999988754
No 421
>TIGR01166 cbiO cobalt transport protein ATP-binding subunit. This model describes the ATP binding subunit of the multisubunit cobalt transporter in bacteria and its equivalents in archaea. The model is restricted to ATP subunit that is a part of the cobalt transporter, which belongs to the ABC transporter superfamily (ATP Binding Cassette). The model excludes ATP binding subunit that are associated with other transporters belonging to ABC transporter superfamily. This superfamily includes two groups, one which catalyze the uptake of small molecules, including ions from the external milieu and the other group which is engaged in the efflux of small molecular weight compounds and ions from within the cell. Energy derived from the hydrolysis of ATP drive the both the process of uptake and efflux.
Probab=96.76 E-value=0.0017 Score=37.41 Aligned_cols=22 Identities=18% Similarity=0.430 Sum_probs=18.8
Q ss_pred eeEEEEeCCCCCHHHHHHHHHh
Q psy2514 13 GTVVIVGNGAVGKSSMIQRYCR 34 (71)
Q Consensus 13 ~ki~v~G~~~vGKtsl~~~~~~ 34 (71)
-.+.++|++|+|||+|++.+..
T Consensus 19 e~~~i~G~nGsGKSTLl~~i~G 40 (190)
T TIGR01166 19 EVLALLGANGAGKSTLLLHLNG 40 (190)
T ss_pred CEEEEECCCCCCHHHHHHHHhC
Confidence 3578999999999999987764
No 422
>cd00464 SK Shikimate kinase (SK) is the fifth enzyme in the shikimate pathway, a seven-step biosynthetic pathway which converts erythrose-4-phosphate to chorismic acid, found in bacteria, fungi and plants. Chorismic acid is a important intermediate in the synthesis of aromatic compounds, such as aromatic amino acids, p-aminobenzoic acid, folate and ubiquinone. Shikimate kinase catalyses the phosphorylation of the 3-hydroxyl group of shikimic acid using ATP.
Probab=96.75 E-value=0.0019 Score=35.65 Aligned_cols=21 Identities=19% Similarity=0.426 Sum_probs=18.3
Q ss_pred eEEEEeCCCCCHHHHHHHHHh
Q psy2514 14 TVVIVGNGAVGKSSMIQRYCR 34 (71)
Q Consensus 14 ki~v~G~~~vGKtsl~~~~~~ 34 (71)
.|+++|.+|+|||++...+..
T Consensus 1 ~i~l~G~~GsGKstla~~la~ 21 (154)
T cd00464 1 NIVLIGMMGAGKTTVGRLLAK 21 (154)
T ss_pred CEEEEcCCCCCHHHHHHHHHH
Confidence 378999999999999998763
No 423
>cd01131 PilT Pilus retraction ATPase PilT. PilT is a nucleotide binding protein responsible for the retraction of type IV pili, likely by pili disassembly. This retraction provides the force required for travel of bacteria in low water environments by a mechanism known as twitching motility.
Probab=96.75 E-value=0.0019 Score=37.73 Aligned_cols=20 Identities=25% Similarity=0.429 Sum_probs=17.6
Q ss_pred EEEEeCCCCCHHHHHHHHHh
Q psy2514 15 VVIVGNGAVGKSSMIQRYCR 34 (71)
Q Consensus 15 i~v~G~~~vGKtsl~~~~~~ 34 (71)
+++.|++|+|||+++..++.
T Consensus 4 ilI~GptGSGKTTll~~ll~ 23 (198)
T cd01131 4 VLVTGPTGSGKSTTLAAMID 23 (198)
T ss_pred EEEECCCCCCHHHHHHHHHH
Confidence 68899999999999987664
No 424
>cd03261 ABC_Org_Solvent_Resistant ABC (ATP-binding cassette) transport system involved in resistant to organic solvents; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.
Probab=96.75 E-value=0.0019 Score=38.38 Aligned_cols=22 Identities=23% Similarity=0.454 Sum_probs=19.1
Q ss_pred eeEEEEeCCCCCHHHHHHHHHh
Q psy2514 13 GTVVIVGNGAVGKSSMIQRYCR 34 (71)
Q Consensus 13 ~ki~v~G~~~vGKtsl~~~~~~ 34 (71)
=.+.++|++|+|||+|++.+..
T Consensus 27 e~~~l~G~nGsGKSTLl~~l~G 48 (235)
T cd03261 27 EILAIIGPSGSGKSTLLRLIVG 48 (235)
T ss_pred CEEEEECCCCCCHHHHHHHHhC
Confidence 3578999999999999998874
No 425
>TIGR02673 FtsE cell division ATP-binding protein FtsE. This model describes FtsE, a member of the ABC transporter ATP-binding protein family. This protein, and its permease partner FtsX, localize to the division site. In a number of species, the ftsEX gene pair is located next to FtsY, the signal recognition particle-docking protein.
Probab=96.75 E-value=0.0019 Score=37.74 Aligned_cols=22 Identities=14% Similarity=0.374 Sum_probs=18.9
Q ss_pred eeEEEEeCCCCCHHHHHHHHHh
Q psy2514 13 GTVVIVGNGAVGKSSMIQRYCR 34 (71)
Q Consensus 13 ~ki~v~G~~~vGKtsl~~~~~~ 34 (71)
-.+.++|++|+|||+|++-++.
T Consensus 29 ~~~~l~G~nGsGKSTLl~~i~G 50 (214)
T TIGR02673 29 EFLFLTGPSGAGKTTLLKLLYG 50 (214)
T ss_pred CEEEEECCCCCCHHHHHHHHhC
Confidence 3578999999999999987764
No 426
>cd01130 VirB11-like_ATPase Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to plant cells. The pilus is a fibrous cell surface organelle, which mediates adhesion between bacteria during conjugative transfer or between bacteria and host eukaryotic cells during infection. VirB11- related ATPases include the archaeal flagella biosynthesis protein and the pilus assembly proteins CpaF/TadA and TrbB. This alignment contains the C-terminal domain, which is the ATPase.
Probab=96.74 E-value=0.0022 Score=37.07 Aligned_cols=23 Identities=17% Similarity=0.462 Sum_probs=19.9
Q ss_pred eeeEEEEeCCCCCHHHHHHHHHh
Q psy2514 12 KGTVVIVGNGAVGKSSMIQRYCR 34 (71)
Q Consensus 12 ~~ki~v~G~~~vGKtsl~~~~~~ 34 (71)
.-.++++|++|+|||++++.++.
T Consensus 25 g~~i~I~G~tGSGKTTll~aL~~ 47 (186)
T cd01130 25 RKNILISGGTGSGKTTLLNALLA 47 (186)
T ss_pred CCEEEEECCCCCCHHHHHHHHHh
Confidence 45789999999999999988764
No 427
>cd03262 ABC_HisP_GlnQ_permeases HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP has properties intermediate between those of integral and peripheral membrane proteins and is accessible from both sides of the membrane, presumably by its interaction with HisQ and HisM. The two HisP subunits form a homodimer within the complex. The domain structure of the amino acid uptake systems is typical for prokaryote extracellular solute binding protein-dependent uptake systems. All of the amino acid uptake systems also have at least one, and in a few cases, two extracellular solute binding proteins located in the periplasm of Gram-negative bacteria, or attached to the cell membrane of Gram-positive bacteria. The best-studied member of the PAAT (polar amino acid transport) family is the HisJQM
Probab=96.74 E-value=0.002 Score=37.64 Aligned_cols=22 Identities=32% Similarity=0.492 Sum_probs=19.2
Q ss_pred eeEEEEeCCCCCHHHHHHHHHh
Q psy2514 13 GTVVIVGNGAVGKSSMIQRYCR 34 (71)
Q Consensus 13 ~ki~v~G~~~vGKtsl~~~~~~ 34 (71)
-.+.++|++|+|||+|++.++.
T Consensus 27 ~~~~l~G~nGsGKSTLl~~l~G 48 (213)
T cd03262 27 EVVVIIGPSGSGKSTLLRCINL 48 (213)
T ss_pred CEEEEECCCCCCHHHHHHHHhC
Confidence 3678999999999999998874
No 428
>PRK14526 adenylate kinase; Provisional
Probab=96.73 E-value=0.0022 Score=38.06 Aligned_cols=21 Identities=19% Similarity=0.392 Sum_probs=18.7
Q ss_pred eEEEEeCCCCCHHHHHHHHHh
Q psy2514 14 TVVIVGNGAVGKSSMIQRYCR 34 (71)
Q Consensus 14 ki~v~G~~~vGKtsl~~~~~~ 34 (71)
+++++|.+|+|||+++..+..
T Consensus 2 ~i~l~G~pGsGKsT~a~~La~ 22 (211)
T PRK14526 2 KLVFLGPPGSGKGTIAKILSN 22 (211)
T ss_pred EEEEECCCCCCHHHHHHHHHH
Confidence 689999999999999987763
No 429
>cd03266 ABC_NatA_sodium_exporter NatA is the ATPase component of a bacterial ABC-type Na+ transport system called NatAB, which catalyzes ATP-dependent electrogenic Na+ extrusion without mechanically coupled proton or K+ uptake. NatB possess six putative membrane spanning regions at its C-terminus. In B. subtilus, NatAB is inducible by agents such as ethanol and protonophores, which lower the protonmotive force across the membrane. The closest sequence similarity to NatA is exhibited by DrrA of the two-component daunomycin- and doxorubicin-efflux system. Hence, the functional NatAB is presumably assembled with two copies of a single ATP-binding protein and a single intergral membrane protein.
Probab=96.73 E-value=0.002 Score=37.76 Aligned_cols=22 Identities=14% Similarity=0.327 Sum_probs=19.1
Q ss_pred eeEEEEeCCCCCHHHHHHHHHh
Q psy2514 13 GTVVIVGNGAVGKSSMIQRYCR 34 (71)
Q Consensus 13 ~ki~v~G~~~vGKtsl~~~~~~ 34 (71)
=.+.++|++|+|||+|++-+..
T Consensus 32 e~~~i~G~nGsGKSTLl~~l~G 53 (218)
T cd03266 32 EVTGLLGPNGAGKTTTLRMLAG 53 (218)
T ss_pred cEEEEECCCCCCHHHHHHHHhC
Confidence 4578999999999999987765
No 430
>COG1936 Predicted nucleotide kinase (related to CMP and AMP kinases) [Nucleotide transport and metabolism]
Probab=96.73 E-value=0.002 Score=37.52 Aligned_cols=21 Identities=24% Similarity=0.354 Sum_probs=19.0
Q ss_pred eeEEEEeCCCCCHHHHHHHHH
Q psy2514 13 GTVVIVGNGAVGKSSMIQRYC 33 (71)
Q Consensus 13 ~ki~v~G~~~vGKtsl~~~~~ 33 (71)
.+|++.|-||+||||++.++.
T Consensus 1 m~I~ITGTPGvGKTT~~~~L~ 21 (180)
T COG1936 1 MLIAITGTPGVGKTTVCKLLR 21 (180)
T ss_pred CeEEEeCCCCCchHHHHHHHH
Confidence 378999999999999999887
No 431
>cd03222 ABC_RNaseL_inhibitor The ABC ATPase RNase L inhibitor (RLI) is a key enzyme in ribosomal biogenesis, formation of translation preinitiation complexes, and assembly of HIV capsids. RLI's are not transport proteins, and thus cluster with a group of soluble proteins that lack the transmembrane components commonly found in other members of the family. Structurally, RLI's have an N-terminal Fe-S domain and two nucleotide-binding domains, which are arranged to form two composite active sites in their interface cleft. RLI is one of the most conserved enzymes between archaea and eukaryotes with a sequence identity more than 48%. The high degree of evolutionary conservation suggests that RLI performs a central role in archaeal and eukaryotic physiology.
Probab=96.73 E-value=0.0027 Score=36.73 Aligned_cols=23 Identities=22% Similarity=0.374 Sum_probs=19.4
Q ss_pred eeeEEEEeCCCCCHHHHHHHHHh
Q psy2514 12 KGTVVIVGNGAVGKSSMIQRYCR 34 (71)
Q Consensus 12 ~~ki~v~G~~~vGKtsl~~~~~~ 34 (71)
.-.+.++|++|+|||+|++-+..
T Consensus 25 Ge~~~l~G~nGsGKSTLl~~l~G 47 (177)
T cd03222 25 GEVIGIVGPNGTGKTTAVKILAG 47 (177)
T ss_pred CCEEEEECCCCChHHHHHHHHHc
Confidence 34688999999999999997764
No 432
>cd02025 PanK Pantothenate kinase (PanK) catalyzes the phosphorylation of pantothenic acid to form 4'-phosphopantothenic, which is the first of five steps in coenzyme A (CoA) biosynthetic pathway. The reaction carried out by this enzyme is a key regulatory point in CoA biosynthesis.
Probab=96.72 E-value=0.0019 Score=38.47 Aligned_cols=20 Identities=35% Similarity=0.376 Sum_probs=17.1
Q ss_pred EEEEeCCCCCHHHHHHHHHh
Q psy2514 15 VVIVGNGAVGKSSMIQRYCR 34 (71)
Q Consensus 15 i~v~G~~~vGKtsl~~~~~~ 34 (71)
+.+.|.+|+|||+++..+..
T Consensus 2 igI~G~sGSGKTTla~~L~~ 21 (220)
T cd02025 2 IGIAGSVAVGKSTTARVLQA 21 (220)
T ss_pred EEeeCCCCCCHHHHHHHHHH
Confidence 56889999999999987763
No 433
>COG4619 ABC-type uncharacterized transport system, ATPase component [General function prediction only]
Probab=96.72 E-value=0.002 Score=37.89 Aligned_cols=24 Identities=21% Similarity=0.367 Sum_probs=19.6
Q ss_pred eeeeEEEEeCCCCCHHHHHHHHHh
Q psy2514 11 IKGTVVIVGNGAVGKSSMIQRYCR 34 (71)
Q Consensus 11 ~~~ki~v~G~~~vGKtsl~~~~~~ 34 (71)
..=.+.+.|++|||||+|+...+.
T Consensus 28 ~Ge~iaitGPSG~GKStllk~va~ 51 (223)
T COG4619 28 AGEFIAITGPSGCGKSTLLKIVAS 51 (223)
T ss_pred CCceEEEeCCCCccHHHHHHHHHh
Confidence 334577889999999999998874
No 434
>cd03293 ABC_NrtD_SsuB_transporters NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.
Probab=96.72 E-value=0.0021 Score=37.83 Aligned_cols=23 Identities=26% Similarity=0.377 Sum_probs=19.3
Q ss_pred eeEEEEeCCCCCHHHHHHHHHhC
Q psy2514 13 GTVVIVGNGAVGKSSMIQRYCRG 35 (71)
Q Consensus 13 ~ki~v~G~~~vGKtsl~~~~~~~ 35 (71)
-.+.++|++|+|||+|++.++.-
T Consensus 31 ~~~~i~G~nGsGKSTLl~~l~Gl 53 (220)
T cd03293 31 EFVALVGPSGCGKSTLLRIIAGL 53 (220)
T ss_pred cEEEEECCCCCCHHHHHHHHhCC
Confidence 35789999999999999887643
No 435
>cd03257 ABC_NikE_OppD_transporters The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane components (NikB and NikC), and two ATPase (NikD and NikE). The NikABCDE transporter is synthesized under anaerobic conditions to meet the increased demand for nickel resulting from hydrogenase synthesis. The molecular mechanism of nickel uptake in many bacteria and most archaea is not known. Many other members of this ABC family are also involved in the uptake of dipeptides and oligopeptides. The oligopeptide transport system (Opp) is a five-component ABC transport composed of a membrane-anchored substrate binding proteins (SRP), OppA, two transmembrane proteins, OppB and OppC, and two ATP-binding domains, OppD and OppF.
Probab=96.72 E-value=0.0029 Score=37.26 Aligned_cols=23 Identities=26% Similarity=0.329 Sum_probs=19.7
Q ss_pred eeEEEEeCCCCCHHHHHHHHHhC
Q psy2514 13 GTVVIVGNGAVGKSSMIQRYCRG 35 (71)
Q Consensus 13 ~ki~v~G~~~vGKtsl~~~~~~~ 35 (71)
-.+.++|++|+|||+|+.-+..-
T Consensus 32 e~~~i~G~nGsGKSTLl~~l~G~ 54 (228)
T cd03257 32 ETLGLVGESGSGKSTLARAILGL 54 (228)
T ss_pred CEEEEECCCCCCHHHHHHHHhCC
Confidence 46899999999999999987753
No 436
>cd03218 ABC_YhbG The ABC transporters belonging to the YhbG family are similar to members of the Mj1267_LivG family, which is involved in the transport of branched-chain amino acids. The genes yhbG and yhbN are located in a single operon and may function together in cell envelope during biogenesis. YhbG is the putative ATP-binding cassette component and YhbN is the putative periplasmic-binding protein. Depletion of each gene product leads to growth arrest, irreversible cell damage and loss of viability in E. coli. The YhbG homolog (NtrA) is essential in Rhizobium meliloti, a symbiotic nitrogen-fixing bacterium.
Probab=96.71 E-value=0.0021 Score=38.02 Aligned_cols=23 Identities=17% Similarity=0.200 Sum_probs=19.6
Q ss_pred eeEEEEeCCCCCHHHHHHHHHhC
Q psy2514 13 GTVVIVGNGAVGKSSMIQRYCRG 35 (71)
Q Consensus 13 ~ki~v~G~~~vGKtsl~~~~~~~ 35 (71)
=.+.++|++|+|||+|++.+..-
T Consensus 27 e~~~l~G~nGsGKSTLl~~l~Gl 49 (232)
T cd03218 27 EIVGLLGPNGAGKTTTFYMIVGL 49 (232)
T ss_pred cEEEEECCCCCCHHHHHHHHhCC
Confidence 46889999999999999988753
No 437
>PRK13541 cytochrome c biogenesis protein CcmA; Provisional
Probab=96.71 E-value=0.0031 Score=36.51 Aligned_cols=23 Identities=26% Similarity=0.323 Sum_probs=19.8
Q ss_pred eeEEEEeCCCCCHHHHHHHHHhC
Q psy2514 13 GTVVIVGNGAVGKSSMIQRYCRG 35 (71)
Q Consensus 13 ~ki~v~G~~~vGKtsl~~~~~~~ 35 (71)
-.++++|.+|+|||+|++-++.-
T Consensus 27 e~~~l~G~nGsGKSTLl~~l~G~ 49 (195)
T PRK13541 27 AITYIKGANGCGKSSLLRMIAGI 49 (195)
T ss_pred cEEEEECCCCCCHHHHHHHHhcC
Confidence 36789999999999999988754
No 438
>cd02027 APSK Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically "activated" sulfate form important for the assimilation of inorganic sulfate.
Probab=96.71 E-value=0.0023 Score=35.83 Aligned_cols=21 Identities=19% Similarity=0.306 Sum_probs=17.8
Q ss_pred EEEEeCCCCCHHHHHHHHHhC
Q psy2514 15 VVIVGNGAVGKSSMIQRYCRG 35 (71)
Q Consensus 15 i~v~G~~~vGKtsl~~~~~~~ 35 (71)
+++.|.+|+|||+++..+...
T Consensus 2 i~i~G~~GsGKSTla~~L~~~ 22 (149)
T cd02027 2 IWLTGLSGSGKSTIARALEEK 22 (149)
T ss_pred EEEEcCCCCCHHHHHHHHHHH
Confidence 678899999999999877643
No 439
>cd03259 ABC_Carb_Solutes_like ABC Carbohydrate and Solute Transporters-like subgroup. This family is comprised of proteins involved in the transport of apparently unrelated solutes and proteins specific for di- and oligosaccharides and polyols. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides and more complex organic molecules. The nucleotide-binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.
Probab=96.71 E-value=0.0022 Score=37.54 Aligned_cols=22 Identities=14% Similarity=0.404 Sum_probs=18.9
Q ss_pred eeEEEEeCCCCCHHHHHHHHHh
Q psy2514 13 GTVVIVGNGAVGKSSMIQRYCR 34 (71)
Q Consensus 13 ~ki~v~G~~~vGKtsl~~~~~~ 34 (71)
-.+.++|++|+|||+|+.-+..
T Consensus 27 e~~~i~G~nGsGKSTLl~~l~G 48 (213)
T cd03259 27 EFLALLGPSGCGKTTLLRLIAG 48 (213)
T ss_pred cEEEEECCCCCCHHHHHHHHhC
Confidence 3588999999999999987764
No 440
>cd03256 ABC_PhnC_transporter ABC-type phosphate/phosphonate transport system. Phosphonates are a class of organophosphorus compounds characterized by a chemically stable carbon-to-phosphorus (C-P) bond. Phosphonates are widespread among naturally occurring compounds in all kingdoms of wildlife, but only procaryotic microorganisms are able to cleave this bond. Certain bacteria such as E. coli can use alkylphosphonates as a phosphorus source. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.
Probab=96.70 E-value=0.0019 Score=38.36 Aligned_cols=22 Identities=23% Similarity=0.436 Sum_probs=19.2
Q ss_pred eeEEEEeCCCCCHHHHHHHHHh
Q psy2514 13 GTVVIVGNGAVGKSSMIQRYCR 34 (71)
Q Consensus 13 ~ki~v~G~~~vGKtsl~~~~~~ 34 (71)
-.+.++|++|+|||+|+..++.
T Consensus 28 e~~~i~G~nGsGKSTLl~~l~G 49 (241)
T cd03256 28 EFVALIGPSGAGKSTLLRCLNG 49 (241)
T ss_pred CEEEEECCCCCCHHHHHHHHhC
Confidence 3578999999999999998874
No 441
>PRK15177 Vi polysaccharide export ATP-binding protein VexC; Provisional
Probab=96.70 E-value=0.0027 Score=37.46 Aligned_cols=24 Identities=17% Similarity=0.329 Sum_probs=19.8
Q ss_pred eeeEEEEeCCCCCHHHHHHHHHhC
Q psy2514 12 KGTVVIVGNGAVGKSSMIQRYCRG 35 (71)
Q Consensus 12 ~~ki~v~G~~~vGKtsl~~~~~~~ 35 (71)
.-.+.++|++|+|||+|++-++.-
T Consensus 13 Ge~~~l~G~NGsGKSTLlk~i~Gl 36 (213)
T PRK15177 13 HEHIGILAAPGSGKTTLTRLLCGL 36 (213)
T ss_pred CCEEEEECCCCCCHHHHHHHHhCC
Confidence 346789999999999999877653
No 442
>COG2262 HflX GTPases [General function prediction only]
Probab=96.70 E-value=0.0074 Score=39.18 Aligned_cols=58 Identities=19% Similarity=0.130 Sum_probs=37.1
Q ss_pred ceeeeEEEEeCCCCCHHHHHHHHHhCcCC-CC-ccCCcceeeEEEEEEeCCEEEEEEEcCCC
Q psy2514 10 SIKGTVVIVGNGAVGKSSMIQRYCRGTFT-RD-YKKTIGVKSSMIQRYCRGTFTRDYKKTIG 69 (71)
Q Consensus 10 ~~~~ki~v~G~~~vGKtsl~~~~~~~~f~-~~-~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G 69 (71)
.....+.++|-.++|||||++++....-. .+ ...|.. -..+.+...+...+-+-||-|
T Consensus 190 ~~~p~vaLvGYTNAGKSTL~N~LT~~~~~~~d~LFATLd--pttR~~~l~~g~~vlLtDTVG 249 (411)
T COG2262 190 SGIPLVALVGYTNAGKSTLFNALTGADVYVADQLFATLD--PTTRRIELGDGRKVLLTDTVG 249 (411)
T ss_pred cCCCeEEEEeeccccHHHHHHHHhccCeecccccccccc--CceeEEEeCCCceEEEecCcc
Confidence 34578999999999999999998853322 22 223332 234444455445566778876
No 443
>PRK11629 lolD lipoprotein transporter ATP-binding subunit; Provisional
Probab=96.70 E-value=0.0022 Score=38.08 Aligned_cols=22 Identities=27% Similarity=0.404 Sum_probs=19.2
Q ss_pred eEEEEeCCCCCHHHHHHHHHhC
Q psy2514 14 TVVIVGNGAVGKSSMIQRYCRG 35 (71)
Q Consensus 14 ki~v~G~~~vGKtsl~~~~~~~ 35 (71)
.+.++|++|+|||+|++.++.-
T Consensus 37 ~~~l~G~nGsGKSTLl~~l~Gl 58 (233)
T PRK11629 37 MMAIVGSSGSGKSTLLHLLGGL 58 (233)
T ss_pred EEEEECCCCCCHHHHHHHHhcC
Confidence 5789999999999999988753
No 444
>cd03216 ABC_Carb_Monos_I This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses (such as xylose, arabinose, and ribose), that cannot be broken down to simple sugars by hydrolysis. Pentoses include xylose, arabinose, and ribose. Important hexoses include glucose, galactose, and fructose. In members of the Carb_monos family, the single hydrophobic gene product forms a homodimer while the ABC protein represents a fusion of two nucleotide-binding domains. However, it is assumed that two copies of the ABC domains are present in the assembled transporter.
Probab=96.70 E-value=0.0034 Score=35.54 Aligned_cols=24 Identities=17% Similarity=0.306 Sum_probs=19.8
Q ss_pred eeeEEEEeCCCCCHHHHHHHHHhC
Q psy2514 12 KGTVVIVGNGAVGKSSMIQRYCRG 35 (71)
Q Consensus 12 ~~ki~v~G~~~vGKtsl~~~~~~~ 35 (71)
.-.+.++|++|+|||+|++-+..-
T Consensus 26 Ge~~~l~G~nGsGKSTLl~~i~G~ 49 (163)
T cd03216 26 GEVHALLGENGAGKSTLMKILSGL 49 (163)
T ss_pred CCEEEEECCCCCCHHHHHHHHhCC
Confidence 346789999999999999977653
No 445
>cd03265 ABC_DrrA DrrA is the ATP-binding protein component of a bacterial exporter complex that confers resistance to the antibiotics daunorubicin and doxorubicin. In addition to DrrA, the complex includes an integral membrane protein called DrrB. DrrA belongs to the ABC family of transporters and shares sequence and functional similarities with a protein found in cancer cells called P-glycoprotein. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region in addition to the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.
Probab=96.69 E-value=0.0022 Score=37.69 Aligned_cols=22 Identities=18% Similarity=0.335 Sum_probs=19.0
Q ss_pred eeEEEEeCCCCCHHHHHHHHHh
Q psy2514 13 GTVVIVGNGAVGKSSMIQRYCR 34 (71)
Q Consensus 13 ~ki~v~G~~~vGKtsl~~~~~~ 34 (71)
-.+.++|++|+|||+|++-++.
T Consensus 27 e~~~i~G~nGsGKSTLl~~i~G 48 (220)
T cd03265 27 EIFGLLGPNGAGKTTTIKMLTT 48 (220)
T ss_pred CEEEEECCCCCCHHHHHHHHhC
Confidence 4578999999999999997764
No 446
>TIGR02211 LolD_lipo_ex lipoprotein releasing system, ATP-binding protein. This model represents LolD, a member of the ABC transporter family (pfam00005). LolD is involved in localization of lipoproteins in some bacteria. It works with a transmembrane protein LolC, which in some species is a paralogous pair LolC and LolE. Depending on whether the residue immediately following the new, modified N-terminal Cys residue, the nascent lipoprotein may be carried further by LolA and LolB to the outer membrane, or remain at the inner membrane. The top scoring proteins excluded by this model include homologs from the archaeal genus Methanosarcina.
Probab=96.69 E-value=0.0032 Score=36.96 Aligned_cols=23 Identities=30% Similarity=0.401 Sum_probs=19.6
Q ss_pred eeEEEEeCCCCCHHHHHHHHHhC
Q psy2514 13 GTVVIVGNGAVGKSSMIQRYCRG 35 (71)
Q Consensus 13 ~ki~v~G~~~vGKtsl~~~~~~~ 35 (71)
-.+.++|++|+|||+|+..++.-
T Consensus 32 ~~~~i~G~nGsGKSTLl~~i~G~ 54 (221)
T TIGR02211 32 EIVAIVGSSGSGKSTLLHLLGGL 54 (221)
T ss_pred cEEEEECCCCCCHHHHHHHHhCC
Confidence 36789999999999999988753
No 447
>PLN02674 adenylate kinase
Probab=96.69 E-value=0.0015 Score=39.69 Aligned_cols=23 Identities=13% Similarity=0.235 Sum_probs=20.5
Q ss_pred eeeEEEEeCCCCCHHHHHHHHHh
Q psy2514 12 KGTVVIVGNGAVGKSSMIQRYCR 34 (71)
Q Consensus 12 ~~ki~v~G~~~vGKtsl~~~~~~ 34 (71)
..+++++|.+|+||+++..++..
T Consensus 31 ~~~i~l~G~PGsGKgT~a~~La~ 53 (244)
T PLN02674 31 DKRLILIGPPGSGKGTQSPIIKD 53 (244)
T ss_pred CceEEEECCCCCCHHHHHHHHHH
Confidence 47899999999999999988875
No 448
>TIGR00635 ruvB Holliday junction DNA helicase, RuvB subunit. RuvA specifically binds Holliday junctions as a sandwich of two tetramers and maintains the configuration of the junction. It forms a complex with two hexameric rings of RuvB, the subunit that contains helicase activity. The complex drives ATP-dependent branch migration of the Holliday junction recombination intermediate. The endonuclease RuvC resolves junctions.
Probab=96.69 E-value=0.0021 Score=39.47 Aligned_cols=23 Identities=13% Similarity=0.355 Sum_probs=19.9
Q ss_pred eeEEEEeCCCCCHHHHHHHHHhC
Q psy2514 13 GTVVIVGNGAVGKSSMIQRYCRG 35 (71)
Q Consensus 13 ~ki~v~G~~~vGKtsl~~~~~~~ 35 (71)
-.+++.|++|+|||+++..+...
T Consensus 31 ~~~ll~Gp~G~GKT~la~~ia~~ 53 (305)
T TIGR00635 31 DHLLLYGPPGLGKTTLAHIIANE 53 (305)
T ss_pred CeEEEECCCCCCHHHHHHHHHHH
Confidence 45899999999999999988753
No 449
>PRK05541 adenylylsulfate kinase; Provisional
Probab=96.69 E-value=0.0024 Score=36.37 Aligned_cols=23 Identities=17% Similarity=0.267 Sum_probs=19.4
Q ss_pred eeeEEEEeCCCCCHHHHHHHHHh
Q psy2514 12 KGTVVIVGNGAVGKSSMIQRYCR 34 (71)
Q Consensus 12 ~~ki~v~G~~~vGKtsl~~~~~~ 34 (71)
..-+++.|.+|+|||+++..+..
T Consensus 7 ~~~I~i~G~~GsGKst~a~~l~~ 29 (176)
T PRK05541 7 GYVIWITGLAGSGKTTIAKALYE 29 (176)
T ss_pred CCEEEEEcCCCCCHHHHHHHHHH
Confidence 35789999999999999987653
No 450
>cd03116 MobB Molybdenum is an essential trace element in the form of molybdenum cofactor (Moco) which is associated with the metabolism of nitrogen, carbon and sulfur by redox active enzymes. In E. coli, the synthesis of Moco involves genes from several loci: moa, mob, mod, moe and mog. The mob locus contains mobA and mobB genes. MobB catalyzes the attachment of the guanine dinucleotide to molybdopterin.
Probab=96.68 E-value=0.0024 Score=36.41 Aligned_cols=21 Identities=19% Similarity=0.479 Sum_probs=18.8
Q ss_pred eEEEEeCCCCCHHHHHHHHHh
Q psy2514 14 TVVIVGNGAVGKSSMIQRYCR 34 (71)
Q Consensus 14 ki~v~G~~~vGKtsl~~~~~~ 34 (71)
.+.++|.+++|||+++.++..
T Consensus 3 vi~i~G~~gsGKTTli~~L~~ 23 (159)
T cd03116 3 VIGFVGYSGSGKTTLLEKLIP 23 (159)
T ss_pred EEEEECCCCCCHHHHHHHHHH
Confidence 578999999999999998874
No 451
>COG0466 Lon ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]
Probab=96.68 E-value=0.0015 Score=44.99 Aligned_cols=22 Identities=27% Similarity=0.389 Sum_probs=19.1
Q ss_pred eeeEEEEeCCCCCHHHHHHHHH
Q psy2514 12 KGTVVIVGNGAVGKSSMIQRYC 33 (71)
Q Consensus 12 ~~ki~v~G~~~vGKtsl~~~~~ 33 (71)
..-+|++|++|||||||....+
T Consensus 350 GpILcLVGPPGVGKTSLgkSIA 371 (782)
T COG0466 350 GPILCLVGPPGVGKTSLGKSIA 371 (782)
T ss_pred CcEEEEECCCCCCchhHHHHHH
Confidence 3568999999999999998776
No 452
>PRK11248 tauB taurine transporter ATP-binding subunit; Provisional
Probab=96.68 E-value=0.0023 Score=38.72 Aligned_cols=23 Identities=17% Similarity=0.365 Sum_probs=19.7
Q ss_pred eeEEEEeCCCCCHHHHHHHHHhC
Q psy2514 13 GTVVIVGNGAVGKSSMIQRYCRG 35 (71)
Q Consensus 13 ~ki~v~G~~~vGKtsl~~~~~~~ 35 (71)
-.+.++|++|+|||+|++.++.-
T Consensus 28 e~~~i~G~nGsGKSTLl~~l~Gl 50 (255)
T PRK11248 28 ELLVVLGPSGCGKTTLLNLIAGF 50 (255)
T ss_pred CEEEEECCCCCCHHHHHHHHhCC
Confidence 46889999999999999988753
No 453
>cd03263 ABC_subfamily_A The ABCA subfamily mediates the transport of a variety of lipid compounds. Mutations of members of ABCA subfamily are associated with human genetic diseases, such as, familial high-density lipoprotein (HDL) deficiency, neonatal surfactant deficiency, degenerative retinopathies, and congenital keratinization disorders. The ABCA1 protein is involved in disorders of cholesterol transport and high-density lipoprotein (HDL) biosynthesis. The ABCA4 (ABCR) protein transports vitamin A derivatives in the outer segments of photoreceptor cells, and therefore, performs a crucial step in the visual cycle. The ABCA genes are not present in yeast. However, evolutionary studies of ABCA genes indicate that they arose as transporters that subsequently duplicated and that certain sets of ABCA genes were lost in different eukaryotic lineages.
Probab=96.67 E-value=0.0021 Score=37.74 Aligned_cols=22 Identities=14% Similarity=0.336 Sum_probs=19.1
Q ss_pred eEEEEeCCCCCHHHHHHHHHhC
Q psy2514 14 TVVIVGNGAVGKSSMIQRYCRG 35 (71)
Q Consensus 14 ki~v~G~~~vGKtsl~~~~~~~ 35 (71)
.+.++|++|+|||+|++-+..-
T Consensus 30 ~~~i~G~nGsGKSTLl~~l~Gl 51 (220)
T cd03263 30 IFGLLGHNGAGKTTTLKMLTGE 51 (220)
T ss_pred EEEEECCCCCCHHHHHHHHhCC
Confidence 5889999999999999987753
No 454
>PF05621 TniB: Bacterial TniB protein; InterPro: IPR008868 This family consists of several bacterial TniB NTP-binding proteins. TniB is a probable ATP-binding protein [] which is involved in Tn5053 mercury resistance transposition [].
Probab=96.67 E-value=0.0025 Score=39.91 Aligned_cols=26 Identities=31% Similarity=0.477 Sum_probs=22.5
Q ss_pred eeeEEEEeCCCCCHHHHHHHHHhCcC
Q psy2514 12 KGTVVIVGNGAVGKSSMIQRYCRGTF 37 (71)
Q Consensus 12 ~~ki~v~G~~~vGKtsl~~~~~~~~f 37 (71)
.-.++++|+++.|||+++.+|...+-
T Consensus 61 mp~lLivG~snnGKT~Ii~rF~~~hp 86 (302)
T PF05621_consen 61 MPNLLIVGDSNNGKTMIIERFRRLHP 86 (302)
T ss_pred CCceEEecCCCCcHHHHHHHHHHHCC
Confidence 36689999999999999999997553
No 455
>cd03258 ABC_MetN_methionine_transporter MetN (also known as YusC) is an ABC-type transporter encoded by metN of the metNPQ operon in Bacillus subtilis that is involved in methionine transport. Other members of this system include the MetP permease and the MetQ substrate binding protein. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.
Probab=96.67 E-value=0.0021 Score=38.06 Aligned_cols=22 Identities=27% Similarity=0.403 Sum_probs=19.1
Q ss_pred eeEEEEeCCCCCHHHHHHHHHh
Q psy2514 13 GTVVIVGNGAVGKSSMIQRYCR 34 (71)
Q Consensus 13 ~ki~v~G~~~vGKtsl~~~~~~ 34 (71)
=.+.++|++|+|||+|++.++.
T Consensus 32 e~~~l~G~nGsGKSTLl~~l~G 53 (233)
T cd03258 32 EIFGIIGRSGAGKSTLIRCING 53 (233)
T ss_pred CEEEEECCCCCCHHHHHHHHhC
Confidence 4678999999999999998764
No 456
>cd03219 ABC_Mj1267_LivG_branched The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E. coli branched-chain amino acid transporter. MJ1267 contains an insertion from residues 114 to 123 characteristic of LivG (Leucine-Isoleucine-Valine) homologs. The branched-chain amino acid transporter from E. coli comprises a heterodimer of ABCs (LivF and LivG), a heterodimer of six-helix TM domains (LivM and LivH), and one of two alternative soluble periplasmic substrate binding proteins (LivK or LivJ).
Probab=96.66 E-value=0.0022 Score=38.05 Aligned_cols=22 Identities=14% Similarity=0.295 Sum_probs=19.0
Q ss_pred eeEEEEeCCCCCHHHHHHHHHh
Q psy2514 13 GTVVIVGNGAVGKSSMIQRYCR 34 (71)
Q Consensus 13 ~ki~v~G~~~vGKtsl~~~~~~ 34 (71)
-.++++|++|+|||+|+.-+..
T Consensus 27 e~~~l~G~nGsGKSTLl~~l~G 48 (236)
T cd03219 27 EIHGLIGPNGAGKTTLFNLISG 48 (236)
T ss_pred cEEEEECCCCCCHHHHHHHHcC
Confidence 3578999999999999997764
No 457
>PRK14529 adenylate kinase; Provisional
Probab=96.66 E-value=0.0026 Score=38.20 Aligned_cols=21 Identities=19% Similarity=0.283 Sum_probs=18.7
Q ss_pred eEEEEeCCCCCHHHHHHHHHh
Q psy2514 14 TVVIVGNGAVGKSSMIQRYCR 34 (71)
Q Consensus 14 ki~v~G~~~vGKtsl~~~~~~ 34 (71)
+++++|.+|+|||++..++..
T Consensus 2 ~I~l~G~PGsGK~T~a~~La~ 22 (223)
T PRK14529 2 NILIFGPNGSGKGTQGALVKK 22 (223)
T ss_pred EEEEECCCCCCHHHHHHHHHH
Confidence 689999999999999987764
No 458
>cd02028 UMPK_like Uridine monophosphate kinase_like (UMPK_like) is a family of proteins highly similar to the uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK).
Probab=96.66 E-value=0.0025 Score=36.77 Aligned_cols=20 Identities=25% Similarity=0.468 Sum_probs=17.5
Q ss_pred EEEEeCCCCCHHHHHHHHHh
Q psy2514 15 VVIVGNGAVGKSSMIQRYCR 34 (71)
Q Consensus 15 i~v~G~~~vGKtsl~~~~~~ 34 (71)
+.+.|.+|+|||+|+..+..
T Consensus 2 i~i~G~sgsGKttla~~l~~ 21 (179)
T cd02028 2 VGIAGPSGSGKTTFAKKLSN 21 (179)
T ss_pred EEEECCCCCCHHHHHHHHHH
Confidence 57889999999999998764
No 459
>PF06745 KaiC: KaiC; InterPro: IPR014774 This entry represents a domain within bacterial and archaeal proteins, most of which are hypothetical. More than one copy is sometimes found in each protein in this entry. These include KaiC, which is one of the Kai proteins among which direct protein-protein association may be a critical process in the generation of circadian rhythms in cyanobacteria []. The circadian clock protein KaiC, is encoded in the kaiABC operon that controls circadian rhythms and may be universal in Cyanobacteria. Each member contains two copies of this domain, which is also found in other proteins. KaiC performs autophosphorylation and acts as its own transcriptional repressor. RadA/Sms is a highly conserved eubacterial protein that shares sequence similarity with both RecA strand transferase and lon protease. The RadA/Sms family are probable ATP-dependent proteases involved in both DNA repair and degradation of proteins, peptides, glycopeptides. They are classified in as non-peptidase homologues and unassigned peptidases in MEROPS peptidase family S16 (lon protease family, clan SJ). RadA/Sms is involved in recombination and recombinational repair, most likely involving the stabilisation or processing of branched DNA molecules or blocked replication forks because of its genetic redundancy with RecG and RuvABC [].; PDB: 2W0M_A 2ZTS_C 4DUG_B 3K0E_B 3K09_B 3S1A_E 3JZM_E 2GBL_B 3DVL_A 1TF7_C ....
Probab=96.66 E-value=0.0027 Score=37.53 Aligned_cols=23 Identities=22% Similarity=0.423 Sum_probs=19.8
Q ss_pred eeEEEEeCCCCCHHHHHHHHHhC
Q psy2514 13 GTVVIVGNGAVGKSSMIQRYCRG 35 (71)
Q Consensus 13 ~ki~v~G~~~vGKtsl~~~~~~~ 35 (71)
--+++.|++|+|||+|..+|+.+
T Consensus 20 s~~li~G~~GsGKT~l~~q~l~~ 42 (226)
T PF06745_consen 20 SVVLISGPPGSGKTTLALQFLYN 42 (226)
T ss_dssp SEEEEEESTTSSHHHHHHHHHHH
T ss_pred cEEEEEeCCCCCcHHHHHHHHHH
Confidence 45788999999999999998843
No 460
>cd01918 HprK_C HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent phosphorylation of Ser-46 of HPr and its dephosphorylation by phosphorolysis. The latter reaction uses inorganic phosphate as substrate and produces pyrophosphate. Phosphoenolpyruvate carboxykinase (PEPCK) and the C-terminal catalytic domain of HprK/P are structurally similar with conserved active site residues suggesting these two phosphotransferases have related functions. The HprK/P N-terminal domain is structurally similar to the N-terminal domains of the MurE and MurF amino acid ligases.
Probab=96.65 E-value=0.0032 Score=35.72 Aligned_cols=25 Identities=24% Similarity=0.331 Sum_probs=21.0
Q ss_pred eeeEEEEeCCCCCHHHHHHHHHhCc
Q psy2514 12 KGTVVIVGNGAVGKSSMIQRYCRGT 36 (71)
Q Consensus 12 ~~ki~v~G~~~vGKtsl~~~~~~~~ 36 (71)
..-+++.|++|+|||++...+....
T Consensus 14 g~gvLi~G~sG~GKStlal~L~~~g 38 (149)
T cd01918 14 GIGVLITGPSGIGKSELALELIKRG 38 (149)
T ss_pred CEEEEEEcCCCCCHHHHHHHHHHcC
Confidence 3568999999999999998887653
No 461
>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=96.65 E-value=0.0019 Score=38.99 Aligned_cols=18 Identities=17% Similarity=0.486 Sum_probs=15.4
Q ss_pred EEeCCCCCHHHHHHHHHh
Q psy2514 17 IVGNGAVGKSSMIQRYCR 34 (71)
Q Consensus 17 v~G~~~vGKtsl~~~~~~ 34 (71)
|+|.+|+||||++..+.+
T Consensus 1 ViGpaGSGKTT~~~~~~~ 18 (238)
T PF03029_consen 1 VIGPAGSGKTTFCKGLSE 18 (238)
T ss_dssp -EESTTSSHHHHHHHHHH
T ss_pred CCCCCCCCHHHHHHHHHH
Confidence 589999999999998764
No 462
>PRK11247 ssuB aliphatic sulfonates transport ATP-binding subunit; Provisional
Probab=96.65 E-value=0.0025 Score=38.73 Aligned_cols=22 Identities=27% Similarity=0.493 Sum_probs=19.2
Q ss_pred eeEEEEeCCCCCHHHHHHHHHh
Q psy2514 13 GTVVIVGNGAVGKSSMIQRYCR 34 (71)
Q Consensus 13 ~ki~v~G~~~vGKtsl~~~~~~ 34 (71)
-.+.++|++|+|||+|++.+..
T Consensus 39 e~~~I~G~NGsGKSTLlk~l~G 60 (257)
T PRK11247 39 QFVAVVGRSGCGKSTLLRLLAG 60 (257)
T ss_pred CEEEEECCCCCCHHHHHHHHhc
Confidence 4688999999999999998775
No 463
>PRK10908 cell division protein FtsE; Provisional
Probab=96.64 E-value=0.0036 Score=36.87 Aligned_cols=22 Identities=23% Similarity=0.585 Sum_probs=19.2
Q ss_pred eeEEEEeCCCCCHHHHHHHHHh
Q psy2514 13 GTVVIVGNGAVGKSSMIQRYCR 34 (71)
Q Consensus 13 ~ki~v~G~~~vGKtsl~~~~~~ 34 (71)
-.+.++|++|+|||+|++.++.
T Consensus 29 e~~~i~G~nGsGKSTLl~~l~G 50 (222)
T PRK10908 29 EMAFLTGHSGAGKSTLLKLICG 50 (222)
T ss_pred CEEEEECCCCCCHHHHHHHHhC
Confidence 4678999999999999998764
No 464
>cd03301 ABC_MalK_N The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two transmembrane-spanning domains (TMDs) or subunits and two nucleotide binding domains (NBDs) or subunits that couple transport to the hydrolysis of ATP. In the maltose transport system, the periplasmic maltose binding protein (MBP) stimulates the ATPase activity of the membrane-associated transporter, which consists of two transmembrane subunits, MalF and MalG, and two copies of the ATP binding subunit, MalK, and becomes tightly bound to the transporter in the catalytic transition state, ensuring that maltose is passed to the transporter as ATP is hydrolyzed.
Probab=96.64 E-value=0.0033 Score=36.74 Aligned_cols=23 Identities=22% Similarity=0.352 Sum_probs=19.4
Q ss_pred eeEEEEeCCCCCHHHHHHHHHhC
Q psy2514 13 GTVVIVGNGAVGKSSMIQRYCRG 35 (71)
Q Consensus 13 ~ki~v~G~~~vGKtsl~~~~~~~ 35 (71)
-.+.++|++|+|||+|++-++.-
T Consensus 27 e~~~l~G~nGsGKSTLl~~l~G~ 49 (213)
T cd03301 27 EFVVLLGPSGCGKTTTLRMIAGL 49 (213)
T ss_pred cEEEEECCCCCCHHHHHHHHhCC
Confidence 35789999999999999877753
No 465
>PRK09270 nucleoside triphosphate hydrolase domain-containing protein; Reviewed
Probab=96.64 E-value=0.0034 Score=37.36 Aligned_cols=25 Identities=24% Similarity=0.243 Sum_probs=21.1
Q ss_pred ceeeeEEEEeCCCCCHHHHHHHHHh
Q psy2514 10 SIKGTVVIVGNGAVGKSSMIQRYCR 34 (71)
Q Consensus 10 ~~~~ki~v~G~~~vGKtsl~~~~~~ 34 (71)
....-+.+.|.+|+|||+|+..+..
T Consensus 31 ~~~~iigi~G~~GsGKTTl~~~L~~ 55 (229)
T PRK09270 31 QRRTIVGIAGPPGAGKSTLAEFLEA 55 (229)
T ss_pred CCCEEEEEECCCCCCHHHHHHHHHH
Confidence 4467889999999999999987763
No 466
>TIGR01978 sufC FeS assembly ATPase SufC. SufC is part of the SUF system, shown in E. coli to consist of six proteins and believed to act in Fe-S cluster formation during oxidative stress. SufC forms a complex with SufB and SufD. SufC belongs to the ATP-binding cassette transporter family (pfam00005) but is no longer thought to be part of a transporter. The complex is reported as cytosolic (PubMed:12554644) or associated with the membrane (PubMed:11943156). The SUF system also includes a cysteine desulfurase (SufS, enhanced by SufE) and a probable iron-sulfur cluster assembly scaffold protein, SufA.
Probab=96.64 E-value=0.0024 Score=37.98 Aligned_cols=23 Identities=22% Similarity=0.307 Sum_probs=19.7
Q ss_pred eeEEEEeCCCCCHHHHHHHHHhC
Q psy2514 13 GTVVIVGNGAVGKSSMIQRYCRG 35 (71)
Q Consensus 13 ~ki~v~G~~~vGKtsl~~~~~~~ 35 (71)
-.+.++|++|+|||+|++-+..-
T Consensus 27 e~~~i~G~nGsGKSTLl~~l~Gl 49 (243)
T TIGR01978 27 EIHAIMGPNGSGKSTLSKTIAGH 49 (243)
T ss_pred CEEEEECCCCCCHHHHHHHHhCC
Confidence 46889999999999999987654
No 467
>PHA02530 pseT polynucleotide kinase; Provisional
Probab=96.64 E-value=0.0024 Score=39.12 Aligned_cols=22 Identities=23% Similarity=0.409 Sum_probs=18.5
Q ss_pred eEEEEeCCCCCHHHHHHHHHhC
Q psy2514 14 TVVIVGNGAVGKSSMIQRYCRG 35 (71)
Q Consensus 14 ki~v~G~~~vGKtsl~~~~~~~ 35 (71)
-++++|.+|+|||++.+.+...
T Consensus 4 liil~G~pGSGKSTla~~L~~~ 25 (300)
T PHA02530 4 IILTVGVPGSGKSTWAREFAAK 25 (300)
T ss_pred EEEEEcCCCCCHHHHHHHHHHH
Confidence 4677899999999999987643
No 468
>cd03235 ABC_Metallic_Cations ABC component of the metal-type transporters. This family includes transporters involved in the uptake of various metallic cations such as iron, manganese, and zinc. The ATPases of this group of transporters are very similar to members of iron-siderophore uptake family suggesting that they share a common ancestor. The best characterized metal-type ABC transporters are the YfeABCD system of Y. pestis, the SitABCD system of Salmonella enterica serovar Typhimurium, and the SitABCD transporter of Shigella flexneri. Moreover other uncharacterized homologs of these metal-type transporters are mainly found in pathogens like Haemophilus or enteroinvasive E. coli isolates.
Probab=96.64 E-value=0.0033 Score=36.78 Aligned_cols=22 Identities=27% Similarity=0.452 Sum_probs=19.0
Q ss_pred eeEEEEeCCCCCHHHHHHHHHh
Q psy2514 13 GTVVIVGNGAVGKSSMIQRYCR 34 (71)
Q Consensus 13 ~ki~v~G~~~vGKtsl~~~~~~ 34 (71)
-.+.++|++|+|||+|++.+..
T Consensus 26 e~~~l~G~nGsGKSTLl~~l~G 47 (213)
T cd03235 26 EFLAIVGPNGAGKSTLLKAILG 47 (213)
T ss_pred CEEEEECCCCCCHHHHHHHHcC
Confidence 4578999999999999997764
No 469
>COG4987 CydC ABC-type transport system involved in cytochrome bd biosynthesis, fused ATPase and permease components [Energy production and conversion / Posttranslational modification, protein turnover, chaperones]
Probab=96.64 E-value=0.0033 Score=42.11 Aligned_cols=27 Identities=26% Similarity=0.347 Sum_probs=22.0
Q ss_pred cCceeeeEEEEeCCCCCHHHHHHHHHh
Q psy2514 8 RGSIKGTVVIVGNGAVGKSSMIQRYCR 34 (71)
Q Consensus 8 ~~~~~~ki~v~G~~~vGKtsl~~~~~~ 34 (71)
.-...=|+.++|.+|+|||++++-+..
T Consensus 360 ~l~~GEkvAIlG~SGsGKSTllqLl~~ 386 (573)
T COG4987 360 TLAQGEKVAILGRSGSGKSTLLQLLAG 386 (573)
T ss_pred eecCCCeEEEECCCCCCHHHHHHHHHh
Confidence 334456899999999999999987764
No 470
>cd03268 ABC_BcrA_bacitracin_resist The BcrA subfamily represents ABC transporters involved in peptide antibiotic resistance. Bacitracin is a dodecapeptide antibiotic produced by B. licheniformis and B. subtilis. The synthesis of bacitracin is non-ribosomally catalyzed by a multienzyme complex BcrABC. Bacitracin has potent antibiotic activity against gram-positive bacteria. The inhibition of peptidoglycan biosynthesis is the best characterized bacterial effect of bacitracin. The bacitracin resistance of B. licheniformis is mediated by the ABC transporter Bcr which is composed of two identical BcrA ATP-binding subunits and one each of the integral membrane proteins, BcrB and BcrC. B. subtilis cells carrying bcr genes on high-copy number plasmids develop collateral detergent sensitivity, a similar phenomenon in human cells with overexpressed multi-drug resistance P-glycoprotein.
Probab=96.64 E-value=0.0033 Score=36.66 Aligned_cols=23 Identities=13% Similarity=0.145 Sum_probs=19.5
Q ss_pred eeEEEEeCCCCCHHHHHHHHHhC
Q psy2514 13 GTVVIVGNGAVGKSSMIQRYCRG 35 (71)
Q Consensus 13 ~ki~v~G~~~vGKtsl~~~~~~~ 35 (71)
-.++++|++|+|||+|++-+..-
T Consensus 27 ~~~~i~G~nGsGKSTLl~~l~Gl 49 (208)
T cd03268 27 EIYGFLGPNGAGKTTTMKIILGL 49 (208)
T ss_pred cEEEEECCCCCCHHHHHHHHhCC
Confidence 45789999999999999988753
No 471
>TIGR03410 urea_trans_UrtE urea ABC transporter, ATP-binding protein UrtE. Members of this protein family are ABC transporter ATP-binding subunits associated with urea transport and metabolism. This protein is found in a conserved five-gene transport operon typically found adjacent to urease genes. It was shown in Cyanobacteria that disruption leads to the loss of high-affinity urea transport activity.
Probab=96.64 E-value=0.0025 Score=37.72 Aligned_cols=23 Identities=17% Similarity=0.465 Sum_probs=19.6
Q ss_pred eeeEEEEeCCCCCHHHHHHHHHh
Q psy2514 12 KGTVVIVGNGAVGKSSMIQRYCR 34 (71)
Q Consensus 12 ~~ki~v~G~~~vGKtsl~~~~~~ 34 (71)
.=.+.++|++|+|||+|+.-+..
T Consensus 26 Ge~~~l~G~nGsGKSTLl~~l~G 48 (230)
T TIGR03410 26 GEVTCVLGRNGVGKTTLLKTLMG 48 (230)
T ss_pred CCEEEEECCCCCCHHHHHHHHhC
Confidence 35688999999999999997764
No 472
>cd03229 ABC_Class3 This class is comprised of all BPD (Binding Protein Dependent) systems that are largely represented in archaea and eubacteria and are primarily involved in scavenging solutes from the environment. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.
Probab=96.63 E-value=0.0027 Score=36.30 Aligned_cols=22 Identities=23% Similarity=0.448 Sum_probs=19.0
Q ss_pred eeEEEEeCCCCCHHHHHHHHHh
Q psy2514 13 GTVVIVGNGAVGKSSMIQRYCR 34 (71)
Q Consensus 13 ~ki~v~G~~~vGKtsl~~~~~~ 34 (71)
-.+.++|++|+|||+|+..+..
T Consensus 27 ~~~~i~G~nGsGKSTLl~~l~G 48 (178)
T cd03229 27 EIVALLGPSGSGKSTLLRCIAG 48 (178)
T ss_pred CEEEEECCCCCCHHHHHHHHhC
Confidence 4577999999999999998864
No 473
>PRK08903 DnaA regulatory inactivator Hda; Validated
Probab=96.63 E-value=0.0026 Score=37.61 Aligned_cols=23 Identities=17% Similarity=0.320 Sum_probs=19.6
Q ss_pred eeEEEEeCCCCCHHHHHHHHHhC
Q psy2514 13 GTVVIVGNGAVGKSSMIQRYCRG 35 (71)
Q Consensus 13 ~ki~v~G~~~vGKtsl~~~~~~~ 35 (71)
--+++.|++|+|||+|+..+...
T Consensus 43 ~~~~l~G~~G~GKT~La~ai~~~ 65 (227)
T PRK08903 43 RFFYLWGEAGSGRSHLLQALVAD 65 (227)
T ss_pred CeEEEECCCCCCHHHHHHHHHHH
Confidence 45889999999999999987753
No 474
>PRK13539 cytochrome c biogenesis protein CcmA; Provisional
Probab=96.62 E-value=0.0039 Score=36.47 Aligned_cols=23 Identities=17% Similarity=0.371 Sum_probs=19.6
Q ss_pred eeEEEEeCCCCCHHHHHHHHHhC
Q psy2514 13 GTVVIVGNGAVGKSSMIQRYCRG 35 (71)
Q Consensus 13 ~ki~v~G~~~vGKtsl~~~~~~~ 35 (71)
=.+.++|.+|+|||+|+..+..-
T Consensus 29 e~~~i~G~nGsGKSTLl~~l~G~ 51 (207)
T PRK13539 29 EALVLTGPNGSGKTTLLRLIAGL 51 (207)
T ss_pred CEEEEECCCCCCHHHHHHHHhCC
Confidence 46789999999999999987754
No 475
>TIGR01189 ccmA heme ABC exporter, ATP-binding protein CcmA. This model describes the cyt c biogenesis protein encoded by ccmA in bacteria. An exception is, an arabidopsis protein. Quite likely this is encoded by an organelle. Bacterial c-type cytocromes are located on the periplasmic side of the cytoplasmic membrane. Several gene products encoded in a locus designated as 'ccm' are implicated in the transport and assembly of the functional cytochrome C. This cluster includes genes: ccmA;B;C;D;E;F;G and H. The posttranslational pathway includes the transport of heme moiety, the secretion of the apoprotein and the covalent attachment of the heme with the apoprotein. The proteins ccmA and B represent an ABC transporter; ccmC and D participate in heme transfer to ccmE, which function as a periplasmic heme chaperone. The presence of ccmF, G and H is suggested to be obligatory for the final functional assembly of cytochrome c.
Probab=96.62 E-value=0.0039 Score=36.14 Aligned_cols=24 Identities=13% Similarity=0.340 Sum_probs=19.9
Q ss_pred eeeEEEEeCCCCCHHHHHHHHHhC
Q psy2514 12 KGTVVIVGNGAVGKSSMIQRYCRG 35 (71)
Q Consensus 12 ~~ki~v~G~~~vGKtsl~~~~~~~ 35 (71)
.=.+.++|+.|+|||+|++.+..-
T Consensus 26 Ge~~~i~G~nGsGKSTLl~~l~G~ 49 (198)
T TIGR01189 26 GEALQVTGPNGIGKTTLLRILAGL 49 (198)
T ss_pred CcEEEEECCCCCCHHHHHHHHhCC
Confidence 346889999999999999977653
No 476
>TIGR02323 CP_lyasePhnK phosphonate C-P lyase system protein PhnK. Members of this family are the PhnK protein of C-P lyase systems for utilization of phosphonates. These systems resemble phosphonatase-based systems in having a three component ABC transporter, where TIGR01097 is the permease, TIGR01098 is the phosphonates binding protein, and TIGR02315 is the ATP-binding cassette (ABC) protein. They differ, however, in having, typically, ten or more additional genes, many of which are believed to form a membrane-associated complex. This protein (PhnK) and the adjacent-encoded PhnL resemble transporter ATP-binding proteins but are suggested, based on mutatgenesis studies, to be part of this complex rather than part of a transporter per se.
Probab=96.62 E-value=0.0026 Score=38.17 Aligned_cols=23 Identities=26% Similarity=0.391 Sum_probs=19.5
Q ss_pred eeEEEEeCCCCCHHHHHHHHHhC
Q psy2514 13 GTVVIVGNGAVGKSSMIQRYCRG 35 (71)
Q Consensus 13 ~ki~v~G~~~vGKtsl~~~~~~~ 35 (71)
-.++++|++|+|||+|++-++.-
T Consensus 30 e~~~i~G~nGsGKSTLl~~l~G~ 52 (253)
T TIGR02323 30 EVLGIVGESGSGKSTLLGCLAGR 52 (253)
T ss_pred cEEEEECCCCCCHHHHHHHHhCC
Confidence 46789999999999999977653
No 477
>PRK10895 lipopolysaccharide ABC transporter ATP-binding protein; Provisional
Probab=96.62 E-value=0.0026 Score=37.87 Aligned_cols=24 Identities=17% Similarity=0.170 Sum_probs=20.0
Q ss_pred eeeEEEEeCCCCCHHHHHHHHHhC
Q psy2514 12 KGTVVIVGNGAVGKSSMIQRYCRG 35 (71)
Q Consensus 12 ~~ki~v~G~~~vGKtsl~~~~~~~ 35 (71)
.-.++++|++|+|||+|++-+..-
T Consensus 29 Ge~~~l~G~nGsGKSTLl~~l~G~ 52 (241)
T PRK10895 29 GEIVGLLGPNGAGKTTTFYMVVGI 52 (241)
T ss_pred CcEEEEECCCCCCHHHHHHHHhCC
Confidence 346789999999999999987753
No 478
>PRK09825 idnK D-gluconate kinase; Provisional
Probab=96.62 E-value=0.0028 Score=36.53 Aligned_cols=21 Identities=19% Similarity=0.354 Sum_probs=18.2
Q ss_pred eEEEEeCCCCCHHHHHHHHHh
Q psy2514 14 TVVIVGNGAVGKSSMIQRYCR 34 (71)
Q Consensus 14 ki~v~G~~~vGKtsl~~~~~~ 34 (71)
-++++|.+|+|||+++..+..
T Consensus 5 ~i~l~G~sGsGKSTl~~~la~ 25 (176)
T PRK09825 5 SYILMGVSGSGKSLIGSKIAA 25 (176)
T ss_pred EEEEECCCCCCHHHHHHHHHH
Confidence 468899999999999998764
No 479
>PRK14527 adenylate kinase; Provisional
Probab=96.61 E-value=0.0036 Score=36.17 Aligned_cols=22 Identities=23% Similarity=0.474 Sum_probs=19.1
Q ss_pred eeEEEEeCCCCCHHHHHHHHHh
Q psy2514 13 GTVVIVGNGAVGKSSMIQRYCR 34 (71)
Q Consensus 13 ~ki~v~G~~~vGKtsl~~~~~~ 34 (71)
.-++++|.+|+|||++..++..
T Consensus 7 ~~i~i~G~pGsGKsT~a~~La~ 28 (191)
T PRK14527 7 KVVIFLGPPGAGKGTQAERLAQ 28 (191)
T ss_pred cEEEEECCCCCCHHHHHHHHHH
Confidence 4589999999999999988763
No 480
>cd03214 ABC_Iron-Siderophores_B12_Hemin ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC transporter mediating vitamin B12 uptake. The two ATP-binding cassettes (BtuD) are in close contact with each other, as are the two membrane-spanning subunits (BtuC); this arrangement is distinct from that observed for the E. coli lipid flippase MsbA. The BtuC subunits provide 20 transmembrane helices grouped around a translocation pathway that is closed to the cytoplasm by a gate region, whereas the dimer arrangement of the BtuD subunits resembles the ATP-bound form of the Rad50 DNA repair enzyme. A prominent cytoplasmic loop of BtuC forms the contact region with the ATP-binding cassette and represent a conserved motif among the ABC transporters.
Probab=96.61 E-value=0.0041 Score=35.62 Aligned_cols=22 Identities=27% Similarity=0.472 Sum_probs=19.1
Q ss_pred eeEEEEeCCCCCHHHHHHHHHh
Q psy2514 13 GTVVIVGNGAVGKSSMIQRYCR 34 (71)
Q Consensus 13 ~ki~v~G~~~vGKtsl~~~~~~ 34 (71)
-.++++|++|+|||+|++-+..
T Consensus 26 ~~~~l~G~nGsGKStLl~~i~G 47 (180)
T cd03214 26 EIVGILGPNGAGKSTLLKTLAG 47 (180)
T ss_pred CEEEEECCCCCCHHHHHHHHhC
Confidence 4678999999999999988764
No 481
>TIGR03864 PQQ_ABC_ATP ABC transporter, ATP-binding subunit, PQQ-dependent alcohol dehydrogenase system. Members of this protein family are the ATP-binding subunit of an ABC transporter system that is associated with PQQ biosynthesis and PQQ-dependent alcohol dehydrogenases. While this family shows homology to several efflux ABC transporter subunits, the presence of a periplasmic substrate-binding protein and association with systems for catabolism of alcohols suggests a role in import rather than detoxification.
Probab=96.60 E-value=0.0039 Score=37.10 Aligned_cols=22 Identities=27% Similarity=0.475 Sum_probs=19.0
Q ss_pred eeEEEEeCCCCCHHHHHHHHHh
Q psy2514 13 GTVVIVGNGAVGKSSMIQRYCR 34 (71)
Q Consensus 13 ~ki~v~G~~~vGKtsl~~~~~~ 34 (71)
=.+.++|++|+|||+|++-+..
T Consensus 28 e~~~i~G~nGsGKSTLl~~l~G 49 (236)
T TIGR03864 28 EFVALLGPNGAGKSTLFSLLTR 49 (236)
T ss_pred CEEEEECCCCCCHHHHHHHHhC
Confidence 4578999999999999998764
No 482
>PRK13851 type IV secretion system protein VirB11; Provisional
Probab=96.60 E-value=0.0026 Score=40.41 Aligned_cols=25 Identities=20% Similarity=0.300 Sum_probs=21.6
Q ss_pred eeeeEEEEeCCCCCHHHHHHHHHhC
Q psy2514 11 IKGTVVIVGNGAVGKSSMIQRYCRG 35 (71)
Q Consensus 11 ~~~ki~v~G~~~vGKtsl~~~~~~~ 35 (71)
....+++.|..|+|||++++.++..
T Consensus 161 ~~~nilI~G~tGSGKTTll~aLl~~ 185 (344)
T PRK13851 161 GRLTMLLCGPTGSGKTTMSKTLISA 185 (344)
T ss_pred cCCeEEEECCCCccHHHHHHHHHcc
Confidence 3578999999999999999988754
No 483
>TIGR00176 mobB molybdopterin-guanine dinucleotide biosynthesis protein MobB. This molybdenum cofactor biosynthesis enzyme is similar to the urease accessory protein UreG and to the hydrogenase accessory protein HypB, both GTP hydrolases involved in loading nickel into the metallocenters of their respective target enzymes.
Probab=96.60 E-value=0.003 Score=35.78 Aligned_cols=20 Identities=35% Similarity=0.662 Sum_probs=17.5
Q ss_pred EEEEeCCCCCHHHHHHHHHh
Q psy2514 15 VVIVGNGAVGKSSMIQRYCR 34 (71)
Q Consensus 15 i~v~G~~~vGKtsl~~~~~~ 34 (71)
+.++|.+|+|||+++.++..
T Consensus 2 i~i~G~~gsGKTtl~~~l~~ 21 (155)
T TIGR00176 2 LQIVGPKNSGKTTLIERLVK 21 (155)
T ss_pred EEEECCCCCCHHHHHHHHHH
Confidence 57889999999999988774
No 484
>cd03296 ABC_CysA_sulfate_importer Part of the ABC transporter complex cysAWTP involved in sulfate import. Responsible for energy coupling to the transport system. The complex is composed of two ATP-binding proteins (cysA), two transmembrane proteins (cysT and cysW), and a solute-binding protein (cysP). ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.
Probab=96.60 E-value=0.0028 Score=37.78 Aligned_cols=22 Identities=18% Similarity=0.372 Sum_probs=19.0
Q ss_pred eEEEEeCCCCCHHHHHHHHHhC
Q psy2514 14 TVVIVGNGAVGKSSMIQRYCRG 35 (71)
Q Consensus 14 ki~v~G~~~vGKtsl~~~~~~~ 35 (71)
.+.++|++|+|||+|++.++.-
T Consensus 30 ~~~i~G~nGsGKSTLl~~l~Gl 51 (239)
T cd03296 30 LVALLGPSGSGKTTLLRLIAGL 51 (239)
T ss_pred EEEEECCCCCCHHHHHHHHhCC
Confidence 5789999999999999988753
No 485
>PRK13538 cytochrome c biogenesis protein CcmA; Provisional
Probab=96.60 E-value=0.0041 Score=36.26 Aligned_cols=23 Identities=26% Similarity=0.319 Sum_probs=19.4
Q ss_pred eeEEEEeCCCCCHHHHHHHHHhC
Q psy2514 13 GTVVIVGNGAVGKSSMIQRYCRG 35 (71)
Q Consensus 13 ~ki~v~G~~~vGKtsl~~~~~~~ 35 (71)
-.+.++|++|+|||+|++-++.-
T Consensus 28 e~~~l~G~nGsGKSTLl~~l~G~ 50 (204)
T PRK13538 28 ELVQIEGPNGAGKTSLLRILAGL 50 (204)
T ss_pred cEEEEECCCCCCHHHHHHHHhCC
Confidence 36789999999999999977653
No 486
>cd01672 TMPK Thymidine monophosphate kinase (TMPK), also known as thymidylate kinase, catalyzes the phosphorylation of thymidine monophosphate (TMP) to thymidine diphosphate (TDP) utilizing ATP as its preferred phophoryl donor. TMPK represents the rate-limiting step in either de novo or salvage biosynthesis of thymidine triphosphate (TTP).
Probab=96.60 E-value=0.0029 Score=36.11 Aligned_cols=20 Identities=25% Similarity=0.502 Sum_probs=17.9
Q ss_pred EEEEeCCCCCHHHHHHHHHh
Q psy2514 15 VVIVGNGAVGKSSMIQRYCR 34 (71)
Q Consensus 15 i~v~G~~~vGKtsl~~~~~~ 34 (71)
|++.|..|+|||+++.++..
T Consensus 3 I~ieG~~GsGKtT~~~~L~~ 22 (200)
T cd01672 3 IVFEGIDGAGKTTLIELLAE 22 (200)
T ss_pred EEEECCCCCCHHHHHHHHHH
Confidence 78899999999999998864
No 487
>cd03223 ABCD_peroxisomal_ALDP Peroxisomal ATP-binding cassette transporter (Pat) is involved in the import of very long-chain fatty acids (VLCFA) into the peroxisome. The peroxisomal membrane forms a permeability barrier for a wide variety of metabolites required for and formed during fatty acid beta-oxidation. To communicate with the cytoplasm and mitochondria, peroxisomes need dedicated proteins to transport such hydrophilic molecules across their membranes. X-linked adrenoleukodystrophy (X-ALD) is caused by mutations in the ALD gene, which encodes ALDP (adrenoleukodystrophy protein ), a peroxisomal integral membrane protein that is a member of the ATP-binding cassette (ABC) transporter protein family. The disease is characterized by a striking and unpredictable variation in phenotypic expression. Phenotypes include the rapidly progressive childhood cerebral form (CCALD), the milder adult form, adrenomyeloneuropathy (AMN), and variants without neurologic involvement (i.e. asympt
Probab=96.59 E-value=0.0031 Score=35.78 Aligned_cols=23 Identities=26% Similarity=0.456 Sum_probs=19.6
Q ss_pred eeeEEEEeCCCCCHHHHHHHHHh
Q psy2514 12 KGTVVIVGNGAVGKSSMIQRYCR 34 (71)
Q Consensus 12 ~~ki~v~G~~~vGKtsl~~~~~~ 34 (71)
.-.++++|.+|+|||+|++-+..
T Consensus 27 Ge~~~i~G~nGsGKSTLl~~l~G 49 (166)
T cd03223 27 GDRLLITGPSGTGKSSLFRALAG 49 (166)
T ss_pred CCEEEEECCCCCCHHHHHHHHhc
Confidence 34688999999999999998764
No 488
>cd03230 ABC_DR_subfamily_A This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding protein and one or two integral membrane proteins. Eukaryote systems of the ABCA subfamily display ABC domains that are quite similar to this family. The ATP-binding domain shows the highest similarity between all members of the ABC transporter family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.
Probab=96.59 E-value=0.0031 Score=35.94 Aligned_cols=22 Identities=18% Similarity=0.320 Sum_probs=19.0
Q ss_pred eeEEEEeCCCCCHHHHHHHHHh
Q psy2514 13 GTVVIVGNGAVGKSSMIQRYCR 34 (71)
Q Consensus 13 ~ki~v~G~~~vGKtsl~~~~~~ 34 (71)
=.+.++|++|+|||+|++.+..
T Consensus 27 e~~~i~G~nGsGKStLl~~l~G 48 (173)
T cd03230 27 EIYGLLGPNGAGKTTLIKIILG 48 (173)
T ss_pred cEEEEECCCCCCHHHHHHHHhC
Confidence 4588999999999999997764
No 489
>cd02020 CMPK Cytidine monophosphate kinase (CMPK) catalyzes the reversible phosphorylation of cytidine monophosphate (CMP) to produce cytidine diphosphate (CDP), using ATP as the preferred phosphoryl donor.
Probab=96.59 E-value=0.0032 Score=34.41 Aligned_cols=20 Identities=25% Similarity=0.448 Sum_probs=17.9
Q ss_pred EEEEeCCCCCHHHHHHHHHh
Q psy2514 15 VVIVGNGAVGKSSMIQRYCR 34 (71)
Q Consensus 15 i~v~G~~~vGKtsl~~~~~~ 34 (71)
|++.|.+|+|||++...+..
T Consensus 2 I~i~G~~GsGKst~a~~la~ 21 (147)
T cd02020 2 IAIDGPAGSGKSTVAKLLAK 21 (147)
T ss_pred EEEECCCCCCHHHHHHHHHH
Confidence 68899999999999998874
No 490
>PRK14242 phosphate transporter ATP-binding protein; Provisional
Probab=96.58 E-value=0.0031 Score=37.85 Aligned_cols=22 Identities=23% Similarity=0.481 Sum_probs=19.2
Q ss_pred eeEEEEeCCCCCHHHHHHHHHh
Q psy2514 13 GTVVIVGNGAVGKSSMIQRYCR 34 (71)
Q Consensus 13 ~ki~v~G~~~vGKtsl~~~~~~ 34 (71)
-.++++|++|+|||+|++.+..
T Consensus 33 e~~~i~G~nGsGKSTLl~~l~G 54 (253)
T PRK14242 33 QVTALIGPSGCGKSTFLRCLNR 54 (253)
T ss_pred CEEEEECCCCCCHHHHHHHHHh
Confidence 3578999999999999998875
No 491
>PRK14731 coaE dephospho-CoA kinase; Provisional
Probab=96.57 E-value=0.0047 Score=36.38 Aligned_cols=25 Identities=24% Similarity=0.219 Sum_probs=21.6
Q ss_pred ceeeeEEEEeCCCCCHHHHHHHHHh
Q psy2514 10 SIKGTVVIVGNGAVGKSSMIQRYCR 34 (71)
Q Consensus 10 ~~~~ki~v~G~~~vGKtsl~~~~~~ 34 (71)
+..+.+.+.|..|+|||+++..+..
T Consensus 3 ~~~~~igitG~igsGKSt~~~~l~~ 27 (208)
T PRK14731 3 SLPFLVGVTGGIGSGKSTVCRFLAE 27 (208)
T ss_pred CCCEEEEEECCCCCCHHHHHHHHHH
Confidence 4457899999999999999998875
No 492
>cd03221 ABCF_EF-3 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated release of the deacylated tRNA from the E site. The reaction requires ATP hydrolysis. EF-3 contains two ATP nucleotide binding sequence (NBS) motifs. NBSI is sufficient for the intrinsic ATPase activity. NBSII is essential for the ribosome-stimulated functions.
Probab=96.57 E-value=0.0038 Score=34.70 Aligned_cols=23 Identities=22% Similarity=0.439 Sum_probs=19.2
Q ss_pred eeEEEEeCCCCCHHHHHHHHHhC
Q psy2514 13 GTVVIVGNGAVGKSSMIQRYCRG 35 (71)
Q Consensus 13 ~ki~v~G~~~vGKtsl~~~~~~~ 35 (71)
-.+.++|.+|+|||+|++-+..-
T Consensus 27 e~~~i~G~nGsGKStLl~~l~G~ 49 (144)
T cd03221 27 DRIGLVGRNGAGKSTLLKLIAGE 49 (144)
T ss_pred CEEEEECCCCCCHHHHHHHHcCC
Confidence 45689999999999999987653
No 493
>cd03237 ABC_RNaseL_inhibitor_domain2 The ATPase domain 2 of RNase L inhibitor. The ABC ATPase, RNase L inhibitor (RLI), is a key enzyme in ribosomal biogenesis, formation of translation preinitiation complexes, and assembly of HIV capsids. RLI's are not transport proteins and thus cluster with a group of soluble proteins that lack the transmembrane components commonly found in other members of the family. Structurally, RLI's have an N-terminal Fe-S domain and two nucleotide-binding domains which are arranged to form two composite active sites in their interface cleft. RLI is one of the most conserved enzymes between archaea and eukaryotes with a sequence identity of more than 48%. The high degree of evolutionary conservation suggests that RLI performs a central role in archaeal and eukaryotic physiology.
Probab=96.57 E-value=0.0041 Score=37.53 Aligned_cols=23 Identities=22% Similarity=0.420 Sum_probs=19.4
Q ss_pred eeEEEEeCCCCCHHHHHHHHHhC
Q psy2514 13 GTVVIVGNGAVGKSSMIQRYCRG 35 (71)
Q Consensus 13 ~ki~v~G~~~vGKtsl~~~~~~~ 35 (71)
-.+.++|++|+|||+|+.-++.-
T Consensus 26 e~~~i~G~NGsGKSTLlk~L~G~ 48 (246)
T cd03237 26 EVIGILGPNGIGKTTFIKMLAGV 48 (246)
T ss_pred CEEEEECCCCCCHHHHHHHHhCC
Confidence 45789999999999999987653
No 494
>cd03297 ABC_ModC_molybdenum_transporter ModC is an ABC-type transporter and the ATPase component of a molybdate transport system that also includes the periplasmic binding protein ModA and the membrane protein ModB. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.
Probab=96.57 E-value=0.004 Score=36.51 Aligned_cols=23 Identities=22% Similarity=0.293 Sum_probs=19.4
Q ss_pred eeEEEEeCCCCCHHHHHHHHHhC
Q psy2514 13 GTVVIVGNGAVGKSSMIQRYCRG 35 (71)
Q Consensus 13 ~ki~v~G~~~vGKtsl~~~~~~~ 35 (71)
-.+.++|++|+|||+|+..+..-
T Consensus 24 e~~~i~G~nGsGKSTLl~~l~G~ 46 (214)
T cd03297 24 EVTGIFGASGAGKSTLLRCIAGL 46 (214)
T ss_pred eeEEEECCCCCCHHHHHHHHhCC
Confidence 46788999999999999977643
No 495
>cd03231 ABC_CcmA_heme_exporter CcmA, the ATP-binding component of the bacterial CcmAB transporter. The CCM family is involved in bacterial cytochrome c biogenesis. Cytochrome c maturation in E. coli requires the ccm operon, which encodes eight membrane proteins (CcmABCDEFGH). CcmE is a periplasmic heme chaperone that binds heme covalently and transfers it onto apocytochrome c in the presence of CcmF, CcmG, and CcmH. The CcmAB proteins represent an ABC transporter and the CcmCD proteins participate in heme transfer to CcmE.
Probab=96.56 E-value=0.0032 Score=36.70 Aligned_cols=23 Identities=13% Similarity=0.359 Sum_probs=19.6
Q ss_pred eeeEEEEeCCCCCHHHHHHHHHh
Q psy2514 12 KGTVVIVGNGAVGKSSMIQRYCR 34 (71)
Q Consensus 12 ~~ki~v~G~~~vGKtsl~~~~~~ 34 (71)
.-.+.++|++|+|||+|++-+..
T Consensus 26 Ge~~~i~G~nGsGKSTLl~~l~G 48 (201)
T cd03231 26 GEALQVTGPNGSGKTTLLRILAG 48 (201)
T ss_pred CCEEEEECCCCCCHHHHHHHHhC
Confidence 45788999999999999987764
No 496
>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=96.56 E-value=0.0039 Score=39.82 Aligned_cols=25 Identities=20% Similarity=0.493 Sum_probs=21.5
Q ss_pred CceeeeEEEEeCCCCCHHHHHHHHH
Q psy2514 9 GSIKGTVVIVGNGAVGKSSMIQRYC 33 (71)
Q Consensus 9 ~~~~~ki~v~G~~~vGKtsl~~~~~ 33 (71)
....+|++++|.+++|||+++.++.
T Consensus 55 ~~~~~kiLLLG~geSGKSTi~KQ~r 79 (389)
T PF00503_consen 55 SKREIKILLLGSGESGKSTILKQMR 79 (389)
T ss_dssp HHEEEEEEEEESTTSSHHHHHHHHH
T ss_pred hhccceEEEECCCCcchhhHHHHHH
Confidence 3457999999999999999999763
No 497
>cd03254 ABCC_Glucan_exporter_like Glucan exporter ATP-binding protein. In A. tumefaciens cyclic beta-1, 2-glucan must be transported into the periplasmic space to exert its action as a virluence factor. This subfamily belongs to the MRP-like family and is involved in drug, peptide, and lipid export. The MRP-like family, similar to all ABC proteins, have a common four-domain core structure constituted by two membrane-spanning domains each composed of six transmembrane (TM) helices and two nucleotide-binding domains (NBD). ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.
Probab=96.56 E-value=0.0031 Score=37.23 Aligned_cols=22 Identities=41% Similarity=0.535 Sum_probs=19.1
Q ss_pred eEEEEeCCCCCHHHHHHHHHhC
Q psy2514 14 TVVIVGNGAVGKSSMIQRYCRG 35 (71)
Q Consensus 14 ki~v~G~~~vGKtsl~~~~~~~ 35 (71)
.+.++|++|+|||+|++.++.-
T Consensus 31 ~~~i~G~nGsGKSTLl~~l~G~ 52 (229)
T cd03254 31 TVAIVGPTGAGKTTLINLLMRF 52 (229)
T ss_pred EEEEECCCCCCHHHHHHHHhcC
Confidence 4789999999999999988753
No 498
>PRK04182 cytidylate kinase; Provisional
Probab=96.56 E-value=0.0036 Score=35.36 Aligned_cols=21 Identities=19% Similarity=0.365 Sum_probs=19.0
Q ss_pred eEEEEeCCCCCHHHHHHHHHh
Q psy2514 14 TVVIVGNGAVGKSSMIQRYCR 34 (71)
Q Consensus 14 ki~v~G~~~vGKtsl~~~~~~ 34 (71)
.|++.|.+|+|||++...+..
T Consensus 2 ~I~i~G~~GsGKstia~~la~ 22 (180)
T PRK04182 2 IITISGPPGSGKTTVARLLAE 22 (180)
T ss_pred EEEEECCCCCCHHHHHHHHHH
Confidence 689999999999999998874
No 499
>cd03247 ABCC_cytochrome_bd The CYD subfamily implicated in cytochrome bd biogenesis. The CydC and CydD proteins are important for the formation of cytochrome bd terminal oxidase of E. coli and it has been proposed that they were necessary for biosynthesis of the cytochrome bd quinol oxidase and for periplasmic c-type cytochromes. CydCD were proposed to determine a heterooligomeric complex important for heme export into the periplasm or to be involved in the maintenance of the proper redox state of the periplasmic space. In Bacillus subtilius, the absence of CydCD does not affect the presence of halo-cytochrome c in the membrane and this observation suggests that CydCD proteins are not involved in the export of heme in this organism.
Probab=96.55 E-value=0.0047 Score=35.28 Aligned_cols=23 Identities=22% Similarity=0.466 Sum_probs=19.5
Q ss_pred eeEEEEeCCCCCHHHHHHHHHhC
Q psy2514 13 GTVVIVGNGAVGKSSMIQRYCRG 35 (71)
Q Consensus 13 ~ki~v~G~~~vGKtsl~~~~~~~ 35 (71)
-.+.++|++|+|||+|++.+..-
T Consensus 29 e~~~i~G~nGsGKStLl~~l~G~ 51 (178)
T cd03247 29 EKIALLGRSGSGKSTLLQLLTGD 51 (178)
T ss_pred CEEEEECCCCCCHHHHHHHHhcc
Confidence 35789999999999999987654
No 500
>PRK14247 phosphate ABC transporter ATP-binding protein; Provisional
Probab=96.55 E-value=0.0031 Score=37.77 Aligned_cols=22 Identities=23% Similarity=0.531 Sum_probs=18.9
Q ss_pred eeEEEEeCCCCCHHHHHHHHHh
Q psy2514 13 GTVVIVGNGAVGKSSMIQRYCR 34 (71)
Q Consensus 13 ~ki~v~G~~~vGKtsl~~~~~~ 34 (71)
-.+.++|++|+|||+|+.-+..
T Consensus 30 e~~~i~G~nGsGKSTLl~~i~G 51 (250)
T PRK14247 30 TITALMGPSGSGKSTLLRVFNR 51 (250)
T ss_pred CEEEEECCCCCCHHHHHHHHhc
Confidence 3578999999999999997764
Done!